Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 159 of 170
Found at i:47202893 original size:34 final size:35
Alignment explanation
Indices: 47202834--47202901 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 35
47202824 TCAAACACCA
47202834 TAAAATATTTTCCAGTAAATCATTTTACAGAAAAG
1 TAAAATATTTTCCAGTAAATCATTTTACAGAAAAG
*
47202869 TAAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 TAAAATATTTTCCAGTAAATCATTTTACAGAAAA
47202902 TATTTTACTG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.53
35 15 0.47
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.34
Consensus pattern (35 bp):
TAAAATATTTTCCAGTAAATCATTTTACAGAAAAG
Found at i:47204018 original size:19 final size:21
Alignment explanation
Indices: 47203991--47204034 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
47203981 ATGTATTGTT
*
47203991 AGGGGCAAAATAC-CA-AAAA
1 AGGGACAAAATACACATAAAA
*
47204010 AGGGACAAATTACACATAAAA
1 AGGGACAAAATACACATAAAA
47204031 AGGG
1 AGGG
47204035 GGTATTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
20 2 0.10
21 8 0.38
ACGTcount: A:0.55, C:0.14, G:0.23, T:0.09
Consensus pattern (21 bp):
AGGGACAAAATACACATAAAA
Found at i:47204209 original size:99 final size:100
Alignment explanation
Indices: 47204037--47204231 Score: 347
Period size: 99 Copynumber: 2.0 Consensus size: 100
47204027 AAAAAGGGGG
* *
47204037 TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCGTCCACGTC
1 TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAATCGCGTCCACATC
*
47204102 AGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGA
66 AGCGCGAGTTGCTGATGTGGCAACAAATCGCGCGA
*
47204137 TATTTATACTTTTTTTT-GGACCGTTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATC
1 TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAATCGCGTCCACATC
47204201 AGCGCGAGTTGCTGATGTGGCAACAAATCGC
66 AGCGCGAGTTGCTGATGTGGCAACAAATCGC
47204232 TCCCCTTAGT
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
99 74 0.81
100 17 0.19
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (100 bp):
TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAATCGCGTCCACATC
AGCGCGAGTTGCTGATGTGGCAACAAATCGCGCGA
Found at i:47204484 original size:20 final size:21
Alignment explanation
Indices: 47204456--47204501 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
47204446 ATGTATTGTT
*
47204456 AGGGTCAAAATAC-CAAAAAA
1 AGGGGCAAAATACACAAAAAA
* *
47204476 AGGGGCAAATTACACATAAAA
1 AGGGGCAAAATACACAAAAAA
47204497 AGGGG
1 AGGGG
47204502 GTATTTATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.52, C:0.13, G:0.24, T:0.11
Consensus pattern (21 bp):
AGGGGCAAAATACACAAAAAA
Found at i:47204675 original size:99 final size:100
Alignment explanation
Indices: 47204503--47204697 Score: 347
Period size: 99 Copynumber: 2.0 Consensus size: 100
47204493 AAAAAGGGGG
* *
47204503 TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCGTCCACGTC
1 TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAATCGCGTCCACATC
*
47204568 AGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGA
66 AGCGCGAGTTGCTGATGTGGCAACAAATCGCGCGA
*
47204603 TATTTATACTTTTTTTT-GGACCGTTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATC
1 TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAATCGCGTCCACATC
47204667 AGCGCGAGTTGCTGATGTGGCAACAAATCGC
66 AGCGCGAGTTGCTGATGTGGCAACAAATCGC
47204698 TCCCCTTAGT
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
99 74 0.81
100 17 0.19
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (100 bp):
TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAATCGCGTCCACATC
AGCGCGAGTTGCTGATGTGGCAACAAATCGCGCGA
Found at i:47204724 original size:466 final size:466
Alignment explanation
Indices: 47203771--47206094 Score: 4469
Period size: 466 Copynumber: 5.0 Consensus size: 466
47203761 GCTCTTTTTT
47203771 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACTTGTTGCATTTA
1 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACTTGTTGCATTTA
47203836 TTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGACG
66 TTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGACG
47203901 GATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATTA
131 GATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATTA
*
47203966 CAATAATACATTAATATGTATTGTTAGGGGCAAAATACC-AAAAAAGGGACAAATTACACATAAA
196 CAATAATACATTAATATGTATTGTTAGGGGCAAAATACCAAAAAAAGGGGCAAATTACACATAAA
47204030 AAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCGT
261 AAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCGT
47204095 CCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTGGACCG
326 CCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTGGACCG
47204160 TTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGATGTGGCAAC
391 TTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGATGTGGCAAC
47204225 AAATCGCTCCC
456 AAATCGCTCCC
47204236 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACTTGTTGCATTTA
1 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACTTGTTGCATTTA
47204301 TTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGACG
66 TTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGACG
47204366 GATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATTA
131 GATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATTA
*
47204431 CAATAATACATTAATATGTATTGTTAGGGTCAAAATACCAAAAAAAGGGGCAAATTACACATAAA
196 CAATAATACATTAATATGTATTGTTAGGGGCAAAATACCAAAAAAAGGGGCAAATTACACATAAA
47204496 AAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCGT
261 AAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCGT
47204561 CCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTGGACCG
326 CCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTGGACCG
47204626 TTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGATGTGGCAAC
391 TTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGATGTGGCAAC
47204691 AAATCGCTCCC
456 AAATCGCTCCC
47204702 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATC-TTTTTGTACTTGTTGCATTTA
1 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACTTGTTGCATTTA
47204766 TTTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGAC
66 -TTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGAC
47204831 GGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATT
130 GGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATT
*
47204896 ACAATAATACATTAATATGTATTGTTAGGGGCAAAATACC-AAAAAAGGGACAAATTACACATAA
195 ACAATAATACATTAATATGTATTGTTAGGGGCAAAATACCAAAAAAAGGGGCAAATTACACATAA
47204960 AAAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCG
260 AAAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCG
47205025 TCCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTGGACC
325 TCCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTGGACC
47205090 GTT-GGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGATGTGGCAA
390 GTTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGATGTGGCAA
47205154 CAAATCGCTCCC
455 CAAATCGCTCCC
47205166 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACTTGTTGCATTTA
1 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACTTGTTGCATTTA
47205231 TTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGACG
66 TTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGACG
47205296 GATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATTA
131 GATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATTA
*
47205361 CAATAATACATTAATATGTATTGTTAGGGTCAAAATACCAAAAAAAGGGGCAAATTACACATAAA
196 CAATAATACATTAATATGTATTGTTAGGGGCAAAATACCAAAAAAAGGGGCAAATTACACATAAA
47205426 AAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCGT
261 AAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCGT
*
47205491 CCACGTTAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTGGACCG
326 CCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTGGACCG
*
47205556 TTGGGTACTGTTCACGCGCGGGCCGAAAACGCGTCCACATCAGCGCGAGTTGCTGATGTGGCAAC
391 TTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGATGTGGCAAC
47205621 AAATCGCTCCC
456 AAATCGCTCCC
47205632 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACTTGTTGCATTTA
1 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACTTGTTGCATTTA
47205697 TTTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGAC
66 -TTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGAC
47205762 GGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATT
130 GGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATT
47205827 ACAATAATACATTAATATGTATTGTTAGGGGCAAAATACCAAAAAAAGGGGCAAATTACACATAA
195 ACAATAATACATTAATATGTATTGTTAGGGGCAAAATACCAAAAAAAGGGGCAAATTACACATAA
*
47205892 AAAGGGGGTATTTATAC-TTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATTGCG
260 AAAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCG
47205956 TCCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTTGGAC
325 TCCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATAC-TTTTTTTTGGAC
* * * * *
47206021 CGTTGGGTACTGTTTACGCGCGGGCCGAAATCGCGTCCACGTCAGTGCGAGTTGCTGACGTGGTA
389 CGTTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGATGTGGCA
*
47206086 GCAAATCGC
454 ACAAATCGC
47206095 GTCCTTGAGG
Statistics
Matches: 1834, Mismatches: 18, Indels: 12
0.98 0.01 0.01
Matches are distributed among these distances:
464 284 0.15
465 586 0.32
466 675 0.37
467 289 0.16
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (466 bp):
CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACTTGTTGCATTTA
TTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGACG
GATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATTA
CAATAATACATTAATATGTATTGTTAGGGGCAAAATACCAAAAAAAGGGGCAAATTACACATAAA
AAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCGT
CCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTGGACCG
TTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGATGTGGCAAC
AAATCGCTCCC
Found at i:47204949 original size:19 final size:21
Alignment explanation
Indices: 47204922--47204965 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
47204912 ATGTATTGTT
*
47204922 AGGGGCAAAATAC-CA-AAAA
1 AGGGACAAAATACACATAAAA
*
47204941 AGGGACAAATTACACATAAAA
1 AGGGACAAAATACACATAAAA
47204962 AGGG
1 AGGG
47204966 GGTATTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
20 2 0.10
21 8 0.38
ACGTcount: A:0.55, C:0.14, G:0.23, T:0.09
Consensus pattern (21 bp):
AGGGACAAAATACACATAAAA
Found at i:47205139 original size:98 final size:100
Alignment explanation
Indices: 47204968--47205161 Score: 338
Period size: 98 Copynumber: 2.0 Consensus size: 100
47204958 AAAAAGGGGG
* *
47204968 TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCGTCCACGTC
1 TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAATCGCGTCCACATC
*
47205033 AGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGA
66 AGCGCGAGTTGCTGATGTGGCAACAAATCGCGCGA
*
47205068 TATTTATACTTTTTTTT-GGACCGTT-GGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATC
1 TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAATCGCGTCCACATC
47205131 AGCGCGAGTTGCTGATGTGGCAACAAATCGC
66 AGCGCGAGTTGCTGATGTGGCAACAAATCGC
47205162 TCCCCTTAGT
Statistics
Matches: 90, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
98 65 0.72
99 8 0.09
100 17 0.19
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (100 bp):
TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAATCGCGTCCACATC
AGCGCGAGTTGCTGATGTGGCAACAAATCGCGCGA
Found at i:47205414 original size:20 final size:21
Alignment explanation
Indices: 47205386--47205431 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
47205376 ATGTATTGTT
*
47205386 AGGGTCAAAATAC-CAAAAAA
1 AGGGGCAAAATACACAAAAAA
* *
47205406 AGGGGCAAATTACACATAAAA
1 AGGGGCAAAATACACAAAAAA
47205427 AGGGG
1 AGGGG
47205432 GTATTTATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.52, C:0.13, G:0.24, T:0.11
Consensus pattern (21 bp):
AGGGGCAAAATACACAAAAAA
Found at i:47205605 original size:99 final size:100
Alignment explanation
Indices: 47205433--47205627 Score: 329
Period size: 99 Copynumber: 2.0 Consensus size: 100
47205423 AAAAAGGGGG
* * * *
47205433 TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCGTCCACGTT
1 TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAAACGCGTCCACATC
*
47205498 AGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGA
66 AGCGCGAGTTGCTGATGTGGCAACAAATCGCGCGA
*
47205533 TATTTATACTTTTTTTT-GGACCGTTGGGTACTGTTCACGCGCGGGCCGAAAACGCGTCCACATC
1 TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAAACGCGTCCACATC
47205597 AGCGCGAGTTGCTGATGTGGCAACAAATCGC
66 AGCGCGAGTTGCTGATGTGGCAACAAATCGC
47205628 TCCCCTTAGT
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
99 72 0.81
100 17 0.19
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.30
Consensus pattern (100 bp):
TATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAAACGCGTCCACATC
AGCGCGAGTTGCTGATGTGGCAACAAATCGCGCGA
Found at i:47205690 original size:931 final size:932
Alignment explanation
Indices: 47203771--47206094 Score: 4512
Period size: 931 Copynumber: 2.5 Consensus size: 932
47203761 GCTCTTTTTT
47203771 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACTTGTTGCATTTA
1 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACTTGTTGCATTTA
47203836 -TTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGAC
66 TTTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGAC
47203900 GGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATT
131 GGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATT
47203965 ACAATAATACATTAATATGTATTGTTAGGGGCAAAATACCAAAAAAGGGACAAATTACACATAAA
196 ACAATAATACATTAATATGTATTGTTAGGGGCAAAATACCAAAAAAGGGACAAATTACACATAAA
47204030 AAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCGT
261 AAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCGT
47204095 CCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTGGACCG
326 CCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTGGACCG
47204160 TTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGATGTGGCAAC
391 TTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGATGTGGCAAC
47204225 AAATCGCTCCCCTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACT
456 AAATCGCTCCCCTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACT
47204290 TGTTGCATTTATTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAA
521 TGTTGCATTTATTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAA
47204355 TAGTATAGACGGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGA
586 TAGTATAGACGGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGA
47204420 GCTACATATTACAATAATACATTAATATGTATTGTTAGGGTCAAAATACCAAAAAAAGGGGCAAA
651 GCTACATATTACAATAATACATTAATATGTATTGTTAGGGTCAAAATACCAAAAAAAGGGGCAAA
47204485 TTACACATAAAAAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGC
716 TTACACATAAAAAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGC
47204550 CGAAATCGCGTCCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTT
781 CGAAATCGCGTCCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTT
*
47204615 TTTTTGGACCGTTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCT
846 TTTTTGGACCGTTGGGTACTGTTCACGCGCGGGCCGAAAACGCGTCCACATCAGCGCGAGTTGCT
47204680 GATGTGGCAACAAATCGCTCCC
911 GATGTGGCAACAAATCGCTCCC
47204702 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATC-TTTTTGTACTTGTTGCATTTA
1 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACTTGTTGCATTTA
47204766 TTTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGAC
66 TTTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGAC
47204831 GGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATT
131 GGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATT
47204896 ACAATAATACATTAATATGTATTGTTAGGGGCAAAATACCAAAAAAGGGACAAATTACACATAAA
196 ACAATAATACATTAATATGTATTGTTAGGGGCAAAATACCAAAAAAGGGACAAATTACACATAAA
47204961 AAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCGT
261 AAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCGT
47205026 CCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTGGACCG
326 CCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTGGACCG
47205091 TT-GGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGATGTGGCAAC
391 TTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGATGTGGCAAC
47205155 AAATCGCTCCCCTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACT
456 AAATCGCTCCCCTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACT
47205220 TGTTGCATTTATTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAA
521 TGTTGCATTTATTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAA
47205285 TAGTATAGACGGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGA
586 TAGTATAGACGGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGA
47205350 GCTACATATTACAATAATACATTAATATGTATTGTTAGGGTCAAAATACCAAAAAAAGGGGCAAA
651 GCTACATATTACAATAATACATTAATATGTATTGTTAGGGTCAAAATACCAAAAAAAGGGGCAAA
47205415 TTACACATAAAAAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGC
716 TTACACATAAAAAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGC
*
47205480 CGAAATCGCGTCCACGTTAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTT
781 CGAAATCGCGTCCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTT
47205545 TTTTTGGACCGTTGGGTACTGTTCACGCGCGGGCCGAAAACGCGTCCACATCAGCGCGAGTTGCT
846 TTTTTGGACCGTTGGGTACTGTTCACGCGCGGGCCGAAAACGCGTCCACATCAGCGCGAGTTGCT
47205610 GATGTGGCAACAAATCGCTCCC
911 GATGTGGCAACAAATCGCTCCC
47205632 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACTTGTTGCATTTA
1 CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACTTGTTGCATTTA
47205697 TTTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGAC
66 TTTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGAC
47205762 GGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATT
131 GGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATT
*
47205827 ACAATAATACATTAATATGTATTGTTAGGGGCAAAATACCAAAAAAAGGGGCAAATTACACATAA
196 ACAATAATACATTAATATGTATTGTTAGGGGCAAAATACC-AAAAAAGGGACAAATTACACATAA
*
47205892 AAAGGGGGTATTTATAC-TTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATTGCG
260 AAAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCG
47205956 TCCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTTGGAC
325 TCCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATAC-TTTTTTTTGGAC
* * * * *
47206021 CGTTGGGTACTGTTTACGCGCGGGCCGAAATCGCGTCCACGTCAGTGCGAGTTGCTGACGTGGTA
389 CGTTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGATGTGGCA
*
47206086 GCAAATCGC
454 ACAAATCGC
47206095 GTCCTTGAGG
Statistics
Matches: 1378, Mismatches: 10, Indels: 8
0.99 0.01 0.01
Matches are distributed among these distances:
930 601 0.44
931 658 0.48
932 56 0.04
933 63 0.05
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (932 bp):
CTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACTTGTTGCATTTA
TTTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAATAGTATAGAC
GGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGAGCTACATATT
ACAATAATACATTAATATGTATTGTTAGGGGCAAAATACCAAAAAAGGGACAAATTACACATAAA
AAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATCGCGT
CCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTTTTTTTGGACCG
TTGGGTACTGTTCACGCGCGGGCCGAAATCGCGTCCACATCAGCGCGAGTTGCTGATGTGGCAAC
AAATCGCTCCCCTTAGTACCTTGGTTCGAATCTTCTTGTCAATAAATTTGAATCTTTTTTGTACT
TGTTGCATTTATTTTTTTAATCAATTAACTCTTCAATATTACATTAATATATATTATTAGTACAA
TAGTATAGACGGATTGACAATTTGAGCTATAATATTATGAATATTAACTACAATACATAATTTGA
GCTACATATTACAATAATACATTAATATGTATTGTTAGGGTCAAAATACCAAAAAAAGGGGCAAA
TTACACATAAAAAGGGGGTATTTATACTTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGC
CGAAATCGCGTCCACGTCAGTGCGAGTTGCTGATGTGGCAACAAATCGCGCGATATTTATACTTT
TTTTTGGACCGTTGGGTACTGTTCACGCGCGGGCCGAAAACGCGTCCACATCAGCGCGAGTTGCT
GATGTGGCAACAAATCGCTCCC
Found at i:47205878 original size:20 final size:21
Alignment explanation
Indices: 47205853--47205898 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
47205843 ATGTATTGTT
47205853 AGGGGCAAAATAC-CAAAAAA
1 AGGGGCAAAATACACAAAAAA
* *
47205873 AGGGGCAAATTACACATAAAA
1 AGGGGCAAAATACACAAAAAA
47205894 AGGGG
1 AGGGG
47205899 GTATTTATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.52, C:0.13, G:0.26, T:0.09
Consensus pattern (21 bp):
AGGGGCAAAATACACAAAAAA
Found at i:47206072 original size:100 final size:99
Alignment explanation
Indices: 47205900--47206095 Score: 311
Period size: 100 Copynumber: 2.0 Consensus size: 99
47205890 AAAAAGGGGG
* *
47205900 TATTTATACTTTTTTTGGGACCGTTGGGTACTGTTCACGCGTAGGCCGAAATTGCGTCCACGTCA
1 TATTTATACTTTTTTTGGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAATCGCGTCCACGTCA
*
47205965 GTGCGAGTTGCTGATGTGGCAACAAATCGCGCGA
66 GTGCGAGTTGCTGACGTGGCAACAAATCGCGCGA
* * *
47205999 TATTTATACTTTTTTTTTGGACCGTTGGGTACTGTTTACGCGCGGGCCGAAATCGCGTCCACGTC
1 TATTTATAC-TTTTTTTGGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAATCGCGTCCACGTC
* *
47206064 AGTGCGAGTTGCTGACGTGGTAGCAAATCGCG
65 AGTGCGAGTTGCTGACGTGGCAACAAATCGCG
47206096 TCCTTGAGGG
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
99 9 0.10
100 79 0.90
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (99 bp):
TATTTATACTTTTTTTGGGACCGTTGGGTACTGTTCACGCGCAGGCCGAAATCGCGTCCACGTCA
GTGCGAGTTGCTGACGTGGCAACAAATCGCGCGA
Found at i:47210560 original size:18 final size:18
Alignment explanation
Indices: 47210537--47210571 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47210527 TTTTTTACTC
47210537 AATTAATATAT-AAAAATT
1 AATTAAT-TATGAAAAATT
47210555 AATTAATTATGAAAAAT
1 AATTAATTATGAAAAAT
47210572 GTATAGAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
AATTAATTATGAAAAATT
Found at i:47211956 original size:9 final size:9
Alignment explanation
Indices: 47211942--47211967 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
47211932 TTTTTTTTAA
47211942 AAATTATAC
1 AAATTATAC
47211951 AAATTATAC
1 AAATTATAC
47211960 AAATTATA
1 AAATTATA
47211968 TTATAAGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (9 bp):
AAATTATAC
Found at i:47213739 original size:21 final size:21
Alignment explanation
Indices: 47213691--47213732 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47213681 TTTGCCTAAG
* *
47213691 ATGTGAATTGAATTGAATTGA
1 ATGTAAATTGAATTAAATTGA
*
47213712 ATGTAAATTGTATTAAATTGA
1 ATGTAAATTGAATTAAATTGA
47213733 TGTTAAAATT
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:0.40, C:0.00, G:0.19, T:0.40
Consensus pattern (21 bp):
ATGTAAATTGAATTAAATTGA
Found at i:47214151 original size:24 final size:25
Alignment explanation
Indices: 47214099--47214145 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47214089 TGACCCTTTC
* *
47214099 GAGCTTCCCATTATATGGTTCTTGT
1 GAGCTTCCCATTATATAGCTCTTGT
47214124 GAGCTTCCCATTA-ATAGCTCTT
1 GAGCTTCCCATTATATAGCTCTT
47214146 CGGAGCATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.40
Consensus pattern (25 bp):
GAGCTTCCCATTATATAGCTCTTGT
Found at i:47214257 original size:26 final size:25
Alignment explanation
Indices: 47214220--47214287 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 25
47214210 CCCGATATAT
47214220 GGCTCTTCGTGAGCTTCCTGATTAAA
1 GGCTCTTCGTGAGCTTCCT-ATTAAA
* *
47214246 GGCTCTTTGTGAGCTTCCTATTAAC
1 GGCTCTTCGTGAGCTTCCTATTAAA
* *
47214271 GACTCTCCG-GAGCTTCC
1 GGCTCTTCGTGAGCTTCC
47214288 CAATATGGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 8 0.22
25 11 0.30
26 18 0.49
ACGTcount: A:0.16, C:0.28, G:0.22, T:0.34
Consensus pattern (25 bp):
GGCTCTTCGTGAGCTTCCTATTAAA
Found at i:47217176 original size:20 final size:20
Alignment explanation
Indices: 47217147--47217185 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
47217137 TAACAGTAAA
47217147 CTGATAATGA-TCTGTATTAT
1 CTGATAATGACT-TGTATTAT
*
47217167 CTGATTATGACTTGTATTA
1 CTGATAATGACTTGTATTA
47217186 GGATAACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.46
Consensus pattern (20 bp):
CTGATAATGACTTGTATTAT
Found at i:47218431 original size:162 final size:162
Alignment explanation
Indices: 47218257--47218565 Score: 618
Period size: 162 Copynumber: 1.9 Consensus size: 162
47218247 TGGACGAAAT
47218257 GTAAAAGATAAAAAGATTAAATGTATAATAATTTTAAACACAACATAGAAACATAAAAAATATTT
1 GTAAAAGATAAAAAGATTAAATGTATAATAATTTTAAACACAACATAGAAACATAAAAAATATTT
47218322 AATAAATAAGACATATATCACAATAATAATTGATATTTAATTTTTGAACATATTTAGTAATTTAT
66 AATAAATAAGACATATATCACAATAATAATTGATATTTAATTTTTGAACATATTTAGTAATTTAT
47218387 ATTTATATAAAAAATTAAACACAACATATTTA
131 ATTTATATAAAAAATTAAACACAACATATTTA
47218419 GTAAAAGATAAAAAGATTAAATGTATAATAATTTTAAACACAACATAGAAACATAAAAAATATTT
1 GTAAAAGATAAAAAGATTAAATGTATAATAATTTTAAACACAACATAGAAACATAAAAAATATTT
47218484 AATAAATAAGACATATATCACAATAATAATTGATATTTAATTTTTGAACATATTTAGTAATTTAT
66 AATAAATAAGACATATATCACAATAATAATTGATATTTAATTTTTGAACATATTTAGTAATTTAT
47218549 ATTTATATAAAAAATTA
131 ATTTATATAAAAAATTA
47218566 TCATTTTTAA
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
162 147 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (162 bp):
GTAAAAGATAAAAAGATTAAATGTATAATAATTTTAAACACAACATAGAAACATAAAAAATATTT
AATAAATAAGACATATATCACAATAATAATTGATATTTAATTTTTGAACATATTTAGTAATTTAT
ATTTATATAAAAAATTAAACACAACATATTTA
Found at i:47218654 original size:5 final size:5
Alignment explanation
Indices: 47218644--47218670 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
47218634 GACAAGTATT
47218644 TGTTA TGTTA TGTTA TGTTA TGTTA TG
1 TGTTA TGTTA TGTTA TGTTA TGTTA TG
47218671 AATGGATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.59
Consensus pattern (5 bp):
TGTTA
Found at i:47219681 original size:18 final size:18
Alignment explanation
Indices: 47219658--47219696 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
47219648 TTGATTATGT
47219658 TTTTAT-ATGTTTTATTAA
1 TTTTATAATGTTTTA-TAA
*
47219676 TTTTATAATTTTTTATAA
1 TTTTATAATGTTTTATAA
47219694 TTT
1 TTT
47219697 ATTAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTATAATGTTTTATAA
Found at i:47219794 original size:20 final size:18
Alignment explanation
Indices: 47219616--47219840 Score: 102
Period size: 19 Copynumber: 11.6 Consensus size: 18
47219606 ATTTATATTT
47219616 TTTTTATGAA-TTTTATAA
1 TTTTTAT-AATTTTTATAA
* *
47219634 TCTTTTATAAAATTTTGATTA
1 T-TTTTAT--AATTTTTATAA
47219655 TGTTTT-TATATGTTTTATTAA
1 T-TTTTATA-AT-TTTTA-TAA
47219676 -TTTTATAATTTTTTATAA
1 TTTTTATAA-TTTTTATAA
* *
47219694 TTTATTAGAATTTCTATAAA
1 TTT-TTATAATTTTTAT-AA
* * *
47219714 ATTTTACAATATTTATAA
1 TTTTTATAATTTTTATAA
47219732 GCTTTTT-TGAATTTTTAT-A
1 --TTTTTAT-AATTTTTATAA
* *
47219751 TTTTTATAAGTACTATTCTAA
1 TTTTTATAA-T--TTTTATAA
47219772 TTTGTCTATAATTTTTATAA
1 TTT-T-TATAATTTTTATAA
* *
47219792 TTTTATATAAATATT-TAA
1 TTTT-TATAATTTTTATAA
47219810 TTTTTATGATATTTTTATAA
1 TTTTTAT-A-ATTTTTATAA
47219830 TTTTTTATAAT
1 -TTTTTATAAT
47219841 AAAAATATAA
Statistics
Matches: 158, Mismatches: 24, Indels: 49
0.68 0.10 0.21
Matches are distributed among these distances:
17 10 0.06
18 17 0.11
19 52 0.33
20 48 0.30
21 24 0.15
22 2 0.01
23 5 0.03
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (18 bp):
TTTTTATAATTTTTATAA
Found at i:47219797 original size:8 final size:9
Alignment explanation
Indices: 47219616--47219840 Score: 102
Period size: 10 Copynumber: 23.1 Consensus size: 9
47219606 ATTTATATTT
47219616 TTTTTATGAA
1 TTTTTAT-AA
47219626 -TTTTATAA
1 TTTTTATAA
47219634 TCTTTTATAAAA
1 T-TTTTAT--AA
* *
47219646 TTTTGATTA
1 TTTTTATAA
47219655 TGTTTT-TATA
1 T-TTTTATA-A
47219665 TGTTTTATTAA
1 T-TTTTA-TAA
47219676 -TTTTATAA
1 TTTTTATAA
47219684 TTTTTTATAA
1 -TTTTTATAA
*
47219694 TTTATTAGAA
1 TTT-TTATAA
*
47219704 TTTCTATAAA
1 TTTTTAT-AA
* *
47219714 ATTTTACAA
1 TTTTTATAA
*
47219723 TATTTATAA
1 TTTTTATAA
47219732 GCTTTTT-TGAA
1 --TTTTTAT-AA
47219743 TTTTTAT-A
1 TTTTTATAA
47219751 TTTTTATAA
1 TTTTTATAA
* *
47219760 GTACTATTCTAA
1 -T--TTTTATAA
47219772 TTTGTCTATAA
1 TTT-T-TATAA
47219783 TTTTTATAA
1 TTTTTATAA
47219792 TTTTATATAA
1 TTTT-TATAA
* *
47219802 ATATT-TAA
1 TTTTTATAA
47219810 TTTTTATGATA
1 TTTTTAT-A-A
47219821 TTTTTATAA
1 TTTTTATAA
47219830 TTTTTTATAA
1 -TTTTTATAA
47219840 T
1 T
47219841 AAAAATATAA
Statistics
Matches: 166, Mismatches: 22, Indels: 55
0.68 0.09 0.23
Matches are distributed among these distances:
8 19 0.11
9 47 0.28
10 61 0.37
11 28 0.17
12 11 0.07
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:47224108 original size:2 final size:2
Alignment explanation
Indices: 47224101--47224133 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
47224091 TCAGTTTCTA
47224101 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
47224134 ATGCAAGAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:47227594 original size:16 final size:16
Alignment explanation
Indices: 47227573--47227640 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
47227563 TTTGGTTCGC
47227573 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47227589 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
47227605 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
*
47227621 TATATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47227637 TGTA
1 TGTA
47227641 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:47227896 original size:16 final size:16
Alignment explanation
Indices: 47227856--47227910 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
47227846 TTAATCATAT
*
47227856 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
47227872 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
47227887 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
47227905 -TAAAAT
1 TTAAAAT
47227911 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:47227903 original size:18 final size:17
Alignment explanation
Indices: 47227876--47227910 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47227866 TTTTTATTAA
*
47227876 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
47227894 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
47227911 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:47228023 original size:18 final size:17
Alignment explanation
Indices: 47227996--47228030 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47227986 TTACTATTAA
*
47227996 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
47228014 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
47228031 TCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:47228076 original size:61 final size:60
Alignment explanation
Indices: 47227891--47228081 Score: 155
Period size: 61 Copynumber: 3.2 Consensus size: 60
47227881 TTTTAATTAA
* *
47227891 AATATATAATTTAATAAAATTCTTAATAATT-AATATTCTTATATTAATTTACTGAAATCAT
1 AATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTATATAAATTTTCT-AAATCAT
* * * * * *
47227952 AATATATGATACT-GTAAAA-T-ATAA-ATTAACATAATTAC-TAT-TAAATATATT-TTAATTA
1 AATATATAAT-TTAATAAAATTCTTAATATTAA-AT-ATT-CTTATATAAAT-T-TTCTAAATCA
*
47228010 A
60 T
*
47228011 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCT-AAATCAT
47228072 AATATATAAT
1 AATATATAAT
47228082 ACTATGAAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 30
0.68 0.12 0.21
Matches are distributed among these distances:
57 3 0.03
58 2 0.02
59 30 0.31
60 18 0.18
61 39 0.40
62 6 0.06
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCTAAATCAT
Found at i:47228159 original size:120 final size:120
Alignment explanation
Indices: 47227854--47228137 Score: 446
Period size: 120 Copynumber: 2.4 Consensus size: 120
47227844 ATTTAATCAT
*
47227854 ATTTAAACATAATTTTTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAAT-
* * * *
47227919 ATT-AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATA
64 ATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
* *
47227975 AATTAACATAATTACTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
* *
47228040 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATGAAATATA
66 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
47228095 ATTTAACATAATTATTATTAAATATAATTTAA-TAAAATATATA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATA
47228138 TTTTCAATTA
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
119 14 0.09
120 133 0.89
121 3 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:47230071 original size:19 final size:19
Alignment explanation
Indices: 47230047--47230083 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
47230037 ATAAAATATT
47230047 ATCGTTCAGGTACATATAC
1 ATCGTTCAGGTACATATAC
*
47230066 ATCGTTCAGGTGCATATA
1 ATCGTTCAGGTACATATA
47230084 GAGGTCATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (19 bp):
ATCGTTCAGGTACATATAC
Found at i:47231137 original size:15 final size:15
Alignment explanation
Indices: 47231113--47231142 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47231103 GGAGGGTAAA
*
47231113 ACAGAGAGCAAATCG
1 ACAGAAAGCAAATCG
47231128 ACAGAAAGCAAATCG
1 ACAGAAAGCAAATCG
47231143 GCCAAAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.20, G:0.23, T:0.07
Consensus pattern (15 bp):
ACAGAAAGCAAATCG
Found at i:47237863 original size:22 final size:22
Alignment explanation
Indices: 47237838--47237899 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
47237828 AAGATAGCAC
*
47237838 AAATTTAAAT-TTAATGATAAAA
1 AAATATAAATATTAAT-ATAAAA
*
47237860 AAATATGAATATTAATATAAAA
1 AAATATAAATATTAATATAAAA
* *
47237882 TTAATAT-AATATTCATAT
1 -AAATATAAATATTAATAT
47237900 TTTTTGGACC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 24 0.71
23 10 0.29
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (22 bp):
AAATATAAATATTAATATAAAA
Found at i:47237874 original size:23 final size:22
Alignment explanation
Indices: 47237848--47237899 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
47237838 AAATTTAAAT
47237848 TTAATGATAAAA-AAATATGAATA
1 TTAAT-ATAAAATAAATAT-AATA
*
47237871 TTAATATAAAATTAATATAATA
1 TTAATATAAAATAAATATAATA
*
47237893 TTCATAT
1 TTAATAT
47237900 TTTTTGGACC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 16 0.62
23 10 0.38
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (22 bp):
TTAATATAAAATAAATATAATA
Found at i:47237899 original size:11 final size:11
Alignment explanation
Indices: 47237861--47237899 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
47237851 ATGATAAAAA
47237861 AATATGAATATT
1 AATAT-AATATT
*
47237873 AATATAAAATT
1 AATATAATATT
47237884 AATATAATATT
1 AATATAATATT
*
47237895 CATAT
1 AATAT
47237900 TTTTTGGACC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (11 bp):
AATATAATATT
Found at i:47241729 original size:16 final size:16
Alignment explanation
Indices: 47241707--47241778 Score: 92
Period size: 16 Copynumber: 4.5 Consensus size: 16
47241697 CGTTTGGTTC
*
47241707 ACTGTAATGGAATATA
1 ACTGTAATGGAATAGA
*
47241723 GCTGTAACT-GAATAGA
1 ACTGTAA-TGGAATAGA
47241739 ACTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
**
47241755 GTTGTAATGGAATAGA
1 ACTGTAATGGAATAGA
47241771 ACTGTAAT
1 ACTGTAAT
47241779 AAGTAATTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
15 1 0.02
16 45 0.96
17 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (16 bp):
ACTGTAATGGAATAGA
Found at i:47241748 original size:32 final size:32
Alignment explanation
Indices: 47241707--47241778 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 32
47241697 CGTTTGGTTC
*
47241707 ACTGTAATGGAATATAGCTGTAACT-GAATAGA
1 ACTGTAATGGAATAGAGCTGTAA-TGGAATAGA
*
47241739 ACTGTAATGGAATAGAGTTGTAATGGAATAGA
1 ACTGTAATGGAATAGAGCTGTAATGGAATAGA
47241771 ACTGTAAT
1 ACTGTAAT
47241779 AAGTAATTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 1 0.03
32 36 0.97
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.29
Consensus pattern (32 bp):
ACTGTAATGGAATAGAGCTGTAATGGAATAGA
Found at i:47242046 original size:17 final size:17
Alignment explanation
Indices: 47242024--47242056 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
47242014 AATTATTATT
47242024 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
47242041 AAATATAATTTAATAA
1 AAATATAATTTAATAA
47242057 CATTCGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:47242868 original size:17 final size:18
Alignment explanation
Indices: 47242834--47242877 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
47242824 AATTTAATTT
*
47242834 AATTTAATTATTTCTCTC
1 AATTAAATTATTTCTCTC
47242852 AATTAAATTATTT-TCTC
1 AATTAAATTATTTCTCTC
*
47242869 AATTCAATT
1 AATTAAATT
47242878 CTAATTCCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (18 bp):
AATTAAATTATTTCTCTC
Found at i:47247368 original size:45 final size:46
Alignment explanation
Indices: 47247279--47247368 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 46
47247269 AAAATGAATA
* *
47247279 GAAATAGAGAAATGGAAAACATTCAGAAATGATTATGGTTTTCTCT
1 GAAATAGAGAAATGGAAAACATTCAGAAATAAATATGGTTTTCTCT
* **
47247325 GAAATAGAGAAATGG-AATCATTTGGAAATAAATATGGTTTTCTC
1 GAAATAGAGAAATGGAAAACATTCAGAAATAAATATGGTTTTCTC
47247369 AAAATGGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 24 0.62
46 15 0.38
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (46 bp):
GAAATAGAGAAATGGAAAACATTCAGAAATAAATATGGTTTTCTCT
Found at i:47249883 original size:43 final size:43
Alignment explanation
Indices: 47249822--47249908 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
47249812 GGTGAGTCAC
* *
47249822 ATAGTCAAAGGGTAAAAGAAACATGTAATCAAAATTGACTTTA
1 ATAGTCAAAGGGTAAAAGAAAAATGTAATCAAAATTAACTTTA
47249865 ATAGTCAAAGGGTAAAAGAAAAATGTAATCAAAATTAACTTTA
1 ATAGTCAAAGGGTAAAAGAAAAATGTAATCAAAATTAACTTTA
47249908 A
1 A
47249909 AGGCTAAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.52, C:0.08, G:0.15, T:0.25
Consensus pattern (43 bp):
ATAGTCAAAGGGTAAAAGAAAAATGTAATCAAAATTAACTTTA
Found at i:47257934 original size:20 final size:21
Alignment explanation
Indices: 47257893--47257934 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
47257883 TTTATATTAT
**
47257893 TATGTTATTTCTCTTGATGTA
1 TATGTTATTAATCTTGATGTA
47257914 TATGTTATTAATCTT-ATGTA
1 TATGTTATTAATCTTGATGTA
47257934 T
1 T
47257935 TGAGTTAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.24, C:0.07, G:0.12, T:0.57
Consensus pattern (21 bp):
TATGTTATTAATCTTGATGTA
Found at i:47260384 original size:31 final size:33
Alignment explanation
Indices: 47260323--47260387 Score: 89
Period size: 31 Copynumber: 2.0 Consensus size: 33
47260313 AATATCCTTT
* * *
47260323 CATAATATTATGTTGTTTAATAAGATAATTTTA
1 CATAAAATTATATTGTTTAATAAGAAAATTTTA
47260356 CATAAAATTATATT-TTT-ATAAGAAAATTTTA
1 CATAAAATTATATTGTTTAATAAGAAAATTTTA
47260387 C
1 C
47260388 GTACACAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 14 0.48
32 3 0.10
33 12 0.41
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (33 bp):
CATAAAATTATATTGTTTAATAAGAAAATTTTA
Found at i:47267969 original size:20 final size:19
Alignment explanation
Indices: 47267946--47267990 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
47267936 AATAAACACC
*
47267946 AAAAATTTATTTTAAAAATA
1 AAAAATGTATTTT-AAAATA
*
47267966 AAAAAAGTATTTTAAAATA
1 AAAAATGTATTTTAAAATA
47267985 AAAAAT
1 AAAAAT
47267991 AAATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAAATGTATTTTAAAATA
Found at i:47275875 original size:25 final size:25
Alignment explanation
Indices: 47275847--47275933 Score: 113
Period size: 25 Copynumber: 3.5 Consensus size: 25
47275837 GAGTTGTAAA
** *
47275847 CGGGAAGCTCATGCAAGCTAAGTAT
1 CGGGAAGCTCATGTGAGCTAAATAT
*
47275872 CGGGAAGCTCACGTGAGCTAAATAT
1 CGGGAAGCTCATGTGAGCTAAATAT
*
47275897 -GGAGAAGCTCATGTGAGATAAATAT
1 CGG-GAAGCTCATGTGAGCTAAATAT
47275922 CGGGAAGCTCAT
1 CGGGAAGCTCAT
47275934 AAGAGTTGTG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
24 2 0.04
25 50 0.93
26 2 0.04
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (25 bp):
CGGGAAGCTCATGTGAGCTAAATAT
Found at i:47278810 original size:99 final size:97
Alignment explanation
Indices: 47278536--47278811 Score: 293
Period size: 99 Copynumber: 2.8 Consensus size: 97
47278526 ATGCTCACTT
* * * * *
47278536 CACCAATTATTGATGTTGGGTATCAACA-AGGGGAGACACAGTGGAGGGAGTGGCGGTGTTGGTG
1 CACCAATTATTGATGTTGGGTATCAAAAGAGGGGAGATACGGAGGAGGGAGTGGTGGTGTTGGTG
* *
47278600 AAGGTCGGTTCATCCAATTTGGGCAGAGAGTCG
66 AAGG-CTGTTCACCCAATTTGGGCAGAGAGTCG
* * * * * * * * *
47278633 CACCGATTGTTGATGTAGGGTATCAAAAAGAAGGGAGATACGAATGAGGGAGTGATGGTGCTAGT
1 CACCAATTATTGATGTTGGGTATC-AAAAGAGGGGAGATACGGAGGAGGGAGTGGTGGTGTTGGT
* *
47278698 AAAGGCTGATTCACCCAGTTTGGGCAGAGAGTCG
65 GAAGGCTG-TTCACCCAATTTGGGCAGAGAGTCG
* * * *
47278732 CACTAATTATTGATGTTGGGTATCAATAAGAGGGGAGATATGGAGGAGAGAGTGGTGATGTTGGT
1 CACCAATTATTGATGTTGGGTATCAA-AAGAGGGGAGATACGGAGGAGGGAGTGGTGGTGTTGGT
*
47278797 GATGGCTAGTTCACC
65 GAAGGCT-GTTCACC
47278812 TTTTCTAGGT
Statistics
Matches: 141, Mismatches: 33, Indels: 8
0.77 0.18 0.04
Matches are distributed among these distances:
97 21 0.15
98 7 0.05
99 112 0.79
100 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.36, T:0.25
Consensus pattern (97 bp):
CACCAATTATTGATGTTGGGTATCAAAAGAGGGGAGATACGGAGGAGGGAGTGGTGGTGTTGGTG
AAGGCTGTTCACCCAATTTGGGCAGAGAGTCG
Found at i:47283160 original size:16 final size:16
Alignment explanation
Indices: 47283139--47283180 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
47283129 TTATTAAATT
*
47283139 ATATATTTTAATTATA
1 ATATATTTTAATAATA
47283155 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
47283170 AT-TATGTTTAA
1 ATATAT-TTTAA
47283181 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:47283165 original size:15 final size:15
Alignment explanation
Indices: 47283130--47283171 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
47283120 TTAAGAATTT
*
47283130 TATTAAATTAT-ATA
1 TATTTAATTATAATA
47283144 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
47283158 TATTTAATAATAAT
1 TATTTAATTATAAT
47283172 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:47283415 original size:16 final size:16
Alignment explanation
Indices: 47283394--47283447 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
47283384 TTGATTTGCT
47283394 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
47283410 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
* *
47283426 ATTACGCCTTTATTCC
1 ATTACACCTCTATTCC
*
47283442 AATACA
1 ATTACA
47283448 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.28, C:0.33, G:0.02, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:47283520 original size:9 final size:9
Alignment explanation
Indices: 47283508--47283575 Score: 82
Period size: 9 Copynumber: 7.6 Consensus size: 9
47283498 TCAATTTGGT
*
47283508 TAATTCGGA
1 TAATTCGGG
47283517 TAATTCGGG
1 TAATTCGGG
47283526 TAATTCGGG
1 TAATTCGGG
*
47283535 TAATTCGGT
1 TAATTCGGG
47283544 TAATTCGGG
1 TAATTCGGG
* * *
47283553 TATTTTGGT
1 TAATTCGGG
*
47283562 TAATTCGGT
1 TAATTCGGG
47283571 TAATT
1 TAATT
47283576 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.24, C:0.09, G:0.25, T:0.43
Consensus pattern (9 bp):
TAATTCGGG
Found at i:47283529 original size:18 final size:18
Alignment explanation
Indices: 47283500--47283575 Score: 98
Period size: 18 Copynumber: 4.2 Consensus size: 18
47283490 GTAGTGATTC
* *
47283500 AATTTGGTTAATTCGGAT
1 AATTCGGTTAATTCGGGT
*
47283518 AATTCGGGTAATTCGGGT
1 AATTCGGTTAATTCGGGT
47283536 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
* * *
47283554 ATTTTGGTTAATTCGGTT
1 AATTCGGTTAATTCGGGT
47283572 AATT
1 AATT
47283576 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 50 1.00
ACGTcount: A:0.24, C:0.08, G:0.25, T:0.43
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:47283538 original size:27 final size:27
Alignment explanation
Indices: 47283508--47283575 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
47283498 TCAATTTGGT
*
47283508 TAATTCGGATAATTCGGGTAATTCGGG
1 TAATTCGGTTAATTCGGGTAATTCGGG
* * *
47283535 TAATTCGGTTAATTCGGGTATTTTGGT
1 TAATTCGGTTAATTCGGGTAATTCGGG
47283562 TAATTCGGTTAATT
1 TAATTCGGTTAATT
47283576 TTTAACCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.24, C:0.09, G:0.25, T:0.43
Consensus pattern (27 bp):
TAATTCGGTTAATTCGGGTAATTCGGG
Found at i:47284252 original size:3 final size:3
Alignment explanation
Indices: 47284244--47284292 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
47284234 GTCTGCTTTC
47284244 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
47284292 T
1 T
47284293 TTCCGTTGTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:47291243 original size:23 final size:21
Alignment explanation
Indices: 47291204--47291247 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
47291194 ATAATTTTAA
*
47291204 AATGTAATAAAAGTATAATTT
1 AATGTAATAAAAATATAATTT
47291225 AATGTAAATACAAAATATAATTT
1 AATGT-AATA-AAAATATAATTT
47291248 CATCTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 4 0.20
23 11 0.55
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (21 bp):
AATGTAATAAAAATATAATTT
Found at i:47291814 original size:45 final size:45
Alignment explanation
Indices: 47291756--47292437 Score: 860
Period size: 45 Copynumber: 15.3 Consensus size: 45
47291746 GCAATAGTGG
* * * *
47291756 AGTAGGTCAAAGATAGCATATCTTTTCTTCCTATGTTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* * * * * **
47291801 AGTAGATCGAAGATAACAAATCTTGTCTTCTTGTATTGACAGCG-
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* *
47291845 AGTAGATCAAAGATAGTAGATCTTGTCTTCCTATGTTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
***
47291890 AGTAGATCAAAGATAATGGATCTTGTCTTCCTATATTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
*
47291935 AGTAGATC---G--A--AGATCTTGTCTTCCTATGTTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* *
47291973 AGTAGATCAAAGATAACAGATCTTGTCTTCCTATATCGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* *
47292018 AGTAGATCGAAGATAGCAGATCTTGTCTTCCTATATTGGTAACGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* * *
47292063 AGTAGATCGAAGATAACAAATCTTGTCTTCCTATATTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
*
47292108 AGTAGATCAAAGATAGTAGATCTTGTCTTCCTATATTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* * * * *
47292153 AGTAGATCGAAGATAGCAGACCTTGTCTTCGTGTATTGGCAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* * * * *
47292198 AGTAGATAAAAGATAACAGATCTTGTCTTCTTGTATTGGCAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* * *
47292243 AGTAGATCAAAGATAGCAGACCTTGTCTTCCTATATTGGCAACGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
** * *
47292288 AGTAGATTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* *
47292333 AGTAGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* * *
47292378 AGTAGATCAAAGATAGAAGACCTTGTCTTCCTAT-TTCGGCAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATT-GGTAGCGA
*
47292423 AGTAGATTAAAGATA
1 AGTAGATCAAAGATA
47292438 CAAGTCTTAT
Statistics
Matches: 559, Mismatches: 69, Indels: 18
0.87 0.11 0.03
Matches are distributed among these distances:
38 34 0.06
40 1 0.00
41 1 0.00
42 1 0.00
43 1 0.00
44 37 0.07
45 484 0.87
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (45 bp):
AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
Found at i:47295518 original size:16 final size:16
Alignment explanation
Indices: 47295497--47295528 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
47295487 ATAGGTATCT
47295497 AATAATATTAATTTCA
1 AATAATATTAATTTCA
47295513 AATAATATTAATTTCA
1 AATAATATTAATTTCA
47295529 CCACACGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAATATTAATTTCA
Found at i:47301715 original size:26 final size:26
Alignment explanation
Indices: 47301685--47301735 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
47301675 AAACTGTTAA
*
47301685 TTAATTAAAAATTAATATAATATATT
1 TTAATTAAAAATTAAAATAATATATT
** *
47301711 TTAATTATTAATTAAAATAGTATAT
1 TTAATTAAAAATTAAAATAATATAT
47301736 ATCTAAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
TTAATTAAAAATTAAAATAATATATT
Found at i:47302934 original size:23 final size:21
Alignment explanation
Indices: 47302895--47302938 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 21
47302885 ATAATTTTAA
*
47302895 AATGTAATAAAAGTATAATTT
1 AATGTAATAAAAATATAATTT
47302916 AATGTAAATACAAAATATAATTT
1 AATGT-AATA-AAAATATAATTT
47302939 CATCTTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 4 0.20
23 11 0.55
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (21 bp):
AATGTAATAAAAATATAATTT
Found at i:47303504 original size:45 final size:45
Alignment explanation
Indices: 47303446--47303985 Score: 682
Period size: 45 Copynumber: 12.2 Consensus size: 45
47303436 GCAATAGTGG
* * *
47303446 AGTAGGTCAAAGATAGCAGATCTTTTCTTCCTATGTTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* * * * *
47303491 AGTAGATCGAAGATAACAAATCTTGTCTTCCTGTATTGGCAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* * *
47303536 AGTACATCAAAGATAGTAGATCTTGTCTTCCTATGTTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
**
47303581 AGTAGATCAAAGATAATAGATCTTGTCTTCCTATATTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
47303626 AGTAGATC---G--A--AGATCTTGTCTTCCTATATTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* * * *
47303664 AGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
47303709 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* * * *
47303754 AGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* * **
47303799 AGTAGATCAAAGATAGCAGA-CATTGTCTTCCTATATTAGCAATGA
1 AGTAGATCAAAGATAGCAGATC-TTGTCTTCCTATATTGGTAGCGA
** * * *
47303844 AGTAGATTGAAGATAGCAGATGTTGTCTTCCTGTATTGGCAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* *
47303889 AGTAGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
* * * **
47303934 AGTAGATCAAAGATAGAAGACCTTATCTTCCTATATCAGTAGCGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
47303979 AGTAGAT
1 AGTAGAT
47303986 TGAAGATACT
Statistics
Matches: 432, Mismatches: 54, Indels: 18
0.86 0.11 0.04
Matches are distributed among these distances:
38 36 0.08
40 1 0.00
41 1 0.00
42 1 0.00
43 1 0.00
44 1 0.00
45 391 0.91
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (45 bp):
AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGA
Found at i:47303605 original size:90 final size:90
Alignment explanation
Indices: 47303446--47303985 Score: 756
Period size: 90 Copynumber: 6.1 Consensus size: 90
47303436 GCAATAGTGG
* * * *
47303446 AGTAGGTCAAAGATAGCAGATCTTTTCTTCCTATGTTGGTAGCGAAGTAGATCGAAGATAACAAA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGA
47303511 TCTTGTCTTCCTGTATTGGCAGCGA
66 TCTTGTCTTCCTGTATTGGCAGCGA
* * * * *
47303536 AGTACATCAAAGATAGTAGATCTTGTCTTCCTATGTTGGTAGCGAAGTAGATCAAAGATAATAGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGA
* *
47303601 TCTTGTCTTCCTATATTGGTAGCGA
66 TCTTGTCTTCCTGTATTGGCAGCGA
47303626 AGTAGATC---G--A--AGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGA
47303684 TCTTGTCTTCCTGTATTGGCAGCGA
66 TCTTGTCTTCCTGTATTGGCAGCGA
47303709 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGA
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGA
47303774 TCTTGTCTTCCTGTATTGGCAGCGA
66 TCTTGTCTTCCTGTATTGGCAGCGA
* * ** * *
47303799 AGTAGATCAAAGATAGCAGA-CATTGTCTTCCTATATTAGCAATGAAGTAGATTGAAGATAGCAG
1 AGTAGATCAAAGATAGCAGATC-TTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAG
*
47303863 ATGTTGTCTTCCTGTATTGGCAGCGA
65 ATCTTGTCTTCCTGTATTGGCAGCGA
* * *
47303889 AGTAGATCAAAGATAACAGATCTTGTCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAGA-AG
1 AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATA-ACAG
* * * ** *
47303953 ACCTTATCTTCCTATATCAGTAGCGA
65 ATCTTGTCTTCCTGTATTGGCAGCGA
47303979 AGTAGAT
1 AGTAGAT
47303986 TGAAGATACT
Statistics
Matches: 402, Mismatches: 38, Indels: 20
0.87 0.08 0.04
Matches are distributed among these distances:
83 76 0.19
85 1 0.00
86 1 0.00
87 1 0.00
88 1 0.00
89 1 0.00
90 320 0.80
91 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (90 bp):
AGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGA
TCTTGTCTTCCTGTATTGGCAGCGA
Found at i:47306340 original size:43 final size:43
Alignment explanation
Indices: 47306257--47306420 Score: 143
Period size: 43 Copynumber: 3.8 Consensus size: 43
47306247 TTACGGCAAG
* * * * * *
47306257 CGCCGCAAAAGACCCTGATCTATAGCGGCGC-CTCGACCACAAA
1 CGCCGCTAAAGAACCTAATCTTTAGCGGCGCTTTC-CCCACAAA
* ** *
47306300 TGCCATTAAAGATCCTAATCTTTAGCGGCGCTTTCCCCACAAA
1 CGCCGCTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAA
* * **
47306343 CGCCGCTAAA-AACCATGATCTTTAGTGGCGCTTTTTTCCACAAA
1 CGCCGCTAAAGAACC-TAATCTTTAGCGGCGC-TTTCCCCACAAA
* *
47306387 CGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTT
1 CGCCGCTAAAGAACCTAATCTTTAGCGGCGCTTT
47306421 TACCAAAAAA
Statistics
Matches: 97, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
42 3 0.03
43 55 0.57
44 36 0.37
45 3 0.03
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (43 bp):
CGCCGCTAAAGAACCTAATCTTTAGCGGCGCTTTCCCCACAAA
Found at i:47306395 original size:44 final size:44
Alignment explanation
Indices: 47306317--47306440 Score: 151
Period size: 44 Copynumber: 2.8 Consensus size: 44
47306307 AAAGATCCTA
47306317 ATCTTTAGCGGCGC-TTTCCCCACAAACGCCGCTAAAAACCATG
1 ATCTTTAGCGGCGCTTTTCCCCACAAACGCCGCTAAAAACCATG
* ** * * *
47306360 ATCTTTAGTGGCGCTTTTTTCCACAAACGCCGCTAAAGACCCTT
1 ATCTTTAGCGGCGCTTTTCCCCACAAACGCCGCTAAAAACCATG
* * * *
47306404 ATCTTTAGCGGCGCTTTTACCAAAAAACGCCACTAAA
1 ATCTTTAGCGGCGCTTTTCCCCACAAACGCCGCTAAA
47306441 TTTGGCAGAT
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
43 13 0.19
44 55 0.81
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (44 bp):
ATCTTTAGCGGCGCTTTTCCCCACAAACGCCGCTAAAAACCATG
Found at i:47306779 original size:21 final size:21
Alignment explanation
Indices: 47306750--47306820 Score: 97
Period size: 21 Copynumber: 3.4 Consensus size: 21
47306740 TTTGACGCTG
* *
47306750 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCCGC
*
47306771 CTCTACTTCCCTTGCTGCCGC
1 CTCTACTTCCCTCGCTGCCGC
*
47306792 CTCTGCTTCCCTCGCTGCCGC
1 CTCTACTTCCCTCGCTGCCGC
*
47306813 ATCTACTT
1 CTCTACTT
47306821 TAAGCTGCTG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.06, C:0.46, G:0.15, T:0.32
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCCGC
Found at i:47306874 original size:66 final size:66
Alignment explanation
Indices: 47306791--47306937 Score: 190
Period size: 66 Copynumber: 2.2 Consensus size: 66
47306781 CTTGCTGCCG
* *
47306791 CCTCTGCTTCCCTCGCTGCCGCATCTACTTTAAGCTGCT-GCTGGAGTTCTTCATACT-TTCGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTACTTTAAGCTG-TAGCTGGAGTTCTTCATA-TATTCGTT
47306854 GAA
64 GAA
* * * * **
47306857 CCTCAGCTTCTCTCGCTGCTGCATTTGCTTTAAGTTGTAGCTGGAGTTCTTCATATATTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTACTTTAAGCTGTAGCTGGAGTTCTTCATATATTCGTTGA
47306922 A
66 A
47306923 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
47306938 ATGTTGCCTC
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
65 2 0.03
66 69 0.97
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTACTTTAAGCTGTAGCTGGAGTTCTTCATATATTCGTTGA
A
Found at i:47306953 original size:66 final size:66
Alignment explanation
Indices: 47306830--47306960 Score: 183
Period size: 66 Copynumber: 2.0 Consensus size: 66
47306820 TTAAGCTGCT
* **
47306830 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATTTGCTTTAAGTTGT
1 GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
47306895 A
66 A
** * *
47306896 GCTGGAGTTCTTCATA-TATTTTTTGAACCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTG
1 GCTGGAGTTCTTCATACT-TTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTG
47306960 T
65 T
47306961 GTAATTTGCT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 1 0.02
66 56 0.98
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.42
Consensus pattern (66 bp):
GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
A
Found at i:47309269 original size:9 final size:9
Alignment explanation
Indices: 47309255--47309503 Score: 74
Period size: 9 Copynumber: 26.8 Consensus size: 9
47309245 CGGTAATTAG
47309255 TTATGTAAT
1 TTATGTAAT
47309264 TTATGT-A-
1 TTATGTAAT
47309271 -TAT-TAAT
1 TTATGTAAT
* *
47309278 TAAT-TAAG
1 TTATGTAAT
47309286 TTATGTAAT
1 TTATGTAAT
47309295 TTATGTATAAT
1 TTATG--TAAT
*
47309306 ATTAATGTAAG
1 -TT-ATGTAAT
47309317 TTATGTAAT
1 TTATGTAAT
47309326 TTATGAATAAT
1 TTATG--TAAT
*
47309337 TATAAAAATGTAAG
1 T-T----ATGTAAT
47309351 TTATGTAA-
1 TTATGTAAT
* *
47309359 GT-TGTAAG
1 TTATGTAAT
*
47309367 TTATGTAAG
1 TTATGTAAT
47309376 TTATGT-AT
1 TTATGTAAT
*
47309384 AATAT-TAAT
1 -TTATGTAAT
* *
47309393 TAAT-TAAG
1 TTATGTAAT
47309401 TTATGTAAT
1 TTATGTAAT
47309410 TTATGTATAAT
1 TTATG--TAAT
* *
47309421 ATTAATGCAAG
1 -TT-ATGTAAT
47309432 TTATGT-AT
1 TTATGTAAT
*
47309440 AATAT-TAAT
1 -TTATGTAAT
* *
47309449 TAAT-TAAG
1 TTATGTAAT
47309457 TTATGTAAT
1 TTATGTAAT
47309466 TTATGTATAAT
1 TTATG--TAAT
*
47309477 ATTAATGTAAC
1 -TT-ATGTAAT
47309488 TTATGTAAT
1 TTATGTAAT
47309497 TTATGTA
1 TTATGTA
47309504 TATTAATTAA
Statistics
Matches: 181, Mismatches: 28, Indels: 62
0.67 0.10 0.23
Matches are distributed among these distances:
5 1 0.01
6 4 0.02
7 5 0.03
8 31 0.17
9 85 0.47
10 6 0.03
11 25 0.14
12 7 0.04
13 10 0.06
14 4 0.02
16 3 0.02
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.47
Consensus pattern (9 bp):
TTATGTAAT
Found at i:47309289 original size:31 final size:31
Alignment explanation
Indices: 47309248--47309517 Score: 158
Period size: 31 Copynumber: 9.2 Consensus size: 31
47309238 ACTTCGTCGG
47309248 TAATT-AGTTATGTAATTTATGTATATTAAT
1 TAATTAAGTTATGTAATTTATGTATATTAAT
*
47309278 TAATTAAGTTATGTAATTTATGTATAAT-AT
1 TAATTAAGTTATGTAATTTATGTATATTAAT
47309308 TAATGTAAGTTATGTAATTTATG-A-A-TAAT
1 TAAT-TAAGTTATGTAATTTATGTATATTAAT
** *
47309337 T-A-TAA-AAATGTAAGTTATGTA-AGTTGTAAGT
1 TAATTAAGTTATGTAATTTATGTATA--T-TAA-T
*
47309368 T-ATGTAAGTTATGT-ATAATAT-TA-ATTAAT
1 TAAT-TAAGTTATGTAAT-TTATGTATATTAAT
* * * * *
47309397 TAAGTTATGTAAT-TTATGTAT-AATATTAA-
1 TAA-TTAAGTTATGTAATTTATGTATATTAAT
**
47309426 T--GCAAGTTATGT-A--TA---ATATTAAT
1 TAATTAAGTTATGTAATTTATGTATATTAAT
*
47309449 TAATTAAGTTATGTAATTTATGTATAAT-AT
1 TAATTAAGTTATGTAATTTATGTATATTAAT
*
47309479 TAATGTAACTTATGTAATTTATGTATATTAAT
1 TAAT-TAAGTTATGTAATTTATGTATATTAAT
47309511 TAATTAA
1 TAATTAA
47309518 ATGATATGTA
Statistics
Matches: 190, Mismatches: 21, Indels: 57
0.71 0.08 0.21
Matches are distributed among these distances:
22 7 0.04
23 1 0.01
24 2 0.01
25 20 0.11
26 12 0.06
27 1 0.01
28 4 0.02
29 12 0.06
30 38 0.20
31 73 0.38
32 6 0.03
33 7 0.04
34 7 0.04
ACGTcount: A:0.40, C:0.01, G:0.11, T:0.47
Consensus pattern (31 bp):
TAATTAAGTTATGTAATTTATGTATATTAAT
Found at i:47309357 original size:56 final size:56
Alignment explanation
Indices: 47309257--47309494 Score: 272
Period size: 56 Copynumber: 4.2 Consensus size: 56
47309247 GTAATTAGTT
*
47309257 ATGTAATTTATGTAT-AT-T-AATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATGAATTAATTAAGTTATGTAATTTATGTATAATATTA
* *** * **
47309310 ATGTAAGTTATGTA-ATTTATGAA-TAATTATAAAAATGTAAGTTATGTAAGTTGTAAGTT-
1 ATGTAAGTTATGTATA-ATATGAATTAATTA-AGTTATGTAATTTATGT-A-TAAT-A-TTA
*
47309369 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATGAATTAATTAAGTTATGTAATTTATGTATAATATTA
* *
47309425 ATGCAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATGAATTAATTAAGTTATGTAATTTATGTATAATATTA
*
47309481 ATGTAACTTATGTA
1 ATGTAAGTTATGTA
47309495 ATTTATGTAT
Statistics
Matches: 154, Mismatches: 19, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
53 13 0.08
54 1 0.01
55 9 0.06
56 83 0.54
57 3 0.02
58 3 0.02
59 33 0.21
60 9 0.06
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.47
Consensus pattern (56 bp):
ATGTAAGTTATGTATAATATGAATTAATTAAGTTATGTAATTTATGTATAATATTA
Found at i:47309366 original size:16 final size:16
Alignment explanation
Indices: 47309345--47309377 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
47309335 ATTATAAAAA
47309345 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
47309361 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
47309377 T
1 T
47309378 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:47309368 original size:50 final size:50
Alignment explanation
Indices: 47309311--47309464 Score: 150
Period size: 50 Copynumber: 3.0 Consensus size: 50
47309301 ATAATATTAA
*
47309311 TGTAAGTTATGTAATTTATGAATAAT-TATAA-AAATGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATGAATAATAT-TAATAAAT-TAAGTTATGTAAGT
* * *
47309361 TGTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTT
1 TGTAAGTTATGTAAGTTATGAATAATATTAATAAATTAAGTTATGTAA-GT
* * * *
47309412 ATGTATAATATTAATGCAAGTTATGTATAATATTAATTAATTAAGTTATGTAA
1 -TG--TAA-GTT-ATGTAAGTTATGAATAATATTAATAAATTAAGTTATGTAA
47309465 TTTATGTATA
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
50 39 0.43
51 5 0.06
52 2 0.02
54 3 0.03
55 2 0.02
56 39 0.43
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.45
Consensus pattern (50 bp):
TGTAAGTTATGTAAGTTATGAATAATATTAATAAATTAAGTTATGTAAGT
Found at i:47309400 original size:25 final size:25
Alignment explanation
Indices: 47309372--47309463 Score: 103
Period size: 25 Copynumber: 3.4 Consensus size: 25
47309362 GTAAGTTATG
47309372 TAAGTTATGTATAATATTAATTAAT
1 TAAGTTATGTATAATATTAATTAAT
* *
47309397 TAAGTTATGTAATTTATGTATAATATTAAT
1 TAAGTTATGT-A--TA-ATATTA-ATTAAT
*
47309427 GCAAGTTATGTATAATATTAATTAAT
1 -TAAGTTATGTATAATATTAATTAAT
47309453 TAAGTTATGTA
1 TAAGTTATGTA
47309464 ATTTATGTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
25 20 0.36
26 7 0.13
27 4 0.07
28 4 0.07
29 4 0.07
30 7 0.13
31 9 0.16
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.47
Consensus pattern (25 bp):
TAAGTTATGTATAATATTAATTAAT
Found at i:47309463 original size:115 final size:112
Alignment explanation
Indices: 47309253--47309517 Score: 318
Period size: 115 Copynumber: 2.3 Consensus size: 112
47309243 GTCGGTAATT
* *
47309253 AGTTATGTAATTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGT
1 AGTTATGTAAGTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGCAAGT
*
47309318 TATGTAATTTATGAATAATTATAAAAATGTAAGTTATGTAAGTTGTA
66 TATGTAATATATGAATAATTATAAAAATGTAAGTTATGTAAGTTGTA
47309365 AGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGCA
1 AGTTATGTAAGTTATG--T-ATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGCA
* *** * *
47309430 AGTTATGT-ATAATATTAATTAATTA-AGTTATGTAATTTATGTATAATATTAATGTA
63 AGTTATGTAAT-ATATGAA-TAATTATAAAAATGTAAGTTATG--T-A-AGT--TGTA
* *
47309486 ACTTATGTAATTTATGTATATTAATTAATTAA
1 AGTTATGTAAGTTATGTATATTAATTAATTAA
47309518 ATGATATGTA
Statistics
Matches: 131, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
112 15 0.11
114 3 0.02
115 69 0.53
116 6 0.05
117 1 0.01
118 16 0.12
119 3 0.02
121 18 0.14
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.47
Consensus pattern (112 bp):
AGTTATGTAAGTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGCAAGT
TATGTAATATATGAATAATTATAAAAATGTAAGTTATGTAAGTTGTA
Found at i:47310337 original size:16 final size:16
Alignment explanation
Indices: 47310309--47310366 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
47310299 CCGATTTCTT
* *
47310309 CGACGGCAGAGGAGTG
1 CGACGGTAGAGGAATG
* *
47310325 CGATGGTAGAGGACTG
1 CGACGGTAGAGGAATG
* *
47310341 CGACGGTCGACGAATG
1 CGACGGTAGAGGAATG
47310357 CGACGGTAGA
1 CGACGGTAGA
47310367 TGATCGACGG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.43, T:0.12
Consensus pattern (16 bp):
CGACGGTAGAGGAATG
Found at i:47310346 original size:32 final size:30
Alignment explanation
Indices: 47310308--47310380 Score: 76
Period size: 32 Copynumber: 2.4 Consensus size: 30
47310298 ACCGATTTCT
* * *
47310308 TCGACGGCAGAGGAGTGCGATGGTAGAGGA
1 TCGACGGCAGACGAATGCGACGGTAGAGGA
*
47310338 CTGCGACGGTC-GACGAATGCGACGGTAGATGA
1 -T-CGACGG-CAGACGAATGCGACGGTAGAGGA
47310370 TCGACGGCAGA
1 TCGACGGCAGA
47310381 AGGGACGGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
29 1 0.03
30 8 0.23
31 2 0.06
32 23 0.66
33 1 0.03
ACGTcount: A:0.26, C:0.19, G:0.41, T:0.14
Consensus pattern (30 bp):
TCGACGGCAGACGAATGCGACGGTAGAGGA
Found at i:47310720 original size:83 final size:84
Alignment explanation
Indices: 47310613--47310772 Score: 254
Period size: 84 Copynumber: 1.9 Consensus size: 84
47310603 CCGTAAAGGC
*
47310613 AAAACGGCACCGATTTGTTTAAAAAACCTG-AAACTTTGCGGCG-TTTTCACCATAGCGCCACTA
1 AAAACGACACCGATTTGTTTAAAAAACCTGAAAACTTTGCGGCGCTTTT-ACCATAGCGCCACTA
*
47310676 ATGTCATTAATGTGCCAGGG
65 ATGCCATTAATGTGCCAGGG
47310696 AAAACGACACCG-TTTGGTTTAAAAAACCTGAAAACTTTGCGGCGCTTTTACCATAGCGCCACTA
1 AAAACGACACCGATTT-GTTTAAAAAACCTGAAAACTTTGCGGCGCTTTTACCATAGCGCCACTA
*
47310760 ATGCCCTTAATGT
65 ATGCCATTAATGT
47310773 AAACGACACC
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
82 3 0.04
83 25 0.35
84 39 0.55
85 4 0.06
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (84 bp):
AAAACGACACCGATTTGTTTAAAAAACCTGAAAACTTTGCGGCGCTTTTACCATAGCGCCACTAA
TGCCATTAATGTGCCAGGG
Found at i:47311219 original size:20 final size:20
Alignment explanation
Indices: 47311174--47311226 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
47311164 TAAAATTAAA
*
47311174 AATTTTAGAGTTTTTATATTT
1 AATTTT-GATTTTTTATATTT
*
47311195 CATTTTGATTTTTGTAT-TTT
1 AATTTTGATTTTT-TATATTT
*
47311215 AATTTTAATTTT
1 AATTTTGATTTT
47311227 AATTTTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 19 0.70
21 8 0.30
ACGTcount: A:0.25, C:0.02, G:0.08, T:0.66
Consensus pattern (20 bp):
AATTTTGATTTTTTATATTT
Found at i:47311692 original size:14 final size:15
Alignment explanation
Indices: 47311673--47311703 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
47311663 GACCAACCCT
47311673 TAATCCCT-AATCCA
1 TAATCCCTAAATCCA
47311687 TAATCCCTAAATCCA
1 TAATCCCTAAATCCA
47311702 TA
1 TA
47311704 TATATATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (15 bp):
TAATCCCTAAATCCA
Found at i:47312631 original size:114 final size:114
Alignment explanation
Indices: 47312449--47313137 Score: 962
Period size: 114 Copynumber: 6.2 Consensus size: 114
47312439 GCTTTAACAA
* * * * * *
47312449 AAACGCCGCTAAAAC-CTATATTATTCGCGACGCTAATCTAAAAACG-CATCTAAAGTCACCGAA
1 AAACGCCGCTAATACTC-ATATTATTAGCGGCGCTATTCAAAAAACGCCA-CTAATGTCACCGAA
*
47312512 GTGTCTCCAAACGACGTCATCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
64 GTGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
*
47312563 AAACGCAGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
* * * *
47312628 GTCTCCAGACGACGTCGTCTGGGCTTTAGTTTTTGCGGCGTTTTTATACA
66 GTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATA-G
* * **
47312678 AAACGCCGCTAATACTCATATTACTAGCGGCGCTACTCGGAAAACGCCACTAATGTCACCGAAGT
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
* * *
47312743 GTCTCCAAACGA---AGTC---------GTTTTT-CGGCGTTTTTGTAG
66 GTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
*
47312779 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATT-AGAAAAACGCCACTAAAGTCACCGAAG
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCA-AAAAACGCCACTAATGTCACCGAAG
* * *
47312843 TGTCTCCAAACGACGTTGTCTGAGGTTTAGTTTTTACGGCATTTTTATAG
65 TGTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
47312893 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
* *
47312958 GTCTCCAAACGACGTCGTCTGGGTTTTAGTTTTTGCGGCATTTTTACAG
66 GTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
* * *
47313007 AAACGCCGCTAGTACTCATATTATTAGCGGCGCTATTCGAAAAACGCCACTAATGTCACCGAAAT
1 AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
*
47313072 TTCTCCAAACGACGTCGTCT-GGGTTTAGTTTTTGCGGCATTTTTATAG
66 GTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
47313120 AAACGCCGCTAATACTCA
1 AAACGCCGCTAATACTCA
47313138 ATCGGTTGCG
Statistics
Matches: 515, Mismatches: 42, Indels: 37
0.87 0.07 0.06
Matches are distributed among these distances:
101 71 0.14
102 12 0.02
103 6 0.01
104 3 0.01
112 3 0.01
113 49 0.10
114 296 0.57
115 75 0.15
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (114 bp):
AAACGCCGCTAATACTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGT
GTCTCCAAACGACGTCGTCTGGGGTTTAGTTTTTGCGGCATTTTTATAG
Found at i:47313105 original size:330 final size:328
Alignment explanation
Indices: 47312449--47313089 Score: 1011
Period size: 330 Copynumber: 2.0 Consensus size: 328
47312439 GCTTTAACAA
* **
47312449 AAACGCCGCTAAAACCTATATTATTCGCGACGCTAATCTAAAAACGCATCTAAAGTCACCGAAGT
1 AAACGCCGCTAAAACCTATATTATTAGCGACGCTAATAGAAAAACGCATCTAAAGTCACCGAAGT
* *
47312514 GTCTCCAAACGACGTCATCTGGGGTTTAGTTTTTGCGGCATTTTTATAGAAACGCAGCTAATACT
66 GTCTCCAAACGACGTCATCTGAGGTTTAGTTTTTACGGCATTTTTATAGAAACGCAGCTAATACT
*
47312579 CATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGTGTCTCCAGACGACGTC
131 CATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTC
*
47312644 GTCTGGGCTTTAGTTTTTGCGGCGTTTTTATACAAAACGCCGCTAATACTCATATTACTAGCGGC
196 GTCTGGGCTTTAGTTTTTGCGGCGATTTTATACAAAACGCCGCTAATACTCATATTACTAGCGGC
* * *
47312709 GCTACTCGGAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGAAGTCGTTTTTCGGCGTTTT
261 GCTACTCGAAAAACGCCACTAATGTCACCGAAATGTCTCCAAACGAAGTCGTTTTT--GAGTTTT
47312774 TGTAG
324 TGTAG
* * *
47312779 AAACGCCGCTAATA-CTCATATTATTAGCGGCGCTATTAGAAAAACGCCA-CTAAAGTCACCGAA
1 AAACGCCGCTAAAACCT-ATATTATTAGCGACGCTAATAGAAAAACG-CATCTAAAGTCACCGAA
** *
47312842 GTGTCTCCAAACGACGTTGTCTGAGGTTTAGTTTTTACGGCATTTTTATAGAAACGCCGCTAATA
64 GTGTCTCCAAACGACGTCATCTGAGGTTTAGTTTTTACGGCATTTTTATAGAAACGCAGCTAATA
47312907 CTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACG
129 CTCATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACG
* * *
47312972 TCGTCTGGGTTTTAGTTTTTGCGGC-ATTTT-TACAGAAACGCCGCTAGTACTCATATTATTAGC
194 TCGTCTGGGCTTTAGTTTTTGCGGCGATTTTATACA-AAACGCCGCTAATACTCATATTACTAGC
* * *
47313035 GGCGCTATTCGAAAAACGCCACTAATGTCACCGAAATTTCTCCAAACGACGTCGT
258 GGCGCTACTCGAAAAACGCCACTAATGTCACCGAAATGTCTCCAAACGAAGTCGT
47313090 CTGGGTTTAG
Statistics
Matches: 287, Mismatches: 21, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
328 4 0.01
329 82 0.29
330 199 0.69
331 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (328 bp):
AAACGCCGCTAAAACCTATATTATTAGCGACGCTAATAGAAAAACGCATCTAAAGTCACCGAAGT
GTCTCCAAACGACGTCATCTGAGGTTTAGTTTTTACGGCATTTTTATAGAAACGCAGCTAATACT
CATATTATTAGCGGCGCTATTCAAAAAACGCCACTAATGTCACCGAAGTGTCTCCAAACGACGTC
GTCTGGGCTTTAGTTTTTGCGGCGATTTTATACAAAACGCCGCTAATACTCATATTACTAGCGGC
GCTACTCGAAAAACGCCACTAATGTCACCGAAATGTCTCCAAACGAAGTCGTTTTTGAGTTTTTG
TAG
Found at i:47313401 original size:3 final size:3
Alignment explanation
Indices: 47313393--47313427 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
47313383 AATGTATGGA
47313393 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
47313428 GTCAAGCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:47314320 original size:17 final size:20
Alignment explanation
Indices: 47314300--47314344 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 20
47314290 TAACTTATTT
47314300 AATTTTATTAAAAT-T-A-A
1 AATTTTATTAAAATGTGATA
47314317 AATTATTA-TAAAATGTGATA
1 AATT-TTATTAAAATGTGATA
47314337 AATTTTAT
1 AATTTTAT
47314345 AAATAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
19 4 0.17
20 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (20 bp):
AATTTTATTAAAATGTGATA
Found at i:47324594 original size:31 final size:33
Alignment explanation
Indices: 47324534--47324594 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 33
47324524 AAATAATTTA
* * *
47324534 ATTAATTTAATTTAATTAACTAATTTTTTGGTC
1 ATTAAATTAATTTAATTAAATAATATTTTGGTC
47324567 ATTAAATTAA-TT-ATTAAATAATATTTTG
1 ATTAAATTAATTTAATTAAATAATATTTTG
47324595 AGTACCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 14 0.56
32 2 0.08
33 9 0.36
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.52
Consensus pattern (33 bp):
ATTAAATTAATTTAATTAAATAATATTTTGGTC
Found at i:47333988 original size:16 final size:16
Alignment explanation
Indices: 47333967--47333997 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47333957 AGAGATTTGT
47333967 ATAGATTGATATATTG
1 ATAGATTGATATATTG
*
47333983 ATAGATTGATGTATT
1 ATAGATTGATATATT
47333998 TACTTTTTTA
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:0.00, G:0.19, T:0.45
Consensus pattern (16 bp):
ATAGATTGATATATTG
Found at i:47334137 original size:46 final size:47
Alignment explanation
Indices: 47334045--47334139 Score: 183
Period size: 46 Copynumber: 2.0 Consensus size: 47
47334035 TTACTTGTAA
47334045 GAATGCATTTGTGAGTATGGTTGATTTTTACAGGCTAAGTTCTAAGG
1 GAATGCATTTGTGAGTATGGTTGATTTTTACAGGCTAAGTTCTAAGG
47334092 GAATGCATTTGTGAGTATGGTTGA-TTTTACAGGCTAAGTTCTAAGG
1 GAATGCATTTGTGAGTATGGTTGATTTTTACAGGCTAAGTTCTAAGG
47334138 GA
1 GA
47334140 GAAATTTTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 24 0.50
47 24 0.50
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.37
Consensus pattern (47 bp):
GAATGCATTTGTGAGTATGGTTGATTTTTACAGGCTAAGTTCTAAGG
Found at i:47334540 original size:9 final size:9
Alignment explanation
Indices: 47334526--47334556 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
47334516 GTTAAACGAA
47334526 TCGAGTTAT
1 TCGAGTTAT
*
47334535 TCGAGTTAA
1 TCGAGTTAT
47334544 TCGAGTTAT
1 TCGAGTTAT
47334553 TCGA
1 TCGA
47334557 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:47334628 original size:9 final size:9
Alignment explanation
Indices: 47334609--47334645 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
47334599 TGAGTTTTCG
*
47334609 AATTTGAAT
1 AATTCGAAT
*
47334618 AACTCGAAT
1 AATTCGAAT
47334627 AATTCGAAT
1 AATTCGAAT
47334636 AATTCGAAT
1 AATTCGAAT
47334645 A
1 A
47334646 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:47335675 original size:5 final size:5
Alignment explanation
Indices: 47335665--47335690 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
47335655 CTCAAAAAAT
47335665 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
47335691 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:47338413 original size:21 final size:21
Alignment explanation
Indices: 47338363--47338413 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
47338353 GGAATTTTGA
47338363 AAGAGAGAAGTCAATAACAGT
1 AAGAGAGAAGTCAATAACAGT
*
47338384 AAGAAAGAAGTCAATAACAGT
1 AAGAGAGAAGTCAATAACAGT
47338405 GAA-AGAGAA
1 -AAGAGAGAA
47338414 AAGAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.57, C:0.08, G:0.24, T:0.12
Consensus pattern (21 bp):
AAGAGAGAAGTCAATAACAGT
Found at i:47339925 original size:21 final size:19
Alignment explanation
Indices: 47339901--47339951 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
47339891 TTTATTTAAA
47339901 TGAATTTAATTAATTTTCTAC
1 TGAATTTAATT--TTTTCTAC
*
47339922 TGAAATT-ATTTTTTCTAC
1 TGAATTTAATTTTTTCTAC
*
47339940 TCAATTCTAATT
1 TGAATT-TAATT
47339952 CCGTTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 12 0.48
19 1 0.04
20 6 0.24
21 6 0.24
ACGTcount: A:0.31, C:0.12, G:0.04, T:0.53
Consensus pattern (19 bp):
TGAATTTAATTTTTTCTAC
Found at i:47341414 original size:46 final size:46
Alignment explanation
Indices: 47341364--47341499 Score: 166
Period size: 46 Copynumber: 3.0 Consensus size: 46
47341354 GCTTCCTAGC
** *
47341364 TTCCAAGCTTTTGCATATGTTGTGGACTCGAGAATGCA-AGAATAGG
1 TTCCAAGCTCCTGCATATGTTGTGGACTCGAGAATACATA-AATAGG
* * **
47341410 TTCCAAACTCCTGCATATGTTGCGGACTCGAGAATACATATTTAGG
1 TTCCAAGCTCCTGCATATGTTGTGGACTCGAGAATACATAAATAGG
* * *
47341456 TTCCGAGCTCCTACATATGTTGTGGACTCGAGAATACAGAAATA
1 TTCCAAGCTCCTGCATATGTTGTGGACTCGAGAATACATAAATA
47341500 TTAAGCCCTG
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
46 74 0.99
47 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (46 bp):
TTCCAAGCTCCTGCATATGTTGTGGACTCGAGAATACATAAATAGG
Found at i:47347776 original size:19 final size:19
Alignment explanation
Indices: 47347746--47347800 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
47347736 TATATATATT
47347746 TTTTGAAATTTTTATAAATA
1 TTTTG-AATTTTTATAAATA
* *
47347766 TTTTGAATTTTAAAAAATA
1 TTTTGAATTTTTATAAATA
47347785 TTTTGAATTTTT-TAAA
1 TTTTGAATTTTTATAAA
47347801 ATTAATTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 3 0.10
19 23 0.74
20 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTTGAATTTTTATAAATA
Found at i:47347809 original size:20 final size:19
Alignment explanation
Indices: 47347746--47347813 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 19
47347736 TATATATATT
*
47347746 TTTTGAAATTTTTATAAATA
1 TTTTGAATTTTTTA-AAATA
**
47347766 TTTTGAATTTTAAAAAATA
1 TTTTGAATTTTTTAAAATA
47347785 TTTTGAATTTTTTAAAATTA
1 TTTTGAATTTTTTAAAA-TA
*
47347805 ATTTGAATT
1 TTTTGAATT
47347814 ATATTATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 20 0.49
20 21 0.51
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (19 bp):
TTTTGAATTTTTTAAAATA
Found at i:47347828 original size:39 final size:39
Alignment explanation
Indices: 47347733--47347828 Score: 97
Period size: 39 Copynumber: 2.4 Consensus size: 39
47347723 TTAACTTTCT
* *
47347733 TTATATATATATTTTTTGAAATTTTTATAAATATTTTGAA
1 TTATAT-TATAATTTTTGAAATTTTTATAAATAATTTGAA
* * * *
47347773 TTTTA-AAAAATATTTTGAATTTTTTA-AAATTAATTTGAA
1 TTATATTATAAT-TTTTGAAATTTTTATAAA-TAATTTGAA
47347812 TTATATTATAATTTTTG
1 TTATATTATAATTTTTG
47347829 TTGAGAGTGA
Statistics
Matches: 44, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
38 6 0.14
39 30 0.68
40 8 0.18
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (39 bp):
TTATATTATAATTTTTGAAATTTTTATAAATAATTTGAA
Found at i:47350488 original size:21 final size:24
Alignment explanation
Indices: 47350433--47350496 Score: 119
Period size: 24 Copynumber: 2.7 Consensus size: 24
47350423 GGTGATCAAC
*
47350433 AACAGCAGGAGCTGCAATATGAGG
1 AACAGCAGCAGCTGCAATATGAGG
47350457 AACAGCAGCAGCTGCAATATGAGG
1 AACAGCAGCAGCTGCAATATGAGG
47350481 AACAGCAGCAGCTGCA
1 AACAGCAGCAGCTGCA
47350497 TCAGCAACAG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.38, C:0.22, G:0.30, T:0.11
Consensus pattern (24 bp):
AACAGCAGCAGCTGCAATATGAGG
Found at i:47353233 original size:53 final size:52
Alignment explanation
Indices: 47353140--47353244 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 52
47353130 TATTGTAGCG
* *
47353140 TAAGATAAAAAGTAAGCTAAAGCACGCACCGCACTCAATTGGCCATCCAAAC
1 TAAGACAAAAAGTAAGCTAAAGCACGCACCGCACTCAATTGCCCATCCAAAC
47353192 TAAGACAAAAAGTAAGCTAAATGCACGCACCGCACTCAATTGCCCATCCAAAC
1 TAAGACAAAAAGTAAGCTAAA-GCACGCACCGCACTCAATTGCCCATCCAAAC
47353245 CCACCCTTAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 20 0.40
53 30 0.60
ACGTcount: A:0.42, C:0.29, G:0.14, T:0.15
Consensus pattern (52 bp):
TAAGACAAAAAGTAAGCTAAAGCACGCACCGCACTCAATTGCCCATCCAAAC
Found at i:47353695 original size:3 final size:3
Alignment explanation
Indices: 47353687--47353731 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
47353677 ACAAGCGGGG
*
47353687 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GTA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
47353732 ACCTTGGAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:47354903 original size:22 final size:24
Alignment explanation
Indices: 47354878--47354923 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
47354868 ATTTTTCATA
47354878 CTTTT-TTTTT-AAGATTT-TATTT
1 CTTTTATTTTTCAA-ATTTATATTT
47354900 CTTTTATTTTTCAAATTTATATTT
1 CTTTTATTTTTCAAATTTATATTT
47354924 TTAAATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 5 0.24
23 9 0.43
24 7 0.33
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.70
Consensus pattern (24 bp):
CTTTTATTTTTCAAATTTATATTT
Found at i:47361972 original size:46 final size:46
Alignment explanation
Indices: 47361920--47362086 Score: 268
Period size: 46 Copynumber: 3.7 Consensus size: 46
47361910 TAAGTGTTAT
*
47361920 ACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTAC
1 ACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTAC
* *
47361966 ACTTATCTGATCCAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTAC
1 ACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTAC
*
47362012 TCTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTAC
1 ACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTAC
*
47362057 ACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 ACTTATCTGATCAAGTGACAAAGTGATAAGTG
47362087 ATCATATGTA
Statistics
Matches: 113, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
43 12 0.11
44 5 0.04
45 18 0.16
46 78 0.69
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (46 bp):
ACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTAC
Found at i:47363120 original size:74 final size:74
Alignment explanation
Indices: 47363042--47363199 Score: 167
Period size: 74 Copynumber: 2.1 Consensus size: 74
47363032 GTCATAATTA
* * * *
47363042 GGAAGCTCATGCGAGCTAATAACGGGTAGCTCCGAAGAGCCATTAATCA-GAAAGCTC-TGGATA
1 GGAAGCTCATGCGAGC-AATAACGGGAAGCTCCGAAGAGCCATTAATCAGGAAA-CTCACGAAGA
47363105 GCCATATATCG
64 GCCATATATCG
* * * * * ** *
47363116 GGAAGTTTAAGTGAGCCATATTGGGAAGCTCCGGAGAGCCATTAATCAGGAAACTCACGAAGAGC
1 GGAAGCTCATGCGAGCAATAACGGGAAGCTCCGAAGAGCCATTAATCAGGAAACTCACGAAGAGC
47363181 CATATATCG
66 CATATATCG
*
47363190 GGACGCTCAT
1 GGAAGCTCAT
47363200 AAGAGTTGCG
Statistics
Matches: 66, Mismatches: 16, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
73 30 0.45
74 36 0.55
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (74 bp):
GGAAGCTCATGCGAGCAATAACGGGAAGCTCCGAAGAGCCATTAATCAGGAAACTCACGAAGAGC
CATATATCG
Found at i:47363198 original size:26 final size:26
Alignment explanation
Indices: 47363104--47363198 Score: 74
Period size: 26 Copynumber: 3.8 Consensus size: 26
47363094 AGCTCTGGAT
* * * *
47363104 AGCCATATATCGGGAAGTTTAAG-TG
1 AGCCATATATCGGGAAGCTCACGAAG
*
47363129 AGCCATAT-T-GGGAAGCTC-CGGAG
1 AGCCATATATCGGGAAGCTCACGAAG
* *
47363152 AGCCAT-TAATCAGGAAACTCACGAAG
1 AGCCATAT-ATCGGGAAGCTCACGAAG
*
47363178 AGCCATATATCGGGACGCTCA
1 AGCCATATATCGGGAAGCTCA
47363199 TAAGAGTTGC
Statistics
Matches: 54, Mismatches: 10, Indels: 11
0.72 0.13 0.15
Matches are distributed among these distances:
22 2 0.04
23 14 0.26
24 2 0.04
25 15 0.28
26 20 0.37
27 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (26 bp):
AGCCATATATCGGGAAGCTCACGAAG
Found at i:47365538 original size:35 final size:35
Alignment explanation
Indices: 47365492--47365561 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
47365482 TCATGAAGTT
47365492 GTAACAGTGCGACTTCGTGCTTCACCTTGTCGCAA
1 GTAACAGTGCGACTTCGTGCTTCACCTTGTCGCAA
47365527 GTAACAGTGCGACTTCGTGCTTCACCTTGTCGCAA
1 GTAACAGTGCGACTTCGTGCTTCACCTTGTCGCAA
47365562 CCTCATTAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.29
Consensus pattern (35 bp):
GTAACAGTGCGACTTCGTGCTTCACCTTGTCGCAA
Found at i:47369210 original size:23 final size:23
Alignment explanation
Indices: 47369184--47369227 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
47369174 ACAAAATCCT
47369184 GATGAAACTATTATACCAAATGA
1 GATGAAACTATTATACCAAATGA
47369207 GATGAAACTATTATACCAAAT
1 GATGAAACTATTATACCAAAT
47369228 TAAGTTTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.11, T:0.27
Consensus pattern (23 bp):
GATGAAACTATTATACCAAATGA
Found at i:47373826 original size:16 final size:18
Alignment explanation
Indices: 47373807--47373847 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
47373797 TGTATGTATA
47373807 TAATATTTATTA-AA-AT
1 TAATATTTATTATAATAT
*
47373823 TAATAATTATTATAATAT
1 TAATATTTATTATAATAT
47373841 TAATATT
1 TAATATT
47373848 AAAATTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 11 0.52
17 2 0.10
18 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATATTTATTATAATAT
Found at i:47373848 original size:24 final size:22
Alignment explanation
Indices: 47373814--47373870 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
47373804 ATATAATATT
*
47373814 TATTAAAATTAATAATTATTATAA
1 TATTAAAATTAA-AATT-TAATAA
*
47373838 TATTAATATTAAAATTTAATAA
1 TATTAAAATTAAAATTTAATAA
47373860 TAATATAAAAT
1 T-AT-TAAAAT
47373871 ATATAATGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 6 0.21
23 6 0.21
24 16 0.57
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TATTAAAATTAAAATTTAATAA
Found at i:47373863 original size:19 final size:18
Alignment explanation
Indices: 47373835--47373870 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
47373825 ATAATTATTA
*
47373835 TAATATTAATATTAAAATT
1 TAATAATAATA-TAAAATT
47373854 TAATAATAATATAAAAT
1 TAATAATAATATAAAAT
47373871 ATATAATGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAATAATATAAAATT
Found at i:47373867 original size:30 final size:28
Alignment explanation
Indices: 47373804--47373867 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 28
47373794 TTCTGTATGT
47373804 ATATAATATTTATTAAAATTAATAATTA
1 ATATAATATTTATTAAAATTAATAATTA
*
47373832 TTATAATATTAATATTAAAATTTAATAA-TA
1 ATATAATATT--TATTAAAA-TTAATAATTA
47373862 ATATAA
1 ATATAA
47373868 AATATATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 9 0.29
30 15 0.48
31 7 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
ATATAATATTTATTAAAATTAATAATTA
Found at i:47375011 original size:16 final size:16
Alignment explanation
Indices: 47374982--47375018 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
47374972 TTTATGTTCG
*
47374982 AAATT-AAAATATTTA
1 AAATTAAAAAAATTTA
47374997 AAATTAAAAAAATTTA
1 AAATTAAAAAAATTTA
47375013 AAATTA
1 AAATTA
47375019 TTTGAATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATTAAAAAAATTTA
Found at i:47376495 original size:38 final size:39
Alignment explanation
Indices: 47376422--47376498 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
47376412 GACCTAACTA
47376422 ATATTCCTATTTCAGACTATGAAAAAACCATAAACGATT
1 ATATTCCTATTTCAGACTATGAAAAAACCATAAACGATT
47376461 ATATTCCTATTTCAGACTATG-AAAAACCATAAACGATT
1 ATATTCCTATTTCAGACTATGAAAAAACCATAAACGATT
47376499 GGGCACAGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
38 17 0.45
39 21 0.55
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (39 bp):
ATATTCCTATTTCAGACTATGAAAAAACCATAAACGATT
Found at i:47380792 original size:12 final size:12
Alignment explanation
Indices: 47380775--47380800 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47380765 TCGAAAAATA
47380775 CTTAGCTTTCTT
1 CTTAGCTTTCTT
47380787 CTTAGCTTTCTT
1 CTTAGCTTTCTT
47380799 CT
1 CT
47380801 CTTTTGCTAA
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:0.08, C:0.27, G:0.08, T:0.58
Consensus pattern (12 bp):
CTTAGCTTTCTT
Found at i:47385391 original size:10 final size:11
Alignment explanation
Indices: 47385366--47385390 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47385356 TTAATTTTAA
47385366 TTTTAAATATT
1 TTTTAAATATT
47385377 TTTTAAATATT
1 TTTTAAATATT
47385388 TTT
1 TTT
47385391 ATTTTTTTTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTAAATATT
Found at i:47392844 original size:30 final size:30
Alignment explanation
Indices: 47392798--47392921 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
47392788 TTTTATTATG
*
47392798 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
47392829 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
47392859 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
47392889 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
47392919 CCA
1 CCA
47392922 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:47392853 original size:15 final size:15
Alignment explanation
Indices: 47392808--47392915 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
47392798 CCAATATCTC
47392808 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
47392823 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
47392838 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
47392853 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
47392868 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
47392883 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
47392898 GATACCCATATCTTT
1 GATACCCATATCTTT
47392913 GAT
1 GAT
47392916 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:47394725 original size:5 final size:5
Alignment explanation
Indices: 47394715--47394749 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
47394705 TTATGTTCAC
47394715 GGGAA GGGAA GGGAA GGGAA GGGAA GGG-A GGGAA G
1 GGGAA GGGAA GGGAA GGGAA GGGAA GGGAA GGGAA G
47394750 AATACAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (5 bp):
GGGAA
Found at i:47396051 original size:5 final size:5
Alignment explanation
Indices: 47396041--47396065 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
47396031 ATCCATCCAA
47396041 ACCCC ACCCC ACCCC ACCCC ACCCC
1 ACCCC ACCCC ACCCC ACCCC ACCCC
47396066 CCACACACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.80, G:0.00, T:0.00
Consensus pattern (5 bp):
ACCCC
Found at i:47420668 original size:31 final size:31
Alignment explanation
Indices: 47420629--47420708 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
47420619 TTATTGTAAG
*
47420629 GCATGGAAATTGAAGCAATAA-GGAGGTATAA
1 GCATGGAAATTGAAGCAATAACGG-GGAATAA
*
47420660 TCATGGAAATTGAAGCAATAACGGGGAATAA
1 GCATGGAAATTGAAGCAATAACGGGGAATAA
*
47420691 GCATAGAAATTGAAGCAA
1 GCATGGAAATTGAAGCAA
47420709 CTGAAAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 42 0.95
32 2 0.05
ACGTcount: A:0.46, C:0.09, G:0.26, T:0.19
Consensus pattern (31 bp):
GCATGGAAATTGAAGCAATAACGGGGAATAA
Found at i:47423044 original size:6 final size:6
Alignment explanation
Indices: 47422946--47423043 Score: 72
Period size: 6 Copynumber: 15.8 Consensus size: 6
47422936 TCGGCGTCGG
* * * * **
47422946 CTTCGT CTTCGT CTTCGT CTTCTT CTTCAT CATCCTCAT CTTCAT CCCCAT
1 CTTCAT CTTCAT CTTCAT CTTCAT CTTCAT C-T--TCAT CTTCAT CTTCAT
* * *
47422997 CTCCAT CCTCAT CTTCA- CTTTCAT CTTCAT CTTCAT CTTCAG CTTCA
1 CTTCAT CTTCAT CTTCAT C-TTCAT CTTCAT CTTCAT CTTCAT CTTCA
47423044 GGCTCAGTCT
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
5 1 0.01
6 69 0.88
7 2 0.03
8 1 0.01
9 5 0.06
ACGTcount: A:0.13, C:0.39, G:0.04, T:0.44
Consensus pattern (6 bp):
CTTCAT
Found at i:47428709 original size:9 final size:10
Alignment explanation
Indices: 47428694--47428720 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
47428684 AATCCCACAA
47428694 AAAAAAAGTG
1 AAAAAAAGTG
47428704 AAAAAAAGTG
1 AAAAAAAGTG
47428714 AAAAAAA
1 AAAAAAA
47428721 ACCTAGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (10 bp):
AAAAAAAGTG
Found at i:47429516 original size:28 final size:29
Alignment explanation
Indices: 47429471--47429527 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
47429461 AATTCAATAG
*
47429471 TTTTTATAACTTTTTAT-AATATTTTAAA
1 TTTTTATAACTTTGTATAAATATTTTAAA
**
47429499 TTTTTATATGTTTGTATAAAATATTTTAA
1 TTTTTATAACTTTGTAT-AAATATTTTAA
47429528 TAATATTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 14 0.58
30 10 0.42
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (29 bp):
TTTTTATAACTTTGTATAAATATTTTAAA
Found at i:47429580 original size:9 final size:9
Alignment explanation
Indices: 47429471--47429609 Score: 63
Period size: 9 Copynumber: 14.8 Consensus size: 9
47429461 AATTCAATAG
47429471 TTTTTATAA
1 TTTTTATAA
47429480 CTTTTTATAA
1 -TTTTTATAA
47429490 TATTTTA-AA
1 T-TTTTATAA
47429499 TTTTTAT-A
1 TTTTTATAA
47429507 TGTTTGTATAAAA
1 T-TTT-TAT--AA
47429520 TATTTTAATAA
1 T-TTTT-ATAA
* *
47429531 TATTTATGA
1 TTTTTATAA
47429540 TTGTTTAT-A
1 TT-TTTATAA
*
47429549 TCTTTTACAA
1 T-TTTTATAA
* *
47429559 TCTCTTATGA
1 T-TTTTATAA
47429569 TTTTTATAA
1 TTTTTATAA
47429578 TTTTT-TAA
1 TTTTTATAA
***
47429586 -AAATATAA
1 TTTTTATAA
*
47429594 TTTTCATAA
1 TTTTTATAA
47429603 TTTTTAT
1 TTTTTAT
47429610 GACCTTTATA
Statistics
Matches: 98, Mismatches: 18, Indels: 27
0.69 0.13 0.19
Matches are distributed among these distances:
7 1 0.01
8 13 0.13
9 38 0.39
10 35 0.36
11 3 0.03
12 1 0.01
13 7 0.07
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (9 bp):
TTTTTATAA
Done.