Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 115 of 189
Found at i:32247100 original size:24 final size:24
Alignment explanation
Indices: 32247066--32247117 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
32247056 TTTCTAGAAG
* *
32247066 ATTTAGTATTTAGGAGTATAATAT
1 ATTTAGCATTTAGGAGCATAATAT
*
32247090 ATTTAGCATTTAGTAGCATAATAT
1 ATTTAGCATTTAGGAGCATAATAT
32247114 ATTT
1 ATTT
32247118 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.13, T:0.46
Consensus pattern (24 bp):
ATTTAGCATTTAGGAGCATAATAT
Found at i:32264769 original size:15 final size:14
Alignment explanation
Indices: 32264727--32264776 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
32264717 ATTATAACAT
32264727 AAAGTAAATAAAAGA
1 AAAG-AAATAAAAGA
32264742 AAAGAAA-AGAAAGCA
1 AAAGAAATA-AAAG-A
*
32264757 AATGAAATAAAAG-
1 AAAGAAATAAAAGA
32264770 AAAGAAA
1 AAAGAAA
32264777 GAAACAGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 7 0.23
14 7 0.23
15 15 0.50
16 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.08
Consensus pattern (14 bp):
AAAGAAATAAAAGA
Found at i:32264827 original size:6 final size:6
Alignment explanation
Indices: 32264816--32264846 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
32264806 GGGGAGAAAG
*
32264816 AAAGAA AAAGAA AAAGAA AAAGAG AAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA A
32264847 GGAAAAACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:32265196 original size:22 final size:24
Alignment explanation
Indices: 32265171--32265215 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
32265161 ATATGGCAAA
32265171 GAATTAAG-TAGAAAAG-AAGTAT
1 GAATTAAGTTAGAAAAGTAAGTAT
32265193 GAATTAAGTTAGAAAAGTAAGTA
1 GAATTAAGTTAGAAAAGTAAGTA
32265216 AACTTAGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.38
23 8 0.38
24 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.22, T:0.24
Consensus pattern (24 bp):
GAATTAAGTTAGAAAAGTAAGTAT
Found at i:32265581 original size:37 final size:35
Alignment explanation
Indices: 32265540--32265633 Score: 100
Period size: 36 Copynumber: 2.5 Consensus size: 35
32265530 TATATGTGTG
*
32265540 GAATTGAATTGAATAT-TGACTTGAAAAATGGAAAAGT
1 GAATTGAATTGAAT-TGTGA-TTG-AAAATGAAAAAGT
*
32265577 GAATTTTGAATTGAATTGTGATTGAAAGTGAAAAAGT
1 GAA--TTGAATTGAATTGTGATTGAAAATGAAAAAGT
*
32265614 GAAATTGAATTGAAATGTGA
1 G-AATTGAATTGAATTGTGA
32265634 ATTTGGAGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
36 15 0.30
37 15 0.30
38 6 0.12
39 14 0.28
ACGTcount: A:0.44, C:0.01, G:0.23, T:0.32
Consensus pattern (35 bp):
GAATTGAATTGAATTGTGATTGAAAATGAAAAAGT
Found at i:32274709 original size:129 final size:128
Alignment explanation
Indices: 32274524--32274788 Score: 397
Period size: 130 Copynumber: 2.1 Consensus size: 128
32274514 TTCTTATTGA
* *
32274524 TTGATTTAGCTGTTCTTAGTTCTTTAAACTACAGCCTTCGCTTTTGTGTTCTTTCAGTTC-AATT
1 TTGATTTTGCTGTTCTTAGCTCTTTAAACTACAGCCTTCGCTTTTGTGTTCTTTCAGTTCAAATT
* *
32274588 AAAATGGGTTTGTTTGTTTTTACTTTTTCTGTACTATTTGATTCTTATTGATTGCCCCTTTTG
66 AAAATGGGTTTGTCTGTTTTTACTTTTTCTGTACTATTTGATTCTTATTGATTGCCCATTTTG
* * *
32274651 TTGATTTTGCTGTTCTTAGCTCTTTGCAAATTACAGTCTTTGCTTTTGTGTTCTTTCAGTTCAAA
1 TTGATTTTGCTGTTCTTAGCTCTTT--AAACTACAGCCTTCGCTTTTGTGTTCTTTCAGTTCAAA
* * * * *
32274716 TTTAAATGGGTTTGTCTGTTTTTACTTTTTTTGTACTGTTTGATTCTTATTGATTGCTCATTTTT
64 TTAAAATGGGTTTGTCTGTTTTTACTTTTTCTGTACTATTTGATTCTTATTGATTGCCCATTTTG
32274781 TTGATTTT
1 TTGATTTT
32274789 ACTATTTTTA
Statistics
Matches: 123, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
127 23 0.19
129 32 0.26
130 68 0.55
ACGTcount: A:0.16, C:0.14, G:0.15, T:0.55
Consensus pattern (128 bp):
TTGATTTTGCTGTTCTTAGCTCTTTAAACTACAGCCTTCGCTTTTGTGTTCTTTCAGTTCAAATT
AAAATGGGTTTGTCTGTTTTTACTTTTTCTGTACTATTTGATTCTTATTGATTGCCCATTTTG
Found at i:32278389 original size:49 final size:49
Alignment explanation
Indices: 32278329--32278463 Score: 243
Period size: 49 Copynumber: 2.8 Consensus size: 49
32278319 GATAATAACA
* *
32278329 TGCCAAAGCCATATCCTAGACATGGTCTTACATGGGATGTTTCTTGTAC
1 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGATGTTTCTTGTAC
32278378 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGATGTTTCTTGTAC
1 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGATGTTTCTTGTAC
*
32278427 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGA
1 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGA
32278464 GTTCTCATAT
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 83 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (49 bp):
TGCCAATGCCATATCCTAGATATGGTCTTACATGGGATGTTTCTTGTAC
Found at i:32278503 original size:50 final size:50
Alignment explanation
Indices: 32278329--32278674 Score: 288
Period size: 50 Copynumber: 6.8 Consensus size: 50
32278319 GATAATAACA
* * * ** * * *
32278329 TGCCAAAGCCATATCCTAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * ** * * *
32278378 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * ** *
32278427 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
32278477 TTCCCATGCCATGTCCCAGACATGGTCTTAC-GGAGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCATCTCGG
* *
32278527 TGCCAACGCCATGTCCCAGACATGGTATTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
32278577 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GG
* * * *
32278633 TGCCAATGCCATTTCTCAGACATAGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
32278675 TTACCCAAAT
Statistics
Matches: 257, Mismatches: 30, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
48 1 0.00
49 89 0.35
50 123 0.48
51 1 0.00
53 5 0.02
56 38 0.15
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:32282701 original size:26 final size:26
Alignment explanation
Indices: 32282665--32282715 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
32282655 CTCAAGCATA
32282665 CTTGCAGAGTCTGACAAATTCACGTG
1 CTTGCAGAGTCTGACAAATTCACGTG
*
32282691 CTTGTAGAGTCTGACAAATTCACGT
1 CTTGCAGAGTCTGACAAATTCACGT
32282716 TCATACTCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (26 bp):
CTTGCAGAGTCTGACAAATTCACGTG
Found at i:32284923 original size:50 final size:50
Alignment explanation
Indices: 32284749--32285094 Score: 315
Period size: 50 Copynumber: 6.8 Consensus size: 50
32284739 GATAATAACA
* * * ** * * *
32284749 TGCCAAAGCCATATCCTAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * ** * *
32284798 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGATGTTTCTTATAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * **
32284847 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
32284897 TGCCCATGCCATGTCCCAGACATGGTCTTAC-GGAGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCATATCGG
* *
32284947 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
32284997 TGCCAATGCCATGTCCTAGACATGGTCTTACATAGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* *
32285053 TGCCAATGCCATGTCTCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
32285095 TTACCCAAAT
Statistics
Matches: 260, Mismatches: 27, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
48 1 0.00
49 89 0.34
50 128 0.49
51 1 0.00
53 2 0.01
56 39 0.15
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:32285464 original size:30 final size:30
Alignment explanation
Indices: 32285430--32285487 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
32285420 CCTCGACTCT
32285430 AACTTTTAAAAAATTACAATTTTGCCCCTA
1 AACTTTTAAAAAATTACAATTTTGCCCCTA
* * *
32285460 AACTTTTACATAATTACACTTTTGCCCC
1 AACTTTTAAAAAATTACAATTTTGCCCC
32285488 AAAGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.38
Consensus pattern (30 bp):
AACTTTTAAAAAATTACAATTTTGCCCCTA
Found at i:32289215 original size:26 final size:28
Alignment explanation
Indices: 32289139--32289213 Score: 91
Period size: 31 Copynumber: 2.6 Consensus size: 28
32289129 ATAATAATAC
32289139 AAAGAACTATGAGTTTTTGAATAACATAAA
1 AAAGAACTATGAGTTTTTGAATAACAT--A
*
32289169 ATCAAGGACTATG-GTTTTTGAATAACAT-
1 A--AAGAACTATGAGTTTTTGAATAACATA
32289197 AAAGAACTATGAGTTTT
1 AAAGAACTATGAGTTTT
32289214 GATTTTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
26 9 0.22
27 5 0.12
28 1 0.03
30 1 0.03
31 15 0.38
32 9 0.22
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (28 bp):
AAAGAACTATGAGTTTTTGAATAACATA
Found at i:32289588 original size:10 final size:10
Alignment explanation
Indices: 32289573--32289598 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
32289563 ATATTAAAGT
32289573 TATTATTAAA
1 TATTATTAAA
32289583 TATTATTAAA
1 TATTATTAAA
32289593 TATTAT
1 TATTAT
32289599 GTTAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TATTATTAAA
Found at i:32289645 original size:26 final size:26
Alignment explanation
Indices: 32289616--32289665 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
32289606 TATGACTAAA
** *
32289616 ATATTTAATTTTAATTTTATTAAATT
1 ATATTTAATAATAATCTTATTAAATT
32289642 ATATTTAATAATAATCTTATTAAA
1 ATATTTAATAATAATCTTATTAAA
32289666 ATTTAATAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (26 bp):
ATATTTAATAATAATCTTATTAAATT
Found at i:32289818 original size:44 final size:46
Alignment explanation
Indices: 32289767--32289855 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
32289757 ACCCATATTA
32289767 CATTCAACCAAAC-ACAAGAA-TACT-ATTACAGTTCTATTCCATTC
1 CATTCAACCAAACAAC-AGAATTACTGATTACAGTTCTATTCCATTC
* * *
32289811 CATTCAACCAAACAACTGAATTATTGATTACGGTTCTATTCCATT
1 CATTCAACCAAACAACAGAATTACTGATTACAGTTCTATTCCATT
32289856 ACAGCTTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
44 16 0.41
45 5 0.13
46 18 0.46
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.33
Consensus pattern (46 bp):
CATTCAACCAAACAACAGAATTACTGATTACAGTTCTATTCCATTC
Found at i:32290049 original size:16 final size:16
Alignment explanation
Indices: 32290025--32290056 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
32290015 ACGCCTATTA
32290025 TTTAAAATAATTGTTG
1 TTTAAAATAATTGTTG
*
32290041 TTTAGAATAATTGTTG
1 TTTAAAATAATTGTTG
32290057 GTTGAGGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (16 bp):
TTTAAAATAATTGTTG
Found at i:32295359 original size:39 final size:39
Alignment explanation
Indices: 32295309--32295404 Score: 156
Period size: 39 Copynumber: 2.5 Consensus size: 39
32295299 GGAGTTGTAA
* *
32295309 GTGACTATTCATCTACATCACTTAAGTGCTATAGGAGTT
1 GTGACTATTCATCTACATCACCTAAATGCTATAGGAGTT
* *
32295348 GTGACTATTCATTTTCATCACCTAAATGCTATAGGAGTT
1 GTGACTATTCATCTACATCACCTAAATGCTATAGGAGTT
32295387 GTGACTATTCATCTACAT
1 GTGACTATTCATCTACAT
32295405 GCATGTGTGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 51 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (39 bp):
GTGACTATTCATCTACATCACCTAAATGCTATAGGAGTT
Found at i:32295438 original size:16 final size:16
Alignment explanation
Indices: 32295417--32295471 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
32295407 ATGTGTGTAA
32295417 CTCTTCATATTCAAGT
1 CTCTTCATATTCAAGT
*
32295433 CTCTTCACATTTCTAA--
1 CTCTTCATA-TTC-AAGT
*
32295449 CTCTTCATCTTCAAGT
1 CTCTTCATATTCAAGT
32295465 CTCTTCA
1 CTCTTCA
32295472 CATACCTAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 2 0.06
15 3 0.09
16 22 0.69
17 3 0.09
18 2 0.06
ACGTcount: A:0.22, C:0.31, G:0.04, T:0.44
Consensus pattern (16 bp):
CTCTTCATATTCAAGT
Found at i:32295450 original size:32 final size:32
Alignment explanation
Indices: 32295414--32295474 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
32295404 TGCATGTGTG
32295414 TAACTCTTCATATTCAAGTCTCTTCACATTTC
1 TAACTCTTCATATTCAAGTCTCTTCACATTTC
*
32295446 TAACTCTTCATCTTCAAGTCTCTTCACAT
1 TAACTCTTCATATTCAAGTCTCTTCACAT
32295475 ACCTAGAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.25, C:0.30, G:0.03, T:0.43
Consensus pattern (32 bp):
TAACTCTTCATATTCAAGTCTCTTCACATTTC
Found at i:32296855 original size:16 final size:15
Alignment explanation
Indices: 32296814--32296857 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
32296804 GTTTTAAATT
32296814 ATTTTTATTTTGAAC
1 ATTTTTATTTTGAAC
* * *
32296829 ACTTATATTTTAGATC
1 ATTTTTATTTT-GAAC
32296845 ATTTTTATTTTGA
1 ATTTTTATTTTGA
32296858 TTACTCTTCA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.27, C:0.07, G:0.07, T:0.59
Consensus pattern (15 bp):
ATTTTTATTTTGAAC
Found at i:32304666 original size:37 final size:37
Alignment explanation
Indices: 32304620--32304727 Score: 117
Period size: 37 Copynumber: 3.1 Consensus size: 37
32304610 ATTCCAAAAA
32304620 TAATA-TTATTTTAATAGTTTAATATTAAATTTAATT
1 TAATAGTTATTTTAATAGTTTAATATTAAATTTAATT
*
32304656 TAATAGTTATTTTAATAGTATT-TTATT-AATTTAATAT
1 TAATAGTTATTTTAATAGT-TTAATATTAAATTTAAT-T
*
32304693 TAA-AGTTA--TT-AT--CTTAATATTAAATTTAATT
1 TAATAGTTATTTTAATAGTTTAATATTAAATTTAATT
32304724 TAAT
1 TAAT
32304728 GTTTATCTTG
Statistics
Matches: 63, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
30 2 0.03
31 8 0.13
32 8 0.13
33 2 0.03
34 2 0.03
36 18 0.29
37 21 0.33
38 2 0.03
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.55
Consensus pattern (37 bp):
TAATAGTTATTTTAATAGTTTAATATTAAATTTAATT
Found at i:32304679 original size:11 final size:12
Alignment explanation
Indices: 32304620--32304680 Score: 56
Period size: 11 Copynumber: 5.2 Consensus size: 12
32304610 ATTCCAAAAA
32304620 TAATA-TTATTT
1 TAATAGTTATTT
*
32304631 TAATAGTTTAATAT
1 TAATAG-TT-ATTT
* *
32304645 TAA-ATTTAATT
1 TAATAGTTATTT
32304656 TAATAGTTATTT
1 TAATAGTTATTT
32304668 TAATAG-TATTT
1 TAATAGTTATTT
32304679 TA
1 TA
32304681 TTAATTTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
11 17 0.43
12 14 0.35
13 3 0.08
14 6 0.15
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (12 bp):
TAATAGTTATTT
Found at i:32304693 original size:11 final size:11
Alignment explanation
Indices: 32304620--32304695 Score: 52
Period size: 12 Copynumber: 6.8 Consensus size: 11
32304610 ATTCCAAAAA
*
32304620 TAATATTATTT
1 TAATATTAATT
32304631 TAATAGTTTAATAT
1 TAATA--TTAAT-T
32304645 TAA-ATTTAATT
1 TAATA-TTAATT
*
32304656 TAATAGTTATTT
1 TAATA-TTAATT
*
32304668 TAATAGT-ATT
1 TAATATTAATT
32304678 T--TATTAATT
1 TAATATTAATT
32304687 TAATATTAA
1 TAATATTAA
32304696 AGTTATTATC
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 3 0.06
11 16 0.31
12 17 0.33
13 5 0.10
14 4 0.08
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:32304701 original size:20 final size:19
Alignment explanation
Indices: 32304623--32304727 Score: 62
Period size: 20 Copynumber: 5.6 Consensus size: 19
32304613 CCAAAAATAA
* *
32304623 TATTATTTTAATAGTTTAA-
1 TATTAATTTAATA-TTAAAT
32304642 TATTAAATTTAAT-TT-AA-
1 TATT-AATTTAATATTAAAT
* * **
32304659 TAGTTATTTTAATAGTATTT
1 TA-TTAATTTAATATTAAAT
32304679 TATTAATTTAATATTAAAGT
1 TATTAATTTAATATTAAA-T
32304699 TATT-ATCTTAATATTAAA-
1 TATTAAT-TTAATATTAAAT
32304717 T-TTAATTTAAT
1 TATTAATTTAAT
32304728 GTTTATCTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
17 18 0.26
18 8 0.12
19 18 0.26
20 25 0.36
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (19 bp):
TATTAATTTAATATTAAAT
Found at i:32311259 original size:62 final size:62
Alignment explanation
Indices: 32311184--32311304 Score: 224
Period size: 62 Copynumber: 2.0 Consensus size: 62
32311174 CAAAAATCAT
*
32311184 AGTTACCCATCATTTCCACCAACCAACCACTTAGAATTTAGCTGCTCATGGTTATATTTCAG
1 AGTTACCCATCATTTCCACCAACCAACCACTTAGAATTTAGCTACTCATGGTTATATTTCAG
*
32311246 AGTTACCCATCATTTCCACCAACTAACCACTTAGAATTTAGCTACTCATGGTTATATTT
1 AGTTACCCATCATTTCCACCAACCAACCACTTAGAATTTAGCTACTCATGGTTATATTT
32311305 AAACTCATTG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (62 bp):
AGTTACCCATCATTTCCACCAACCAACCACTTAGAATTTAGCTACTCATGGTTATATTTCAG
Found at i:32315019 original size:20 final size:21
Alignment explanation
Indices: 32314987--32315088 Score: 58
Period size: 20 Copynumber: 4.9 Consensus size: 21
32314977 ATCAATTGAA
32314987 AGAAAAAGAAAAG-AAAAATG
1 AGAAAAAGAAAAGCAAAAATG
32315007 AGAAACAAG-AAAGCAAAAATAG
1 AGAAA-AAGAAAAGCAAAAAT-G
*
32315029 CAAAATAAAGTGAAAAG--AAAATG
1 -AGAA-AAA--GAAAAGCAAAAATG
*
32315052 AG-AAAAGAAAAAG-AAAAA-A
1 AGAAAAAG-AAAAGCAAAAATG
32315071 ATGAAAAAGAAAAG-AAAA
1 A-GAAAAAGAAAAGCAAAA
32315089 GAAAAGTTTG
Statistics
Matches: 67, Mismatches: 3, Indels: 24
0.71 0.03 0.26
Matches are distributed among these distances:
18 1 0.01
19 6 0.09
20 26 0.39
21 15 0.22
22 2 0.03
23 6 0.09
24 6 0.09
25 1 0.01
26 4 0.06
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.06
Consensus pattern (21 bp):
AGAAAAAGAAAAGCAAAAATG
Found at i:32315060 original size:5 final size:5
Alignment explanation
Indices: 32315052--32315094 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
32315042 AAAGAAAATG
*
32315052 AGAAA AGAAAA AGAAA A-AAA TGAAAA AGAAA AGAAA AGAAA AG
1 AGAAA AG-AAA AGAAA AGAAA AG-AAA AGAAA AGAAA AGAAA AG
32315095 TTTGATTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 3 0.09
5 21 0.64
6 9 0.27
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (5 bp):
AGAAA
Found at i:32315071 original size:46 final size:43
Alignment explanation
Indices: 32314985--32315093 Score: 112
Period size: 45 Copynumber: 2.4 Consensus size: 43
32314975 AAATCAATTG
* * *
32314985 AAAGAAAAAGAAAAGAAAAATGAGAAACAAGAAAGCAAAAATAGCA
1 AAAG-AAAAGAAAAG-AAAATGAGAAACAAAAAAGAAAAAAT-GAA
* *
32315031 AAATAAAGTGAAAAGAAAATGAGAAA-AGAAAAAGAAAAAAATGAA
1 AAAGAAA-AGAAAAGAAAATGAGAAACA-AAAAAG-AAAAAATGAA
32315076 AAAGAAAAGAAAAGAAAA
1 AAAGAAAAGAAAAGAAAA
32315094 GTTTGATTGT
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
44 11 0.21
45 27 0.51
46 15 0.28
ACGTcount: A:0.74, C:0.03, G:0.17, T:0.06
Consensus pattern (43 bp):
AAAGAAAAGAAAAGAAAATGAGAAACAAAAAAGAAAAAATGAA
Found at i:32315078 original size:15 final size:14
Alignment explanation
Indices: 32315041--32315093 Score: 54
Period size: 13 Copynumber: 3.6 Consensus size: 14
32315031 AAATAAAGTG
* *
32315041 AAAAGAAAATG-AG
1 AAAAGAAAAAGAAA
32315054 AAAAGAAAAAGAAA
1 AAAAGAAAAAGAAA
32315068 AAAATGAAAAAGAAAA
1 AAAA-GAAAAAG-AAA
32315084 GAAAAGAAAA
1 -AAAAGAAAA
32315094 GTTTGATTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
13 10 0.29
14 5 0.15
15 7 0.21
16 8 0.24
17 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (14 bp):
AAAAGAAAAAGAAA
Found at i:32315094 original size:15 final size:16
Alignment explanation
Indices: 32315052--32315093 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
32315042 AAAGAAAATG
32315052 AGAAAAGAAAAAGAAA
1 AGAAAAGAAAAAGAAA
*
32315068 A-AAATGAAAAAGAAA
1 AGAAAAGAAAAAGAAA
32315083 AGAAAAGAAAA
1 AGAAAAGAAAA
32315094 GTTTGATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (16 bp):
AGAAAAGAAAAAGAAA
Found at i:32324170 original size:16 final size:16
Alignment explanation
Indices: 32324149--32324179 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32324139 ATCACTATTA
*
32324149 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
32324165 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
32324180 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:32330206 original size:26 final size:24
Alignment explanation
Indices: 32330159--32330206 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
32330149 AATTAAATTT
*
32330159 TAAATTTTAAAAAAATAGATAAAC
1 TAAATTTTAAAAAAAAAGATAAAC
*
32330183 TAAATTCTTAAAAACAAAATATAA
1 TAAATT-TTAAAAA-AAAAGATAA
32330207 TAATTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 7 0.35
26 7 0.35
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.29
Consensus pattern (24 bp):
TAAATTTTAAAAAAAAAGATAAAC
Found at i:32345104 original size:11 final size:12
Alignment explanation
Indices: 32345088--32345143 Score: 75
Period size: 11 Copynumber: 4.9 Consensus size: 12
32345078 GATTAAATAT
32345088 AAATTTGAGA-G
1 AAATTTGAGAGG
32345099 AAATTTG-GAAGG
1 AAATTTGAG-AGG
32345111 AAA-TTGAGAGG
1 AAATTTGAGAGG
32345122 AAA-TTGAGAGG
1 AAATTTGAGAGG
32345133 AAATTTGAGAG
1 AAATTTGAGAG
32345144 AGAATTTGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
10 1 0.02
11 28 0.68
12 12 0.29
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.23
Consensus pattern (12 bp):
AAATTTGAGAGG
Found at i:32345118 original size:22 final size:24
Alignment explanation
Indices: 32345088--32345151 Score: 82
Period size: 22 Copynumber: 2.8 Consensus size: 24
32345078 GATTAAATAT
32345088 AAATTTGAGAGAAATTTGGA-AGG
1 AAATTTGAGAGAAATTTGGAGAGG
32345111 AAA-TTGAGAGGAAA-TT-GAGAGG
1 AAATTTGAGA-GAAATTTGGAGAGG
32345133 AAATTTGAGAGAGAATTTG
1 AAATTTGAGAGA-AATTTG
32345152 TTTGTGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
21 2 0.06
22 16 0.46
23 15 0.43
24 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (24 bp):
AAATTTGAGAGAAATTTGGAGAGG
Found at i:32345149 original size:12 final size:12
Alignment explanation
Indices: 32345089--32345151 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 12
32345079 ATTAAATATA
32345089 AATTTGAGAGA-
1 AATTTGAGAGAG
32345100 AATTTG-GA-AGG
1 AATTTGAGAGA-G
*
32345111 AAATTGAGAG-G
1 AATTTGAGAGAG
*
32345122 AAATTGAGAG-G
1 AATTTGAGAGAG
32345133 AAATTTGAGAGAG
1 -AATTTGAGAGAG
32345146 AATTTG
1 AATTTG
32345152 TTTGTGAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
9 1 0.02
10 2 0.05
11 23 0.52
12 17 0.39
13 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (12 bp):
AATTTGAGAGAG
Found at i:32357411 original size:29 final size:30
Alignment explanation
Indices: 32357368--32357425 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
32357358 CCTTTTTAAT
*
32357368 TTCCCCCCAATACTTTTAC-ACCCTCCCAC
1 TTCCCCCCAAGACTTTTACTACCCTCCCAC
*
32357397 TTCCCCCCAAGACTTTTACTTCCCTCCCA
1 TTCCCCCCAAGACTTTTACTACCCTCCCA
32357426 TCGCACCCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.19, C:0.50, G:0.02, T:0.29
Consensus pattern (30 bp):
TTCCCCCCAAGACTTTTACTACCCTCCCAC
Found at i:32357688 original size:162 final size:165
Alignment explanation
Indices: 32357500--32357802 Score: 461
Period size: 163 Copynumber: 1.9 Consensus size: 165
32357490 TTTGCCCCCA
* * *
32357500 AAATTTTATTCCCCTCACCCTCAAAACTTTTTA-TTCCCCCCTAAACTTTTACTTTTCACCCTTT
1 AAATTTTATTCCCCTAACCCTCAAAACTTATTATTTCCCCCCTAAACTTTTACTTTTCACCATTT
** * *
32357564 ACCTTAAATAAAAAATCAT-CAAAAAAA-ATCCTTAAACATAAATAGTAATAATTTTATTTATAT
66 ACCCCAAATAAAAAATCATCCAAAAAAATATCCCTAAACATAAATAGTAATAATTTTATTTAGAT
32357627 ATACTATTTATTTACCCCCATTTACTTTCCCTCTC
131 ATACTATTTATTTACCCCCATTTACTTTCCCTCTC
*
32357662 AAATTTTATTCTCCC-AACCTTCAAAACTTATTATTTCCCCCCTAAACTTTTACTTTTCACCATT
1 AAATTTTATTC-CCCTAACCCTCAAAACTTATTATTTCCCCCCTAAACTTTTACTTTTCACCATT
* *
32357726 TACCCCAAATAAAAGATCATCCAAAAAAATATCCCTAAATATAAATAGTAATAATTTTATTTAGA
65 TACCCCAAATAAAAAATCATCCAAAAAAATATCCCTAAACATAAATAGTAATAATTTTATTTAGA
* *
32357791 TCTATTATTTAT
130 TATACTATTTAT
32357803 ATTATTAAAT
Statistics
Matches: 125, Mismatches: 12, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
162 26 0.21
163 49 0.39
164 8 0.06
165 42 0.34
ACGTcount: A:0.36, C:0.23, G:0.01, T:0.39
Consensus pattern (165 bp):
AAATTTTATTCCCCTAACCCTCAAAACTTATTATTTCCCCCCTAAACTTTTACTTTTCACCATTT
ACCCCAAATAAAAAATCATCCAAAAAAATATCCCTAAACATAAATAGTAATAATTTTATTTAGAT
ATACTATTTATTTACCCCCATTTACTTTCCCTCTC
Found at i:32362830 original size:57 final size:58
Alignment explanation
Indices: 32362757--32362892 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 58
32362747 TTTAATTCAT
* * * *
32362757 ATAATAATTATATTAAAATGTTATTAAATTA-TA-ACTTATTTTATTAAATTATATTTA
1 ATAATAATTATATTAAAATATGATTAAATTATTATA-TTATTTTAATAAAATATATTTA
* *
32362814 ATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTATTTTAATAAAATATATTTA
1 ATAATAATTATATTAAAATATGATTAAATTA-TTA-TATTATTTTAATAAAATATATTTA
* *
32362874 AAAATAATTTTATTAAAAT
1 ATAATAATTATATTAAAAT
32362893 TTAATAACAA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
57 27 0.41
59 2 0.03
60 36 0.55
61 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (58 bp):
ATAATAATTATATTAAAATATGATTAAATTATTATATTATTTTAATAAAATATATTTA
Found at i:32363042 original size:44 final size:45
Alignment explanation
Indices: 32362994--32363079 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 45
32362984 TCTATTCCGA
32362994 TCAACCAAAACTAA-GAATT-CT-ATTACAGCTCTATTCCATTCCAT
1 TCAACC-AAAC-AATGAATTACTGATTACAGCTCTATTCCATTCCAT
32363038 TCAACCAAACAATTGAATTACTGATTACAGCTCTATTCCATT
1 TCAACCAAACAA-TGAATTACTGATTACAGCTCTATTCCATT
32363080 ACAGCTTTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
42 2 0.05
43 4 0.11
44 11 0.29
45 2 0.05
46 19 0.50
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.33
Consensus pattern (45 bp):
TCAACCAAACAATGAATTACTGATTACAGCTCTATTCCATTCCAT
Found at i:32367292 original size:80 final size:80
Alignment explanation
Indices: 32367154--32367319 Score: 323
Period size: 80 Copynumber: 2.1 Consensus size: 80
32367144 ATAAAGGAAA
32367154 CCGTGTAAGAAACTTTATTTCCGATAATGAGATATTTAAAGTTGTGTGAGACAGTGCAGAATGAC
1 CCGT-TAAGAAACTTTATTTCCGATAATGAGATATTTAAAGTTGTGTGAGACAGTGCAGAATGAC
32367219 ACTGTAATCCTCTGTT
65 ACTGTAATCCTCTGTT
32367235 CCGTTAAGAAACTTTATTTCCGATAATGAGATATTTAAAGTTGTGTGAGACAGTGCAGAATGACA
1 CCGTTAAGAAACTTTATTTCCGATAATGAGATATTTAAAGTTGTGTGAGACAGTGCAGAATGACA
32367300 CTGTAATCCTCTGTT
66 CTGTAATCCTCTGTT
32367315 CCGTT
1 CCGTT
32367320 TTTATAAAAT
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 81 0.95
81 4 0.05
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (80 bp):
CCGTTAAGAAACTTTATTTCCGATAATGAGATATTTAAAGTTGTGTGAGACAGTGCAGAATGACA
CTGTAATCCTCTGTT
Found at i:32367894 original size:47 final size:48
Alignment explanation
Indices: 32367793--32368152 Score: 302
Period size: 47 Copynumber: 7.3 Consensus size: 48
32367783 CAGCCAAGAC
* *
32367793 AGTGTATATATGTGATAAGGCCTAATGGCAAGATGTGATGAATGTGAA
1 AGTGTATATATGTGAAAAGGCCTAATAGCAAGATGTGATGAATGTGAA
* *
32367841 ATTGTATATATGTGAAAAGGCCTAATAGCCA-ATGTGATGAATGTGAA
1 AGTGTATATATGTGAAAAGGCCTAATAGCAAGATGTGATGAATGTGAA
* * * ** * * *
32367888 AGTGTATATGTGTGATAATGTATATAGTTGATAAGGTCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGAAAAGGCCTA-A-TAG-CAA-G----AT-G-TGA--TG---AATGTGAA
* * * * *
32367951 AGTGTATATATGTGATAAGGCTTATTGGC-CGATGTGATGAATGTGAA
1 AGTGTATATATGTGAAAAGGCCTAATAGCAAGATGTGATGAATGTGAA
* * *
32367998 AGTGTATATATGTGATAAGCCCTAATAGC-CGATGTGATGAATGTG-A
1 AGTGTATATATGTGAAAAGGCCTAATAGCAAGATGTGATGAATGTGAA
* *
32368044 AGTGTATATATGT-AATAAGGCCTAATGGC-CGATGTGATGAATGTGAA
1 AGTGTATATATGTGAA-AAGGCCTAATAGCAAGATGTGATGAATGTGAA
* * *
32368091 AGTGTATATATGTGATAAGGCCTAATGGC-CGATGTGATGAATGTGAA
1 AGTGTATATATGTGAAAAGGCCTAATAGCAAGATGTGATGAATGTGAA
32368138 AGTGTATATATGTGA
1 AGTGTATATATGTGA
32368153 CAGGGCCGAG
Statistics
Matches: 262, Mismatches: 31, Indels: 39
0.79 0.09 0.12
Matches are distributed among these distances:
45 1 0.00
46 41 0.16
47 143 0.55
48 29 0.11
49 2 0.01
50 3 0.01
52 2 0.01
53 1 0.00
54 2 0.01
56 2 0.01
57 1 0.00
58 3 0.01
60 2 0.01
61 2 0.01
63 28 0.11
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.32
Consensus pattern (48 bp):
AGTGTATATATGTGAAAAGGCCTAATAGCAAGATGTGATGAATGTGAA
Found at i:32367939 original size:63 final size:64
Alignment explanation
Indices: 32367834--32367968 Score: 195
Period size: 63 Copynumber: 2.1 Consensus size: 64
32367824 GATGTGATGA
32367834 ATGTGA-AATTGTATATATGTGAAAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAATTGTATATATGTGAAAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATAT
* * * * *
32367897 GTGTGATAA-TGTATATA-GTTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATAATTGTATATATG-TGAAAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATAT
32367960 ATGTGATAA
1 ATGTGATAA
32367969 GGCTTATTGG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
62 1 0.02
63 61 0.95
64 2 0.03
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (64 bp):
ATGTGATAATTGTATATATGTGAAAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATAT
Found at i:32367962 original size:110 final size:111
Alignment explanation
Indices: 32367795--32368015 Score: 338
Period size: 110 Copynumber: 2.0 Consensus size: 111
32367785 GCCAAGACAG
*
32367795 TGTATATATGTGATAAGGCCTAATGGCAAGATGTGATGAATGTGAAATTGTATATATGTGAAAAG
1 TGTATATATGTGATAAGGCCTAATGGCAAGATGTGATGAATGTGAAAGTGTATATATGTGAAAAG
*
32367860 GCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAA
66 GCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * *
32367906 TGTATATA-GTTGATAAGGTCTAATGGC-CGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 TGTATATATG-TGATAAGGCCTAATGGCAAGATGTGATGAATGTGAAAGTGTATATATGTGAAAA
* * * *
32367969 GGCTTATTGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
65 GGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAA
32368016 GCCCTAATAG
Statistics
Matches: 100, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
110 76 0.76
111 24 0.24
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (111 bp):
TGTATATATGTGATAAGGCCTAATGGCAAGATGTGATGAATGTGAAAGTGTATATATGTGAAAAG
GCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:32368167 original size:47 final size:47
Alignment explanation
Indices: 32367898--32368203 Score: 438
Period size: 47 Copynumber: 6.5 Consensus size: 47
32367888 AGTGTATATG
*
32367898 TGTGATAA-TGTATATA-GTTGATAAGGTCTAATGGCCGATGTGATGAA
1 TGTGA-AAGTGTATATATG-TGATAAGGCCTAATGGCCGATGTGATGAA
* *
32367945 TGTGAAAGTGTATATATGTGATAAGGCTTATTGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
32367992 TGTGAAAGTGTATATATGTGATAAGCCCTAATAGCCGATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
32368039 TGTG-AAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
32368085 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * * * * * *
32368132 TGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
32368179 TGTGAAAGTGCATAAATGTGATAAG
1 TGTGAAAGTGTATATATGTGATAAG
32368204 TCCCGAAGGG
Statistics
Matches: 234, Mismatches: 22, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
46 45 0.19
47 188 0.80
48 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:32368175 original size:140 final size:141
Alignment explanation
Indices: 32367918--32368203 Score: 430
Period size: 140 Copynumber: 2.0 Consensus size: 141
32367908 TATATAGTTG
* * *
32367918 ATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTATTGGCCGA
1 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
* * * *
32367983 TGTGATGAATGTGAAAGTGTATATATGTGATAAGCCCTAATAGCCGATGTGATGAATGTG-AAGT
66 TGTGATGAATGTGAAAGTGTATATATGTGACAAGCCCGAATAGCCAACGTGATGAATGTGAAAGT
* *
32368047 GTATATATGTA
131 GCATAAATGTA
32368058 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
1 ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
* * * * *
32368123 TGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGT
66 TGTGATGAATGTGAAAGTGTATATATGTGACAAGCCCGAATAGCCAACGTGATGAATGTGAAAGT
*
32368188 GCATAAATGTG
131 GCATAAATGTA
32368199 ATAAG
1 ATAAG
32368204 TCCCGAAGGG
Statistics
Matches: 130, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
140 113 0.87
141 17 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
TGTGATGAATGTGAAAGTGTATATATGTGACAAGCCCGAATAGCCAACGTGATGAATGTGAAAGT
GCATAAATGTA
Found at i:32368390 original size:37 final size:37
Alignment explanation
Indices: 32368321--32368399 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
32368311 CTGAGCTCTA
* *
32368321 AAGACCCGATGACTACGTGTGGGAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
* *
32368358 AAGACCCGATAACTTCGT-TTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGA-ATTATGTCCGGGT
32368395 AAGAC
1 AAGAC
32368400 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 4 0.11
37 33 0.89
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
Found at i:32382514 original size:47 final size:47
Alignment explanation
Indices: 32382456--32383189 Score: 1010
Period size: 47 Copynumber: 15.2 Consensus size: 47
32382446 CCACATCCAT
* *
32382456 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGC
1 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
* * *
32382503 A-TGTTCACATTCATCACATTGGCCATTTGGCCTTATCACACATACAC
1 ACT-TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
* * *
32382550 A-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
1 ACT-TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
* * *
32382597 A-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGC
1 ACT-TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
* * *
32382644 A-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
1 ACT-TTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
*
32382691 A-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATAC
1 ACT-TTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATAC
*
32382740 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
*
32382787 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
*
32382834 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATAC
*
32382883 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATAC
* *
32382932 ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
*
32382979 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
*
32383026 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATAC
*
32383075 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACCTTATCACATATATATAC
1 ACTTTCACATTCATCACATTGGCCATTAGG--------CCTTATCAC--ATATATAC
32383132 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
32383179 ACTTTCACATT
1 ACTTTCACATT
32383190 TATTCAAATA
Statistics
Matches: 651, Mismatches: 20, Indels: 32
0.93 0.03 0.05
Matches are distributed among these distances:
46 1 0.00
47 416 0.64
49 185 0.28
50 1 0.00
57 48 0.07
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
Found at i:32382811 original size:143 final size:141
Alignment explanation
Indices: 32382456--32383189 Score: 1028
Period size: 143 Copynumber: 5.1 Consensus size: 141
32382446 CCACATCCAT
*
32382456 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCAC
1 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TTCACATTCATCAC
* * * *
32382520 ATTGGCCATTTGGCCTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTT
65 ATCGGCCATTAGGCCTTATCACACATATACACT-TTCACATTCATCACATTGGCCATTAGGCCTT
* *
32382584 ATCACACATACAC
129 ATCACATATATAC
* *
32382597 A-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCA-TGTTCACATTCATCA
1 ACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACT-TTCACATTCATCA
* * * *
32382660 CATTGGCCATTCGGCCTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCT
64 CATCGGCCATTAGGCCTTATCACACATATACACT-TTCACATTCATCACATTGGCCATTAGGCCT
32382724 TATCACATATATATAC
128 TATCAC--ATATATAC
32382740 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
32382805 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
66 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT
32382870 CACATATATATAC
131 CAC--ATATATAC
* *
32382883 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCA
* * *
32382948 CATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
64 CATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
32383013 ATCACATATATAC
129 ATCACATATATAC
* *
32383026 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
1 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCA
32383091 CATCGGCCATTAGGCCTTATCACCTTATCACATATATATACACTTTCACATTCATCACATTGGCC
64 CATCGGCCATTAGGCCTTAT---C--A-CAC----ATATACACTTTCACATTCATCACATTGGCC
32383156 ATTAGGCCTTATCACATATATAC
119 ATTAGGCCTTATCACATATATAC
32383179 ACTTTCACATT
1 ACTTTCACATT
32383190 TATTCAAATA
Statistics
Matches: 557, Mismatches: 18, Indels: 24
0.93 0.03 0.04
Matches are distributed among these distances:
140 1 0.00
141 129 0.23
143 264 0.47
144 3 0.01
145 93 0.17
146 1 0.00
148 1 0.00
149 2 0.00
153 63 0.11
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (141 bp):
ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT
CACATATATAC
Found at i:32383124 original size:57 final size:57
Alignment explanation
Indices: 32383056--32383170 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
32383046 GGCCATTAGG
32383056 CCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
*
32383113 CCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCA
1 CCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
32383170 C
1 C
32383171 ATATATACAC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.34
Consensus pattern (57 bp):
CCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
Found at i:32383150 original size:27 final size:27
Alignment explanation
Indices: 32383060--32383150 Score: 80
Period size: 27 Copynumber: 3.3 Consensus size: 27
32383050 ATTAGGCCTT
32383060 ATCACATATATATACACTTTCACATTC
1 ATCACATATATATACACTTTCACATTC
** *
32383087 ATCACATCGGCCAT-TAGGC-CTTATCACCTT-
1 ATCACAT-----ATATATACACTT-TCACATTC
32383117 ATCACATATATATACACTTTCACATTC
1 ATCACATATATATACACTTTCACATTC
32383144 ATCACAT
1 ATCACAT
32383151 TGGCCATTAG
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
25 2 0.04
26 9 0.18
27 17 0.35
30 10 0.20
31 9 0.18
32 2 0.04
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.34
Consensus pattern (27 bp):
ATCACATATATATACACTTTCACATTC
Found at i:32385130 original size:56 final size:56
Alignment explanation
Indices: 32385063--32385182 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
32385053 TATTAGTTTA
32385063 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
32385119 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
32385175 TTGCCCAT
1 TTGCCCAT
32385183 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:32392557 original size:9 final size:9
Alignment explanation
Indices: 32392528--32392559 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
32392518 TCCAAAAATC
32392528 ATTCGTTTT
1 ATTCGTTTT
*
32392537 ATCCGTTTT
1 ATTCGTTTT
32392546 ATTCGTTTT
1 ATTCGTTTT
32392555 ATTCG
1 ATTCG
32392560 CCTATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.12, C:0.16, G:0.12, T:0.59
Consensus pattern (9 bp):
ATTCGTTTT
Found at i:32402619 original size:39 final size:39
Alignment explanation
Indices: 32402553--32402797 Score: 292
Period size: 39 Copynumber: 6.3 Consensus size: 39
32402543 AGAAGTTAGA
* * *
32402553 TGTTGTACTTCGATACCCTTGATTGCACATACGTGCCCC
1 TGTTGTACTTCGGTACCCCTGAATGCACATACGTGCCCC
* *** * **
32402592 TATTGTACTTCGGTATTGCTAAATGCACATACGTGCCAT
1 TGTTGTACTTCGGTACCCCTGAATGCACATACGTGCCCC
* * *
32402631 TGTTGTACGTCGGTACCCCTGATTGTACATACGTGCCCC
1 TGTTGTACTTCGGTACCCCTGAATGCACATACGTGCCCC
* * *
32402670 TGTAGTACTTCGGTACCCCTGAATGCACATATGTGGCCC
1 TGTTGTACTTCGGTACCCCTGAATGCACATACGTGCCCC
* * *
32402709 TATTGTACTTTGGTACCCCTGATTGCACATACGTGCCCC
1 TGTTGTACTTCGGTACCCCTGAATGCACATACGTGCCCC
* * *
32402748 TGTTGTACTTCGGTACCCTTGAATGCATATACGTGCCGC
1 TGTTGTACTTCGGTACCCCTGAATGCACATACGTGCCCC
32402787 TGTTGTACTTC
1 TGTTGTACTTC
32402798 AATATCCCTG
Statistics
Matches: 168, Mismatches: 38, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 168 1.00
ACGTcount: A:0.19, C:0.27, G:0.20, T:0.33
Consensus pattern (39 bp):
TGTTGTACTTCGGTACCCCTGAATGCACATACGTGCCCC
Found at i:32402658 original size:20 final size:20
Alignment explanation
Indices: 32402633--32402765 Score: 78
Period size: 20 Copynumber: 6.8 Consensus size: 20
32402623 CGTGCCATTG
*
32402633 TTGTACGTCGGTACCCCTGA
1 TTGTACATCGGTACCCCTGA
*
32402653 TTGTACATAC-GTGCCCCTG-
1 TTGTACAT-CGGTACCCCTGA
* *
32402672 TAGTACTTCGGTACCCCTGA
1 TTGTACATCGGTACCCCTGA
* * ** **
32402692 ATGCACATATGTGGCCCT-A
1 TTGTACATCGGTACCCCTGA
* *
32402711 TTGTACTTTGGTACCCCTGA
1 TTGTACATCGGTACCCCTGA
* *
32402731 TTGCACATAC-GTGCCCCTG-
1 TTGTACAT-CGGTACCCCTGA
*
32402750 TTGTACTTCGGTACCC
1 TTGTACATCGGTACCC
32402766 TTGAATGCAT
Statistics
Matches: 80, Mismatches: 27, Indels: 13
0.67 0.22 0.11
Matches are distributed among these distances:
18 2 0.03
19 37 0.46
20 40 0.50
21 1 0.01
ACGTcount: A:0.17, C:0.30, G:0.21, T:0.32
Consensus pattern (20 bp):
TTGTACATCGGTACCCCTGA
Found at i:32402688 original size:19 final size:20
Alignment explanation
Indices: 32402635--32402691 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
32402625 TGCCATTGTT
* *
32402635 GTACGTCGGTACCCCTGATT
1 GTACTTCGGTACCCCTGATA
* *
32402655 GTACATAC-GTGCCCCTG-TA
1 GTAC-TTCGGTACCCCTGATA
32402674 GTACTTCGGTACCCCTGA
1 GTACTTCGGTACCCCTGA
32402692 ATGCACATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
18 2 0.07
19 13 0.46
20 12 0.43
21 1 0.04
ACGTcount: A:0.18, C:0.32, G:0.23, T:0.28
Consensus pattern (20 bp):
GTACTTCGGTACCCCTGATA
Found at i:32406303 original size:43 final size:43
Alignment explanation
Indices: 32406256--32406433 Score: 141
Period size: 42 Copynumber: 4.2 Consensus size: 43
32406246 GAACACATAA
*
32406256 CAACCCCTTTCACAATAAAAGATACCGTGGAATCAGCACTTAG
1 CAACCCCTTTCACAATCAAAGATACCGTGGAATCAGCACTTAG
* * ** * *
32406299 CAACCACCTTT-ATATTCAGTGATA-CGGGGAATCAGCACATAG
1 CAACC-CCTTTCACAATCAAAGATACCGTGGAATCAGCACTTAG
* * * *
32406341 CAACCCCTTTCACAATCAAATATACAGTAGAATCAGCACTTAA
1 CAACCCCTTTCACAATCAAAGATACCGTGGAATCAGCACTTAG
** * * **
32406384 CTGCCACGTTT-AGAATCAATA-ATTTCG-GGAATCAGCACTTAG
1 CAACC-CCTTTCACAATCAA-AGATACCGTGGAATCAGCACTTAG
32406426 CAACCCCT
1 CAACCCCT
32406434 CGAGAATCTG
Statistics
Matches: 101, Mismatches: 29, Indels: 12
0.71 0.20 0.08
Matches are distributed among these distances:
41 7 0.07
42 45 0.45
43 39 0.39
44 10 0.10
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (43 bp):
CAACCCCTTTCACAATCAAAGATACCGTGGAATCAGCACTTAG
Found at i:32406335 original size:42 final size:41
Alignment explanation
Indices: 32406204--32406350 Score: 143
Period size: 42 Copynumber: 3.5 Consensus size: 41
32406194 CTCGGTGGAT
* * *
32406204 TCAGCACTTAGCAAGCACTTTAAATTCAGTGATACGGGGAA
1 TCAGCACATAGCAACCCCTTTAAATTCAGTGATACGGGGAA
* * * * ** *
32406245 TGAACACATAACAACCCCTTTCACAA-TAAAAGATACCGTGGAA
1 TCAGCACATAGCAACCCCTTT-A-AATTCAGTGATA-CGGGGAA
* *
32406288 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAGCACATAGCAACC-CCTTTAAATTCAGTGATACGGGGAA
32406330 TCAGCACATAGCAACCCCTTT
1 TCAGCACATAGCAACCCCTTT
32406351 CACAATCAAA
Statistics
Matches: 81, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
41 20 0.25
42 29 0.36
43 27 0.33
44 5 0.06
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.23
Consensus pattern (41 bp):
TCAGCACATAGCAACCCCTTTAAATTCAGTGATACGGGGAA
Found at i:32406345 original size:85 final size:84
Alignment explanation
Indices: 32406198--32406382 Score: 271
Period size: 85 Copynumber: 2.2 Consensus size: 84
32406188 CCGTTACTCG
* * *
32406198 GTGGATTCAGCACTTAGCAAGCACTTTAAATTCAGTGATACGGGGAATGAACACATAACAACCCC
1 GTGGAATCAGCACTTAGCAACCACTTTAAATTCAGTGATACGGGGAATCAACACATAACAACCCC
*
32406263 TTTCACAATAAAAGATACC
66 TTTCACAATAAAAGATACA
* * *
32406282 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAACCC
1 GTGGAATCAGCACTTAGCAACCA-CTTTAAATTCAGTGATACGGGGAATCAACACATAACAACCC
* *
32406347 CTTTCACAATCAAATATACA
65 CTTTCACAATAAAAGATACA
*
32406367 GTAGAATCAGCACTTA
1 GTGGAATCAGCACTTA
32406383 ACTGCCACGT
Statistics
Matches: 90, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
84 21 0.23
85 69 0.77
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (84 bp):
GTGGAATCAGCACTTAGCAACCACTTTAAATTCAGTGATACGGGGAATCAACACATAACAACCCC
TTTCACAATAAAAGATACA
Found at i:32406414 original size:85 final size:85
Alignment explanation
Indices: 32406204--32406433 Score: 232
Period size: 85 Copynumber: 2.7 Consensus size: 85
32406194 CTCGGTGGAT
* * * * * * *
32406204 TCAGCACTTAGCAAGCA-CTTTA-AATTCAGTGATACGGGGAATGAACACATAACAACCCCTTTC
1 TCAGCACTTAACAACCACCTTTAGAA-TCAATAATACGGGGAATCAGCACATAGCAACCCCTTTC
* *
32406267 ACAATAAAAGATACCGTGGAA
65 ACAATAAAAGATACAGTAGAA
* * * * *
32406288 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTTTCA
1 TCAGCACTTAACAACCACCTTTAGAATCAATAATACGGGGAATCAGCACATAGCAACCCCTTTCA
* *
32406353 CAATCAAATATACAGTAGAA
66 CAATAAAAGATACAGTAGAA
** * * *
32406373 TCAGCACTTAACTGCCACGTTTAGAATCAATAATTTC-GGGAATCAGCACTTAGCAACCCCT
1 TCAGCACTTAACAACCACCTTTAGAATCAATAA-TACGGGGAATCAGCACATAGCAACCCCT
32406434 CGAGAATCTG
Statistics
Matches: 124, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
84 16 0.13
85 105 0.85
86 3 0.02
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.23
Consensus pattern (85 bp):
TCAGCACTTAACAACCACCTTTAGAATCAATAATACGGGGAATCAGCACATAGCAACCCCTTTCA
CAATAAAAGATACAGTAGAA
Found at i:32406831 original size:30 final size:29
Alignment explanation
Indices: 32406797--32406858 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
32406787 TCCTTAACTC
32406797 AAACTTTGGCAAAATTACAATTTTTCCTCT
1 AAACTTTGGCAAAATTACAATTTTTCC-CT
* * * *
32406827 AAACTTTTGCATATTTACACTTTTTCCCT
1 AAACTTTGGCAAAATTACAATTTTTCCCT
32406856 AAA
1 AAA
32406859 GCTCAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 5 0.18
30 23 0.82
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (29 bp):
AAACTTTGGCAAAATTACAATTTTTCCCT
Found at i:32412208 original size:85 final size:84
Alignment explanation
Indices: 32412058--32412247 Score: 188
Period size: 85 Copynumber: 2.2 Consensus size: 84
32412048 CGGTAGATTT
* * *
32412058 AGCACTTAGCAATCACCTTAAATTCAGTGATATAGGGAATCAGCACATAACAATCCCGTTCACAA
1 AGCACTTAGCAACCACTTTAAATTCAGTGATAGAGGGAATCAGCACATAACAATCCCGTTCACAA
* * *
32412123 TTAAAGGTATGATGGAATC
66 TCAAAGATACGATGGAATC
* * * * *
32412142 TGCACTTAGCAACCACTTTTATATTCAGTGATACGA-GGAATTAGCACATAGCAA-CCTC-TTGT
1 AGCACTTAGCAACCAC-TTTAAATTCAGTGATA-GAGGGAATCAGCACATAACAATCC-CGTT-C
* *
32412204 ACAATCAAATATACGGTGGAATC
62 ACAATCAAAGATACGATGGAATC
*
32412227 AACACTTAGCAACCACCTTTA
1 AGCACTTAGCAACCA-CTTTA
32412248 GAATCAATAA
Statistics
Matches: 86, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
84 18 0.21
85 66 0.77
86 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (84 bp):
AGCACTTAGCAACCACTTTAAATTCAGTGATAGAGGGAATCAGCACATAACAATCCCGTTCACAA
TCAAAGATACGATGGAATC
Found at i:32412239 original size:43 final size:42
Alignment explanation
Indices: 32412144--32412282 Score: 129
Period size: 42 Copynumber: 3.3 Consensus size: 42
32412134 ATGGAATCTG
* * * * * * * *
32412144 CACTTAGCAACCACTTTTATATTCAGTGATACGAGGAATTAG
1 CACTTAGCAACCACCTTTACAATCAATAATACGGGGAATCAA
* *
32412186 CACATAGCAACC-TCTTGTACAATCAA-ATATACGGTGGAATCAA
1 CACTTAGCAACCACCTT-TACAATCAATA-ATACGG-GGAATCAA
* *
32412229 CACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAA
1 CACTTAGCAACCACCTTTACAATCAATAATACGGGGAATCAA
32412271 CACTTAGCAACC
1 CACTTAGCAACC
32412283 CCTCGGGGAA
Statistics
Matches: 78, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
41 2 0.03
42 42 0.54
43 30 0.38
44 4 0.05
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (42 bp):
CACTTAGCAACCACCTTTACAATCAATAATACGGGGAATCAA
Found at i:32412288 original size:26 final size:26
Alignment explanation
Indices: 32412259--32412311 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
32412249 AATCAATAAT
32412259 TCGGGGAATCAACACTTAGCAACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
** *
32412285 TCGGGGAATCTGCACTTAGCGACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
32412311 T
1 T
32412312 TTTTATCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.34, G:0.23, T:0.19
Consensus pattern (26 bp):
TCGGGGAATCAACACTTAGCAACCCC
Found at i:32418579 original size:14 final size:15
Alignment explanation
Indices: 32418557--32418633 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
32418547 CAATCAAACA
32418557 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
32418571 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
32418586 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
32418606 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
32418620 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
32418634 ACTACCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:32418598 original size:20 final size:20
Alignment explanation
Indices: 32418573--32418612 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32418563 AATATTTTCC
*
32418573 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
32418593 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
32418613 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:32418618 original size:34 final size:35
Alignment explanation
Indices: 32418561--32418627 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
32418551 CAAACACCAG
*
32418561 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
32418596 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
32418628 CATTTTACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:32418634 original size:14 final size:14
Alignment explanation
Indices: 32418596--32418635 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
32418586 ACAGAAAAGT
*
32418596 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
32418610 AAATCATTTTACGG
1 AAAACATTTTACAG
32418624 AAAACATTTTAC
1 AAAACATTTTAC
32418636 TACCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:32449448 original size:18 final size:17
Alignment explanation
Indices: 32449415--32449456 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
32449405 ATGTGATATC
32449415 TATTTATA-TTTATGAA
1 TATTTATATTTTATGAA
32449431 TATTTATATTTATATGAA
1 TATTTATATTT-TATGAA
32449449 TA-TTATAT
1 TATTTATAT
32449457 GTTGCCTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.33
17 8 0.33
18 8 0.33
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
TATTTATATTTTATGAA
Found at i:32462412 original size:42 final size:42
Alignment explanation
Indices: 32462217--32462428 Score: 228
Period size: 42 Copynumber: 5.1 Consensus size: 42
32462207 TTACAAACAA
* ** ** *
32462217 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTAGA-AA
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTTATAC
* * ** * *
32462258 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCACTTAGAAAA
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTTATAC
* *
32462300 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTCTAC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTTATAC
* * *
32462342 AAGCGCCGCTAAAGAACATGTTCTTTAGTGGCATTTTTTTAC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTTATAC
* * **
32462384 AAACGCCGCGAAAGAACATGTTCTTTAGTGGCGCTTTTATAC
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTTATAC
32462426 AAA
1 AAA
32462429 AATGCCACTA
Statistics
Matches: 150, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
41 36 0.24
42 114 0.76
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGTTCTTTAGCGGCATTTTTATAC
Found at i:32462511 original size:14 final size:14
Alignment explanation
Indices: 32462488--32462521 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
32462478 GCCCTCCTAT
*
32462488 AGCAAAAATTCAAA
1 AGCAACAATTCAAA
32462502 AGCAACAATTCAAA
1 AGCAACAATTCAAA
32462516 AGCAAC
1 AGCAAC
32462522 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.59, C:0.21, G:0.09, T:0.12
Consensus pattern (14 bp):
AGCAACAATTCAAA
Found at i:32462771 original size:21 final size:21
Alignment explanation
Indices: 32462745--32462815 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 21
32462735 TTTTGCTCTG
*
32462745 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
32462766 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
32462787 CGCTGCTTCCCTCGCTTTC-GC
1 CTCTGCTTCCCTCGC-TGCAGC
32462808 CTCTGCTT
1 CTCTGCTT
32462816 TAAGTTGTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 43 0.96
22 2 0.04
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:32468333 original size:51 final size:51
Alignment explanation
Indices: 32468278--32468683 Score: 676
Period size: 51 Copynumber: 7.9 Consensus size: 51
32468268 AAATGTATTA
*
32468278 TGTAAGTTAAATGTATTATGAAAGTTGTAAGTTATTATGTATTATGTAAGT
1 TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
* *
32468329 TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTA-AATGTATTGTGTAAGT
1 TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
*
32468379 TGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA--ATGTATTATGTAAGT
1 TGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
32468429 TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
1 TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
*
32468480 TGTAAGTTAAATGTATTGTGTAAGTTGTAAGTTATTATGTATTATGTAAGT
1 TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
32468531 TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
1 TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
*
32468582 TGTAAGTTAAATGTATTATGTACGTTGTAAGTTATTATGTATTATGTAAGTT
1 TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAG-T
*
32468634 ATGTAAGTTAAATGTATTATGTAAGTTATGTAAGTTA-AATGTATTATGTA
1 -TGTAAGTTAAATGTATTATGTAAG-T-TGTAAGTTATTATGTATTATGTA
32468684 GGTTATGTAG
Statistics
Matches: 337, Mismatches: 11, Indels: 11
0.94 0.03 0.03
Matches are distributed among these distances:
49 24 0.07
50 46 0.14
51 221 0.66
52 1 0.00
53 23 0.07
54 13 0.04
55 9 0.03
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.46
Consensus pattern (51 bp):
TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGT
Found at i:32468698 original size:18 final size:18
Alignment explanation
Indices: 32468244--32468707 Score: 129
Period size: 18 Copynumber: 27.0 Consensus size: 18
32468234 AATTACAATG
32468244 GTAAG-TATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
32468261 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
32468279 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
*
32468297 GAAAG-T-TGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
*
32468313 -TATGTATTATGTAAG-T-T
1 GTAAG--TTATGTAAGTTAT
32468330 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
32468348 GTAAG-T-TGTAAGTTAAAT
1 GTAAGTTATGTAAGTT--AT
*
32468366 GT-A-TTGTGTAAG-T-T
1 GTAAGTTATGTAAGTTAT
*
32468380 GTAAGTTAT-TATGTATTAT
1 GTAAGTTATGTAAG--TTAT
32468399 GTAAG-T-TGTAAGTTAAT
1 GTAAGTTATGTAAGTT-AT
32468416 GT-A-TTATGTAAG-T-T
1 GTAAGTTATGTAAGTTAT
32468430 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
32468448 GTAAG-T-TGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
*
32468464 -TATGTATTATGTAAG-T-T
1 GTAAG--TTATGTAAGTTAT
*
32468481 GTAAGTTAAATGT-A-TTGT
1 GTAAGTT--ATGTAAGTTAT
32468499 GTAAG-T-TGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
*
32468515 -TATGTATTATGTAAG-T-T
1 GTAAG--TTATGTAAGTTAT
32468532 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
32468550 GTAAG-T-TGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
*
32468566 -TATGTATTATGTAAG-T-T
1 GTAAG--TTATGTAAGTTAT
32468583 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
*
32468601 GTACG-T-TGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
*
32468617 -TATGTATTATGTAAGTTAT
1 GTAAG--TTATGTAAGTTAT
32468636 GTAAGTTAAATGT-A-TTAT
1 GTAAGTT--ATGTAAGTTAT
32468654 GTAAGTTATGTAAGTTAAAT
1 GTAAGTTATGTAAGTT--AT
*
32468674 GT-A-TTATGTAGGTTAT
1 GTAAGTTATGTAAGTTAT
* *
32468690 GTAGGTTATGTAGGTTAT
1 GTAAGTTATGTAAGTTAT
32468708 TGTTATTAAA
Statistics
Matches: 344, Mismatches: 19, Indels: 167
0.65 0.04 0.32
Matches are distributed among these distances:
14 24 0.07
15 25 0.07
16 47 0.14
17 40 0.12
18 150 0.44
19 43 0.12
20 15 0.04
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (18 bp):
GTAAGTTATGTAAGTTAT
Found at i:32468860 original size:24 final size:22
Alignment explanation
Indices: 32468801--32468877 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 22
32468791 ATAATTATTG
*
32468801 TTAA-AATAAAATTTAATAA-A
1 TTAATAATATAATTTAATAACA
*
32468821 ATAAT-ATATAATTTAATAACA
1 TTAATAATATAATTTAATAACA
* *
32468842 TTACTAATATAATTATTAATAATA
1 TTAATAATATAA-T-TTAATAACA
*
32468866 TTAATAAAATAA
1 TTAATAATATAA
32468878 CATTTTATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
20 16 0.36
21 4 0.09
22 6 0.13
23 1 0.02
24 18 0.40
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (22 bp):
TTAATAATATAATTTAATAACA
Found at i:32469154 original size:13 final size:13
Alignment explanation
Indices: 32469136--32469177 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
32469126 TAAATTTTAG
*
32469136 TAAGTAATGTATT
1 TAAGTAATATATT
*
32469149 TAAGTAACATATT
1 TAAGTAATATATT
*
32469162 TAAGTAATAAATT
1 TAAGTAATATATT
32469175 TAA
1 TAA
32469178 ACAAATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:32469195 original size:40 final size:40
Alignment explanation
Indices: 32469149--32469408 Score: 242
Period size: 40 Copynumber: 6.6 Consensus size: 40
32469139 GTAATGTATT
** *
32469149 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
* *
32469189 TAAGTAATGTATTTTAGTAACAAATTTTAACAAATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
*
32469229 TAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
*
32469269 TAAGTAATTTATTTTAGTAAGTAATGTATTTTAGTAACAAA-TTTA-
1 TAAGTAATGTATTTTAGTAA-TAA---A-TTTA--AACAAATTTTAG
* *
32469314 -AA-CAA---ATTTTAGTAAGT-AATGT------ATTTTAG
1 TAAGTAATGTATTTTAGTAA-TAAATTTAAACAAATTTTAG
*
32469343 TAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTT-AG
*
32469384 TAAGTAATTTATTTTAGTAATAAAT
1 TAAGTAATGTATTTTAGTAATAAAT
32469409 GTATTTTAGT
Statistics
Matches: 183, Mismatches: 15, Indels: 43
0.76 0.06 0.18
Matches are distributed among these distances:
27 1 0.01
28 4 0.02
30 2 0.01
31 2 0.01
33 1 0.01
34 14 0.08
35 2 0.01
36 1 0.01
39 1 0.01
40 108 0.59
41 29 0.16
43 2 0.01
44 3 0.02
45 4 0.02
46 4 0.02
47 5 0.03
ACGTcount: A:0.43, C:0.03, G:0.10, T:0.43
Consensus pattern (40 bp):
TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
Found at i:32469204 original size:17 final size:17
Alignment explanation
Indices: 32469182--32469420 Score: 115
Period size: 17 Copynumber: 12.6 Consensus size: 17
32469172 ATTTAAACAA
32469182 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
** *
32469199 ATTTTAGTAACAAATTTT
1 ATTTTAGTAAGTAA-TGT
32469217 AACAAATTTTAGTAAGTAATGT
1 ----A-TTTTAGTAAGTAATGT
*
32469239 ATTTTAGTAA-TAAATTTAAT
1 ATTTTAGTAAGT-AA--T-GT
*
32469259 CAAATTTTAGTAAGTAATTT
1 --A-TTTTAGTAAGTAATGT
32469279 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
** *
32469296 ATTTTAGTAACAAATTT
1 ATTTTAGTAAGTAATGT
32469313 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATGT
32469336 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
32469353 ATTTTAGTAA-TAAATTTAAT
1 ATTTTAGTAAGT-AA--T-GT
*
32469373 CAAATTTTAAGTAAGTAATTT
1 ---ATTTT-AGTAAGTAATGT
32469394 ATTTTAGTAA-TAAATGT
1 ATTTTAGTAAGT-AATGT
32469411 ATTTTAGTAA
1 ATTTTAGTAA
32469421 TAAATTTAAA
Statistics
Matches: 174, Mismatches: 18, Indels: 60
0.69 0.07 0.24
Matches are distributed among these distances:
16 3 0.02
17 100 0.57
18 9 0.05
19 2 0.01
20 3 0.02
21 2 0.01
22 5 0.03
23 41 0.24
24 8 0.05
25 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.45
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:32469283 original size:57 final size:57
Alignment explanation
Indices: 32469222--32469460 Score: 417
Period size: 57 Copynumber: 4.2 Consensus size: 57
32469212 ATTTTAACAA
*
32469222 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAGTAAGTAATTT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTT
* *
32469279 ATTTTAGTAAGTAATGTATTTTAGTAACAAATTTAAACAAATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTT
*
32469336 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAAGTAAGTAATTT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTT-AGTAAGTAATTT
32469394 ATTTTAGTAA-TAAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTT
1 ATTTTAGTAAGT-AATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTT
32469451 ATTTTAGTAA
1 ATTTTAGTAA
32469461 TAAATTTAAC
Statistics
Matches: 173, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
57 120 0.69
58 53 0.31
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (57 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTT
Found at i:32469430 original size:115 final size:114
Alignment explanation
Indices: 32469222--32469460 Score: 435
Period size: 115 Copynumber: 2.1 Consensus size: 114
32469212 ATTTTAACAA
32469222 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAGTAAGTAATTTATTTTAGT
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAGTAAGTAATTTATTTTAGT
32469287 AAGTAATGTATTTTAGTAACAAATTTAAACAAATTTTAGTAAGTAATGT
66 AAGTAATGTATTTTAGTAACAAATTTAAACAAATTTTAGTAAGTAATGT
32469336 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAAGTAAGTAATTTATTTTAG
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTT-AGTAAGTAATTTATTTTAG
* *
32469401 TAA-TAAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTT
65 TAAGT-AATGTATTTTAGTAACAAATTTAAACAAATTTTAGTAAGTAATGT
32469451 ATTTTAGTAA
1 ATTTTAGTAA
32469461 TAAATTTAAC
Statistics
Matches: 121, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
114 46 0.38
115 75 0.62
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (114 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAATCAAATTTTAGTAAGTAATTTATTTTAGT
AAGTAATGTATTTTAGTAACAAATTTAAACAAATTTTAGTAAGTAATGT
Found at i:32469454 original size:40 final size:40
Alignment explanation
Indices: 32469394--32469469 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
32469384 TAAGTAATTT
32469394 ATTTTAGTAATAAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAATAAATGTATTTTAGTAATAAATTTAAACAA
*
32469434 ATTTTAGTAAGT-AATTTATTTTAGTAATAAATTTAA
1 ATTTTAGTAA-TAAATGTATTTTAGTAATAAATTTAA
32469470 CATTCAATCG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 33 0.97
41 1 0.03
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.46
Consensus pattern (40 bp):
ATTTTAGTAATAAATGTATTTTAGTAATAAATTTAAACAA
Found at i:32469468 original size:17 final size:17
Alignment explanation
Indices: 32469222--32469460 Score: 126
Period size: 17 Copynumber: 12.6 Consensus size: 17
32469212 ATTTTAACAA
*
32469222 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATTT
32469239 ATTTTAGTAA-TAAATTTAAT
1 ATTTTAGTAAGT-AA-TT--T
32469259 CAAATTTTAGTAAGTAATTT
1 ---ATTTTAGTAAGTAATTT
*
32469279 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATTT
**
32469296 ATTTTAGTAACAAATTT
1 ATTTTAGTAAGTAATTT
*
32469313 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATTT
*
32469336 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATTT
32469353 ATTTTAGTAA-TAAATTTAAT
1 ATTTTAGTAAGT-AA-TT--T
32469373 CAAATTTTAAGTAAGTAATTT
1 ---ATTTT-AGTAAGTAATTT
*
32469394 ATTTTAGTAA-TAAATGT
1 ATTTTAGTAAGT-AATTT
32469411 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATTT
32469428 AAACAAATTTTAGTAAGTAATTT
1 ------ATTTTAGTAAGTAATTT
32469451 ATTTTAGTAA
1 ATTTTAGTAA
32469461 TAAATTTAAC
Statistics
Matches: 180, Mismatches: 11, Indels: 62
0.71 0.04 0.25
Matches are distributed among these distances:
16 3 0.02
17 106 0.59
18 7 0.04
20 3 0.02
21 1 0.01
22 2 0.01
23 48 0.27
24 9 0.05
25 1 0.01
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (17 bp):
ATTTTAGTAAGTAATTT
Found at i:32474531 original size:39 final size:39
Alignment explanation
Indices: 32474488--32474634 Score: 147
Period size: 40 Copynumber: 3.7 Consensus size: 39
32474478 TGTATTATTT
* *
32474488 GCGGCGTTTT-TTATAAACGCTGCTAATGTTCACTCTTTA
1 GCGGCGTTTTCTT-TAAACGCCGCTAATGCTCACTCTTTA
*
32474527 GCGGCGCTTTTCCTTT-AACGCCACTAATGCTCACTCTTTA
1 GCGGCG-TTTT-CTTTAAACGCCGCTAATGCTCACTCTTTA
*
32474567 GCAGTGC-TTTTCCTTAAACGCCGCTAATGCTCACTCTTTA
1 GC-G-GCGTTTTCTTTAAACGCCGCTAATGCTCACTCTTTA
* **
32474607 GCAGCGTTTTTGCTCCAAACGCCGCTAA
1 GCGGCG-TTTT-CTTTAAACGCCGCTAA
32474635 AAGTGCCGCT
Statistics
Matches: 90, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
38 2 0.02
39 9 0.10
40 60 0.67
41 15 0.17
42 4 0.04
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.35
Consensus pattern (39 bp):
GCGGCGTTTTCTTTAAACGCCGCTAATGCTCACTCTTTA
Found at i:32474554 original size:40 final size:40
Alignment explanation
Indices: 32474501--32474617 Score: 162
Period size: 40 Copynumber: 2.9 Consensus size: 40
32474491 GCGTTTTTTA
** * *
32474501 TAAACGCTGCTAATGTTCACTCTTTAGCGGCGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCAGCGCTTTTCCT
* *
32474541 TTAACGCCACTAATGCTCACTCTTTAGCAGTGCTTTTCCT
1 TAAACGCCACTAATGCTCACTCTTTAGCAGCGCTTTTCCT
* *
32474581 TAAACGCCGCTAATGCTCACTCTTTAGCAGCGTTTTT
1 TAAACGCCACTAATGCTCACTCTTTAGCAGCGCTTTT
32474618 GCTCCAAACG
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.37
Consensus pattern (40 bp):
TAAACGCCACTAATGCTCACTCTTTAGCAGCGCTTTTCCT
Found at i:32474554 original size:111 final size:112
Alignment explanation
Indices: 32474302--32474536 Score: 429
Period size: 111 Copynumber: 2.1 Consensus size: 112
32474292 AACACCTAGA
**
32474302 TTAGCGGCATTTTAC-AAAAACGCCACTAATTCCCCCCCAAAGGACACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAAAAAACGCCACTAATTCCCCCCCAAAGGACACAAAACGGCACCGTCTGG
32474366 GTGTATTATTTGCGGCGTTTTTTATAAACGCTGCTAATGTTCACTCT
66 GTGTATTATTTGCGGCGTTTTTTATAAACGCTGCTAATGTTCACTCT
*
32474413 TTAGCGGCGCTTTACAAAAAACGCCACTAATT-CCCCCCAAAGGCCACAAAACGGCACCGTCTGG
1 TTAGCGGCGCTTTACAAAAAACGCCACTAATTCCCCCCCAAAGGACACAAAACGGCACCGTCTGG
32474477 GTGTATTATTTGCGGCGTTTTTTATAAACGCTGCTAATGTTCACTCT
66 GTGTATTATTTGCGGCGTTTTTTATAAACGCTGCTAATGTTCACTCT
32474524 TTAGCGGCGCTTT
1 TTAGCGGCGCTTT
32474537 TCCTTTAACG
Statistics
Matches: 120, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
111 104 0.87
112 16 0.13
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (112 bp):
TTAGCGGCGCTTTACAAAAAACGCCACTAATTCCCCCCCAAAGGACACAAAACGGCACCGTCTGG
GTGTATTATTTGCGGCGTTTTTTATAAACGCTGCTAATGTTCACTCT
Found at i:32484420 original size:16 final size:16
Alignment explanation
Indices: 32484378--32484420 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
32484368 ACTGCTTGTA
* *
32484378 ATCGATGCATAATCTC
1 ATCGATCCATCATCTC
32484394 ATCGATCCATCATCTC
1 ATCGATCCATCATCTC
32484410 ATCGATCCATC
1 ATCGATCCATC
32484421 TTTCTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.28, C:0.33, G:0.09, T:0.30
Consensus pattern (16 bp):
ATCGATCCATCATCTC
Found at i:32491755 original size:17 final size:16
Alignment explanation
Indices: 32491711--32491756 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
32491701 TTGAAAAAGA
32491711 ATTATAACTATTTAAAT
1 ATTATAA-TATTTAAAT
*
32491728 A--ATATTATTTAAAT
1 ATTATAATATTTAAAT
32491742 AGTTATAATATTTAA
1 A-TTATAATATTTAA
32491757 TGAATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
17 11 0.46
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (16 bp):
ATTATAATATTTAAAT
Found at i:32493825 original size:19 final size:19
Alignment explanation
Indices: 32493803--32493839 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
32493793 TCTTTTCCAC
* *
32493803 ATTTTAATAAATTTTTCAT
1 ATTTAAATAAATATTTCAT
32493822 ATTTAAATAAATATTTCA
1 ATTTAAATAAATATTTCA
32493840 AAATTTGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTAAATAAATATTTCAT
Found at i:32496931 original size:22 final size:20
Alignment explanation
Indices: 32496899--32496955 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
32496889 AATATTAGAT
32496899 ATATATATAATAGTATAAAAAA
1 ATATA-ATAATA-TATAAAAAA
**
32496921 ATATAACTAATA-ATATTAAA
1 ATATAA-TAATATATAAAAAA
32496941 ATATAATAATATATA
1 ATATAATAATATATA
32496956 TAATATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 5 0.16
20 15 0.48
21 1 0.03
22 10 0.32
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
ATATAATAATATATAAAAAA
Found at i:32496941 original size:20 final size:20
Alignment explanation
Indices: 32496847--32496956 Score: 68
Period size: 21 Copynumber: 5.3 Consensus size: 20
32496837 ACATACATAC
32496847 ATATA-TAAATATATATATAAT
1 ATATATTAAA-ATATA-ATAAT
*
32496868 A-GTATTAGAAATATACCAT-AT
1 ATATATTA-AAATATA--ATAAT
*
32496889 A-ATATTAGATATATATATAAT
1 ATATATTA-AAATATA-ATAAT
**
32496910 AGTATAAAAAAATATAACTAAT
1 A-TATATTAAAATATAA-TAAT
32496932 A-ATATTAAAATATAATAAT
1 ATATATTAAAATATAATAAT
32496951 ATATAT
1 ATATAT
32496957 AATATAATAT
Statistics
Matches: 71, Mismatches: 10, Indels: 17
0.72 0.10 0.17
Matches are distributed among these distances:
19 5 0.07
20 20 0.28
21 27 0.38
22 15 0.21
23 4 0.06
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.37
Consensus pattern (20 bp):
ATATATTAAAATATAATAAT
Found at i:32496955 original size:30 final size:30
Alignment explanation
Indices: 32496912--32496971 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
32496902 TATATAATAG
*
32496912 TATAAAAAAATATA-ACTAATAATATTAAAA
1 TATAAAAAAATATATAAT-ATAATATTAAAA
* *
32496942 TATAATAATATATATAATATAATATTAAAA
1 TATAAAAAAATATATAATATAATATTAAAA
32496972 ACTTATATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (30 bp):
TATAAAAAAATATATAATATAATATTAAAA
Found at i:32496966 original size:12 final size:12
Alignment explanation
Indices: 32496847--32496962 Score: 55
Period size: 12 Copynumber: 9.4 Consensus size: 12
32496837 ACATACATAC
32496847 ATATATAA-ATA
1 ATATATAATATA
32496858 TATATATAATAGTA
1 -ATATATAATA-TA
* *
32496872 TTAGA-AATATA
1 ATATATAATATA
**
32496883 CCATATAATATTA
1 ATATATAATA-TA
32496896 GATATAT-ATATA
1 -ATATATAATATA
32496908 ATAGTATAA-A-A
1 ATA-TATAATATA
*
32496919 AAATATAACTAATA
1 ATATATAA-T-ATA
*
32496933 ATATTAAAATATA
1 ATA-TATAATATA
32496946 ATA-ATATATATA
1 ATATATA-ATATA
32496958 ATATA
1 ATATA
32496963 ATATTAAAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 27
0.68 0.09 0.23
Matches are distributed among these distances:
10 5 0.06
11 12 0.15
12 30 0.38
13 18 0.23
14 10 0.13
15 4 0.05
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (12 bp):
ATATATAATATA
Found at i:32497270 original size:21 final size:23
Alignment explanation
Indices: 32497246--32497293 Score: 73
Period size: 21 Copynumber: 2.1 Consensus size: 23
32497236 AATAATACTT
32497246 TAAAAATAAT-TAAT-ATATTAA
1 TAAAAATAATATAATAATATTAA
32497267 TAAAAATAATAGTAATAATATTAA
1 TAAAAATAATA-TAATAATATTAA
32497291 TAA
1 TAA
32497294 TATGTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.42
23 4 0.17
24 10 0.42
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
TAAAAATAATATAATAATATTAA
Found at i:32497295 original size:21 final size:21
Alignment explanation
Indices: 32497232--32497295 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
32497222 TAATCATTAG
*
32497232 TAGTAATAATACTTTAAAAATAA
1 TAGTAATAATA--TTAATAATAA
32497255 T--TAAT-ATATTAATAAAAATAA
1 TAGTAATAATATTAAT---AATAA
32497276 TAGTAATAATATTAATAATA
1 TAGTAATAATATTAATAATA
32497296 TGTAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 14
0.69 0.02 0.29
Matches are distributed among these distances:
18 4 0.12
20 3 0.09
21 14 0.41
23 5 0.15
24 8 0.24
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (21 bp):
TAGTAATAATATTAATAATAA
Found at i:32497781 original size:20 final size:19
Alignment explanation
Indices: 32497758--32497803 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
32497748 AGGAAGAGGA
*
32497758 GGGAGAGAAAAGAGGGAGCG
1 GGGAGAGAAAAGAGGG-GAG
* *
32497778 GGGAAAGAAGAGAGGGGAG
1 GGGAGAGAAAAGAGGGGAG
32497797 GGGAGAG
1 GGGAGAG
32497804 CTCCGGCCGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.39, C:0.02, G:0.59, T:0.00
Consensus pattern (19 bp):
GGGAGAGAAAAGAGGGGAG
Found at i:32497920 original size:9 final size:8
Alignment explanation
Indices: 32497888--32497927 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
32497878 AAGGTAAAAA
32497888 TTTA-ATT
1 TTTATATT
32497895 TTT-T-TT
1 TTTATATT
32497901 TTTATATT
1 TTTATATT
32497909 TTTATATGT
1 TTTATAT-T
32497918 TTTATATT
1 TTTATATT
32497926 TT
1 TT
32497928 GCACTATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
6 5 0.17
7 4 0.14
8 12 0.41
9 8 0.28
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (8 bp):
TTTATATT
Found at i:32499388 original size:127 final size:128
Alignment explanation
Indices: 32499158--32499398 Score: 324
Period size: 127 Copynumber: 1.9 Consensus size: 128
32499148 AGCATGTGAC
* * * *
32499158 AAAGGCTCAACTCACTTTTCGCAATATGAGTTGATTTTTTTTTTGACAACAGAAATTGAAATTAC
1 AAAGGCTCAACCCACCTCTCGCAATATGAGTTGA---TTTTTTTGACAACAGAAATTGAAAATAC
** *
32499223 CTCAGCGTGTTCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTCGAAAAAGTAGAAATT
63 CTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTCGAAAAAGTAGAAATT
32499288 A
128 A
* * *
32499289 AAAGGTTCAACCCACCTCTCGCAATATGAGTTGA-TTTTTTGA-AAGTAGAATTTGAAAATACCT
1 AAAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTGACAA-CAGAAATTGAAAATACCT
* *
32499352 CGGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
65 CAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTT
32499399 TTGAAAAACA
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
126 2 0.02
127 65 0.67
131 30 0.31
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (128 bp):
AAAGGCTCAACCCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAAATACCTC
AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTCGAAAAAGTAGAAATTA
Found at i:32499417 original size:73 final size:73
Alignment explanation
Indices: 32499295--32499697 Score: 474
Period size: 73 Copynumber: 5.5 Consensus size: 73
32499285 ATTAAAAGGT
* ** * * * *
32499295 TCAACCCACCTCTCGCAATATGAGTTGATTTTTTG-AAAGTAGAATTTGAAAATACCTCGGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAAAAATTGAAATTACCTCAGCGTG
* *
32499359 CCCCGAGGC
65 TCCTGAGGC
* *
32499368 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAACTTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAATTACCTCAGCGTGT
32499433 CCTGAGGC
66 CCTGAGGC
*
32499441 TCAACTCACCTCTTGCAATATGAGTTGA-TTTTGAAAAACAAAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAATTACCTCAGCGTGT
32499505 CCTGAGGC
66 CCTGAGGC
* ** * * ** *
32499513 TCAACCCATTTCTCGCAACATAAGTTGAAATTTGGAAAACAAAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAATTACCTCAGCGTGT
32499578 CCTGAGGC
66 CCTGAGGC
*
32499586 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAAAAATTTAAAAGAAA-TACCTCG
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAAAAA-TT----GAAATTACCTCA
* * *
32499649 GCATGACCCGAGGC
60 GCGTGTCCTGAGGC
* *
32499663 TCAACTCACCTCT-GTATTATGAGTTGATTTTTGAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
32499698 CACAGAATTT
Statistics
Matches: 288, Mismatches: 33, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
72 70 0.24
73 159 0.55
74 6 0.02
75 6 0.02
76 13 0.05
77 30 0.10
78 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (73 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAAAAATTGAAATTACCTCAGCGTGT
CCTGAGGC
Found at i:32499559 original size:145 final size:145
Alignment explanation
Indices: 32499295--32499675 Score: 467
Period size: 145 Copynumber: 2.6 Consensus size: 145
32499285 ATTAAAAGGT
* ** * * *
32499295 TCAACCCACCTCTCGCAATATGAGTTGATTTTTTGAAAGTAGAATTTGAAAATACCTCGGCGTGC
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAAAAATTGAAAATACCTCAGCGTGC
* * * ** * *
32499360 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAACTTACCT
65 CCCGAGGCTCAACCCACCTCTCGCAACATAAGTTGAAATTTGAAAAACAAAAATTGAAATTACCT
32499425 CAGCGTGTCCTGAGGC
130 CAGCGTGTCCTGAGGC
* * *
32499441 TCAACTCACCTCTTGCAATATGAGTTGA-TTTTGAAAAACAAAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAAAAATTGAAAATACCTCAGCGTGC
* ** *
32499505 CCTGAGGCTCAACCCATTTCTCGCAACATAAGTTGAAATTTGGAAAACAAAAATTGAAATTACCT
65 CCCGAGGCTCAACCCACCTCTCGCAACATAAGTTGAAATTTGAAAAACAAAAATTGAAATTACCT
32499570 CAGCGTGTCCTGAGGC
130 CAGCGTGTCCTGAGGC
* *
32499586 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATTTAAAAGAAATACCTCGGC
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAAAAA-TT--GA-AAATACCTCAGC
* * *
32499651 ATGACCCGAGGCTCAACTCACCTCT
61 GTGCCCCGAGGCTCAACCCACCTCT
32499676 GTATTATGAG
Statistics
Matches: 198, Mismatches: 30, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
144 5 0.03
145 120 0.61
146 36 0.18
147 7 0.04
149 1 0.01
150 29 0.15
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (145 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTGAAAATACCTCAGCGTGCC
CCGAGGCTCAACCCACCTCTCGCAACATAAGTTGAAATTTGAAAAACAAAAATTGAAATTACCTC
AGCGTGTCCTGAGGC
Found at i:32499833 original size:55 final size:55
Alignment explanation
Indices: 32499746--32499883 Score: 169
Period size: 55 Copynumber: 2.5 Consensus size: 55
32499736 ATGTGACCCG
* *
32499746 AGGC-TCAACTCACCTCT-GTATTATGAGTTGA-TTTTGAAAAAAGTAGAAATTAAA
1 AGGCTTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAA-TAGAAATTAAA
* *
32499800 AGG-TTCAACCCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGGAATTAAA
1 AGGCTTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATAGAAATTAAA
*
32499855 AGGCTT-AACTCACTTCTCGCAATATGAGT
1 AGGCTTCAACTCACCTCTCGCAATATGAGT
32499884 CAATTTAAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
54 15 0.21
55 46 0.63
56 7 0.10
57 5 0.07
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (55 bp):
AGGCTTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAGAAATTAAA
Found at i:32511483 original size:40 final size:40
Alignment explanation
Indices: 32511400--32511662 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
32511390 TTGAATGCTG
* * * * * *
32511400 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
32511440 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
32511480 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
32511520 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
32511560 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
32511600 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
32511639 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
32511663 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:32511682 original size:79 final size:80
Alignment explanation
Indices: 32511439--32511697 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
32511429 AAGTGAATAT
* * * * * * *
32511439 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
32511503 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
32511519 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
32511584 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
32511599 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
32511663 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
32511678 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
32511698 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:32518988 original size:40 final size:40
Alignment explanation
Indices: 32518905--32519167 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
32518895 TTGAATGCTG
* * * * * *
32518905 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
32518945 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
32518985 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
32519025 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
32519065 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
32519105 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
32519144 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
32519168 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:32519187 original size:79 final size:80
Alignment explanation
Indices: 32518944--32519202 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
32518934 AAGTGAATAT
* * * * * * *
32518944 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
32519008 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
32519024 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
32519089 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
32519104 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
32519168 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
32519183 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
32519203 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:32523262 original size:12 final size:12
Alignment explanation
Indices: 32523247--32523374 Score: 65
Period size: 12 Copynumber: 10.5 Consensus size: 12
32523237 ACATACATAC
32523247 ATATATAAATAT
1 ATATATAAATAT
32523259 ATATATAAATAAT
1 ATATATAAAT-AT
*
32523272 AGTATTAGAAATAT
1 A-TA-TATAAATAT
*
32523286 ACCATAT-AATATT
1 A-TATATAAATA-T
* *
32523299 AGATATATATAT
1 ATATATAAATAT
32523311 AATAGTATAAA-A-
1 -ATA-TATAAATAT
*
32523323 ATATATAACTA-
1 ATATATAAATAT
32523334 ATAATATTAAA-AT
1 AT-ATA-TAAATAT
32523347 ATATA-ATAATAT
1 ATATATA-AATAT
32523359 ATATA-AAATAT
1 ATATATAAATAT
32523370 A-ATAT
1 ATATAT
32523375 TAAAAACTTA
Statistics
Matches: 92, Mismatches: 10, Indels: 29
0.70 0.08 0.22
Matches are distributed among these distances:
10 9 0.10
11 14 0.15
12 34 0.37
13 18 0.20
14 11 0.12
15 6 0.07
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (12 bp):
ATATATAAATAT
Found at i:32523293 original size:42 final size:41
Alignment explanation
Indices: 32523246--32523370 Score: 103
Period size: 42 Copynumber: 3.0 Consensus size: 41
32523236 TACATACATA
* *
32523246 CATAT-ATAAATATATATATAAATAATAGTATTAGAAATATAC
1 CATATAAT-AATAGATATATAAATAATAGTA-TAAAAATATAC
* * *
32523288 CATATAATATTAGATATATATATAATAGTATAAAAATATAT
1 CATATAATAATAGATATATAAATAATAGTATAAAAATATAC
* * *
32523329 AACTAATAATATTA-AAATATATAATAATA-TATATAAAATATA
1 CA-T-ATAATAATAGATATATA-AATAATAGTATA-AAAATATA
32523371 ATATTAAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
41 10 0.14
42 35 0.50
43 25 0.36
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (41 bp):
CATATAATAATAGATATATAAATAATAGTATAAAAATATAC
Found at i:32523677 original size:21 final size:23
Alignment explanation
Indices: 32523653--32523700 Score: 73
Period size: 21 Copynumber: 2.1 Consensus size: 23
32523643 AATAATACTT
32523653 TAAAAATAAT-TAAT-ATATTAA
1 TAAAAATAATATAATAATATTAA
32523674 TAAAAATAATAGTAATAATATTAA
1 TAAAAATAATA-TAATAATATTAA
32523698 TAA
1 TAA
32523701 TATGTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 10 0.42
23 4 0.17
24 10 0.42
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
TAAAAATAATATAATAATATTAA
Found at i:32523702 original size:21 final size:21
Alignment explanation
Indices: 32523639--32523702 Score: 53
Period size: 21 Copynumber: 3.0 Consensus size: 21
32523629 TAATCATTAG
*
32523639 TAGTAATAATACTTTAAAAATAA
1 TAGTAATAATA--TTAATAATAA
32523662 T--TAAT-ATATTAATAAAAATAA
1 TAGTAATAATATTAAT---AATAA
32523683 TAGTAATAATATTAATAATA
1 TAGTAATAATATTAATAATA
32523703 TGTAAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 14
0.69 0.02 0.29
Matches are distributed among these distances:
18 4 0.12
20 3 0.09
21 14 0.41
23 5 0.15
24 8 0.24
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (21 bp):
TAGTAATAATATTAATAATAA
Found at i:32524188 original size:20 final size:19
Alignment explanation
Indices: 32524165--32524210 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
32524155 AGGAAGAGGA
*
32524165 GGGAGAGAAAAGAGGGAGCG
1 GGGAGAGAAAAGAGGG-GAG
* *
32524185 GGGAAAGAAGAGAGGGGAG
1 GGGAGAGAAAAGAGGGGAG
32524204 GGGAGAG
1 GGGAGAG
32524211 CTCCGGCCGC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.39, C:0.02, G:0.59, T:0.00
Consensus pattern (19 bp):
GGGAGAGAAAAGAGGGGAG
Found at i:32525518 original size:22 final size:23
Alignment explanation
Indices: 32525488--32525531 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
32525478 TGTTGATTCT
*
32525488 TATGTTTTAGA-TTTAGGGTTTG
1 TATGATTTAGAGTTTAGGGTTTG
*
32525510 TATGATTTATAGTTTAGGGTTT
1 TATGATTTAGAGTTTAGGGTTT
32525532 AATGTTGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (23 bp):
TATGATTTAGAGTTTAGGGTTTG
Found at i:32526986 original size:23 final size:23
Alignment explanation
Indices: 32526960--32527003 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
32526950 GGTTTTTTCT
32526960 TAGATTGGGTATTGTCGTATTTA
1 TAGATTGGGTATTGTCGTATTTA
32526983 TAGATTGGGTATTGTCGTATT
1 TAGATTGGGTATTGTCGTATT
32527004 CTTCACATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.05, G:0.27, T:0.48
Consensus pattern (23 bp):
TAGATTGGGTATTGTCGTATTTA
Found at i:32527300 original size:24 final size:24
Alignment explanation
Indices: 32527273--32527324 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 24
32527263 AAAAATAAAA
32527273 ATAAAAA-TTAACCTTT-CAAATGTT
1 ATAAAAACTTAA--TTTCCAAATGTT
32527297 ATAAAAACTTTAATTTCCAAATGTT
1 ATAAAAAC-TTAATTTCCAAATGTT
32527322 ATA
1 ATA
32527325 TATGAGATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 10 0.40
25 11 0.44
26 4 0.16
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (24 bp):
ATAAAAACTTAATTTCCAAATGTT
Found at i:32535688 original size:41 final size:41
Alignment explanation
Indices: 32535631--32535713 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
32535621 AAGGGTAAGG
*
32535631 TATGAGATTAAGATCCTCAATGTAAGAAGGCCTTTAACCAA
1 TATGAGATTAAGATCCTCAATGTAAGAAGACCTTTAACCAA
* *
32535672 TATGAGATTGAGATCCTCAATGTGAGAAGACCTTTAACCAA
1 TATGAGATTAAGATCCTCAATGTAAGAAGACCTTTAACCAA
32535713 T
1 T
32535714 TGAAGCAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (41 bp):
TATGAGATTAAGATCCTCAATGTAAGAAGACCTTTAACCAA
Found at i:32545428 original size:27 final size:27
Alignment explanation
Indices: 32545390--32545594 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
32545380 TAAAATGTAC
32545390 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
32545417 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
32545444 TGCACTAAGTGTGCGAAATGA--ATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32545469 GATGCACTAAGTGTGCGAATTGACCATGC
1 -A-GCACTAAGTGTGCGATTTGACTATGT
*
32545498 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
32545526 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
32545553 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
32545580 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
32545595 GACTCAATAT
Statistics
Matches: 156, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
25 4 0.03
27 126 0.81
28 23 0.15
29 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:32545585 original size:109 final size:108
Alignment explanation
Indices: 32545391--32545594 Score: 311
Period size: 109 Copynumber: 1.9 Consensus size: 108
32545381 AAAATGTACA
* *
32545391 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
*
32545456 GCGAAATGAATGTGATGCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
*
32545499 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
32545564 TGCGAGTTGATTAT-ATAGCACTGAGTGTGCG
65 TGCGAAATGAATATGAT-GCACTAAGTGTGCG
32545595 GACTCAATAT
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
108 17 0.20
109 69 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
Found at i:32548330 original size:16 final size:17
Alignment explanation
Indices: 32548290--32548334 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
32548280 TACATTATTT
32548290 ATTAAATTAA-TTT-AA
1 ATTAAATTAATTTTCAA
32548305 A-TAAATTAATTTTCAA
1 ATTAAATTAATTTTCAA
32548321 ATTAAA-TAATTTTC
1 ATTAAATTAATTTTC
32548335 TCAACCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.30
15 4 0.15
16 11 0.41
17 4 0.15
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAAATTAATTTTCAA
Found at i:32548572 original size:63 final size:64
Alignment explanation
Indices: 32548497--32548623 Score: 159
Period size: 63 Copynumber: 2.0 Consensus size: 64
32548487 ATTTTTTAGG
* * * *
32548497 TCATTTTTATTTTCATTTTGGAGAAAACCACATTTATTTCCAAATAATTT-C-ATTTCTCCATTT
1 TCATTTTCATTTTCATCTTGGAGAAAACCACAATCATTTCCAAAT-ATTTCCTATTTCTCCATTT
* ** *
32548560 TCATTTTCATTTTTATCTTGGAGAAAACCTTAATCATTTCCAAATGTTTCCTATTTCTCCATTT
1 TCATTTTCATTTTCATCTTGGAGAAAACCACAATCATTTCCAAATATTTCCTATTTCTCCATTT
32548624 CACCATTTCT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
62 3 0.06
63 39 0.72
64 12 0.22
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.49
Consensus pattern (64 bp):
TCATTTTCATTTTCATCTTGGAGAAAACCACAATCATTTCCAAATATTTCCTATTTCTCCATTT
Found at i:32555932 original size:44 final size:44
Alignment explanation
Indices: 32555869--32555958 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
32555859 TCACATGGCC
* *
32555869 TTACCCCACGATCGTGTGACCTCTGTTTTCTAATTTTTACATCT
1 TTACCACACGATCGTGTGACCTCTATTTTCTAATTTTTACATCT
*
32555913 TTACCACATGATCGTGTGACCTCTATTTTCTAATTTTTACATCT
1 TTACCACACGATCGTGTGACCTCTATTTTCTAATTTTTACATCT
32555957 TT
1 TT
32555959 TTCTTAAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.46
Consensus pattern (44 bp):
TTACCACACGATCGTGTGACCTCTATTTTCTAATTTTTACATCT
Found at i:32571877 original size:10 final size:10
Alignment explanation
Indices: 32571864--32571898 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
32571854 CAAAAATTCA
32571864 AAAAATTTTC
1 AAAAATTTTC
*
32571874 AAAAATTTGC
1 AAAAATTTTC
*
32571884 AAAAATTTTG
1 AAAAATTTTC
32571894 AAAAA
1 AAAAA
32571899 ATTATATGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (10 bp):
AAAAATTTTC
Found at i:32577413 original size:18 final size:18
Alignment explanation
Indices: 32577377--32577414 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
32577367 CATTTCAACA
**
32577377 TTGTATGATGACAGTATT
1 TTGTATGATGACAAAATT
32577395 TTGTATGATGACAAAATT
1 TTGTATGATGACAAAATT
32577413 TT
1 TT
32577415 ATCGAAGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (18 bp):
TTGTATGATGACAAAATT
Found at i:32590141 original size:39 final size:39
Alignment explanation
Indices: 32590098--32590316 Score: 325
Period size: 39 Copynumber: 5.6 Consensus size: 39
32590088 CATATTCACT
* * *
32590098 TTTAAGCGTATATCACATTACACATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
32590137 TTTAAGCATATATCACAATACTCATATAATCACATAAC-
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
32590175 TTTCAAAG-ATATATCACAATACTCATTTAATCACATAGCA
1 TTT--AAGCATATATCACAATACTCATATAATCACATAACA
*
32590215 TTTAAGCATATATCATAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * *
32590254 TTCAAGCATATATCATAATACTTATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
32590293 TTTAAGCATATATCACAATACTCA
1 TTTAAGCATATATCACAATACTCA
32590317 AAAATATGTT
Statistics
Matches: 163, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
38 6 0.04
39 151 0.93
40 6 0.04
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Done.