Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 138 of 333
Found at i:45099834 original size:27 final size:27
Alignment explanation
Indices: 45099804--45100173 Score: 390
Period size: 27 Copynumber: 13.9 Consensus size: 27
45099794 AGATATACCA
*
45099804 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
45099831 GTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
** * *
45099858 GTCATTTTACCCTATAAGGGAATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * ** *
45099885 GTCATTTTACCTTATGAGACTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
45099912 GTCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
45099939 ATCA-TTTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
45099965 GTCATTTTACCCTATAGAGGTATTT-T
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
45099991 GTTA-TTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
45100017 TTCATTTTACACTAT-AGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
45100043 GTCATTTTACCCGATAGGGGTACTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
45100070 GTCATTTTACCCTATGAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
45100097 ATCATTTTATCCTATGGGGGTATTTC-
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
45100123 GTCATTTTACCCTATAGGGCTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
45100150 GTCATTTAACCCTGTGGGGGTATT
1 GTCATTTTACCCTATGGGGGTATT
45100174 GTAACAGCCC
Statistics
Matches: 288, Mismatches: 50, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
25 18 0.06
26 73 0.25
27 197 0.68
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:45099969 original size:53 final size:54
Alignment explanation
Indices: 45099804--45100173 Score: 385
Period size: 53 Copynumber: 6.9 Consensus size: 54
45099794 AGATATACCA
* * * *
45099804 GTCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
* * * * * * ** *
45099858 GTCATTTTACCCTATAAGGGAATTTTGGTCATTTTACCTTATGAGACTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
* * * *
45099912 GTCATTTTACCTTATGGGGGTATTTCGATCA-TTTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
* * * *
45099965 GTCATTTTACCCTATAGAGGTATTTTG-TTA-TTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
* * * * *
45100017 TTCATTTTACACTATA-GGGTATTTC-AGTCATTTTACCCGATAGGGGTACTTCG
1 GTCATTTTACCCTATAGGGGTATTTCGA-TCATTTTACCCTATGGGGGTATTTCG
* *
45100070 GTCATTTTACCCTAT-GAGGGTATTTCAATCATTTTATCCTATGGGGGTATTTC-
1 GTCATTTTACCCTATAG-GGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
* * * *
45100123 GTCATTTTACCCTATAGGGCTATTTCGGTCATTTAACCCTGTGGGGGTATT
1 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATT
45100174 GTAACAGCCC
Statistics
Matches: 260, Mismatches: 49, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
51 7 0.03
52 37 0.14
53 114 0.44
54 101 0.39
55 1 0.00
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (54 bp):
GTCATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCG
Found at i:45100102 original size:80 final size:80
Alignment explanation
Indices: 45099802--45100173 Score: 405
Period size: 80 Copynumber: 4.7 Consensus size: 80
45099792 AGAGATATAC
* * ***
45099802 CAGTCATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATGGGGGTATTTTGGTCATTTTA
1 CAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAATCATTTTA
*
45099867 CCCTATAAGGGAATTT
66 -CCTATAAGGGTATTT
** * ** * * *
45099883 TGGTCATTTTACCTTAT-GAGACTATTTCAGTCATTTTACCTTATGGGGGTATTTCGATCA-TTT
1 CAGTCATTTTACCCTATAG-GGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAATCATTTT
*
45099946 ACCTTATAGGGGTATTT
65 ACC-TATAAGGGTATTT
* * * * *
45099963 CGGTCATTTTACCCTATAGAGGTATTT-TGTTA-TTTACCCTATGGGGGTATTTCATTCATTTTA
1 CAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAATCATTTTA
45100026 CACTAT-AGGGTATTT
66 C-CTATAAGGGTATTT
* * *
45100041 CAGTCATTTTACCCGATAGGGGTACTTCGGTCATTTTACCCTATGAGGGTATTTCAATCATTTTA
1 CAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAATCATTTTA
**
45100106 TCCTATGGGGGTATTT
66 -CCTATAAGGGTATTT
* * *
45100122 C-GTCATTTTACCCTATAGGGCTATTTCGGTCATTTAACCCTGTGGGGGTATT
1 CAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGGGGGTATT
45100174 GTAACAGCCC
Statistics
Matches: 244, Mismatches: 38, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
78 54 0.22
79 16 0.07
80 115 0.47
81 59 0.24
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.42
Consensus pattern (80 bp):
CAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCAATCATTTTA
CCTATAAGGGTATTT
Found at i:45101774 original size:29 final size:28
Alignment explanation
Indices: 45101738--45101815 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
45101728 TCATGAGATT
45101738 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
45101768 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
45101795 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
45101816 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:45102033 original size:174 final size:174
Alignment explanation
Indices: 45101768--45102095 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
45101758 AAATTGTACA
*
45101768 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
45101833 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
45101898 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
45101942 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
45102007 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
45102072 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
45102096 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:45109908 original size:29 final size:28
Alignment explanation
Indices: 45109872--45109949 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
45109862 TCATGAGATT
45109872 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
45109902 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
45109929 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
45109950 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:45110167 original size:174 final size:174
Alignment explanation
Indices: 45109902--45110229 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
45109892 AAATTGTACA
*
45109902 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
45109967 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
45110032 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
45110076 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
45110141 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
45110206 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
45110230 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:45116826 original size:24 final size:24
Alignment explanation
Indices: 45116789--45116855 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
45116779 GGAAGCTCAT
*
45116789 AAGAGCCATAATCGAGAAGTTCACA
1 AAGAACCAT-ATCGAGAAGTTCACA
* *
45116814 AAGAACCTTATCGGGAAGTTCACA
1 AAGAACCATATCGAGAAGTTCACA
45116838 AAGAACCATATCGAGAAG
1 AAGAACCATATCGAGAAG
45116856 CTCTGGATAG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 30 0.81
25 7 0.19
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.16
Consensus pattern (24 bp):
AAGAACCATATCGAGAAGTTCACA
Found at i:45116930 original size:27 final size:27
Alignment explanation
Indices: 45116892--45116943 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
45116882 CAAGCTAGCA
* *
45116892 TTAATGGGAAGCTCATAAAGAGCCAAT
1 TTAATGGAAAGCTCAGAAAGAGCCAAT
45116919 TTAATGGAAAGCTCAGAAAGAGCCA
1 TTAATGGAAAGCTCAGAAAGAGCCA
45116944 TATAATAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.19
Consensus pattern (27 bp):
TTAATGGAAAGCTCAGAAAGAGCCAAT
Found at i:45116949 original size:26 final size:27
Alignment explanation
Indices: 45116893--45116949 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
45116883 AAGCTAGCAT
* * *
45116893 TAATGGGAAGCTCATAAAGAGCCAATT
1 TAATGGAAAGCTCAGAAAGAGCCAATA
45116920 TAATGGAAAGCTCAGAAAGAGCC-ATA
1 TAATGGAAAGCTCAGAAAGAGCCAATA
45116946 TAAT
1 TAAT
45116950 AGGATGCTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (27 bp):
TAATGGAAAGCTCAGAAAGAGCCAATA
Found at i:45116958 original size:26 final size:26
Alignment explanation
Indices: 45116893--45116959 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
45116883 AAGCTAGCAT
* *
45116893 TAATGGGAAGCTCATAAAGAGCCAATT
1 TAAT-GGAAGCTCAGAAAGAGCCAATA
45116920 TAATGGAAAGCTCAGAAAGAGCC-ATA
1 TAATGG-AAGCTCAGAAAGAGCCAATA
*
45116946 TAATAGGATGCTCA
1 TAAT-GGAAGCTCA
45116960 TAAGAGCTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 14 0.40
27 21 0.60
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (26 bp):
TAATGGAAGCTCAGAAAGAGCCAATA
Found at i:45122244 original size:145 final size:145
Alignment explanation
Indices: 45122043--45122482 Score: 774
Period size: 145 Copynumber: 3.0 Consensus size: 145
45122033 AACTCAAGGT
*
45122043 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
45122108 GAAAATATATATTGGGTTCGGACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
**
45122173 A-TTTCAAGTTCGCAC
131 ACTTT-AAACTCGCAC
*
45122188 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
45122253 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
45122318 ACTTTAAACTCGCAC
131 ACTTTAAACTCGCAC
45122333 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
45122398 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACACACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
45122463 ACTTTAAACTTGCAC
131 ACTTTAAACTCGCAC
45122478 ACTTA
1 ACTTA
45122483 GTGCTGTACA
Statistics
Matches: 284, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
145 281 0.99
146 3 0.01
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCGCAC
Found at i:45122480 original size:29 final size:30
Alignment explanation
Indices: 45122446--45122517 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
45122436 ATCAACCACA
**
45122446 CACACTTAGTGCCATGTAC-TTTAAACTTG
1 CACACTTAGTGCCATGTACATTTAAACCCG
45122475 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCG
45122504 CACACTTAGTGCCA
1 CACACTTAGTGCCA
45122518 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCG
Found at i:45130505 original size:145 final size:145
Alignment explanation
Indices: 45130304--45130598 Score: 563
Period size: 145 Copynumber: 2.0 Consensus size: 145
45130294 AACTCAAGGT
*
45130304 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATATAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
45130369 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
45130434 ACTTTAAACTCGCAC
131 ACTTTAAACTCGCAC
* *
45130449 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTTGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
45130514 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
45130579 ACTTTAAACTCGCAC
131 ACTTTAAACTCGCAC
45130594 ACTTA
1 ACTTA
45130599 GTGCTGTACA
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
145 147 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (145 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATATAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCGCAC
Found at i:45130594 original size:29 final size:30
Alignment explanation
Indices: 45130555--45130633 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
45130545 CTTAATAATC
45130555 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
45130585 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
45130614 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
45130634 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:45144204 original size:40 final size:39
Alignment explanation
Indices: 45144122--45144212 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 39
45144112 TATGTTCAGT
*
45144122 ACTAAGTGTGCGATTTGAAATAGCTTCGGCTATAAATAGC
1 ACTAAGTGTGCGAATTGAAATAGCTTCGGCTAT-AATAGC
* * *
45144162 ACTAAGTGTGCGAATTGGATTAGCTTCTGCTAT-ATGAGGC
1 ACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAAT-A-GC
*
45144202 ACTAGGTGTGC
1 ACTAAGTGTGC
45144213 AATATTGAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.05
39 1 0.02
40 41 0.93
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.31
Consensus pattern (39 bp):
ACTAAGTGTGCGAATTGAAATAGCTTCGGCTATAATAGC
Found at i:45147632 original size:37 final size:37
Alignment explanation
Indices: 45147591--45147684 Score: 102
Period size: 37 Copynumber: 2.6 Consensus size: 37
45147581 TTAGTGCTGA
* * *
45147591 GGCGTGTTATGGGTTGGATTATCTCTTATGAGCATTT
1 GGCGTGTTATCGGTTGGATTAGCTCTAATGAGCATTT
**
45147628 GGCGTGTTATCGGTTGG-TCTAGCTCTAATGAGTGTTT
1 GGCGTGTTATCGGTTGGAT-TAGCTCTAATGAGCATTT
* *
45147665 GGTGTGTT-TTGGTTGGATTA
1 GGCGTGTTATCGGTTGGATTA
45147685 CTTGTGTACT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
36 10 0.21
37 38 0.79
ACGTcount: A:0.14, C:0.10, G:0.33, T:0.44
Consensus pattern (37 bp):
GGCGTGTTATCGGTTGGATTAGCTCTAATGAGCATTT
Found at i:45155365 original size:42 final size:39
Alignment explanation
Indices: 45155288--45155366 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 39
45155278 ATTTGGAGGC
* *
45155288 ATTACTTATACGGTGAGACTATTATTTTCACAGATCAAA
1 ATTACTTATACAGTGAGACAATTATTTTCACAGATCAAA
*
45155327 ATTACTTATACAGTGGAAAGACAATTATTTTCATAGATCA
1 ATTACTTATACAGT-G--AGACAATTATTTTCACAGATCA
45155367 TAAAAGCTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 13 0.38
40 1 0.03
42 20 0.59
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (39 bp):
ATTACTTATACAGTGAGACAATTATTTTCACAGATCAAA
Found at i:45161271 original size:20 final size:22
Alignment explanation
Indices: 45161234--45161273 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
45161224 TATAAGATTA
45161234 TATATATATATCGTGTTTGGCT
1 TATATATATATCGTGTTTGGCT
*
45161256 TATATGTATAT-G-GTTTGG
1 TATATATATATCGTGTTTGG
45161274 TTAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.50
Consensus pattern (22 bp):
TATATATATATCGTGTTTGGCT
Found at i:45177984 original size:10 final size:10
Alignment explanation
Indices: 45177969--45177993 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
45177959 TCCATCTAAT
45177969 ACATACCAAA
1 ACATACCAAA
45177979 ACATACCAAA
1 ACATACCAAA
45177989 ACATA
1 ACATA
45177994 ATATCAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (10 bp):
ACATACCAAA
Found at i:45179825 original size:40 final size:40
Alignment explanation
Indices: 45179781--45179968 Score: 308
Period size: 40 Copynumber: 4.7 Consensus size: 40
45179771 GCTACTTGCT
45179781 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
45179821 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
45179861 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
45179901 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
45179940 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
45179969 CATCCAAATA
Statistics
Matches: 138, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 103 0.75
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:45189139 original size:40 final size:40
Alignment explanation
Indices: 45189095--45189322 Score: 370
Period size: 40 Copynumber: 5.7 Consensus size: 40
45189085 GCTACTTGCT
45189095 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
45189135 CAAATGCCTTCGGGACTTAGCCTGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
45189175 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
45189215 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
45189255 CAAATGCCTTCGGG-CTTAGCTCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
45189294 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
45189323 CATCCAAATA
Statistics
Matches: 174, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
38 1 0.01
39 32 0.18
40 140 0.80
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:45191313 original size:24 final size:24
Alignment explanation
Indices: 45191286--45191343 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
45191276 ATAAACTCTG
*
45191286 ACGAGCTGAAAACAGTAAGCTCCT
1 ACGAGCTGAAAACAGTAAGCTCAT
* *
45191310 ACGAGCTGAGAATAGTAAGCTCAT
1 ACGAGCTGAAAACAGTAAGCTCAT
*
45191334 ACGAGTTGAA
1 ACGAGCTGAA
45191344 GTGAGTCCGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.19
Consensus pattern (24 bp):
ACGAGCTGAAAACAGTAAGCTCAT
Found at i:45194750 original size:39 final size:41
Alignment explanation
Indices: 45194655--45194838 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
45194645 TTGAATGATG
*
45194655 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
45194694 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
45194734 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
45194773 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
45194813 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
45194839 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 8, Indels: 19
0.82 0.05 0.12
Matches are distributed among these distances:
39 55 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:45194860 original size:79 final size:79
Alignment explanation
Indices: 45194707--45194871 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
45194697 GGACTAAGAT
* **
45194707 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
*
45194772 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
45194786 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGA-G
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGA-GATA
* *
45194848 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
45194865 CCGAAGG
1 CCGAAGG
45194872 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.61
80 24 0.32
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGATACTAA
ATCCGGGTTAAATC
Found at i:45204315 original size:43 final size:43
Alignment explanation
Indices: 45204268--45204378 Score: 125
Period size: 43 Copynumber: 2.6 Consensus size: 43
45204258 GCCACTGTCT
* * *
45204268 CAGACAGGGTCTTACACGAAATCA-ATTAAAGATGTCAATATCC
1 CAGACATGGTCTTACACGAAATCACAATAAA-ATGCCAATATCC
* * *
45204311 CAGACATGGTCTTACACGTAATCACAATACAATGCCAATGTCC
1 CAGACATGGTCTTACACGAAATCACAATAAAATGCCAATATCC
* * *
45204354 TAGACATGGTCTTACATGTAATCAC
1 CAGACATGGTCTTACACGAAATCAC
45204379 GTCTCGATAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
43 55 0.93
44 4 0.07
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (43 bp):
CAGACATGGTCTTACACGAAATCACAATAAAATGCCAATATCC
Found at i:45214757 original size:41 final size:41
Alignment explanation
Indices: 45214711--45214788 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
45214701 GAGTAAGCTA
*
45214711 TATAGCTTAGTAAGCTCGTATGCAAGAAATAAGCAACATGG
1 TATAGCTTAGTAAGCTCATATGCAAGAAATAAGCAACATGG
45214752 TATAGCTTAGTAAGCTCATATGCAAGAAATAAGCAAC
1 TATAGCTTAGTAAGCTCATATGCAAGAAATAAGCAAC
45214789 CTTACCATGC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.24
Consensus pattern (41 bp):
TATAGCTTAGTAAGCTCATATGCAAGAAATAAGCAACATGG
Found at i:45216631 original size:12 final size:12
Alignment explanation
Indices: 45216614--45216639 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45216604 ATATCATGCA
45216614 TACTTACCATTT
1 TACTTACCATTT
45216626 TACTTACCATTT
1 TACTTACCATTT
45216638 TA
1 TA
45216640 ACCCCCCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (12 bp):
TACTTACCATTT
Found at i:45217951 original size:15 final size:15
Alignment explanation
Indices: 45217928--45217961 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
45217918 AAGGATCTCT
*
45217928 TTCTATTCTCGCTCG
1 TTCTATTCTCGCTCC
*
45217943 TTCTCTTCTCGCTCC
1 TTCTATTCTCGCTCC
45217958 TTCT
1 TTCT
45217962 TGCATTAGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.03, C:0.38, G:0.09, T:0.50
Consensus pattern (15 bp):
TTCTATTCTCGCTCC
Found at i:45220893 original size:39 final size:40
Alignment explanation
Indices: 45220792--45221054 Score: 308
Period size: 40 Copynumber: 6.7 Consensus size: 40
45220782 TTGAATGATG
* *
45220792 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
45220831 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
45220872 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
45220911 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
45220950 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
45220990 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
45221029 AACCGGGCTATGT-CCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
45221055 AACGAGGAGC
Statistics
Matches: 204, Mismatches: 12, Indels: 15
0.88 0.05 0.06
Matches are distributed among these distances:
39 88 0.43
40 103 0.50
41 12 0.06
42 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:45228876 original size:40 final size:39
Alignment explanation
Indices: 45228845--45229015 Score: 254
Period size: 39 Copynumber: 4.3 Consensus size: 39
45228835 GGACTAAGAT
45228845 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
45228884 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
45228923 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* * *
45228963 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-C
45229003 CCGAAGGCATTTG
1 CCGAAGGCATTTG
45229016 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
39 75 0.61
40 48 0.39
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:45228893 original size:39 final size:40
Alignment explanation
Indices: 45228792--45229015 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
45228782 TTGAATGATG
* * *
45228792 TCCGAGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
45228831 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
45228872 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
45228911 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
45228950 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
45228989 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
45229016 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
39 75 0.45
40 77 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:45228979 original size:79 final size:79
Alignment explanation
Indices: 45228792--45229015 Score: 260
Period size: 79 Copynumber: 2.8 Consensus size: 79
45228782 TTGAATGATG
* * * * *
45228792 TCCGAGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTATAACCGGGCTAAG-TCCCGAAGGCA
*
45228854 TTTGTGCGAGATACTAAT
62 TTTGTGCGAGATACTAAA
*
45228872 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCATTT
*
45228935 GTGCGAGTTACTAAA
65 GTGCGAGATACTAAA
* * *
45228950 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTT
45229015 G
65 G
45229016 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
78 36 0.28
79 56 0.44
80 34 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:45229037 original size:79 final size:79
Alignment explanation
Indices: 45228845--45229048 Score: 220
Period size: 79 Copynumber: 2.6 Consensus size: 79
45228835 GGACTAAGAT
** * *
45228845 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACT
*
45228908 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** * *
45228923 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
*
45228987 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* * *
45229003 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
45229049 TACGTGATTT
Statistics
Matches: 110, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
77 1 0.01
78 36 0.33
79 48 0.44
80 25 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:45231656 original size:12 final size:12
Alignment explanation
Indices: 45231639--45231666 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
45231629 CAGCATAAAT
45231639 AATTGGAAATTA
1 AATTGGAAATTA
45231651 AATTGGAAATTA
1 AATTGGAAATTA
45231663 AATT
1 AATT
45231667 CAAATTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (12 bp):
AATTGGAAATTA
Found at i:45233430 original size:12 final size:12
Alignment explanation
Indices: 45233413--45233438 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45233403 CAAGGCAAGT
45233413 AATTTGGTTCCA
1 AATTTGGTTCCA
45233425 AATTTGGTTCCA
1 AATTTGGTTCCA
45233437 AA
1 AA
45233439 GTCGCAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (12 bp):
AATTTGGTTCCA
Found at i:45234339 original size:151 final size:151
Alignment explanation
Indices: 45234065--45234360 Score: 520
Period size: 151 Copynumber: 2.0 Consensus size: 151
45234055 AAATTTATTA
*
45234065 GATTAAGGGCAATTAAAATAGGTAGTAACTAAATTCGTAGGGAGATTGATTAATTAAAGTGGATG
1 GATTAAGGGCAATTAAAATAGGTAGTAACTAAATCCGTAGGGAGATTGATTAATTAAAGTGGATG
* **
45234130 TGATTAGTTTAAAGTTAGGGTTTAAAATTGATTAATTGGATTAAATCGAACGTGCTTAAACCCTA
66 TGATTAGTCTAAAGTTAAAGTTTAAAATTGATTAATTGGATTAAATCGAACGTGCTTAAACCCTA
*
45234195 GAATTGATGACTTTAGGATCG
131 GAATTGATAACTTTAGGATCG
* * *
45234216 GATTAAGGGCAATTAAAATGGGTAGTAACTAAATCCGTAGGGAGATTGATTAATTGAAGTGGGTG
1 GATTAAGGGCAATTAAAATAGGTAGTAACTAAATCCGTAGGGAGATTGATTAATTAAAGTGGATG
45234281 TGATTAGTCTAAAGTTAAAGTTTAAAATTGATTAATTGGATTAAATCGAACGTGCTTAAACCCTA
66 TGATTAGTCTAAAGTTAAAGTTTAAAATTGATTAATTGGATTAAATCGAACGTGCTTAAACCCTA
45234346 GAATTGATAACTTTA
131 GAATTGATAACTTTA
45234361 TGAAGTAATT
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
151 137 1.00
ACGTcount: A:0.37, C:0.08, G:0.23, T:0.33
Consensus pattern (151 bp):
GATTAAGGGCAATTAAAATAGGTAGTAACTAAATCCGTAGGGAGATTGATTAATTAAAGTGGATG
TGATTAGTCTAAAGTTAAAGTTTAAAATTGATTAATTGGATTAAATCGAACGTGCTTAAACCCTA
GAATTGATAACTTTAGGATCG
Found at i:45235353 original size:62 final size:57
Alignment explanation
Indices: 45235257--45235380 Score: 151
Period size: 62 Copynumber: 2.1 Consensus size: 57
45235247 AATATTAAGT
* * *
45235257 TAATATAATATTTATTAAGATGAATATTAGATTAAATTTAATATTAAATCTTACTAAAA
1 TAATAAAATATTTATTAAGATGAATATTAAATTAAAATTAATATTAAA-C-TACTAAAA
*
45235316 TAATAAAATATTTATCTACAAGAT-AAGTATTAAATTAAAATTAATATTAAACTATTAAAA
1 TAATAAAATATTTAT-T--AAGATGAA-TATTAAATTAAAATTAATATTAAACTACTAAAA
45235376 TAATA
1 TAATA
45235381 TTATTTTTGG
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
59 14 0.25
60 13 0.23
61 3 0.05
62 27 0.47
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (57 bp):
TAATAAAATATTTATTAAGATGAATATTAAATTAAAATTAATATTAAACTACTAAAA
Found at i:45235826 original size:19 final size:19
Alignment explanation
Indices: 45235793--45235832 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
45235783 AAAATATCAT
*
45235793 ATTAATTTTAATTTATTTG
1 ATTAATTTTAATTTACTTG
45235812 ATTAA-TTTAATTTTACTTG
1 ATTAATTTTAA-TTTACTTG
45235831 AT
1 AT
45235833 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTTACTTG
Found at i:45237958 original size:14 final size:14
Alignment explanation
Indices: 45237912--45237959 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
45237902 TTTTTAAATT
45237912 ATTAATT-AATT-A
1 ATTAATTGAATTAA
45237924 ATTAATTGAAGTTCAA
1 ATTAATTGAA-TT-AA
45237940 A--AATTGAATTAA
1 ATTAATTGAATTAA
45237952 ATTAATTG
1 ATTAATTG
45237960 GTCATAGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 10 0.33
13 4 0.13
14 14 0.47
16 2 0.07
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (14 bp):
ATTAATTGAATTAA
Found at i:45241142 original size:46 final size:45
Alignment explanation
Indices: 45241089--45241263 Score: 174
Period size: 46 Copynumber: 3.8 Consensus size: 45
45241079 TGGTTGAGCA
*
45241089 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-ATGCAAACG
* * * * *
45241135 TCCGAACTTGTTGAGTTGAGTCCGAGTTCGC-GA-GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAA--A--CG
* * *
45241182 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCAAACG
* * *
45241228 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG
45241264 GGCGGGTTAC
Statistics
Matches: 104, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 3 0.03
46 60 0.58
47 28 0.27
48 2 0.02
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCAAACG
Found at i:45241245 original size:93 final size:93
Alignment explanation
Indices: 45241086--45241258 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
45241076 GGATGGTTGA
* * * * *
45241086 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCAAATGTCCGAACTTGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGAATGCAAACGCCCGAACTCGTTGAGT
45241151 TGAGTCCGAGTTCGCGAGATGTAACTAG
66 TGAGTCCGAGTTCGCGAGATGTAACTAG
* * *
45241179 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGAATGCAAACGCCCGAACTCGTTGAGT
45241244 TGAGTCCGAGTTCGC
66 TGAGTCCGAGTTCGC
45241259 TTATGGGCGG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTCATGAATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGCGAGATGTAACTAG
Found at i:45244469 original size:48 final size:48
Alignment explanation
Indices: 45244389--45244714 Score: 374
Period size: 48 Copynumber: 6.8 Consensus size: 48
45244379 CACCATATTA
* *
45244389 ATGTGTGCCAGTGTAAAACCATGTTTGAGACATGGCATCGACGATGAT
1 ATGTGTGCCAGTGTAAAACCATGTCTGGGACATGGCATCGACGATGAT
*
45244437 ATGTGTGCCAGTGTAAAACCATATCTGGGACATGGCATC-AGCGATGAT
1 ATGTGTGCCAGTGTAAAACCATGTCTGGGACATGGCATCGA-CGATGAT
* * * *
45244485 ATGTGTGCCTGTGTAAAACCATGTCTGGGATATGGCATCGGCAATGAT
1 ATGTGTGCCAGTGTAAAACCATGTCTGGGACATGGCATCGACGATGAT
* * * *
45244533 ATATGTGCCTA-TGTAAGACCATGTCTGGAACATGGCATCGATGATGAT
1 ATGTGTGCC-AGTGTAAAACCATGTCTGGGACATGGCATCGACGATGAT
* * * * *
45244581 ATATGTGCCTGTGTAAGACTATGTCTGGGACATGGCATCGACAATGAT
1 ATGTGTGCCAGTGTAAAACCATGTCTGGGACATGGCATCGACGATGAT
* * * *
45244629 ATGTGTGCCTGTGTAAGACCATGTCTGGAACATGGCATCAACGATGAT
1 ATGTGTGCCAGTGTAAAACCATGTCTGGGACATGGCATCGACGATGAT
* *
45244677 ATGTG-GATTCA-TGTAAGACCATGTC-GGAGACATGGCAT
1 ATGTGTG--CCAGTGTAAAACCATGTCTGG-GACATGGCAT
45244715 TGGCACTTTA
Statistics
Matches: 242, Mismatches: 29, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
47 4 0.02
48 237 0.98
49 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (48 bp):
ATGTGTGCCAGTGTAAAACCATGTCTGGGACATGGCATCGACGATGAT
Found at i:45244652 original size:144 final size:145
Alignment explanation
Indices: 45244392--45244714 Score: 415
Period size: 144 Copynumber: 2.2 Consensus size: 145
45244382 CATATTAATG
* * *
45244392 TGTGCC-AGTGTAAAACCATGT-TTGAGACATGGCATCGACGATGATATGTGTGCCAGTGTAAAA
1 TGTGCCTA-TGTAAGACCATGTCTGGAGACATGGCATCGACGATGATATATGTGCCAGTGTAAAA
* * *
45244455 CCATATCTGGGACATGGCATCAGCGATGATATGTGTGCCTGTGTAAAACCATGTCTGGGATATGG
65 CCATATCTGGGACATGGCATCAGCAATGATATGTGTGCCTGTGTAAAACCATGTCTGGAACATGG
**
45244520 CATCGGCAATGATATA
130 CATCAACAATGATATA
* * *
45244536 TGTGCCTATGTAAGACCATGTCTGGA-ACATGGCATCGATGATGATATATGTGCCTGTGTAAGAC
1 TGTGCCTATGTAAGACCATGTCTGGAGACATGGCATCGACGATGATATATGTGCCAGTGTAAAAC
* * *
45244600 TATGTCTGGGACATGGCATC-GACAATGATATGTGTGCCTGTGTAAGACCATGTCTGGAACATGG
66 CATATCTGGGACATGGCATCAG-CAATGATATGTGTGCCTGTGTAAAACCATGTCTGGAACATGG
* *
45244664 CATCAACGATGATATG
130 CATCAACAATGATATA
**
45244680 TG-GATTCATGTAAGACCATGTC-GGAGACATGGCAT
1 TGTGCCT-ATGTAAGACCATGTCTGGAGACATGGCAT
45244715 TGGCACTTTA
Statistics
Matches: 156, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
143 6 0.04
144 146 0.94
145 4 0.03
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (145 bp):
TGTGCCTATGTAAGACCATGTCTGGAGACATGGCATCGACGATGATATATGTGCCAGTGTAAAAC
CATATCTGGGACATGGCATCAGCAATGATATGTGTGCCTGTGTAAAACCATGTCTGGAACATGGC
ATCAACAATGATATA
Found at i:45244692 original size:96 final size:96
Alignment explanation
Indices: 45244389--45244714 Score: 422
Period size: 96 Copynumber: 3.4 Consensus size: 96
45244379 CACCATATTA
* * * * * * *
45244389 ATGTGTGCCAGTGTAAAACCATGTTTGAGACATGGCATCGACGATGATATGTGTGCCAGTGTAAA
1 ATGTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGTGTGCCTGTGTAAG
* * *
45244454 ACCATATCTGGGACATGGCATCAGCGATGAT
66 ACCATGTCTGGAACATGGCATCAACGATGAT
* * * * *
45244485 ATGTGTGCCTGTGTAAAACCATGTCTGGGATATGGCATCGGCAATGATATATGTGCCTATGTAAG
1 ATGTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGTGTGCCTGTGTAAG
* *
45244550 ACCATGTCTGGAACATGGCATCGATGATGAT
66 ACCATGTCTGGAACATGGCATCAACGATGAT
* *
45244581 ATATGTGCCTGTGTAAGACTATGTCTGGGACATGGCATCGACAATGATATGTGTGCCTGTGTAAG
1 ATGTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGTGTGCCTGTGTAAG
45244646 ACCATGTCTGGAACATGGCATCAACGATGAT
66 ACCATGTCTGGAACATGGCATCAACGATGAT
** *
45244677 ATGTG-GATTCATGTAAGACCATGTC-GGAGACATGGCAT
1 ATGTGTGCCT-GTGTAAGACCATGTCTGG-GACATGGCAT
45244715 TGGCACTTTA
Statistics
Matches: 199, Mismatches: 29, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
95 4 0.02
96 195 0.98
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (96 bp):
ATGTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGTGTGCCTGTGTAAG
ACCATGTCTGGAACATGGCATCAACGATGAT
Found at i:45260539 original size:47 final size:47
Alignment explanation
Indices: 45260485--45260745 Score: 432
Period size: 47 Copynumber: 5.5 Consensus size: 47
45260475 TATTTGAATA
45260485 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
45260532 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
45260581 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
45260628 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
45260675 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
45260722 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
45260746 GAGTCCCGAA
Statistics
Matches: 203, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
47 156 0.77
49 47 0.23
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:45266298 original size:18 final size:18
Alignment explanation
Indices: 45266275--45266315 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
45266265 CTAAAATATT
45266275 AATTAATTAATTAAATTA
1 AATTAATTAATTAAATTA
** *
45266293 AATTAATTTCTTTAATTA
1 AATTAATTAATTAAATTA
45266311 AATTA
1 AATTA
45266316 TTTTTTCAAC
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:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTAATTAATTAAATTA
Found at i:45271259 original size:50 final size:51
Alignment explanation
Indices: 45271137--45271274 Score: 145
Period size: 50 Copynumber: 2.7 Consensus size: 51
45271127 TCTTTTACAC
* * * * * *
45271137 ATAGTGGCATGCACTTAGTACCACACATGTGATCGAAGCTATCGGGTACGC
1 ATAGTAGCATGCACTTAGTACTACACATGTGAACTAAGCCATCGGGTACGA
* * * * *
45271188 ATAGTAGCCTGGACTTAGTACTACACATGTGACCTAA-CCATCTGGTA-TA
1 ATAGTAGCATGCACTTAGTACTACACATGTGAACTAAGCCATCGGGTACGA
*
45271237 AGTAGTAGCATGCACTTAGTACTACACACGTGAACTAA
1 A-TAGTAGCATGCACTTAGTACTACACATGTGAACTAA
45271275 AACCATTTTA
Statistics
Matches: 72, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
49 1 0.01
50 40 0.56
51 31 0.43
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (51 bp):
ATAGTAGCATGCACTTAGTACTACACATGTGAACTAAGCCATCGGGTACGA
Found at i:45273741 original size:42 final size:42
Alignment explanation
Indices: 45273648--45273780 Score: 142
Period size: 42 Copynumber: 3.1 Consensus size: 42
45273638 CTTATATGGG
* * * * *
45273648 ATCACATATCGATGCCGATAGCCC-AGCTATGGTATTACACGAT
1 ATCACATATCGATGCC-ATATCCCAAAC-ATGGTCTTACACAAA
* * *
45273691 GTCTCATATCGATGCCATGTCCCAAACATGGTCTTACACAAA
1 ATCACATATCGATGCCATATCCCAAACATGGTCTTACACAAA
* * *
45273733 ATCACATATCGATGCCATATCCCAGATATGGTCTTACACGAA
1 ATCACATATCGATGCCATATCCCAAACATGGTCTTACACAAA
45273775 ATCACA
1 ATCACA
45273781 CATAACCCTA
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
42 59 0.79
43 16 0.21
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (42 bp):
ATCACATATCGATGCCATATCCCAAACATGGTCTTACACAAA
Found at i:45298809 original size:13 final size:13
Alignment explanation
Indices: 45298791--45298816 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45298781 AAGTTGATAC
45298791 ATCATTAATAAGT
1 ATCATTAATAAGT
45298804 ATCATTAATAAGT
1 ATCATTAATAAGT
45298817 TTAAAGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
ATCATTAATAAGT
Found at i:45301571 original size:71 final size:70
Alignment explanation
Indices: 45301469--45301602 Score: 169
Period size: 71 Copynumber: 1.9 Consensus size: 70
45301459 ATGTGTCCTA
* * * * *
45301469 CGCTAGTCGGTAGAACTGACAAATAAGTGTGCCTAGCAATAGTCGGCATAGCCGACAATAAATGT
1 CGCTAGTCGATAGAACTGAAAAATAACTGTGCCTAG-AATAGTCGGCATAACCGAAAATAAATGT
45301534 ACCTTG
65 ACCTTG
* * * * *
45301540 CGCTGGTCGATAGAGCTGAAAAATAACTGTGCCTAGACTGGTCGGTATAACCGAAAATAAATG
1 CGCTAGTCGATAGAACTGAAAAATAACTGTGCCTAGAATAGTCGGCATAACCGAAAATAAATG
45301603 CGTCCTACGC
Statistics
Matches: 53, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
70 22 0.42
71 31 0.58
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (70 bp):
CGCTAGTCGATAGAACTGAAAAATAACTGTGCCTAGAATAGTCGGCATAACCGAAAATAAATGTA
CCTTG
Found at i:45301655 original size:141 final size:144
Alignment explanation
Indices: 45301410--45301768 Score: 386
Period size: 141 Copynumber: 2.5 Consensus size: 144
45301400 TGGCCTATAA
* * * * ** * *
45301410 AACC-AAAAAATGAGTATGCCTAGCACTAGTCGGTATAATCAAAAAACAAATGTGTCCTACGCTA
1 AACCAAAAAAATAAATATGCCTAGAACTGGTCGGTATAA-CCGAAAATAAATGTGTCCTACGCTG
* * * * *
45301474 GTCGGTAGAA-CTGACAAATAAGTGTGCCTAGCAATAGTCGGCATAGCCGACAATAAATGTACCT
65 GTCGGTAGAATCTAAAAAATAAGTATGCCCAGCAATAGTCGGCATAACCGACAATAAATGTACCT
* *
45301538 TGCGCTGGTCGATAG
130 TGCGCTAGTAGATAG
* ** * * *
45301553 -AGCTGAAAAATAACTGTGCCTAG-ACTGGTCGGTATAACCGAAAATAAATGCGTCCTACGCTGG
1 AACCAAAAAAATAAATATGCCTAGAACTGGTCGGTATAACCGAAAATAAATGTGTCCTACGCTGG
* * * * * * *
45301616 TTGGTAGAATC-AAAAAATAAGTATGCCCATCACTGGTCGGTATAATCGACAATAAATGTGCCTT
66 TCGGTAGAATCTAAAAAATAAGTATGCCCAGCAATAGTCGGCATAACCGACAATAAATGTACCTT
45301680 GCGCTAGTAGATAG
131 GCGCTAGTAGATAG
* * **
45301694 AACCAAAAAAATAAATATGCCTAGAACTGGTCGGTATAATCGACAATAAATGTGTCCTGTGCTGG
1 AACCAAAAAAATAAATATGCCTAGAACTGGTCGGTATAACCGAAAATAAATGTGTCCTACGCTGG
45301759 TCGGTAGAAT
66 TCGGTAGAAT
45301769 AGACAAATAA
Statistics
Matches: 176, Mismatches: 36, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
141 83 0.47
142 34 0.19
143 59 0.34
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (144 bp):
AACCAAAAAAATAAATATGCCTAGAACTGGTCGGTATAACCGAAAATAAATGTGTCCTACGCTGG
TCGGTAGAATCTAAAAAATAAGTATGCCCAGCAATAGTCGGCATAACCGACAATAAATGTACCTT
GCGCTAGTAGATAG
Found at i:45301767 original size:72 final size:71
Alignment explanation
Indices: 45301410--45301767 Score: 310
Period size: 72 Copynumber: 5.0 Consensus size: 71
45301400 TGGCCTATAA
* * * * * * * *
45301410 AACCAAAAAATGAGTATGCCTAGCACTAGTCGGTATAATCAAAAAACAAATGTGTCCTACGCTAG
1 AACCAAAAAATAAGTATGCCTAGAACTGGTCGGTATAATC-GACAATAAATGTGTCCTGCGCTGG
45301475 TCGGTAG
65 TCGGTAG
** * * * * ** *
45301482 AACTGACAAATAAGTGTGCCTAGCAA-TAGTCGGCATAGCCGACAATAAATGT-ACCTTGCGCTG
1 AACCAAAAAATAAGTATGCCTAG-AACTGGTCGGTATAATCGACAATAAATGTGTCC-TGCGCTG
*
45301545 GTCGATAG
64 GTCGGTAG
* ** * * * * * *
45301553 AGCTGAAAAATAACTGTGCCTAG-ACTGGTCGGTATAACCGAAAATAAATGCGTCCTACGCTGGT
1 AACCAAAAAATAAGTATGCCTAGAACTGGTCGGTATAATCGACAATAAATGTGTCCTGCGCTGGT
*
45301617 TGGTAG
66 CGGTAG
* * ** *
45301623 AATCAAAAAATAAGTATGCCCATCACTGGTCGGTATAATCGACAATAAATGTG-CCTTGCGCTAG
1 AACCAAAAAATAAGTATGCCTAGAACTGGTCGGTATAATCGACAATAAATGTGTCC-TGCGCTGG
* *
45301687 TAGATAG
65 TCGGTAG
* *
45301694 AACCAAAAAAATAAATATGCCTAGAACTGGTCGGTATAATCGACAATAAATGTGTCCTGTGCTGG
1 AACC-AAAAAATAAGTATGCCTAGAACTGGTCGGTATAATCGACAATAAATGTGTCCTGCGCTGG
45301759 TCGGTAG
65 TCGGTAG
45301766 AA
1 AA
45301768 TAGACAAATA
Statistics
Matches: 226, Mismatches: 52, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
69 1 0.00
70 52 0.23
71 83 0.37
72 87 0.38
73 3 0.01
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (71 bp):
AACCAAAAAATAAGTATGCCTAGAACTGGTCGGTATAATCGACAATAAATGTGTCCTGCGCTGGT
CGGTAG
Found at i:45310352 original size:40 final size:40
Alignment explanation
Indices: 45310268--45310492 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
45310258 TTGAATGATG
* * *
45310268 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
45310307 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
45310348 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
* *
45310388 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
45310427 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
45310466 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
45310493 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
39 34 0.21
40 116 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:45311895 original size:16 final size:16
Alignment explanation
Indices: 45311874--45311904 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45311864 TTCATCACGA
45311874 CATAGATACATTTATG
1 CATAGATACATTTATG
*
45311890 CATAGATTCATTTAT
1 CATAGATACATTTAT
45311905 ATTAAAACAA
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:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (16 bp):
CATAGATACATTTATG
Found at i:45317212 original size:30 final size:30
Alignment explanation
Indices: 45317177--45317245 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
45317167 ACCTAAAAGG
* *
45317177 ACACACGGGCGCGTCGCATGCCTGTGTGTC
1 ACACACGGCCGCGTCGCATGCCTGTATGTC
**
45317207 ACACACGGCCGTTTCGCATGCCTGTATGTC
1 ACACACGGCCGCGTCGCATGCCTGTATGTC
45317237 ACACACGGC
1 ACACACGGC
45317246 TGAGACACAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.17, C:0.35, G:0.28, T:0.20
Consensus pattern (30 bp):
ACACACGGCCGCGTCGCATGCCTGTATGTC
Found at i:45318269 original size:21 final size:21
Alignment explanation
Indices: 45318090--45318279 Score: 202
Period size: 21 Copynumber: 9.0 Consensus size: 21
45318080 CAAACACGCC
* * *
45318090 AACAGAAGCTCATAAAAGCTT
1 AACAGAAGCTCGTAAGAGCTG
* * * *
45318111 AATAGAAGCTCGAAAGAACCG
1 AACAGAAGCTCGTAAGAGCTG
* *
45318132 AATAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* * *
45318153 AACAGAAGCTTGTGAGAGCTA
1 AACAGAAGCTCGTAAGAGCTG
* *
45318174 AACAGAAGCTCATAAGAGTTG
1 AACAGAAGCTCGTAAGAGCTG
* *
45318195 AACAGAGGCTCGTGAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
*
45318216 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
*
45318237 AACAGAAGCTCGTGAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
45318258 AACAGAAGCTCGTGAA-AGCTG
1 AACAGAAGCTCGT-AAGAGCTG
45318279 A
1 A
45318280 TCCACCCAAA
Statistics
Matches: 137, Mismatches: 31, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
21 136 0.99
22 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:45318279 original size:42 final size:42
Alignment explanation
Indices: 45318090--45318268 Score: 250
Period size: 42 Copynumber: 4.3 Consensus size: 42
45318080 CAAACACGCC
* * * ** * *
45318090 AACAGAAGCTCATAAAAGCTTAATAGAAGCTCGAAAGAACCG
1 AACAGAAGCTCATAAGAGCTGAACAGAAGCTCGTGAGAGCTG
* * *
45318132 AATAGAAGCTCATAAGAGCTGAACAGAAGCTTGTGAGAGCTA
1 AACAGAAGCTCATAAGAGCTGAACAGAAGCTCGTGAGAGCTG
* *
45318174 AACAGAAGCTCATAAGAGTTGAACAGAGGCTCGTGAGAGCTG
1 AACAGAAGCTCATAAGAGCTGAACAGAAGCTCGTGAGAGCTG
45318216 AACAGAAGCTCATAAGAGCTGAACAGAAGCTCGTGAGAGCTG
1 AACAGAAGCTCATAAGAGCTGAACAGAAGCTCGTGAGAGCTG
45318258 AACAGAAGCTC
1 AACAGAAGCTC
45318269 GTGAAAGCTG
Statistics
Matches: 120, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 120 1.00
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTGAACAGAAGCTCGTGAGAGCTG
Found at i:45330749 original size:40 final size:40
Alignment explanation
Indices: 45330668--45330888 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
45330658 AAACCAAGTA
** * *
45330668 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
45330707 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
45330747 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * *
45330787 CCTTTGGGACTTGGCCCGGTTATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
45330827 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
45330867 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
45330889 CAATCCGAAT
Statistics
Matches: 166, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 26 0.16
40 140 0.84
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:45340615 original size:50 final size:52
Alignment explanation
Indices: 45340505--45340625 Score: 174
Period size: 50 Copynumber: 2.4 Consensus size: 52
45340495 ATGAACAAAT
* * * *
45340505 GAGTTACTTAATGCATGACTTAATTTAATTATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
* *
45340557 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAAC-TTAACTTACATGA
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
45340607 GAGTTACATAATGCATGAC
1 GAGTTACATAATGCATGAC
45340626 TTTATTAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 29 0.47
51 10 0.16
52 23 0.37
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
Found at i:45340729 original size:39 final size:39
Alignment explanation
Indices: 45340649--45340729 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
45340639 GAACACATAT
* * * *
45340649 TAATGATGTTCAAACTATGACATAATTAAATACTCACAC
1 TAATGATGCTCAAACTATGACATAATTAAAGACACAAAC
45340688 TAATGATGCTCAAACTATGACATAATTAAAGACACAAAC
1 TAATGATGCTCAAACTATGACATAATTAAAGACACAAAC
45340727 TAA
1 TAA
45340730 AATAACTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.27
Consensus pattern (39 bp):
TAATGATGCTCAAACTATGACATAATTAAAGACACAAAC
Found at i:45343040 original size:21 final size:21
Alignment explanation
Indices: 45343016--45343057 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45343006 TCATCAGATC
*
45343016 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
45343037 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
45343058 AGGTGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:45356061 original size:25 final size:25
Alignment explanation
Indices: 45356027--45356076 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
45356017 GAAATTGGGA
45356027 AAATTTCTATTTAAGACCTTCTCAT
1 AAATTTCTATTTAAGACCTTCTCAT
45356052 AAATTTCTATTTAAGACCTTCTCAT
1 AAATTTCTATTTAAGACCTTCTCAT
45356077 TTATAATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.44
Consensus pattern (25 bp):
AAATTTCTATTTAAGACCTTCTCAT
Found at i:45360566 original size:11 final size:11
Alignment explanation
Indices: 45360547--45360576 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
45360537 AAAGTAAATA
*
45360547 TATAGTTCATT
1 TATACTTCATT
45360558 TATACTTCATT
1 TATACTTCATT
45360569 TATACTTC
1 TATACTTC
45360577 TTGTGCCTAT
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:0.27, C:0.17, G:0.03, T:0.53
Consensus pattern (11 bp):
TATACTTCATT
Found at i:45364312 original size:21 final size:21
Alignment explanation
Indices: 45364269--45364340 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
45364259 TCGAAAGAGC
* *
45364269 TAAACGGAAACCCAT-TAGGGT
1 TAAACGGAAACTCATGT-GAGT
45364290 TAAACGGAAACTCATGTGAGT
1 TAAACGGAAACTCATGTGAGT
* * * *
45364311 T-AACTGAAGCTCATGAGAGC
1 TAAACGGAAACTCATGTGAGT
45364331 TAAACGGAAA
1 TAAACGGAAA
45364341 GAAAACTTGA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 16 0.39
21 24 0.59
22 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (21 bp):
TAAACGGAAACTCATGTGAGT
Found at i:45365462 original size:21 final size:21
Alignment explanation
Indices: 45365438--45365479 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45365428 CTTTTTAATT
*
45365438 AATTGACTATCGAAACGTTAA
1 AATTGACTAACGAAACGTTAA
* *
45365459 AATTTACTAACGAAACTTTAA
1 AATTGACTAACGAAACGTTAA
45365480 TACTAACTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (21 bp):
AATTGACTAACGAAACGTTAA
Found at i:45369535 original size:11 final size:11
Alignment explanation
Indices: 45369521--45369545 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45369511 CTTGTAAGAT
45369521 TCTTTATTTTG
1 TCTTTATTTTG
45369532 TCTTTATTTTG
1 TCTTTATTTTG
45369543 TCT
1 TCT
45369546 ATCTCGTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.12, G:0.08, T:0.72
Consensus pattern (11 bp):
TCTTTATTTTG
Found at i:45374603 original size:21 final size:19
Alignment explanation
Indices: 45374555--45374603 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
45374545 GAGTACATCG
*
45374555 TAAACAGAAGCCCAAAGGC
1 TAAACAGAAGCACAAAGGC
**
45374574 TGCACAGAAGCACATAAGTGC
1 TAAACAGAAGCACA-AAG-GC
45374595 TAAACAGAA
1 TAAACAGAA
45374604 ACCCGTAAGG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 11 0.48
20 3 0.13
21 9 0.39
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.10
Consensus pattern (19 bp):
TAAACAGAAGCACAAAGGC
Found at i:45376210 original size:23 final size:23
Alignment explanation
Indices: 45376177--45376222 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
45376167 CAATTCATAG
45376177 ATTAAGCATAAATCATTATCAAT
1 ATTAAGCATAAATCATTATCAAT
*
45376200 ATTAAGTATAAATCATTATCAAT
1 ATTAAGCATAAATCATTATCAAT
45376223 GCCATGAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (23 bp):
ATTAAGCATAAATCATTATCAAT
Found at i:45376324 original size:81 final size:81
Alignment explanation
Indices: 45376189--45376347 Score: 309
Period size: 81 Copynumber: 2.0 Consensus size: 81
45376179 TAAGCATAAA
*
45376189 TCATTATCAATATTAAGTATAAATCATTATCAATGCCATGAGCTTAGTATAAGCCTATTTAAACA
1 TCATTATCAATATTAAGCATAAATCATTATCAATGCCATGAGCTTAGTATAAGCCTATTTAAACA
45376254 TCATCAAGCTCAAATG
66 TCATCAAGCTCAAATG
45376270 TCATTATCAATATTAAGCATAAATCATTATCAATGCCATGAGCTTAGTATAAGCCTATTTAAACA
1 TCATTATCAATATTAAGCATAAATCATTATCAATGCCATGAGCTTAGTATAAGCCTATTTAAACA
45376335 TCATCAAGCTCAA
66 TCATCAAGCTCAA
45376348 TTGTTAGTAG
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (81 bp):
TCATTATCAATATTAAGCATAAATCATTATCAATGCCATGAGCTTAGTATAAGCCTATTTAAACA
TCATCAAGCTCAAATG
Found at i:45380555 original size:30 final size:30
Alignment explanation
Indices: 45380484--45380561 Score: 93
Period size: 31 Copynumber: 2.6 Consensus size: 30
45380474 TTTTGAAAAT
* * *
45380484 TTATTATTTTAGTCACTCTTGTTAGATAAG
1 TTATAATTTTAGTCACTCTTATTAAATAAG
* *
45380514 CTGTCAATTTTAGTCACTCTTATTAAATAAG
1 TTAT-AATTTTAGTCACTCTTATTAAATAAG
*
45380545 TTATAATTTTATTCACT
1 TTATAATTTTAGTCACT
45380562 ATATGGTTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
30 14 0.36
31 25 0.64
ACGTcount: A:0.29, C:0.13, G:0.09, T:0.49
Consensus pattern (30 bp):
TTATAATTTTAGTCACTCTTATTAAATAAG
Found at i:45381395 original size:16 final size:16
Alignment explanation
Indices: 45381354--45381388 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
45381344 AATGATCAAT
*
45381354 TAAAGTCAAACTTATA
1 TAAAGTCAAACATATA
45381370 TAAAGTCAAACATATA
1 TAAAGTCAAACATATA
45381386 TAA
1 TAA
45381389 GCTCAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (16 bp):
TAAAGTCAAACATATA
Found at i:45381596 original size:21 final size:21
Alignment explanation
Indices: 45381568--45381607 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
45381558 CTTTATGAAT
45381568 TTTAATTTT-TTAAATTTTGA
1 TTTAATTTTCTTAAATTTTGA
*
45381588 TTTATATTTTCTTAATTTTT
1 TTTA-ATTTTCTTAAATTTT
45381608 AGAATCGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 5 0.29
22 8 0.47
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (21 bp):
TTTAATTTTCTTAAATTTTGA
Found at i:45381814 original size:30 final size:33
Alignment explanation
Indices: 45381770--45381830 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
45381760 GAACTCATTT
*
45381770 TAACGGTAGAGTGGCT-AAATTGTCAACTTACG
1 TAACGGTAGAGTGGCTAAAATTGACAACTTACG
45381802 TAACGG-A-AGTGGCTAAAATTGACAACTTA
1 TAACGGTAGAGTGGCTAAAATTGACAACTTA
45381831 TCTAATAGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 7 0.26
31 14 0.52
32 6 0.22
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (33 bp):
TAACGGTAGAGTGGCTAAAATTGACAACTTACG
Found at i:45382288 original size:31 final size:31
Alignment explanation
Indices: 45382217--45382295 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 31
45382207 TTTAAAGGTA
* *
45382217 AAGTGACTAAAATTGACTACTCATCTAATGG
1 AAGTGACTAAAATTAACAACTCATCTAATGG
* *
45382248 AAGTAACTAAAATTAACAACTTATCTAACAT-G
1 AAGTGACTAAAATTAACAACTCATCT-A-ATGG
45382280 -AGTGACTAAAA-TAACA
1 AAGTGACTAAAATTAACA
45382296 TTTTTTTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 5 0.12
31 32 0.78
32 2 0.05
33 2 0.05
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (31 bp):
AAGTGACTAAAATTAACAACTCATCTAATGG
Found at i:45382387 original size:440 final size:435
Alignment explanation
Indices: 45381574--45382388 Score: 894
Period size: 440 Copynumber: 1.8 Consensus size: 435
45381564 GAATTTTAAT
* * *
45381574 TTTTTAAATTTTGATTTATATTTTCTTAATTTTTAGAATCGTGACTAAATTGGTATAATGTGTAA
1 TTTTTAAATTTTAATTTATATTTTCTTAATTTTTAGAACCGTGACTAAATTGATATAATGTGTAA
* * *
45381639 ATGTTAAAAGTTAAATTTATTTATTTTTTTCAAAATCAGGATTAAACTAATAAAATGGGTCAACA
66 ATATTAAAAGTTAAATTTAGTTATTTTTTTCAAAATCAGGATTAAACTAATAAAATAGGTCAACA
* * * * * *
45381704 TTGAAGGCTAATTTTGTTATTATACCATGCCATATCAACATTCTATTAGGTGATCAGAACTCATT
131 TTGAAGGCTAATTTTGTTATCATACCAGGCCACACCAACATTCCATTAGATGATCAGAACTCATT
* * * * * ** *
45381769 TTAACGGTAGAGTGGCTAAATTGTCAACTTACGTAACGGAAGTGGCTAAAATTGACAACTTATCT
196 TTAAAGGTAAAGTGACTAAATTGACAACTCACGTAACGGAAGTAACTAAAATTAACAACTTATCT
* ** * * *
45381834 AATAGGAGTGACTGGAATAACAAATTTGTAAATGGGTGACCAAAATAGGAACATAGGTAAACTCA
261 AACAGGAGTGACTAAAATAACAAATTTGTAAATAGGTGACCAAAATAGAAACATAAGTAAACTCA
* * *
45381899 GGTGACTAAATAAGTAGTTAACCATAAATTTTAACAATTTTTAAATATATATTTTAAAATTTTTT
326 GGTGACTAAATAAGTAATTAACC----A--CTAAC-ATTTTAAAATATATATTTTAAAATTTTTT
45381964 TGAGTATCTTATCTATTTTTATAAATTTTAATAATGTGTGAATTTTTATGTA
384 TGAGTATCTTATCTATTTTTATAAATTTTAATAATGTGTGAATTTTTATGTA
*
45382016 TTTTT-AATTTTAATTTATACTTTT-TTAATTTTTAGAACCGTGACTAAATTGATATATTGTGTA
1 TTTTTAAATTTTAATTTATA-TTTTCTTAATTTTTAGAACCGTGACTAAATTGATATAATGTGTA
** * * * **
45382079 AATATTAAGGGTTAAATTT-GTTGTTTTTTTCAAAATTAGGATTAAATTTTTAAAATAGGT-AAT
65 AATATTAAAAGTTAAATTTAGTTATTTTTTTCAAAATCAGGATTAAACTAATAAAATAGGTCAA-
* * * * *
45382142 TATTGAGGGCTAATTCTT-TTATCATACCAGGCCACACCAATATTCCATTTGATTATCA-AA-TC
129 CATTGAAGGCTAATT-TTGTTATCATACCAGGCCACACCAACATTCCATTAGATGATCAGAACTC
* *
45382204 TATTTTAAAGGTAAAGTGACTAAAATTGACTACTCATC-TAATGGAAGTAACTAAAATTAACAAC
193 -ATTTTAAAGGTAAAGTGACT-AAATTGACAACTCA-CGTAACGGAAGTAACTAAAATTAACAAC
* ** *
45382268 TTATCTAACATGAGTGACTAAAATAACATTTTTTTTAAATAGGTGACCAAAATACCAAAATAGAA
255 TTATCTAACAGGAGTGACTAAAATAACA-AATTTGTAAATAGGTG--------ACCAAAATAGAA
* ** *
45382333 ACGTAAGTAAACTTGGGTGACTAAATAAGTAATTTACC-CTAAC-TTTTAAAATATAT
311 ACATAAGTAAACTCAGGTGACTAAATAAGTAATTAACCACTAACATTTTAAAATATAT
45382389 TCATATAAGA
Statistics
Matches: 306, Mismatches: 52, Indels: 32
0.78 0.13 0.08
Matches are distributed among these distances:
438 2 0.01
439 21 0.07
440 147 0.48
441 80 0.26
442 13 0.04
449 43 0.14
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (435 bp):
TTTTTAAATTTTAATTTATATTTTCTTAATTTTTAGAACCGTGACTAAATTGATATAATGTGTAA
ATATTAAAAGTTAAATTTAGTTATTTTTTTCAAAATCAGGATTAAACTAATAAAATAGGTCAACA
TTGAAGGCTAATTTTGTTATCATACCAGGCCACACCAACATTCCATTAGATGATCAGAACTCATT
TTAAAGGTAAAGTGACTAAATTGACAACTCACGTAACGGAAGTAACTAAAATTAACAACTTATCT
AACAGGAGTGACTAAAATAACAAATTTGTAAATAGGTGACCAAAATAGAAACATAAGTAAACTCA
GGTGACTAAATAAGTAATTAACCACTAACATTTTAAAATATATATTTTAAAATTTTTTTGAGTAT
CTTATCTATTTTTATAAATTTTAATAATGTGTGAATTTTTATGTA
Found at i:45389969 original size:6 final size:7
Alignment explanation
Indices: 45389945--45389975 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
45389935 TTGCTCTAAT
45389945 TTTTTCC
1 TTTTTCC
45389952 TTTTTCC
1 TTTTTCC
*
45389959 TTTTTCT
1 TTTTTCC
45389966 TTTTTCC
1 TTTTTCC
45389973 TTT
1 TTT
45389976 AAATCAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCC
Found at i:45393816 original size:22 final size:21
Alignment explanation
Indices: 45393786--45393829 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
45393776 TTTTGCCCCC
45393786 ACTTAAGCAATCACATATGATT
1 ACTTAAGCAATCACATAT-ATT
*
45393808 ACTTGAGCAATCACATATATT
1 ACTTAAGCAATCACATATATT
45393829 A
1 A
45393830 AACTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (21 bp):
ACTTAAGCAATCACATATATT
Found at i:45398887 original size:21 final size:21
Alignment explanation
Indices: 45398826--45398887 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
45398816 TGGGTTCGGG
*
45398826 ACTATTCCGGGTGGGCCTGGA
1 ACTATTCCGGGTGGGCTTGGA
* * *
45398847 AATATAAT-C-GGCGGGTTTGGA
1 ACTAT--TCCGGGTGGGCTTGGA
45398868 ACTATTCCGGGTGGGCTTGG
1 ACTATTCCGGGTGGGCTTGG
45398888 TGGTGGGCCA
Statistics
Matches: 30, Mismatches: 7, Indels: 8
0.67 0.16 0.18
Matches are distributed among these distances:
19 1 0.03
20 1 0.03
21 26 0.87
22 1 0.03
23 1 0.03
ACGTcount: A:0.18, C:0.18, G:0.37, T:0.27
Consensus pattern (21 bp):
ACTATTCCGGGTGGGCTTGGA
Found at i:45400319 original size:21 final size:21
Alignment explanation
Indices: 45400293--45400337 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
45400283 TATAAATATG
45400293 AAGAATAATATAAAGAGATTA
1 AAGAATAATATAAAGAGATTA
45400314 AAGAATAATATAAAGAGATTA
1 AAGAATAATATAAAGAGATTA
45400335 AAG
1 AAG
45400338 GAAATTGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.16, T:0.22
Consensus pattern (21 bp):
AAGAATAATATAAAGAGATTA
Found at i:45405688 original size:13 final size:13
Alignment explanation
Indices: 45405670--45405694 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45405660 TTTTTGTAAA
45405670 AGTTGTAAAAATG
1 AGTTGTAAAAATG
45405683 AGTTGTAAAAAT
1 AGTTGTAAAAAT
45405695 CTGAATTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (13 bp):
AGTTGTAAAAATG
Found at i:45406236 original size:48 final size:48
Alignment explanation
Indices: 45406171--45406307 Score: 186
Period size: 48 Copynumber: 2.9 Consensus size: 48
45406161 GGATATGTGT
*
45406171 GATCCTATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGA
* * *
45406219 GA-CATCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
1 GATC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGA
* * * *
45406267 GATCCCATGTAAGACCATATCTGGAATATGGCATTGACATC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
45406308 CTACTATGTG
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
47 1 0.01
48 76 0.97
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAATATGA
Found at i:45409945 original size:39 final size:39
Alignment explanation
Indices: 45409878--45410056 Score: 259
Period size: 39 Copynumber: 4.5 Consensus size: 39
45409868 ACAAAGCATG
* *
45409878 CGGGACTTTAAGCCCGAATATAATACCAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* * *
45409919 CGGGGCTTAGCCCAGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
45409958 CGGGGCTTAGCCCGGATATAACACTAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
45409997 CGGGACTTAGCCCGGATATAACACCAGCACGAATGTCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
45410036 CGGGACTTAACCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
45410057 TTCTCCATTA
Statistics
Matches: 126, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 119 0.94
40 2 0.02
41 5 0.04
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:45414499 original size:40 final size:40
Alignment explanation
Indices: 45414444--45414665 Score: 279
Period size: 40 Copynumber: 5.6 Consensus size: 40
45414434 TATTCGAATG
* *
45414444 ATATCCGGGCTAAGTCTCGAAGGTATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
45414484 ATATCTGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
45414524 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
45414564 ATATCCGGGCAAAGACCCAAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
45414604 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
45414644 ATA-CCCGGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
45414666 TACTTGGGTT
Statistics
Matches: 162, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 16 0.10
40 144 0.89
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:45422270 original size:40 final size:40
Alignment explanation
Indices: 45422215--45422432 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
45422205 CGGATGATAA
* * *
45422215 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
45422255 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
45422295 CTGGGTTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
45422335 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
45422375 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
45422415 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
45422433 TACCTGGCTT
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 16 0.10
40 143 0.90
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:45426255 original size:57 final size:57
Alignment explanation
Indices: 45426166--45426296 Score: 133
Period size: 57 Copynumber: 2.3 Consensus size: 57
45426156 GTTATGGTTT
* *
45426166 GATTTAGCCTGGA-TGGGTAATCCAGATCAAGCTCTT-TAGAGCATATGTCATAAAAAG
1 GATTTAGCCTGGACT-GGCAATCCAGATCAAGCT-TTATAGAGCATATATCATAAAAAG
* * * ** * *
45426223 GATTTAGCCTGGACTGGCAATCCTGA-CTAAGCTTTATTGAGTATATATTGTAGACAG
1 GATTTAGCCTGGACTGGCAATCCAGATC-AAGCTTTATAGAGCATATATCATAAAAAG
45426280 GATTTAGCCTGGACTGG
1 GATTTAGCCTGGACTGG
45426297 TATCCTGTTG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
56 3 0.05
57 58 0.94
58 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (57 bp):
GATTTAGCCTGGACTGGCAATCCAGATCAAGCTTTATAGAGCATATATCATAAAAAG
Found at i:45427145 original size:21 final size:21
Alignment explanation
Indices: 45427121--45427166 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
45427111 TATTGGTCAT
45427121 ATTGGCATATAAATGTAAATG
1 ATTGGCATATAAATGTAAATG
** *
45427142 ATTGTTATGTAAATGTAAATG
1 ATTGGCATATAAATGTAAATG
45427163 ATTG
1 ATTG
45427167 TTGTAATCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (21 bp):
ATTGGCATATAAATGTAAATG
Found at i:45430867 original size:29 final size:29
Alignment explanation
Indices: 45430822--45431106 Score: 312
Period size: 29 Copynumber: 9.8 Consensus size: 29
45430812 GATGCAATCT
45430822 AAGGAAGCCTTTGTGGC-AATCTCTATTA
1 AAGGAAGCCTTTGTGGCTAATCTCTATTA
* * *
45430850 ATTGGAAGCCTTTATGGCT-ATCCCTATTA
1 A-AGGAAGCCTTTGTGGCTAATCTCTATTA
*
45430879 AATGGAAGCCTTTGTGGCT-ATCTCTGTTA
1 AA-GGAAGCCTTTGTGGCTAATCTCTATTA
*
45430908 AATGGAAGCCTTTGTGGCTAATCTCTGTTA
1 AA-GGAAGCCTTTGTGGCTAATCTCTATTA
* *
45430938 AAGGGAAGCCTTTGTGGCTAAACTCTATCA
1 AA-GGAAGCCTTTGTGGCTAATCTCTATTA
* *
45430968 AAGGAAGCCTTTGTGGCTAATCTTTGTTA
1 AAGGAAGCCTTTGTGGCTAATCTCTATTA
*
45430997 AAGGAATCCTTTGTGGCTAATCTCTATTA
1 AAGGAAGCCTTTGTGGCTAATCTCTATTA
* * *
45431026 AAGGAAGCCTTTGTAGG-TAATCTTTGTTC
1 AAGGAAGCCTTTGT-GGCTAATCTCTATTA
* * *
45431055 AAGGAAGCTTTTGTGGC-GATCTTTATTA
1 AAGGAAGCCTTTGTGGCTAATCTCTATTA
*
45431083 AA-GATAGCCTTTATGGCTATATCT
1 AAGGA-AGCCTTTGTGGCTA-ATCT
45431107 GTTAAAAGGA
Statistics
Matches: 219, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
27 2 0.01
28 23 0.11
29 150 0.68
30 44 0.20
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (29 bp):
AAGGAAGCCTTTGTGGCTAATCTCTATTA
Found at i:45430948 original size:88 final size:87
Alignment explanation
Indices: 45430822--45431037 Score: 303
Period size: 88 Copynumber: 2.5 Consensus size: 87
45430812 GATGCAATCT
* * *
45430822 AAGGAAGCCTTTGTGGC-AATCTCTATTAATTGGAAGCCTTTATGGCT-ATCCCTATTAAATGGA
1 AAGGAAGCCTTTGTGGCTAATCTCTATTAA-AGGAAGCCTTTATGGCTAAACCCTATCAAA-GGA
45430885 AGCCTTTGTGGCT-ATCTCTGTTA
64 AGCCTTTGTGGCTAATCTCTGTTA
* * *
45430908 AATGGAAGCCTTTGTGGCTAATCTCTGTTAAAGGGAAGCCTTTGTGGCTAAACTCTATCAAAGGA
1 AA-GGAAGCCTTTGTGGCTAATCTCTATTAAA-GGAAGCCTTTATGGCTAAACCCTATCAAAGGA
*
45430973 AGCCTTTGTGGCTAATCTTTGTTA
64 AGCCTTTGTGGCTAATCTCTGTTA
*
45430997 AAGGAATCCTTTGTGGCTAATCTCTATTAAAGGAAGCCTTT
1 AAGGAAGCCTTTGTGGCTAATCTCTATTAAAGGAAGCCTTT
45431038 GTAGGTAATC
Statistics
Matches: 116, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
86 2 0.02
87 25 0.22
88 69 0.59
89 20 0.17
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.35
Consensus pattern (87 bp):
AAGGAAGCCTTTGTGGCTAATCTCTATTAAAGGAAGCCTTTATGGCTAAACCCTATCAAAGGAAG
CCTTTGTGGCTAATCTCTGTTA
Found at i:45444894 original size:36 final size:38
Alignment explanation
Indices: 45444845--45445021 Score: 161
Period size: 38 Copynumber: 4.6 Consensus size: 38
45444835 GCTCCTCGTT
*
45444845 CAAATGCCTTCGGACATAGCCCGGTTATAG-ATTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGTTATAGTATTCGCA
* *
45444882 C-AATGCCTTCGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGG-TTATAGT-ATTCGCA
* *
45444920 CAAATG-CTTCGGGCTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGTTA-TAGTAT-TCGCA
* * *
45444958 CAAATGCCTTCGGATCTTAGTCCGGATAT-GTTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGTTATAG-T-A-TTCGCA
45444999 CAAA-GCCTTCGGACTTAGCCCGG
1 CAAATGCCTTCGGACTTAGCCCGG
45445022 ACATCATTCA
Statistics
Matches: 115, Mismatches: 12, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
36 23 0.20
37 4 0.03
38 37 0.32
39 20 0.17
40 20 0.17
41 10 0.09
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (38 bp):
CAAATGCCTTCGGACTTAGCCCGGTTATAGTATTCGCA
Found at i:45452829 original size:79 final size:82
Alignment explanation
Indices: 45452718--45452902 Score: 231
Period size: 79 Copynumber: 2.3 Consensus size: 82
45452708 GCTCCTCGTT
* *
45452718 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCAGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
* *
45452780 CGGATTTAGTAAC-TCGCA
64 CGGATATAGTAACTTAGCA
**
45452798 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCG
* *
45452861 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
45452878 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45452903 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 5 0.05
79 53 0.58
80 34 0.37
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:45452902 original size:40 final size:40
Alignment explanation
Indices: 45452718--45452902 Score: 202
Period size: 40 Copynumber: 4.7 Consensus size: 40
45452708 GCTCCTCGTT
* * *
45452718 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* * *
45452758 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
45452798 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
45452837 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
45452878 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45452903 CATCATTCAA
Statistics
Matches: 122, Mismatches: 13, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
38 3 0.02
39 30 0.25
40 74 0.61
41 14 0.11
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:45461779 original size:26 final size:25
Alignment explanation
Indices: 45461725--45461796 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 25
45461715 TCCCATCCCT
45461725 ATTTTACCCTA-TCAAAATTTTGACA
1 ATTTTACCCTAGT-AAAATTTTGACA
**
45461750 ATTTTACCTCTAGTAAAATTTTGATG
1 ATTTTACC-CTAGTAAAATTTTGACA
*
45461776 ATTTTGCCC--GTAAAATTTTGA
1 ATTTTACCCTAGTAAAATTTTGA
45461797 GAAAATATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 12 0.29
25 9 0.21
26 20 0.48
27 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (25 bp):
ATTTTACCCTAGTAAAATTTTGACA
Found at i:45463230 original size:48 final size:48
Alignment explanation
Indices: 45463156--45463301 Score: 204
Period size: 48 Copynumber: 3.0 Consensus size: 48
45463146 TAAGGTTATG
*
45463156 TGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGAATCGATA
1 TGTGATCCCATGTAAGACCATATTTGGGACATGGCATTGGAATCGATA
* *
45463204 TGTGATCCCATGTAAGATCATATTTGGGACATGGCATTGGCAT-GAATA
1 TGTGATCCCATGTAAGACCATATTTGGGACATGGCATTGGAATCG-ATA
* * * * *
45463252 TTTGATCCCATGTAAGACCATATCTGAGATATGGCATTGGTATCGATA
1 TGTGATCCCATGTAAGACCATATTTGGGACATGGCATTGGAATCGATA
45463300 TG
1 TG
45463302 AGACATCGTG
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
47 1 0.01
48 84 0.98
49 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATATTTGGGACATGGCATTGGAATCGATA
Found at i:45466920 original size:51 final size:49
Alignment explanation
Indices: 45466865--45467000 Score: 157
Period size: 49 Copynumber: 2.7 Consensus size: 49
45466855 TATCTGATAT
* **
45466865 GCATAGTAGCATGCACTTAGTACTACACACGTGATCGAAGTTATTGGGTAC
1 GCATAGTAGCATGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTAC
* * *
45466916 GCATAGTAG-ACTGCACTTAGTACTACGCATGCGACCAATTATCCGGTAC
1 GCATAGTAGCA-TGCACTTAGTACTACACACGTGACCAATTATCCGGTAC
* * *
45466965 ACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 GCATAGTAGCATGCACTTAGTACTACACACGTGACC
45467001 TCACAATAGA
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
49 38 0.54
50 4 0.06
51 29 0.41
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (49 bp):
GCATAGTAGCATGCACTTAGTACTACACACGTGACCAATTATCCGGTAC
Found at i:45473370 original size:43 final size:42
Alignment explanation
Indices: 45473215--45473371 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 42
45473205 TGTGTTATCG
* * * **
45473215 TGTAAGACCACATCTGGGATGTTGGCATCGACT-TATGATTTATG
1 TGTAAGACCACGTCTGGGACGTTGGCATC-A-TATTTGA-TTACA
* * *
45473259 TGTAAGACCACGTCTGGGATGTTGGCATCGTATTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTACA
* *
45473301 TGTAAGACC-CTCTCTAGGACAG-TGGCATCTATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATC-ATATTTGATTACA
*
45473344 TGTAAGACCACGTTTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
45473372 TGTATGAGCT
Statistics
Matches: 93, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.28
43 37 0.40
44 29 0.31
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCATATTTGATTACA
Found at i:45474347 original size:22 final size:22
Alignment explanation
Indices: 45474322--45474373 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
45474312 AGGGTCACAT
45474322 GCCCGTGTGGACACAAGGGCAC
1 GCCCGTGTGGACACAAGGGCAC
*
45474344 GCCCGTGTGGACACAGGGGCAC
1 GCCCGTGTGGACACAAGGGCAC
45474366 GCCCGTGT
1 GCCCGTGT
45474374 CCTTAGGCCG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.17, C:0.33, G:0.38, T:0.12
Consensus pattern (22 bp):
GCCCGTGTGGACACAAGGGCAC
Found at i:45475989 original size:22 final size:22
Alignment explanation
Indices: 45475939--45475989 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
45475929 CATCATAATA
45475939 GTATCATATAACATAAATGAGT
1 GTATCATATAACATAAATGAGT
*
45475961 GTGTCATATAACATAAATGAGT
1 GTATCATATAACATAAATGAGT
*
45475983 TTATCAT
1 GTATCAT
45475990 GGCAAGAACC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (22 bp):
GTATCATATAACATAAATGAGT
Found at i:45478411 original size:24 final size:25
Alignment explanation
Indices: 45478334--45478424 Score: 139
Period size: 25 Copynumber: 3.7 Consensus size: 25
45478324 AGGAAGTGCT
* *
45478334 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
45478359 AAAAAGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
45478384 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
45478408 AAAAGGGCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
45478425 ATTATTAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
24 17 0.28
25 44 0.72
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:45478440 original size:24 final size:24
Alignment explanation
Indices: 45478334--45478440 Score: 99
Period size: 25 Copynumber: 4.4 Consensus size: 24
45478324 AGGAAGTGCT
* * * *
45478334 AAAAGGGCTATGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAGATTATC
* * *
45478358 GAAAAAGGCTTTGCCCCAGTTTACC
1 -AAAAGGGCTTTGCCCCAGATTATC
*
45478383 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGATTATC
*
45478408 AAAAGGGCTTTGCCCCA-ATTATT
1 AAAAGGGCTTTGCCCCAGATTATC
45478431 AAAAGAGGCT
1 AAAAG-GGCT
45478441 AGGCCTCCAG
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
23 9 0.12
24 21 0.28
25 44 0.59
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGATTATC
Found at i:45480059 original size:46 final size:45
Alignment explanation
Indices: 45480001--45480174 Score: 151
Period size: 46 Copynumber: 3.8 Consensus size: 45
45479991 ATTCATGTGT
*
45480001 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCATATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACC-TATTATGA
* *
45480047 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATC-A-GTATTGA-GA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTATT-ATGA
* * *
45480092 CGAGGGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGTA
1 -GA--GCCAGTGTAAGACATGTCTGGGACATGCATCGACCT--ATTATG-A
* *
45480142 -AGCCAATGTAAAACATGTCTGGGACATGCATCG
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCG
45480175 GCTACGAGAT
Statistics
Matches: 105, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
45 6 0.06
46 50 0.48
47 27 0.26
48 19 0.18
49 1 0.01
50 2 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTATTATGA
Found at i:45480198 original size:46 final size:46
Alignment explanation
Indices: 45480100--45480215 Score: 146
Period size: 46 Copynumber: 2.5 Consensus size: 46
45480090 GACGAGGGCT
*
45480100 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAAACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
* *
45480146 AATGTAAAACATGTCTGGGACATGCATCGG-CTACGAGATG-ATAGTC
1 AGTGTAAAACATGTCTGGGACATGCATCGGCCT-CGAGATGTA-AGCC
* *
45480192 AGTGTAAGACCATGTTTGGGACAT
1 AGTGTAA-AACATGTCTGGGACAT
45480216 AACATCAACT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
45 3 0.05
46 44 0.72
47 14 0.23
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAAACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCC
Found at i:45480231 original size:93 final size:94
Alignment explanation
Indices: 45480006--45480271 Score: 215
Period size: 94 Copynumber: 2.8 Consensus size: 94
45479996 TGTGTGAGCT
* * * * *
45480006 AGTGTAAGACATGTCTGGGACATGCATCG-AC-C-ATATTATGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACATGTCTGGGACATACATCGAACTCGAGA-TAT-A-AGCCAATGTAAGAACATGTC
* * * * * *
45480068 TGGGACATGGCATCAG-TATTGAGACGA-GGGC
63 TAGGACATGGCATCGGCTA-CGAGATGATAGTC
* ** * *
45480099 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGCCAATGTAA-AACATGTCTG
1 -AGTGTAAGACATGTCTGGGACATACATCGAACTCGAGATATAAGCCAATGTAAGAACATGTCTA
45480163 GGACAT-GCATCGGCTACGAGATGATAGTC
65 GGACATGGCATCGGCTACGAGATGATAGTC
* * * * **
45480192 AGTGTAAGACCATGTTTGGGACATAACATC-AACTTGAGATATGAGCCAGTGTAAGAATGTGTCT
1 AGTGTAAGA-CATGTCTGGGACAT-ACATCGAACTCGAGATATAAGCCAATGTAAGAACATGTCT
45480256 AGGACATGGCATCGGC
64 AGGACATGGCATCGGC
45480272 ACTTTAACCT
Statistics
Matches: 141, Mismatches: 22, Indels: 17
0.78 0.12 0.09
Matches are distributed among these distances:
92 21 0.15
93 49 0.35
94 56 0.40
95 10 0.07
96 3 0.02
97 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATACATCGAACTCGAGATATAAGCCAATGTAAGAACATGTCTAG
GACATGGCATCGGCTACGAGATGATAGTC
Found at i:45480255 original size:140 final size:140
Alignment explanation
Indices: 45480008--45480271 Score: 322
Period size: 140 Copynumber: 1.9 Consensus size: 140
45479998 TGTGAGCTAG
* * *
45480008 TGTAAGACATGTCTGGGACATGCATCGACCATATTATGAGAGCCAGTGTAAGACCATGTTTGGGA
1 TGTAAAACATGTCTGGGACATGCATCGACCAGATGATGAGAGCCAGTGTAAGACCATGTTTGGGA
** * * *
45480073 CATGGCATCAGTATTGAGACGAGGGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAG
66 CATAACATCAG-ATTGAGACGAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCCTCGAG
45480137 ATGTAAGCCAA
130 ATGTAAGCCAA
* * * *
45480148 TGTAAAACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTTTGGG
1 TGTAAAACATGTCTGGGACATGCATCGACCA-GATGATGAGAGCCAGTGTAAGACCATGTTTGGG
*
45480212 ACATAACATCA-ACTTGAGA-TATGAGCCAGTGTAAGA-ATGTGTCTAGGACATGGCATCGGC
65 ACATAACATCAGA-TTGAGACGA-GAGCCAGTGTAAGACA--TGTCTAGGACATGGCATCGGC
45480272 ACTTTAACCT
Statistics
Matches: 105, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
138 3 0.03
139 18 0.17
140 75 0.71
141 9 0.09
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (140 bp):
TGTAAAACATGTCTGGGACATGCATCGACCAGATGATGAGAGCCAGTGTAAGACCATGTTTGGGA
CATAACATCAGATTGAGACGAGAGCCAGTGTAAGACATGTCTAGGACATGGCATCGGCCTCGAGA
TGTAAGCCAA
Found at i:45480919 original size:47 final size:47
Alignment explanation
Indices: 45480861--45480955 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 47
45480851 CTTATATTGT
* * *
45480861 CCACACGGGTAGGCACATGGGCGTATGTCTAGCCCGTGTGTGACACA
1 CCACACAGGTAGGCACACGGGCGTACGTCTAGCCCGTGTGTGACACA
* * * *
45480908 CCACACAGGTAGGCACACGGGTGTGCGTCTGGGCCGTGTGTGACACA
1 CCACACAGGTAGGCACACGGGCGTACGTCTAGCCCGTGTGTGACACA
45480955 C
1 C
45480956 GGTCTACCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.20, C:0.28, G:0.34, T:0.18
Consensus pattern (47 bp):
CCACACAGGTAGGCACACGGGCGTACGTCTAGCCCGTGTGTGACACA
Found at i:45484007 original size:29 final size:30
Alignment explanation
Indices: 45483973--45484036 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
45483963 CAAGTAGTTG
*
45483973 AAGCTAG-TTAAATCGCACATTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
45484002 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
45484032 AAGCT
1 AAGCT
45484037 TCTAATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:45494145 original size:30 final size:29
Alignment explanation
Indices: 45494098--45494165 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 29
45494088 GCCTCAAGTA
*
45494098 GCCAAAGCTAGTTAAATCGCACATTTAGT
1 GCCAAAGCTAGTTAAATCGCACACTTAGT
45494127 GCCAAAGCTAGTTTAAATCGCACACTTAGT
1 GCCAAAGCTAG-TTAAATCGCACACTTAGT
45494157 GCCAAAGCT
1 GCCAAAGCT
45494166 TTCGATTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 11 0.30
30 26 0.70
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (29 bp):
GCCAAAGCTAGTTAAATCGCACACTTAGT
Found at i:45498856 original size:86 final size:86
Alignment explanation
Indices: 45498709--45498867 Score: 216
Period size: 86 Copynumber: 1.8 Consensus size: 86
45498699 ATATGTGTTC
* * *
45498709 TCGTGTAAGACCACATCTAGGACGTTCGCATCGATATGTGATTTCGATTAAGACCATGTCTGGGA
1 TCGTGTAAGACCACATCTAGGACGTTCGCATCGACATGTGATTACGATTAAGACCACGTCTGGGA
45498774 CATTGGCACCGTAATTGTGAT
66 CATTGGCACCGTAATTGTGAT
* *
45498795 TCGTGTAAGACC-CTATCTGGGACAG-TGGCATCGACATGTGATTAC-ATGTAAGACCACGTCTG
1 TCGTGTAAGACCAC-ATCTAGGAC-GTTCGCATCGACATGTGATTACGAT-TAAGACCACGTCTG
*
45498857 GGACGTTGGCA
63 GGACATTGGCA
45498868 TTGTATGATA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
85 3 0.05
86 60 0.94
87 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (86 bp):
TCGTGTAAGACCACATCTAGGACGTTCGCATCGACATGTGATTACGATTAAGACCACGTCTGGGA
CATTGGCACCGTAATTGTGAT
Found at i:45498868 original size:43 final size:41
Alignment explanation
Indices: 45498712--45498868 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 41
45498702 TGTGTTCTCG
* *
45498712 TGTAAGACCACATCTAGGACGTTCGCATCGATATGTGATTTCGA
1 TGTAAGACCACATCTGGGACGTTGGCATCGA-ATGTGA-TTC-A
** * * *
45498756 T-TAAGACCATGTCTGGGACATTGGCACCGTAATTGTGATTCG
1 TGTAAGACCACATCTGGGACGTTGGCATCG-AA-TGTGATTCA
45498798 TGTAAGACC-CTATCTGGGACAG-TGGCATCGACATGTGATTACA
1 TGTAAGACCAC-ATCTGGGAC-GTTGGCATCGA-ATGTGATT-CA
*
45498841 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACATCTGGGACGTTGGCAT
45498869 TGTATGATAT
Statistics
Matches: 91, Mismatches: 13, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
42 10 0.11
43 73 0.80
44 8 0.09
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (41 bp):
TGTAAGACCACATCTGGGACGTTGGCATCGAATGTGATTCA
Found at i:45533978 original size:32 final size:32
Alignment explanation
Indices: 45533942--45534008 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
45533932 GATTTCAAAA
45533942 GTTAACATTGATGTTAAATGAAGTCTTTGAAT
1 GTTAACATTGATGTTAAATGAAGTCTTTGAAT
* * * *
45533974 GTTAACATTGATGTTAACTGATGTTTTTGGAT
1 GTTAACATTGATGTTAAATGAAGTCTTTGAAT
45534006 GTT
1 GTT
45534009 GCTGGTAGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (32 bp):
GTTAACATTGATGTTAAATGAAGTCTTTGAAT
Found at i:45538988 original size:54 final size:54
Alignment explanation
Indices: 45538855--45538988 Score: 232
Period size: 54 Copynumber: 2.5 Consensus size: 54
45538845 GTCATTATAA
* *
45538855 GGGATTTAGCCTGGACTGATAATCCCGAAATCACTTTATGAGGTCATATAATGG
1 GGGATTTAGCCTGGACTGGTAATCCTGAAATCACTTTATGAGGTCATATAATGG
* *
45538909 GGGATTTAGCCTAGACTGGTAATCCTGAAATCACTTTATGAGTTCATATAATGG
1 GGGATTTAGCCTGGACTGGTAATCCTGAAATCACTTTATGAGGTCATATAATGG
45538963 GGGATTTAGCCTGGACTGGTAATCCT
1 GGGATTTAGCCTGGACTGGTAATCCT
45538989 ACCATATGAT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (54 bp):
GGGATTTAGCCTGGACTGGTAATCCTGAAATCACTTTATGAGGTCATATAATGG
Found at i:45539182 original size:19 final size:19
Alignment explanation
Indices: 45539158--45539196 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
45539148 AAATTACATG
45539158 ATATATGATTATGTGACTA
1 ATATATGATTATGTGACTA
45539177 ATATATGATTATGTGACTA
1 ATATATGATTATGTGACTA
45539196 A
1 A
45539197 CTCATTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.15, T:0.41
Consensus pattern (19 bp):
ATATATGATTATGTGACTA
Found at i:45541025 original size:27 final size:27
Alignment explanation
Indices: 45540994--45541283 Score: 294
Period size: 27 Copynumber: 10.7 Consensus size: 27
45540984 TTAGTTTACC
***
45540994 AAATTACCAAAATACCCCTAACTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
45541021 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
45541048 AAATTACTAAAATACCCTTGGTTTATT
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
45541075 AAATCACCAAAATACCATTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
45541102 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
45541129 AAATTACCAAAATACCCCTGGCTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
**
45541156 AAATTACCAAAATACCTTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
45541183 AAATTATCAAAATACCCCTAGTTTTTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
45541210 AAATTACCAAAATACCCTTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** * **
45541237 AAATTACTGAAGTA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
45541264 AAATTACCAAAGTACCCCTG
1 AAATTACCAAAATACCCCTG
45541284 ATTTATAGAA
Statistics
Matches: 217, Mismatches: 44, Indels: 4
0.82 0.17 0.02
Matches are distributed among these distances:
26 3 0.01
27 210 0.97
28 4 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:45541790 original size:27 final size:27
Alignment explanation
Indices: 45541319--45541780 Score: 660
Period size: 27 Copynumber: 17.2 Consensus size: 27
45541309 CGATTTACAA
*
45541319 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
45541346 AAATA-CGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
45541372 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
45541399 AAATATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
45541426 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
45541453 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
45541480 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
45541507 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
45541534 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
45541561 AATTACTGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
45541588 AATTACCGGAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
45541615 AATTACTGGAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
45541642 AATTACCGCAATATCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
45541669 AATTACCGAAATACCCCTGTA-GGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
45541695 AATTATCGCAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
45541722 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
45541749 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
45541776 AATTA
1 AATTA
45541781 ACGAGGTACC
Statistics
Matches: 400, Mismatches: 31, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
26 50 0.12
27 350 0.88
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:45542287 original size:22 final size:21
Alignment explanation
Indices: 45542235--45542299 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
45542225 TTAAAGCCTT
* *
45542235 CTGATTATGGCTTTGTGTCAA
1 CTGATTATGGCTCTGTGCCAA
* *
45542256 CTTACATATGGCTCTGTGCCAA
1 CTGA-TTATGGCTCTGTGCCAA
*
45542278 CCTGATTATGGCTGTGTGCCAA
1 -CTGATTATGGCTCTGTGCCAA
45542300 ATGTATTTGC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
21 3 0.09
22 29 0.83
23 3 0.09
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (21 bp):
CTGATTATGGCTCTGTGCCAA
Found at i:45542488 original size:27 final size:27
Alignment explanation
Indices: 45542458--45542559 Score: 125
Period size: 27 Copynumber: 3.8 Consensus size: 27
45542448 ATTCTGTTAA
* *
45542458 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
45542485 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
* *
45542512 GTGGCTCTGTCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
45542539 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
45542560 ATAACTAAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 8 0.12
27 52 0.78
28 7 0.10
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:45542734 original size:6 final size:6
Alignment explanation
Indices: 45542719--45542815 Score: 83
Period size: 6 Copynumber: 15.8 Consensus size: 6
45542709 ACTTTGTTAC
* * *
45542719 CTGATA CTGATT CTGATT TTGATT CTG-TT ACTTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT -C-TGATT CTGATT CTGATT
* *
45542768 CTGATT CTG-TCAC CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
45542816 AATGTTTCTT
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
5 4 0.05
6 62 0.84
7 6 0.08
8 2 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:45542755 original size:31 final size:31
Alignment explanation
Indices: 45542713--45542831 Score: 143
Period size: 31 Copynumber: 3.9 Consensus size: 31
45542703 TTTTTTACTT
*
45542713 TGTTACCTGATACTGATTCTGATTTTGATTC
1 TGTTACCTGATACTGATTCTGATTCTGATTC
*
45542744 TGTTACTTGATACTGATTCTGATTCTGATTC
1 TGTTACCTGATACTGATTCTGATTCTGATTC
* * *
45542775 TGTCACCTAATTCTGATTCTGATTCTGATTC
1 TGTTACCTGATACTGATTCTGATTCTGATTC
* * *
45542806 TAGTT--CTGATAATGTTTCTTATTCTG
1 T-GTTACCTGATACTGATTCTGATTCTG
45542832 TAATGGGTTA
Statistics
Matches: 75, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
30 16 0.21
31 57 0.76
32 2 0.03
ACGTcount: A:0.19, C:0.17, G:0.15, T:0.49
Consensus pattern (31 bp):
TGTTACCTGATACTGATTCTGATTCTGATTC
Found at i:45548487 original size:17 final size:17
Alignment explanation
Indices: 45548465--45548515 Score: 102
Period size: 17 Copynumber: 3.0 Consensus size: 17
45548455 TGGTAAGACT
45548465 TTTGAGGACGAAAGTCC
1 TTTGAGGACGAAAGTCC
45548482 TTTGAGGACGAAAGTCC
1 TTTGAGGACGAAAGTCC
45548499 TTTGAGGACGAAAGTCC
1 TTTGAGGACGAAAGTCC
45548516 CTAAGGGGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (17 bp):
TTTGAGGACGAAAGTCC
Found at i:45550919 original size:13 final size:13
Alignment explanation
Indices: 45550901--45550925 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45550891 GTTCTCTCCC
45550901 ATGGTCGTGTGTT
1 ATGGTCGTGTGTT
45550914 ATGGTCGTGTGT
1 ATGGTCGTGTGT
45550926 CCCCTGCACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.40, T:0.44
Consensus pattern (13 bp):
ATGGTCGTGTGTT
Done.