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Viewing changes to t/data/bug1986.blast2

  • Committer: Bazaar Package Importer
  • Author(s): Charles Plessy
  • Date: 2009-03-10 07:19:11 UTC
  • mfrom: (1.2.3 upstream)
  • Revision ID: james.westby@ubuntu.com-20090310071911-fukqzw54pyb1f0bd
Tags: 1.6.0-2
https://launchpad.net/bugs/324001
* Removed patch system (not used):
  - removed instuctions in debian/rules;
  - removed quilt from Build-Depends in debian/control.
* Re-enabled tests:
  - uncommented test command in debian/rules;
  - uncommented previously missing build-dependencies in debian/control.
  - Re-enabled tests and uncommented build-dependencies accordingly.
* Removed libmodule-build-perl and libtest-harness-perl from
  Build-Depends-Indep (provided by perl-modules).
* Better cleaning of empty directories using find -type d -empty -delete
  instead of rmdir in debian/rules (LP: #324001).

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Lines of Context:
t/data/bug1986.blast2
 
1
BLASTN 2.2.13 [Nov-27-2005]
 
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Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
 
5
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
 
6
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
 
7
programs",  Nucleic Acids Res. 25:3389-3402.
 
8
 
 
9
Query= Input_seq
 
10
         (1001 letters)
 
11
 
 
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Database: traces_cjacchus 
 
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           27,983,570 sequences; 24,049,266,895 total letters
 
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Searching...................................................done
 
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                                                                 Score    E
 
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Sequences producing significant alignments:                      (bits) Value
 
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152308237                                                             377   e-101
 
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CXAF-axf41d10.b1                                                      357   6e-95
 
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CXAF-avn84b03.g1                                                      357   6e-95
 
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CXAF-atf04d09.b1                                                      341   4e-90
 
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CXAF-bgg82g03.g1                                                      333   9e-88
 
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CXAF-ahp26b11.g1                                                      168   3e-38
 
314
CXAF-ahx73e12.b1                                                      168   3e-38
 
315
CXAF-ahp26b11.g1                                                      168   3e-38
 
316
CXAF-aah73b11.g1                                                      168   3e-38
 
317
CXAG-2031K01.b1                                                       168   3e-38
 
318
166593988                                                             168   3e-38
 
319
166524877                                                             168   3e-38
 
320
166500081                                                             168   3e-38
 
321
166112172                                                             168   3e-38
 
322
162040212                                                             168   3e-38
 
323
160229376                                                             168   3e-38
 
324
155506362                                                             168   3e-38
 
325
155847422                                                             168   3e-38
 
326
149607429                                                             168   3e-38
 
327
144241820                                                             168   3e-38
 
328
143561247                                                             168   3e-38
 
329
CXAF-bgk87b04.g1                                                      167   1e-37
 
330
CXAF-bgn10b10.g1                                                      167   1e-37
 
331
CXAF-bdi40f05.g1                                                      167   1e-37
 
332
CXAF-baa60b11.b1                                                      167   1e-37
 
333
CXAF-bbm35d05.b1                                                      167   1e-37
 
334
CXAF-axy00d03.g1                                                      167   1e-37
 
335
CXAF-azh43d10.g1                                                      167   1e-37
 
336
CXAF-azn11d01.b1                                                      167   1e-37
 
337
CXAF-auq78d03.b1                                                      167   1e-37
 
338
CXAF-atr41g05.b1                                                      167   1e-37
 
339
CXAF-arx85e04.b1                                                      167   1e-37
 
340
CXAF-arg15b07.g1                                                      167   1e-37
 
341
CXAF-art10c11.g1                                                      167   1e-37
 
342
CXAF-aqo94c07.g1                                                      167   1e-37
 
343
CXAF-apn74f11.b1                                                      167   1e-37
 
344
CXAF-apy51g08.b1                                                      167   1e-37
 
345
CXAF-aos41c08.b1                                                      167   1e-37
 
346
CXAF-alt68e05.b1                                                      167   1e-37
 
347
CXAF-ajx89e04.g1                                                      167   1e-37
 
348
CXAF-aic06d05.g1                                                      167   1e-37
 
349
CXAF-ahd71f01.b1                                                      167   1e-37
 
350
CXAF-aif98h08.b1                                                      167   1e-37
 
351
CXAF-aiu02f01.g1                                                      167   1e-37
 
352
CXAF-ahd71f01.b1                                                      167   1e-37
 
353
CXAF-aic06d05.g1                                                      167   1e-37
 
354
CXAF-aho37d07.b1                                                      167   1e-37
 
355
CXAF-agh89a12.g1                                                      167   1e-37
 
356
CXAF-afv34e12.g1                                                      167   1e-37
 
357
CXAF-aey21f08.b1                                                      167   1e-37
 
358
CXAF-afv51h12.b1                                                      167   1e-37
 
359
CXAF-adc97g07.b1                                                      167   1e-37
 
360
CXAF-abm70e02.b1                                                      167   1e-37
 
361
CXAF-aaf45c03.g1                                                      167   1e-37
 
362
CXAF-abo95d03.g1                                                      167   1e-37
 
363
CXAF-aab10e02.b1                                                      167   1e-37
 
364
CXAG-1524C04.g1                                                       167   1e-37
 
365
CXAG-0410P07.g1                                                       167   1e-37
 
366
CXAG-0520F01.g1                                                       167   1e-37
 
367
CXAG-0167E19.g1                                                       167   1e-37
 
368
168531737                                                             167   1e-37
 
369
166734452                                                             167   1e-37
 
370
163633202                                                             167   1e-37
 
371
163379199                                                             167   1e-37
 
372
163763163                                                             167   1e-37
 
373
165597462                                                             167   1e-37
 
374
166014684                                                             167   1e-37
 
375
165903989                                                             167   1e-37
 
376
165496388                                                             167   1e-37
 
377
165136919                                                             167   1e-37
 
378
165141067                                                             167   1e-37
 
379
164915848                                                             167   1e-37
 
380
164883233                                                             167   1e-37
 
381
164417712                                                             167   1e-37
 
382
160275027                                                             167   1e-37
 
383
163066594                                                             167   1e-37
 
384
160522423                                                             167   1e-37
 
385
162491209                                                             167   1e-37
 
386
157891314                                                             167   1e-37
 
387
157556763                                                             167   1e-37
 
388
149844405                                                             167   1e-37
 
389
147760001                                                             167   1e-37
 
390
144502404                                                             167   1e-37
 
391
144237941                                                             167   1e-37
 
392
154980843                                                             167   1e-37
 
393
153818331                                                             167   1e-37
 
394
153935465                                                             167   1e-37
 
395
149433619                                                             167   1e-37
 
396
153386450                                                             167   1e-37
 
397
153208079                                                             167   1e-37
 
398
152275918                                                             167   1e-37
 
399
152221611                                                             167   1e-37
 
400
150637700                                                             167   1e-37
 
401
145461697                                                             167   1e-37
 
402
143730363                                                             167   1e-37
 
403
CXAF-bgu50c01.g1                                                      165   5e-37
 
404
CXAF-bfz12g08.g1                                                      165   5e-37
 
405
CXAF-bek73h12.b1                                                      165   5e-37
 
406
CXAF-bco17g06.g1                                                      165   5e-37
 
407
CXAF-ayq35f06.b1                                                      165   5e-37
 
408
CXAF-ayo11g09.b1                                                      165   5e-37
 
409
CXAF-asr02g03.g1                                                      165   5e-37
 
410
CXAF-arx65f10.b1                                                      165   5e-37
 
411
CXAF-arx65f06.b1                                                      165   5e-37
 
412
CXAF-aqn58g03.b4                                                      165   5e-37
 
413
CXAF-aon21a01.b1                                                      165   5e-37
 
414
CXAF-akb46h02.b1                                                      165   5e-37
 
415
CXAF-aii43g02.g1                                                      165   5e-37
 
416
CXAF-agu27h05.b1                                                      165   5e-37
 
417
CXAF-aic25d01.b1                                                      165   5e-37
 
418
CXAG-2015A19.b1                                                       165   5e-37
 
419
CXAG-0523N16.g1                                                       165   5e-37
 
420
166371682                                                             165   5e-37
 
421
163798751                                                             165   5e-37
 
422
165810530                                                             165   5e-37
 
423
164473486                                                             165   5e-37
 
424
164895142                                                             165   5e-37
 
425
164838455                                                             165   5e-37
 
426
161482077                                                             165   5e-37
 
427
160503765                                                             165   5e-37
 
428
162496034                                                             165   5e-37
 
429
160394093                                                             165   5e-37
 
430
159887243                                                             165   5e-37
 
431
155431165                                                             165   5e-37
 
432
159583227                                                             165   5e-37
 
433
157592797                                                             165   5e-37
 
434
156296735                                                             165   5e-37
 
435
156346326                                                             165   5e-37
 
436
157114978                                                             165   5e-37
 
437
147596960                                                             165   5e-37
 
438
153304584                                                             165   5e-37
 
439
144718320                                                             165   5e-37
 
440
144878936                                                             165   5e-37
 
441
CXAF-bhu90d04.g1                                                      163   2e-36
 
442
CXAF-bfg30g05.b1                                                      163   2e-36
 
443
CXAF-bdg06g12.g1                                                      163   2e-36
 
444
CXAF-bea06c12.b1                                                      163   2e-36
 
445
CXAF-bcr68e11.b1                                                      163   2e-36
 
446
CXAF-bde20h11.g1                                                      163   2e-36
 
447
CXAF-bda01c05.b1                                                      163   2e-36
 
448
CXAF-bax80e02.b1                                                      163   2e-36
 
449
CXAF-bcs19f10.g1                                                      163   2e-36
 
450
CXAF-ayr10c06.g1                                                      163   2e-36
 
451
CXAF-ayt49h06.b1                                                      163   2e-36
 
452
CXAF-ays19d03.g1                                                      163   2e-36
 
453
CXAF-axy72f08.g1                                                      163   2e-36
 
454
CXAF-atd42a09.b1                                                      163   2e-36
 
455
CXAF-atr38a05.b1                                                      163   2e-36
 
456
CXAF-asn20c10.b1                                                      163   2e-36
 
457
CXAF-aqc60f05.b1                                                      163   2e-36
 
458
CXAF-asd41d09.g1                                                      163   2e-36
 
459
CXAF-are20b11.b1                                                      163   2e-36
 
460
CXAF-ano36b12.g1                                                      163   2e-36
 
461
CXAF-aob93g03.b1                                                      163   2e-36
 
462
CXAF-ano78d03.b1                                                      163   2e-36
 
463
CXAF-amt41h07.b1                                                      163   2e-36
 
464
CXAF-amr50b05.b1                                                      163   2e-36
 
465
CXAF-ajj30e08.b1                                                      163   2e-36
 
466
CXAF-akv57h09.g1                                                      163   2e-36
 
467
CXAF-ajz38h12.g1                                                      163   2e-36
 
468
CXAF-akp62f03.g1                                                      163   2e-36
 
469
CXAF-ajg64d02.b1                                                      163   2e-36
 
470
CXAF-ajl20g03.g1                                                      163   2e-36
 
471
CXAF-alo38h10.b1                                                      163   2e-36
 
472
CXAF-ajg30b01.b1                                                      163   2e-36
 
473
CXAF-ail45e09.g1                                                      163   2e-36
 
474
CXAF-acp49a10.b1                                                      163   2e-36
 
475
CXAF-aai04g09.b1                                                      163   2e-36
 
476
CXAF-aba43c05.g1                                                      163   2e-36
 
477
CXAF-aao24c02.b1                                                      163   2e-36
 
478
CXAF-aah33f05.g1                                                      163   2e-36
 
479
CXAF-aaa01h07.b1                                                      163   2e-36
 
480
CXAG-1896P01.b1                                                       163   2e-36
 
481
CXAG-2095N21.g1                                                       163   2e-36
 
482
CXAG-0934N07.b1                                                       163   2e-36
 
483
167331901                                                             163   2e-36
 
484
165712612                                                             163   2e-36
 
485
166892813                                                             163   2e-36
 
486
166834018                                                             163   2e-36
 
487
166874487                                                             163   2e-36
 
488
167085899                                                             163   2e-36
 
489
163710257                                                             163   2e-36
 
490
166148571                                                             163   2e-36
 
491
163760359                                                             163   2e-36
 
492
161736861                                                             163   2e-36
 
493
163034044                                                             163   2e-36
 
494
162837927                                                             163   2e-36
 
495
162295658                                                             163   2e-36
 
496
158510817                                                             163   2e-36
 
497
158506098                                                             163   2e-36
 
498
158114971                                                             163   2e-36
 
499
157400396                                                             163   2e-36
 
500
156015837                                                             163   2e-36
 
501
156972840                                                             163   2e-36
 
502
156966353                                                             163   2e-36
 
503
156052575                                                             163   2e-36
 
504
148543548                                                             163   2e-36
 
505
147940150                                                             163   2e-36
 
506
147576749                                                             163   2e-36
 
507
145809921                                                             163   2e-36
 
508
142070855                                                             163   2e-36
 
509
149489495                                                             163   2e-36
 
510
151223248                                                             163   2e-36
 
511
151017009                                                             163   2e-36
 
512
150921030                                                             163   2e-36
 
513
146666997                                                             163   2e-36
 
514
 
 
515
>152308237 
 
516
          Length = 1272
 
517
 
 
518
 Score =  377 bits (190), Expect = e-101
 
519
 Identities = 386/447 (86%), Gaps = 7/447 (1%)
 
520
 Strand = Plus / Minus
 
521
 
 
522
                                                                       
 
523
Query: 524 gcacctccccagaagccgggcttcccgccccaccg-gcccgcgaggtgccgcagggaggg 582
 
524
           |||||||||||| ||||||||| |||||||  ||| |||| |||||||||  || |||||
 
525
Sbjct: 803 gcacctccccagcagccgggctccccgccctgccgagccctcgaggtgccagagagaggg 744
 
526
 
 
527
                                                                       
 
528
Query: 583 tgcggtttggcttgtcagcacccaggggcgtcacaaaccctttgttgaacaggggattta 642
 
529
           || | |||||||||||||| ||||| ||||||||||||||| ||||||||||||||||| 
 
530
Sbjct: 743 tgtgatttggcttgtcagctcccagaggcgtcacaaaccctctgttgaacaggggatttt 684
 
531
 
 
532
                                                                       
 
533
Query: 643 cccct--ttgtgtggcgtcacttgatcaatagttcagtttcagtgtggctaatagtgtta 700
 
534
           |  ||  ||||||||| |||||||| |||||||||||||||||||||||||||   ||||
 
535
Sbjct: 683 ctgctccttgtgtggcttcacttgaccaatagttcagtttcagtgtggctaat---gtta 627
 
536
 
 
537
                                                                       
 
538
Query: 701 aaaactggccgggcgcggtggctcacgcctgtaatcccaacactttgggaggccgagg-c 759
 
539
           |||||||||  |||| ||||| |||| ||||||||||||||||||||||||||| ||| |
 
540
Sbjct: 626 aaaactggcttggcgtggtggttcacacctgtaatcccaacactttgggaggccaagggc 567
 
541
 
 
542
                                                                       
 
543
Query: 760 gggcggatcacctcaggtcaggagttcaacaccagcttagccaacatggtgaaaccttgt 819
 
544
           |||| |||||| | ||||||||||||| | || ||| | ||||| |||||||||||||||
 
545
Sbjct: 566 gggcagatcacttgaggtcaggagttcgagactagccttgccaaaatggtgaaaccttgt 507
 
546
 
 
547
                                                                       
 
548
Query: 820 ctctactgatacaaaaattagccgggagtggtgatgcgcgcctgtaatcccaggagactg 879
 
549
           ||||||||||||||||| | |  ||||  |||| ||||| ||||  ||||||||||||||
 
550
Sbjct: 506 ctctactgatacaaaaagttgttgggaaaggtggtgcgctcctgatatcccaggagactg 447
 
551
 
 
552
                                                                       
 
553
Query: 880 aggcatgagaatcgcttgaacctgggagacagaggttgcagtgagccgagatcgcaccac 939
 
554
           || ||||||||||||||||||||||||||  ||||||||||||||  ||| || | ||||
 
555
Sbjct: 446 agacatgagaatcgcttgaacctgggagagggaggttgcagtgaggtgaggtcacgccac 387
 
556
 
 
557
                                      
 
558
Query: 940 tgcactccagcctgggtgacagagtga 966
 
559
           |  ||||||||||||||| ||||||||
 
560
Sbjct: 386 ttaactccagcctgggtgtcagagtga 360
 
561
 
 
562
 
 
563
 
 
564
 Score =  115 bits (58), Expect = 4e-22
 
565
 Identities = 138/158 (87%), Gaps = 5/158 (3%)
 
566
 Strand = Plus / Minus
 
567
 
 
568
                                                                        
 
569
Query: 308  tgtacaaatcaaagaacccggccgtcctgcgggtggggcacgctggcgcagaaccagagg 367
 
570
            |||| |||||||||||||| ||| |||||||| ||| |||||||||||||||||||||||
 
571
Sbjct: 1047 tgtagaaatcaaagaacccagccatcctgcggatggagcacgctggcgcagaaccagagg 988
 
572
 
 
573
                                                                        
 
574
Query: 368  taaccggctctgcggccacctacgggtctaggaattacttgctggatgaccctgcaggga 427
 
575
            | ||| |||||| |  || |||||||||||||||||| || || ||||| ||||||| ||
 
576
Sbjct: 987  t-acctgctctgtgagca-ctacgggtctaggaattattttctagatga-cctgcagaga 931
 
577
 
 
578
                                                  
 
579
Query: 428  gtggcacgtggagt-cctatcga-cctcagaggcacta 463
 
580
            |||||||| ||||| |||||| | ||||||||||||||
 
581
Sbjct: 930  gtggcacggggagtccctatcaaccctcagaggcacta 893
 
582
 
 
583
 
 
584
 
 
585
 Score = 56.0 bits (28), Expect = 3e-04
 
586
 Identities = 68/76 (89%), Gaps = 4/76 (5%)
 
587
 Strand = Plus / Minus
 
588
 
 
589
                                                                        
 
590
Query: 194  cccagacagagcgttcttgtaaacttctcttcagtagaaacggtcctgctctcgaatatt 253
 
591
            |||||||||||| |||||||||  |||| |||||||| |||| ||| ||||||||||| |
 
592
Sbjct: 1161 cccagacagagcattcttgtaactttct-ttcagtag-aacgatcc-gctctcgaata-t 1106
 
593
 
 
594
                            
 
595
Query: 254  tcagggcatccccacc 269
 
596
            ||||||||||||||||
 
597
Sbjct: 1105 tcagggcatccccacc 1090
 
598
 
 
599
 
 
600
 
 
601
 Score = 48.1 bits (24), Expect = 0.078
 
602
 Identities = 40/44 (90%), Gaps = 1/44 (2%)
 
603
 Strand = Plus / Minus
 
604
 
 
605
                                                       
 
606
Query: 464 tcagattagccctaggaggtccgtctgggggtctcggcggcctg 507
 
607
           |||||||||||||||||||||| ||  ||||||||||| |||||
 
608
Sbjct: 878 tcagattagccctaggaggtccatc-cggggtctcggctgcctg 836
 
609
 
 
610
 
 
611
 
 
612
  Database: traces_cjacchus
 
613
    Posted date:  Apr 18, 2006  9:06 AM
 
614
  Number of letters in database: 3,989,705,459
 
615
  Number of sequences in database:  4,116,926
 
616
  
 
617
  Database: /data/public/DNA/Traces/Current/cjacchus/traces_cjacchus.0
 
618
  1
 
619
    Posted date:  Apr 18, 2006  9:14 AM
 
620
  Number of letters in database: 3,982,324,570
 
621
  Number of sequences in database:  4,352,299
 
622
  
 
623
  Database: /data/public/DNA/Traces/Current/cjacchus/traces_cjacchus.0
 
624
  2
 
625
    Posted date:  Apr 18, 2006  9:22 AM
 
626
  Number of letters in database: 3,920,139,351
 
627
  Number of sequences in database:  4,087,461
 
628
  
 
629
  Database: /data/public/DNA/Traces/Current/cjacchus/traces_cjacchus.0
 
630
  3
 
631
    Posted date:  Apr 18, 2006  9:31 AM
 
632
  Number of letters in database: 3,987,269,224
 
633
  Number of sequences in database:  5,092,493
 
634
  
 
635
  Database: /data/public/DNA/Traces/Current/cjacchus/traces_cjacchus.0
 
636
  4
 
637
    Posted date:  Apr 18, 2006  9:40 AM
 
638
  Number of letters in database: 3,987,395,141
 
639
  Number of sequences in database:  5,041,942
 
640
  
 
641
  Database: /data/public/DNA/Traces/Current/cjacchus/traces_cjacchus.0
 
642
  5
 
643
    Posted date:  Apr 18, 2006  9:49 AM
 
644
  Number of letters in database: 3,987,395,015
 
645
  Number of sequences in database:  5,042,820
 
646
  
 
647
  Database: /data/public/DNA/Traces/Current/cjacchus/traces_cjacchus.0
 
648
  6
 
649
    Posted date:  Apr 18, 2006  9:50 AM
 
650
  Number of letters in database: 195,038,135
 
651
  Number of sequences in database:  249,629
 
652
  
 
653
Lambda     K      H
 
654
    1.37    0.711     1.31 
 
655
 
 
656
Gapped
 
657
Lambda     K      H
 
658
    1.37    0.711     1.31 
 
659
 
 
660
 
 
661
Matrix: blastn matrix:1 -3
 
662
Gap Penalties: Existence: 5, Extension: 2
 
663
Number of Hits to DB: 35,912,672
 
664
Number of Sequences: 27983570
 
665
Number of extensions: 35912672
 
666
Number of successful extensions: 24562055
 
667
Number of sequences better than  1.0: 5755765
 
668
Number of HSP's better than  1.0 without gapping: 5583706
 
669
Number of HSP's successfully gapped in prelim test: 172065
 
670
Number of HSP's that attempted gapping in prelim test: 3844134
 
671
Number of HSP's gapped (non-prelim): 19045195
 
672
length of query: 1001
 
673
length of database: 24,049,266,895
 
674
effective HSP length: 23
 
675
effective length of query: 978
 
676
effective length of database: 23,405,644,785
 
677
effective search space: 22890720599730
 
678
effective search space used: 22890720599730
 
679
T: 0
 
680
A: 0
 
681
X1: 11 (21.8 bits)
 
682
X2: 15 (29.7 bits)
 
683
S1: 12 (24.3 bits)
 
684
S2: 23 (46.1 bits)