Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 35 of 126
Found at i:10650323 original size:21 final size:21
Alignment explanation
Indices: 10650276--10650323 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
10650266 TTTGTTCTAC
* *
10650276 CGGTAAAAGTCATGATTGTAT
1 CGGTAGAAGTCATGATGGTAT
10650297 CGGTAGAAGTCA-GATAGGTAT
1 CGGTAGAAGTCATGAT-GGTAT
10650318 CGGTAG
1 CGGTAG
10650324 TTTGTCCTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.27
Consensus pattern (21 bp):
CGGTAGAAGTCATGATGGTAT
Found at i:10650741 original size:14 final size:15
Alignment explanation
Indices: 10650712--10650759 Score: 80
Period size: 15 Copynumber: 3.3 Consensus size: 15
10650702 TAGATTCATG
10650712 TCATTCAAAGTTGTT
1 TCATTCAAAGTTGTT
*
10650727 TCATTC-AACTTGTT
1 TCATTCAAAGTTGTT
10650741 TCATTCAAAGTTGTT
1 TCATTCAAAGTTGTT
10650756 TCAT
1 TCAT
10650760 GAAAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 13 0.43
15 17 0.57
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.48
Consensus pattern (15 bp):
TCATTCAAAGTTGTT
Found at i:10654291 original size:31 final size:30
Alignment explanation
Indices: 10654220--10654291 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
10654210 CTTTTTTTTT
* *
10654220 TAGTTAAATTTGACTTTCAATCTTTTAAAA
1 TAGTTGAATTTGACTTTCAATCTTTAAAAA
*
10654250 TGAGTCGAATTTGA-TTATCAATCTTTCAAAAA
1 T-AGTTGAATTTGACTT-TCAATCTTT-AAAAA
10654282 TAGTTGAATT
1 TAGTTGAATT
10654292 GTTGTTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 3 0.09
31 27 0.77
32 5 0.14
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (30 bp):
TAGTTGAATTTGACTTTCAATCTTTAAAAA
Found at i:10654632 original size:37 final size:38
Alignment explanation
Indices: 10654555--10654639 Score: 102
Period size: 38 Copynumber: 2.3 Consensus size: 38
10654545 GTCAAGGCTG
* * * * *
10654555 ACCTTTAAAAAAGGTTGGGATAAACCTTGTTTAAGGCA
1 ACCTTTAAAAAAGATTAGGATAAACCTCGTCTAAGACA
*
10654593 ACCTTTAAAAAAGATTAGGATAGACC-CGTCTAAGACA
1 ACCTTTAAAAAAGATTAGGATAAACCTCGTCTAAGACA
10654630 ACC-TTAAAAA
1 ACCTTTAAAAA
10654640 GGTAAACCTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
36 7 0.17
37 11 0.27
38 23 0.56
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (38 bp):
ACCTTTAAAAAAGATTAGGATAAACCTCGTCTAAGACA
Found at i:10654780 original size:72 final size:72
Alignment explanation
Indices: 10654695--10654846 Score: 182
Period size: 72 Copynumber: 2.1 Consensus size: 72
10654685 CGTCTAAGGC
* * * *
10654695 TTAAAAAAAGTTGGAA-ATGACACGTCTAAGGCAACCTT-AAAAGGTTGGGATAAGCCTTGTCTG
1 TTAAAAAAAGTTGGAATA-GACACGTCTAAGACAACCTTAAAAAAGTTGGGATAA-CCTTGTATA
10654758 AGGCAACCT
64 AGGCAACCT
* * * * *
10654767 TTAAAAAAAGTTGGGATAGGCCCGTTTAAGATAACCTTAAAAAAGTTGGGATAACCTTGTATAAG
1 TTAAAAAAAGTTGGAATAGACACGTCTAAGACAACCTTAAAAAAGTTGGGATAACCTTGTATAAG
*
10654832 GCAATCT
66 GCAACCT
10654839 TTAAAAAA
1 TTAAAAAA
10654847 GGTTTCTTTT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
72 53 0.78
73 15 0.22
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (72 bp):
TTAAAAAAAGTTGGAATAGACACGTCTAAGACAACCTTAAAAAAGTTGGGATAACCTTGTATAAG
GCAACCT
Found at i:10654845 original size:36 final size:35
Alignment explanation
Indices: 10654559--10654847 Score: 124
Period size: 35 Copynumber: 8.3 Consensus size: 35
10654549 AGGCTGACCT
*
10654559 TTAAAAAAGGTTGGGATAAACCTTGTTTAAGGCAACC
1 TTAAAAAA-GTTGGGAT-AACCTTGTATAAGGCAACC
* * * *
10654596 TTTAAAAAAGATTAGGATAGACC-CGTCTAAGACAACC
1 -TTAAAAAAG-TTGGGATA-ACCTTGTATAAGGCAACC
* * *
10654633 TT-AAAAA---GGTA-AACCTTGTCTAAAGCAACC
1 TTAAAAAAGTTGGGATAACCTTGTATAAGGCAACC
* *
10654663 TTTAAAAAAGGTTGAGATAAACC--GTCTAAGG----C
1 -TTAAAAAA-GTTGGGAT-AACCTTGTATAAGGCAACC
* * *
10654695 TTAAAAAAAGTTGGAAATGACAC--GTCTAAGGCAACC
1 TT-AAAAAAGTTGG-GATAAC-CTTGTATAAGGCAACC
* * *
10654731 TT-AAAAGGTTGGGATAAGCCTTGTCTGAGGCAACC
1 TTAAAAAAGTTGGGATAA-CCTTGTATAAGGCAACC
* * * **
10654766 TTTAAAAAAAGTTGGGATAGGCC-CGTTTAAGATAACC
1 -TT-AAAAAAGTTGGGATA-ACCTTGTATAAGGCAACC
*
10654803 TTAAAAAAGTTGGGATAACCTTGTATAAGGCAATCT
1 TTAAAAAAGTTGGGATAACCTTGTATAAGGCAA-CC
10654839 TTAAAAAAG
1 TTAAAAAAG
10654848 GTTTCTTTTT
Statistics
Matches: 192, Mismatches: 32, Indels: 56
0.69 0.11 0.20
Matches are distributed among these distances:
29 3 0.02
30 12 0.06
31 12 0.06
32 23 0.12
33 4 0.02
34 12 0.06
35 40 0.21
36 28 0.15
37 22 0.11
38 36 0.19
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (35 bp):
TTAAAAAAGTTGGGATAACCTTGTATAAGGCAACC
Found at i:10664510 original size:3 final size:3
Alignment explanation
Indices: 10664502--10664530 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10664492 TTGTTTGATT
10664502 CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
10664531 TCATCATCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:10664535 original size:3 final size:3
Alignment explanation
Indices: 10664529--10664554 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10664519 CCACCACCAC
10664529 CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CA
10664555 CTTTCTCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:10667018 original size:20 final size:20
Alignment explanation
Indices: 10666982--10667026 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
10666972 ATTAAGCTTT
*
10666982 TTAATTAATCTCTTTTAATC
1 TTAATTAAGCTCTTTTAATC
*
10667002 TTAATTAAGC-CTATTTACTC
1 TTAATTAAGCTCT-TTTAATC
10667022 TTAAT
1 TTAAT
10667027 ACAAATCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.31, C:0.16, G:0.02, T:0.51
Consensus pattern (20 bp):
TTAATTAAGCTCTTTTAATC
Found at i:10672837 original size:18 final size:19
Alignment explanation
Indices: 10672816--10672852 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
10672806 AAATTAAAAT
10672816 ATTAATTAAACT-AATTAA
1 ATTAATTAAACTAAATTAA
*
10672834 ATTAATTAACCTAAATTAA
1 ATTAATTAAACTAAATTAA
10672853 CATAATGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTAATTAAACTAAATTAA
Found at i:10674717 original size:16 final size:18
Alignment explanation
Indices: 10674683--10674724 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
10674673 AGGGTAAAAA
*
10674683 TCATATTTCACTTCAATTC
1 TCAT-TTTCACATCAATTC
10674702 T-ATTTTCACATC-ATTC
1 TCATTTTCACATCAATTC
10674718 TCATTTT
1 TCATTTT
10674725 TGTCCCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.24
17 13 0.62
18 2 0.10
19 1 0.05
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (18 bp):
TCATTTTCACATCAATTC
Found at i:10675767 original size:18 final size:18
Alignment explanation
Indices: 10675744--10675784 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
10675734 TTTTCTTTTA
10675744 TATTATATAATAAAATAT
1 TATTATATAATAAAATAT
* * *
10675762 TATTATTTATTATAATAT
1 TATTATATAATAAAATAT
10675780 TATTA
1 TATTA
10675785 ATTAATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTATATAATAAAATAT
Found at i:10675793 original size:18 final size:18
Alignment explanation
Indices: 10675751--10675793 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
10675741 TTATATTATA
* *
10675751 TAATAAAATATTATTATT
1 TAATATAATATTATTAAT
*
10675769 TATTATAATATTATTAAT
1 TAATATAATATTATTAAT
10675787 TAATATA
1 TAATATA
10675794 TCTTTTAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATATAATATTATTAAT
Found at i:10685218 original size:85 final size:86
Alignment explanation
Indices: 10685081--10685241 Score: 227
Period size: 85 Copynumber: 1.9 Consensus size: 86
10685071 TGGTGGCTCT
* *
10685081 TCCACAAAACCCACTGGTAGTTTGTTTAATCCGTGAATATGTGGTGCACTCACAACAAGTGGCAA
1 TCCACAAAACCCACTGGTAGTTTGTTTAATCCGTCAACATGTGGTGCACTCACAACAAGTGGCAA
*
10685146 TAATTGCAAATATATGGCTTG
66 TAAATGCAAATATATGGCTTG
* * * *
10685167 TCCAC-AAACCCAGTGGTAGTTTGTTTAAT-CTTCAACCATGTTGTGCACTCACAATAAGTGGCA
1 TCCACAAAACCCACTGGTAGTTTGTTTAATCCGTCAA-CATGTGGTGCACTCACAACAAGTGGCA
*
10685230 GTAAATGCAAAT
65 ATAAATGCAAAT
10685242 GTTTTTATCT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
84 4 0.06
85 57 0.86
86 5 0.08
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (86 bp):
TCCACAAAACCCACTGGTAGTTTGTTTAATCCGTCAACATGTGGTGCACTCACAACAAGTGGCAA
TAAATGCAAATATATGGCTTG
Found at i:10687409 original size:108 final size:107
Alignment explanation
Indices: 10687210--10687697 Score: 568
Period size: 108 Copynumber: 4.5 Consensus size: 107
10687200 TTGCAATTTA
* * * * *
10687210 TCAG-TTATCCGACTAGCGCTGGCCGCAACATTGTTGGTTTATCCAACTAGAGCTGGGTTCATTA
1 TCAGTTTATCCGACTAGCGCTGGGCGCAATATCGTTAGTTTATCCAACTAGAGCT-GGCTCATTA
* * * * *
10687274 ATAATATCGTCAGTTTATCTGATTAGTGTTGGGCACACTTTTG
65 ATAATATCATCAGTTTATCTTACTAGTGCTGGGCACACTTTCG
* * * * *
10687317 TCAGTTTATTCGACTAGAGCTGGGTGCAAAATCGTTAGTTTATCCAACTAGAGCTAGGGTCATTA
1 TCAGTTTATCCGACTAGCGCTGGGCGCAATATCGTTAGTTTATCCAACTAGAGCT-GGCTCATTA
* *
10687382 ATAATATCATCAGTTTATCTTACTAGTGTTGGGCACACTTTCT
65 ATAATATCATCAGTTTATCTTACTAGTGCTGGGCACACTTTCG
** *
10687425 TCAGTTTATTTGACTAGCGCTGGGCGCAATATCGTTAGTTTATCCAACTAGAGCTGAGCTCATTG
1 TCAGTTTATCCGACTAGCGCTGGGCGCAATATCGTTAGTTTATCCAACTAGAGCTG-GCTCATTA
* * *
10687490 ATAATACCGTCAGTTTATCTAACTAGTGCTGGGCACACTTTCG
65 ATAATATCATCAGTTTATCTTACTAGTGCTGGGCACACTTTCG
* *
10687533 T-AGGTTTATCCGACTAGCGCTGTGCGCAATATCGTT-GATTTATCCAACTAGAGATGGACTCAT
1 TCA-GTTTATCCGACTAGCGCTGGGCGCAATATCGTTAG-TTTATCCAACTAGAGCTGG-CTCAT
* *
10687596 TAATAATATCATCAATTTATCTTACTAGTACTGGGCACACTTTCG
63 TAATAATATCATCAGTTTATCTTACTAGTGCTGGGCACACTTTCG
* * ** * ** * * *
10687641 TCGGTTTATCTGGGTAGCGTTAAGTGCAATATCGTTGGTTTATCCAACTAGAACTGG
1 TCAGTTTATCCGACTAGCGCTGGGCGCAATATCGTTAGTTTATCCAACTAGAGCTGG
10687698 GCTAACATTT
Statistics
Matches: 329, Mismatches: 45, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
107 8 0.02
108 320 0.97
109 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (107 bp):
TCAGTTTATCCGACTAGCGCTGGGCGCAATATCGTTAGTTTATCCAACTAGAGCTGGCTCATTAA
TAATATCATCAGTTTATCTTACTAGTGCTGGGCACACTTTCG
Found at i:10687475 original size:34 final size:34
Alignment explanation
Indices: 10687437--10687583 Score: 109
Period size: 34 Copynumber: 4.1 Consensus size: 34
10687427 AGTTTATTTG
10687437 ACTAGCGCTGGGCGCAATATCGTTAGTTTATCCA
1 ACTAGCGCTGGGCGCAATATCGTTAGTTTATCCA
* * * * *
10687471 ACTAGAGCTGAGCTCATTGATAATACCGTCAGTTTATCTA
1 ACTAGCGCTGGGCGCA---AT-AT--CGTTAGTTTATCCA
* * * * *
10687511 ACTAGTGCTGGGCACACTTTCG-TAGGTTTATCCG
1 ACTAGCGCTGGGCGCAATATCGTTA-GTTTATCCA
*
10687545 ACTAGCGCTGTGCGCAATATCGTT-GATTTATCCA
1 ACTAGCGCTGGGCGCAATATCGTTAG-TTTATCCA
10687579 ACTAG
1 ACTAG
10687584 AGATGGACTC
Statistics
Matches: 85, Mismatches: 19, Indels: 18
0.70 0.16 0.15
Matches are distributed among these distances:
33 2 0.02
34 51 0.60
35 1 0.01
36 1 0.01
37 3 0.04
38 2 0.02
40 25 0.29
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (34 bp):
ACTAGCGCTGGGCGCAATATCGTTAGTTTATCCA
Found at i:10688611 original size:26 final size:26
Alignment explanation
Indices: 10688552--10688601 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
10688542 GTGCTTGGAT
*
10688552 TGCATTTTTAGATAATAGAAATATAA
1 TGCATTTTTAGATAATAAAAATATAA
10688578 TGCATTTTTAGATAATAAAAATAT
1 TGCATTTTTAGATAATAAAAATAT
10688602 GTTCTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.40
Consensus pattern (26 bp):
TGCATTTTTAGATAATAAAAATATAA
Found at i:10689673 original size:15 final size:15
Alignment explanation
Indices: 10689653--10689686 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10689643 TTAGAAGGGC
10689653 TTAATTTGTTTTA-TT
1 TTAATTT-TTTTACTT
10689668 TTAATTTTTTTACTT
1 TTAATTTTTTTACTT
10689683 TTAA
1 TTAA
10689687 CCCTTTAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (15 bp):
TTAATTTTTTTACTT
Found at i:10693106 original size:52 final size:52
Alignment explanation
Indices: 10693007--10693115 Score: 121
Period size: 52 Copynumber: 2.1 Consensus size: 52
10692997 CTCTTTTTTT
* * * **
10693007 AAAAAAATCACAATTTTATTTAAAAATCCAAACTTTTATTTCGAAATAGTTA
1 AAAAAAATCAAAACTTTATTTAAAAATCCAAACTTTTATTTCAAAATAACTA
** * *
10693059 AAAAAAATCAAAACTTTATTTAAAAATTTAAGCTTTT-TCTTTAAAATAACTA
1 AAAAAAATCAAAACTTTATTTAAAAATCCAAACTTTTAT-TTCAAAATAACTA
10693111 AAAAA
1 AAAAA
10693116 TAAATTTTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
51 1 0.02
52 46 0.98
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.36
Consensus pattern (52 bp):
AAAAAAATCAAAACTTTATTTAAAAATCCAAACTTTTATTTCAAAATAACTA
Found at i:10693215 original size:151 final size:146
Alignment explanation
Indices: 10692867--10693656 Score: 942
Period size: 151 Copynumber: 5.4 Consensus size: 146
10692857 ATTAAAACAT
* * * * *
10692867 AATCACTACTTTACTTTAAAA-TCAAAATTTTTAATTCGAAATAGTTAAAAAAATCAAAACTTTG
1 AATCACTATTTTACTTAAAAATTC-AAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTA
* *
10692931 TTTAAAAATTTAAACTTTTTCTTTAAAATCACTAAAAACATATTTTT-TTTTTAAAAATATAA-A
65 TTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAA-ATATTTTTATTTTTAAAAATATAATC
*
10692994 TTTCTCTTTTTTTAAAAA
129 TTTCTCTTTTTTTAAGAA
* * *
10693012 AATCACAATTTTATTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTA
1 AATCACTATTTTACTTAAAAATTCAAACTTTTATTTCGAAATAGTT-AAAAAAATCAAAACTTTA
*
10693077 TTTAAAAATTTAAGCTTTTTCTTTAAAATAACTAAAAAATAAATTTTTATTTTTAAAAAATATAA
65 TTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAAT--ATTTTTATTTTT-AAAAATATAA
10693142 TCTTTCTCTTTTTTTAGAGAA
127 TCTTTCTCTTTTTTTA-AGAA
10693163 AATCACTATTTTACTTAAAAATTCAAACTTTTATTTCGAAATAGTTAAAAAAAAATCAAAACTTT
1 AATCACTATTTTACTTAAAAATTCAAACTTTTATTTCGAAATAGTT--AAAAAAATCAAAACTTT
* * * * *
10693228 CTTTAAAAACTTAAAC-TTTTCTTTTAAAATCACTAAAAAACGGATTTTTATTTTTTAAAAATCT
64 ATTTAAAAATTTAAACTTTTTC-TTTAAAATAACTAAAAAA--TATTTTTA-TTTTTAAAAATAT
10693292 AAAT-TTTCT-TTTTTTTAATGAA
125 -AATCTTTCTCTTTTTTTAA-GAA
* * *
10693314 AAT-AGCTATTTTACTTAAAATTTTAAACTTTTATTTCGAAATAATTAAAAAAAT-AAAACTTTA
1 AATCA-CTATTTTACTTAAAAATTCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTA
* *
10693377 TTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAATAGATTTTTATTTTAAAAAATATAAA
65 TTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAAT--ATTTTTATTTTTAAAAATATAAT
* *
10693442 CTTTTTCTTTTTTAAAGAA
128 CTTTCTCTTTTTTTAAGAA
* * *
10693461 AATCACTATTTTACTTAAAAA-TCTAAACTTTTATTTCAAAATAGTTAAAAAAATTAAAACTTTG
1 AATCACTATTTTACTTAAAAATTC-AAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTA
* *
10693525 TTTAAAAATTTAAAC-TTTTC--T-AAA-AA-T-----ATATTTTTATTTTTAAAAATCTAAGCT
65 TTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAATATTTTTATTTTTAAAAATATAATCT
*
10693579 TTCTCTTTTTTAAAGAA
130 TTCTCTTTTTTTAAGAA
* * *
10693596 AATCACTATTTTACTTAAAAATT-AAAGCTTTTATTTTGAAATTGTTTAAAAAA--AAAACTTT
1 AATCACTATTTTACTTAAAAATTCAAA-CTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
10693657 TCCCAAAATC
Statistics
Matches: 573, Mismatches: 46, Indels: 64
0.84 0.07 0.09
Matches are distributed among these distances:
133 8 0.01
134 3 0.01
135 81 0.14
136 1 0.00
137 2 0.00
142 1 0.00
143 2 0.00
144 3 0.01
145 40 0.07
146 57 0.10
147 75 0.13
148 83 0.14
149 23 0.04
150 16 0.03
151 103 0.18
152 67 0.12
153 8 0.01
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.43
Consensus pattern (146 bp):
AATCACTATTTTACTTAAAAATTCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTTAT
TTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAATATTTTTATTTTTAAAAATATAATCTT
TCTCTTTTTTTAAGAA
Found at i:10693385 original size:51 final size:50
Alignment explanation
Indices: 10693323--10693543 Score: 163
Period size: 51 Copynumber: 4.5 Consensus size: 50
10693313 AAATAGCTAT
* * *
10693323 TTTACTTAAAATTTTAAACTTTTAT-TTCGAAATAATTAAAAAAATAAAAC
1 TTTATTTAAAAATTTAAACTTTT-TCTTCAAAATAATTAAAAAAATAAAAC
* * * **
10693373 TTTATTTAAAAATTTAAACTTTTTCTTTAAAATAACT-AAAAAATAGATT
1 TTTATTTAAAAATTTAAACTTTTTCTTCAAAATAATTAAAAAAATAAAAC
* * ** *
10693422 TTTATTTTAAAAAATATAAACTTTTTCTT-----T-TTTAAAGAAAATCACTAT
1 TTTA-TTT-AAAAATTTAAACTTTTTCTTCAAAATAATTAAA-AAAAT-AAAAC
* * *
10693470 TTTACTTAAAAATCTAAACTTTTAT-TTCAAAATAGTTAAAAAAATTAAAAC
1 TTTATTTAAAAATTTAAACTTTT-TCTTCAAAATAATTAAAAAAA-TAAAAC
*
10693521 TTTGTTTAAAAATTTAAACTTTT
1 TTTATTTAAAAATTTAAACTTTT
10693544 CTAAAAATAT
Statistics
Matches: 134, Mismatches: 23, Indels: 27
0.73 0.12 0.15
Matches are distributed among these distances:
45 1 0.01
46 20 0.15
47 8 0.06
48 6 0.04
49 14 0.10
50 33 0.25
51 46 0.34
52 6 0.04
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (50 bp):
TTTATTTAAAAATTTAAACTTTTTCTTCAAAATAATTAAAAAAATAAAAC
Found at i:10693502 original size:135 final size:132
Alignment explanation
Indices: 10693410--10693656 Score: 347
Period size: 135 Copynumber: 1.9 Consensus size: 132
10693400 TAAAATAACT
*
10693410 AAAAAATAGATTTTTATTTTAAAAAATATAAACTTTTTCTTTTTTAAAGAAAATCACTATTTTAC
1 AAAAAATAGATTTTTATTTTAAAAAATATAAACTTTCTCTTTTTTAAAGAAAATCACTATTTTAC
10693475 TTAAAAATCTAAA-CTTTTATTTCAAAATAGTTAAAAAAATTAAAACTTTGTTTAAAAATTTAAA
66 TTAAAAAT-TAAAGCTTTTATTTCAAAATAGTTAAAAAAATTAAAACTTTGTTTAAAAA-TTAAA
10693539 CTTTTC
129 C--TTC
* * * * *
10693545 TAAAAATATATTTTTATTTTTAAAAATCTAAGCTTTCTCTTTTTTAAAGAAAATCACTATTTTAC
1 AAAAAATAGATTTTTATTTTAAAAAATATAAACTTTCTCTTTTTTAAAGAAAATCACTATTTTAC
** * *
10693610 TTAAAAATTAAAGCTTTTATTTTGAAATTGTTTAAAAAA--AAAACTTT
66 TTAAAAATTAAAGCTTTTATTTCAAAATAGTTAAAAAAATTAAAACTTT
10693657 TCCCAAAATC
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
133 8 0.08
134 4 0.04
135 89 0.88
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (132 bp):
AAAAAATAGATTTTTATTTTAAAAAATATAAACTTTCTCTTTTTTAAAGAAAATCACTATTTTAC
TTAAAAATTAAAGCTTTTATTTCAAAATAGTTAAAAAAATTAAAACTTTGTTTAAAAATTAAACT
TC
Found at i:10693537 original size:20 final size:18
Alignment explanation
Indices: 10693509--10693551 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
10693499 AAATAGTTAA
* *
10693509 AAAAATTAAAACTTTGTTT
1 AAAAATTTAAACTTT-TCT
10693528 AAAAATTTAAACTTTTCT
1 AAAAATTTAAACTTTTCT
10693546 AAAAAT
1 AAAAAT
10693552 ATATTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (18 bp):
AAAAATTTAAACTTTTCT
Found at i:10694098 original size:3 final size:3
Alignment explanation
Indices: 10694092--10694141 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
10694082 CAACAACAAC
10694092 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10694139 AAT
1 AAT
10694142 TTGGGCCCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:10695928 original size:21 final size:21
Alignment explanation
Indices: 10695903--10695974 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
10695893 GTGTATACTA
10695903 GTATCGGTAGATAGGATG-CTT
1 GTATCGGTAGA-AGGATGACTT
*
10695924 GTATCGGTAGAAGTATGACTT
1 GTATCGGTAGAAGGATGACTT
* * *
10695945 GTTTCGGTAGAA-GTTACACTT
1 GTATCGGTAGAAGGAT-GACTT
10695966 GTATCGGTA
1 GTATCGGTA
10695975 AAATTTTCCT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.25, C:0.11, G:0.29, T:0.35
Consensus pattern (21 bp):
GTATCGGTAGAAGGATGACTT
Found at i:10697758 original size:12 final size:12
Alignment explanation
Indices: 10697743--10697777 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
10697733 TGCTGCTTCT
*
10697743 TCACCATCATCC
1 TCACCAGCATCC
10697755 TCACCAGCATCC
1 TCACCAGCATCC
10697767 TCACCAGCATC
1 TCACCAGCATC
10697778 ACAACCAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.26, C:0.49, G:0.06, T:0.20
Consensus pattern (12 bp):
TCACCAGCATCC
Found at i:10698599 original size:21 final size:21
Alignment explanation
Indices: 10698573--10698617 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
10698563 TAACGGGACC
*
10698573 GCTGATGTGGCAAGTTAACTT
1 GCTGATATGGCAAGTTAACTT
*
10698594 GCTGATATGGCCAGTTAACTT
1 GCTGATATGGCAAGTTAACTT
10698615 GCT
1 GCT
10698618 ACGTTAGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (21 bp):
GCTGATATGGCAAGTTAACTT
Found at i:10698856 original size:11 final size:11
Alignment explanation
Indices: 10698842--10698871 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
10698832 ATCAAGACAT
10698842 GAAGAAGAAAA
1 GAAGAAGAAAA
10698853 GAAGAAGAAAA
1 GAAGAAGAAAA
*
10698864 GAAAAAGA
1 GAAGAAGA
10698872 GGAGAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (11 bp):
GAAGAAGAAAA
Found at i:10703558 original size:3 final size:3
Alignment explanation
Indices: 10703552--10703579 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10703542 AGATGATGGC
10703552 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT G
10703580 CAAGAAGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:10703729 original size:2 final size:2
Alignment explanation
Indices: 10703722--10703750 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10703712 GATAAAGAAC
10703722 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10703751 TGAAATCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10706128 original size:17 final size:18
Alignment explanation
Indices: 10706098--10706131 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10706088 TTTTATTTGG
*
10706098 AAAAAATATTATTAATTT
1 AAAAAATATAATTAATTT
10706116 AAAAAATA-AATTAATT
1 AAAAAATATAATTAATT
10706132 AATTTTTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAAAATATAATTAATTT
Found at i:10708512 original size:2 final size:2
Alignment explanation
Indices: 10708505--10708568 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
10708495 AAACCAAAAC
10708505 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10708547 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
10708569 GCCATTACAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10714370 original size:60 final size:59
Alignment explanation
Indices: 10714226--10714396 Score: 236
Period size: 60 Copynumber: 2.9 Consensus size: 59
10714216 TTAATATAAT
** *
10714226 ATTTGGTACTTGAACTTGACATTTTTTTTTAGTTTGGTACCTAAAC-TTTTTTGACCCA
1 ATTTGGTACTTGAACTTGACATTTTTTCCTAATTTGGTACCTAAACTTTTTTTGACCCA
* * *
10714284 ATTTAGTACTTGATCTTGACACTTTTTCCTAATTTGGTACCTAAACTTTTTTTAGACCCA
1 ATTTGGTACTTGAACTTGACATTTTTTCCTAATTTGGTACCTAAACTTTTTTT-GACCCA
* * * *
10714344 ATTTGGTACATGAACTTGGCATTTTTTCCTAATTTGGCACCTAATCTTTTTTT
1 ATTTGGTACTTGAACTTGACATTTTTTCCTAATTTGGTACCTAAACTTTTTTT
10714397 TTAGATTCAA
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
58 40 0.41
59 6 0.06
60 52 0.53
ACGTcount: A:0.23, C:0.18, G:0.12, T:0.47
Consensus pattern (59 bp):
ATTTGGTACTTGAACTTGACATTTTTTCCTAATTTGGTACCTAAACTTTTTTTGACCCA
Found at i:10718671 original size:22 final size:21
Alignment explanation
Indices: 10718637--10718705 Score: 57
Period size: 22 Copynumber: 3.1 Consensus size: 21
10718627 TAAGTGTTTA
**
10718637 TATTTTTGGTAAATTTAAAATT
1 TATTTTTTATAAATTT-AAATT
*
10718659 TATTTTTTATAAAAGTTTAATTT
1 TATTTTTTAT-AAA-TTTAAATT
* *
10718682 TTTTATTTTTTAAATTTAAATT
1 TATT-TTTTATAAATTTAAATT
10718704 TA
1 TA
10718706 GGTCCAATTG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
22 16 0.43
23 13 0.35
24 8 0.22
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TATTTTTTATAAATTTAAATT
Found at i:10724351 original size:2 final size:2
Alignment explanation
Indices: 10724339--10724386 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
10724329 TTAAATTTAT
10724339 TA TA T- TA TA TA TA TA TA TA -A TA TA TA TA -A TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10724378 TA TA TA TA T
1 TA TA TA TA T
10724387 TAATTTTGAG
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10732665 original size:44 final size:44
Alignment explanation
Indices: 10732598--10732702 Score: 156
Period size: 44 Copynumber: 2.4 Consensus size: 44
10732588 AATAAATTTA
* * *
10732598 ATTTAGATTGCCATGTAAGACATCCAAGTTGAAATTTAAAACTC
1 ATTTGGATTGCCACGTAAAACATCCAAGTTGAAATTTAAAACTC
* *
10732642 ATTTGGATTGCTACGTAAAACATCCAAGTTGGAATTTAAAACTC
1 ATTTGGATTGCCACGTAAAACATCCAAGTTGAAATTTAAAACTC
*
10732686 ATTTGAATTGCCACGTA
1 ATTTGGATTGCCACGTA
10732703 GAATTGCCGT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (44 bp):
ATTTGGATTGCCACGTAAAACATCCAAGTTGAAATTTAAAACTC
Found at i:10736241 original size:2 final size:2
Alignment explanation
Indices: 10736234--10736268 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10736224 GCAGAAGAAG
10736234 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10736269 GTCAAATCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10747505 original size:18 final size:18
Alignment explanation
Indices: 10747482--10747517 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10747472 GGTCTTGGTG
10747482 TCTTTCTATTCATTCATC
1 TCTTTCTATTCATTCATC
10747500 TCTTTCTATTCATTCATC
1 TCTTTCTATTCATTCATC
10747518 ATTGTCCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.28, G:0.00, T:0.56
Consensus pattern (18 bp):
TCTTTCTATTCATTCATC
Found at i:10748653 original size:52 final size:52
Alignment explanation
Indices: 10748575--10748709 Score: 234
Period size: 52 Copynumber: 2.6 Consensus size: 52
10748565 TTCTCATTTA
*
10748575 ATACTCACGATGACACATAGTCATCGGACTTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCAT
*
10748627 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCAT
* *
10748679 ATAGTCATGATGACACATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
10748710 TTTGCATTTA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 79 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.26
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCATAAAGGATTCAT
Found at i:10749370 original size:13 final size:13
Alignment explanation
Indices: 10749352--10749380 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
10749342 CAAACAAAAA
10749352 TTAAATCAAATAT
1 TTAAATCAAATAT
10749365 TTAAATCAAATAT
1 TTAAATCAAATAT
10749378 TTA
1 TTA
10749381 CTGTACGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAAATCAAATAT
Found at i:10749735 original size:16 final size:16
Alignment explanation
Indices: 10749711--10749743 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10749701 TCCTTACAAA
*
10749711 TTTATTCTTTTAACAT
1 TTTAGTCTTTTAACAT
10749727 TTTAGTCTTTTAACAT
1 TTTAGTCTTTTAACAT
10749743 T
1 T
10749744 AAAATCAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.03, T:0.61
Consensus pattern (16 bp):
TTTAGTCTTTTAACAT
Found at i:10755940 original size:18 final size:18
Alignment explanation
Indices: 10755895--10755942 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
10755885 GAGAAGCGTT
*
10755895 GGGCAGAGGAACAGCCTC
1 GGGCAGAGGAGCAGCCTC
* * *
10755913 GGGGACAGGAGCAGTCTC
1 GGGCAGAGGAGCAGCCTC
10755931 GGGCAGAGGAGC
1 GGGCAGAGGAGC
10755943 GATCAACGGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.25, C:0.23, G:0.46, T:0.06
Consensus pattern (18 bp):
GGGCAGAGGAGCAGCCTC
Found at i:10756038 original size:11 final size:12
Alignment explanation
Indices: 10755975--10756039 Score: 57
Period size: 11 Copynumber: 5.6 Consensus size: 12
10755965 GGGTCACGTG
10755975 GCTGACGTGGC-
1 GCTGACGTGGCA
10755986 GCTGACGTGGCA
1 GCTGACGTGGCA
* *
10755998 -CTGACATGG-T
1 GCTGACGTGGCA
*
10756008 GATGACGTGGCGA
1 GCTGACGTGGC-A
10756021 TGCTGACGTGGCA
1 -GCTGACGTGGCA
10756034 G-TGACG
1 GCTGACG
10756040 ACTGGAAGAC
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
11 31 0.72
12 1 0.02
13 1 0.02
14 10 0.23
ACGTcount: A:0.17, C:0.22, G:0.42, T:0.20
Consensus pattern (12 bp):
GCTGACGTGGCA
Found at i:10756772 original size:49 final size:48
Alignment explanation
Indices: 10756713--10757123 Score: 268
Period size: 49 Copynumber: 8.4 Consensus size: 48
10756703 AGATTTGCCA
*
10756713 TTGCGGCTTAAATCTTTCCCTTCATGCTTTCGAGGTACAAGGTTCACCG
1 TTGCGGCTTAAATCTTTCCCTTCATGCTTTCGAGGTAC-AGGTTCGCCG
* * * * * *
10756762 TTGCGACTTAAACCTTTCCCTT--TGCATCTTCGTGGCACTGGATTCGCCA
1 TTGCGGCTTAAATCTTTCCCTTCATGC-T-TTCGAGGTACAGG-TTCGCCG
* *
10756811 TTGCGGCTTAAATCTTACCCTTCAT--TTTTGAGGTACAAGGTTCGCCG
1 TTGCGGCTTAAATCTTTCCCTTCATGCTTTCGAGGTAC-AGGTTCGCCG
* * * *
10756858 TTACGGCTTAAACCTTTCCCTT--TGTATCTTC-ATGGTACTGGATTCGCCG
1 TTGCGGCTTAAATCTTTCCCTTCATG-CT-TTCGA-GGTACAGG-TTCGCCG
*
10756907 TTGCGGCTTAAATCTTTCCCTTCATGC-TTCTGAGGTACGAGGTTCGTCG
1 TTGCGGCTTAAATCTTTCCCTTCATGCTTTC-GAGGTAC-AGGTTCGCCG
*** * * * * * *
10756956 TTGTAACTTGAACCTTTCCCTT-TTGTATCTTCGCA-GTACTGGATTCACCG
1 TTGCGGCTTAAATCTTTCCCTTCATG-CT-TTCG-AGGTACAGG-TTCGCCG
* *
10757006 TTGCGGCTTAAATCTTTCCCTTCATAC-TTCTGAGGTACGAGGTTCGCCA
1 TTGCGGCTTAAATCTTTCCCTTCATGCTTTC-GAGGTAC-AGGTTCGCCG
* ** ** * * *
10757055 TTGCGACTTAAATCTTTCCCTTTGTTATCTTCGTGGTACTGGATTCACCG
1 TTGCGGCTTAAATCTTTCCCTTCATGCT-TTCGAGGTACAGG-TTCGCCG
*
10757105 TTGTGGCTTAAATCTTTCC
1 TTGCGGCTTAAATCTTTCC
10757124 TTTCGTGGTA
Statistics
Matches: 276, Mismatches: 57, Indels: 57
0.71 0.15 0.15
Matches are distributed among these distances:
45 1 0.00
47 35 0.13
48 19 0.07
49 150 0.54
50 60 0.22
51 11 0.04
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (48 bp):
TTGCGGCTTAAATCTTTCCCTTCATGCTTTCGAGGTACAGGTTCGCCG
Found at i:10757008 original size:99 final size:98
Alignment explanation
Indices: 10756713--10757123 Score: 567
Period size: 99 Copynumber: 4.2 Consensus size: 98
10756703 AGATTTGCCA
*
10756713 TTGCGGCTTAAATCTTTCCCTTCATGCTT-TCGAGGTACAAGGTTCACCGTTGCGACTTAAACCT
1 TTGCGGCTTAAATCTTTCCCTTCATGCTTCT-GAGGTACAAGGTTCGCCGTTGCGACTTAAACCT
* * * *
10756777 TTCCCTTTGCATCTTCGTGGCACTGGATTCGCCA
65 TTCCCTTTGTATCTTCGTGGTACTGGATTCACCG
* * * *
10756811 TTGCGGCTTAAATCTTACCCTTCAT--TTTTGAGGTACAAGGTTCGCCGTTACGGCTTAAACCTT
1 TTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTT
* *
10756874 TCCCTTTGTATCTTCATGGTACTGGATTCGCCG
66 TCCCTTTGTATCTTCGTGGTACTGGATTCACCG
* * ** *
10756907 TTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACGAGGTTCGTCGTTGTAACTTGAACCTT
1 TTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTT
**
10756972 TCCCTTTTGTATCTTCGCAGTACTGGATTCACCG
66 TCCC-TTTGTATCTTCGTGGTACTGGATTCACCG
* * * *
10757006 TTGCGGCTTAAATCTTTCCCTTCATACTTCTGAGGTACGAGGTTCGCCATTGCGACTTAAATCTT
1 TTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTT
10757071 TCCCTTTGTTATCTTCGTGGTACTGGATTCACCG
66 TCCCTTTG-TATCTTCGTGGTACTGGATTCACCG
*
10757105 TTGTGGCTTAAATCTTTCC
1 TTGCGGCTTAAATCTTTCC
10757124 TTTCGTGGTA
Statistics
Matches: 277, Mismatches: 31, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
96 86 0.31
97 1 0.00
98 62 0.22
99 128 0.46
ACGTcount: A:0.17, C:0.26, G:0.19, T:0.38
Consensus pattern (98 bp):
TTGCGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTT
TCCCTTTGTATCTTCGTGGTACTGGATTCACCG
Found at i:10763884 original size:8 final size:9
Alignment explanation
Indices: 10763854--10763882 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
10763844 AAATTCATTT
10763854 AAATTTTTA
1 AAATTTTTA
10763863 AAATTTTTA
1 AAATTTTTA
10763872 AAATTTTTA
1 AAATTTTTA
10763881 AA
1 AA
10763883 TTAATAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
AAATTTTTA
Found at i:10764733 original size:17 final size:18
Alignment explanation
Indices: 10764711--10764744 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10764701 ATAATTGTAA
*
10764711 TTTAAAT-TTTAATTATT
1 TTTAAATGTGTAATTATT
10764728 TTTAAATGTGTAATTAT
1 TTTAAATGTGTAATTAT
10764745 CAAAATTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAAATGTGTAATTATT
Found at i:10770874 original size:25 final size:27
Alignment explanation
Indices: 10770825--10770880 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 27
10770815 TCAATTATTT
10770825 AAAATAATATTATTTTACATGAAA-TA
1 AAAATAATATTATTTTACATGAAATTA
10770851 AAAAT-ATATTATTATTTA-AT-AAATTA
1 AAAATAATATTA-T-TTTACATGAAATTA
10770877 AAAA
1 AAAA
10770881 ACACAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
25 9 0.33
26 14 0.52
27 4 0.15
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (27 bp):
AAAATAATATTATTTTACATGAAATTA
Found at i:10771711 original size:36 final size:36
Alignment explanation
Indices: 10771636--10771724 Score: 99
Period size: 36 Copynumber: 2.5 Consensus size: 36
10771626 GTAAAAATTT
* * **
10771636 GTAAATCAATGAAATGTAAAAATGACAATCGTGAAA
1 GTAAATCAACGAACTGTAAAAATGACAATCACGAAA
*
10771672 GTAAATCAACGAACTGTAAAAATGACAGA-CACGATA
1 GTAAATCAACGAACTGTAAAAATGACA-ATCACGAAA
* *
10771708 GTAAATTAGCGAACTGT
1 GTAAATCAACGAACTGT
10771725 TAGAAAATCG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 44 0.98
37 1 0.02
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.21
Consensus pattern (36 bp):
GTAAATCAACGAACTGTAAAAATGACAATCACGAAA
Found at i:10771799 original size:46 final size:46
Alignment explanation
Indices: 10771722--10771812 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 46
10771712 ATTAGCGAAC
* *
10771722 TGTTAGAAAATCGAATGTCACAATCGAAAATCAACAGACCATAAAT
1 TGTTAGAAAATCGAAGGTCACAATAGAAAATCAACAGACCATAAAT
* * * *
10771768 TGTTAGAAAA-CTGAAGGTCGCAATAGTAAATCAACGGACCGTAAA
1 TGTTAGAAAATC-GAAGGTCACAATAGAAAATCAACAGACCATAAA
10771813 AGTGACAATC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 1 0.03
46 37 0.97
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (46 bp):
TGTTAGAAAATCGAAGGTCACAATAGAAAATCAACAGACCATAAAT
Found at i:10771910 original size:75 final size:75
Alignment explanation
Indices: 10771821--10772103 Score: 316
Period size: 75 Copynumber: 3.8 Consensus size: 75
10771811 AAAGTGACAA
* ** * * * *
10771821 TCGCGATAGTAAATCATCAAACTATAAAAATGACAGTCACGATAGTAAATCAGCGAACTGTTAGA
1 TCGCGATAGTAAATCAGCGGACTGTAAAAATGACAGTCGCGATAGTAAATCAACGAACTATTAGA
*
10771886 AAAGCAAAGG
66 AAACCAAAGG
* * * * *
10771896 TTGTGATAGTAAATCAGCGGACCGTAAAAATGACAGTCGCGATAATAAATCAACAAACTATTAGA
1 TCGCGATAGTAAATCAGCGGACTGTAAAAATGACAGTCGCGATAGTAAATCAACGAACTATTAGA
10771961 AAACCAAAGG
66 AAACCAAAGG
* * * *
10771971 TCGCGATAGAAAATTAGCGGACTGTAAAAATGACAGTCGCAATAGTAAATCAATGAACTATTAGA
1 TCGCGATAGTAAATCAGCGGACTGTAAAAATGACAGTCGCGATAGTAAATCAACGAACTATTAGA
*
10772036 AAACC-AACG
66 AAACCAAAGG
* * * * * * * * *
10772045 TCGCGATCGAAAATCAACAGACCGTAAAAATGAAAATCGCAATAATAAATCAACGAACT
1 TCGCGATAGTAAATCAGCGGACTGTAAAAATGACAGTCGCGATAGTAAATCAACGAACT
10772104 GTAAAAATGA
Statistics
Matches: 176, Mismatches: 32, Indels: 1
0.84 0.15 0.00
Matches are distributed among these distances:
74 53 0.30
75 123 0.70
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.19
Consensus pattern (75 bp):
TCGCGATAGTAAATCAGCGGACTGTAAAAATGACAGTCGCGATAGTAAATCAACGAACTATTAGA
AAACCAAAGG
Found at i:10772016 original size:111 final size:111
Alignment explanation
Indices: 10771768--10772023 Score: 279
Period size: 111 Copynumber: 2.3 Consensus size: 111
10771758 GACCATAAAT
* * *
10771768 TGTTAGAAAA-CTGAAGGTCGCAATAGTAAATCAACGGACCGTAAAAGTGACAATCGCGATAGTA
1 TGTTAGAAAAGC-AAAGGTCGCAATAGTAAATCAACGGACCGTAAAAATGACAATCGCGATAATA
* ** * *
10771832 AATCATCAAACTATAAAAATGACAGTCACGATAGTAAATCAGCGAAC
65 AATCAACAAACTATAAAAACCAAAGTCACGATAGAAAATCAGCGAAC
* ** * *
10771879 TGTTAGAAAAGCAAAGGTTGTGATAGTAAATCAGCGGACCGTAAAAATGACAGTCGCGATAATAA
1 TGTTAGAAAAGCAAAGGTCGCAATAGTAAATCAACGGACCGTAAAAATGACAATCGCGATAATAA
* * *
10771944 ATCAACAAACTATTAGAAAACCAAAGGTCGCGATAGAAAATTAGCGGAC
66 ATCAACAAACTA-TA-AAAACCAAA-GTCACGATAGAAAATCAGCGAAC
*
10771993 TG-TA-AAAATG-ACA-GTCGCAATAGTAAATCAA
1 TGTTAGAAAA-GCAAAGGTCGCAATAGTAAATCAA
10772024 TGAACTATTA
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
111 80 0.67
112 9 0.08
113 9 0.08
114 21 0.18
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.20
Consensus pattern (111 bp):
TGTTAGAAAAGCAAAGGTCGCAATAGTAAATCAACGGACCGTAAAAATGACAATCGCGATAATAA
ATCAACAAACTATAAAAACCAAAGTCACGATAGAAAATCAGCGAAC
Found at i:10772124 original size:36 final size:36
Alignment explanation
Indices: 10772055--10772130 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
10772045 TCGCGATCGA
*
10772055 AAATCAACAGACCGTAAAAATGAAAATCGCAATAAT
1 AAATCAACAGACCGTAAAAATGAAAATCACAATAAT
* * * *
10772091 AAATCAAC-GAACTGTAAAAATGATAGTCACAATAGT
1 AAATCAACAG-ACCGTAAAAATGAAAATCACAATAAT
10772127 AAAT
1 AAAT
10772131 TAGTGAATTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 1 0.03
36 33 0.97
ACGTcount: A:0.54, C:0.14, G:0.12, T:0.20
Consensus pattern (36 bp):
AAATCAACAGACCGTAAAAATGAAAATCACAATAAT
Found at i:10773130 original size:26 final size:26
Alignment explanation
Indices: 10773053--10773130 Score: 74
Period size: 26 Copynumber: 3.0 Consensus size: 26
10773043 TGACAGTATA
* *
10773053 AAATATTTCAATAAA-TAAAAAATATT
1 AAATATTT-AAAAAATTAAAAAATAAT
*
10773079 AAAT-TATT-AAATATTAAAATAA-AAT
1 AAATAT-TTAAAAAATTAAAA-AATAAT
10773104 AAATATTTAAAAAATTAAAAAATAAT
1 AAATATTTAAAAAATTAAAAAATAAT
10773130 A
1 A
10773131 TGAGTGAGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
24 3 0.07
25 16 0.38
26 23 0.55
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (26 bp):
AAATATTTAAAAAATTAAAAAATAAT
Found at i:10782136 original size:30 final size:32
Alignment explanation
Indices: 10782081--10782141 Score: 90
Period size: 30 Copynumber: 1.9 Consensus size: 32
10782071 AAGTAAAATC
*
10782081 TATATAAATTTATTAAATATTAAAATAATATAA
1 TATATAAATTTA-TAAATATAAAAATAATATAA
10782114 TATA-AAATTTA-AAATATAAAAATAATAT
1 TATATAAATTTATAAATATAAAAATAATAT
10782142 GAATGGGCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 16 0.59
32 7 0.26
33 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (32 bp):
TATATAAATTTATAAATATAAAAATAATATAA
Found at i:10782137 original size:22 final size:23
Alignment explanation
Indices: 10782095--10782138 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
10782085 TAAATTTATT
*
10782095 AAATATTAAAATAATATAATATA
1 AAATATTAAAATAATAAAATATA
10782118 AAAT-TTAAAAT-ATAAAA-ATA
1 AAATATTAAAATAATAAAATATA
10782138 A
1 A
10782139 TATGAATGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 5 0.25
22 7 0.35
23 4 0.20
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATATTAAAATAATAAAATATA
Found at i:10784276 original size:31 final size:31
Alignment explanation
Indices: 10784238--10784302 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
10784228 GTTCTCTGTC
10784238 TCTCTTTTCTTCTCTTCTCTCTGTTGCCTTT
1 TCTCTTTTCTTCTCTTCTCTCTGTTGCCTTT
*
10784269 TCTCTTTTCTTCTGTTCTCTCTGTTGCCTTT
1 TCTCTTTTCTTCTCTTCTCTCTGTTGCCTTT
10784300 TCT
1 TCT
10784303 TTGTGGTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (31 bp):
TCTCTTTTCTTCTCTTCTCTCTGTTGCCTTT
Found at i:10792535 original size:12 final size:13
Alignment explanation
Indices: 10792511--10792542 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
10792501 AATAAATATT
10792511 AAAAATTTATAAA
1 AAAAATTTATAAA
10792524 AAAAATTT-TAAA
1 AAAAATTTATAAA
10792536 AAAAATT
1 AAAAATT
10792543 GGTTCAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAAATTTATAAA
Found at i:10794188 original size:12 final size:12
Alignment explanation
Indices: 10794185--10794261 Score: 65
Period size: 12 Copynumber: 6.7 Consensus size: 12
10794175 AAATAATAGC
10794185 AAAATAAACAAC-
1 AAAAT-AACAACA
*
10794197 AAAACAAC-A-A
1 AAAATAACAACA
*
10794207 AA-ATAGCAACA
1 AAAATAACAACA
*
10794218 AAAATAACAGCA
1 AAAATAACAACA
*
10794230 AAAATAGCAACA
1 AAAATAACAACA
10794242 AAAACT-ACAACA
1 AAAA-TAACAACA
10794254 AAAATAAC
1 AAAATAAC
10794262 GGCAAAAAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
9 3 0.06
10 4 0.08
11 7 0.14
12 36 0.71
13 1 0.02
ACGTcount: A:0.70, C:0.18, G:0.04, T:0.08
Consensus pattern (12 bp):
AAAATAACAACA
Found at i:10794200 original size:24 final size:24
Alignment explanation
Indices: 10794173--10794245 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 24
10794163 AAACAACAGG
* *
10794173 AAAAATAATAGCAAAATAAACAAC
1 AAAAATAACAGCAAAATAAGCAAC
*
10794197 -AAAACAACA--AAAAT-AGCAAC
1 AAAAATAACAGCAAAATAAGCAAC
10794217 AAAAATAACAGCAAAA-ATAGCAAC
1 AAAAATAACAGCAAAATA-AGCAAC
10794241 AAAAA
1 AAAAA
10794246 CTACAACAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
20 5 0.12
21 13 0.32
23 11 0.28
24 11 0.28
ACGTcount: A:0.71, C:0.15, G:0.05, T:0.08
Consensus pattern (24 bp):
AAAAATAACAGCAAAATAAGCAAC
Found at i:10794253 original size:36 final size:36
Alignment explanation
Indices: 10794201--10794269 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
10794191 AACAACAAAA
10794201 CAACAAAAATAGCAACAAAAATAACAGCAAAAATAG
1 CAACAAAAATAGCAACAAAAATAACAGCAAAAATAG
*
10794237 CAACAAAAACTA-CAACAAAAATAACGGCAAAAA
1 CAACAAAAA-TAGCAACAAAAATAACAGCAAAAA
10794270 ACAACACCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 29 0.94
37 2 0.06
ACGTcount: A:0.67, C:0.19, G:0.07, T:0.07
Consensus pattern (36 bp):
CAACAAAAATAGCAACAAAAATAACAGCAAAAATAG
Found at i:10794269 original size:24 final size:24
Alignment explanation
Indices: 10794191--10794259 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
10794181 TAGCAAAATA
*
10794191 AACAACAA-AACAACAAAAATAGC
1 AACAAAAATAACAACAAAAATAGC
*
10794214 AACAAAAATAACAGCAAAAATAGC
1 AACAAAAATAACAACAAAAATAGC
10794238 AACAAAAACT-ACAACAAAAATA
1 AACAAAAA-TAACAACAAAAATA
10794260 ACGGCAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
23 7 0.17
24 33 0.80
25 1 0.02
ACGTcount: A:0.70, C:0.19, G:0.04, T:0.07
Consensus pattern (24 bp):
AACAAAAATAACAACAAAAATAGC
Found at i:10794281 original size:12 final size:12
Alignment explanation
Indices: 10794199--10794261 Score: 83
Period size: 12 Copynumber: 5.2 Consensus size: 12
10794189 TAAACAACAA
10794199 AACAACAAAAAT
1 AACAACAAAAAT
*
10794211 AGCAACAAAAAT
1 AACAACAAAAAT
*
10794223 AACAGCAAAAAT
1 AACAACAAAAAT
*
10794235 AGCAACAAAAACT
1 AACAACAAAAA-T
10794248 -ACAACAAAAAT
1 AACAACAAAAAT
10794259 AAC
1 AAC
10794262 GGCAAAAAAC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
11 1 0.02
12 41 0.95
13 1 0.02
ACGTcount: A:0.68, C:0.19, G:0.05, T:0.08
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:10794291 original size:21 final size:20
Alignment explanation
Indices: 10794274--10794391 Score: 130
Period size: 21 Copynumber: 5.7 Consensus size: 20
10794264 CAAAAAACAA
*
10794274 CACCAAAATAATAAAAAAACAG
1 CACCAAAACAAT-AAAAAA-AG
10794296 CACCAAAACAATAAAAAAATG
1 CACCAAAACAATAAAAAAA-G
*
10794317 CACCAAAACAGTAAAAAAA-
1 CACCAAAACAATAAAAAAAG
* **
10794336 TACCAAAACAGCAAAAAAAG
1 CACCAAAACAATAAAAAAAG
*
10794356 CAACCAAAACAGTAAAAAACAG
1 C-ACCAAAACAATAAAAAA-AG
10794378 CACCAAAACAATAA
1 CACCAAAACAATAA
10794392 TATAATTTTT
Statistics
Matches: 85, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
19 17 0.20
20 1 0.01
21 53 0.62
22 14 0.16
ACGTcount: A:0.66, C:0.21, G:0.06, T:0.07
Consensus pattern (20 bp):
CACCAAAACAATAAAAAAAG
Found at i:10794352 original size:40 final size:40
Alignment explanation
Indices: 10794297--10794388 Score: 123
Period size: 40 Copynumber: 2.2 Consensus size: 40
10794287 AAAAAACAGC
*
10794297 ACCAAAACAATAAAAAAATGC-ACCAAAACAGTAAAAAAAT
1 ACCAAAACAACAAAAAAA-GCAACCAAAACAGTAAAAAAAT
* *
10794337 ACCAAAACAGCAAAAAAAGCAACCAAAACAGTAAAAAACAGC
1 ACCAAAACAACAAAAAAAGCAACCAAAACAGTAAAAAA-A-T
10794379 ACCAAAACAA
1 ACCAAAACAA
10794389 TAATATAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
39 2 0.04
40 33 0.73
41 1 0.02
42 9 0.20
ACGTcount: A:0.66, C:0.22, G:0.07, T:0.05
Consensus pattern (40 bp):
ACCAAAACAACAAAAAAAGCAACCAAAACAGTAAAAAAAT
Found at i:10796351 original size:36 final size:36
Alignment explanation
Indices: 10796302--10796387 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 36
10796292 ATAACCTTAT
** ** * *
10796302 GCTCTAATTGAGACATAAGTTCTTCCTTAGCATTAC
1 GCTCTAACCGAGACATAAGCACTTCCATAGCAATAC
* *
10796338 GCTCTAACCGAGACGTAAGCACTTCCATAGCAATAT
1 GCTCTAACCGAGACATAAGCACTTCCATAGCAATAC
*
10796374 TCTCTAACCGAGAC
1 GCTCTAACCGAGAC
10796388 GTATGCGATC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (36 bp):
GCTCTAACCGAGACATAAGCACTTCCATAGCAATAC
Found at i:10796415 original size:36 final size:35
Alignment explanation
Indices: 10796332--10796429 Score: 90
Period size: 36 Copynumber: 2.7 Consensus size: 35
10796322 TCTTCCTTAG
* *
10796332 CATTACGCTCTAACCGAGACGTAAGCACTTCCATAG
1 CATTACGCTCTAACCGAGACGTAAGCAC-TCCACAA
* ** *
10796368 CAATATTCTCTAACCGAGACGTATGCGA-TCACACAA
1 CATTACGCTCTAACCGAGACGTAAGC-ACTC-CACAA
* *
10796404 CATTACGCTCTAACTGAGATGTAAGC
1 CATTACGCTCTAACCGAGACGTAAGC
10796430 TCTTCCATTA
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
35 2 0.04
36 45 0.94
37 1 0.02
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (35 bp):
CATTACGCTCTAACCGAGACGTAAGCACTCCACAA
Found at i:10797294 original size:24 final size:20
Alignment explanation
Indices: 10797248--10797299 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 20
10797238 CATAATTAAT
10797248 TTAATTAATCCACCTTAACC
1 TTAATTAATCCACCTTAACC
*
10797268 TTAGTTAATCTCACCTATAATCAC
1 TTAATTAATC-CACCT-TAA-C-C
10797292 TTAATTAA
1 TTAATTAA
10797300 CATAACAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 9 0.35
21 5 0.19
22 3 0.12
23 1 0.04
24 8 0.31
ACGTcount: A:0.37, C:0.23, G:0.02, T:0.38
Consensus pattern (20 bp):
TTAATTAATCCACCTTAACC
Found at i:10805075 original size:12 final size:12
Alignment explanation
Indices: 10805058--10805082 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10805048 AACAGTCTTT
10805058 ACCGGTGACAAC
1 ACCGGTGACAAC
10805070 ACCGGTGACAAC
1 ACCGGTGACAAC
10805082 A
1 A
10805083 AATGTTGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.32, G:0.24, T:0.08
Consensus pattern (12 bp):
ACCGGTGACAAC
Found at i:10820320 original size:4 final size:4
Alignment explanation
Indices: 10820311--10820336 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
10820301 TCTTATTATT
10820311 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
10820337 ATTATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:10820346 original size:12 final size:12
Alignment explanation
Indices: 10820295--10820347 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
10820285 AACCCAATTC
*
10820295 TATTTTTCTTAT
1 TATTTTTATTAT
10820307 TATTTTTA-T-T
1 TATTTTTATTAT
*
10820317 TATTTAT-TTAT
1 TATTTTTATTAT
*
10820328 T-TATTTATTAT
1 TATTTTTATTAT
10820339 TATTTTTAT
1 TATTTTTAT
10820348 AAACATAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
10 11 0.34
11 8 0.25
12 13 0.41
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (12 bp):
TATTTTTATTAT
Found at i:10820415 original size:59 final size:57
Alignment explanation
Indices: 10820313--10820489 Score: 186
Period size: 59 Copynumber: 3.0 Consensus size: 57
10820303 TTATTATTTT
10820313 TATTTA-TTTA-TTTATTTATTTA-TTATTATTTTTATAAACATAAATAAATATAAAATAA
1 TATTTATTTTATTTTA-TTATTTATTTATTA-TTTTAT-AA-ATAAATAAATATAAAATAA
10820371 TATTTATTTTATTTTATTATTTATTTATTATTTTATGAATATAAATAAATAAATGTAAAATAA
1 TATTTATTTTATTTTATTATTTATTTATTATTTTAT-AA-ATAAATAAAT--A--TAAAATAA
* *
10820434 TATTAATTTT-TTATTATTATTTATTTATTA--TTATAAATAAATAAATAAATAAATAA
1 TATTTATTTTATT-TTATTATTTATTTATTATTTTATAAATAAATAAATATA-AAATAA
10820490 CAAACCAAAA
Statistics
Matches: 106, Mismatches: 4, Indels: 20
0.82 0.03 0.15
Matches are distributed among these distances:
55 1 0.01
56 6 0.06
57 1 0.01
58 6 0.06
59 39 0.37
60 12 0.11
61 5 0.05
62 2 0.02
63 34 0.32
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (57 bp):
TATTTATTTTATTTTATTATTTATTTATTATTTTATAAATAAATAAATATAAAATAA
Found at i:10820419 original size:63 final size:62
Alignment explanation
Indices: 10820313--10820484 Score: 220
Period size: 63 Copynumber: 2.9 Consensus size: 62
10820303 TTATTATTTT
10820313 TATTTA-TTTA-TTTATTTATTTA-TTATTATTTT-T-ATA-AACATAAATAAATATAAAATAA
1 TATTTATTTTATTTTA-TTATTTATTTATTATTTTATAATATAA-ATAAATAAATATAAAATAA
*
10820371 TATTTATTTTATTTTATTATTTATTTATTATTTTATGAATATAAATAAATAAATGTAAAATAA
1 TATTTATTTTATTTTATTATTTATTTATTATTTTAT-AATATAAATAAATAAATATAAAATAA
*
10820434 TATTAATTTT-TTATTATTATTTATTTATTA--TTATAA-ATAAATAAATAAATA
1 TATTTATTTTATT-TTATTATTTATTTATTATTTTATAATATAAATAAATAAATA
10820485 AATAACAAAC
Statistics
Matches: 103, Mismatches: 3, Indels: 15
0.85 0.02 0.12
Matches are distributed among these distances:
58 6 0.06
59 25 0.24
60 16 0.16
61 5 0.05
62 2 0.02
63 47 0.46
64 2 0.02
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (62 bp):
TATTTATTTTATTTTATTATTTATTTATTATTTTATAATATAAATAAATAAATATAAAATAA
Found at i:10820451 original size:14 final size:15
Alignment explanation
Indices: 10820434--10820466 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
10820424 TGTAAAATAA
10820434 TATTAATTT-TTTAT
1 TATTAATTTATTTAT
10820448 TATT-ATTTATTTAT
1 TATTAATTTATTTAT
10820462 TATTA
1 TATTA
10820467 TAAATAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTAATTTATTTAT
Found at i:10820459 original size:17 final size:17
Alignment explanation
Indices: 10820434--10820467 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10820424 TGTAAAATAA
*
10820434 TATTAATTTTTTATTAT
1 TATTAATTTATTATTAT
*
10820451 TATTTATTTATTATTAT
1 TATTAATTTATTATTAT
10820468 AAATAAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTAATTTATTATTAT
Found at i:10824610 original size:18 final size:17
Alignment explanation
Indices: 10824571--10824619 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
10824561 GAAATTTCAA
**
10824571 AAAAAAAGATAAAAAATT
1 AAAAAAAGA-AAAAAAAC
10824589 AAAAAAAGAAAAAAAGAC
1 AAAAAAAGAAAAAAA-AC
10824607 AAAAAAAGGAAAA
1 AAAAAAA-GAAAA
10824620 GGAAAAGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 16 0.59
19 5 0.19
ACGTcount: A:0.82, C:0.02, G:0.10, T:0.06
Consensus pattern (17 bp):
AAAAAAAGAAAAAAAAC
Found at i:10824631 original size:21 final size:20
Alignment explanation
Indices: 10824599--10824653 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
10824589 AAAAAAAGAA
*
10824599 AAAAAGACAAAAAAAGGAAAAGG
1 AAAAAGA-AAAAGAA-GAAAA-G
*
10824622 AAAAGGAAAAAGAAGAAAAG
1 AAAAAGAAAAAGAAGAAAAG
10824642 AAAAAGAAAAAG
1 AAAAAGAAAAAG
10824654 GGGAGGTCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.41
21 5 0.17
22 6 0.21
23 6 0.21
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (20 bp):
AAAAAGAAAAAGAAGAAAAG
Found at i:10824644 original size:14 final size:15
Alignment explanation
Indices: 10824610--10824649 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
10824600 AAAAGACAAA
10824610 AAAAGG-AAAAG--G
1 AAAAGGAAAAAGAAG
10824622 AAAAGGAAAAAGAAG
1 AAAAGGAAAAAGAAG
10824637 AAAA-GAAAAAGAA
1 AAAAGGAAAAAGAA
10824650 AAAGGGGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.24
13 5 0.20
14 9 0.36
15 5 0.20
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (15 bp):
AAAAGGAAAAAGAAG
Found at i:10825787 original size:80 final size:80
Alignment explanation
Indices: 10825559--10827286 Score: 2984
Period size: 80 Copynumber: 21.6 Consensus size: 80
10825549 TAGAACAACA
*
10825559 GATCTTTTACCCCGATCATGGGGCAGATTAAAGAAATCCAATCTTTTA-CCTAACCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
10825623 GATTGAAGACCATCC
66 GATTGAAGACCATCC
10825638 GATCTTTTACCCCGATCAT-GGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
10825702 GATTGAAGACCATCC
66 GATTGAAGACCATCC
* * * *
10825717 GATCTTCTACCCCGATCATAGGGCAAATTGAAGAAATCCAATATTTTACCCTAACCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
10825782 GATTGAAGACCATCC
66 GATTGAAGACCATCC
*
10825797 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
10825862 GATTGAAGACCATCC
66 GATTGAAGACCATCC
*
10825877 GATCTTTTACCCCGATCATGGGGCAAATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
* *
10825942 AATTAAAGACCATCC
66 GATTGAAGACCATCC
10825957 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
10826022 GATTGAAGACCATCC
66 GATTGAAGACCATCC
10826037 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTTACCCTAACCAGAGGGCA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATC-TTTTACCCTAACCAGAGGGCA
10826102 AGATTGAAGACCATCC
65 AGATTGAAGACCATCC
* * * * *
10826118 GATCTTTTACCCCGATCATGAGGTATATTGAAAAAATCCAATCTTTTACCCTAATCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
10826183 GATTGAAGACCATCC
66 GATTGAAGACCATCC
* * * *
10826198 GATCTTCTACCCCGATCATAGGGCAAATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
10826263 GATTGAAGACCATCC
66 GATTGAAGACCATCC
*
10826278 GATCTTTTACCCTGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
10826343 GATTGAAGACCATCC
66 GATTGAAGACCATCC
10826358 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
10826423 GATTGAAGACCATCC
66 GATTGAAGACCATCC
* * * * *
10826438 GATCTTCTACCCCGATCATAGGGCAAATTGAAGAAATCCAATATTTTACCCTAACCAAAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
10826503 GATTGAAGACCATCC
66 GATTGAAGACCATCC
*
10826518 GATCTTTTACCCCGATCATGGGGCAAATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
10826583 GATTGAAGACCATCC
66 GATTGAAGACCATCC
10826598 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
*
10826663 AATTGAAGACCATCC
66 GATTGAAGACCATCC
10826678 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATC-TTTACCCTAACCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
10826742 GATTGAAGACCATCC
66 GATTGAAGACCATCC
*
10826757 GATC-TTTACCCCGATCATGAGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
10826821 GATTGAAGACCATCC
66 GATTGAAGACCATCC
* * * * *
10826836 GATCTTTTACCCCGATCATGAGGTATATTGAAAAAATCCAATCTTTTACCCTAATCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
10826901 GATTGAAGACCATCC
66 GATTGAAGACCATCC
* * * *
10826916 GATCTTCTACCCCGATCATAGGGCAAATTGAAGAAATCCAATATTTTACCCTAACCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
10826981 GATTGAAGACCATCC
66 GATTGAAGACCATCC
*
10826996 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAAT-ATTTACCCTAACCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
10827060 GATTGAAGACCATCC
66 GATTGAAGACCATCC
10827075 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
10827140 -ATTGAAGACCATCC
66 GATTGAAGACCATCC
10827154 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
1 GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
*
10827219 GATTGGAGACCATCC
66 GATTGAAGACCATCC
** * * *
10827234 GATCTTTTACCCTAACCA-GAGGGCAAGATTGAAGACCATCCGATCTTTTACCC
1 GATCTTTTACCCCGATCATG-GGGC-AGATTGAAGA-AATCCAATCTTTTACCC
10827287 CGATCATGAG
Statistics
Matches: 1568, Mismatches: 71, Indels: 17
0.95 0.04 0.01
Matches are distributed among these distances:
78 64 0.04
79 305 0.19
80 1098 0.70
81 86 0.05
82 15 0.01
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (80 bp):
GATCTTTTACCCCGATCATGGGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAA
GATTGAAGACCATCC
Found at i:10827557 original size:79 final size:80
Alignment explanation
Indices: 10827054--10827721 Score: 736
Period size: 79 Copynumber: 8.4 Consensus size: 80
10827044 CCTAACCAGA
* * ** * * *
10827054 GGGCAAGATTGAAGACCATCCGATCTTTTACCCCGATCATG-GGGC-AGATTGAAGA-AATCCAA
1 GGGC-AGATTGAAGA-AATCCAATCTTTTACCCTAACCA-GAGGGCAAGATTGAAGACCATCCGA
** *
10827116 TCTTTTACCCTAACCA-G
63 TCTTTTACCCCGATCATG
* * * ** * * *
10827133 AGGGCAAATTGAAGACCATCCGATCTTTTACCCCGATCATG-GGGC-AGATTGAAGA-AATCCAA
1 -GGGCAGATTGAAGA-AATCCAATCTTTTACCCTAACCA-GAGGGCAAGATTGAAGACCATCCGA
** *
10827195 TCTTTTACCCTAACCA-G
63 TCTTTTACCCCGATCATG
* * *
10827212 AGGGCAAGATTGGAGACCATCCGATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGA
1 -GGGC-AGATTGAAGA-AATCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGA
10827277 TCTTTTACCCCGATCATG
63 TCTTTTACCCCGATCATG
* * * * * *
10827295 AGGTATATTAAAAAAAATCCAATCTTTTACCCTAATCA-AGGGCAAGATTGAAGACCATCCGATC
1 GGGCAGATT-GAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATC
*
10827359 TTTTACCCCGATCACG
65 TTTTACCCCGATCATG
*
10827375 GGGCAGATTGAAGAAATCCAATCTTTTACCCTAACTAGAGGGCAAGATTGAAGACCATCCGATCT
1 GGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCT
10827440 TTTACCCCGATCATG
66 TTTACCCCGATCATG
*
10827455 GGGCAGATTGAAGAAATACAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCAT-CGATCT
1 GGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCT
10827519 TTTACCCCGATCATG
66 TTTACCCCGATCATG
* * * *
10827534 GGGCAAATTGAAGAAATCTAATCTTTTACCCTAACCAGAGGG-AAGATTAAAGATCATCCGATCT
1 GGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCT
10827598 TTTACCCCGATCATG
66 TTTACCCCGATCATG
* *
10827613 GGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCA-AAGGC-AGATTGAAGACCATCAGATCT
1 GGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCT
* * *
10827676 CTTACCTCGACCATG
66 TTTACCCCGATCATG
*
10827691 GGGCA-AGTTGAA-ACAATCTAATCTTTTACCC
1 GGGCAGA-TTGAAGA-AATCCAATCTTTTACCC
10827722 CTAAAGTTAT
Statistics
Matches: 531, Mismatches: 46, Indels: 24
0.88 0.08 0.04
Matches are distributed among these distances:
77 2 0.00
78 72 0.14
79 219 0.41
80 181 0.34
81 34 0.06
82 22 0.04
83 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (80 bp):
GGGCAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATCCGATCT
TTTACCCCGATCATG
Found at i:10828352 original size:59 final size:58
Alignment explanation
Indices: 10828256--10828417 Score: 199
Period size: 59 Copynumber: 2.7 Consensus size: 58
10828246 ATTATTTTTA
10828256 TTTA-TTTATTTATTTA-TTATTATTTTTATAAACATAAATAAATA-TAAAATAATATTAAT
1 TTTATTTTA-TTATTTATTTATTA-TTTTAT-AA-ATAAATAAATAGTAAAATAATATTAAT
10828315 TTTATTTTATTATTTATTTATTATTTTATGAATATAAATAAATAAATGTAAAATAATATTAAT
1 TTTATTTTATTATTTATTTATTATTTTAT-AA-ATAAATAAAT--A-GTAAAATAATATTAAT
*
10828378 TTTGTTTTATTATTTATTTATTA--TTATAAATAAATAAATA
1 TTTATTTTATTATTTATTTATTATTTTATAAATAAATAAATA
10828418 AATAACAAAC
Statistics
Matches: 94, Mismatches: 3, Indels: 14
0.85 0.03 0.13
Matches are distributed among these distances:
57 1 0.01
59 39 0.41
60 12 0.13
61 5 0.05
63 37 0.39
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.54
Consensus pattern (58 bp):
TTTATTTTATTATTTATTTATTATTTTATAAATAAATAAATAGTAAAATAATATTAAT
Found at i:10828356 original size:63 final size:62
Alignment explanation
Indices: 10828245--10828421 Score: 238
Period size: 63 Copynumber: 2.9 Consensus size: 62
10828235 TCCATTTTCT
* * *
10828245 TATTATTTTTA-TTTATTTATTTATTTATTATTATTTTTATA-AACATAAATAAATATAAAATAA
1 TATTAATTTTATTTTA-TTATTTATTTATTATT-TTATAATATAA-ATAAATAAATATAAAATAA
*
10828308 TATTAATTTTATTTTATTATTTATTTATTATTTTATGAATATAAATAAATAAATGTAAAATAA
1 TATTAATTTTATTTTATTATTTATTTATTATTTTAT-AATATAAATAAATAAATATAAAATAA
*
10828371 TATTAATTTTGTTTTATTATTTATTTATTA--TTATAA-ATAAATAAATAAATA
1 TATTAATTTTATTTTATTATTTATTTATTATTTTATAATATAAATAAATAAATA
10828422 ACAAACCAAA
Statistics
Matches: 105, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
59 14 0.13
60 2 0.02
61 4 0.04
62 3 0.03
63 76 0.72
64 6 0.06
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.54
Consensus pattern (62 bp):
TATTAATTTTATTTTATTATTTATTTATTATTTTATAATATAAATAAATAAATATAAAATAA
Found at i:10831932 original size:5 final size:5
Alignment explanation
Indices: 10831922--10831961 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
10831912 AATTGAAGTT
* * *
10831922 GAATA GAATA GAATA GAATG GAATA GAATT GAATT GAATA
1 GAATA GAATA GAATA GAATA GAATA GAATA GAATA GAATA
10831962 ATTATGACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.25
Consensus pattern (5 bp):
GAATA
Found at i:10833125 original size:14 final size:14
Alignment explanation
Indices: 10833106--10833145 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
10833096 TACGAATGAG
10833106 TAAATATACGAAAA
1 TAAATATACGAAAA
*
10833120 TAAATATAAGCAAAA
1 TAAATATACG-AAAA
10833135 TAAA-ATACGAA
1 TAAATATACGAA
10833146 TCATGAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 13 0.57
15 8 0.35
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.20
Consensus pattern (14 bp):
TAAATATACGAAAA
Found at i:10833367 original size:56 final size:57
Alignment explanation
Indices: 10833270--10833424 Score: 179
Period size: 56 Copynumber: 2.7 Consensus size: 57
10833260 GTTTGGGGTT
* * * *
10833270 AAAATATAA-TTTTAGATAGTTTTAGGGGTAAAATGTCATTTTGGGAAATTTGGGGGTA
1 AAAATATAATTTTTAGA-AG-TTTAGGGGTAAAATGTAATTTTGGGAAATTCGAGGGAA
* * * * * *
10833328 AAAATGTAATTTTTGGAAG-TTCGGGGTAAAATGTGATTTTTGGAAGTTCGAGGGAA
1 AAAATATAATTTTTAGAAGTTTAGGGGTAAAATGTAATTTTGGGAAATTCGAGGGAA
*
10833384 AAAATATAATTTTTAGAAGTTTAGGGGCAAAATGTAATTTT
1 AAAATATAATTTTTAGAAGTTTAGGGGTAAAATGTAATTTT
10833425 TAAGAAGTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
56 47 0.58
57 18 0.22
58 10 0.12
59 6 0.07
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (57 bp):
AAAATATAATTTTTAGAAGTTTAGGGGTAAAATGTAATTTTGGGAAATTCGAGGGAA
Found at i:10833430 original size:29 final size:28
Alignment explanation
Indices: 10833270--10833470 Score: 131
Period size: 29 Copynumber: 7.0 Consensus size: 28
10833260 GTTTGGGGTT
* *
10833270 AAAATATAA-TTTTAGATAGTTTTAGGGGT
1 AAAATGTAATTTTTAGA-AG-TTTAGGGGC
* ** * * *
10833299 AAAATGTCATTTTGGGAAATTTGGGGGTA
1 AAAATGTAATTTTTAGAAGTTTAGGGG-C
* * *
10833328 AAAATGTAATTTTTGGAAG-TTCGGGGT
1 AAAATGTAATTTTTAGAAGTTTAGGGGC
* * * **
10833355 AAAATGTGATTTTTGGAAGTTCGAGGGAA
1 AAAATGTAATTTTTAGAAGTT-TAGGGGC
*
10833384 AAAATATAATTTTTAGAAGTTTAGGGGC
1 AAAATGTAATTTTTAGAAGTTTAGGGGC
10833412 AAAATGTAATTTTTAAGAAGTTTAGGGGTTC
1 AAAATGTAATTTTT-AGAAGTTTAGGGG--C
*
10833443 -AAATGTGA-TTTTAGAAAAGTTTAGGGGC
1 AAAATGTAATTTTTAG--AAGTTTAGGGGC
10833471 CTTCTGGGCA
Statistics
Matches: 138, Mismatches: 25, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
27 18 0.13
28 34 0.25
29 62 0.45
30 23 0.17
31 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (28 bp):
AAAATGTAATTTTTAGAAGTTTAGGGGC
Found at i:10834370 original size:18 final size:18
Alignment explanation
Indices: 10834333--10834370 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
10834323 GAGAAGGTCT
*
10834333 TTCTTTTGAAAATTGTTC
1 TTCTTTTGAAAATTGCTC
10834351 TTCTTTT-AAAATCTGCTC
1 TTCTTTTGAAAAT-TGCTC
10834369 TT
1 TT
10834371 ATACTGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.21, C:0.16, G:0.08, T:0.55
Consensus pattern (18 bp):
TTCTTTTGAAAATTGCTC
Found at i:10835226 original size:6 final size:6
Alignment explanation
Indices: 10835217--10835303 Score: 79
Period size: 6 Copynumber: 14.7 Consensus size: 6
10835207 GAATTTAGAA
* * *
10835217 TAAATT TAAATT TAAGA-A TAAATT TAAACT TAAA-A TAAATT TAAATT
1 TAAATT TAAATT TAA-ATT TAAATT TAAATT TAAATT TAAATT TAAATT
** ** *
10835264 TAAAAA TAAATT TAAATT TAAAAA TAAATT TAAACT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
10835304 ATAAATCTAA
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
5 5 0.08
6 58 0.91
7 1 0.02
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (6 bp):
TAAATT
Found at i:10835241 original size:35 final size:34
Alignment explanation
Indices: 10835202--10835321 Score: 159
Period size: 35 Copynumber: 3.4 Consensus size: 34
10835192 GGAAATTATT
* *
10835202 AATTTGAATTTAGAATAAATTTAAATTTAAGAATA
1 AATTTAAATTTAAAATAAATTTAAATTTAA-AATA
*
10835237 AATTTAAACTTAAAATAAATTTAAATTTAAAAATA
1 AATTTAAATTTAAAATAAATTTAAATTT-AAAATA
*
10835272 AATTTAAATTTAAAAATAAATTTAAACTTAAAATA
1 AATTTAAATTT-AAAATAAATTTAAATTTAAAATA
* *
10835307 AATCTAAAATTAAAA
1 AATTTAAATTTAAAA
10835322 ATTGGGTTTA
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
34 4 0.05
35 54 0.71
36 18 0.24
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (34 bp):
AATTTAAATTTAAAATAAATTTAAATTTAAAATA
Found at i:10835281 original size:53 final size:53
Alignment explanation
Indices: 10835202--10835323 Score: 192
Period size: 53 Copynumber: 2.3 Consensus size: 53
10835192 GGAAATTATT
* * *
10835202 AATTTGAATTT-AGAATAAATTTAAATTTAAGAATAAATTTAAACTTAAAATA
1 AATTTAAATTTAAAAATAAATTTAAATTTAAAAATAAATTTAAACTTAAAATA
10835254 AATTTAAATTTAAAAATAAATTTAAATTTAAAAATAAATTTAAACTTAAAATA
1 AATTTAAATTTAAAAATAAATTTAAATTTAAAAATAAATTTAAACTTAAAATA
* *
10835307 AATCTAAAATTAAAAAT
1 AATTTAAATTTAAAAAT
10835324 TGGGTTTAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
52 10 0.16
53 54 0.84
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (53 bp):
AATTTAAATTTAAAAATAAATTTAAATTTAAAAATAAATTTAAACTTAAAATA
Found at i:10835320 original size:6 final size:6
Alignment explanation
Indices: 10835217--10835321 Score: 56
Period size: 6 Copynumber: 17.8 Consensus size: 6
10835207 GAATTTAGAA
* * * * * *
10835217 TAAATT TAAATT TAAGAA- TAAATT TAAACT TAAAA- TAAATT TAAATT
1 TAAAAT TAAAAT TAA-AAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
* * * * * *
10835264 TAAAAA TAAATT TAAATT TAAAAA TAAATT TAAACT TAAAA- T-AAAT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
10835310 CTAAAAT TAAAA
1 -TAAAAT TAAAA
10835322 ATTGGGTTTA
Statistics
Matches: 78, Mismatches: 15, Indels: 12
0.74 0.14 0.11
Matches are distributed among these distances:
4 3 0.04
5 6 0.08
6 64 0.82
7 5 0.06
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (6 bp):
TAAAAT
Found at i:10835322 original size:18 final size:18
Alignment explanation
Indices: 10835202--10835323 Score: 160
Period size: 18 Copynumber: 6.9 Consensus size: 18
10835192 GGAAATTATT
* *
10835202 AATTTGAATTT-AGAATA
1 AATTTAAATTTAAAAATA
*
10835219 AATTTAAATTTAAGAATA
1 AATTTAAATTTAAAAATA
*
10835237 AATTTAAACTT-AAAATA
1 AATTTAAATTTAAAAATA
10835254 AATTTAAATTTAAAAATA
1 AATTTAAATTTAAAAATA
10835272 AATTTAAATTTAAAAATA
1 AATTTAAATTTAAAAATA
*
10835290 AATTTAAACTT-AAAATA
1 AATTTAAATTTAAAAATA
* *
10835307 AATCTAAAATTAAAAAT
1 AATTTAAATTTAAAAAT
10835324 TGGGTTTAAT
Statistics
Matches: 95, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
17 40 0.42
18 55 0.58
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (18 bp):
AATTTAAATTTAAAAATA
Found at i:10835906 original size:16 final size:15
Alignment explanation
Indices: 10835885--10835915 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
10835875 ATATGTATCT
10835885 TTTTTTTAAATATTTA
1 TTTTTTT-AATATTTA
10835901 TTTTTTTAATATTTA
1 TTTTTTTAATATTTA
10835916 CTATATTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTTTAATATTTA
Found at i:10836088 original size:14 final size:14
Alignment explanation
Indices: 10836064--10836098 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
10836054 AAAAATTCAG
*
10836064 AAAATATATAATAAT
1 AAAA-ATATAAAAAT
10836079 AAAAATATAAAAAT
1 AAAAATATAAAAAT
10836093 AAAAAT
1 AAAAAT
10836099 TCATTAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAAAATATAAAAAT
Found at i:10837053 original size:21 final size:20
Alignment explanation
Indices: 10837011--10837054 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
10837001 ATGTTATAAA
10837011 TAAATAGGATTAATTAAAGC
1 TAAATAGGATTAATTAAAGC
10837031 TAAATAAGTGATTAATT-AAGC
1 TAAAT-AG-GATTAATTAAAGC
10837052 TAA
1 TAA
10837055 TTATGAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.32
Consensus pattern (20 bp):
TAAATAGGATTAATTAAAGC
Found at i:10841218 original size:13 final size:14
Alignment explanation
Indices: 10841143--10841227 Score: 63
Period size: 13 Copynumber: 6.2 Consensus size: 14
10841133 GTTGGTCAAA
*
10841143 AAAGTCAAC-TGTC
1 AAAGTCAACAGGTC
* *
10841156 TAAGTTAAC-GGTC
1 AAAGTCAACAGGTC
10841169 AATGAGTCAA-A-GTC
1 AA--AGTCAACAGGTC
10841183 AACAGTCAACAGGTC
1 AA-AGTCAACAGGTC
10841198 AAAGTCAACAGGTC
1 AAAGTCAACAGGTC
* *
10841212 -GAGTCAACGGGTC
1 AAAGTCAACAGGTC
10841225 AAA
1 AAA
10841228 CCGAATTAGG
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
13 28 0.49
14 19 0.33
15 10 0.18
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.19
Consensus pattern (14 bp):
AAAGTCAACAGGTC
Found at i:10842334 original size:15 final size:14
Alignment explanation
Indices: 10842283--10842334 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
10842273 TGTATTGGAA
*
10842283 GAAAGATGGTGCGAG
1 GAAAGATGGAG-GAG
*
10842298 GAAGAAGATGGAGTAG
1 G-A-AAGATGGAGGAG
10842314 GAAAGATGGAGGAG
1 GAAAGATGGAGGAG
10842328 AGAAAGA
1 -GAAAGA
10842335 GAAGAAGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 11 0.35
15 8 0.26
16 4 0.13
17 8 0.26
ACGTcount: A:0.44, C:0.02, G:0.44, T:0.10
Consensus pattern (14 bp):
GAAAGATGGAGGAG
Found at i:10848226 original size:50 final size:50
Alignment explanation
Indices: 10848118--10848245 Score: 161
Period size: 50 Copynumber: 2.5 Consensus size: 50
10848108 GAATCTTGAT
10848118 TTTGGCTCGTAAGAGCG-TAATTCTGGTTCTAGCTCGTAAGAGCAATATTCTG
1 TTTGGCTCGTAAGAGCGAT-ATTCT-G-TCTAGCTCGTAAGAGCAATATTCTG
* * * *
10848170 TCTGGCTTGTAAGAGCGATATTCTGTCTAGCTCGTAATAGCAA-ATTTTTG
1 TTTGGCTCGTAAGAGCGATATTCTGTCTAGCTCGTAAGAGCAATA-TTCTG
*
10848220 TTTGGCTCGTATGAGCGATATTCTGT
1 TTTGGCTCGTAAGAGCGATATTCTGT
10848246 TTGGGCTCAT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
49 1 0.01
50 44 0.66
51 1 0.01
52 20 0.30
53 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (50 bp):
TTTGGCTCGTAAGAGCGATATTCTGTCTAGCTCGTAAGAGCAATATTCTG
Found at i:10848246 original size:25 final size:25
Alignment explanation
Indices: 10848118--10848249 Score: 124
Period size: 25 Copynumber: 5.2 Consensus size: 25
10848108 GAATCTTGAT
10848118 TTTGGCTCGTAAGAGCG-TAATTCTGG
1 TTTGGCTCGTAAGAGCGAT-ATTCT-G
* *
10848144 TTCTAGCTCGTAAGAGCAATATTCTG
1 TT-TGGCTCGTAAGAGCGATATTCTG
* *
10848170 TCTGGCTTGTAAGAGCGATATTCTG
1 TTTGGCTCGTAAGAGCGATATTCTG
* * * * *
10848195 TCTAGCTCGTAATAGC-AAATTTTTG
1 TTTGGCTCGTAAGAGCGATA-TTCTG
*
10848220 TTTGGCTCGTATGAGCGATATTCTG
1 TTTGGCTCGTAAGAGCGATATTCTG
10848245 TTTGG
1 TTTGG
10848250 GCTCATTTGA
Statistics
Matches: 85, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
24 2 0.02
25 58 0.68
26 6 0.07
27 18 0.21
28 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.25, T:0.38
Consensus pattern (25 bp):
TTTGGCTCGTAAGAGCGATATTCTG
Found at i:10849941 original size:17 final size:18
Alignment explanation
Indices: 10849902--10849942 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
10849892 AAAAAAATTA
*
10849902 TAATTGAATTGAGAAAAT
1 TAATTTAATTGAGAAAAT
*
10849920 T-ATTTAATT-AGGAAAT
1 TAATTTAATTGAGAAAAT
10849936 TAATTTA
1 TAATTTA
10849943 GTTAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 7 0.35
17 12 0.60
18 1 0.05
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
TAATTTAATTGAGAAAAT
Found at i:10866778 original size:7 final size:7
Alignment explanation
Indices: 10866766--10866814 Score: 89
Period size: 7 Copynumber: 7.0 Consensus size: 7
10866756 TAATAATTAG
10866766 TTGGTAC
1 TTGGTAC
10866773 TTGGTAC
1 TTGGTAC
10866780 TTGGTAC
1 TTGGTAC
10866787 TTGGTAC
1 TTGGTAC
*
10866794 TTGGTAT
1 TTGGTAC
10866801 TTGGTAC
1 TTGGTAC
10866808 TTGGTAC
1 TTGGTAC
10866815 ACATCACTCC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 40 1.00
ACGTcount: A:0.14, C:0.12, G:0.29, T:0.45
Consensus pattern (7 bp):
TTGGTAC
Found at i:10866989 original size:21 final size:20
Alignment explanation
Indices: 10866963--10867006 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
10866953 AATCTTAAAC
* *
10866963 TAAAAATTATTACAAAATCTA
1 TAAAAATAATTAAAAAAT-TA
10866984 TAAAAATAATTAAAAAATTA
1 TAAAAATAATTAAAAAATTA
10867004 TAA
1 TAA
10867007 TTCTTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAATAATTAAAAAATTA
Found at i:10867030 original size:17 final size:17
Alignment explanation
Indices: 10866983--10867031 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
10866973 TACAAAATCT
*
10866983 ATAAAAATAATTAAAAA
1 ATAAAAATATTTAAAAA
* *
10867000 ATTATAAT-TCTTAAAAA
1 ATAAAAATAT-TTAAAAA
10867017 ATAAAAATATTTAAA
1 ATAAAAATATTTAAA
10867032 TATGTTTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
17 24 0.96
18 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAAAATATTTAAAAA
Found at i:10871148 original size:20 final size:19
Alignment explanation
Indices: 10871120--10871160 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10871110 TCACGTCAGC
*
10871120 AAATGAATTTAAACTTAAAA
1 AAATGAA-TTAAAATTAAAA
*
10871140 AAATTAATTAAAATTAAAA
1 AAATGAATTAAAATTAAAA
10871159 AA
1 AA
10871161 CATTTAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AAATGAATTAAAATTAAAA
Found at i:10872431 original size:13 final size:13
Alignment explanation
Indices: 10872404--10872439 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
10872394 CAAAGAACAT
10872404 GATGGGGG-A-AA
1 GATGGGGGAAGAA
10872415 GATGGGGGAAGAA
1 GATGGGGGAAGAA
10872428 GAT-GGGGAAGAA
1 GATGGGGGAAGAA
10872440 ACAATGGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.35
12 10 0.43
13 5 0.22
ACGTcount: A:0.39, C:0.00, G:0.53, T:0.08
Consensus pattern (13 bp):
GATGGGGGAAGAA
Found at i:10872546 original size:32 final size:30
Alignment explanation
Indices: 10872490--10872560 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
10872480 ATCAAAATTA
*
10872490 TTTAATAATTTTATTATTTCAAAAAAAATAAT
1 TTTAATAATATTATTATTTC--AAAAAATAAT
* *
10872522 TTTAATAATATTA-TATTCTTAAAAATTAAT
1 TTTAATAATATTATTATT-TCAAAAAATAAT
10872552 TTTAATAAT
1 TTTAATAAT
10872561 TTTAAAATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 18 0.51
31 4 0.11
32 13 0.37
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (30 bp):
TTTAATAATATTATTATTTCAAAAAATAAT
Found at i:10876353 original size:16 final size:16
Alignment explanation
Indices: 10876332--10876470 Score: 71
Period size: 16 Copynumber: 7.8 Consensus size: 16
10876322 TTTGATCACT
10876332 GGCACAAAGCCTACTA
1 GGCACAAAGCCTACTA
*
10876348 GGCACAAAGCCTGAATACA
1 GGCACAAAGCCT-ACT--A
*
10876367 CCGGCACGAAGCCTACTA
1 --GGCACAAAGCCTACTA
*
10876385 GGCACAAAGCCTGAATACATT
1 GGCACAAAGCC----TAC-TA
*
10876406 GGCACGAAGCCTACTA
1 GGCACAAAGCCTACTA
* *
10876422 AGCACAAAGCCTGAATACA
1 GGCACAAAGCCT-ACT--A
* *
10876441 CCGGCACGAAGTCTACTA
1 --GGCACAAAGCCTACTA
10876459 GGCACAAAGCCT
1 GGCACAAAGCCT
10876471 GAATTTTTAG
Statistics
Matches: 92, Mismatches: 16, Indels: 30
0.67 0.12 0.22
Matches are distributed among these distances:
16 43 0.47
17 7 0.08
18 2 0.02
19 2 0.02
20 7 0.08
21 31 0.34
ACGTcount: A:0.36, C:0.30, G:0.21, T:0.13
Consensus pattern (16 bp):
GGCACAAAGCCTACTA
Found at i:10876378 original size:21 final size:19
Alignment explanation
Indices: 10876347--10876474 Score: 76
Period size: 16 Copynumber: 6.9 Consensus size: 19
10876337 AAAGCCTACT
10876347 AGGCACAAAGCCTGAATAC
1 AGGCACAAAGCCTGAATAC
* *
10876366 ACCGGCACGAAGCCT-ACT--
1 A--GGCACAAAGCCTGAATAC
10876384 AGGCACAAAGCCTGAATAC
1 AGGCACAAAGCCTGAATAC
* *
10876403 ATTGGCACGAAGCCT-ACTA-
1 A--GGCACAAAGCCTGAATAC
10876422 A-GCACAAAGCCTGAATAC
1 AGGCACAAAGCCTGAATAC
* * *
10876440 ACCGGCACGAAGTCT-ACT--
1 A--GGCACAAAGCCTGAATAC
10876458 AGGCACAAAGCCTGAAT
1 AGGCACAAAGCCTGAAT
10876475 TTTTAGATGT
Statistics
Matches: 82, Mismatches: 14, Indels: 28
0.66 0.11 0.23
Matches are distributed among these distances:
16 31 0.38
17 7 0.09
18 3 0.04
19 3 0.04
20 7 0.09
21 31 0.38
ACGTcount: A:0.37, C:0.29, G:0.21, T:0.13
Consensus pattern (19 bp):
AGGCACAAAGCCTGAATAC
Found at i:10876382 original size:37 final size:37
Alignment explanation
Indices: 10876332--10876474 Score: 241
Period size: 37 Copynumber: 3.9 Consensus size: 37
10876322 TTTGATCACT
*
10876332 GGCACAAAGCCTACTAGGCACAAAGCCTGAATACACC
1 GGCACGAAGCCTACTAGGCACAAAGCCTGAATACACC
**
10876369 GGCACGAAGCCTACTAGGCACAAAGCCTGAATACATT
1 GGCACGAAGCCTACTAGGCACAAAGCCTGAATACACC
*
10876406 GGCACGAAGCCTACTAAGCACAAAGCCTGAATACACC
1 GGCACGAAGCCTACTAGGCACAAAGCCTGAATACACC
*
10876443 GGCACGAAGTCTACTAGGCACAAAGCCTGAAT
1 GGCACGAAGCCTACTAGGCACAAAGCCTGAAT
10876475 TTTTAGATGT
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.36, C:0.29, G:0.21, T:0.13
Consensus pattern (37 bp):
GGCACGAAGCCTACTAGGCACAAAGCCTGAATACACC
Found at i:10879360 original size:109 final size:110
Alignment explanation
Indices: 10879148--10879367 Score: 370
Period size: 109 Copynumber: 2.0 Consensus size: 110
10879138 TGAAAATACA
*
10879148 GAACATTTATTGATTTAAAATAGGATACTCGATTATTTAGGTTCAAAGAAAAAAAAATCATACCC
1 GAACATTTATAGATTTAAAATAGGATACTCGATTATTTAGGTTCAAAG--AAAAAAATCATACCC
* *
10879213 AGTACGTTTGAGCACAATTTCTCGAATTCCTTAAATAAAAGAACATC
64 AATACGTTTGAGCACAATTTCTCGAATTCCATAAATAAAAGAACATC
* *
10879260 GAACATTTATAGATTTTAAATAGGATACTTGATTATTTAGGTTCAAAG-AAAAAATCATACCCAA
1 GAACATTTATAGATTTAAAATAGGATACTCGATTATTTAGGTTCAAAGAAAAAAATCATACCCAA
10879324 TACGTTTGAGCACAATTTCTCGAATTCCATAAATAAAAGAACAT
66 TACGTTTGAGCACAATTTCTCGAATTCCATAAATAAAAGAACAT
10879368 TGCCCTTTTT
Statistics
Matches: 103, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
109 58 0.56
112 45 0.44
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (110 bp):
GAACATTTATAGATTTAAAATAGGATACTCGATTATTTAGGTTCAAAGAAAAAAATCATACCCAA
TACGTTTGAGCACAATTTCTCGAATTCCATAAATAAAAGAACATC
Found at i:10887339 original size:50 final size:50
Alignment explanation
Indices: 10887254--10887348 Score: 111
Period size: 50 Copynumber: 1.9 Consensus size: 50
10887244 GAAAATCATT
* * **
10887254 ACTTTACTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAATAAA
1 ACTTTACTTAAAAATCTAAAATTTTATTTCAAAATAACTAAAAAAATAAA
* * *
10887304 ACTTTATTTAAAAATTTAAATATTTTCTTT-AAAATAACTAAAAAA
1 ACTTTACTTAAAAATCTAAA-ATTTTATTTCAAAATAACTAAAAAA
10887349 CATATTTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
50 30 0.81
51 7 0.19
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (50 bp):
ACTTTACTTAAAAATCTAAAATTTTATTTCAAAATAACTAAAAAAATAAA
Found at i:10887484 original size:51 final size:50
Alignment explanation
Indices: 10887405--10887534 Score: 131
Period size: 51 Copynumber: 2.6 Consensus size: 50
10887395 ACTACTTTAC
* * *
10887405 TTAAAAATCTAAACTTTTAT-TTTGAAATAATTAAAAAAAATCAAAATTTTA-T
1 TTAAAAATATAAACTTTT-TCTTTCAAATAACT---AAAAATCAAAATTTTATT
* * *
10887457 TT-AAAATTTAAACTTTTTCTTTCAAATAACTAAAAATCAGATTTTTATTT
1 TTAAAAATATAAACTTTTTCTTTCAAATAACTAAAAATCAAAATTTTA-TT
*
10887507 TTAAAAATATAAACTTTTTCTTCCAAAT
1 TTAAAAATATAAACTTTTTCTTTCAAAT
10887535 TTTTATTTCG
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
48 14 0.21
50 4 0.06
51 47 0.70
52 2 0.03
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (50 bp):
TTAAAAATATAAACTTTTTCTTTCAAATAACTAAAAATCAAAATTTTATT
Found at i:10887505 original size:145 final size:146
Alignment explanation
Indices: 10887098--10887525 Score: 609
Period size: 145 Copynumber: 2.9 Consensus size: 146
10887088 TGATTAAAAC
* * * *
10887098 AAAATTACTACTTTACTTTAAAATCAAAACTTTTATTTCGAAATAGTTAAAAACAATCAAAACTT
1 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
* * * *
10887163 TGTTTAAAAATTTAAAC-TTTT-TTTAAAATCACTAAAAAACAGATTTTTAATTTTTAAAAGTTT
66 TATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTTAAAA-TAT
*
10887226 AAACTTTCTTTTTTTAATG
130 AAAC-TT-TTTTTTAAATG
*
10887245 AAAATCATTACTTTACTTAAAAATCTAAACTTTTATTTCGAAATAGTT-AAAAAAAT-AAAACTT
1 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
*
10887308 TATTTAAAAATTTAAA-TATTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTTTAAAATA
66 TATTTAAAAATTTAAACT-TTTTCTTTAAAATAACTAAAAAACAGATTTTTA-TTTTTTAAAATA
10887372 TAAACTTTTTTTTAAATG
129 TAAACTTTTTTTTAAATG
* * *
10887390 -AAATCACTACTTTACTTAAAAATCTAAACTTTTATTTTGAAATAATTAAAAAAAATCAAAATTT
1 AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
* * *
10887454 TATTT-AAAATTTAAACTTTTTCTTTCAAATAACTAAAAATCAGATTTTTATTTTTAAAAATATA
66 TATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTTAAAATATA
10887518 AACTTTTT
131 AACTTTTT
10887526 CTTCCAAATT
Statistics
Matches: 255, Mismatches: 19, Indels: 17
0.88 0.07 0.06
Matches are distributed among these distances:
144 65 0.25
145 80 0.31
146 25 0.10
147 76 0.30
148 9 0.04
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (146 bp):
AAAATCACTACTTTACTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
TATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTATTTTTTAAAATATA
AACTTTTTTTTAAATG
Found at i:10889593 original size:11 final size:10
Alignment explanation
Indices: 10889577--10889610 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
10889567 TCTAAATAAG
10889577 TTTTATTATTT
1 TTTTA-TATTT
10889588 TTTTATATTT
1 TTTTATATTT
*
10889598 TTTTACATTT
1 TTTTATATTT
10889608 TTT
1 TTT
10889611 CATTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 17 0.77
11 5 0.23
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTATATTT
Found at i:10889630 original size:22 final size:22
Alignment explanation
Indices: 10889605--10889649 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
10889595 TTTTTTTACA
10889605 TTTTTT-C-ATTTTAAATAATT
1 TTTTTTACAATTTTAAATAATT
*
10889625 TTTTTTACAATTTTAAATCATT
1 TTTTTTACAATTTTAAATAATT
10889647 TTT
1 TTT
10889650 AATGATTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 1 0.05
22 15 0.68
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTTTACAATTTTAAATAATT
Found at i:10894822 original size:23 final size:22
Alignment explanation
Indices: 10894792--10894841 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
10894782 AACAAAATTT
10894792 AAAAT-TTTT-AAATAAGATAAA
1 AAAATATTTTGAAATAA-ATAAA
* *
10894813 AAAATATTTTGAAATTAATTAA
1 AAAATATTTTGAAATAAATAAA
10894835 AAAATAT
1 AAAATAT
10894842 ACATCTAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 15 0.60
23 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
AAAATATTTTGAAATAAATAAA
Found at i:10894970 original size:16 final size:17
Alignment explanation
Indices: 10894917--10894972 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
10894907 AATATTTTTT
*
10894917 AAAAT-TAAAAATTACTA
1 AAAATATAAATATTA-TA
10894934 AAAATATAAATATTATA
1 AAAATATAAATATTATA
*
10894951 AAAATTTAAATA-TATGA
1 AAAATATAAATATTAT-A
10894968 AAAAT
1 AAAAT
10894973 TGAAAAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 3 0.09
17 24 0.69
18 8 0.23
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (17 bp):
AAAATATAAATATTATA
Found at i:10907903 original size:20 final size:21
Alignment explanation
Indices: 10907850--10907903 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
10907840 AAAATAGTAA
*
10907850 AAAACTTATAAAAATTCATTT
1 AAAAGTTATAAAAATTCATTT
**
10907871 AAAAGTTGCAAAAATT-ATTT
1 AAAAGTTATAAAAATTCATTT
* *
10907891 TAAATTTATAAAA
1 AAAAGTTATAAAA
10907904 TTAATTTTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (21 bp):
AAAAGTTATAAAAATTCATTT
Found at i:10907929 original size:23 final size:23
Alignment explanation
Indices: 10907883--10907930 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
10907873 AAGTTGCAAA
* *
10907883 AATTATTTTAAATTTATAAAATT
1 AATTATTTTAAATGTAAAAAATT
10907906 AATT-TTTTAAATGTAAAAATATT
1 AATTATTTTAAATGTAAAAA-ATT
10907929 AA
1 AA
10907931 ATAATCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
AATTATTTTAAATGTAAAAAATT
Found at i:10908691 original size:22 final size:22
Alignment explanation
Indices: 10908666--10908724 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
10908656 GCGATCTAAG
10908666 AAAAAAATAAAAAAATA-AATT
1 AAAAAAATAAAAAAATAGAATT
* *
10908687 TAAAAATTAAAGAAAATAGAATT
1 AAAAAAATAAA-AAAATAGAATT
*
10908710 AAAAGAAATATAAAA
1 AAAA-AAATAAAAAA
10908725 TAGGGAAGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 9 0.30
22 6 0.20
23 10 0.33
24 5 0.17
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (22 bp):
AAAAAAATAAAAAAATAGAATT
Done.