Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 32 of 328
Found at i:9258065 original size:133 final size:133
Alignment explanation
Indices: 9257657--9258034 Score: 370
Period size: 133 Copynumber: 2.9 Consensus size: 133
9257647 ATCTTCGCTG
* * ** *
9257657 AGCAGGAGTGGAGCAGATCAAATTTTGGC-GAGTCTTATCTCCATGTATCGACAATGGAGCAGAT
1 AGCAAGAGTGGAACAGATCAAATTTCAGCGGA-TCTTATCTCCATGTATCGGCAATGGAGCAGAT
* * * * * * * ** * * *
9257721 TTCAGCTACAAGCCTT-ATTCTACTGAGCAGGAGTGG-AACGGGTTAAATATAGCAGATCTCATC
65 GTCAACCACCAGCCTTAACTCCACTAAGCAGGAG-GGAAACAAGCTAAAAATAGCAGATCTCATT
9257784 CCACT
129 CCACT
* * * * * *
9257789 GGCAGGAGTGGAACAGATCAAATTTCAGCGGATTTTGTCTCCATGTATCGGTAATGGAGCAGATT
1 AGCAAGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCCATGTATCGGCAATGGAGCAGATG
* * * * * *
9257854 TCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGAAACAAGCTAAATATAGCAGATCTCATTCC
66 TCAACCACCAGCCTTAACTCCACTAAGCAGGAGGGAAACAAGCTAAAAATAGCAGATCTCATTCC
9257919 ACT
131 ACT
* *
9257922 GGCAGGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCCATGTATCGGCAATGGAGCAGA-G
1 AGCAAGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCCATGTATCGGCAATGGAGCAGATG
* * * * *
9257986 TCAAACCACCAGTCTTAAC-CCCCTAAGCAGTAGGGTAACAGGCTAAAAA
66 TC-AACCACCAGCCTTAACTCCACTAAGCAGGAGGGAAACAAGCTAAAAA
9258035 CTACATATCT
Statistics
Matches: 208, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
132 92 0.44
133 116 0.56
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (133 bp):
AGCAAGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCCATGTATCGGCAATGGAGCAGATG
TCAACCACCAGCCTTAACTCCACTAAGCAGGAGGGAAACAAGCTAAAAATAGCAGATCTCATTCC
ACT
Found at i:9258140 original size:44 final size:44
Alignment explanation
Indices: 9258092--9258237 Score: 174
Period size: 44 Copynumber: 3.3 Consensus size: 44
9258082 CAGGCTTTAA
9258092 CTCCCTAAGCAATAGGGTAACAAGCTGAAGATTACAGATCTTAT
1 CTCCCTAAGCAATAGGGTAACAAGCTGAAGATTACAGATCTTAT
* * * * * *
9258136 CTCCCTAAGTAATAGTGG--AGAAGATCAAAGA-TACACGCT-TTAG
1 CTCCCTAAGCAATAG-GGTAACAAGCT-GAAGATTACA-GATCTTAT
*
9258179 CTCCCTAAGCAATAGGGTAACAAGCTGAAGATTATAGATCTTAT
1 CTCCCTAAGCAATAGGGTAACAAGCTGAAGATTACAGATCTTAT
9258223 CTCCCTAAGCAATAG
1 CTCCCTAAGCAATAG
9258238 TGGAGCAGAT
Statistics
Matches: 82, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 32 0.39
44 46 0.56
45 2 0.02
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (44 bp):
CTCCCTAAGCAATAGGGTAACAAGCTGAAGATTACAGATCTTAT
Found at i:9258200 original size:87 final size:87
Alignment explanation
Indices: 9258000--9258306 Score: 386
Period size: 87 Copynumber: 3.5 Consensus size: 87
9257990 ACCACCAGTC
* * * * * * * *
9258000 TTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAACTACATATCTTGTCTCCTTAAGCAATAGTG
1 TTAACTCCCTAAGCAATAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAATAGTG
* * *
9258065 G-GACAGATTAAAAATAGCAGGCT
66 GAGA-AGATCAAAGATA-CACGCT
* *
9258088 TTAACTCCCTAAGCAATAGGGTAACAAGCTGAAGATTACAGATCTTATCTCCCTAAGTAATAGTG
1 TTAACTCCCTAAGCAATAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAATAGTG
9258153 GAGAAGATCAAAGATACACGCT
66 GAGAAGATCAAAGATACACGCT
* * *
9258175 TTAGCTCCCTAAGCAATAGGGTAACAAGCTGAAGATTATAGATCTTATCTCCCTAAGCAATAGTG
1 TTAACTCCCTAAGCAATAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAATAGTG
* *
9258240 GAGCAGATCAAAGATACACGCC
66 GAGAAGATCAAAGATACACGCT
*
9258262 TTAAC-CCCTTAAGCAGTAGGGTAACAAGCT-AAAATTTACAGATCT
1 TTAACTCCC-TAAGCAATAGGGTAACAAGCTGAAAA-TTACAGATCT
9258307 GGGCTCGCCG
Statistics
Matches: 194, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
86 6 0.03
87 120 0.62
88 66 0.34
89 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (87 bp):
TTAACTCCCTAAGCAATAGGGTAACAAGCTGAAAATTACAGATCTTATCTCCCTAAGCAATAGTG
GAGAAGATCAAAGATACACGCT
Found at i:9258254 original size:44 final size:44
Alignment explanation
Indices: 9258119--9258254 Score: 145
Period size: 44 Copynumber: 3.1 Consensus size: 44
9258109 TAACAAGCTG
* *
9258119 AAGATTACAGATCTTATCTCCCTAAGTAATAGTGGAGAAGATCA
1 AAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCA
* * * * *
9258163 AAGA-TACACGCT-TTAGCTCCCTAAGCAATAG-GGTAACA-AGCTG
1 AAGATTACA-GATCTTATCTCCCTAAGCAATAGTGG-AGCAGATC-A
*
9258206 AAGATTATAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCA
1 AAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCA
9258250 AAGAT
1 AAGAT
9258255 ACACGCCTTA
Statistics
Matches: 72, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
42 4 0.06
43 29 0.40
44 35 0.49
45 4 0.06
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (44 bp):
AAGATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCA
Found at i:9258363 original size:85 final size:85
Alignment explanation
Indices: 9258258--9258560 Score: 400
Period size: 85 Copynumber: 3.6 Consensus size: 85
9258248 CAAAGATACA
* *
9258258 CGCCTTAACCCCTTAAGCAGTAGGGTAACAAGCTAAAATTTACAGATCTGGGCTCGCCGAGCAGT
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAAAATTTACAGATCTGGGCTCTCCGAGCAGT
* *
9258323 GGCGGAGTAGGTCGAAGACT
66 GGTGGAGCAGGTCGAAGACT
* * * * *
9258343 CGCCTTAACCCCGTAAGCAGTAGGGTACCAGGCTAAAGTTTACAGA-CTTGGGCTCTCCGAGTAG
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAAAATTTACAGATC-TGGGCTCTCCGAGCAG
*
9258407 TGGTGGAGCAGGTCAAAGACT
65 TGGTGGAGCAGGTCGAAGACT
* *
9258428 CGCCTCAACCCCCTAAGCAGTAGGGTAAC-AGACTAAAATTTACAGATCCT-GGCTCTCCAAGCA
1 CGCCTTAACCCCCTAAGCAGTAGGGTAACAAG-CTAAAATTTACAGAT-CTGGGCTCTCCGAGCA
*
9258491 GTGGTGGAGCAGGTCGAAGAAT
64 GTGGTGGAGCAGGTCGAAGACT
* *
9258513 CG-CTATAACCCCCTAAGCAGTAGGGTAACAGGCTAAAA-TTGCAGATCT
1 CGCCT-TAACCCCCTAAGCAGTAGGGTAACAAGCTAAAATTTACAGATCT
9258561 TATCTTCGTT
Statistics
Matches: 191, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
83 2 0.01
84 11 0.06
85 175 0.92
86 2 0.01
87 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.20
Consensus pattern (85 bp):
CGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAAAATTTACAGATCTGGGCTCTCCGAGCAGT
GGTGGAGCAGGTCGAAGACT
Found at i:9258466 original size:170 final size:171
Alignment explanation
Indices: 9258237--9258549 Score: 463
Period size: 170 Copynumber: 1.8 Consensus size: 171
9258227 CTAAGCAATA
* *
9258237 GTGGAGCAGATCAAAGATACACGCCTTAACCCCTTAAGCAGTAGGGTAACAAGCTAAAATTTACA
1 GTGGAGCAGATCAAAGA-ACACGCCTCAACCCCCTAAGCAGTAGGGTAACAAGCTAAAATTTACA
* * * *
9258302 GAT-CTGGGCTCGCCGAGCAGTGGCGGAGTAGGTCGAAGACTCGCCT-TAACCCCGTAAGCAGTA
65 GATCCT-GGCTCGCCAAGCAGTGGCGGAGCAGGTCGAAGAATCG-CTATAACCCCCTAAGCAGTA
*
9258365 GGGTACCAGGCTAAAGTTTACAGACTTGGGCTCTCCGAGTAGTG
128 GGGTAACAGGCTAAAGTTTACAGACTTGGGCTCTCCGAGTAGTG
* *
9258409 GTGGAGCAGGTCAAAG-ACTCGCCTCAACCCCCTAAGCAGTAGGGTAAC-AGACTAAAATTTACA
1 GTGGAGCAGATCAAAGAACACGCCTCAACCCCCTAAGCAGTAGGGTAACAAG-CTAAAATTTACA
* *
9258472 GATCCTGGCTCTCCAAGCAGTGGTGGAGCAGGTCGAAGAATCGCTATAACCCCCTAAGCAGTAGG
65 GATCCTGGCTCGCCAAGCAGTGGCGGAGCAGGTCGAAGAATCGCTATAACCCCCTAAGCAGTAGG
9258537 GTAACAGGCTAAA
130 GTAACAGGCTAAA
9258550 ATTGCAGATC
Statistics
Matches: 127, Mismatches: 11, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
169 4 0.03
170 106 0.83
171 2 0.02
172 15 0.12
ACGTcount: A:0.30, C:0.24, G:0.27, T:0.19
Consensus pattern (171 bp):
GTGGAGCAGATCAAAGAACACGCCTCAACCCCCTAAGCAGTAGGGTAACAAGCTAAAATTTACAG
ATCCTGGCTCGCCAAGCAGTGGCGGAGCAGGTCGAAGAATCGCTATAACCCCCTAAGCAGTAGGG
TAACAGGCTAAAGTTTACAGACTTGGGCTCTCCGAGTAGTG
Found at i:9258831 original size:29 final size:29
Alignment explanation
Indices: 9258798--9258896 Score: 92
Period size: 29 Copynumber: 3.2 Consensus size: 29
9258788 CCAAATTAAA
*
9258798 CACCCTACTAAACCGA-CCACTAACTCTAT
1 CACCCTACTAAACC-ATCCACTAACTCCAT
*
9258827 CACCCTACTAAACCATCCACTACCTCCAT
1 CACCCTACTAAACCATCCACTAACTCCAT
*
9258856 CACCCCACACCCTACTAAACCATCCACTACCTCCAT
1 -------CACCCTACTAAACCATCCACTAACTCCAT
9258892 CACCC
1 CACCC
9258897 CCACTAACTC
Statistics
Matches: 60, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
28 1 0.02
29 30 0.50
36 29 0.48
ACGTcount: A:0.31, C:0.49, G:0.01, T:0.18
Consensus pattern (29 bp):
CACCCTACTAAACCATCCACTAACTCCAT
Found at i:9258874 original size:36 final size:36
Alignment explanation
Indices: 9258827--9258897 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
9258817 CTAACTCTAT
9258827 CACCCTACTAAACCATCCACTACCTCCATCACCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCA
9258863 CACCCTACTAAACCATCCACTACCTCCATCACCCC
1 CACCCTACTAAACCATCCACTACCTCCATCACCCC
9258898 CACTAACTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.30, C:0.54, G:0.00, T:0.17
Consensus pattern (36 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCA
Found at i:9258902 original size:18 final size:18
Alignment explanation
Indices: 9258879--9258914 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9258869 ACTAAACCAT
*
9258879 CCACTACCTCCATCACCC
1 CCACTAACTCCATCACCC
9258897 CCACTAACTCCATCACCC
1 CCACTAACTCCATCACCC
9258915 TACTTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.58, G:0.00, T:0.17
Consensus pattern (18 bp):
CCACTAACTCCATCACCC
Found at i:9259326 original size:19 final size:18
Alignment explanation
Indices: 9259302--9259338 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
9259292 TTATGTTTCA
9259302 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
9259321 TATTATTATATATTTATT
1 TATTATTATATATTTATT
9259339 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:9259327 original size:63 final size:63
Alignment explanation
Indices: 9259187--9259329 Score: 168
Period size: 63 Copynumber: 2.3 Consensus size: 63
9259177 TTTAACCCCT
* *
9259187 TTTTTATTTTTGTTATTTTACTATTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTAAA
1 TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTATTAAA
* * *
9259251 TTTGTT-TTTTTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATA
1 TTT-TTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTATTAAA
9259312 TTATTTATTTATTATTAT
1 TT-TTTATTT-TTATTAT
9259330 ATATTTATTA
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
61 16 0.23
62 8 0.12
63 28 0.41
64 15 0.22
65 2 0.03
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.64
Consensus pattern (63 bp):
TTTTTATTTTTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTATTAAA
Found at i:9259329 original size:14 final size:14
Alignment explanation
Indices: 9259310--9259369 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 14
9259300 CATATTATTA
*
9259310 TATTATTTATTTAT
1 TATTATATATTTAT
9259324 TATTATATATTTAT
1 TATTATATATTTAT
*
9259338 TATGTAAATATATATAT
1 TAT-T--ATATATTTAT
9259355 ATATATATATATTTA
1 -TAT-TATATATTTA
9259370 AGCGAAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
14 16 0.42
15 1 0.03
16 8 0.21
17 9 0.24
18 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:9259578 original size:21 final size:21
Alignment explanation
Indices: 9259554--9259595 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9259544 CCAAATTTAA
9259554 TGTTATCATCAACATATTTTT
1 TGTTATCATCAACATATTTTT
* * *
9259575 TGTTATTATCATCATGTTTTT
1 TGTTATCATCAACATATTTTT
9259596 AATATTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.12, G:0.07, T:0.57
Consensus pattern (21 bp):
TGTTATCATCAACATATTTTT
Found at i:9261367 original size:2 final size:2
Alignment explanation
Indices: 9261360--9261392 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9261350 TATTGTTTGT
9261360 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
9261393 TTTACTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:9264803 original size:9 final size:9
Alignment explanation
Indices: 9264789--9264839 Score: 75
Period size: 9 Copynumber: 5.7 Consensus size: 9
9264779 TTTGGTTAAA
*
9264789 AATTAACTG
1 AATTAACCG
9264798 AATTAACCG
1 AATTAACCG
**
9264807 AATTAACTT
1 AATTAACCG
9264816 AATTAACCG
1 AATTAACCG
9264825 AATTAACCG
1 AATTAACCG
9264834 AATTAA
1 AATTAA
9264840 ATCACTACAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:9264812 original size:18 final size:18
Alignment explanation
Indices: 9264789--9264839 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
9264779 TTTGGTTAAA
9264789 AATTAACTGAATTAACCG
1 AATTAACTGAATTAACCG
*
9264807 AATTAACTTAATTAACCG
1 AATTAACTGAATTAACCG
*
9264825 AATTAACCGAATTAA
1 AATTAACTGAATTAA
9264840 ATCACTACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (18 bp):
AATTAACTGAATTAACCG
Found at i:9264964 original size:37 final size:37
Alignment explanation
Indices: 9264839--9264947 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
9264829 AACCGAATTA
*
9264839 AATCACTACATAATTAAAAACATTACACAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
* *
9264876 AATCACTATATAATAAAAAACATTACATAAGTCTTTG
1 AATCACTACATAATTAAAAACATTACATAAGTCTTTG
9264913 AATCACTACATAATTAAAAACATTACATAAGTCTT
1 AATCACTACATAATTAAAAACATTACATAAGTCTT
9264948 GAAATTAACA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.48, C:0.17, G:0.05, T:0.31
Consensus pattern (37 bp):
AATCACTACATAATTAAAAACATTACATAAGTCTTTG
Found at i:9268611 original size:13 final size:13
Alignment explanation
Indices: 9268593--9268629 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
9268583 AATAAAAATT
9268593 ATTAGGTTGGGAA
1 ATTAGGTTGGGAA
*
9268606 ATTAGGTTGGGTA
1 ATTAGGTTGGGAA
*
9268619 ATTGGGTTGGG
1 ATTAGGTTGGG
9268630 TTGGGTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.35
Consensus pattern (13 bp):
ATTAGGTTGGGAA
Found at i:9268630 original size:13 final size:13
Alignment explanation
Indices: 9268597--9268648 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
9268587 AAAATTATTA
* *
9268597 GGTTGGGAAATTA
1 GGTTGGGTAATTG
9268610 GGTTGGGTAATTG
1 GGTTGGGTAATTG
9268623 GGTTGGG---TTG
1 GGTTGGGTAATTG
*
9268633 GGTTGGGTAGTTG
1 GGTTGGGTAATTG
9268646 GGT
1 GGT
9268649 AGTTGGGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 10 0.29
13 24 0.71
ACGTcount: A:0.13, C:0.00, G:0.50, T:0.37
Consensus pattern (13 bp):
GGTTGGGTAATTG
Found at i:9271264 original size:15 final size:15
Alignment explanation
Indices: 9271244--9271274 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9271234 TATGGTAACT
*
9271244 AATCTTAGAAGATAG
1 AATCTTAAAAGATAG
9271259 AATCTTAAAAGATAG
1 AATCTTAAAAGATAG
9271274 A
1 A
9271275 GGGAATCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.16, T:0.26
Consensus pattern (15 bp):
AATCTTAAAAGATAG
Found at i:9276286 original size:19 final size:19
Alignment explanation
Indices: 9276228--9276296 Score: 86
Period size: 19 Copynumber: 3.5 Consensus size: 19
9276218 TTTTATCAAA
*
9276228 TAAAAATATTAATAAATCT
1 TAAAAATATTGATAAATCT
*
9276247 T-TAAATATTCTGATAAAATCT
1 TAAAAATA-T-TGAT-AAATCT
9276268 TAAAAATATTGATAAATCT
1 TAAAAATATTGATAAATCT
9276287 TAAAAATATT
1 TAAAAATATT
9276297 AATATTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
18 5 0.12
19 18 0.42
20 7 0.16
21 8 0.19
22 5 0.12
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (19 bp):
TAAAAATATTGATAAATCT
Found at i:9289628 original size:21 final size:19
Alignment explanation
Indices: 9289603--9289641 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
9289593 TATTAATTAA
9289603 AATATTATAAACAAATTATAT
1 AATATT-TAAA-AAATTATAT
*
9289624 AATATTTAAAATATTATA
1 AATATTTAAAAAATTATA
9289642 AAACTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 4 0.24
21 6 0.35
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AATATTTAAAAAATTATAT
Found at i:9289701 original size:20 final size:20
Alignment explanation
Indices: 9289691--9289786 Score: 87
Period size: 21 Copynumber: 5.0 Consensus size: 20
9289681 TTTTATATTA
9289691 TTAAAAAATATATTTAATAT
1 TTAAAAAATATATTTAATAT
*
9289711 TTAAAAAATAATATTTAAAAT
1 TTAAAAAAT-ATATTTAATAT
*
9289732 TT--AAAA-A-A-GTAAT-T
1 TTAAAAAATATATTTAATAT
* *
9289746 TTAAAATATATATTTAAAAT
1 TTAAAAAATATATTTAATAT
9289766 TTACAAAAATATATATTAATA
1 TTA-AAAAATATAT-TTAATA
9289787 AAATATTTCA
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
14 3 0.05
15 3 0.05
16 4 0.07
17 2 0.03
18 1 0.02
19 7 0.12
20 13 0.22
21 21 0.36
22 5 0.08
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (20 bp):
TTAAAAAATATATTTAATAT
Found at i:9289717 original size:21 final size:21
Alignment explanation
Indices: 9289677--9289749 Score: 87
Period size: 21 Copynumber: 3.4 Consensus size: 21
9289667 AAAATATTTA
*
9289677 AATATTTTATATTATTAAAAAAT
1 AATATTTAATA-T-TTAAAAAAT
9289700 -ATATTTAATATTTAAAAAAT
1 AATATTTAATATTTAAAAAAT
*
9289720 AATATTTAAAATTTAAAAAAGT
1 AATATTTAATATTTAAAAAA-T
9289742 AAT-TTTAA
1 AATATTTAA
9289750 AATATATATT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
20 9 0.20
21 24 0.52
22 13 0.28
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (21 bp):
AATATTTAATATTTAAAAAAT
Found at i:9289750 original size:21 final size:21
Alignment explanation
Indices: 9289691--9289752 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
9289681 TTTTATATTA
*
9289691 TTAAAAAAT-ATATTTAATAT
1 TTAAAAAATAATATTTAAAAT
9289711 TTAAAAAATAATATTTAAAAT
1 TTAAAAAATAATATTTAAAAT
9289732 TTAAAAAAGTAAT-TTTAAAAT
1 TTAAAAAA-TAATATTTAAAAT
9289753 ATATATTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
20 9 0.23
21 26 0.67
22 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TTAAAAAATAATATTTAAAAT
Found at i:9289759 original size:34 final size:37
Alignment explanation
Indices: 9289705--9289791 Score: 112
Period size: 35 Copynumber: 2.4 Consensus size: 37
9289695 AAAATATATT
9289705 TAATATTTAAAAAATAATATTTAAAATTTA-AAAAAG
1 TAATATTTAAAAAATAATATTTAAAATTTACAAAAAG
*
9289741 TAAT-TTTAAAATAT-ATATTTAAAATTTACAAAAA-
1 TAATATTTAAAAAATAATATTTAAAATTTACAAAAAG
9289775 T-ATATATTAATAAAATA
1 TAATAT-TTAA-AAAATA
9289792 TTTCAAATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
33 2 0.05
34 16 0.36
35 18 0.41
36 8 0.18
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (37 bp):
TAATATTTAAAAAATAATATTTAAAATTTACAAAAAG
Found at i:9289775 original size:23 final size:24
Alignment explanation
Indices: 9289748--9289811 Score: 78
Period size: 23 Copynumber: 2.7 Consensus size: 24
9289738 AAGTAATTTT
9289748 AAAATATATATTTAAAAT-TTACA
1 AAAATATATATTTAAAATATTACA
*
9289771 AAAATATATATTAATAAAATATTTCA
1 AAAATATATATT--TAAAATATTACA
*
9289797 AATATATAT-TTTAAA
1 AAAATATATATTTAAA
9289812 TTTTTAAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
23 16 0.44
25 8 0.22
26 12 0.33
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (24 bp):
AAAATATATATTTAAAATATTACA
Found at i:9289793 original size:34 final size:33
Alignment explanation
Indices: 9289715--9289799 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 33
9289705 TAATATTTAA
*
9289715 AAAATAATATTTAAAATTTAAAAAAGTAATTTT
1 AAAATAATATTTAAAATTTAAAAAAGTAATATT
9289748 AAAATATATATTTAAAATTTACAAAAA-TATATATT
1 AAAATA-ATATTTAAAATTTA-AAAAAGTA-ATATT
*
9289783 AATAA-AATATTTCAAAT
1 AA-AATAATATTTAAAAT
9289800 ATATATTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
33 6 0.13
34 26 0.57
35 12 0.26
36 2 0.04
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (33 bp):
AAAATAATATTTAAAATTTAAAAAAGTAATATT
Found at i:9289838 original size:49 final size:47
Alignment explanation
Indices: 9289749--9289840 Score: 114
Period size: 47 Copynumber: 1.9 Consensus size: 47
9289739 AGTAATTTTA
*
9289749 AAATATATATTTAAAATTTACAAAAATATATATTAATAAAATATTTC
1 AAATATATATTTAAAATTTACAAAAATATATAATAATAAAATATTTC
* **
9289796 AAATATATATTTTAAATTTTTAAAGTTAATA-ATAATAATAAAATA
1 AAATATATATTTAAAATTTACAAA---AATATATAATAATAAAATA
9289841 AACATAAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 21 0.55
49 13 0.34
50 4 0.11
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.41
Consensus pattern (47 bp):
AAATATATATTTAAAATTTACAAAAATATATAATAATAAAATATTTC
Found at i:9289886 original size:12 final size:11
Alignment explanation
Indices: 9289863--9289911 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
9289853 CATAAAAGAC
9289863 AAAAAA-TAAA
1 AAAAAAGTAAA
9289873 AAAAGAAGT--A
1 AAAA-AAGTAAA
9289883 AAAAAAGTAAA
1 AAAAAAGTAAA
9289894 AAAAAAGTAAA
1 AAAAAAGTAAA
9289905 AAGAAAA
1 AA-AAAA
9289912 AAGGAAACTG
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
9 4 0.12
10 9 0.26
11 16 0.47
12 5 0.15
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (11 bp):
AAAAAAGTAAA
Found at i:9289886 original size:20 final size:20
Alignment explanation
Indices: 9289863--9289906 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
9289853 CATAAAAGAC
9289863 AAAAAA-TAAAAAAAGAAGTA
1 AAAAAAGTAAAAAAA-AAGTA
9289883 AAAAAAGTAAAAAAAAAGTA
1 AAAAAAGTAAAAAAAAAGTA
9289903 AAAA
1 AAAA
9289907 GAAAAAAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (20 bp):
AAAAAAGTAAAAAAAAAGTA
Found at i:9292551 original size:21 final size:22
Alignment explanation
Indices: 9292527--9292583 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
9292517 CCATTTGATA
*
9292527 TAATTGATTATA-TATTATTAT
1 TAATTGATTATATTATAATTAT
9292548 TAATTGATTATATTATAATTAT
1 TAATTGATTATATTATAATTAT
*
9292570 AAATT-A-TATATTAT
1 TAATTGATTATATTAT
9292584 GAAACAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 8 0.24
21 13 0.39
22 12 0.36
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (22 bp):
TAATTGATTATATTATAATTAT
Found at i:9292561 original size:19 final size:21
Alignment explanation
Indices: 9292527--9292583 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 21
9292517 CCATTTGATA
*
9292527 TAATTGATTATATATTATTAT
1 TAATTGATTATATATTATAAT
9292548 TAATTGA-T-TATATTATAAT
1 TAATTGATTATATATTATAAT
**
9292567 T-ATAAATTATATATTAT
1 TAATTGATTATATATTAT
9292584 GAAACAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 3 0.10
19 12 0.39
20 9 0.29
21 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (21 bp):
TAATTGATTATATATTATAAT
Found at i:9293159 original size:20 final size:19
Alignment explanation
Indices: 9293118--9293161 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
9293108 AATAGATATT
9293118 TATAAATTAAGTAGTTAATA
1 TATAAATTAAGTAG-TAATA
9293138 TATAAATTAAGTTA-TAAT-
1 TATAAATTAAG-TAGTAATA
9293156 TATAAA
1 TATAAA
9293162 GTAAATAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.26
19 4 0.17
20 11 0.48
21 2 0.09
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (19 bp):
TATAAATTAAGTAGTAATA
Found at i:9293623 original size:22 final size:24
Alignment explanation
Indices: 9293595--9293638 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
9293585 TATGGCAAGA
9293595 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
9293617 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
9293639 AACTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:9294145 original size:22 final size:22
Alignment explanation
Indices: 9294117--9294162 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
9294107 TTGATTTAAA
*
9294117 TGGAATTGATATGAATATTGAT
1 TGGAATTGATATGAACATTGAT
*
9294139 TGGAATTGATGTGAACATTGAT
1 TGGAATTGATATGAACATTGAT
9294161 TG
1 TG
9294163 AAACAGAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.26, T:0.39
Consensus pattern (22 bp):
TGGAATTGATATGAACATTGAT
Found at i:9297682 original size:28 final size:29
Alignment explanation
Indices: 9297646--9297712 Score: 100
Period size: 28 Copynumber: 2.3 Consensus size: 29
9297636 AGAAAACAAC
* *
9297646 AAAAAGAAAATCTATTTTAAAAA-GAAAA
1 AAAAAGAAAATCTAATCTAAAAATGAAAA
9297674 AAAAAGAAAATCTAATCTAAAAATGAAAA
1 AAAAAGAAAATCTAATCTAAAAATGAAAA
9297703 AAGAAAGAAA
1 AA-AAAGAAA
9297713 GAAAGGAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 21 0.60
29 7 0.20
30 7 0.20
ACGTcount: A:0.70, C:0.04, G:0.09, T:0.16
Consensus pattern (29 bp):
AAAAAGAAAATCTAATCTAAAAATGAAAA
Found at i:9300305 original size:2 final size:2
Alignment explanation
Indices: 9300298--9300329 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9300288 GGATGGTATG
9300298 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
9300330 ATATATAGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:9304032 original size:29 final size:29
Alignment explanation
Indices: 9303990--9304049 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
9303980 CTTAATAAGT
9303990 AAATACCTCTAAAATAATAA-AAAATTAAC
1 AAATACCTCTAAAATAATAACAAAA-TAAC
* *
9304019 AAATGCCTTTAAAATAATAACAAAATAAC
1 AAATACCTCTAAAATAATAACAAAATAAC
9304048 AA
1 AA
9304050 GAAAATAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.62, C:0.13, G:0.02, T:0.23
Consensus pattern (29 bp):
AAATACCTCTAAAATAATAACAAAATAAC
Found at i:9304603 original size:27 final size:27
Alignment explanation
Indices: 9304541--9304611 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
9304531 TACAGGTTGC
**
9304541 GTCTATCTCAAAGGCGCGACTAGTTGA
1 GTCTATCTCAAAGGCGCGACTAAATGA
* * * *
9304568 GCCTTTCTCAGAGGCGCGACTAAATGT
1 GTCTATCTCAAAGGCGCGACTAAATGA
*
9304595 GTCTATCTCATAGGCGC
1 GTCTATCTCAAAGGCGC
9304612 AAATGGTGGG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (27 bp):
GTCTATCTCAAAGGCGCGACTAAATGA
Found at i:9308436 original size:2 final size:2
Alignment explanation
Indices: 9308429--9308461 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9308419 CTTAATAATA
9308429 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9308462 AAACCAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9308619 original size:27 final size:27
Alignment explanation
Indices: 9308581--9308649 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
9308571 TTATTTTATG
*
9308581 TAGTGGAGGGTGTCAGATAGGCAGCAT
1 TAGTGGAGGGTGTCAGATAGGCAGCAC
*
9308608 TAGTGGAGGGTGTTC-GGTAGGCAGCAC
1 TAGTGGAGGGTG-TCAGATAGGCAGCAC
* *
9308635 CAGTGGAGAGTGTCA
1 TAGTGGAGGGTGTCA
9308650 TCTAACACTC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.06
27 32 0.89
28 2 0.06
ACGTcount: A:0.23, C:0.13, G:0.42, T:0.22
Consensus pattern (27 bp):
TAGTGGAGGGTGTCAGATAGGCAGCAC
Found at i:9309164 original size:84 final size:83
Alignment explanation
Indices: 9309023--9309192 Score: 304
Period size: 84 Copynumber: 2.0 Consensus size: 83
9309013 TGCCCATGTG
*
9309023 ACTTGGCCGTGTGAAAACATGATTTTTGTCCATTTTTAAGCTATTTTCACATGTTAAACACATTT
1 ACTTGGCCGTGTGAAAACATGATTTTTGTCCATTTTTAAACTATTTTCACATGTTAAACACATTT
9309088 AATTCACGCTCAAGCATTT
66 AATTCACG-TCAAGCATTT
* *
9309107 ACTTGGCCGTGTGAAAACATGATTTTTGTCTATTTTTAAACTATTTTCATATGTTAAACACATTT
1 ACTTGGCCGTGTGAAAACATGATTTTTGTCCATTTTTAAACTATTTTCACATGTTAAACACATTT
9309172 AATTCACGTCAAGCATTT
66 AATTCACGTCAAGCATTT
9309190 ACT
1 ACT
9309193 AATAGTTCTT
Statistics
Matches: 83, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
83 13 0.16
84 70 0.84
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (83 bp):
ACTTGGCCGTGTGAAAACATGATTTTTGTCCATTTTTAAACTATTTTCACATGTTAAACACATTT
AATTCACGTCAAGCATTT
Found at i:9311207 original size:17 final size:17
Alignment explanation
Indices: 9311185--9311244 Score: 93
Period size: 17 Copynumber: 3.4 Consensus size: 17
9311175 AAACTCTAAT
9311185 TTTCCCTTTTCTTTTTC
1 TTTCCCTTTTCTTTTTC
9311202 TTTCCCTTTTCTTTTTC
1 TTTCCCTTTTCTTTTTC
*
9311219 TTTCCCTTTTTCCTTCTTC
1 TTTCCC-TTTT-CTTTTTC
9311238 TTTCCCT
1 TTTCCCT
9311245 GCTAATCGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
17 23 0.57
18 5 0.12
19 12 0.30
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTCCCTTTTCTTTTTC
Found at i:9314653 original size:14 final size:14
Alignment explanation
Indices: 9314634--9314667 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9314624 TAATATATTT
9314634 AATTTATATAACAA
1 AATTTATATAACAA
*
9314648 AATTTATATTACAA
1 AATTTATATAACAA
*
9314662 AGTTTA
1 AATTTA
9314668 ATCCAATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (14 bp):
AATTTATATAACAA
Found at i:9314673 original size:64 final size:64
Alignment explanation
Indices: 9314568--9314789 Score: 286
Period size: 64 Copynumber: 3.5 Consensus size: 64
9314558 TGAGCTTATG
* * * *
9314568 TAATTTATATAAAAAAAATTTATATTATAAAGTATGTTCCAATTAGGTTATGGTTGTAATATATT
1 TAATTTATAT-AACAAAATTTATATTACAAAGTTTGTTCCAATTAGATTATGGTTGTAATATATT
** * *
9314633 TAATTTATATAACAAAATTTATATTACAAAGTTTAATCCAATTAGATTATAGTTGTAATTTATT
1 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCCAATTAGATTATGGTTGTAATATATT
* * * * * *
9314697 TAATTTTTTTAACATAATTTATATTA-AAAGTTTGTTCTAATTAGATTATGGCTGTAATGTATT
1 TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCCAATTAGATTATGGTTGTAATATATT
9314760 TAATTTATATAA-AATAATTTATATTACAAA
1 TAATTTATATAACAA-AATTTATATTACAAA
9314790 ACTAAGTTTA
Statistics
Matches: 135, Mismatches: 20, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
62 1 0.01
63 52 0.39
64 72 0.53
65 10 0.07
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (64 bp):
TAATTTATATAACAAAATTTATATTACAAAGTTTGTTCCAATTAGATTATGGTTGTAATATATT
Found at i:9319558 original size:64 final size:64
Alignment explanation
Indices: 9319489--9319691 Score: 291
Period size: 64 Copynumber: 3.2 Consensus size: 64
9319479 ACAAACTTAG
* * *
9319489 TTTTGTAATACAAATTATGTTATATAAATTAAATACATTATAACCATAATCTAATTAGAACAAA
1 TTTTGTAATATAAATTATGTTATATAAATTAAATACATTACAACCATAATCTAATTGGAACAAA
* * * *
9319553 TTTTGTAATATAAATTAGGTTATATAAATTAAATACATTACAACTATAATCCATTTGGAACAAA
1 TTTTGTAATATAAATTATGTTATATAAATTAAATACATTACAACCATAATCTAATTGGAACAAA
* * * * *
9319617 CTTTGTAATATAAATTTTGTTATATAAATTAAATA-ATTACAAACATAATTTAATTGGAATAAA
1 TTTTGTAATATAAATTATGTTATATAAATTAAATACATTACAACCATAATCTAATTGGAACAAA
9319680 TTTTGTAATATA
1 TTTTGTAATATA
9319692 TATTTTATAT
Statistics
Matches: 122, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
63 33 0.27
64 89 0.73
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.40
Consensus pattern (64 bp):
TTTTGTAATATAAATTATGTTATATAAATTAAATACATTACAACCATAATCTAATTGGAACAAA
Found at i:9324959 original size:16 final size:18
Alignment explanation
Indices: 9324940--9324982 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
9324930 TTTATTTTCA
9324940 ATTGTTT-ATTTTT-TTT
1 ATTGTTTGATTTTTATTT
9324956 ATTGTTTTGGATTTTTATTT
1 ATTG-TTT-GATTTTTATTT
9324976 ATTGTTT
1 ATTGTTT
9324983 TTTAATTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 4 0.17
17 3 0.13
19 9 0.39
20 7 0.30
ACGTcount: A:0.14, C:0.00, G:0.12, T:0.74
Consensus pattern (18 bp):
ATTGTTTGATTTTTATTT
Found at i:9331713 original size:12 final size:12
Alignment explanation
Indices: 9331692--9331739 Score: 87
Period size: 12 Copynumber: 4.0 Consensus size: 12
9331682 CCCTTTCTAG
9331692 CAACTATTAAAA
1 CAACTATTAAAA
*
9331704 CAATTATTAAAA
1 CAACTATTAAAA
9331716 CAACTATTAAAA
1 CAACTATTAAAA
9331728 CAACTATTAAAA
1 CAACTATTAAAA
9331740 TTTTTTAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (12 bp):
CAACTATTAAAA
Found at i:9335187 original size:72 final size:72
Alignment explanation
Indices: 9335070--9335213 Score: 288
Period size: 72 Copynumber: 2.0 Consensus size: 72
9335060 TTATAGACAT
9335070 GAATGTATTTTATTCATTTTAGTCTCTACAAGCCTTAATATCCAAAATGATTGTAACTTACGATT
1 GAATGTATTTTATTCATTTTAGTCTCTACAAGCCTTAATATCCAAAATGATTGTAACTTACGATT
9335135 TACCCAA
66 TACCCAA
9335142 GAATGTATTTTATTCATTTTAGTCTCTACAAGCCTTAATATCCAAAATGATTGTAACTTACGATT
1 GAATGTATTTTATTCATTTTAGTCTCTACAAGCCTTAATATCCAAAATGATTGTAACTTACGATT
9335207 TACCCAA
66 TACCCAA
9335214 TCGATTTTAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (72 bp):
GAATGTATTTTATTCATTTTAGTCTCTACAAGCCTTAATATCCAAAATGATTGTAACTTACGATT
TACCCAA
Found at i:9339230 original size:29 final size:30
Alignment explanation
Indices: 9339182--9339241 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
9339172 ACTGTCACAG
*
9339182 TTAGTTACATGGTCTAGCCCCACGGCCGTA
1 TTAGTTACACGGTCTAGCCCCACGGCCGTA
* *
9339212 TTAGTTA-ACGGTCTGGCCCTACGGCCGTA
1 TTAGTTACACGGTCTAGCCCCACGGCCGTA
9339241 T
1 T
9339242 GACCTCTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.28
Consensus pattern (30 bp):
TTAGTTACACGGTCTAGCCCCACGGCCGTA
Found at i:9359444 original size:31 final size:31
Alignment explanation
Indices: 9359395--9359471 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
9359385 GCATGTGGGC
* * * *
9359395 CACACGAGCGTATAGGCCCACACGAGTATGA
1 CACACGAGCGTGTGGGCCCACACGAGCATAA
* *
9359426 CACACGGGCGTGTGGGCCCACATGAGCATAA
1 CACACGAGCGTGTGGGCCCACACGAGCATAA
9359457 CACACGAGCGTGTGG
1 CACACGAGCGTGTGG
9359472 ATTCTTGGGC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.27, C:0.29, G:0.31, T:0.13
Consensus pattern (31 bp):
CACACGAGCGTGTGGGCCCACACGAGCATAA
Found at i:9382109 original size:59 final size:59
Alignment explanation
Indices: 9382046--9382173 Score: 132
Period size: 59 Copynumber: 2.2 Consensus size: 59
9382036 AACCAAAAAG
*** ** * *
9382046 CCAAGTTCATATAAC-TAATTGAACCGAAAAAAGTTTAGGTACCAAATTGAACCTTGAGA
1 CCAAGTTCATAT-ACTTAATTGAAAAAAAAAAACCTTAGCTACCAAATTGAACCTTGAAA
* ** * *
9382105 CCAAGTTTAGGTGCTTAATTGAAAAAAAAAAACCTTAGCTACCAATTTGAACCTTGAAA
1 CCAAGTTCATATACTTAATTGAAAAAAAAAAACCTTAGCTACCAAATTGAACCTTGAAA
9382164 CCAAGTTCAT
1 CCAAGTTCAT
9382174 GGAAAAAAAT
Statistics
Matches: 54, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
58 1 0.02
59 53 0.98
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (59 bp):
CCAAGTTCATATACTTAATTGAAAAAAAAAAACCTTAGCTACCAAATTGAACCTTGAAA
Found at i:9382834 original size:23 final size:23
Alignment explanation
Indices: 9382808--9382851 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
9382798 TAAATATTGT
*
9382808 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTATACTTAGATA
* *
9382831 TTTATTATTATTATATTTAGA
1 TTTATTAATATTATACTTAGA
9382852 AAATGGTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (23 bp):
TTTATTAATATTATACTTAGATA
Found at i:9385255 original size:39 final size:39
Alignment explanation
Indices: 9385201--9385278 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
9385191 GATGAAGAGA
* *
9385201 CGAGAAGATAGGACTAAATTGCAAATTTTGAAAATTATG
1 CGAGAAGATAAGACTAAATTGCAAATTTTGAAAACTATG
*
9385240 CGAGAAGATAAGACTAAATTGTAAATTTTGAAAACTATG
1 CGAGAAGATAAGACTAAATTGCAAATTTTGAAAACTATG
9385279 TGATTGAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.45, C:0.08, G:0.19, T:0.28
Consensus pattern (39 bp):
CGAGAAGATAAGACTAAATTGCAAATTTTGAAAACTATG
Found at i:9385717 original size:23 final size:24
Alignment explanation
Indices: 9385676--9385724 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
9385666 TATATGATTT
* *
9385676 GAATATGAATTGAGATTGAAATGA
1 GAATATGAAATGAAATTGAAATGA
*
9385700 GAATA-GAAATGAAATTGATATGA
1 GAATATGAAATGAAATTGAAATGA
9385723 GA
1 GA
9385725 CAGAAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (24 bp):
GAATATGAAATGAAATTGAAATGA
Found at i:9388436 original size:13 final size:11
Alignment explanation
Indices: 9388408--9388450 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
9388398 AGTTAAATAT
9388408 TATTTTATTAA
1 TATTTTATTAA
9388419 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
9388432 TA-TTTATTAT
1 TATTTTATTAA
9388442 TATTTTATT
1 TATTTTATT
9388451 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:9388437 original size:23 final size:23
Alignment explanation
Indices: 9388411--9388454 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
9388401 TAAATATTAT
9388411 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
9388434 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
9388455 AAATGGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:9393416 original size:9 final size:9
Alignment explanation
Indices: 9393399--9393435 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
9393389 TCAGTTTTCG
9393399 AATTCGAAT
1 AATTCGAAT
*
9393408 AACTCGAAT
1 AATTCGAAT
*
9393417 AATTCAAAT
1 AATTCGAAT
9393426 AATTCGAAT
1 AATTCGAAT
9393435 A
1 A
9393436 TTAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:9394986 original size:19 final size:18
Alignment explanation
Indices: 9394956--9395009 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
9394946 AACCCAATCA
* *
9394956 TAAAAATTAAAAATAATT
1 TAAAAATAAAAAAAAATT
9394974 TAATAAATAAAAAAAAATT
1 TAA-AAATAAAAAAAAATT
9394993 TAAAAATAAAAATAAAA
1 TAAAAATAAAAA-AAAA
9395010 AAACATAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 12 0.38
19 20 0.62
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAAAATAAAAAAAAATT
Found at i:9395050 original size:9 final size:9
Alignment explanation
Indices: 9395038--9395078 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
9395028 ATAATTCGAT
*
9395038 TAATTTGGG
1 TAATTCGGG
9395047 TAATTCGGG
1 TAATTCGGG
*
9395056 TAATTCGGT
1 TAATTCGGG
*
9395065 TAATTCGGT
1 TAATTCGGG
9395074 TAATT
1 TAATT
9395079 TTATACTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.44
Consensus pattern (9 bp):
TAATTCGGG
Found at i:9395052 original size:18 final size:18
Alignment explanation
Indices: 9395029--9395079 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
9395019 TTTATACAAA
*
9395029 TAATTCGATTAATTTGGG
1 TAATTCGGTTAATTTGGG
* * *
9395047 TAATTCGGGTAATTCGGT
1 TAATTCGGTTAATTTGGG
9395065 TAATTCGGTTAATTT
1 TAATTCGGTTAATTT
9395080 TATACTTATT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (18 bp):
TAATTCGGTTAATTTGGG
Found at i:9400724 original size:18 final size:18
Alignment explanation
Indices: 9400701--9400738 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
9400691 TCAAGATTCG
9400701 GTGTTCAAAACACTTTCT
1 GTGTTCAAAACACTTTCT
9400719 GTGTTCAAAACACTTTCT
1 GTGTTCAAAACACTTTCT
9400737 GT
1 GT
9400739 CAGTCTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.39
Consensus pattern (18 bp):
GTGTTCAAAACACTTTCT
Found at i:9405900 original size:21 final size:21
Alignment explanation
Indices: 9405874--9405915 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
9405864 CCTATGTATG
9405874 GATATAATTCATGTTAGATAA
1 GATATAATTCATGTTAGATAA
9405895 GATATAATTCATGTTAGATAA
1 GATATAATTCATGTTAGATAA
9405916 TATAACACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (21 bp):
GATATAATTCATGTTAGATAA
Found at i:9407629 original size:23 final size:23
Alignment explanation
Indices: 9407599--9407646 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
9407589 TTATTCATGC
*
9407599 ACCAACCAATGCTTAATGTTTTG
1 ACCAACCAATGCATAATGTTTTG
9407622 ACCAACCAATGCATAATGTTTTG
1 ACCAACCAATGCATAATGTTTTG
9407645 AC
1 AC
9407647 TGGTGCAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.31
Consensus pattern (23 bp):
ACCAACCAATGCATAATGTTTTG
Found at i:9415233 original size:17 final size:16
Alignment explanation
Indices: 9415206--9415246 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
9415196 AGAGATTTAT
9415206 TTTTATATAAATTAATTCA
1 TTTTATA-AAA-TAATT-A
9415225 TTTTATAAAATAATTA
1 TTTTATAAAATAATTA
9415241 TTTTAT
1 TTTTAT
9415247 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.32
17 5 0.23
18 3 0.14
19 7 0.32
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTATAAAATAATTA
Found at i:9415248 original size:21 final size:21
Alignment explanation
Indices: 9415215--9415255 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
9415205 TTTTTATATA
9415215 AATTAATTCATTTTATAAAAT
1 AATTAATTCATTTTATAAAAT
* * *
9415236 AATTATTTTATTTTTTAAAA
1 AATTAATTCATTTTATAAAA
9415256 AAATAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
AATTAATTCATTTTATAAAAT
Found at i:9417118 original size:27 final size:27
Alignment explanation
Indices: 9417066--9417118 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
9417056 TTCGACTTTT
* *
9417066 AAATTGAGTAAATTAATCCCTCTCAAA
1 AAATTGAGTAAATTAATCCATATCAAA
*
9417093 AAATTAGAGTAATTTAAT-CATATCAA
1 AAATT-GAGTAAATTAATCCATATCAA
9417119 TTTTGAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.47, C:0.13, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTGAGTAAATTAATCCATATCAAA
Found at i:9422769 original size:19 final size:18
Alignment explanation
Indices: 9422745--9422817 Score: 60
Period size: 19 Copynumber: 3.8 Consensus size: 18
9422735 AAATTTTAAA
9422745 AAAATTAATTAAAAACCAT
1 AAAATT-ATTAAAAACCAT
*
9422764 AAAA-T-TTATAAAACTTCTAAA
1 AAAATTATTA-AAAAC--C--AT
9422785 AAAATTATTAAAAACCAT
1 AAAATTATTAAAAACCAT
9422803 AAAAATTATTAAAAA
1 -AAAATTATTAAAAA
9422818 ATCATTTGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
16 3 0.07
17 5 0.11
18 2 0.05
19 19 0.43
20 1 0.02
21 5 0.11
22 6 0.14
23 3 0.07
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAATTATTAAAAACCAT
Found at i:9422776 original size:39 final size:40
Alignment explanation
Indices: 9422723--9422816 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 40
9422713 AAAGAATCAT
*
9422723 TAAAATTTACTAAAA-TTTTAAAAAAATTAATTAAAAACCA
1 TAAAATTTACTAAAACTTCTAAAAAAATT-ATTAAAAACCA
9422763 TAAAATTTA-TAAAACTTCTAAAAAAATTATTAAAAACCA
1 TAAAATTTACTAAAACTTCTAAAAAAATTATTAAAAACCA
* *
9422802 TAAAAATTATTAAAA
1 TAAAATTTACTAAAA
9422817 AATCATTTGT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
39 24 0.48
40 26 0.52
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (40 bp):
TAAAATTTACTAAAACTTCTAAAAAAATTATTAAAAACCA
Found at i:9422848 original size:24 final size:23
Alignment explanation
Indices: 9422804--9422848 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
9422794 AAAAACCATA
*
9422804 AAAATTATTAAAAAATCATTTGT
1 AAAATTATTAAAAAATAATTTGT
*
9422827 AAAATATATTAAAAATTAATTT
1 AAAAT-TATTAAAAAATAATTT
9422849 AAAACCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
AAAATTATTAAAAAATAATTTGT
Found at i:9423101 original size:19 final size:21
Alignment explanation
Indices: 9423056--9423101 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
9423046 AAAAATAATA
*
9423056 AATTATTTTTATAGATTTTAT
1 AATTAATTTTATAGATTTTAT
9423077 AA--AATTTTAT-GATTTT-T
1 AATTAATTTTATAGATTTTAT
9423094 AATTAATT
1 AATTAATT
9423102 CATAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
17 3 0.14
18 6 0.27
19 11 0.50
21 2 0.09
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
AATTAATTTTATAGATTTTAT
Found at i:9427905 original size:25 final size:25
Alignment explanation
Indices: 9427877--9427960 Score: 73
Period size: 25 Copynumber: 3.3 Consensus size: 25
9427867 ACGCTAAAAT
9427877 TTAAATACAACTTCACATTACCTAA
1 TTAAATACAACTTCACATTACCTAA
* ** *
9427902 TTAAATAAAAAAAT-ACAACTTGA-GTAA
1 TTAAAT-ACAACTTCAC-A-TT-ACCTAA
*
9427929 TGAAATACAACTTCACATTACCTAA
1 TTAAATACAACTTCACATTACCTAA
9427954 TTAAATA
1 TTAAATA
9427961 AAAAAATTTA
Statistics
Matches: 43, Mismatches: 10, Indels: 12
0.66 0.15 0.18
Matches are distributed among these distances:
24 1 0.02
25 19 0.44
26 10 0.23
27 12 0.28
28 1 0.02
ACGTcount: A:0.50, C:0.17, G:0.04, T:0.30
Consensus pattern (25 bp):
TTAAATACAACTTCACATTACCTAA
Found at i:9429240 original size:14 final size:14
Alignment explanation
Indices: 9429221--9429248 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9429211 AAAACTAACA
9429221 TTGTTTGATCCAAT
1 TTGTTTGATCCAAT
9429235 TTGTTTGATCCAAT
1 TTGTTTGATCCAAT
9429249 CTCTTTTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.50
Consensus pattern (14 bp):
TTGTTTGATCCAAT
Found at i:9430855 original size:7 final size:7
Alignment explanation
Indices: 9430843--9430876 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
9430833 CAACCGTCGT
9430843 CTCTTCC
1 CTCTTCC
9430850 CTCTTCC
1 CTCTTCC
9430857 CTCTTCC
1 CTCTTCC
9430864 CTCTTCC
1 CTCTTCC
9430871 CTCTTC
1 CTCTTC
9430877 TATTTTTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (7 bp):
CTCTTCC
Found at i:9434324 original size:20 final size:21
Alignment explanation
Indices: 9434280--9434324 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
9434270 AAAAAAAATC
*
9434280 TTAAATATATTCAGATCATGA
1 TTAAATATATTCAGAACATGA
9434301 -TAAATA-ATTCTAGAACAT-A
1 TTAAATATATTC-AGAACATGA
9434320 TTAAA
1 TTAAA
9434325 AGAGTTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.36
Consensus pattern (21 bp):
TTAAATATATTCAGAACATGA
Found at i:9434342 original size:18 final size:19
Alignment explanation
Indices: 9434319--9434354 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9434309 TCTAGAACAT
*
9434319 ATTAAAAGAGTTT-GAAAG
1 ATTAAAAAAGTTTAGAAAG
9434337 ATTAAAAAAGTTTAGAAA
1 ATTAAAAAAGTTTAGAAA
9434355 TTTAAGAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.28
Consensus pattern (19 bp):
ATTAAAAAAGTTTAGAAAG
Found at i:9436140 original size:17 final size:19
Alignment explanation
Indices: 9436118--9436162 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 19
9436108 TATATGTATG
*
9436118 AAATATAACTTT-TTTA-A
1 AAATATAAATTTATTTATA
9436135 AAATATAAATTTATTTATA
1 AAATATAAATTTATTTATA
9436154 AAAT-TAAAT
1 AAATATAAAT
9436163 ATAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 11 0.44
18 9 0.36
19 5 0.20
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATATAAATTTATTTATA
Found at i:9441819 original size:16 final size:17
Alignment explanation
Indices: 9441793--9441826 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9441783 TTCAATACAT
9441793 ATTCATCATTCAACTCA
1 ATTCATCATTCAACTCA
*
9441810 ATTC-TCATTCAATTCA
1 ATTCATCATTCAACTCA
9441826 A
1 A
9441827 CAATAACACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (17 bp):
ATTCATCATTCAACTCA
Found at i:9442749 original size:30 final size:30
Alignment explanation
Indices: 9442704--9442762 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
9442694 CTTAACAAGA
*
9442704 AAATACCTCTAAAATAATAATAAAATTAAC
1 AAATACCTCTAAAATAATAACAAAATTAAC
* *
9442734 AAATGCCTTTAAAATAATAACAAAATTAA
1 AAATACCTCTAAAATAATAACAAAATTAA
9442763 TAATAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (30 bp):
AAATACCTCTAAAATAATAACAAAATTAAC
Found at i:9447763 original size:30 final size:30
Alignment explanation
Indices: 9447704--9447763 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
9447694 TATTTTATTA
*
9447704 TTAATTTTGTTATTATTTTAAAGGGATTTG
1 TTAATTTTGTTATTATTTTAAAGGCATTTG
9447734 TTAATTTT-TTATTACTTTTAGAA-GCATTTG
1 TTAATTTTGTTATTA-TTTTA-AAGGCATTTG
9447764 CTTATTAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 6 0.22
30 19 0.70
31 2 0.07
ACGTcount: A:0.27, C:0.03, G:0.13, T:0.57
Consensus pattern (30 bp):
TTAATTTTGTTATTATTTTAAAGGCATTTG
Found at i:9449142 original size:48 final size:45
Alignment explanation
Indices: 9449046--9449142 Score: 113
Period size: 48 Copynumber: 2.1 Consensus size: 45
9449036 TATCGACTCG
* **
9449046 GAATGCATAACACCATGTCAAAGCATAAAGCGGAAAAAATATCGC
1 GAATGCATAACACCATGTCAAAGCATAAAGCGGAAAAAACAGAGC
* * *
9449091 GAATGCATAACGCCATGTTATTAGAGCATAAAGCGGAAAAAACAGATC
1 GAATGCATAACACCATGTCA--A-AGCATAAAGCGGAAAAAACAGAGC
9449139 GAAT
1 GAAT
9449143 ACAATCTGGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
45 18 0.42
47 1 0.02
48 24 0.56
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.18
Consensus pattern (45 bp):
GAATGCATAACACCATGTCAAAGCATAAAGCGGAAAAAACAGAGC
Found at i:9450006 original size:21 final size:21
Alignment explanation
Indices: 9449977--9450020 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
9449967 TAATGACCAA
*
9449977 AAATGACAAAATTAAATA-ATT
1 AAATAACAAAA-TAAATATATT
9449998 AAATAACAAAATAAATATATT
1 AAATAACAAAATAAATATATT
9450019 AA
1 AA
9450021 TTGTTGGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATAACAAAATAAATATATT
Found at i:9450445 original size:2 final size:2
Alignment explanation
Indices: 9450397--9450428 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9450387 ATAAATCTTA
9450397 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9450429 CAAATTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9454873 original size:54 final size:54
Alignment explanation
Indices: 9454696--9454899 Score: 228
Period size: 54 Copynumber: 3.8 Consensus size: 54
9454686 TCCTTTGAAT
** ** * * *
9454696 TTGGCTGTTGCAAAAGATGATGTTACACTAGCAGCTAATGTTTGTCCTTCGAAC
1 TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTTTCTCCTTCAAAC
* ** * *
9454750 TTGTCTGTCACAAAAGATGATGTTATACGAACAGCTAATGTTTCTCCTTCAAAC
1 TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTTTCTCCTTCAAAC
* * *
9454804 TTGGCTGACACAAAAGACAATGTTACACTAGCAGCTAATGCTTCTCCTTCAAAC
1 TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTTTCTCCTTCAAAC
* ** * *
9454858 TTGGCAGTCGTAAAAGACAATGCTACACTAACAACTAATGTT
1 TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTT
9454900 AAAGAGAACA
Statistics
Matches: 126, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 126 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (54 bp):
TTGGCTGTCACAAAAGACAATGTTACACTAACAGCTAATGTTTCTCCTTCAAAC
Found at i:9455299 original size:3 final size:3
Alignment explanation
Indices: 9455293--9455321 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9455283 ACTGTTGTTG
9455293 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9455322 TAAGCGTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9459084 original size:34 final size:35
Alignment explanation
Indices: 9459018--9459084 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
9459008 TTTTAAATTA
* ***
9459018 AAATTTTATATTATTTTTAATTTAATTTTTTTTAC
1 AAATTTTATATTATTGTTAATTTAACACTTTTTAC
9459053 AAATTTTATA-TATTGTTAATTTAACACTTTTT
1 AAATTTTATATTATTGTTAATTTAACACTTTTT
9459085 TTAATGTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 18 0.64
35 10 0.36
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (35 bp):
AAATTTTATATTATTGTTAATTTAACACTTTTTAC
Found at i:9459084 original size:35 final size:35
Alignment explanation
Indices: 9459018--9459085 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
9459008 TTTTAAATTA
* **
9459018 AAATTTTATATTATTTTTAATTTAATTTTTTTTAC
1 AAATTTTATATTATTGTTAATTTAAACTTTTTTAC
9459053 AAATTTTATA-TATTGTTAATTTAACACTTTTTT
1 AAATTTTATATTATTGTTAATTTAA-ACTTTTTT
9459086 TAATGTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (35 bp):
AAATTTTATATTATTGTTAATTTAAACTTTTTTAC
Found at i:9462034 original size:11 final size:11
Alignment explanation
Indices: 9461995--9462034 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
9461985 ACAATAACAA
9461995 CAAAATAGTAG
1 CAAAATAGTAG
* *
9462006 CAACATAATAG
1 CAAAATAGTAG
*
9462017 TAAAATAGTAG
1 CAAAATAGTAG
9462028 CAAAATA
1 CAAAATA
9462035 CGGAGAAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:9468819 original size:14 final size:14
Alignment explanation
Indices: 9468800--9468828 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9468790 AATATATATA
9468800 AAATAGTTTAAAAT
1 AAATAGTTTAAAAT
9468814 AAATAGTTTAAAAT
1 AAATAGTTTAAAAT
9468828 A
1 A
9468829 CATAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (14 bp):
AAATAGTTTAAAAT
Found at i:9468941 original size:36 final size:36
Alignment explanation
Indices: 9468888--9468960 Score: 105
Period size: 36 Copynumber: 2.0 Consensus size: 36
9468878 GTCTACATAC
*
9468888 AAATATTATATATATAAACA-TTTAAAATAGATAATAT
1 AAATATTATACATATAAA-AGTTTAAAATA-ATAATAT
9468925 AAATA-TATACATATAAAAGTTTAAAATAATAATAT
1 AAATATTATACATATAAAAGTTTAAAATAATAATAT
9468960 A
1 A
9468961 CAAAACAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
35 9 0.26
36 20 0.59
37 5 0.15
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (36 bp):
AAATATTATACATATAAAAGTTTAAAATAATAATAT
Found at i:9469014 original size:22 final size:24
Alignment explanation
Indices: 9468970--9469017 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
9468960 ACAAAACAAA
9468970 TTAAAATAAATAATAGAAGATAAT
1 TTAAAATAAATAATAGAAGATAAT
*
9468994 TTAAAGTAAATAA-A-AAGATAAT
1 TTAAAATAAATAATAGAAGATAAT
9469016 TT
1 TT
9469018 TAGATGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.43
23 1 0.04
24 12 0.52
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.31
Consensus pattern (24 bp):
TTAAAATAAATAATAGAAGATAAT
Found at i:9469091 original size:25 final size:25
Alignment explanation
Indices: 9469038--9469098 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 25
9469028 ATATATATAG
*
9469038 AAAAACAGTTTAAAATAGATACTAC
1 AAAAACAATTTAAAATAGATACTAC
*
9469063 AAAAAGCAATTTAAAATA-ATAGTA-
1 AAAAA-CAATTTAAAATAGATACTAC
*
9469087 TAAAACAATTTA
1 AAAAACAATTTA
9469099 GAATTATCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 7 0.22
24 4 0.12
25 10 0.31
26 11 0.34
ACGTcount: A:0.59, C:0.08, G:0.07, T:0.26
Consensus pattern (25 bp):
AAAAACAATTTAAAATAGATACTAC
Found at i:9469401 original size:28 final size:27
Alignment explanation
Indices: 9469357--9469454 Score: 76
Period size: 28 Copynumber: 3.5 Consensus size: 27
9469347 ACATATAAAA
9469357 TTTAAAATAGACA-ATATATATGTAATAG
1 TTTAAAATA-A-ATATATATATGTAATAG
*
9469385 TTTAAAATATAATATATATATAT-ATA-
1 TTTAAAATA-AATATATATATGTAATAG
* * * *
9469411 TATAAATTCAAAATATACATAATGTAAAAG
1 TTTAAAAT--AAATATATAT-ATGTAATAG
9469441 TTTAAAATAAATAT
1 TTTAAAATAAATAT
9469455 TGTATACAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
26 6 0.11
27 12 0.22
28 29 0.53
29 2 0.04
30 6 0.11
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (27 bp):
TTTAAAATAAATATATATATGTAATAG
Found at i:9471594 original size:8 final size:8
Alignment explanation
Indices: 9471581--9471607 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
9471571 AAATTGAAAT
9471581 ATATCAAA
1 ATATCAAA
9471589 ATATCAAA
1 ATATCAAA
9471597 ATATCAAA
1 ATATCAAA
9471605 ATA
1 ATA
9471608 AAATTTTAAT
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:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (8 bp):
ATATCAAA
Found at i:9474580 original size:15 final size:14
Alignment explanation
Indices: 9474553--9474583 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
9474543 ATAATTAAAT
9474553 TTAAATAAAAATAA
1 TTAAATAAAAATAA
9474567 TTAAATAAATAATAA
1 TTAAATAAA-AATAA
9474582 TT
1 TT
9474584 GGGGATATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TTAAATAAAAATAA
Found at i:9482626 original size:24 final size:24
Alignment explanation
Indices: 9482599--9482675 Score: 82
Period size: 24 Copynumber: 3.1 Consensus size: 24
9482589 TTCAGCCCAT
9482599 AAGAATATTTTTCATAATGATAAA
1 AAGAATATTTTTCATAATGATAAA
**
9482623 AAGAATATTTTTCCATAAAAATAAA
1 AAGAATATTTTT-CATAATGATAAA
** *
9482648 ATACGCTTACTTTTCATAATGATAAA
1 A-A-GAATATTTTTCATAATGATAAA
9482674 AA
1 AA
9482676 TTATTTTCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
24 12 0.28
25 12 0.28
26 12 0.28
27 7 0.16
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.35
Consensus pattern (24 bp):
AAGAATATTTTTCATAATGATAAA
Found at i:9482756 original size:2 final size:2
Alignment explanation
Indices: 9482751--9482789 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
9482741 TTTATTGAAG
*
9482751 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9482790 TATTTTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9483574 original size:15 final size:14
Alignment explanation
Indices: 9483556--9483598 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
9483546 TTTAATATTT
9483556 TTATAGGTTTAGGGG
1 TTAT-GGTTTAGGGG
*
9483571 TTATGGGTTTAAGGG
1 TTAT-GGTTTAGGGG
*
9483586 TTATGATTTAGGG
1 TTATGGTTTAGGG
9483599 TTGATGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (14 bp):
TTATGGTTTAGGGG
Found at i:9483630 original size:14 final size:14
Alignment explanation
Indices: 9483563--9483630 Score: 66
Period size: 14 Copynumber: 4.8 Consensus size: 14
9483553 TTTTTATAGG
* *
9483563 TTTAGGGGTTATGGG
1 TTTAGGGTTTAT-GA
9483578 TTTAAGGG-TTATGA
1 TTT-AGGGTTTATGA
*
9483592 TTTAGGGTTGATGA
1 TTTAGGGTTTATGA
* *
9483606 TTTATGTTTTATGA
1 TTTAGGGTTTATGA
9483620 TTTAGGGTTTA
1 TTTAGGGTTTA
9483631 AGGTTTATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
13 4 0.09
14 29 0.66
15 7 0.16
16 4 0.09
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:9483644 original size:28 final size:28
Alignment explanation
Indices: 9483586--9483644 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
9483576 GGTTTAAGGG
* **
9483586 TTATGATTTAGGGTTGATGATTTATGTT
1 TTATGATTTAGGGTTGAAGATTTATAAT
* *
9483614 TTATGATTTAGGGTTTAAGGTTTATAAT
1 TTATGATTTAGGGTTGAAGATTTATAAT
9483642 TTA
1 TTA
9483645 AAAGGTTAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (28 bp):
TTATGATTTAGGGTTGAAGATTTATAAT
Found at i:9484021 original size:14 final size:14
Alignment explanation
Indices: 9483985--9484029 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
9483975 TAGGGGTTAA
**
9483985 TTAGGGTTTATGGT
1 TTAGGGTTTGGGGT
* *
9483999 CTAGTGTTTGGGGT
1 TTAGGGTTTGGGGT
9484013 TTAGGGTTTGGGGT
1 TTAGGGTTTGGGGT
9484027 TTA
1 TTA
9484030 TGATTTAGGG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.11, C:0.02, G:0.40, T:0.47
Consensus pattern (14 bp):
TTAGGGTTTGGGGT
Found at i:9484337 original size:14 final size:14
Alignment explanation
Indices: 9484320--9484378 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
9484310 AGGTTTGGTA
9484320 TTTGGGATTT-GAGG
1 TTTGGGATTTAGA-G
*
9484334 TTTGGGGTTTAGAG
1 TTTGGGATTTAGAG
9484348 TTT-GGAGTTTAGAG
1 TTTGGGA-TTTAGAG
*
9484362 TTTAGGG-TTTAGGG
1 TTT-GGGATTTAGAG
9484376 TTT
1 TTT
9484379 AATTTTGGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 2 0.05
14 32 0.84
15 2 0.05
16 2 0.05
ACGTcount: A:0.15, C:0.00, G:0.39, T:0.46
Consensus pattern (14 bp):
TTTGGGATTTAGAG
Found at i:9484379 original size:7 final size:7
Alignment explanation
Indices: 9484332--9484379 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
9484322 TGGGATTTGA
*
9484332 GGTTTGG
1 GGTTTAG
9484339 GGTTTAG
1 GGTTTAG
*
9484346 AGTTT-G
1 GGTTTAG
9484352 GAGTTTAG
1 G-GTTTAG
*
9484360 AGTTTAG
1 GGTTTAG
9484367 GGTTTAG
1 GGTTTAG
9484374 GGTTTA
1 GGTTTA
9484380 ATTTTGGAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
6 1 0.03
7 32 0.94
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:9484379 original size:14 final size:14
Alignment explanation
Indices: 9484333--9484379 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
9484323 GGGATTTGAG
*
9484333 GTTTGGGGTTTAGA
1 GTTTAGGGTTTAGA
9484347 GTTT-GGAGTTTAGA
1 GTTTAGG-GTTTAGA
*
9484361 GTTTAGGGTTTAGG
1 GTTTAGGGTTTAGA
9484375 GTTTA
1 GTTTA
9484380 ATTTTGGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 2 0.07
14 26 0.87
15 2 0.07
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (14 bp):
GTTTAGGGTTTAGA
Found at i:9485592 original size:2 final size:2
Alignment explanation
Indices: 9485585--9485617 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9485575 GATGGGAGTC
9485585 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9485618 GGATTATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9490306 original size:43 final size:43
Alignment explanation
Indices: 9490250--9490430 Score: 265
Period size: 43 Copynumber: 4.2 Consensus size: 43
9490240 CTGGGCAAAC
* *
9490250 TAGCGGCG-TTTTTAAAAAAGCGTCGCTAAAAGTCCTGGTCTT
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCCTGATCTT
*
9490292 TAGCGGCGTTTTTTAAAATAGCGCCGCTAAAAGTCCTGATCTT
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCCTGATCTT
* * *
9490335 TAGCGGCGTTTTTTAAAATAGTGCCGCTAAAAGTCTTGATCTT
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCCTGATCTT
* * * *
9490378 TAGCGGCGTTTTTTAAAAAAGCACCGCTAAATGTCTTGGTCTT
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCCTGATCTT
9490421 TAGCGGCGTT
1 TAGCGGCGTT
9490431 ACATATAGCG
Statistics
Matches: 128, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
42 8 0.06
43 120 0.94
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.34
Consensus pattern (43 bp):
TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCCTGATCTT
Found at i:9495709 original size:2 final size:2
Alignment explanation
Indices: 9495702--9495741 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
9495692 TCTTCCAATA
9495702 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9495742 GTATTATGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9497712 original size:4 final size:4
Alignment explanation
Indices: 9497703--9497734 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
9497693 TTTCTCTAAG
*
9497703 CATA CATA CATA CATA CATA CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA
9497735 TATCATATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:9501454 original size:2 final size:2
Alignment explanation
Indices: 9501400--9501436 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9501390 ACTTATTATG
9501400 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9501437 CATTTCTCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9514091 original size:22 final size:22
Alignment explanation
Indices: 9514066--9514109 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9514056 TCCTGTCAAG
* *
9514066 CTTGTTAGGTTGTTTCCTTGTA
1 CTTGTTAGATTGTTTACTTGTA
9514088 CTTGTTAGATTGTTTACTTGTA
1 CTTGTTAGATTGTTTACTTGTA
9514110 GGAAAGTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.11, G:0.20, T:0.55
Consensus pattern (22 bp):
CTTGTTAGATTGTTTACTTGTA
Found at i:9515767 original size:38 final size:38
Alignment explanation
Indices: 9515725--9515804 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 38
9515715 AGCTACTAAC
* *
9515725 TTAAGTCATTTTTAAAGGTTCTAATTTATGAGAAGAGT
1 TTAAGTCATTTTTAAAAGTTCTAATTCATGAGAAGAGT
*
9515763 TTAAGTCATTTTTAAAAGTTCTACTTCATGAGAAGAGT
1 TTAAGTCATTTTTAAAAGTTCTAATTCATGAGAAGAGT
9515801 TTAA
1 TTAA
9515805 ATGACGACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.41
Consensus pattern (38 bp):
TTAAGTCATTTTTAAAAGTTCTAATTCATGAGAAGAGT
Found at i:9516779 original size:20 final size:18
Alignment explanation
Indices: 9516731--9516780 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
9516721 AAATTAAATC
9516731 TATTAAATTAA-ATTTAA
1 TATTAAATTAATATTTAA
9516748 TATTAAGA-TAATCATTTTAA
1 TATTAA-ATTAAT-A-TTTAA
9516768 TATTAAATTAATA
1 TATTAAATTAATA
9516781 AAATACTAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 9 0.32
18 1 0.04
19 3 0.11
20 15 0.54
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (18 bp):
TATTAAATTAATATTTAA
Found at i:9517757 original size:192 final size:192
Alignment explanation
Indices: 9517430--9517814 Score: 752
Period size: 192 Copynumber: 2.0 Consensus size: 192
9517420 ATCGACTAGC
9517430 AAAGGATCAATTTGACATATTATGATTGGAAACTCCTTATTGTATACTCTTTTCAATTATTTAAT
1 AAAGGATCAATTTGACATATTATGATTGGAAACTCCTTATTGTATACTCTTTTCAATTATTTAAT
*
9517495 GACATTTAATAATTTTTTCGATATTATTAATATATAGTTTTAATAACTTTTTAACCTGATCCCCA
66 GACATTTAATAATTTTTTCAATATTATTAATATATAGTTTTAATAACTTTTTAACCTGATCCCCA
9517560 AATCTGAAACATTAAATCTGAACTTAAACTCTGAAGATAAAATTATAAATCCTAAACCTTAA
131 AATCTGAAACATTAAATCTGAACTTAAACTCTGAAGATAAAATTATAAATCCTAAACCTTAA
9517622 AAAGGATCAATTTGACATATTATGATTGGAAACTCCTTATTGTATACTCTTTTCAATTATTTAAT
1 AAAGGATCAATTTGACATATTATGATTGGAAACTCCTTATTGTATACTCTTTTCAATTATTTAAT
9517687 GACATTTAATAATTTTTTCAATATTATTAATATATAGTTTTAATAACTTTTTAACCTGATCCCCA
66 GACATTTAATAATTTTTTCAATATTATTAATATATAGTTTTAATAACTTTTTAACCTGATCCCCA
*
9517752 AATCTGGAACATTAAATCTGAACTTAAACTCTGAAGATAAAATTATAAATCCTAAACCTTAA
131 AATCTGAAACATTAAATCTGAACTTAAACTCTGAAGATAAAATTATAAATCCTAAACCTTAA
9517814 A
1 A
9517815 CCGAACTCAA
Statistics
Matches: 191, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
192 191 1.00
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (192 bp):
AAAGGATCAATTTGACATATTATGATTGGAAACTCCTTATTGTATACTCTTTTCAATTATTTAAT
GACATTTAATAATTTTTTCAATATTATTAATATATAGTTTTAATAACTTTTTAACCTGATCCCCA
AATCTGAAACATTAAATCTGAACTTAAACTCTGAAGATAAAATTATAAATCCTAAACCTTAA
Found at i:9526455 original size:2 final size:2
Alignment explanation
Indices: 9526450--9526483 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
9526440 TTTAAAATTT
*
9526450 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9526484 CTTTCTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9527146 original size:11 final size:11
Alignment explanation
Indices: 9527113--9527163 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
9527103 TTTAATATAA
9527113 AAATTA-TATT
1 AAATTATTATT
9527123 AAAATTATTATT
1 -AAATTATTATT
*
9527135 AAATTATAATT
1 AAATTATTATT
*
9527146 ATAATTTTTATT
1 A-AATTATTATT
9527158 AAATTA
1 AAATTA
9527164 CATTTAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
11 21 0.62
12 13 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
AAATTATTATT
Found at i:9527151 original size:23 final size:22
Alignment explanation
Indices: 9527113--9527163 Score: 75
Period size: 23 Copynumber: 2.3 Consensus size: 22
9527103 TTTAATATAA
9527113 AAATTATATTAAAATTATTATT
1 AAATTATATTAAAATTATTATT
* *
9527135 AAATTATAATTATAATTTTTATT
1 AAATTAT-ATTAAAATTATTATT
9527158 AAATTA
1 AAATTA
9527164 CATTTAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAATTATATTAAAATTATTATT
Found at i:9530533 original size:18 final size:18
Alignment explanation
Indices: 9530510--9530563 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
9530500 TAACTTTGGA
9530510 GGTGGCGGCTATGGCGGT
1 GGTGGCGGCTATGGCGGT
9530528 GGT---GGCTA---CGGT
1 GGTGGCGGCTATGGCGGT
*
9530540 GGTGGTGGCTATGGCGGT
1 GGTGGCGGCTATGGCGGT
9530558 GGTGGC
1 GGTGGC
9530564 TACGGTGGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 12
0.69 0.02 0.29
Matches are distributed among these distances:
12 7 0.24
15 10 0.34
18 12 0.41
ACGTcount: A:0.06, C:0.15, G:0.56, T:0.24
Consensus pattern (18 bp):
GGTGGCGGCTATGGCGGT
Found at i:9530534 original size:15 final size:15
Alignment explanation
Indices: 9530510--9530595 Score: 127
Period size: 15 Copynumber: 5.7 Consensus size: 15
9530500 TAACTTTGGA
* *
9530510 GGTGGCGGCTATGGC
1 GGTGGTGGCTACGGC
*
9530525 GGTGGTGGCTACGGT
1 GGTGGTGGCTACGGC
*
9530540 GGTGGTGGCTATGGC
1 GGTGGTGGCTACGGC
*
9530555 GGTGGTGGCTACGGT
1 GGTGGTGGCTACGGC
9530570 GGTGGTGGCTACGGC
1 GGTGGTGGCTACGGC
9530585 GGTGGTGGCTA
1 GGTGGTGGCTA
9530596 TGGAAGTGGT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 63 1.00
ACGTcount: A:0.07, C:0.15, G:0.53, T:0.24
Consensus pattern (15 bp):
GGTGGTGGCTACGGC
Found at i:9530544 original size:30 final size:30
Alignment explanation
Indices: 9530510--9530595 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
9530500 TAACTTTGGA
*
9530510 GGTGGCGGCTATGGCGGTGGTGGCTACGGT
1 GGTGGTGGCTATGGCGGTGGTGGCTACGGT
9530540 GGTGGTGGCTATGGCGGTGGTGGCTACGGT
1 GGTGGTGGCTATGGCGGTGGTGGCTACGGT
*
9530570 GGTGGTGGCTACGGCGGTGGTGGCTA
1 GGTGGTGGCTATGGCGGTGGTGGCTA
9530596 TGGAAGTGGT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.07, C:0.15, G:0.53, T:0.24
Consensus pattern (30 bp):
GGTGGTGGCTATGGCGGTGGTGGCTACGGT
Done.