Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 316 of 322
Found at i:104749751 original size:12 final size:12
Alignment explanation
Indices: 104749735--104749863 Score: 50
Period size: 12 Copynumber: 10.7 Consensus size: 12
104749725 AAAATATAAC
104749735 ATATAATAAAAT
1 ATATAATAAAAT
* *
104749747 TTATAAATGAAAT
1 ATAT-AATAAAAT
*
104749760 ATATAATAATAT
1 ATATAATAAAAT
* * * **
104749772 AAACAGTATGAT
1 ATATAATAAAAT
104749784 A-AGTAAT-AAAT
1 ATA-TAATAAAAT
*
104749795 A-A-AATAATAT
1 ATATAATAAAAT
104749805 ATATAATAAAAT
1 ATATAATAAAAT
* *
104749817 ATAGGTAACATAAT
1 ATA--TAATAAAAT
**
104749831 ATATAATAATTT
1 ATATAATAAAAT
*
104749843 ATAATAATATAAT
1 AT-ATAATAAAAT
*
104749856 AAATAATA
1 ATATAATA
104749864 TACAAAAAAA
Statistics
Matches: 83, Mismatches: 26, Indels: 16
0.66 0.21 0.13
Matches are distributed among these distances:
9 3 0.04
10 4 0.05
11 6 0.07
12 42 0.51
13 18 0.22
14 10 0.12
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.34
Consensus pattern (12 bp):
ATATAATAAAAT
Found at i:104749864 original size:12 final size:12
Alignment explanation
Indices: 104749782--104749865 Score: 52
Period size: 14 Copynumber: 7.0 Consensus size: 12
104749772 AAACAGTATG
*
104749782 ATAAGTAATA-A
1 ATAAATAATATA
104749793 ATAAAATAATATA
1 AT-AAATAATATA
*
104749806 TATAATAAAATATA
1 -ATAA-ATAATATA
*
104749820 GGTAACATAATAT-
1 -ATAA-ATAATATA
*
104749833 AT-AATAAT-TT
1 ATAAATAATATA
104749843 AT-AATAATATA
1 ATAAATAATATA
104749854 ATAAATAATATA
1 ATAAATAATATA
104749866 CAAAAAAATA
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
9 1 0.02
10 13 0.22
11 6 0.10
12 17 0.29
13 3 0.05
14 18 0.31
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.35
Consensus pattern (12 bp):
ATAAATAATATA
Found at i:104753179 original size:21 final size:21
Alignment explanation
Indices: 104753153--104753193 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
104753143 TTGCCTTAGG
104753153 AATCCTAAAGGATTTCTTTTA
1 AATCCTAAAGGATTTCTTTTA
104753174 AATCCTAAAGGATTTCTTTT
1 AATCCTAAAGGATTTCTTTT
104753194 CTTCCTATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.44
Consensus pattern (21 bp):
AATCCTAAAGGATTTCTTTTA
Found at i:104763635 original size:25 final size:25
Alignment explanation
Indices: 104763607--104763654 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
104763597 AAATTTCAAT
104763607 TTTATTTG-ATTATTTAAT-TTTTAAA
1 TTTA-TTGAATTA-TTAATATTTTAAA
104763632 TTTATTGAATTATTAATATTTTA
1 TTTATTGAATTATTAATATTTTA
104763655 TACTAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (25 bp):
TTTATTGAATTATTAATATTTTAAA
Found at i:104767024 original size:40 final size:40
Alignment explanation
Indices: 104766842--104767064 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
104766832 TCCTCGTTCA
* * * * *
104766842 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
104766881 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
104766921 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
104766961 AATGCCTTCGGGACTTAACCCGGATTTAATATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
104767001 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
104767041 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
104767065 CAGCATTCAA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 37 0.23
40 116 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:104767073 original size:41 final size:41
Alignment explanation
Indices: 104766996--104767073 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
104766986 TTAATATCTC
* * *
104766996 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
104767037 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
104767074 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:104774852 original size:40 final size:40
Alignment explanation
Indices: 104774754--104775016 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
104774744 TCCTCGTTCA
* * * * *
104774754 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
104774793 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
104774833 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
104774873 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
104774913 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
104774953 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
104774993 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
104775017 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:104780707 original size:16 final size:16
Alignment explanation
Indices: 104780686--104780734 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
104780676 GAATCGACAG
104780686 AAGTCGAAATGTCAAA
1 AAGTCGAAATGTCAAA
104780702 AAGTCGAAATGTCAAA
1 AAGTCGAAATGTCAAA
* *
104780718 AAGTTGAAAAGTCAAA
1 AAGTCGAAATGTCAAA
104780734 A
1 A
104780735 TGCCGAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.53, C:0.10, G:0.18, T:0.18
Consensus pattern (16 bp):
AAGTCGAAATGTCAAA
Found at i:104780727 original size:24 final size:24
Alignment explanation
Indices: 104780700--104780750 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
104780690 CGAAATGTCA
* * *
104780700 AAAAGTCGAAATGTCAAAAAGTTG
1 AAAAGTCAAAATGCCAAAAAGTCG
*
104780724 AAAAGTCAAAATGCCGAAAAGTCG
1 AAAAGTCAAAATGCCAAAAAGTCG
104780748 AAA
1 AAA
104780751 GTTGGGCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.53, C:0.12, G:0.20, T:0.16
Consensus pattern (24 bp):
AAAAGTCAAAATGCCAAAAAGTCG
Found at i:104780742 original size:16 final size:16
Alignment explanation
Indices: 104780686--104780746 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
104780676 GAATCGACAG
*
104780686 AAGTCGAAATGTCAAA
1 AAGTCGAAAAGTCAAA
*
104780702 AAGTCGAAATGTCAAA
1 AAGTCGAAAAGTCAAA
*
104780718 AAGTTGAAAAGTCAAA
1 AAGTCGAAAAGTCAAA
* *
104780734 ATGCCGAAAAGTC
1 AAGTCGAAAAGTC
104780747 GAAAGTTGGG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.49, C:0.13, G:0.20, T:0.18
Consensus pattern (16 bp):
AAGTCGAAAAGTCAAA
Found at i:104781016 original size:29 final size:28
Alignment explanation
Indices: 104780961--104781075 Score: 122
Period size: 29 Copynumber: 4.0 Consensus size: 28
104780951 ATGAGCATGA
* *
104780961 ATATGAATGTGACTGGGCCTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
* *
104780989 ATATAAATGTGATTTGCGCCTAATGGGCT
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
104781018 ATATACAGGTGACTTGGGCCTAATAGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * *
104781047 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
104781075 A
1 A
104781076 AATATAGGTA
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
28 26 0.37
29 44 0.63
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:104785056 original size:24 final size:25
Alignment explanation
Indices: 104785023--104785074 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
104785013 ATGAATCGGC
*
104785023 AAAAGCCGAAATG-CGAAAAAGTGG
1 AAAAGCCGAAATGTCGAAAAAGTCG
*
104785047 AAAAGTCGAAATGTCGAAAAAGTCG
1 AAAAGCCGAAATGTCGAAAAAGTCG
104785072 AAA
1 AAA
104785075 GTTGGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.52, C:0.12, G:0.25, T:0.12
Consensus pattern (25 bp):
AAAAGCCGAAATGTCGAAAAAGTCG
Found at i:104785214 original size:17 final size:17
Alignment explanation
Indices: 104785192--104785226 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
104785182 TATGGGCTGA
104785192 AATGGGCTAATGGGCCC
1 AATGGGCTAATGGGCCC
**
104785209 AATGGGCTGTTGGGCCC
1 AATGGGCTAATGGGCCC
104785226 A
1 A
104785227 TATCAGGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.23, G:0.37, T:0.20
Consensus pattern (17 bp):
AATGGGCTAATGGGCCC
Found at i:104785365 original size:28 final size:28
Alignment explanation
Indices: 104785284--104785369 Score: 127
Period size: 28 Copynumber: 3.0 Consensus size: 28
104785274 ATGAGCATGA
* *
104785284 ATATGAATGTGACTGGGCTTAACGGGCC
1 ATATGAATGTGATTGGGCTTAATGGGCC
*
104785312 ATATAAATGTGATTTGGGCTTAATGGGCC
1 ATATGAATGTGA-TTGGGCTTAATGGGCC
*
104785341 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCTTAATGGGCC
104785369 A
1 A
104785370 GATACAGGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
28 28 0.54
29 24 0.46
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCTTAATGGGCC
Found at i:104789320 original size:35 final size:34
Alignment explanation
Indices: 104789262--104789328 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 34
104789252 ACGATTAATA
* *
104789262 TATATGTATAAAACATACTATATGATATAATAACT
1 TATATGTATAAAACATAATATATG-TAAAATAACT
*
104789297 TATATTTATAAAA-ATAATAATATGTAAAATAA
1 TATATGTATAAAACATAAT-ATATGTAAAATAA
104789329 GAACAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 11 0.39
35 17 0.61
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.37
Consensus pattern (34 bp):
TATATGTATAAAACATAATATATGTAAAATAACT
Found at i:104789464 original size:15 final size:15
Alignment explanation
Indices: 104789440--104789476 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
104789430 TTATATGTAC
104789440 TAAT-AAATAATAAA
1 TAATAAAATAATAAA
*
104789454 TAATAAAATAATATA
1 TAATAAAATAATAAA
104789469 TAA-AAAAT
1 TAATAAAAT
104789477 GAAGATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TAATAAAATAATAAA
Found at i:104789544 original size:23 final size:22
Alignment explanation
Indices: 104789492--104789583 Score: 70
Period size: 23 Copynumber: 4.3 Consensus size: 22
104789482 TAATATAGGG
*
104789492 AATAATATATAATAAAA-TAT-
1 AATAAAATATAATAAAACTATA
**
104789512 -ATAATTTATAATAAAAGCTATA
1 AATAAAATATAATAAAA-CTATA
104789534 AATAAAATAT-ATAAAA-TATA
1 AATAAAATATAATAAAACTATA
* *
104789554 AATAACATGATAAATAATAC-ATA
1 AATAAAAT-AT-AATAAAACTATA
104789577 AATAAAA
1 AATAAAA
104789584 ATTATTATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
19 15 0.26
20 11 0.19
21 5 0.09
22 6 0.10
23 21 0.36
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.30
Consensus pattern (22 bp):
AATAAAATATAATAAAACTATA
Found at i:104789547 original size:9 final size:10
Alignment explanation
Indices: 104789492--104789554 Score: 58
Period size: 9 Copynumber: 6.2 Consensus size: 10
104789482 TAATATAGGG
*
104789492 AATAATATAT
1 AATAAAATAT
104789502 AATAAAATAT
1 AATAAAATAT
**
104789512 -ATAATTTAT
1 AATAAAATAT
104789521 AATAAAAGCTAT
1 AATAAAA--TAT
104789533 AAATAAAATAT
1 -AATAAAATAT
104789544 -ATAAAATAT
1 AATAAAATAT
104789553 AA
1 AA
104789555 ATAACATGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
9 16 0.37
10 14 0.33
11 3 0.07
12 3 0.07
13 7 0.16
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (10 bp):
AATAAAATAT
Found at i:104789633 original size:19 final size:19
Alignment explanation
Indices: 104789611--104789648 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
104789601 TTTTACATGT
*
104789611 ATAAATAATATTTATAAAA
1 ATAAATAATATATATAAAA
104789630 ATAAATAATATATATAAAA
1 ATAAATAATATATATAAAA
104789649 TATTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAAATAATATATATAAAA
Found at i:104789666 original size:31 final size:28
Alignment explanation
Indices: 104789617--104789677 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
104789607 ATGTATAAAT
*
104789617 AATATTTATAAAAATAAATAATATATATAA
1 AATATTTAAAAAAATAAAT--TATATATAA
104789647 AATATTTAAAATAAATAAATTATATATAA
1 AATATTTAAAA-AAATAAATTATATATAA
104789676 AA
1 AA
104789678 GGATTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 11 0.38
30 10 0.34
31 8 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
AATATTTAAAAAAATAAATTATATATAA
Found at i:104789684 original size:29 final size:27
Alignment explanation
Indices: 104789627--104789687 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 27
104789617 AATATTTATA
*
104789627 AAAATAAATAATATATATAAAATATTT
1 AAAATAAATAATATATATAAAAGATTT
104789654 AAAATAAATAAATTATATATAAAAGGA-TT
1 AAAATAAAT-AA-TATATATAAAA-GATTT
104789683 AAAAT
1 AAAAT
104789688 TGAATTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 9 0.30
28 2 0.07
29 18 0.60
30 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (27 bp):
AAAATAAATAATATATATAAAAGATTT
Found at i:104796120 original size:40 final size:40
Alignment explanation
Indices: 104796023--104796147 Score: 128
Period size: 40 Copynumber: 3.1 Consensus size: 40
104796013 TTGAATGATG
* * * *
104796023 TCCGGGCTAAGTCCCGAAGGC-TTTTTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
104796063 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* * ** *
104796103 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGTTGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
104796143 TCCGG
1 TCCGG
104796148 TTAAATTCCG
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
39 1 0.01
40 62 0.89
41 7 0.10
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:104809599 original size:28 final size:28
Alignment explanation
Indices: 104809566--104809665 Score: 139
Period size: 28 Copynumber: 3.5 Consensus size: 28
104809556 TATAGTAAGT
* * *
104809566 CCGCACACTTAGTGTTATATAA-TCGAA
1 CCGCACACTTAGTGCTATACAACTTGAA
104809593 CTCGCACACTTAGTGCTATACAACTTGAA
1 C-CGCACACTTAGTGCTATACAACTTGAA
*
104809622 CCGCACACTTAGTGCTATACAATTTGAA
1 CCGCACACTTAGTGCTATACAACTTGAA
104809650 CCCGCACACTTAGTGC
1 -CCGCACACTTAGTGC
104809666 CAATTTCCTG
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
27 1 0.02
28 45 0.68
29 20 0.30
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAACTTGAA
Found at i:104824478 original size:27 final size:27
Alignment explanation
Indices: 104824448--104824510 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
104824438 ACAAAGTTAT
104824448 TGAAATACCCCTATAGGGTAGAATTAC
1 TGAAATACCCCTATAGGGTAGAATTAC
*
104824475 TGAAATACCCCTGTAGGGTAGAATTAC
1 TGAAATACCCCTATAGGGTAGAATTAC
104824502 TG-AATACCC
1 TGAAATACCC
104824511 TTGTGGGCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 7 0.20
27 28 0.80
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (27 bp):
TGAAATACCCCTATAGGGTAGAATTAC
Found at i:104824525 original size:26 final size:27
Alignment explanation
Indices: 104824448--104824527 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
104824438 ACAAAGTTAT
* *
104824448 TGAAATACCCCTATAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAAAATTAC
*
104824475 TGAAATACCCCTGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAAAATTAC
*
104824502 TG-AATACCCTTGT-GGGCTAAAATTAC
1 TGAAATACCCCTGTAGGG-TAAAATTAC
104824528 CATTTTGCCC
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
25 3 0.06
26 18 0.37
27 28 0.57
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (27 bp):
TGAAATACCCCTGTAGGGTAAAATTAC
Found at i:104824957 original size:22 final size:22
Alignment explanation
Indices: 104824932--104824980 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
104824922 ATGGTTTTGC
104824932 GCCAACCTACA-TATGGCTCTGT
1 GCCAACCTA-ATTATGGCTCTGT
*
104824954 GCCAACCTAATTATGGCTGTGT
1 GCCAACCTAATTATGGCTCTGT
104824976 GCCAA
1 GCCAA
104824981 ACGTATTTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (22 bp):
GCCAACCTAATTATGGCTCTGT
Found at i:104825227 original size:53 final size:53
Alignment explanation
Indices: 104825139--104825245 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 53
104825129 ATTTTGTTAA
* *
104825139 GTGGCTTTGCCACATTATCTGTTTCTGGTGGCTCTGCCACAAATATCTGTTCTG
1 GTGGCTTTGCCACATTATCTGTATCTGGTGACTCTGCCAC-AATATCTGTTCTG
*
104825193 GTGGCTTTGCCACA-TATCTGTATCTGGTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTTTGCCACATTATCTGTATCTGGTGACTCTGCCACAATATCTGTTCTG
104825245 G
1 G
104825246 CAGCCATGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
52 14 0.28
53 22 0.44
54 14 0.28
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (53 bp):
GTGGCTTTGCCACATTATCTGTATCTGGTGACTCTGCCACAATATCTGTTCTG
Found at i:104825232 original size:26 final size:26
Alignment explanation
Indices: 104825139--104825245 Score: 135
Period size: 27 Copynumber: 4.0 Consensus size: 26
104825129 ATTTTGTTAA
* *
104825139 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
104825166 GTGGCTCTGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
*
104825193 GTGGCTTTGCCAC-ATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
104825219 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
104825245 G
1 G
104825246 CAGCCATGTT
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
25 8 0.11
26 19 0.27
27 37 0.52
28 7 0.10
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:104825266 original size:53 final size:53
Alignment explanation
Indices: 104825143--104825266 Score: 128
Period size: 53 Copynumber: 2.3 Consensus size: 53
104825133 TGTTAAGTGG
* * * * *
104825143 CTTTGCCACATTATCTGTTTCTGGTGGCTCTGCCACAAATATCTGTTCTGGTGG
1 CTTTGCCA-AATATCTGTATCTGGTGACTCTGCCACAAATATCTGTTCTGGAGC
* *
104825197 CTTTGCCACATATCTGTATCTGGTGACTCTGTCAC-AATATCTGTTCTGGCAGC
1 CTTTGCCAAATATCTGTATCTGGTGACTCTGCCACAAATATCTGTTCTGG-AGC
104825250 CATGTTG-CAAAT-TCTGT
1 C-T-TTGCCAAATATCTGT
104825267 GGTGTGTAGT
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
52 14 0.24
53 29 0.49
54 13 0.22
55 3 0.05
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (53 bp):
CTTTGCCAAATATCTGTATCTGGTGACTCTGCCACAAATATCTGTTCTGGAGC
Found at i:104825372 original size:6 final size:6
Alignment explanation
Indices: 104825363--104825487 Score: 69
Period size: 6 Copynumber: 20.3 Consensus size: 6
104825353 TTGTATTCAC
* * * * *
104825363 ATTCTG ATTCTG ATTATG -TTACCTG ATACTG ATTTTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
104825413 ATTCTG ATTATG AATCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
104825462 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
104825488 AGTGTTTCTT
Statistics
Matches: 88, Mismatches: 20, Indels: 22
0.68 0.15 0.17
Matches are distributed among these distances:
5 5 0.06
6 72 0.82
7 8 0.09
8 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:104825394 original size:25 final size:25
Alignment explanation
Indices: 104825366--104825466 Score: 81
Period size: 25 Copynumber: 4.3 Consensus size: 25
104825356 TATTCACATT
*
104825366 CTGATTCTGATTATGTTACCTGATA
1 CTGATTCTGATTATGTCACCTGATA
* *
104825391 CTGATTTTGATTCTGTCACC---TA
1 CTGATTCTGATTATGTCACCTGATA
* * *
104825413 ---ATTCTGATTATG-AATCTGATT
1 CTGATTCTGATTATGTCACCTGATA
* *
104825434 CTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTATGTCACCTGATA
104825459 CTGATTCT
1 CTGATTCT
104825467 CATTTTGATT
Statistics
Matches: 58, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
18 2 0.03
19 10 0.17
21 1 0.02
22 2 0.03
24 11 0.19
25 32 0.55
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTATGTCACCTGATA
Found at i:104825476 original size:43 final size:43
Alignment explanation
Indices: 104825385--104825487 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 43
104825375 ATTATGTTAC
* * *
104825385 CTGATACTGATTTTGATTCTGTCACCTAATTCTGATTATGAAT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATTATCAAT
* * *
104825428 CTGATTCTGATTCTGATTCTGTCACCTGATTCTGATTCTCATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATTATCAAT
*
104825471 TTGATTCT-AGTTCTGAT
1 CTGATTCTGA-TTCTGAT
104825488 AGTGTTTCTT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
42 1 0.02
43 51 0.98
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (43 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATTATCAAT
Found at i:104825535 original size:31 final size:32
Alignment explanation
Indices: 104825500--104825564 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 32
104825490 TGTTTCTTCT
* *
104825500 TCTG-TAATGGGCTAAGGCCCATTTGGTACTG
1 TCTGTTAATGGGCTAAGGCCCAATTGATACTG
104825531 TCTGTTATAATGGGCTAAGGCCCAATTGATACTG
1 TCTG-T-TAATGGGCTAAGGCCCAATTGATACTG
104825565 AAACTGTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 4 0.14
34 25 0.86
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (32 bp):
TCTGTTAATGGGCTAAGGCCCAATTGATACTG
Found at i:104852458 original size:23 final size:23
Alignment explanation
Indices: 104852432--104852476 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
104852422 GTGGAATTTT
104852432 GCACCAACAAGCTACCCATTTCG
1 GCACCAACAAGCTACCCATTTCG
104852455 GCACCAACAAGCTACCCATTTC
1 GCACCAACAAGCTACCCATTTC
104852477 AAACTCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.40, G:0.11, T:0.18
Consensus pattern (23 bp):
GCACCAACAAGCTACCCATTTCG
Found at i:104853005 original size:20 final size:21
Alignment explanation
Indices: 104852974--104853013 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
104852964 GGTCTAAATC
104852974 GAAAACATTTGAAAATTTTAG
1 GAAAACATTTGAAAATTTTAG
104852995 GAAAA-ATTTGAAAATTTTA
1 GAAAACATTTGAAAATTTTA
104853014 AACTGCATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.35
Consensus pattern (21 bp):
GAAAACATTTGAAAATTTTAG
Found at i:104854915 original size:28 final size:28
Alignment explanation
Indices: 104854875--104854931 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
104854865 TGTTATATGA
104854875 AAATAGACTCATTAAGCTCTAATTTGAT
1 AAATAGACTCATTAAGCTCTAATTTGAT
104854903 AAATAGACTCATTAAGCTCTAATTTGAT
1 AAATAGACTCATTAAGCTCTAATTTGAT
104854931 A
1 A
104854932 TCTCATTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (28 bp):
AAATAGACTCATTAAGCTCTAATTTGAT
Found at i:104857358 original size:93 final size:93
Alignment explanation
Indices: 104857250--104857422 Score: 267
Period size: 93 Copynumber: 1.9 Consensus size: 93
104857240 CGCCCATAAG
** *
104857250 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTTGGACTCAACTT
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTC
104857314 AACGAGCTCGGATGCCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGTTACATCTCA
* * *
104857343 CGAACTCGGACTCAACTCAATGAGCTCGGACATTTGCATCTATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
104857408 ATGAGCTCGGATGCC
66 ACGAGCTCGGATGCC
104857423 CAGATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:104857406 original size:46 final size:45
Alignment explanation
Indices: 104857244--104857418 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 45
104857234 GTAACCCGCC
*
104857244 CATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCAT
1 CATAAGCGAACTCGGACTCAACTCAACGAGCTC-GGACATTTGCAT
* * * * *
104857289 CCATAAGTGAACTTGGACTCAACTTAACGAGCTCGGATGCCTAGTTACAT
1 -CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
104857339 C-TCA-CGAACTCGGACTCAACTCAATGAGCTCGGACATTTGCAT
1 CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * *
104857382 CTATAAGTGAACTCAGACTCAACTCAATGAGCTCGGA
1 C-ATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
104857419 TGCCCAGATA
Statistics
Matches: 105, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
43 7 0.07
44 1 0.01
45 4 0.04
46 58 0.55
47 26 0.25
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (45 bp):
CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:104861057 original size:79 final size:78
Alignment explanation
Indices: 104860955--104861177 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
104860945 GCTCCTCGTT
* *
104860955 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
104861020 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
104861035 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
104861098 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
104861113 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
104861176 GA
63 GA
104861178 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:104861072 original size:39 final size:40
Alignment explanation
Indices: 104860955--104861177 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
104860945 GCTCCTCGTT
* *
104860955 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
104860995 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
104861035 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
104861074 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
104861113 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
104861154 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
104861178 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:104868918 original size:27 final size:27
Alignment explanation
Indices: 104868888--104869065 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
104868878 ATATTGAGTC
* * * *
104868888 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
104868915 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
104868942 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
104868970 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
104868997 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
104869024 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
104869051 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
104869066 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:104869027 original size:82 final size:81
Alignment explanation
Indices: 104868909--104869064 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
104868899 TGCTATATAA
* *
104868909 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
104868974 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
104868991 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
104869055 CACTTAGTGC
65 CACTTAGTGC
104869065 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:104879629 original size:15 final size:15
Alignment explanation
Indices: 104879609--104879653 Score: 83
Period size: 15 Copynumber: 3.1 Consensus size: 15
104879599 CGCCCTGAAT
104879609 TTGGGCCTAGAAGTA
1 TTGGGCCTAGAAGTA
104879624 TTGGGCCTAGAAGTA
1 TTGGGCCTAGAAGTA
104879639 TTGGGCCTAG-AGTA
1 TTGGGCCTAGAAGTA
104879653 T
1 T
104879654 GGGTTGTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 5 0.17
15 25 0.83
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.29
Consensus pattern (15 bp):
TTGGGCCTAGAAGTA
Found at i:104883896 original size:8 final size:9
Alignment explanation
Indices: 104883865--104883899 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
104883855 GGGACTATTT
104883865 TGGGCCTCGA
1 TGGGCC-CGA
104883875 TGGGCCCGA
1 TGGGCCCGA
104883884 TGGGCCC-A
1 TGGGCCCGA
104883892 TGGGCCCG
1 TGGGCCCG
104883900 TTTATGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 8 0.33
9 10 0.42
10 6 0.25
ACGTcount: A:0.09, C:0.34, G:0.43, T:0.14
Consensus pattern (9 bp):
TGGGCCCGA
Found at i:104885951 original size:22 final size:22
Alignment explanation
Indices: 104885900--104886019 Score: 86
Period size: 22 Copynumber: 5.5 Consensus size: 22
104885890 TCTTCAGTAC
*
104885900 AGTGCCTAC-TACTTTGCACTAT
1 AGTGCCTACTTA-TTTGCACTTT
* *
104885922 GGTCCCTA-TTGATTTGCACTTT
1 AGTGCCTACTT-ATTTGCACTTT
* * *
104885944 AGTGCCTACTTCTTTGCAGTAT
1 AGTGCCTACTTATTTGCACTTT
* *
104885966 AGTGACTACTTCA-TTGCACTTC
1 AGTGCCTACTT-ATTTGCACTTT
* *
104885988 GGTGCTTAC-TATCTTGCACTTT
1 AGTGCCTACTTAT-TTGCACTTT
104886010 AGTGCCTACT
1 AGTGCCTACT
104886020 GTTAAAGCAC
Statistics
Matches: 72, Mismatches: 19, Indels: 13
0.69 0.18 0.12
Matches are distributed among these distances:
20 1 0.01
21 1 0.01
22 67 0.93
23 3 0.04
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (22 bp):
AGTGCCTACTTATTTGCACTTT
Found at i:104885975 original size:66 final size:66
Alignment explanation
Indices: 104885894--104886019 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 66
104885884 TATTGTTCTT
* * *
104885894 CAGTACAGTGCCTACTACTTTGCACTAT-GGTCCCTATTGAT-TTGCACTTTAGTGCCTACTTCT
1 CAGTACAGTGACTACTACATTGCACT-TCGGTCCCTACT-ATCTTGCACTTTAGTGCCTACTTCT
104885957 TTG
64 TTG
* * * *
104885960 CAGTATAGTGACTACTTCATTGCACTTCGGTGCTTACTATCTTGCACTTTAGTGCCTACT
1 CAGTACAGTGACTACTACATTGCACTTCGGTCCCTACTATCTTGCACTTTAGTGCCTACT
104886020 GTTAAAGCAC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
65 3 0.06
66 48 0.94
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.39
Consensus pattern (66 bp):
CAGTACAGTGACTACTACATTGCACTTCGGTCCCTACTATCTTGCACTTTAGTGCCTACTTCTTT
G
Found at i:104885983 original size:44 final size:44
Alignment explanation
Indices: 104885900--104886012 Score: 104
Period size: 44 Copynumber: 2.6 Consensus size: 44
104885890 TCTTCAGTAC
* * *
104885900 AGTGCCTACTACTTTGCACTATGGTCCCTATTGATTTGCACTTT
1 AGTGCCTACTACTTTGCACTATAGTCACTATTCATTTGCACTTT
* * * *
104885944 AGTGCCTACTTCTTTGCAGTATAGTGACTACTTCA-TTGCACTTC
1 AGTGCCTACTACTTTGCACTATAGTCACTA-TTCATTTGCACTTT
* * *
104885988 GGTGCTTACTA-TCTTGCACTTTAGT
1 AGTGCCTACTACT-TTGCACTATAGT
104886013 GCCTACTGTT
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
43 1 0.02
44 51 0.93
45 3 0.05
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.41
Consensus pattern (44 bp):
AGTGCCTACTACTTTGCACTATAGTCACTATTCATTTGCACTTT
Found at i:104886037 original size:23 final size:23
Alignment explanation
Indices: 104886003--104886060 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
104885993 TTACTATCTT
*
104886003 GCACTTTAGTGCCTACTGTTAAA
1 GCACTTTAGTGCCTACTATTAAA
* *
104886026 GCACTTTGGTGCCTATTATTAAA
1 GCACTTTAGTGCCTACTATTAAA
*
104886049 GTACTTTAGTGC
1 GCACTTTAGTGC
104886061 TTAGTGGTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (23 bp):
GCACTTTAGTGCCTACTATTAAA
Found at i:104887004 original size:10 final size:10
Alignment explanation
Indices: 104886989--104887018 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
104886979 GATATATGTA
*
104886989 TGTTTTGGAT
1 TGTTTTGAAT
104886999 TGTTTTGAAT
1 TGTTTTGAAT
104887009 TGTTTTGAAT
1 TGTTTTGAAT
104887019 AGGTTACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (10 bp):
TGTTTTGAAT
Found at i:104897477 original size:15 final size:15
Alignment explanation
Indices: 104897439--104897481 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
104897429 TATTGTAATT
* *
104897439 TGGATTTCCTAATCA
1 TGGATTTCTTTATCA
104897454 TGGATTTCTTTATCA
1 TGGATTTCTTTATCA
104897469 TGGATTTCTTTAT
1 TGGATTTCTTTAT
104897482 TCTGGGCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.51
Consensus pattern (15 bp):
TGGATTTCTTTATCA
Found at i:104919571 original size:16 final size:16
Alignment explanation
Indices: 104919550--104919580 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
104919540 CTTTTCATTT
*
104919550 CTAATTTCCAAATTAC
1 CTAATTACCAAATTAC
104919566 CTAATTACCAAATTA
1 CTAATTACCAAATTA
104919581 ACATTTTAAA
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:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (16 bp):
CTAATTACCAAATTAC
Found at i:104923956 original size:8 final size:8
Alignment explanation
Indices: 104923937--104923969 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
104923927 ACTAGATCTG
104923937 CGAAAA-T
1 CGAAAAGT
104923944 CGAAAAGT
1 CGAAAAGT
*
104923952 CGAAATGT
1 CGAAAAGT
104923960 CGAAAAGT
1 CGAAAAGT
104923968 CG
1 CG
104923970 GCTTTTCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.45, C:0.15, G:0.24, T:0.15
Consensus pattern (8 bp):
CGAAAAGT
Found at i:104931665 original size:16 final size:17
Alignment explanation
Indices: 104931634--104931666 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
104931624 TTCATAAGTA
*
104931634 TATATCAATCATTTCAT
1 TATACCAATCATTTCAT
104931651 TATACCAAT-ATTTCAT
1 TATACCAATCATTTCAT
104931667 GCTCCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.45
Consensus pattern (17 bp):
TATACCAATCATTTCAT
Found at i:104932014 original size:46 final size:46
Alignment explanation
Indices: 104931962--104932955 Score: 1794
Period size: 46 Copynumber: 21.6 Consensus size: 46
104931952 TGCTATAGTG
* * * * *
104931962 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTTCCATGGTA
*** * * ** *
104932008 TCTTTCAACCATGGTCTTTTTCATTTCATGTTACATTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
** *** *
104932054 TCTTTCAACCATGGTCTTATTCA-TTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932099 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932145 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932191 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932237 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932283 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932329 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932375 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932421 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932467 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932513 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932559 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932605 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932651 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932697 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932743 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932789 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932835 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932881 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
104932927 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACACATTTCAT
104932956 TTCAGAAAGC
Statistics
Matches: 928, Mismatches: 18, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 0.05
46 886 0.95
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
Found at i:104937812 original size:40 final size:40
Alignment explanation
Indices: 104937736--104937888 Score: 184
Period size: 40 Copynumber: 3.9 Consensus size: 40
104937726 CAAACTCAAG
* * * * *
104937736 TGCCTTCAGGATTTAG-CCGGATAT-AGCAACTCGCACAGA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAA
* * *
104937775 TGCCTTCGGGTCTTAGCCTGGATATAGTCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* *
104937815 AGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
*
104937855 TGCCTTCGGGACTTAGCCCAGATATAATCAATAG
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAG
104937889 TTGTGACAGC
Statistics
Matches: 96, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 13 0.14
40 80 0.83
41 3 0.03
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
Found at i:104938509 original size:40 final size:40
Alignment explanation
Indices: 104938416--104938673 Score: 328
Period size: 40 Copynumber: 6.5 Consensus size: 40
104938406 TGGATGATAA
** *
104938416 CCGGGCTAAGTCTTGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
104938457 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
104938497 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
104938537 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
104938576 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
104938616 CCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
104938656 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
104938674 TACTTGGCTT
Statistics
Matches: 196, Mismatches: 17, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
39 53 0.27
40 117 0.60
41 22 0.11
42 4 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:104938629 original size:119 final size:119
Alignment explanation
Indices: 104938417--104938638 Score: 340
Period size: 119 Copynumber: 1.9 Consensus size: 119
104938407 GGATGATAAC
** *
104938417 CGGGCTAAGTCTTGAAGGCATTTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTTGCGC-AGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
*
104938482 TGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
65 TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
*
104938537 CGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTG
1 CGGGCTAAGTCCCGAAGGCATTT-TGCGCAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTG
* *
104938600 GTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATT
64 GTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATT
104938639 CGAGCAAGTA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
118 1 0.01
119 67 0.72
120 21 0.23
121 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (119 bp):
CGGGCTAAGTCCCGAAGGCATTTTGCGCAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGGT
GCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
Found at i:104938654 original size:119 final size:119
Alignment explanation
Indices: 104938417--104938673 Score: 331
Period size: 119 Copynumber: 2.2 Consensus size: 119
104938407 GGATGATAAC
** *
104938417 CGGGCTAAGTCTTGAAGGCATTTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTTGCGC-AGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
* * * **
104938482 TGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
65 TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTCGAGCAAGTTACTATAT
*
104938537 CGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTG
1 CGGGCTAAGTCCCGAAGGCATTT-TGCGCAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTG
* *
104938600 GTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
64 GTGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTCGAGCAAGTTA-CTATAT
* * *
104938656 CCGGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
104938674 TACTTGGCTT
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
118 3 0.03
119 92 0.77
120 21 0.17
121 4 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (119 bp):
CGGGCTAAGTCCCGAAGGCATTTTGCGCAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGGT
GCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTCGAGCAAGTTACTATAT
Found at i:104938669 original size:79 final size:80
Alignment explanation
Indices: 104938416--104938673 Score: 319
Period size: 79 Copynumber: 3.2 Consensus size: 80
104938406 TGGATGATAA
** * *
104938416 CCGGGCTAAGTCTTGAAGGCATT-TTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCG--AGTTACTA-TATCCGGGCTAAGTCCCGAAGGCAT
* *
104938479 TTGTGCGAGTTATTACAT
63 TTGTGCGAGTTACTATAT
* *
104938497 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT-CGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
104938561 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
* *
104938576 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* *
104938641 AGCAAG-TAGCTATAT
66 TGCGAGTTA-CTATAT
* *
104938656 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
104938674 TACTTGGCTT
Statistics
Matches: 158, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
79 92 0.58
80 42 0.27
81 21 0.13
82 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:104947585 original size:203 final size:202
Alignment explanation
Indices: 104947236--104947640 Score: 801
Period size: 203 Copynumber: 2.0 Consensus size: 202
104947226 AATCTCCCCT
104947236 GTTTCAGGGTTCGACTACTCTGACCTTCATGCATTACGACTTAGATATCTCCCTGTAAAGAGCTT
1 GTTTCAGGGTTCGACTACTCTGACCTTCATGCATTACGACTTAGATATCTCCCTGTAAAGAGCTT
104947301 CAATACTTATGCTGTTTGTTTCTAATGAAAGTAGACTAAAAAATGAATCTATACATATAAAGCAT
66 CAATACTTATGCTGTTTGTTTCTAATGAAAGTAGACTAAAAAATGAATCTATACATATAAAGCAT
104947366 GACTTCTAATAATCACTGGTTTATTTATGGAAAATTTTCAAAGTCAGAACAGGGGATCCAGAAAA
131 GACTTCTAATAATCACTGGTTTATTTATGGAAAATTTTC-AAGTCAGAACAGGGGATCCAGAAAA
104947431 TGCTCTGG
195 TGCTCTGG
104947439 GTTTCAGGGTTCGACTACTCTGACCTTCATGCATTACGACTTAGATATCTCCCTGTAAAGAGCTT
1 GTTTCAGGGTTCGACTACTCTGACCTTCATGCATTACGACTTAGATATCTCCCTGTAAAGAGCTT
104947504 CAATACTTATGCTGTTTGTTTCTAATGAAAGTAGACTAAAAAATGAATCTATACATATAAAGCAT
66 CAATACTTATGCTGTTTGTTTCTAATGAAAGTAGACTAAAAAATGAATCTATACATATAAAGCAT
104947569 GACTTCTAATAATCACTGGTTTATTTATGGAAAATTTTCAAGTCAGAACAGGGGATCCAGAAAAT
131 GACTTCTAATAATCACTGGTTTATTTATGGAAAATTTTCAAGTCAGAACAGGGGATCCAGAAAAT
104947634 GCTCTGG
196 GCTCTGG
104947641 CCCTGTTTCA
Statistics
Matches: 202, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
202 33 0.16
203 169 0.84
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (202 bp):
GTTTCAGGGTTCGACTACTCTGACCTTCATGCATTACGACTTAGATATCTCCCTGTAAAGAGCTT
CAATACTTATGCTGTTTGTTTCTAATGAAAGTAGACTAAAAAATGAATCTATACATATAAAGCAT
GACTTCTAATAATCACTGGTTTATTTATGGAAAATTTTCAAGTCAGAACAGGGGATCCAGAAAAT
GCTCTGG
Found at i:104948634 original size:40 final size:40
Alignment explanation
Indices: 104948550--104948733 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
104948540 CAAACTCAAG
* * * *
104948550 TGCCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAGA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAA
* * *
104948589 TGCCTTCGGGTCTTAGCCCGGATATAGTCAATAGCAAAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* *
104948629 AGCCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
*
104948669 TGCCTTCGGGACATAGCCCGGATATAATCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* *
104948709 TGCCCTCGGGACTTAACCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGATAT
104948734 CATTCGAATA
Statistics
Matches: 125, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 14 0.11
40 108 0.86
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.22
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
Found at i:104951932 original size:29 final size:27
Alignment explanation
Indices: 104951879--104951940 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
104951869 GTGATTTTTA
*
104951879 GTGAAAATGCAAATTAGGGGCTAAATT
1 GTGAAAATGCAAATTAGGGGCTAAAAT
* * *
104951906 GTGAAAAGTGTAAATTTAGTGGTTAAAAT
1 GTGAAAA-TGCAAA-TTAGGGGCTAAAAT
104951935 GTGAAA
1 GTGAAA
104951941 TAAATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 7 0.24
28 5 0.17
29 17 0.59
ACGTcount: A:0.42, C:0.03, G:0.26, T:0.29
Consensus pattern (27 bp):
GTGAAAATGCAAATTAGGGGCTAAAAT
Found at i:104952518 original size:48 final size:48
Alignment explanation
Indices: 104952413--104952547 Score: 155
Period size: 48 Copynumber: 2.8 Consensus size: 48
104952403 GTCATTAGGG
*
104952413 GATACTTTGATTTGGCTTCGAGCCATGATATTGGCACTTCGGGTGCTA
1 GATACATTGATTTGGCTTCGAGCCATGATATTGGCACTTCGGGTGCTA
* * * * * **
104952461 GCTTCATTGATTTGGCTTCGGGCCAAGATATTAGCACTTTTGGTG-TGA
1 GATACATTGATTTGGCTTCGAGCCATGATATTGGCACTTCGGGTGCT-A
* * *
104952509 GATAGATTGAGTTGGCTTTGAGCCATGATATTGGCACTT
1 GATACATTGATTTGGCTTCGAGCCATGATATTGGCACTT
104952548 AGTGTGCGAG
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
47 1 0.01
48 69 0.99
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.36
Consensus pattern (48 bp):
GATACATTGATTTGGCTTCGAGCCATGATATTGGCACTTCGGGTGCTA
Found at i:104952821 original size:13 final size:13
Alignment explanation
Indices: 104952803--104952830 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
104952793 TTATTTCTTA
104952803 TTTTCATATGAGC
1 TTTTCATATGAGC
104952816 TTTTCATATGAGC
1 TTTTCATATGAGC
104952829 TT
1 TT
104952831 ACCGAGCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (13 bp):
TTTTCATATGAGC
Found at i:104953674 original size:12 final size:12
Alignment explanation
Indices: 104953657--104953682 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
104953647 GGTTTGGCAC
104953657 GGCCTAGCACAT
1 GGCCTAGCACAT
104953669 GGCCTAGCACAT
1 GGCCTAGCACAT
104953681 GG
1 GG
104953683 GCGTGTATGG
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:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (12 bp):
GGCCTAGCACAT
Found at i:104959746 original size:48 final size:48
Alignment explanation
Indices: 104959694--104959817 Score: 178
Period size: 48 Copynumber: 2.6 Consensus size: 48
104959684 CTTCATTGAC
*
104959694 TTGGCTTCGGGCCATGATATTAGCACTTCGGGTATGAGATATATTCAT
1 TTGGCTTCGGGCCATGATATTAGCACTTCGGGTATGAGATATATTCAG
* * * *
104959742 TTGGCTTCAGGCCATTATATTAGCACTTCGGGTGTGAGATATATTGAG
1 TTGGCTTCGGGCCATGATATTAGCACTTCGGGTATGAGATATATTCAG
*
104959790 TTGGCTGT-GGGCCATGATATTGGCACTT
1 TTGGCT-TCGGGCCATGATATTAGCACTT
104959818 AGTGTGCGAG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 66 0.99
49 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.35
Consensus pattern (48 bp):
TTGGCTTCGGGCCATGATATTAGCACTTCGGGTATGAGATATATTCAG
Found at i:104959808 original size:96 final size:96
Alignment explanation
Indices: 104959644--104959817 Score: 226
Period size: 96 Copynumber: 1.8 Consensus size: 96
104959634 GGATACTTTG
* * * *
104959644 ATTTGGTTTCGGGCCATAATATTGGCACTTAAGGTGCGAGCTTCATTGACTTGGCTTCGGGCCAT
1 ATTTGGCTTCAGGCCATAATATTAGCACTTAAGGTGCGAGATTCATTGACTTGGCTTCGGGCCAT
104959709 GATATTAGCACTTCGGGTATGAGATATATTC
66 GATATTAGCACTTCGGGTATGAGATATATTC
* ** * *
104959740 ATTTGGCTTCAGGCCATTATATTAGCACTTCGGGTGTGAGATAT-ATTGAGTTGGCTGT-GGGCC
1 ATTTGGCTTCAGGCCATAATATTAGCACTTAAGGTGCGAGAT-TCATTGACTTGGCT-TCGGGCC
*
104959803 ATGATATTGGCACTT
64 ATGATATTAGCACTT
104959818 AGTGTGCGAG
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
96 64 0.97
97 2 0.03
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (96 bp):
ATTTGGCTTCAGGCCATAATATTAGCACTTAAGGTGCGAGATTCATTGACTTGGCTTCGGGCCAT
GATATTAGCACTTCGGGTATGAGATATATTC
Found at i:104966604 original size:19 final size:19
Alignment explanation
Indices: 104966582--104966621 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
104966572 TTTGTTTTTG
104966582 AATCTATTAAAAATTTTAT
1 AATCTATTAAAAATTTTAT
*
104966601 AATCTGTTAAAAATTTTAT
1 AATCTATTAAAAATTTTAT
104966620 AA
1 AA
104966622 GCTGCCATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (19 bp):
AATCTATTAAAAATTTTAT
Found at i:104977266 original size:62 final size:62
Alignment explanation
Indices: 104977169--104977292 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
104977159 GAGTTGATTG
104977169 CGCGCCTAGAAATAGGGTGACAAGATTTTGCCAGATTAGGGTGAAACCTAATAAGGGGATCC
1 CGCGCCTAGAAATAGGGTGACAAGATTTTGCCAGATTAGGGTGAAACCTAATAAGGGGATCC
*
104977231 CGCGCCTATAAATAGGGTGACAAGATTTTGCCAGATTAGGGTGAAACCTAATAAGGGGATCC
1 CGCGCCTAGAAATAGGGTGACAAGATTTTGCCAGATTAGGGTGAAACCTAATAAGGGGATCC
104977293 ATAGATCGAG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (62 bp):
CGCGCCTAGAAATAGGGTGACAAGATTTTGCCAGATTAGGGTGAAACCTAATAAGGGGATCC
Found at i:104983671 original size:50 final size:51
Alignment explanation
Indices: 104983594--104983722 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
104983584 GACCATGGCA
*
104983594 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
104983645 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
104983695 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
104983723 CTGATCAGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 44 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:104983741 original size:31 final size:31
Alignment explanation
Indices: 104983698--104983846 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
104983688 ACAAATGACA
* *
104983698 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
104983729 AGTGGAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
104983760 AGTGAAAAGTGGTAGCTCCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
104983791 AGTGAAAAGTGGTAG-TACCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCT-CCGGCTACCTGATC
* *
104983822 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
104983847 AAGTGACAAG
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
30 1 0.01
31 106 0.98
32 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:104983938 original size:47 final size:46
Alignment explanation
Indices: 104983869--104984079 Score: 193
Period size: 42 Copynumber: 4.6 Consensus size: 46
104983859 ATTTCCGTAC
* * *
104983869 AAGACCATATCTGGGATATGGCATCAGTGTGATATATGCTACTGTAT
1 AAGACCATAGCTGGGATATGGCATCA-TGTGATATATGTTACTGTGT
* * *
104983916 AAGACCATATCTGGGATATGGCATCA-GTGAGATATGTTATTCGTGT
1 AAGACCATAGCTGGGATATGGCATCATGTGATATATGTTACT-GTGT
* *
104983962 AAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTAC-GTGT
1 AAGACCATAGCTGGGATATGGCATC---ATGTGATATATG-TTACTGTGT
* * *
104984011 AAGGCCATAGCTGGGCTATGGCATC----GATATATGAATA-TGTGT
1 AAGACCATAGCTGGGATATGGCATCATGTGATATATG-TTACTGTGT
* *
104984053 AAGACCATAGCTAGGCTATGGCATCAT
1 AAGACCATAGCTGGGATATGGCATCAT
104984080 TATGTGAAGA
Statistics
Matches: 141, Mismatches: 14, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
42 37 0.26
45 12 0.09
46 26 0.18
47 26 0.18
49 29 0.21
50 8 0.06
51 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (46 bp):
AAGACCATAGCTGGGATATGGCATCATGTGATATATGTTACTGTGT
Found at i:104984053 original size:42 final size:43
Alignment explanation
Indices: 104983958--104984121 Score: 172
Period size: 42 Copynumber: 3.7 Consensus size: 43
104983948 TATGTTATTC
*
104983958 GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATG-TGATT
1 GTGTAAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T
* *
104984005 ACGTGTAAGGCCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* *
104984049 GTGTAAGACCATAGCTAGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
104984091 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
104984122 GAAAACGAAG
Statistics
Matches: 101, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
41 1 0.01
42 61 0.60
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 29 0.29
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:104986226 original size:13 final size:13
Alignment explanation
Indices: 104986208--104986233 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
104986198 AAGTAATTGA
104986208 ACACGGGCGTGTC
1 ACACGGGCGTGTC
104986221 ACACGGGCGTGTC
1 ACACGGGCGTGTC
104986234 CCTACCGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:104988527 original size:42 final size:42
Alignment explanation
Indices: 104988413--104988529 Score: 139
Period size: 44 Copynumber: 2.7 Consensus size: 42
104988403 CGTTGGTATT
* *
104988413 GATCTGAATTATCGTGTAAGACCGTGTCTGGGACACTGGCATC
1 GATCTGAATT-TCGTGTAAGACCATGTCTGGAACACTGGCATC
*
104988456 GATTTGAAATTTACGTGTAAGACCATGTCTGGAACA-TCGGCATC
1 GATCTG-AATTT-CGTGTAAGACCATGTCTGGAACACT-GGCATC
*
104988500 GTATCTG-ATTTCGTGTAAGACCCTGTCTGG
1 G-ATCTGAATTTCGTGTAAGACCATGTCTGG
104988530 GACAGAGGCT
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
42 18 0.28
43 11 0.17
44 32 0.49
45 4 0.06
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.31
Consensus pattern (42 bp):
GATCTGAATTTCGTGTAAGACCATGTCTGGAACACTGGCATC
Found at i:104989113 original size:12 final size:13
Alignment explanation
Indices: 104989096--104989127 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
104989086 GCAAATGTTA
104989096 AGTTTTG-TGCAT
1 AGTTTTGATGCAT
104989108 AGTTTTGATGCAT
1 AGTTTTGATGCAT
104989121 -GTTTTGA
1 AGTTTTGA
104989128 AATGTGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (13 bp):
AGTTTTGATGCAT
Found at i:104992968 original size:27 final size:27
Alignment explanation
Indices: 104992937--104993114 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
104992927 TAAATTGTAC
104992937 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
104992964 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
104992990 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
104993018 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
104993046 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
104993073 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
104993100 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
104993115 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:104993051 original size:82 final size:81
Alignment explanation
Indices: 104992938--104993093 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
104992928 AAATTGTACA
*
104992938 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
104993002 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
104993019 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
104993084 TGCGAGTTGA
65 TGCGAATTGA
104993094 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:104993105 original size:82 final size:81
Alignment explanation
Indices: 104992934--104993114 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
104992924 GATTAAATTG
*
104992934 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
104992999 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
104993015 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
104993079 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
104993097 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
104993115 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:105001023 original size:27 final size:27
Alignment explanation
Indices: 105000992--105001169 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
105000982 TAAATTGTAC
105000992 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
105001019 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
105001045 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
105001073 GGCACTAAGTGTGCGAGTTTGACAATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
105001101 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
105001128 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
105001155 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
105001170 GACTCGATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:105001160 original size:82 final size:81
Alignment explanation
Indices: 105000989--105001169 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
105000979 GATTAAATTG
* *
105000989 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACAATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
105001054 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
105001070 TGCGGCACTAAGTGTGCGAGTTTGACAATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACAATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
**
105001134 AAGTGTGC-AAGTTGATTA
64 AAGTGTGCGAA-TTGACCA
* *
105001152 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
105001170 GACTCGATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 20 0.24
82 64 0.76
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACAATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:105005353 original size:60 final size:60
Alignment explanation
Indices: 105005253--105005391 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 60
105005243 AACTGTGTTA
* * * * *
105005253 ATATGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCCGGATTGATACTG
1 ATATGGGCTAGGCCCAGTATATCTCGAATTGTAATAGGGCTACGGCCCAGATTAATACTG
* * * *
105005313 ATATGGGCTAGGCCCAGTATA-CTCTGATATTGTAA-GGGGCTATGGCCTAGATTAATATTG
1 ATATGGGCTAGGCCCAGTATATCTC-GA-ATTGTAATAGGGCTACGGCCCAGATTAATACTG
105005373 ATATGGGCTAAGGCCCAGT
1 ATATGGGCT-AGGCCCAGT
105005392 TAACTCTAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
59 3 0.04
60 49 0.73
61 15 0.22
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAGTATATCTCGAATTGTAATAGGGCTACGGCCCAGATTAATACTG
Found at i:105007929 original size:19 final size:19
Alignment explanation
Indices: 105007905--105007975 Score: 61
Period size: 19 Copynumber: 3.4 Consensus size: 19
105007895 TTTTAGTACG
105007905 AGCTTACTAAGCTTTTGAA
1 AGCTTACTAAGCTTTTGAA
* * *
105007924 AGCTTACTTTGATGATTTTAGTATG
1 AGCTTAC--T-AAGCTTTT-G-A-A
105007949 AGCTTACTAAGCTTTTGAA
1 AGCTTACTAAGCTTTTGAA
105007968 AGCTTACT
1 AGCTTACT
105007976 TTGTGTGTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
19 15 0.38
20 1 0.03
21 2 0.05
22 12 0.30
23 2 0.05
24 1 0.03
25 7 0.17
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (19 bp):
AGCTTACTAAGCTTTTGAA
Found at i:105007952 original size:44 final size:44
Alignment explanation
Indices: 105007888--105007978 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
105007878 TTATATATTG
105007888 TTGATGATTTTAGTACGAGCTTACTAAGCTTTTGAAAGCTTACT
1 TTGATGATTTTAGTACGAGCTTACTAAGCTTTTGAAAGCTTACT
*
105007932 TTGATGATTTTAGTATGAGCTTACTAAGCTTTTGAAAGCTTACT
1 TTGATGATTTTAGTACGAGCTTACTAAGCTTTTGAAAGCTTACT
105007976 TTG
1 TTG
105007979 TGTGTATGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (44 bp):
TTGATGATTTTAGTACGAGCTTACTAAGCTTTTGAAAGCTTACT
Found at i:105012758 original size:27 final size:26
Alignment explanation
Indices: 105012727--105012911 Score: 181
Period size: 26 Copynumber: 7.0 Consensus size: 26
105012717 ACATAGGGGA
* *
105012727 AAAACAATCAATTTACCATATAAAGGC
1 AAAACAATCATTTTACCA-ATAAGGGC
* * * *
105012754 GAAACAGTCATTTTATCAATTAGGGC
1 AAAACAATCATTTTACCAATAAGGGC
* * *
105012780 AAAATAGTCATTTTACCACATAAGGGT
1 AAAACAATCATTTTACCA-ATAAGGGC
*
105012807 AAAATAATCATTTTACCACATAAGGGC
1 AAAACAATCATTTTACCA-ATAAGGGC
* *
105012834 AAAACAATCATTTTATCAATTAGGGC
1 AAAACAATCATTTTACCAATAAGGGC
* * *
105012860 AAAACAATCATTTTATCAATTAGGGA
1 AAAACAATCATTTTACCAATAAGGGC
* *
105012886 AAAATAGTCATTTTACCATATAAGGG
1 AAAACAATCATTTTACCA-ATAAGGG
105012912 AGAAATAGTC
Statistics
Matches: 135, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 68 0.50
27 67 0.50
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (26 bp):
AAAACAATCATTTTACCAATAAGGGC
Found at i:105012788 original size:26 final size:26
Alignment explanation
Indices: 105012759--105012937 Score: 189
Period size: 27 Copynumber: 6.8 Consensus size: 26
105012749 AAGGCGAAAC
105012759 AGTCATTTTATCAATTAGGGCAAAAT
1 AGTCATTTTATCAATTAGGGCAAAAT
* * *
105012785 AGTCATTTTACCACATAAGGGTAAAAT
1 AGTCATTTTATCA-ATTAGGGCAAAAT
* * * *
105012812 AATCATTTTACCACATAAGGGCAAAAC
1 AGTCATTTTATCA-ATTAGGGCAAAAT
* *
105012839 AATCATTTTATCAATTAGGGCAAAAC
1 AGTCATTTTATCAATTAGGGCAAAAT
* *
105012865 AATCATTTTATCAATTAGGGAAAAAT
1 AGTCATTTTATCAATTAGGGCAAAAT
* *
105012891 AGTCATTTTACCATATAAGGG-AGAAAT
1 AGTCATTTTATCA-ATTAGGGCA-AAAT
*
105012918 AGTCATTTTATCATTTAGGG
1 AGTCATTTTATCAATTAGGG
105012938 GTCCAGGCAC
Statistics
Matches: 134, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
26 65 0.49
27 69 0.51
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (26 bp):
AGTCATTTTATCAATTAGGGCAAAAT
Found at i:105012917 original size:27 final size:26
Alignment explanation
Indices: 105012738--105012927 Score: 184
Period size: 27 Copynumber: 7.2 Consensus size: 26
105012728 AAACAATCAA
* * *
105012738 TTTACCATATAAAGGCGAAACAGTCAT
1 TTTACCA-ATAAGGGCAAAATAGTCAT
* *
105012765 TTTATCAATTAGGGCAAAATAGTCAT
1 TTTACCAATAAGGGCAAAATAGTCAT
* *
105012791 TTTACCACATAAGGGTAAAATAATCAT
1 TTTACCA-ATAAGGGCAAAATAGTCAT
* *
105012818 TTTACCACATAAGGGCAAAACAATCAT
1 TTTACCA-ATAAGGGCAAAATAGTCAT
* * * *
105012845 TTTATCAATTAGGGCAAAACAATCAT
1 TTTACCAATAAGGGCAAAATAGTCAT
* * *
105012871 TTTATCAATTAGGGAAAAATAGTCAT
1 TTTACCAATAAGGGCAAAATAGTCAT
105012897 TTTACCATATAAGGG-AGAAATAGTCAT
1 TTTACCA-ATAAGGGCA-AAATAGTCAT
105012924 TTTA
1 TTTA
105012928 TCATTTAGGG
Statistics
Matches: 142, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
26 69 0.49
27 73 0.51
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (26 bp):
TTTACCAATAAGGGCAAAATAGTCAT
Found at i:105014422 original size:8 final size:8
Alignment explanation
Indices: 105014398--105014429 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
105014388 TTCTTGCACT
105014398 TTAATTTA
1 TTAATTTA
105014406 TT-A-TTA
1 TTAATTTA
105014412 TTAATTTA
1 TTAATTTA
105014420 TTAATTTA
1 TTAATTTA
105014428 TT
1 TT
105014430 TTTTCCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 5 0.23
7 2 0.09
8 15 0.68
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TTAATTTA
Found at i:105029976 original size:48 final size:46
Alignment explanation
Indices: 105029889--105030031 Score: 148
Period size: 44 Copynumber: 3.0 Consensus size: 46
105029879 AATCTTACAC
* *
105029889 ATATCGATGCCGATGCCATATCCCAGATATGGTCTTACACTAGCTCTCAT
1 ATATCG-TGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-CAT
*
105029939 ATATCCGTGCCGATGCATGTCCCAGACATGTCTTACACTAG---CAC
1 ATAT-CGTGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCCAT
* * *
105029983 ATCTCGTAGCTGATGCATGTCCCAGACATGTCTTACACTGGCTCACAT
1 ATATCGT-GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC-CAT
105030031 A
1 A
105030032 ACAGCAGTGT
Statistics
Matches: 80, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
43 3 0.04
44 36 0.45
48 15 0.19
49 12 0.15
50 12 0.15
51 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (46 bp):
ATATCGTGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCCAT
Found at i:105030675 original size:31 final size:31
Alignment explanation
Indices: 105030640--105030706 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
105030630 ATTTATTAGA
105030640 TTTCTATAAGGTTTAAGACATGATAAACATT
1 TTTCTATAAGGTTTAAGACATGATAAACATT
* * *
105030671 TTTCTATAAGGTTTAAGATATGCTGAACATT
1 TTTCTATAAGGTTTAAGACATGATAAACATT
105030702 TTTCT
1 TTTCT
105030707 CTTCTACGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (31 bp):
TTTCTATAAGGTTTAAGACATGATAAACATT
Found at i:105036699 original size:13 final size:13
Alignment explanation
Indices: 105036681--105036709 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
105036671 AATAGTTGTG
105036681 TGTTATTTAATTA
1 TGTTATTTAATTA
105036694 TGTTATTTAATTA
1 TGTTATTTAATTA
105036707 TGT
1 TGT
105036710 AGGTTAGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (13 bp):
TGTTATTTAATTA
Found at i:105049413 original size:33 final size:34
Alignment explanation
Indices: 105049338--105049419 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
105049328 GTTTCAGTTA
* *
105049338 GGGCCTTAGCCCATTTCAGAACCAGAAACAATGT
1 GGGCCTAAGCCCATTTCAGAAACAGAAACAATGT
* * * *
105049372 GGGCCTAAGCCCATTTTAGAAACAGTATCAGTG-
1 GGGCCTAAGCCCATTTCAGAAACAGAAACAATGT
105049405 GGGCCTAAGCCCATT
1 GGGCCTAAGCCCATT
105049420 ACAAAATCAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 15 0.36
34 27 0.64
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (34 bp):
GGGCCTAAGCCCATTTCAGAAACAGAAACAATGT
Found at i:105051096 original size:55 final size:54
Alignment explanation
Indices: 105050974--105051227 Score: 265
Period size: 55 Copynumber: 4.8 Consensus size: 54
105050964 ATTAGGGTTT
* *
105050974 AAGGATACCATGTAAGACCATG-CAAGGCATGGCAATTGGTAAGGTT-TCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGGTAA-GTTCTATAAGGC
* * *
105051028 AAGGATATCATGTAAGACCATGTCAAGACATTGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-CTATAAGGC
* * * *
105051083 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * *
105051136 AAGGATACCATGTAAGACCATGTCAAGATATGGCAATGGTAAGTT-T-CAA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGC
* * * *
105051185 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
105051228 GTACCCGCGT
Statistics
Matches: 171, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
49 39 0.23
52 6 0.04
53 44 0.26
54 29 0.17
55 49 0.29
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCTATAAGGC
Found at i:105051179 original size:108 final size:109
Alignment explanation
Indices: 105050981--105051180 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 109
105050971 TTTAAGGATA
*
105050981 CCATGTAAGACCATGCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGAC
1 CCATGTAAGACCATGCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGAC
* *
105051046 CATGTCAAGACATTGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
*
105051090 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATG-CAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
105051152 ACCATGTCAAGATATGGCAATGGTAAGTT
64 ACCATGTCAAGACATGGCAATGATAAGTT
105051181 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 22 0.27
110 11 0.13
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (109 bp):
CCATGTAAGACCATGCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:105051321 original size:23 final size:24
Alignment explanation
Indices: 105051295--105051339 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
105051285 AAGGTAAGGT
105051295 AAGGTAAGACAAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
*
105051318 AAGGTAAGGCAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
105051340 GATGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:105058634 original size:55 final size:53
Alignment explanation
Indices: 105058507--105058699 Score: 205
Period size: 55 Copynumber: 3.6 Consensus size: 53
105058497 ATTAGGGTTT
* *
105058507 AAGGATACCATGTAAGACCATG-CAAGGA-ATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAA-GACATCGC-ATTGATAA-G-TTCATAAGGC
*
105058561 AAGGATATCATGTAAGACCATGTCAAGACATCGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATCGCATTGATAAGTT-C-ATAAGGC
* * * * * * *
105058616 AAAGG-TCCCATGTGAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATCGCATTGATAAGTTCATAAGGC
105058669 AAGGATACCATGTAAGACCATGTCAAGACAT
1 AAGGATACCATGTAAGACCATGTCAAGACAT
105058700 GGAAATGGTA
Statistics
Matches: 117, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
52 6 0.05
53 31 0.26
54 31 0.26
55 45 0.38
56 4 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATCGCATTGATAAGTTCATAAGGC
Found at i:105058712 original size:108 final size:109
Alignment explanation
Indices: 105058514--105058713 Score: 289
Period size: 108 Copynumber: 1.8 Consensus size: 109
105058504 TTTAAGGATA
*
105058514 CCATGTAAGACCATGCAAGGAATGGCAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGAC
1 CCATGTAAGACCATGCAAGGAATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGAC
* *
105058579 CATGTCAAGACATCGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CATGTCAAGACATCGAAATGATAAGTTACTATAAGGCAAAGGTC
* * *
105058623 CCATGTGAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATG-CAAGGAATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
* *
105058685 ACCATGTCAAGACATGGAAATGGTAAGTT
64 ACCATGTCAAGACATCGAAATGATAAGTT
105058714 TCAAAGGGAT
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
107 3 0.04
108 47 0.58
109 21 0.26
110 10 0.12
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (109 bp):
CCATGTAAGACCATGCAAGGAATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGAC
CATGTCAAGACATCGAAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:105058854 original size:23 final size:24
Alignment explanation
Indices: 105058828--105058872 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
105058818 AAGGTAAGGT
*
105058828 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
105058851 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
105058873 GATGAGCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.22
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:105058972 original size:16 final size:16
Alignment explanation
Indices: 105058951--105058981 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
105058941 ATAAATTTGA
105058951 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
105058967 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
105058982 AATGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:105082363 original size:93 final size:93
Alignment explanation
Indices: 105082254--105082426 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
105082244 CGTCCATAAG
* * * *
105082254 CGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCGTAAGTAAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTAAACTCGGACTCAACTCA
*
105082319 ACGAGCTTGGATGCCTAGTAACATCTCA
66 ACGAGCTCGGATGCCTAGTAACATCTCA
* * * *
105082347 CGAACTCGGACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTGAACTTGGACTCGACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTAAACTCGGACTCAACTCA
105082412 ACGAGCTCGGATGCC
66 ACGAGCTCGGATGCC
105082427 CAAATATCCT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCGGACATTAGCATCCATAAGTAAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTAACATCTCA
Found at i:105082422 original size:46 final size:46
Alignment explanation
Indices: 105082246--105082422 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
105082236 ATGTAACCCG
* * * *
105082246 TCCATAAGCGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCA
1 TCCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTAGCA
* ** * * *
105082292 TCCGTAAGTAAACTCGGACTCAACTCAACGAGCTTGGATGCCTAGTAACA
1 TCCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTAGCA
*
105082342 T-C-TCA-CGAACTCGGACTCAACTCAACGAGCTCGGACATTAGCA
1 TCCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTAGCA
* * *
105082385 TCCATAAGTGAACTTGGACTCGACTCAACGAGCTCGGA
1 TCCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
105082423 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 20, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.57
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.20
Consensus pattern (46 bp):
TCCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTAGCA
Found at i:105085486 original size:93 final size:93
Alignment explanation
Indices: 105085327--105085498 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
105085317 GCCCATAAGT
* * *
105085327 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
105085392 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
105085420 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
105085485 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
105085499 CAAATATCCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:105085494 original size:46 final size:46
Alignment explanation
Indices: 105085319--105085494 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
105085309 TGTAACATGC
* * *
105085319 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
105085365 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
105085415 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
105085458 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
105085495 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 63 0.58
47 29 0.27
48 1 0.01
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:105089681 original size:19 final size:19
Alignment explanation
Indices: 105089657--105089696 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
105089647 AGCTCCCATG
105089657 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
105089676 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
105089695 TA
1 TA
105089697 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:105090968 original size:14 final size:14
Alignment explanation
Indices: 105090951--105090985 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
105090941 AATTTGTGCA
*
105090951 TACCATTTTGTTCC
1 TACCATTTCGTTCC
*
105090965 TACCCTTTCGTTCC
1 TACCATTTCGTTCC
105090979 TACCATT
1 TACCATT
105090986 CCATTCGTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.14, C:0.34, G:0.06, T:0.46
Consensus pattern (14 bp):
TACCATTTCGTTCC
Found at i:105099864 original size:13 final size:13
Alignment explanation
Indices: 105099846--105099874 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
105099836 CGGCTAACCT
105099846 ACATAATTAAATA
1 ACATAATTAAATA
105099859 ACATAATTAAATA
1 ACATAATTAAATA
105099872 ACA
1 ACA
105099875 CACAGCTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:105100132 original size:10 final size:10
Alignment explanation
Indices: 105100100--105100147 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
105100090 AAAAGGAATA
*
105100100 AGCTGAAACG
1 AGCTCAAACG
105100110 AGCT-AAATTCG
1 AGCTCAAA--CG
105100121 AGCTCAAACG
1 AGCTCAAACG
*
105100131 AGCTAAAACG
1 AGCTCAAACG
105100141 AGCTCAA
1 AGCTCAA
105100148 GTGAGCTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 3 0.09
10 21 0.64
11 6 0.18
12 3 0.09
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.15
Consensus pattern (10 bp):
AGCTCAAACG
Found at i:105100154 original size:20 final size:21
Alignment explanation
Indices: 105100100--105100147 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
105100090 AAAAGGAATA
* *
105100100 AGCTGAAACGAGCTAAATTCG
1 AGCTCAAACGAGCTAAATACG
105100121 AGCTCAAACGAGCTAAA-ACG
1 AGCTCAAACGAGCTAAATACG
105100141 AGCTCAA
1 AGCTCAA
105100148 GTGAGCTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.15
Consensus pattern (21 bp):
AGCTCAAACGAGCTAAATACG
Found at i:105101954 original size:105 final size:105
Alignment explanation
Indices: 105101829--105102046 Score: 373
Period size: 105 Copynumber: 2.1 Consensus size: 105
105101819 TTACATTAAT
* ** * *
105101829 TATAATAAAGATTTTGGTAAACTATATTTATTTAAATTTATATGCGAACCAAATTCATATATTAA
1 TATAATATAGATTTCAGTAAACTATATTTATTTAAATTTATATACAAACCAAATTCATATATTAA
*
105101894 TAGAATTATGTTCCCATTATGTGTACAACATCCTTGTACA
66 TAGAATTACGTTCCCATTATGTGTACAACATCCTTGTACA
105101934 TATAATATAGATTTCAGTAAACTATATTTATTTAAATTTATATACAAACCAAATTCATATATTAA
1 TATAATATAGATTTCAGTAAACTATATTTATTTAAATTTATATACAAACCAAATTCATATATTAA
*
105101999 TAGAATTACGTTCCCCTTATGTGTACAACATCCTTGTACA
66 TAGAATTACGTTCCCATTATGTGTACAACATCCTTGTACA
105102039 TATAATAT
1 TATAATAT
105102047 GTTCGGTATT
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 106 1.00
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (105 bp):
TATAATATAGATTTCAGTAAACTATATTTATTTAAATTTATATACAAACCAAATTCATATATTAA
TAGAATTACGTTCCCATTATGTGTACAACATCCTTGTACA
Found at i:105108639 original size:28 final size:28
Alignment explanation
Indices: 105108608--105108682 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
105108598 GGCCCACTGA
*
105108608 GCCCAATCATATTCATATGGCCCATTAG
1 GCCCAATCACATTCATATGGCCCATTAG
** *
105108636 GCCCAAATCACATTTTTATGGCCCGTTAG
1 GCCC-AATCACATTCATATGGCCCATTAG
* *
105108665 GCCTAGTCACATTCATAT
1 GCCCAATCACATTCATAT
105108683 TCATGCTCAC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 15 0.39
29 23 0.61
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.31
Consensus pattern (28 bp):
GCCCAATCACATTCATATGGCCCATTAG
Found at i:105108930 original size:16 final size:16
Alignment explanation
Indices: 105108911--105108945 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
105108901 CTTTTTGACA
* *
105108911 TTTCGGCATTTCGGCT
1 TTTCAGCATTTCAGCT
105108927 TTTCAGCATTTCAGCT
1 TTTCAGCATTTCAGCT
105108943 TTT
1 TTT
105108946 GCCGATACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.23, G:0.17, T:0.49
Consensus pattern (16 bp):
TTTCAGCATTTCAGCT
Found at i:105109325 original size:16 final size:16
Alignment explanation
Indices: 105109304--105109338 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
105109294 TAGAAAATTC
105109304 TGGATTTC-AGGATTTT
1 TGGATTTCGA-GATTTT
105109320 TGGATTTCGAGATTTT
1 TGGATTTCGAGATTTT
105109336 TGG
1 TGG
105109339 GGCATTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.94
17 1 0.06
ACGTcount: A:0.17, C:0.06, G:0.29, T:0.49
Consensus pattern (16 bp):
TGGATTTCGAGATTTT
Found at i:105115386 original size:20 final size:20
Alignment explanation
Indices: 105115361--105115400 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
105115351 GTACTTTGAA
105115361 AATGTATATATTAAAGTATG
1 AATGTATATATTAAAGTATG
105115381 AATGTATATATTAAAGTATG
1 AATGTATATATTAAAGTATG
105115401 GCATGTATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (20 bp):
AATGTATATATTAAAGTATG
Found at i:105117754 original size:38 final size:38
Alignment explanation
Indices: 105117703--105117780 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
105117693 TACTTCTGTG
*
105117703 ATTGCTTTGATAGATCCTGGGTCAACACATTCATATGT
1 ATTGCTTTGATAGATCCTGGATCAACACATTCATATGT
*
105117741 ATTGCTTTGATAGATCCTGGATCAACACATTCGTATGT
1 ATTGCTTTGATAGATCCTGGATCAACACATTCATATGT
105117779 AT
1 AT
105117781 GCATGAACAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (38 bp):
ATTGCTTTGATAGATCCTGGATCAACACATTCATATGT
Found at i:105121155 original size:20 final size:20
Alignment explanation
Indices: 105121132--105121179 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
105121122 TCCCAACTCG
*
105121132 ATTTAGCTCACATGAGCTTA
1 ATTTAGCTCACATGAGCTCA
***
105121152 ATTTAGCTCGTTTGAGCTCA
1 ATTTAGCTCACATGAGCTCA
105121172 ATTTAGCT
1 ATTTAGCT
105121180 TACTTTAGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.40
Consensus pattern (20 bp):
ATTTAGCTCACATGAGCTCA
Found at i:105121171 original size:30 final size:30
Alignment explanation
Indices: 105121128--105121199 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
105121118 TTTTTCCCAA
105121128 CTCGATTT-AGCTCACA-TGAGCTTAATTTAG
1 CTCG-TTTGAGCTCA-ATTGAGCTTAATTTAG
* *
105121158 CTCGTTTGAGCTCAATTTAGCTTACTTTAG
1 CTCGTTTGAGCTCAATTGAGCTTAATTTAG
105121188 CTCGTTTGAGCT
1 CTCGTTTGAGCT
105121200 TGGCTTAAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 4 0.11
30 34 0.89
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (30 bp):
CTCGTTTGAGCTCAATTGAGCTTAATTTAG
Found at i:105122640 original size:44 final size:42
Alignment explanation
Indices: 105122588--105122708 Score: 145
Period size: 44 Copynumber: 2.8 Consensus size: 42
105122578 GCGTTTTGTG
*
105122588 ATTTCGTGTAAGACCATGTCTGGGACATTGGCATCAACT-TCTG
1 ATTTCGTGTAAGACCATGTCTGGGACATTGGCATC--CTATCTA
* * *
105122631 TTTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTA
1 ATTT-CGTGTAAGACCATGTCTGGGACATTGGCATCCTATCTA
* * *
105122674 ATTTCGTGTAAGACCCTGTCTAGGACAGTGGCATC
1 ATTTCGTGTAAGACCATGTCTGGGACATTGGCATC
105122709 GATGTTTGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
42 28 0.42
43 9 0.13
44 30 0.45
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.31
Consensus pattern (42 bp):
ATTTCGTGTAAGACCATGTCTGGGACATTGGCATCCTATCTA
Found at i:105124520 original size:42 final size:43
Alignment explanation
Indices: 105124441--105124577 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 43
105124431 TCCTTGACGT
* **
105124441 GGTCTTACATGTAATTCAATATCGATGCCTCTCTCCCAGACAG
1 GGTCTTACATGTAAATCAATATCGATGCCGATCTCCCAGACAG
* *
105124484 GGTCTTACATG-AAATCAGATAT-GATGCCGATGTCCCAGACAT
1 GGTCTTACATGTAAATCA-ATATCGATGCCGATCTCCCAGACAG
* * * * * *
105124526 GGTCTTATACGTAAAT--ATCAGTCGAGGCCTATGTCCCAGACAC
1 GGTCTTACATGTAAATCAAT-A-TCGATGCCGATCTCCCAGACAG
105124569 GGTCTTACA
1 GGTCTTACA
105124578 CGATATCTCA
Statistics
Matches: 78, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
40 2 0.03
41 1 0.01
42 31 0.40
43 44 0.56
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAATATCGATGCCGATCTCCCAGACAG
Found at i:105124953 original size:10 final size:10
Alignment explanation
Indices: 105124940--105125006 Score: 71
Period size: 10 Copynumber: 6.5 Consensus size: 10
105124930 AGCTCACTTG
105124940 AGCTCGTTTT
1 AGCTCGTTTT
*
105124950 AGCTCGTTTG
1 AGCTCGTTTT
*
105124960 AGCTCGAATTT
1 AGCTCG-TTTT
*
105124971 AGCTCGTTTG
1 AGCTCGTTTT
*
105124981 AGCTCGAATTT
1 AGCTCG-TTTT
*
105124992 AGCTCGTTTC
1 AGCTCGTTTT
105125002 AGCTC
1 AGCTC
105125007 ATTCCTTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
10 30 0.65
11 16 0.35
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.39
Consensus pattern (10 bp):
AGCTCGTTTT
Found at i:105124973 original size:21 final size:21
Alignment explanation
Indices: 105124937--105125006 Score: 115
Period size: 21 Copynumber: 3.4 Consensus size: 21
105124927 ATCAGCTCAC
*
105124937 TTGAGCTCG-TTTTAGCTCGT
1 TTGAGCTCGAATTTAGCTCGT
105124957 TTGAGCTCGAATTTAGCTCGT
1 TTGAGCTCGAATTTAGCTCGT
105124978 TTGAGCTCGAATTTAGCTCGT
1 TTGAGCTCGAATTTAGCTCGT
*
105124999 TTCAGCTC
1 TTGAGCTC
105125007 ATTCCTTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
20 9 0.19
21 38 0.81
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (21 bp):
TTGAGCTCGAATTTAGCTCGT
Done.