Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 216 of 344
Found at i:71772905 original size:3 final size:3
Alignment explanation
Indices: 71772773--71772890 Score: 91
Period size: 3 Copynumber: 39.7 Consensus size: 3
71772763 TTTTTATTTA
* *
71772773 TAT TAT TAT TAG TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CTCAGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -T-A-T
* * * * *
71772824 TAC TAT TAT TAT T-T T-T TA- TAT TAC TAT TAT TGT TA- TAT TAT CAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
71772868 TAT TTT TCT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
71772891 CTACAACTAT
Statistics
Matches: 90, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
2 8 0.09
3 77 0.86
4 2 0.02
5 2 0.02
6 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:71773076 original size:21 final size:21
Alignment explanation
Indices: 71773029--71773077 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
71773019 CTTTTCTCTG
71773029 TTTTATTACTATTATTAATAT
1 TTTTATTACTATTATTAATAT
** **
71773050 CATTATTACTATTATTTTTAT
1 TTTTATTACTATTATTAATAT
71773071 TTTTATT
1 TTTTATT
71773078 TTTATTACTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTATTACTATTATTAATAT
Found at i:71773082 original size:27 final size:27
Alignment explanation
Indices: 71773052--71773104 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
71773042 ATTAATATCA
* * *
71773052 TTATTACTATTATTTTTATTTTTATTT
1 TTATTACTACTACTGTTATTTTTATTT
71773079 TTATTACTACTACTGTTATTTTTATT
1 TTATTACTACTACTGTTATTTTTATT
71773105 AACATATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.68
Consensus pattern (27 bp):
TTATTACTACTACTGTTATTTTTATTT
Found at i:71773218 original size:15 final size:15
Alignment explanation
Indices: 71773198--71773228 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
71773188 TATTATTTTC
71773198 TATTTATTACTATTA
1 TATTTATTACTATTA
71773213 TATTTATTACTATTA
1 TATTTATTACTATTA
71773228 T
1 T
71773229 TAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTATTACTATTA
Found at i:71777726 original size:6 final size:6
Alignment explanation
Indices: 71777715--71777744 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
71777705 GGCGCTATAT
71777715 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA
71777745 AAAAAAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.33, T:0.00
Consensus pattern (6 bp):
GGCAAA
Found at i:71778979 original size:26 final size:26
Alignment explanation
Indices: 71778950--71779002 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
71778940 TCAAACATGC
71778950 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
71778976 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
71779002 A
1 A
71779003 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:71780528 original size:26 final size:26
Alignment explanation
Indices: 71780492--71780575 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
71780482 CATGAAATTC
71780492 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
71780518 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
71780544 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
71780570 TTATCA
1 TTATCA
71780576 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:71782744 original size:88 final size:88
Alignment explanation
Indices: 71782593--71782915 Score: 486
Period size: 88 Copynumber: 3.7 Consensus size: 88
71782583 ATCTGATCTT
* * *
71782593 CGCTGAAGCAGATTCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAACAGATCGAACACATAG
1 CGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAG
* *
71782658 CTGATTTGGCTTTTACGTGTTTT
66 CTGATTTGGCTTTCACGTGTTTA
*
71782681 CGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCAGGGAGCAGATCGAAGACATAG
1 CGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAG
71782746 CTGATTTGGCTTTCACGTGTTTA
66 CTGATTTGGCTTTCACGTGTTTA
* * *
71782769 CGTTGAAGCAGATCTAAGATGATTTGGTATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAG
1 CGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAG
*
71782834 CTGATTTGGCTTTCACATGTTTA
66 CTGATTTGGCTTTCACGTGTTTA
* * * * * * *
71782857 CGTTGAAGCAAATCCAATATAATTTGGCATCTCTGTAGC-GGCGGAGAGCAGATTGAAGA
1 CGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGA
71782916 TTGCAGATTT
Statistics
Matches: 216, Mismatches: 19, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
87 18 0.08
88 198 0.92
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (88 bp):
CGCTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATCAGGCGGGGAGCAGATCGAAGACATAG
CTGATTTGGCTTTCACGTGTTTA
Found at i:71782779 original size:47 final size:46
Alignment explanation
Indices: 71782728--71782866 Score: 123
Period size: 47 Copynumber: 3.1 Consensus size: 46
71782718 TCAGGCAGGG
71782728 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGA
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCAC-TGTTTACGTTGA
* * * * * *
71782775 AGCAGATCTAAG----A--TGATTTGG-TATCTCTGTATCAGGCG-GGG
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACTGT-TTA--CGTTGA
71782816 AGCAGATCGAAGACATAGCTGATTTGGCTTTCACATGTTTACGTTGA
1 AGCAGATCGAAGACATAGCTGATTTGGCTTTCAC-TGTTTACGTTGA
71782863 AGCA
1 AGCA
71782867 AATCCAATAT
Statistics
Matches: 68, Mismatches: 12, Indels: 24
0.65 0.12 0.23
Matches are distributed among these distances:
39 3 0.04
40 6 0.09
41 20 0.29
42 2 0.03
43 1 0.01
45 1 0.01
46 2 0.03
47 24 0.35
48 6 0.09
49 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (46 bp):
AGCAGATCGAAGACATAGCTGATTTGGCTTTCACTGTTTACGTTGA
Found at i:71783118 original size:132 final size:132
Alignment explanation
Indices: 71782919--71784246 Score: 2179
Period size: 132 Copynumber: 10.1 Consensus size: 132
71782909 TTGAAGATTG
* * * *
71782919 CAGATTTGGCATCCCTATGTTTATAGGGAAAAGATCGAAGATAACAGATCTGACAATCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
* *
71782984 TACAGTGAAGCAGATCAAAGATTTCAGTATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
*
71783049 AG
131 AA
* * *
71783051 TAGATTTGGCATCCCTGTGCTTATAGGGAACATATCAAAGATAACAGATCTGACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
* *
71783116 TACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGCTGAAAAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
71783181 AA
131 AA
* * * *
71783183 CAGATTTGACATCCCTGTGCTTATAAGGAACAGATCGAAGATAACAGATCTGGCATTCATGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
* *
71783248 TACAGTGAAGCAGATCGAATATTTCAGCATGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
71783313 AA
131 AA
* * * *
71783315 CAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAAATCTAACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
*
71783380 TACAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
71783445 AA
131 AA
* *
71783447 TAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCAAAGATAACAGATCTGACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
*
71783512 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCATGTGCTTATAGGGAACAAGTTGAAAAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
71783577 AA
131 AA
* * * * * *
71783579 TAGATTTGGCATCCCTGTGTTTGTAGGGAACAGATCGAAGATAGCAAATCTAACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
* *
71783644 TACAGTGAAGCAGATCAAAGATTTCAGTATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
71783709 AA
131 AA
*
71783711 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACACATCTGACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
71783776 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
71783841 AA
131 AA
* * ** * *
71783843 CAAATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGTAAATCTAACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
71783908 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
*
71783973 AG
131 AA
* *
71783975 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTAACATTCCTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
* *
71784040 TACAGTGAAGCAGATCGAAGATTTCAACATGGCATCCTTGTGCTTATAGGGAACAAGTTGAAAAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
*
71784105 AG
131 AA
* *
71784107 CAGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGACATTACTGTGCT
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
* * *
71784172 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCTCTGTGTTTATAGGGAACAAGTTGAAGAT
66 TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
*
71784237 AG
131 AA
71784239 CAGATTTG
1 CAGATTTG
71784247 ACCCCTTAAG
Statistics
Matches: 1117, Mismatches: 79, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 1117 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (132 bp):
CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAACAGATCTGACATTCCTGTGCT
TACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAT
AA
Found at i:71784348 original size:87 final size:87
Alignment explanation
Indices: 71784247--71784491 Score: 303
Period size: 87 Copynumber: 2.8 Consensus size: 87
71784237 AGCAGATTTG
* * * *
71784247 ACCCCTTAAGCAGTAGAGAAACAGATCGAAAGCGACGAGCCTT-AACTCCCTAAGTAGTAGGGTA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGAACCTTAAAC-CCCTAAGCAGTAGGGTA
71784311 ACAGGCTAAATTTACAAATCTTA
65 ACAGGCTAAATTTACAAATCTTA
* *
71784334 ACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAACCTTAAACCCCTAAGCAGTAGGGTAA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGAACCTTAAACCCCTAAGCAGTAGGGTAA
* * * *
71784399 TAGGTTGAATTTACAGATCTTA
66 CAGGCTAAATTTACAAATCTTA
* * * * ** * * *
71784421 ACCCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCTTTAAACCCCAAAGCAATAGGGTAA
1 ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGAACCTTAAACCCCTAAGCAGTAGGGTAA
71784486 CAGGCT
66 CAGGCT
71784492 GAAAATTATA
Statistics
Matches: 138, Mismatches: 19, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
87 135 0.98
88 3 0.02
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (87 bp):
ACCCCCTAAGCAGTAGGGAAACAGATCGAAAGCGACGAACCTTAAACCCCTAAGCAGTAGGGTAA
CAGGCTAAATTTACAAATCTTA
Found at i:71784386 original size:44 final size:43
Alignment explanation
Indices: 71784330--71784488 Score: 124
Period size: 44 Copynumber: 3.7 Consensus size: 43
71784320 ATTTACAAAT
*
71784330 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAAC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATG-AC
* * * * ** *
71784374 CTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAATTTAC-A-GAT
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAA--GGCGATGAC
* * * *
71784417 CTTAACCCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGC
1 CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGCGAT-GAC
* * * *
71784461 TTTAAACCCCAAAGCAATAGGGTAACAG
1 CTTAAACCCCTAAGCAGTAGGGAAACAG
71784489 GCTGAAAATT
Statistics
Matches: 87, Mismatches: 23, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
42 1 0.01
43 31 0.36
44 53 0.61
45 1 0.01
46 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (43 bp):
CTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGGCGATGAC
Found at i:71784444 original size:43 final size:43
Alignment explanation
Indices: 71784287--71784441 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 43
71784277 AGCGACGAGC
* * * * * *
71784287 CTTAACTCCCTAAGTAGTAGGGTAACAGGCTAAATTTACAAAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTTACAGAT
* * ** *
71784330 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAA--GGCGATGAAC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTTAC-A-G-AT
* * *
71784374 CTTAAACCCCTAAGCAGTAGGGTAATAGGTTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTTACAGAT
71784417 CTTAACCCCCTAAGCAGTAGGGAAA
1 CTTAACCCCCTAAGCAGTAGGGAAA
71784442 TAGATCGAAG
Statistics
Matches: 86, Mismatches: 21, Indels: 10
0.74 0.18 0.09
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 51 0.59
44 31 0.36
45 1 0.01
46 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGAAACAGGTTGAATTTACAGAT
Found at i:71786080 original size:12 final size:12
Alignment explanation
Indices: 71786063--71786124 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
71786053 TTTTTTGTTG
*
71786063 TTTATATTTTTA
1 TTTATATTATTA
71786075 TTTATATTATTA
1 TTTATATTATTA
*
71786087 -TTAGTATCATTA
1 TTTA-TATTATTA
71786099 -TTATCATTATTA
1 TTTAT-ATTATTA
71786111 -TTATTATTATTA
1 TTTA-TATTATTA
71786123 TT
1 TT
71786125 ATCTCAGTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
11 4 0.09
12 37 0.86
13 2 0.05
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:71786181 original size:20 final size:21
Alignment explanation
Indices: 71786156--71786195 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
71786146 TTTTTATATT
*
71786156 ACTATTATTGTTA-TATTATC
1 ACTATTATTCTTACTATTATC
*
71786176 ACTATTTTTCTTACTATTAT
1 ACTATTATTCTTACTATTAT
71786196 TATTACTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (21 bp):
ACTATTATTCTTACTATTATC
Found at i:71786215 original size:3 final size:3
Alignment explanation
Indices: 71786079--71786200 Score: 88
Period size: 3 Copynumber: 40.7 Consensus size: 3
71786069 TTTTTATTTA
* * *
71786079 TAT TAT TAT TAG TAT CAT TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
71786127 CTCAGT TAC TAT TAT TAT T-T TTT TA- TAT TAC TAT TAT TGT TA- TAT
1 -T-A-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
71786172 TAT CAC TAT TTT TCT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
71786201 CTACAACTAT
Statistics
Matches: 91, Mismatches: 22, Indels: 12
0.73 0.18 0.10
Matches are distributed among these distances:
2 6 0.07
3 80 0.88
4 2 0.02
5 2 0.02
6 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:71786387 original size:21 final size:21
Alignment explanation
Indices: 71786342--71786422 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
71786332 TTTCTCTGTT
** *
71786342 TTATTACTATTATTAATATCA
1 TTATTACTATTATTTTTATTA
*
71786363 TTATTACTATTATTTTTATTT
1 TTATTACTATTATTTTTATTA
71786384 TTATT--T-TTATTTTTATTA
1 TTATTACTATTATTTTTATTA
* * *
71786402 CTACTACTGTTATTTTTATTA
1 TTATTACTATTATTTTTATTA
71786423 ACATATTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
18 14 0.28
19 1 0.02
20 1 0.02
21 34 0.68
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.64
Consensus pattern (21 bp):
TTATTACTATTATTTTTATTA
Found at i:71786420 original size:6 final size:6
Alignment explanation
Indices: 71786372--71786400 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
71786362 ATTATTACTA
71786372 TTATTT TTATTT TTATTT TTATTT TTATT
1 TTATTT TTATTT TTATTT TTATTT TTATT
71786401 ACTACTACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:71786536 original size:15 final size:15
Alignment explanation
Indices: 71786516--71786546 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
71786506 TATTATTTTC
71786516 TATTTATTACTATTA
1 TATTTATTACTATTA
71786531 TATTTATTACTATTA
1 TATTTATTACTATTA
71786546 T
1 T
71786547 TAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTTATTACTATTA
Found at i:71786656 original size:15 final size:15
Alignment explanation
Indices: 71786638--71786675 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
71786628 CTCACTTAGC
71786638 TATTATTACTATTAT
1 TATTATTACTATTAT
*
71786653 TATTTTTACTATTAT
1 TATTATTACTATTAT
*
71786668 AATTATTA
1 TATTATTA
71786676 TTAATCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATTACTATTAT
Found at i:71788674 original size:17 final size:17
Alignment explanation
Indices: 71788652--71788712 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
71788642 ACAATAATAT
71788652 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
71788669 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
71788686 ATAATATAGT-TA-G-A-
1 AAAATATA-TATATGTAC
71788700 AAAATATATATAT
1 AAAATATATATAT
71788713 TAAATTCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 9 0.24
15 1 0.03
16 1 0.03
17 23 0.61
18 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.34
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:71789501 original size:15 final size:16
Alignment explanation
Indices: 71789465--71789507 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
71789455 TTTTTTGTTG
71789465 TTTTTTTTTGCTGGAA
1 TTTTTTTTTGCTGGAA
**
71789481 AATTTTTTTGCT-GAA
1 TTTTTTTTTGCTGGAA
71789496 TTTTTTTTTGCT
1 TTTTTTTTTGCT
71789508 CTTTTTTCTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.14, C:0.07, G:0.14, T:0.65
Consensus pattern (16 bp):
TTTTTTTTTGCTGGAA
Found at i:71789789 original size:30 final size:30
Alignment explanation
Indices: 71789734--71789849 Score: 112
Period size: 30 Copynumber: 3.9 Consensus size: 30
71789724 GTATTTTTTA
* *
71789734 GAAAATTTA-GGGTTAAAATGCAATTTAAG
1 GAAAGTTTAGGGGTTAAAATGAAATTTAAG
* * *
71789763 GAAAGTTTTGGGGTCT-AAGTGAAATTTAAA
1 GAAAGTTTAGGGGT-TAAAATGAAATTTAAG
* *
71789793 AAAAGTTTAAGGGTTAAAATGAAATTT-AG
1 GAAAGTTTAGGGGTTAAAATGAAATTTAAG
* *
71789822 GAAAAGTTTAGGGGTAAAAATGCAATTT
1 G-AAAGTTTAGGGGTTAAAATGAAATTT
71789850 TTATTTTTTG
Statistics
Matches: 69, Mismatches: 14, Indels: 7
0.77 0.16 0.08
Matches are distributed among these distances:
29 9 0.13
30 59 0.86
31 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.31
Consensus pattern (30 bp):
GAAAGTTTAGGGGTTAAAATGAAATTTAAG
Found at i:71789849 original size:60 final size:58
Alignment explanation
Indices: 71789735--71789849 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 58
71789725 TATTTTTTAG
* * ** *
71789735 AAAATTTAGGGTTAAAATGCAATTTAAGGAAAGTTTTGGGGTCTAAGTGAAATTTAAA
1 AAAATTTAGGGTTAAAATGAAATTTAAGGAAAGTTTAGGGGTAAAAATGAAATTTAAA
*
71789793 AAAAGTTTAAGGGTTAAAATGAAATTT-AGGAAAAGTTTAGGGGTAAAAATGCAATTT
1 AAAA-TTT-AGGGTTAAAATGAAATTTAAGG-AAAGTTTAGGGGTAAAAATGAAATTT
71789850 TTATTTTTTG
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
58 4 0.08
59 6 0.12
60 38 0.79
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.31
Consensus pattern (58 bp):
AAAATTTAGGGTTAAAATGAAATTTAAGGAAAGTTTAGGGGTAAAAATGAAATTTAAA
Found at i:71790307 original size:74 final size:74
Alignment explanation
Indices: 71790079--71790357 Score: 271
Period size: 74 Copynumber: 3.7 Consensus size: 74
71790069 GACCCGAAGT
71790079 TCAACTCACCTCTCG-AATTATGAGTTGATCTTTTGAAAAAGCAAAA-AATTGAAAATACCTCAG
1 TCAACTCACCTCTCGCAA-TATGAGTTGATCTTTT-AAAAA--AAAAGAATTGAAAATACCTCAG
71790142 CGTGTGACCTGAGGC
62 CGTGT--CCTGAGGC
* * ** * ** * **
71790157 TTAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATTGAAATTGAAAATACCTTAATGT
1 TCAACTCACCTCTCGCAATATGAGTTGATCTTTTAAAAAAAAAG-AATTGAAAATACCTCAGCGT
*
71790222 GTCTTGAGGC
65 GTCCTGAGGC
** *
71790232 TCAACTCATTTCTCGCAATATGAGTTGA-CTTTTAAAAAAAAAGGAATTGAAATTACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGATCTTTTAAAAAAAAA-GAATTGAAAATACCTCAGCGT
*
71790296 GTCCCGAGGC
65 GTCCTGAGGC
* * * *
71790306 TCAACTCACCTCTCGTAATATGAATTGAT-TTTTGAAAAACATA-AATTGAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATCTTTT-AAAAAAAAAGAATTGAAAA
71790358 ACGGAAATCG
Statistics
Matches: 162, Mismatches: 33, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
73 8 0.05
74 60 0.37
75 41 0.25
77 22 0.14
78 29 0.18
79 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (74 bp):
TCAACTCACCTCTCGCAATATGAGTTGATCTTTTAAAAAAAAAGAATTGAAAATACCTCAGCGTG
TCCTGAGGC
Found at i:71790413 original size:87 final size:87
Alignment explanation
Indices: 71790267--71790674 Score: 547
Period size: 87 Copynumber: 4.7 Consensus size: 87
71790257 TGACTTTTAA
* * * * *
71790267 AAAAAAAGGAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAATT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
71790332 GATTTTTGAAAAACATAAATTG
66 GATTTTTGAAAAACATAAATTG
* * * * * *
71790354 AAAAACGGAAATCGAAAATACCTCAACGTGTCCTGAGACTCAATTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
* *
71790419 GATTTTTGAAAAATATAGATTGG
66 GATTTTTGAAAAACATAAATT-G
* *
71790442 AAAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 -AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAAT
*
71790507 TGA--TTT-AAAAACAGT-CATT-
65 TGATTTTTGAAAAACA-TAAATTG
* * *
71790526 AAGAACAGAAATTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
* *
71790591 GATTTTTGCAAAATATAAATTG
66 GATTTTTGAAAAACATAAATTG
* *
71790613 AAAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
71790675 GTCGACTTTT
Statistics
Matches: 279, Mismatches: 34, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
83 62 0.22
85 4 0.01
86 17 0.06
87 134 0.48
88 1 0.00
89 61 0.22
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
GATTTTTGAAAAACATAAATTG
Found at i:71790606 original size:172 final size:174
Alignment explanation
Indices: 71790266--71790676 Score: 600
Period size: 172 Copynumber: 2.4 Consensus size: 174
71790256 TTGACTTTTA
* * * * *
71790266 AAAAAAAAGGAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAAT
1 AAAAAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
71790331 TGATTTTTGAAAAACATAAATTGAAAAACGGAAATCGAAAATACCTCAACGTGTCCTGAGACTCA
66 TGA-TTTTGAAAAACATAAATTGAAAAACAGAAATCAAAAATACCTCAACGTGTCCTGAGACTCA
* * *
71790396 ATTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAGATTGG
130 ACTCACCTCTCGCAATATGAATTGATTTTTGAAAAATATAAATT-G
*
71790442 AAAAAATAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAAAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * * *
71790507 TGA-TTT-AAAAACAGT-CATT-AAGAACAGAAATTAAAAATACCTCAACGTGTCCTGAGGCTCA
66 TGATTTTGAAAAACA-TAAATTGAAAAACAGAAATCAAAAATACCTCAACGTGTCCTGAGACTCA
*
71790568 ACTCACCTCTCGCAATATGAATTGATTTTTGCAAAATATAAATTG
130 ACTCACCTCTCGCAATATGAATTGATTTTTGAAAAATATAAATTG
71790613 AAAAACAT--AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAA-ATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
71790676 T
65 T
71790677 CGACTTTTTT
Statistics
Matches: 216, Mismatches: 17, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
170 55 0.25
171 6 0.03
172 79 0.37
173 10 0.05
174 4 0.02
176 62 0.29
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (174 bp):
AAAAAATAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTGAAAAACATAAATTGAAAAACAGAAATCAAAAATACCTCAACGTGTCCTGAGACTCAA
CTCACCTCTCGCAATATGAATTGATTTTTGAAAAATATAAATTG
Found at i:71790622 original size:14 final size:14
Alignment explanation
Indices: 71790600--71790629 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
71790590 TGATTTTTGC
*
71790600 AAAATATAAATTGA
1 AAAACATAAATTGA
71790614 AAAACATAAATTGA
1 AAAACATAAATTGA
71790628 AA
1 AA
71790630 TTACCTCAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAACATAAATTGA
Found at i:71790663 original size:259 final size:250
Alignment explanation
Indices: 71790200--71790685 Score: 661
Period size: 259 Copynumber: 1.9 Consensus size: 250
71790190 TTGAAAGATT
* * * **
71790200 GAAATTGAAAATACCTTAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGACTTTT
1 GAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAC-TTT
* * * *
71790265 AAAAAAAAAGGAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAA
65 AAAAAAAAAGGAATTAAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAA
*
71790330 TTGATTTTTGAAAAACATAAATTGAAAAACGGAAATCGAAAATACCTCAACGTGTCCTGAGACTC
130 TTGATTTTTGAAAAACATAAATTGAAAAACAGAAATCGAAAATACCTCAACGTGTCCTGAGACTC
* *
71790395 AATTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATATAGATTGGAAAAAATA
195 AACTCACCTCTCGCAATATGAGTCGACTTTTTGAAAAATATAGATTGGAAAAAATA
*
71790450 GAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTA
1 GAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTA
*
71790514 AAAACAGTCATTAAGAACAGAAATTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTC
66 AAAA-A---A--AAG----G-AATTAAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTC
* * * * * *
71790579 GCAATATGAATTGATTTTTGCAAAATATAAATTGAAAAACATAAATTGAAATTACCTCAGCGTGT
120 GCAATATGAATTGATTTTTGAAAAACATAAATTGAAAAACAGAAATCGAAAATACCTCAACGTGT
*
71790644 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGACTTTTT
185 CCTGAGACTCAACTCACCTCTCGCAATATGAGTCGACTTTTT
71790686 TTTTGACAAA
Statistics
Matches: 203, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
248 8 0.04
249 1 0.00
250 54 0.27
252 1 0.00
254 3 0.01
258 1 0.00
259 130 0.64
260 5 0.02
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.29
Consensus pattern (250 bp):
GAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGACTTTA
AAAAAAAAGGAATTAAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAAT
TGATTTTTGAAAAACATAAATTGAAAAACAGAAATCGAAAATACCTCAACGTGTCCTGAGACTCA
ACTCACCTCTCGCAATATGAGTCGACTTTTTGAAAAATATAGATTGGAAAAAATA
Found at i:71804457 original size:16 final size:16
Alignment explanation
Indices: 71804420--71804457 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
71804410 TTTTTTGTTG
71804420 TTTTTTTTTGCTGGAA
1 TTTTTTTTTGCTGGAA
**
71804436 AATTTTTTTGCT-GAA
1 TTTTTTTTTGCTGGAA
71804451 TTTTTTT
1 TTTTTTT
71804458 CTCTTTTTTC
Statistics
Matches: 18, Mismatches: 4, Indels: 1
0.78 0.17 0.04
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.16, C:0.05, G:0.13, T:0.66
Consensus pattern (16 bp):
TTTTTTTTTGCTGGAA
Found at i:71804717 original size:29 final size:30
Alignment explanation
Indices: 71804685--71804800 Score: 103
Period size: 30 Copynumber: 3.9 Consensus size: 30
71804675 GTAATTTTTA
* *
71804685 GAAAATTTA-GGGTTAAGATGCAATTTAAG
1 GAAAATTTAGGGGTTAAAATGAAATTTAAG
* * *
71804714 GAAAGTTTAGGGGTCT-AAGTGAAATTTAAA
1 GAAAATTTAGGGGT-TAAAATGAAATTTAAG
* * *
71804744 GAAAGTTTAAGGGTCAAAATGAAATTT-AG
1 GAAAATTTAGGGGTTAAAATGAAATTTAAG
* *
71804773 GAAAAGTTTAGGGGTAAAAATGCAATTT
1 GAAAA-TTTAGGGGTTAAAATGAAATTT
71804801 TTATTTTTTG
Statistics
Matches: 70, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
29 13 0.19
30 56 0.80
31 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.29
Consensus pattern (30 bp):
GAAAATTTAGGGGTTAAAATGAAATTTAAG
Found at i:71804742 original size:30 final size:30
Alignment explanation
Indices: 71804685--71804787 Score: 113
Period size: 30 Copynumber: 3.5 Consensus size: 30
71804675 GTAATTTTTA
* *
71804685 GAAAATTTA-GGGT-TAAGATGCAATTTAAG
1 GAAAGTTTAGGGGTCTAAG-TGAAATTTAAG
*
71804714 GAAAGTTTAGGGGTCTAAGTGAAATTTAAA
1 GAAAGTTTAGGGGTCTAAGTGAAATTTAAG
* * *
71804744 GAAAGTTTAAGGGTCAAAATGAAATTT-AG
1 GAAAGTTTAGGGGTCTAAGTGAAATTTAAG
71804773 GAAAAGTTTAGGGGT
1 G-AAAGTTTAGGGGT
71804788 AAAAATGCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
29 10 0.16
30 49 0.78
31 4 0.06
ACGTcount: A:0.41, C:0.03, G:0.27, T:0.29
Consensus pattern (30 bp):
GAAAGTTTAGGGGTCTAAGTGAAATTTAAG
Found at i:71804800 original size:60 final size:59
Alignment explanation
Indices: 71804684--71804800 Score: 137
Period size: 60 Copynumber: 2.0 Consensus size: 59
71804674 TGTAATTTTT
* * * ** *
71804684 AGAAAATTTAGGGTTAAGATGCAATTTAAGGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTAAAAATGAAATTTAA
* *
71804743 AGAAAGTTTAAGGGTCAAAATGAAATTT-AGGAAAAGTTTAGGGGTAAAAATGCAATTT
1 AGAAAATTT-AGGGTCAAAATGAAATTTAAGG-AAAGTTTAGGGGTAAAAATGAAATTT
71804801 TTATTTTTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
59 11 0.23
60 37 0.77
ACGTcount: A:0.43, C:0.03, G:0.25, T:0.29
Consensus pattern (59 bp):
AGAAAATTTAGGGTCAAAATGAAATTTAAGGAAAGTTTAGGGGTAAAAATGAAATTTAA
Found at i:71804828 original size:24 final size:23
Alignment explanation
Indices: 71804797--71804841 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
71804787 TAAAAATGCA
71804797 ATTTTTATTTTTTGAAAATTTTTT
1 ATTTTTATTTTTT-AAAATTTTTT
*
71804821 ATTTTTATTTTTTTAAATTTT
1 ATTTTTATTTTTTAAAATTTT
71804842 GAAAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (23 bp):
ATTTTTATTTTTTAAAATTTTTT
Found at i:71805173 original size:17 final size:17
Alignment explanation
Indices: 71805148--71805191 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
71805138 TTTTTCTTTT
*
71805148 TTCTT-TCTTCTTCTTC
1 TTCTTCTCTTCTTCTCC
71805164 TTCTTCTCTTCTTCTCC
1 TTCTTCTCTTCTTCTCC
71805181 TT-TCTCTCTTC
1 TTCT-TCTCTTC
71805192 CGTGTGAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (17 bp):
TTCTTCTCTTCTTCTCC
Found at i:71805521 original size:26 final size:28
Alignment explanation
Indices: 71805492--71805552 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
71805482 TATATATTTA
*
71805492 AATATT-TTTAATAAAAATAAAAAAATAAT
1 AATATTATTTAA-AAAAACAAAAAAA-AAT
*
71805521 -ATTTTATTTAAAAAAACAAAAAAAAAT
1 AATATTATTTAAAAAAACAAAAAAAAAT
71805548 AATAT
1 AATAT
71805553 AAAATAATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
27 3 0.11
28 19 0.70
29 5 0.19
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (28 bp):
AATATTATTTAAAAAAACAAAAAAAAAT
Found at i:71805982 original size:23 final size:22
Alignment explanation
Indices: 71805956--71806012 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
71805946 AATCTCTCAT
71805956 GTTTGAATTATAATTATCA-AGAA
1 GTTTGAATTATAA-TATCACA-AA
71805979 GTTTGAATTATAATATCACAAA
1 GTTTGAATTATAATATCACAAA
*
71806001 -TTTAAATTATAA
1 GTTTGAATTATAA
71806013 GTAATCACGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 11 0.34
22 7 0.22
23 14 0.44
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (22 bp):
GTTTGAATTATAATATCACAAA
Found at i:71817676 original size:14 final size:14
Alignment explanation
Indices: 71817653--71817682 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
71817643 TTGAAAATAT
71817653 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
71817667 GTTGATTTGGATTG
1 GTTGAATTGGATTG
71817681 GT
1 GT
71817683 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:71819981 original size:16 final size:15
Alignment explanation
Indices: 71819960--71820000 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
71819950 AAACAAAAGG
71819960 AAGTAATGGAGGGGAA
1 AAGTAAT-GAGGGGAA
*
71819976 AAGTAA-GATGGGAA
1 AAGTAATGAGGGGAA
71819990 AA-TAATGAGGG
1 AAGTAATGAGGG
71820001 CATAACTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.14
14 13 0.59
16 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.39, T:0.15
Consensus pattern (15 bp):
AAGTAATGAGGGGAA
Found at i:71822591 original size:102 final size:101
Alignment explanation
Indices: 71822478--71822671 Score: 248
Period size: 104 Copynumber: 1.9 Consensus size: 101
71822468 AACAACGTTG
* * * *
71822478 AAATATATATATATAAGTCATTAGCTTT-AA-ATATATAGAGAGACCAAATATGTAAACTTTGAA
1 AAATATATATATATAACTCATTACCTTTAAATATATATAGAGAGACCAAATATGTAAAATCTGAA
*
71822541 AACTAAATTTGTTAAAAATATATAAAAAATTTAAAAT
66 AACTAAATTTATTAAAAA-ATATAAAAAATTTAAAAT
** *
71822578 AAATATACTTATATATAACTCATTACCTTTAAATATATATAGAGAGACTGAATGTGTAAAATCTG
1 AAATATA--TATATATAACTCATTACCTTTAAATATATATAGAGAGACCAAATATGTAAAATCTG
* * *
71822643 AAGATTAAATTTATTGAAAAATATAAAAA
64 AAAACTAAATTTATTAAAAAATATAAAAA
71822672 TCATTAGCTT
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
100 7 0.09
102 19 0.24
103 11 0.14
104 42 0.53
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.34
Consensus pattern (101 bp):
AAATATATATATATAACTCATTACCTTTAAATATATATAGAGAGACCAAATATGTAAAATCTGAA
AACTAAATTTATTAAAAAATATAAAAAATTTAAAAT
Found at i:71822770 original size:28 final size:30
Alignment explanation
Indices: 71822711--71822773 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 30
71822701 CAGTTCGATT
* *
71822711 TAAATTTTGAAAATTGAAAAATAGATAAAC
1 TAAATTCTGAAAATTGAAAAATAGAGAAAC
* *
71822741 TAAATTCTGAAAA-T-AAAAATATAGAGAC
1 TAAATTCTGAAAATTGAAAAATAGAGAAAC
71822769 TAAAT
1 TAAAT
71822774 ATAAAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 16 0.55
29 1 0.03
30 12 0.41
ACGTcount: A:0.57, C:0.05, G:0.10, T:0.29
Consensus pattern (30 bp):
TAAATTCTGAAAATTGAAAAATAGAGAAAC
Found at i:71830500 original size:12 final size:11
Alignment explanation
Indices: 71830485--71830524 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
71830475 AAAAAACCTT
71830485 AGAAAAATGTAG
1 AGAAAAAT-TAG
*
71830497 AGAAAAATTAA
1 AGAAAAATTAG
*
71830508 AGAAAACTTAG
1 AGAAAAATTAG
71830519 AGAAAA
1 AGAAAA
71830525 TTAAACCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.65, C:0.03, G:0.17, T:0.15
Consensus pattern (11 bp):
AGAAAAATTAG
Found at i:71830526 original size:21 final size:23
Alignment explanation
Indices: 71830485--71830529 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
71830475 AAAAAACCTT
71830485 AGAAAAATGTAGAGAAAAATTAA
1 AGAAAAATGTAGAGAAAAATTAA
*
71830508 AGAAAACT-TAGAG-AAAATTAA
1 AGAAAAATGTAGAGAAAAATTAA
71830529 A
1 A
71830530 CCTAAAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 5 0.24
23 7 0.33
ACGTcount: A:0.64, C:0.02, G:0.16, T:0.18
Consensus pattern (23 bp):
AGAAAAATGTAGAGAAAAATTAA
Found at i:71832861 original size:21 final size:21
Alignment explanation
Indices: 71832835--71832917 Score: 60
Period size: 21 Copynumber: 3.9 Consensus size: 21
71832825 TGATTAGAAT
71832835 ACGACACATAAAGTGCCTAAA
1 ACGACACATAAAGTGCCTAAA
** * * * *
71832856 ACGACACACGAGGTGCTTGAT
1 ACGACACATAAAGTGCCTAAA
* *
71832877 ACGACACA-AGAGGTGCTTGAAA
1 ACGACACATA-AAGTGCCT-AAA
71832899 TACGACACATAAAGTGCCT
1 -ACGACACATAAAGTGCCT
71832918 GATCAGTAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
21 31 0.66
22 1 0.02
23 14 0.30
24 1 0.02
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.17
Consensus pattern (21 bp):
ACGACACATAAAGTGCCTAAA
Found at i:71832905 original size:23 final size:23
Alignment explanation
Indices: 71832832--71832907 Score: 81
Period size: 21 Copynumber: 3.5 Consensus size: 23
71832822 ACCTGATTAG
* *
71832832 AATACGACACATA-AAGTGCCT-A
1 AATACGACACA-AGAGGTGCTTGA
*
71832854 AA-ACGACACACGAGGTGCTTG-
1 AATACGACACAAGAGGTGCTTGA
71832875 -ATACGACACAAGAGGTGCTTGA
1 AATACGACACAAGAGGTGCTTGA
71832897 AATACGACACA
1 AATACGACACA
71832908 TAAAGTGCCT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
20 1 0.02
21 32 0.71
22 2 0.04
23 10 0.22
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.16
Consensus pattern (23 bp):
AATACGACACAAGAGGTGCTTGA
Found at i:71834441 original size:18 final size:17
Alignment explanation
Indices: 71834418--71834468 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
71834408 ATGCTCTCTG
71834418 TTTCTTTGTTTCTTTATT
1 TTTCTTTGTTTCTTTA-T
*
71834436 TTTCTTT-TATGCTTTAT
1 TTTCTTTGT-TTCTTTAT
* *
71834453 TTACTTTGTTTATTTA
1 TTTCTTTGTTTCTTTA
71834469 ATTAACATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.12, C:0.10, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTCTTTGTTTCTTTAT
Found at i:71834803 original size:3 final size:3
Alignment explanation
Indices: 71834795--71834834 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
71834785 AATATGAACC
*
71834795 ATA ATA ATA ATA ATA AT- TTA ATA ATTA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA A
71834835 AATCTTAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 1 0.03
3 29 0.88
4 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:71838332 original size:4 final size:4
Alignment explanation
Indices: 71838325--71838352 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
71838315 ATAGTTTTTC
71838325 AATT AATT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT
71838353 GAAGTTCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
AATT
Found at i:71841452 original size:19 final size:18
Alignment explanation
Indices: 71841408--71841466 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 18
71841398 ATTACTAATT
71841408 TAAAATTTTATAAAAATAAA
1 TAAAATTTT-T-AAAATAAA
*
71841428 TGAAAATTTTTAGAATAAGA
1 T-AAAATTTTTAAAATAA-A
*
71841448 TAAAATATTTAAAAATAAA
1 TAAAAT-TTTTAAAATAAA
71841467 AAATAAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
19 12 0.36
20 13 0.39
21 8 0.24
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
TAAAATTTTTAAAATAAA
Found at i:71842908 original size:40 final size:40
Alignment explanation
Indices: 71842843--71842951 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 40
71842833 TTCATTAATT
* * * *
71842843 TTTTAAA-TTTTAAAAA-GTT-ATAAATATTTTTTTATAC
1 TTTTAAATTTTTAAAAATTTTAAAAAATAATTTTATATAC
* *
71842880 TTTTAAATATTTT-TAAATTTTAAAAAATAATTTTATATAT
1 TTTTAAAT-TTTTAAAAATTTTAAAAAATAATTTTATATAC
* *
71842920 TTTTGAATTTTTAAAAATTTTAAAAATTAATT
1 TTTTAAATTTTTAAAAATTTTAAAAAATAATT
71842952 AAATATTTAT
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
37 7 0.12
38 3 0.05
39 10 0.17
40 38 0.66
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (40 bp):
TTTTAAATTTTTAAAAATTTTAAAAAATAATTTTATATAC
Found at i:71842914 original size:30 final size:30
Alignment explanation
Indices: 71842880--71842937 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
71842870 TTTTTTATAC
71842880 TTTTAAATATTTTTAAATTTTAAAAAATAA
1 TTTTAAATATTTTTAAATTTTAAAAAATAA
* * *
71842910 TTTTATATATTTTTGAATTTTTAAAAAT
1 TTTTAAATATTTTTAAATTTTAAAAAAT
71842938 TTTAAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TTTTAAATATTTTTAAATTTTAAAAAATAA
Found at i:71850059 original size:46 final size:46
Alignment explanation
Indices: 71849972--71850083 Score: 169
Period size: 46 Copynumber: 2.5 Consensus size: 46
71849962 CCTGGACTTG
71849972 GTCTTACACTAGCTTA-A-CTCGTAGCCAATGCATGTCCCAGACAT
1 GTCTTACACTAGCTTACATCTCGTAGCCAATGCATGTCCCAGACAT
*
71850016 GTCTTACACTAGCTTACATCTCG-AGGCTAATGCATGTCCCAGACAT
1 GTCTTACACTAGCTTACATCTCGTA-GCCAATGCATGTCCCAGACAT
71850062 GTCTTACACTAGCTCT-CATCTC
1 GTCTTACACTAGCT-TACATCTC
71850084 ACTGCTGATG
Statistics
Matches: 63, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
44 16 0.25
45 2 0.03
46 44 0.70
47 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.29
Consensus pattern (46 bp):
GTCTTACACTAGCTTACATCTCGTAGCCAATGCATGTCCCAGACAT
Found at i:71850267 original size:135 final size:135
Alignment explanation
Indices: 71850103--71850372 Score: 513
Period size: 135 Copynumber: 2.0 Consensus size: 135
71850093 GTTATGTCCC
71850103 GAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATACATGTCCTAGACATGTCTTAAACTAG
1 GAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATACATGTCCTAGACATGTCTTAAACTAG
71850168 CTCACATTACTCCATACATCATGGCATGAATATCTAATTTATTTCCCATGGTTCATACAAGAATT
66 CTCACATTACTCCATACATCATGGCATGAATATCTAATTTATTTCCCATGGTTCATACAAGAATT
71850233 TTACT
131 TTACT
* *
71850238 GAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATACTTGTCCTAGACATGTCTTACACTAG
1 GAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATACATGTCCTAGACATGTCTTAAACTAG
*
71850303 CTCACATTACTCCATACATCATGGCATGAATATCTAATTTATTTCCCATGGTTTATACAAGAATT
66 CTCACATTACTCCATACATCATGGCATGAATATCTAATTTATTTCCCATGGTTCATACAAGAATT
71850368 TTACT
131 TTACT
71850373 TTCTTAATTA
Statistics
Matches: 132, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
135 132 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (135 bp):
GAACATGGTCTTACACTGGCTCTCATAATGTGGCCGATACATGTCCTAGACATGTCTTAAACTAG
CTCACATTACTCCATACATCATGGCATGAATATCTAATTTATTTCCCATGGTTCATACAAGAATT
TTACT
Found at i:71857773 original size:46 final size:44
Alignment explanation
Indices: 71857686--71857854 Score: 128
Period size: 46 Copynumber: 3.7 Consensus size: 44
71857676 AACTCGTAGC
* * * * *
71857686 CGATGCATGTCCCAGACATGTCTTACGCTGGCTT-ACATCTCAAGG
1 CGATGCATGTCCCAAACATGTCTTACACTAG-TTCTCGTCTC-AGG
*
71857731 CTGATGCATGTCCCAAACATGTCTTACACTAGTTCTCGTCTCACTGC
1 C-GATGCATGTCCCAAACATGTCTTACACTAGTTCTCGTCTCA--GG
* * * *
71857778 CGATGCCATGTCCCGAACATGGTCTTACACTGGCTCTCGTAATGC-GG
1 CGATG-CATGTCCCAAACAT-GTCTTACACTAGTTCTCGT-CT-CAGG
* *
71857825 CGATGCATGT-CTAGACATGTCTTACACTAG
1 CGATGCATGTCCCAAACATGTCTTACACTAG
71857855 CTTACAATAG
Statistics
Matches: 101, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
44 11 0.11
45 9 0.09
46 41 0.41
47 21 0.21
48 17 0.17
49 1 0.01
50 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (44 bp):
CGATGCATGTCCCAAACATGTCTTACACTAGTTCTCGTCTCAGG
Found at i:71863048 original size:22 final size:22
Alignment explanation
Indices: 71863020--71863061 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
71863010 GCCGTGTGGC
*
71863020 AGAGGCACACGCCCATGTGAAG
1 AGAGGCACACGCCCAAGTGAAG
*
71863042 AGAGGCACACGGCCAAGTGA
1 AGAGGCACACGCCCAAGTGA
71863062 CTAAAGCACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.26, G:0.33, T:0.07
Consensus pattern (22 bp):
AGAGGCACACGCCCAAGTGAAG
Found at i:71865751 original size:181 final size:179
Alignment explanation
Indices: 71865273--71865780 Score: 469
Period size: 187 Copynumber: 2.8 Consensus size: 179
71865263 AACTTCTTCC
* * *
71865273 TTAGTTATGTGATTTGTATCATCTGAAATCTGAATGGTGGCTCTATGTCTTACTGTTTTAACTTT
1 TTAGTTATGTGATTTGTATCATCT--AAGCT---TGGTGGCTCTAAGTCTTACTGTTTTAACCTT
* * * * * * * *
71865338 TTTACAAGAGCGTCTGTCTGTGTTTTACCCGAACATTATGTATAGCAATATCTCCAAAACGAAAA
61 TTTACAAGGGTGTC-GACTGTGTTTTACCCAAACATTATGTCTAGCAATATCTCCCAAATGGAAA
* * * *
71865403 AGGAGGAAGTGGGGGAGGGTGATTGTAGGTGAGACATTCGACTGCTTATCAACGATG
125 A-GAGGAAGT-GGGCAGGATGATTATAGGTGAGACATTCAACTGCTTATCAACGATG
* * * * *
71865460 TTTGTTATGTGATTTGTATTATCTGAGC--GGTGGCTC-AATGCCTTACCGTTTT-ACCTTTTTT
1 TTAGTTATGTGATTTGTATCATCTAAGCTTGGTGGCTCTAA-GTCTTACTGTTTTAACC------
* *
71865521 TTTTTTGCAAGGGTGTCGACTGTTGTTTTA-CCAAACATTTTGTCTAGCAATATCTCCCAAATGG
59 -TTTTTACAAGGGTGTCGACTG-TGTTTTACCCAAACATTATGTCTAGCAATATCTCCCAAATGG
* * *
71865585 AAAAGAGGAAGTGGGCAGGATGATTATAGTTGAGACATTCAATTCCT-CATTGAT-AATGTTTG
122 AAAAGAGGAAGTGGGCAGGATGATTATAGGTGAGACATTCAA---CTGC-TT-ATCAACG-ATG
*
71865647 TTAGTTATGTGATTTGTATCATCT-A-CTTGGTGGCTCTAAGTTTTACTGTTTTAACCTTTTTAC
1 TTAGTTATGTGATTTGTATCATCTAAGCTTGGTGGCTCTAAGTCTTACTGTTTTAACCTTTTTAC
* * *
71865710 TAGGGTGTCGACTGTGTTTTACCCTAATATTATGTCTAGCAATATCT-CCAAATTGGAAAAGAGG
66 AAGGGTGTCGACTGTGTTTTACCCAAACATTATGTCTAGCAATATCTCCCAAA-TGGAAAAGAGG
71865774 AAGTGGG
130 AAGTGGG
71865781 TGGGGGTGGT
Statistics
Matches: 265, Mismatches: 35, Indels: 48
0.76 0.10 0.14
Matches are distributed among these distances:
179 3 0.01
180 31 0.12
181 59 0.22
183 25 0.09
184 8 0.03
185 40 0.15
186 28 0.11
187 66 0.25
188 5 0.02
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (179 bp):
TTAGTTATGTGATTTGTATCATCTAAGCTTGGTGGCTCTAAGTCTTACTGTTTTAACCTTTTTAC
AAGGGTGTCGACTGTGTTTTACCCAAACATTATGTCTAGCAATATCTCCCAAATGGAAAAGAGGA
AGTGGGCAGGATGATTATAGGTGAGACATTCAACTGCTTATCAACGATG
Found at i:71875322 original size:12 final size:12
Alignment explanation
Indices: 71875307--71875337 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
71875297 TTCTCTTTTA
71875307 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
71875319 TTTTTCTTTCTC
1 TTTTTCTTTCCC
71875331 TTTTTCT
1 TTTTTCT
71875338 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:71875731 original size:15 final size:14
Alignment explanation
Indices: 71875713--71875743 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
71875703 TTAATTTATT
71875713 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
71875728 TAATAATAATCTAA
1 TAATAATAATCTAA
71875742 TA
1 TA
71875744 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:71875754 original size:21 final size:20
Alignment explanation
Indices: 71875730--71875798 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
71875720 AATGCTAATA
71875730 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
71875751 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
71875770 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
71875791 ATAATAAT
1 ATAATAAT
71875799 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:71877928 original size:10 final size:10
Alignment explanation
Indices: 71877913--71877964 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
71877903 TAAATTTAGG
71877913 ATTTATTTTT
1 ATTTATTTTT
*
71877923 ATTTATATTT
1 ATTTATTTTT
* *
71877933 AATTATCTTT
1 ATTTATTTTT
* *
71877943 AATTATTTGT
1 ATTTATTTTT
71877953 ATTTATCTTTT
1 ATTTAT-TTTT
71877964 A
1 A
71877965 GAATTTAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
10 30 0.88
11 4 0.12
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:71882938 original size:18 final size:18
Alignment explanation
Indices: 71882917--71882958 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
71882907 TATTCTTAAG
71882917 TAAAAATAAATAAAT-AAA
1 TAAAAATAAA-AAATGAAA
*
71882935 TAAAATTAAAAAATGAAA
1 TAAAAATAAAAAATGAAA
*
71882953 GAAAAA
1 TAAAAA
71882959 AAGATATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (18 bp):
TAAAAATAAAAAATGAAA
Found at i:71883534 original size:34 final size:34
Alignment explanation
Indices: 71883496--71883563 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
71883486 TATAGCACAA
71883496 GACTCTATTTAATGTTTAATTATATTAGGATAAT
1 GACTCTATTTAATGTTTAATTATATTAGGATAAT
71883530 GACTCTATTTAATGTTTAATTATATTAGGATAAT
1 GACTCTATTTAATGTTTAATTATATTAGGATAAT
71883564 TATTAAGGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (34 bp):
GACTCTATTTAATGTTTAATTATATTAGGATAAT
Found at i:71883617 original size:10 final size:10
Alignment explanation
Indices: 71883604--71883646 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
71883594 AGGATTTGTT
71883604 TTTATTTATC
1 TTTATTTATC
*
71883614 TTTAATTATC
1 TTTATTTATC
71883624 TTTATTTAT-
1 TTTATTTATC
71883633 TTGTATTTATC
1 TT-TATTTATC
71883644 TTT
1 TTT
71883647 TAGAATTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.07
10 25 0.86
11 2 0.07
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTATTTATC
Found at i:71884387 original size:18 final size:17
Alignment explanation
Indices: 71884364--71884404 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
71884354 TAATTTTTGA
71884364 AATTTCAATTTAACTTTT
1 AATTTCAATTTAA-TTTT
*
71884382 AATTTCAATTTTATTTT
1 AATTTCAATTTAATTTT
71884399 -ATTTCA
1 AATTTCA
71884405 CTCCAGATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.27
17 4 0.18
18 12 0.55
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTTCAATTTAATTTT
Found at i:71886315 original size:46 final size:46
Alignment explanation
Indices: 71886242--71886372 Score: 201
Period size: 46 Copynumber: 2.8 Consensus size: 46
71886232 GGTCTTACTC
71886242 ATTCATTTTC-TGTCACGTTGCCATGGTATCTTTCAACCATGGTCTT
1 ATTC-TTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTT
71886288 ATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTT
1 ATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTT
** * * *
71886334 ACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCA
1 ATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCA
71886373 CGGCCTTACA
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 5 0.06
46 74 0.94
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
ATTCTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTT
Found at i:71886381 original size:46 final size:46
Alignment explanation
Indices: 71886258--71886395 Score: 213
Period size: 46 Copynumber: 3.0 Consensus size: 46
71886248 TTTCTGTCAC
** * * *
71886258 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
71886304 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
* *
71886350 GTTGCCATGGTATCTTTCAACCACGGCCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
71886396 AGAGCACACT
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 85 1.00
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
Found at i:71888555 original size:5 final size:5
Alignment explanation
Indices: 71888534--71888567 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
71888524 TTTTACTTTT
71888534 TATATA TATATA TATAA TATAA TATAA TATAA TA
1 TATA-A TATA-A TATAA TATAA TATAA TATAA TA
71888568 ACAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:71893850 original size:40 final size:40
Alignment explanation
Indices: 71893794--71894017 Score: 234
Period size: 40 Copynumber: 5.5 Consensus size: 40
71893784 TATTCGGATG
71893794 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
71893834 GTATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
71893877 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * * * ** * * *
71893917 ATGTACGGGATAAGTCCTGAAGTCATTCATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * * *
71893957 ATATCCGGGCTAAGACCCGAAGGAAATTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
71893997 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
71894018 ATACTTGGGT
Statistics
Matches: 151, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
39 13 0.09
40 100 0.66
41 1 0.01
43 37 0.25
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:71902003 original size:40 final size:40
Alignment explanation
Indices: 71901947--71902170 Score: 243
Period size: 40 Copynumber: 5.5 Consensus size: 40
71901937 TATTCGGATG
71901947 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
71901987 GTATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
71902030 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * ** * * *
71902070 ATGTCCAGGCTAAGTCCCGAAGGCATTCATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * * *
71902110 ATATCCGGGCTAAGACCCGAAGAAAATTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
71902150 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
71902171 ATACTTGGGT
Statistics
Matches: 154, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 13 0.08
40 104 0.68
41 1 0.01
43 36 0.23
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:71903967 original size:22 final size:22
Alignment explanation
Indices: 71903938--71904016 Score: 58
Period size: 22 Copynumber: 3.7 Consensus size: 22
71903928 ATTTCTACTA
*
71903938 ATAC-TAATCAAGTTATATTAT
1 ATACGTAATCAACTTATATTAT
* *
71903959 ATACGTAATGAACTTA-GTTA-
1 ATACGTAATCAACTTATATTAT
* * *
71903979 ATAAGT-CTCAAATTTATATTAT
1 ATACGTAATC-AACTTATATTAT
*
71904001 ATACGTAATGAACTTA
1 ATACGTAATCAACTTA
71904017 GTTAATAAGT
Statistics
Matches: 41, Mismatches: 12, Indels: 9
0.66 0.19 0.15
Matches are distributed among these distances:
19 1 0.02
20 10 0.24
21 10 0.24
22 19 0.46
23 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (22 bp):
ATACGTAATCAACTTATATTAT
Found at i:71903997 original size:42 final size:42
Alignment explanation
Indices: 71903950--71904035 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
71903940 ACTAATCAAG
71903950 TTATATTATATACGTAATGAACTTAGTTAATAAGTCTCAAAT
1 TTATATTATATACGTAATGAACTTAGTTAATAAGTCTCAAAT
71903992 TTATATTATATACGTAATGAACTTAGTTAATAAGTCTCAAAT
1 TTATATTATATACGTAATGAACTTAGTTAATAAGTCTCAAAT
71904034 TT
1 TT
71904036 TCCAGCATAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (42 bp):
TTATATTATATACGTAATGAACTTAGTTAATAAGTCTCAAAT
Found at i:71905288 original size:4 final size:4
Alignment explanation
Indices: 71905279--71905303 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
71905269 GAATCGATAT
71905279 AATG AATG AATG AATG AATG AATG A
1 AATG AATG AATG AATG AATG AATG A
71905304 TAATGACGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:71905431 original size:21 final size:21
Alignment explanation
Indices: 71905390--71905432 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
71905380 TGACTTAAAG
**
71905390 ATTATATTAATTTTTTAAATT
1 ATTATATTAATTGATTAAATT
71905411 ATTAT-TTAATTGATTATAATT
1 ATTATATTAATTGATTA-AATT
71905432 A
1 A
71905433 AATAATTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTATATTAATTGATTAAATT
Found at i:71907657 original size:18 final size:19
Alignment explanation
Indices: 71907631--71907668 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
71907621 AAGCTACAAA
71907631 TATTAAGAA-ATTTGCTTC
1 TATTAAGAAGATTTGCTTC
* *
71907649 TATTTAGAAGATTTTCTTC
1 TATTAAGAAGATTTGCTTC
71907668 T
1 T
71907669 CTCATTCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.50
Consensus pattern (19 bp):
TATTAAGAAGATTTGCTTC
Found at i:71923228 original size:24 final size:26
Alignment explanation
Indices: 71923194--71923241 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
71923184 TTGGATAGAA
*
71923194 ATTTTTCTGAAAAAT-TTGCATTATG
1 ATTTTTCTGAAAAATATCGCATTATG
71923219 ATTTTT-TGAAAAATATCGCATTA
1 ATTTTTCTGAAAAATATCGCATTA
71923242 ACATAATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.46
Consensus pattern (26 bp):
ATTTTTCTGAAAAATATCGCATTATG
Found at i:71926200 original size:6 final size:6
Alignment explanation
Indices: 71926189--71926213 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
71926179 TAATTAAAAC
71926189 ACTAAA ACTAAA ACTAAA ACTAAA A
1 ACTAAA ACTAAA ACTAAA ACTAAA A
71926214 AAAAAACTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (6 bp):
ACTAAA
Found at i:71927730 original size:23 final size:22
Alignment explanation
Indices: 71927678--71927730 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
71927668 TCCACGTCTT
*
71927678 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
71927700 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
71927723 TTTCTTTT
1 TTTCTTTT
71927731 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:71940832 original size:33 final size:33
Alignment explanation
Indices: 71940790--71940853 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
71940780 ATGGGATTGG
*
71940790 CCCTACTACTCTATACTACTATTTAATTAAGGA
1 CCCTACTACTCTATACTACTACTTAATTAAGGA
71940823 CCCTACTACTCTATACTACTACTTAATTAAG
1 CCCTACTACTCTATACTACTACTTAATTAAG
71940854 TTAGAGAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.36
Consensus pattern (33 bp):
CCCTACTACTCTATACTACTACTTAATTAAGGA
Found at i:71942756 original size:25 final size:24
Alignment explanation
Indices: 71942694--71942760 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
71942684 GAACACACTA
* *
71942694 CAGCTCATATGAGCTTACCGATTT
1 CAGCTCGTATGAGCATACCGATTT
*
71942718 CAGCTTGTGA-GAGCATACCGA-TT
1 CAGCTCGT-ATGAGCATACCGATTT
71942741 CATAGCTCGTATGAGCATAC
1 C--AGCTCGTATGAGCATAC
71942761 ATGTACAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
23 3 0.09
24 17 0.49
25 15 0.43
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
CAGCTCGTATGAGCATACCGATTT
Found at i:71948797 original size:188 final size:188
Alignment explanation
Indices: 71948480--71948854 Score: 750
Period size: 188 Copynumber: 2.0 Consensus size: 188
71948470 AGTATTGGAT
71948480 ATGTGTATATATCTAACATTTGTAGGTTCAAATATTTTTAAATTTTCAATGCATTTGGGGATCAT
1 ATGTGTATATATCTAACATTTGTAGGTTCAAATATTTTTAAATTTTCAATGCATTTGGGGATCAT
71948545 ATATCATACCCATGTCTAGGTATGCGTAAGGCACTGTTGTCAAACACAGCTCAAGATTATGAGCA
66 ATATCATACCCATGTCTAGGTATGCGTAAGGCACTGTTGTCAAACACAGCTCAAGATTATGAGCA
71948610 AAATTAGGTTATAGATACCACTCATTTGATAAACAGATAAGTTTTCCTTCTTTTCTCG
131 AAATTAGGTTATAGATACCACTCATTTGATAAACAGATAAGTTTTCCTTCTTTTCTCG
71948668 ATGTGTATATATCTAACATTTGTAGGTTCAAATATTTTTAAATTTTCAATGCATTTGGGGATCAT
1 ATGTGTATATATCTAACATTTGTAGGTTCAAATATTTTTAAATTTTCAATGCATTTGGGGATCAT
71948733 ATATCATACCCATGTCTAGGTATGCGTAAGGCACTGTTGTCAAACACAGCTCAAGATTATGAGCA
66 ATATCATACCCATGTCTAGGTATGCGTAAGGCACTGTTGTCAAACACAGCTCAAGATTATGAGCA
71948798 AAATTAGGTTATAGATACCACTCATTTGATAAACAGATAAGTTTTCCTTCTTTTCTC
131 AAATTAGGTTATAGATACCACTCATTTGATAAACAGATAAGTTTTCCTTCTTTTCTC
71948855 TAAAATGGTC
Statistics
Matches: 187, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
188 187 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (188 bp):
ATGTGTATATATCTAACATTTGTAGGTTCAAATATTTTTAAATTTTCAATGCATTTGGGGATCAT
ATATCATACCCATGTCTAGGTATGCGTAAGGCACTGTTGTCAAACACAGCTCAAGATTATGAGCA
AAATTAGGTTATAGATACCACTCATTTGATAAACAGATAAGTTTTCCTTCTTTTCTCG
Found at i:71949869 original size:7 final size:7
Alignment explanation
Indices: 71949857--71949881 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
71949847 GAACTTTTTG
71949857 TTTTAAT
1 TTTTAAT
71949864 TTTTAAT
1 TTTTAAT
71949871 TTTTAAT
1 TTTTAAT
71949878 TTTT
1 TTTT
71949882 GGGTTTTGGC
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTAAT
Found at i:71950680 original size:24 final size:24
Alignment explanation
Indices: 71950652--71950701 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
71950642 TGTTTTAAAA
71950652 GATAATTTCATTATAGGTTAAAGT
1 GATAATTTCATTATAGGTTAAAGT
71950676 GATAATTTCATTATAGGTTAAAGT
1 GATAATTTCATTATAGGTTAAAGT
71950700 GA
1 GA
71950702 ATGGAAGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (24 bp):
GATAATTTCATTATAGGTTAAAGT
Found at i:71953155 original size:26 final size:26
Alignment explanation
Indices: 71953124--71953231 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
71953114 TGAAATGTCC
*
71953124 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
71953150 ATCATGGAGCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
71953176 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
71953202 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
71953228 ATCA
1 ATCA
71953232 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:71958139 original size:31 final size:32
Alignment explanation
Indices: 71958095--71958156 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
71958085 GTTGGATATG
71958095 CATATATGAAATGAAA-ATGA-TGAGAATTTAT
1 CATATATGAAATGAAATATGAGTG-GAATTTAT
71958126 CATATGATG-AATGAAATATGAGTGGAATTTA
1 CATAT-ATGAAATGAAATATGAGTGGAATTTA
71958157 CTTCTTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 12 0.43
32 14 0.50
33 2 0.07
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.32
Consensus pattern (32 bp):
CATATATGAAATGAAATATGAGTGGAATTTAT
Found at i:71959341 original size:54 final size:54
Alignment explanation
Indices: 71959246--71959397 Score: 157
Period size: 54 Copynumber: 2.8 Consensus size: 54
71959236 TCAATTTAGT
* *
71959246 GAGTTACACGGTCTAGCACACA-GCCTGCGACAC-GACCATGTGTCATAAGTCAGA
1 GAGTTACACGGTCTAGCACA-AGGCCTGCGACACAG-CTATGTGTCATAACTCAGA
* * * * * *
71959300 GAGTTACATGGTCTGGCACATGGCCTGCGACACAGCTATGTGACCTAACTCAGT
1 GAGTTACACGGTCTAGCACAAGGCCTGCGACACAGCTATGTGTCATAACTCAGA
* * *
71959354 GAGTTACACGGTTTAAG-ACAAGGGCTGGGACACAGCTATGTGTC
1 GAGTTACACGGTCT-AGCACAAGGCCTGCGACACAGCTATGTGTC
71959398 CCTTTGTTTG
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
54 78 0.98
55 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (54 bp):
GAGTTACACGGTCTAGCACAAGGCCTGCGACACAGCTATGTGTCATAACTCAGA
Found at i:71960461 original size:6 final size:6
Alignment explanation
Indices: 71960450--71960477 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
71960440 AAGTGACTTT
71960450 TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTAT
71960478 TATGTTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:71967394 original size:22 final size:22
Alignment explanation
Indices: 71967366--71967413 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
71967356 AAACATGCTC
71967366 AAACCAATTTGGCCAATTGCCT
1 AAACCAATTTGGCCAATTGCCT
71967388 AAACCAATTTGGCCAATTGCCT
1 AAACCAATTTGGCCAATTGCCT
71967410 AAAC
1 AAAC
71967414 ACATATCCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.25
Consensus pattern (22 bp):
AAACCAATTTGGCCAATTGCCT
Found at i:71970105 original size:25 final size:25
Alignment explanation
Indices: 71970061--71970110 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
71970051 GTTAAAATAA
*
71970061 AAAAATTATAATCTT-TTTTACTTT
1 AAAAATTATAATCTTATTTAACTTT
71970085 AAAAATTAATAAT-TTAATTTAACTTT
1 AAAAATT-ATAATCTT-ATTTAACTTT
71970111 TTCTAACACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 9 0.41
25 5 0.23
26 8 0.36
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (25 bp):
AAAAATTATAATCTTATTTAACTTT
Found at i:71970519 original size:53 final size:53
Alignment explanation
Indices: 71970439--71970549 Score: 213
Period size: 53 Copynumber: 2.1 Consensus size: 53
71970429 AGAAATGAAG
71970439 GAAGAGCAATAAGTAGATAGAGCTTCACCTTTGATCAAAGTGATGGGAAAATA
1 GAAGAGCAATAAGTAGATAGAGCTTCACCTTTGATCAAAGTGATGGGAAAATA
71970492 GAAGAGCAATAAGTAGATAGAGCTTCACCTTTGATCAAAGTGATGGGAAAATA
1 GAAGAGCAATAAGTAGATAGAGCTTCACCTTTGATCAAAGTGATGGGAAAATA
*
71970545 AAAGA
1 GAAGA
71970550 AAATTATACT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (53 bp):
GAAGAGCAATAAGTAGATAGAGCTTCACCTTTGATCAAAGTGATGGGAAAATA
Found at i:71970676 original size:17 final size:16
Alignment explanation
Indices: 71970654--71970696 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
71970644 TTTGGTGCAA
71970654 AATTTTTTACAAAAAAT
1 AATTTTTTA-AAAAAAT
*
71970671 AATTTTTTGAAAAATAT
1 AATTTTTT-AAAAAAAT
*
71970688 ATTTTTTTA
1 AATTTTTTA
71970697 TTTTAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
AATTTTTTAAAAAAAT
Found at i:71970683 original size:15 final size:16
Alignment explanation
Indices: 71970665--71970694 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
71970655 ATTTTTTACA
71970665 AAAAATA-ATTTTTTG
1 AAAAATATATTTTTTG
71970680 AAAAATATATTTTTT
1 AAAAATATATTTTTT
71970695 TATTTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
AAAAATATATTTTTTG
Found at i:71974336 original size:51 final size:51
Alignment explanation
Indices: 71974275--71974379 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
71974265 ATAAAACACG
71974275 ACAAAAAATAGCAGCAAAATAGCACCAAAACAGCACCCAAACAACACCAAA
1 ACAAAAAATAGCAGCAAAATAGCACCAAAACAGCACCCAAACAACACCAAA
71974326 ACAAAAAATAGCAGCAAAATAGCACCAAAACAGCACCCAAACAACACCAAA
1 ACAAAAAATAGCAGCAAAATAGCACCAAAACAGCACCCAAACAACACCAAA
71974377 ACA
1 ACA
71974380 GCACCCAAAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.59, C:0.30, G:0.08, T:0.04
Consensus pattern (51 bp):
ACAAAAAATAGCAGCAAAATAGCACCAAAACAGCACCCAAACAACACCAAA
Found at i:71974344 original size:40 final size:40
Alignment explanation
Indices: 71974290--71974411 Score: 127
Period size: 40 Copynumber: 3.0 Consensus size: 40
71974280 AAATAGCAGC
*
71974290 AAAATAGCACCAAAACAGCACCCAAACAACACCAAAACAA
1 AAAATAGCACCAAAACAGCACCAAAACAACACCAAAACAA
* * * *
71974330 AAAATAGCAGCAAAATAGCACCAAAACAGCACCCAAACAACACC
1 AAAATAGCACCAAAACAGCACCAAAACAACA-CC-AA-AACA-A
* * * *
71974374 AAAACAGCACCCAAACAGCACCAAAACAGCACCCAAAC
1 AAAATAGCACCAAAACAGCACCAAAACAACACCAAAAC
71974412 TGCAGCAAAA
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
40 27 0.40
41 5 0.07
42 3 0.04
43 6 0.09
44 27 0.40
ACGTcount: A:0.56, C:0.34, G:0.07, T:0.02
Consensus pattern (40 bp):
AAAATAGCACCAAAACAGCACCAAAACAACACCAAAACAA
Found at i:71974427 original size:11 final size:11
Alignment explanation
Indices: 71974279--71974426 Score: 142
Period size: 11 Copynumber: 13.8 Consensus size: 11
71974269 AACACGACAA
* *
71974279 AAAATAGCAGC
1 AAAACAGCACC
*
71974290 AAAATAGCACC
1 AAAACAGCACC
71974301 AAAACAGCACC
1 AAAACAGCACC
* *
71974312 CAAACAACACC
1 AAAACAGCACC
71974323 AAAACA--A--
1 AAAACAGCACC
* *
71974330 AAAATAGCAGC
1 AAAACAGCACC
*
71974341 AAAATAGCACC
1 AAAACAGCACC
71974352 AAAACAGCACC
1 AAAACAGCACC
* *
71974363 CAAACAACACC
1 AAAACAGCACC
71974374 AAAACAGCACC
1 AAAACAGCACC
*
71974385 CAAACAGCACC
1 AAAACAGCACC
71974396 AAAACAGCACC
1 AAAACAGCACC
* * *
71974407 CAAACTGCAGC
1 AAAACAGCACC
71974418 AAAACAGCA
1 AAAACAGCA
71974427 GTGAGCTAGG
Statistics
Matches: 114, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
7 5 0.04
9 2 0.02
11 107 0.94
ACGTcount: A:0.55, C:0.32, G:0.09, T:0.03
Consensus pattern (11 bp):
AAAACAGCACC
Found at i:71975530 original size:38 final size:41
Alignment explanation
Indices: 71975480--71975645 Score: 176
Period size: 46 Copynumber: 3.9 Consensus size: 41
71975470 CTGATATGAA
*
71975480 ATGTGTAAGACCATGGTTGAAAAATACCATGGCAACC-T-G
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATAG
71975519 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----AT-AG
*
71975564 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAA
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC----CAT-AG
* **
71975610 AAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
71975646 ATGATAGAAA
Statistics
Matches: 110, Mismatches: 5, Indels: 17
0.83 0.04 0.13
Matches are distributed among these distances:
38 35 0.32
43 1 0.01
45 1 0.01
46 72 0.65
50 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (41 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATAG
Found at i:71975586 original size:46 final size:46
Alignment explanation
Indices: 71975522--71975679 Score: 228
Period size: 46 Copynumber: 3.4 Consensus size: 46
71975512 CAACCTGTGT
* * *
71975522 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
* * *
71975568 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
*
71975614 ATAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGA
*
71975660 GTAAGACCATAGTTGAAAGA
1 GTAAGACCATGGTTGAAAGA
71975680 CACTATAGCA
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.01
46 99 0.99
ACGTcount: A:0.41, C:0.14, G:0.25, T:0.20
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
Found at i:71975995 original size:23 final size:25
Alignment explanation
Indices: 71975950--71975996 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
71975940 AATAAATATA
*
71975950 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
71975975 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
71975997 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:71977407 original size:24 final size:25
Alignment explanation
Indices: 71977380--71977432 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
71977370 AATATCATTT
*
71977380 AATTCG-ATTAAATTAAAAAAAAT-A
1 AATTCGAATTAAAAT-AAAAAAATCA
*
71977404 AATT-GAATTAAAATAATAAAATCA
1 AATTCGAATTAAAATAAAAAAATCA
71977428 AATTC
1 AATTC
71977433 TTTAATTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (25 bp):
AATTCGAATTAAAATAAAAAAATCA
Found at i:71982963 original size:170 final size:171
Alignment explanation
Indices: 71982657--71982968 Score: 421
Period size: 170 Copynumber: 1.8 Consensus size: 171
71982647 AATAAAATAC
* * * * *
71982657 AACAACAAAATGTATAAATATAGTGTTTTAAAAAAAATTGTTATTTTCGAAAAGAAAAAAATCAC
1 AACAACAAAAGGGATAAATATAGTGTTTTAAAAAAAATTATGATTTTCAAAAAGAAAAAAATCAC
* * *
71982722 ATCTGCGACAACCGTTATGCATTACGTAACATCCACCGTATTCGCAACCGCAACACCACAACCCA
66 ATCTACGACAACCGTTATGCATTACGTAACATCCACAGTATTCGCAACCACAACACCACAACCCA
71982787 ATGTTGTTTGAATCTGACTAATTGATCGGGCCGGTTGAACT
131 ATGTTGTTTGAATCTGACTAATTGATCGGGCCGGTTGAACT
71982828 AACAACAAAAGGGATAAATATAGTGTTTT-AAAAAAATTATGATTTTCAAAAAGAAAAAAATCAC
1 AACAACAAAAGGGATAAATATAGTGTTTTAAAAAAAATTATGATTTTCAAAAAGAAAAAAATCAC
* ** * * * * * * * *
71982892 GTCTACGACAACCGTTATGTGTTATGTAACGTCCATAGTA-TCTGTAACCATAATACCGCAATCC
66 ATCTACGACAACCGTTATGCATTACGTAACATCCACAGTATTC-GCAACCACAACACCACAACCC
*
71982956 GATGTTGTTTGAA
130 AATGTTGTTTGAA
71982969 CTGGACCTAT
Statistics
Matches: 120, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
169 2 0.02
170 91 0.76
171 27 0.22
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (171 bp):
AACAACAAAAGGGATAAATATAGTGTTTTAAAAAAAATTATGATTTTCAAAAAGAAAAAAATCAC
ATCTACGACAACCGTTATGCATTACGTAACATCCACAGTATTCGCAACCACAACACCACAACCCA
ATGTTGTTTGAATCTGACTAATTGATCGGGCCGGTTGAACT
Found at i:71983106 original size:32 final size:32
Alignment explanation
Indices: 71983051--71983126 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
71983041 ATTAGACCAA
* * *
71983051 GAACCGACAATTGAACAAGCTAAAAACTGATT
1 GAACTGACGATTGAACAAGCTAAAAACCGATT
* *
71983083 GAATTGATGATTGAATCAA-CTAAAAACCGATT
1 GAACTGACGATTGAA-CAAGCTAAAAACCGATT
71983115 GAACTGACGATT
1 GAACTGACGATT
71983127 AAACCGAGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 33 0.92
33 3 0.08
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (32 bp):
GAACTGACGATTGAACAAGCTAAAAACCGATT
Found at i:71984613 original size:17 final size:17
Alignment explanation
Indices: 71984591--71984668 Score: 73
Period size: 17 Copynumber: 5.1 Consensus size: 17
71984581 CTATATTTCA
71984591 TGTTTGGATTTTGCATC
1 TGTTTGGATTTTGCATC
*
71984608 TGTTT-G--TTT-AATC
1 TGTTTGGATTTTGCATC
71984621 TGTTTGGATTTTGCATC
1 TGTTTGGATTTTGCATC
*
71984638 TGTTT-G--TTT-AATC
1 TGTTTGGATTTTGCATC
*
71984651 TATTTGGATTTTGCATC
1 TGTTTGGATTTTGCATC
71984668 T
1 T
71984669 TTCAACTGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
13 15 0.31
14 8 0.17
16 8 0.17
17 17 0.35
ACGTcount: A:0.14, C:0.10, G:0.19, T:0.56
Consensus pattern (17 bp):
TGTTTGGATTTTGCATC
Found at i:71984623 original size:13 final size:13
Alignment explanation
Indices: 71984605--71984656 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
71984595 TGGATTTTGC
71984605 ATCTGTTTGTTTA
1 ATCTGTTTGTTTA
*
71984618 ATCTGTTTGGATTTTGC
1 ATCTGTTT-G--TTT-A
71984635 ATCTGTTTGTTTA
1 ATCTGTTTGTTTA
*
71984648 ATCTATTTG
1 ATCTGTTTG
71984657 GATTTTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
13 16 0.50
14 4 0.12
16 4 0.12
17 8 0.25
ACGTcount: A:0.15, C:0.10, G:0.17, T:0.58
Consensus pattern (13 bp):
ATCTGTTTGTTTA
Found at i:71984627 original size:30 final size:30
Alignment explanation
Indices: 71984591--71984668 Score: 147
Period size: 30 Copynumber: 2.6 Consensus size: 30
71984581 CTATATTTCA
71984591 TGTTTGGATTTTGCATCTGTTTGTTTAATC
1 TGTTTGGATTTTGCATCTGTTTGTTTAATC
71984621 TGTTTGGATTTTGCATCTGTTTGTTTAATC
1 TGTTTGGATTTTGCATCTGTTTGTTTAATC
*
71984651 TATTTGGATTTTGCATCT
1 TGTTTGGATTTTGCATCT
71984669 TTCAACTGCT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 47 1.00
ACGTcount: A:0.14, C:0.10, G:0.19, T:0.56
Consensus pattern (30 bp):
TGTTTGGATTTTGCATCTGTTTGTTTAATC
Found at i:71986078 original size:13 final size:13
Alignment explanation
Indices: 71986060--71986084 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71986050 ATTAAAACTT
71986060 AATTAATATAGTC
1 AATTAATATAGTC
71986073 AATTAATATAGT
1 AATTAATATAGT
71986085 TTTTGTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (13 bp):
AATTAATATAGTC
Found at i:71988340 original size:20 final size:20
Alignment explanation
Indices: 71988315--71988358 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
71988305 CACATAATAG
71988315 TAAACAAATAAAGGAATAAA
1 TAAACAAATAAAGGAATAAA
* *
71988335 TAAACATATAAATGAATAAA
1 TAAACAAATAAAGGAATAAA
71988355 TAAA
1 TAAA
71988359 TCATATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (20 bp):
TAAACAAATAAAGGAATAAA
Found at i:71989520 original size:16 final size:17
Alignment explanation
Indices: 71989496--71989538 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
71989486 AAGAAAAATG
*
71989496 AAGATAAAAATAAAG-A
1 AAGAAAAAAATAAAGCA
*
71989512 AAGAAAAAAAATAGAGCA
1 AAG-AAAAAAATAAAGCA
71989530 AAGAAAAAA
1 AAGAAAAAA
71989539 GAACCACCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 3 0.13
17 16 0.70
18 4 0.17
ACGTcount: A:0.77, C:0.02, G:0.14, T:0.07
Consensus pattern (17 bp):
AAGAAAAAAATAAAGCA
Found at i:71989523 original size:17 final size:18
Alignment explanation
Indices: 71989501--71989538 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
71989491 AAATGAAGAT
71989501 AAAAATAAAG-AAAGAAA
1 AAAAATAAAGCAAAGAAA
*
71989518 AAAAATAGAGCAAAGAAA
1 AAAAATAAAGCAAAGAAA
71989536 AAA
1 AAA
71989539 GAACCACCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.79, C:0.03, G:0.13, T:0.05
Consensus pattern (18 bp):
AAAAATAAAGCAAAGAAA
Found at i:71990347 original size:51 final size:50
Alignment explanation
Indices: 71990168--71990522 Score: 197
Period size: 45 Copynumber: 7.4 Consensus size: 50
71990158 GATTTGTAAT
* * * *
71990168 TTGTAGCTTAAATTTGTTCCACTGCAACTTCAGGGAAATAAGATCC--AC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGATCCTAAC
* * * * * *
71990216 ---TATCTTCAATCTGTTCTACTGCAATCTTCAGGGAGATAAG--GCTAAC
1 TTGTAGCTTCAATCTGCTCCACTGCAA-CTTCAAGGAAATAAGATCCTAAC
* *
71990262 --G--GCCTT-AAGCTGCTCCACTGTAACTTCAAGGAAATAAGATCCGTAAC
1 TTGTAG-CTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGATCC-TAAC
71990309 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGA---T---
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGATCCTAAC
* * * * *
71990353 TTGCTATCTTTAGTC-GCTCCTACTGCAACTT-TAGTGAGATAAGACTCGC-AAC
1 TTG-TAGCTTCAATCTGCTCC-ACTGCAACTTCAAG-GAAATAAGA-TC-CTAAC
* * *
71990405 TTTTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGAT-CT-GC
1 TTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGATCCTAAC
* * * *
71990453 ---TATCTTCAGTCTGCTCCTACTGCAACTTCAAGGAGATAAGACTCAC-AGC
1 TTGTAGCTTCAATCTGCTCC-ACTGCAACTTCAAGGAAATAAGA-TC-CTAAC
*
71990502 TTGTAGCTTCAATCTACTCCA
1 TTGTAGCTTCAATCTGCTCCA
71990523 TAGTAAATTC
Statistics
Matches: 236, Mismatches: 36, Indels: 67
0.70 0.11 0.20
Matches are distributed among these distances:
44 24 0.10
45 74 0.31
46 41 0.17
47 6 0.03
48 2 0.01
49 4 0.02
50 4 0.02
51 59 0.25
52 22 0.09
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (50 bp):
TTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAAATAAGATCCTAAC
Found at i:71990534 original size:97 final size:94
Alignment explanation
Indices: 71990271--71990634 Score: 381
Period size: 96 Copynumber: 3.9 Consensus size: 94
71990261 CGGCCTTAAG
* *
71990271 CTGCTCCACTGTAACTTCAAGGAAATAAGA-TCCGTAACTTGTAGCTTCAATCTGCTCCACTGCA
1 CTGCTCCACTGCAACTTCAAGGAGATAAGACTCC--AACTTGTAGCTTCAATCTGCTCCACTGCA
* *
71990335 ACTTCAAGGAAATAAGATTTGCTATCTTTAGT
64 ACTTCAGGGAAATAAGA-TTGCTATCTTCAGT
* *
71990367 C-GCTCCTACTGCAACTT-TAGTGAGATAAGACTCGCAACTTTTAGCTTCAATCTGCTCCACTGC
1 CTGCTCC-ACTGCAACTTCAAG-GAGATAAGACTC-CAACTTGTAGCTTCAATCTGCTCCACTGC
71990430 AACTTCAGGGAAATAAGATCTGCTATCTTCAGT
63 AACTTCAGGGAAATAAGAT-TGCTATCTTCAGT
* * *
71990463 CTGCTCCTACTGCAACTTCAAGGAGATAAGACTCACAGCTTGTAGCTTCAATCTACTCCA-TAGT
1 CTGCTCC-ACTGCAACTTCAAGGAGATAAGACTC-CAACTTGTAGCTTCAATCTGCTCCACT-GC
* *
71990527 AAATTCAGGGAAATGAGATTCGCTATCTTCAGT
63 AACTTCAGGGAAATAAGATT-GCTATCTTCAGT
* * * * * * *
71990560 ATGCTCCGCTGTAACTTCAGGGAGATAAG------GCTGGTGGCTTCAATCTGCTCCACTGCAAC
1 CTGCTCCACTGCAACTTCAAGGAGATAAGACTCCAACTTGTAGCTTCAATCTGCTCCACTGCAAC
71990619 TTCA-GGAAGATAAGAT
66 TTCAGGGAA-ATAAGAT
71990635 CCGCCACAAT
Statistics
Matches: 233, Mismatches: 24, Indels: 29
0.81 0.08 0.10
Matches are distributed among these distances:
88 4 0.02
89 33 0.14
90 1 0.00
95 8 0.03
96 96 0.41
97 88 0.38
98 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (94 bp):
CTGCTCCACTGCAACTTCAAGGAGATAAGACTCCAACTTGTAGCTTCAATCTGCTCCACTGCAAC
TTCAGGGAAATAAGATTGCTATCTTCAGT
Found at i:71990587 original size:193 final size:184
Alignment explanation
Indices: 71990271--71990635 Score: 414
Period size: 193 Copynumber: 1.9 Consensus size: 184
71990261 CGGCCTTAAG
* *
71990271 CTGCTCCACTGTAACTTCAAGGAAATAAGATCCGTAACTTGTAGCTTCAATCTGCTCCACTGCAA
1 CTGCTCCACTGCAACTTCAAGGAAATAAGATCCG-AACTTGTAGCTTCAATCTACTCCACTGCAA
* * * * *
71990336 CTTCAAGGAAATAAGATTTGCTATCTTTAGTCGCTCCTACTGCAACTTTAGTGAGATAAGACTCG
65 ATTCAAGGAAATAAGATTCGCTATCTTCAGTCGCTCCTACTGCAACTTCAGGGAGATAAG----G
**
71990401 CAACTTTTAGCTTCAATCTGCTCCACTGCAACTTCAGGGAA-ATAAGATCTGCTATCTTCAGT
126 ---CTGGTAGCTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGATCTGCTATCTTCAGT
* *
71990463 CTGCTCCTACTGCAACTTCAAGGAGATAAGACTCAC-AGCTTGTAGCTTCAATCTACTCCA-TAG
1 CTGCTCC-ACTGCAACTTCAAGGAAATAAGA-TC-CGAACTTGTAGCTTCAATCTACTCCACT-G
* * * * * *
71990526 TAAATTCAGGGAAATGAGATTCGCTATCTTCAGTATGCTCC-GCTGTAACTTCAGGGAGATAAGG
62 CAAATTCAAGGAAATAAGATTCGCTATCTTCAGT-CGCTCCTACTGCAACTTCAGGGAGATAAGG
*
71990590 CTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATC
126 CTGGTAGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATC
71990636 CGCCACAATT
Statistics
Matches: 149, Mismatches: 18, Indels: 18
0.81 0.10 0.10
Matches are distributed among these distances:
185 4 0.03
186 38 0.26
189 1 0.01
192 8 0.05
193 90 0.60
194 7 0.05
195 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (184 bp):
CTGCTCCACTGCAACTTCAAGGAAATAAGATCCGAACTTGTAGCTTCAATCTACTCCACTGCAAA
TTCAAGGAAATAAGATTCGCTATCTTCAGTCGCTCCTACTGCAACTTCAGGGAGATAAGGCTGGT
AGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCTATCTTCAGT
Found at i:71991779 original size:1 final size:1
Alignment explanation
Indices: 71991773--71991842 Score: 50
Period size: 1 Copynumber: 70.0 Consensus size: 1
71991763 TGACCTCTTC
* ** * * * * * * *
71991773 TTTTTTTTTTCTTTTTTTTTCGTTTTTGTTTTCTCTTTTTTTATTTTTTTTATTTTCTTTTTATT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
71991838 TTTTT
1 TTTTT
71991843 AAGGTGAAAT
Statistics
Matches: 50, Mismatches: 19, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.04, C:0.07, G:0.03, T:0.86
Consensus pattern (1 bp):
T
Found at i:71991786 original size:11 final size:11
Alignment explanation
Indices: 71991770--71991840 Score: 74
Period size: 11 Copynumber: 6.2 Consensus size: 11
71991760 CCTTGACCTC
71991770 TTCTTTTTTTT
1 TTCTTTTTTTT
71991781 TTC-TTTTTTT
1 TTCTTTTTTTT
71991791 TTCGTTTTTGTTT
1 TTC-TTTTT-TTT
71991804 TCTCTTTTTTTAT
1 T-TCTTTTTTT-T
*
71991817 TT-TTTTTATT
1 TTCTTTTTTTT
71991827 TTCTTTTTATTT
1 TTCTTTTT-TTT
71991839 TT
1 TT
71991841 TTAAGGTGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
10 13 0.25
11 14 0.27
12 11 0.22
13 11 0.22
14 2 0.04
ACGTcount: A:0.04, C:0.08, G:0.03, T:0.85
Consensus pattern (11 bp):
TTCTTTTTTTT
Found at i:71991804 original size:24 final size:21
Alignment explanation
Indices: 71991773--71991842 Score: 77
Period size: 24 Copynumber: 3.1 Consensus size: 21
71991763 TGACCTCTTC
71991773 TTTTTTTTTTCTTTTTTTTTCGT
1 TTTTTTTTTTCTTTTTTTTT--T
*
71991796 TTTTGTTTTCTCTTTTTTTATTT
1 TTTT-TTTTTTCTTTTTTT-TTT
* *
71991819 TTTTTATTTTCTTTTTATTTT
1 TTTTTTTTTTCTTTTTTTTTT
71991840 TTT
1 TTT
71991843 AAGGTGAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 6 0.15
22 11 0.27
23 9 0.22
24 13 0.32
25 2 0.05
ACGTcount: A:0.04, C:0.07, G:0.03, T:0.86
Consensus pattern (21 bp):
TTTTTTTTTTCTTTTTTTTTT
Found at i:71991810 original size:35 final size:35
Alignment explanation
Indices: 71991771--71991839 Score: 65
Period size: 36 Copynumber: 2.0 Consensus size: 35
71991761 CTTGACCTCT
*
71991771 TCTTTTTTT-TTTCTTTTT-TTTTCGTTTT-TGTTT-
1 TCTTTTTTTATTT-TTTTTATTTTCTTTTTAT-TTTC
71991804 TCTCTTTTTTTATTTTTTTTATTTTCTTTTTATTTT
1 TCT-TTTT-TTATTTTTTTTATTTTCTTTTTATTTT
71991840 TTTAAGGTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
33 3 0.10
34 4 0.13
35 7 0.23
36 15 0.50
37 1 0.03
ACGTcount: A:0.04, C:0.09, G:0.03, T:0.84
Consensus pattern (35 bp):
TCTTTTTTTATTTTTTTTATTTTCTTTTTATTTTC
Found at i:71991819 original size:20 final size:20
Alignment explanation
Indices: 71991796--71991842 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
71991786 TTTTTTTCGT
*
71991796 TTTTGTTTTCTCTT-TTTTTA
1 TTTT-TTTTATCTTCTTTTTA
*
71991816 TTTTTTTTATTTTCTTTTTA
1 TTTTTTTTATCTTCTTTTTA
71991836 TTTTTTT
1 TTTTTTT
71991843 AAGGTGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.06, C:0.06, G:0.02, T:0.85
Consensus pattern (20 bp):
TTTTTTTTATCTTCTTTTTA
Found at i:71997068 original size:4 final size:4
Alignment explanation
Indices: 71997059--71997128 Score: 50
Period size: 4 Copynumber: 16.0 Consensus size: 4
71997049 GTGCTAGAGT
* *
71997059 AATA AATA AATA AACTA AATA AATA GATA ACATGA TATA AATA ATATTA
1 AATA AATA AATA AA-TA AATA AATA AATA A-AT-A AATA AATA A-A-TA
* *
71997108 AACA AATA GAATG AATA AATA
1 AATA AATA -AATA AATA AATA
71997129 TTACGTAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
4 35 0.67
5 13 0.25
6 4 0.08
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:71997079 original size:9 final size:8
Alignment explanation
Indices: 71997059--71997128 Score: 50
Period size: 9 Copynumber: 8.0 Consensus size: 8
71997049 GTGCTAGAGT
71997059 AATAAATA
1 AATAAATA
71997067 AATAAACTA
1 AATAAA-TA
71997076 AATAAATA
1 AATAAATA
*
71997084 GATAACATGA
1 AATAA-AT-A
*
71997094 TATAAATA
1 AATAAATA
*
71997102 ATATTAAACA
1 A-A-TAAATA
*
71997112 AATAGAATG
1 AATA-AATA
71997121 AATAAATA
1 AATAAATA
71997129 TTACGTAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
8 18 0.37
9 20 0.41
10 11 0.22
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (8 bp):
AATAAATA
Found at i:72000101 original size:29 final size:28
Alignment explanation
Indices: 72000039--72000105 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
72000029 ATTTTTTCAC
*
72000039 ATATTT-AGAATTTATTCCTCTATTTTT
1 ATATTTAAAAATTTATTCCTCTATTTTT
* *
72000066 ATTTTTAAAAATTTAATTCTTCTATTTTT
1 ATATTTAAAAATTT-ATTCCTCTATTTTT
72000095 GA-ATTTAAAAA
1 -ATATTTAAAAA
72000106 AATTCAATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 5 0.15
28 6 0.18
29 21 0.64
30 1 0.03
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.55
Consensus pattern (28 bp):
ATATTTAAAAATTTATTCCTCTATTTTT
Found at i:72001811 original size:41 final size:43
Alignment explanation
Indices: 72001754--72001837 Score: 145
Period size: 41 Copynumber: 2.0 Consensus size: 43
72001744 GGGGGCACTT
*
72001754 GTCCTGCAATAATTCAAAA-TTTAACATG-ACAAACTATTAGC
1 GTCCTGAAATAATTCAAAATTTTAACATGAACAAACTATTAGC
72001795 GTCCTGAAATAATTCAAAATTTTAACATGAACAAACTATTAGC
1 GTCCTGAAATAATTCAAAATTTTAACATGAACAAACTATTAGC
72001838 TTTATGTCGT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 18 0.45
42 9 0.22
43 13 0.32
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.30
Consensus pattern (43 bp):
GTCCTGAAATAATTCAAAATTTTAACATGAACAAACTATTAGC
Found at i:72026171 original size:43 final size:42
Alignment explanation
Indices: 72026112--72026206 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
72026102 TCTCAGACGT
* *
72026112 GGTCTTACATGTAATCAAACATCGATGC-CACTGTCCCAAATAG
1 GGTCTTACACGAAATCAAACA-CGATGCTCA-TGTCCCAAATAG
* * * *
72026155 GGTCTTACACGAAATCAGATACGATGCTGATGTCCCAAATAT
1 GGTCTTACACGAAATCAAACACGATGCTCATGTCCCAAATAG
*
72026197 GGTTTTACAC
1 GGTCTTACAC
72026207 TTAAAACAGA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 26 0.59
43 18 0.41
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAACACGATGCTCATGTCCCAAATAG
Done.