Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2377
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 32918
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Found at i:2781 original size:475 final size:472
Alignment explanation
Indices: 1012--4961 Score: 3875
Period size: 475 Copynumber: 8.3 Consensus size: 472
1002 TTGTCATCAG
* * * * *
1012 AAACCAAAGCACCAATATCATGCATCCTTTTGAGATGACTATGTTTATGGTGCCTAAACCCGAAA
1 AAACCAAAGCATCAATATCATGTATCCTTTTGAGAAGACTATATTTATGGTGCCTAATCCCGAAA
* * * *
1077 AGAACGAGAATTAGTATGACTATTCATGTTTGTCCTACTTAAGAGGTAAACTTTGATTCTATCAA
66 AGAATGGGAATTAGTATGACTATTCATGTTT-TCCTATTTAAGAGGCAAACTTTGATTCTATCAA
* ** * * * *
1142 AAATGGT-GAAAAAAAAGCTTTTCTTGCGATGCCAAACCATCAATGTCTTGTATCCAAAGGAAGG
130 AAACGGTGGAAAAAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAGG
* * * *
1206 GAAAGTGTTTTAGGTTCCCAATCCTAAAAATAATGGAGACTATTACAAGAATCGATGTTTGTCTT
195 GAAAATGTTTTAGGTTCCCAAT-CTGAAAATAATGGAGACTATTACGAGAATC-ATGCTTGTCTT
* * * * *
1271 ATTTGAGGGATAAACTTTGATTCTAAGGAAAATAGGGCAAAAAAAATATTTCCATGCAAAA-AAA
258 ATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAATATTTTCATGCAAAAGAAA
* * * *
1335 ATCATCGATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAGTCACAAAATGAATGA
323 ATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGACTAATCATAAAATGAATGA
* * *
1400 AAATCATTACTAGAATCCATGTTTATCTCATTTGAGGCACGAACTTAGACTTTAATAAAATTGGT
388 AGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTT-ACAAAATTGGT
1465 GGGAAGAAGAA-AGCATTTCTTGCA
452 GGGAA-AA-AAGA-C-TTTCTTGCA
* * *
1489 AAACCAAAGTATCAATATCATGTATCCTTTTGAGAATACTAT-GTTATGGTGCCTAATCCCGAAA
1 AAACCAAAGCATCAATATCATGTATCCTTTTGAGAAGACTATATTTATGGTGCCTAATCCCGAAA
* * * * *
1553 AGAAT-GGAATAAGTATGACTATTCATGTTTTTCCTACTCAAGCGGCAAACTTTGATTCCATCAA
66 AGAATGGGAATTAGTATGACTATTCATG-TTTTCCTATTTAAGAGGCAAACTTTGATTCTATC--
* * * * *
1617 AAAAACGATGGAAAAAAAAACTTTTCTGGTGACACCAAAGCATCAATGTCATGTATCCTAACGAA
128 AAAAACGGTGGAAAAAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAA
*** * * * * ** * *
1682 GGGAATGCGTTTTTGGTTCCTAATCTTGAAAAAAAATGGAGAGTGCTACAAGAATTGATGCTTGT
193 GGGAAAATGTTTTAGGTTCCCAATC-TG-AAAATAATGGAGACTATTACGAGAA-TCATGCTTGT
* * * ** *
1747 TTTATTTAAGGAATGAACTTTGATTTTAAGGAAAATAATGGTGAAGAAAAGATTTTCATGCAAAA
255 CTTATTTAAGGGATGAACTTTGATTTTAAGGAAAAT-AGGGCAAAGAAAATATTTTCATGCAAAA
* * *
1812 GAAAATCATCAATATCATTTATCCCAATGAGGAGAATGTGTTTATAGTGCCTAATCATAGAATGA
319 GAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGACTAATCATAAAATGA
* * * * * * *
1877 ATGAAGATCATTACTATAATCCTTGTTTGTTTCATTTAAGCCATGAACTTAGACTTTTAAAAAAT
384 ATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGAC-TTTACAAAAT
1942 TGGT-GGAAAGAAAG-CTTCTCTTGCA
448 TGGTGGGAAA-AAAGACTT-TCTTGCA
* * * **
1967 AAACCAAAGTACCAATATCATGTATCGTTCAGAGAAGACTATATTTATGGTGCCTAATCCCG-AA
1 AAACCAAAGCATCAATATCATGTATCCTTTTGAGAAGACTATATTTATGGTGCCTAATCCCGAAA
* * * * * *
2031 AGAATGGGGATTAGTATCAGTATTCTTGTTTGTCTTATTTAAGAGAC-AACTTTGATTCTATCAA
66 AGAATGGGAATTAGTATGACTATTCATGTTT-TCCTATTTAAGAGGCAAACTTTGATTCTATCAA
* * * *
2095 AAACGGTGGAAATAAATGC-TTTCATGCGACACCGAAGCATCAATGTCATGTATCCTAATGAAGG
130 AAACGGTGGAAAAAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAGG
* ** * * * * *
2159 GAATATGTTTTTTGTTCCTAATCTTAAAAAGAATGGAGACTATTACGGGAATCGATACTTGTCTT
195 GAAAATGTTTTAGGTTCCCAATC-TGAAAATAATGGAGACTATTACGAGAATC-ATGCTTGTCTT
* * * *
2224 ATTTAAAGGATGAACTTTGATTTTAAGAAAAATAGGGCAAAGAAAAGATGTTCATGCAAAAGAAA
258 ATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAATATTTTCATGCAAAAGAAA
* * * *
2289 ATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAACCATAAAATTAAAGA
323 ATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGACTAATCATAAAATGAATGA
* * *
2354 AGATCGTTACTAGAATCCATGTTTGTCTCATTTGGGGCACGAACTTAGACGTTACAAAATTGGTG
388 AGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAATTGGTG
**
2419 GGAAAAAAGACTTTCTTGTG
453 GGAAAAAAGACTTTCTTGCA
* * ** ** * * **
2439 AAACTAAAGCACCAATATTGTGTATCCTACTAAGAAGACAATATTTATGGTTTCTAATCCCGAAA
1 AAACCAAAGCATCAATATCATGTATCCTTTTGAGAAGACTATATTTATGGTGCCTAATCCCGAAA
* * * * * *
2504 AGAATGGGGATTAGTATGACTATTCATGTTTCCCTATTTAAGAGGTAAGCTTTGTTTCTATAAAA
66 AGAATGGGAATTAGTATGACTATTCATGTTTTCCTATTTAAGAGGCAAACTTTGATTCTATCAAA
*
2569 AACGGTGGAAAAAAAAAGCTTTTCTTGGGACACCAAAGCATCAATGTCATGTATCCTAATGAAGG
131 AACGGTGG-AAAAAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAGG
** * *
2634 GATTATGTTTTAGGTTCCCAATGCTGAAAATAATGGCA-A-TCGTTATGAGAATCATTGCTTGTC
195 GAAAATGTTTTAGGTTCCCAAT-CTGAAAATAATGG-AGACT-ATTACGAGAATCA-TGCTTGTC
*
2697 TTCTTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAATATTTTCATGCAAAAGA
256 TTATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAATATTTTCATGCAAAAGA
* * *
2762 AAATCATCAGTATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGACTAATCAAAAAATTAAT
321 AAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGACTAATCATAAAATGAAT
* * * * * *
2827 GAAGATCATTACTAGAATCCAAGTTTGCCTTATTTAAGACACGGACTTAGACTTTACTAAAATTG
386 GAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTAC-AAAATTG
* *
2892 GTGGGAAGAAAGCCTTTCTTGCA
450 GTGGGAAAAAAGACTTTCTTGCA
* * ** * ** * *
2915 AAAGCAAAGCATCGATATTGTGCATCCTTTTGAGAATTCTATGTTTATGGTGCCTAATCCTGAAA
1 AAACCAAAGCATCAATATCATGTATCCTTTTGAGAAGACTATATTTATGGTGCCTAATCCCGAAA
*
2980 AGAATGGAAATTAGTATGACTATTCATGTTTGTCCTA-TTAAGAGGCAAACTTTGATTCTATCAA
66 AGAATGGGAATTAGTATGACTATTCATGTTT-TCCTATTTAAGAGGCAAACTTTGATTCTATCAA
* * * * * **
3044 AAACGGTGGAAGAAAAAGCTTTTCTTGCAACATCAAAGCATCAATATCCTGTATCCTACGGAA-G
130 AAACGGTGGAAAAAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAGG
**
3108 GAAAAGTGTTTTAGGTTCCCAATCCTGAAAATAATGGAGACTATTACGAGAATTGTTGCTTGTCT
195 GAAAA-TGTTTTAGGTTCCCAAT-CTGAAAATAATGGAGACTATTACGAGAA-TCATGCTTGTCT
* * * * * *
3173 TCTTTAAGGGACGAACTTTAATTTTAAGGAAAATAGGGCAAAGAAATTATTTCCATGTAAAA-AA
257 TATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAATATTTTCATGCAAAAGAA
* *
3237 AATCATCAATATCATTTATCCTAATGAAGAGAATGTGTTTATAGTGACTAATCACAAAATGAATG
322 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGACTAATCATAAAATGAATG
* * ** *
3302 AAGATCATTACTAAAATCCATGTTTGTCTCA-TTGAGGCGCGAACTTAGACTTTTTGAAAATTGA
387 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGAC-TTTACAAAATTGG
* ** *
3366 TGGGAAGAAAGTTTTTCTT-CC
451 TGGGAAAAAAGACTTTCTTGCA
* * * **
3387 AAAGCAAAGCATCAATATCATGTATCCTTTTGAGAAAACTATGTTTATGGTGCCTAATCAAGAAA
1 AAACCAAAGCATCAATATCATGTATCCTTTTGAGAAGACTATATTTATGGTGCCTAATCCCGAAA
* * *
3452 AGAATGGAAATTAGTACGA-TGATTCATGCTTGTCCTATTTAAGAGGCAAACTTTGATTCTATCA
66 AGAATGGGAATTAGTATGACT-ATTCATG-TTTTCCTATTTAAGAGGCAAACTTTGATTCTATCA
* * *
3516 AAAACGGTGG-AAAAAAAGCTTTTCTTGCGACGCCAAAGCATCAATGTCTTGTATCCTAAAGAAG
129 AAAACGGTGGAAAAAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAG
* * * * *
3580 GGAAAGTGTTTTAGGTTTCTAATCCTGGAAATAATGGAGACTATTACGGGAATCGATGCTTGTCT
194 GGAAAATGTTTTAGGTTCCCAAT-CTGAAAATAATGGAGACTATTACGAGAATC-ATGCTTGTCT
* *
3645 TATTTATA-GGATAAACTTTGATTCTAAGGAAAATAGGGCAAAG-AAATATTTTCATGCAAAAGA
257 TATTTA-AGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAATATTTTCATGCAAAAGA
* *
3708 AAATCATCAATATCATTTATCCTAATGAGGAGACTATGTTTATAGTGACTAATCATAAAATGAAT
321 AAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGACTAATCATAAAATGAAT
*
3773 GAAGATCATTACTAGAATCCATGTTTGTCTCATTCGAGGCACGAACTTAGACTTTACTAAAATTG
386 GAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTAC-AAAATTG
* * *
3838 GTGGGAAGAAAGCCTTTCTTGCG
450 GTGGGAAAAAAGACTTTCTTGCA
* * * * **
3861 AAACCAAAGCATCAATATCGTGTATCCTTATGAGAAGACTATGTTTAGGGTGCCTAATCTTGAAA
1 AAACCAAAGCATCAATATCATGTATCCTTTTGAGAAGACTATATTTATGGTGCCTAATCCCGAAA
* *
3926 AGAATGGGAATTAGTATGGC-ATTCATATTTGT-CTAATTTAAGAGGCAAACTTTGATTCTATCA
66 AGAATGGGAATTAGTATGACTATTCATGTTT-TCCT-ATTTAAGAGGCAAACTTTGATTCTATCA
* * * * * * * *
3989 AAAATGATGGAAAGAAAAGCTTTTTTTGTGACACCAAAGCAGCAACGTAATGTATCCTAATGAAG
129 AAAACGGTGGAAAAAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAG
** ** * * * * * * * *
4054 GGAACGTGTTTTTTGTTCCCAATCTTGAAAAGAAAGGGGACTGTCATGAGAATTGATGCTTTTCT
194 GGAAAATGTTTTAGGTTCCCAATC-TGAAAATAATGGAGACTATTACGAGAA-TCATGCTTGTCT
* * * ** * *
4119 TAATTAAGGGATGAACTTTGATTTTAAGGAAAACAGGGAAAAGAAAACGTTTCCATGCAAAGGAA
257 TATTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAATATTTTCATGCAAAAGAA
* * *
4184 AATCATCAATAACATTTATCC------------------TA-A---CCTAATCACAAAATGAATG
322 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGACTAATCATAAAATGAATG
*
4227 AAGATCATTACTAGAATCCATGTTTGTCTTATTTGAGGCACGAACTTAGACTTTACTAAAATTGG
387 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTAC-AAAATTGG
* * *
4292 TGGGAAGAAAGCCTTTCTTGCG
451 TGGGAAAAAAGACTTTCTTGCA
* * * * * *
4314 AAACCAAAGCTTCAATATCATGTTTCCTTATGAGAAGACTACATCAATATCAT-GTATCCTTAT-
1 AAACCAAAGCATCAATATCATGTATCCTTTTGAGAAGACT--AT--AT-TTATGGT-GCCTAATC
** * * * * * * **
4377 GAGAAGACTATGTTTAGGGTGCCTAATCCTGAAAAG-AGCGGGAATTAGTATGACTATTCTTGTT
60 CCGAA-A--A-G--AATGG-G---AAT--T----AGTA---TG-ACTA-T-TCA-TGTT-TT-CC
* ** * *** * * *
4441 TGTCTTATTTAAGTGGAAAACTTTGATTCTATCAAAAAATGGTGGAAAGAAAAA-CTTTTCTTGT
100 TAT-TTA-AGAGGCAAAC---TTTGATTCTATC-AAAAACGGTGGAAA-AAAAAGCTTTTCTTGC
* * * * ** * *
4505 GACAGCAAAGCAACAATGTAATGTATCCTAATAAAGGGAATGTGTTTTTGGTTCCTAATCTTGAA
158 GACACCAAAGCATCAATGTCATGTATCCTAATGAAGGGAAAATGTTTTAGGTTCCCAATC-TGAA
* * * ** * *
4570 AATAAAGGGGACTGTCCCGAGAATCAATGCTTGTTTTAATTAAGGGATGAACTTTGA-TTTAAGG
222 AATAATGGAGACTATTACGAGAATC-ATGCTTGTCTTATTTAAGGGATGAACTTTGATTTTAAGG
*** * * * * *
4634 AAAATAGGGCAAAGAAAAGGCTTCCTTGCAAAAGAAAATCATCAGTATCATTTATCCTAGTAAGG
286 AAAATAGGGCAAAGAAAATATTTTCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGAGG
* * * * * *
4699 AGAATGGTGTTTAAAGTGCCTAATCACAAAATGAATGATGACCAATACTAGAATCCATGTTT-TG
351 AGAAT-GTGTTTATAGTGACTAATCATAAAATGAATGAAGATCATTACTAGAATCCATGTTTGT-
* * * * * *
4763 CTCAGTTGAGGCATGAACTTAGGCTTTACAAAAATTGGT-GGAAAGAAAGCCATTCTTGCG
414 CTCATTTGAGGCACGAACTTAGACTTTAC-AAAATTGGTGGGAAA-AAAGACTTTCTTGCA
* * * * * * ***
4823 AAACCAAAGCATCTATGTCATGTATCCTTATGAGGAGACTATGTTTATGATGCCTAATCATTAAA
1 AAACCAAAGCATCAATATCATGTATCCTTTTGAGAAGACTATATTTATGGTGCCTAATCCCGAAA
* * *
4888 AGAATGGGAATTAGTA-CAGCTATTCATGTTTGTCTTATTTAGGAGGCAAACTTTGATTCTATCA
66 AGAATGGGAATTAGTATGA-CTATTCATGTTT-TCCTATTTAAGAGGCAAACTTTGATTCTATCA
4952 AAAATCGGTG
129 AAAA-CGGTG
4962 CATCAATATC
Statistics
Matches: 2920, Mismatches: 429, Indels: 248
0.81 0.12 0.07
Matches are distributed among these distances:
453 139 0.05
455 2 0.00
456 1 0.00
457 8 0.00
458 8 0.00
460 1 0.00
461 1 0.00
463 3 0.00
464 1 0.00
467 3 0.00
469 1 0.00
471 17 0.01
472 404 0.14
473 363 0.12
474 368 0.13
475 554 0.19
476 190 0.07
477 68 0.02
478 137 0.05
479 109 0.04
480 36 0.01
481 120 0.04
482 11 0.00
483 7 0.00
484 2 0.00
485 2 0.00
486 71 0.02
487 129 0.04
488 4 0.00
489 2 0.00
490 1 0.00
493 1 0.00
495 3 0.00
498 1 0.00
499 3 0.00
501 1 0.00
502 1 0.00
504 9 0.00
505 6 0.00
506 1 0.00
507 2 0.00
508 5 0.00
509 124 0.04
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (472 bp):
AAACCAAAGCATCAATATCATGTATCCTTTTGAGAAGACTATATTTATGGTGCCTAATCCCGAAA
AGAATGGGAATTAGTATGACTATTCATGTTTTCCTATTTAAGAGGCAAACTTTGATTCTATCAAA
AACGGTGGAAAAAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAGGG
AAAATGTTTTAGGTTCCCAATCTGAAAATAATGGAGACTATTACGAGAATCATGCTTGTCTTATT
TAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAATATTTTCATGCAAAAGAAAATC
ATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGACTAATCATAAAATGAATGAAGA
TCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAATTGGTGGGA
AAAAAGACTTTCTTGCA
Found at i:3118 original size:158 final size:154
Alignment explanation
Indices: 2956--4053 Score: 392
Period size: 158 Copynumber: 7.0 Consensus size: 154
2946 GAGAATTCTA
* * *
2956 TGTTTATGGTGCCTAATCCTGAAAAGAATGGAAATTAGTATGACTATTCATGTTTGTCCTATTAA
1 TGTTTATGGTGCCTAATCCTGAAAAGAATGGAAATTAGTACGA-AATTCATGCTTGTCCTATTAA
*
3021 GAGGCAAACTTTGATTCTATCAAAAACGGTGGAAGAAAAAGCTTTTCTTGCAACATCAAAGCATC
65 G-GGCAAACTTTGATTCTATCAAAAACGGTGGAAGAAAAAGCTTTTCTTGCAA-AACAAAGCATC
* **
3086 AATATCCTGTATCCTACGGAAGGAAAAG
128 AATATCATGTATCCTAATGAA-GAAAAG
* * * * * * **
3114 TGTTT-TAGGTTCCCAATCCTGAAAATAATGGAGACTATTACGAGAATTGTTGCTTGTCTTCT-T
1 TGTTTAT-GGTGCCTAATCCTGAAAAGAATGGAAATTAGTACGA-AATTCATGCTTGTC--CTAT
* * * ** * * * * * *
3177 TAAGGGACGAACTTTAATTTTAAGGAAAATA-GG-GCAAAGAAATTA--TTTCCATGTAAAAAAA
62 TAAGGG-CAAACTTTGATTCT-ATCAAAA-ACGGTG-GAAGAAA-AAGCTTTTCTTGCAAAACAA
* * *
3238 ATCATCAATATCATTTATCCTAATGAAGAGAATG
122 AGCATCAATATCATGTATCCTAATGAAGA-AAAG
* * * * * * *
3272 TGTTTATAGTGACTAATCAC--AAAATGAAT-GAAGATCATTACTAAAATCCATGTTTGT-CTCA
1 TGTTTATGGTGCCTAATC-CTGAAAA-GAATGGAA-ATTAGTAC-GAAATTCATGCTTGTCCT-A
* * * * * ** * * * *
3333 TTGAGGCGCGAACTTAGACTT-TTTGAAAATTGATGG--GAAGAAAGTTTTTCTTCCAAAGCAAA
61 TTAAGG-GCAAACTTTGA-TTCTATCAAAAACGGTGGAAGAA-AAAGCTTTTCTTGCAAAACAAA
** *
3395 GCATCAATATCATGTATCCTTTTG-AGAAAACTA
123 GCATCAATATCATGTATCCTAATGAAGAAAA--G
** *
3428 TGTTTATGGTGCCTAATCAAGAAAAGAATGGAAATTAGTACGATGATTCATGCTTGTCCTATTTA
1 TGTTTATGGTGCCTAATCCTGAAAAGAATGGAAATTAGTACGA-AATTCATGCTTGTCCTA-TTA
***
3493 AGAGGCAAACTTTGATTCTATCAAAAACGGTGGAA-AAAAAGCTTTTCTTGCGACGCCAAAGCAT
64 AG-GGCAAACTTTGATTCTATCAAAAACGGTGGAAGAAAAAGCTTTTCTTGC-AAAACAAAGCAT
* * * *
3557 CAATGTCTTGTATCCTAAAGAAGGGAAAG
127 CAATATCATGTATCCTAATGAA-GAAAAG
** * * * * * * *
3586 TGTTT-TAGGTTTCTAATCCTGGAAATAATGGAGACTATTACGGGAA-TCGATGCTTGTCTTATT
1 TGTTTAT-GGTGCCTAATCCTGAAAAGAATGGAAATTAGTAC-GAAATTC-ATGCTTGTCCTA-T
** ** * * * *
3649 TATAGGATAAACTTTGATTCTAAGGAAAATA-GG-GCAAAGAAATA--TTTTCATGCAAAAGAAA
62 TA-AGGGCAAACTTTGATTCT-ATCAAAA-ACGGTG-GAAGAAAAAGCTTTTCTTGCAAAA-CAA
* * **
3710 ATCATCAATATCATTTATCCTAATGAGGAGACTA-
122 AGCATCAATATCATGTATCCTAATGA--AGAAAAG
* * * * * * * *
3744 TGTTTATAGTGACTAATCAT-AAAATGAAT-GAAGATCATTACTAGAATCCATGTTTGT-CTCAT
1 TGTTTATGGTGCCTAATCCTGAAAA-GAATGGAA-ATTAGTACGA-AATTCATGCTTGTCCT-AT
* * ** * *
3806 T-CGAGGCACGAACTTAGACTT-TA-CTAAAATTGGTGG--GAAGAAAGCCTTTCTTGCGAAACC
62 TAAG-GGCA--AACTTTGA-TTCTATC-AAAAACGGTGGAAGAA-AAAGCTTTTCTTGC-AAAAC
* *
3866 AAAGCATCAATATCGTGTATCCTTATG-AGAAGACTA-
120 AAAGCATCAATATCATGTATCCTAATGAAGAA-A--AG
* * * * ** **
3902 TGTTTAGGGTGCCTAATCTTGAAAAGAATGGGAATTAGTATGGCATTCATATTTGT-CTAATTTA
1 TGTTTATGGTGCCTAATCCTGAAAAGAATGGAAATTAGTACGAAATTCATGCTTGTCCT-A-TTA
* * * * * *
3966 AGAGGCAAACTTTGATTCTATCAAAAATGATGGAA-AGAAAAGCTTTTTTTGTGACACCAAAGCA
64 AG-GGCAAACTTTGATTCTATCAAAAACGGTGGAAGA-AAAAGCTTTTCTTG-CAAAACAAAGCA
* ** *
4030 GCAACGTAATGTATCCTAATGAAG
126 TCAATATCATGTATCCTAATGAAG
4054 GGAACGTGTT
Statistics
Matches: 676, Mismatches: 184, Indels: 159
0.66 0.18 0.16
Matches are distributed among these distances:
154 6 0.01
155 14 0.02
156 82 0.12
157 118 0.17
158 364 0.54
159 65 0.10
160 25 0.04
161 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (154 bp):
TGTTTATGGTGCCTAATCCTGAAAAGAATGGAAATTAGTACGAAATTCATGCTTGTCCTATTAAG
GGCAAACTTTGATTCTATCAAAAACGGTGGAAGAAAAAGCTTTTCTTGCAAAACAAAGCATCAAT
ATCATGTATCCTAATGAAGAAAAG
Found at i:4366 original size:32 final size:32
Alignment explanation
Indices: 4325--4386 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
4315 AACCAAAGCT
*
4325 TCAATATCATGTTTCCTTATGAGAAGACTACA
1 TCAATATCATGTATCCTTATGAGAAGACTACA
4357 TCAATATCATGTATCCTTATGAGAAGACTA
1 TCAATATCATGTATCCTTATGAGAAGACTA
4387 TGTTTAGGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (32 bp):
TCAATATCATGTATCCTTATGAGAAGACTACA
Found at i:6094 original size:456 final size:459
Alignment explanation
Indices: 4962--6226 Score: 1200
Period size: 456 Copynumber: 2.7 Consensus size: 459
4952 AAAATCGGTG
* *
4962 CATCAATATCATTTATCCTAAAGAGGAGAATGTTTTTATAGTGCCTAATCATAGAATGAATGAAG
1 CATCAATATCATTTATCCTAAAGAGGAGAATGTTTTTATAGTGCCTAATCATAAAATGAAAGAAG
* *
5027 AT-ATTTACTAGAAGCCATGTTTGTCTAATTAGAGACACGAACTTAGACTTTACAAAAATTGGTG
66 ATCA-ATACTAGAAGCCATGTTTGTCTAATTTGAGACACGAACTTAGACTTTACAAAAATTGGTG
* * *
5091 AGAAAAAAGCCTTTCTTACTAAACCAAAGCACCATTATAGTGTATCCTAATAAGAAGACTATTTT
130 -GAAAAAAGCCTTTCTTGCAAAACCAAAGCACCAATATAGTGTATCCT-ATAA-AAGACTATTTT
** * * *
5156 ATGGTGCCTAGTCCAAAAAAGAACGGAGATTAGAATGAGTATTCATGTTTGTCTTATTTAAGAGA
192 ATGGTGCCTAGTCCTGAAAAGAATGGGGATTAG-ATGAGTA-T-ATGTATGTC-TA-TT------
* *
5221 CAAACATTGATTCTATTAGAAACAATAGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATG
246 -AAACATTGATTCTATAAAAAACAATAGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATG
** * ** *
5286 TTGTGTATCCTAATGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATGGAGACTGTTAT
310 TCATGTATCATAATGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATAAAGACTATTAT
* * * *
5351 GAGAATTGCTACTTGTCTTTTTAAGGGATAAACCTTGATTTAAAGGAAAATAGGGCAAATAAAAG
375 GAGAATCGATACTTGTCTTTTTAAGGGATAAACCTTGATTTAAAGGAAAATAAGGCAAAAAAAAG
*
5416 ATTTCCATGCAAAAGAAAAT
440 ATTTCCATGCAAAAAAAAAT
* * ** * * * * **
5436 CATTAGTATTTTTTATCATAATGAGGAGAGTGGTGTTTATAGTGCCTAATCACCAAATGAATA-A
1 CATCAATATCATTTATCCTAAAGAGGAGAAT-GTTTTTATAGTGCCTAATCATAAAATGAA-AGA
* * * * * ** * * *
5500 AGATCAATACTAGAATCCATGTTTGTTTCAGTTAAGGTAGGGACTTAGACATTACAAAAATTGGT
64 AGATCAATACTAGAAGCCATGTTTGTCTAATTTGAGACACGAACTTAGACTTTACAAAAATTGGT
* * ** * * * *
5565 GGGAAGAGAGCCTTTCCAGCAAAACCAAAGCATCAATATCGTGTATCCTTATGAAAAAACAATAT
129 -GGAAAAAAGCCTTTCTTGCAAAACCAAAGCACCAATATAGTGTATCC-TAT-AAAAGACTAT-T
* * * *
5630 TCATGGTGCCCAATCCTGAAAAGAATGGGGATTAG-T-A-TA-AT-TAT-TC-A-T-AACTTTGA
190 TTATGGTGCCTAGTCCTGAAAAGAATGGGGATTAGATGAGTATATGTATGTCTATTAAACATTGA
** * *
5686 TTCTATCAAAAAACGGT-GAAAAGAAAAGCTTTTCTTGCTACACCAAAGCGTCAATGTCATGTAT
255 TTCTAT-AAAAAACAATAG-AAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTAT
*
5750 CATAATGAAGGGAATGTG-TTTTGGTTCCCAATCTTGAAAGGAATAAAGACTATT-TCGAGAATC
318 CATAATGAAGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATAAAGACTATTAT-GAGAATC
* * * * *
5813 GATGCTTGTCTTTTTTAAGGGATGAACTTTGATTTTAAGGAAGATAAGGCAAAAAAAAAAAAAGA
382 GATACTTGTC-TTTTTAAGGGATAAACCTTGATTTAAAGGAAAATAAGGC-----AAAAAAAAGA
*
5878 TTTTCTCGTG-AAAAAAAAAT
441 -TTTC-CATGCAAAAAAAAAT
* * * *
5898 CATCAATATCATTTATCCTAAGGATGAGAATGTTTTTATAGTACCTAATCATAAAATGAAAGAAA
1 CATCAATATCATTTATCCTAAAGAGGAGAATGTTTTTATAGTGCCTAATCATAAAATGAAAGAAG
*
5963 ATCAATACTAGAA-CCATGTTTGTCTAATTTGAGACACAAACTTAGACTTTACAAAAATTGGTAG
66 ATCAATACTAGAAGCCATGTTTGTCTAATTTGAGACACGAACTTAGACTTTACAAAAATTGGT-G
* *
6027 GAAAAAAGCCTTTCTTGCAAAACCAAAGCACCACTATAGTGCATCC-A-AATAAGACTATTTTAT
130 GAAAAAAGCCTTTCTTGCAAAACCAAAGCACCAATATAGTGTATCCTATAA-AAGACTATTTTAT
* *
6090 GGTGCCTAGT-CTGAAAAAGAATGGGGATTAGAATGAGTATTCATGTTTATCTTATTTAAGAGAC
194 GGTGCCTAGTCCTG-AAAAGAATGGGGATTAG-ATGAGTA-T-ATGTATGTC-TA-TT-A-A-AC
* * * * * * **
6154 AAACTTTGATTCTATCAAAAACAATGGAAAGAAAATCTTTTCCTACAACACCAAAGCATCAAAAT
250 --A--TTGATTCTATAAAAAACAATAGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGT
6219 CATGTATC
311 CATGTATC
6227 CTTATCAGAA
Statistics
Matches: 631, Mismatches: 117, Indels: 84
0.76 0.14 0.10
Matches are distributed among these distances:
454 1 0.00
455 63 0.10
456 129 0.20
457 6 0.01
458 2 0.00
459 1 0.00
460 81 0.13
461 49 0.08
462 36 0.06
463 6 0.01
464 2 0.00
465 3 0.00
467 3 0.00
468 2 0.00
469 3 0.00
472 3 0.00
473 3 0.00
474 25 0.04
475 122 0.19
476 80 0.13
477 11 0.02
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.30
Consensus pattern (459 bp):
CATCAATATCATTTATCCTAAAGAGGAGAATGTTTTTATAGTGCCTAATCATAAAATGAAAGAAG
ATCAATACTAGAAGCCATGTTTGTCTAATTTGAGACACGAACTTAGACTTTACAAAAATTGGTGG
AAAAAAGCCTTTCTTGCAAAACCAAAGCACCAATATAGTGTATCCTATAAAAGACTATTTTATGG
TGCCTAGTCCTGAAAAGAATGGGGATTAGATGAGTATATGTATGTCTATTAAACATTGATTCTAT
AAAAAACAATAGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCATAATGA
AGGGAATGTGTTTTTGGTTCCCAATCTTGAAAAGAATAAAGACTATTATGAGAATCGATACTTGT
CTTTTTAAGGGATAAACCTTGATTTAAAGGAAAATAAGGCAAAAAAAAGATTTCCATGCAAAAAA
AAAT
Found at i:10281 original size:159 final size:159
Alignment explanation
Indices: 9171--15035 Score: 1223
Period size: 159 Copynumber: 37.1 Consensus size: 159
9161 TTAGGTTCCC
* * * * * *
9171 AATCCTAAAAATAATGGAGACTATTACAAGAATCGATGTTTGTCTTATTTGAGGGATAAACTTTG
1 AATCTTAAAAAGAATGGAGA-TATTACAAGAATCGATGCTTGTCTTATTTAAGAGATGAACTTTG
* * * * * * * *
9236 ATTCTAAGGAAAATAGG-GCAAAAAAAATATTTCCATGCAAAA-AAAATCATCGATATCATTTAT
65 ATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATGTAT
9299 CCTAATGAGGAGAATGTGTTTATAGTGCCT
130 CCTAATGAGGAGAATGTGTTTATAGTGCCT
* ** * * * * * * * * * * *
9329 AGTCACAAAATGAATGAAAATCATTACTAGAATCCATGTTTATCTCATTTGAG-GCACGAACTTA
1 AATCTTAAAAAGAATGGAGAT-ATTACAAGAATCGATGCTTGTCTTATTTAAGAG-ATGAACTTT
* * * * * *
9393 GACTTTAA-TAAAATTGGTGGGAAG-AAAGCA-TTTCTTGCAAAACCAAAGT-ATCAATATCATG
64 GATTTTAAGAAAAATAGGTGGAAAGAAAAG-ATTTTCATGCAAAA-CAAAATCATCAATATCATG
** * * * * *
9454 TATCCTTTTGAGAATACTATGTTTATGGTGCCT
127 TATCCTAATGAGGAGAATGTGTTTATAGTGCCT
*** * * ** * * * * * * * ***
9487 AATCCCGAAAAGAATGGA-ATAAGTATGACTATTC-ATGTTTTTCCTACTCAAGCGGCAAACTTT
1 AATCTTAAAAAGAATGGAGAT-ATTA-CAAGAATCGATGCTTGTCTTATTTAAGAGATGAACTTT
** ** * ** * * * *
9550 GATTCCATCAAAAA-ACGATGGAAA-AAAA-ACTTTTC-TGGTGACACCAAAGCATCAATGTCAT
64 GATTTTAAGAAAAATA-GGTGGAAAGAAAAGA-TTTTCAT-GCAAAACAAAATCATCAATATCAT
* * * * *
9611 GTATCCTAACGAAGG-GAATGCGTTTTTGGTTCCT
126 GTATCCTAATG-AGGAGAATGTGTTTATAGTGCCT
* ** * *
9645 AATCTTGAAAAAAAATGGAGAGTGCTACAAGAATTGATGCTTGTTTTATTTAAG-GAATGAACTT
1 AATCTT-AAAAAGAATGGAGA-TATTACAAGAATCGATGCTTGTCTTATTTAAGAG-ATGAACTT
* * *
9709 TGATTTTAAGGAAAATAAGGT-G-AAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCATT
63 TGATTTTAAGAAAAAT-AGGTGGAAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATG
*
9772 TATCCCAATGAGGAGAATGTGTTTATAGTGCCT
127 TATCCTAATGAGGAGAATGTGTTTATAGTGCCT
* * * * * * ** * ** *
9805 AATCATAGAATGAATGAAGATCATTACTATAATCCTTGTTTGT-TTCATTTAAGCCATGAACTTA
1 AATCTTAAAAAGAATGGAGAT-ATTACAAGAATCGATGCTTGTCTT-ATTTAAGAGATGAACTTT
* * * * * *
9869 GACTTTT-A-AAAAATTGGTGGAAAG-AAAGCTTCTCTTGCAAAACCAAAGT-ACCAATATCATG
64 GA-TTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAA-CAAAATCATCAATATCATG
* * * * * * *
9930 TATCGTTCA-GAGAAGACTATATTTATGGTGCCT
127 TATC-CTAATGAGGAGAATGTGTTTATAGTGCCT
*** * * * * * *
9963 AATCCCGAAAAGAATGGGGATTAGTATC-AGTATTC-TTGTTTGTCTTATTTAAGAGA-CAACTT
1 AATCTTAAAAAGAATGGAGA-TATTA-CAAG-AATCGATGCTTGTCTTATTTAAGAGATGAACTT
* ** * * * * * * ** * *
10025 TGATTCTATCAAAAA-CGGTGGAAATAAATGCTTTTCATGCGACACCGAAGCATCAATGTCATGT
63 TGATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATGT
* * * *
10089 ATCCTAATGAAGG-GAATATGTTTTTTGTTCCT
128 ATCCTAATG-AGGAGAATGTGTTTATAGTGCCT
** *
10121 AATCTTAAAAAGAATGGAGACTATTACGGGAATCGATACTTGTCTTATTTAA-AGGATGAACTTT
1 AATCTTAAAAAGAATGGAGA-TATTACAAGAATCGATGCTTGTCTTATTTAAGA-GATGAACTTT
* * * *
10185 GATTTTAAGAAAAATAGG-GCAAAGAAAAGATGTTCATGCAAAAGAAAATCATCAATATCATTTA
64 GATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATGTA
10249 TCCTAATGAGGAGAATGTGTTTATAGTGCCT
129 TCCTAATGAGGAGAATGTGTTTATAGTGCCT
* * ** * * * * * * * * * * *
10280 AACCATAAAATTAAAGAAGATTGTTACTAGAATCCATGTTTGTCTCATTT-GGGGCACGAACTTA
1 AATCTTAAAAAGAATGGAGA-TATTACAAGAATCGATGCTTGTCTTATTTAAGAG-ATGAACTTT
** * * * * * ** * * * **
10344 GACGTT-ACAAAAATTGGTGGGAA-AAAAGACTTTCTTGTGAAACTAAAGCACCAATATTGTGTA
64 GATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATGTA
* * * * * * **
10407 TCCTACTAAGAAGACA-ATATTTATGGTTTCT
129 TCCTAATGAGGAGA-ATGTGTTTATAGTGCCT
*** * * * ** * * *
10438 AATCCCGAAAAGAATGGGGATTAGTATGACTATTC-ATG-TT-TCCCTATTTAAGAGGT-AAGCT
1 AATCTTAAAAAGAATGGAGA-TATTA-CAAGAATCGATGCTTGT-CTTATTTAAGAGATGAA-CT
* * * * ** * * * *
10499 TTG-TTTCTATA-AAAAA-CGGTGGAAAAAAAAAGCTTTTCTTGGGACACCAAAGCATCAATGTC
62 TTGATTT-TA-AGAAAAATAGGTGG-AAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATC
* * * *
10561 ATGTATCCTAATGAAGG-GATTATGTTT-TAGGTTCCC
124 ATGTATCCTAATG-AGGAGAATGTGTTTATA-GTGCCT
* * * ** * *
10597 AATGC-TGAAAATAATGGCA-ATCGTTATGAGAATC-ATTGCTTGTCTTCTTTAAGGGATGAACT
1 AAT-CTTAAAAAGAATGG-AGAT-ATTACAAGAATCGA-TGCTTGTCTTATTTAAGAGATGAACT
* * * * * *
10659 TTGATTTTAAGGAAAATAGG-GCAAAGAAAATATTTTCATGCAAAAGAAAATCATCAGTATCATT
62 TTGATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATG
*
10723 TATCCTAATGAGGAGAATGTGTTTATAGTGACT
127 TATCCTAATGAGGAGAATGTGTTTATAGTGCCT
* * * * * * * * * * * *
10756 AATC-AAAAAATTAATGAAGATCATTACTAGAATCCAAGTTTGCCTTATTTAAGACACGGACTTA
1 AATCTTAAAAA-GAATGGAGAT-ATTACAAGAATCGATGCTTGTCTTATTTAAGAGATGAACTTT
* ** * * ** * * * ** *
10820 GACTTT-ACTAAAATTGGTGGGAAG-AAAGCCTTTCTTGCAAAAGC-AAAGCATCGATATTGTGC
64 GATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAA-CAAAATCATCAATATCATGT
** * *** * *
10882 ATCCTTTTGAGAATTCTATGTTTATGGTGCCT
128 ATCCTAATGAGGAGAATGTGTTTATAGTGCCT
* * * * * * ***
10914 AATCCTGAAAAGAATGGA-A-ATTAGTATGACTATTC-ATGTTTGTCCTATTTAAGAGGCAAACT
1 AATCTTAAAAAGAATGGAGATATTA-CAAGA--A-TCGATGCTTGTCTTATTTAAGAGATGAACT
* ** * * * * * * *
10976 TTGATTCTATCAAAAA-CGGTGG-AAGAAAAAGCTTTTCTTGCGACATC-AAAGCATCAATATCC
62 TTGATTTTAAGAAAAATAGGTGGAAAG-AAAAGATTTTCATGC-AAAACAAAATCATCAATATCA
* * * *
11038 TGTATCCTAAGGAAGGA-AAAGTGTTT-TAGGTTCCC
125 TGTATCCTAATG-AGGAGAATGTGTTTATA-GTGCCT
* * * * * * * * * *
11073 AATCCTGAAAATAATGGAGACTATTACGAGAATTGTTGCTTGTCTTCTTTAAGGGACGAACTTTA
1 AATCTTAAAAAGAATGGAGA-TATTACAAGAATCGATGCTTGTCTTATTTAAGAGATGAACTTTG
* * ** * * *
11138 ATTTTAAGGAAAATAGG-GCAAAGAAATTATTTCCATGTAAAA-AAAATCATCAATATCATTTAT
65 ATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATGTAT
* *
11201 CCTAATGAAGAGAATGTGTTTATAGTGACT
130 CCTAATGAGGAGAATGTGTTTATAGTGCCT
** * * * * * * **
11231 AATCACAAAATGAATGAAGATCATTACTAA-AATCCATGTTTGTCTCATTTGAG-GCGCGAACTT
1 AATCTTAAAAAGAATGGAGAT-ATTAC-AAGAATCGATGCTTGTCTTATTTAAGAG-ATGAACTT
* * * * * * * * *
11294 AGACTTTT-TG-AAAATTGATGGGAAG-AAAGTTTTTCTTCCAAAAGC-AAAGCATCAATATCAT
63 TGA-TTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAA-CAAAATCATCAATATCAT
** * * * *
11355 GTATCCTTTTGA-GAAAACTATGTTTATGGCGCCT
126 GTATCCTAATGAGGAGAA-TGTGTTTATAGTGCCT
* * * * * * ***
11389 AATC-AAGAAAAGAATGGAAATTAGTACGATGATTC-ATGCTTGTCCTATTTAAGAGGCAAACTT
1 AATCTTA-AAAAGAATGGAGA-TATTAC-AAGAATCGATGCTTGTCTTATTTAAGAGATGAACTT
* * * * * * ** * * * *
11452 TGATTCTATCG-AAAA-CGGTGGAAA-AAAAGCTTTTCTTGCGACGCCAAAGCATCAATGTCTTG
63 TGATTTTA-AGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATG
* * **
11514 TATCCTAAAGAAGG-GAAAGTGTTT-TAGGTTTCT
127 TATCCTAATG-AGGAGAATGTGTTTATA-GTGCCT
* ** * ** *
11547 AATCCTGGAAATAATGGAGACTATTACGGGAATCGATGCTTGTCTTATTTATAG-GATAAACTTT
1 AATCTTAAAAAGAATGGAGA-TATTACAAGAATCGATGCTTGTCTTATTTA-AGAGATGAACTTT
* * * * * *
11611 GATTCTAAGGAAAATAGG-GCAAAGAAAATATTTTCATGCAAAAGAAAATCATCAATATCATTTA
64 GATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATGTA
* * *
11675 TCCTAATGAGGAGACTATGTTTATAGTGACT
129 TCCTAATGAGGAGAATGTGTTTATAGTGCCT
* * * * * * * ** * *
11706 AATCATAAAATGAATGAAGATCATTACTAGAATCCATGTTTGTCTCATTCGAG-GCACGAACTTA
1 AATCTTAAAAAGAATGGAGAT-ATTACAAGAATCGATGCTTGTCTTATTTAAGAG-ATGAACTTT
* ** * ** ** * * * **
11770 GACTTT-ACTAAAATTGGTCAAGAAG-AAAGCCTTTCTTGCAAAAGC-AAAGCAACAATATTGTG
64 GATTTTAAGAAAAATAGGTGGA-AAGAAAAGATTTTCATGCAAAA-CAAAATCATCAATATCATG
** * * * * * *
11832 TATCCTTTTGAGAATAGTATGTATATGGTGCCT
127 TATCCTAATGAGGAGAATGTGTTTATAGTGCCT
* ** * * * * * ***
11865 ACTCTCGAAAAGATTGGA-A-ATTATATGACTATTC-ATGTTTGTCTTATTTTAGAGGCAAACTT
1 AATCTTAAAAAGAATGGAGATATTACAAGA--A-TCGATGCTTGTCTTATTTAAGAGATGAACTT
* * ** * * * * * * * * *
11927 TCATTCTATCAAAAAT-GGTGGAATA-AAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCTTT
63 TGATTTTAAGAAAAATAGGTGGAA-AGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATG
* * * * *
11990 TATCCTAAGGAAGG-GAATGCGTTTTTGGTTCCT
127 TATCCTAATG-AGGAGAATGTGTTTATAGTGCCT
* ** * * * * *
12023 AATCTCTCAAAA-AATGGAGACTGCTATAGGAATCGAGGCATGCCTTATTTAA-AGGATGAACTT
1 AATCT-TAAAAAGAATGGAGA-TATTACAAGAATCGATGCTTGTCTTATTTAAGA-GATGAACTT
* * * * * *
12086 CGATTTTAAGGAAAATAGG-GCAAA-AAAAGATTTTCATACAAAAGAAAATCATCAATATCATTT
63 TGATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATGT
*
12149 ATCCTAATGAGGAGAATGTGTTTATAGAGCCT
128 ATCCTAATGAGGAGAATGTGTTTATAGTGCCT
* ** * * ** * * * *
12181 ACTCACCAAAAA-AGTGAAGATCATTATTAGAATCCATGTTTGTCTCATTTGAG-GCATGAACTT
1 AATC-TTAAAAAGAATGGAGAT-ATTACAAGAATCGATGCTTGTCTTATTTAAGAG-ATGAACTT
* ** * * * ** * * * * * *
12244 AGCGTTT-ACAAAAATTGGTGGGAAG-AAAGCCTTTCTTGTGAAAGC-AAAGCACCAATGTCATG
63 TGATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATG-CAAAACAAAATCATCAATATCATG
* * * *
12306 TATCCTAATGAGAAGACTATGTTTATAGTGCCC
127 TATCCTAATGAGGAGAATGTGTTTATAGTGCCT
* * * **** * * * *
12339 AATCCTGAAAAGAATAGG-GATTAGTGTGTGTAAT-AATGTTTGTCTAATTTAGGAGA-GAAACT
1 AATCTTAAAAAGAAT-GGAGA-TATTACAAG-AATCGATGCTTGTCTTATTTAAGAGATG-AACT
* ** * * * * * *
12401 TTGATTCTATCAAAAAT-GGTGGAAAGAAATGCTTTTCTTGCAACATC-AAAGCATCAA-AGTCT
62 TTGATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAA-AACAAAATCATCAATA-TCA
* * *
12463 TGTATCCTAATGAAGG-GAATGTGTTTTTGGTTCCT
125 TGTATCCTAATG-AGGAGAATGTGTTTATAGTGCCT
* * ** * ** *
12498 AATCTTGAAAAGAATGGAGACTGTTATGAGAATCGATGCTTGCCTTATTTAAGAGAAAAAATTTG
1 AATCTTAAAAAGAATGGAGA-TATTACAAGAATCGATGCTTGTCTTATTTAAGAGATGAACTTTG
* * * * * * *
12563 ATTTTAAGGAAAATAAG-GCAAAGAAAAGATTTCCATGCGAAATAAAATCATCAATATCATTTAT
65 ATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATGTAT
*
12627 CCTAATGAGGAGAATTTGTTTATAGTGCCT
130 CCTAATGAGGAGAATGTGTTTATAGTGCCT
* * * * * * * * * * * * *
12657 AACCATAAAATGAAAGAAGATCATTACTAGAATTC-ATGTTTATCTCATTT-GGGGAACGAACAT
1 AATCTTAAAAAGAATGGAGAT-ATTACAAGAA-TCGATGCTTGTCTTATTTAAGAG-ATGAACTT
* * * * * * *
12720 AGACTTTT--CAAATATTGGTGGGAAG-AAAGCCTTTT--TGGCAAAA-ACAAAGCATCAATATC
63 TGA-TTTTAAGAAAAATAGGTGGAAAGAAAAG-ATTTTCAT-GCAAAACA-AAATCATCAATATC
* * ** *
12779 ATGTAT--T-ATGAGAAGACTAAGTTTATGGTGCCT
124 ATGTATCCTAATGAGGAGAATGTGTTTATAGTGCCT
* * * ** ** * * * * *
12812 AATCCTGAAAAGAATCGAGATTAGAATTAGTATTGACGTTTGTCTTATTTAAAAGCA--AACTTT
1 AATCTTAAAAAGAATGGAGA-TATTACAAGAATCGATGCTTGTCTTATTTAAGAG-ATGAACTTT
* * * * * * * *
12875 GATTCTATA-AAAAA-CGGTGGAAAGAAAAGCTTTTCTTACGACAAC-AAAGCATCAATGTCATG
64 GATTTTA-AGAAAAATAGGTGGAAAGAAAAGATTTTCATGC-AAAACAAAATCATCAATATCATG
*
12937 TATCCTAATGAAGG-GAATGTGTTT-TAG-GCTCCC
127 TATCCTAATG-AGGAGAATGTGTTTATAGTG--CCT
* * ** * * *
12970 AATCCTAAAAATAATGGAGATTATTATGAGAATCAATGCTTATCGTATTTAA-AGGATGAACTTT
1 AATCTTAAAAAGAATGGAGA-TATTACAAGAATCGATGCTTGTCTTATTTAAGA-GATGAACTTT
* * *
13034 G-TTGTTAAGAAAAATAGG-GTAAAGAAAAGATTTTCAAGC-AAACAAAAATCATCAATATCATT
64 GATT-TTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAAC-AAAATCATCAATATCATG
* *
13096 TATCCTAATGAGGAGAATGCGTTTATAGTGTCT
127 TATCCTAATGAGGAGAATGTGTTTATAGTGCCT
** * * * * * * * * * * * * *
13129 AATCACAAAATGAAAGAAGACAATAACTAGAATCCAAGTTTGGCTCT-TTTACGACATGAACTTA
1 AATCTTAAAAAGAATGGAGA-TATTACAAGAATCGATGCTTGTCT-TATTTAAGAGATGAACTTT
* * * * * * ** * * * * **
13193 GACTTT-ACAAAGATTGGTGG-AA-AAAAGCCTTTT-TTGTGAAACTAAAGCACCAATGTTGTGT
64 GATTTTAAGAAAAATAGGTGGAAAGAAAAG-ATTTTCATGCAAAACAAAATCATCAATATCATGT
* * * * * *
13254 ATCCAAATGAGAAGACA-ATGTTTATGGCGTCT
128 ATCCTAATGAGGAGA-ATGTGTTTATAGTGCCT
*** * * * * ** *
13286 AATCCCGAAAAGAATGGGGATTACTCTGAC--TATTC-ATGTTTCCCCTATTTAAGAG--GCAAG
1 AATCTTAAAAAGAATGGAGA-TA-T-T-ACAAGAATCGATGCTTGTCTTATTTAAGAGATG-AA-
* * *** * * ** ** * * *
13346 CTTCGATTCTATCCAAAAT-GGTGGAAAGAAAAGCTTTTCTTGTGACTC-CAATGCATTAATGTC
60 CTTTGATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAACAAAAT-CATCAATATC
** *
13409 ATCCATCCTAATGAAGG-GAATGTGTTT-TAG-GCATCC
124 ATGTATCCTAATG-AGGAGAATGTGTTTATAGTGC--CT
* * *** * * **
13445 AATC-TAGAAAATAATGGAGAATGTTATGCGAATCGATGCTTGTCTTATTTTAGGGATGGGCTTT
1 AATCTTA-AAAAGAATGGAG-ATATTACAAGAATCGATGCTTGTCTTATTTAAGAGATGAACTTT
* ** * * * * *
13509 GATTTTAAGGAAAATAGG-ACAAAGAAAACATTTTCTTGCAAAAGAAAATCATCAGTATCATTTA
64 GATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATGTA
* * * **
13573 TCCTAATAAGGAGAATGTGTTTACAATTTCT
129 TCCTAATGAGGAGAATGTGTTTATAGTGCCT
* * * * * * * *
13604 AAT-TATAAAATGAAAGAAGATCACTT-CTAGAATCTATGTTTGTCTCATTTTAG-GCATGAACT
1 AATCT-TAAAAAGAATGGAGAT-A-TTACAAGAATCGATGCTTGTCTTATTTAAGAG-ATGAACT
* * * * * * * *
13666 TAGAATTTT-TG-AAAATTGGTGGGAA-TAAAGCCTTTTTCA--CAAAA-ACAGAGCATCAATAT
62 TTG-ATTTTAAGAAAAATAGGTGGAAAGAAAAG--ATTTTCATGCAAAACA-AAATCATCAATAT
** * * * * ** * *
13725 TGTGTATCCTTATGTGAAGACTAAGTTTATGGTGCTT
123 CATGTATCCTAATGAGGAGAATGTGTTTATAGTGCCT
** * * ** * * * **
13762 AATCCCAAAAAGAATCGAGATTAGTATGAGTATTC-ACG-TTCGTCTTATTTAAGATACCAACTT
1 AATCTTAAAAAGAATGGAGA-TATTACAAG-AATCGATGCTT-GTCTTATTTAAGAGATGAACTT
* * * * * *
13825 TGA-TTTATA-AAAAAT-GGTGGAAAGAAAAG-CTTGC--G-AGAAC-AAAGCTTCAATGTCATG
63 TGATTTTA-AGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATG
* *
13882 TACCCTAATGAAGAGAATGTGTTT-TAG-GCTCT
127 TATCCTAATGAGGAGAATGTGTTTATAGTGC-CT
* * * * * * **
13914 CAATCCTAAAAATAATGGAGACTGTTACGAGAATCAATGCTTATGATATTTAA-AGGATGAACTT
1 -AATCTTAAAAAGAATGGAGA-TATTACAAGAATCGATGCTTGTCTTATTTAAGA-GATGAACTT
* * * *
13978 TG-TTGTTAAGGAAAATAGGT-CAAAGAAAAGATTTTCAAGC-AAACGTAAATCATCAATATCAT
63 TGATT-TTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAAC-AAAATCATCAATATCAT
*
14040 TTATCCTAATGAGGAGAATGTGTTTATAGTGCCT
126 GTATCCTAATGAGGAGAATGTGTTTATAGTGCCT
* * * * * * * * * * * *
14074 AATCATAAAATGAAAGAAGATCATTACTAGAATCCATGTTTGTCTCATTT-GGCGCACGAACTTA
1 AATCTTAAAAAGAATGGAGAT-ATTACAAGAATCGATGCTTGTCTTATTTAAGAG-ATGAACTTT
* ** * * * * * * **
14138 GACTTT-ACTAAAATTGGTGGGAAG-AAAGTTTTTCTTGCAAAACCAAAGCATCAATATTGTGTA
64 GATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATGTA
** * * * * **
14201 TCCTTTTGAGAATACTATGTTTACGGTGCCT
129 TCCTAATGAGGAGAATGTGTTTATAGTGCCT
** * * ** ** ** * *
14232 AATCCCGAAAAA-AATGGGGATTAGTATGACTATTTAGGTTTGTCTTATTTAAGA-A-GCAAACT
1 AAT-CTTAAAAAGAATGGAGA-TATTACAAGAATCGATGCTTGTCTTATTTAAGAGATG--AACT
** ** ** * * * * * * *
14294 TTGATTCCATCAAAAAT-GGCAGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATG
62 TTGATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATG
* * *
14358 TATCCTAATGAAGG-GAATGTGTTTTTGGCT-CCA
127 TATCCTAATG-AGGAGAATGTGTTTATAG-TGCCT
* *
14391 AATCTCAAAAAGAATGGAGACTATTACAAGAATTGATGCTTGTCTTATTTAA-ACGATGAACTTT
1 AATCTTAAAAAGAATGGAGA-TATTACAAGAATCGATGCTTGTCTTATTTAAGA-GATGAACTTT
* * * * *
14455 AATTTAAAGAAAAATAGG-GCAAAGAAAAGATTTTCATAG-AAAAGAAAATCATCAATATCGT-T
64 GATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCAT-GCAAAACAAAATCATCAATATCATGT
14517 GATCCTAATGAGGAGAATGTGTTTATAGTGCCT
128 -ATCCTAATGAGGAGAATGTGTTTATAGTGCCT
** * * * * * * * * *
14550 AATCACAAAATGAATGAAGATCATTACTAGAACCCATGTTTGTCTCATTTAAGA-CTCGAACTTA
1 AATCTTAAAAAGAATGGAGAT-ATTACAAGAATCGATGCTTGTCTTATTTAAGAGAT-GAACTTT
* ** * * * ** * * * * * * * **
14614 GACTTT-ATTAAAATTGGTGGGAAG-AATGCCTTGCTTGCGAATCCAAAGCATCAACATTGTGTA
64 GATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATGTA
** * * * * *
14677 TCCTTTTGAGAATACTATGTTTAT-GACGCCT
129 TCCTAATGAGGAGAATGTGTTTATAG-TGCCT
** * * * * ***
14708 AATCCCAAAAAGAATGGA-A-ATTAGTATGACTATTC-ATGTTTGTCCTATTTAAGAGGCAAACT
1 AATCTTAAAAAGAATGGAGATATTA-CAAGA--A-TCGATGCTTGTCTTATTTAAGAGATGAACT
* ** * * * * ** * * * *
14770 TTGATTCTATCAAAAA-CGGT-GAAAAATAAAGCTTTTCTTGGGACACCAAAGCATCAATGTCAT
62 TTGATTTTAAGAAAAATAGGTGGAAAGA-AAAGATTTTCATGCAAAACAAAATCATCAATATCAT
* * * * *
14833 GCATCCTAATGAAGG-GAATGCGTTTTTGGTTCCT
126 GTATCCTAATG-AGGAGAATGTGTTTATAGTGCCT
* * ** * * * * *
14867 AATTCTGAAAAA-AATAGAGACTGCTATAAAAATCGATGTTTGTCTTATTTAGGGGATGAACTTT
1 AA-TCTTAAAAAGAATGGAGA-TATTACAAGAATCGATGCTTGTCTTATTTAAGAGATGAACTTT
* * * * *
14931 GATTTTAAGGAAAATAAG-GCAAAGAAAAGATTGTCATGCAAAAAAAAATCATCAATATCAT-TA
64 GATTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATGT-
** *
14994 ATCCTAAAAAGGAGAATGTGTTTATGGTGCCT
128 ATCCTAATGAGGAGAATGTGTTTATAGTGCCT
15026 AATCTTAAAA
1 AATCTTAAAA
15036 TGAAAGAAGA
Statistics
Matches: 4017, Mismatches: 1353, Indels: 674
0.66 0.22 0.11
Matches are distributed among these distances:
151 2 0.00
152 7 0.00
153 74 0.02
154 42 0.01
155 98 0.02
156 35 0.01
157 275 0.07
158 1573 0.39
159 1662 0.41
160 213 0.05
161 29 0.01
162 7 0.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (159 bp):
AATCTTAAAAAGAATGGAGATATTACAAGAATCGATGCTTGTCTTATTTAAGAGATGAACTTTGA
TTTTAAGAAAAATAGGTGGAAAGAAAAGATTTTCATGCAAAACAAAATCATCAATATCATGTATC
CTAATGAGGAGAATGTGTTTATAGTGCCT
Found at i:10363 original size:475 final size:476
Alignment explanation
Indices: 8957--15059 Score: 6997
Period size: 476 Copynumber: 12.9 Consensus size: 476
8947 TTGTCATCAG
* ** * * *
8957 AAACCAAAGCACCAATATCATGCATCCTTTTGAGATGACTATGTTTATGGTGCCTAAACCCGAAA
1 AAACCAAAGCATCAATATTGTGTATCCTTTTGAGAAGACTATGTTTATGGTGCCTAATCCCGAAA
* * * * *
9022 AGAACGAGAATTAGTATGACTATTCATGTTTGTCCTACTTAAGAGGTAAACTTTGATTCTATCAA
66 AGAATGGGGATTAGTATGACTATTCATGTTTGTCCTATTTAAGAGGCAAACTTTGATTCTATCAA
* * * ** * * * *
9087 AAATGGTGAAAAAAAAAGCTTTTCTTGCGATGCCAAACCATCAATGTCTTGTATCCAAAGGAAGG
131 AAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAGG
* * * * * *
9152 GAAAGTGTTTTAGGTTCCCAATCCTAAAAATAATGGAGACTATTACAAGAATCGATGTTTGTCTT
196 GAATGTGTTTTAGGTTCCTAATCTTAAAAATAATGGAGACTGTTACGAGAATCGATGCTTGTCTT
* * * * * * *
9217 ATTTGAGGGATAAACTTTGATTCTAAGGAAAATAGGGCAAAAAAAATATTTCCATGCAAAA-AAA
261 ATTTAAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAAA
* * *
9281 ATCATCGATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAGTCACAAAATGAATGA
326 ATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCATAAAATGAATGA
* *
9346 AAATCATTACTAGAATCCATGTTTATCTCATTTGAGGCACGAACTTAGACTTTA-ATAAAATTGG
391 AGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACA-AAAATTGG
*
9410 TGGGAAGAAAGCATTTCTTGCA
455 TGGGAAGAAAGCCTTTCTTGCA
* ** *
9432 AAACCAAAGTATCAATATCATGTATCCTTTTGAGAATACTATGTTTATGGTGCCTAATCCCGAAA
1 AAACCAAAGCATCAATATTGTGTATCCTTTTGAGAAGACTATGTTTATGGTGCCTAATCCCGAAA
* * * * * * *
9497 AGAAT-GGAATAAGTATGACTATTCATGTTTTTCCTACTCAAGCGGCAAACTTTGATTCCATCAA
66 AGAATGGGGATTAGTATGACTATTCATGTTTGTCCTATTTAAGAGGCAAACTTTGATTCTATC-A
* * * * *
9561 AAAACGATGGAAA-AAAAACTTTTCTGGTGACACCAAAGCATCAATGTCATGTATCCTAACGAAG
130 AAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAG
* * * * * * * *
9625 GGAATGCGTTTTTGGTTCCTAATCTTGAAAAAAAATGGAGAGTGCTACAAGAATTGATGCTTGTT
195 GGAATGTGTTTTAGGTTCCTAATCTT-AAAAATAATGGAGACTGTTACGAGAATCGATGCTTGTC
* **
9690 TTATTT-AAGGAATGAACTTTGATTTTAAGGAAAATAAGGTGAAGAAAAGATTTTCATGCAAAAG
259 TTATTTAAAGG-ATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAG
* *
9754 AAAATCATCAATATCATTTATCCCAATGAGGAGAATGTGTTTATAGTGCCTAATCATAGAATGAA
323 AAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCATAAAATGAA
* * * * * *
9819 TGAAGATCATTACTATAATCCTTGTTTGTTTCATTTAAGCCATGAACTTAGACTTTTA-AAAAAT
388 TGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGAC-TTTACAAAAAT
*
9883 TGGTGGAAAGAAAG-CTTCTCTTGCA
452 TGGTGGGAAGAAAGCCTT-TCTTGCA
* * ** * ** *
9908 AAACCAAAGTACCAATATCATGTATCGTTCAGAGAAGACTATATTTATGGTGCCTAATCCCGAAA
1 AAACCAAAGCATCAATATTGTGTATCCTTTTGAGAAGACTATGTTTATGGTGCCTAATCCCGAAA
* * * * *
9973 AGAATGGGGATTAGTATCAGTATTCTTGTTTGTCTTATTTAAGAGAC-AACTTTGATTCTATCAA
66 AGAATGGGGATTAGTATGACTATTCATGTTTGTCCTATTTAAGAGGCAAACTTTGATTCTATCAA
* * * *
10037 AAACGGTGGAAATAAATGCTTTTCATGCGACACCGAAGCATCAATGTCATGTATCCTAATGAAGG
131 AAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAGG
* ** * * * *
10102 GAATATGTTTTTTGTTCCTAATCTTAAAAAGAATGGAGACTATTACGGGAATCGATACTTGTCTT
196 GAATGTGTTTTAGGTTCCTAATCTTAAAAATAATGGAGACTGTTACGAGAATCGATGCTTGTCTT
* *
10167 ATTTAAAGGATGAACTTTGATTTTAAGAAAAATAGGGCAAAGAAAAGATGTTCATGCAAAAGAAA
261 ATTTAAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAAA
* * *
10232 ATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAACCATAAAATTAAAGA
326 ATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCATAAAATGAATGA
** * *
10297 AGATTGTTACTAGAATCCATGTTTGTCTCATTTGGGGCACGAACTTAGACGTTACAAAAATTGGT
391 AGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGT
* * **
10362 GGGAAAAAAGACTTTCTTGTG
456 GGGAAGAAAGCCTTTCTTGCA
* * ** * * * **
10383 AAACTAAAGCACCAATATTGTGTATCCTACTAAGAAGACAATATTTATGGTTTCTAATCCCGAAA
1 AAACCAAAGCATCAATATTGTGTATCCTTTTGAGAAGACTATGTTTATGGTGCCTAATCCCGAAA
* * * * *
10448 AGAATGGGGATTAGTATGACTATTCATGTTT-CCCTATTTAAGAGGTAAGCTTTGTTTCTATAAA
66 AGAATGGGGATTAGTATGACTATTCATGTTTGTCCTATTTAAGAGGCAAACTTTGATTCTATCAA
* *
10512 AAACGGTGGAAAAAAAAAGCTTTTCTTGGGACACCAAAGCATCAATGTCATGTATCCTAATGAAG
131 AAACGGTGG-AAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAG
* * * * *
10577 GGATTATGTTTTAGGTTCCCAATGC-TGAAAATAATGGCA-A-TCGTTATGAGAATC-ATTGCTT
195 GGAATGTGTTTTAGGTTCCTAAT-CTTAAAAATAATGG-AGACT-GTTACGAGAATCGA-TGCTT
* * *
10638 GTCTTCTTTAAGGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAATATTTTCATGCAAA
256 GTCTTATTTAAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAA
* * * *
10703 AGAAAATCATCAGTATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGACTAATCAAAAAATT
321 AGAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCATAAAATG
* * * * * * *
10768 AATGAAGATCATTACTAGAATCCAAGTTTGCCTTATTTAAGACACGGACTTAGACTTTACTAAAA
386 AATGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAA
10833 TTGGTGGGAAGAAAGCCTTTCTTGCA
451 TTGGTGGGAAGAAAGCCTTTCTTGCA
* * * ** *
10859 AAAGCAAAGCATCGATATTGTGCATCCTTTTGAGAATTCTATGTTTATGGTGCCTAATCCTGAAA
1 AAACCAAAGCATCAATATTGTGTATCCTTTTGAGAAGACTATGTTTATGGTGCCTAATCCCGAAA
**
10924 AGAATGGAAATTAGTATGACTATTCATGTTTGTCCTATTTAAGAGGCAAACTTTGATTCTATCAA
66 AGAATGGGGATTAGTATGACTATTCATGTTTGTCCTATTTAAGAGGCAAACTTTGATTCTATCAA
* * * *
10989 AAACGGTGG-AAGAAAAAGCTTTTCTTGCGACATCAAAGCATCAATATCCTGTATCCTAAGGAAG
131 AAACGGTGGAAAG-AAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAG
* * * * * * * *
11053 GAAAAGTGTTTTAGGTTCCCAATCCTGAAAATAATGGAGACTATTACGAGAATTGTTGCTTGTCT
195 GGAATGTGTTTTAGGTTCCTAATCTTAAAAATAATGGAGACTGTTACGAGAATCGATGCTTGTCT
* * * * ** * *
11118 TCTTTAAGGGACGAACTTTAATTTTAAGGAAAATAGGGCAAAGAAATTATTTCCATGTAAAA-AA
260 TATTTAAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAA
* * *
11182 AATCATCAATATCATTTATCCTAATGAAGAGAATGTGTTTATAGTGACTAATCACAAAATGAATG
325 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCATAAAATGAATG
* * *** *
11247 AAGATCATTACTAAAATCCATGTTTGTCTCATTTGAGGCGCGAACTTAGACTTTTTGAAAATTGA
390 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG
** *
11312 TGGGAAGAAAGTTTTTCTTCCA
455 TGGGAAGAAAGCCTTTCTTGCA
* ** * * **
11334 AAAGCAAAGCATCAATATCATGTATCCTTTTGAGAAAACTATGTTTATGGCGCCTAATCAAGAAA
1 AAACCAAAGCATCAATATTGTGTATCCTTTTGAGAAGACTATGTTTATGGTGCCTAATCCCGAAA
** * * *
11399 AGAATGGAAATTAGTACGA-TGATTCATGCTTGTCCTATTTAAGAGGCAAACTTTGATTCTATCG
66 AGAATGGGGATTAGTATGACT-ATTCATGTTTGTCCTATTTAAGAGGCAAACTTTGATTCTATCA
* * *
11463 AAAACGGTGGAAA-AAAAGCTTTTCTTGCGACGCCAAAGCATCAATGTCTTGTATCCTAAAGAAG
130 AAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAG
* * * ** * *
11527 GGAAAGTGTTTTAGGTTTCTAATCCTGGAAATAATGGAGACTATTACGGGAATCGATGCTTGTCT
195 GGAATGTGTTTTAGGTTCCTAATCTTAAAAATAATGGAGACTGTTACGAGAATCGATGCTTGTCT
* * * *
11592 TATTTATAGGATAAACTTTGATTCTAAGGAAAATAGGGCAAAGAAAATATTTTCATGCAAAAGAA
260 TATTTAAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAA
* * *
11657 AATCATCAATATCATTTATCCTAATGAGGAGACTATGTTTATAGTGACTAATCATAAAATGAATG
325 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCATAAAATGAATG
* *
11722 AAGATCATTACTAGAATCCATGTTTGTCTCATTCGAGGCACGAACTTAGACTTTACTAAAATTGG
390 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG
**
11787 TCAAGAAGAAAGCCTTTCTTGCA
455 T-GGGAAGAAAGCCTTTCTTGCA
* * * * * * *
11810 AAAGCAAAGCAACAATATTGTGTATCCTTTTGAGAATAGTATGTATATGGTGCCTACTCTCGAAA
1 AAACCAAAGCATCAATATTGTGTATCCTTTTGAGAAGACTATGTTTATGGTGCCTAATCCCGAAA
* ** * * *
11875 AGATTGGAAATTA-TATGACTATTCATGTTTGTCTTATTTTAGAGGCAAACTTTCATTCTATCAA
66 AGAATGGGGATTAGTATGACTATTCATGTTTGTCCTATTTAAGAGGCAAACTTTGATTCTATCAA
* * * *
11939 AAATGGTGGAATA-AAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCTTTTATCCTAAGGAAG
131 AAACGGTGGAA-AGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAG
* * * * *
12003 GGAATGCGTTTTTGGTTCCTAATCTCTCAAAA-AATGGAGACTGCTATA-G-GAATCGAGGCATG
195 GGAATGTGTTTTAGGTTCCTAATCT-TAAAAATAATGGAGACTG-T-TACGAGAATCGATGCTTG
* * *
12065 CCTTATTTAAAGGATGAACTTCGATTTTAAGGAAAATAGGGCAAA-AAAAGATTTTCATACAAAA
257 TCTTATTTAAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAA
* * *
12129 GAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGAGCCTACTCACCAAAA--
322 GAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCA-TAAAATG
* *
12192 AAGTGAAGATCATTATTAGAATCCATGTTTGTCTCATTTGAGGCATGAACTTAG-CGTTTACAAA
386 AA-TGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGAC-TTTACAAA
**
12256 AATTGGTGGGAAGAAAGCCTTTCTTGTG
449 AATTGGTGGGAAGAAAGCCTTTCTTGCA
* * * ** ** * * *
12284 AAAGCAAAGCACCAATGTCATGTATCCTAATGAGAAGACTATGTTTATAGTGCCCAATCCTGAAA
1 AAACCAAAGCATCAATATTGTGTATCCTTTTGAGAAGACTATGTTTATGGTGCCTAATCCCGAAA
* * ** * * *
12349 AGAATAGGGATTAGTGTGTGTAATAATGTTTGT-CTAATTTAGGAGAG-AAACTTTGATTCTATC
66 AGAATGGGGATTAGTATGACTATTCATGTTTGTCCT-ATTTAAGAG-GCAAACTTTGATTCTATC
* * * * * *
12412 AAAAATGGTGGAAAGAAATGCTTTTCTTGCAACATCAAAGCATCAAAGTCTTGTATCCTAATGAA
129 AAAAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAA
* * * * *
12477 GGGAATGTGTTTTTGGTTCCTAATCTTGAAAAGAATGGAGACTGTTATGAGAATCGATGCTTGCC
194 GGGAATGTGTTTTAGGTTCCTAATCTTAAAAATAATGGAGACTGTTACGAGAATCGATGCTTGTC
** * * * * *
12542 TTATTT-AAGAGAAAAAATTTGATTTTAAGGAAAATAAGGCAAAGAAAAGATTTCCATGCGAAAT
259 TTATTTAAAG-GATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAG
* *
12606 AAAATCATCAATATCATTTATCCTAATGAGGAGAATTTGTTTATAGTGCCTAACCATAAAATGAA
323 AAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCATAAAATGAA
* * * * * * * *
12671 AGAAGATCATTACTAGAATTCATGTTTATCTCATTTGGGGAACGAACATAGACTTTTCAAATATT
388 TGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATT
12736 GGTGGGAAGAAAGCCTTT-TTGGCA
453 GGTGGGAAGAAAGCCTTTCTT-GCA
* ** * * *
12760 AAAACAAAGCATCAATATCATGTA---TTATGAGAAGACTAAGTTTATGGTGCCTAATCCTGAAA
1 AAACCAAAGCATCAATATTGTGTATCCTTTTGAGAAGACTATGTTTATGGTGCCTAATCCCGAAA
* * * * * * * * * *
12822 AGAATCGAGATTAGAATTAGTATTGACGTTTGTCTTATTTAA-AAGCAAACTTTGATTCTATAAA
66 AGAATGGGGATTAGTATGACTATTCATGTTTGTCCTATTTAAGAGGCAAACTTTGATTCTATCAA
* *
12886 AAACGGTGGAAAGAAAAGCTTTTCTTACGACAACAAAGCATCAATGTCATGTATCCTAATGAAGG
131 AAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAGG
* * * * * * * * *
12951 GAATGTGTTTTAGGCTCCCAATCCTAAAAATAATGGAGATTATTATGAGAATCAATGCTTATCGT
196 GAATGTGTTTTAGGTTCCTAATCTTAAAAATAATGGAGACTGTTACGAGAATCGATGCTTGTCTT
* * *
13016 ATTTAAAGGATGAACTTTG-TTGTTAAGAAAAATAGGGTAAAGAAAAGATTTTCAAGCAAACA-A
261 ATTTAAAGGATGAACTTTGATT-TTAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAA-AGA
* * * *
13079 AAATCATCAATATCATTTATCCTAATGAGGAGAATGCGTTTATAGTGTCTAATCACAAAATGAAA
324 AAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCATAAAATGAAT
* * * * * * *
13144 GAAGA-CAATAACTAGAATCCAAGTTTGGCTC-TTTTACGACATGAACTTAGACTTTACAAAGAT
389 GAAGATC-ATTACTAGAATCCATGTTTGTCTCATTTGA-GGCACGAACTTAGACTTTACAAAAAT
* * **
13207 TGGT-GGAAAAAAGCCTTTTTTGTG
452 TGGTGGGAAGAAAGCCTTTCTTGCA
* * * *** * * *
13231 AAACTAAAGCACCAATGTTGTGTATCCAAATGAGAAGACAATGTTTATGGCGTCTAATCCCGAAA
1 AAACCAAAGCATCAATATTGTGTATCCTTTTGAGAAGACTATGTTTATGGTGCCTAATCCCGAAA
* * ** * * *
13296 AGAATGGGGATTACTCTGACTATTCATGTTTCCCCTATTTAAGAGGCAAGCTTCGATTCTATCCA
66 AGAATGGGGATTAGTATGACTATTCATGTTTGTCCTATTTAAGAGGCAAACTTTGATTCTATCAA
* * * * * **
13361 AAATGGTGGAAAGAAAAGCTTTTCTTGTGACTCCAATGCATTAATGTCATCCATCCTAATGAAGG
131 AAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAGG
* * * *
13426 GAATGTGTTTTAGGCATCC-AATC-TAGAAAATAATGGAGAATGTTATGCGAATCGATGCTTGTC
196 GAATGTGTTTTAGG-TTCCTAATCTTA-AAAATAATGGAGACTGTTACGAGAATCGATGCTTGTC
* * ** * * *
13489 TTATTTTAGGGATGGGCTTTGATTTTAAGGAAAATAGGACAAAGAAAACATTTTCTTGCAAAAGA
259 TTATTTAAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGA
* * * * ** * *
13554 AAATCATCAGTATCATTTATCCTAATAAGGAGAATGTGTTTACAATTTCTAATTATAAAATGAAA
324 AAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCATAAAATGAAT
* * * * ***
13619 GAAGATCACTT-CTAGAATCTATGTTTGTCTCATTTTAGGCATGAACTTAGAATTTTTGAAAATT
389 GAAGATCA-TTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATT
* *
13683 GGTGGGAATAAAGCCTTT-TTCACA
453 GGTGGGAAGAAAGCCTTTCTT-GCA
* * * * * * *
13707 AAAACAGAGCATCAATATTGTGTATCCTTATGTGAAGACTAAGTTTATGGTGCTTAATCCCAAAA
1 AAACCAAAGCATCAATATTGTGTATCCTTTTGAGAAGACTATGTTTATGGTGCCTAATCCCGAAA
* * * * * * ** * *
13772 AGAATCGAGATTAGTATGAGTATTCACGTTCGTCTTATTTAAGATACCAACTTTGATT-TATAAA
66 AGAATGGGGATTAGTATGACTATTCATGTTTGTCCTATTTAAGAGGCAAACTTTGATTCTATCAA
* * * * * *
13836 AAATGGTGGAAAGAAAAG-----CTTGCGAGAACAAAGCTTCAATGTCATGTACCCTAATGAAGA
131 AAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAGG
* * * * **
13896 GAATGTGTTTTAGGCT-CTCAATCCTAAAAATAATGGAGACTGTTACGAGAATCAATGCTTATGA
196 GAATGTGTTTTAGGTTCCT-AATCTTAAAAATAATGGAGACTGTTACGAGAATCGATGCTTGTCT
* * * *
13960 TATTTAAAGGATGAACTTTG-TTGTTAAGGAAAATAGGTCAAAGAAAAGATTTTCAAGCAAACGT
260 TATTTAAAGGATGAACTTTGATT-TTAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGA
*
14024 AAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCATAAAATGAAA
324 AAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCATAAAATGAAT
*
14089 GAAGATCATTACTAGAATCCATGTTTGTCTCATTTG-GCGCACGAACTTAGACTTTACTAAAATT
389 GAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAG-GCACGAACTTAGACTTTACAAAAATT
**
14153 GGTGGGAAGAAAGTTTTTCTTGCA
453 GGTGGGAAGAAAGCCTTTCTTGCA
* *
14177 AAACCAAAGCATCAATATTGTGTATCCTTTTGAGAATACTATGTTTACGGTGCCTAATCCCGAAA
1 AAACCAAAGCATCAATATTGTGTATCCTTTTGAGAAGACTATGTTTATGGTGCCTAATCCCGAAA
* * * * * *
14242 AAAATGGGGATTAGTATGACTATTTAGGTTTGTCTTATTTAAGAAGCAAACTTTGATTCCATCAA
66 AGAATGGGGATTAGTATGACTATTCATGTTTGTCCTATTTAAGAGGCAAACTTTGATTCTATCAA
* **
14307 AAATGGCAGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAGG
131 AAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAGG
* * * * * * * *
14372 GAATGTGTTTTTGGCTCCAAATCTCAAAAAGAATGGAGACTATTACAAGAATTGATGCTTGTCTT
196 GAATGTGTTTTAGGTTCCTAATCTTAAAAATAATGGAGACTGTTACGAGAATCGATGCTTGTCTT
* * * *
14437 ATTTAAACGATGAACTTTAATTTAAAGAAAAATAGGGCAAAGAAAAGATTTTCATAG-AAAAGAA
261 ATTTAAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTTCAT-GCAAAAGAA
* * *
14501 AATCATCAATATCGTTGATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATGAATG
325 AATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCATAAAATGAATG
* * * * **
14566 AAGATCATTACTAGAACCCATGTTTGTCTCATTTAAGACTCGAACTTAGACTTTATTAAAATTGG
390 AAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGG
* * *
14631 TGGGAAGAATGCCTTGCTTGCG
455 TGGGAAGAAAGCCTTTCTTGCA
* * * ** *
14653 AATCCAAAGCATCAACATTGTGTATCCTTTTGAGAATACTATGTTTATGACGCCTAATCCCAAAA
1 AAACCAAAGCATCAATATTGTGTATCCTTTTGAGAAGACTATGTTTATGGTGCCTAATCCCGAAA
**
14718 AGAATGGAAATTAGTATGACTATTCATGTTTGTCCTATTTAAGAGGCAAACTTTGATTCTATCAA
66 AGAATGGGGATTAGTATGACTATTCATGTTTGTCCTATTTAAGAGGCAAACTTTGATTCTATCAA
* * *
14783 AAACGGT-GAAAAATAAAGCTTTTCTTGGGACACCAAAGCATCAATGTCATGCATCCTAATGAAG
131 AAACGGTGGAAAGA-AAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAG
* * * * * ** * *
14847 GGAATGCGTTTTTGGTTCCTAATTCTGAAAAA-AATAGAGACTGCTATAAAAATCGATGTTTGTC
195 GGAATGTGTTTTAGGTTCCTAA-TCTTAAAAATAATGGAGACTGTTACGAGAATCGATGCTTGTC
** * * *
14911 TTATTTAGGGGATGAACTTTGATTTTAAGGAAAATAAGGCAAAGAAAAGATTGTCATGCAAAAAA
259 TTATTTAAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGA
* ** * * *
14976 AAATCATCAATATCATTAATCCTAAAAAGGAGAATGTGTTTATGGTGCCTAATCTTAAAATGAAA
324 AAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCATAAAATGAAT
*
15041 GAAGATCATTGCTAGAATC
389 GAAGATCATTACTAGAATC
15060 TATGCATCAA
Statistics
Matches: 4793, Mismatches: 746, Indels: 177
0.84 0.13 0.03
Matches are distributed among these distances:
468 1 0.00
469 6 0.00
470 362 0.08
471 63 0.01
472 284 0.06
473 69 0.01
474 444 0.09
475 1545 0.32
476 1920 0.40
477 97 0.02
478 2 0.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (476 bp):
AAACCAAAGCATCAATATTGTGTATCCTTTTGAGAAGACTATGTTTATGGTGCCTAATCCCGAAA
AGAATGGGGATTAGTATGACTATTCATGTTTGTCCTATTTAAGAGGCAAACTTTGATTCTATCAA
AAACGGTGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCCTAATGAAGG
GAATGTGTTTTAGGTTCCTAATCTTAAAAATAATGGAGACTGTTACGAGAATCGATGCTTGTCTT
ATTTAAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTTCATGCAAAAGAAA
ATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCATAAAATGAATGA
AGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGCACGAACTTAGACTTTACAAAAATTGGT
GGGAAGAAAGCCTTTCTTGCA
Found at i:11487 original size:158 final size:159
Alignment explanation
Indices: 9402--12949 Score: 579
Period size: 158 Copynumber: 22.4 Consensus size: 159
9392 AGACTTTAAT
* * * * * **
9402 AAAATTGGTGGGAAGAAAGCATTTCTTGCAAAACCAAAGTATCAATATCATGTATCCTTTTG-AG
1 AAAATCGGTGGAAAGAAAGCTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGAAG
* ** * * * *
9466 AATACTATGTTTATGGTGCCTAATCCCGAAAAGAATGG-AATAAGTATGACT-ATTCATGTTTTT
66 AAAACTATGTTTATGGTGCCTAATCAAGAAAAGAATGGAAATTAGTACGA-TGATTCATGCTTGT
* * * *
9529 CCTACTCAAGCGGCAAACTTTGATTCCATCA
130 CCTATTTAAG-GGCAAACTTTGATTCTATCG
* * * * * ** * * * *
9560 AAAAACGATGGAAAAAAAACTTTTCTGGTGACACCAAAGCATCAATGTCATGTATCCTAACGAAG
1 AAAATCGGTGGAAAGAAAGCTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGAAG
** ** * * ** * * * * *
9625 GGAA-TGCGTTTTTGGTTCCTAATCTTGAAAAAAAATGGAGAGT-GCTAC-AAGAATTGATGCTT
66 AAAACTATGTTTATGGTGCCTAATCAAG-AAAAGAATGGAAATTAG-TACGATG-ATTCATGCTT
** * * **
9687 GTTTTATTTAA-GGAATGAACTTTGATTTTAAGG
128 GTCCTATTTAAGGGCA--AACTTTGATTCTATCG
* * * * * * *
9720 AAAATAAGGT-G-AAGAAAAGATTTTCATGCAAAAGAAAATCATCAATATCATTTATCCCAATGA
1 AAAAT-CGGTGGAAAG-AAAGCTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGA
* * * * * * * * * * * *
9783 GGAGAA-TGTGTTTATAGTGCCTAATCATAG-AATGAAT-GAAGATCATTACTATAATCCTTGTT
64 AGAAAACTATGTTTATGGTGCCTAATCA-AGAAAAGAATGGAA-ATTAGTACGATGATTCATGCT
* * * **
9845 TGT-TTCATTTAA-GCCATGAACTTAGACTT-T-TAA
127 TGTCCT-ATTTAAGGGCA--AACTTTGA-TTCTATCG
* * * * * * *
9878 AAAATTGGTGGAAAGAAAGCTTCTCTTGCAAAACCAAAGTACCAATATCATGTATCGT--TCAGA
1 AAAATCGGTGGAAAGAAAGCTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGA-A
* * ** ** * *
9941 GAAGACTATATTTATGGTGCCTAATCCCGAAAAGAATGGGGATTAGTATC-A-GTATTCTTGTTT
65 GAAAACTATGTTTATGGTGCCTAATCAAGAAAAGAATGGAAATTAGTA-CGATG-ATTCATGCTT
* *
10004 GTCTTATTTAAGAG-ACAACTTTGATTCTATC-
128 GTCCTATTTAAGGGCA-AACTTTGATTCTATCG
* * * * * * * *
10035 AAAAACGGTGGAAATAAATGCTTTTCATGCGACACCGAAGCATCAATGTCATGTATCCTAATGAA
1 AAAATCGGTGGAAAGAAA-GCTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGAA
** * * * * * * * * * *
10100 GGGAA-TATGTTTTTTGTTCCTAATCTTA-AAAAGAATGGAGACTATTACG-GGAATCGATACTT
65 GAAAACTATGTTTATGGTGCCTAATC-AAGAAAAGAATGGAAATTAGTACGATGATTC-ATGCTT
* * * *
10162 GTCTTATTTAAAGG-ATGAACTTTGATTTTA-AG
128 GTCCTATTTAAGGGCA--AACTTTGATTCTATCG
* * * * * * * *
10194 AAAAATAGG-GCAAAGAAAAGATGTTCATGCAAAAGAAAATCATCAATATCATTTATCCTAATGA
1 -AAAATCGGTGGAAAG-AAAGCTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGA
* * * * * ** * * *
10258 GGAGAA-TGTGTTTATAGTGCCTAACCATA-AAATTAA-AGAAGATT-GTTACTA-GAATCCATG
64 AGAAAACTATGTTTATGGTGCCTAATCA-AGAAAAGAATGGAA-ATTAG-TACGATG-ATTCATG
* * * * *
10318 TTTGT-CTCATTT-GGGGCACGAACTTAGACGT-TA-CA
125 CTTGTCCT-ATTTAAGGGCA--AACTTTGA-TTCTATCG
* ** * ** *
10353 AAAATTGGTGGGAAA-AAAGAC-TTTCTTGTGAAA-CTAAAGCACCAATATTGTGTATCCTACT-
1 AAAATCGGT-GGAAAGAAAG-CTTTTCTTGCAAAAGC-AAAGCATCAATATCATGTATCCTAATG
* * * ** ** ** *
10414 AAGAAGACAATATTTATGGTTTCTAATCCCGAAAAGAATGGGGATTAGTATGACT-ATTCATG-T
63 AAGAAAACTATGTTTATGGTGCCTAATCAAGAAAAGAATGGAAATTAGTACGA-TGATTCATGCT
* * * *
10477 T-TCCCTATTTAAGAGGTAAGCTTTGTTTCTAT-A
127 TGT-CCTATTTAAG-GGCAAACTTTGATTCTATCG
* * ** * * *
10510 AAAAACGGTGGAAAAAAAAAGCTTTTCTTGGGACACCAAAGCATCAATGTCATGTATCCTAATGA
1 AAAATCGGTGG--AAAGAAAGCTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGA
** * * * * * * * * *
10575 AG-GGATTATGTTT-TAGGTTCCCAATGC-TGAAAATAATGGCAA-TCGTTATGA-GAATCATTG
64 AGAAAACTATGTTTAT-GGTGCCTAAT-CAAGAAAAGAATGGAAATTAG-TACGATGATTCA-TG
* * * **
10635 CTTGTCTTCTTTAAGGG-ATGAACTTTGATTTTAAGG
125 CTTGTCCTATTTAAGGGCA--AACTTTGATTCTATCG
* * ** * * * * * *
10671 AAAATAGG-GCAAAGAAAATATTTTCATGCAAAAGAAAATCATCAGTATCATTTATCCTAATGAG
1 AAAATCGGTGGAAAG-AAAGCTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGAA
* * * * * * * * * * *
10735 GAGAA-TGTGTTTATAGTGACTAATCAA-AAAATTAAT-GAAGATCATTACTA-GAATCCAAGTT
65 GAAAACTATGTTTATGGTGCCTAATCAAGAAAA-GAATGGAA-ATTAGTACGATG-ATTCATGCT
* * * *
10796 TG-CCTTATTTAA-GACACGGACTTAGACTT-TA-CT
127 TGTCC-TATTTAAGGGCA--AACTTTGA-TTCTATCG
* * * * ** * **
10829 AAAATTGGTGGGAAGAAAGCCTTTCTTGCAAAAGCAAAGCATCGATATTGTGCATCCTTTTG-AG
1 AAAATCGGTGGAAAGAAAGCTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGAAG
** ** * *
10893 AATTCTATGTTTATGGTGCCTAATCCTGAAAAGAATGGAAATTAGTATGACT-ATTCATGTTTGT
66 AAAACTATGTTTATGGTGCCTAATCAAGAAAAGAATGGAAATTAGTACGA-TGATTCATGCTTGT
10957 CCTATTTAAGAGGCAAACTTTGATTCTATC-
130 CCTATTTAAG-GGCAAACTTTGATTCTATCG
* * * * * * *
10987 AAAAACGGTGGAAGAAAAAGCTTTTCTTGCGACATCAAAGCATCAATATCCTGTATCCTAAGGAA
1 AAAATCGGTGGAA-AGAAAGCTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGAA
* * * * ** * * * * **
11052 GGAAAAGTGT-TTTA-GGTTCCCAATCCTGAAAATAATGGAGACTATTACGA-GAATTGTTGCTT
65 -GAAAACTATGTTTATGGTGCCTAATCAAGAAAAGAATGGAAATTAGTACGATG-ATTCATGCTT
* * * * * **
11114 GTCTTCTTTAAGGGACGAACTTTAATTTTAAGG
128 GTCCTATTTAAGGG-CAAACTTTGATTCTATCG
* * * * * * * *
11147 AAAATAGG-GCAAAGAAA-TTATTTCCATGTAAAA-AAAATCATCAATATCATTTATCCTAATGA
1 AAAATCGGTGGAAAGAAAGCT-TTT-CTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGA
* * * * * * * * ** * *
11209 AGAGAA-TGTGTTTATAGTGACTAATCACA-AAATGAAT-GAAGATCATTACTAAAATCCATGTT
64 AGAAAACTATGTTTATGGTGCCTAATCA-AGAAAAGAATGGAA-ATTAGTACGATGATTCATGCT
* * * *
11271 TGT-CTCATTTGAGGCGCGAACTTAGACTT-T-TTG
127 TGTCCT-ATTTAAGG-GCAAACTTTGA-TTCTATCG
* * * * * **
11304 AAAATTGATGGGAAGAAAGTTTTTCTTCCAAAAGCAAAGCATCAATATCATGTATCCTTTTG-AG
1 AAAATCGGTGGAAAGAAAGCTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGAAG
*
11368 AAAACTATGTTTATGGCGCCTAATCAAGAAAAGAATGGAAATTAGTACGATGATTCATGCTTGTC
66 AAAACTATGTTTATGGTGCCTAATCAAGAAAAGAATGGAAATTAGTACGATGATTCATGCTTGTC
11433 CTATTTAAGAGGCAAACTTTGATTCTATCG
131 CTATTTAAG-GGCAAACTTTGATTCTATCG
* * * * * *
11463 AAAA-CGGTGGAAAAAAAGCTTTTCTTGC-GACGCCAAAGCATCAATGTCTTGTATCCTAAAGAA
1 AAAATCGGTGGAAAGAAAGCTTTTCTTGCAAAAG-CAAAGCATCAATATCATGTATCCTAATGAA
* * * ** ** * * * * * * *
11526 GGGAAAGTGT-TTTA-GGTTTCTAATCCTGGAAATAATGGAGACTATTACG-GGAATCGATGCTT
65 -GAAAACTATGTTTATGGTGCCTAATCAAGAAAAGAATGGAAATTAGTACGATGATTC-ATGCTT
* ** **
11588 GTCTTATTTATAGGATAAACTTTGATTCTAAGG
128 GTCCTATTTA-AGGGCAAACTTTGATTCTATCG
* * ** * * * *
11621 AAAATAGG-GCAAAGAAAATATTTTCATGCAAAAGAAAATCATCAATATCATTTATCCTAATG-A
1 AAAATCGGTGGAAAG-AAAGCTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGAA
* * * * * * * * * *
11684 GGAGACTATGTTTATAGTGACTAATCATA-AAATGAAT-GAAGATCATTACTA-GAATCCATGTT
65 GAAAACTATGTTTATGGTGCCTAATCA-AGAAAAGAATGGAA-ATTAGTACGATG-ATTCATGCT
** * *
11746 TGT-CTCATTCGA-GGCACGAACTTAGACTT-TA-CT
127 TGTCCT-ATTTAAGGGCA--AACTTTGA-TTCTATCG
* ** * * ** **
11779 AAAATTGGTCAAGAAGAAAGCCTTTCTTGCAAAAGCAAAGCAACAATATTGTGTATCCTTTTG-A
1 AAAATCGGTGGA-AAGAAAGCTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGAA
* * * * ** * * *
11843 GAATAGTATGTATATGGTGCCTACTCTCGAAAAGATTGGAAATTA-TATGACT-ATTCATGTTTG
65 GAAAACTATGTTTATGGTGCCTAATCAAGAAAAGAATGGAAATTAGTACGA-TGATTCATGCTTG
* * * *
11906 TCTTATTTTAGAGGCAAACTTTCATTCTATCA
129 TCCTATTTAAG-GGCAAACTTTGATTCTATCG
* * * * * * * *
11938 AAAAT-GGTGGAATAAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCTTTTATCCTAAGGAA
1 AAAATCGGTGGAA-AGAAAGCTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGAA
** ** * * *** * * * * * * *
12002 GGGAA-TGCGTTTTTGGTTCCTAATCTCTCAAAA-AATGGAGACT-GCTA-TAGGAATCGAGGCA
65 GAAAACTATGTTTATGGTGCCTAATC-AAGAAAAGAATGGAAATTAG-TACGATGATTC-ATGCT
* * * **
12063 TG-CCTTATTTAAAGG-ATGAACTTCGATTTTAAGG
127 TGTCC-TATTTAAGGGCA--AACTTTGATTCTATCG
* * * * * * * * * *
12097 AAAATAGG-GCAAAAAAAGATTTTCATACAAAAGAAAATCATCAATATCATTTATCCTAATGAGG
1 AAAATCGGTGGAAAGAAAGCTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGAAG
* * * * * ** * * * *
12161 AGAA-TGTGTTTATAGAGCCTACTCACCAAAA-AAGTGAAGATCATTATTA-GA--ATCCATGTT
66 AAAACTATGTTTATGGTGCCTAATCAAGAAAAGAA-TG--GA-AATTAGTACGATGATTCATGCT
* * * *
12221 TGT-CTCATTTGA-GGCATGAACTTAGCGTT-TA-CA
127 TGTCCT-ATTTAAGGGCA--AACTTTG-ATTCTATCG
* * * ** * *
12254 AAAATTGGTGGGAAGAAAGCCTTTCTTGTGAAAGCAAAGCACCAATGTCATGTATCCTAATG-AG
1 AAAATCGGTGGAAAGAAAGCTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGAAG
* * * ** * ** * * *
12318 AAGACTATGTTTATAGTGCCCAATCCTGAAAAGAATAGG-GATTAGTGTG-TGTAATAATGTTTG
66 AAAACTATGTTTATGGTGCCTAATCAAGAAAAGAAT-GGAAATTAGTACGATG-ATTCATGCTTG
* *
12381 T-CTAATTT-AGGAGAGAAACTTTGATTCTATCA
129 TCCT-ATTTAAGG-G-CAAACTTTGATTCTATCG
* * *
12413 AAAAT-GGTGGAAAGAAATGCTTTTCTTGCAACATCAAAGCATCAA-AGTCTTGTATCCTAATGA
1 AAAATCGGTGGAAAGAAA-GCTTTTCTTGCAAAAGCAAAGCATCAATA-TCATGTATCCTAATGA
** * * * ** * * * *
12476 AGGGAA-TGTGTTTTTGGTTCCTAATCTTGAAAAGAATGGAGACT-GTTATGA-GAATCGATGCT
64 AGAAAACTATGTTTATGGTGCCTAATCAAGAAAAGAATGGAAATTAG-TACGATGATTC-ATGCT
** * * **
12538 TG-CCTTATTTAAGAGAAAAAATTTGATTTTAAGG
127 TGTCC-TATTTAAG-GGCAAACTTTGATTCTATCG
** * * * * * ** * * *
12572 AAAATAAG-GCAAAGAAAAGATTTCCATGCGAAATAAAATCATCAATATCATTTATCCTAATGAG
1 AAAATCGGTGGAAAG-AAAGCTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGAA
* * * * * * * * * *
12636 GAGAA-TTTGTTTATAGTGCCTAACCATA-AAATGAA-AGAAGATCATTACTA-GAATTCATGTT
65 GAAAACTATGTTTATGGTGCCTAATCA-AGAAAAGAATGGAA-ATTAGTACGATG-ATTCATGCT
* * * * *
12697 TAT-CTCATTT-GGGGAACGAACATAGACTT-T-TC-
127 TGTCCT-ATTTAAGGG--CAAACTTTGA-TTCTATCG
* * * *
12729 AAATATTGGTGGGAAGAAAGCCTTTT-TGGCAAAAACAAAGCATCAATATCATGTAT--T-ATG-
1 AAA-ATCGGTGGAAAGAAAG-CTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGA
* * ** * * * ** * * *
12789 AGAAGACTAAGTTTATGGTGCCTAATCCTGAAAAGAATCGAGATTAGAATTA-GTATTGACGTTT
64 AGAAAACTATGTTTATGGTGCCTAATCAAGAAAAGAATGGAAATTAGTACGATG-ATTCATGCTT
* ** *
12853 GTCTTATTTAAAAGCAAACTTTGATTCTAT-A
128 GTCCTATTTAAGGGCAAACTTTGATTCTATCG
* * * *
12884 AAAAACGGTGGAAAGAAAAGCTTTTCTTACGACAA-CAAAGCATCAATGTCATGTATCCTAATGA
1 AAAATCGGTGGAAAG-AAAGCTTTTCTTGC-AAAAGCAAAGCATCAATATCATGTATCCTAATGA
12948 AG
64 AG
12950 GGAATGTGTT
Statistics
Matches: 2372, Mismatches: 787, Indels: 461
0.66 0.22 0.13
Matches are distributed among these distances:
153 2 0.00
154 25 0.01
155 80 0.03
156 20 0.01
157 143 0.06
158 1037 0.44
159 845 0.36
160 199 0.08
161 21 0.01
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (159 bp):
AAAATCGGTGGAAAGAAAGCTTTTCTTGCAAAAGCAAAGCATCAATATCATGTATCCTAATGAAG
AAAACTATGTTTATGGTGCCTAATCAAGAAAAGAATGGAAATTAGTACGATGATTCATGCTTGTC
CTATTTAAGGGCAAACTTTGATTCTATCG
Found at i:15407 original size:398 final size:400
Alignment explanation
Indices: 14727--15457 Score: 958
Period size: 398 Copynumber: 1.8 Consensus size: 400
14717 AAGAATGGAA
* ** * *
14727 ATTAGTATGACTATTCATGTTTGTCCTATTTAAGAGGCAAACTTTGATTCTATCAAAAACGGTGA
1 ATTAGTATAACTATTCACATTTGTCCTATTTAAGAGGCAAA--TTGATTCCATCAAAAACGGGGA
* **
14792 AAAATAAAGCTTTTCTTGGGACACCAAAGCATCAATGTCATGCATCCTAATGAAGGGAATGCGTT
64 AAAATAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGCATCCTAATGAAAAGAATGCGTT
* * * * * *
14857 TTTGGTTCCTAATTCTGAAAAAAATAGAGACTGCTATAAAAATCGATGTTTGTCTTATTTAGGGG
129 TTTGGTTCCCAATTCTGAAAAAAATAGAGACTACTACAAAAATCGATGCTTGCCTTATTTAGAGG
* *
14922 ATGAACTTTGATTTTAAGGAAAATAAGGCAAAGAAAAGATTGTCATGCAAAAAAAAATCATCAAT
194 ATAAACTTTGATTTTAAGAAAAATAAGGCAAAGAAAAGATTGTCATGCAAAAAAAAATCATCAAT
* **
14987 ATCATTAATCCTAAAAAGGAGAATGTGTTTATGGTGCCTAATCTTAAAATGAAA-GAAGATC-AT
259 ATCATTAATCCTAAAAAGGAGAATGTGTTTATAGTGCCTAATCACAAAAT-AAATGAAGA-CAAT
*
15050 TGCTAGAATCTATGCATCAATATCATTTATCCTTATCAGAATTCTACGTTAATGGTGCCTAATCC
322 TACTAGAATCTATGCATCAATATCATTTATCCTTATCAGAATTCTACGTTAATGGTGCCTAATCC
15115 TAAATAAAATAGGG
387 TAAATAAAATAGGG
* *
15129 ATTAGTATAACTATTCACATTTGTCCTA-TTAACGAGG-TAA-TGATTCCATTAAAAACGGGGGA
1 ATTAGTATAACTATTCACATTTGTCCTATTTAA-GAGGCAAATTGATTCCATCAAAAAC-GGGGA
* * * * * *
15191 AAGA-AAAGCTTTTTTTGCGACACCAGAGCATCAATGTCATGTATCCTAATGAAAAGATTGTGTT
64 AAAATAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGCATCCTAATGAAAAGAATGCGTT
* * * * *** *
15255 TTTGGTTCCCAA-TCTTGAAAAGAATGGAGTCTATTACGGGAATTGATGCTTGCCTTATTTCA-A
129 TTTGGTTCCCAATTC-TGAAAAAAATAGAGACTACTACAAAAATCGATGCTTGCCTTATTT-AGA
*
15318 GGATAAACTTTGATTTTAAGAAAAATAGGGCAAAGAAAAGATT-TCCATGCAAAAAAAAATCATC
192 GGATAAACTTTGATTTTAAGAAAAATAAGGCAAAGAAAAGATTGT-CATGCAAAAAAAAATCATC
* **
15382 AATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCACAAAATAAATGAAGACAA
256 AATATCATTAATCCTAAAAAGGAGAATGTGTTTATAGTGCCTAATCACAAAATAAATGAAGACAA
15447 TTACTAGAATC
321 TTACTAGAATC
15458 CATGATTGGC
Statistics
Matches: 282, Mismatches: 40, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
397 7 0.02
398 232 0.82
399 8 0.03
401 6 0.02
402 29 0.10
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (400 bp):
ATTAGTATAACTATTCACATTTGTCCTATTTAAGAGGCAAATTGATTCCATCAAAAACGGGGAAA
AATAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGCATCCTAATGAAAAGAATGCGTTTT
TGGTTCCCAATTCTGAAAAAAATAGAGACTACTACAAAAATCGATGCTTGCCTTATTTAGAGGAT
AAACTTTGATTTTAAGAAAAATAAGGCAAAGAAAAGATTGTCATGCAAAAAAAAATCATCAATAT
CATTAATCCTAAAAAGGAGAATGTGTTTATAGTGCCTAATCACAAAATAAATGAAGACAATTACT
AGAATCTATGCATCAATATCATTTATCCTTATCAGAATTCTACGTTAATGGTGCCTAATCCTAAA
TAAAATAGGG
Found at i:16272 original size:473 final size:472
Alignment explanation
Indices: 15171--16430 Score: 1563
Period size: 473 Copynumber: 2.7 Consensus size: 472
15161 CGAGGTAATG
* * *
15171 ATTCCATTAAAAACGGGGGAAAGAAAAGCTTTTTTTGCGACACCAGAGCATCAATGTCATGTATC
1 ATTCCATCAAAAAC-GGGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATC
** * * * * * *
15236 CTAATGAAAAGATTGTGTTTTTGGTTCCCAATCTTGAAAAGAATGGAG-TCTATTACGGGAATTG
65 CTAATGAAGGGAATGTGTTTTAGGCTCCCAATCTTGAAAAAAATGGAGAT-TATTACGAGAATCG
* * *
15300 ATGCTTGCCTTATTTCAAGGATAAACTTTGATTTTAAGAAAAATAGGGCAAAGAAAAGATTTCCA
129 ATGCTTGTCTTATTT-AAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCA
* * *
15365 TGCAAAAAAAAATCATCAATATCATTTATCCTAATGAGGAGAATGTGTTTATAGTGCCTAATCAC
193 TGCAAAAGAAAATCATCAATATCATTTATCCTAGTGAGGAGAATGTGTTTATAGTGCCTAATCAT
* * * *
15430 AAAA-TAAATGAAGA-CAATTACTAGAATCCATGA-TTGGCTTATTTGCGGCACAAAGTTAGACT
258 AAAAGT-AA-GAAGATC-ATTACTAGAATCCAT-ATTTGCCTCATTTGAGGCACAAACTTAGACT
* * ** *
15492 TTACAAAAATTGGTGGGTAAAAAGCCTTTGTCGTGAAACCAAGCACCAATATCATGGATCCTAAT
319 TTACAAAAATTAGTGGGTAAAAAGCCTTTCTCGCAAAACAAAGCACCAATATCATGGATCCTAAT
* * ** *
15557 GAGAAGACTTTATTTATGGTGCTTAATCCAAAAAAGAATAGGGATTAGTGTGAGTATTCAAGTTT
384 GAGAAGACTATATTTAAGGTGCTTAATCCAAAAAAGAATAGGGATTAGTACGACTATTCAAGTTT
**
15622 GTCTAATTTAAGAGACAAACTTTC
449 GTCTAATCGAAGAGACAAACTTTC
*
15646 ATTCCATCAAAAACGGTGGAAAGAAAAGCTTTTCTTGTGACACCAAAGCATCAATGTCATGTATC
1 ATTCCATCAAAAACGG-GGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATC
* * * *
15711 CTAATGAAGGGAATGTGTTTTAGGCTCCCAATCCT-AAAAATAATGGAGACTGTTATGAGAATCG
65 CTAATGAAGGGAATGTGTTTTAGGCTCCCAATCTTGAAAAA-AATGGAGATTATTACGAGAATCG
* * **
15775 ATGCTTATCATATTTAAAGGATGAACTTTG-TTGTTAAGGAAAATAGGGCAAAGAAAAGATTTTA
129 ATGCTTGTCTTATTT-AAGGATGAACTTTGATT-TTAAGGAAAATAGGGCAAAGAAAAGATTTCC
* * * *
15839 AAGCAAACGAAAATCATCAATATCATTTATCCTAGTGGGGAAAATGTGTTTATAGTGCCTAATCA
192 ATGCAAAAGAAAATCATCAATATCATTTATCCTAGTGAGGAGAATGTGTTTATAGTGCCTAATCA
15904 TAAAACGTAAGAAGATCATTACTAGAATCCATATTTGCCTCATTTGAGGCACAAACTTAGACTTT
257 TAAAA-GTAAGAAGATCATTACTAGAATCCATATTTGCCTCATTTGAGGCACAAACTTAGACTTT
* * * ** * **
15969 AC-TAAATTAGTGGG-AAGAAAGCCTTTCTTGCAAAACAAAGCATCAATATTGTGTATCCTTTTG
321 ACAAAAATTAGTGGGTAA-AAAGCCTTTCTCGCAAAACAAAGCACCAATATCATGGATCCTAATG
* * ** * *
16032 AGAATACTATGTTTAAGGTGCTTAATCCTGAAAAGAATGGGGATTAGTACGACTATT-AGGTTTG
385 AGAAGACTATATTTAAGGTGCTTAATCCAAAAAAGAATAGGGATTAGTACGACTATTCAAGTTTG
* *
16096 TCCT-ATCGAAGAGGCAAACTTTG
450 T-CTAATCGAAGAGACAAACTTTC
** *
16119 ATTTTATCAAAAACGAGGGAAAGAAAAGCTTTTCTTGCGACCCCAAAGCATCAATGTCATGTATC
1 ATTCCATCAAAAACG-GGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATC
* *
16184 CTAATGAAGGGAATGTGTTTTAGGCACCCAATCTTGAAAAAAATAGAGATTATTACGAGAATCGA
65 CTAATGAAGGGAATGTGTTTTAGGCTCCCAATCTTGAAAAAAATGGAGATTATTACGAGAATCGA
* * * * *
16249 TGCTTGTTTTATTTAGGGGATGAACATTGATTTTAAGGAAATTAGGGCAAAGAAAAGATTTCCGT
130 TGCTTGTCTTATTTA-AGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCAT
** * *
16314 GCAAAAGAAAATCATCAATATCATTTATCCT-GAAAAGGAGAATGTGTTTATAATGCCTAATCTT
194 GCAAAAGAAAATCATCAATATCATTTATCCTAG-TGAGGAGAATGTGTTTATAGTGCCTAATCAT
* * *
16378 AAAATGAAAGAAGATCATTACTAGAATCCATGTTTGTCTCATTTGAGGC-CAAA
258 AAAA-GTAAGAAGATCATTACTAGAATCCATATTTGCCTCATTTGAGGCACAAA
16431 TCTTCTCAAA
Statistics
Matches: 676, Mismatches: 94, Indels: 33
0.84 0.12 0.04
Matches are distributed among these distances:
472 6 0.01
473 286 0.42
474 111 0.16
475 269 0.40
476 3 0.00
477 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (472 bp):
ATTCCATCAAAAACGGGGAAAGAAAAGCTTTTCTTGCGACACCAAAGCATCAATGTCATGTATCC
TAATGAAGGGAATGTGTTTTAGGCTCCCAATCTTGAAAAAAATGGAGATTATTACGAGAATCGAT
GCTTGTCTTATTTAAGGATGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCATGC
AAAAGAAAATCATCAATATCATTTATCCTAGTGAGGAGAATGTGTTTATAGTGCCTAATCATAAA
AGTAAGAAGATCATTACTAGAATCCATATTTGCCTCATTTGAGGCACAAACTTAGACTTTACAAA
AATTAGTGGGTAAAAAGCCTTTCTCGCAAAACAAAGCACCAATATCATGGATCCTAATGAGAAGA
CTATATTTAAGGTGCTTAATCCAAAAAAGAATAGGGATTAGTACGACTATTCAAGTTTGTCTAAT
CGAAGAGACAAACTTTC
Found at i:17714 original size:476 final size:476
Alignment explanation
Indices: 16816--17817 Score: 1372
Period size: 476 Copynumber: 2.1 Consensus size: 476
16806 AAGAGACAAT
* * *
16816 GGTGGAAAGAAAAGCTTTTCTTGCAACACCAAAGCATCAATGTCGTGTATCCTAATAAAGGGAAT
1 GGTGGAAAGAAAAGCTTTTCTTGCAACACCAAAGCATCAATGTCATGTATCATAATAAAGAGAAT
* * * * *
16881 GTGTTTTTGGTTCCCAATCTTGAAAAGAGTGGAGATTGTTAGGAGAATTGATATTTGTCTTATTT
66 GTGTTTTTGGTTCCCAATCTTGAAAAGAATAGAGACTATTAGGAGAATTGATACTTGTCTTATTT
* *
16946 AAAGGAAGAACTTTGATTTTAAGGAAAATAGGGCAGAGAAAAGATTTCCATGCAAAATAAAATCA
131 AAAGGAAGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCA
* *
17011 TCAAGATCATTTATCTTAATGAGGAGAATGTGTCTATAGTGCCTAATCATAAAATAATAAAAGAT
196 TCAAGATCATTTATCTTAATGAGGAGAATGTCTCTATAGTGCCTAATCACAAAATAATAAAAGAT
17076 CATTACTAGAATCCATGTTTGTCTCATTCGAGGCACGAACTTAAACTTTACAAAAATTGGTGGGA
261 CATTACTAGAATCCATGTTTGTCTCATTCGAGGCACGAACTTAAACTTTACAAAAATTGGTGGGA
* ** ** *
17141 AATAAGCTTTTGTTGTGAAACTAAAGCACTAATATCGCGTATCTTAATGAGAAGACAATGTTTAT
326 AATAAGCCTTTCCTCCGAAACCAAAGCACTAATATCGCGTATCTTAATGAGAAGACAATGTTTAT
* * * * * *
17206 GGTGCCTAATCCCGAAAAGAATGGGGATTAGTATGACTATTCATGTTT-CCGCAATTTAATAGGT
391 GGTGCCTAAACCCGAAAAGAATGGGAATTAGTACGACAATTCATGTTTGCC-CAATTTAAGAGGC
*
17270 AAGCTCTGATTCTATCATAAAA-
455 AAACTCTGATTCTATCA-AAAAC
* *
17292 GGTGGAAAGAAAAGCTTTTCTTGCAACACTAAAGCATCAATGTCATGTATCATAATGAAGAGAAT
1 GGTGGAAAGAAAAGCTTTTCTTGCAACACCAAAGCATCAATGTCATGTATCATAATAAAGAGAAT
* * *
17357 GTGTTTTTGGTTCCCAATCTTGAAAAGAATAGAGACTATTATGCGAATTGATGCTTGTCTTATTT
66 GTGTTTTTGGTTCCCAATCTTGAAAAGAATAGAGACTATTAGGAGAATTGATACTTGTCTTATTT
* * ** *
17422 AAAGGATA-AACTTTGATTTTTAGG-AAATAGGGCAAAGAAAATATTTCTTTGTAAAAGAAAATC
131 AAAGGA-AGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATC
* *
17485 ATCAATATCATTTATCCTT-ATGAGGAGAATGTCTTTATAGTGCCTAATCACAAAATGAAT-AAA
195 ATCAAGATCATTTAT-CTTAATGAGGAGAATGTCTCTATAGTGCCTAATCACAAAAT-AATAAAA
* * **
17548 GATCATTACTAGAATCCATGTTTTGTCTCATTTGAGGCACGAACTTAGACTTTACATTAATTGGT
258 GATCATTACTAGAATCCATG-TTTGTCTCATTCGAGGCACGAACTTAAACTTTACAAAAATTGGT
* * * * * *
17613 GGGAAGA-AAGCCTTTCCTCCGAAACCAAAGCATTAATATTGTGTATCGTT-TTGAGAATACTAT
322 GGGAA-ATAAGCCTTTCCTCCGAAACCAAAGCACTAATATCGCGTATC-TTAATGAGAAGACAAT
* *
17676 GTTTATGGTGCCTAAACCCGAAAAGAATGGGAATTAGTACGACAATTCATGTTTGTCCTATTTAA
385 GTTTATGGTGCCTAAACCCGAAAAGAATGGGAATTAGTACGACAATTCATGTTTGCCCAATTTAA
*
17741 GAGGCAAACTTTGATTCTATCAAAAAC
450 GAGGCAAACTCTGATTCTATCAAAAAC
** * ** *
17768 GGCAGAAAAAAAAGCTTTTCTTGCGGCACCAAAGCATTAATGTCATGTAT
1 GGTGGAAAGAAAAGCTTTTCTTGCAACACCAAAGCATCAATGTCATGTAT
17818 ACTAACCTAG
Statistics
Matches: 461, Mismatches: 57, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
475 108 0.23
476 348 0.75
477 5 0.01
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (476 bp):
GGTGGAAAGAAAAGCTTTTCTTGCAACACCAAAGCATCAATGTCATGTATCATAATAAAGAGAAT
GTGTTTTTGGTTCCCAATCTTGAAAAGAATAGAGACTATTAGGAGAATTGATACTTGTCTTATTT
AAAGGAAGAACTTTGATTTTAAGGAAAATAGGGCAAAGAAAAGATTTCCATGCAAAAGAAAATCA
TCAAGATCATTTATCTTAATGAGGAGAATGTCTCTATAGTGCCTAATCACAAAATAATAAAAGAT
CATTACTAGAATCCATGTTTGTCTCATTCGAGGCACGAACTTAAACTTTACAAAAATTGGTGGGA
AATAAGCCTTTCCTCCGAAACCAAAGCACTAATATCGCGTATCTTAATGAGAAGACAATGTTTAT
GGTGCCTAAACCCGAAAAGAATGGGAATTAGTACGACAATTCATGTTTGCCCAATTTAAGAGGCA
AACTCTGATTCTATCAAAAAC
Found at i:22865 original size:42 final size:42
Alignment explanation
Indices: 22818--22936 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
22808 TCTCCTCCTC
* *
22818 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
22860 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
22902 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
22937 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:22877 original size:12 final size:11
Alignment explanation
Indices: 22851--22926 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
22841 TCTATTATCT
*
22851 CTCCTGTCTCTC
1 CTCCTATCTC-C
22863 CTCCTATCATCC
1 CTCCTATC-TCC
22875 CTCCTATCT--
1 CTCCTATCTCC
*
22884 CTACTATCT--
1 CTCCTATCTCC
*
22893 CTCCTGTCTCTC
1 CTCCTATCTC-C
22905 CTCCTATCATCC
1 CTCCTATC-TCC
*
22917 CTCCTCTCTC
1 CTCCTATCTC
22927 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:22878 original size:24 final size:24
Alignment explanation
Indices: 22842--22927 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
22832 CCTCCTCTCT
* *
22842 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
22866 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
22887 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
22908 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
22928 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:22902 original size:18 final size:18
Alignment explanation
Indices: 22833--22903 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
22823 CCTGTCATCC
* *
22833 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
22851 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
22873 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
22893 CTCCTGTCTCT
1 CTCCTGTCTCT
22904 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:26315 original size:475 final size:471
Alignment explanation
Indices: 25410--26449 Score: 1383
Period size: 475 Copynumber: 2.2 Consensus size: 471
25400 AATGACTTTG
* * *
25410 ATTTTAAGGAAAAT-AGGACAAAGAAAAAAATTCCATGC-AAAGAAAATCGTAAATATCATTTAT
1 ATTTTAAGGAAAATAAGG-CAAAGAAAAAATTTCCATGCAAAAGAAAATCATCAATATCATTTAT
* * *
25473 CCTAATGAGGAGATTGTGTTTATAGTGCCTAATTATAAAATGAAAGAAGATCATTTCTAGAATCC
65 CCTAATAAGGAGAATGTGTTTATAGTGCCTAATTATAAAATGAAAGAAGATCATTACTAGAATCC
* * * * *
25538 ATGTTTGTCTCATTTGACACATGAACTTAGACTTTACAAAAATTGGTGTGAAAAAAGCCTTTCTT
130 ATGTTTGTCTAATTTGACACACGAACTTAGACTTTACAAAAATTAGTGGGAAAAAAGCCTTTCAT
* * *
25603 GTGAAAGCATCAATATCGTGTATCCTTAGGAGAACACTATGTTTATGGTGCCTAATCCTGAAAAG
195 GTGAAAGCACCAATATCGTGTATCCTAAGGAGAACACAATGTTTATGGTGCCTAATCCTGAAAAG
* * * * *
25668 AATAGGGATTAGTTTTAGTATTCATGTTTGTCCTATTTATGATATAAACTTTGATTCTATCAAAA
260 AATAGGGATTAGTGTGAGTATTCATGTTTGTCCTATTTAAGAGACAAACTTTGATTCTATCAAAA
* * *
25733 ATGGTTGAAAGAAAAACTTTTATTGTGACAACAAATCGTCAATGTCATGTATCCTAATGAAGGGA
325 ATGGTGGAAAGAAAAACTTTTATTGTGACAACAAATCGTCAATGTCATGTATCCTAACGAAAGGA
* * *
25798 ATGTGTTTTTAGTTCCCAATCTTGAAAAGAATGGACACTGTTACGAGAATCGATACTTGTCTTAT
390 ATGTGTTTTTAGTTCCCAATCCTGAAAAGAATGGACACTGTTACAAGAATCGATACTAGTCTTAT
25863 TTAAAGGATGAACTTCC
455 TTAAAGGATGAACTTCC
* * *
25880 ATTTTAAGTAAAATAAGGTAAAGAAAAGATTTCCATGCAAAAGAAAATCATCAATATCATTTATC
1 ATTTTAAGGAAAATAAGGCAAAGAAAAAATTTCCATGCAAAAGAAAATCATCAATATCATTTATC
** *
25945 CTAATAAGGAGAATGTGTTTATAGTTTCTAATTAT-AAATGAATGAAGATCATTACTAGAATCCA
66 CTAATAAGGAGAATGTGTTTATAGTGCCTAATTATAAAATGAAAGAAGATCATTACTAGAATCCA
*** *
26009 TGTTTGTCTAATTTGGGGCACGAACTTAGACTTTAGAAAAATTAGTGGGAAAAAAGCCTTTCATG
131 TGTTTGTCTAATTTGACACACGAACTTAGACTTTACAAAAATTAGTGGGAAAAAAGCCTTTCATG
** * *
26074 TGAAACCAAAGCACCAATATCGTGTATCCTAATTAGAAGACAATGTTTATGTTGCCTAA-CCATG
196 TG-----AAAGCACCAATATCGTGTATCCTAAGGAGAACACAATGTTTATGGTGCCTAATCC-TG
*
26138 AAAAGAATAGGGATTAGTGTGAGTATTTATGTTTGT-CTAATTTAAGAGACAAACTTTGATTCTA
255 AAAAGAATAGGGATTAGTGTGAGTATTCATGTTTGTCCT-ATTTAAGAGACAAACTTTGATTCTA
* * * * *
26202 TCAAAAATGGTGGAAAGAAAAGCTTTTCTTGTGACACCGAAGT-GTCAATGTCATTTATCCTAAC
319 TCAAAAATGGTGGAAAGAAAAACTTTTATTGTGACAAC-AAATCGTCAATGTCATGTATCCTAAC
* * * * * *
26266 GAAAGGTATGTG-TTTTAGGTTCTCAATCCTGAAAATAATGGAGACTGTTATAAGAATCGATGCT
383 GAAAGGAATGTGTTTTTA-GTTCCCAATCCTGAAAAGAATGGACACTGTTACAAGAATCGATACT
* * **
26330 AGTCTTTTTTAAAGGCTGAACTTTT
447 AGTCTTATTTAAAGGATGAACTTCC
* * * * *
26355 ATTTTAAGGATAATAGGGCAAAGAAAATATTTTCATGCAAAAGAAAATCATCAATATCATTTATA
1 ATTTTAAGGAAAATAAGGCAAAGAAAAAATTTCCATGCAAAAGAAAATCATCAATATCATTTATC
* *
26420 CTAATTAGGAGAATGTGTTTACAGTGCCTA
66 CTAATAAGGAGAATGTGTTTATAGTGCCTA
26450 TGATGACAAC
Statistics
Matches: 493, Mismatches: 66, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
470 115 0.23
471 58 0.12
474 9 0.02
475 308 0.62
476 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (471 bp):
ATTTTAAGGAAAATAAGGCAAAGAAAAAATTTCCATGCAAAAGAAAATCATCAATATCATTTATC
CTAATAAGGAGAATGTGTTTATAGTGCCTAATTATAAAATGAAAGAAGATCATTACTAGAATCCA
TGTTTGTCTAATTTGACACACGAACTTAGACTTTACAAAAATTAGTGGGAAAAAAGCCTTTCATG
TGAAAGCACCAATATCGTGTATCCTAAGGAGAACACAATGTTTATGGTGCCTAATCCTGAAAAGA
ATAGGGATTAGTGTGAGTATTCATGTTTGTCCTATTTAAGAGACAAACTTTGATTCTATCAAAAA
TGGTGGAAAGAAAAACTTTTATTGTGACAACAAATCGTCAATGTCATGTATCCTAACGAAAGGAA
TGTGTTTTTAGTTCCCAATCCTGAAAAGAATGGACACTGTTACAAGAATCGATACTAGTCTTATT
TAAAGGATGAACTTCC
Done.