Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 9 of 136
Found at i:2539690 original size:28 final size:27
Alignment explanation
Indices: 2539651--2539707 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
2539641 AAAAATAATT
2539651 TTCACAAAATTTA-AAATAATTTTTAAAA
1 TTCACAAAATTTATAAA-AA-TTTTAAAA
2539679 TTCA-AAATATTTATAAAAATTTTAAAA
1 TTCACAAA-ATTTATAAAAATTTTAAAA
2539706 TT
1 TT
2539708 TACATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
27 13 0.48
28 11 0.41
29 3 0.11
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (27 bp):
TTCACAAAATTTATAAAAATTTTAAAA
Found at i:2541806 original size:10 final size:9
Alignment explanation
Indices: 2541778--2541807 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
2541768 ATTTTATATT
2541778 AATATTTTA
1 AATATTTTA
2541787 AATATTTTA
1 AATATTTTA
2541796 AATACTTTTA
1 AATA-TTTTA
2541806 AA
1 AA
2541808 AATAAAAGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (9 bp):
AATATTTTA
Found at i:2549975 original size:16 final size:16
Alignment explanation
Indices: 2549954--2550013 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 16
2549944 TAGTGTGCTA
2549954 ATTTTATTAATTTATT
1 ATTTTATTAATTTATT
2549970 ATTTTAGCTTAATTT-TT
1 ATTTTA--TTAATTTATT
2549987 ATTTT-TCATAATTTTTATT
1 ATTTTAT--TAA--TTTATT
2550006 ATTTTATT
1 ATTTTATT
2550014 TCCCTTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 14
0.72 0.00 0.28
Matches are distributed among these distances:
14 1 0.03
16 9 0.25
17 7 0.19
18 11 0.31
19 7 0.19
20 1 0.03
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (16 bp):
ATTTTATTAATTTATT
Found at i:2549992 original size:18 final size:16
Alignment explanation
Indices: 2549955--2550005 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
2549945 AGTGTGCTAA
*
2549955 TTTTATTAATTTATTAT
1 TTTTCTTAATTT-TTAT
*
2549972 TTTAGCTTAATTTTTAT
1 TTT-TCTTAATTTTTAT
*
2549989 TTTTCATAATTTTTAT
1 TTTTCTTAATTTTTAT
2550005 T
1 T
2550006 ATTTTATTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 12 0.41
17 10 0.34
18 7 0.24
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTTCTTAATTTTTAT
Found at i:2551610 original size:17 final size:17
Alignment explanation
Indices: 2551588--2551631 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
2551578 CTACCGTCCT
2551588 AAGCCTCAGAACGTTAC
1 AAGCCTCAGAACGTTAC
*
2551605 AAGCCTCAGAATGTTAC
1 AAGCCTCAGAACGTTAC
2551622 AAGCCT-AGAA
1 AAGCCTCAGAA
2551632 GACCAATGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (17 bp):
AAGCCTCAGAACGTTAC
Found at i:2555027 original size:14 final size:16
Alignment explanation
Indices: 2555008--2555047 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
2554998 TCCATGAGCA
2555008 TCTCTT-TTTAT-TTT
1 TCTCTTCTTTATATTT
2555022 TCTCTTCTTTATATTT
1 TCTCTTCTTTATATTT
2555038 TCT-TTCTTTA
1 TCTCTTCTTTA
2555048 ACATTGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.25
15 12 0.50
16 6 0.25
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.72
Consensus pattern (16 bp):
TCTCTTCTTTATATTT
Found at i:2564812 original size:15 final size:14
Alignment explanation
Indices: 2564787--2564820 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
2564777 TCTTGAACTT
2564787 TTATTTCTTTTATG
1 TTATTTCTTTTATG
*
2564801 TTATTTCATTTTATT
1 TTATTTC-TTTTATG
2564816 TTATT
1 TTATT
2564821 ATTATAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (14 bp):
TTATTTCTTTTATG
Found at i:2566410 original size:76 final size:76
Alignment explanation
Indices: 2566302--2566522 Score: 327
Period size: 76 Copynumber: 2.9 Consensus size: 76
2566292 TTGTTGGATG
* * * *
2566302 AACCAACATATATA-AAGAGTGTGCCCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAAC
1 AACCAATAGATATAGAA-AGTGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGC
*
2566366 GCTAGCCAGATG
65 GCTAGCCAGATA
*
2566378 AACCGATAGATATAGAAAGTGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGCG
1 AACCAATAGATATAGAAAGTGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGCG
* * *
2566443 CTTGTCGGATA
66 CTAGCCAGATA
* *
2566454 AACCAATAGATATAGACAGTGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGCACCCAGCG
1 AACCAATAGATATAGAAAGTGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGCG
2566519 CTAG
66 CTAG
2566523 TTGGATGAAC
Statistics
Matches: 131, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
76 129 0.98
77 2 0.02
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (76 bp):
AACCAATAGATATAGAAAGTGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGCG
CTAGCCAGATA
Found at i:2566496 original size:41 final size:39
Alignment explanation
Indices: 2566319--2566497 Score: 126
Period size: 41 Copynumber: 4.7 Consensus size: 39
2566309 ATATATAAAG
* *
2566319 AGTGTGCCCAGCACTAGTCAGATAAA-C-T-G--ACAGA
1 AGTGTGCCCAACACTAGTCAGATAAACCATAGATATAGA
* * * *
2566353 AGTTGCGCCCAACGCTAGCCAGATGAACCGATAGATATAGAA
1 AG-TGTGCCCAACACTAGTCAGATAAACC-ATAGATATAG-A
*
2566395 AGTGTGCCCAACACTAGTCAGATAAA-C-T-G--ACAGA
1 AGTGTGCCCAACACTAGTCAGATAAACCATAGATATAGA
* * * * *
2566429 AGTTGCGCCCAGCGCTTGTCGGATAAACCAATAGATATAGA
1 AG-TGTGCCCAACACTAGTCAGATAAACC-ATAGATATAGA
2566470 CAGTGTGCCCAACACTAGTCAGATAAAC
1 -AGTGTGCCCAACACTAGTCAGATAAAC
2566498 TGACAGAAGT
Statistics
Matches: 107, Mismatches: 22, Indels: 25
0.69 0.14 0.16
Matches are distributed among these distances:
34 5 0.05
35 41 0.38
36 2 0.02
37 1 0.01
38 3 0.03
39 2 0.02
40 1 0.01
41 47 0.44
42 5 0.05
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.18
Consensus pattern (39 bp):
AGTGTGCCCAACACTAGTCAGATAAACCATAGATATAGA
Found at i:2566593 original size:20 final size:20
Alignment explanation
Indices: 2566568--2566615 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
2566558 AGTCCATAAA
2566568 ATCACATTTCATAACCCAAT
1 ATCACATTTCATAACCCAAT
*
2566588 ATCACATTTCATAACTCAAT
1 ATCACATTTCATAACCCAAT
2566608 ATCACATT
1 ATCACATT
2566616 CACTTCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (20 bp):
ATCACATTTCATAACCCAAT
Found at i:2581235 original size:77 final size:78
Alignment explanation
Indices: 2581108--2581269 Score: 310
Period size: 77 Copynumber: 2.1 Consensus size: 78
2581098 AAAGGCGAAG
2581108 AACGATTGTACGTACGGTTTGCATCTTTACAGTGTAAGAAATCTAACTAGTTTGGATTCATAAAA
1 AACGATTGTACGTACGGTTTGCATCTTTACAGTGTAAGAAATCTAACTAGTTTGGATTCATAAAA
2581173 TAGTTATAA-TTA
66 TAGTTATAATTTA
2581185 AACGATTGTACGTACGGTTTGCATCTTTACAGTGTAAGAAATCTAACTAGTTTGGATTCATAAAA
1 AACGATTGTACGTACGGTTTGCATCTTTACAGTGTAAGAAATCTAACTAGTTTGGATTCATAAAA
2581250 TAGTTATAATTTA
66 TAGTTATAATTTA
2581263 AA-GATTG
1 AACGATTG
2581270 GTTTGGAACT
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
77 79 0.94
78 5 0.06
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.36
Consensus pattern (78 bp):
AACGATTGTACGTACGGTTTGCATCTTTACAGTGTAAGAAATCTAACTAGTTTGGATTCATAAAA
TAGTTATAATTTA
Found at i:2590359 original size:53 final size:51
Alignment explanation
Indices: 2590279--2590384 Score: 133
Period size: 53 Copynumber: 2.0 Consensus size: 51
2590269 AAATGAATAG
**
2590279 AAATAGAGAAATGTAAAACATTCAGGAAATGGTTATGGTTTTCTCCAAAATGA
1 AAATAGAGAAATGTAAAACATTCAGG-AATGAATATGGTTTTCT-CAAAATGA
* * *
2590332 AAATAGAGAAAATG-GAATCATTTAGGAATGAATATGGTTTTCTCAAAATGA
1 AAATAGAG-AAATGTAAAACATTCAGGAATGAATATGGTTTTCTCAAAATGA
2590383 AA
1 AA
2590385 TGGAAACAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
51 10 0.21
52 15 0.32
53 17 0.36
54 5 0.11
ACGTcount: A:0.45, C:0.08, G:0.19, T:0.28
Consensus pattern (51 bp):
AAATAGAGAAATGTAAAACATTCAGGAATGAATATGGTTTTCTCAAAATGA
Found at i:2590402 original size:6 final size:6
Alignment explanation
Indices: 2590377--2590429 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
2590367 GGTTTTCTCA
** * *
2590377 AAAT-G AAATGG AAACAG AAATGG AAATGG AAATGA AAATGA AAATGAG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G
2590425 AAATG
1 AAATG
2590430 AATTCATTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
5 4 0.10
6 31 0.77
7 5 0.12
ACGTcount: A:0.58, C:0.02, G:0.25, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:2590415 original size:18 final size:18
Alignment explanation
Indices: 2590376--2590431 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
2590366 TGGTTTTCTC
*
2590376 AAAAT-GAAATGGAAA-C
1 AAAATGGAAATGGAAATG
2590392 AGAAATGGAAATGGAAATG
1 A-AAATGGAAATGGAAATG
*
2590411 AAAATGAAAATGAGAAATG
1 AAAATGGAAATG-GAAATG
2590430 AA
1 AA
2590432 TTCATTTAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 1 0.03
17 4 0.12
18 20 0.59
19 9 0.26
ACGTcount: A:0.61, C:0.02, G:0.23, T:0.14
Consensus pattern (18 bp):
AAAATGGAAATGGAAATG
Found at i:2592430 original size:50 final size:52
Alignment explanation
Indices: 2592371--2592473 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
2592361 AATTGGGTAG
*
2592371 TAGCTTTTGTTT-TT-TTAAACTATATTTTTATGTTATAAGTTTTATCTGCT
1 TAGCTTTTGTTTATTCTTAAACTATATTTCTATGTTATAAGTTTTATCTGCT
*
2592421 TAGCTTTTGTTTATTCTTAAACTATATTTCTATGTTATTAGTTTTATCTGCT
1 TAGCTTTTGTTTATTCTTAAACTATATTTCTATGTTATAAGTTTTATCTGCT
2592473 T
1 T
2592474 GGTACTTAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 12 0.24
51 2 0.04
52 35 0.71
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.59
Consensus pattern (52 bp):
TAGCTTTTGTTTATTCTTAAACTATATTTCTATGTTATAAGTTTTATCTGCT
Found at i:2600595 original size:16 final size:16
Alignment explanation
Indices: 2600583--2600613 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2600573 TGAATTGGTT
2600583 GACTCAAGAATTGATC
1 GACTCAAGAATTGATC
2600599 GACTCAAGAATTGAT
1 GACTCAAGAATTGAT
2600614 ATGTGGATCA
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:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (16 bp):
GACTCAAGAATTGATC
Found at i:2601886 original size:23 final size:23
Alignment explanation
Indices: 2601860--2601909 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
2601850 ATGCATATAC
2601860 CAAAATAGACAAAATAGAACCAT
1 CAAAATAGACAAAATAGAACCAT
*
2601883 CAAAATAGACAAAATATAACCAT
1 CAAAATAGACAAAATAGAACCAT
2601906 CAAA
1 CAAA
2601910 TACAACCATC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.62, C:0.18, G:0.06, T:0.14
Consensus pattern (23 bp):
CAAAATAGACAAAATAGAACCAT
Found at i:2604633 original size:26 final size:26
Alignment explanation
Indices: 2604559--2604660 Score: 80
Period size: 26 Copynumber: 3.9 Consensus size: 26
2604549 CACCAATATC
* * * *
2604559 GCAGCAAAGCTGCCAGTAATAATAAC
1 GCAGCAAAGCTACCAGTAACAGTAAT
* * * *
2604585 GCAACAAAACTACCAATATCAGTAAT
1 GCAGCAAAGCTACCAGTAACAGTAAT
*
2604611 GCAGCAAAGCTGCCAGTAACAGTATAT
1 GCAGCAAAGCTACCAGTAACAGTA-AT
** *
2604638 GTGGCAAAGCCACCAGT-ACAGTA
1 GCAGCAAAGCTACCAGTAACAGTA
2604661 TACTTCGCCT
Statistics
Matches: 58, Mismatches: 17, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
26 43 0.74
27 15 0.26
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.17
Consensus pattern (26 bp):
GCAGCAAAGCTACCAGTAACAGTAAT
Found at i:2604802 original size:27 final size:27
Alignment explanation
Indices: 2604780--2605171 Score: 433
Period size: 27 Copynumber: 14.5 Consensus size: 27
2604770 AGGGGTATAA
*
2604780 CAGTCATTTTACCCTTTGAGGGTATTT
1 CAGTAATTTTACCCTTTGAGGGTATTT
** * *
2604807 TGGTAATTTTAGCTTTTGAGGGTATTT
1 CAGTAATTTTACCCTTTGAGGGTATTT
* * *
2604834 CGGTAATTTTACCCTTCGAAGGTATTT
1 CAGTAATTTTACCCTTTGAGGGTATTT
2604861 CAGTAATTTTA-CCTTTCGAGGGTATTT
1 CAGTAATTTTACCCTTT-GAGGGTATTT
*
2604888 TAGTAATTTTACCCTTT-AGGGGTATTT
1 CAGTAATTTTACCCTTTGA-GGGTATTT
*
2604915 CGGTAATTTTACCCTTT-AGGGGTATTT
1 CAGTAATTTTACCCTTTGA-GGGTATTT
* *
2604942 TAGTAATTTTACCTTTTGAGGGTATTT
1 CAGTAATTTTACCCTTTGAGGGTATTT
* * *
2604969 TAGTACTTTTACCCTTCGAGGGTATTT
1 CAGTAATTTTACCCTTTGAGGGTATTT
2604996 C-GATAATTTTACCCTTT-AGGGGTATTT
1 CAG-TAATTTTACCCTTTGA-GGGTATTT
*
2605023 CAGTAATTTTACCCTTCGAGGGTATTT
1 CAGTAATTTTACCCTTTGAGGGTATTT
* *
2605050 CGGTAATTTTACCCTTCGAGGGTATTT
1 CAGTAATTTTACCCTTTGAGGGTATTT
* *
2605077 C-GATAATTTTACTCTTTGCGGGTATTT
1 CAG-TAATTTTACCCTTTGAGGGTATTT
* *
2605104 CGGTAATTTTACCCTTCGAGGGTATTT
1 CAGTAATTTTACCCTTTGAGGGTATTT
*
2605131 C-GATAATTTTACCCTTCG-GGAGTATTT
1 CAG-TAATTTTACCCTTTGAGG-GTATTT
2605158 C-GATAATTTTACCC
1 CAG-TAATTTTACCC
2605172 CCAATTCACA
Statistics
Matches: 320, Mismatches: 33, Indels: 24
0.85 0.09 0.06
Matches are distributed among these distances:
26 11 0.03
27 300 0.94
28 9 0.03
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (27 bp):
CAGTAATTTTACCCTTTGAGGGTATTT
Found at i:2604911 original size:81 final size:81
Alignment explanation
Indices: 2604770--2605171 Score: 492
Period size: 81 Copynumber: 5.0 Consensus size: 81
2604760 TTCCACTCCT
** * * * * *
2604770 AGGGGTATAACAGTCATTTTACCCTTT-GAGGGTATTTTGGTAATTTTAGCTTTTGAGGGTATTT
1 AGGGGTATTTCAGTAATTTTA-CCTTTCGAGGGTATTTTAGTAATTTTACCCTTCGAGGGTATTT
*
2604834 CGGTAATTTTACCCTTCG
65 CGATAATTTTACCCTT-G
* *
2604852 A-AGGTATTTCAGTAATTTTACCTTTCGAGGGTATTTTAGTAATTTTACCCTT-TAGGGGTATTT
1 AGGGGTATTTCAGTAATTTTACCTTTCGAGGGTATTTTAGTAATTTTACCCTTCGA-GGGTATTT
* *
2604915 CGGTAATTTTACCCTTT
65 CGATAATTTTACCCTTG
* * *
2604932 AGGGGTATTTTAGTAATTTTACCTTTTGAGGGTATTTTAGTACTTTTACCCTTCGAGGGTATTTC
1 AGGGGTATTTCAGTAATTTTACCTTTCGAGGGTATTTTAGTAATTTTACCCTTCGAGGGTATTTC
*
2604997 GATAATTTTACCCTTT
66 GATAATTTTACCCTTG
* **
2605013 AGGGGTATTTCAGTAATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTC
1 AGGGGTATTTCAGTAATTTTACCTTTCGAGGGTATTTTAGTAATTTTACCCTTCGAGGGTATTTC
*
2605078 GATAATTTTACTCTTTG
66 GATAATTTTAC-CCTTG
* * * *
2605095 -CGGGTATTTCGGTAATTTTACCCTTCGAGGGTA-TTTCGATAATTTTACCCTTCG-GGAGTATT
1 AGGGGTATTTCAGTAATTTTACCTTTCGAGGGTATTTTAG-TAATTTTACCCTTCGAGG-GTATT
2605157 TCGATAATTTTACCC
64 TCGATAATTTTACCC
2605172 CCAATTCACA
Statistics
Matches: 285, Mismatches: 28, Indels: 16
0.87 0.09 0.05
Matches are distributed among these distances:
80 13 0.05
81 267 0.94
82 5 0.02
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (81 bp):
AGGGGTATTTCAGTAATTTTACCTTTCGAGGGTATTTTAGTAATTTTACCCTTCGAGGGTATTTC
GATAATTTTACCCTTG
Found at i:2606718 original size:71 final size:71
Alignment explanation
Indices: 2606602--2606811 Score: 420
Period size: 71 Copynumber: 3.0 Consensus size: 71
2606592 ACCAATGAAG
2606602 CAAACAAGCAATTTGTGACAAAACATACAAAAATTAGAGACTTAAATTTTGGGGCGTTACAATAA
1 CAAACAAGCAATTTGTGACAAAACATACAAAAATTAGAGACTTAAATTTTGGGGCGTTACAATAA
2606667 ACCAAA
66 ACCAAA
2606673 CAAACAAGCAATTTGTGACAAAACATACAAAAATTAGAGACTTAAATTTTGGGGCGTTACAATAA
1 CAAACAAGCAATTTGTGACAAAACATACAAAAATTAGAGACTTAAATTTTGGGGCGTTACAATAA
2606738 ACCAAA
66 ACCAAA
2606744 CAAACAAGCAATTTGTGACAAAACATACAAAAATTAGAGACTTAAATTTTGGGGCGTTACAATAA
1 CAAACAAGCAATTTGTGACAAAACATACAAAAATTAGAGACTTAAATTTTGGGGCGTTACAATAA
2606809 ACC
66 ACC
2606812 CTTTTCTCAA
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 139 1.00
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (71 bp):
CAAACAAGCAATTTGTGACAAAACATACAAAAATTAGAGACTTAAATTTTGGGGCGTTACAATAA
ACCAAA
Found at i:2608199 original size:30 final size:30
Alignment explanation
Indices: 2608163--2608261 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 30
2608153 AAAAAACTAC
**
2608163 ACATACATAATATAAATTGCAATATACATA
1 ACATACATAATATAAACAGCAATATACATA
*
2608193 ACATACATAATATAAACAGTAATATACAT-
1 ACATACATAATATAAACAGCAATATACATA
* * ** *
2608222 ACAT-GATATACATAAACAATAATAAACATA
1 ACATACATA-ATATAAACAGCAATATACATA
*
2608252 ACGTACATAA
1 ACATACATAA
2608262 AATACATAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
28 3 0.05
29 21 0.37
30 30 0.53
31 3 0.05
ACGTcount: A:0.56, C:0.14, G:0.04, T:0.26
Consensus pattern (30 bp):
ACATACATAATATAAACAGCAATATACATA
Found at i:2608200 original size:9 final size:9
Alignment explanation
Indices: 2608186--2608332 Score: 55
Period size: 9 Copynumber: 16.9 Consensus size: 9
2608176 AAATTGCAAT
2608186 ATACATAAC
1 ATACATAAC
2608195 ATACAT-A-
1 ATACATAAC
*
2608202 ATATA-AAC
1 ATACATAAC
2608210 AGTA-ATATAC
1 A-TACATA-AC
* *
2608220 ATACATGAT
1 ATACATAAC
2608229 ATACATAA-
1 ATACATAAC
* *
2608237 ACA-ATAAT
1 ATACATAAC
*
2608245 AAACATAAC
1 ATACATAAC
* *
2608254 GTACATAAA
1 ATACATAAC
2608263 ATACATAAAC
1 ATACAT-AAC
2608273 AGTA-ATATAC
1 A-TACATA-AC
2608283 -TACATAAC
1 ATACATAAC
* *
2608291 ATATATAAT
1 ATACATAAC
*
2608300 ATCCAT-AC
1 ATACATAAC
2608308 -TA-ATATAC
1 ATACATA-AC
*
2608316 ATACATAAT
1 ATACATAAC
2608325 ATACATAA
1 ATACATAA
2608333 ATAACAGACA
Statistics
Matches: 102, Mismatches: 19, Indels: 34
0.66 0.12 0.22
Matches are distributed among these distances:
6 2 0.02
7 10 0.10
8 14 0.14
9 59 0.58
10 15 0.15
11 2 0.02
ACGTcount: A:0.55, C:0.15, G:0.03, T:0.27
Consensus pattern (9 bp):
ATACATAAC
Found at i:2608313 original size:12 final size:13
Alignment explanation
Indices: 2608289--2608336 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
2608279 ATACTACATA
*
2608289 ACATATATAATAT
1 ACATACATAATAT
*
2608302 CCATAC-TAATAT
1 ACATACATAATAT
2608314 ACATACATAATAT
1 ACATACATAATAT
*
2608327 ACATAAATAA
1 ACATACATAA
2608337 CAGACATACT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 11 0.37
13 19 0.63
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
ACATACATAATAT
Found at i:2608317 original size:25 final size:25
Alignment explanation
Indices: 2608279--2608331 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
2608269 AAACAGTAAT
* *
2608279 ATACTACATAACATATATAATATCC
1 ATACTACATAACATACATAATATAC
2608304 ATACTA-ATATACATACATAATATAC
1 ATACTACATA-ACATACATAATATAC
2608329 ATA
1 ATA
2608332 AATAACAGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (25 bp):
ATACTACATAACATACATAATATAC
Found at i:2611857 original size:44 final size:43
Alignment explanation
Indices: 2611759--2611871 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 43
2611749 TTCGTACAAC
* * *
2611759 GCCATCGTCCCAGACGTGGTCTTACATGTAATCACATATGGAT
1 GCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGAT
*
2611802 GCC-ACTATCCCAGACAG-GGTCTTACACGTAAGTCACA-AGTCGAT
1 GCCAAC-GTCCCAGAC-GTGGTCTTACACGTAA-TCACATA-TCGAT
2611846 GCCAACGTCCCAGACGTGGTCTTACA
1 GCCAACGTCCCAGACGTGGTCTTACA
2611872 GATAACACAT
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
42 1 0.02
43 26 0.44
44 30 0.51
45 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (43 bp):
GCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCGAT
Found at i:2620978 original size:109 final size:109
Alignment explanation
Indices: 2620784--2621212 Score: 668
Period size: 109 Copynumber: 4.0 Consensus size: 109
2620774 AAAATTCAAG
* * * *
2620784 AGGATATTTGGCAATTTGGTTAAACGAG--AAATCGAA-ACCCATCACCTTAGGGCACG-TTCCT
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATC-AACACCCAGCACCTTAGGGCACGTTTTCT
2620845 CGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
65 CGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
* *
2620890 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCACGTTTTCTC
*
2620955 GAATTTCCAAACGCAAAAAATTGCCTTATTTTGAAATTTTTGAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
* * *
2620999 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCGACACCCAGCACTTTAGGGCATGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCACGTTTTCTC
* * * *
2621064 GAATTTTCAAACGCAAAACATTGCCTTATTGTAAAATTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
* * *
2621108 AGGATATTTAGCTATTTGATTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCACGTTTTCTC
2621173 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
66 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
2621213 NNNNNNNNNN
Statistics
Matches: 297, Mismatches: 22, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
106 25 0.08
107 2 0.01
108 23 0.08
109 247 0.83
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (109 bp):
AGGATATTTAGCAATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
Found at i:2623945 original size:3 final size:3
Alignment explanation
Indices: 2623937--2623991 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
2623927 ATATAAAAGC
* * *
2623937 AAT AAT AAT AAT AAT AAT AAT AAT AA- AGAA AAT GAT AAT AAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
2623982 AA- AAT AAT AA
1 AAT AAT AAT AA
2623992 AGAAAATAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
2 3 0.07
3 40 0.91
4 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:2624013 original size:29 final size:29
Alignment explanation
Indices: 2623937--2624014 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
2623927 ATATAAAAGC
*
2623937 AATAATAATAATAATAATAATAATAAAGAA
1 AATAATAATAATACTAA-AATAATAAAGAA
* *
2623967 AATGATAATAATATTAAAATAATAAAGAA
1 AATAATAATAATACTAAAATAATAAAGAA
*
2623996 AATAATGAA-AATGCTAAAA
1 AATAAT-AATAATACTAAAA
2624015 GGGGGGCTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 25 0.60
30 17 0.40
ACGTcount: A:0.67, C:0.01, G:0.06, T:0.26
Consensus pattern (29 bp):
AATAATAATAATACTAAAATAATAAAGAA
Found at i:2625604 original size:50 final size:49
Alignment explanation
Indices: 2625351--2626288 Score: 576
Period size: 50 Copynumber: 18.8 Consensus size: 49
2625341 CACCATCGTA
* * ** *
2625351 GCTTCAATATGTTCCACTGCATCGCCAGGG-AGATAAGATTCGTTGTTGTA
1 GCTTCAATCTGTTCCACTGCAT-GCCTGGGAAG-TAAGATTCGCCGTTGTG
* ** * * * * *
2625401 GCTTCAATCTATTTGATTGCAATGTCGGGGAAGGAAGATTCGCCATTGTG
1 GCTTCAATCTGTTCCACTGC-ATGCCTGGGAAGTAAGATTCGCCGTTGTG
* ** * *
2625451 GCTTCAATCTGTTCCGCTATATAG-CTTGGAAGTAAGATTCGCCATTGTG
1 GCTTCAATCTGTTCCACTGCAT-GCCTGGGAAGTAAGATTCGCCGTTGTG
* * ** * * * * * *
2625500 GCCTCAATCTTTTAAACTGCAATGTC-GAGGAAGCAGGATTCGCCATCGTA
1 GCTTCAATCTGTTCCACTGC-ATGCCTG-GGAAGTAAGATTCGCCGTTGTG
* * *
2625550 GCTTTAATTTGTTCCACTGCATCACCTGGGAAGTAAGATTCGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCAT-GCCTGGGAAGTAAGATTCGCCGTTGTG
** * ** * * * * * *
2625600 GCTTTGATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTA
1 GCTTCAATCTGTTCCACTGC-ATGCCTGGGAAGTAAGATTCGCCGTTGTG
* *
2625650 GCTTCAATCTATTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCAT-GCCTGGGAAGTAAGATTCGCCGTTGTG
** * * * * * *
2625700 GCTTCAATCTGTTGAATTGCAATGTC-GAGGAAGCAAGATTCACCGTCGTA
1 GCTTCAATCTGTTCCACTGC-ATGCCTG-GGAAGTAAGATTCGCCGTTGTG
* * * *
2625750 GCTTTAATCTGTTCCGCTGCATTGCCT-GGAAGTAAGATTCACCATTGTG
1 GCTTCAATCTGTTCCACTGCA-TGCCTGGGAAGTAAGATTCGCCGTTGTG
* * ** * * * * *
2625799 GCTTCGATCTTTTGAATTGCAATGTCGGGGACGCAAGATTCGCCGTTGTG
1 GCTTCAATCTGTTCCACTGC-ATGCCTGGGAAGTAAGATTCGCCGTTGTG
* *
2625849 ACTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCAT-GCCTGGGAAGTAAGATTCGCCGTTGTG
** * * * * * *
2625899 GCTTCAATCTGTTGAATTGCAATGTC-GAGGAAGCAAGATTCACCGTCGTA
1 GCTTCAATCTGTTCCACTGC-ATGCCTG-GGAAGTAAGATTCGCCGTTGTG
* * * *
2625949 GCTTTAATCTGTTCCGCTGCATTGCCT-GGAAGTAAGATTCACCATTGTG
1 GCTTCAATCTGTTCCACTGCA-TGCCTGGGAAGTAAGATTCGCCGTTGTG
* * ** * * * * *
2625998 GCTTCGATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTA
1 GCTTCAATCTGTTCCACTGC-ATGCCTGGGAAGTAAGATTCGCCGTTGTG
* *
2626048 GCTTCAATCTGTTCCACTGCATCGCCTGGGAAGTAAGATCCGCTGTTGTG
1 GCTTCAATCTGTTCCACTGCAT-GCCTGGGAAGTAAGATTCGCCGTTGTG
* * ** * * * * * * *
2626098 GCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCCATCGTA
1 GCTTCAATCTGTTCCACTGC-ATGCCTGGGAAGTAAGATTCGCCGTTGTG
* * *
2626148 GCTTCAATATGTTCCGCTGCACTGCCTGGGAAATAAGATTCGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCA-TGCCTGGGAAGTAAGATTCGCCGTTGTG
* * ** * * * * *
2626198 GCTTCGATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTA
1 GCTTCAATCTGTTCCACTGC-ATGCCTGGGAAGTAAGATTCGCCGTTGTG
* * *
2626248 GCTTCAATCTGCTCCGCTGCATCGCCTAGGAAGTAAGATTC
1 GCTTCAATCTGTTCCACTGCAT-GCCTGGGAAGTAAGATTC
2626289 ATTTTTCATA
Statistics
Matches: 651, Mismatches: 209, Indels: 56
0.71 0.23 0.06
Matches are distributed among these distances:
49 121 0.19
50 516 0.79
51 14 0.02
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (49 bp):
GCTTCAATCTGTTCCACTGCATGCCTGGGAAGTAAGATTCGCCGTTGTG
Found at i:2625621 original size:100 final size:100
Alignment explanation
Indices: 2625280--2626288 Score: 1269
Period size: 100 Copynumber: 10.1 Consensus size: 100
2625270 GTCTCGTCGA
* * * * * * *
2625280 GGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTT-AGTTGCAATATCAGGAAAGCAAAATTCAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCAAGATTCGC
* * * *
2625344 CATCGTAGCTTCAATATGTTCCACTGCATCGCCAG
66 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTG
** * *
2625379 GG-AGATAAGATTCGTTGTTGTAGCTTCAATCTATTTG-ATTGCAATGTCGGGGAAGGAAGATTC
1 GGAAG-TAAGATTCGCCGTTGTGGCTTCAATCT-TTTGAATTGCAATGTCGGGGAAGCAAGATTC
* * * ** * *
2625442 GCCATTGTGGCTTCAATCTGTTCCGCTATATAG-CTT
64 GCCGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTG
* * * * * *
2625478 GGAAGTAAGATTCGCCATTGTGGCCTCAATCTTTTAAACTGCAATGTCGAGGAAGCAGGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCAAGATTCGC
* * * * *
2625543 CATCGTAGCTTTAATTTGTTCCACTGCATCACCTG
66 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTG
** **
2625578 GGAAGTAAGATTCGCCGTTGTGGCTTTGATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCAAGATTCGC
*
2625643 CGTCGTAGCTTCAATCTATTCCGCTGCATCGCCTG
66 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTG
* * *
2625678 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTGAATTGCAATGTCGAGGAAGCAAGATTCAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCAAGATTCGC
* *
2625743 CGTCGTAGCTTTAATCTGTTCCGCTGCATTGCCT-
66 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTG
* * * *
2625777 GGAAGTAAGATTCACCATTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGACGCAAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCAAGATTCGC
*
2625842 CGTTGT-GACTTCAATCTGTTCCGCTGCATCGCCTG
66 CGTCGTAG-CTTCAATCTGTTCCGCTGCATCGCCTG
* * *
2625877 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTGAATTGCAATGTCGAGGAAGCAAGATTCAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCAAGATTCGC
* *
2625942 CGTCGTAGCTTTAATCTGTTCCGCTGCATTGCCT-
66 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTG
* * * **
2625976 GGAAGTAAGATTCACCATTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCAAGATTCGC
* *
2626041 CGTTGTAGCTTCAATCTGTTCCACTGCATCGCCTG
66 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTG
* * * *
2626076 GGAAGTAAGATCCGCTGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCAAGATTCGC
* *
2626141 CATCGTAGCTTCAATATGTTCCGCTGCA-CTGCCTG
66 CGTCGTAGCTTCAATCTGTTCCGCTGCATC-GCCTG
* * **
2626176 GGAAATAAGATTCGCCGTTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCAAGATTCGC
* * *
2626241 CGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCTA
66 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTG
2626276 GGAAGTAAGATTC
1 GGAAGTAAGATTC
2626289 ATTTTTCATA
Statistics
Matches: 773, Mismatches: 125, Indels: 23
0.84 0.14 0.02
Matches are distributed among these distances:
98 5 0.01
99 272 0.35
100 494 0.64
101 2 0.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (100 bp):
GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCAAGATTCGC
CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTG
Found at i:2625624 original size:199 final size:200
Alignment explanation
Indices: 2625280--2626288 Score: 1399
Period size: 199 Copynumber: 5.1 Consensus size: 200
2625270 GTCTCGTCGA
* * * *
2625280 GGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTT-AGTTGCAATATC-AGGAAAGCAAAATTCA
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGAGG-AAGCAAGATTCA
* * * ** * *
2625343 CCATCGTAGCTTCAATATGTTCCACTGCATCGCCAGGG-AGATAAGATTCGTTGTTGTAGCTTCA
65 CCATCGTAGCTTTAATATGTTCCGCTGCATCGCCTGGGAAG-TAAGATTCGCCGTTGTGGCTTCG
* * *
2625407 ATCTATTTG-ATTGCAATGTCGGGGAAG-GAAGATTCGCCATTGTGGCTTCAATCTGTTCCGCTA
129 ATCT-TTTGAATTGCAATGTCGGGGAAGTG-AGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTG
* * *
2625470 TATAG-CTT
192 CATCGCCTG
* * * * *
2625478 GGAAGTAAGATTCGCCATTGTGGCCTCAATCTTTTAAACTGCAATGTCGAGGAAGCAGGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGAGGAAGCAAGATTCAC
* * * *
2625543 CATCGTAGCTTTAATTTGTTCCACTGCATCACCTGGGAAGTAAGATTCGCCGTTGTGGCTTTGAT
66 CATCGTAGCTTTAATATGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCGAT
* *
2625608 CTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTCGTAGCTTCAATCTATTCCGCTGCATC
131 CTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATC
2625673 GCCTG
196 GCCTG
* *
2625678 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTGAATTGCAATGTCGAGGAAGCAAGATTCAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGAGGAAGCAAGATTCAC
* * * * *
2625743 CGTCGTAGCTTTAATCTGTTCCGCTGCATTGCCT-GGAAGTAAGATTCACCATTGTGGCTTCGAT
66 CATCGTAGCTTTAATATGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCGAT
* **
2625807 CTTTTGAATTGCAATGTCGGGGACGCAAGATTCGCCGTTGT-GACTTCAATCTGTTCCGCTGCAT
131 CTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAG-CTTCAATCTGTTCCGCTGCAT
2625871 CGCCTG
195 CGCCTG
* *
2625877 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTGAATTGCAATGTCGAGGAAGCAAGATTCAC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGAGGAAGCAAGATTCAC
* * * * *
2625942 CGTCGTAGCTTTAATCTGTTCCGCTGCATTGCCT-GGAAGTAAGATTCACCATTGTGGCTTCGAT
66 CATCGTAGCTTTAATATGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCGAT
*
2626006 CTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATC
131 CTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATC
2626071 GCCTG
196 GCCTG
* * * * *
2626076 GGAAGTAAGATCCGCTGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGC
1 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGAGGAAGCAAGATTCAC
* *
2626141 CATCGTAGCTTCAATATGTTCCGCTGCA-CTGCCTGGGAAATAAGATTCGCCGTTGTGGCTTCGA
66 CATCGTAGCTTTAATATGTTCCGCTGCATC-GCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCGA
*
2626205 TCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGCTCCGCTGCAT
130 TCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCAT
*
2626270 CGCCTA
195 CGCCTG
2626276 GGAAGTAAGATTC
1 GGAAGTAAGATTC
2626289 ATTTTTCATA
Statistics
Matches: 733, Mismatches: 68, Indels: 18
0.89 0.08 0.02
Matches are distributed among these distances:
198 37 0.05
199 494 0.67
200 202 0.28
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (200 bp):
GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGAGGAAGCAAGATTCAC
CATCGTAGCTTTAATATGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCGAT
CTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATC
GCCTG
Found at i:2625871 original size:299 final size:299
Alignment explanation
Indices: 2625280--2626288 Score: 1319
Period size: 299 Copynumber: 3.4 Consensus size: 299
2625270 GTCTCGTCGA
* * * * *
2625280 GGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTT-AGTTGCAATATCAGGAAAGCAAAATTCAC
1 GGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCAAGATTCAC
* * * * ** *
2625344 CATCGTAGCTTCAATATGTTCCACTGCATCGCCAGGG-AGATAAGATTCGTTGTTGTAGCTTCAA
66 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAG-TAAGATTCGCCGTTGTGGCTTCAA
* * * **
2625408 TCTATTTG-ATTGCAATGTCGGGGAAGGAAGATTCGCCATTGTGGCTTCAATCTGTTCCGCTATA
130 TCT-TTTGAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCA
* * * *
2625472 TAGCTTGGAAGTAAGATTCGCCATTGTGGCCTCAATCTTTTAAACTGCAATGTCGAGGAAGCAGG
194 TAGCCTGGAAGTAAGATTCGCCATTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAG
* * * *
2625537 ATTCGCCATCGTAGCTTTAATTTGTTCCACTGCATCACCTG
259 ATTCGCCATCGTAGCTTCAATATGTTCCGCTGCATCGCCTG
* ** ** *
2625578 GGAAGTAAGATTCGCCGTTGTGGCTTTGATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGC
1 GGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCAAGATTCAC
*
2625643 CGTCGTAGCTTCAATCTATTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAAT
66 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAAT
* * * * * *
2625708 CTGTTGAATTGCAATGTCGAGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGTTCCGCTGCATT
131 CTTTTGAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATA
* * * * *
2625773 GCCTGGAAGTAAGATTCACCATTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGACGCAAGAT
196 GCCTGGAAGTAAGATTCGCCATTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGAT
* * *
2625838 TCGCCGTTGT-GACTTCAATCTGTTCCGCTGCATCGCCTG
261 TCGCCATCGTAG-CTTCAATATGTTCCGCTGCATCGCCTG
* * *
2625877 GGAAGTAAGATTCGCCGTTGTGGCTTCAATCTGTTGAATTGCAATGTCGAGGAAGCAAGATTCAC
1 GGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCAAGATTCAC
* * * * *
2625942 CGTCGTAGCTTTAATCTGTTCCGCTGCATTGCCT-GGAAGTAAGATTCACCATTGTGGCTTCGAT
66 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAAT
** * *
2626006 CTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCATC
131 CTTTTGAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATA
* **
2626071 GCCTGGGAAGTAAGATCCGCTGTTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGA
196 GCCT-GGAAGTAAGATTCGCCATTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGA
2626136 TTCGCCATCGTAGCTTCAATATGTTCCGCTGCA-CTGCCTG
260 TTCGCCATCGTAGCTTCAATATGTTCCGCTGCATC-GCCTG
* ** *
2626176 GGAAATAAGATTCGCCGTTGTGGCTTCGATCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCGC
1 GGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCAAGATTCAC
* * *
2626241 CGTTGTAGCTTCAATCTGCTCCGCTGCATCGCCTAGGAAGTAAGATTC
66 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTC
2626289 ATTTTTCATA
Statistics
Matches: 614, Mismatches: 89, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
298 124 0.20
299 474 0.77
300 16 0.03
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (299 bp):
GGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTGAATTGCAATGTCGGGGAAGCAAGATTCAC
CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAAT
CTTTTGAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATA
GCCTGGAAGTAAGATTCGCCATTGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGAT
TCGCCATCGTAGCTTCAATATGTTCCGCTGCATCGCCTG
Found at i:2626778 original size:109 final size:109
Alignment explanation
Indices: 2626587--2626864 Score: 513
Period size: 109 Copynumber: 2.6 Consensus size: 109
2626577 TTTCTAATTG
2626587 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
2626652 CTTTCAACTAAATGGCTAAATATCCTTTCAAAAATTTTAAAATA
66 CTTTCAACTAAATGGCTAAATATCCTTTCAAAAATTTTAAAATA
*
2626696 AGGCAATGTTTTGCGTTTGGAAATTCTAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
2626761 CTTTCAACTAAATGGCTAAATATCCTTTCAAAAATTTTAAAATA
66 CTTTCAACTAAATGGCTAAATATCCTTTCAAAAATTTTAAAATA
* * *
2626805 AGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGATTT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTT
2626865 CTCGTTTAAC
Statistics
Matches: 164, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
108 28 0.17
109 136 0.83
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (109 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CTTTCAACTAAATGGCTAAATATCCTTTCAAAAATTTTAAAATA
Found at i:2635988 original size:19 final size:22
Alignment explanation
Indices: 2635966--2636011 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2635956 ATTTTTAAAT
2635966 TTTAAAAA-A-ATTTA-TGATA
1 TTTAAAAATATATTTATTGATA
*
2635985 TTTAAAAATATATTTATTGATT
1 TTTAAAAATATATTTATTGATA
2636007 TTTAA
1 TTTAA
2636012 TTTAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 8 0.35
20 1 0.04
21 5 0.22
22 9 0.39
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (22 bp):
TTTAAAAATATATTTATTGATA
Found at i:2639007 original size:26 final size:26
Alignment explanation
Indices: 2638978--2639028 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
2638968 AAAAATTGTT
*
2638978 AAAACTCTTTTAAAAG-AAAACTCAAG
1 AAAACTC-TTGAAAAGAAAAACTCAAG
*
2639004 AAAATTCTTGAAAAGAAAAACTCAA
1 AAAACTCTTGAAAAGAAAAACTCAA
2639029 AGAGAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.57, C:0.14, G:0.08, T:0.22
Consensus pattern (26 bp):
AAAACTCTTGAAAAGAAAAACTCAAG
Found at i:2641214 original size:20 final size:20
Alignment explanation
Indices: 2641189--2641229 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2641179 TAAAACAAAG
2641189 ATAAATAAAAATACAAAGTA
1 ATAAATAAAAATACAAAGTA
2641209 ATAAATAAAAATACAAAGTA
1 ATAAATAAAAATACAAAGTA
2641229 A
1 A
2641230 GCTAACTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.71, C:0.05, G:0.05, T:0.20
Consensus pattern (20 bp):
ATAAATAAAAATACAAAGTA
Found at i:2641666 original size:41 final size:43
Alignment explanation
Indices: 2641621--2641715 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 43
2641611 CTACTAGGCT
** *
2641621 TAAAGCCTGATTTAATACACCGGCATGAAGCCTGCTA-G-ACA
1 TAAAGCCTGAAATAATACACCGGCATCAAGCCTGCTAGGCACA
* * *
2641662 TAAAGTCTGAAATATTTCACCGGCATCAAGCCTGCTAGGCACA
1 TAAAGCCTGAAATAATACACCGGCATCAAGCCTGCTAGGCACA
*
2641705 TAGAGCCTGAA
1 TAAAGCCTGAA
2641716 TATCTTGGAC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 31 0.70
42 1 0.02
43 12 0.27
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (43 bp):
TAAAGCCTGAAATAATACACCGGCATCAAGCCTGCTAGGCACA
Found at i:2645897 original size:53 final size:53
Alignment explanation
Indices: 2645817--2645920 Score: 199
Period size: 53 Copynumber: 2.0 Consensus size: 53
2645807 AAGTTAGTGC
*
2645817 CAATGCCTCTGCCTCAACACCCTGGCAAGCTAATCCCTCACAATAGTCGTCGT
1 CAATGCCTCTGCCTCAACACCCTGGCAAGCTAATCACTCACAATAGTCGTCGT
2645870 CAATGCCTCTGCCTCAACACCCTGGCAAGCTAATCACTCACAATAGTCGTC
1 CAATGCCTCTGCCTCAACACCCTGGCAAGCTAATCACTCACAATAGTCGTC
2645921 TTCTAGGAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.26, C:0.38, G:0.14, T:0.22
Consensus pattern (53 bp):
CAATGCCTCTGCCTCAACACCCTGGCAAGCTAATCACTCACAATAGTCGTCGT
Found at i:2653732 original size:8 final size:10
Alignment explanation
Indices: 2653709--2653733 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2653699 GCTTTTAAGC
2653709 ATATATCACA
1 ATATATCACA
2653719 ATATATCACA
1 ATATATCACA
2653729 ATATA
1 ATATA
2653734 CATATAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (10 bp):
ATATATCACA
Found at i:2661586 original size:13 final size:13
Alignment explanation
Indices: 2661568--2661594 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2661558 ATGTTTTTGG
2661568 ATGGAAAATGATT
1 ATGGAAAATGATT
2661581 ATGGAAAATGATT
1 ATGGAAAATGATT
2661594 A
1 A
2661595 GGAGACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (13 bp):
ATGGAAAATGATT
Found at i:2665014 original size:55 final size:55
Alignment explanation
Indices: 2664942--2665170 Score: 235
Period size: 55 Copynumber: 4.1 Consensus size: 55
2664932 TCTTCTTAAT
* * * *
2664942 TGTTGGAATACTGCTTCTTTTAAATCAATTGTTTATATGTTTAAATCAATTATCA
1 TGTTGGAATACTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTATTA
* * *
2664997 TGTTGGAATA-TGACTTCTTTTGATTCGACTGTTTATATGTTTAAATCGATTTTTA
1 TGTTGGAATACTG-CTTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTATTA
* * * *
2665052 TGGTGGAATATTGTTTCTTCTTCTTTTGAATCGATTTTTTATATGTTTAAATCGATTGTTA
1 TGTTGGAATA------CTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTATTA
** * * * *
2665113 TGTTGGAATGTTGCTTTTTTTGAATCGATTGTTTATATATTTAAATTGATTGTTA
1 TGTTGGAATACTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTATTA
2665168 TGT
1 TGT
2665171 AGCACGTCTA
Statistics
Matches: 145, Mismatches: 21, Indels: 16
0.80 0.12 0.09
Matches are distributed among these distances:
54 2 0.01
55 96 0.66
61 46 0.32
62 1 0.01
ACGTcount: A:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (55 bp):
TGTTGGAATACTGCTTCTTTTGAATCGATTGTTTATATGTTTAAATCGATTATTA
Found at i:2665169 original size:116 final size:116
Alignment explanation
Indices: 2664955--2665169 Score: 297
Period size: 116 Copynumber: 1.9 Consensus size: 116
2664945 TGGAATACTG
2664955 CTTCTTTTAAATCAATTGTTTATATGTTTAAATCAATTATCATGTTGGAATATGACTTCTTTTGA
1 CTTCTTTTAAATCAATTGTTTATATGTTTAAATCAATTATCATGTTGGAATATGACTTCTTTTGA
* * *
2665020 TTCGACTGTTTATATGTTTAAATCGATTTTTATGGTGGAATATTGTTTCTT
66 ATCGACTGTTTATATATTTAAATCGATTGTTATGGTGGAATATTGTTTCTT
* * * * * * * *
2665071 CTTCTTTTGAATCGATTTTTTATATGTTTAAATCGATTGTTATGTTGGAATGTTG-CTTTTTTTG
1 CTTCTTTTAAATCAATTGTTTATATGTTTAAATCAATTATCATGTTGGAAT-ATGACTTCTTTTG
* *
2665135 AATCGATTGTTTATATATTTAAATTGATTGTTATG
65 AATCGACTGTTTATATATTTAAATCGATTGTTATG
2665170 TAGCACGTCT
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
116 83 0.98
117 2 0.02
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.53
Consensus pattern (116 bp):
CTTCTTTTAAATCAATTGTTTATATGTTTAAATCAATTATCATGTTGGAATATGACTTCTTTTGA
ATCGACTGTTTATATATTTAAATCGATTGTTATGGTGGAATATTGTTTCTT
Found at i:2666597 original size:36 final size:34
Alignment explanation
Indices: 2666547--2666624 Score: 86
Period size: 36 Copynumber: 2.3 Consensus size: 34
2666537 AATGGTAAGA
* * *
2666547 ATATTTCTTATTATATTTTAATGTTGTATAATTTTT
1 ATATTTTTTATTATATTTGAAT-TT-AATAATTTTT
* *
2666583 ATATTTTTTGTTATATTTGAATTTAATATTTTTT
1 ATATTTTTTATTATATTTGAATTTAATAATTTTT
2666617 AT-TTTTTT
1 ATATTTTTT
2666625 CCTTGAATAG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
33 6 0.16
34 10 0.27
35 2 0.05
36 19 0.51
ACGTcount: A:0.26, C:0.01, G:0.05, T:0.68
Consensus pattern (34 bp):
ATATTTTTTATTATATTTGAATTTAATAATTTTT
Found at i:2667007 original size:15 final size:15
Alignment explanation
Indices: 2666987--2667016 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2666977 CAGATATAAG
*
2666987 TCGAAATAGAACAAC
1 TCGAAAGAGAACAAC
2667002 TCGAAAGAGAACAAC
1 TCGAAAGAGAACAAC
2667017 ACGCTCTGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.20, G:0.17, T:0.10
Consensus pattern (15 bp):
TCGAAAGAGAACAAC
Found at i:2668648 original size:23 final size:22
Alignment explanation
Indices: 2668621--2668678 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 22
2668611 ATTAAAAAGT
*
2668621 AAATTAGTCTTTTTTTTTGTTAA
1 AAATTAGTCTTTTGTTTTGTT-A
2668644 AAATTTA-TCTATTTGTTTTGTTA
1 AAA-TTAGTCT-TTTGTTTTGTTA
2668667 AAATTAGTCTTT
1 AAATTAGTCTTT
2668679 GTACGCTAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 5 0.16
23 13 0.42
24 13 0.42
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.59
Consensus pattern (22 bp):
AAATTAGTCTTTTGTTTTGTTA
Found at i:2677328 original size:15 final size:16
Alignment explanation
Indices: 2677303--2677336 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
2677293 TCTAGTGTAT
*
2677303 TTTATTTTTTTATATA
1 TTTATTTTTTTAAATA
2677319 TTTA-TTTTTTAAATA
1 TTTATTTTTTTAAATA
2677334 TTT
1 TTT
2677337 TATTGTACGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTATTTTTTTAAATA
Found at i:2677338 original size:16 final size:15
Alignment explanation
Indices: 2677300--2677340 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
2677290 TACTCTAGTG
*
2677300 TATTTTATTTTTTTA
1 TATTTTATTTTTTAA
2677315 TATATTTATTTTTTAAA
1 TAT-TTTATTTTTT-AA
2677332 TATTTTATT
1 TATTTTATT
2677341 GTACGGGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 3 0.13
16 16 0.70
17 4 0.17
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTTTATTTTTTAA
Found at i:2678222 original size:26 final size:27
Alignment explanation
Indices: 2678186--2678241 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
2678176 TTTAAGGTTT
* *
2678186 TTTATTTTTTAGTCTTTAGG-GTTTTA
1 TTTAATTTTTAGGCTTTAGGTGTTTTA
* *
2678212 TTTAATTTTTAGGGTTTAGGTTTTTTA
1 TTTAATTTTTAGGCTTTAGGTGTTTTA
2678239 TTT
1 TTT
2678242 TTAAGCGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.16, C:0.02, G:0.16, T:0.66
Consensus pattern (27 bp):
TTTAATTTTTAGGCTTTAGGTGTTTTA
Found at i:2678243 original size:23 final size:23
Alignment explanation
Indices: 2678170--2678254 Score: 80
Period size: 23 Copynumber: 3.5 Consensus size: 23
2678160 GTTTATGAAA
*
2678170 TTAGGATTTAAGGTTTTTTATTTT
1 TTAGGGTTT-AGGTTTTTTATTTT
** *
2678194 TTAGTCTTTAGGGTTTTATTTAATTT
1 TTAGGGTTTA-GG-TTT-TTTATTTT
2678220 TTAGGGTTTAGGTTTTTTATTTT
1 TTAGGGTTTAGGTTTTTTATTTT
* *
2678243 TAAGCGTTTAGG
1 TTAGGGTTTAGG
2678255 GTTAGAGATA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
23 18 0.36
24 12 0.24
25 5 0.10
26 15 0.30
ACGTcount: A:0.19, C:0.02, G:0.20, T:0.59
Consensus pattern (23 bp):
TTAGGGTTTAGGTTTTTTATTTT
Found at i:2678989 original size:13 final size:13
Alignment explanation
Indices: 2678971--2678995 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2678961 TAATGTTTTG
2678971 ATTTTTCGTGTTA
1 ATTTTTCGTGTTA
2678984 ATTTTTCGTGTT
1 ATTTTTCGTGTT
2678996 TCAAATTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.08, G:0.16, T:0.64
Consensus pattern (13 bp):
ATTTTTCGTGTTA
Found at i:2703375 original size:16 final size:16
Alignment explanation
Indices: 2703354--2703391 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
2703344 TTTGGTTCGC
2703354 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
2703370 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
2703386 CGTAAT
1 TGTAAT
2703392 AGGTAATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.03, G:0.34, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:2703460 original size:44 final size:46
Alignment explanation
Indices: 2703373--2703468 Score: 169
Period size: 44 Copynumber: 2.1 Consensus size: 46
2703363 ATAGAGGTGT
*
2703373 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
2703419 AATGGAATAGAGGCGTAATA-GT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
2703463 AATGGA
1 AATGGA
2703469 GGTGTAATAG
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 27 0.55
45 2 0.04
46 20 0.41
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAATGG
Found at i:2708563 original size:12 final size:12
Alignment explanation
Indices: 2708546--2708572 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2708536 ATCAACAAGT
2708546 CTGCAGTTAAGC
1 CTGCAGTTAAGC
2708558 CTGCAGTTAAGC
1 CTGCAGTTAAGC
2708570 CTG
1 CTG
2708573 GCATTCAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (12 bp):
CTGCAGTTAAGC
Found at i:2708781 original size:105 final size:105
Alignment explanation
Indices: 2708594--2708863 Score: 531
Period size: 105 Copynumber: 2.6 Consensus size: 105
2708584 TTATGGAATC
*
2708594 CGAAACGCACAAGGTATAAACATCAATACAGACTCTGATTTTAGAAGACATTGTGCACAAGACAC
1 CGAAGCGCACAAGGTATAAACATCAATACAGACTCTGATTTTAGAAGACATTGTGCACAAGACAC
2708659 AATTTTAGAAACTGATTTTAGAAGTTAAACCAGAAGTTTA
66 AATTTTAGAAACTGATTTTAGAAGTTAAACCAGAAGTTTA
2708699 CGAAGCGCACAAGGTATAAACATCAATACAGACTCTGATTTTAGAAGACATTGTGCACAAGACAC
1 CGAAGCGCACAAGGTATAAACATCAATACAGACTCTGATTTTAGAAGACATTGTGCACAAGACAC
2708764 AATTTTAGAAACTGATTTTAGAAGTTAAACCAGAAGTTTA
66 AATTTTAGAAACTGATTTTAGAAGTTAAACCAGAAGTTTA
2708804 CGAAGCGCACAAGGTATAAACATCAATACAGACTCTGATTTTAGAAGACATTGTGCACAA
1 CGAAGCGCACAAGGTATAAACATCAATACAGACTCTGATTTTAGAAGACATTGTGCACAA
2708864 AAATAAGATT
Statistics
Matches: 164, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 164 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (105 bp):
CGAAGCGCACAAGGTATAAACATCAATACAGACTCTGATTTTAGAAGACATTGTGCACAAGACAC
AATTTTAGAAACTGATTTTAGAAGTTAAACCAGAAGTTTA
Found at i:2711570 original size:22 final size:22
Alignment explanation
Indices: 2711542--2711585 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
2711532 TATTCTTGTT
2711542 GGAAAAATCTCAGTTTGAAAAC
1 GGAAAAATCTCAGTTTGAAAAC
2711564 GGAAAAATCTCAGTTTGAAAAC
1 GGAAAAATCTCAGTTTGAAAAC
2711586 AGTTTTCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (22 bp):
GGAAAAATCTCAGTTTGAAAAC
Found at i:2713247 original size:24 final size:24
Alignment explanation
Indices: 2713219--2713270 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
2713209 TTATTTCCAC
*
2713219 CTATTTCTTCATCAATCGTCGAAT
1 CTATTTCTTCATCAACCGTCGAAT
2713243 CTATTTCTTCATCAACCGTCGAAT
1 CTATTTCTTCATCAACCGTCGAAT
2713267 CTAT
1 CTAT
2713271 CATCGATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.27, G:0.08, T:0.40
Consensus pattern (24 bp):
CTATTTCTTCATCAACCGTCGAAT
Found at i:2713883 original size:20 final size:20
Alignment explanation
Indices: 2713855--2713896 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
2713845 TCCTCTAGAA
*
2713855 CCAAAAATTTATAGTTTTGAT
1 CCAAAATTTTAT-GTTTTGAT
2713876 CCAAAATTTTATGTTTTGAT
1 CCAAAATTTTATGTTTTGAT
2713896 C
1 C
2713897 AGATTAGTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (20 bp):
CCAAAATTTTATGTTTTGAT
Found at i:2714281 original size:26 final size:26
Alignment explanation
Indices: 2714215--2714281 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 26
2714205 TGCAACTTAT
* * *
2714215 CAAGCTCATTGGCGATCTTAGCTCGC
1 CAAGCCCATTGGTGATCTTAGCTCAC
*
2714241 CAAGCCCACTT-GTGATCTTAGCTTAC
1 CAAGCCCA-TTGGTGATCTTAGCTCAC
* *
2714267 CAGGTCCATTGGTGA
1 CAAGCCCATTGGTGA
2714282 ATACCAACTC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 2 0.06
26 29 0.88
27 2 0.06
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.28
Consensus pattern (26 bp):
CAAGCCCATTGGTGATCTTAGCTCAC
Found at i:2715708 original size:12 final size:12
Alignment explanation
Indices: 2715691--2715720 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2715681 AACCACACAC
2715691 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
2715703 CCGTGTGCTAGG
1 CCGTGTGCCAGG
2715715 CCGTGT
1 CCGTGT
2715721 AATTGTCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:2718186 original size:204 final size:204
Alignment explanation
Indices: 2717834--2718237 Score: 596
Period size: 204 Copynumber: 2.0 Consensus size: 204
2717824 ACCTGCGATG
2717834 TTGCAACACGGAGCTTCAATGTCGCAACACAGTGAACAGAGTACTCAAAAGGAGTAGTCTACCTT
1 TTGCAACACGGAGCTTCAATGTCGCAACACAGTGAACAGAGTACTCAAAAGGAGTAGTCTACCTT
* * * * *
2717899 CAGTGTCGCGACATAACCTTGAAGACATGCAAAATACTAGTAAACTGCCATCAATGTTGCGACAC
66 CAGTGTCGCAACACAACCTTGAAAACATGCAAAAGACTAGTAAACTGCCATCAATGTTGCGAAAC
* * * *
2717964 TGATGTAATGAGGCCAATTAATGAGCCAAGAGTATT-TTCGTCCACACAACAACTTTTAACGGGA
131 CGATGTAATGAAGCCAATTAATAAGCCAAGAGTATTCTT-GTCCACACAAAAACTTTTAACGGGA
2718028 AATATCAATT
195 AATATCAATT
* * * * *
2718038 TTGCAACACGGAGCTTCGATGTCGCAACACAGTGAACAGAGTACTTAATAGGGGTAGTCT-GCTT
1 TTGCAACACGGAGCTTCAATGTCGCAACACAGTGAACAGAGTACTCAAAAGGAGTAGTCTACCTT
** * *
2718102 CCAGTGTCGCAACACAACCTTGAAAACATGCCTAAGACTAGTAGATTGCCATCAATGTTGCGAAA
66 -CAGTGTCGCAACACAACCTTGAAAACATGCAAAAGACTAGTAAACTGCCATCAATGTTGCGAAA
* *
2718167 CCGATGTGATGAAGCCAATTAATAAGCCAAGAGTGTTCTTGTCCACACAAAAACTTTTAACGGGA
130 CCGATGTAATGAAGCCAATTAATAAGCCAAGAGTATTCTTGTCCACACAAAAACTTTTAACGGGA
2718232 AATATC
195 AATATC
2718238 CAATCAAATT
Statistics
Matches: 178, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
203 3 0.02
204 173 0.97
205 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (204 bp):
TTGCAACACGGAGCTTCAATGTCGCAACACAGTGAACAGAGTACTCAAAAGGAGTAGTCTACCTT
CAGTGTCGCAACACAACCTTGAAAACATGCAAAAGACTAGTAAACTGCCATCAATGTTGCGAAAC
CGATGTAATGAAGCCAATTAATAAGCCAAGAGTATTCTTGTCCACACAAAAACTTTTAACGGGAA
ATATCAATT
Found at i:2729939 original size:7 final size:7
Alignment explanation
Indices: 2729923--2729973 Score: 75
Period size: 7 Copynumber: 7.3 Consensus size: 7
2729913 ACATTGTGGC
*
2729923 TTAGGTT
1 TTAGGGT
2729930 TTAGGGT
1 TTAGGGT
2729937 TTAGGGT
1 TTAGGGT
* *
2729944 TTAAGAT
1 TTAGGGT
2729951 TTAGGGT
1 TTAGGGT
2729958 TTAGGGT
1 TTAGGGT
2729965 TTAGGGT
1 TTAGGGT
2729972 TT
1 TT
2729974 GAATTTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (7 bp):
TTAGGGT
Found at i:2730663 original size:60 final size:60
Alignment explanation
Indices: 2730559--2730691 Score: 169
Period size: 60 Copynumber: 2.2 Consensus size: 60
2730549 ACACTAGTAG
* * * * *
2730559 TCACTCAACTATTAGTGAATTTCTTTTTTGTTCACCCAACTATGAGAAGTTACAAAATGA
1 TCACTCAACTATTAGTAAATTTCTTTTTCGGTCACCCAACTATGAAAAATTACAAAATGA
* * * *
2730619 TCAC-CTAACTATTAGTAAATTTCTTTTTCGGTCACCTAATTATGAAAAATTACAAGATGG
1 TCACTC-AACTATTAGTAAATTTCTTTTTCGGTCACCCAACTATGAAAAATTACAAAATGA
2730679 TCACTCAACTATT
1 TCACTCAACTATT
2730692 CAATTTTGTT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
59 1 0.02
60 60 0.97
61 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.37
Consensus pattern (60 bp):
TCACTCAACTATTAGTAAATTTCTTTTTCGGTCACCCAACTATGAAAAATTACAAAATGA
Found at i:2735164 original size:20 final size:21
Alignment explanation
Indices: 2735126--2735165 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
2735116 TGAGATTAAA
*
2735126 TTTTAAGAAATTTAGTAAAAC
1 TTTTAAGAAATTTAATAAAAC
*
2735147 TTTTAAG-AGTTTAATAAAA
1 TTTTAAGAAATTTAATAAAA
2735166 AAAGTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.40
Consensus pattern (21 bp):
TTTTAAGAAATTTAATAAAAC
Found at i:2738220 original size:31 final size:27
Alignment explanation
Indices: 2738180--2738250 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 27
2738170 AGTGAATTAG
2738180 TTTTGAAAAATAATTGAAAGATTAAAATAATA
1 TTTT-AAAAATAATTGAAA-A-T-AAATAA-A
2738212 TTTTAAAAATAA-TGAAAATAAATAAA
1 TTTTAAAAATAATTGAAAATAAATAAA
2738238 TTATT-AAAATAAT
1 TT-TTAAAAATAAT
2738251 ATACAAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
26 10 0.27
27 8 0.22
28 1 0.03
29 1 0.03
30 5 0.14
31 8 0.22
32 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (27 bp):
TTTTAAAAATAATTGAAAATAAATAAA
Found at i:2741921 original size:42 final size:42
Alignment explanation
Indices: 2741848--2741927 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
2741838 GACTTAAGAC
**
2741848 CACACGGCCAGGGACATGGGCATGTGCCCAGGCCGTGTGAGT
1 CACACGGCCAGGGACACAGGCATGTGCCCAGGCCGTGTGAGT
* *
2741890 CACACGAG-CAGGGACACAGGCGTGTGTCCAGGCCGTGT
1 CACACG-GCCAGGGACACAGGCATGTGCCCAGGCCGTGT
2741928 AACTCACTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 32 0.97
43 1 0.03
ACGTcount: A:0.20, C:0.29, G:0.38, T:0.14
Consensus pattern (42 bp):
CACACGGCCAGGGACACAGGCATGTGCCCAGGCCGTGTGAGT
Found at i:2743581 original size:13 final size:13
Alignment explanation
Indices: 2743563--2743622 Score: 86
Period size: 13 Copynumber: 4.6 Consensus size: 13
2743553 AGTTCTTCAT
2743563 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
2743576 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
2743589 TGCTGTAGAAAAG
1 TGCTTTTGAAAAG
2743602 TGCTTTTGAGAAA-
1 TGCTTTTGA-AAAG
2743615 TGCTTTTG
1 TGCTTTTG
2743623 CTCAGATTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
13 39 0.93
14 3 0.07
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:2744336 original size:13 final size:13
Alignment explanation
Indices: 2744318--2744345 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2744308 CGATTGTGTC
2744318 TTCATCTATGACA
1 TTCATCTATGACA
2744331 TTCATCTATGACA
1 TTCATCTATGACA
2744344 TT
1 TT
2744346 GATGTGAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (13 bp):
TTCATCTATGACA
Found at i:2749976 original size:35 final size:36
Alignment explanation
Indices: 2749925--2749997 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 36
2749915 AGTCATTTTT
2749925 ATAATAATTTAAAAATTATATAATAAGTATTTTTAA
1 ATAATAATTTAAAAATTATATAATAAGTATTTTTAA
* * **
2749961 ATAATAATTT-TAAATTATATTATATTTATTTTTAA
1 ATAATAATTTAAAAATTATATAATAAGTATTTTTAA
2749996 AT
1 AT
2749998 GTGTATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
35 23 0.70
36 10 0.30
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (36 bp):
ATAATAATTTAAAAATTATATAATAAGTATTTTTAA
Found at i:2755952 original size:9 final size:9
Alignment explanation
Indices: 2755935--2755965 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
2755925 GTTAATCGAA
*
2755935 TCGAGTTAT
1 TCGAATTAT
2755944 TCGAATTAT
1 TCGAATTAT
2755953 TCGAATTAT
1 TCGAATTAT
2755962 TCGA
1 TCGA
2755966 GTCAACGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (9 bp):
TCGAATTAT
Found at i:2756164 original size:19 final size:18
Alignment explanation
Indices: 2756114--2756164 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
2756104 AATTACAAAA
*
2756114 AAAATTAAACTAATTTTC
1 AAAATTAAAATAATTTTC
*
2756132 AAAATTTGAAAATAATTTTT
1 AAAA-TT-AAAATAATTTTC
2756152 AAAATTCAAAATA
1 AAAATT-AAAATA
2756165 TTTATAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 4 0.14
19 10 0.36
20 14 0.50
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (18 bp):
AAAATTAAAATAATTTTC
Found at i:2756565 original size:21 final size:21
Alignment explanation
Indices: 2756539--2756578 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2756529 ACCTTATCTA
*
2756539 AAGTTAAAAGTCAAAACTATC
1 AAGTTAAAAGGCAAAACTATC
2756560 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
2756579 CATTGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.20
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATC
Found at i:2762192 original size:96 final size:96
Alignment explanation
Indices: 2762081--2762273 Score: 386
Period size: 96 Copynumber: 2.0 Consensus size: 96
2762071 TAAGGTCCGA
2762081 ATATATATATAAGCATATACATGTACAAACCCATGGACTTGGTTAAAGGTATGAATGTGTATATA
1 ATATATATATAAGCATATACATGTACAAACCCATGGACTTGGTTAAAGGTATGAATGTGTATATA
2762146 TATGTACACGTGGGTTGTAATATATATGTAG
66 TATGTACACGTGGGTTGTAATATATATGTAG
2762177 ATATATATATAAGCATATACATGTACAAACCCATGGACTTGGTTAAAGGTATGAATGTGTATATA
1 ATATATATATAAGCATATACATGTACAAACCCATGGACTTGGTTAAAGGTATGAATGTGTATATA
2762242 TATGTACACGTGGGTTGTAATATATATGTAG
66 TATGTACACGTGGGTTGTAATATATATGTAG
2762273 A
1 A
2762274 CTCATGAATA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 97 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (96 bp):
ATATATATATAAGCATATACATGTACAAACCCATGGACTTGGTTAAAGGTATGAATGTGTATATA
TATGTACACGTGGGTTGTAATATATATGTAG
Found at i:2763153 original size:52 final size:54
Alignment explanation
Indices: 2763042--2763154 Score: 140
Period size: 56 Copynumber: 2.1 Consensus size: 54
2763032 TGAATATGTT
* * * * *
2763042 TGCATTCGGTTATAATGTTTATTTAGTATATATATATATATACATGTTTGGTTAAA
1 TGCATTCGGTTATAATATTTATTTAG-ATATATATATATATA-ATGATCGATCAAA
*
2763098 TGCATTCGGTTATAATATTTATTTAG-TATATATATATAT-ATGATCGATCATA
1 TGCATTCGGTTATAATATTTATTTAGATATATATATATATAATGATCGATCAAA
2763150 TGCAT
1 TGCAT
2763155 ATGATGTATC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
52 13 0.25
54 13 0.25
56 25 0.49
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (54 bp):
TGCATTCGGTTATAATATTTATTTAGATATATATATATATAATGATCGATCAAA
Found at i:2763844 original size:120 final size:121
Alignment explanation
Indices: 2763631--2763878 Score: 471
Period size: 120 Copynumber: 2.1 Consensus size: 121
2763621 TTTTAATGTC
2763631 TTTGTTTATTAAAAATGGTTAGAAGAGAAAAGTTTAAAATTTTCCAATTTGTTTTATATAGACCA
1 TTTGTTTATTAAAAATGGTTAGAAGAGAAAAGTTTAAAATTTTCCAATTTGTTTTATATAGACCA
2763696 AGCTTATTATATTTAAATATATATATGTAATATATAAGTATTGA-TTTGAGATGGT
66 AGCTTATTATATTTAAATATATATATGTAATATATAAGTATTGATTTTGAGATGGT
*
2763751 TTTGTTTATTAAAAATGGTTAGAAGAGAGAAGTTTAAAATTTTCCAATTTGTTTTATATAGACCA
1 TTTGTTTATTAAAAATGGTTAGAAGAGAAAAGTTTAAAATTTTCCAATTTGTTTTATATAGACCA
2763816 AGCTTATTATATTTAAATATATATATGTAATATATAAGTATTGATTTTGAGATGGT
66 AGCTTATTATATTTAAATATATATATGTAATATATAAGTATTGATTTTGAGATGGT
*
2763872 TGTGTTT
1 TTTGTTT
2763879 GTTCGGTAAT
Statistics
Matches: 125, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
120 108 0.86
121 17 0.14
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.44
Consensus pattern (121 bp):
TTTGTTTATTAAAAATGGTTAGAAGAGAAAAGTTTAAAATTTTCCAATTTGTTTTATATAGACCA
AGCTTATTATATTTAAATATATATATGTAATATATAAGTATTGATTTTGAGATGGT
Found at i:2768915 original size:6 final size:6
Alignment explanation
Indices: 2768904--2768928 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2768894 TGGTTTTCTC
2768904 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
2768929 GGAAATGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:2770924 original size:12 final size:12
Alignment explanation
Indices: 2770909--2770936 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2770899 TCATGCGATA
2770909 TATCAAAATTTT
1 TATCAAAATTTT
2770921 TATCAAAATTTT
1 TATCAAAATTTT
2770933 TATC
1 TATC
2770937 TTCAAAGAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (12 bp):
TATCAAAATTTT
Found at i:2774612 original size:100 final size:101
Alignment explanation
Indices: 2774439--2774646 Score: 373
Period size: 100 Copynumber: 2.1 Consensus size: 101
2774429 GCAATAAAAC
2774439 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
*
2774504 TTTAAAATCCCTAACTCGAAATATTTACTTTATTA-
66 TTTAAAATCCCAAACTCGAAATATTTACTTTATTAT
*
2774539 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTTGGGCACAATTCC
1 TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
* *
2774604 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTAT
66 TTTAAAATCCCAAACTCGAAATATTTACTTTATTAT
2774640 TTTAAAA
1 TTTAAAA
2774647 AAAAATCTTC
Statistics
Matches: 103, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
100 96 0.93
101 7 0.07
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (101 bp):
TTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATTCC
TTTAAAATCCCAAACTCGAAATATTTACTTTATTAT
Found at i:2780638 original size:30 final size:30
Alignment explanation
Indices: 2780604--2780660 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
2780594 TTGCTTAAAG
2780604 AATATTTAA-AAT-TTATATTTCATATATCAA
1 AATA-TTAATAATATTAT-TTTCATATATCAA
*
2780634 AATATTAATAATATTATTTTCTTATAT
1 AATATTAATAATATTATTTTCATATAT
2780661 TTTTTTATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 4 0.17
30 16 0.67
31 4 0.17
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (30 bp):
AATATTAATAATATTATTTTCATATATCAA
Found at i:2783539 original size:26 final size:26
Alignment explanation
Indices: 2783510--2783561 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
2783500 AGGTTTTATT
*
2783510 CTTGTAGACTAAGAAACTAAAATTAA
1 CTTGTAGAATAAGAAACTAAAATTAA
*
2783536 CTTGTAGAATAAGAAACTATAATTAA
1 CTTGTAGAATAAGAAACTAAAATTAA
2783562 AGAAACTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.29
Consensus pattern (26 bp):
CTTGTAGAATAAGAAACTAAAATTAA
Found at i:2783575 original size:14 final size:15
Alignment explanation
Indices: 2783546--2783575 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2783536 CTTGTAGAAT
2783546 AAGAAACTATAATTA
1 AAGAAACTATAATTA
2783561 AAGAAACTA-AATTA
1 AAGAAACTATAATTA
2783575 A
1 A
2783576 GTGCTTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (15 bp):
AAGAAACTATAATTA
Found at i:2784347 original size:18 final size:18
Alignment explanation
Indices: 2784326--2784375 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
2784316 CCCAAGCATT
*
2784326 CAACCCAACCTAATTACC
1 CAACCCAACCCAATTACC
2784344 CAACCCAACCCAATTACC
1 CAACCCAACCCAATTACC
2784362 CAACCCAACCCAAT
1 CAACCCAACCCAAT
2784376 CATAAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (18 bp):
CAACCCAACCCAATTACC
Found at i:2784478 original size:9 final size:9
Alignment explanation
Indices: 2784464--2784514 Score: 84
Period size: 9 Copynumber: 5.7 Consensus size: 9
2784454 ATGTAGTGAT
2784464 TTAATTCGG
1 TTAATTCGG
2784473 TTAATTCGG
1 TTAATTCGG
* *
2784482 GTAATCCGG
1 TTAATTCGG
2784491 TTAATTCGG
1 TTAATTCGG
2784500 TTAATTCGG
1 TTAATTCGG
2784509 TTAATT
1 TTAATT
2784515 TTTAACCAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.43
Consensus pattern (9 bp):
TTAATTCGG
Found at i:2787290 original size:23 final size:22
Alignment explanation
Indices: 2787264--2787343 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
2787254 AATGTTCACA
*
2787264 AACATGTTCATTTAACTTAATTG
1 AACATGTTCA-TAAACTTAATTG
* * **
2787287 AACATGTTCACAAAAATTAAACG
1 AACATGTTCA-TAAACTTAATTG
*
2787310 AACATGTTCATGAACATATAATTG
1 AACATGTTCATAAAC-T-TAATTG
2787334 AACATGTTCA
1 AACATGTTCA
2787344 CGAACAATGT
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
22 2 0.05
23 28 0.64
24 14 0.32
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (22 bp):
AACATGTTCATAAACTTAATTG
Found at i:2787341 original size:24 final size:23
Alignment explanation
Indices: 2787280--2787349 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
2787270 TTCATTTAAC
* *
2787280 TTAATTGAACATGTTCACAAAAA
1 TTAATTGAACATGTTCACGAACA
** *
2787303 TTAAACGAACATGTTCATGAACA
1 TTAATTGAACATGTTCACGAACA
2787326 TATAATTGAACATGTTCACGAACA
1 T-TAATTGAACATGTTCACGAACA
2787350 ATGTTAATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 19 0.50
24 19 0.50
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (23 bp):
TTAATTGAACATGTTCACGAACA
Found at i:2787409 original size:100 final size:101
Alignment explanation
Indices: 2787292--2787492 Score: 386
Period size: 100 Copynumber: 2.0 Consensus size: 101
2787282 AATTGAACAT
2787292 GTTCACAAAAATTAAACGAACATGTTCATGAACATATAATTGAACATGTTCACGAACAATGTTAA
1 GTTCACAAAAATTAAACGAACATGTTCATGAACATATAATTGAACATGTTCACGAACAATGTTAA
2787357 TAAATAATAAACAAACAAACAAT-AATACATACACA
66 TAAATAATAAACAAACAAACAATAAATACATACACA
*
2787392 GTTCACAAACATTAAACGAACATGTTCATGAACATATAATTGAACATGTTCACGAACAATGTTAA
1 GTTCACAAAAATTAAACGAACATGTTCATGAACATATAATTGAACATGTTCACGAACAATGTTAA
2787457 TAAATAATAAACAAACAAACAATAAATACATACACA
66 TAAATAATAAACAAACAAACAATAAATACATACACA
2787493 CATATATTGT
Statistics
Matches: 99, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
100 87 0.88
101 12 0.12
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (101 bp):
GTTCACAAAAATTAAACGAACATGTTCATGAACATATAATTGAACATGTTCACGAACAATGTTAA
TAAATAATAAACAAACAAACAATAAATACATACACA
Found at i:2787683 original size:12 final size:12
Alignment explanation
Indices: 2787666--2787700 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2787656 ATCATTAATA
*
2787666 AATAAACGAGTC
1 AATAAACGAGCC
*
2787678 AATAAATGAGCC
1 AATAAACGAGCC
2787690 AATAAACGAGC
1 AATAAACGAGC
2787701 TTGTTCGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.51, C:0.17, G:0.17, T:0.14
Consensus pattern (12 bp):
AATAAACGAGCC
Found at i:2791819 original size:25 final size:25
Alignment explanation
Indices: 2791759--2791845 Score: 88
Period size: 25 Copynumber: 3.5 Consensus size: 25
2791749 GTACATGTAT
*
2791759 GCTCATACGAGCTGTA-AACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
** *
2791783 GCTTC-TTGGAGCTGAATAACGATAA
1 GC-TCATACGAGCTGAATAACGGTAA
* *
2791808 GCTCATACGAGCTGAGTATCGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
2791833 GCTCATAAGAGCT
1 GCTCATACGAGCT
2791846 AAAATTGGTA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
24 12 0.24
25 38 0.76
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:2793685 original size:32 final size:30
Alignment explanation
Indices: 2793644--2793702 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
2793634 AGCATTTTCC
*
2793644 TTTAATTAATTTAGAAAATTCAACTAATTAAA
1 TTTAATTAA-TTA-AAAAATCAACTAATTAAA
* *
2793676 TTTATTTAATTAAAAAATCAATTAATT
1 TTTAATTAATTAAAAAATCAACTAATT
2793703 TACTTGGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.54
31 3 0.12
32 8 0.33
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (30 bp):
TTTAATTAATTAAAAAATCAACTAATTAAA
Found at i:2808119 original size:3 final size:3
Alignment explanation
Indices: 2808111--2808164 Score: 72
Period size: 3 Copynumber: 17.3 Consensus size: 3
2808101 AGATAAGTAG
* *
2808111 ATA ATA ATA ATA ATG ATA ATA ATA ACA ATA ATA ATA ATA ATA ACTAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-T-A
2808158 ATA ATA A
1 ATA ATA A
2808165 AATTGCCAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
3 41 0.91
4 2 0.04
5 2 0.04
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:2809058 original size:20 final size:20
Alignment explanation
Indices: 2809030--2809067 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2809020 GACGGCGCAA
* *
2809030 GTGGTGGTGGTGACGTGACC
1 GTGGCGGTGGCGACGTGACC
2809050 GTGGCGGTGGCGACGTGA
1 GTGGCGGTGGCGACGTGA
2809068 TGTTGGCGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.16, G:0.53, T:0.21
Consensus pattern (20 bp):
GTGGCGGTGGCGACGTGACC
Found at i:2810055 original size:46 final size:46
Alignment explanation
Indices: 2809995--2810752 Score: 1340
Period size: 46 Copynumber: 16.5 Consensus size: 46
2809985 TCACTGCCAG
* **
2809995 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTTCGCTGCCAA
1 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
2810041 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
1 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
2810087 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
1 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
2810133 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
1 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
2810179 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
1 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
2810225 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
1 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
2810271 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
1 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
2810317 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
1 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
2810363 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
1 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
2810409 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
1 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
2810455 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
1 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
**
2810501 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTACCAA
1 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
*
2810547 ATACATGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
1 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
* *
2810593 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCTTCCGC-TGCTAA
1 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTC-AA
* * * *
2810639 ATATAGGAAGACAAGATCTGTTATCTTCGATCTCCTTCGC-TGCTAA
1 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTC-AA
* **
2810685 ATACAGGAAGACAAGATCTACTATCTTCGATCTCCTCCGCTGCCAA
1 ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
*
2810731 ATACAGAAAGACAAGATCTGCT
1 ATACAGGAAGACAAGATCTGCT
2810753 GCTTCTAGTC
Statistics
Matches: 687, Mismatches: 23, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
45 2 0.00
46 684 1.00
47 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (46 bp):
ATACAGGAAGACAAGATCTGCTATCTTCGATCTCCTCCGCTTTCAA
Found at i:2810997 original size:15 final size:16
Alignment explanation
Indices: 2810962--2810997 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
2810952 AGGTGTGTAG
2810962 GAATGATATTTGCATT
1 GAATGATATTTGCATT
2810978 GAATGATATTTGCA-T
1 GAATGATATTTGCATT
2810993 GAATG
1 GAATG
2810998 CAGAATGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (16 bp):
GAATGATATTTGCATT
Found at i:2811833 original size:97 final size:97
Alignment explanation
Indices: 2811666--2812050 Score: 590
Period size: 97 Copynumber: 4.0 Consensus size: 97
2811656 GAAAAATGCT
* * * * * * * ** *
2811666 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGGAAAGCTCTAAACAAATAAAC
1 TGAAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAGCACAGCTCGAAATGAATAAAT
* *
2811731 CAATCAAGATAGCAAATTTTGCTAAGATAAGA
66 TAATCAAGATAGCAAATTCTGCTAAGATAAGA
* * *
2811763 TGAAAACGATTATCACAATGGATAAGATGAAATTTTATTCAGAGCACAGCTCAAAATGAATAAAT
1 TGAAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAGCACAGCTCGAAATGAATAAAT
2811828 TAATCAAGATAGCAAATTCTGCTAAGATAAGA
66 TAATCAAGATAGCAAATTCTGCTAAGATAAGA
* *
2811860 TGAAAAAGATTATCACAATAGATAAGATGAAATTTTATTGAAAGCACAGCTCGAAATGAATAAAT
1 TGAAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAGCACAGCTCGAAATGAATAAAT
2811925 TAATCAAGATAGCAAATTCTGCTAAGATAAGA
66 TAATCAAGATAGCAAATTCTGCTAAGATAAGA
*
2811957 TGAAAAAGATTATCACAATGAATAAGATGAAATTTTATTGAGAGCACAGCTCGAAATGAATAAAT
1 TGAAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAGCACAGCTCGAAATGAATAAAT
* *
2812022 TAATCAAGTTAGCAAATTTTGCTAAGATA
66 TAATCAAGATAGCAAATTCTGCTAAGATA
2812051 CGAAATGAAT
Statistics
Matches: 264, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 264 1.00
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.26
Consensus pattern (97 bp):
TGAAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAGCACAGCTCGAAATGAATAAAT
TAATCAAGATAGCAAATTCTGCTAAGATAAGA
Found at i:2812360 original size:7 final size:6
Alignment explanation
Indices: 2812334--2812401 Score: 50
Period size: 6 Copynumber: 10.8 Consensus size: 6
2812324 GGCCTCTCCT
* *
2812334 TTTTTC ATTTTC -TTTTC TTTTTCC TTTTTTC TTTTCTTT TTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTT-C -TTTTTC -TTT-TTC TTTTTC TTTTTC
*
2812385 TTCTTC TTCTTT- TTTTT
1 TTTTTC TT-TTTC TTTTT
2812402 TGAAAATTCT
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
5 8 0.15
6 26 0.50
7 11 0.21
8 7 0.13
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:2812362 original size:8 final size:7
Alignment explanation
Indices: 2812346--2812399 Score: 58
Period size: 7 Copynumber: 7.6 Consensus size: 7
2812336 TTTCATTTTC
2812346 TTTTCTT
1 TTTTCTT
*
2812353 TTTCCTT
1 TTTTCTT
2812360 TTTTCTT
1 TTTTCTT
2812367 TTCTT-TT
1 TT-TTCTT
2812374 TTTTC-T
1 TTTTCTT
2812380 TTTTCTT
1 TTTTCTT
2812387 CTTCTTCTT
1 -TT-TTCTT
2812396 TTTT
1 TTTT
2812400 TTTGAAAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
6 8 0.20
7 21 0.52
8 6 0.15
9 5 0.12
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTCTT
Found at i:2812368 original size:24 final size:23
Alignment explanation
Indices: 2812330--2812402 Score: 94
Period size: 25 Copynumber: 3.0 Consensus size: 23
2812320 CCATGGCCTC
2812330 TCCTTTTTTCATTTTCTTTTCTTTT
1 TCCTTTTTTC-TTTTCTTTT-TTTT
2812355 TCCTTTTTTCTTTTC-TTTTTTT
1 TCCTTTTTTCTTTTCTTTTTTTT
*
2812377 TCTTTTTCTTCTTCTTCTTTTTTTT
1 TCCTTTT-TTCTT-TTCTTTTTTTT
2812402 T
1 T
2812403 GAAAATTCTT
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
22 10 0.23
23 8 0.18
24 8 0.18
25 18 0.41
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.79
Consensus pattern (23 bp):
TCCTTTTTTCTTTTCTTTTTTTT
Found at i:2812401 original size:19 final size:17
Alignment explanation
Indices: 2812341--2812402 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 17
2812331 CCTTTTTTCA
2812341 TTTTCTTTTCTTTTTCCTT
1 TTTTCTTTTCTTTTT--TT
2812360 TTTTCTTTTCTTTTTTTTCT
1 TTTTCTTTTC--TTTTTT-T
2812380 TTTTCTTCTTCTTCTTTTT
1 TTTTCTT-TTCTT-TTTTT
2812399 TTTT
1 TTTT
2812403 GAAAATTCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
19 18 0.47
20 12 0.32
21 8 0.21
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTCTTTTCTTTTTTT
Found at i:2814653 original size:19 final size:19
Alignment explanation
Indices: 2814629--2814671 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
2814619 GTGAAAATTT
* *
2814629 AATGCATATG-ATGCAATG
1 AATGCACATGCATGAAATG
2814647 CAATGCACATGCATGAAATG
1 -AATGCACATGCATGAAATG
2814667 AATGC
1 AATGC
2814672 CTAAAGAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (19 bp):
AATGCACATGCATGAAATG
Found at i:2823571 original size:20 final size:21
Alignment explanation
Indices: 2823546--2823589 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
2823536 TTTAGAAATA
2823546 TTTTAAAATACTTTTTTT-AT
1 TTTTAAAATACTTTTTTTAAT
2823566 TTTTAAAATACTTTTTTTAAT
1 TTTTAAAATACTTTTTTTAAT
2823587 TTT
1 TTT
2823590 CTAATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTAAAATACTTTTTTTAAT
Found at i:2826559 original size:19 final size:19
Alignment explanation
Indices: 2826535--2826572 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2826525 CGGAGTTAGT
2826535 TTGTAGATGAATGGATAAG
1 TTGTAGATGAATGGATAAG
2826554 TTGTAGATGAATGGATAAG
1 TTGTAGATGAATGGATAAG
2826573 CAATTCAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.32
Consensus pattern (19 bp):
TTGTAGATGAATGGATAAG
Found at i:2829667 original size:22 final size:22
Alignment explanation
Indices: 2829624--2829668 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
2829614 TCGTGGACCA
* *
2829624 AAATCATTGTTTTAATAAAATC
1 AAATCATTGTATTAAAAAAATC
2829646 AAATCATT-TATTAAAAATAATC
1 AAATCATTGTATTAAAAA-AATC
2829668 A
1 A
2829669 TTTTACGACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (22 bp):
AAATCATTGTATTAAAAAAATC
Found at i:2830811 original size:19 final size:20
Alignment explanation
Indices: 2830772--2830811 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
2830762 TCTTTTCGAA
* *
2830772 TTCATTTCATGCATTTGCAT
1 TTCATTACATGCATATGCAT
2830792 TTCATTACAT-CATATGCAT
1 TTCATTACATGCATATGCAT
2830811 T
1 T
2830812 AAACACAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTACATGCATATGCAT
Found at i:2832680 original size:19 final size:19
Alignment explanation
Indices: 2832656--2832695 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2832646 GCAAATGTTC
2832656 TTTCATTCTTTACGATTTT
1 TTTCATTCTTTACGATTTT
**
2832675 TTTCATTCTTTTGGATTTT
1 TTTCATTCTTTACGATTTT
2832694 TT
1 TT
2832696 CTGCCAAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.07, T:0.68
Consensus pattern (19 bp):
TTTCATTCTTTACGATTTT
Found at i:2833673 original size:7 final size:7
Alignment explanation
Indices: 2833648--2833680 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
2833638 AGCGATGTGA
2833648 AAAAATG
1 AAAAATG
2833655 AAAAGATG
1 AAAA-ATG
2833663 -AAAATG
1 AAAAATG
2833669 AAAAATG
1 AAAAATG
2833676 AAAAA
1 AAAAA
2833681 GTAAAATGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 3 0.12
7 18 0.75
8 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:2835213 original size:88 final size:87
Alignment explanation
Indices: 2835050--2835216 Score: 199
Period size: 87 Copynumber: 1.9 Consensus size: 87
2835040 ATCAGTGAAA
* * * * * *
2835050 ATAGCAGATCTTGCCTTCTTGCATCGACAGCGAAGTAGATCGAAAATAAAGCCTTGCCTCCCTCA
1 ATAGCAAATCTTGCCTTCCTACATCGACAACGAAGCAGATCGAAAATAAAGCCTTACCTCCCTCA
*
2835115 GTCGCAGTGGAGCAAGTTAAAG
66 GTCACAGTGGAGCAAGTTAAAG
* * * * *
2835137 ATAGCAAATCTTTCCTTCCTACATTGACAACGAAGCAGATTGAAGATACCAGCCTTACCTCCCTC
1 ATAGCAAATCTTGCCTTCCTACATCGACAACGAAGCAGATCGAAAATA-AAGCCTTACCTCCCTC
* *
2835202 GGTTACAGTGGAGCA
65 AGTCACAGTGGAGCA
2835217 GGTTGATGGC
Statistics
Matches: 65, Mismatches: 14, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
87 39 0.60
88 26 0.40
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (87 bp):
ATAGCAAATCTTGCCTTCCTACATCGACAACGAAGCAGATCGAAAATAAAGCCTTACCTCCCTCA
GTCACAGTGGAGCAAGTTAAAG
Found at i:2835687 original size:88 final size:87
Alignment explanation
Indices: 2835288--2836012 Score: 291
Period size: 88 Copynumber: 8.2 Consensus size: 87
2835278 CTCCATGGGT
* * * * * ** * *
2835288 AGCAATGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 AGCAGTGGAGTAGATTGAAGAGTACA-TTC-TATCTCCTTGGGCAGTAGTGGAGTAGATTGAAGA
* * * *
2835353 TGGCGGATTTTACCTCCATGAGGTT
64 TGACAGATTTTACCTCCCTGAGG-C
* ** * * * *
2835378 A-CAGTGGAGTACATTGAAGCCAGTA-ATTCTATCTCCCAGGGCAGCAGTGGAATAAATTGAATA
1 AGCAGTGGAGTAGATTGAAG--AGTACATTCTATCTCCTTGGGCAGTAGTGGAGTAGATTGAAGA
* * * *
2835441 TTACAGATCTTATCTCCCT-AAGC
64 TGACAGATTTTACCTCCCTGAGGC
* * * * * * * * * *
2835464 AGTAGTGGAGCAGATCGAAGA-TGCCGGATTTTACCTCCATGAGGTTA-CAGTGGAGTACATTGA
1 AGCAGTGGAGTAGATTGAAGAGT-AC--ATTCTATCTCCTTG-GG-CAGTAGTGGAGTAGATTGA
*** * * *
2835527 AGCCAATA-ATTCTATCTCCCTG-GGC
61 AGATGACAGATTTTACCTCCCTGAGGC
* * * * * *
2835552 AGCAGTGGAATAGATTGAAGATTACAGGTCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGA
1 AGCAGTGGAGTAGATTGAAGAGTACA-TTC-TATCTCCTTGGGCAGTAGTGGAGTAGATTGAAGA
* *
2835617 TGACAGATTTTACCTCCTTGAGGTT
64 TGACAGATTTTACCTCCCTGAGG-C
* *
2835642 A-CAGTGGAGTATATTGAAGCCAGTA-ATTCTATCTCCTTGGGCAGTAGTGGAATAGATTGAAGA
1 AGCAGTGGAGTAGATTGAAG--AGTACATTCTATCTCCTTGGGCAGTAGTGGAGTAGATTGAAGA
* * * *
2835705 TTACAGGTCTTATCTCCCT-AGGC
64 TGACAGATTTTACCTCCCTGAGGC
* * * * * * *
2835728 AGTAGTGGAGTAGATCGAAGA-TGACAGATTTTACCTCCTTGAGGTTA-CAGTGGAGTATATTG-
1 AGCAGTGGAGTAGATTGAAGAGT-AC--ATTCTATCTCCTTG-GG-CAGTAGTGGAGTAGATTGA
* * * *
2835790 A-A-GCCAGTAATTCTATCTCCTTG-GGC
61 AGATGACAG--ATTTTACCTCCCTGAGGC
* * * * * ** * *
2835816 AGTAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 AGCAGTGGAGTAGATTGAAGAGTACA-TTC-TATCTCCTTGGGCAGTAGTGGAGTAGATTGAAGA
* * * *
2835881 TGACGGATTTTCCCCCCCTGAGGTT
64 TGACAGATTTTACCTCCCTGAGG-C
* * *
2835906 A-CAGTAGAGTACATTGAAGCCAGTA-ATTCTATCTCCTTGGGCAGTAGTGGAATAGATTGAAGA
1 AGCAGTGGAGTAGATTGAAG--AGTACATTCTATCTCCTTGGGCAGTAGTGGAGTAGATTGAAGA
* * * *
2835969 TTACAGGTCTTATCTCCCT-AGGC
64 TGACAGATTTTACCTCCCTGAGGC
* *
2835992 AGTAGTGGAGTAGATCGAAGA
1 AGCAGTGGAGTAGATTGAAGA
2836013 TGACAGATTT
Statistics
Matches: 456, Mismatches: 138, Indels: 87
0.67 0.20 0.13
Matches are distributed among these distances:
84 2 0.00
85 4 0.01
86 10 0.02
87 85 0.19
88 244 0.54
89 91 0.20
90 11 0.02
91 9 0.02
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (87 bp):
AGCAGTGGAGTAGATTGAAGAGTACATTCTATCTCCTTGGGCAGTAGTGGAGTAGATTGAAGATG
ACAGATTTTACCTCCCTGAGGC
Found at i:2836145 original size:132 final size:132
Alignment explanation
Indices: 2835229--2836111 Score: 1390
Period size: 132 Copynumber: 6.7 Consensus size: 132
2835219 TTGATGGCGG
* * * *
2835229 TTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCATGGGTAGCAAT
1 TTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGT
* * *
2835294 GGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGG
66 GGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGACAG
2835359 AT
131 AT
* *
2835361 TTTACCTCCATGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCAGGGCAGCAGT
1 TTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGT
* * * * *
2835426 GGAATAAATTGAATATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGCCGG
66 GGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGACAG
2835491 AT
131 AT
* *
2835493 TTTACCTCCATGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGGCAGCAGT
1 TTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGT
* *
2835558 GGAATAGATTGAAGATTACAGGTCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGACAG
66 GGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGACAG
2835623 AT
131 AT
* * *
2835625 TTTACCTCCTTGAGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCTTGGGCAGTAGT
1 TTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGT
* *
2835690 GGAATAGATTGAAGATTACAGGTCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGACAG
66 GGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGACAG
2835755 AT
131 AT
* * *
2835757 TTTACCTCCTTGAGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCTTGGGCAGTAGT
1 TTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGT
* *
2835822 GGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGACGG
66 GGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGACAG
2835887 AT
131 AT
* * * * * *
2835889 TTTCCCCCCCTGAGGTTACAGTAGAGTACATTGAAGCCAGTAATTCTATCTCCTTGGGCAGTAGT
1 TTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGT
* *
2835954 GGAATAGATTGAAGATTACAGGTCTTATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGATGACAG
66 GGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGACAG
2836019 AT
131 AT
* * *
2836021 TTTACCTCCTTGAGGTTACAGTGGAGTATATTGAAGCCAGTAATTCTATCTCCCTGGTCGGCAGT
1 TTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGT
*
2836086 GGAATAGATCGAAGA-TAGCAGATCTT
66 GGAATAGATTGAAGATTA-CAGATCTT
2836112 GTCTTCATGT
Statistics
Matches: 704, Mismatches: 46, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
131 2 0.00
132 702 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (132 bp):
TTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGCAGT
GGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGACAG
AT
Found at i:2836210 original size:44 final size:43
Alignment explanation
Indices: 2836154--2836356 Score: 160
Period size: 44 Copynumber: 4.7 Consensus size: 43
2836144 ATACCAATCA
* * * *
2836154 TATCTCCTTGAAGCTGCAATGGAGTGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGA-TAAAACCACAGATCT
* * * * * *
2836198 TATCTCTCTGAAGTTGCAGTAGAGCAGATCACATC-CAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATAAAACCACAGATCT
* * * * *
2836239 TATCTCCCTAAAGTTACAGTGGAGCGGACAGAAGA-AAGCAGATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATA-AA-ACCA-CAGATCT
* *
2836284 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCGCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGA-TAAAACCACAGATCT
* * *
2836328 CATCTCTCTGAAGTTGCAGTAGAGCGGAT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGAT
2836357 CGCATCAGAT
Statistics
Matches: 121, Mismatches: 31, Indels: 15
0.72 0.19 0.09
Matches are distributed among these distances:
41 26 0.21
42 4 0.03
43 6 0.05
44 55 0.45
45 29 0.24
46 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.26
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATAAAACCACAGATCT
Found at i:2844928 original size:11 final size:11
Alignment explanation
Indices: 2844901--2844946 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
2844891 ATTAATCATT
*
2844901 TCTCAATTATTC
1 TCTCAATT-TCC
2844913 TCTCAATTTCC
1 TCTCAATTTCC
*
2844924 TCTCAATTTGC
1 TCTCAATTTCC
2844935 TCTCAATTTCC
1 TCTCAATTTCC
2844946 T
1 T
2844947 TCCAAATTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
11 23 0.74
12 8 0.26
ACGTcount: A:0.20, C:0.30, G:0.02, T:0.48
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:2844940 original size:22 final size:21
Alignment explanation
Indices: 2844901--2844962 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 21
2844891 ATTAATCATT
2844901 TCTCAATTATTCTCTCAATTTCC
1 TCTCAA-T-TTCTCTCAATTTCC
2844924 TCTCAATTTGCTCTCAATTTCC
1 TCTCAATTT-CTCTCAATTTCC
2844946 T-TCCAAATTTCTCTCAA
1 TCT-C-AATTTCTCTCAA
2844963 ATTCATATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
21 3 0.08
22 22 0.61
23 11 0.31
ACGTcount: A:0.23, C:0.31, G:0.02, T:0.45
Consensus pattern (21 bp):
TCTCAATTTCTCTCAATTTCC
Found at i:2844965 original size:11 final size:10
Alignment explanation
Indices: 2844910--2844962 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 10
2844900 TTCTCAATTA
2844910 TTCTCTCAAT
1 TTCTCTCAAT
2844920 TTCCTCTCAAT
1 TT-CTCTCAAT
2844931 TTGCTCTCAAT
1 TT-CTCTCAAT
2844942 TTC-CTTCCAAAT
1 TTCTC-T-C-AAT
2844954 TTCTCTCAA
1 TTCTCTCAA
2844963 ATTCATATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
9 1 0.03
10 6 0.16
11 22 0.59
12 7 0.19
13 1 0.03
ACGTcount: A:0.21, C:0.32, G:0.02, T:0.45
Consensus pattern (10 bp):
TTCTCTCAAT
Found at i:2851296 original size:11 final size:11
Alignment explanation
Indices: 2851280--2851304 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2851270 GACCCAGCCC
2851280 ATATTAAATAT
1 ATATTAAATAT
2851291 ATATTAAATAT
1 ATATTAAATAT
2851302 ATA
1 ATA
2851305 ATATTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATATTAAATAT
Found at i:2853329 original size:28 final size:28
Alignment explanation
Indices: 2853266--2853329 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
2853256 CAAAAAAAGC
*
2853266 CCATTTTTTAAAAAATTACCGAAATGGG
1 CCATTTTTTAAAAAATTACCGAAATGAG
* ** * *
2853294 CCGGTTTTTTAATTATTTACCGGAATGAG
1 CC-ATTTTTTAAAAAATTACCGAAATGAG
2853323 CCATTTT
1 CCATTTT
2853330 CCGCGAAATC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (28 bp):
CCATTTTTTAAAAAATTACCGAAATGAG
Found at i:2860770 original size:14 final size:15
Alignment explanation
Indices: 2860753--2860786 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2860743 AATAAATATC
2860753 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
2860767 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
2860782 TAAAA
1 TAAAA
2860787 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:2860993 original size:22 final size:22
Alignment explanation
Indices: 2860968--2861014 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
2860958 TATGGATTTG
* *
2860968 GAGATTTTTTGAAGGAAATTGA
1 GAGAATTTTGGAAGGAAATTGA
*
2860990 GAGAATTTTGGAAGGAATTTGA
1 GAGAATTTTGGAAGGAAATTGA
2861012 GAG
1 GAG
2861015 TTTGAGAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (22 bp):
GAGAATTTTGGAAGGAAATTGA
Found at i:2861022 original size:30 final size:30
Alignment explanation
Indices: 2860986--2861044 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
2860976 TTGAAGGAAA
*
2860986 TTGAGAGAATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGAAAGGAATTTGAGAGT
2861016 TTGAGAGAATTTTGAAAGGAATTTGAGAG
1 TTGAGAGAATTTTGAAAGGAATTTGAGAG
2861045 AATTTTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (30 bp):
TTGAGAGAATTTTGAAAGGAATTTGAGAGT
Found at i:2861029 original size:11 final size:10
Alignment explanation
Indices: 2860986--2861049 Score: 53
Period size: 11 Copynumber: 6.2 Consensus size: 10
2860976 TTGAAGGAAA
2860986 TTGAGAGAATT
1 TTGAGAGAA-T
2860997 TTG-GAAGGAAT
1 TTGAG-A-GAAT
2861008 TTGAGAG--T
1 TTGAGAGAAT
2861016 TTGAGAGAATT
1 TTGAGAGAA-T
*
2861027 TTGAAAGGAAT
1 TTGAGA-GAAT
2861038 TTGAGAGAAT
1 TTGAGAGAAT
2861048 TT
1 TT
2861050 TTGAACGGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
8 8 0.18
10 8 0.18
11 21 0.48
12 7 0.16
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.34
Consensus pattern (10 bp):
TTGAGAGAAT
Found at i:2861041 original size:22 final size:23
Alignment explanation
Indices: 2861015--2861085 Score: 103
Period size: 22 Copynumber: 3.2 Consensus size: 23
2861005 AATTTGAGAG
2861015 TTTGAGAGAA-TTTTGAAAGGAA
1 TTTGAGAGAATTTTTGAAAGGAA
*
2861037 TTTGAGAGAATTTTTGAACGGAA
1 TTTGAGAGAATTTTTGAAAGGAA
2861060 -TTGAGAGAATTTTTG-AAGGAA
1 TTTGAGAGAATTTTTGAAAGGAA
*
2861081 ATTGA
1 TTTGA
2861086 TATTGAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.11
22 29 0.64
23 11 0.24
ACGTcount: A:0.38, C:0.01, G:0.27, T:0.34
Consensus pattern (23 bp):
TTTGAGAGAATTTTTGAAAGGAA
Found at i:2872178 original size:54 final size:54
Alignment explanation
Indices: 2872120--2872223 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
2872110 GCGACACGAC
* * *
2872120 CGTGTGACCCAAATTAGTGAGTTACACAGGCAGAGACACGGGCTGGGACATGGT
1 CGTGTGACCCAAATCAGTGAGTTACACAGGCAAAGACACGGGCTGAGACATGGT
* * * * * *
2872174 CGTGTGTCTCAAGTCAGTGAGTTACACGGGCAAAGGCATGGGCTGAGACA
1 CGTGTGACCCAAATCAGTGAGTTACACAGGCAAAGACACGGGCTGAGACA
2872224 CAACCGTGTG
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 41 1.00
ACGTcount: A:0.27, C:0.20, G:0.34, T:0.19
Consensus pattern (54 bp):
CGTGTGACCCAAATCAGTGAGTTACACAGGCAAAGACACGGGCTGAGACATGGT
Done.