Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 130 of 218
Found at i:39672151 original size:92 final size:92
Alignment explanation
Indices: 39671989--39672175 Score: 340
Period size: 92 Copynumber: 2.0 Consensus size: 92
39671979 AAATGTTTTG
*
39671989 TATGTGGGTTACATCTTTATTAGTCTGGTTTTTGTTCGATTTTTCATCTGTGAATTGTATTGGTT
1 TATGTGGGTTACATCTTTATTAGTCTGGTTTTTGTTCGATTTTTCATCTGTAAATTGTATTGGTT
39672054 GAATTTTACATTGTAATTGGTTAGACA
66 GAATTTTACATTGTAATTGGTTAGACA
39672081 TATGTGGGTTACATCTTTATTAGTCTGGTTTTTGTTCGATTTTTCAT-TCGTAAATTGTATTGGT
1 TATGTGGGTTACATCTTTATTAGTCTGGTTTTTGTTCGATTTTTCATCT-GTAAATTGTATTGGT
*
39672145 TTAATTTTACATTGTAATTGGTTAGACA
65 TGAATTTTACATTGTAATTGGTTAGACA
39672173 TAT
1 TAT
39672176 AATTGTATTT
Statistics
Matches: 92, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
91 1 0.01
92 91 0.99
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.51
Consensus pattern (92 bp):
TATGTGGGTTACATCTTTATTAGTCTGGTTTTTGTTCGATTTTTCATCTGTAAATTGTATTGGTT
GAATTTTACATTGTAATTGGTTAGACA
Found at i:39673909 original size:44 final size:42
Alignment explanation
Indices: 39673846--39673958 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 42
39673836 TGTGATATCG
39673846 TGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGAGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGTATTT--GA-TTACA
39673890 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGTTATTTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCG-TATTTGATTACA
*
39673933 TGTAAGACCACGTCTAGGACGTTGGC
1 TGTAAGACCACGTCTGGGACGTTGGC
39673959 GTTGTACGAG
Statistics
Matches: 62, Mismatches: 1, Indels: 13
0.82 0.01 0.17
Matches are distributed among these distances:
42 1 0.02
43 27 0.44
44 29 0.47
45 1 0.02
46 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTACA
Found at i:39676994 original size:13 final size:13
Alignment explanation
Indices: 39676976--39677001 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39676966 ATAACTTCCT
39676976 TACATAGCGTAGG
1 TACATAGCGTAGG
39676989 TACATAGCGTAGG
1 TACATAGCGTAGG
39677002 CAAACTCAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (13 bp):
TACATAGCGTAGG
Found at i:39677304 original size:23 final size:23
Alignment explanation
Indices: 39677275--39677384 Score: 85
Period size: 23 Copynumber: 4.8 Consensus size: 23
39677265 GATCTCACCT
* *
39677275 CAAAGGCATTACAGAATGTGTCA
1 CAAAGGCATTACAGAATATGCCA
* *
39677298 CATAGGCATCACAGAATATGCCA
1 CAAAGGCATTACAGAATATGCCA
* * * *
39677321 CAAAGGCTTTACAGAACACGTCA
1 CAAAGGCATTACAGAATATGCCA
* * * *
39677344 AAAAAGCTTTACAGAATATTCCA
1 CAAAGGCATTACAGAATATGCCA
* * *
39677367 CACAGGCTTTACTGAATA
1 CAAAGGCATTACAGAATA
39677385 CGTCTATGTT
Statistics
Matches: 67, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (23 bp):
CAAAGGCATTACAGAATATGCCA
Found at i:39682871 original size:20 final size:19
Alignment explanation
Indices: 39682846--39682891 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
39682836 GTATTGATCC
39682846 GGTATC-TATACTTTTCTCAA
1 GGTATCATATA-TTTTCT-AA
39682866 GGTATCGATATATTTTCTAA
1 GGTATC-ATATATTTTCTAA
39682886 GGTATC
1 GGTATC
39682892 GATGTTCCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 14 0.58
21 6 0.25
22 4 0.17
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (19 bp):
GGTATCATATATTTTCTAA
Found at i:39682892 original size:20 final size:22
Alignment explanation
Indices: 39682852--39682894 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
39682842 ATCCGGTATC
39682852 TATACTTTTCTCAAGGTATCGA
1 TATACTTTTCTCAAGGTATCGA
39682874 TATA-TTTTCT-AAGGTATCGA
1 TATACTTTTCTCAAGGTATCGA
39682894 T
1 T
39682895 GTTCCTGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.52
21 6 0.29
22 4 0.19
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (22 bp):
TATACTTTTCTCAAGGTATCGA
Found at i:39686163 original size:113 final size:111
Alignment explanation
Indices: 39685917--39686143 Score: 373
Period size: 113 Copynumber: 2.0 Consensus size: 111
39685907 TGATGAACAA
* *
39685917 ATTAAAACAATGATGAAAAGACGTATGTTGTATATAGTTCAATGGAAGCTTTATGGGCAAGTTAT
1 ATTAAAACAATGAT-AAAATACGTATGTTGTATATAGTTCAATGGAAGCTTTATAGGCAAGTTAT
*
39685982 ATATAGTCAGTGACGTGAACTTTACTATGAACTTGTAGAGGCTCATG
65 ATATAGTCAGTGACGTGAACTTTACTATGAACTTATAGAGGCTCATG
*
39686029 CATTAAAACAATGATGAAAATACGTATTTTGTATATAGTTCAATGGAAGCTTTATAGGCAAGTTA
1 -ATTAAAACAATGAT-AAAATACGTATGTTGTATATAGTTCAATGGAAGCTTTATAGGCAAGTTA
39686094 TATATAGTCGCAGTGACGTGAACTTTACTATGAACTTATAGAGGCTCATG
64 TATATAGT--CAGTGACGTGAACTTTACTATGAACTTATAGAGGCTCATG
39686144 TTGTTAACGT
Statistics
Matches: 108, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
113 69 0.64
115 39 0.36
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (111 bp):
ATTAAAACAATGATAAAATACGTATGTTGTATATAGTTCAATGGAAGCTTTATAGGCAAGTTATA
TATAGTCAGTGACGTGAACTTTACTATGAACTTATAGAGGCTCATG
Found at i:39687006 original size:16 final size:17
Alignment explanation
Indices: 39686985--39687019 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
39686975 AATTTTAAAT
39686985 TTTAAAATTTT-ATTTA
1 TTTAAAATTTTAATTTA
*
39687001 TTTAAAGTTTTAATTTA
1 TTTAAAATTTTAATTTA
39687018 TT
1 TT
39687020 AACTTCCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
TTTAAAATTTTAATTTA
Found at i:39687013 original size:8 final size:7
Alignment explanation
Indices: 39686954--39686996 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
39686944 TTATCAAAAG
39686954 AATTTTA
1 AATTTTA
*
39686961 AACTTTA
1 AATTTTA
*
39686968 AACTTTA
1 AATTTTA
39686975 AATTTTA
1 AATTTTA
39686982 AATTTTAA
1 AATTTT-A
39686990 AATTTTA
1 AATTTTA
39686997 TTTATTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
7 26 0.79
8 7 0.21
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (7 bp):
AATTTTA
Found at i:39687021 original size:16 final size:15
Alignment explanation
Indices: 39686972--39687021 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
39686962 ACTTTAAACT
39686972 TTAAATTTTAAATTT-
1 TTAAATTTT-AATTTA
*
39686987 TAAAATTTT-ATTTA
1 TTAAATTTTAATTTA
39687001 TTTAAAGTTTTAATTTA
1 -TTAAA-TTTTAATTTA
39687018 TTAA
1 TTAA
39687022 CTTCCATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
13 4 0.14
15 12 0.41
16 8 0.28
17 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
TTAAATTTTAATTTA
Found at i:39687337 original size:16 final size:17
Alignment explanation
Indices: 39687309--39687340 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
39687299 TGTATAAATT
39687309 ATTTAAAATTAAAATCC
1 ATTTAAAATTAAAATCC
39687326 ATTTAAAA-TAAAATC
1 ATTTAAAATTAAAATC
39687341 TTAATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTTAAAATTAAAATCC
Found at i:39687409 original size:7 final size:7
Alignment explanation
Indices: 39687389--39687425 Score: 56
Period size: 7 Copynumber: 5.0 Consensus size: 7
39687379 TCAATATATT
39687389 TTTAAAA
1 TTTAAAA
39687396 TTTTAAAA
1 -TTTAAAA
39687404 TTTAAAA
1 TTTAAAA
39687411 TTTAAAA
1 TTTAAAA
39687418 TTATAAAA
1 TT-TAAAA
39687426 ATGGAACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 16 0.57
8 12 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
TTTAAAA
Found at i:39687409 original size:15 final size:14
Alignment explanation
Indices: 39687389--39687425 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
39687379 TCAATATATT
39687389 TTTAAAATTTTAAAA
1 TTTAAAA-TTTAAAA
39687404 TTTAAAATTTAAAA
1 TTTAAAATTTAAAA
39687418 TTATAAAA
1 TT-TAAAA
39687426 ATGGAACATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTAAAATTTAAAA
Found at i:39688322 original size:16 final size:17
Alignment explanation
Indices: 39688301--39688332 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
39688291 CTAAACTAAT
39688301 TTTTTATAT-ATTTTTA
1 TTTTTATATAATTTTTA
39688317 TTTTTATATAATTTTT
1 TTTTTATATAATTTTT
39688333 TATATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTATATAATTTTTA
Found at i:39688351 original size:14 final size:12
Alignment explanation
Indices: 39688317--39688343 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
39688307 TATATTTTTA
39688317 TTTTTATATAAT
1 TTTTTATATAAT
39688329 TTTTTATATAAT
1 TTTTTATATAAT
39688341 TTT
1 TTT
39688344 CTTAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTATATAAT
Found at i:39688359 original size:28 final size:28
Alignment explanation
Indices: 39688297--39688360 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
39688287 AAACCTAAAC
* **
39688297 TAATTTTTTATATATTTTTATTTTTATA
1 TAATTTTTTATATAATTTTATTAATATA
*
39688325 TAATTTTTTATATAATTTTCTTAATAT-
1 TAATTTTTTATATAATTTTATTAATATA
*
39688352 TTATTTTTT
1 TAATTTTTT
39688361 CAGTTATACT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 8 0.26
28 23 0.74
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (28 bp):
TAATTTTTTATATAATTTTATTAATATA
Found at i:39688411 original size:14 final size:14
Alignment explanation
Indices: 39688394--39688421 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
39688384 TCTAATATTA
39688394 TAAATATAATTTTT
1 TAAATATAATTTTT
39688408 TAAATATAATTTTT
1 TAAATATAATTTTT
39688422 ATATGTGAAA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAAATATAATTTTT
Found at i:39692033 original size:73 final size:73
Alignment explanation
Indices: 39691917--39692055 Score: 176
Period size: 73 Copynumber: 1.9 Consensus size: 73
39691907 TGCTCTTCGT
* * *
39691917 GAGCTTCCTGATTAAAGGCTCTTTGTGAGCTTCCCGATATGGCTCGCTTGAACTTCCTGATATAT
1 GAGCTTCCTCATTAAAGGCTCTTCGTGAGCTTCCCGATATGGCTCGCATGAACTTCCTGAT-TAT
39691982 GGTTATCCA
65 GGTTATCCA
* * *
39691991 GAGCTT-CTCATTAATGGCTCTTCG-GAG-TTACCCGTTATTGGCTCGCATGAGCTTCCTGATTA
1 GAGCTTCCTCATTAAAGGCTCTTCGTGAGCTT-CCCGATA-TGGCTCGCATGAACTTCCTGATTA
39692053 TGG
64 TGG
39692056 CTCTTATGAG
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
71 2 0.04
72 14 0.25
73 35 0.61
74 6 0.11
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (73 bp):
GAGCTTCCTCATTAAAGGCTCTTCGTGAGCTTCCCGATATGGCTCGCATGAACTTCCTGATTATG
GTTATCCA
Found at i:39695965 original size:47 final size:47
Alignment explanation
Indices: 39695887--39696199 Score: 509
Period size: 47 Copynumber: 6.6 Consensus size: 47
39695877 CCCTTCGGGA
* * * * * *
39695887 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
39695934 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39695981 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
39696028 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39696077 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39696124 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
39696171 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
39696200 TATTCAAATA
Statistics
Matches: 250, Mismatches: 12, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
47 185 0.74
49 65 0.26
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:39696084 original size:96 final size:94
Alignment explanation
Indices: 39695887--39696199 Score: 509
Period size: 96 Copynumber: 3.3 Consensus size: 94
39695877 CCCTTCGGGA
* * * * * * * *
39695887 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
39695952 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
39695981 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
39696046 ACTTTCACATTCATCACATCAGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
39696077 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
39696142 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
39696171 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
39696200 TATTCAAATA
Statistics
Matches: 205, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
94 93 0.45
96 112 0.55
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:39696156 original size:143 final size:143
Alignment explanation
Indices: 39695887--39696199 Score: 540
Period size: 143 Copynumber: 2.2 Consensus size: 143
39695877 CCCTTCGGGA
* * ** * *
39695887 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCACTAGGCCCTATCACATATATAC
39695950 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
39696015 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* *
39696028 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCACTAGGCCCTATCACATATATAC
39696093 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
39696158 TCGGCCATTAGGC
131 TCGGCCATTAGGC
39696171 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
39696200 TATTCAAATA
Statistics
Matches: 162, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
141 10 0.06
142 1 0.01
143 151 0.93
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCAGCCACTAGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:39708676 original size:15 final size:15
Alignment explanation
Indices: 39708656--39708684 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
39708646 TTTATAATTA
39708656 ATTTAATTAATATTT
1 ATTTAATTAATATTT
39708671 ATTTAATTAATATT
1 ATTTAATTAATATT
39708685 AATCACCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATTTAATTAATATTT
Found at i:39709790 original size:40 final size:40
Alignment explanation
Indices: 39709746--39709874 Score: 125
Period size: 40 Copynumber: 3.2 Consensus size: 40
39709736 ATTATTGTAT
*
39709746 TGAATGCACAAACGTGCCCCTGTTTGTACTTCGGTACCTC
1 TGAATGCACAAACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * *
39709786 TGAATGCACATAA-TTGCCCTTGATTGTACTTTGATACCCCC
1 TGAATGCACA-AACGTGCCCCTGTTTGTACTTCGGTA-CCCC
** * * *
39709827 TGAATGCACATGCGTGCTCCTTTTTGTACTTCAGTACCCC
1 TGAATGCACAAACGTGCCCCTGTTTGTACTTCGGTACCCC
*
39709867 AGAATGCA
1 TGAATGCA
39709875 TATACATGCT
Statistics
Matches: 69, Mismatches: 17, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
40 39 0.57
41 30 0.43
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (40 bp):
TGAATGCACAAACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:39712622 original size:19 final size:18
Alignment explanation
Indices: 39712598--39712634 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
39712588 GCGAAGAAAT
39712598 TAAATAATTAAATTCAAAA
1 TAAATAATTAAATT-AAAA
39712617 TAAATAATTAAATTAAAA
1 TAAATAATTAAATTAAAA
39712635 GATCATCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAATAATTAAATTAAAA
Found at i:39716982 original size:9 final size:9
Alignment explanation
Indices: 39716970--39717017 Score: 62
Period size: 9 Copynumber: 5.3 Consensus size: 9
39716960 TTTTTTTAGA
39716970 TATATATTT
1 TATATATTT
39716979 TATATATTT
1 TATATATTT
39716988 TATATATTT
1 TATATATTT
39716997 TATGAT-TTT
1 TAT-ATATTT
* *
39717006 TTTATAATT
1 TATATATTT
39717015 TAT
1 TAT
39717018 CTAATTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 2 0.06
9 30 0.88
10 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (9 bp):
TATATATTT
Found at i:39721900 original size:98 final size:98
Alignment explanation
Indices: 39721782--39721978 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
39721772 TTTAAAATAA
**
39721782 TAAAGGAAATATTCTGAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGAGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGAGTGTGATTTC
39721847 TTAAATCTTGGATAAATGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAATGGATGTTCTTTTAAAG
* *
39721880 TAAAGGAAATATTCCAAGTTTGGGATTTTAGAGGAATCGTGCCCTAATGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGAGTGTGATTTC
*
39721945 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAATGGATGTTCTTTTAAAG
39721978 T
1 T
39721979 TTTATTGCAC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGGGATTTTAGAGGAATCGTGCCCTAACGTATTGAGTGTGATTTC
TTAAATCTTGGATAAATGGATGTTCTTTTAAAG
Found at i:39723008 original size:11 final size:12
Alignment explanation
Indices: 39722990--39723020 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
39722980 TTAATATAAG
39722990 ATTATTTAAATA
1 ATTATTTAAATA
39723002 ATT-TTTAAATA
1 ATTATTTAAATA
39723013 ATTATTTA
1 ATTATTTA
39723021 GGTTATAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATTTAAATA
Found at i:39726889 original size:29 final size:31
Alignment explanation
Indices: 39726829--39726891 Score: 94
Period size: 29 Copynumber: 2.1 Consensus size: 31
39726819 TCACATTTGG
* *
39726829 TACTTGTACTTTTATAAAATGTCTAATGTGA
1 TACTTGTACTTTTATAAAATATCTAATATGA
39726860 TACTTGTAC-TTTA-AAAATATCTAATATGA
1 TACTTGTACTTTTATAAAATATCTAATATGA
39726889 TAC
1 TAC
39726892 CTGAGCTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.57
30 4 0.13
31 9 0.30
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.43
Consensus pattern (31 bp):
TACTTGTACTTTTATAAAATATCTAATATGA
Found at i:39729081 original size:4 final size:4
Alignment explanation
Indices: 39729072--39729099 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
39729062 AGCCAAAAGA
39729072 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
39729100 TATTCTTTTT
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:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:39734512 original size:25 final size:25
Alignment explanation
Indices: 39734484--39734532 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
39734474 ACCAATACTC
* *
39734484 AGCTCATATAAGCTTACCGTTATTT
1 AGCTCAGAGAAGCTTACCGTTATTT
* *
39734509 AGCTCGGAGGAGCTTACCGTTATT
1 AGCTCAGAGAAGCTTACCGTTATT
39734533 CAAATTGGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (25 bp):
AGCTCAGAGAAGCTTACCGTTATTT
Found at i:39734542 original size:25 final size:25
Alignment explanation
Indices: 39734494--39734554 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
39734484 AGCTCATATA
* **
39734494 AGCTTACCGTTATTTAGCTCGGAGG
1 AGCTTACCGTTATTCAAATCGGAGG
*
39734519 AGCTTACCGTTATTCAAATTGGAGG
1 AGCTTACCGTTATTCAAATCGGAGG
*
39734544 AGCTTATCGTT
1 AGCTTACCGTT
39734555 TATAGCTCGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (25 bp):
AGCTTACCGTTATTCAAATCGGAGG
Found at i:39740083 original size:16 final size:16
Alignment explanation
Indices: 39740062--39740093 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39740052 ATTTTGTTGC
*
39740062 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
39740078 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
39740094 CGTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:39740455 original size:16 final size:16
Alignment explanation
Indices: 39740430--39740461 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39740420 GCATAGTAGC
*
39740430 CTTTGTAATAATAACA
1 CTTTGGAATAATAACA
39740446 CTTTGGAATAATAACA
1 CTTTGGAATAATAACA
39740462 GATACACGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (16 bp):
CTTTGGAATAATAACA
Found at i:39740624 original size:51 final size:51
Alignment explanation
Indices: 39740557--39740754 Score: 188
Period size: 51 Copynumber: 3.9 Consensus size: 51
39740547 TTAATGATAT
* * * * *
39740557 CGATTCACATAGTAGCCTGCACATAGTACTACACATGTGCCCATCACTATC
1 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACAATC
* * * *
39740608 CAATACACGTAGTAGCCTGCACATAGTACTAAACACGTGATCGA--AGCAATT
1 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CAATC
* * * * * *
39740659 CGATACGCATAGTAGCCTGCACATAGTACTACATATGCGACC-T-ACCATTC
1 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CAATC
* *
39740709 TGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCA
1 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCA
39740755 TTTTCACTTT
Statistics
Matches: 115, Mismatches: 27, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
50 41 0.36
51 71 0.62
52 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (51 bp):
CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATCACAATC
Found at i:39740627 original size:245 final size:245
Alignment explanation
Indices: 39740197--39740676 Score: 915
Period size: 245 Copynumber: 2.0 Consensus size: 245
39740187 TTTCCCGAAG
* *
39740197 AACACTTCGGAATAATAACAGATACACGATGGATTCTGCACACAGCAACCACCCTTTGTAATCAA
1 AACACTTCGGAATAATAACAGATACACGATGGATTCCGCACACAGAAACCACCCTTTGTAATCAA
*
39740262 TGATATCCGGTGGGATCAGCACATAGCAACCACCTTATAATTAATGATATCGATTCACATAGTAG
66 TGATATCCGGTGGGATCAGCACATAGAAACCACCTTATAATTAATGATATCGATTCACATAGTAG
39740327 CCTGCACATAGTACTACACATGTGCCCATCACTATCCAATACACGTAGTAGCCTGCACATAGTAC
131 CCTGCACATAGTACTACACATGTGCCCATCACTATCCAATACACGTAGTAGCCTGCACATAGTAC
39740392 TAAACACGTGATCGAAGCAATTCGATACGCATAGTAGCCTTTGTAATAAT
196 TAAACACGTGATCGAAGCAATTCGATACGCATAGTAGCCTTTGTAATAAT
* *
39740442 AACACTTTGGAATAATAACAGATACACGGTGGATTCCGCACACAGAAACCACCCTTTGTAATCAA
1 AACACTTCGGAATAATAACAGATACACGATGGATTCCGCACACAGAAACCACCCTTTGTAATCAA
39740507 TGATATCCGGTGGGATCAGCACATAGAAACCACCTTATAATTAATGATATCGATTCACATAGTAG
66 TGATATCCGGTGGGATCAGCACATAGAAACCACCTTATAATTAATGATATCGATTCACATAGTAG
39740572 CCTGCACATAGTACTACACATGTGCCCATCACTATCCAATACACGTAGTAGCCTGCACATAGTAC
131 CCTGCACATAGTACTACACATGTGCCCATCACTATCCAATACACGTAGTAGCCTGCACATAGTAC
39740637 TAAACACGTGATCGAAGCAATTCGATACGCATAGTAGCCT
196 TAAACACGTGATCGAAGCAATTCGATACGCATAGTAGCCT
39740677 GCACATAGTA
Statistics
Matches: 230, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
245 230 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (245 bp):
AACACTTCGGAATAATAACAGATACACGATGGATTCCGCACACAGAAACCACCCTTTGTAATCAA
TGATATCCGGTGGGATCAGCACATAGAAACCACCTTATAATTAATGATATCGATTCACATAGTAG
CCTGCACATAGTACTACACATGTGCCCATCACTATCCAATACACGTAGTAGCCTGCACATAGTAC
TAAACACGTGATCGAAGCAATTCGATACGCATAGTAGCCTTTGTAATAAT
Found at i:39740745 original size:101 final size:102
Alignment explanation
Indices: 39740564--39740748 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
39740554 TATCGATTCA
* *
39740564 CATAGTAGCCTGCACATAGTACTACACATGTGCCCATCACTATCCAATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGCCCACCACTATCCAATACACGTAGTAGCCTGCA
39740629 CATAGTACTAAACACGTGATCGAAGCAATTCGATACG
66 CATAGTACTAAACACGTGATCGAAGCAATTCGATACG
* * ***
39740666 CATAGTAGCCTGCACATAGTACTACATATGCGACCTACCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCG-CCCACCACTATCCAATACACGTAGTAGCCTGC
*
39740729 ACATAGTACTACACACGTGA
65 ACATAGTACTAAACACGTGA
39740749 CCATCATTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
101 38 0.51
102 31 0.42
103 5 0.07
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGCCCACCACTATCCAATACACGTAGTAGCCTGCA
CATAGTACTAAACACGTGATCGAAGCAATTCGATACG
Found at i:39744815 original size:25 final size:25
Alignment explanation
Indices: 39744787--39744857 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
39744777 GTTATCGATT
*
39744787 TCAGCTCTTATGAGCTTACCGATAC
1 TCAGCTCGTATGAGCTTACCGATAC
* *
39744812 TCAGCTCGTATGAGCTTACCGTTAT
1 TCAGCTCGTATGAGCTTACCGATAC
* * *
39744837 TCAGCTTGGAGGAGCTTACCG
1 TCAGCTCGTATGAGCTTACCG
39744858 TTATTCAACT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (25 bp):
TCAGCTCGTATGAGCTTACCGATAC
Found at i:39744858 original size:25 final size:25
Alignment explanation
Indices: 39744798--39744872 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
39744788 CAGCTCTTAT
* * * * *
39744798 GAGCTTACCGATACTCAGCTCGTAT
1 GAGCTTACCGTTATTCAGCTTGGAG
39744823 GAGCTTACCGTTATTCAGCTTGGAG
1 GAGCTTACCGTTATTCAGCTTGGAG
*
39744848 GAGCTTACCGTTATTCAACTTGGAG
1 GAGCTTACCGTTATTCAGCTTGGAG
39744873 CAGCATACAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (25 bp):
GAGCTTACCGTTATTCAGCTTGGAG
Found at i:39754202 original size:19 final size:19
Alignment explanation
Indices: 39754178--39754215 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
39754168 TATGTAAATA
*
39754178 AAGACAAAATTTAGTAATT
1 AAGACAAAATTAAGTAATT
*
39754197 AAGACATAATTAAGTAATT
1 AAGACAAAATTAAGTAATT
39754216 TTAAAGGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.32
Consensus pattern (19 bp):
AAGACAAAATTAAGTAATT
Found at i:39755013 original size:31 final size:31
Alignment explanation
Indices: 39754975--39755273 Score: 388
Period size: 31 Copynumber: 9.7 Consensus size: 31
39754965 GTATATGTTT
** * * *
39754975 TATACATTGTTGAATTTGACTTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
*
39755006 TATACATTGCCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
*
39755037 TATACATTGCCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
*
39755068 TATACATTGCCGAATTTGATTTGTGTATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* *
39755099 TATATATTGCCGAA-TTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* *
39755129 TATACATTGCCGAAGTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATGGA
39755160 TATACATTGCCGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * *
39755191 TATTCATTGCCGAA-TTGATTTTTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
** *
39755221 TATACATTGCTAAATTTGATTCGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATGGA
* * *
39755252 TACATATTGCTGAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTG
39755274 AGCATTGGAT
Statistics
Matches: 237, Mismatches: 29, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
30 59 0.25
31 178 0.75
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.44
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATGGA
Found at i:39755151 original size:92 final size:92
Alignment explanation
Indices: 39754964--39755273 Score: 408
Period size: 92 Copynumber: 3.4 Consensus size: 92
39754954 TGGATTTAAA
* ** * * * *
39754964 TGTATATGTTTTATACATTGTTGAATTTGACTTGTTTATAGATATACATTGCCGAATTTGATTTG
1 TGTATATG-GTTATACATTGCCGAATTTGATTTGTATATGGATATATATTGCCGAA-TTGATTTG
* *
39755029 TATATGGTTATACATTGCCGAATTTGATT
64 TATATAGATATACATTGCCGAATTTGATT
*
39755058 TGTATATGGTTATACATTGCCGAATTTGATTTGTGTATGGATATATATTGCCGAATTGATTTGTA
1 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATATATTGCCGAATTGATTTGTA
*
39755123 TATAGATATACATTGCCGAAGTTGATT
66 TATAGATATACATTGCCGAATTTGATT
*
39755150 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATAT-TCATTGCCGAATTGATTTTT
1 TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATAT-ATTGCCGAATTGATTTGT
**
39755214 ATATAGATATACATTGCTAAATTTGATT
65 ATATAGATATACATTGCCGAATTTGATT
* * * * *
39755242 CGTATATGGATACATATTGCTGAA-TTGATTTG
1 TGTATATGGTTATACATTGCCGAATTTGATTTG
39755274 AGCATTGGAT
Statistics
Matches: 195, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
91 9 0.05
92 138 0.71
93 40 0.21
94 8 0.04
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45
Consensus pattern (92 bp):
TGTATATGGTTATACATTGCCGAATTTGATTTGTATATGGATATATATTGCCGAATTGATTTGTA
TATAGATATACATTGCCGAATTTGATT
Found at i:39755240 original size:123 final size:123
Alignment explanation
Indices: 39754975--39755273 Score: 422
Period size: 123 Copynumber: 2.4 Consensus size: 123
39754965 GTATATGTTT
* * *
39754975 TATACATTGTTGAATTTGACTTGTTTATAGATATACATTGCCGAATTTGATTTGTATATGGTTAT
1 TATACATTGCTGAATTTGATTTGTATATAGATATACATTGCCGAA-TTGATTTGTATATGGTTAT
* * *
39755040 ACATTGCCGAATTTGATTTGTATATGGTTATACATTGCCGAATTTGATTTGTGTATGGA
65 ACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTTGATTTGTATATAGA
* *
39755099 TATATATTGCCGAA-TTGATTTGTATATAGATATACATTGCCGAAGTTGATTTGTATATGGTTAT
1 TATACATTGCTGAATTTGATTTGTATATAGATATACATTGCCGAA-TTGATTTGTATATGGTTAT
* *
39755163 ACATTGCCGAATTTGATTTGTATATGGATATTCATTGCCGAA-TTGATTTTTATATAGA
65 ACATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTTGATTTGTATATAGA
* * * * * *
39755221 TATACATTGCTAAATTTGATTCGTATATGGATACATATTGCTGAATTGATTTG
1 TATACATTGCTGAATTTGATTTGTATATAGATATACATTGCCGAATTGATTTG
39755274 AGCATTGGAT
Statistics
Matches: 155, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
122 32 0.21
123 112 0.72
124 11 0.07
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.44
Consensus pattern (123 bp):
TATACATTGCTGAATTTGATTTGTATATAGATATACATTGCCGAATTGATTTGTATATGGTTATA
CATTGCCGAATTTGATTTGTATATGGATATACATTGCCGAATTTGATTTGTATATAGA
Found at i:39762737 original size:47 final size:49
Alignment explanation
Indices: 39762662--39762761 Score: 132
Period size: 47 Copynumber: 2.1 Consensus size: 49
39762652 GGAGTAAAAT
* *
39762662 CAGATTTCTCGGTCACCTGCACACAGTCCGTACCACCTTTGT-TAATAA
1 CAGATTTCTCGGTCACCTGCACAAAGTCCGTACCACCCTTGTATAATAA
** * *
39762710 CAGA-TTCTCGGTGGCCTGCACAAAGTCCGTGCCACCCTTGTATCATAA
1 CAGATTTCTCGGTCACCTGCACAAAGTCCGTACCACCCTTGTATAATAA
39762758 CAGA
1 CAGA
39762762 ATACCGGTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 32 0.71
48 13 0.29
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (49 bp):
CAGATTTCTCGGTCACCTGCACAAAGTCCGTACCACCCTTGTATAATAA
Found at i:39769735 original size:37 final size:34
Alignment explanation
Indices: 39769659--39769974 Score: 160
Period size: 35 Copynumber: 8.7 Consensus size: 34
39769649 CCTTAGATAT
* * *
39769659 GTCTATCCCAACCTTTTTAAAGTTGCTTTAGACAG
1 GTCTATCCTAACTTTTTTAAGGTTGCTTTAGAC-G
* *
39769694 GTCTATCTTAACTTTTTTTAAAGGTTGTTTTAGACG
1 GTCTATCCTAAC-TTTTTT-AAGGTTGCTTTAGACG
* *
39769730 TGTCTATCCCAAC-TTTCTAAGGTTGCTTTAGACAAG
1 -GTCTATCCTAACTTTTTTAAGGTTGCTTTAGAC--G
*
39769766 GTCTATGTCTATCTTAACTTTTTTTAAATGTTGCTTTAGACG
1 GTCTA--TC---C-TAAC-TTTTTT-AAGGTTGCTTTAGACG
* *
39769808 TGTCTAT-TTCAAC-TTTTTAAGGTTGCTTTAGATAAG
1 -GTCTATCCT-AACTTTTTTAAGGTTGCTTTAG--ACG
* * * * *
39769844 GTCTATCCCAACCTTTCTGAGGTTGTTTTAGACGG
1 GTCTATCCTAACTTTTTTAAGGTTGCTTTAGAC-G
*
39769879 GTTTATCCTAACATTTTTTAAAGGTTGCTTTAG--G
1 GTCTATCCTAAC-TTTTTT-AAGGTTGCTTTAGACG
* * * *
39769913 GTCTAT-TTCAATTTTTTTTTAAGGTT-ATCTTAGACAA
1 GTCTATCCT-AA--CTTTTTTAAGGTTGCT-TTAGAC-G
*
39769950 GTCTATCCTAACCTTTTTAAGGTTG
1 GTCTATCCTAACTTTTTTAAGGTTG
39769975 TTTCAAAAGA
Statistics
Matches: 214, Mismatches: 35, Indels: 63
0.69 0.11 0.20
Matches are distributed among these distances:
33 2 0.01
34 45 0.21
35 61 0.29
36 29 0.14
37 47 0.22
38 1 0.00
40 1 0.00
41 4 0.02
42 1 0.00
43 9 0.04
44 14 0.07
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.45
Consensus pattern (34 bp):
GTCTATCCTAACTTTTTTAAGGTTGCTTTAGACG
Found at i:39769804 original size:78 final size:78
Alignment explanation
Indices: 39769694--39769849 Score: 258
Period size: 78 Copynumber: 2.0 Consensus size: 78
39769684 CTTTAGACAG
*
39769694 GTCTATCTTAACTTTTTTTAAAGGTTGTTTTAGACGTGTCTATCCCAACTTTCTAAGGTTGCTTT
1 GTCTATCTTAACTTTTTTTAAAGGTTGCTTTAGACGTGTCTATCCCAACTTTCTAAGGTTGCTTT
39769759 AGACAAGGTCTAT
66 AGACAAGGTCTAT
* ** *
39769772 GTCTATCTTAACTTTTTTTAAATGTTGCTTTAGACGTGTCTATTTCAACTTTTTAAGGTTGCTTT
1 GTCTATCTTAACTTTTTTTAAAGGTTGCTTTAGACGTGTCTATCCCAACTTTCTAAGGTTGCTTT
*
39769837 AGATAAGGTCTAT
66 AGACAAGGTCTAT
39769850 CCCAACCTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.23, C:0.15, G:0.16, T:0.46
Consensus pattern (78 bp):
GTCTATCTTAACTTTTTTTAAAGGTTGCTTTAGACGTGTCTATCCCAACTTTCTAAGGTTGCTTT
AGACAAGGTCTAT
Found at i:39769989 original size:106 final size:106
Alignment explanation
Indices: 39769672--39770006 Score: 253
Period size: 106 Copynumber: 3.1 Consensus size: 106
39769662 TATCCCAACC
*
39769672 TTTTTAAA-GTTGCTTTAGACAG-GTCTATCTT-AACTTTTTTTAAAGGTTGTTTTAGAC--GTG
1 TTTTTAAAGGTTGCTTTAG--AGTGTCTAT-TTCAAC--TTTTT-AAGGTTGCTTTAGACAAG-G
* * *
39769732 TCTATCCCAA-CTTTCTAAGGTTGCTTT-AGACAAGGTCTATGTCTATCTTAACTT
59 TCTATCCCAACCTTTCTAAGGTTG-TTTCA-A-AA-G---A-GTTTATCCTAACAT
* *
39769786 TTTTTAAATGTTGCTTTAGACGTGTCTATTTCAACTTTTTAAGGTTGCTTTAGATAAGGTCTATC
1 TTTTTAAAGGTTGCTTTAGA-GTGTCTATTTCAACTTTTTAAGGTTGCTTTAGACAAGGTCTATC
* * * * *
39769851 CCAACCTTTCTGAGGTTGTTTTAGACGGGTTTATCCTAACAT
65 CCAACCTTTCTAAGGTTGTTTCAAAAGAGTTTATCCTAACAT
* *
39769893 TTTTTAAAGGTTGCTTTAG-G-GTCTATTTCAATTTTTTTTTAAGGTT-ATCTTAGACAA-GTCT
1 TTTTTAAAGGTTGCTTTAGAGTGTCTATTTCAA---CTTTTTAAGGTTGCT-TTAGACAAGGTCT
* * *
39769954 ATCCTAACCTTTTTAAGGTTGTTTCAAAAGAGTTTAT-CTCAACCT
62 ATCCCAACCTTTCTAAGGTTGTTTCAAAAGAGTTTATCCT-AACAT
39769999 TTTTTAAA
1 TTTTTAAA
39770007 TGTCGTCATT
Statistics
Matches: 187, Mismatches: 21, Indels: 34
0.77 0.09 0.14
Matches are distributed among these distances:
104 11 0.06
105 3 0.02
106 47 0.25
107 47 0.25
111 1 0.01
112 14 0.07
113 20 0.11
114 25 0.13
115 19 0.10
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (106 bp):
TTTTTAAAGGTTGCTTTAGAGTGTCTATTTCAACTTTTTAAGGTTGCTTTAGACAAGGTCTATCC
CAACCTTTCTAAGGTTGTTTCAAAAGAGTTTATCCTAACAT
Found at i:39771031 original size:20 final size:20
Alignment explanation
Indices: 39770995--39771033 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
39770985 TTTTCCTTCG
*
39770995 TTCTTTAATTATTTTCTTTT
1 TTCTTTAATTATCTTCTTTT
39771015 TTCTTTAATT-TACTTCTTT
1 TTCTTTAATTAT-CTTCTTT
39771034 CGTTCCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (20 bp):
TTCTTTAATTATCTTCTTTT
Found at i:39771640 original size:21 final size:21
Alignment explanation
Indices: 39771616--39771686 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
39771606 TGTAACTCGG
39771616 TCACACGGGCGTGTG-CTCACT
1 TCACACGGGCGTGTGCCTC-CT
* *
39771637 TCACATGGGCGTGTGCCTCTT
1 TCACACGGGCGTGTGCCTCCT
* *
39771658 TCATACAGGCGTGTGCCTCCT
1 TCACACGGGCGTGTGCCTCCT
*
39771679 TTACACGG
1 TCACACGG
39771687 CCTAAACCCT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
21 37 0.93
22 3 0.08
ACGTcount: A:0.14, C:0.31, G:0.27, T:0.28
Consensus pattern (21 bp):
TCACACGGGCGTGTGCCTCCT
Found at i:39773161 original size:17 final size:18
Alignment explanation
Indices: 39773125--39773168 Score: 65
Period size: 16 Copynumber: 2.5 Consensus size: 18
39773115 AAGGGAATTC
39773125 ATTTATTTTTATATAAATA
1 ATTTA-TTTTATATAAATA
39773144 ATTTATTTTATA-AAATA
1 ATTTATTTTATATAAATA
39773161 A-TTATTTT
1 ATTTATTTT
39773169 CTTAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.28
17 6 0.24
18 7 0.28
19 5 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTATTTTATATAAATA
Found at i:39784233 original size:359 final size:359
Alignment explanation
Indices: 39783574--39785005 Score: 2747
Period size: 359 Copynumber: 4.0 Consensus size: 359
39783564 GCTCATAATC
39783574 GGCTGCCACCATCCCACGTGCATAGTGGCTTAATCGTAAAAATTCAGCTTCATACTCAGCCACTA
1 GGCTGCCACCATCCCACGTGCATAGTGGCTTAATCGTAAAAATTCAGCTTCATACTCAGCCACTA
39783639 ATTTATCCCCTTGAGTCAGATTCAGAAACTCTTTCCTTCGGGCATCCACATAACTAGTTCCCACA
66 ATTTATCCCCTTGAGTCAGATTCAGAAACTCTTTCCTTCGGGCATCCACATAACTAGTTCCCACA
39783704 TACTTCCCTTAGAAAGAAGTTTTGAAGAATTCTCATGTCAATCAGTCAACCTGAGTACCCTTTTT
131 TACTTCCCTTAGAAAGAAGTTTTGAAGAATTCTCATGTCAATCAGTCAACCTGAGTACCCTTTTT
*
39783769 AACTGTAAGCCACCACTAATAGGCTTCGTCTTGTAACAATGACAAGAATCCTTTTAGTTTCTGTT
196 AACTGTAAGCCACCACTAATAGGCTTCGTCTTGTAACAATGACACGAATCCTTTTAGTTTCTGTT
*
39783834 CGGAAGTGTAGTCGAGGTCATCCATGATCTTCTCTATGGCCTTAATCCAATATTCAGCCACGTTA
261 CGGAAGTGCAGTCGAGGTCATCCATGATCTTCTCTATGGCCTTAATCCAATATTCAGCCACGTTA
39783899 GGAGCAATTCCAGCAATACCCCTAAAAATCAATT
326 GGAGCAATTCCAGCAATACCCCTAAAAATCAATT
*
39783933 GGCTGCCACCATCCCACGTACATAGTGGCTTAATCGTAAAAATTCAGCTTCATACTCAGCCACTA
1 GGCTGCCACCATCCCACGTGCATAGTGGCTTAATCGTAAAAATTCAGCTTCATACTCAGCCACTA
39783998 ATTTATCCCCTTGAGTCAGATTCAGAAACTCTTTCCTTCGGGCATCCACATAACTAGTTCCCACA
66 ATTTATCCCCTTGAGTCAGATTCAGAAACTCTTTCCTTCGGGCATCCACATAACTAGTTCCCACA
39784063 TACTTCCCTTAGAAAGAAGTTTTGAAGAATTCTCATGTCAATCAGTCAACCTGAGTACCCTTTTT
131 TACTTCCCTTAGAAAGAAGTTTTGAAGAATTCTCATGTCAATCAGTCAACCTGAGTACCCTTTTT
*
39784128 AACTGTAAGCCACCACTAATAGGCTTCATCTTGTAACAATGACACGAATCCTTTTAGTTTCTGTT
196 AACTGTAAGCCACCACTAATAGGCTTCGTCTTGTAACAATGACACGAATCCTTTTAGTTTCTGTT
*
39784193 CGGAAATGCAGTCGAGGTCATCCATGATCTTCTCTATGGCCTTAATCCAATATTCAGCCACGTTA
261 CGGAAGTGCAGTCGAGGTCATCCATGATCTTCTCTATGGCCTTAATCCAATATTCAGCCACGTTA
*
39784258 GGAGCAATTCCAGCAATACCCCTAAAAATCAATC
326 GGAGCAATTCCAGCAATACCCCTAAAAATCAATT
*
39784292 GGCTGCCACCATCCCACGTGCATAGTGGCTTAATCGTAAAAATTTAGCTTCATACTCAGCCACTA
1 GGCTGCCACCATCCCACGTGCATAGTGGCTTAATCGTAAAAATTCAGCTTCATACTCAGCCACTA
* *
39784357 ATTTATCTCCTTGAGTCAGATTCAGAAACTCTTTCCTTCGTGCATCCACATAACTAGTTCCCACA
66 ATTTATCCCCTTGAGTCAGATTCAGAAACTCTTTCCTTCGGGCATCCACATAACTAGTTCCCACA
*
39784422 TACTTCCCTTAGAAAGAAGTTTTGAACAATTCTCATGTCAATCAGTCAACCTGAGTACCCTTTTT
131 TACTTCCCTTAGAAAGAAGTTTTGAAGAATTCTCATGTCAATCAGTCAACCTGAGTACCCTTTTT
39784487 AACTGTAAGCCACCACTAATAGGCTTCGTCTTGTAACAATGACACGAATCCTTTTAGTTTCTGTT
196 AACTGTAAGCCACCACTAATAGGCTTCGTCTTGTAACAATGACACGAATCCTTTTAGTTTCTGTT
39784552 CGGAAGTGCAGTCGAGGTCATCCATGATCTTCTCTATGGCCTTAATCCAATATTCAGCCACGTTA
261 CGGAAGTGCAGTCGAGGTCATCCATGATCTTCTCTATGGCCTTAATCCAATATTCAGCCACGTTA
39784617 GGAGCAATTCCAGCAATACCCCTAAAAATCAATT
326 GGAGCAATTCCAGCAATACCCCTAAAAATCAATT
* *
39784651 GGCTGCCACCATCCCACGTGCATAGCGGCTTAATCGTAAAAATTCAGCTTCATACTCAGCTACTA
1 GGCTGCCACCATCCCACGTGCATAGTGGCTTAATCGTAAAAATTCAGCTTCATACTCAGCCACTA
39784716 ATTTATCCCCTTGAGTCAGATTCAGAAACTCTTTCCTTCGGGCATCCACATAACTAGTTCCCACA
66 ATTTATCCCCTTGAGTCAGATTCAGAAACTCTTTCCTTCGGGCATCCACATAACTAGTTCCCACA
*
39784781 TACTTCCCTTAGAAAGAAGTTTTGAAGAATTCTCATGTCAATCAGTCAACCTGGGTACCCTTTTT
131 TACTTCCCTTAGAAAGAAGTTTTGAAGAATTCTCATGTCAATCAGTCAACCTGAGTACCCTTTTT
39784846 AACTGTAAGCCACCACTAATAGGCTTCGTCTTGTAACAATGACACGAATCCTTTTAGTTTCTGTT
196 AACTGTAAGCCACCACTAATAGGCTTCGTCTTGTAACAATGACACGAATCCTTTTAGTTTCTGTT
39784911 CGGAAGTGCAGTCGAGGTCATCCATGATCTTCTCTATGGCCTTAATCCAATATTCAGCCACGTTA
261 CGGAAGTGCAGTCGAGGTCATCCATGATCTTCTCTATGGCCTTAATCCAATATTCAGCCACGTTA
39784976 GGAGCAATTCCAGCAATACCCCTAAAAATC
326 GGAGCAATTCCAGCAATACCCCTAAAAATC
39785006 TCAGCCCCAT
Statistics
Matches: 1052, Mismatches: 21, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
359 1052 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (359 bp):
GGCTGCCACCATCCCACGTGCATAGTGGCTTAATCGTAAAAATTCAGCTTCATACTCAGCCACTA
ATTTATCCCCTTGAGTCAGATTCAGAAACTCTTTCCTTCGGGCATCCACATAACTAGTTCCCACA
TACTTCCCTTAGAAAGAAGTTTTGAAGAATTCTCATGTCAATCAGTCAACCTGAGTACCCTTTTT
AACTGTAAGCCACCACTAATAGGCTTCGTCTTGTAACAATGACACGAATCCTTTTAGTTTCTGTT
CGGAAGTGCAGTCGAGGTCATCCATGATCTTCTCTATGGCCTTAATCCAATATTCAGCCACGTTA
GGAGCAATTCCAGCAATACCCCTAAAAATCAATT
Found at i:39789585 original size:28 final size:28
Alignment explanation
Indices: 39789545--39789600 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
39789535 TTAGGACTAA
39789545 ATGAGCAAATAGCCCAAGAGCTAGTGGG
1 ATGAGCAAATAGCCCAAGAGCTAGTGGG
39789573 ATGAGCAAATAGCCCAAGAGCTAGTGGG
1 ATGAGCAAATAGCCCAAGAGCTAGTGGG
39789601 TTAATCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.18, G:0.32, T:0.14
Consensus pattern (28 bp):
ATGAGCAAATAGCCCAAGAGCTAGTGGG
Found at i:39790277 original size:16 final size:17
Alignment explanation
Indices: 39790256--39790290 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
39790246 TAACTAAAAT
*
39790256 AAATAAATAAACAA-TA
1 AAATAAACAAACAACTA
39790272 AAATAAACAAACAACTA
1 AAATAAACAAACAACTA
39790289 AA
1 AA
39790291 CCAGTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.14
Consensus pattern (17 bp):
AAATAAACAAACAACTA
Found at i:39799300 original size:24 final size:24
Alignment explanation
Indices: 39799225--39799300 Score: 57
Period size: 24 Copynumber: 3.0 Consensus size: 24
39799215 TCTTCGTTAC
*
39799225 ATATTTTATGTAAAA-AATATTATA
1 ATATTTTATGTAAAAGAA-ATTATT
* * *
39799249 ATCATTTTTTAGTTATCAAGAAA-AATT
1 AT-ATTTTAT-G-TA-AAAGAAATTATT
39799276 ATATTTTATGTAAAAGAAATTATT
1 ATATTTTATGTAAAAGAAATTATT
39799300 A
1 A
39799301 CTTTGGTAAC
Statistics
Matches: 39, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
23 6 0.15
24 8 0.21
25 7 0.18
26 7 0.18
27 6 0.15
28 3 0.08
29 2 0.05
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.45
Consensus pattern (24 bp):
ATATTTTATGTAAAAGAAATTATT
Found at i:39805401 original size:17 final size:16
Alignment explanation
Indices: 39805361--39805402 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
39805351 AAATCCGTAC
39805361 TTTTTTTATATTAATA
1 TTTTTTTATATTAATA
39805377 TTTATTTTAGT-TTAATA
1 TTT-TTTTA-TATTAATA
39805394 TATTTTTTA
1 T-TTTTTTA
39805403 ACTTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.13
17 17 0.74
18 3 0.13
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TTTTTTTATATTAATA
Found at i:39809571 original size:49 final size:49
Alignment explanation
Indices: 39809466--39809582 Score: 117
Period size: 49 Copynumber: 2.4 Consensus size: 49
39809456 AACTCAAACT
* * * * * * *
39809466 CCCAGTTCACGGTGGTTATATGCTCACATGTTGAAATATAATTAGGGCT
1 CCCAGTTGACGGTGGTTATACGATCACAGGTTGAAATATAACTAGCGCC
* * * *
39809515 CCTAGTTGATGGTGGTTATACGATCACAGGTTGAAGTATAACTCGCGCC
1 CCCAGTTGACGGTGGTTATACGATCACAGGTTGAAATATAACTAGCGCC
* *
39809564 CCCAGTTGACAGTGATTAT
1 CCCAGTTGACGGTGGTTAT
39809583 GTGGTTCTGG
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.31
Consensus pattern (49 bp):
CCCAGTTGACGGTGGTTATACGATCACAGGTTGAAATATAACTAGCGCC
Found at i:39810556 original size:46 final size:44
Alignment explanation
Indices: 39810503--39810599 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
39810493 TAAATAGAAC
39810503 TGTAATGGAATA-AAGCTGTAATCAGTAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAA-CTGTAAT-AGT-ATTC-ATGTGTTTGGTTGAA
*
39810549 TGTAATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAA
*
39810593 TGGAATG
1 TGTAATG
39810600 ATGTTGTAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
43 1 0.02
44 22 0.47
45 3 0.06
46 19 0.40
47 2 0.04
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (44 bp):
TGTAATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAA
Found at i:39810820 original size:57 final size:58
Alignment explanation
Indices: 39810689--39810824 Score: 168
Period size: 58 Copynumber: 2.4 Consensus size: 58
39810679 TATTGTTATT
* * *
39810689 AAATTTTAATAAGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATGTAACC
1 AAATTTTAACAAAATTATTATTAAAAATAATTTAATAAAAATAATAAATAATGTAACA
* * * * * *
39810747 ATATTTTAACATAATTATTATTAAATATAATTTAAT-AAAATAATATATAATTTAATA
1 AAATTTTAACAAAATTATTATTAAAAATAATTTAATAAAAATAATAAATAATGTAACA
39810804 AAATTCTTAA-AAAATTATTAT
1 AAATT-TTAACAAAATTATTAT
39810825 ATGAATTAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
57 31 0.47
58 35 0.53
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.41
Consensus pattern (58 bp):
AAATTTTAACAAAATTATTATTAAAAATAATTTAATAAAAATAATAAATAATGTAACA
Found at i:39814829 original size:20 final size:20
Alignment explanation
Indices: 39814806--39814872 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
39814796 ACACTTTGGT
*
39814806 GCCTTTATTTGCACTTCGGC
1 GCCTCTATTTGCACTTCGGC
* **
39814826 GCCTCTGTTTGCACTTCGAT
1 GCCTCTATTTGCACTTCGGC
* * * *
39814846 GCCTATGTTTGCACTACGGT
1 GCCTCTATTTGCACTTCGGC
39814866 GCCTCTA
1 GCCTCTA
39814873 GTTAGCATTT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.12, C:0.30, G:0.21, T:0.37
Consensus pattern (20 bp):
GCCTCTATTTGCACTTCGGC
Found at i:39825359 original size:15 final size:13
Alignment explanation
Indices: 39825324--39825349 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39825314 TTAGGGTTTT
39825324 ACTAAAAATAATA
1 ACTAAAAATAATA
39825337 ACTAAAAATAATA
1 ACTAAAAATAATA
39825350 TAATTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
ACTAAAAATAATA
Found at i:39829010 original size:30 final size:30
Alignment explanation
Indices: 39828976--39829033 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
39828966 TTCTTTTAAC
39828976 AATTAAATCGTGAATTATTATTTATTAAAA
1 AATTAAATCGTGAATTATTATTTATTAAAA
* * *
39829006 AATTAAATTGTGATTTATTTTTTATTAA
1 AATTAAATCGTGAATTATTATTTATTAA
39829034 CTAGCATTTG
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:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (30 bp):
AATTAAATCGTGAATTATTATTTATTAAAA
Found at i:39829607 original size:3 final size:3
Alignment explanation
Indices: 39829599--39829625 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
39829589 AATGCGACTT
39829599 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
39829626 AATTGGACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:39830321 original size:18 final size:17
Alignment explanation
Indices: 39830300--39830344 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
39830290 CAGTTAAAAT
39830300 TATTTTATAATAAGATAA
1 TATTTTATAATAA-ATAA
*
39830318 TATTTTTACAATAAATAA
1 TA-TTTTATAATAAATAA
39830336 TATTTTATA
1 TATTTTATA
39830345 TAGACTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.25
18 8 0.33
19 10 0.42
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TATTTTATAATAAATAA
Found at i:39830330 original size:19 final size:18
Alignment explanation
Indices: 39830302--39830341 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
39830292 GTTAAAATTA
*
39830302 TTTTATAATAAGATAATAT
1 TTTTACAATAA-ATAATAT
39830321 TTTTACAATAAATAATAT
1 TTTTACAATAAATAATAT
39830339 TTT
1 TTT
39830342 ATATAGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
TTTTACAATAAATAATAT
Found at i:39831237 original size:16 final size:16
Alignment explanation
Indices: 39831208--39831243 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 16
39831198 GTCGAGATGA
39831208 TTAAATTATTAATAAAT
1 TTAAATTATTAAT-AAT
39831225 TTAAATT-TTAATAAT
1 TTAAATTATTAATAAT
39831240 TTAA
1 TTAA
39831244 TTCAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 5 0.26
17 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAATTATTAATAAT
Found at i:39836801 original size:27 final size:27
Alignment explanation
Indices: 39836771--39836824 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
39836761 TATATTGTAT
39836771 ACATTAATTATGGATGCAGAAAAGAGG
1 ACATTAATTATGGATGCAGAAAAGAGG
*
39836798 ACATTAATTATGGATGCATAAAAGAGG
1 ACATTAATTATGGATGCAGAAAAGAGG
39836825 CTTGGTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.44, C:0.07, G:0.24, T:0.24
Consensus pattern (27 bp):
ACATTAATTATGGATGCAGAAAAGAGG
Found at i:39841489 original size:32 final size:31
Alignment explanation
Indices: 39841422--39841492 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 31
39841412 AGTGTGGCCG
* **
39841422 TGTGGGCCACAGGGCAAGGCCAAGTTGGGTG
1 TGTGGGCCACAGGGCAAGGCCAAGTTGAGCA
39841453 TGTGGGCCACATGGGCAAGGCCAA-TATGAGCA
1 TGTGGGCCACA-GGGCAAGGCCAAGT-TGAGCA
39841485 TGTGGGCC
1 TGTGGGCC
39841493 TAGAATTCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
31 12 0.34
32 23 0.66
ACGTcount: A:0.21, C:0.21, G:0.41, T:0.17
Consensus pattern (31 bp):
TGTGGGCCACAGGGCAAGGCCAAGTTGAGCA
Found at i:39841905 original size:14 final size:15
Alignment explanation
Indices: 39841886--39841923 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
39841876 GATGGTTGGA
39841886 GATGGTGTGT-AGAG
1 GATGGTGTGTAAGAG
39841900 GATGGTGTGTAGAGAG
1 GATGGTGTGTA-AGAG
39841916 GATGGTGT
1 GATGGTGT
39841924 TTGATCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 10 0.45
16 12 0.55
ACGTcount: A:0.21, C:0.00, G:0.50, T:0.29
Consensus pattern (15 bp):
GATGGTGTGTAAGAG
Found at i:39846052 original size:2 final size:2
Alignment explanation
Indices: 39846045--39846069 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
39846035 CATTTTTGTA
39846045 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 A
39846070 CATTCTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:39867639 original size:31 final size:30
Alignment explanation
Indices: 39867558--39868194 Score: 336
Period size: 31 Copynumber: 20.6 Consensus size: 30
39867548 TATATATATT
** * *
39867558 CATATACGAATCCAATTTAGCAATGAATATC
1 CATATACGAAT-CAATTCGGCAATGTATAAC
* *
39867589 GATATACCCAA-CAATTCGGCAATGTATAAC
1 CATATA-CGAATCAATTCGGCAATGTATAAC
*
39867619 CAT-TCACGAATCAAGTTCGGCAATGTATAAT
1 CATAT-ACGAATCAA-TTCGGCAATGTATAAC
* * * * * **
39867650 CATACACAAATCAAATTCGACATTCTATATT
1 CATATACGAATC-AATTCGGCAATGTATAAC
* * *
39867681 CATAAAC-AATTCAATGTCGACAATATATAAC
1 CATATACGAA-TCAAT-TCGGCAATGTATAAC
* * * ** *
39867712 CATTTACAAATTAATTTCAACAATGTACAAC
1 CATATACGAATCAA-TTCGGCAATGTATAAC
* *
39867743 CATATACGAATCAATTCAGCAACT-TATATC
1 CATATACGAATCAATTCGGCAA-TGTATAAC
* * *
39867773 CATATACCAAACAATTCGACAATGTATAAC
1 CATATACGAATCAATTCGGCAATGTATAAC
* *
39867803 CATACACGAATCAAGTTCGACAATGTATAATC
1 CATATACGAATCAA-TTCGGCAATGTATAA-C
* * *
39867835 ATACATAAAC-AATTCAATGTCGACAATATATAAC
1 ---CATATACGAA-TCAAT-TCGGCAATGTATAAC
* * * * *
39867869 CATGTATGAATTAATTTCAGCAATGTACAAC
1 CATATACGAATCAA-TTCGGCAATGTATAAC
** *
39867900 CATATACGAATCAATTCAACAACT-TATATC
1 CATATACGAATCAATTCGGCAA-TGTATAAC
* *
39867930 CATATACCAAACAATTCGGCAATGTATAAC
1 CATATACGAATCAATTCGGCAATGTATAAC
* * * * *
39867960 CGTACACGAATCAAGATCGACAATGTATAAT
1 CATATACGAATCAA-TTCGGCAATGTATAAC
* * * **
39867991 CATATACAAATCCAATTTGGCAATCTATATT
1 CATATACGAAT-CAATTCGGCAATGTATAAC
* * * *
39868022 CATAAAC-AATTCAGTATCAGCAATATATAAC
1 CATATACGAA-TCAAT-TCGGCAATGTATAAC
* * * * * *
39868053 CATGTACAAATTAATTTCAGCAAGGTACAAC
1 CATATACGAATCAA-TTCGGCAATGTATAAC
* *
39868084 CATGTACGAATCAATTCGGCAACT-TATATC
1 CATATACGAATCAATTCGGCAA-TGTATAAC
* * *
39868114 CATATACCAAACAATTCGGCAAGGTATAAC
1 CATATACGAATCAATTCGGCAATGTATAAC
* * *
39868144 CATACACGAATCAAGTTCGACAATGTATAAT
1 CATATACGAATCAA-TTCGGCAATGTATAAC
*
39868175 CATATACAAATCCAATTCGG
1 CATATACGAAT-CAATTCGG
39868195 GATCCTATAT
Statistics
Matches: 463, Mismatches: 110, Indels: 66
0.72 0.17 0.10
Matches are distributed among these distances:
29 6 0.01
30 166 0.36
31 243 0.52
32 21 0.05
34 4 0.01
35 23 0.05
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (30 bp):
CATATACGAATCAATTCGGCAATGTATAAC
Found at i:39867881 original size:157 final size:157
Alignment explanation
Indices: 39867634--39867994 Score: 577
Period size: 157 Copynumber: 2.3 Consensus size: 157
39867624 ACGAATCAAG
* * * * *
39867634 TTCGGCAATGTATAATCATACACAAATCAAATTCGAC-AT-TCT-AT-ATTCATAAACAATTCAA
1 TTCGGCAATGTATAACCATACACGAATCAAGTTCGACAATGTATAATCATACATAAACAATTCAA
*
39867695 TGTCGACAATATATAACCATTTACAAATTAATTTCAACAATGTACAACCATATACGAATCAATTC
66 TGTCGACAATATATAACCATGTACAAATTAATTTCAACAATGTACAACCATATACGAATCAATTC
*
39867760 AGCAACTTATATCCATATACCAAACAA
131 AACAACTTATATCCATATACCAAACAA
*
39867787 TTCGACAATGTATAACCATACACGAATCAAGTTCGACAATGTATAATCATACATAAACAATTCAA
1 TTCGGCAATGTATAACCATACACGAATCAAGTTCGACAATGTATAATCATACATAAACAATTCAA
** *
39867852 TGTCGACAATATATAACCATGTATGAATTAATTTCAGCAATGTACAACCATATACGAATCAATTC
66 TGTCGACAATATATAACCATGTACAAATTAATTTCAACAATGTACAACCATATACGAATCAATTC
39867917 AACAACTTATATCCATATACCAAACAA
131 AACAACTTATATCCATATACCAAACAA
* *
39867944 TTCGGCAATGTATAACCGTACACGAATCAAGATCGACAATGTATAATCATA
1 TTCGGCAATGTATAACCATACACGAATCAAGTTCGACAATGTATAATCATA
39867995 TACAAATCCA
Statistics
Matches: 190, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
153 33 0.17
154 2 0.01
155 2 0.01
156 2 0.01
157 151 0.79
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.28
Consensus pattern (157 bp):
TTCGGCAATGTATAACCATACACGAATCAAGTTCGACAATGTATAATCATACATAAACAATTCAA
TGTCGACAATATATAACCATGTACAAATTAATTTCAACAATGTACAACCATATACGAATCAATTC
AACAACTTATATCCATATACCAAACAA
Found at i:39868050 original size:184 final size:184
Alignment explanation
Indices: 39867838--39868263 Score: 685
Period size: 184 Copynumber: 2.3 Consensus size: 184
39867828 TATAATCATA
* **
39867838 CATAAACAATTCAATGTCGACAATATATAACCATGTATGAATTAATTTCAGCAATGTACAACCAT
1 CATAAACAATTCAATATCGACAATATATAACCATGTACAAATTAATTTCAGCAATGTACAACCAT
* *
39867903 ATACGAATCAATTCAACAACTTATATCCATATACCAAACAATTCGGCAATGTATAACCGTACACG
66 ATACGAATCAATTCAACAACTTATATCCATATACCAAACAATTCGGCAAGGTATAACCATACACG
*
39867968 AATCAAGATCGACAATGTATAATCATATACAAATCCAATTTGGCAAT-CTATATT
131 AATCAAGATCGACAATGTATAATCATATACAAATCCAATTCGG-AATCCTATATT
* *
39868022 CATAAACAATTCAGTATC-AGCAATATATAACCATGTACAAATTAATTTCAGCAAGGTACAACCA
1 CATAAACAATTCAATATCGA-CAATATATAACCATGTACAAATTAATTTCAGCAATGTACAACCA
* **
39868086 TGTACGAATCAATTCGGCAACTTATATCCATATACCAAACAATTCGGCAAGGTATAACCATACAC
65 TATACGAATCAATTCAACAACTTATATCCATATACCAAACAATTCGGCAAGGTATAACCATACAC
* *
39868151 GAATCAAGTTCGACAATGTATAATCATATACAAATCCAATTCGGGATCCTATATT
130 GAATCAAGATCGACAATGTATAATCATATACAAATCCAATTCGGAATCCTATATT
* *
39868206 CATAAACAATTCAATATCGACAATATATAACCATGTACAAATTAATTTTACCAATGTA
1 CATAAACAATTCAATATCGACAATATATAACCATGTACAAATTAATTTCAGCAATGTA
39868264 TATAACATTT
Statistics
Matches: 222, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
183 3 0.01
184 218 0.98
185 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (184 bp):
CATAAACAATTCAATATCGACAATATATAACCATGTACAAATTAATTTCAGCAATGTACAACCAT
ATACGAATCAATTCAACAACTTATATCCATATACCAAACAATTCGGCAAGGTATAACCATACACG
AATCAAGATCGACAATGTATAATCATATACAAATCCAATTCGGAATCCTATATT
Found at i:39872672 original size:12 final size:12
Alignment explanation
Indices: 39872655--39872679 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39872645 AAAATCTGAT
39872655 TTCAATGTGTAA
1 TTCAATGTGTAA
39872667 TTCAATGTGTAA
1 TTCAATGTGTAA
39872679 T
1 T
39872680 GTGTATAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TTCAATGTGTAA
Found at i:39873815 original size:33 final size:34
Alignment explanation
Indices: 39873761--39873835 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 34
39873751 ATATTTAAAC
* * *
39873761 AAATTAATTACTGACACTTATTTAAGTTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTAAACTA
*
39873795 AAATTAATT-CTAACACTTATTTGAGCTAAACTA
1 AAATTAATTACTAACACTTATTTAAGCTAAACTA
*
39873828 AATTTAAT
1 AAATTAAT
39873836 AAACTAACTC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 27 0.75
34 9 0.25
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.39
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTAAACTA
Found at i:39877815 original size:12 final size:12
Alignment explanation
Indices: 39877798--39877822 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
39877788 AAAATCTGAT
39877798 TTCAATGTGTAA
1 TTCAATGTGTAA
39877810 TTCAATGTGTAA
1 TTCAATGTGTAA
39877822 T
1 T
39877823 ATGTATAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TTCAATGTGTAA
Found at i:39881868 original size:31 final size:31
Alignment explanation
Indices: 39881824--39882228 Score: 146
Period size: 31 Copynumber: 13.2 Consensus size: 31
39881814 TATACCCAAC
* * * *
39881824 AATTCAGCAATGTATAACCATTCACGAGTCA
1 AATTCGGCAATGTATAACCATACACAAATCA
* *
39881855 AGTTCGGCAATGTATAATCATACACAAATCA
1 AATTCGGCAATGTATAACCATACACAAATCA
* * ** * **
39881886 AATTCGGCATTCTATATTCATAAAC-AATTT
1 AATTCGGCAATGTATAACCATACACAAATCA
* * ** *
39881916 AATGTCGACAATATATAACCATGTA-AGAATTA
1 AAT-TCGGCAATGTATAACCATACACA-AATCA
* ** * *
39881948 ATTTTAGCAATGTACAACCATATAGCAAA-C-
1 AATTCGGCAATGTATAACCATACA-CAAATCA
*
39881978 AATTCGGCAATGTATAACCATACACGAATCA
1 AATTCGGCAATGTATAACCATACACAAATCA
* * * * *
39882009 AGTTCGGTAATGTATAATCATATACAAATCC
1 AATTCGGCAATGTATAACCATACACAAATCA
* ** * *
39882040 AATTCGGC-ATCCTATATTCATAAACAATTC-
1 AATTCGGCAAT-GTATAACCATACACAAATCA
** * **
39882070 AATATCGATAATATATAACCATGTACAAAT-A
1 AAT-TCGGCAATGTATAACCATACACAAATCA
* * * * *
39882101 AATTTCAGCAAGGTACAACCATATACGAATC-
1 AA-TTCGGCAATGTATAACCATACACAAATCA
* * ** * *
39882132 AATTGGGTAACCTATATCCATATACCAAA-C-
1 AATTCGGCAATGTATAACCATACA-CAAATCA
* * *
39882162 AATTCGGCAAGGTATAACCATAAACTAATCA
1 AATTCGGCAATGTATAACCATACACAAATCA
* * * * * *
39882193 AGTTTGGTAATGTATAATCATATACAAATCC
1 AATTCGGCAATGTATAACCATACACAAATCA
39882224 AATTC
1 AATTC
39882229 AGCATCCTAT
Statistics
Matches: 270, Mismatches: 88, Indels: 32
0.69 0.23 0.08
Matches are distributed among these distances:
29 6 0.02
30 66 0.24
31 186 0.69
32 11 0.04
33 1 0.00
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.29
Consensus pattern (31 bp):
AATTCGGCAATGTATAACCATACACAAATCA
Found at i:39882135 original size:154 final size:154
Alignment explanation
Indices: 39881821--39882125 Score: 477
Period size: 154 Copynumber: 2.0 Consensus size: 154
39881811 CGATATACCC
* *
39881821 AACAATTCAGCAATGTATAACCATTCACGAGTCAAGTTCGGCAATGTATAATCATACACAAATCA
1 AACAATTCAGCAATGTATAACCATACACGAATCAAGTTCGGCAATGTATAATCATACACAAATCA
* * * *
39881886 AATTCGGCATTCTATATTCATAAACAATTTAATGTCGACAATATATAACCATGTAAGAATTAATT
66 AATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATATATAACCATGTAAGAATAAATT
* *
39881951 TTAGCAATGTACAACCATATAGCA
131 TCAGCAAGGTACAACCATATAGCA
* * * *
39881975 AACAATTCGGCAATGTATAACCATACACGAATCAAGTTCGGTAATGTATAATCATATACAAATCC
1 AACAATTCAGCAATGTATAACCATACACGAATCAAGTTCGGCAATGTATAATCATACACAAATCA
*
39882040 AATTCGGCATCCTATATTCATAAACAATTCAATATCGATAATATATAACCATGTACA-AATAAAT
66 AATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATATATAACCATGTA-AGAATAAAT
39882104 TTCAGCAAGGTACAACCATATA
130 TTCAGCAAGGTACAACCATATA
39882126 CGAATCAATT
Statistics
Matches: 137, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
154 136 0.99
155 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (154 bp):
AACAATTCAGCAATGTATAACCATACACGAATCAAGTTCGGCAATGTATAATCATACACAAATCA
AATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATATATAACCATGTAAGAATAAATT
TCAGCAAGGTACAACCATATAGCA
Found at i:39882153 original size:154 final size:154
Alignment explanation
Indices: 39881821--39882193 Score: 455
Period size: 154 Copynumber: 2.4 Consensus size: 154
39881811 CGATATACCC
* ** * *
39881821 AACAATTCAGCAATGTATAACCATTCACGAGTCAAGTTCGGCAATGTATAATCATACACAAATCA
1 AACAATTCGGCAACCTATAACCATACACGAATCAAGTTCGGCAATGTATAATCATACACAAATCA
* * * *
39881886 AATTCGGCATTCTATATTCATAAACAATTTAATGTCGACAATATATAACCATGTAAGAATTAATT
66 AATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATATATAACCATGTAAGAATAAATT
* *
39881951 TTAGCAATGTACAACCATATAGCA
131 TCAGCAAGGTACAACCATATAGCA
** * * *
39881975 AACAATTCGGCAATGTATAACCATACACGAATCAAGTTCGGTAATGTATAATCATATACAAATCC
1 AACAATTCGGCAACCTATAACCATACACGAATCAAGTTCGGCAATGTATAATCATACACAAATCA
*
39882040 AATTCGGCATCCTATATTCATAAACAATTCAATATCGATAATATATAACCATGTACA-AATAAAT
66 AATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATATATAACCATGTA-AGAATAAAT
39882104 TTCAGCAAGGTACAACCATATA-CGA
130 TTCAGCAAGGTACAACCATATAGC-A
* * * * * * * * * * *
39882129 ATCAATTGGGTAACCTATATCCATATACCAAACAA-TTCGGCAAGGTATAACCATAAACTAATCA
1 AACAATTCGGCAACCTATAACCATACACGAATCAAGTTCGGCAATGTATAATCATACACAAATCA
39882193 A
66 A
39882194 GTTTGGTAAT
Statistics
Matches: 189, Mismatches: 28, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
153 25 0.13
154 163 0.86
155 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (154 bp):
AACAATTCGGCAACCTATAACCATACACGAATCAAGTTCGGCAATGTATAATCATACACAAATCA
AATTCGGCATCCTATATTCATAAACAATTCAATATCGACAATATATAACCATGTAAGAATAAATT
TCAGCAAGGTACAACCATATAGCA
Found at i:39882302 original size:62 final size:60
Alignment explanation
Indices: 39881963--39882302 Score: 211
Period size: 62 Copynumber: 5.5 Consensus size: 60
39881953 AGCAATGTAC
* * * * * *
39881963 AACCATATAGCAAA-CAATTCGGCAATGTATAACCATACACGAATCAAGTTCGGTAATGTAT
1 AACCATATA-CAAATCAATTCAGCAAGGTATATCCATAAACGAATCAA-TTCGATAATATAT
* * *** *
39882024 AATCATATACAAATCCAATTCGGCATCCTATATTCATAAAC-AATTCAATATCGATAATATAT
1 AACCATATACAAAT-CAATTCAGCAAGGTATATCCATAAACGAA-TCAAT-TCGATAATATAT
* * * * * * * **
39882086 AACCATGTACAAATAAATTTCAGCAAGGTACAACCATATACGAATCAATTGGGTAACCTAT
1 AACCATATACAAATCAA-TTCAGCAAGGTATATCCATAAACGAATCAATTCGATAATATAT
* * * * * * *
39882147 ATCCATATACCAAA-CAATTCGGCAAGGTATAACCATAAACTAATCAAGTTTGGTAATGTAT
1 AACCATATA-CAAATCAATTCAGCAAGGTATATCCATAAACGAATCAA-TTCGATAATATAT
* *** * *
39882208 AATCATATACAAATCCAATTCAGCATCCTATATTCATAAAC-AATTCAATATCGACAATATAT
1 AACCATATACAAAT-CAATTCAGCAAGGTATATCCATAAACGAA-TCAAT-TCGATAATATAT
* * *
39882270 AACCATGTACAAATTAATTTCAGCAATGTATAT
1 AACCATATACAAATCAA-TTCAGCAAGGTATAT
39882303 AACATTTATA
Statistics
Matches: 214, Mismatches: 52, Indels: 25
0.74 0.18 0.09
Matches are distributed among these distances:
60 34 0.16
61 52 0.24
62 126 0.59
63 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.29
Consensus pattern (60 bp):
AACCATATACAAATCAATTCAGCAAGGTATATCCATAAACGAATCAATTCGATAATATAT
Found at i:39884962 original size:29 final size:28
Alignment explanation
Indices: 39884923--39885045 Score: 97
Period size: 29 Copynumber: 4.3 Consensus size: 28
39884913 TAAAAGAAGT
*
39884923 GCCTTTATGGCTATCTCTATTAAAAGGAA
1 GCCTTTGTGGC-ATCTCTATTAAAAGGAA
* * * *
39884952 GCATTTGTGGCGATCTTTGTTAAATGGAA
1 GCCTTTGTGGC-ATCTCTATTAAAAGGAA
* *
39884981 GCCTTT-TAGGCAATTTCTATTAAATGGAA
1 GCCTTTGT-GGC-ATCTCTATTAAAAGGAA
* * *
39885010 GTCTTTGTGGCAT-TCTATGTCAAAGGAT
1 GCCTTTGTGGCATCTCTAT-TAAAAGGAA
39885038 GCCTTTGT
1 GCCTTTGT
39885046 AACGCCCCAA
Statistics
Matches: 75, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
27 5 0.07
28 16 0.21
29 53 0.71
30 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (28 bp):
GCCTTTGTGGCATCTCTATTAAAAGGAA
Found at i:39885558 original size:30 final size:31
Alignment explanation
Indices: 39885524--39885581 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
39885514 ATTTCCCTTC
* *
39885524 TTCTTCCTCTTTTGTTTTTCTTC-TTTTCCT
1 TTCTTCCTCCTTTCTTTTTCTTCATTTTCCT
**
39885554 TTCTTTTTCCTTTCTTTTTCTTCATTTT
1 TTCTTCCTCCTTTCTTTTTCTTCATTTT
39885582 TTGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.72
Consensus pattern (31 bp):
TTCTTCCTCCTTTCTTTTTCTTCATTTTCCT
Found at i:39885561 original size:11 final size:11
Alignment explanation
Indices: 39885547--39885573 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
39885537 GTTTTTCTTC
39885547 TTTTCCTTTCT
1 TTTTCCTTTCT
39885558 TTTTCCTTTCT
1 TTTTCCTTTCT
39885569 TTTTC
1 TTTTC
39885574 TTCATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTCCTTTCT
Found at i:39885582 original size:10 final size:10
Alignment explanation
Indices: 39885538--39885575 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
39885528 TCCTCTTTTG
39885538 TTTTTC-TTC
1 TTTTTCTTTC
*
39885547 TTTTCCTTTC
1 TTTTTCTTTC
39885557 TTTTTCCTTTC
1 TTTTT-CTTTC
39885568 TTTTTCTT
1 TTTTTCTT
39885576 CATTTTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 5 0.20
10 10 0.40
11 10 0.40
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:39888729 original size:34 final size:34
Alignment explanation
Indices: 39888691--39888759 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
39888681 ATACAACGTA
*
39888691 AGAAGGTGGTGGAGAGGTCTCGAGAGGATCCAAC
1 AGAAGGTGGTGGAGAGGTCTAGAGAGGATCCAAC
39888725 AGAAGGTGGTGGAGAGGTCTAGAGAGGATCCAAC
1 AGAAGGTGGTGGAGAGGTCTAGAGAGGATCCAAC
39888759 A
1 A
39888760 CCCCAAGTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.13, G:0.41, T:0.14
Consensus pattern (34 bp):
AGAAGGTGGTGGAGAGGTCTAGAGAGGATCCAAC
Found at i:39890238 original size:23 final size:21
Alignment explanation
Indices: 39890208--39890282 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 21
39890198 GAAAAAAAGC
39890208 CCTAAATTTGTGGAATACAAATG
1 CCTAAATTT-TGGAA-ACAAATG
* * *
39890231 CCTAAATTTTAGCCAAAGAAATC
1 CCTAAATTTT-G-GAAACAAATG
39890254 CCTAAAATTTTGGAAGACAAATG
1 CCT-AAATTTTGGAA-ACAAATG
39890277 CCTAAA
1 CCTAAA
39890283 ACTTAGCCTA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
22 6 0.14
23 27 0.64
24 9 0.21
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (21 bp):
CCTAAATTTTGGAAACAAATG
Found at i:39892582 original size:45 final size:44
Alignment explanation
Indices: 39892481--39892630 Score: 157
Period size: 45 Copynumber: 3.4 Consensus size: 44
39892471 CAGAAATGAG
* * *
39892481 TAAGACCATAGCTGAAAGACGCTATGGCATCA-TG-ATGA-A--AA
1 TAAGACCAT-GCTGAAAGACACTATGACATCATTGTAT-ACAGGAC
* * * *
39892522 TAAGACCATAACTGAAAGACACTATGGCATCATTGTATATAGGGC
1 TAAGACCAT-GCTGAAAGACACTATGACATCATTGTATACAGGAC
39892567 TAAGACCATGTCTGAAAGACACTATGACATCATTGTATACAGGAC
1 TAAGACCATG-CTGAAAGACACTATGACATCATTGTATACAGGAC
39892612 TAAGACCATAGCTGAAAGA
1 TAAGACCAT-GCTGAAAGA
39892631 TGCTACGATA
Statistics
Matches: 94, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
41 30 0.32
42 3 0.03
43 3 0.03
45 57 0.61
46 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (44 bp):
TAAGACCATGCTGAAAGACACTATGACATCATTGTATACAGGAC
Found at i:39894483 original size:21 final size:20
Alignment explanation
Indices: 39894454--39894499 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
39894444 CAAAATGCAA
39894454 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
39894475 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
39894495 T-AACC
1 TCAACC
39894500 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:39908002 original size:50 final size:50
Alignment explanation
Indices: 39907930--39908151 Score: 201
Period size: 50 Copynumber: 4.3 Consensus size: 50
39907920 TATCCCATAT
* ** * * **
39907930 ATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATACCATGTCCCAGAC
1 ATGGTCTTACACGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
* * ** * *
39907980 CTAGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCTCAGAC
1 ATGGTCTTACACGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
* * *
39908030 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAAC
1 ATGGTCTTACACGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
* * * *
39908080 ATGGTCTTACACAGGACCTCTCATAATCTCACTGATGCCAATGCCATTTCCCAGAC
1 ATGGTCTTACACGGGACCTCTCAT-A--T--C-GGTGCCAACGCCATGTCCCAGAC
*
39908136 ATGGTCTTACATGGGA
1 ATGGTCTTACACGGGA
39908152 TCTCATCCTC
Statistics
Matches: 139, Mismatches: 27, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
50 104 0.75
53 1 0.01
55 1 0.01
56 33 0.24
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (50 bp):
ATGGTCTTACACGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
Found at i:39908044 original size:100 final size:103
Alignment explanation
Indices: 39907930--39908151 Score: 243
Period size: 100 Copynumber: 2.2 Consensus size: 103
39907920 TATCCCATAT
** * * * * ***
39907930 ATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATACCATGTCCCAGACCTAGTCTTACGGGGG
1 ATGGTCTTACATGGGACCTCTCATATAGGTGCCAACACCATGTCCCAAACATAGTCTTACACAGG
* *
39907995 ACCTCTC-ATCT-C-GGTGCCAACGCCATGTCTCAGAC
66 ACCTCTCAATCTACTGATGCCAACGCCATGTCCCAGAC
* * * *
39908030 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCTTACACAGG
1 ATGGTCTTACATGGGACCTCTCATATAGGTGCCAACACCATGTCCCAAACATAGTCTTACACAGG
* *
39908095 ACCTCTCATAATCTCACTGATGCCAATGCCATTTCCCAGAC
66 ACCTCTC--AATCT-ACTGATGCCAACGCCATGTCCCAGAC
39908136 ATGGTCTTACATGGGA
1 ATGGTCTTACATGGGA
39908152 TCTCATCCTC
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
100 59 0.60
103 4 0.04
105 1 0.01
106 35 0.35
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (103 bp):
ATGGTCTTACATGGGACCTCTCATATAGGTGCCAACACCATGTCCCAAACATAGTCTTACACAGG
ACCTCTCAATCTACTGATGCCAACGCCATGTCCCAGAC
Found at i:39910635 original size:22 final size:22
Alignment explanation
Indices: 39910593--39910636 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
39910583 CCTAGAATTG
*
39910593 ATTAAACTGTAGCTCTGATACC
1 ATTAAACTGTAACTCTGATACC
*
39910615 ATTAAA-TGTAACATCTTATACC
1 ATTAAACTGTAAC-TCTGATACC
39910637 CAGACTGACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.34
Consensus pattern (22 bp):
ATTAAACTGTAACTCTGATACC
Found at i:39912210 original size:29 final size:29
Alignment explanation
Indices: 39912130--39912213 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 29
39912120 TGGTATCCGG
** *
39912130 CACTGGTACATTGTACTTGATAAATATAA
1 CACTGGTACAAAGTACTTGATAAATAAAA
** * * * * *
39912159 CACTGACACAAAATCCCTAATAACTAAAA
1 CACTGGTACAAAGTACTTGATAAATAAAA
39912188 CACTGGTACAAAGTACTTGATAAATA
1 CACTGGTACAAAGTACTTGATAAATA
39912214 TAATCACCGC
Statistics
Matches: 38, Mismatches: 17, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (29 bp):
CACTGGTACAAAGTACTTGATAAATAAAA
Found at i:39931721 original size:25 final size:25
Alignment explanation
Indices: 39931637--39931755 Score: 107
Period size: 25 Copynumber: 4.6 Consensus size: 25
39931627 CCTTAACCGG
* *
39931637 TAGTCCTTGCGAACTCCT-CAATAGA
1 TAGTCCTTGCG-ACTTCTATAATAGA
* * *
39931662 CAGTCCTTACGGACTTCCA-ACATAGGA
1 TAGTCCTTGC-GACTTCTATA-ATA-GA
*
39931689 TAGCCCTTGCGACTTCTATAATAGA
1 TAGTCCTTGCGACTTCTATAATAGA
*
39931714 TAGTCCTTGCGACTTCTGTAATAGA
1 TAGTCCTTGCGACTTCTATAATAGA
*
39931739 TAGTCCTTACAGACTTC
1 TAGTCCTTGC-GACTTC
39931756 CCATAGATAT
Statistics
Matches: 77, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
25 47 0.61
26 20 0.26
27 10 0.13
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (25 bp):
TAGTCCTTGCGACTTCTATAATAGA
Found at i:39936463 original size:22 final size:21
Alignment explanation
Indices: 39936437--39936498 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
39936427 ATTTTTTTAA
**
39936437 AATTTAAAAAATTTCAAAAAAT
1 AATTTAAAAAA-TAAAAAAAAT
*
39936459 AATTTTAAAAATAAAAAAAAT
1 AATTTAAAAAATAAAAAAAAT
* * *
39936480 TATTTAAAAAGTACAAAAA
1 AATTTAAAAAATAAAAAAA
39936499 TGATAAAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
21 23 0.70
22 10 0.30
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (21 bp):
AATTTAAAAAATAAAAAAAAT
Found at i:39936477 original size:20 final size:22
Alignment explanation
Indices: 39936452--39936499 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
39936442 AAAAAATTTC
39936452 AAAAAATAAT-TTTAAAAA-TA
1 AAAAAATAATATTTAAAAAGTA
*
39936472 AAAAAA-ATTATTTAAAAAGTA
1 AAAAAATAATATTTAAAAAGTA
*
39936493 CAAAAAT
1 AAAAAAT
39936500 GATAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.09
20 14 0.61
21 7 0.30
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (22 bp):
AAAAAATAATATTTAAAAAGTA
Found at i:39942161 original size:11 final size:11
Alignment explanation
Indices: 39942145--39942171 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
39942135 AATCTTGGTT
39942145 TATAAAATTTA
1 TATAAAATTTA
39942156 TATAAAATTTA
1 TATAAAATTTA
39942167 TATAA
1 TATAA
39942172 TTTTAACAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATAAAATTTA
Found at i:39944928 original size:34 final size:32
Alignment explanation
Indices: 39944873--39944943 Score: 108
Period size: 34 Copynumber: 2.2 Consensus size: 32
39944863 CAATTCAATA
*
39944873 ACAGT-TCAGTTCAGTTGGGCCTTAGCCTATT
1 ACAGTATCAGTTCAGTTGGGCCTTAGCCCATT
39944904 ACAGTATCAGTATCAGTGTGGGCCTTAGCCCATT
1 ACAGTATCAGT-TCAGT-TGGGCCTTAGCCCATT
39944938 ACAGTA
1 ACAGTA
39944944 ATAGTAACAG
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
31 5 0.14
32 5 0.14
33 5 0.14
34 21 0.58
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (32 bp):
ACAGTATCAGTTCAGTTGGGCCTTAGCCCATT
Found at i:39949869 original size:19 final size:19
Alignment explanation
Indices: 39949845--39949886 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
39949835 AAAAAAATTG
39949845 GAATTTT-TACAAATATTTT
1 GAATTTTATA-AAATATTTT
*
39949864 GAATTTTATAAATTATTTT
1 GAATTTTATAAAATATTTT
39949883 GAAT
1 GAAT
39949887 ATTTGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.52
Consensus pattern (19 bp):
GAATTTTATAAAATATTTT
Found at i:39949898 original size:20 final size:19
Alignment explanation
Indices: 39949849--39949902 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
39949839 AAATTGGAAT
*
39949849 TTTTACAAA-TATTTTGAA
1 TTTTATAAATTATTTTGAA
39949867 TTTTATAAATTATTTTGAA
1 TTTTATAAATTATTTTGAA
39949886 TATTTGA-AAATTATTTT
1 T-TTT-ATAAATTATTTT
39949903 TAAATTATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 8 0.25
19 10 0.31
20 13 0.41
21 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (19 bp):
TTTTATAAATTATTTTGAA
Found at i:39950085 original size:24 final size:23
Alignment explanation
Indices: 39950030--39950083 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
39950020 TCGAACTCAA
* *
39950030 AACTCGAATTACTTATTTGAATT
1 AACTCAAATAACTTATTTGAATT
*
39950053 TACTCAAATAACTTGATTTG-ATT
1 AACTCAAATAACTT-ATTTGAATT
39950076 AACTCAAA
1 AACTCAAA
39950084 ATTAATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (23 bp):
AACTCAAATAACTTATTTGAATT
Found at i:39956411 original size:57 final size:57
Alignment explanation
Indices: 39956343--39956456 Score: 156
Period size: 57 Copynumber: 2.0 Consensus size: 57
39956333 GGCTTATGAC
* * **
39956343 AGAGTAAGTTGGGATTTCATTGGTGTGTGTCTCTTAGCTATCGGGATTCCCGAGTTA
1 AGAGTAAGTTGGGATTTCATTGATGTGTCTCTCAAAGCTATCGGGATTCCCGAGTTA
* * * *
39956400 AGAGTAAGTTGGGATTTTATTGATGTGTCTTTCAAAGCTGTCGGGATTCCTGAGTTA
1 AGAGTAAGTTGGGATTTCATTGATGTGTCTCTCAAAGCTATCGGGATTCCCGAGTTA
39956457 CTCATAACTA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.21, C:0.12, G:0.29, T:0.38
Consensus pattern (57 bp):
AGAGTAAGTTGGGATTTCATTGATGTGTCTCTCAAAGCTATCGGGATTCCCGAGTTA
Found at i:39961162 original size:11 final size:11
Alignment explanation
Indices: 39961142--39961259 Score: 103
Period size: 11 Copynumber: 11.4 Consensus size: 11
39961132 TAAAAATTAA
39961142 AAAAAGTATTTT
1 AAAAA-TATTTT
39961154 AAAAATATTTT
1 AAAAATATTTT
39961165 AAAAATATTTT
1 AAAAATATTTT
39961176 --AAA-A-TTT
1 AAAAATATTTT
*
39961183 AAAAAAATTTT
1 AAAAATATTTT
39961194 AAAAAGTATTTT
1 AAAAA-TATTTT
*
39961206 TAAAATATTTT
1 AAAAATATTTT
*
39961217 AAAACTA----
1 AAAAATATTTT
*
39961224 AAAAATA--AT
1 AAAAATATTTT
39961233 AAAAAGTATTTT
1 AAAAA-TATTTT
39961245 AAAAATATTTT
1 AAAAATATTTT
39961256 AAAA
1 AAAA
39961260 TTAAAAAAAT
Statistics
Matches: 90, Mismatches: 6, Indels: 21
0.77 0.05 0.18
Matches are distributed among these distances:
7 9 0.10
8 1 0.01
9 11 0.12
10 3 0.03
11 46 0.51
12 20 0.22
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.39
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:39961192 original size:29 final size:31
Alignment explanation
Indices: 39961151--39961211 Score: 99
Period size: 29 Copynumber: 2.0 Consensus size: 31
39961141 AAAAAAGTAT
*
39961151 TTTAAAAATATTTTAAAAA-TA-TTTTAAAA
1 TTTAAAAAAATTTTAAAAAGTATTTTTAAAA
39961180 TTTAAAAAAATTTTAAAAAGTATTTTTAAAA
1 TTTAAAAAAATTTTAAAAAGTATTTTTAAAA
39961211 T
1 T
39961212 ATTTTAAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 18 0.62
30 2 0.07
31 9 0.31
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (31 bp):
TTTAAAAAAATTTTAAAAAGTATTTTTAAAA
Found at i:39961238 original size:39 final size:39
Alignment explanation
Indices: 39961127--39961275 Score: 185
Period size: 39 Copynumber: 3.7 Consensus size: 39
39961117 ACCAAAAATT
39961127 TATTTTAAAAATTAAAAAAAGTATTTTAAAAA-TATTTTAAAAA
1 TATTTT-AAAATT-AAAAAA-TA--TTAAAAAGTATTTTAAAAA
* *
39961170 TATTTTAAAATTTAAAAAAATTTTAAAAAGTATTTTTAAAA
1 TATTTTAAAA-TT-AAAAAATATTAAAAAGTATTTTAAAAA
* *
39961211 TATTTTAAAACTAAAAAATAATAAAAAGTATTTTAAAAA
1 TATTTTAAAATTAAAAAATATTAAAAAGTATTTTAAAAA
39961250 TATTTTAAAATTAAAAAA-ATTAAAAA
1 TATTTTAAAATTAAAAAATATTAAAAA
39961276 ATAAATATAT
Statistics
Matches: 96, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
38 7 0.07
39 41 0.43
40 8 0.08
41 20 0.21
42 5 0.05
43 15 0.16
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (39 bp):
TATTTTAAAATTAAAAAATATTAAAAAGTATTTTAAAAA
Found at i:39969500 original size:17 final size:17
Alignment explanation
Indices: 39969478--39969520 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
39969468 AATTTATAGC
39969478 TAAATATATATTA-ATAA
1 TAAATATA-ATTATATAA
39969495 TAAATATAATTATATAA
1 TAAATATAATTATATAA
*
39969512 GAAATATAA
1 TAAATATAA
39969521 ATTTAATTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
TAAATATAATTATATAA
Found at i:39974942 original size:120 final size:120
Alignment explanation
Indices: 39974729--39974968 Score: 403
Period size: 120 Copynumber: 2.0 Consensus size: 120
39974719 AAATTTGAAA
* *
39974729 TTAAGTTCAACAAGGAGAATTTTTAAAGGAATTATAAGGACTTATTGATAGATATCATTAAAGTA
1 TTAAGTTCAACAAAGAGAATTTTTAAAGGAATTATAAGGACTTATTGATAGATATCAATAAAGTA
39974794 AATTTTGGATGCGACATTGCAAAAAAGGGACTAAATTGTAAAATAGGTAA-TGTAT
66 AATTTTGGATGCGACATTGCAAAAAAGGGACTAAATTGTAAAATAGG-AACTGTAT
39974849 TTAAGTTCAACAAAGAGAATTTTTAAAGGAATTATAAGGACTTATTGAT-GTATATCAATAAAGT
1 TTAAGTTCAACAAAGAGAATTTTTAAAGGAATTATAAGGACTTATTGATAG-ATATCAATAAAGT
* * *
39974913 CAATTTTGGATGTGGCATTGCAAAAAAGGGACTAAATTGTAAAATAGGAACTGTAT
65 AAATTTTGGATGCGACATTGCAAAAAAGGGACTAAATTGTAAAATAGGAACTGTAT
39974969 GAGGACTATA
Statistics
Matches: 113, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
119 3 0.03
120 110 0.97
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (120 bp):
TTAAGTTCAACAAAGAGAATTTTTAAAGGAATTATAAGGACTTATTGATAGATATCAATAAAGTA
AATTTTGGATGCGACATTGCAAAAAAGGGACTAAATTGTAAAATAGGAACTGTAT
Found at i:39979757 original size:50 final size:50
Alignment explanation
Indices: 39979516--39979757 Score: 231
Period size: 50 Copynumber: 4.9 Consensus size: 50
39979506 GATAATAACA
* * * * *
39979516 TGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGA--TGTTTTCT-GTAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCG--G
* * * * ** * *
39979565 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* * *
39979615 TGCCCATGCCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTTATCTCGG
* ** *
39979665 TGCGAACGCCATGTCCCAGACATGGTCTTGTATGGAACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* *
39979715 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGTCCTCTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
39979758 TACCCAAATG
Statistics
Matches: 158, Mismatches: 30, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
49 33 0.21
50 119 0.75
51 5 0.03
52 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
Found at i:39980128 original size:30 final size:30
Alignment explanation
Indices: 39980094--39980151 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
39980084 CCTTGACTCG
39980094 AACTTTGGAAAAATTACAATTTTGCCCCTA
1 AACTTTGGAAAAATTACAATTTTGCCCCTA
* * * *
39980124 AACTTTTGCATAATTACACTTTTGCCCC
1 AACTTTGGAAAAATTACAATTTTGCCCC
39980152 AAAGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (30 bp):
AACTTTGGAAAAATTACAATTTTGCCCCTA
Found at i:39985105 original size:27 final size:26
Alignment explanation
Indices: 39985075--39985262 Score: 198
Period size: 27 Copynumber: 7.0 Consensus size: 26
39985065 CTCCATTGAC
**
39985075 CGAAATACCCTTATAGGGTAAAATGA
1 CGAAATACCCCCATAGGGTAAAATGA
*
39985101 TCGAAATACCCTCATAGGGTAAAATGA
1 -CGAAATACCCCCATAGGGTAAAATGA
**
39985128 TCGAAATACCCTTATA-GGTAAAATGA
1 -CGAAATACCCCCATAGGGTAAAATGA
* *
39985154 CTGAAATACCCCTATAGGGTAGAATGA
1 C-GAAATACCCCCATAGGGTAAAATGA
* *
39985181 CCGAAATACCCCAATAAGGTAAAATGA
1 -CGAAATACCCCCATAGGGTAAAATGA
*
39985208 CTAAAATACCCCCATAGGGTAAAATGAA
1 C-GAAATACCCCCATAGGGTAAAATG-A
* * *
39985236 CAAAATACCACCATTGGGTAAAATGA
1 CGAAATACCCCCATAGGGTAAAATGA
39985262 C
1 C
39985263 TGTTATACCC
Statistics
Matches: 144, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.01
26 26 0.18
27 114 0.79
28 3 0.02
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (26 bp):
CGAAATACCCCCATAGGGTAAAATGA
Found at i:39985138 original size:54 final size:53
Alignment explanation
Indices: 39985075--39985264 Score: 224
Period size: 54 Copynumber: 3.5 Consensus size: 53
39985065 CTCCATTGAC
*
39985075 CGAAATACCCTTATAGGGTAAAATGA-TCGAAATACCCTCATAGGGTAAAATGAT
1 CGAAATACCCTTATAGGGTAAAATGACT-GAAATACCC-CATAGGGTAAAATGAA
* *
39985129 CGAAATACCCTTATA-GGTAAAATGACTGAAATACCCCTATAGGGTAGAATGAC
1 CGAAATACCCTTATAGGGTAAAATGACTGAAATACCCC-ATAGGGTAAAATGAA
** * *
39985182 CGAAATACCCCAATAAGGTAAAATGACTAAAATACCCCCATAGGGTAAAATGAA
1 CGAAATACCCTTATAGGGTAAAATGACTGAAATA-CCCCATAGGGTAAAATGAA
* * *
39985236 CAAAATACCAC-CATTGGGTAAAATGACTG
1 CGAAATACC-CTTATAGGGTAAAATGACTG
39985265 TTATACCCTT
Statistics
Matches: 119, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
52 1 0.01
53 45 0.38
54 68 0.57
55 5 0.04
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (53 bp):
CGAAATACCCTTATAGGGTAAAATGACTGAAATACCCCATAGGGTAAAATGAA
Found at i:39985215 original size:80 final size:81
Alignment explanation
Indices: 39985071--39985262 Score: 230
Period size: 80 Copynumber: 2.4 Consensus size: 81
39985061 TGCTCTCCAT
* * * *
39985071 TGACCGAAATACCCTTATAGGGTAAAATGATCGAAATACCCTCATAGGGTAAAATGATCGAAATA
1 TGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCTCATAAGGTAAAATGATCAAAATA
**
39985136 CCCTTATA-GGTAAAA
66 CCCCCATAGGGTAAAA
* *
39985151 TGACTGAAATACCCCTATAGGGTAGAATGACCGAAATACCC-CAATAAGGTAAAATGA-CTAAAA
1 TGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCTC-ATAAGGTAAAATGATC-AAAA
39985214 TACCCCCATAGGGTAAAA
64 TACCCCCATAGGGTAAAA
* * *
39985232 TGAACAAAATACCACC-ATTGGGTAAAATGAC
1 TGACCGAAATACC-CCTATAGGGTAAAATGAC
39985263 TGTTATACCC
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
79 2 0.02
80 61 0.64
81 30 0.32
82 2 0.02
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (81 bp):
TGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCTCATAAGGTAAAATGATCAAAATA
CCCCCATAGGGTAAAA
Found at i:40004672 original size:20 final size:20
Alignment explanation
Indices: 40004630--40004672 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
40004620 TTTTCTTTTC
*
40004630 TTAATTTTATGTTTTATTTA
1 TTAATTTTATGTTTTATTAA
40004650 TTAATTTTATGTTATT-TTAA
1 TTAATTTTATGTT-TTATTAA
40004670 TTA
1 TTA
40004673 CAAACTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TTAATTTTATGTTTTATTAA
Found at i:40015549 original size:18 final size:20
Alignment explanation
Indices: 40015526--40015565 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
40015516 ACTTGTTATG
40015526 TTAATATGT-TT-AATTTAA
1 TTAATATGTCTTAAATTTAA
40015544 TTAATATGTCTTAAATTTAA
1 TTAATATGTCTTAAATTTAA
40015564 TT
1 TT
40015566 CGTGTTAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
19 2 0.10
20 9 0.45
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (20 bp):
TTAATATGTCTTAAATTTAA
Found at i:40018959 original size:27 final size:28
Alignment explanation
Indices: 40018871--40018968 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
40018861 CATGAGATTG
* * * *
40018871 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
40018900 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
40018928 ACACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
40018955 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
40018969 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.37
28 21 0.34
29 18 0.29
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:40018982 original size:29 final size:27
Alignment explanation
Indices: 40018901--40018982 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
40018891 AATTGTACAG
* *
40018901 CACTAAGTGTGCGAGTTTGATTATATAA
1 CACTAAGTGTGCGA-CTTAATTATATAA
* * *
40018929 CACTAAGTGTGCGAGTTGATTATATAG
1 CACTAAGTGTGCGACTTAATTATATAA
*
40018956 CACTGAGTGTGCGGACTTAATATATAT
1 CACTAAGTGTGC-GACTTAAT-TATAT
40018983 TTTTGAATCA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
27 22 0.47
28 20 0.43
29 5 0.11
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.34
Consensus pattern (27 bp):
CACTAAGTGTGCGACTTAATTATATAA
Found at i:40026852 original size:27 final size:28
Alignment explanation
Indices: 40026768--40026865 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
40026758 CATGAGATTG
* * * *
40026768 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
40026797 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
40026825 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
40026852 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
40026866 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:40026876 original size:27 final size:27
Alignment explanation
Indices: 40026796--40026878 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
40026786 TAAATTGTAC
* *
40026796 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
40026824 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
40026851 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
40026878 A
1 A
40026879 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:40026879 original size:29 final size:27
Alignment explanation
Indices: 40026768--40026879 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
40026758 CATGAGATTG
** * *
40026768 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
40026797 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
40026825 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
40026852 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
40026880 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:40038495 original size:20 final size:19
Alignment explanation
Indices: 40038470--40038507 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
40038460 AAGAGAAAGG
40038470 GAAAATATGAATAAATATAT
1 GAAAATATGAAT-AATATAT
*
40038490 GAAAATGTGAATAATATA
1 GAAAATATGAATAATATA
40038508 CTTTATGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (19 bp):
GAAAATATGAATAATATAT
Found at i:40063315 original size:8 final size:8
Alignment explanation
Indices: 40063302--40063332 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
40063292 GAATGAGTGA
40063302 GGGATGAT
1 GGGATGAT
40063310 GGGATGAT
1 GGGATGAT
40063318 GGGATGA-
1 GGGATGAT
40063325 GGGATGAT
1 GGGATGAT
40063333 TGAAAAAGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.26, C:0.00, G:0.52, T:0.23
Consensus pattern (8 bp):
GGGATGAT
Found at i:40063315 original size:23 final size:23
Alignment explanation
Indices: 40063289--40063332 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
40063279 AGAAGAGAAT
40063289 GATGAATGAG-TGAGGGATGATGG
1 GATG-ATGAGATGAGGGATGATGG
*
40063312 GATGATGGGATGAGGGATGAT
1 GATGATGAGATGAGGGATGAT
40063333 TGAAAAAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.00, G:0.48, T:0.23
Consensus pattern (23 bp):
GATGATGAGATGAGGGATGATGG
Found at i:40063330 original size:15 final size:16
Alignment explanation
Indices: 40063302--40063332 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
40063292 GAATGAGTGA
40063302 GGGATGATGGGATGAT
1 GGGATGATGGGATGAT
40063318 GGGATGA-GGGATGAT
1 GGGATGATGGGATGAT
40063333 TGAAAAAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.26, C:0.00, G:0.52, T:0.23
Consensus pattern (16 bp):
GGGATGATGGGATGAT
Done.