Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold433
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1285081
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.29
Warning! 132229 characters in sequence are not A, C, G, or T
File 3 of 4
Found at i:358873 original size:23 final size:23
Alignment explanation
Indices: 358847--358890 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
358837 GTGTACAGTG
358847 AGGTACAGTGCTGGT-CAGTGGGT
1 AGGTACAGTGCT-GTCCAGTGGGT
358870 AGGTACAGTGCTGTCCAGTGG
1 AGGTACAGTGCTGTCCAGTGG
358891 AGTACAGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.18, C:0.16, G:0.41, T:0.25
Consensus pattern (23 bp):
AGGTACAGTGCTGTCCAGTGGGT
Found at i:362496 original size:2 final size:2
Alignment explanation
Indices: 362489--362516 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
362479 TTAAATGATC
362489 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
362517 CAGGAAAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:365347 original size:4 final size:4
Alignment explanation
Indices: 365338--365387 Score: 66
Period size: 4 Copynumber: 12.8 Consensus size: 4
365328 TGAAAAGTTT
* * *
365338 ACAG ACAG ACAG ACAT ACAT ACAG ACGG ACAG ACAG ACAG AC-G ACAG
1 ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG
365385 ACA
1 ACA
365388 AAATGTGATC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 3 0.07
4 38 0.93
ACGTcount: A:0.48, C:0.26, G:0.22, T:0.04
Consensus pattern (4 bp):
ACAG
Found at i:377580 original size:11 final size:11
Alignment explanation
Indices: 377566--377608 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
377556 ATTTTTTTAA
*
377566 TGGCTTAAATG
1 TGGCTTAAAGG
377577 TGGCTTAAAGG
1 TGGCTTAAAGG
*
377588 TGACTTAAAGG
1 TGGCTTAAAGG
377599 TGGCTTAAAG
1 TGGCTTAAAG
377609 AAGTTTGGAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.30, C:0.09, G:0.30, T:0.30
Consensus pattern (11 bp):
TGGCTTAAAGG
Found at i:381589 original size:47 final size:47
Alignment explanation
Indices: 381538--381630 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
381528 CGAAATAAAA
381538 CACACAACACAGTTCTAAATAACCAGTTCATATTTAGGTAATGAAAG
1 CACACAACACAGTTCTAAATAACCAGTTCATATTTAGGTAATGAAAG
381585 CACACAACACAGTTCTAAATAACCAGTTCATATTTAGGTAATGAAA
1 CACACAACACAGTTCTAAATAACCAGTTCATATTTAGGTAATGAAA
381631 CGATTCAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (47 bp):
CACACAACACAGTTCTAAATAACCAGTTCATATTTAGGTAATGAAAG
Found at i:390558 original size:17 final size:17
Alignment explanation
Indices: 390536--390572 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
390526 TTGCAAATAC
390536 TTCTCGCCGCGAACCAG
1 TTCTCGCCGCGAACCAG
*
390553 TTCTCGCTGCGAACCAG
1 TTCTCGCCGCGAACCAG
390570 TTC
1 TTC
390573 CTCTCCAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.16, C:0.38, G:0.22, T:0.24
Consensus pattern (17 bp):
TTCTCGCCGCGAACCAG
Found at i:392309 original size:2 final size:2
Alignment explanation
Indices: 392302--392338 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
392292 ATTTGTTATC
392302 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
392339 TTGCTCGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:395540 original size:6 final size:6
Alignment explanation
Indices: 395517--395564 Score: 52
Period size: 6 Copynumber: 8.7 Consensus size: 6
395507 TGATCACAAT
395517 TTGTCCG TTGTC- -TGTCG TTGTCG TTGTC- --GTCG TTGTCG TTGTCG
1 TTGT-CG TTGTCG TTGTCG TTGTCG TTGTCG TTGTCG TTGTCG TTGTCG
395561 TTGT
1 TTGT
395565 TAACTTTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
3 3 0.08
4 4 0.11
6 25 0.69
7 4 0.11
ACGTcount: A:0.00, C:0.19, G:0.31, T:0.50
Consensus pattern (6 bp):
TTGTCG
Found at i:395550 original size:15 final size:15
Alignment explanation
Indices: 395517--395561 Score: 72
Period size: 15 Copynumber: 2.9 Consensus size: 15
395507 TGATCACAAT
395517 TTGTCCGTTGTCTGTCG
1 TTGT-CGTTGTC-GTCG
395534 TTGTCGTTGTCGTCG
1 TTGTCGTTGTCGTCG
395549 TTGTCGTTGTCGT
1 TTGTCGTTGTCGT
395562 TGTTAACTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 17 0.61
16 7 0.25
17 4 0.14
ACGTcount: A:0.00, C:0.20, G:0.31, T:0.49
Consensus pattern (15 bp):
TTGTCGTTGTCGTCG
Found at i:401040 original size:8 final size:8
Alignment explanation
Indices: 401029--401072 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
401019 GTATGTATAA
401029 ATGCATGT
1 ATGCATGT
401037 ATGCATGT
1 ATGCATGT
*
401045 ATGCATGC
1 ATGCATGT
* *
401053 AGGCATGC
1 ATGCATGT
*
401061 ATGTATGT
1 ATGCATGT
401069 ATGC
1 ATGC
401073 GACTGTTAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (8 bp):
ATGCATGT
Found at i:401052 original size:20 final size:20
Alignment explanation
Indices: 401013--401072 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
401003 AAAACACATT
* *
401013 ATGTATGTATGTATAAATGC
1 ATGTATGCATGTATGAATGC
*
401033 ATGTATGCATGTATGCATGC
1 ATGTATGCATGTATGAATGC
* * *
401053 AGGCATGCATGTATGTATGC
1 ATGTATGCATGTATGAATGC
401073 GACTGTTAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (20 bp):
ATGTATGCATGTATGAATGC
Found at i:407441 original size:12 final size:12
Alignment explanation
Indices: 407426--407471 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
407416 AAAGTTTTTG
*
407426 TATATATACATG
1 TATATATACATA
407438 TATA-ATTACATA
1 TATATA-TACATA
*
407450 TATATATATATA
1 TATATATACATA
407462 TATATATACA
1 TATATATACA
407472 GGATACAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 1 0.03
12 27 0.93
13 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (12 bp):
TATATATACATA
Found at i:411466 original size:181 final size:184
Alignment explanation
Indices: 411137--411645 Score: 674
Period size: 181 Copynumber: 2.8 Consensus size: 184
411127 ATGATAACAT
* * *
411137 TCATGA-TTTTGATCATCAGCAAAAGTCATTAAAAATGCTAAAACTAATTACTAATGCCTAAATC
1 TCATGATTTTTGATCATCAGCAAAAGTCATTAAAAATGCCAAAACTAAATATTAATGCCTAAATC
* * * * * * *
411201 CTATGAACAACAGTTTAAATTAAATTATTTTTCTCCTTAAAAGTCTTTTTAACCATTAATAAAGA
66 CTATGAACAACAGTTTAAATTTAAGTATTTTTATCATTAAAAGTCTTTTAAACAATTAATAAAAA
411266 AGATTTTT-AGATAGGGAGGAAGATCGGGGAGAGGAGGCCA-TTT-T-T-CTA-A-AA
131 AG-TTTTTCAGATAGGGAGGAAGA---GGGAGAGGAGGCCATTTTCTATACTACACAA
*
411317 TCATGATTTTTGATCATCAGCAAAAGTCATCAAAAATGCCAAAACTAAATATTAATGCCTAAATC
1 TCATGATTTTTGATCATCAGCAAAAGTCATTAAAAATGCCAAAACTAAATATTAATGCCTAAATC
*
411382 CTATGAACAACAGTTTAAATTTAAGTATTTTTGTCATTAAAAGTCTTTTAAACAATTAATAAAAA
66 CTATGAACAACAGTTTAAATTTAAGTATTTTTATCATTAAAAGTCTTTTAAACAATTAATAAAAA
* *
411447 AGTTTTTCAGATCGGGAGGAAGAGGGAGGGGAGGCCATTTTCTAAAATAACCTACACAA
131 AGTTTTTCAGATAGGGAGGAAGAGGGAGAGGAGGCCATTTTCT---AT-A-CTACACAA
*
411506 TAACATGATTTTTGATCATCAGCAAAGGTCATTAAAAATGCCAAAACTAAATATTAATGCCTAAA
1 T--CATGATTTTTGATCATCAGCAAAAGTCATTAAAAATGCCAAAACTAAATATTAATGCCTAAA
* * * * * *
411571 TCCTGTGCACAACAGTTTATATTTAAGTATTTTTATCATTAAAAGTCTTTTAAACTATTAGTGAA
64 TCCTATGAACAACAGTTTAAATTTAAGTATTTTTATCATTAAAAGTCTTTTAAACAATTAATAAA
411636 AAAGTTTTTC
129 AAAGTTTTTC
411646 GAAAAGGCAT
Statistics
Matches: 292, Mismatches: 22, Indels: 19
0.88 0.07 0.06
Matches are distributed among these distances:
178 13 0.04
179 3 0.01
180 12 0.04
181 128 0.44
184 1 0.00
187 3 0.01
188 1 0.00
189 3 0.01
191 128 0.44
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (184 bp):
TCATGATTTTTGATCATCAGCAAAAGTCATTAAAAATGCCAAAACTAAATATTAATGCCTAAATC
CTATGAACAACAGTTTAAATTTAAGTATTTTTATCATTAAAAGTCTTTTAAACAATTAATAAAAA
AGTTTTTCAGATAGGGAGGAAGAGGGAGAGGAGGCCATTTTCTATACTACACAA
Found at i:417790 original size:31 final size:31
Alignment explanation
Indices: 417755--417815 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
417745 CTACCACCAT
* * *
417755 TTTACACAAAACGCTGTTGTGCTAGTACAAC
1 TTTACACAAAACGCTATCGCGCTAGTACAAC
*
417786 TTTACACAATACGCTATCGCGCTAGTACAA
1 TTTACACAAAACGCTATCGCGCTAGTACAA
417816 ACTTGATTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (31 bp):
TTTACACAAAACGCTATCGCGCTAGTACAAC
Found at i:420837 original size:11 final size:11
Alignment explanation
Indices: 420821--420882 Score: 67
Period size: 12 Copynumber: 5.5 Consensus size: 11
420811 GGGTTGGTTC
420821 GTTTTTGTTTT
1 GTTTTTGTTTT
420832 G-TTTT-TTTT
1 GTTTTTGTTTT
420841 GTTTTTTGTTTT
1 G-TTTTTGTTTT
420853 GTTTTT-TTTT
1 GTTTTTGTTTT
420863 GGTTTTTTGTTGTT
1 -G-TTTTTGTT-TT
420877 GTTTTT
1 GTTTTT
420883 TTTATTTGCA
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
9 5 0.11
10 8 0.18
11 11 0.25
12 15 0.34
13 3 0.07
14 2 0.05
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (11 bp):
GTTTTTGTTTT
Found at i:420848 original size:21 final size:22
Alignment explanation
Indices: 420822--420885 Score: 103
Period size: 23 Copynumber: 2.9 Consensus size: 22
420812 GGTTGGTTCG
420822 TTTTTGTTTTGTTTTTTTT-GT
1 TTTTTGTTTTGTTTTTTTTGGT
420843 TTTTTGTTTTGTTTTTTTTTGGT
1 TTTTTGTTTTG-TTTTTTTTGGT
420866 TTTTTGTTGTTGTTTTTTTT
1 TTTTTGTT-TTGTTTTTTTT
420886 ATTTGCATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
21 11 0.28
22 8 0.20
23 18 0.45
24 3 0.08
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (22 bp):
TTTTTGTTTTGTTTTTTTTGGT
Found at i:420849 original size:16 final size:16
Alignment explanation
Indices: 420828--420885 Score: 68
Period size: 15 Copynumber: 3.8 Consensus size: 16
420818 TTCGTTTTTG
420828 TTTTGTTTTTTTTGTT
1 TTTTGTTTTTTTTGTT
*
420844 TTTTGTTTTGTTT-TT
1 TTTTGTTTTTTTTGTT
*
420859 TTTTG-GTTTTTTG-T
1 TTTTGTTTTTTTTGTT
*
420873 TGTTGTTTTTTTT
1 TTTTGTTTTTTTT
420886 ATTTGCATTG
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
14 10 0.29
15 13 0.37
16 12 0.34
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (16 bp):
TTTTGTTTTTTTTGTT
Found at i:420867 original size:23 final size:22
Alignment explanation
Indices: 420822--420885 Score: 103
Period size: 21 Copynumber: 2.9 Consensus size: 22
420812 GGTTGGTTCG
420822 TTTTTGTTTTG-TTTTTTTTGT
1 TTTTTGTTTTGTTTTTTTTTGT
420843 TTTTTGTTTTGTTTTTTTTTGGT
1 TTTTTGTTTTGTTTTTTTTT-GT
420866 TTTTTGTTGTTGTTTTTTTT
1 TTTTTGTT-TTGTTTTTTTT
420886 ATTTGCATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
21 11 0.28
22 8 0.20
23 10 0.25
24 11 0.28
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (22 bp):
TTTTTGTTTTGTTTTTTTTTGT
Found at i:424318 original size:18 final size:18
Alignment explanation
Indices: 424282--424322 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
424272 TATTAGGATA
*
424282 TTAAATCAAGTACCGTCT
1 TTAAATCAAGTACCATCT
**
424300 TTAAATCAAGTGTCATCT
1 TTAAATCAAGTACCATCT
424318 TTAAA
1 TTAAA
424323 ACTGTTAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (18 bp):
TTAAATCAAGTACCATCT
Found at i:431471 original size:21 final size:21
Alignment explanation
Indices: 431446--431532 Score: 79
Period size: 21 Copynumber: 4.2 Consensus size: 21
431436 TTTTTCTATA
431446 AAATATGTCGACATGCAAGAT
1 AAATATGTCGACATGCAAGAT
* *
431467 AAATATGTTGCCATGCAAGAT
1 AAATATGTCGACATGCAAGAT
* * * *
431488 GATTATGTCAACATGCAACAT
1 AAATATGTCGACATGCAAGAT
* *
431509 AACTATGGT-GACATGAAAGA-
1 AAATAT-GTCGACATGCAAGAT
431529 AAAT
1 AAAT
431533 TGCAATCAGA
Statistics
Matches: 51, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
20 3 0.06
21 46 0.90
22 2 0.04
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (21 bp):
AAATATGTCGACATGCAAGAT
Found at i:431643 original size:21 final size:21
Alignment explanation
Indices: 431617--431720 Score: 122
Period size: 21 Copynumber: 5.0 Consensus size: 21
431607 ATGCTACCTT
*
431617 TTTATGTCAACGTGCAACTTA
1 TTTATGTCAACATGCAACTTA
* **
431638 TTTATGTTAACATGCAAGATA
1 TTTATGTCAACATGCAACTTA
*
431659 -TTATG-CTGACATGCAACTTA
1 TTTATGTC-AACATGCAACTTA
*
431679 TTTATGTCGACATGCAACTTA
1 TTTATGTCAACATGCAACTTA
*
431700 TTTATGTGAACATGCAACTTA
1 TTTATGTCAACATGCAACTTA
431721 CGTATGTTGA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
20 15 0.21
21 54 0.77
22 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (21 bp):
TTTATGTCAACATGCAACTTA
Found at i:431726 original size:21 final size:20
Alignment explanation
Indices: 431629--431735 Score: 117
Period size: 21 Copynumber: 5.2 Consensus size: 20
431619 TATGTCAACG
*
431629 TGCAACTTATTTATGTTAACA
1 TGCAACTTATTTATG-TGACA
**
431650 TGCAAGATA-TTATGCTGACA
1 TGCAACTTATTTATG-TGACA
431670 TGCAACTTATTTATGTCGACA
1 TGCAACTTATTTATGT-GACA
431691 TGCAACTTATTTATGTGAACA
1 TGCAACTTATTTATGTG-ACA
**
431712 TGCAACTTACGTATGTTGACA
1 TGCAACTTATTTATG-TGACA
431733 TGC
1 TGC
431736 GAGATGAATA
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
20 18 0.24
21 54 0.73
22 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (20 bp):
TGCAACTTATTTATGTGACA
Found at i:431747 original size:21 final size:21
Alignment explanation
Indices: 431723--431798 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
431713 GCAACTTACG
*
431723 TATGTTGACATGCGAGATGAA
1 TATGTTGACATGCGAGATAAA
* ** **
431744 TATGTTGACATGCAACTTAGT
1 TATGTTGACATGCGAGATAAA
*
431765 TATGTTTACATGCGAGATAAA
1 TATGTTGACATGCGAGATAAA
431786 TATGTTGACATGC
1 TATGTTGACATGC
431799 AACTTATAAG
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (21 bp):
TATGTTGACATGCGAGATAAA
Found at i:431748 original size:42 final size:41
Alignment explanation
Indices: 431629--431805 Score: 178
Period size: 42 Copynumber: 4.2 Consensus size: 41
431619 TATGTCAACG
* * * * *
431629 TGCAACTTATTTATGTTAACATGCAAGATATTATGCTGACA
1 TGCAACTTATGTATGTTGACATGCGAGATAATATGTTGACA
* * * ** *
431670 TGCAACTTATTTATGTCGACATGCAACTTATTTATG-TGAACA
1 TGCAACTTATGTATGTTGACATGCGAGATA-ATATGTTG-ACA
*
431712 TGCAACTTACGTATGTTGACATGCGAGATGAATATGTTGACA
1 TGCAACTTATGTATGTTGACATGCGAGAT-AATATGTTGACA
*
431754 TGCAACTTA-GTTATGTTTACATGCGAGATAAATATGTTGACA
1 TGCAACTTATG-TATGTTGACATGCGAGAT-AATATGTTGACA
431796 TGCAACTTAT
1 TGCAACTTAT
431806 AAGTTGTATG
Statistics
Matches: 117, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
41 29 0.25
42 85 0.73
43 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.36
Consensus pattern (41 bp):
TGCAACTTATGTATGTTGACATGCGAGATAATATGTTGACA
Found at i:431761 original size:63 final size:62
Alignment explanation
Indices: 431619--431802 Score: 165
Period size: 63 Copynumber: 2.9 Consensus size: 62
431609 GCTACCTTTT
* * * * * * *
431619 TATGTCAACGTGCAACTTATTTATGTTAACATGCAAGATATTATGCTGACATGCAACTTATT
1 TATGTCGACATGCAACTTATTTATGTGAACATGCAACATAGTATGCTGACATGCAACTGATA
* *
431681 TATGTCGACATGCAACTTATTTATGTGAACATGCAACTTACGTATGTTGACATGCGAGA-TGA-A
1 TATGTCGACATGCAACTTATTTATGTGAACATGCAACATA-GTATGCTGACATGC-A-ACTGATA
* * ** * * * *
431744 TATGTTGACATGCAACTTAGTTATGTTTACATGCGAGATAAATATGTTGACATGCAACT
1 TATGTCGACATGCAACTTATTTATGTGAACATGCAACAT-AGTATGCTGACATGCAACT
431803 TATAAGTTGT
Statistics
Matches: 100, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
61 1 0.01
62 37 0.37
63 57 0.57
64 4 0.04
65 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (62 bp):
TATGTCGACATGCAACTTATTTATGTGAACATGCAACATAGTATGCTGACATGCAACTGATA
Found at i:431943 original size:105 final size:105
Alignment explanation
Indices: 431804--432169 Score: 642
Period size: 105 Copynumber: 3.5 Consensus size: 105
431794 CATGCAACTT
* * * *
431804 ATAAGTTGTATGTCAATATAAAGAAGTTGCATGTTAACATAAATAAGTTGCATGTCAGCATATTT
1 ATAAGTTGCATGTCGACATAAAGAAGTTGCATGTTAACATAAATAAGTTGCATGTCAACATATTT
431869 ATCTTGCATGTTAACATAACTAAGTTGCATGTCGACATAA
66 ATCTTGCATGTTAACATAACTAAGTTGCATGTCGACATAA
*
431909 ATAAGTTGCATGTAGACATAAAGAAGTTGCATGTTAACATAAATAAGTTGCATGTCAACATATTT
1 ATAAGTTGCATGTCGACATAAAGAAGTTGCATGTTAACATAAATAAGTTGCATGTCAACATATTT
* *
431974 AACTTGCATGTTTACATAACTAAGTTGCATGTCGACATAA
66 ATCTTGCATGTTAACATAACTAAGTTGCATGTCGACATAA
* *
432014 ATAAGTTGCATGTCGACATAAAGAAGTTGCATGTTAACATAAATGAGTTGCATGTCAACATATCT
1 ATAAGTTGCATGTCGACATAAAGAAGTTGCATGTTAACATAAATAAGTTGCATGTCAACATATTT
*
432079 ATCTTCCATGTTAACATAACTAAGTTGCATGTCGACATAA
66 ATCTTGCATGTTAACATAACTAAGTTGCATGTCGACATAA
432119 ATAAGTTGCATGTCGACATAAAGAAGTTGCATGTTAACATAAATAAGTTGC
1 ATAAGTTGCATGTCGACATAAAGAAGTTGCATGTTAACATAAATAAGTTGC
432170 GTGTTGACAT
Statistics
Matches: 247, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 247 1.00
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (105 bp):
ATAAGTTGCATGTCGACATAAAGAAGTTGCATGTTAACATAAATAAGTTGCATGTCAACATATTT
ATCTTGCATGTTAACATAACTAAGTTGCATGTCGACATAA
Found at i:432174 original size:21 final size:21
Alignment explanation
Indices: 431804--432184 Score: 377
Period size: 21 Copynumber: 18.1 Consensus size: 21
431794 CATGCAACTT
* * *
431804 ATAAGTTGTATGTCAATATAA
1 ATAAGTTGCATGTTAACATAA
*
431825 AGAAGTTGCATGTTAACATAA
1 ATAAGTTGCATGTTAACATAA
* * *
431846 ATAAGTTGCATGTCAGCATAT
1 ATAAGTTGCATGTTAACATAA
* **
431867 TTATCTTGCATGTTAACATAA
1 ATAAGTTGCATGTTAACATAA
* **
431888 CTAAGTTGCATGTCGACATAA
1 ATAAGTTGCATGTTAACATAA
431909 ATAAGTTGCATG-TAGACATAA
1 ATAAGTTGCATGTTA-ACATAA
*
431930 AGAAGTTGCATGTTAACATAA
1 ATAAGTTGCATGTTAACATAA
* *
431951 ATAAGTTGCATGTCAACATAT
1 ATAAGTTGCATGTTAACATAA
* * *
431972 TTAACTTGCATGTTTACATAA
1 ATAAGTTGCATGTTAACATAA
* **
431993 CTAAGTTGCATGTCGACATAA
1 ATAAGTTGCATGTTAACATAA
**
432014 ATAAGTTGCATGTCGACATAA
1 ATAAGTTGCATGTTAACATAA
*
432035 AGAAGTTGCATGTTAACATAA
1 ATAAGTTGCATGTTAACATAA
* * *
432056 ATGAGTTGCATGTCAACATAT
1 ATAAGTTGCATGTTAACATAA
* ** *
432077 CTATCTTCCATGTTAACATAA
1 ATAAGTTGCATGTTAACATAA
* **
432098 CTAAGTTGCATGTCGACATAA
1 ATAAGTTGCATGTTAACATAA
**
432119 ATAAGTTGCATGTCGACATAA
1 ATAAGTTGCATGTTAACATAA
*
432140 AGAAGTTGCATGTTAACATAA
1 ATAAGTTGCATGTTAACATAA
* * *
432161 ATAAGTTGCGTGTTGACATCA
1 ATAAGTTGCATGTTAACATAA
432182 ATA
1 ATA
432185 TGTAGCGTAT
Statistics
Matches: 295, Mismatches: 63, Indels: 4
0.81 0.17 0.01
Matches are distributed among these distances:
21 293 0.99
22 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (21 bp):
ATAAGTTGCATGTTAACATAA
Found at i:432282 original size:21 final size:21
Alignment explanation
Indices: 432258--432342 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 21
432248 ATTTAATTGC
432258 AGTTTTCTTGCATGTCAACAT
1 AGTTTTCTTGCATGTCAACAT
* ** *
432279 AGTTTTGTTGCATGTTGATAT
1 AGTTTTCTTGCATGTCAACAT
** * *
432300 AACTATCTTGCAAGTCAACAT
1 AGTTTTCTTGCATGTCAACAT
* *
432321 -CTTTATCTTGCATGTCGACAT
1 AGTTT-TCTTGCATGTCAACAT
432342 A
1 A
432343 ATTAAAAGAA
Statistics
Matches: 45, Mismatches: 17, Indels: 3
0.69 0.26 0.05
Matches are distributed among these distances:
20 1 0.02
21 44 0.98
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (21 bp):
AGTTTTCTTGCATGTCAACAT
Found at i:442299 original size:21 final size:21
Alignment explanation
Indices: 442274--442324 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
442264 ATTTTTCTGA
* *
442274 TACACGCACGATC-CCGCACGT
1 TACACGAACGATCACC-CACGG
442295 TACACGAACGATCACCCACGG
1 TACACGAACGATCACCCACGG
442316 TACACGAAC
1 TACACGAAC
442325 TATTAAACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.31, C:0.39, G:0.18, T:0.12
Consensus pattern (21 bp):
TACACGAACGATCACCCACGG
Found at i:443434 original size:2 final size:2
Alignment explanation
Indices: 443427--443465 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
443417 ACGATAACAT
443427 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
443466 NNNNNNNNNN
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:443519 original size:2 final size:2
Alignment explanation
Indices: 443512--443563 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
443502 NNNNNNNNNN
443512 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
443554 AG AG AG AG AG
1 AG AG AG AG AG
443564 TATAGTATCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:443996 original size:24 final size:24
Alignment explanation
Indices: 443969--444049 Score: 153
Period size: 24 Copynumber: 3.4 Consensus size: 24
443959 AAGTAGATCA
443969 CGCCGTAGAAGTTCCGGACGTTCT
1 CGCCGTAGAAGTTCCGGACGTTCT
443993 CGCCGTAGAAGTTCCGGACGTTCT
1 CGCCGTAGAAGTTCCGGACGTTCT
*
444017 CGCCGTAGAAGTTCTGGACGTTCT
1 CGCCGTAGAAGTTCCGGACGTTCT
444041 CGCCGTAGA
1 CGCCGTAGA
444050 GGATCTAGAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 56 1.00
ACGTcount: A:0.17, C:0.28, G:0.30, T:0.25
Consensus pattern (24 bp):
CGCCGTAGAAGTTCCGGACGTTCT
Found at i:444065 original size:24 final size:24
Alignment explanation
Indices: 443990--444078 Score: 79
Period size: 24 Copynumber: 3.7 Consensus size: 24
443980 TTCCGGACGT
* ** * *
443990 TCTCGCCGTAGAAGTTCCGGACGT
1 TCTCGCCGTAGAAGATCTAGAAGG
* * * *
444014 TCTCGCCGTAGAAGTTCTGGACGT
1 TCTCGCCGTAGAAGATCTAGAAGG
*
444038 TCTCGCCGTAGAGGATCTAGAAGG
1 TCTCGCCGTAGAAGATCTAGAAGG
*
444062 TCTCGCCGTAGCAGATC
1 TCTCGCCGTAGAAGATC
444079 CAGACGATCC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 57 1.00
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.25
Consensus pattern (24 bp):
TCTCGCCGTAGAAGATCTAGAAGG
Found at i:444066 original size:48 final size:48
Alignment explanation
Indices: 443969--444072 Score: 145
Period size: 48 Copynumber: 2.2 Consensus size: 48
443959 AAGTAGATCA
* * * *
443969 CGCCGTAGAAGTTCCGGACGTTCTCGCCGTAGAAGTTCCGGACGTTCT
1 CGCCGTAGAAGTTCCGGACGTTCTCGCCGTAGAAGATCCAGAAGGTCT
* * *
444017 CGCCGTAGAAGTTCTGGACGTTCTCGCCGTAGAGGATCTAGAAGGTCT
1 CGCCGTAGAAGTTCCGGACGTTCTCGCCGTAGAAGATCCAGAAGGTCT
444065 CGCCGTAG
1 CGCCGTAG
444073 CAGATCCAGA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.18, C:0.27, G:0.31, T:0.24
Consensus pattern (48 bp):
CGCCGTAGAAGTTCCGGACGTTCTCGCCGTAGAAGATCCAGAAGGTCT
Found at i:444104 original size:24 final size:24
Alignment explanation
Indices: 444077--444136 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
444067 CCGTAGCAGA
444077 TCCAGACGATCCGGTCGCGGACGT
1 TCCAGACGATCCGGTCGCGGACGT
* * *
444101 TCCAGACAATCCGGTGGTGGACGT
1 TCCAGACGATCCGGTCGCGGACGT
444125 TCCAGACGATCC
1 TCCAGACGATCC
444137 AGACGTAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.20, C:0.32, G:0.30, T:0.18
Consensus pattern (24 bp):
TCCAGACGATCCGGTCGCGGACGT
Found at i:447102 original size:2 final size:2
Alignment explanation
Indices: 447095--447149 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
447085 ATTGAAGCAA
447095 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
447137 CT CT CT CT CT CT C
1 CT CT CT CT CT CT C
447150 CATGTAATCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:447254 original size:17 final size:17
Alignment explanation
Indices: 447227--447275 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
447217 TTTGTGGACA
*
447227 ATGTCAGTTTTACATGC
1 ATGTCAATTTTACATGC
* *
447244 ATTTCAATTTTACAGGC
1 ATGTCAATTTTACATGC
447261 ATGTCAATTTTACAT
1 ATGTCAATTTTACAT
447276 ATGATTAACC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (17 bp):
ATGTCAATTTTACATGC
Found at i:448733 original size:2 final size:2
Alignment explanation
Indices: 448728--448758 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
448718 TTTGAAGTAA
448728 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
448759 CATGTAATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:448863 original size:17 final size:18
Alignment explanation
Indices: 448836--448884 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
448826 TTTGTGGACA
448836 ATGTCAG-TTTTACATGC
1 ATGTCAGATTTTACATGC
* *
448853 ATTTCA-ATTTTACAGGC
1 ATGTCAGATTTTACATGC
448870 ATGTCAGA-TTTACAT
1 ATGTCAGATTTTACAT
448885 ATGATTGGCC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 25 0.96
18 1 0.04
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (18 bp):
ATGTCAGATTTTACATGC
Found at i:449455 original size:2 final size:2
Alignment explanation
Indices: 449448--449480 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
449438 TTTACATAAT
449448 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
449481 TGTCATCACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:450077 original size:22 final size:22
Alignment explanation
Indices: 450037--450078 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
450027 ATACAGTGTG
* *
450037 TGTATATACATGTATATATAAC
1 TGTATATACAAGTACATATAAC
*
450059 TGTATATATAAGTACATATA
1 TGTATATACAAGTACATATA
450079 CACCGTTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (22 bp):
TGTATATACAAGTACATATAAC
Found at i:452850 original size:2 final size:2
Alignment explanation
Indices: 452845--452879 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
452835 ATATATACAC
452845 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
452880 ATCTTAAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:458608 original size:31 final size:31
Alignment explanation
Indices: 458573--458633 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
458563 CTTTAAAATT
458573 GTAATGTTGAATGAACTGTATTTATATATTA
1 GTAATGTTGAATGAACTGTATTTATATATTA
458604 GTAATGTTGAATGAACTGTATTTATATATT
1 GTAATGTTGAATGAACTGTATTTATATATT
458634 TTCGAGATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.16, T:0.46
Consensus pattern (31 bp):
GTAATGTTGAATGAACTGTATTTATATATTA
Found at i:460181 original size:22 final size:22
Alignment explanation
Indices: 460153--460244 Score: 175
Period size: 22 Copynumber: 4.2 Consensus size: 22
460143 TTGAGCCATC
460153 CTTACTGGGCATAGCATCAAGT
1 CTTACTGGGCATAGCATCAAGT
460175 CTTACTGGGCATAGCATCAAGT
1 CTTACTGGGCATAGCATCAAGT
*
460197 CTTCCTGGGCATAGCATCAAGT
1 CTTACTGGGCATAGCATCAAGT
460219 CTTACTGGGCATAGCATCAAGT
1 CTTACTGGGCATAGCATCAAGT
460241 CTTA
1 CTTA
460245 AGACGGCCAT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 68 1.00
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (22 bp):
CTTACTGGGCATAGCATCAAGT
Found at i:460774 original size:28 final size:28
Alignment explanation
Indices: 460734--460794 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
460724 ATACTTTTAC
460734 AAGTGATAGTTAAAGCCCATTATATCAG
1 AAGTGATAGTTAAAGCCCATTATATCAG
**
460762 AAGTGATAGTTAAAGTTCATTATATCAG
1 AAGTGATAGTTAAAGCCCATTATATCAG
460790 AAGTG
1 AAGTG
460795 TATATACTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (28 bp):
AAGTGATAGTTAAAGCCCATTATATCAG
Found at i:463470 original size:29 final size:29
Alignment explanation
Indices: 463416--464051 Score: 629
Period size: 29 Copynumber: 21.5 Consensus size: 29
463406 GAATGATAAT
* *
463416 GGTCAATGGAATGTCAAGCGGTGTCTACAA
1 GGTCCATGGAATGT-TAGCGGTGTCTACAA
*
463446 GGTCCATGGAA-GATTAGCTGTGTCTACAA
1 GGTCCATGGAATG-TTAGCGGTGTCTACAA
* * * * *
463475 GGGCCCTTAGAAGGTTAGCGGTGTC-ACCGA
1 -GGTCCATGGAATGTTAGCGGTGTCTA-CAA
*
463505 GGT-CAGTGGAATGTTAGCGGTGTCTATAA
1 GGTCCA-TGGAATGTTAGCGGTGTCTACAA
* * *
463534 GGTCAATGAAATGTTAGCGGTGTCAACAA
1 GGTCCATGGAATGTTAGCGGTGTCTACAA
* *
463563 GGTCAATGGAATGTAAGCGGTGTCTACAA
1 GGTCCATGGAATGTTAGCGGTGTCTACAA
463592 GGTCCATGGAATGTTAGCGGTGTCTACAA
1 GGTCCATGGAATGTTAGCGGTGTCTACAA
* *
463621 GGTCCATGGAATATAAGCGGTGTCTACAA
1 GGTCCATGGAATGTTAGCGGTGTCTACAA
* *
463650 GGTCAATGGAATGTCGAGCGGTGTCTACAA
1 GGTCCATGGAATGT-TAGCGGTGTCTACAA
* * *
463680 GTTCCATGGAATATAAGCGGTGTCTACAA
1 GGTCCATGGAATGTTAGCGGTGTCTACAA
*
463709 GGTCAATGGAATGTTAGCGGTGTCTACAA
1 GGTCCATGGAATGTTAGCGGTGTCTACAA
*
463738 GGTCCATGGAAT-TTAAGCGGTGTCTACAG
1 GGTCCATGGAATGTT-AGCGGTGTCTACAA
* **
463767 GGTCC-TGGGAATGTCGAGCGGTGTCTACGG
1 GGTCCAT-GGAATGT-TAGCGGTGTCTACAA
* *
463797 GGT-CTTGGGAATGTCGAGCGGTGTCTACAA
1 GGTCCAT-GGAATGT-TAGCGGTGTCTACAA
* * *
463827 GGTCAATTGAATGTTATCGGTGTCTAC-A
1 GGTCCATGGAATGTTAGCGGTGTCTACAA
*
463855 GGTACATGTACATTAGAATGTTAGCGGTGTCTACAA
1 GGT-C-----CA-TGGAATGTTAGCGGTGTCTACAA
* * *
463891 GGTCAATGGAATATAAGCGGTGTCTACAA
1 GGTCCATGGAATGTTAGCGGTGTCTACAA
* * * *
463920 GGTCAATGGAATATAAGCGGTGTCTATAA
1 GGTCCATGGAATGTTAGCGGTGTCTACAA
* *
463949 GGTCAATGGAATGTTAGCAGTGTCTACAA
1 GGTCCATGGAATGTTAGCGGTGTCTACAA
* *
463978 GGTCCATAGAATGTCGAGCGGTGTCTACAA
1 GGTCCATGGAATGT-TAGCGGTGTCTACAA
*
464008 GGTCCATGGAATGTTAGCGGTGTCTATAA
1 GGTCCATGGAATGTTAGCGGTGTCTACAA
** *
464037 GACCCTTGGAATGTT
1 GGTCCATGGAATGTT
464052 GATGGAGTTG
Statistics
Matches: 514, Mismatches: 69, Indels: 47
0.82 0.11 0.07
Matches are distributed among these distances:
28 8 0.02
29 345 0.67
30 134 0.26
31 2 0.00
34 1 0.00
35 20 0.04
36 4 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (29 bp):
GGTCCATGGAATGTTAGCGGTGTCTACAA
Found at i:463706 original size:117 final size:116
Alignment explanation
Indices: 463416--464033 Score: 679
Period size: 117 Copynumber: 5.2 Consensus size: 116
463406 GAATGATAAT
* * * * *
463416 GGTCAATGGAATGTCAAGCGGTGTCTACAAGGTCCATGGAAGATTAGCTGTGTCTACAAGGGCCC
1 GGTCAATGGAATGT-AAGCGGTGTCTACAAGGTCCATGGAATATAAGCGGTGTCTACAA-GGTCA
* * * * * *
463481 TTAGAAGGTTAGCGGTGTC-ACCGAGGT-CAGTGGAATGTTAGCGGTGTCTATAA
64 ATGGAATGTTAGCGGTGTCTA-CAAGGTCCA-TGGAATGTAAGCGGTGTCTACAA
* * * * * *
463534 GGTCAATGAAATGTTAGCGGTGTCAACAAGGTCAATGGAATGTAAGCGGTGTCTACAAGGTCCAT
1 GGTCAATGGAATGTAAGCGGTGTCTACAAGGTCCATGGAATATAAGCGGTGTCTACAAGGTCAAT
*
463599 GGAATGTTAGCGGTGTCTACAAGGTCCATGGAATATAAGCGGTGTCTACAA
66 GGAATGTTAGCGGTGTCTACAAGGTCCATGGAATGTAAGCGGTGTCTACAA
* *
463650 GGTCAATGGAATGTCGAGCGGTGTCTACAAGTTCCATGGAATATAAGCGGTGTCTACAAGGTCAA
1 GGTCAATGGAATGT-AAGCGGTGTCTACAAGGTCCATGGAATATAAGCGGTGTCTACAAGGTCAA
* *
463715 TGGAATGTTAGCGGTGTCTACAAGGTCCATGGAATTTAAGCGGTGTCTACAG
65 TGGAATGTTAGCGGTGTCTACAAGGTCCATGGAATGTAAGCGGTGTCTACAA
* * ** * * *
463767 GGTC-CTGGGAATGTCGAGCGGTGTCTACGGGGT-CTTGGGAATGTCGAGCGGTGTCTACAAGGT
1 GGTCAAT-GGAATGT-AAGCGGTGTCTACAAGGTCCAT-GGAATAT-AAGCGGTGTCTACAAGGT
* * * *
463830 CAATTGAATGTTATCGGTGTCTAC-AGGTACATGTACATTAGAATGTTAGCGGTGTCTACAA
62 CAATGGAATGTTAGCGGTGTCTACAAGGT-C-----CA-TGGAATGTAAGCGGTGTCTACAA
* * *
463891 GGTCAATGGAATATAAGCGGTGTCTACAAGGTCAATGGAATATAAGCGGTGTCTATAAGGTCAAT
1 GGTCAATGGAATGTAAGCGGTGTCTACAAGGTCCATGGAATATAAGCGGTGTCTACAAGGTCAAT
* * *
463956 GGAATGTTAGCAGTGTCTACAAGGTCCATAGAATGTCGAGCGGTGTCTACAA
66 GGAATGTTAGCGGTGTCTACAAGGTCCATGGAATGT-AAGCGGTGTCTACAA
* *
464008 GGTCCATGGAATGTTAGCGGTGTCTA
1 GGTCAATGGAATGTAAGCGGTGTCTA
464034 TAAGACCCTT
Statistics
Matches: 428, Mismatches: 55, Indels: 35
0.83 0.11 0.07
Matches are distributed among these distances:
116 69 0.16
117 210 0.49
118 53 0.12
122 38 0.09
123 27 0.06
124 30 0.07
125 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (116 bp):
GGTCAATGGAATGTAAGCGGTGTCTACAAGGTCCATGGAATATAAGCGGTGTCTACAAGGTCAAT
GGAATGTTAGCGGTGTCTACAAGGTCCATGGAATGTAAGCGGTGTCTACAA
Found at i:470038 original size:2 final size:2
Alignment explanation
Indices: 470031--470069 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
470021 AAAGTGTAAT
470031 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
470070 GTGTGTGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:470074 original size:2 final size:2
Alignment explanation
Indices: 470069--470107 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
470059 TCTCTCTCTC
470069 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
470108 ACTTTTACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:471201 original size:8 final size:8
Alignment explanation
Indices: 471188--471254 Score: 54
Period size: 8 Copynumber: 8.9 Consensus size: 8
471178 TTAGGTCGAG
471188 GTGCGAAA
1 GTGCGAAA
471196 GTGCG-AA
1 GTGCGAAA
471203 GTTGCG-AA
1 G-TGCGAAA
471211 G-GCGAAA
1 GTGCGAAA
*
471218 GTGCGAAG
1 GTGCGAAA
*
471226 GTGCG-AC
1 GTGCGAAA
*
471233 G-GCGAAG
1 GTGCGAAA
*
471240 GAGCGAAA
1 GTGCGAAA
471248 GTGCGAA
1 GTGCGAA
471255 GATGCGACGG
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
6 6 0.12
7 10 0.20
8 33 0.67
ACGTcount: A:0.31, C:0.15, G:0.43, T:0.10
Consensus pattern (8 bp):
GTGCGAAA
Found at i:471218 original size:22 final size:21
Alignment explanation
Indices: 471190--471255 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
471180 AGGTCGAGGT
471190 GCGAAAGTGCGAAGTTGCGAAG
1 GCGAAAGTGCGAAG-TGCGAAG
*
471212 GCGAAAGTGCGAAGGTGCGACG
1 GCGAAAGTGCGAA-GTGCGAAG
* *
471234 GCGAAGGAGCGAAAGTGCGAAG
1 GCGAAAGTGCG-AAGTGCGAAG
471256 ATGCGACGGC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 35 0.92
23 3 0.08
ACGTcount: A:0.32, C:0.15, G:0.44, T:0.09
Consensus pattern (21 bp):
GCGAAAGTGCGAAGTGCGAAG
Found at i:471224 original size:30 final size:30
Alignment explanation
Indices: 471188--471269 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
471178 TTAGGTCGAG
471188 GTGCGAAAGTGCGAAGTTGCGAA-G-GCGAAA
1 GTGCGAAAGTGCGAAG--GCGAAGGAGCGAAA
* *
471218 GTGCGAAGGTGCGACGGCGAAGGAGCGAAA
1 GTGCGAAAGTGCGAAGGCGAAGGAGCGAAA
*
471248 GTGCG-AAGATGCGACGGCGAAG
1 GTGCGAAAG-TGCGAAGGCGAAG
471270 CGCGAATATG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
28 5 0.11
29 3 0.07
30 38 0.83
ACGTcount: A:0.30, C:0.16, G:0.44, T:0.10
Consensus pattern (30 bp):
GTGCGAAAGTGCGAAGGCGAAGGAGCGAAA
Found at i:471237 original size:14 final size:14
Alignment explanation
Indices: 471220--471269 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
471210 AGGCGAAAGT
471220 GCGAAGGTGCGACG
1 GCGAAGGTGCGACG
* *
471234 GCGAAGGAGCGAAAG
1 GCGAAGGTGCG-ACG
*
471249 TGCGAAGATGCGACG
1 -GCGAAGGTGCGACG
471264 GCGAAG
1 GCGAAG
471270 CGCGAATATG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 16 0.55
15 4 0.14
16 9 0.31
ACGTcount: A:0.30, C:0.18, G:0.46, T:0.06
Consensus pattern (14 bp):
GCGAAGGTGCGACG
Found at i:471275 original size:21 final size:21
Alignment explanation
Indices: 471250--471312 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
471240 GAGCGAAAGT
*
471250 GCGAAGATGCGACGGCGAAGC
1 GCGAAGATGCGAAGGCGAAGC
* * *
471271 GCGAATATGCGATGGCGACAGT
1 GCGAAGATGCGAAGGCGA-AGC
* *
471293 GCGATGGTGCGAAGGCGAAG
1 GCGAAGATGCGAAGGCGAAG
471313 GAGCGATTCT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 18 0.53
22 16 0.47
ACGTcount: A:0.27, C:0.19, G:0.43, T:0.11
Consensus pattern (21 bp):
GCGAAGATGCGAAGGCGAAGC
Found at i:472201 original size:2 final size:2
Alignment explanation
Indices: 472194--472240 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
472184 TGGTGCCATT
472194 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
472236 GA GA G
1 GA GA G
472241 GCGCATAGTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:472485 original size:18 final size:18
Alignment explanation
Indices: 472462--472496 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
472452 ATAAAGCATT
472462 GATCAAAAGAACAAAGTA
1 GATCAAAAGAACAAAGTA
*
472480 GATCAAAAGAACGAAGT
1 GATCAAAAGAACAAAGT
472497 GTAATACTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.11, G:0.20, T:0.11
Consensus pattern (18 bp):
GATCAAAAGAACAAAGTA
Found at i:472510 original size:2 final size:2
Alignment explanation
Indices: 472503--472550 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
472493 AAGTGTAATA
472503 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
472545 CT CT CT
1 CT CT CT
472551 GTGTACGTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:478077 original size:17 final size:17
Alignment explanation
Indices: 478042--478080 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
478032 TTTTGACCAA
* *
478042 TCAATAAACAGTGCGTG
1 TCAATAAACAGAGCATG
*
478059 TCAATAAACAGAGTATG
1 TCAATAAACAGAGCATG
478076 TCAAT
1 TCAAT
478081 TTCTTCTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (17 bp):
TCAATAAACAGAGCATG
Found at i:487576 original size:64 final size:64
Alignment explanation
Indices: 487472--488233 Score: 1362
Period size: 64 Copynumber: 11.9 Consensus size: 64
487462 TAGAGACGGG
** * *
487472 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACTTATCTATTACAGTAATATACTGTACATAT
1 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGTACATAT
487536 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGTACATAT
1 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGTACATAT
487600 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGTACATAT
1 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGTACATAT
* *
487664 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGTAGTATATTGTACATAT
1 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGTACATAT
* * *
487728 AGAGGTGGTTGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGGATACTATACATAT
1 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGTACATAT
*
487792 AGAGGTGGTAGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGTACATAT
1 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGTACATAT
*
487856 AGAGGTGGTGGGCGCCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGTACATAT
1 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGTACATAT
* *
487920 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATATTGTACATGT
1 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGTACATAT
*
487984 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATATTGTACATAT
1 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGTACATAT
*
488048 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGTACATGT
1 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGTACATAT
* *
488112 AGAGGTGGTGGGCGCCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGTACATAA
1 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGTACATAT
*
488176 AGAGGTGGTGGGCGCCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGT
1 AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGT
488234 CAGGGATGGG
Statistics
Matches: 673, Mismatches: 25, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 673 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (64 bp):
AGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCAGTATACTGTACATAT
Found at i:488848 original size:18 final size:18
Alignment explanation
Indices: 488825--488866 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
488815 CTCCAGATTT
488825 AGCTATATAGCTTGAAAA
1 AGCTATATAGCTTGAAAA
* * *
488843 AGCTATATTGCTTTATAA
1 AGCTATATAGCTTGAAAA
488861 AGCTAT
1 AGCTAT
488867 TCAAAATAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
AGCTATATAGCTTGAAAA
Found at i:489845 original size:64 final size:64
Alignment explanation
Indices: 489743--490276 Score: 915
Period size: 64 Copynumber: 8.3 Consensus size: 64
489733 CCCCATCCCT
*
489743 GTATACTGTACATATAGAGGTGGTGGGCACCCACCAAGGTAATCAGAACAGATCTATTACAGCA
1 GTATACTGTACATATAGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCA
* *
489807 GTATATTGTACATATAGAGGTGGTGGGCACCTATCAAGGTAATCAGAACAGATCTATTACAGCA
1 GTATACTGTACATATAGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCA
* * * *
489871 GTATATTGTACATATAGAGGTGGTGGGCACCCATTAAGGTAATCAGAACAGATTTATTACAGTA
1 GTATACTGTACATATAGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCA
* * *
489935 GTATACTGTATATAAAGGGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCA
1 GTATACTGTACATATAGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCA
* *
489999 GTATATTGTACATATAGAGGTGGTGGGCACCTATCAAGGTAATCAGAACAGATCTATTACAGCA
1 GTATACTGTACATATAGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCA
490063 GTATACTGTACATATAGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCA
1 GTATACTGTACATATAGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCA
*
490127 GTATACTGTACATATAGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGTA
1 GTATACTGTACATATAGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCA
* * *
490191 ATATACTGTACATGTAGGGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCA
1 GTATACTGTACATATAGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCA
*
490255 GTATACTGTGCATATAGAGGTG
1 GTATACTGTACATATAGAGGTG
490277 ACCATACCTA
Statistics
Matches: 440, Mismatches: 30, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 440 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (64 bp):
GTATACTGTACATATAGAGGTGGTGGGCACCCATCAAGGTAATCAGAACAGATCTATTACAGCA
Found at i:492012 original size:53 final size:53
Alignment explanation
Indices: 491949--492110 Score: 182
Period size: 53 Copynumber: 3.1 Consensus size: 53
491939 CATCACTAGA
* * *
491949 AGGGGCCCCTC-CCTGTATGAATTACAGCAGGAGAAGAGGACAGCACAACAATG
1 AGGGGCCCCTCTCCT-TATGAAGTACAGCAGGACAAGAGGACAACACAACAATG
* * * * *
492002 AGGGGCCCCTCTCCTTATGTAGTCCATCAGGACAAGAGGACAATACAACAGTG
1 AGGGGCCCCTCTCCTTATGAAGTACAGCAGGACAAGAGGACAACACAACAATG
* * * * * *
492055 AGGGGCCCCTCTCCTTATGGAGTCCATCAGGACATGAGGACAATACAACAGTG
1 AGGGGCCCCTCTCCTTATGAAGTACAGCAGGACAAGAGGACAACACAACAATG
492108 AGG
1 AGG
492111 ACTGTACTGA
Statistics
Matches: 98, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 95 0.97
54 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.27, T:0.17
Consensus pattern (53 bp):
AGGGGCCCCTCTCCTTATGAAGTACAGCAGGACAAGAGGACAACACAACAATG
Found at i:497494 original size:14 final size:14
Alignment explanation
Indices: 497471--497516 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
497461 TGCCTTGAGT
* *
497471 TTTGTTTAATGAAC
1 TTTGTCTAATTAAC
*
497485 TTTGTCTAATTAAT
1 TTTGTCTAATTAAC
*
497499 TTTGACTAATTAAC
1 TTTGTCTAATTAAC
497513 TTTG
1 TTTG
497517 GTGATCCTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.28, C:0.09, G:0.11, T:0.52
Consensus pattern (14 bp):
TTTGTCTAATTAAC
Found at i:498436 original size:2 final size:2
Alignment explanation
Indices: 498431--498464 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
498421 GAGAAAAAAT
498431 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
498465 TGTAACCCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:504093 original size:148 final size:148
Alignment explanation
Indices: 503904--504451 Score: 944
Period size: 148 Copynumber: 3.7 Consensus size: 148
503894 AAGGACTCAT
* * *
503904 ACCCAGGGTACGCTTGTTCGGTGAACACTACTCACTGGGCTAGGGAAAGCCTGATCGGTGAACAC
1 ACCCAGGGTAAGCTTGTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACAC
* *
503969 TACCCACCTCGCATGGGACACTTGATCTAGCCTGGCTCCCGATGCCTCCCGATTGTGCAGGACAT
66 TACTCACCTCGCATGGGACACTCGATCTAGCCTGGCTCCCGATGCCTCCCGATTGTGCAGGACAT
504034 CGATCGGAAGGCCTCGGA
131 CGATCGGAAGGCCTCGGA
504052 ACCCAGGGTAAGCTTGTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACAC
1 ACCCAGGGTAAGCTTGTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACAC
*
504117 TACTCACCTCGCATGGGACACTCGATCTAACCTGGCTCCCGATGCCTCCCGATTGTGCAGGACAT
66 TACTCACCTCGCATGGGACACTCGATCTAGCCTGGCTCCCGATGCCTCCCGATTGTGCAGGACAT
504182 CGATCGGAAGGCCTCGGA
131 CGATCGGAAGGCCTCGGA
* *
504200 ACCCAGGGTAAGCTTGTTCAGTGAACACTACTCACTGGGCTATGGATAGCCTGATCGGTGAACAC
1 ACCCAGGGTAAGCTTGTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACAC
*
504265 TACTCACCTCGCATGGGACACTCGATCTAGCCTGGCCCCCGATGCCTCCCGATTGTGCAGG--A-
66 TACTCACCTCGCATGGGACACTCGATCTAGCCTGGCTCCCGATGCCTCCCGATTGTGCAGGACAT
504327 C-ATCGGAAGGCCTCGGA
131 CGATCGGAAGGCCTCGGA
*
504344 ACCCAGGGTACA-CCTGTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACA
1 ACCCAGGGTA-AGCTTGTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACA
* *
504408 CTACTCACCTCGCATGGGACACTCGATATAGGCTGGCTCCCGAT
65 CTACTCACCTCGCATGGGACACTCGATCTAGCCTGGCTCCCGAT
504452 TGAGCACGCA
Statistics
Matches: 383, Mismatches: 16, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
144 116 0.30
145 2 0.01
146 1 0.00
148 264 0.69
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.20
Consensus pattern (148 bp):
ACCCAGGGTAAGCTTGTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACAC
TACTCACCTCGCATGGGACACTCGATCTAGCCTGGCTCCCGATGCCTCCCGATTGTGCAGGACAT
CGATCGGAAGGCCTCGGA
Found at i:504637 original size:200 final size:200
Alignment explanation
Indices: 504294--504694 Score: 802
Period size: 200 Copynumber: 2.0 Consensus size: 200
504284 ACTCGATCTA
504294 GCCTGGCCCCCGATGCCTCCCGATTGTGCAGGACATCGGAAGGCCTCGGAACCCAGGGTACACCT
1 GCCTGGCCCCCGATGCCTCCCGATTGTGCAGGACATCGGAAGGCCTCGGAACCCAGGGTACACCT
504359 GTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACACTACTCACCTCGCATG
66 GTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACACTACTCACCTCGCATG
504424 GGACACTCGATATAGGCTGGCTCCCGATTGAGCACGCACATCGGAAGGCCTCGGAACCCAGGGTA
131 GGACACTCGATATAGGCTGGCTCCCGATTGAGCACGCACATCGGAAGGCCTCGGAACCCAGGGTA
504489 CACCT
196 CACCT
504494 GCCTGGCCCCCGATGCCTCCCGATTGTGCAGGACATCGGAAGGCCTCGGAACCCAGGGTACACCT
1 GCCTGGCCCCCGATGCCTCCCGATTGTGCAGGACATCGGAAGGCCTCGGAACCCAGGGTACACCT
504559 GTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACACTACTCACCTCGCATG
66 GTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACACTACTCACCTCGCATG
504624 GGACACTCGATATAGGCTGGCTCCCGATTGAGCACGCACATCGGAAGGCCTCGGAACCCAGGGTA
131 GGACACTCGATATAGGCTGGCTCCCGATTGAGCACGCACATCGGAAGGCCTCGGAACCCAGGGTA
504689 CACCT
196 CACCT
504694 G
1 G
504695 TTCAGTGAAC
Statistics
Matches: 201, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 201 1.00
ACGTcount: A:0.22, C:0.32, G:0.28, T:0.17
Consensus pattern (200 bp):
GCCTGGCCCCCGATGCCTCCCGATTGTGCAGGACATCGGAAGGCCTCGGAACCCAGGGTACACCT
GTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACACTACTCACCTCGCATG
GGACACTCGATATAGGCTGGCTCCCGATTGAGCACGCACATCGGAAGGCCTCGGAACCCAGGGTA
CACCT
Found at i:505025 original size:144 final size:145
Alignment explanation
Indices: 504644--505184 Score: 897
Period size: 145 Copynumber: 3.7 Consensus size: 145
504634 TATAGGCTGG
*
504644 CTCCCGATTGAGCACGCACATCGGAAGGCCTCGGAACCCAGGGTACACCTGTTCAGTGAACACTA
1 CTCCCGATTGAGCAAGCACATCGGAAGGCCTCGGAACCCAGGGTACACCTGTTCAGTGAACACTA
*
504709 CTCACTGGGCTAGGGACAGCCTGATCGGTGAACACTACTCACCTCGCATGGGACACTCGATATAG
66 CTCACTGGGCTAGGGACAGCCTGATCGGTGAACACTACTCACCTCGCATGGGACACTCGATCTAG
*
504774 GCTGGCTCCCGATGC
131 CCTGGCTCCCGATGC
*
504789 CTCCCGATTGAGCAAGCACATCGGAAGGCCTCGGAACCCAGGGTA-AGCTTGTTCAGTGAACACT
1 CTCCCGATTGAGCAAGCACATCGGAAGGCCTCGGAACCCAGGGTACA-CCTGTTCAGTGAACACT
*
504853 ACTCACTGGGCTAGGGATAGCCTGATCGGTGAACACTACTCACCTCGCATGGGACACTCGATCTA
65 ACTCACTGGGCTAGGGACAGCCTGATCGGTGAACACTACTCACCTCGCATGGGACACTCGATCTA
504918 GCCTGGCTCCCGATGC
130 GCCTGGCTCCCGATGC
* *
504934 CTCCCGATTGTGC-AGGACATCGGAAGGCCTCGGAACCCAGGGTACACCTGTTCAGTGAACACTA
1 CTCCCGATTGAGCAAGCACATCGGAAGGCCTCGGAACCCAGGGTACACCTGTTCAGTGAACACTA
* *
504998 CTCACTGGGCTAGGGACAGCCTAATCGGTGAACACTACTCACCTCGCATTGGACACTCGATCTAG
66 CTCACTGGGCTAGGGACAGCCTGATCGGTGAACACTACTCACCTCGCATGGGACACTCGATCTAG
*
505063 CCTGGCCCCCGATGC
131 CCTGGCTCCCGATGC
* * * * * *
505078 CTCCCGATTGTGCTAGGACATCGGAAGACCTCGGAACCCAGGGTACGCTTGTTCAGTGAACACTA
1 CTCCCGATTGAGCAAGCACATCGGAAGGCCTCGGAACCCAGGGTACACCTGTTCAGTGAACACTA
* *
505143 CTCACTGGGCTAGGGACAGCCTGATCGGTGAACCCTATTCAC
66 CTCACTGGGCTAGGGACAGCCTGATCGGTGAACACTACTCAC
505185 TGGGTTGGGG
Statistics
Matches: 375, Mismatches: 18, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
144 137 0.37
145 238 0.63
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (145 bp):
CTCCCGATTGAGCAAGCACATCGGAAGGCCTCGGAACCCAGGGTACACCTGTTCAGTGAACACTA
CTCACTGGGCTAGGGACAGCCTGATCGGTGAACACTACTCACCTCGCATGGGACACTCGATCTAG
CCTGGCTCCCGATGC
Found at i:505078 original size:289 final size:279
Alignment explanation
Indices: 504494--505184 Score: 1107
Period size: 289 Copynumber: 2.4 Consensus size: 279
504484 GGGTACACCT
*
504494 GCCTGGCCCCCGATGCCTCCCGATTGTGCAGGACATCGGAAGGCCTCGGAACCCAGGGTACA-CC
1 GCCTGGCCCCCGATGCCTCCCGATTGTGCAGGACATCGGAAGGCCTCGGAACCCAGGGTA-AGCT
504558 TGTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACACTACTCACCTCGCAT
65 TGTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACACTACTCACCTCGCAT
504623 GGGACACTCGATATAGGCTGGCTCCCGATTGAGCACGCACATCGGAAGGCCTCGGAACCCAGGGT
130 GGGACACTCGATATAGGCTGGCTCCCGATTGAGCACGCACATCGGAAGGCCTCGGAACCCAGGGT
*
504688 ACACCTGTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACACTACTCACCT
195 ACACCTGTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTAATCGGTGAACACTACTCACCT
504753 CGCATGGGACACTCGATATA
260 CGCATGGGACACTCGATATA
* * * *
504773 GGCTGGCTCCCGATGCCTCCCGATTGAGCAAGCACATCGGAAGGCCTCGGAACCCAGGGTAAGCT
1 GCCTGGCCCCCGATGCCTCCCGATTGTGC-AGGACATCGGAAGGCCTCGGAACCCAGGGTAAGCT
*
504838 TGTTCAGTGAACACTACTCACTGGGCTAGGGATAGCCTGATCGGTGAACACTACTCACCTCGCAT
65 TGTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACACTACTCACCTCGCAT
* * *
504903 GGGACACTCGATCTAGCCTGGCTCCCGATGCCTCCCGATTGTGCA-GGACATCGGAAGGCCTCGG
130 GGGACACTCGATATA----GGCT---G--G-CTCCCGATTGAGCACGCACATCGGAAGGCCTCGG
504967 AACCCAGGGTACACCTGTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTAATCGGTGAACA
185 AACCCAGGGTACACCTGTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTAATCGGTGAACA
* *
505032 CTACTCACCTCGCATTGGACACTCGATCTA
250 CTACTCACCTCGCATGGGACACTCGATATA
* *
505062 GCCTGGCCCCCGATGCCTCCCGATTGTGCTAGGACATCGGAAGACCTCGGAACCCAGGGTACGCT
1 GCCTGGCCCCCGATGCCTCCCGATTGTGC-AGGACATCGGAAGGCCTCGGAACCCAGGGTAAGCT
* *
505127 TGTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACCCTATTCAC
65 TGTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACACTACTCAC
505185 TGGGTTGGGG
Statistics
Matches: 378, Mismatches: 22, Indels: 14
0.91 0.05 0.03
Matches are distributed among these distances:
279 27 0.07
280 109 0.29
284 4 0.01
287 1 0.00
289 224 0.59
290 13 0.03
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (279 bp):
GCCTGGCCCCCGATGCCTCCCGATTGTGCAGGACATCGGAAGGCCTCGGAACCCAGGGTAAGCTT
GTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTGATCGGTGAACACTACTCACCTCGCATG
GGACACTCGATATAGGCTGGCTCCCGATTGAGCACGCACATCGGAAGGCCTCGGAACCCAGGGTA
CACCTGTTCAGTGAACACTACTCACTGGGCTAGGGACAGCCTAATCGGTGAACACTACTCACCTC
GCATGGGACACTCGATATA
Found at i:508155 original size:22 final size:21
Alignment explanation
Indices: 508125--508190 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
508115 AGGTCGAGGC
*
508125 GCGAGAGTGCGAAGTTGCGAAG
1 GCGAAAGTGCGAAG-TGCGAAG
*
508147 GCGAAAGTGCGAGAGTGCGACG
1 GCGAAAGTGCGA-AGTGCGAAG
* *
508169 GCGAAGGAGCGAAAGTGCGAAG
1 GCGAAAGTGCG-AAGTGCGAAG
508191 ATGCGACGGC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 34 0.92
23 3 0.08
ACGTcount: A:0.30, C:0.15, G:0.45, T:0.09
Consensus pattern (21 bp):
GCGAAAGTGCGAAGTGCGAAG
Found at i:508161 original size:30 final size:30
Alignment explanation
Indices: 508125--508204 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
508115 AGGTCGAGGC
508125 GCGAGAGTGCGAAGTTGCGAA-G-GCGAAAGT
1 GCGAGAGTGCGAAG--GCGAAGGAGCGAAAGT
*
508155 GCGAGAGTGCGACGGCGAAGGAGCGAAAGT
1 GCGAGAGTGCGAAGGCGAAGGAGCGAAAGT
*
508185 GCGA-AGATGCGACGGCGAAG
1 GCGAGAG-TGCGAAGGCGAAG
508205 CGCGAAGTTG
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
28 5 0.11
29 3 0.07
30 38 0.83
ACGTcount: A:0.30, C:0.16, G:0.45, T:0.09
Consensus pattern (30 bp):
GCGAGAGTGCGAAGGCGAAGGAGCGAAAGT
Found at i:508202 original size:22 final size:22
Alignment explanation
Indices: 508177--508246 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
508167 CGGCGAAGGA
508177 GCGAAAGTGCGAAGATGCGACG
1 GCGAAAGTGCGAAGATGCGACG
* *
508199 GCG-AAGCGCGAAGTTGCGACG
1 GCGAAAGTGCGAAGATGCGACG
* * *
508220 GCGAGAGTGCGAAGGTGCGAAG
1 GCGAAAGTGCGAAGATGCGACG
508242 GCGAA
1 GCGAA
508247 GGAGCGATAC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
21 19 0.47
22 21 0.52
ACGTcount: A:0.29, C:0.19, G:0.44, T:0.09
Consensus pattern (22 bp):
GCGAAAGTGCGAAGATGCGACG
Found at i:508290 original size:22 final size:22
Alignment explanation
Indices: 508262--508323 Score: 115
Period size: 22 Copynumber: 2.8 Consensus size: 22
508252 GATACTACTA
508262 TCGCACTCTCGCCGTCGCAACT
1 TCGCACTCTCGCCGTCGCAACT
508284 TCGCACTCTCGCCGTCGCAACT
1 TCGCACTCTCGCCGTCGCAACT
*
508306 TCGCACTCTCGCCTTCGC
1 TCGCACTCTCGCCGTCGC
508324 CTTTACTGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.11, C:0.47, G:0.18, T:0.24
Consensus pattern (22 bp):
TCGCACTCTCGCCGTCGCAACT
Found at i:515521 original size:14 final size:14
Alignment explanation
Indices: 515502--515530 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
515492 GTCCAAATGA
515502 TAAAAAACTACAGC
1 TAAAAAACTACAGC
515516 TAAAAAACTACAGC
1 TAAAAAACTACAGC
515530 T
1 T
515531 TCTTCATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.21, G:0.07, T:0.17
Consensus pattern (14 bp):
TAAAAAACTACAGC
Found at i:516905 original size:155 final size:152
Alignment explanation
Indices: 516677--516953 Score: 392
Period size: 155 Copynumber: 1.8 Consensus size: 152
516667 GTCATTTGTA
* *
516677 ATATAACTGTTTCTAAATTTTCAGTTAATACGCTGAGCTGTGCAAAGGCCGTACGAACACTACTG
1 ATATAACTGTTTCTAAATTTTCAGTTAATACGCTGAGCTGTGCAAAGGCCGGACGAAAACTACTG
* * *
516742 ACATTTGAGGCCTTCGCTAGAAACTTGCAACATTTTTGTGCTTCTGTCATGGAAGGGCAATTATG
66 ACAGTTGAGGCCTTCGCAAGAAACTTGCAACATCTTTGTGCTTCTGTCATGGAAGGGCAATTATG
516807 AATGTGTCATTTATAATATGAT
131 AATGTGTCATTTATAATATGAT
* * * * * *
516829 ATATAATTGTTTCTAAATTTTTAGGTGTTTATACGCTGAGTTGTGCAAAGGCTGGACGAAAAGTA
1 ATATAACTGTTTCTAAATTTTCA---GTTAATACGCTGAGCTGTGCAAAGGCCGGACGAAAACTA
* * * *
516894 CTGGCAGTTGAGGCCTTGGCAAGAAATTTGCAGCATCTTTGTGCTTCTGTCATGGAAGGG
63 CTGACAGTTGAGGCCTTCGCAAGAAACTTGCAACATCTTTGTGCTTCTGTCATGGAAGGG
516954 GGCCTACAAG
Statistics
Matches: 107, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
152 21 0.20
155 86 0.80
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (152 bp):
ATATAACTGTTTCTAAATTTTCAGTTAATACGCTGAGCTGTGCAAAGGCCGGACGAAAACTACTG
ACAGTTGAGGCCTTCGCAAGAAACTTGCAACATCTTTGTGCTTCTGTCATGGAAGGGCAATTATG
AATGTGTCATTTATAATATGAT
Found at i:517558 original size:200 final size:200
Alignment explanation
Indices: 517215--517614 Score: 800
Period size: 200 Copynumber: 2.0 Consensus size: 200
517205 TTTCGAAGAC
517215 CGCGCTGTTGAAAGAGCGACACAATTTTTCGAAAAGGTCAATGTTGTGGGGATTTTAATGGAGTG
1 CGCGCTGTTGAAAGAGCGACACAATTTTTCGAAAAGGTCAATGTTGTGGGGATTTTAATGGAGTG
517280 GGTGTTTCATAGAAACCATCCGACTGCAAAGAAAATTATAGATTTTATGACAGAGCGAAAATATA
66 GGTGTTTCATAGAAACCATCCGACTGCAAAGAAAATTATAGATTTTATGACAGAGCGAAAATATA
517345 ATCCTCATGCGTGCAAAATCGGAAAAGTTCCTTTAGATGTAGCTGAAAATGAAAACTGGGGATTG
131 ATCCTCATGCGTGCAAAATCGGAAAAGTTCCTTTAGATGTAGCTGAAAATGAAAACTGGGGATTG
517410 GATGT
196 GATGT
517415 CGCGCTGTTGAAAGAGCGACACAATTTTTCGAAAAGGTCAATGTTGTGGGGATTTTAATGGAGTG
1 CGCGCTGTTGAAAGAGCGACACAATTTTTCGAAAAGGTCAATGTTGTGGGGATTTTAATGGAGTG
517480 GGTGTTTCATAGAAACCATCCGACTGCAAAGAAAATTATAGATTTTATGACAGAGCGAAAATATA
66 GGTGTTTCATAGAAACCATCCGACTGCAAAGAAAATTATAGATTTTATGACAGAGCGAAAATATA
517545 ATCCTCATGCGTGCAAAATCGGAAAAGTTCCTTTAGATGTAGCTGAAAATGAAAACTGGGGATTG
131 ATCCTCATGCGTGCAAAATCGGAAAAGTTCCTTTAGATGTAGCTGAAAATGAAAACTGGGGATTG
517610 GATGT
196 GATGT
517615 TCTATGGCTT
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 200 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (200 bp):
CGCGCTGTTGAAAGAGCGACACAATTTTTCGAAAAGGTCAATGTTGTGGGGATTTTAATGGAGTG
GGTGTTTCATAGAAACCATCCGACTGCAAAGAAAATTATAGATTTTATGACAGAGCGAAAATATA
ATCCTCATGCGTGCAAAATCGGAAAAGTTCCTTTAGATGTAGCTGAAAATGAAAACTGGGGATTG
GATGT
Found at i:523017 original size:12 final size:12
Alignment explanation
Indices: 523000--523035 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
522990 TGCTAAAACG
523000 CGGAACGGAAAA
1 CGGAACGGAAAA
* *
523012 CGGAACGGACAG
1 CGGAACGGAAAA
523024 CGGAACGGAAAA
1 CGGAACGGAAAA
523036 TGAAATATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.19, G:0.36, T:0.00
Consensus pattern (12 bp):
CGGAACGGAAAA
Found at i:524948 original size:12 final size:12
Alignment explanation
Indices: 524923--524962 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
524913 AGATAAGATT
524923 TTCCG-TTT-CG
1 TTCCGCTTTCCG
524933 TTCCGCTTTCCG
1 TTCCGCTTTCCG
*
524945 TTCCGTTTTCCG
1 TTCCGCTTTCCG
524957 TTCCGC
1 TTCCGC
524963 ATTTTAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 5 0.19
11 3 0.12
12 18 0.69
ACGTcount: A:0.00, C:0.38, G:0.17, T:0.45
Consensus pattern (12 bp):
TTCCGCTTTCCG
Found at i:526492 original size:17 final size:17
Alignment explanation
Indices: 526470--526504 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
526460 ATTAAAATAA
526470 TTTATTTCAAAAGTGGT
1 TTTATTTCAAAAGTGGT
*
526487 TTTATTTCAATAGTGGT
1 TTTATTTCAAAAGTGGT
526504 T
1 T
526505 GCAATAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.17, T:0.51
Consensus pattern (17 bp):
TTTATTTCAAAAGTGGT
Found at i:526567 original size:30 final size:30
Alignment explanation
Indices: 526531--526597 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
526521 AAACTACTTT
526531 TGAAATAATTTATTTCAATAGTGGTTGTAA
1 TGAAATAATTTATTTCAATAGTGGTTGTAA
526561 TGAAATAATTTATTTCAATAGTGGTTGTAA
1 TGAAATAATTTATTTCAATAGTGGTTGTAA
526591 TGAAATA
1 TGAAATA
526598 CATCCCCAAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.42
Consensus pattern (30 bp):
TGAAATAATTTATTTCAATAGTGGTTGTAA
Found at i:526629 original size:83 final size:82
Alignment explanation
Indices: 526487--526640 Score: 200
Period size: 83 Copynumber: 1.9 Consensus size: 82
526477 CAAAAGTGGT
** * ** * *
526487 TTTATTTCAATAGTGGTTGCAATAAACACATCTTAAACTACTTTTGAAATAATTTATTTCAATAG
1 TTTATTTCAATAGTGGTTGCAATAAACACATCCCAAACCACTAATGAAATAATTCATTTCAAAAG
*
526552 TGGTTGTAATGAAATAA
66 CGGTTGTAATGAAATAA
* * *
526569 TTTATTTCAATAGTGGTTGTAATGAAATACATCCCCAACCACTAATGAAATAATTCATTTCAAAA
1 TTTATTTCAATAGTGGTTGCAAT-AAACACATCCCAAACCACTAATGAAATAATTCATTTCAAAA
526634 GCGGTTG
65 GCGGTTG
526641 CATAGTGATT
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
82 22 0.37
83 38 0.63
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (82 bp):
TTTATTTCAATAGTGGTTGCAATAAACACATCCCAAACCACTAATGAAATAATTCATTTCAAAAG
CGGTTGTAATGAAATAA
Found at i:527875 original size:4 final size:4
Alignment explanation
Indices: 527866--527897 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
527856 TTGAAATGGT
527866 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
527898 GAGGAAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:533478 original size:14 final size:13
Alignment explanation
Indices: 533450--533499 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 13
533440 TGATGCTTGG
533450 GTTGTT-TTTTTT
1 GTTGTTGTTTTTT
533462 GTTGTTGTTTGTTT
1 GTTGTTGTTT-TTT
*
533476 GTTTTTG-TTTTT
1 GTTGTTGTTTTTT
*
533488 GTT-TGGTTTTTT
1 GTTGTTGTTTTTT
533500 TTTTTGGGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 2 0.06
12 17 0.52
13 5 0.15
14 9 0.27
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (13 bp):
GTTGTTGTTTTTT
Found at i:533481 original size:23 final size:21
Alignment explanation
Indices: 533446--533505 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 21
533436 GCTATGATGC
*
533446 TTGGGTTGTTTTTTTTGTTGTT
1 TTGGTTTGTTTTTTTTGTTG-T
*
533468 GTTTGTTTGTTTTTGTTT-TTGT
1 -TTGGTTTGTTTTT-TTTGTTGT
533490 TTGGTTT-TTTTTTTTG
1 TTGGTTTGTTTTTTTTG
533506 GGGGGGGGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 3 0.09
20 5 0.16
21 6 0.19
22 1 0.03
23 14 0.44
24 3 0.09
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (21 bp):
TTGGTTTGTTTTTTTTGTTGT
Found at i:533482 original size:20 final size:19
Alignment explanation
Indices: 533451--533501 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
533441 GATGCTTGGG
533451 TTGTTTTTTTTGTTGTTGT
1 TTGTTTTTTTTGTTGTTGT
*
533470 TTGTTTGTTTTTGTTTTTGT
1 TTGTTT-TTTTTGTTGTTGT
533490 TTGGTTTTTTTT
1 TT-GTTTTTTTT
533502 TTTGGGGGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 6 0.21
20 19 0.66
21 4 0.14
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (19 bp):
TTGTTTTTTTTGTTGTTGT
Found at i:533496 original size:17 final size:16
Alignment explanation
Indices: 533451--533505 Score: 62
Period size: 17 Copynumber: 3.6 Consensus size: 16
533441 GATGCTTGGG
*
533451 TTGTTTTT-TTTGTTG
1 TTGTTTTTGTTTGTTT
533466 TTG--TTTGTTTGTTT
1 TTGTTTTTGTTTGTTT
533480 TTGTTTTTGTTTGGTTT
1 TTGTTTTTGTTT-GTTT
*
533497 TTTTTTTTG
1 TTGTTTTTG
533506 GGGGGGGGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 3 0.09
14 9 0.26
15 3 0.09
16 7 0.21
17 12 0.35
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (16 bp):
TTGTTTTTGTTTGTTT
Found at i:546167 original size:2 final size:2
Alignment explanation
Indices: 546160--546193 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
546150 AATTGCAAAA
546160 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
546194 AAACGGGCGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:550723 original size:46 final size:46
Alignment explanation
Indices: 550656--550744 Score: 178
Period size: 46 Copynumber: 1.9 Consensus size: 46
550646 AGAAATACCA
550656 AGCACTTGTATCTATAAATAAACATGATATCAACTTAAGATAACCC
1 AGCACTTGTATCTATAAATAAACATGATATCAACTTAAGATAACCC
550702 AGCACTTGTATCTATAAATAAACATGATATCAACTTAAGATAA
1 AGCACTTGTATCTATAAATAAACATGATATCAACTTAAGATAA
550745 GGATTTATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (46 bp):
AGCACTTGTATCTATAAATAAACATGATATCAACTTAAGATAACCC
Found at i:551214 original size:2 final size:2
Alignment explanation
Indices: 551207--551252 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
551197 TTGTTATTTG
551207 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G- GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
551248 GA GA G
1 GA GA G
551253 GGGTCTCAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:556232 original size:108 final size:108
Alignment explanation
Indices: 556038--556258 Score: 424
Period size: 108 Copynumber: 2.0 Consensus size: 108
556028 ATTTACATAT
*
556038 ATGTTACCAAGCTTTAAACCTACAATAAAGCTATTATAATTTCACTACACTCTGCTTAGTTACAC
1 ATGTAACCAAGCTTTAAACCTACAATAAAGCTATTATAATTTCACTACACTCTGCTTAGTTACAC
556103 ATGTTACATGTAGAACAATCTAAAGGCTTTCGCCAAAGTTAAA
66 ATGTTACATGTAGAACAATCTAAAGGCTTTCGCCAAAGTTAAA
556146 ATGTAACCAAGCTTTAAACCTACAATAAAGCTATTATAATTTCACTACACTCTGCTTAGTTACAC
1 ATGTAACCAAGCTTTAAACCTACAATAAAGCTATTATAATTTCACTACACTCTGCTTAGTTACAC
*
556211 ATGTTACATGTAGAACAATCTAAAGGCTTTCGCCACAGTTAAA
66 ATGTTACATGTAGAACAATCTAAAGGCTTTCGCCAAAGTTAAA
556254 ATGTA
1 ATGTA
556259 TCCCATATAG
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 111 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (108 bp):
ATGTAACCAAGCTTTAAACCTACAATAAAGCTATTATAATTTCACTACACTCTGCTTAGTTACAC
ATGTTACATGTAGAACAATCTAAAGGCTTTCGCCAAAGTTAAA
Found at i:560010 original size:2 final size:2
Alignment explanation
Indices: 560005--560048 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
559995 TTGAATATAT
560005 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
560047 TC
1 TC
560049 ATTTAAATCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:562592 original size:26 final size:26
Alignment explanation
Indices: 562556--562611 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
562546 GCTGTCGGCC
562556 GATCGATAACCTGGTCAGTTTCTACA
1 GATCGATAACCTGGTCAGTTTCTACA
562582 GATCGATAACCTGGTCAGTTTCTACA
1 GATCGATAACCTGGTCAGTTTCTACA
562608 GATC
1 GATC
562612 TATGAACAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (26 bp):
GATCGATAACCTGGTCAGTTTCTACA
Found at i:564086 original size:16 final size:16
Alignment explanation
Indices: 564065--564095 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
564055 GTCAATTGTC
564065 CTGTCCGTCTGTCTGT
1 CTGTCCGTCTGTCTGT
564081 CTGTCCGTCTGTCTG
1 CTGTCCGTCTGTCTG
564096 AGTGTAGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.32, G:0.26, T:0.42
Consensus pattern (16 bp):
CTGTCCGTCTGTCTGT
Found at i:570062 original size:182 final size:180
Alignment explanation
Indices: 569752--570117 Score: 714
Period size: 182 Copynumber: 2.0 Consensus size: 180
569742 GTTCTTTGCA
569752 TTTAATATGCATGATTAGGAAATGCTGTGATCTGTTTCAGAGGCACTGAAGAACAAACAATTACC
1 TTTAATATGCATGATTAGGAAATGCTGTGATCTGTTTCAGAGGCACTGAAGAACAAACAATTACC
569817 CCTGTTTAAGTAATTCTATACAACAATGGTACTGCATAGGGCAAAAATAAAATTATTGTTTGTTT
66 CCTGTTTAAGTAATTCTATACAACAATGGTACTGCATAGGGCAAAAATAAAATTATTGTTTGTTT
569882 GGAATTGCCTCGTGCATCATTGAAATACCCCCCCCCCCTCGGGTATAAAAT
131 GGAATTGCCTCGTGCATCATTGAAATA-CCCCCCCCCCTCGGGTATAAAAT
569933 TTTNAATATGCATGATTAGGAAATGCTGTGATCTGTTTCAGAGGCACTGAAGAACAAACAATTAC
1 TTT-AATATGCATGATTAGGAAATGCTGTGATCTGTTTCAGAGGCACTGAAGAACAAACAATTAC
569998 CCCTGTTTAAGTAATTCTATACAACAATGGTACTGCATAGGGCAAAAATAAAATTATTGTTTGTT
65 CCCTGTTTAAGTAATTCTATACAACAATGGTACTGCATAGGGCAAAAATAAAATTATTGTTTGTT
570063 TGGAATTGCCTCGTGCATCATTGAAATACCCCCCCCCCTCGGGTATAAAAT
130 TGGAATTGCCTCGTGCATCATTGAAATACCCCCCCCCCTCGGGTATAAAAT
570114 TTTA
1 TTTA
570118 TTAGCAAAAA
Statistics
Matches: 184, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
180 1 0.01
181 29 0.16
182 154 0.84
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (180 bp):
TTTAATATGCATGATTAGGAAATGCTGTGATCTGTTTCAGAGGCACTGAAGAACAAACAATTACC
CCTGTTTAAGTAATTCTATACAACAATGGTACTGCATAGGGCAAAAATAAAATTATTGTTTGTTT
GGAATTGCCTCGTGCATCATTGAAATACCCCCCCCCCTCGGGTATAAAAT
Found at i:574193 original size:1 final size:1
Alignment explanation
Indices: 574189--574220 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
574179 AAAAATAAGT
574189 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
574221 GAACAGATCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:585748 original size:166 final size:165
Alignment explanation
Indices: 585453--585914 Score: 640
Period size: 166 Copynumber: 2.8 Consensus size: 165
585443 GTCGCATTTA
* * *
585453 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTTACATAGTGTTTGTTAAGGCATGCCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTTACACAAT-ATTGTT-AGGCATGCCATAT
*
585518 CGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
64 TGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
*
585583 TTAACCAAAATTTTCAAACAAAT-TGTCATCAAAGATT
129 TTAACAAAAATTTTCAAACAAATAT-TCATCAAAGATT
*
585620 TCTCAGCAACTATTTATCGCAGATGCTTGAAGTTTTTACACAATATTGTATAGGCATGCCATATT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTTACACAATATTGT-TAGGCATGCCATATT
* * * *
585685 GTGGGATATATTTTTGTACCAATCAGACGTCAACTTCCTGTTACATGACAACTTTGTTTA-TTTT
65 GTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGCTTATTTTT
* **
585749 TAGCAAAAATTTTCAAACAAATATTTTTCAAAGATT
130 TAACAAAAATTTTCAAACAAATATTCATCAAAGATT
* * * * * *
585785 TCTCAGCAGCTTTTTATCACAGATGCTTGAAATTTTAACACACTATTTGTTTAGGCATACCATAT
1 TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTTACACAATA-TTG-TTAGGCATGCCATAT
* * * * *
585850 TGTGGGATATATTTCTGTACCAATCGGATGTCAGCTTTCTGTTAAATGTCGACTTTGCTTATTTT
64 TGTGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGCTTATTTT
585915 GCATATTCAC
Statistics
Matches: 261, Mismatches: 29, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
165 73 0.28
166 142 0.54
167 46 0.18
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (165 bp):
TCTCAGCAACTATTTATCGCAGATGCTTGAAATTTTTACACAATATTGTTAGGCATGCCATATTG
TGGGATATATTTTTGTACCAATCGGACGTCAACTTCCTGTTAAATGACGACTTTGCTTATTTTTT
AACAAAAATTTTCAAACAAATATTCATCAAAGATT
Found at i:587324 original size:33 final size:31
Alignment explanation
Indices: 587271--587355 Score: 89
Period size: 31 Copynumber: 2.6 Consensus size: 31
587261 TGCCTGTCCA
* * *
587271 GAGGGCAAATATTGTGAATGGGGAACAAGTAAGT
1 GAGGGCAAA-AATGTGAATGGAGAAC-A-TAAGG
* *
587305 GAGGGCAAAAATGTGAATGGAGCACATAGGG
1 GAGGGCAAAAATGTGAATGGAGAACATAAGG
*
587336 GAGGGCAATAATGTGAATGG
1 GAGGGCAAAAATGTGAATGG
587356 TTTAATGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
31 22 0.49
32 1 0.02
33 13 0.29
34 9 0.20
ACGTcount: A:0.38, C:0.07, G:0.38, T:0.18
Consensus pattern (31 bp):
GAGGGCAAAAATGTGAATGGAGAACATAAGG
Found at i:598928 original size:21 final size:21
Alignment explanation
Indices: 598902--598959 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
598892 ATATATATAT
598902 ATATATATATACAGGTATAAA
1 ATATATATATACAGGTATAAA
*
598923 ATATATATATACATGTATAAA
1 ATATATATATACAGGTATAAA
*
598944 A-ATTTATATACAGGTA
1 ATATATATATACAGGTA
598960 AACTTATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 13 0.38
21 21 0.62
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.36
Consensus pattern (21 bp):
ATATATATATACAGGTATAAA
Found at i:598932 original size:2 final size:2
Alignment explanation
Indices: 598886--598912 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
598876 AAAAAAATAA
598886 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
598913 CAGGTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:598952 original size:41 final size:41
Alignment explanation
Indices: 598879--598959 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
598869 AAGTTAAAAA
* * *
598879 AAAATAAATATATATATATATATATATATATATACAGGTAT
1 AAAATAAATATATACATATATAAAAATATATATACAGGTAT
* * *
598920 AAAATATATATATACATGTATAAAAATTTATATACAGGTA
1 AAAATAAATATATACATATATAAAAATATATATACAGGTA
598960 AACTTATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (41 bp):
AAAATAAATATATACATATATAAAAATATATATACAGGTAT
Found at i:603312 original size:79 final size:80
Alignment explanation
Indices: 603184--603330 Score: 174
Period size: 79 Copynumber: 1.9 Consensus size: 80
603174 ACTGTATTGA
* * *
603184 TTGTAATGTTGAACATCTAACTATATGACCTCCATTCTGTGCATGTTTTGAT-GTTGACAATATG
1 TTGTAATGTTGAACACCTAACTATATGACCTCCATTCTGTACATATTTTG-TCGTTGACAATATG
603248 ACTGACTCTGTATAAT
65 ACTGACTCTGTATAAT
* * * * * *
603264 TTGT-ATGTTGACCACCTTACTGTATGACCTCCATGT-TGTACCTATTTTGTCGTTGACATTCTG
1 TTGTAATGTTGAACACCTAACTATATGACCTCCAT-TCTGTACATATTTTGTCGTTGACAATATG
603327 ACTG
65 ACTG
603331 TAATTACATT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
78 1 0.02
79 50 0.89
80 5 0.09
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (80 bp):
TTGTAATGTTGAACACCTAACTATATGACCTCCATTCTGTACATATTTTGTCGTTGACAATATGA
CTGACTCTGTATAAT
Found at i:606354 original size:20 final size:20
Alignment explanation
Indices: 606326--606364 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
606316 AGTCCTTTGA
*
606326 TATTGATTTAAAATGAAGTT
1 TATTAATTTAAAATGAAGTT
606346 TATTAATTTAAAATGAAGT
1 TATTAATTTAAAATGAAGT
606365 ATTTAACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (20 bp):
TATTAATTTAAAATGAAGTT
Found at i:606376 original size:19 final size:20
Alignment explanation
Indices: 606334--606378 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
606324 GATATTGATT
* **
606334 TAAAATGAAGTTTATTAATT
1 TAAAATGAAGTATATTAACA
606354 TAAAATGAAGTAT-TTAACA
1 TAAAATGAAGTATATTAACA
606373 TAAAAT
1 TAAAAT
606379 ATTCTACTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (20 bp):
TAAAATGAAGTATATTAACA
Found at i:606948 original size:15 final size:15
Alignment explanation
Indices: 606930--606960 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
606920 GTTGTAGGTT
606930 TTGTTTGAAATTGTG
1 TTGTTTGAAATTGTG
*
606945 TTGTTTGACATTGTG
1 TTGTTTGAAATTGTG
606960 T
1 T
606961 GTGTGTCTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.03, G:0.26, T:0.55
Consensus pattern (15 bp):
TTGTTTGAAATTGTG
Found at i:611241 original size:57 final size:57
Alignment explanation
Indices: 611153--611376 Score: 376
Period size: 57 Copynumber: 3.9 Consensus size: 57
611143 GCATATTAAC
*
611153 TGGTCTATTCTATTTAAAGGGACATAACCTCTGTTATATGATTCAGTCATTATCTAT
1 TGGTCTATTCTATTTAAGGGGACATAACCTCTGTTATATGATTCAGTCATTATCTAT
611210 TGGTCTATTCTATTTAAGGGGACATAACCTCTGTTATATGATTCAGTCATTATCTAT
1 TGGTCTATTCTATTTAAGGGGACATAACCTCTGTTATATGATTCAGTCATTATCTAT
*
611267 TGGTCTATTCTATTTAAGGGGACATAACCTCTGTTATATGATTCAGTCATAATCTAT
1 TGGTCTATTCTATTTAAGGGGACATAACCTCTGTTATATGATTCAGTCATTATCTAT
* ** * * *
611324 TGGTCTGTTCTATTTAAGGCAACACAACCTCTATTATATGATTCTGTCATTAT
1 TGGTCTATTCTATTTAAGGGGACATAACCTCTGTTATATGATTCAGTCATTAT
611377 GATTCCATTG
Statistics
Matches: 158, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 158 1.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.42
Consensus pattern (57 bp):
TGGTCTATTCTATTTAAGGGGACATAACCTCTGTTATATGATTCAGTCATTATCTAT
Found at i:611410 original size:114 final size:113
Alignment explanation
Indices: 611153--611415 Score: 336
Period size: 114 Copynumber: 2.3 Consensus size: 113
611143 GCATATTAAC
* * *
611153 TGGTCTATTCTATTTAAAGGGACATAACCTCTGTTATATGATTCAGTCATTATCTATTGGTCTAT
1 TGGTCTATTCTATGTAAGGGGA-ATAACCTCTGTTATATGATTCAGTCATAATCTATTGGTCTAT
** * * *
611218 TCTATTTAAGGGGACATAACCTCTGTTATATGATTCAGTCATTATCTAT
65 TCTATTTAAGGCAACACAACCTCTATTATATGATTCAGTCATTATCCAT
* *
611267 TGGTCTATTCTATTTAAGGGGACATAACCTCTGTTATATGATTCAGTCATAATCTATTGGTCTGT
1 TGGTCTATTCTATGTAAGGGGA-ATAACCTCTGTTATATGATTCAGTCATAATCTATTGGTCTAT
*
611332 TCTATTTAAGGCAACACAACCTCTATTATATGATTCTGTCATTATGATTCCAT
65 TCTATTTAAGGCAACACAACCTCTATTATATGATTCAGTCA-T-T-A-TCCAT
611385 TGGTC-AGTTCTATGTAA-GGG-A-AACCTCTGTT
1 TGGTCTA-TTCTATGTAAGGGGAATAACCTCTGTT
611416 TCTTGTTTTA
Statistics
Matches: 134, Mismatches: 10, Indels: 10
0.87 0.06 0.06
Matches are distributed among these distances:
114 108 0.81
115 2 0.01
116 1 0.01
117 5 0.04
118 18 0.13
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.41
Consensus pattern (113 bp):
TGGTCTATTCTATGTAAGGGGAATAACCTCTGTTATATGATTCAGTCATAATCTATTGGTCTATT
CTATTTAAGGCAACACAACCTCTATTATATGATTCAGTCATTATCCAT
Found at i:611801 original size:28 final size:28
Alignment explanation
Indices: 611758--611899 Score: 230
Period size: 28 Copynumber: 5.1 Consensus size: 28
611748 GATCCTGGCA
611758 AATACTGCAACGATACAGGTAAATATCT
1 AATACTGCAACGATACAGGTAAATATCT
* * *
611786 AATACTGCCACAATACAGGTATATATCT
1 AATACTGCAACGATACAGGTAAATATCT
* * *
611814 AATACTACAACAATACAAGTAAATATCT
1 AATACTGCAACGATACAGGTAAATATCT
611842 AATACTGCAACGATACAGGTAAATATCT
1 AATACTGCAACGATACAGGTAAATATCT
611870 AATACTGCAACGATACAGGTAAATATCT
1 AATACTGCAACGATACAGGTAAATATCT
611898 AA
1 AA
611900 GGGAGAATGG
Statistics
Matches: 104, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 104 1.00
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.25
Consensus pattern (28 bp):
AATACTGCAACGATACAGGTAAATATCT
Found at i:614951 original size:38 final size:38
Alignment explanation
Indices: 614900--616084 Score: 2028
Period size: 38 Copynumber: 30.7 Consensus size: 38
614890 CACCTACTGG
614900 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
614938 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
614976 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
615014 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
615052 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
615090 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
615128 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
615166 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
615204 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
615242 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
615280 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
615318 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
615356 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
615394 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
615432 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
615470 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
*
615508 CACAGGGGGTAAGTGTCCAGATACATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
615546 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
* *
615584 CACAGGAGGTAAATGTCCAGATATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAG--ATATATACAACATCATGA
*
615624 CACAGGGGGTAAGTGTCCAGATATATATACAACATCTTGA
1 CACAGGGGGTAAGTGTCCAG--ATATATACAACATCATGA
*
615664 CACAGGAGGTAAGTGTCCAGATATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAG--ATATATACAACATCATGA
*
615704 CACAGGGGGTAAGTGTCCAGATACATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
*
615742 CACAGGGGGTAAGTGTCCAGATACATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
* * * *
615780 CACAGGAGGTAAATATCCAGATATATATACAACATCTTGA
1 CACAGGGGGTAAGTGTCCAG--ATATATACAACATCATGA
* *
615820 CACAGAGGGTAAGTGTCCAGATATATATACAACATCTTGA
1 CACAGGGGGTAAGTGTCCAG--ATATATACAACATCATGA
*
615860 CACAGGAGGTAAGTGTCCAGATATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAG--ATATATACAACATCATGA
*
615900 CACAGGAGGTAAGTGTCCAGATATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAG--ATATATACAACATCATGA
*
615940 CACAGGAGGTAAGTGTCCAGATATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAG--ATATATACAACATCATGA
*
615980 CACAGGAGGTAAGTGTCCAGATATATATACAACATCATGA
1 CACAGGGGGTAAGTGTCCAG--ATATATACAACATCATGA
* *
616020 CACAGGAGGTAAGTGTCCAGATATAAACAACATCATGA
1 CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
*
616058 CGCAGGGGGTAAGTGTCCAGATATATA
1 CACAGGGGGTAAGTGTCCAGATATATA
616085 AAAGGGATTT
Statistics
Matches: 1116, Mismatches: 27, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
38 775 0.69
40 341 0.31
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (38 bp):
CACAGGGGGTAAGTGTCCAGATATATACAACATCATGA
Found at i:618793 original size:12 final size:12
Alignment explanation
Indices: 618776--618806 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
618766 CTGTTGTCTG
618776 TCGTTGTCGTCA
1 TCGTTGTCGTCA
*
618788 TCGTTGTCGTCG
1 TCGTTGTCGTCA
618800 TCGTTGT
1 TCGTTGT
618807 TGTAAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.03, C:0.23, G:0.29, T:0.45
Consensus pattern (12 bp):
TCGTTGTCGTCA
Found at i:619541 original size:20 final size:20
Alignment explanation
Indices: 619500--619543 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
619490 CTCTTGTTTA
*
619500 AGATCTCACACCTGTGTAAG
1 AGATCTCACACCTGTATAAG
* *
619520 AGATTTCACACCTGTATTAG
1 AGATCTCACACCTGTATAAG
619540 AGAT
1 AGAT
619544 AAGTTTTGGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (20 bp):
AGATCTCACACCTGTATAAG
Found at i:626435 original size:27 final size:27
Alignment explanation
Indices: 626397--628878 Score: 3875
Period size: 27 Copynumber: 92.6 Consensus size: 27
626387 TCTACAGCTA
626397 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
626424 ATACATTATACAATATGGTTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* * *
626451 TTACATTATACAATATGGTTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* * * *
626478 TTACATTATACAATATGGTTGGTGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
626505 ATACAGTATACAATATGATTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
626532 ATACATTATACAATATGATTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
626559 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
626586 TTACATTATACAATATGCTC-ATGTAT
1 ATACATTATACAATATGATCGATGTAT
626612 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
626639 ATACATTATACAATATGGTTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* * *
626666 TTACATTATACAATATGGTTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* * *
626693 TTACATTATACAATATGGTTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
626720 ATACATTATACAATATGATTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
626747 ATACATTATACAATATGATTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
626774 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
626801 TTACATTATACAATATGCTC-ATGTAT
1 ATACATTATACAATATGATCGATGTAT
626827 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
626854 ATACATTATACAATATGGTTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* * *
626881 TTACATTATACAATATGGTTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
626908 TTACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
626935 TTACATTATACAATATGCTCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
626962 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
626989 ATACATTATACAATATGCTC-ATGTAT
1 ATACATTATACAATATGATCGATGTAT
627015 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
627042 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
627069 TTACATTATACAATATGCTC-ATGTAT
1 ATACATTATACAATATGATCGATGTAT
627095 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
627122 ATACATTATACAATATGCTCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
627149 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
627176 TTACATTATACAATATGCTCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
627203 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
627230 ATACATTATACAATATGCTC-ATGTAT
1 ATACATTATACAATATGATCGATGTAT
627256 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
627283 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
627310 TTACATTATACAATATGGTCG-TGTAT
1 ATACATTATACAATATGATCGATGTAT
627336 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
627363 ATACATTATACAATATGCTCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
627390 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
627417 TTACATTATACAATATGCTCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
627444 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
627471 ATACATTATACAATATGCT-TATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
627497 ATACATTATACAATATGATTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
627524 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
627551 ATACATTATACAATATGGTCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
627578 TTACATTATACAATATGCTC-ATGTAT
1 ATACATTATACAATATGATCGATGTAT
627604 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
627631 ATACATTATACAATATGGTCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* * *
627658 TTACATTATACAATATGGTTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
627685 TTACATTATACAATATAATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
627712 TTACATTATACAATATGCTC-ATGTAT
1 ATACATTATACAATATGATCGATGTAT
627738 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
627765 ATACATTATACAATATGATTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
627792 TTACATTATACAATATGCTCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
627819 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
627846 ATACATTATACAATATGCTC-ATGTAT
1 ATACATTATACAATATGATCGATGTAT
627872 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
627899 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
627926 TTACATTATACAATATGCTC-ATGTAT
1 ATACATTATACAATATGATCGATGTAT
627952 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
627979 ATACATTATACAATATGCTCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* * *
628006 TTACATTATACAATATGGTTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
628033 TTACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
628060 TTACATTATACAATATGCTC-ATGTAT
1 ATACATTATACAATATGATCGATGTAT
628086 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
628113 ATACATTATACAATATGCTCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* * *
628140 TTACATTATACAATATGGTTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* * *
628167 TTACATTATACAATATGGTTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
628194 TTACATTATACAATATGATTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
628221 TTACATTATACAATATGCTCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
628248 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
628275 ATACATTATACAATATGCTC-ATGTAT
1 ATACATTATACAATATGATCGATGTAT
628301 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
628328 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
628355 TTACATTATACAATATGCTC-ATGTAT
1 ATACATTATACAATATGATCGATGTAT
628381 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
628408 ATACATTATACAATATGCTCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
628435 TTACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
628462 TTACATTATACAATATGCTCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
628489 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
628516 ATACATTATACAATATGCTC-ATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
628542 ATACATTATACAATATGATTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
628569 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
628596 TTACATTATACAATATGGTCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
628623 TTACATTATACAATATGCTC-ATGTAT
1 ATACATTATACAATATGATCGATGTAT
628649 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
628676 ATACATTATACAATATGGTCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
628703 TTACATTATACAATATGCTC-ATGTAT
1 ATACATTATACAATATGATCGATGTAT
*
628729 ATACATTATACAATATGATTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
628756 ATACATTATACAATATGATCGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
628783 TTACATTATACAATATGCTC-ATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
628809 GTACATTATACAATATGATTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
* *
628836 ATACATTATACAATATGCTTGATGTAT
1 ATACATTATACAATATGATCGATGTAT
628863 ATACATTATACAATAT
1 ATACATTATACAATAT
628879 ATCAATTACA
Statistics
Matches: 2296, Mismatches: 141, Indels: 36
0.93 0.06 0.01
Matches are distributed among these distances:
26 434 0.19
27 1862 0.81
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (27 bp):
ATACATTATACAATATGATCGATGTAT
Found at i:626661 original size:107 final size:107
Alignment explanation
Indices: 626397--628878 Score: 3658
Period size: 107 Copynumber: 23.1 Consensus size: 107
626387 TCTACAGCTA
* *
626397 ATACATTATACAATATGATCGATGTATATACATTATACAATATGGTTGATGTATTTACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
* * * * **
626462 AATATGGTTGATGTATTTACATTATACAATATGGTTGGTGTAT
66 AATATGATCGATGTATATACATTATACAATAT-GCTCATGTAT
* *
626505 ATACAGTATACAATATGATTGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
*
626570 AATATGATCGATGTATTTACATTATACAATATGCTCATGTAT
66 AATATGATCGATGTATATACATTATACAATATGCTCATGTAT
* *
626612 ATACATTATACAATATGATCGATGTATATACATTATACAATATGGTTGATGTATTTACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
* * * * *
626677 AATATGGTTGATGTATTTACATTATACAATATGGTTGATGTAT
66 AATATGATCGATGTATATACATTATACAATAT-GCTCATGTAT
*
626720 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
*
626785 AATATGATCGATGTATTTACATTATACAATATGCTCATGTAT
66 AATATGATCGATGTATATACATTATACAATATGCTCATGTAT
* *
626827 ATACATTATACAATATGATCGATGTATATACATTATACAATATGGTTGATGTATTTACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
* * * *
626892 AATATGGTTGATGTATTTACATTATACAATATGATCGATGTAT
66 AATATGATCGATGTATATACATTATACAATATGCTC-ATGTAT
* * *
626935 TTACATTATACAATATGCTCGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
* *
627000 AATATGCTC-ATGTATATACATTATACAATATGATCGATGTAT
66 AATATGATCGATGTATATACATTATACAATATGCTC-ATGTAT
* * *
627042 ATACATTATACAATATGATCGATGTATTTACATTATACAATATG-CTCATGTATATACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
627106 AATATGATCGATGTATATACATTATACAATATGCTCGATGTAT
66 AATATGATCGATGTATATACATTATACAATATGCTC-ATGTAT
* * *
627149 ATACATTATACAATATGATCGATGTATTTACATTATACAATATGCTCGATGTATATACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
627214 AATATGATCGATGTATATACATTATACAATATGCTCATGTAT
66 AATATGATCGATGTATATACATTATACAATATGCTCATGTAT
* *
627256 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGATGTATTTACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
* *
627321 AATATGGTCG-TGTATATACATTATACAATATGATCGATGTAT
66 AATATGATCGATGTATATACATTATACAATATGCTC-ATGTAT
* * *
627363 ATACATTATACAATATGCTCGATGTATATACATTATACAATATGATCGATGTATTTACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
* *
627428 AATATGCTCGATGTATATACATTATACAATATGATCGATGTAT
66 AATATGATCGATGTATATACATTATACAATATGCTC-ATGTAT
* *
627471 ATACATTATACAATATGCT-TATGTATATACATTATACAATATGATTGATGTATATACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
*
627535 AATATGATCGATGTATATACATTATACAATATGGTCGATGTAT
66 AATATGATCGATGTATATACATTATACAATATGCTC-ATGTAT
* * *
627578 TTACATTATACAATATGCTC-ATGTATATACATTATACAATATGATCGATGTATATACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
* * * *
627642 AATATGGTCGATGTATTTACATTATACAATATGGTTGATGTAT
66 AATATGATCGATGTATATACATTATACAATAT-GCTCATGTAT
* * * * *
627685 TTACATTATACAATATAATCGATGTATTTACATTATACAATATG-CTCATGTATATACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
* *
627749 AATATGATCGATGTATATACATTATACAATATGATTGATGTAT
66 AATATGATCGATGTATATACATTATACAATATG-CTCATGTAT
* * *
627792 TTACATTATACAATATGCTCGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
* *
627857 AATATGCTC-ATGTATATACATTATACAATATGATCGATGTAT
66 AATATGATCGATGTATATACATTATACAATATGCTC-ATGTAT
* * *
627899 ATACATTATACAATATGATCGATGTATTTACATTATACAATATG-CTCATGTATATACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
627963 AATATGATCGATGTATATACATTATACAATATGCTCGATGTAT
66 AATATGATCGATGTATATACATTATACAATATGCTC-ATGTAT
* * * * * *
628006 TTACATTATACAATATGGTTGATGTATTTACATTATACAATATGATCGATGTATTTACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
* *
628071 AATATGCTC-ATGTATATACATTATACAATATGATCGATGTAT
66 AATATGATCGATGTATATACATTATACAATATGCTC-ATGTAT
* * * *
628113 ATACATTATACAATATGCTCGATGTATTTACATTATACAATATGGTTGATGTATTTACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
* * * * *
628178 AATATGGTTGATGTATTTACATTATACAATATGATTGATGTAT
66 AATATGATCGATGTATATACATTATACAATATG-CTCATGTAT
* * *
628221 TTACATTATACAATATGCTCGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
* *
628286 AATATGCTC-ATGTATATACATTATACAATATGATCGATGTAT
66 AATATGATCGATGTATATACATTATACAATATGCTC-ATGTAT
* * *
628328 ATACATTATACAATATGATCGATGTATTTACATTATACAATATG-CTCATGTATATACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
628392 AATATGATCGATGTATATACATTATACAATATGCTCGATGTAT
66 AATATGATCGATGTATATACATTATACAATATGCTC-ATGTAT
* * * *
628435 TTACATTATACAATATGATCGATGTATTTACATTATACAATATGCTCGATGTATATACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
628500 AATATGATCGATGTATATACATTATACAATATGCTCATGTAT
66 AATATGATCGATGTATATACATTATACAATATGCTCATGTAT
* * *
628542 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATTTACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
* *
628607 AATATGGTCGATGTATTTACATTATACAATATGCTCATGTAT
66 AATATGATCGATGTATATACATTATACAATATGCTCATGTAT
* * *
628649 ATACATTATACAATATGATCGATGTATATACATTATACAATATGGTCGATGTATTTACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
* * *
628714 AATATGCTC-ATGTATATACATTATACAATATGATTGATGTAT
66 AATATGATCGATGTATATACATTATACAATATG-CTCATGTAT
* * * *
628756 ATACATTATACAATATGATCGATGTATTTACATTATACAATATG-CTCATGTATGTACATTATAC
1 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
* *
628820 AATATGATTGATGTATATACATTATACAATATGCTTGATGTAT
66 AATATGATCGATGTATATACATTATACAATATGC-TCATGTAT
628863 ATACATTATACAATAT
1 ATACATTATACAATAT
628879 ATCAATTACA
Statistics
Matches: 2198, Mismatches: 154, Indels: 45
0.92 0.06 0.02
Matches are distributed among these distances:
106 147 0.07
107 1461 0.66
108 589 0.27
109 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (107 bp):
ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATATACATTATAC
AATATGATCGATGTATATACATTATACAATATGCTCATGTAT
Found at i:626681 original size:134 final size:134
Alignment explanation
Indices: 626397--628878 Score: 3732
Period size: 134 Copynumber: 18.5 Consensus size: 134
626387 TCTACAGCTA
* * * *
626397 ATACATTATACAATATGATCGATGTATATACATTATACAATATGGTTGATGTATTTACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
* * * * * * * *
626462 AATATGGTTGATGTATTTACATTATACAATATGGTTGGTGTATATACAGTATACAATATGATTGA
66 AATAT-GCTCATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGA
626527 TGTAT
130 TGTAT
*
626532 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATTTACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
* *
626597 AATATGCTCATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGGTTGAT
66 AATATGCTCATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGAT
626662 GTAT
131 GTAT
* * * * *
626666 TTACATTATACAATATGGTTGATGTATTTACATTATACAATATGGTTGATGTATATACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
* * *
626731 AATATGATTGATGTATATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGA
66 AATATG-CTCATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGA
626796 TGTAT
130 TGTAT
* * *
626801 TTACATTATACAATATG-CTCATGTATATACATTATACAATATGATCGATGTATATACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
* * * * * *
626865 AATATGGTTGATGTATTTACATTATACAATATGGTTGATGTATTTACATTATACAATATGATCGA
66 AATAT-GCTCATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGA
626930 TGTAT
130 TGTAT
* * *
626935 TTACATTATACAATATGCTCGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
627000 AATATGCTCATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGAT
66 AATATGCTCATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGAT
627065 GTAT
131 GTAT
* * *
627069 TTACATTATACAATATG-CTCATGTATATACATTATACAATATGATCGATGTATATACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
* *
627133 AATATGCTCGATGTATATACATTATACAATATGATCGATGTATTTACATTATACAATATGCTCGA
66 AATATGCTC-ATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGA
627198 TGTAT
130 TGTAT
* *
627203 ATACATTATACAATATGATCGATGTATATACATTATACAATATGCTC-ATGTATATACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
* * *
627267 AATATGATCGATGTATATACATTATACAATATGATCGATGTATTTACATTATACAATATGGTCG-
66 AATATGCTC-ATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGA
627331 TGTAT
130 TGTAT
* *
627336 ATACATTATACAATATGATCGATGTATATACATTATACAATATGCTCGATGTATATACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
* * *
627401 AATATGATCGATGTATTTACATTATACAATATGCTCGATGTATATACATTATACAATATGATCGA
66 AATATGCTC-ATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGA
627466 TGTAT
130 TGTAT
* *
627471 ATACATTATACAATATGCTT-ATGTATATACATTATACAATATGATTGATGTATATACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
* * * *
627535 AATATGATCGATGTATATACATTATACAATATGGTCGATGTATTTACATTATACAATATGCTC-A
66 AATATGCTC-ATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGA
627599 TGTAT
130 TGTAT
* * *
627604 ATACATTATACAATATGATCGATGTATATACATTATACAATATGGTCGATGTATTTACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
* * * * * *
627669 AATATGGTTGATGTATTTACATTATACAATATAATCGATGTATTTACATTATACAATATGCTC-A
66 AATAT-GCTCATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGA
627733 TGTAT
130 TGTAT
* * *
627738 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATTGATGTATTTACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
*
627803 AATATGCTCGATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGCTC-A
66 AATATGCTC-ATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGA
627867 TGTAT
130 TGTAT
* *
627872 ATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGATGTATTTACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
*
627937 AATATGCTCATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGCTCGAT
66 AATATGCTCATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGAT
628002 GTAT
131 GTAT
* * * *
628006 TTACATTATACAATATGGTTGATGTATTTACATTATACAATATGATCGATGTATTTACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
*
628071 AATATGCTCATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGCTCGAT
66 AATATGCTCATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGAT
628136 GTAT
131 GTAT
* * * * * *
628140 TTACATTATACAATATGGTTGATGTATTTACATTATACAATATGGTTGATGTATTTACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
* * * *
628205 AATATGATTGATGTATTTACATTATACAATATGCTCGATGTATATACATTATACAATATGATCGA
66 AATATG-CTCATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGA
628270 TGTAT
130 TGTAT
* *
628275 ATACATTATACAATATG-CTCATGTATATACATTATACAATATGATCGATGTATATACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
* * *
628339 AATATGATCGATGTATTTACATTATACAATATGCTC-ATGTATATACATTATACAATATGATCGA
66 AATATGCTC-ATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGA
628403 TGTAT
130 TGTAT
* * * *
628408 ATACATTATACAATATGCTCGATGTATTTACATTATACAATATGATCGATGTATTTACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
*
628473 AATATGCTCGATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGCTC-A
66 AATATGCTC-ATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGA
628537 TGTAT
130 TGTAT
*
628542 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATTTACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
* * *
628607 AATATGGTCGATGTATTTACATTATACAATATGCTC-ATGTATATACATTATACAATATGATCGA
66 AATATGCTC-ATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGA
628671 TGTAT
130 TGTAT
* * * *
628676 ATACATTATACAATATGGTCGATGTATTTACATTATACAATATGCTC-ATGTATATACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
* * * *
628740 AATATGATTGATGTATATACATTATACAATATGATCGATGTATTTACATTATACAATATGCTC-A
66 AATATG-CTCATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGA
628804 TGTAT
130 TGTAT
* * *
628809 GTACATTATACAATATGATTGATGTATATACATTATACAATATGCTTGATGTATATACATTATAC
1 ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
628874 AATAT
66 AATAT
628879 ATCAATTACA
Statistics
Matches: 2195, Mismatches: 133, Indels: 39
0.93 0.06 0.02
Matches are distributed among these distances:
133 354 0.16
134 1500 0.68
135 341 0.16
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (134 bp):
ATACATTATACAATATGATTGATGTATATACATTATACAATATGATCGATGTATATACATTATAC
AATATGCTCATGTATATACATTATACAATATGATCGATGTATATACATTATACAATATGATCGAT
GTAT
Found at i:629292 original size:1 final size:1
Alignment explanation
Indices: 629286--629315 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
629276 TCAATTTTGT
*
629286 AAAAAAAAAAAAAGAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
629316 TTGAAATAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:664903 original size:12 final size:12
Alignment explanation
Indices: 664886--664911 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
664876 TTCCTGTGAA
664886 AAAGACAGGTGG
1 AAAGACAGGTGG
664898 AAAGACAGGTGG
1 AAAGACAGGTGG
664910 AA
1 AA
664912 TGTCGAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.38, T:0.08
Consensus pattern (12 bp):
AAAGACAGGTGG
Found at i:671817 original size:39 final size:39
Alignment explanation
Indices: 671763--671881 Score: 238
Period size: 39 Copynumber: 3.1 Consensus size: 39
671753 CGTTTGTTGC
671763 TGAGTTTTTCCTTTACAAATACATGTATATACCCCACGG
1 TGAGTTTTTCCTTTACAAATACATGTATATACCCCACGG
671802 TGAGTTTTTCCTTTACAAATACATGTATATACCCCACGG
1 TGAGTTTTTCCTTTACAAATACATGTATATACCCCACGG
671841 TGAGTTTTTCCTTTACAAATACATGTATATACCCCACGG
1 TGAGTTTTTCCTTTACAAATACATGTATATACCCCACGG
671880 TG
1 TG
671882 NNNNNNNNNN
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (39 bp):
TGAGTTTTTCCTTTACAAATACATGTATATACCCCACGG
Found at i:673223 original size:9 final size:9
Alignment explanation
Indices: 673209--673234 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
673199 AATGTAAAAA
673209 TCAAAGTAC
1 TCAAAGTAC
673218 TCAAAGTAC
1 TCAAAGTAC
673227 TCAAAGTA
1 TCAAAGTA
673235 GAGATATACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (9 bp):
TCAAAGTAC
Found at i:673571 original size:28 final size:27
Alignment explanation
Indices: 673534--673587 Score: 99
Period size: 28 Copynumber: 2.0 Consensus size: 27
673524 CTGGTTTGTC
673534 AAAATCATTCACGTAATCTACACAAAA
1 AAAATCATTCACGTAATCTACACAAAA
673561 AAAATTCATTCACGTAATCTACACAAA
1 AAAA-TCATTCACGTAATCTACACAAA
673588 GATACAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.50, C:0.22, G:0.04, T:0.24
Consensus pattern (27 bp):
AAAATCATTCACGTAATCTACACAAAA
Found at i:678362 original size:76 final size:76
Alignment explanation
Indices: 678236--678394 Score: 275
Period size: 76 Copynumber: 2.1 Consensus size: 76
678226 TATTTTATAC
*
678236 TACAGAAATGTTTTGATATGTCTAATAATTATATTTTATTAATGAAAGGGCAGTCATATTTCTGT
1 TACAGAAATGTTTTGATATGTCTAATAATCATATTTTATTAATGAAAGGGCAGTCATATTTCTGT
678301 TATCATATAAA
66 TATCATATAAA
*
678312 TACAGAAATGTTTTGATATGTCTAATAATCATGTTTT-TTAATGAAAAGGGCAGTCATATTTCTG
1 TACAGAAATGTTTTGATATGTCTAATAATCATATTTTATTAATG-AAAGGGCAGTCATATTTCTG
*
678376 TTATCATTTAAA
65 TTATCATATAAA
678388 TACAGAA
1 TACAGAA
678395 CACGGTGTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
75 6 0.08
76 73 0.92
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (76 bp):
TACAGAAATGTTTTGATATGTCTAATAATCATATTTTATTAATGAAAGGGCAGTCATATTTCTGT
TATCATATAAA
Found at i:679245 original size:19 final size:19
Alignment explanation
Indices: 679221--679260 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
679211 GAAGTATATC
*
679221 TCTTACCTGTACTCTGTAT
1 TCTTACCTGTACTCCGTAT
679240 TCTTACCTGTACTCCGTAT
1 TCTTACCTGTACTCCGTAT
679259 TC
1 TC
679261 ACCGCCACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.30, G:0.10, T:0.45
Consensus pattern (19 bp):
TCTTACCTGTACTCCGTAT
Found at i:681927 original size:27 final size:27
Alignment explanation
Indices: 681889--682676 Score: 625
Period size: 27 Copynumber: 27.3 Consensus size: 27
681879 TGAAGAGCAG
* *
681889 ATGGTTAAAGACAGGTAAGCTGTTACT
1 ATGGTTATAGACAGGTAAGCTGTTACA
* *
681916 ATGGTTATAGACAGGTAAGATGGTTAAA
1 ATGGTTATAGACAGGTAAGCT-GTTACA
*
681944 ATGGTTATAGACATGTAAGCTGTTACA
1 ATGGTTATAGACAGGTAAGCTGTTACA
*
681971 ATGGTTATAGACATGTAAGCTGTTACA
1 ATGGTTATAGACAGGTAAGCTGTTACA
** *
681998 AAAGTTATAGACAGGTAAGCTGTTAGA
1 ATGGTTATAGACAGGTAAGCTGTTACA
*
682025 ATGGTTAAAGACAGGTAAGCTGTTA-A
1 ATGGTTATAGACAGGTAAGCTGTTACA
* * * *
682051 TATGGTTAAAGACAAGTAAGTTGTTAGA
1 -ATGGTTATAGACAGGTAAGCTGTTACA
* *
682079 ATGGTTAAAGACAGGTAAGCTGTTAGA
1 ATGGTTATAGACAGGTAAGCTGTTACA
* * * *
682106 ATGGTTAAAGACAAGTAAGTTGTTAGA
1 ATGGTTATAGACAGGTAAGCTGTTACA
* *
682133 ATGGTTAAAGACAGGTAAGCTGTTAGA
1 ATGGTTATAGACAGGTAAGCTGTTACA
* * *
682160 ATGGTTAAAGATAGGCAAGCTGTTACA
1 ATGGTTATAGACAGGTAAGCTGTTACA
*
682187 ATGGTTATAGACAGGTTAGCTGTTACA
1 ATGGTTATAGACAGGTAAGCTGTTACA
682214 ATGGTTACTAGTGTAGACAGGTACATGTATAAGCTGTTACA
1 ATGG-T--TA---TAGACA-G-----G--TAAGCTGTTACA
*
682255 ATGGTTAAAGAAGACAGGTACATGTATAAGCTGTTACA
1 ATGGTT--A-TAGACA-G-----G--TAAGCTGTTACA
*
682293 ATGGTTAAAGAAGACAGGTACATGTATAAGCTGTTACA
1 ATGGTT--A-TAGACA-G-----G--TAAGCTGTTACA
*
682331 ATGGTTAAAGACAGGTAAGCTGTTACA
1 ATGGTTATAGACAGGTAAGCTGTTACA
*
682358 ATGGTTA-AGACTA--TACGCTGTTACA
1 ATGGTTATAGAC-AGGTAAGCTGTTACA
* *
682383 ATGGTTAAAGACTA--TAAACTGTTACA
1 ATGGTTATAGAC-AGGTAAGCTGTTACA
** *
682409 ATGGTTATAGACAGACAAGGTGTTACA
1 ATGGTTATAGACAGGTAAGCTGTTACA
* *
682436 ATGGTTATAGACAGCTTAGCTGTTACA
1 ATGGTTATAGACAGGTAAGCTGTTACA
682463 ATGGTTATAGACAGGTAAGCTGTTACA
1 ATGGTTATAGACAGGTAAGCTGTTACA
* * *
682490 ATGGTTATATACAGGTTAGCTGTTAGA
1 ATGGTTATAGACAGGTAAGCTGTTACA
*
682517 ATGGTTATAGACAGGTAAGCTGTTAGA
1 ATGGTTATAGACAGGTAAGCTGTTACA
*
682544 ATGGTTAAAGACAGGTACATGTATTAGCTGTTACA
1 ATGGTTATAGACA-G-----GTA--AGCTGTTACA
* *
682579 TTGGTTAAAGACAGGTACATGTATAAGCTGTTACA
1 ATGGTTATAGACA-G-----G--TAAGCTGTTACA
682614 ATGGTTATAGACAGGTAAGCTGTTACA
1 ATGGTTATAGACAGGTAAGCTGTTACA
*
682641 ATGGTTATAGACAGGTAAGTTGTTACA
1 ATGGTTATAGACAGGTAAGCTGTTACA
682668 ATGGTTATA
1 ATGGTTATA
682677 CTCTTACCTG
Statistics
Matches: 673, Mismatches: 55, Indels: 66
0.85 0.07 0.08
Matches are distributed among these distances:
25 19 0.03
26 32 0.05
27 430 0.64
28 26 0.04
29 2 0.00
30 2 0.00
33 9 0.01
34 3 0.00
35 56 0.08
36 1 0.00
37 2 0.00
38 73 0.11
39 1 0.00
40 2 0.00
41 15 0.02
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.30
Consensus pattern (27 bp):
ATGGTTATAGACAGGTAAGCTGTTACA
Done.