Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 158 of 378
Found at i:45802599 original size:46 final size:46
Alignment explanation
Indices: 45802546--45802641 Score: 183
Period size: 46 Copynumber: 2.1 Consensus size: 46
45802536 TACTTATGCT
*
45802546 TAATGGTTACCAAATTCAAAGTAAAACACAATTATAGACTTGTAAA
1 TAATGGTTACCAAATTCAAAGTAAAACACAATTATACACTTGTAAA
45802592 TAATGGTTACCAAATTCAAAGTAAAACACAATTATACACTTGTAAA
1 TAATGGTTACCAAATTCAAAGTAAAACACAATTATACACTTGTAAA
45802638 TAAT
1 TAAT
45802642 CTTGATTAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (46 bp):
TAATGGTTACCAAATTCAAAGTAAAACACAATTATACACTTGTAAA
Found at i:45808578 original size:28 final size:28
Alignment explanation
Indices: 45808538--45808601 Score: 128
Period size: 28 Copynumber: 2.3 Consensus size: 28
45808528 CACAGACTAT
45808538 GACACGGGTGTGTCTAGGCCATGTGAGG
1 GACACGGGTGTGTCTAGGCCATGTGAGG
45808566 GACACGGGTGTGTCTAGGCCATGTGAGG
1 GACACGGGTGTGTCTAGGCCATGTGAGG
45808594 GACACGGG
1 GACACGGG
45808602 ATAAGGACAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.19, C:0.19, G:0.44, T:0.19
Consensus pattern (28 bp):
GACACGGGTGTGTCTAGGCCATGTGAGG
Found at i:45816663 original size:28 final size:29
Alignment explanation
Indices: 45816608--45816682 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 29
45816598 ATCTTCGATG
* * *
45816608 TCTCGCACACTAAGTGCC-TTACTTAATA
1 TCTCACACACCAAGTGCCATTACTCAATA
*
45816636 TCTCACATACCAAGTGCCATT-CTCAATA
1 TCTCACACACCAAGTGCCATTACTCAATA
* * *
45816664 TTTCGCACACTAAGTGCCA
1 TCTCACACACCAAGTGCCA
45816683 CACATATATA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 36 0.95
29 2 0.05
ACGTcount: A:0.29, C:0.31, G:0.11, T:0.29
Consensus pattern (29 bp):
TCTCACACACCAAGTGCCATTACTCAATA
Found at i:45816793 original size:40 final size:40
Alignment explanation
Indices: 45816707--45816782 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
45816697 TATATATATA
* *
45816707 TAGCCGAAGCTATCACAAATCGCACACCAAATGCCACATT
1 TAGCCAAAGCTATCACAAACCGCACACCAAATGCCACATT
* * *
45816747 TAGCCAAAGCTATCTCAAACCGCACACTAAGTGCCA
1 TAGCCAAAGCTATCACAAACCGCACACCAAATGCCA
45816783 TTCTTAGCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.37, C:0.33, G:0.13, T:0.17
Consensus pattern (40 bp):
TAGCCAAAGCTATCACAAACCGCACACCAAATGCCACATT
Found at i:45820866 original size:42 final size:42
Alignment explanation
Indices: 45820767--45820911 Score: 121
Period size: 42 Copynumber: 3.5 Consensus size: 42
45820757 CGATGCTATG
* * * * * * *
45820767 TCCCAAACATAGTCTTATACAAAATCACATATCGATGCCACA
1 TCCCAGACATAGTCTTACACATAATCTCATACCGAAGCCATA
* **
45820809 TCCTAGACACGGTCTTACACGA-AATCTCATACCGAAGCCATA
1 TCCCAGACATAGTCTTACAC-ATAATCTCATACCGAAGCCATA
* * * * * *
45820851 TCTCAGATATAGTCTTACACATAATTTCATATCGATGCCATG
1 TCCCAGACATAGTCTTACACATAATCTCATACCGAAGCCATA
*
45820893 TCCCAGACATGGTCTTACA
1 TCCCAGACATAGTCTTACA
45820912 TTTATCACAA
Statistics
Matches: 80, Mismatches: 21, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
41 1 0.01
42 78 0.98
43 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.27
Consensus pattern (42 bp):
TCCCAGACATAGTCTTACACATAATCTCATACCGAAGCCATA
Found at i:45820941 original size:36 final size:37
Alignment explanation
Indices: 45820901--45820984 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 37
45820891 TGTCCCAGAC
**
45820901 ATGGTCTTACA-TTTATCACAATGCCATAGCCCAAAT
1 ATGGTCTTACAGGCTATCACAATGCCATAGCCCAAAT
* * * **
45820937 ATGGTCTTACAGGCTATTACAATGCTATAGCCTAGTT
1 ATGGTCTTACAGGCTATCACAATGCCATAGCCCAAAT
45820974 ATGGTCTTACA
1 ATGGTCTTACA
45820985 CGTACTCACA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 11 0.28
37 29 0.73
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.33
Consensus pattern (37 bp):
ATGGTCTTACAGGCTATCACAATGCCATAGCCCAAAT
Found at i:45822915 original size:2 final size:2
Alignment explanation
Indices: 45822908--45822941 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
45822898 ATCGGGTATG
45822908 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45822942 AGTATGCCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45823422 original size:24 final size:24
Alignment explanation
Indices: 45823390--45823596 Score: 333
Period size: 24 Copynumber: 8.6 Consensus size: 24
45823380 TATCTCAAAT
*
45823390 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
45823414 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
45823438 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
45823462 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
45823486 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
45823510 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
45823534 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
45823558 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
45823582 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
45823597 ACATAATAAG
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 177 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:45830672 original size:2 final size:2
Alignment explanation
Indices: 45830665--45830691 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
45830655 ATCGGGTATG
45830665 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
45830692 GCCCATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45831164 original size:24 final size:24
Alignment explanation
Indices: 45831132--45831288 Score: 246
Period size: 24 Copynumber: 6.6 Consensus size: 24
45831122 TATCTCAAAT
*
45831132 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
45831156 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
45831180 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
45831204 GCACTATGTGTGCGATTT-CTATG
1 GCACTATGTGTGCGATTTACTATG
*
45831227 GCACTGTGTGTGCGATTTACT-TG
1 GCACTATGTGTGCGATTTACTATG
* *
45831250 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
45831274 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
45831289 ACATAATAAG
Statistics
Matches: 123, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
23 43 0.35
24 80 0.65
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:45831282 original size:70 final size:72
Alignment explanation
Indices: 45831132--45831288 Score: 246
Period size: 70 Copynumber: 2.2 Consensus size: 72
45831122 TATCTCAAAT
45831132 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATT
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATT
*
45831197 CACTATG
66 CACTATA
* *
45831204 GCACTATGTGTGCGATT-TCTATGGCACTGTGTGTGCGATTTACT-TGGCACTATGTGTGCGATT
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATT
**
45831267 TGCTATA
66 CACTATA
*
45831274 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
45831289 ACATAATAAG
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
70 37 0.47
71 25 0.32
72 17 0.22
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.36
Consensus pattern (72 bp):
GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATT
CACTATA
Found at i:45831302 original size:94 final size:95
Alignment explanation
Indices: 45831132--45831310 Score: 256
Period size: 94 Copynumber: 1.9 Consensus size: 95
45831122 TATCTCAAAT
* *
45831132 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATT
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATA
*
45831197 CACTATGGCACTATGTGTGCGATTTCTATG
66 CACTATAGCACTATGTGTGCGATTTCTATG
* * * *
45831227 GCACTGTGTGTGCGATTTACT-TGGCACTATGTGTGCGATTTGCTATAGCTCTATGTGTGCGA-A
1 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATA
45831290 CA-TAATAAGCACTATGTGTGC
66 CACT-AT-AGCACTATGTGTGC
45831311 CACATTCGGT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
92 1 0.01
93 4 0.05
94 51 0.68
95 19 0.25
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (95 bp):
GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGATA
CACTATAGCACTATGTGTGCGATTTCTATG
Found at i:45838837 original size:24 final size:24
Alignment explanation
Indices: 45838805--45838987 Score: 294
Period size: 24 Copynumber: 7.6 Consensus size: 24
45838795 TATCTCAAAT
*
45838805 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
45838829 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
45838853 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
45838877 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
45838901 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
45838925 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* * *
45838949 GCACTATGTGTGTGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
45838973 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
45838988 ACATAATAAG
Statistics
Matches: 151, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 151 1.00
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:45839000 original size:48 final size:48
Alignment explanation
Indices: 45838805--45839009 Score: 214
Period size: 48 Copynumber: 4.3 Consensus size: 48
45838795 TATCTCAAAT
* * ** * *
45838805 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGACATAATATA
* * ** * *
45838853 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGACATAATATA
* ** **
45838901 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGACATAATATA
* * *
45838949 GCACTATGTGTGTGATTTGCTATAGCTCTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCG-ACATAATATA
45838997 GCACTATGTGTGC
1 GCACTATGTGTGC
45839010 CACATTCGGT
Statistics
Matches: 144, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
48 140 0.97
49 4 0.03
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.36
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGACATAATATA
Found at i:45839001 original size:72 final size:72
Alignment explanation
Indices: 45838805--45839009 Score: 241
Period size: 72 Copynumber: 2.8 Consensus size: 72
45838795 TATCTCAAAT
* * ** * *
45838805 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATT
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATT
*
45838870 CACTATG
66 CACTATA
* ** * *
45838877 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATT
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATT
**
45838942 TGCTATA
66 CACTATA
* * *
45838949 GCACTATGTGTGTGATTTGCTATAGCTCTATGTGTGCGAACATAATA-AGCACTATGTGTGC
1 GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCG-ACATAATATAGCACTATGTGTGC
45839010 CACATTCGGT
Statistics
Matches: 120, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
72 115 0.96
73 5 0.04
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.36
Consensus pattern (72 bp):
GCACTATGTGTGCGATTTACTATAGCACTATGTGTGCGACATAATATAGCACTATGTGTGCGATT
CACTATA
Found at i:45843907 original size:29 final size:29
Alignment explanation
Indices: 45843874--45844033 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
45843864 GTGACGAGAT
45843874 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
45843903 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
45843932 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
45843961 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
45843990 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
45844019 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
45844034 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:45852065 original size:29 final size:29
Alignment explanation
Indices: 45852032--45852191 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
45852022 GTGACGAGAT
45852032 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
45852061 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
45852090 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
45852119 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
45852148 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
45852177 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
45852192 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:45860328 original size:2 final size:2
Alignment explanation
Indices: 45860321--45860363 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
45860311 CTATGTTATC
45860321 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45860361 AT A
1 AT A
45860364 AAAGAAGGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:45860605 original size:2 final size:2
Alignment explanation
Indices: 45860587--45860627 Score: 66
Period size: 2 Copynumber: 20.5 Consensus size: 2
45860577 CTACTAATCT
45860587 TA TA TCA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
45860628 GAAGTTCCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 34 0.92
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:45870169 original size:39 final size:39
Alignment explanation
Indices: 45870112--45870303 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
45870102 GTTCAAAACA
* * * * *
45870112 CCTTCGGGACATAGCCCGGTTAT-GTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
45870151 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
45870191 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
45870230 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
45870269 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
45870304 TTCATTCACA
Statistics
Matches: 139, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
39 119 0.86
40 20 0.14
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:45878874 original size:40 final size:39
Alignment explanation
Indices: 45878830--45879022 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
45878820 GTTCAAAACA
* * ** * *
45878830 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
45878870 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
45878910 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
45878949 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
45878988 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
45879023 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:45878941 original size:39 final size:39
Alignment explanation
Indices: 45878860--45879022 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
45878850 TATGGTAACC
* *
45878860 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
45878900 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
45878939 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
45878978 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
45879017 CGCACA
1 CGCACA
45879023 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:45886838 original size:40 final size:39
Alignment explanation
Indices: 45886794--45886986 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
45886784 GTTCAAAACA
* * ** * *
45886794 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
45886834 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
45886874 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
45886913 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
45886952 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
45886987 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:45886905 original size:39 final size:39
Alignment explanation
Indices: 45886824--45886986 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
45886814 TATGGTAACC
* *
45886824 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
45886864 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
45886903 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
45886942 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
45886981 CGCACA
1 CGCACA
45886987 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:45889175 original size:19 final size:18
Alignment explanation
Indices: 45889138--45889177 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
45889128 GGGTAAGCCG
45889138 TGTGGTCACACACGCCCA
1 TGTGGTCACACACGCCCA
* *
45889156 TGTGGCTCAGACACGTCCA
1 TGTGG-TCACACACGCCCA
45889175 TGT
1 TGT
45889178 TCTCAGCTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.20, C:0.33, G:0.25, T:0.23
Consensus pattern (18 bp):
TGTGGTCACACACGCCCA
Found at i:45897735 original size:16 final size:16
Alignment explanation
Indices: 45897714--45897746 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45897704 AGATAAAGAA
45897714 AATAAAAATAAA-ATAT
1 AATAAAAA-AAACATAT
45897730 AATAAAAAAAACATAT
1 AATAAAAAAAACATAT
45897746 A
1 A
45897747 GTGGAAGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (16 bp):
AATAAAAAAAACATAT
Found at i:45900028 original size:34 final size:33
Alignment explanation
Indices: 45899985--45900048 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
45899975 TTCAGTCAAG
* *
45899985 GCCTTAGCCCAT-TACAGTATCAGTATCAGTGTGA
1 GCCTGAGCCCATCT-CAGTAACAGTA-CAGTGTGA
45900019 GCCTGAGCCCATCTCAGTAACAGTACAGTG
1 GCCTGAGCCCATCTCAGTAACAGTACAGTG
45900049 CAGATATGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 5 0.19
34 21 0.78
35 1 0.04
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (33 bp):
GCCTGAGCCCATCTCAGTAACAGTACAGTGTGA
Found at i:45911345 original size:29 final size:29
Alignment explanation
Indices: 45911302--45911404 Score: 93
Period size: 29 Copynumber: 3.6 Consensus size: 29
45911292 GGTTGAAAAA
45911302 CTCGCACACACAGTGCCTCAATTACCGAT
1 CTCGCACACACAGTGCCTCAATTACCGAT
* * ** **
45911331 CTCGCAAACATAGTG-CTCGGTTAAAGGAAT
1 CTCGCACACACAGTGCCTCAATT-ACCG-AT
*
45911361 -TCGCACACACAGTGCCTCAATTACTGAT
1 CTCGCACACACAGTGCCTCAATTACCGAT
* *
45911389 CTCACACACATAGTGC
1 CTCGCACACACAGTGC
45911405 TCGGTTAAAG
Statistics
Matches: 56, Mismatches: 14, Indels: 8
0.72 0.18 0.10
Matches are distributed among these distances:
28 7 0.12
29 42 0.75
30 7 0.12
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (29 bp):
CTCGCACACACAGTGCCTCAATTACCGAT
Found at i:45911382 original size:58 final size:58
Alignment explanation
Indices: 45911271--45911435 Score: 253
Period size: 58 Copynumber: 2.9 Consensus size: 58
45911261 CCCACTGACT
* *
45911271 GATCTCGTACACATAGTGCTCGGTTGAAA--AACTCGCACACACAGTGCCTCAATTACC
1 GATCTCGCACACATAGTGCTCGGTT-AAAGGAATTCGCACACACAGTGCCTCAATTACC
* *
45911328 GATCTCGCAAACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACT
1 GATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACC
* *
45911386 GATCTCACACACATAGTGCTCGGTTAAAGGAATTTGCACACACAGTGCCT
1 GATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCT
45911436 GTACACTACG
Statistics
Matches: 99, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
56 3 0.03
57 23 0.23
58 73 0.74
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (58 bp):
GATCTCGCACACATAGTGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACC
Found at i:45911425 original size:29 final size:29
Alignment explanation
Indices: 45911332--45911433 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 29
45911322 ATTACCGATC
* *
45911332 TCGCAAACATAGTGCTCGGTTAAAGGAAT
1 TCGCACACACAGTGCTCGGTTAAAGGAAT
** **
45911361 TCGCACACACAGTGCCTCAATT-ACTG-AT
1 TCGCACACACAGTG-CTCGGTTAAAGGAAT
* *
45911389 CTCACACACATAGTGCTCGGTTAAAGGAAT
1 -TCGCACACACAGTGCTCGGTTAAAGGAAT
*
45911419 TTGCACACACAGTGC
1 TCGCACACACAGTGC
45911434 CTGTACACTA
Statistics
Matches: 54, Mismatches: 15, Indels: 8
0.70 0.19 0.10
Matches are distributed among these distances:
28 7 0.13
29 40 0.74
30 7 0.13
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (29 bp):
TCGCACACACAGTGCTCGGTTAAAGGAAT
Found at i:45915358 original size:59 final size:59
Alignment explanation
Indices: 45915266--45915386 Score: 215
Period size: 59 Copynumber: 2.1 Consensus size: 59
45915256 AAACTATTAT
* * *
45915266 TTTATTTTAAGAAGGTTTACAGCATGATAGAATTATTATGTGAAATTTTTGTAAAGAAA
1 TTTATTTTAAGAAGGTTTACAGCATGATAGAATTATTATATGAAAGTTTCGTAAAGAAA
45915325 TTTATTTTAAGAAGGTTTACAGCATGATAGAATTATTATATGAAAGTTTCGTAAAGAAA
1 TTTATTTTAAGAAGGTTTACAGCATGATAGAATTATTATATGAAAGTTTCGTAAAGAAA
45915384 TTT
1 TTT
45915387 TACTGTTTGA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.39, C:0.04, G:0.17, T:0.40
Consensus pattern (59 bp):
TTTATTTTAAGAAGGTTTACAGCATGATAGAATTATTATATGAAAGTTTCGTAAAGAAA
Found at i:45916628 original size:23 final size:23
Alignment explanation
Indices: 45916529--45916631 Score: 93
Period size: 23 Copynumber: 4.5 Consensus size: 23
45916519 AGCTCGTGAA
* * * *
45916529 AGCTTACTATTTTTAGCTCATTGG
1 AGCTTACT-GTTTCAGCTCAATAG
** *
45916553 AGCTTACCATTTCAGCTC-GTATG
1 AGCTTACTGTTTCAGCTCAATA-G
* *
45916576 AGCTTACTG-TTCAACTCTATAG
1 AGCTTACTGTTTCAGCTCAATAG
45916598 AGCTTACTGTTTCAGCTCAATAG
1 AGCTTACTGTTTCAGCTCAATAG
45916621 AGCTTACTGTT
1 AGCTTACTGTT
45916632 CATCAGCTTG
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
22 18 0.28
23 40 0.62
24 7 0.11
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (23 bp):
AGCTTACTGTTTCAGCTCAATAG
Found at i:45917845 original size:108 final size:107
Alignment explanation
Indices: 45917653--45917852 Score: 244
Period size: 108 Copynumber: 1.9 Consensus size: 107
45917643 CCCCCTAGAT
* *
45917653 GGCACACGGCCTAGCACACGGGCATGTGACTTGGCCTTGTTGATAAGTCAGTATACCCTACAGTT
1 GGCACACGGCCTAGCACACGAGCATGTGACTTGGCCTTGTTGACAAGTCAGTATACCCTACAGTT
** * *
45917718 TTTGCATAGCCTGATACACGGGTGTGTATGGCCATTTCAAAG
66 TTCACACAGCCTGACACACGGGTGTGTATGGCCATTTCAAAG
* * * *
45917760 GGCACACGGGCTAGACACACGAGCGTGTG-GTTGGCCTTG-TGACCCAAGTCAGTAT-CCTCTCC
1 GGCACACGGCCTAG-CACACGAGCATGTGACTTGGCCTTGTTGA--CAAGTCAGTATACC-CTAC
*
45917822 AGTTTTCACACAGCCTGGCACACGGGTGTGT
62 AGTTTTCACACAGCCTGACACACGGGTGTGT
45917853 TCTCGACCAT
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
106 3 0.04
107 24 0.31
108 51 0.65
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.25
Consensus pattern (107 bp):
GGCACACGGCCTAGCACACGAGCATGTGACTTGGCCTTGTTGACAAGTCAGTATACCCTACAGTT
TTCACACAGCCTGACACACGGGTGTGTATGGCCATTTCAAAG
Found at i:45923994 original size:27 final size:27
Alignment explanation
Indices: 45923956--45924014 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
45923946 ACCCAAAGAA
45923956 ACATACTGTGAAGTGTAAACATATGTT
1 ACATACTGTGAAGTGTAAACATATGTT
45923983 ACATACTGTGAAGTGTAAACATATGTT
1 ACATACTGTGAAGTGTAAACATATGTT
45924010 ACATA
1 ACATA
45924015 ATTACTAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (27 bp):
ACATACTGTGAAGTGTAAACATATGTT
Found at i:45929109 original size:27 final size:28
Alignment explanation
Indices: 45929052--45929121 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
45929042 AAAATTGTAC
**
45929052 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
45929080 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
45929107 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
45929122 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:45929130 original size:27 final size:28
Alignment explanation
Indices: 45929023--45929133 Score: 102
Period size: 27 Copynumber: 4.0 Consensus size: 28
45929013 GACAAGATTG
* * *
45929023 GCACTAAGTGTGCGGATTTAAAATTGTACA
1 GCACTAAGTGTGCGGACTT--AATTATATA
* * *
45929053 GCACTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCGGACTTAATTATATA
* *
45929081 GCACTATGTGTGC-GAGC-TGATTATATA
1 GCACTAAGTGTGCGGA-CTTAATTATATA
45929108 GCACTAAGTGTGCGGACTT-ATTATAT
1 GCACTAAGTGTGCGGACTTAATTATAT
45929134 GCTTTTGCAT
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
27 31 0.44
28 21 0.30
30 18 0.26
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGGACTTAATTATATA
Found at i:45937029 original size:27 final size:28
Alignment explanation
Indices: 45936972--45937041 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
45936962 AAAATTGTAC
**
45936972 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
45937000 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
45937027 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
45937042 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:45937050 original size:27 final size:28
Alignment explanation
Indices: 45936943--45937053 Score: 102
Period size: 27 Copynumber: 4.0 Consensus size: 28
45936933 GACAAGATTG
* * *
45936943 GCACTAAGTGTGCGGATTTAAAATTGTACA
1 GCACTAAGTGTGCGGACTT--AATTATATA
* * *
45936973 GCACTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCGGACTTAATTATATA
* *
45937001 GCACTATGTGTGC-GAGC-TGATTATATA
1 GCACTAAGTGTGCGGA-CTTAATTATATA
45937028 GCACTAAGTGTGCGGACTT-ATTATAT
1 GCACTAAGTGTGCGGACTTAATTATAT
45937054 GCTTTTGCAT
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
27 31 0.44
28 21 0.30
30 18 0.26
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGGACTTAATTATATA
Found at i:45939723 original size:12 final size:12
Alignment explanation
Indices: 45939702--45939758 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
45939692 TAATAATAAT
45939702 ATTA-TATTAAA
1 ATTATTATTAAA
45939713 ATTATTATT-AA
1 ATTATTATTAAA
45939724 A-TATTATTAATA
1 ATTATTATTAA-A
45939736 ATTA-TATTAAGA
1 ATTATTATTAA-A
*
45939748 A-TGTTATTAAA
1 ATTATTATTAAA
45939759 TTGTGTATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 7 0.18
11 10 0.26
12 20 0.51
13 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (12 bp):
ATTATTATTAAA
Found at i:45939731 original size:13 final size:13
Alignment explanation
Indices: 45939699--45939732 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
45939689 TCTTAATAAT
45939699 AATATTA-TATTA
1 AATATTATTATTA
45939711 AA-ATTATTATTA
1 AATATTATTATTA
45939723 AATATTATTA
1 AATATTATTA
45939733 ATAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 9 0.45
13 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATTATTATTA
Found at i:45940627 original size:8 final size:9
Alignment explanation
Indices: 45940609--45940643 Score: 56
Period size: 8 Copynumber: 4.1 Consensus size: 9
45940599 AAAAATTTTC
45940609 ATGCATTCT
1 ATGCATTCT
45940618 ATGC-TTCT
1 ATGCATTCT
45940626 ATGCATTCT
1 ATGCATTCT
45940635 ATGC-TTCT
1 ATGCATTCT
45940643 A
1 A
45940644 ACACCACCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 13 0.52
9 12 0.48
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (9 bp):
ATGCATTCT
Found at i:45940631 original size:17 final size:17
Alignment explanation
Indices: 45940609--45940643 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
45940599 AAAAATTTTC
45940609 ATGCATTCTATGCTTCT
1 ATGCATTCTATGCTTCT
45940626 ATGCATTCTATGCTTCT
1 ATGCATTCTATGCTTCT
45940643 A
1 A
45940644 ACACCACCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (17 bp):
ATGCATTCTATGCTTCT
Found at i:45950374 original size:39 final size:40
Alignment explanation
Indices: 45950201--45950443 Score: 325
Period size: 40 Copynumber: 6.2 Consensus size: 40
45950191 TGGATGATAA
* * *
45950201 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGCCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
*
45950241 CGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* *
45950281 CAAAGGTATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
45950321 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT-C
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
45950360 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCT-AGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * * * *
45950399 CGAAGACATTTGAGCGAG-TAGCTATATTC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
45950438 CGAAGG
1 CGAAGG
45950444 TACTTGGTTT
Statistics
Matches: 182, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
38 8 0.04
39 66 0.36
40 107 0.59
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:45958469 original size:39 final size:40
Alignment explanation
Indices: 45958270--45958473 Score: 299
Period size: 40 Copynumber: 5.2 Consensus size: 40
45958260 TGGATGATAA
* *
45958270 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
45958310 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
45958350 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
45958390 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCT-AGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * * *
45958429 CGAAGACATTTGAGCGAG-TAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
45958468 CGAAGG
1 CGAAGG
45958474 TACTTGGTTT
Statistics
Matches: 152, Mismatches: 9, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
38 5 0.03
39 37 0.24
40 109 0.72
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:45962096 original size:41 final size:43
Alignment explanation
Indices: 45962039--45962150 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 43
45962029 TCAATACCAT
* *
45962039 TGTCCCAGACAGGGTCTTACACGAATCAT-A-TACGATGCCAA
1 TGTCCCAGACATGGTCTTACATGAATCATCACTACGATGCCAA
* ** *
45962080 TGTCCCAAACATGGTCTTACATGTTTTC-TCACTTCGATGCCAA
1 TGTCCCAGACATGGTCTTACATG-AATCATCACTACGATGCCAA
*
45962123 TGTCCTAGACATGGTCTTACATGAATCA
1 TGTCCCAGACATGGTCTTACATGAATCA
45962151 CGCATCGAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
41 21 0.37
42 5 0.09
43 31 0.54
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACATGAATCATCACTACGATGCCAA
Found at i:45964363 original size:28 final size:27
Alignment explanation
Indices: 45964300--45964369 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
45964290 ATAGTGAGTC
45964300 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
45964327 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
45964355 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45964370 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:45972237 original size:27 final size:27
Alignment explanation
Indices: 45972219--45972315 Score: 176
Period size: 27 Copynumber: 3.6 Consensus size: 27
45972209 ATAGTGAGTC
*
45972219 CGCACACTTAGTGCTATATATTCAACT
1 CGCACACTTAGTGCTATATAATCAACT
45972246 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
45972273 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
45972301 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45972316 GTACAAATTT
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
27 49 0.72
28 19 0.28
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:45977186 original size:24 final size:24
Alignment explanation
Indices: 45977154--45977247 Score: 109
Period size: 24 Copynumber: 3.9 Consensus size: 24
45977144 AAGTGAATTT
*
45977154 TGATAATTCTGGGCCACATTCGGC
1 TGATAATTCTGAGCCACATTCGGC
* *
45977178 TGATAATTCTGGGCCACATTC-GA
1 TGATAATTCTGAGCCACATTCGGC
* *
45977201 TATATAATTCTGAGCCACATTTGGC
1 T-GATAATTCTGAGCCACATTCGGC
* *
45977226 AGATAATTTTGAGCCACATTCG
1 TGATAATTCTGAGCCACATTCG
45977248 ACTATGGTCC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
23 2 0.03
24 56 0.95
25 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (24 bp):
TGATAATTCTGAGCCACATTCGGC
Found at i:45977231 original size:48 final size:48
Alignment explanation
Indices: 45977156--45977248 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
45977146 GTGAATTTTG
* * *
45977156 ATAATTCTGGGCCACATTCGGCTGATAATTCTGGGCCACATTCGATAT
1 ATAATTCTGAGCCACATTCGGCAGATAATTCTGAGCCACATTCGATAT
* *
45977204 ATAATTCTGAGCCACATTTGGCAGATAATTTTGAGCCACATTCGA
1 ATAATTCTGAGCCACATTCGGCAGATAATTCTGAGCCACATTCGA
45977249 CTATGGTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (48 bp):
ATAATTCTGAGCCACATTCGGCAGATAATTCTGAGCCACATTCGATAT
Found at i:45986063 original size:28 final size:27
Alignment explanation
Indices: 45986032--45986092 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
45986022 GCAAATAACA
* * *
45986032 ATAAGCACCAAAGTGTAAAATAATATTG
1 ATAAGCAACAAAGTGCAAAATAATA-CG
*
45986060 ATAAGCAACAAAGTGCAACATAATACG
1 ATAAGCAACAAAGTGCAAAATAATACG
45986087 ATAAGC
1 ATAAGC
45986093 GAGCTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 7 0.24
28 22 0.76
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.20
Consensus pattern (27 bp):
ATAAGCAACAAAGTGCAAAATAATACG
Found at i:45988149 original size:15 final size:15
Alignment explanation
Indices: 45988129--45988161 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
45988119 ACTCTATCCA
45988129 ACACACCAAAGTTCT
1 ACACACCAAAGTTCT
45988144 ACACACCAAAGTTCT
1 ACACACCAAAGTTCT
45988159 ACA
1 ACA
45988162 TTTCCCCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.33, G:0.06, T:0.18
Consensus pattern (15 bp):
ACACACCAAAGTTCT
Found at i:45999652 original size:42 final size:42
Alignment explanation
Indices: 45999605--45999693 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
45999595 CTAGCACACG
*
45999605 CCCGTGTGTCCCATACAGCTTGACACATGCCGATGTCACCTA
1 CCCGTGTGTCCCATACAGCTTGACACATGCCGATATCACCTA
*
45999647 CCCGTGTGTCCCATACAGCTTGACACATGCCGATATCACCTG
1 CCCGTGTGTCCCATACAGCTTGACACATGCCGATATCACCTA
45999689 CCCGT
1 CCCGT
45999694 ATGATCCTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.20, C:0.37, G:0.19, T:0.24
Consensus pattern (42 bp):
CCCGTGTGTCCCATACAGCTTGACACATGCCGATATCACCTA
Found at i:46006731 original size:25 final size:24
Alignment explanation
Indices: 46006698--46006746 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 24
46006688 CTGGTTGTGT
46006698 CAATTAAGTGCTTCAGCCAAAACC
1 CAATTAAGTGCTTCAGCCAAAACC
46006722 CAATATAAGTGCTTCAGCCAAAACC
1 CAAT-TAAGTGCTTCAGCCAAAACC
46006747 GACTTCAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.39, C:0.29, G:0.12, T:0.20
Consensus pattern (24 bp):
CAATTAAGTGCTTCAGCCAAAACC
Found at i:46011323 original size:27 final size:27
Alignment explanation
Indices: 46011284--46011335 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
46011274 TGTCATAATC
* *
46011284 GTCCCATTGTGCATTTTAATTTTAACG
1 GTCCCATTATGCATCTTAATTTTAACG
46011311 GTCCCATTATGCATCTTAATTTTAA
1 GTCCCATTATGCATCTTAATTTTAA
46011336 TGGTACCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (27 bp):
GTCCCATTATGCATCTTAATTTTAACG
Found at i:46013360 original size:22 final size:22
Alignment explanation
Indices: 46013326--46013371 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
46013316 TCTTTTAACA
*
46013326 CACAAACATTCAATTATAATGG
1 CACAAACAATCAATTATAATGG
* *
46013348 CACAATCAATCAATTATATTGG
1 CACAAACAATCAATTATAATGG
46013370 CA
1 CA
46013372 TAATACATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (22 bp):
CACAAACAATCAATTATAATGG
Found at i:46017533 original size:48 final size:48
Alignment explanation
Indices: 46017465--46017832 Score: 438
Period size: 48 Copynumber: 7.7 Consensus size: 48
46017455 CCATGCTAAA
* *
46017465 TGTGCCTA-TGTAAGACCATGTCTGGGACATGGCATCAGTGATGATATG
1 TGTGCC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
* * *
46017513 TGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGATATA
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
* *
46017561 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGATATA
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
* * * * * *
46017609 AGTGCCAATGTAAGATCATTTCTGGGACATGGCATTGGGGATGATATG
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
* * **
46017657 TGAGCCGGTGTAAGAATATGTCTGGGACATGGCATCGGCGATGATATG
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
* * * *
46017705 TATGCCGGTGTAAGACCATGTTTGGGACATGGCATCGGTGATGATATG
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
* * * *
46017753 TGTGCCAGTGTAAGACCATGTCTAGAAGATGGCATCGGCGATGAGATG
1 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
*
46017801 TAGAT-TCA-TGTAAGACCATGTC-GGAGACATGG
1 T-G-TGCCAGTGTAAGACCATGTCTGG-GACATGG
46017833 AATTGGTACT
Statistics
Matches: 275, Mismatches: 41, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
47 2 0.01
48 269 0.98
49 3 0.01
50 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (48 bp):
TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
Found at i:46020769 original size:40 final size:40
Alignment explanation
Indices: 46020725--46020874 Score: 221
Period size: 40 Copynumber: 3.8 Consensus size: 40
46020715 ATAACCACAA
46020725 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
46020765 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
* * *** *
46020805 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
*
46020845 GCACGAA-TGCCTTCGGGTCTTAGCCCGGAT
1 GCAC-AATTGCCTTCGGGTCTTAACCCGGAT
46020875 ATAATCACTA
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 101 0.98
41 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
Found at i:46020875 original size:40 final size:40
Alignment explanation
Indices: 46020709--46020912 Score: 214
Period size: 40 Copynumber: 5.1 Consensus size: 40
46020699 CGGGATTCAA
* * *
46020709 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
* *** * *
46020749 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
* *** *
46020789 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
*
46020829 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCAC-AATTGCCTTCGGGTCTTAGC
* * *
46020869 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTAGCACAATTGCCTTCGGGTCTTAGC
46020909 CCGG
1 CCGG
46020913 GTATCATTCA
Statistics
Matches: 145, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
39 2 0.01
40 140 0.97
41 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAACAACTAGCACAATTGCCTTCGGGTCTTAGC
Found at i:46023199 original size:93 final size:93
Alignment explanation
Indices: 46023087--46023258 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
46023077 CGCCCATAAG
* *
46023087 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
46023152 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
46023180 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
46023245 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
46023259 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:46023255 original size:46 final size:46
Alignment explanation
Indices: 46023080--46023255 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
46023070 TGTAACCCGC
* * *
46023080 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
46023126 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
46023176 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
46023219 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
46023256 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:46030759 original size:93 final size:93
Alignment explanation
Indices: 46030647--46030818 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
46030637 CGCCCATAAG
* *
46030647 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
46030712 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
46030740 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
46030805 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
46030819 TCAACCATCC
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:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:46030815 original size:46 final size:46
Alignment explanation
Indices: 46030640--46030815 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
46030630 TGTAACCCGC
* *
46030640 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
46030686 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
46030736 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
46030779 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
46030816 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.58
47 28 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:46036834 original size:33 final size:33
Alignment explanation
Indices: 46036797--46036866 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
46036787 GCTTGAGACC
46036797 ATGATATATATGCATGCCTGTGTGAAAATATCG
1 ATGATATATATGCATGCCTGTGTGAAAATATCG
46036830 ATGATATATATGCATGCCTGTGTGAAAATATCG
1 ATGATATATATGCATGCCTGTGTGAAAATATCG
46036863 ATGA
1 ATGA
46036867 GAAATTTTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (33 bp):
ATGATATATATGCATGCCTGTGTGAAAATATCG
Found at i:46038023 original size:48 final size:48
Alignment explanation
Indices: 46037956--46038223 Score: 383
Period size: 48 Copynumber: 5.6 Consensus size: 48
46037946 AAATGTGCTT
* * * * *
46037956 GTGTAAGACCATATTTGGGACATGGAATCGGCGATGATATGTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCA
* *
46038004 GTGTAAGACCATGTCTGGGACATGGCATTGACGATGATATATGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCA
* * * * *
46038052 GTGTAAAACCATGTCTGAGACATGACATTGGCGATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCA
*
46038100 GTGTAAGACCATGTCTGGGACATGGCATCGACAATGATATGTGTGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCA
* * * *
46038148 GTGTAAGATCATGTTTGGGACATGGCATCGATGATGATATGTGTGCCC
1 GTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCA
46038196 GTGTAAGACCATGTCTGGGACATGGCAT
1 GTGTAAGACCATGTCTGGGACATGGCAT
46038224 TGGTACTTTA
Statistics
Matches: 195, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 195 1.00
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACGATGATATGTGTGCCA
Found at i:46045009 original size:7 final size:7
Alignment explanation
Indices: 46044997--46045021 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46044987 CATAATATAA
46044997 AAAATTT
1 AAAATTT
46045004 AAAATTT
1 AAAATTT
46045011 AAAATTT
1 AAAATTT
46045018 AAAA
1 AAAA
46045022 AGGATTGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
AAAATTT
Found at i:46055441 original size:62 final size:62
Alignment explanation
Indices: 46055344--46055468 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
46055334 TAAGGAAAAG
46055344 ACAATTATCTAAAAAAGAATATGATAGATGTCGAATAGAAACACCAGGAAACATAGTCATCT
1 ACAATTATCTAAAAAAGAATATGATAGATGTCGAATAGAAACACCAGGAAACATAGTCATCT
* *
46055406 ACAATTATCTAAAAAAGAATGTGGTAGATGTCGAATAGAAACACCAGGAAACATAGTCATCT
1 ACAATTATCTAAAAAAGAATATGATAGATGTCGAATAGAAACACCAGGAAACATAGTCATCT
46055468 A
1 A
46055469 ATCAACATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.22
Consensus pattern (62 bp):
ACAATTATCTAAAAAAGAATATGATAGATGTCGAATAGAAACACCAGGAAACATAGTCATCT
Found at i:46055512 original size:15 final size:15
Alignment explanation
Indices: 46055494--46055523 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
46055484 TCCTCTATCT
46055494 AGTCTTTCTCTAATA
1 AGTCTTTCTCTAATA
46055509 AGTCTTTCTCTAATA
1 AGTCTTTCTCTAATA
46055524 TTCATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (15 bp):
AGTCTTTCTCTAATA
Found at i:46057269 original size:24 final size:24
Alignment explanation
Indices: 46057237--46057323 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
46057227 AATCTCAAAT
46057237 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
46057261 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
46057285 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
46057309 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
46057324 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:46057289 original size:48 final size:48
Alignment explanation
Indices: 46057237--46057345 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
46057227 AATCTCAAAT
** *
46057237 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
46057285 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
46057333 GCACTATGTGTGC
1 GCACTATGTGTGC
46057346 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:46057336 original size:24 final size:24
Alignment explanation
Indices: 46057237--46057345 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
46057227 AATCTCAAAT
*
46057237 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
46057261 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
46057285 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
46057309 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
46057333 GCACTATGTGTGC
1 GCACTATGTGTGC
46057346 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:46065097 original size:24 final size:24
Alignment explanation
Indices: 46065065--46065151 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
46065055 AATCTCAAAT
46065065 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
46065089 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
46065113 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
46065137 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
46065152 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:46065117 original size:48 final size:48
Alignment explanation
Indices: 46065065--46065173 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
46065055 AATCTCAAAT
** *
46065065 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
46065113 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
46065161 GCACTATGTGTGC
1 GCACTATGTGTGC
46065174 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:46065164 original size:24 final size:24
Alignment explanation
Indices: 46065065--46065173 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
46065055 AATCTCAAAT
*
46065065 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
46065089 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
46065113 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
46065137 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
46065161 GCACTATGTGTGC
1 GCACTATGTGTGC
46065174 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:46075993 original size:13 final size:13
Alignment explanation
Indices: 46075975--46076002 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
46075965 GACAAAGGAG
46075975 ATGGTTAGAATTA
1 ATGGTTAGAATTA
46075988 ATGGTTAGAATTA
1 ATGGTTAGAATTA
46076001 AT
1 AT
46076003 TAAGGATTAT
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:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (13 bp):
ATGGTTAGAATTA
Found at i:46086853 original size:28 final size:27
Alignment explanation
Indices: 46086790--46086859 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
46086780 ATAGTGAGTC
46086790 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
46086817 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
46086845 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46086860 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:46094779 original size:28 final size:27
Alignment explanation
Indices: 46094716--46094785 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
46094706 ATAGTGAGTC
46094716 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
46094743 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
46094771 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46094786 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:46099274 original size:23 final size:23
Alignment explanation
Indices: 46099222--46099334 Score: 113
Period size: 23 Copynumber: 4.9 Consensus size: 23
46099212 AGCTCCTCCT
* *
46099222 GAGCTGATGAACAATAAGCTCTATT
1 GAGCTGA--AACAGTAAGCTCTATC
* **
46099247 AAGCTGAAATGGTAAGCTCTATC
1 GAGCTGAAACAGTAAGCTCTATC
* *
46099270 GAGCT-AAACAGTAAGCTCAAAC
1 GAGCTGAAACAGTAAGCTCTATC
*
46099292 GAGCTGAAACAGTAAGCTCCAAT-
1 GAGCTGAAACAGTAAGCT-CTATC
46099315 GAGCTGAAACAGTAAGCTCT
1 GAGCTGAAACAGTAAGCTCT
46099335 TAGGAGTTGA
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
22 19 0.26
23 46 0.62
24 3 0.04
25 6 0.08
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.21
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCTATC
Found at i:46102644 original size:70 final size:69
Alignment explanation
Indices: 46102445--46102947 Score: 286
Period size: 70 Copynumber: 7.2 Consensus size: 69
46102435 TTCAGCTCAC
* * * * *
46102445 ACTAACTATTTTAGAAGCTAT-GATATTGAACCTGTGAGCCTTAAGATTATAGTTGGGAGCTTAG
1 ACTAACTATTTTGGAGGCTGTAG-TATTGAACCTGTGAGCCTTAAGATCATAGTTGGGAGCTTGG
46102509 GCTCT
65 GCTCT
* * * * *
46102514 CGCTAATTGTTTTGGA-GCTGTAGTATTGAACCTGTGAGCTTTAA-AGCTATAGTTGGGAGCTTG
1 -ACTAACTATTTTGGAGGCTGTAGTATTGAACCTGTGAGCCTTAAGATC-ATAGTTGGGAGCTTG
*
46102577 GGATCGT
64 GGCTC-T
* * * * **
46102584 ACTAACTATTTTGGAGGCTGTGGTATTGAACCTATGAGCCTTAAGATCGTAGCTAAGAGCTTGGG
1 ACTAACTATTTTGGAGGCTGTAGTATTGAACCTGTGAGCCTTAAGATCATAGTTGGGAGCTTGGG
46102649 CTCT
66 CTCT
* * * ** * * *
46102653 TCTTAACTATTTTGGAGGCTGCAGTATTGAACATGCAAGCCTTAA-AGCTACAGTTGGGTGCTTG
1 AC-TAACTATTTTGGAGGCTGTAGTATTGAACCTGTGAGCCTTAAGATC-ATAGTTGGGAGCTTG
46102717 GGCTCT
64 GGCTCT
* * * * * * * * *
46102723 CGCTAATTGTTTTAGATGCTG-CGATATTGAACCTATGAGCCTTAAGATCATAGATGGCAGCTTG
1 -ACTAACTATTTTGGAGGCTGTAG-TATTGAACCTGTGAGCCTTAAGATCATAGTTGGGAGCTTG
* *
46102787 AGCATTT
64 GGC-TCT
** * * * * * * * * *
46102794 GTTAACTTTTTTGGAGGCTGTGGAATTGAACTTGGGAGCCTCAA-AACTACAGTTGGGAGCTTGA
1 ACTAACTATTTTGGAGGCTGTAGTATTGAACCTGTGAGCCTTAAGATC-ATAGTTGGGAGCTTGG
*
46102858 GCTAT
65 GCTCT
* ** * * * * * *
46102863 CGCT-ACT-TGTTTCAAAGCCTGTAGCATTGAACCTGCGAGTCTTAA-AGCTACAGTTGGGAGCT
1 -ACTAACTAT-TTT-GGAGGCTGTAGTATTGAACCTGTGAGCCTTAAGATC-ATAGTTGGGAGCT
*
46102925 TGAGCTCT
62 TGGGCTCT
46102933 CACTAACTATTTTGG
1 -ACTAACTATTTTGG
46102948 GGGAGACTAT
Statistics
Matches: 331, Mismatches: 84, Indels: 36
0.73 0.19 0.08
Matches are distributed among these distances:
68 2 0.01
69 69 0.21
70 245 0.74
71 14 0.04
72 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (69 bp):
ACTAACTATTTTGGAGGCTGTAGTATTGAACCTGTGAGCCTTAAGATCATAGTTGGGAGCTTGGG
CTCT
Found at i:46102755 original size:140 final size:139
Alignment explanation
Indices: 46102411--46102874 Score: 405
Period size: 140 Copynumber: 3.3 Consensus size: 139
46102401 TGAACCTGTA
* * * ** * * * * * **
46102411 AGCCCTAAAGCAACAGTTAGGAGCTTCAGCTCACACTAACTATTTTAGAAGCTATGATATTGAAC
1 AGCCTTAAAGCTACAGTTGGGAGCTTGGGCTCTCGCTAATTGTTTTAGAGGCTGCGATATTGAAC
* * * * * * *
46102476 CTGTGAGCCTTAAGATTATAGTTGGGAGCTTAGGCTC-TCGCTAATTGTTTTGGA-GCTGTAGTA
66 CTATGAGCCTTAAGATCATAGAT-GGAGCTTGGGCTCTTC-TTAACTATTTTGGAGGCTGTAGTA
* *
46102539 TTGAACCTGTG
129 TTGAACATGCG
* * * * * * * * *
46102550 AGCTTTAAAGCTATAGTTGGGAGCTTGGGATCGT-ACTAACTATTTTGGAGGCTGTGGTATTGAA
1 AGCCTTAAAGCTACAGTTGGGAGCTTGGGCTC-TCGCTAATTGTTTTAGAGGCTGCGATATTGAA
* * * *
46102614 CCTATGAGCCTTAAGATCGTAGCTAAGAGCTTGGGCTCTTCTTAACTATTTTGGAGGCTGCAGTA
65 CCTATGAGCCTTAAGATCATAGAT-GGAGCTTGGGCTCTTCTTAACTATTTTGGAGGCTGTAGTA
*
46102679 TTGAACATGCA
129 TTGAACATGCG
* *
46102690 AGCCTTAAAGCTACAGTTGGGTGCTTGGGCTCTCGCTAATTGTTTTAGATGCTGCGATATTGAAC
1 AGCCTTAAAGCTACAGTTGGGAGCTTGGGCTCTCGCTAATTGTTTTAGAGGCTGCGATATTGAAC
* * * * *
46102755 CTATGAGCCTTAAGATCATAGATGGCAGCTTGAGCAT-TTGTTAACTTTTTTGGAGGCTGTGGAA
66 CTATGAGCCTTAAGATCATAGATGG-AGCTTGGGC-TCTTCTTAACTATTTTGGAGGCTGTAGTA
* *
46102819 TTGAACTTGGG
129 TTGAACATGCG
* * * * *
46102830 AGCCTCAAAACTACAGTTGGGAGCTTGAGCTATCGCTACTTGTTT
1 AGCCTTAAAGCTACAGTTGGGAGCTTGGGCTCTCGCTAATTGTTT
46102875 CAAAGCCTGT
Statistics
Matches: 263, Mismatches: 56, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
139 94 0.36
140 168 0.64
141 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (139 bp):
AGCCTTAAAGCTACAGTTGGGAGCTTGGGCTCTCGCTAATTGTTTTAGAGGCTGCGATATTGAAC
CTATGAGCCTTAAGATCATAGATGGAGCTTGGGCTCTTCTTAACTATTTTGGAGGCTGTAGTATT
GAACATGCG
Found at i:46109348 original size:25 final size:25
Alignment explanation
Indices: 46109320--46109371 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
46109310 TGAAAAGTGT
46109320 TATGTGATG-CTTTCTTGATCTTTTC
1 TATGTGATGTC-TTCTTGATCTTTTC
46109345 TATGTGATGTCTTCTTGATCTTTTC
1 TATGTGATGTCTTCTTGATCTTTTC
46109370 TA
1 TA
46109372 CTTCTTCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.13, C:0.15, G:0.15, T:0.56
Consensus pattern (25 bp):
TATGTGATGTCTTCTTGATCTTTTC
Found at i:46110523 original size:20 final size:20
Alignment explanation
Indices: 46110495--46110543 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
46110485 CATGTTATAG
* *
46110495 CTATTCATGATTTGACTCCA
1 CTATTCATGAGTTGACCCCA
*
46110515 CTGTTCATGAGTTGACCCCA
1 CTATTCATGAGTTGACCCCA
46110535 CTATTCATG
1 CTATTCATG
46110544 GGACTAACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.37
Consensus pattern (20 bp):
CTATTCATGAGTTGACCCCA
Found at i:46115273 original size:29 final size:29
Alignment explanation
Indices: 46115241--46115375 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
46115231 ATACCCTCCT
** * *
46115241 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
46115270 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
46115299 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
46115328 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
46115357 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
46115376 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:46115308 original size:58 final size:58
Alignment explanation
Indices: 46115188--46115376 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
46115178 TACTCGATTT
* * *** *
46115188 CGCACACTTAGTGCCACGTA-ATTT-AAGC-CGCACACACAGTGCCATA-CCCTCCTAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
46115245 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
46115303 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
46115361 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
46115377 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 23, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
55 4 0.04
56 4 0.04
57 14 0.13
58 80 0.76
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:46123221 original size:29 final size:29
Alignment explanation
Indices: 46123189--46123323 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
46123179 ATACCCTCCG
** * *
46123189 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
46123218 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
46123247 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
46123276 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
46123305 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
46123324 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:46123256 original size:58 final size:58
Alignment explanation
Indices: 46123135--46123324 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
46123125 TACTCGATTT
* * * *** *
46123135 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
46123193 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
46123251 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
46123309 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
46123325 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:46128898 original size:29 final size:29
Alignment explanation
Indices: 46128866--46129000 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
46128856 ATACCCTCCG
** * *
46128866 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
46128895 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
46128924 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
46128953 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
46128982 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
46129001 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:46128933 original size:58 final size:58
Alignment explanation
Indices: 46128812--46129001 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
46128802 TACTCGATTT
* * * *** *
46128812 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
46128870 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
46128928 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
46128986 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
46129002 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:46129130 original size:2 final size:2
Alignment explanation
Indices: 46129123--46129147 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
46129113 CATTTTCATT
46129123 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
46129148 CATCCCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:46133361 original size:27 final size:27
Alignment explanation
Indices: 46133295--46133364 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
46133285 GTCCTGACAG
* *
46133295 ACCCCATGTTTAATGTCTCGACAAACT
1 ACCCCATGTTTAGTGTCTAGACAAACT
*
46133322 ACCCCATGTTTAGTGTCCTAG-CTAACT
1 ACCCCATGTTTAGTGT-CTAGACAAACT
46133349 ACCCCATGTTTAGTGT
1 ACCCCATGTTTAGTGT
46133365 TTGGAAACAC
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
27 36 0.92
28 3 0.08
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (27 bp):
ACCCCATGTTTAGTGTCTAGACAAACT
Found at i:46142056 original size:68 final size:68
Alignment explanation
Indices: 46141977--46142132 Score: 156
Period size: 68 Copynumber: 2.2 Consensus size: 68
46141967 CATCATGTGT
* * * * * * *
46141977 ACAAGAAAGCTACGAGATACTATATAGTAGCCAGGTCACATGTGTGA-T-ACGGGATGTATC-CC
1 ACAAGAGAGCTACGAGAGA-TAAAT-GTAGCCAGGTCACATGCGTGATTCAAGGGAAGGA-CACC
46142039 ATGTAG
63 ATGTAG
* *
46142045 ACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGCGTGATTCCAAGTGAAGGACACC
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCCAGGTCACATGCGTGATT-CAAGGGAAGGACACC
46142110 ATGTAG
63 ATGTAG
46142116 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
46142133 CAAATCGGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
68 31 0.42
69 9 0.12
70 6 0.08
71 27 0.37
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGAGATAAATGTAGCCAGGTCACATGCGTGATTCAAGGGAAGGACACCATG
TAG
Found at i:46144075 original size:66 final size:67
Alignment explanation
Indices: 46143998--46144127 Score: 174
Period size: 66 Copynumber: 2.0 Consensus size: 67
46143988 AGACTTCCCG
* ** *
46143998 TGTTTACTATCCCAGCGGACTCTCTATT-ATGTCATAGCCGA-CTATAGTCTTACACAACATACC
1 TGTTTACTATCCCAGCGAACTCTCT-TTGATACCATAGCCAAGCTATAGTCTTACACAACATACC
46144061 TCC
65 TCC
* * *
46144064 TGTTTACTATCCCAGTGAACTCTCTTTGCTACCATAGCCAAGCTATGGTCTTACACAACATACC
1 TGTTTACTATCCCAGCGAACTCTCTTTGATACCATAGCCAAGCTATAGTCTTACACAACATACC
46144128 CCGTATTTAC
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
65 2 0.04
66 32 0.58
67 21 0.38
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (67 bp):
TGTTTACTATCCCAGCGAACTCTCTTTGATACCATAGCCAAGCTATAGTCTTACACAACATACCT
CC
Found at i:46144153 original size:67 final size:66
Alignment explanation
Indices: 46144030--46144195 Score: 151
Period size: 67 Copynumber: 2.5 Consensus size: 66
46144020 TCTATTATGT
* * *
46144030 CATAGCCGA-CTATAGTCTTACACAACATACCTCCTGTTTACTATCCCAGTGAACTCTCTT-TGC
1 CATAGCCAAGCTATGGTCTTACACAACATACC-CCTATTTACTATCCCAGTGAACTCT-TTATGC
46144093 TAC
64 TAC
* *
46144096 CATAGCCAAGCTATGGTCTTACACAACATACCCCGTATTTACTGTCTCGACG-G-ACTCTTTATG
1 CATAGCCAAGCTATGGTCTTACACAACATACCCC-TATTTACTATC-CCA-GTGAACTCTTTATG
*
46144159 CTGC
63 CTAC
* ** * * *
46144163 CGTAGATAGGCTATGGTCTTATACAACACACCC
1 CATAGCCAAGCTATGGTCTTACACAACATACCC
46144196 TATGTTTATT
Statistics
Matches: 83, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
66 12 0.14
67 67 0.81
68 3 0.04
69 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (66 bp):
CATAGCCAAGCTATGGTCTTACACAACATACCCCTATTTACTATCCCAGTGAACTCTTTATGCTA
C
Found at i:46151689 original size:42 final size:42
Alignment explanation
Indices: 46151631--46151721 Score: 173
Period size: 42 Copynumber: 2.2 Consensus size: 42
46151621 CGTGCAGGGG
*
46151631 ACACACGGCCGGACCACACGCCCATGGGGCAGACCGTGTGTC
1 ACACACGACCGGACCACACGCCCATGGGGCAGACCGTGTGTC
46151673 ACACACGACCGGACCACACGCCCATGGGGCAGACCGTGTGTC
1 ACACACGACCGGACCACACGCCCATGGGGCAGACCGTGTGTC
46151715 ACACACG
1 ACACACG
46151722 GCCTAGACGC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.24, C:0.38, G:0.29, T:0.09
Consensus pattern (42 bp):
ACACACGACCGGACCACACGCCCATGGGGCAGACCGTGTGTC
Found at i:46152619 original size:46 final size:47
Alignment explanation
Indices: 46152569--46152676 Score: 121
Period size: 46 Copynumber: 2.3 Consensus size: 47
46152559 CACGTCCTAA
* * *
46152569 ACATGTCTTACATTAGC-TTACGTCTCGAGGCCGAAG-CATGTCCCAG
1 ACATGTCTTACACTAGCACT-CGTCTCAAGGCCGAAGCCATGTCCCAG
* * * *
46152615 ACATGTCTGACACTAGCACTCGTCTCAATGTCGATGCCATGTCCCAG
1 ACATGTCTTACACTAGCACTCGTCTCAAGGCCGAAGCCATGTCCCAG
46152662 ACATGGTCTTACACT
1 ACAT-GTCTTACACT
46152677 GGCTCTCATA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
46 27 0.53
47 15 0.29
48 9 0.18
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
ACATGTCTTACACTAGCACTCGTCTCAAGGCCGAAGCCATGTCCCAG
Found at i:46159118 original size:23 final size:23
Alignment explanation
Indices: 46159064--46159124 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 23
46159054 GACACATAAA
46159064 GTGCCT-AAA-ACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
46159085 GTGCCTG--ATACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
*
46159106 GTGCCTGAAATACAACACA
1 GTGCCTGAAATACGACACA
46159125 TAAAGTGCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
20 1 0.03
21 25 0.71
23 9 0.26
ACGTcount: A:0.36, C:0.28, G:0.23, T:0.13
Consensus pattern (23 bp):
GTGCCTGAAATACGACACACGAG
Found at i:46159132 original size:23 final size:23
Alignment explanation
Indices: 46159049--46159136 Score: 76
Period size: 21 Copynumber: 4.0 Consensus size: 23
46159039 ACTTGATCAG
* *
46159049 AATATGACACATAAAGTGCCT-A
1 AATACGACACACAAAGTGCCTGA
* *
46159071 AA-ACGACACACGAGGTGCCTG-
1 AATACGACACACAAAGTGCCTGA
* *
46159092 -ATACGACACACGAGGTGCCTGA
1 AATACGACACACAAAGTGCCTGA
* *
46159114 AATACAACACATAAAGTGCCTGA
1 AATACGACACACAAAGTGCCTGA
46159137 TCAGTAAAGC
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.61
22 2 0.04
23 18 0.33
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (23 bp):
AATACGACACACAAAGTGCCTGA
Found at i:46160658 original size:8 final size:8
Alignment explanation
Indices: 46160645--46160671 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
46160635 TCTTTTCTGT
46160645 TTTGTTTC
1 TTTGTTTC
46160653 TTTGTTTC
1 TTTGTTTC
46160661 TTTGTTTC
1 TTTGTTTC
46160669 TTT
1 TTT
46160672 ATTTTTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.78
Consensus pattern (8 bp):
TTTGTTTC
Found at i:46161002 original size:3 final size:3
Alignment explanation
Indices: 46160994--46161031 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
46160984 TTACTTCATT
* *
46160994 TAA TAA TAA TAA CAA TAC TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
46161032 TAAAACCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:46161081 original size:24 final size:22
Alignment explanation
Indices: 46161051--46161097 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
46161041 AATGATGGTT
*
46161051 TATAATTA-TATATAATATTTA
1 TATAATAATTATATAATATTTA
46161072 TATAATAATTATATAATATTTA
1 TATAATAATTATATAATATTTA
46161094 TATA
1 TATA
46161098 TAACCTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATAATAATTATATAATATTTA
Found at i:46161100 original size:13 final size:11
Alignment explanation
Indices: 46161059--46161097 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
46161049 TTTATAATTA
46161059 TATATAATATT
1 TATATAATATT
*
46161070 TATATAATAAT
1 TATATAATATT
46161081 TATATAATATT
1 TATATAATATT
46161092 TATATA
1 TATATA
46161098 TAACCTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TATATAATATT
Found at i:46161109 original size:22 final size:22
Alignment explanation
Indices: 46161062--46161109 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
46161052 ATAATTATAT
* *
46161062 ATAATATTTATATAATAATTAT
1 ATAATATTTATATAATAACTAA
46161084 ATAATATTTATAT-ATAACCTAA
1 ATAATATTTATATAATAA-CTAA
46161106 ATAA
1 ATAA
46161110 AATCTTAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
ATAATATTTATATAATAACTAA
Found at i:46164010 original size:17 final size:17
Alignment explanation
Indices: 46163988--46164021 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46163978 TTCTTGATCG
46163988 TCACTTTATTCAACTGT
1 TCACTTTATTCAACTGT
46164005 TCACTTTATTCAACTGT
1 TCACTTTATTCAACTGT
46164022 CGATAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.47
Consensus pattern (17 bp):
TCACTTTATTCAACTGT
Found at i:46167333 original size:23 final size:22
Alignment explanation
Indices: 46167295--46167355 Score: 90
Period size: 21 Copynumber: 2.8 Consensus size: 22
46167285 GACACATAAA
*
46167295 GTGCCT-AAAACGACACACGAG
1 GTGCCTGAATACGACACACGAG
46167316 GTGCCTG-ATACGACACACGAG
1 GTGCCTGAATACGACACACGAG
46167337 GTGCCTGAAATACGACACA
1 GTGCCTG-AATACGACACA
46167356 TAAAGTGCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
21 26 0.72
23 10 0.28
ACGTcount: A:0.34, C:0.28, G:0.25, T:0.13
Consensus pattern (22 bp):
GTGCCTGAATACGACACACGAG
Found at i:46167363 original size:23 final size:23
Alignment explanation
Indices: 46167280--46167367 Score: 85
Period size: 21 Copynumber: 4.0 Consensus size: 23
46167270 ACCTGATCAG
* *
46167280 AATATGACACATAAAGTGCCT-A
1 AATACGACACACAAAGTGCCTGA
* *
46167302 AA-ACGACACACGAGGTGCCTG-
1 AATACGACACACAAAGTGCCTGA
* *
46167323 -ATACGACACACGAGGTGCCTGA
1 AATACGACACACAAAGTGCCTGA
*
46167345 AATACGACACATAAAGTGCCTGA
1 AATACGACACACAAAGTGCCTGA
46167368 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.60
22 2 0.04
23 19 0.35
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
AATACGACACACAAAGTGCCTGA
Found at i:46168893 original size:8 final size:8
Alignment explanation
Indices: 46168880--46168906 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
46168870 TCTTTTCTGT
46168880 TTTGTTTC
1 TTTGTTTC
46168888 TTTGTTTC
1 TTTGTTTC
46168896 TTTGTTTC
1 TTTGTTTC
46168904 TTT
1 TTT
46168907 ATTTTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.78
Consensus pattern (8 bp):
TTTGTTTC
Found at i:46169238 original size:3 final size:3
Alignment explanation
Indices: 46169230--46169267 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
46169220 TTACTTCATT
* *
46169230 TAA TAA TAA TAA TAA CAA TAC TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
46169268 TAAAACCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:46169317 original size:24 final size:22
Alignment explanation
Indices: 46169287--46169333 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
46169277 AATGATGGTT
*
46169287 TATAATTA-TATATAATATTTA
1 TATAATAATTATATAATATTTA
46169308 TATAATAATTATATAATATTTA
1 TATAATAATTATATAATATTTA
46169330 TATA
1 TATA
46169334 TAACCTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATAATAATTATATAATATTTA
Found at i:46169336 original size:13 final size:11
Alignment explanation
Indices: 46169295--46169333 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
46169285 TTTATAATTA
46169295 TATATAATATT
1 TATATAATATT
*
46169306 TATATAATAAT
1 TATATAATATT
46169317 TATATAATATT
1 TATATAATATT
46169328 TATATA
1 TATATA
46169334 TAACCTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TATATAATATT
Found at i:46169345 original size:22 final size:22
Alignment explanation
Indices: 46169298--46169345 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
46169288 ATAATTATAT
* *
46169298 ATAATATTTATATAATAATTAT
1 ATAATATTTATATAATAACTAA
46169320 ATAATATTTATAT-ATAACCTAA
1 ATAATATTTATATAATAA-CTAA
46169342 ATAA
1 ATAA
46169346 AATCTTAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
ATAATATTTATATAATAACTAA
Found at i:46173220 original size:46 final size:44
Alignment explanation
Indices: 46173122--46173237 Score: 144
Period size: 46 Copynumber: 2.6 Consensus size: 44
46173112 GTGTCAATGC
*
46173122 CATGTCCCAGACATGGTCTTACACTAACACATCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAACACATCTCGTAGCCGAAG
* ** *
46173167 CACGTCCCAGACATGTCTTACACTGGCTTACGTCTCG-AGGCCGAAG
1 CATGTCCCAGACATGTCTTACACTAAC--ACATCTCGTA-GCCGAAG
46173213 CATGTCCCAGACATGTCTTACACTA
1 CATGTCCCAGACATGTCTTACACTA
46173238 GCACTCATCT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
44 11 0.18
45 14 0.23
46 36 0.59
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTAACACATCTCGTAGCCGAAG
Found at i:46173303 original size:94 final size:92
Alignment explanation
Indices: 46173122--46173338 Score: 203
Period size: 94 Copynumber: 2.3 Consensus size: 92
46173112 GTGTCAATGC
46173122 CATGTCCCAGACATGGTCTTACACTA--ACACATCTCGTAGCCGATGCACGTCCCAGACATGTCT
1 CATGTCCCAGACAT-GTCTTACACTAGCACACATCTCGTAGCCGATGCACGTCCCAGACATGTCT
***
46173185 TACACTGGCTTACGTCTCGAGGCCGA-A
65 TACACTGGCTTACAAATCGAGGCCGATA
* ** *
46173212 GCATGTCCCAGACATGTCTTACACTAGCACTCATCTCTGT-GTTGATGCCATGTCCCAGACATGG
1 -CATGTCCCAGACATGTCTTACACTAGCACACATCTC-GTAGCCGATG-CACGTCCCAGACAT-G
* *
46173276 TTTTACACTGGCTCT-CAAAAT-GTGGCCGATA
62 TCTTACACTGGCT-TAC-AAATCGAGGCCGATA
* * * * *
46173307 CTTATCCTAAACATGTCTTACACTAGCTCACA
1 CATGTCCCAGACATGTCTTACACTAGCACACA
46173339 CAAGTGACCC
Statistics
Matches: 103, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
90 11 0.11
91 14 0.14
92 13 0.13
93 15 0.15
94 47 0.46
95 3 0.03
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTAGCACACATCTCGTAGCCGATGCACGTCCCAGACATGTCTT
ACACTGGCTTACAAATCGAGGCCGATA
Found at i:46176349 original size:40 final size:40
Alignment explanation
Indices: 46176284--46176527 Score: 303
Period size: 40 Copynumber: 6.1 Consensus size: 40
46176274 CGGAATACAA
* ** * * *
46176284 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
46176324 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
46176364 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
46176404 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
46176444 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
** * * *
46176484 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
46176524 CCGG
1 CCGG
46176528 GTATCATTCA
Statistics
Matches: 182, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 181 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:46176682 original size:64 final size:64
Alignment explanation
Indices: 46176614--46176802 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
46176604 GAACACAAAC
46176614 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
46176678 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
46176735 AC
63 AT
46176737 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
46176801 AT
1 AT
46176803 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:46176715 original size:123 final size:123
Alignment explanation
Indices: 46176496--46176834 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
46176486 GGATATAATT
* * * * * * *
46176496 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
46176561 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
46176619 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
46176684 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
46176742 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
46176807 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
46176835 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:46186630 original size:40 final size:40
Alignment explanation
Indices: 46186565--46186808 Score: 303
Period size: 40 Copynumber: 6.1 Consensus size: 40
46186555 CGGAATACAA
* ** * * *
46186565 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
46186605 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
46186645 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
46186685 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
46186725 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
** * * *
46186765 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
46186805 CCGG
1 CCGG
46186809 GTATCATTCA
Statistics
Matches: 182, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 181 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:46186963 original size:64 final size:64
Alignment explanation
Indices: 46186895--46187083 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
46186885 GAACACAAAC
46186895 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
46186959 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
46187016 AC
63 AT
46187018 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
46187082 AT
1 AT
46187084 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:46186996 original size:123 final size:123
Alignment explanation
Indices: 46186777--46187115 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
46186767 GGATATAATT
* * * * * * *
46186777 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
46186842 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
46186900 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
46186965 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
46187023 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
46187088 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
46187116 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:46189748 original size:21 final size:20
Alignment explanation
Indices: 46189703--46189748 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
46189693 TTGTTGGGAT
46189703 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
46189722 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
46189743 GGTTGA
1 GGTTGA
46189749 TTGCGTTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:46195302 original size:78 final size:80
Alignment explanation
Indices: 46195207--46195357 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
46195197 GGTTATAGCG
* * * *
46195207 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
46195269 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
46195285 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
46195350 AGCCCGGA
66 AGCCCGGA
46195358 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:46195357 original size:40 final size:39
Alignment explanation
Indices: 46195155--46195357 Score: 176
Period size: 40 Copynumber: 5.1 Consensus size: 39
46195145 CGGAATTTAA
* * * **
46195155 CCGGATATAATGACTCGCTCAAATGCCTTCGGGACGAAGC
1 CCGGATATAGTAACTCGCAC-AATGCCTTCGGGACTTAGC
* ** *
46195195 CCGGTTATAGCGACTCGCACGAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCAC-AATGCCTTCGGGACTTAGC
* * *
46195235 CCGGGTTTAGTAACTTGCACAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGC
* * * *
46195273 CCGGATTTATTAACTCGCACGAATGCCTTC-GGATCCTAGT
1 CCGGATATAGTAACTCGCAC-AATGCCTTCGGGA-CTTAGC
* * *
46195313 CCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAATGCCTTCGGGACTTAGC
46195353 CCGGA
1 CCGGA
46195358 CATCATTCGA
Statistics
Matches: 132, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
38 24 0.18
39 21 0.16
40 79 0.60
41 8 0.06
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGC
Done.