Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 96 of 202
Found at i:29088613 original size:19 final size:21
Alignment explanation
Indices: 29088589--29088633 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
29088579 CAACCCAATT
29088589 TTTATTTTTA-TTT-TTTTAC
1 TTTATTTTTATTTTATTTTAC
29088608 TTTA-TTTTATTTTATTTTAC
1 TTTATTTTTATTTTATTTTAC
29088628 -TTATTT
1 TTTATTT
29088634 GGATATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 5 0.22
19 10 0.43
20 8 0.35
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTATTTTTATTTTATTTTAC
Found at i:29089675 original size:100 final size:99
Alignment explanation
Indices: 29089489--29089675 Score: 270
Period size: 100 Copynumber: 1.9 Consensus size: 99
29089479 AAGAACATGT
* *
29089489 TGGGCTGAGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTTGATGTG
1 TGGGCTGAGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTAGATGTA
* * *
29089554 TTCTTAAGGAAAATTATAATAAATTAGGAGTTTGC
66 TTCTAAAGCAAAA-TAAAATAAATTAGGAGTTTGC
*
29089589 TGGGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAG-TGT
1 TGGGCTGAGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTT-AGATGT
29089653 ATTCCTAAAGCATAAA-AAAATAA
65 ATT-CTAAAGCA-AAATAAAATAA
29089676 TAATTTGGGG
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
100 68 0.87
101 7 0.09
102 3 0.04
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (99 bp):
TGGGCTGAGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTAGATGTA
TTCTAAAGCAAAATAAAATAAATTAGGAGTTTGC
Found at i:29094216 original size:13 final size:13
Alignment explanation
Indices: 29094200--29094224 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29094190 ATTTTCGATC
29094200 TAAAGTTCAATTT
1 TAAAGTTCAATTT
29094213 TAAAGTTCAATT
1 TAAAGTTCAATT
29094225 ACCCATTGGG
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:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
TAAAGTTCAATTT
Found at i:29095855 original size:10 final size:11
Alignment explanation
Indices: 29095832--29095856 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
29095822 CCAATCCTCG
29095832 TTTTTAATGTT
1 TTTTTAATGTT
29095843 TTTTTAATGTT
1 TTTTTAATGTT
29095854 TTT
1 TTT
29095857 GAAGTCCTTG
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:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTTTAATGTT
Found at i:29097027 original size:20 final size:20
Alignment explanation
Indices: 29097002--29097050 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
29096992 TGAGTTATTT
29097002 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
29097022 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
29097042 AAG-AAGCAA
1 AAGTAAGCAA
29097051 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:29100383 original size:11 final size:11
Alignment explanation
Indices: 29100367--29100407 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
29100357 GTAGGTTCAT
29100367 AAAAAAAATCAA
1 AAAAAAAATC-A
29100379 AAAAAAAATCA
1 AAAAAAAATCA
* *
29100390 AAAAAAATTGA
1 AAAAAAAATCA
29100401 AAAAAAA
1 AAAAAAA
29100408 TTATATACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.83, C:0.05, G:0.02, T:0.10
Consensus pattern (11 bp):
AAAAAAAATCA
Found at i:29100384 original size:12 final size:12
Alignment explanation
Indices: 29100367--29100396 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
29100357 GTAGGTTCAT
29100367 AAAAAAAATCAA
1 AAAAAAAATCAA
29100379 AAAAAAAATCAA
1 AAAAAAAATCAA
29100391 AAAAAA
1 AAAAAA
29100397 TTGAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.87, C:0.07, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAAAAATCAA
Found at i:29113530 original size:25 final size:26
Alignment explanation
Indices: 29113491--29113562 Score: 103
Period size: 25 Copynumber: 2.8 Consensus size: 26
29113481 CAAGCCCATT
29113491 TTCACAGCTCGTGTAAGCATACT-GA
1 TTCACAGCTCGTGTAAGCATACTCGA
* *
29113516 TTTACAGCTCATGTAAGCATA-TCGA
1 TTCACAGCTCGTGTAAGCATACTCGA
*
29113541 TTCACAGCTCGTGTGAGCATAC
1 TTCACAGCTCGTGTAAGCATAC
29113563 ATGTACAGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
24 1 0.03
25 39 0.98
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (26 bp):
TTCACAGCTCGTGTAAGCATACTCGA
Found at i:29121761 original size:30 final size:30
Alignment explanation
Indices: 29121725--29121997 Score: 195
Period size: 30 Copynumber: 9.2 Consensus size: 30
29121715 TCATCAACCA
* * *
29121725 ATGAAAAGGAATAGCTTCGACTATCGAGTT
1 ATGAAAAGGGATAGCTTCGACCATCGAATT
**
29121755 ATGAAAAGGGATAGCTTCGACCATAAAATT
1 ATGAAAAGGGATAGCTTCGACCATCGAATT
* * *
29121785 ATGAAAAGGGAT-GGTGACGACCATC-AATA
1 ATGAAAAGGGATAGCT-TCGACCATCGAATT
* *
29121814 ATGAAAAGGGAT-G--ACGACCATCGAAAT
1 ATGAAAAGGGATAGCTTCGACCATCGAATT
* * * *
29121841 ATGAAAAGGGATAGTTTTGACTATTGAATT
1 ATGAAAAGGGATAGCTTCGACCATCGAATT
* * * *
29121871 ATGAAAAGGGATAGCTTTGGCTATCAAATT
1 ATGAAAAGGGATAGCTTCGACCATCGAATT
* * * *
29121901 ATGAAAAGGAAT-GGTGAT-GAGCATC-AACT
1 ATGAAAAGGGATAGCT--TCGACCATCGAATT
* * * *
29121930 ATGAAAAGGGAT-GGTGACGACCATCAAAAT
1 ATGAAAAGGGATAGCT-TCGACCATCGAATT
*
29121960 ATGAAAAGGGATAGCTTCGACTATCGAATT
1 ATGAAAAGGGATAGCTTCGACCATCGAATT
29121990 ATGGAAAA
1 AT-GAAAA
29121998 AGATGGTCAC
Statistics
Matches: 196, Mismatches: 36, Indels: 21
0.77 0.14 0.08
Matches are distributed among these distances:
26 9 0.05
27 14 0.07
28 1 0.01
29 43 0.22
30 121 0.62
31 8 0.04
ACGTcount: A:0.41, C:0.11, G:0.25, T:0.23
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGACCATCGAATT
Found at i:29121835 original size:26 final size:27
Alignment explanation
Indices: 29121784--29121852 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 27
29121774 ACCATAAAAT
29121784 TATGAAAAGGGATGGTGACGACCATC--AA
1 TATGAAAAGGGA---TGACGACCATCGAAA
29121812 TAATGAAAAGGGATGACGACCATCGAAA
1 T-ATGAAAAGGGATGACGACCATCGAAA
29121840 TATGAAAAGGGAT
1 TATGAAAAGGGAT
29121853 AGTTTTGACT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
26 11 0.29
27 12 0.32
28 4 0.11
29 11 0.29
ACGTcount: A:0.43, C:0.12, G:0.28, T:0.17
Consensus pattern (27 bp):
TATGAAAAGGGATGACGACCATCGAAA
Found at i:29121934 original size:116 final size:117
Alignment explanation
Indices: 29121725--29121997 Score: 379
Period size: 116 Copynumber: 2.3 Consensus size: 117
29121715 TCATCAACCA
* *
29121725 ATGAAAAGGAATAGCTTCGACTATCGAGTTATGAAAAGGGATAGCTTCGACCATAAAATTATGAA
1 ATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGATAGCTTCGACCATAAAATTATGAA
* *
29121790 AAGGGATGGTGACGACCATCAATAATGAAAAGGGA-TGACGACCATCGAAAT
66 AAGGAATGGTGACGACCATCAATAATGAAAAGGGAGTGACGACCATCAAAAT
* * * * * * *
29121841 ATGAAAAGGGATAGTTTTGACTATTGAATTATGAAAAGGGATAGCTTTGGCTATCAAATTATGAA
1 ATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGATAGCTTCGACCATAAAATTATGAA
* *
29121906 AAGGAATGGTGATGAGCATCAACT-ATGAAAAGGGATGGTGACGACCATCAAAAT
66 AAGGAATGGTGACGACCATCAA-TAATGAAAAGGGA--GTGACGACCATCAAAAT
29121960 ATGAAAAGGGATAGCTTCGACTATCGAATTATGGAAAA
1 ATGAAAAGGGATAGCTTCGACTATCGAATTAT-GAAAA
29121998 AGATGGTCAC
Statistics
Matches: 136, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
116 86 0.63
117 1 0.01
119 44 0.32
120 5 0.04
ACGTcount: A:0.41, C:0.11, G:0.25, T:0.23
Consensus pattern (117 bp):
ATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGATAGCTTCGACCATAAAATTATGAA
AAGGAATGGTGACGACCATCAATAATGAAAAGGGAGTGACGACCATCAAAAT
Found at i:29124586 original size:20 final size:20
Alignment explanation
Indices: 29124533--29124590 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
29124523 ATGCCTCTGT
*
29124533 TTGCACTTTAGTGCCCCTGA
1 TTGCACTTTAGTGCTCCTGA
* *
29124553 TCGCA-TATTCGTGCTCCTGA
1 TTGCACT-TTAGTGCTCCTGA
*
29124573 TTGCACTTTGGTGCTCCT
1 TTGCACTTTAGTGCTCCT
29124591 ATTATGCATC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.12, C:0.29, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGCACTTTAGTGCTCCTGA
Found at i:29125326 original size:19 final size:19
Alignment explanation
Indices: 29125302--29125341 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
29125292 TGGTAAGTAA
29125302 GTAAAGGAAATGGTTTATC
1 GTAAAGGAAATGGTTTATC
29125321 GTAAAGGAAATGGTTTATC
1 GTAAAGGAAATGGTTTATC
29125340 GT
1 GT
29125342 TTTAAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (19 bp):
GTAAAGGAAATGGTTTATC
Found at i:29127522 original size:6 final size:6
Alignment explanation
Indices: 29127511--29127535 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
29127501 GTTGAAACCA
29127511 TTCCTT TTCCTT TTCCTT TTCCTT T
1 TTCCTT TTCCTT TTCCTT TTCCTT T
29127536 ACATCGTTTC
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCCTT
Found at i:29146216 original size:27 final size:27
Alignment explanation
Indices: 29146156--29146219 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
29146146 TCGAATGATC
*
29146156 GAAATACCCCCATAGGGTAAAATAACT
1 GAAATACCCTCATAGGGTAAAATAACT
*
29146183 GAAATACCCTCATAGGGTAAAATGACT
1 GAAATACCCTCATAGGGTAAAATAACT
**
29146210 GTTATACCCT
1 GAAATACCCT
29146220 TCGGAGATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.23
Consensus pattern (27 bp):
GAAATACCCTCATAGGGTAAAATAACT
Found at i:29146473 original size:26 final size:26
Alignment explanation
Indices: 29146442--29146522 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
29146432 TTTCCCACAT
*
29146442 ATACTATTACTGGCAGCTTTACTGCG
1 ATACTATTACTGGCAGCTTTACTACG
*
29146468 ATACTATTACTGGCAGCTTTACTACT
1 ATACTATTACTGGCAGCTTTACTACG
* * *
29146494 ATACTATTACTGACAACTTTGCTACG
1 ATACTATTACTGGCAGCTTTACTACG
29146520 ATA
1 ATA
29146523 TTGGTGTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTACTACG
Found at i:29146672 original size:28 final size:28
Alignment explanation
Indices: 29146630--29146694 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
29146620 ACTGCATTGT
* *
29146630 TACTGTATCGGGCTAAGGCCCACACTGA
1 TACTGTATTGGGCTAAAGCCCACACTGA
* *
29146658 TTCTGTATTGGGCTAAAGCCCACATTGA
1 TACTGTATTGGGCTAAAGCCCACACTGA
29146686 TACTGTATT
1 TACTGTATT
29146695 AGGATAAGTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (28 bp):
TACTGTATTGGGCTAAAGCCCACACTGA
Found at i:29151104 original size:7 final size:7
Alignment explanation
Indices: 29151094--29151118 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
29151084 AAATATTTTT
29151094 AAATTGA
1 AAATTGA
29151101 AAATTGA
1 AAATTGA
29151108 AAATTGA
1 AAATTGA
29151115 AAAT
1 AAAT
29151119 AGTTACTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (7 bp):
AAATTGA
Found at i:29153743 original size:17 final size:18
Alignment explanation
Indices: 29153711--29153744 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29153701 AATAAAAAAC
29153711 ATTTAAATTATTTTTAAA
1 ATTTAAATTATTTTTAAA
*
29153729 ATTTACATT-TTTTTAA
1 ATTTAAATTATTTTTAA
29153745 TGATATTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTAAATTATTTTTAAA
Found at i:29156548 original size:27 final size:26
Alignment explanation
Indices: 29156518--29156581 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
29156508 GGGCATTACG
*
29156518 GTCATTTTACCTTAT-AGGGATAATTCA
1 GTCATTTTACC-CATCAGGG-TAATTCA
* *
29156545 GTCAGTTTACCCATCGAGGGTATTTCA
1 GTCATTTTACCCATC-AGGGTAATTCA
29156572 GTCATTTTAC
1 GTCATTTTAC
29156582 AACCTTTCTG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
26 2 0.06
27 25 0.81
28 4 0.13
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (26 bp):
GTCATTTTACCCATCAGGGTAATTCA
Found at i:29159158 original size:11 final size:11
Alignment explanation
Indices: 29159142--29159166 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
29159132 TAGAAAACGA
29159142 ACAAATGCGAT
1 ACAAATGCGAT
29159153 ACAAATGCGAT
1 ACAAATGCGAT
29159164 ACA
1 ACA
29159167 TCCAGAATGT
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:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (11 bp):
ACAAATGCGAT
Found at i:29162414 original size:24 final size:24
Alignment explanation
Indices: 29162376--29162485 Score: 105
Period size: 24 Copynumber: 4.6 Consensus size: 24
29162366 CCCTCGAGGT
* * *
29162376 TAAATGATTGTTTTGCCTATGATG
1 TAAATGACTGATTTGTCTATGATG
* *
29162400 TAAATGAATGATTTGTTCGA-GATG
1 TAAATGACTGATTTG-TCTATGATG
* *
29162424 TAAATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTATGATG
* *
29162448 TAAATGACTGATTTGTCTTTGATT
1 TAAATGACTGATTTGTCTATGATG
**
29162472 TGTATGACTGATTT
1 TAAATGACTGATTT
29162486 CGTGTAGGGC
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
23 2 0.03
24 69 0.95
25 2 0.03
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.45
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTATGATG
Found at i:29162839 original size:32 final size:32
Alignment explanation
Indices: 29162659--29162858 Score: 190
Period size: 32 Copynumber: 6.3 Consensus size: 32
29162649 GCGATGCTAT
* * *
29162659 TGATGGATTTGTGCCGATCATATTACCATTAT
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* * *
29162691 TGGTGGCTGTGTGCCGATCATATTACCATTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
* *
29162723 TGATGG-TTGTGTGCTGATCATATTACTACTAC
1 TGATGGCTT-TGTGCCGATCATATTACTATTAC
* * * * *
29162755 TAATTGCTTTGTGCTGATCATACTACTATTAT
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
*
29162787 TGATGG-TTGTGTGCCGATCATATTACTACTAC
1 TGATGGCTT-TGTGCCGATCATATTACTATTAC
* * * *
29162819 TGATGGCTTTGTGGCAATCATTTTACT-GTAC
1 TGATGGCTTTGTGCCGATCATATTACTATTAC
*
29162850 TTATGGCTT
1 TGATGGCTT
29162859 ATAGCCATTC
Statistics
Matches: 139, Mismatches: 25, Indels: 9
0.80 0.14 0.05
Matches are distributed among these distances:
31 14 0.10
32 121 0.87
33 4 0.03
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.41
Consensus pattern (32 bp):
TGATGGCTTTGTGCCGATCATATTACTATTAC
Found at i:29162839 original size:64 final size:64
Alignment explanation
Indices: 29162656--29162839 Score: 219
Period size: 64 Copynumber: 2.9 Consensus size: 64
29162646 GCTGCGATGC
* * * * * * *
29162656 TATTGATGGATT-TGTGCCGATCATATTACCATTATTGGTGGCTGTGTGCCGATCATATTACCAT
1 TATTGATGG-TTGTGTGCCGATCATATTACTACTACTGATGGCTTTGTGGCGATCATACTACCAT
* * * * *
29162720 TACTGATGGTTGTGTGCTGATCATATTACTACTACTAATTGCTTTGT-GCTGATCATACTACTAT
1 TATTGATGGTTGTGTGCCGATCATATTACTACTACTGATGGCTTTGTGGC-GATCATACTACCAT
*
29162784 TATTGATGGTTGTGTGCCGATCATATTACTACTACTGATGGCTTTGTGGCAATCAT
1 TATTGATGGTTGTGTGCCGATCATATTACTACTACTGATGGCTTTGTGGCGATCAT
29162840 TTTACTGTAC
Statistics
Matches: 100, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
63 3 0.03
64 95 0.95
65 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (64 bp):
TATTGATGGTTGTGTGCCGATCATATTACTACTACTGATGGCTTTGTGGCGATCATACTACCAT
Found at i:29162839 original size:96 final size:96
Alignment explanation
Indices: 29162666--29162845 Score: 247
Period size: 96 Copynumber: 1.9 Consensus size: 96
29162656 TATTGATGGA
* * *
29162666 TTTGTGCCGATCATATTACCATTATTGGTGGCTGTGTGCCGATCATATTACCATTACTGATGGTT
1 TTTGTGCCGATCATACTACCATTATTGATGGCTGTGTGCCGATCATATTACCACTACTGATGGTT
*
29162731 GTGTGCTGATCATATTACTACTACTAATTGC
66 GTGTGCTAATCATATTACTACTACTAATTGC
* * * *
29162762 TTTGTGCTGATCATACTACTATTATTGATGGTTGTGTGCCGATCATATTACTACTACTGATGGCT
1 TTTGTGCCGATCATACTACCATTATTGATGGCTGTGTGCCGATCATATTACCACTACTGATGG-T
*
29162827 T-TGTGGC-AATCATTTTACT
65 TGTGT-GCTAATCATATTACT
29162846 GTACTTATGG
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
96 69 0.95
97 4 0.05
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (96 bp):
TTTGTGCCGATCATACTACCATTATTGATGGCTGTGTGCCGATCATATTACCACTACTGATGGTT
GTGTGCTAATCATATTACTACTACTAATTGC
Found at i:29162875 original size:22 final size:22
Alignment explanation
Indices: 29162850--29162923 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
29162840 TTTACTGTAC
29162850 TTATGGCTTATAGCCATTCTGT
1 TTATGGCTTATAGCCATTCTGT
* * * *
29162872 TTATAGCTTATAGCTATCCTAT
1 TTATGGCTTATAGCCATTCTGT
* *
29162894 TTACGGCTCT-TAGCCATTCTGG
1 TTATGGCT-TATAGCCATTCTGT
29162916 TTACTGGC
1 TTA-TGGC
29162924 ATTTTTGCTG
Statistics
Matches: 39, Mismatches: 11, Indels: 3
0.74 0.21 0.06
Matches are distributed among these distances:
22 35 0.90
23 4 0.10
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.42
Consensus pattern (22 bp):
TTATGGCTTATAGCCATTCTGT
Found at i:29165798 original size:21 final size:23
Alignment explanation
Indices: 29165766--29165813 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
29165756 TATTAACCTT
29165766 TTAACTTTATAAAA-ATA-ATAAA
1 TTAACTTTATAAAACATATA-AAA
29165788 TTAAC-TTATAAAACATATAAAA
1 TTAACTTTATAAAACATATAAAA
29165810 TTAA
1 TTAA
29165814 AAGATTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.33
22 15 0.62
23 1 0.04
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (23 bp):
TTAACTTTATAAAACATATAAAA
Found at i:29168394 original size:17 final size:16
Alignment explanation
Indices: 29168357--29168409 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 16
29168347 CCTTTTACCC
29168357 TTTT-TTTCTTT-TTA
1 TTTTATTTCTTTATTA
29168371 -TTTATTTCTTTATTA
1 TTTTATTTCTTTATTA
29168386 TTATTATTT-TTATATTA
1 TT-TTATTTCTT-TATTA
29168403 -TTTATTT
1 TTTTATTT
29168410 TTATTTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.09
14 7 0.21
15 9 0.26
16 4 0.12
17 11 0.32
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTATTTCTTTATTA
Found at i:29168397 original size:15 final size:16
Alignment explanation
Indices: 29168368--29168414 Score: 62
Period size: 15 Copynumber: 2.9 Consensus size: 16
29168358 TTTTTTCTTT
29168368 TTATTTATTTCTTTATTA
1 TTATTTA-TT-TTTATTA
29168386 TTA-TTATTTTTA-TA
1 TTATTTATTTTTATTA
29168400 TTATTTATTTTTATT
1 TTATTTATTTTTATT
29168415 TTTACTGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.19
15 13 0.48
16 3 0.11
17 3 0.11
18 3 0.11
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTTATTTTTATTA
Found at i:29168526 original size:14 final size:15
Alignment explanation
Indices: 29168504--29168536 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
29168494 ATGCTATTTC
*
29168504 TATTATTTTTAGTAT
1 TATTATTTTTACTAT
29168519 TATT-TTTTTACTAT
1 TATTATTTTTACTAT
29168533 TATT
1 TATT
29168537 CTTACTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (15 bp):
TATTATTTTTACTAT
Found at i:29168541 original size:12 final size:12
Alignment explanation
Indices: 29168503--29168546 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
29168493 TATGCTATTT
29168503 CTATTATTTTTA
1 CTATTATTTTTA
*
29168515 GTATTATTTTTTTA
1 CTATTA--TTTTTA
*
29168529 CTATTATTCTTA
1 CTATTATTTTTA
29168541 CTATTA
1 CTATTA
29168547 CCTTTAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 16 0.59
14 11 0.41
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (12 bp):
CTATTATTTTTA
Found at i:29168641 original size:6 final size:6
Alignment explanation
Indices: 29168580--29168640 Score: 83
Period size: 6 Copynumber: 10.5 Consensus size: 6
29168570 ATTGATTTTA
29168580 TTTC-T TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTT-AT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
*
29168626 CTTT-AT TTTTAT TTT
1 -TTTCAT TTTCAT TTT
29168641 TGTTTTAGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
5 9 0.17
6 44 0.83
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTCAT
Found at i:29170391 original size:89 final size:89
Alignment explanation
Indices: 29170240--29170419 Score: 351
Period size: 89 Copynumber: 2.0 Consensus size: 89
29170230 TAATTATGTA
29170240 AATTAGTGAATTTGATGCTTCTAATGCTTTAAATTCATGTTTATATACTTAGGAGAACATTTGGG
1 AATTAGTGAATTTGATGCTTCTAATGCTTTAAATTCATGTTTATATACTTAGGAGAACATTTGGG
29170305 AGTGAAAGGAGTGAAAAACAAGCC
66 AGTGAAAGGAGTGAAAAACAAGCC
29170329 AATTAGTGAATTTGATGCTTCTAATGCTTTAAATTCATGTTTATATACTTAGGAGAACATTTGGG
1 AATTAGTGAATTTGATGCTTCTAATGCTTTAAATTCATGTTTATATACTTAGGAGAACATTTGGG
*
29170394 AGTGACAGGAGTGAAAAACAAGCC
66 AGTGAAAGGAGTGAAAAACAAGCC
29170418 AA
1 AA
29170420 AAGCAGACAA
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (89 bp):
AATTAGTGAATTTGATGCTTCTAATGCTTTAAATTCATGTTTATATACTTAGGAGAACATTTGGG
AGTGAAAGGAGTGAAAAACAAGCC
Found at i:29174931 original size:340 final size:341
Alignment explanation
Indices: 29174303--29174984 Score: 1294
Period size: 340 Copynumber: 2.0 Consensus size: 341
29174293 AACTACTTAT
29174303 ACAGTAAATCATTGTCGATCAATCTTTCCAAGAAATTTCTATTAATTTTATATCATTTGGTTGCA
1 ACAGTAAATCATTGTCGATCAATCTTTCCAAGAAATTTCTATTAATTTTATATCATTTGGTTGCA
* *
29174368 AAACTTGACGTGGGGTCTTGTAAGAAGAGAGAGCATATCCCACTATGATATATTCTTCTTTTTAC
66 AAACTTGACATGGAGTCTTGTAAGAAGAGAGAGCATATCCCACTATGATATATTCTTCTTTTTAC
29174433 GTTGCATGAAAACTTTTTAACTGAATCATGAAAGTGAAAAGTGTATCCATGCATGAATTGAAACT
131 GTTGCATGAAAACTTTTTAACTGAATCATGAAAGTGAAAAGTGTATCCATGCATGAATTGAAACT
*
29174498 TAATCGAGTTATAAATATAAGAAAATTCACAGCCTTGAGCTTAAAGGTTAGTAAAACAGGATGCA
196 TAATCGAGTTATAAATATAAGAAAATTCACAGCCTTGAGCTTAAAGGTTAGAAAAACAGGATGCA
* *
29174563 ACAATTTTATTAATCACCAGTTTACTAAAAGCAAATAGTTGAGATGCTGATAATTGGAATGAAAA
261 ACAATTTTATTAATCACCAGTGTACTAAAAGCAAATAGTTGAGAAGCTGATAATTGGAATGAAAA
29174628 TAACCCTAAACATTAA
326 TAACCCTAAACATTAA
29174644 ACAGTAAATCATTGTCGATCAATCTTTCCAAGAAATTTCTATTAATTTTATATCATTTGGTTGCA
1 ACAGTAAATCATTGTCGATCAATCTTTCCAAGAAATTTCTATTAATTTTATATCATTTGGTTGCA
*
29174709 AAACTTGACATGGAGTCTTGTAAGAAGAGAGAGCATATGCCACTATGATATATTCTT-TTTTTAC
66 AAACTTGACATGGAGTCTTGTAAGAAGAGAGAGCATATCCCACTATGATATATTCTTCTTTTTAC
*
29174773 GTTGCATGAAAACTTTTTAACTGAATCATGAAAGTGAAAAGTGTATCCATGCTTGAATTGAAACT
131 GTTGCATGAAAACTTTTTAACTGAATCATGAAAGTGAAAAGTGTATCCATGCATGAATTGAAACT
29174838 TAATCGAGTTATAAATATAAGAAAATTCACAGCCTTGAGCTTAAAGGTTAGAAAAACAGGATGCA
196 TAATCGAGTTATAAATATAAGAAAATTCACAGCCTTGAGCTTAAAGGTTAGAAAAACAGGATGCA
29174903 ACAATTTTATTAATCACCAGTGTACTAAAAGCAAATAGTTGAGAAGCTGATAATTGGAATGAAAA
261 ACAATTTTATTAATCACCAGTGTACTAAAAGCAAATAGTTGAGAAGCTGATAATTGGAATGAAAA
29174968 TAACCCTAAACATTAA
326 TAACCCTAAACATTAA
29174984 A
1 A
29174985 TAGTCAAGGC
Statistics
Matches: 334, Mismatches: 7, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
340 215 0.64
341 119 0.36
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (341 bp):
ACAGTAAATCATTGTCGATCAATCTTTCCAAGAAATTTCTATTAATTTTATATCATTTGGTTGCA
AAACTTGACATGGAGTCTTGTAAGAAGAGAGAGCATATCCCACTATGATATATTCTTCTTTTTAC
GTTGCATGAAAACTTTTTAACTGAATCATGAAAGTGAAAAGTGTATCCATGCATGAATTGAAACT
TAATCGAGTTATAAATATAAGAAAATTCACAGCCTTGAGCTTAAAGGTTAGAAAAACAGGATGCA
ACAATTTTATTAATCACCAGTGTACTAAAAGCAAATAGTTGAGAAGCTGATAATTGGAATGAAAA
TAACCCTAAACATTAA
Found at i:29175702 original size:23 final size:23
Alignment explanation
Indices: 29175676--29175722 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
29175666 TCATTTTCAT
29175676 TGATCTTAATCTTGATT-TTTTGC
1 TGATCTTAATCTTG-TTGTTTTGC
29175699 TGATCTTAATCTTGTTGTTTTGC
1 TGATCTTAATCTTGTTGTTTTGC
29175722 T
1 T
29175723 TTCCTCTAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.57
Consensus pattern (23 bp):
TGATCTTAATCTTGTTGTTTTGC
Found at i:29177891 original size:12 final size:12
Alignment explanation
Indices: 29177873--29177915 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
29177863 TATGTTATTT
29177873 CTATTATTTTTA
1 CTATTATTTTTA
*
29177885 GTATTATTTTTTA
1 CTATTA-TTTTTA
*
29177898 CTATTATTCTTA
1 CTATTATTTTTA
*
29177910 CAATTA
1 CTATTA
29177916 CATTTAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.60
Consensus pattern (12 bp):
CTATTATTTTTA
Found at i:29177897 original size:13 final size:13
Alignment explanation
Indices: 29177873--29177905 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
29177863 TATGTTATTT
29177873 CTATTA-TTTTTA
1 CTATTATTTTTTA
*
29177885 GTATTATTTTTTA
1 CTATTATTTTTTA
29177898 CTATTATT
1 CTATTATT
29177906 CTTACAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (13 bp):
CTATTATTTTTTA
Found at i:29177961 original size:6 final size:6
Alignment explanation
Indices: 29177950--29178010 Score: 68
Period size: 6 Copynumber: 9.7 Consensus size: 6
29177940 ATTTTATTTC
* * *
29177950 TTTTAT TTTTAT TTTTAT TTTTAT CTTTAT TTTTGT TTGTAGT TGCTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T T--TTTAT
29178001 TTTTAT TTTT
1 TTTTAT TTTT
29178011 TTAGACTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
6 39 0.85
7 2 0.04
8 2 0.04
9 3 0.07
ACGTcount: A:0.13, C:0.03, G:0.07, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:29189163 original size:43 final size:42
Alignment explanation
Indices: 29189114--29189251 Score: 136
Period size: 42 Copynumber: 3.2 Consensus size: 42
29189104 TCCCGAACGA
* * *
29189114 GGTCTTACATGTTATCAAATATTGATGCCACTGTCCCAGATAG
1 GGTCTTACATGTAATCAAATA-TGATGCCAATGTCCCAGACAG
* * * * *
29189157 GGTCTTACACGAAATTATATATGATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATCAAATATGATGCCAATGTCCCAGACAG
*
29189199 GGTCTTACATGTAAATCTCAAAT-TGATTCCAATGTCCCAGAC-G
1 GGTCTTACATGT-AA--TCAAATATGATGCCAATGTCCCAGACAG
29189242 TGGTCTTACA
1 -GGTCTTACA
29189252 CGAAATCAGA
Statistics
Matches: 77, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 28 0.36
43 18 0.23
44 27 0.35
45 4 0.05
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATATGATGCCAATGTCCCAGACAG
Found at i:29189193 original size:42 final size:42
Alignment explanation
Indices: 29189132--29189258 Score: 141
Period size: 42 Copynumber: 3.0 Consensus size: 42
29189122 ATGTTATCAA
*
29189132 ATATTGATGCCACTGTCCCAGATAGGGTCTTACACGAAAT-T-
1 ATATTGATGCCAATGTCCCAGA-AGGGTCTTACACGAAATCTC
* *
29189173 ATATATGATGCCAATGTCCCAGACATGGTCTTACATGTAAATCTC
1 ATAT-TGATGCCAATGTCCCAGA-AGGGTCTTACACG-AAATCTC
* * *
29189218 AAATTGATTCCAATGTCCCAGACGTGGTCTTACACGAAATC
1 ATATTGATGCCAATGTCCCAGAAG-GGTCTTACACGAAATC
29189259 AGATATCAGA
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
41 4 0.06
42 28 0.39
43 9 0.12
44 28 0.39
45 3 0.04
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (42 bp):
ATATTGATGCCAATGTCCCAGAAGGGTCTTACACGAAATCTC
Found at i:29189237 original size:44 final size:41
Alignment explanation
Indices: 29189134--29189257 Score: 149
Period size: 44 Copynumber: 2.9 Consensus size: 41
29189124 GTTATCAAAT
* * * *
29189134 ATTGATGCCACTGTCCCAGATAGGGTCTTACACGAAATTAT
1 ATTGATGCCAATGTCCCAGACATGGTCTTACACGAAATTAA
*
29189175 ATATGATGCCAATGTCCCAGACATGGTCTTACATGTAAATCTCAA
1 AT-TGATGCCAATGTCCCAGACATGGTCTTACACG-AAAT-T-AA
* *
29189220 ATTGATTCCAATGTCCCAGACGTGGTCTTACACGAAAT
1 ATTGATGCCAATGTCCCAGACATGGTCTTACACGAAAT
29189258 CAGATATCAG
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
41 2 0.03
42 28 0.39
43 8 0.11
44 30 0.42
45 3 0.04
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.29
Consensus pattern (41 bp):
ATTGATGCCAATGTCCCAGACATGGTCTTACACGAAATTAA
Found at i:29193971 original size:37 final size:38
Alignment explanation
Indices: 29193930--29194002 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
29193920 TTTTCATAAT
** * *
29193930 TTCACTTTTTCAATTTCAA-TCACTATTTAATTCAAAA
1 TTCACTTTGCCAATTTCAAGTCAATATTCAATTCAAAA
*
29193967 TTCACTTTGCCATTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTGCCAATTTCAAGTCAATATTCAATTCAA
29194003 TTCCACACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 16 0.53
38 14 0.47
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.44
Consensus pattern (38 bp):
TTCACTTTGCCAATTTCAAGTCAATATTCAATTCAAAA
Found at i:29194033 original size:23 final size:22
Alignment explanation
Indices: 29193990--29194033 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
29193980 TTTCAAGTCA
29193990 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
29194013 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
29194034 TTAATCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:29194299 original size:51 final size:49
Alignment explanation
Indices: 29194218--29194390 Score: 186
Period size: 51 Copynumber: 3.4 Consensus size: 49
29194208 ATTAGCCTAA
*
29194218 ACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGC
1 ACATAGTACTACACATGTGA-CAT-ACTATCCGGTACACGTAGTAGCCTGC
* ** * *
29194269 ACATAGTACTACACACGTGATCGA-AGCTATCCGGTATGCATAGTAGCCTGA
1 ACATAGTACTACACATGTGA-C-ATA-CTATCCGGTACACGTAGTAGCCTGC
* * * *
29194320 ACATAGTAATACACATGCGACATATCTTTCTGGTACACGTAGTAGCCTGC
1 ACATAGTACTACACATGTGACATA-CTATCCGGTACACGTAGTAGCCTGC
*
29194370 ACATAGTACTACACAGGTGAC
1 ACATAGTACTACACATGTGAC
29194391 CATCATTTTC
Statistics
Matches: 99, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
49 1 0.01
50 40 0.40
51 57 0.58
52 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (49 bp):
ACATAGTACTACACATGTGACATACTATCCGGTACACGTAGTAGCCTGC
Found at i:29194373 original size:101 final size:102
Alignment explanation
Indices: 29194205--29194389 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
29194195 TACCGGTTCA
* * *
29194205 CATATTAGCCTAAACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTAAACATAGTAATACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
29194270 CATAGTACTACACACGTGATCGAAGCTATCCGGTATG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTATG
* * * *
29194307 CATAGTAGCCTGAACATAGTAATACACATGCGA-CAT-ATCTTTCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTAAACATAGTAATACACATGCGACCATCA-CTATCCGATACACGTAGTAGCCTGC
*
29194370 ACATAGTACTACACAGGTGA
65 ACATAGTACTACACACGTGA
29194390 CCATCATTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 1 0.01
101 44 0.59
102 29 0.39
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTAAACATAGTAATACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCGGTATG
Found at i:29197165 original size:29 final size:29
Alignment explanation
Indices: 29196898--29197152 Score: 286
Period size: 29 Copynumber: 8.8 Consensus size: 29
29196888 ACCTTAGATA
*
29196898 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * *
29196927 ATGAAAAGGGAT-GATGACGACCATC-AACT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAA-T
* * *
29196956 ATGAAAAGGGATGGTGATTAC--C-ATAGAAT
1 ATGAAAAGGGAT--AGCTT-CGGCTATCGAAT
* * *
29196985 ATGAAAAGGGATAGCTTTGACTATCAAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
29197014 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
*
29197043 ATGAAAAGGGATAGCTTCAGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
29197072 GTGAAAAGGGATAGCTTCTGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
*
29197101 ATGAAAAGGGATAGCTTCGGCTATCAAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
*
29197130 GTGAAAAGGGATAGCTTCGGCTA
1 ATGAAAAGGGATAGCTTCGGCTA
29197153 GCGATTATAA
Statistics
Matches: 194, Mismatches: 22, Indels: 20
0.82 0.09 0.08
Matches are distributed among these distances:
27 3 0.02
28 4 0.02
29 180 0.93
30 3 0.02
32 4 0.02
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:29197262 original size:29 final size:29
Alignment explanation
Indices: 29196898--29197272 Score: 217
Period size: 29 Copynumber: 12.9 Consensus size: 29
29196888 ACCTTAGATA
* * * *
29196898 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATGGTTTCGACTATCGAAT
* ** *
29196927 ATGAAAAGGGATGATGACGACCATC-AACT
1 ATGAAAAGGGATGGTTTCGACTATCGAA-T
* *
29196956 ATGAAAAGGGATGGTGATT--ACCATAGAAT
1 ATGAAAAGGGATGGT--TTCGACTATCGAAT
* *
29196985 ATGAAAAGGGATAGCTTT-GACTATCAAAT
1 ATGAAAAGGGAT-GGTTTCGACTATCGAAT
* * *
29197014 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATGGTTTCGACTATCGAAT
* *
29197043 ATGAAAAGGGATAGCTTC-AGCTATCGAAT
1 ATGAAAAGGGATGGTTTCGA-CTATCGAAT
* * *
29197072 GTGAAAAGGGATAGCTTCTG-CTATCGAAT
1 ATGAAAAGGGATGGTTTC-GACTATCGAAT
* * * *
29197101 ATGAAAAGGGATAGCTTCGGCTATCAAAT
1 ATGAAAAGGGATGGTTTCGACTATCGAAT
* * * * * *
29197130 GTGAAAAGGGATAGCTTCGGCTAGCGATT
1 ATGAAAAGGGATGGTTTCGACTATCGAAT
* ** * * *
29197159 ATAAAAAAAGATGGTGAT-GACCATC-AGCT
1 ATGAAAAGGGATGGT-TTCGACTATCGA-AT
** * * *
29197188 ATGAAAAGGGATGGTGACGACCATTGATT
1 ATGAAAAGGGATGGTTTCGACTATCGAAT
*
29197217 AATGAAAAGGGATGGTTTCGACCATCGAAT
1 -ATGAAAAGGGATGGTTTCGACTATCGAAT
* *
29197247 ATGAAAAGGGATGGTTACAACTATCG
1 ATGAAAAGGGATGGTTTCGACTATCG
29197273 TTTAGCACAC
Statistics
Matches: 276, Mismatches: 54, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
28 7 0.03
29 238 0.86
30 31 0.11
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATGGTTTCGACTATCGAAT
Found at i:29202542 original size:27 final size:25
Alignment explanation
Indices: 29202512--29202561 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
29202502 TTTTGTTTAA
*
29202512 TCTCAATCTCGTTTTTCTTTTTCTCAC
1 TCTCAATCTC-TTTTT-TTCTTCTCAC
*
29202539 TCTCACTCTCTTTTTTTCTTCTC
1 TCTCAATCTCTTTTTTTCTTCTC
29202562 TCGAGTTCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 5 0.24
27 9 0.43
ACGTcount: A:0.08, C:0.32, G:0.02, T:0.58
Consensus pattern (25 bp):
TCTCAATCTCTTTTTTTCTTCTCAC
Found at i:29203530 original size:14 final size:13
Alignment explanation
Indices: 29203502--29203536 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
29203492 CTTTTTTTGC
29203502 TTTCACAAATTTT
1 TTTCACAAATTTT
*
29203515 TTTCACGAATTTTT
1 TTTCAC-AAATTTT
29203529 TTTCACAA
1 TTTCACAA
29203537 CTTGATATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.29, C:0.17, G:0.03, T:0.51
Consensus pattern (13 bp):
TTTCACAAATTTT
Found at i:29203606 original size:12 final size:12
Alignment explanation
Indices: 29203574--29203607 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
29203564 TGGAAACTAA
*
29203574 TTTTTTTCAAAT
1 TTTTTTTCGAAT
29203586 TTTTTTTCGAAT
1 TTTTTTTCGAAT
29203598 TTTTTTTCGA
1 TTTTTTTCGA
29203608 GAAACTACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.68
Consensus pattern (12 bp):
TTTTTTTCGAAT
Found at i:29214391 original size:20 final size:20
Alignment explanation
Indices: 29214366--29214417 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
29214356 GTATTGATTT
*
29214366 GGTATCGATATTTTTCTTAA
1 GGTATCGATATTTTTCCTAA
*
29214386 GGTATCGATATATTTCCTAA
1 GGTATCGATATTTTTCCTAA
29214406 GGTATCGATATT
1 GGTATCGATATT
29214418 CCTACTCCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (20 bp):
GGTATCGATATTTTTCCTAA
Found at i:29219595 original size:13 final size:13
Alignment explanation
Indices: 29219577--29219603 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
29219567 TTGAGAACCA
29219577 AAATTGGAGAAAT
1 AAATTGGAGAAAT
29219590 AAATTGGAGAAAT
1 AAATTGGAGAAAT
29219603 A
1 A
29219604 GAGCTTAGGT
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:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (13 bp):
AAATTGGAGAAAT
Found at i:29223112 original size:2 final size:2
Alignment explanation
Indices: 29223105--29223129 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
29223095 TTGATATGTT
29223105 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
29223130 TAAAATAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29234250 original size:21 final size:19
Alignment explanation
Indices: 29234221--29234259 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
29234211 GTCCTAGTTT
29234221 ATTTATGTTATAATTGTTGCA
1 ATTTATGTT-TAATT-TTGCA
*
29234242 ATTTGTGTTTAATTTTGC
1 ATTTATGTTTAATTTTGC
29234260 TAAAATCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 5 0.29
21 8 0.47
ACGTcount: A:0.23, C:0.05, G:0.15, T:0.56
Consensus pattern (19 bp):
ATTTATGTTTAATTTTGCA
Found at i:29236050 original size:22 final size:22
Alignment explanation
Indices: 29236025--29236066 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
29236015 ATCTAAATTT
29236025 TTAAATTCAAAAAATAAAAAGA
1 TTAAATTCAAAAAATAAAAAGA
**
29236047 TTAAATTCTTAAAATAAAAA
1 TTAAATTCAAAAAATAAAAA
29236067 ATTGAGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (22 bp):
TTAAATTCAAAAAATAAAAAGA
Found at i:29236673 original size:4 final size:4
Alignment explanation
Indices: 29236664--29236693 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
29236654 ACTTTTACTT
29236664 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
29236694 TTAATTTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TTAA
Found at i:29239524 original size:61 final size:62
Alignment explanation
Indices: 29239447--29239565 Score: 188
Period size: 61 Copynumber: 1.9 Consensus size: 62
29239437 GACAATCAAA
*
29239447 TGTTGAACATCAAATTTGATCACCTAATTTAATTAGTTTTAAC-TTTAATTTCTAGGGGTTT
1 TGTTGAACATCAAATTTCATCACCTAATTTAATTAGTTTTAACATTTAATTTCTAGGGGTTT
* *
29239508 TGTTGAAC-TCCAAATTTCATCGCCTAATTTAATTAGTTTTAACATTTGATTTCTAGGG
1 TGTTGAACAT-CAAATTTCATCACCTAATTTAATTAGTTTTAACATTTAATTTCTAGGG
29239566 ATGTTTTTTG
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
60 1 0.02
61 39 0.74
62 13 0.25
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (62 bp):
TGTTGAACATCAAATTTCATCACCTAATTTAATTAGTTTTAACATTTAATTTCTAGGGGTTT
Found at i:29241426 original size:57 final size:58
Alignment explanation
Indices: 29241336--29241457 Score: 192
Period size: 57 Copynumber: 2.1 Consensus size: 58
29241326 CTTACACGGA
* * * *
29241336 ATCACTTATCATTTATCTCTTGTCATTGGTCAGATAAGTGTGGCT-AAGCTACCACTT
1 ATCACTTATCACTTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTT
*
29241393 ATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTATCACTTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTT
29241451 ATCACTT
1 ATCACTT
29241458 GTCATTGATC
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
57 40 0.68
58 19 0.32
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (58 bp):
ATCACTTATCACTTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTT
Found at i:29243965 original size:29 final size:31
Alignment explanation
Indices: 29243931--29243989 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 31
29243921 GAATCAAAAT
29243931 AACCTATACACATTCGAAC-T-TAATCATCC
1 AACCTATACACATTCGAACATGTAATCATCC
*
29243960 AACCTATACACATTTGAACATGTAATCATC
1 AACCTATACACATTCGAACATGTAATCATC
29243990 ATTTTACTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 18 0.67
30 1 0.04
31 8 0.30
ACGTcount: A:0.39, C:0.27, G:0.05, T:0.29
Consensus pattern (31 bp):
AACCTATACACATTCGAACATGTAATCATCC
Found at i:29245193 original size:43 final size:43
Alignment explanation
Indices: 29245085--29245207 Score: 112
Period size: 43 Copynumber: 2.9 Consensus size: 43
29245075 GGCTCAAACA
* * * *
29245085 ATGCCAACGTCCCAGA-ATGGTTTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
** *
29245127 ATGCC-ACTGTCTTAGACAG-GGTCTTACACGTAAACACA-AGTTG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACATA-TCG
29245170 ATGCCAACGTCCCAGACGTGGTCTTACACG-AAAGCACA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAA-CACA
29245208 CATTGGAATC
Statistics
Matches: 65, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
41 2 0.03
42 16 0.25
43 45 0.69
44 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACATATCG
Found at i:29248756 original size:27 final size:27
Alignment explanation
Indices: 29248726--29248842 Score: 130
Period size: 27 Copynumber: 4.3 Consensus size: 27
29248716 TTCATCTCTT
** *
29248726 AGGGGTATAACGGTCATTTTACCCTTC
1 AGGGGTATTTCGGTAATTTTACCCTTC
* *
29248753 AGGGTTATTTCAGTAATTTTACCCTTC
1 AGGGGTATTTCGGTAATTTTACCCTTC
* *
29248780 GGGGGTATTTCGATAATTTTACCCTTC
1 AGGGGTATTTCGGTAATTTTACCCTTC
*
29248807 -GAGGGTATTTTGGTAATTTTACCCTTC
1 AG-GGGTATTTCGGTAATTTTACCCTTC
29248834 -GAGGGTATT
1 AG-GGGTATT
29248843 CAATAATTTA
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 77 0.99
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTCGGTAATTTTACCCTTC
Found at i:29248816 original size:54 final size:53
Alignment explanation
Indices: 29248741--29248851 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 53
29248731 TATAACGGTC
* *
29248741 ATTTTACCCTTCAGGGTTATTTCAGTAATTTTACCCTTCGGGGGTATTTCGATA
1 ATTTTACCCTTCAGGGTTATTTCAGTAATTTTACCCTTCGAGGGTA-TTCAATA
**
29248795 ATTTTACCCTTCGAGGG-TATTTTGGTAATTTTACCCTTCGAGGGTATTCAATA
1 ATTTTACCCTTC-AGGGTTATTTCAGTAATTTTACCCTTCGAGGGTATTCAATA
29248848 ATTT
1 ATTT
29248852 AACAACTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 10 0.19
54 38 0.73
55 4 0.08
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (53 bp):
ATTTTACCCTTCAGGGTTATTTCAGTAATTTTACCCTTCGAGGGTATTCAATA
Found at i:29251058 original size:41 final size:41
Alignment explanation
Indices: 29250990--29251304 Score: 367
Period size: 41 Copynumber: 7.8 Consensus size: 41
29250980 TGAGTTTTCG
* * * *
29250990 GGGCATTAGTGGCGTTTTTTAAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
29251031 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
*
29251072 GGGCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTCTA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC-A
** * *
29251114 --TTTTTAGCGGCATTTTTAGAA-AAGCGCCACTAATGCTCA
1 GGGCTTTAGCGGCGTTTTT-GAAGAAGCGCCGCTAATGCTCA
* * * *
29251153 -GGTTTTAGCGGCATTTTTTAAGAAGCGCCGCTGATGCTC-
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* * *
29251192 GAGTCTTTAGCGGCGTTTCTGAAAAAGCGCCGCTAATGCTCA
1 G-GGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
*
29251234 GGGCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTCTA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC-A
* *
29251276 ---TTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGC
29251305 AAAAAATTCA
Statistics
Matches: 238, Mismatches: 28, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
39 29 0.12
40 60 0.25
41 146 0.61
42 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
Found at i:29251202 original size:162 final size:161
Alignment explanation
Indices: 29250995--29251302 Score: 485
Period size: 162 Copynumber: 1.9 Consensus size: 161
29250985 TTTCGGGGCA
* * * *
29250995 TTAGTGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAGAAGCGC
1 TTAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTCTGAAAAAGCGC
*
29251060 CGCTAATGCTCAGGGCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTCTATTTTTAGCGGC
66 CGCTAATGCTCAGGGCTTTAGCGACGTTTTTGAAGAAGCACCGCTAATGCTCTA-TTTTAGCGGC
29251125 ATTTTT-AGAAAAGCGCCACTAATGCTCAGGTT
130 ATTTTTGA-AAAAGCGCCACTAATGCTCAGGTT
* * *
29251157 TTAGCGGCATTTTTTAAGAAGCGCCGCTGATGCTC-GAGTCTTTAGCGGCGTTTCTGAAAAAGCG
1 TTAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAG-GGCTTTAGCGGCGTTTCTGAAAAAGCG
*
29251221 CCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAGAAGCACCGCTAATGCTCTATTTTAGCGGC
65 CCGCTAATGCTCAGGGCTTTAGCGACGTTTTTGAAGAAGCACCGCTAATGCTCTATTTTAGCGGC
*
29251286 GTTTTTGAAAAAGCGCC
130 ATTTTTGAAAAAGCGCC
29251303 GCAAAAAATT
Statistics
Matches: 134, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
161 25 0.19
162 109 0.81
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (161 bp):
TTAGCGGCATTTTTTAAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTCTGAAAAAGCGC
CGCTAATGCTCAGGGCTTTAGCGACGTTTTTGAAGAAGCACCGCTAATGCTCTATTTTAGCGGCA
TTTTTGAAAAAGCGCCACTAATGCTCAGGTT
Found at i:29251220 original size:121 final size:121
Alignment explanation
Indices: 29251005--29251304 Score: 378
Period size: 121 Copynumber: 2.5 Consensus size: 121
29250995 TTAGTGGCGT
*
29251005 TTTTTA-AAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
1 TTTTTAGAAAAGCGCCGCTAATGCTCA-GGTTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGC
* * **
29251069 TCAGGGCTTTAGCGACGTTTTTGAAGAAGCGCCGCTAATGCTCTA-TTTTTAGCGGCA
65 TCAGGGCTTTAGCGACGTTTCTGAAAAAGCGCCGCTAATGCTC-AGGCTTTAGCGGCA
* * * *
29251126 TTTTTAGAAAAGCGCCACTAATGCTCAGGTTTTAGCGGCATTTTTTAAGAAGCGCCGCTGATGCT
1 TTTTTAGAAAAGCGCCGCTAATGCTCAGGTTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCT
* * *
29251191 C-GAGTCTTTAGCGGCGTTTCTGAAAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCG
66 CAG-GGCTTTAGCGACGTTTCTGAAAAAGCGCCGCTAATGCTCA-GGCTTTAGCGGCA
* *
29251248 TTTTT-GAAGAAGCACCGCTAATGCTCTA--TTTTAGCGGCGTTTTTGAAAAAGCGCCGC
1 TTTTTAGAA-AAGCGCCGCTAATGCTC-AGGTTTTAGCGGCGTTTTTGAAGAAGCGCCGC
29251305 AAAAAATTCA
Statistics
Matches: 156, Mismatches: 17, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
120 2 0.01
121 105 0.67
122 48 0.31
123 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.30
Consensus pattern (121 bp):
TTTTTAGAAAAGCGCCGCTAATGCTCAGGTTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCT
CAGGGCTTTAGCGACGTTTCTGAAAAAGCGCCGCTAATGCTCAGGCTTTAGCGGCA
Found at i:29251720 original size:21 final size:21
Alignment explanation
Indices: 29251696--29251735 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
29251686 TATGAGTTAT
29251696 GGTTTACGGTTTAAAGGTTGG
1 GGTTTACGGTTTAAAGGTTGG
*
29251717 GGTTTACGGTTTAGAGGTT
1 GGTTTACGGTTTAAAGGTT
29251736 ATGTGTTAAG
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:0.17, C:0.05, G:0.38, T:0.40
Consensus pattern (21 bp):
GGTTTACGGTTTAAAGGTTGG
Found at i:29251750 original size:22 final size:23
Alignment explanation
Indices: 29251724--29251775 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
29251714 TGGGGTTTAC
*
29251724 GGTTTAGAGGTTAT-GTGTTAAG
1 GGTTTAGAGGTTATAGGGTTAAG
* *
29251746 GGTTTAG-GGTTTTAGGGTTTAG
1 GGTTTAGAGGTTATAGGGTTAAG
29251768 GGTTTAGA
1 GGTTTAGA
29251776 TTAACTAGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.42
Consensus pattern (23 bp):
GGTTTAGAGGTTATAGGGTTAAG
Found at i:29251761 original size:8 final size:7
Alignment explanation
Indices: 29251716--29251774 Score: 57
Period size: 7 Copynumber: 8.1 Consensus size: 7
29251706 TTAAAGGTTG
29251716 GGGTTTA
1 GGGTTTA
*
29251723 CGGTTTA
1 GGGTTTA
29251730 GAGG-TTA
1 G-GGTTTA
* *
29251737 TGTGTTAA
1 -GGGTTTA
29251745 GGGTTTA
1 GGGTTTA
29251752 GGGTTTTA
1 GGG-TTTA
29251760 GGGTTTA
1 GGGTTTA
29251767 GGGTTTA
1 GGGTTTA
29251774 G
1 G
29251775 ATTAACTAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
7 30 0.71
8 12 0.29
ACGTcount: A:0.17, C:0.02, G:0.39, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:29251764 original size:15 final size:15
Alignment explanation
Indices: 29251744--29251772 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29251734 TTATGTGTTA
29251744 AGGGTTTAGGGTTTT
1 AGGGTTTAGGGTTTT
29251759 AGGGTTTAGGGTTT
1 AGGGTTTAGGGTTT
29251773 AGATTAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.41, T:0.45
Consensus pattern (15 bp):
AGGGTTTAGGGTTTT
Found at i:29254317 original size:21 final size:21
Alignment explanation
Indices: 29254293--29254338 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
29254283 ATATATATAT
29254293 GTTTAGCTTAGTATTGATCTA
1 GTTTAGCTTAGTATTGATCTA
* *
29254314 GTTTAGCTTAGTATTGGTCTG
1 GTTTAGCTTAGTATTGATCTA
29254335 GTTT
1 GTTT
29254339 TTTTACATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.09, G:0.24, T:0.50
Consensus pattern (21 bp):
GTTTAGCTTAGTATTGATCTA
Found at i:29256283 original size:14 final size:14
Alignment explanation
Indices: 29256264--29256291 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
29256254 TCAGTACAAG
29256264 ATTTCCTTGATTAA
1 ATTTCCTTGATTAA
29256278 ATTTCCTTGATTAA
1 ATTTCCTTGATTAA
29256292 GTTAATGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.14, G:0.07, T:0.50
Consensus pattern (14 bp):
ATTTCCTTGATTAA
Found at i:29256355 original size:43 final size:43
Alignment explanation
Indices: 29256278--29256360 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
29256268 CCTTGATTAA
* ** *
29256278 ATTTCCTTGATTAAGTTAATGTATTATATCTTTTATTACCAAG
1 ATTTACTTGATTAAGAAAATGCATTATATCTTTTATTACCAAG
* *
29256321 ATTTACTTGATTAAGAAAATGCATTGTATTTTTTATTACC
1 ATTTACTTGATTAAGAAAATGCATTATATCTTTTATTACC
29256361 TTGCAATGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.48
Consensus pattern (43 bp):
ATTTACTTGATTAAGAAAATGCATTATATCTTTTATTACCAAG
Found at i:29256843 original size:43 final size:43
Alignment explanation
Indices: 29256764--29256969 Score: 223
Period size: 43 Copynumber: 4.7 Consensus size: 43
29256754 GTTTGTACTA
* * * ***
29256764 TAGCGGCGTTTGTGATAAAAAAAGTGCCGCTAAAGATCATGTTTTT
1 TAGCGGCGTTTGTG---ACAAAAGCGTCGCTAAAGATCATGACCTT
**
29256810 TAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGATCATGTTCTT
1 TAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGATCATGACCTT
* * *
29256853 TAGTGGCGTTTGTGACAAAAGCGTTGCTAAAGCTCATGACCTT
1 TAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGATCATGACCTT
* * * *
29256896 TAGCGGTGTTTGTGATAAAAGCGCCGCTAAAGACCATGACCTT
1 TAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGATCATGACCTT
* * *
29256939 TAGCGTCGTTTGTGATAAAAGTGTCGCTAAA
1 TAGCGGCGTTTGTGACAAAAGCGTCGCTAAA
29256970 TTTAGCGGCG
Statistics
Matches: 140, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
43 126 0.90
46 14 0.10
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (43 bp):
TAGCGGCGTTTGTGACAAAAGCGTCGCTAAAGATCATGACCTT
Found at i:29265517 original size:376 final size:376
Alignment explanation
Indices: 29264780--29265530 Score: 1263
Period size: 376 Copynumber: 2.0 Consensus size: 376
29264770 TTATCGGGAC
*
29264780 GTATGAGATTATTGAGAGAATAGGGCCAGTGGCATATCGTTTAGCTTTATTGTCAGAACTAGAAA
1 GTATGAGATTATTGAGAGAATAGGGCCAGTGGCATATCATTTAGCTTTATTGTCAGAACTAGAAA
* * * *
29264845 AGATCCATAATGTGTTTCATGTATCCATGTTGCGATGGTACCAATCAGACCCTTCGCACATAATT
66 AGATCCATAATGTGTTTCACGTATCCATGTTACAACGGTACCAATCAGACCCTTCGCACATAATT
* * *
29264910 TCTCTGGCAGAGGTTGAAATTCAACCTGACATGTCTTATAATGAAGAACCGATCAGAATTGTGGC
131 TCTCCGGCAGAGGTTGAAATTCAACCTGACATGTCTTATAATGAAGAACCAATCAGAATTGTGCC
*
29264975 CGAGAGATTAAAAAGCTAAGAAACAAGAGCATAGCATTAGTGAAGGTTCTTTGGAAACGTCACGA
196 CGAGAGATTAAAAAGCTAAGAAACAAGAGCATAGCATTAGTGAAGGTTCTTTGGAAACGTCAAGA
* *
29265040 AATTGAAGAGGCTATGTGGAAACTCGAAGAAGCTATGAGAAAATAGTACCTTAACCTATTCTCTG
261 AATTGAAGAGGCTATGTGGAAACCCGAAGAAGATATGAGAAAATAGTACCTTAACCTATTCTCTG
*
29265105 GTAATATTTTCAAGGATGAAAATTCCTAAGGGGGGAGAGTTGTAACAACCT
326 GTAAGATTTTCAAGGATGAAAATTCCTAAGGGGGGAGAGTTGTAACAACCT
*
29265156 GTATGAGATTATTGAGAGAATAGGGCCAGTGGCATATCATTTGGCTTTATTGTCAGAACTAGAAA
1 GTATGAGATTATTGAGAGAATAGGGCCAGTGGCATATCATTTAGCTTTATTGTCAGAACTAGAAA
29265221 AGATCCATAATGTGTTTCACGTATCCATGTTACAACGGTACCAATCAGACCCTTCGCACATAATT
66 AGATCCATAATGTGTTTCACGTATCCATGTTACAACGGTACCAATCAGACCCTTCGCACATAATT
* * *
29265286 TCTCCGGCAGAGGTTGAAATTCAACTTGATATGT-TGTATAATGAAGAACCAATCAGAATTATTG
131 TCTCCGGCAGAGGTTGAAATTCAACCTGACATGTCT-TATAATGAAGAACCAATCAGAATT-GTG
* * * *
29265350 CCCGAGAGGTTAAAGAGCTAAGAAACAAGAGCATAGCTTTAGTGAAGGTTCTTTGGCAACGTCAA
194 CCCGAGAGATTAAAAAGCTAAGAAACAAGAGCATAGCATTAGTGAAGGTTCTTTGGAAACGTCAA
* * *
29265415 GGAATTGAAGAGGCTATGTGGGAACCCGAAGAAGATATGAGAAAATAGTACCTTCACCTATTCTC
259 GAAATTGAAGAGGCTATGTGGAAACCCGAAGAAGATATGAGAAAATAGTACCTTAACCTATTCTC
29265480 TGGTAAGATTTTCAAGGATGAAAATTCCTAA-GGGGGAGAGTTGTAACAACC
324 TGGTAAGATTTTCAAGGATGAAAATTCCTAAGGGGGGAGAGTTGTAACAACC
29265531 CGTTTCCAGT
Statistics
Matches: 350, Mismatches: 23, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
375 1 0.00
376 198 0.57
377 151 0.43
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (376 bp):
GTATGAGATTATTGAGAGAATAGGGCCAGTGGCATATCATTTAGCTTTATTGTCAGAACTAGAAA
AGATCCATAATGTGTTTCACGTATCCATGTTACAACGGTACCAATCAGACCCTTCGCACATAATT
TCTCCGGCAGAGGTTGAAATTCAACCTGACATGTCTTATAATGAAGAACCAATCAGAATTGTGCC
CGAGAGATTAAAAAGCTAAGAAACAAGAGCATAGCATTAGTGAAGGTTCTTTGGAAACGTCAAGA
AATTGAAGAGGCTATGTGGAAACCCGAAGAAGATATGAGAAAATAGTACCTTAACCTATTCTCTG
GTAAGATTTTCAAGGATGAAAATTCCTAAGGGGGGAGAGTTGTAACAACCT
Found at i:29266349 original size:16 final size:16
Alignment explanation
Indices: 29266328--29266360 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
29266318 AGTGAGCATC
29266328 TATATGAGATATGAGA
1 TATATGAGATATGAGA
29266344 TATATGAGATATGAGA
1 TATATGAGATATGAGA
29266360 T
1 T
29266361 GGAGGTGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.33
Consensus pattern (16 bp):
TATATGAGATATGAGA
Found at i:29269011 original size:12 final size:12
Alignment explanation
Indices: 29268994--29269025 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
29268984 TGAATGTATG
29268994 GTTGTGTTAATT
1 GTTGTGTTAATT
29269006 GTTGTGTTAATT
1 GTTGTGTTAATT
*
29269018 GTTATGTT
1 GTTGTGTT
29269026 GAAGTTCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.25, T:0.59
Consensus pattern (12 bp):
GTTGTGTTAATT
Found at i:29275011 original size:147 final size:148
Alignment explanation
Indices: 29274729--29275112 Score: 544
Period size: 147 Copynumber: 2.6 Consensus size: 148
29274719 TTTTGATTTT
* *
29274729 TTTTTTTAAAAAAGAGAACGTTTAGATTTAAAAAAATAAAAATATGTTTTTTTAGTCATTTTAAA
1 TTTTTTT--AAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATATG-TTTTTTAGTCATTTTAAA
* * *
29274794 GGAAAG-TTAAAATTTTAAAACAAAGCTTTGATTTTCTTTTCAACTATTTCAAAATAAAAGTTTT
63 GGAAAGTTTAAAATTTTAAAACAAATCTTTAATTTTCTTTTCAACTATTTCAAAATAAAAGCTTT
29274858 GATCTTTAAGAAAAATAGTAC
128 GATCTTTAAGAAAAATAGTAC
*
29274879 TTTTTTTAAAAGAGAAAATTTAGATTTTAAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGA
1 TTTTTTTAAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGA
* * *
29274944 AAGTTTAAATTTTTAAAACAAATTTTTAATTTT-TTTTCAACTATTTCAAAATTAAAGCTTTGAT
66 AAGTTTAAAATTTTAAAACAAATCTTTAATTTTCTTTTCAACTATTTCAAAATAAAAGCTTTGAT
**
29275008 CTTTAAGAAAAATAGTGT
131 CTTTAAGAAAAATAGTAC
** * *
29275026 TTTTTTTAAAAGAG--AGTTTAGATTTT-TTAAATAAAAATATGTTTTTTATTGATTTTAAAGGA
1 TTTTTTTAAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGG-
* *
29275088 AAAGTTTAAAATTTAAAAAAAAATC
65 AAAGTTTAAAATTTTAAAACAAATC
29275113 ATATTTTTCA
Statistics
Matches: 212, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
144 31 0.15
145 32 0.15
147 83 0.39
148 59 0.28
150 7 0.03
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.42
Consensus pattern (148 bp):
TTTTTTTAAAAGAGAAAGTTTAGATTTTAAAAAATAAAAATATGTTTTTTAGTCATTTTAAAGGA
AAGTTTAAAATTTTAAAACAAATCTTTAATTTTCTTTTCAACTATTTCAAAATAAAAGCTTTGAT
CTTTAAGAAAAATAGTAC
Found at i:29275319 original size:2 final size:2
Alignment explanation
Indices: 29275312--29275345 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
29275302 AAAGAGAAAG
29275312 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29275346 TAAAATGAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29281700 original size:170 final size:170
Alignment explanation
Indices: 29281404--29281745 Score: 567
Period size: 170 Copynumber: 2.0 Consensus size: 170
29281394 GTAGGGTTAA
* * * * * *
29281404 CACCAGCAATCCGCTGAAATGCTCCTATCATAACATTCAACAGAGGGCCTACATCCTTATCAGGT
1 CACCAACAATCCACTGAAATGCTCCTATCATAACATCCAAAAGAGGGCCTACACCCTCATCAGGT
* * * *
29281469 ATGTTCACTCTACGCGGTGACATAGGAGGTGCAGAGGATGTACCATCCTCTTGAGCACTAGTTCT
66 ATGTTCACTCTACACGATGACACAGGAGATGCAGAGGATGTACCATCCTCTTGAGCACTAGTTCT
*
29281534 AACATTAGCACGTCTAGGAGGCATATCTAATTTAATCTAG
131 AACATTAACACGTCTAGGAGGCATATCTAATTTAATCTAG
* *
29281574 CACCAACAATCCATTGAAATGCTCCTATCATAGCATCCAAAAGAGGGCCTACACCCTCATCAGGT
1 CACCAACAATCCACTGAAATGCTCCTATCATAACATCCAAAAGAGGGCCTACACCCTCATCAGGT
29281639 ATGTTCACTCTACACGATGACACAGGAGATGCAGAGGATGTACCATCCTCTTGAGCACTAGTTCT
66 ATGTTCACTCTACACGATGACACAGGAGATGCAGAGGATGTACCATCCTCTTGAGCACTAGTTCT
29281704 AACATTAACACGTCTAGGAGGCATATCTAATTTAATCTAG
131 AACATTAACACGTCTAGGAGGCATATCTAATTTAATCTAG
29281744 CA
1 CA
29281746 TACAAACAAA
Statistics
Matches: 159, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
170 159 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (170 bp):
CACCAACAATCCACTGAAATGCTCCTATCATAACATCCAAAAGAGGGCCTACACCCTCATCAGGT
ATGTTCACTCTACACGATGACACAGGAGATGCAGAGGATGTACCATCCTCTTGAGCACTAGTTCT
AACATTAACACGTCTAGGAGGCATATCTAATTTAATCTAG
Found at i:29282812 original size:13 final size:13
Alignment explanation
Indices: 29282794--29282818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29282784 ATCACACATA
29282794 TATCGTATCACAG
1 TATCGTATCACAG
29282807 TATCGTATCACA
1 TATCGTATCACA
29282819 ATCATCAATC
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:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (13 bp):
TATCGTATCACAG
Found at i:29286688 original size:37 final size:37
Alignment explanation
Indices: 29286641--29286716 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
29286631 TATTTTGTGT
* *
29286641 AAAATTAACATTTATACCTAGAGTTATTTTGTAAAAA
1 AAAATGAACATTTATACCTAAAGTTATTTTGTAAAAA
29286678 AAAATGAACATTTATACCTAAAGTTATTTTGTAAAAA
1 AAAATGAACATTTATACCTAAAGTTATTTTGTAAAAA
29286715 AA
1 AA
29286717 TTAACATGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.36
Consensus pattern (37 bp):
AAAATGAACATTTATACCTAAAGTTATTTTGTAAAAA
Found at i:29287215 original size:33 final size:33
Alignment explanation
Indices: 29287167--29287229 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
29287157 TACTTTCAAA
*
29287167 ATTAAACTTATTTAAAACTCATTTTAAAAAATTG
1 ATTAAACTTATTTAAAAC-CATGTTAAAAAATTG
*
29287201 ATTAAA-TTTTTTAAAACCATGTTAAAAAA
1 ATTAAACTTATTTAAAACCATGTTAAAAAA
29287230 CATGATTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 11 0.41
33 10 0.37
34 6 0.22
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.40
Consensus pattern (33 bp):
ATTAAACTTATTTAAAACCATGTTAAAAAATTG
Found at i:29287236 original size:33 final size:34
Alignment explanation
Indices: 29287167--29287236 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 34
29287157 TACTTTCAAA
* *
29287167 ATTAAACTTATTTAAAACTCATTTTAAAAAATTG
1 ATTAAACTTATTTAAAACTCATGTTAAAAAAATG
*
29287201 ATTAAA-TTTTTTAAAAC-CATGTTAAAAAACATG
1 ATTAAACTTATTTAAAACTCATGTTAAAAAA-ATG
29287234 ATT
1 ATT
29287237 GATCTACCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 11 0.34
33 15 0.47
34 6 0.19
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (34 bp):
ATTAAACTTATTTAAAACTCATGTTAAAAAAATG
Found at i:29298575 original size:19 final size:19
Alignment explanation
Indices: 29298539--29298578 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
29298529 GTGTTCTCGT
**
29298539 CCTCTTGGGCCGTTATGGG
1 CCTCTTGGGCCGAAATGGG
*
29298558 CCTCTTGGGCTGAAATGGG
1 CCTCTTGGGCCGAAATGGG
29298577 CC
1 CC
29298579 GTGTGGGCCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.10, C:0.28, G:0.35, T:0.28
Consensus pattern (19 bp):
CCTCTTGGGCCGAAATGGG
Found at i:29298942 original size:25 final size:25
Alignment explanation
Indices: 29298910--29299010 Score: 159
Period size: 25 Copynumber: 4.1 Consensus size: 25
29298900 TTTGCCCCTC
*
29298910 GAGGTTAAATGATTGATTTGTTTGT
1 GAGGTTAAATGATTGATTTGTCTGT
29298935 GAGGTTAAATGATTGATTTGTCTGT
1 GAGGTTAAATGATTGATTTGTCTGT
*
29298960 GAGGTTAAATGATTGACTTGTCTGT
1 GAGGTTAAATGATTGATTTGTCTGT
* *
29298985 GATG-TAAATGACTGATTTGTCTGT
1 GAGGTTAAATGATTGATTTGTCTGT
29299009 GA
1 GA
29299011 TTTGTATGAC
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
24 20 0.28
25 51 0.72
ACGTcount: A:0.25, C:0.05, G:0.28, T:0.43
Consensus pattern (25 bp):
GAGGTTAAATGATTGATTTGTCTGT
Found at i:29299179 original size:26 final size:26
Alignment explanation
Indices: 29299141--29299194 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
29299131 TTGGCCACAT
29299141 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
*
29299167 ATACTGTTGCTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
29299193 AT
1 AT
29299195 GCTACTGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.15, C:0.22, G:0.28, T:0.35
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:29299206 original size:26 final size:26
Alignment explanation
Indices: 29299151--29299206 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
29299141 ATACTGTTAC
** *
29299151 TGGCAGCTTTGCTGCGATACTGTTGC
1 TGGCAGCTTTGCTGCGATACTACTGA
*
29299177 TGGCAGCTTTGCTGCGATGCTACTGA
1 TGGCAGCTTTGCTGCGATACTACTGA
29299203 TGGC
1 TGGC
29299207 TTCGTACCGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.12, C:0.23, G:0.32, T:0.32
Consensus pattern (26 bp):
TGGCAGCTTTGCTGCGATACTACTGA
Found at i:29299346 original size:62 final size:63
Alignment explanation
Indices: 29299275--29299409 Score: 182
Period size: 64 Copynumber: 2.1 Consensus size: 63
29299265 GATAGCTGTA
* * *
29299275 TGCCAATCATATCGCCATTACTGATGG-GTGTGTCGATCATATGACTGCCACTGATGGCTTTG
1 TGCCAATCATATCACCATTACTGATGGTGTGTGCCGATCATATCACTGCCACTGATGGCTTTG
* * * * *
29299337 TGCCGATCATGTTACCGTTACTGATGGTTGTGTGCCGATCATATCACTGCTACTGATGGCTTTG
1 TGCCAATCATATCACCATTACTGATGG-TGTGTGCCGATCATATCACTGCCACTGATGGCTTTG
29299401 TGCCAATCA
1 TGCCAATCA
29299410 CATTATTGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
62 22 0.35
64 40 0.65
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (63 bp):
TGCCAATCATATCACCATTACTGATGGTGTGTGCCGATCATATCACTGCCACTGATGGCTTTG
Found at i:29299360 original size:32 final size:32
Alignment explanation
Indices: 29299195--29299409 Score: 141
Period size: 32 Copynumber: 6.8 Consensus size: 32
29299185 TTGCTGCGAT
* * *
29299195 GCTACTGATGGCTTCGTACCGATCATAGT-ACT
1 GCTACTGATGGCTTTGTGCCGATCATA-TCACC
* * * * *
29299227 ACTATTGATGGCTTTGTACCGATCATATTACT
1 GCTACTGATGGCTTTGTGCCGATCATATCACC
* * * * * * *
29299259 GTTACCGATAGCTGTATGCCAATCATATCGCC
1 GCTACTGATGGCTTTGTGCCGATCATATCACC
** * * * *
29299291 ATTACTGATGG--GTGTGTCGATCATATGACT
1 GCTACTGATGGCTTTGTGCCGATCATATCACC
* * *
29299321 GCCACTGATGGCTTTGTGCCGATCATGTTACC
1 GCTACTGATGGCTTTGTGCCGATCATATCACC
* *
29299353 GTTACTGATGG-TTGTGTGCCGATCATATCACT
1 GCTACTGATGGCTT-TGTGCCGATCATATCACC
*
29299385 GCTACTGATGGCTTTGTGCCAATCA
1 GCTACTGATGGCTTTGTGCCGATCA
29299410 CATTATTGAA
Statistics
Matches: 139, Mismatches: 39, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
30 21 0.15
31 3 0.02
32 113 0.81
33 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (32 bp):
GCTACTGATGGCTTTGTGCCGATCATATCACC
Found at i:29299456 original size:22 final size:22
Alignment explanation
Indices: 29299431--29299485 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
29299421 TCATGACTTG
*
29299431 TAGCCATTCTGTTTATAGCT-T
1 TAGCCATTCTGTTTACAGCTCT
* * *
29299452 ATAGCTATACTGTTTACGGCTCT
1 -TAGCCATTCTGTTTACAGCTCT
29299475 TAGCCATTCTG
1 TAGCCATTCTG
29299486 ACAACTAGCA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (22 bp):
TAGCCATTCTGTTTACAGCTCT
Found at i:29301050 original size:15 final size:14
Alignment explanation
Indices: 29301027--29301078 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
29301017 TAATTTAGCC
*
29301027 ATTTATTTTTTCTA
1 ATTTTTTTTTTCTA
29301041 CATTTTTTTTAGTT-TA
1 -ATTTTTTTT--TTCTA
*
29301057 ATTTTTGTTTTCTA
1 ATTTTTTTTTTCTA
29301071 ATTTTTTT
1 ATTTTTTT
29301079 ATTTGTTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 2 0.06
14 9 0.29
15 16 0.52
16 2 0.06
17 2 0.06
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.73
Consensus pattern (14 bp):
ATTTTTTTTTTCTA
Found at i:29303496 original size:8 final size:8
Alignment explanation
Indices: 29303483--29303507 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
29303473 ATTCTTATAG
29303483 AATAAAAT
1 AATAAAAT
29303491 AATAAAAT
1 AATAAAAT
29303499 AATAAAAT
1 AATAAAAT
29303507 A
1 A
29303508 CACTCATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:29314520 original size:51 final size:50
Alignment explanation
Indices: 29314400--29314634 Score: 197
Period size: 51 Copynumber: 4.7 Consensus size: 50
29314390 AAAGTGATGG
* * * * * * *
29314400 TCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACC-GAAATGAAAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATAT-TACGA
* * * *
29314450 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTT-CGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATA--TTACGA
* * * *
29314501 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATATTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATATT-ACGA
* * * * *
29314552 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGAACCAAAAAATT-TGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACC-AGATATTACGA
* * *
29314602 TCACATGTCTAGTACTATGTGAAGGCTACTACG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACG
29314635 TGTATCGAAT
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
49 2 0.01
50 67 0.43
51 80 0.52
52 5 0.03
53 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAGATATTACGA
Found at i:29314668 original size:101 final size:102
Alignment explanation
Indices: 29314400--29314675 Score: 310
Period size: 101 Copynumber: 2.7 Consensus size: 102
29314390 AAAGTGATGG
* * *
29314400 TCACATGTGTAGTACTATGTGTAGGCTACTACGTGTACCGAAATGA-AA-GGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCG-AATGATAATGGTCACATGTGTAGT
* * * * **
29314463 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
65 ACTATGTGCAGGCTACTACGCGAACCGAAAAAATTCGA
* * *
29314501 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATC-AGAT-ATTAATGGTCACGTGTGTAG
1 TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA-ATGA-TAATGGTCACATGTGTAG
* *
29314564 TACTATGTGCAGGCTACTACGTGAACC-AAAAAATTTGA
64 TACTATGTGCAGGCTACTACGCGAACCGAAAAAATTCGA
* * * * * *
29314602 TCACATGTCTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATAGTTAAATGAGTGGTA
1 TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATGGTCACATGTGTAGTA
29314667 CTATGTGCA
66 CTATGTGCA
29314676 AACCACCGAA
Statistics
Matches: 147, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
99 2 0.01
100 2 0.01
101 105 0.71
102 38 0.26
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTACGCGAACCGAAAAAATTCGA
Found at i:29316833 original size:21 final size:20
Alignment explanation
Indices: 29316803--29316852 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
29316793 TTTAATTAGT
*
29316803 TTTTATTTATATATATATTTG
1 TTTT-TTTATATATATATTTA
* *
29316824 TTGTTTTTATTTATTTATTTA
1 TT-TTTTTATATATATATTTA
29316845 TTTTTTTA
1 TTTTTTTA
29316853 AAACAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 6 0.24
21 17 0.68
22 2 0.08
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (20 bp):
TTTTTTTATATATATATTTA
Found at i:29316913 original size:19 final size:16
Alignment explanation
Indices: 29316877--29316917 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 16
29316867 ATATGTACGT
29316877 ATATTTAATTTTTTTA
1 ATATTTAATTTTTTTA
29316893 ATATTGTAATTATTATTTA
1 ATATT-TAATT-TT-TTTA
29316912 ATATTT
1 ATATTT
29316918 TATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.23
17 5 0.23
18 3 0.14
19 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
ATATTTAATTTTTTTA
Found at i:29316918 original size:28 final size:25
Alignment explanation
Indices: 29316858--29316924 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 25
29316848 TTTTAAAACA
*
29316858 AATATTTTTATATGTACGTATATTT
1 AATATTTTTATATGTAAGTATATTT
* *
29316883 AATTTTTTTAATATTGTAATTATTATTT
1 AATATTTTT-ATA-TGTAAGTA-TATTT
29316911 AATATTTTATATAT
1 AATATTTT-TATAT
29316925 ATATATACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 8 0.24
26 3 0.09
27 7 0.21
28 15 0.44
29 1 0.03
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (25 bp):
AATATTTTTATATGTAAGTATATTT
Found at i:29319591 original size:42 final size:42
Alignment explanation
Indices: 29319511--29319592 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
29319501 CGTTTTCTCT
* **
29319511 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
29319553 ATGCCATAGCCCAACTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
29319593 CACACCGATG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 34 0.94
43 2 0.06
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:29322157 original size:23 final size:22
Alignment explanation
Indices: 29322114--29322157 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
29322104 TTCTAAGCCG
29322114 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
29322137 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
29322158 TTAGTCAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:29324926 original size:8 final size:8
Alignment explanation
Indices: 29324905--29324934 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
29324895 GCAAGCCCTA
29324905 TATTTCATT
1 TATTTCA-T
29324914 TATTTCAT
1 TATTTCAT
29324922 TATTTCAT
1 TATTTCAT
29324930 TATTT
1 TATTT
29324935 AAAATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 14 0.67
9 7 0.33
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (8 bp):
TATTTCAT
Found at i:29331845 original size:18 final size:18
Alignment explanation
Indices: 29331818--29331858 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
29331808 ACTCATGTGG
29331818 AAGG-TGCAACCCGAATC
1 AAGGATGCAACCCGAATC
29331835 AAGGATGCAACCCGAATC
1 AAGGATGCAACCCGAATC
29331853 AAGGAT
1 AAGGAT
29331859 CCACTCCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.12
Consensus pattern (18 bp):
AAGGATGCAACCCGAATC
Found at i:29335305 original size:25 final size:25
Alignment explanation
Indices: 29335276--29335340 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
29335266 TACTCCAAAA
29335276 CTCATGAGAGCATACTGATTTATAG
1 CTCATGAGAGCATACTGATTTATAG
*
29335301 CTCATAAGAGCATACTGATTTATAG
1 CTCATGAGAGCATACTGATTTATAG
* *
29335326 CCCGTGAGAGCATAC
1 CTCATGAGAGCATAC
29335341 CAATCTACAG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (25 bp):
CTCATGAGAGCATACTGATTTATAG
Found at i:29335361 original size:25 final size:25
Alignment explanation
Indices: 29335333--29335389 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
29335323 TAGCCCGTGA
29335333 GAGCATACCAATCTACAGCTCG-AGT
1 GAGCATACCAATCTACAGCTCGTA-T
* *
29335358 GAGCATACCGATTTACAGCTCGTAT
1 GAGCATACCAATCTACAGCTCGTAT
29335383 GAGCATA
1 GAGCATA
29335390 TATGTACATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (25 bp):
GAGCATACCAATCTACAGCTCGTAT
Found at i:29345705 original size:20 final size:19
Alignment explanation
Indices: 29345676--29345719 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
29345666 TTTGTAACCT
*
29345676 TTTTGCTTCTGTCTTTTTTC
1 TTTTGATTCT-TCTTTTTTC
* *
29345696 TTTTGATTCTTTTTTTTTT
1 TTTTGATTCTTCTTTTTTC
29345715 TTTTG
1 TTTTG
29345720 CAATGGCAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.02, C:0.11, G:0.09, T:0.77
Consensus pattern (19 bp):
TTTTGATTCTTCTTTTTTC
Found at i:29353609 original size:85 final size:85
Alignment explanation
Indices: 29353466--29353636 Score: 279
Period size: 85 Copynumber: 2.0 Consensus size: 85
29353456 AAGAAAAAAT
* * **
29353466 TGAGATTAAGATCATTGAAAATACAAATGACAGGCTCATCCCGTTTCCAAAATGATGCACAGGAA
1 TGAGATTAAGATCATTGAAAATACAAATGACAGGCTCATCCCATTTCCAAAACGATGCACAACAA
29353531 TTTATAAGAAAATCTCTATG
66 TTTATAAGAAAATCTCTATG
* *
29353551 TGAGATTAAGATCATTGAAAATACAGATGACAGGCTCATCCCATTTTCAAAACGATGCACAACAA
1 TGAGATTAAGATCATTGAAAATACAAATGACAGGCTCATCCCATTTCCAAAACGATGCACAACAA
*
29353616 TTTATACGAAAATCTCTATG
66 TTTATAAGAAAATCTCTATG
29353636 T
1 T
29353637 TCTCCACTCT
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (85 bp):
TGAGATTAAGATCATTGAAAATACAAATGACAGGCTCATCCCATTTCCAAAACGATGCACAACAA
TTTATAAGAAAATCTCTATG
Found at i:29363319 original size:25 final size:25
Alignment explanation
Indices: 29363292--29363354 Score: 110
Period size: 25 Copynumber: 2.6 Consensus size: 25
29363282 CAATGGTAGT
*
29363292 TTTTCAC-TTCATGCCTGGATACAC
1 TTTTCACTTTCATGCCTGGACACAC
29363316 TTTTCACTTTCATGCCTGGACACAC
1 TTTTCACTTTCATGCCTGGACACAC
29363341 TTTTCACTTTCATG
1 TTTTCACTTTCATG
29363355 ATCCCGTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
24 7 0.19
25 30 0.81
ACGTcount: A:0.19, C:0.29, G:0.11, T:0.41
Consensus pattern (25 bp):
TTTTCACTTTCATGCCTGGACACAC
Found at i:29380260 original size:6 final size:7
Alignment explanation
Indices: 29380243--29380267 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
29380233 CTTTGTAACT
29380243 TTTTTTC
1 TTTTTTC
29380250 TTTTTTC
1 TTTTTTC
29380257 TTTTTTC
1 TTTTTTC
29380264 TTTT
1 TTTT
29380268 GATCTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:29380275 original size:14 final size:14
Alignment explanation
Indices: 29380243--29380276 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
29380233 CTTTGTAACT
*
29380243 TTTTTTCTTTTTTC
1 TTTTTTCTTTTATC
29380257 TTTTTTCTTTTGATC
1 TTTTTTCTTTT-ATC
29380272 TTTTT
1 TTTTT
29380277 ACAATGGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (14 bp):
TTTTTTCTTTTATC
Found at i:29382898 original size:27 final size:27
Alignment explanation
Indices: 29382859--29383483 Score: 658
Period size: 27 Copynumber: 23.3 Consensus size: 27
29382849 ATTCGTGGGC
* *
29382859 AAATGACCGAAATATCATCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
29382886 AAATGACCAAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29382913 AAACGACCAAAATACCC-CTGAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
*
29382940 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29382967 AAATG-CTCGAAATATCCTCGAAAGGTA
1 AAATGAC-CGAAATACCCTCGAAGGGTA
* *
29382994 AAATGACCAAAATACCCTCGAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
29383021 AAATAACTGAAATGCCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
29383048 AAATGACCAAAATACCC-CGGAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
*
29383075 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29383102 AAATGATCGAAATATCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
** * *
29383129 AAATGATTGCAATACCC-CTAAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* *
29383156 AAATGACCGAAATA-CCTCTAAAAGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* * * *
29383183 AAATGACCAAAATACCTTCAAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29383210 AAATGACTGAAATACCCTTGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29383237 AAATGGCCG-AATACCC-CTAAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
*
29383263 AAATGACCAAAATACCCTCGAAGGGT-
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
29383289 AAATGACCAAAATACCCTCTAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29383316 AAATGATCGAAATACCCTCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* **
29383343 AAATGACCGAAATACCCTCAAAAAGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
29383370 AAATGACCGAAATA-CCTCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
29383396 AAATGACTGAAATACACTCGAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
29383423 AATTGATCGAAATA-CCTCCGATGGGTA
1 AAATGACCGAAATACCCT-CGAAGGGTA
* * * *
29383450 AATTGACCGAAATACCCCCGAAAGGTG
1 AAATGACCGAAATACCCTCGAAGGGTA
29383477 AAATGAC
1 AAATGAC
29383484 TGTTATGCCC
Statistics
Matches: 508, Mismatches: 74, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
26 75 0.15
27 424 0.83
28 9 0.02
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:29391053 original size:53 final size:53
Alignment explanation
Indices: 29390839--29391049 Score: 305
Period size: 53 Copynumber: 3.9 Consensus size: 53
29390829 AAATGATAGG
* * *
29390839 AATACCCTCGTAGGGTAAAATGACCGAAATACCCTCGAAGGTTAAAATGACCAA
1 AATA-CCTCGAAGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCAA
* * * *
29390893 AATACCCCTGAAGGGTAAAATGACCGAAGTACCCTCGAAGGGTAAAATGACCGA
1 AATACCTC-GAAGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCAA
** *
29390947 AATACCTCGAAGGGTAAAATGATTGAAATACCCTCAAAGGGTAAAATGACTAA
1 AATACCTCGAAGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCAA
*
29391000 AATACCTCGAAGGGTAAAATGACAGAAATACCCTCAAAGGGTAAAATGAC
1 AATACCTCGAAGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGAC
29391050 TAAATGGTGA
Statistics
Matches: 142, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
53 90 0.63
54 52 0.37
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (53 bp):
AATACCTCGAAGGGTAAAATGACCGAAATACCCTCAAAGGGTAAAATGACCAA
Found at i:29391054 original size:26 final size:27
Alignment explanation
Indices: 29390839--29391049 Score: 293
Period size: 27 Copynumber: 7.9 Consensus size: 27
29390829 AAATGATAGG
*
29390839 AATACCCTCGTAGGGTAAAATGACCGA
1 AATACCCTCGAAGGGTAAAATGACCGA
* *
29390866 AATACCCTCGAAGGTTAAAATGACCAA
1 AATACCCTCGAAGGGTAAAATGACCGA
29390893 AATACCC-CTGAAGGGTAAAATGACCGA
1 AATACCCTC-GAAGGGTAAAATGACCGA
*
29390920 AGTACCCTCGAAGGGTAAAATGACCGA
1 AATACCCTCGAAGGGTAAAATGACCGA
**
29390947 AATA-CCTCGAAGGGTAAAATGATTGA
1 AATACCCTCGAAGGGTAAAATGACCGA
* **
29390973 AATACCCTCAAAGGGTAAAATGACTAA
1 AATACCCTCGAAGGGTAAAATGACCGA
*
29391000 AATA-CCTCGAAGGGTAAAATGACAGA
1 AATACCCTCGAAGGGTAAAATGACCGA
*
29391026 AATACCCTCAAAGGGTAAAATGAC
1 AATACCCTCGAAGGGTAAAATGAC
29391050 TAAATGGTGA
Statistics
Matches: 164, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
26 48 0.29
27 115 0.70
28 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (27 bp):
AATACCCTCGAAGGGTAAAATGACCGA
Found at i:29400080 original size:25 final size:25
Alignment explanation
Indices: 29400052--29400109 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
29400042 CCGCTCGTGA
29400052 GAGCATACCGA-TCTACAGCTCAAAT
1 GAGCATACCGATTC-ACAGCTCAAAT
* *
29400077 GAGCATATCGATTCACAGCTCATAT
1 GAGCATACCGATTCACAGCTCAAAT
29400102 GAGCATAC
1 GAGCATAC
29400110 TTGTACATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.22
Consensus pattern (25 bp):
GAGCATACCGATTCACAGCTCAAAT
Found at i:29407806 original size:484 final size:483
Alignment explanation
Indices: 29406892--29407860 Score: 1564
Period size: 484 Copynumber: 2.0 Consensus size: 483
29406882 ATTGATCAGC
*
29406892 TTAACCTGAGGGAGCTCTACGAACAAGACGAACGCTTCGCAGAGTTTAACAACTTCATCTCTATC
1 TTAACCTGAGGGAGCTCTACAAACAAGACGAACGCTTCGCAGAGTTTAACAACTTCATCTCTATC
* * *
29406957 ACGAGGGACAAGAAGATTGCAGCTATTTCCTCAATGGAGGCTCCGATGGATGAGGATGTCCCTTC
66 ACGAGGGACAAGAAGATTGCACCTATTTCCTCAATGCAGGCTACGATGGATGAGGATGTCCCTTC
* * * * * *
29407022 TTCCTTTCCCCTAGATATGGCCCTAATCTGTAATAGTTTTGTACTTCATTGTCCACGATGTTAAA
131 TGCCCTTCCCCTAAATATGGCCCTAATCTGCAATAGTTGTGTACTTCAATGTCCACGATGTTAAA
*
29407087 TGTTATTTTATTGTTTTATCTTTTATGTTTGTTAGGCATGCCAGTATTGGGAGTCCTCAAGGCAT
196 TGTTATTTTATTGTTTTATCTTTTATGTTTGTTAGGCATGCCAGTATTGGGAGTCCTCAACGCAT
* * *
29407152 ACATAGACGTGTTCAAGTAGCCGGACAACATATGGTCTATGGTCTCTATTGTACCATTCTCGAGC
261 ACACAGACGTGTTCAAGTAGCCGGACAACATATAGTCTATGATCTCTATTGTACCATTCTCGAGC
* *
29407217 CTTAACTATTTAGGGTTTAGGGCCATTTCTGTTCAAATTATCATGGTATGTTCTATTTTCTTTTA
326 CTTAACTATTTAGGGTTTAGGGCCATCTCTGTTCAAATTATCATGGTATCTTCTATTTTCTTTTA
**
29407282 GTAAACCGGTGATAAATAAAATTGTTGCATCCTCTTTTTCTAACATCTGAGATCAAGGCTGTGAA
391 GTAAACCGGTGATAAATAAAATTGTTGCATCCTCTTTTTCTAACATCTGAGATCAAGGCTACGAA
29407347 ATTCCTTATATTTATAACCCGATCAAGT
456 ATTCCTTATATTTATAACCCGATCAAGT
* * * *
29407375 TTAACCTGAGGGAGCTCTACAAATAAGACGAACGCTTTGCAGCGTTTAACAACTTGATCTCTATC
1 TTAACCTGAGGGAGCTCTACAAACAAGACGAACGCTTCGCAGAGTTTAACAACTTCATCTCTATC
29407440 ACGAGGGACAAGAAGATTGCACCTATTTCCTCAATGCAGGCTACGATGGATGAGGATGTCCCTTC
66 ACGAGGGACAAGAAGATTGCACCTATTTCCTCAATGCAGGCTACGATGGATGAGGATGTCCCTTC
* **
29407505 TGCCCTTCACCCTAAATATGGCCCTAATCTGCAATAGTTGTGTACTTTAATGTCCGTGATGTTAA
131 TGCCCTTC-CCCTAAATATGGCCCTAATCTGCAATAGTTGTGTACTTCAATGTCCACGATGTTAA
*
29407570 ATGTTATTTTATTGTTTTATCTTTTATGTTTGTTAGTCGA-GCCAGTATTGGGAGTCCTCAACGC
195 ATGTTATTTTATTGTTTTATCTTTTATGTTTGTTAGGC-ATGCCAGTATTGGGAGTCCTCAACGC
* * *
29407634 ATACACGGACGTGTTCATGTAGCC-GACCAACATATAGTCTATGATCTGTATTGTACCATTCTCG
259 ATACACAGACGTGTTCAAGTAGCCGGA-CAACATATAGTCTATGATCTCTATTGTACCATTCTCG
* * *
29407698 AGCCTTGACTATTTAGGGTTTAGGGCTATCTCTGTTCAAATTATCATGGTGTCTTCTATTTTCTT
323 AGCCTTAACTATTTAGGGTTTAGGGCCATCTCTGTTCAAATTATCATGGTATCTTCTATTTTCTT
* * * *
29407763 TTAGTAAACTGGTGATTAATAAAATTGTTGCATCCTGTTTTTCTAACCTCTGAGATCAAGGCTAC
388 TTAGTAAACCGGTGATAAATAAAATTGTTGCATCCTCTTTTTCTAACATCTGAGATCAAGGCTAC
*
29407828 GAATTTCCTTATATTTATAACCCGATCAAGT
453 GAAATTCCTTATATTTATAACCCGATCAAGT
29407859 TT
1 TT
29407861 CAATTTATGC
Statistics
Matches: 446, Mismatches: 37, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
483 130 0.29
484 315 0.71
485 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (483 bp):
TTAACCTGAGGGAGCTCTACAAACAAGACGAACGCTTCGCAGAGTTTAACAACTTCATCTCTATC
ACGAGGGACAAGAAGATTGCACCTATTTCCTCAATGCAGGCTACGATGGATGAGGATGTCCCTTC
TGCCCTTCCCCTAAATATGGCCCTAATCTGCAATAGTTGTGTACTTCAATGTCCACGATGTTAAA
TGTTATTTTATTGTTTTATCTTTTATGTTTGTTAGGCATGCCAGTATTGGGAGTCCTCAACGCAT
ACACAGACGTGTTCAAGTAGCCGGACAACATATAGTCTATGATCTCTATTGTACCATTCTCGAGC
CTTAACTATTTAGGGTTTAGGGCCATCTCTGTTCAAATTATCATGGTATCTTCTATTTTCTTTTA
GTAAACCGGTGATAAATAAAATTGTTGCATCCTCTTTTTCTAACATCTGAGATCAAGGCTACGAA
ATTCCTTATATTTATAACCCGATCAAGT
Found at i:29409770 original size:50 final size:50
Alignment explanation
Indices: 29409667--29409786 Score: 132
Period size: 50 Copynumber: 2.4 Consensus size: 50
29409657 TCCAGGCCTT
* * * *
29409667 AACGCCATGGAGATAAGATTCGCCGTCGTGGCTTCAATCTACTCCGCTAC
1 AACGCCAAGGAAATAAGATTCGCCGTCGTGACTTCAATCTACTCCACTAC
* * ** * *
29409717 AACGCCAGGGAAATAAGATTCGCCGTTGTGACTTCAATCTTTTCCATTGC
1 AACGCCAAGGAAATAAGATTCGCCGTCGTGACTTCAATCTACTCCACTAC
* *
29409767 AACGTCAAGGCAATAAGATT
1 AACGCCAAGGAAATAAGATT
29409787 GATGTCTTTG
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (50 bp):
AACGCCAAGGAAATAAGATTCGCCGTCGTGACTTCAATCTACTCCACTAC
Found at i:29421762 original size:15 final size:15
Alignment explanation
Indices: 29421744--29421777 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
29421734 ATAAATGTCG
29421744 CAATAACAAATACAA
1 CAATAACAAATACAA
*
29421759 CAATAATAAATACAA
1 CAATAACAAATACAA
29421774 CAAT
1 CAAT
29421778 GGCATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (15 bp):
CAATAACAAATACAA
Found at i:29423203 original size:4 final size:4
Alignment explanation
Indices: 29423194--29423225 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
29423184 TTTATTTCAG
*
29423194 TAAA TAAA TAAA TATA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
29423226 ATATATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:29433348 original size:27 final size:27
Alignment explanation
Indices: 29433309--29433664 Score: 461
Period size: 27 Copynumber: 13.3 Consensus size: 27
29433299 ATTCGTGGGC
* *
29433309 AAATGATCGAAATACCCTCGAACGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29433336 AAATGACCAAAATACTCC-CAAAGGGTA
1 AAATGACCGAAATAC-CCTCGAAGGGTA
29433363 AAATGA-CGTAAATACCCTCGAAGGGTA
1 AAATGACCG-AAATACCCTCGAAGGGTA
* * *
29433390 AAATGAACGAAATACCCTCAAAGCGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29433417 AAATGACCAAAATA-CCTCCCAAGGGTA
1 AAATGACCGAAATACCCT-CGAAGGGTA
* * *
29433444 AAATAACTGAAATACCCTCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
29433471 AAATGACCAAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
29433498 AAATGACCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
29433525 AAATGACCGAAGTACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
29433552 AAATGATCGAAATA-CCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29433578 AAATGACCAAAATACACTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
29433605 AAATGACTGAAATA-CCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
29433631 AAATGATCAAAATACCCCCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
29433658 AAATGAC
1 AAATGAC
29433665 TAAATGGTGA
Statistics
Matches: 286, Mismatches: 35, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
26 52 0.18
27 227 0.79
28 7 0.02
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:29443770 original size:15 final size:15
Alignment explanation
Indices: 29443750--29443783 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
29443740 CCGGGGACAT
*
29443750 CACCGATATCAATAG
1 CACCGATACCAATAG
29443765 CACCGATACCAATAG
1 CACCGATACCAATAG
29443780 CACC
1 CACC
29443784 TTACAGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.38, C:0.35, G:0.12, T:0.15
Consensus pattern (15 bp):
CACCGATACCAATAG
Found at i:29447823 original size:25 final size:25
Alignment explanation
Indices: 29447795--29447852 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 25
29447785 TTGCTCGTGA
29447795 GAGCATACCGA-TCTACAGCTCAAAT
1 GAGCATACCGATTC-ACAGCTCAAAT
* *
29447820 GAGCATATCGATTCACAGCTCATAT
1 GAGCATACCGATTCACAGCTCAAAT
29447845 GAGCATAC
1 GAGCATAC
29447853 TTGTACATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 27 0.93
26 2 0.07
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.22
Consensus pattern (25 bp):
GAGCATACCGATTCACAGCTCAAAT
Found at i:29469234 original size:27 final size:27
Alignment explanation
Indices: 29469196--29469751 Score: 555
Period size: 27 Copynumber: 20.6 Consensus size: 27
29469186 ATTCATGGGC
*
29469196 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
29469223 AAATGACCGAAATACCCTCTAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * * *
29469250 AAATGACCAAAATACCCCCAAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
29469277 AAATAACCGAAATACCCTCGTACGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * **
29469304 AAATGACCAAAATACCCCCGATTGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
29469331 AAATAACTGAAATACCCCCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * * * *
29469358 AAATAATCTAAACACCCTCGATGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29469385 AAATGATCGAAATACCCTCGAAAGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29469412 AAATGACCGAAATACCC-CTAAAGGGTT
1 AAATGACCGAAATACCCTC-GAAGGGTA
* * *
29469439 AAATGACAGAAATACCC-CTAAAAGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
* *
29469466 AAATGACTGAAATACCCTCGATGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
29469493 AAATGACCAAAATATCCCT-AAAAGGTA
1 AAATGACCGAAATA-CCCTCGAAGGGTA
* * *
29469520 AAATGATCGAAATACCCCCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * **
29469547 AAATGACTGATATACCCTTAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
29469574 AAATGACCAAAATACCCTC-ATGGGGTA
1 AAATGACCGAAATACCCTCGA-AGGGTA
*
29469601 AAATGATCGAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * **
29469628 AAATTACCGAAATACCCTCAAAAAGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
29469655 AAATGATCGAAATACCC-CGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
29469681 AAATGACCGAAATACCCTCGATGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * * *
29469708 AAATGATCGAAATGCCCTCTATGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
29469735 AATTGACCGAAATACCC
1 AAATGACCGAAATACCC
29469752 CCTAAAGGTG
Statistics
Matches: 437, Mismatches: 85, Indels: 14
0.82 0.16 0.03
Matches are distributed among these distances:
26 27 0.06
27 404 0.92
28 6 0.01
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Done.