Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, whole genome shotgun sequence
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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 23 of 117
Found at i:2879373 original size:21 final size:22
Alignment explanation
Indices: 2879323--2879376 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
2879313 TTATATAATA
2879323 AATT-TTTTTAATTTATTAATTT
1 AATTATTTTTAA-TTATTAATTT
*
2879345 AA--AATTTTAATT-TTAATTT
1 AATTATTTTTAATTATTAATTT
2879364 AATTATTTTTAAT
1 AATTATTTTTAAT
2879377 AAAAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
19 9 0.33
20 2 0.07
21 14 0.52
22 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
AATTATTTTTAATTATTAATTT
Found at i:2879716 original size:21 final size:20
Alignment explanation
Indices: 2879688--2879727 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
2879678 TATCACCCTC
**
2879688 CATTATTTTGCTCCCACCAT
1 CATTATTTCACTCCCACCAT
2879708 CATTCATTTCACTCCCACCA
1 CATT-ATTTCACTCCCACCA
2879728 ATTTTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.23, C:0.40, G:0.03, T:0.35
Consensus pattern (20 bp):
CATTATTTCACTCCCACCAT
Found at i:2880120 original size:17 final size:17
Alignment explanation
Indices: 2880100--2880138 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
2880090 AAATTTAATA
2880100 AAATTAAA-TTAAATTTT
1 AAATTAAATTTAAA-TTT
2880117 AAATTAAATTTAAATTT
1 AAATTAAATTTAAATTT
2880134 AAATT
1 AAATT
2880139 TAATAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATTAAATTTAAATTT
Found at i:2880140 original size:12 final size:11
Alignment explanation
Indices: 2880085--2880141 Score: 64
Period size: 12 Copynumber: 5.2 Consensus size: 11
2880075 CAATAACAAA
*
2880085 AAATAAAATTT
1 AAATTAAATTT
*
2880096 -AA-TAAAATT
1 AAATTAAATTT
2880105 AAATTAAATTTT
1 AAATTAAA-TTT
2880117 AAATTAAATTT
1 AAATTAAATTT
2880128 AAATTTAAATTT
1 AAA-TTAAATTT
2880140 AA
1 AA
2880142 TAATTTATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
9 5 0.13
10 4 0.10
11 10 0.26
12 20 0.51
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAATTAAATTT
Found at i:2880869 original size:13 final size:13
Alignment explanation
Indices: 2880847--2880909 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
2880837 TAAAAATACA
*
2880847 AAATATAAAAAAT
1 AAATACAAAAAAT
2880860 AAATACAAAAAA-
1 AAATACAAAAAAT
*
2880872 ATAATACAAAATAT
1 A-AATACAAAAAAT
*
2880886 AAA-A-AAAAAACA
1 AAATACAAAAAA-T
*
2880898 AAAAACAAAAAA
1 AAATACAAAAAA
2880910 AATTGAGGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
11 5 0.12
12 5 0.12
13 24 0.59
14 7 0.17
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.13
Consensus pattern (13 bp):
AAATACAAAAAAT
Found at i:2880883 original size:20 final size:18
Alignment explanation
Indices: 2880839--2880911 Score: 76
Period size: 20 Copynumber: 3.8 Consensus size: 18
2880829 ATTAAATATA
2880839 AAAATACAAAATATAAAAA-
1 AAAATACAAAA-A-AAAAAC
2880858 ATAAATACAAAAAAATAATAC
1 A-AAATACAAAAAAA-AA-AC
*
2880879 AAAATATAAAAAAAAAAC
1 AAAATACAAAAAAAAAAC
*
2880897 AAAAAACAAAAAAAA
1 AAAATACAAAAAAAA
2880912 TTGAGGATAG
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
18 17 0.36
19 6 0.13
20 23 0.49
21 1 0.02
ACGTcount: A:0.81, C:0.07, G:0.00, T:0.12
Consensus pattern (18 bp):
AAAATACAAAAAAAAAAC
Found at i:2880883 original size:33 final size:31
Alignment explanation
Indices: 2880841--2880902 Score: 106
Period size: 33 Copynumber: 1.9 Consensus size: 31
2880831 TAAATATAAA
2880841 AATACAAAATATAAAAAATAAATACAAAAAAAT
1 AATACAAAATATAAAAAA-AAA-ACAAAAAAAT
2880874 AATACAAAATATAAAAAAAAAACAAAAAA
1 AATACAAAATATAAAAAAAAAACAAAAAA
2880903 CAAAAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 8 0.28
32 3 0.10
33 18 0.62
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (31 bp):
AATACAAAATATAAAAAAAAAACAAAAAAAT
Found at i:2880892 original size:22 final size:22
Alignment explanation
Indices: 2880807--2880894 Score: 63
Period size: 24 Copynumber: 3.8 Consensus size: 22
2880797 TTTTATCCTA
*
2880807 AAAAAATA-AAAAAAATAATATT
1 AAAAAATATAAAAAAA-AATAAT
**
2880829 ATTAAATATAAAAATACAAA-ATAT
1 AAAAAATATAAAAA-A-AAATA-AT
*
2880853 AAAAAATAAATACAAAAAAATAAT
1 AAAAAAT--ATAAAAAAAAATAAT
*
2880877 ACAAAATATAAAAAAAAA
1 AAAAAATATAAAAAAAAA
2880895 ACAAAAAACA
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
22 16 0.31
23 6 0.12
24 20 0.39
25 3 0.06
26 6 0.12
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.20
Consensus pattern (22 bp):
AAAAAATATAAAAAAAAATAAT
Found at i:2881171 original size:14 final size:15
Alignment explanation
Indices: 2881152--2881182 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2881142 ATATTCTGCC
2881152 AAAAAAC-AACAAAA
1 AAAAAACAAACAAAA
2881166 AAAAAACAAACAAAA
1 AAAAAACAAACAAAA
2881181 AA
1 AA
2881183 TCACATAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAACAAACAAAA
Found at i:2881278 original size:22 final size:21
Alignment explanation
Indices: 2881232--2881284 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
2881222 CTTCTTGTAA
**
2881232 AAAAAAAAAAGAGGTCAATTT
1 AAAAAAAAAAGAGGTCAATAC
2881253 AAAAAAAAAAGA-GTCAGAATAC
1 AAAAAAAAAAGAGGTC--AATAC
2881275 AAAAAAAAAA
1 AAAAAAAAAA
2881285 TCTCACTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 3 0.11
21 12 0.43
22 13 0.46
ACGTcount: A:0.72, C:0.06, G:0.11, T:0.11
Consensus pattern (21 bp):
AAAAAAAAAAGAGGTCAATAC
Found at i:2882384 original size:21 final size:23
Alignment explanation
Indices: 2882337--2882387 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
2882327 CCAAAATTCG
* * *
2882337 AAATTCTAAACCTTTAAACTCTT
1 AAATTCTAAACCTCTAAAATCTA
2882360 AAATTC-AAACC-CTAAAATCTA
1 AAATTCTAAACCTCTAAAATCTA
2882381 AAATTCT
1 AAATTCT
2882388 TAAAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 13 0.54
22 5 0.21
23 6 0.25
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATTCTAAACCTCTAAAATCTA
Found at i:2884200 original size:21 final size:21
Alignment explanation
Indices: 2884159--2884198 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2884149 AAAAAAAAAA
2884159 AAAAGAAAAAAAAAGGTTTTC
1 AAAAGAAAAAAAAAGGTTTTC
*
2884180 AAAA-AAAAAAAAAGATTTT
1 AAAAGAAAAAAAAAGGTTTT
2884199 TCTTAAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.68, C:0.03, G:0.10, T:0.20
Consensus pattern (21 bp):
AAAAGAAAAAAAAAGGTTTTC
Found at i:2885610 original size:20 final size:20
Alignment explanation
Indices: 2885585--2885643 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
2885575 CAGGTCCGGG
2885585 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
2885605 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
* *
2885625 CCCAGATCATTTGGGCCTG
1 CCCGGATCAATTGGGCCTG
2885644 GCCCAAATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.22
Consensus pattern (20 bp):
CCCGGATCAATTGGGCCTGA
Found at i:2885692 original size:7 final size:7
Alignment explanation
Indices: 2885680--2885715 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
2885670 TTTTTACCCG
2885680 TATTTTT
1 TATTTTT
2885687 TATTTTT
1 TATTTTT
2885694 TA-TTTT
1 TATTTTT
2885700 TATTTTAT
1 TATTTT-T
2885708 TATTTTT
1 TATTTTT
2885715 T
1 T
2885716 TTCTCTCTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.22
7 14 0.52
8 7 0.26
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TATTTTT
Found at i:2885697 original size:14 final size:15
Alignment explanation
Indices: 2885680--2885715 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
2885670 TTTTTACCCG
2885680 TATTTTTTATTTT-T
1 TATTTTTTATTTTAT
2885694 TA-TTTTTATTTTAT
1 TATTTTTTATTTTAT
2885708 TATTTTTT
1 TATTTTTT
2885716 TTCTCTCTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 10 0.50
14 5 0.25
15 5 0.25
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (15 bp):
TATTTTTTATTTTAT
Found at i:2886357 original size:31 final size:31
Alignment explanation
Indices: 2886285--2886357 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
2886275 AATTTCCAGA
* *
2886285 TTCCGGCGAAAATTCCGGCGACTTTTGAATT
1 TTCCGGCGACAATTCCGGCGACTTTTGAAGT
*
2886316 TTCCGACGACAATTCCGGCGAAC-TTTGAAGT
1 TTCCGGCGACAATTCCGGCG-ACTTTTGAAGT
2886347 TTCCGGCGACA
1 TTCCGGCGACA
2886358 GACCCAGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 35 0.95
32 2 0.05
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (31 bp):
TTCCGGCGACAATTCCGGCGACTTTTGAAGT
Found at i:2886446 original size:19 final size:19
Alignment explanation
Indices: 2886422--2886463 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2886412 GGCCAATTTT
*
2886422 CGGCGAAATTCCCAGATTC
1 CGGCGAAATTCCCAGAATC
* *
2886441 CGGCGAATTTTCCAGAATC
1 CGGCGAAATTCCCAGAATC
2886460 CGGC
1 CGGC
2886464 ACCGGCGTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (19 bp):
CGGCGAAATTCCCAGAATC
Found at i:2886718 original size:14 final size:15
Alignment explanation
Indices: 2886699--2886735 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
2886689 CCGAGCCGAG
2886699 CCGAGCCGTTCTTC-
1 CCGAGCCGTTCTTCT
2886713 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
2886726 CCGAGCCGTT
1 CCGAGCCGTT
2886736 TTTTCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:2887438 original size:321 final size:323
Alignment explanation
Indices: 2886822--2887447 Score: 1186
Period size: 321 Copynumber: 1.9 Consensus size: 323
2886812 ATTTTGATCT
*
2886822 TGATTTTTTTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGT
1 TGATTTTATTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGT
2886887 TTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAAT
66 TTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAAT
2886952 TGAGAATAATTTTCGATAATTAATTACTTGGCTGATTTTGATTTTTTTTTTCTTTAATTAATCCG
131 TGAGAATAATTTTCGATAATTAATTACTTGGCTGATTTTGATTTTTTTTTTCTTTAATTAATCCG
2887017 ACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTC
196 ACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTC
2887082 TCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATAATTAATTACTTGGC
261 TCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATAATTAATTACTTGGC
* *
2887145 TGATTTTGATTTT-TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAG
1 TGATTTT-ATTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAG
2887208 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
65 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
*
2887273 TTGAGAATAATTTTTGATAATTAATTACTTGGCTGATTTTGA-TTTTTTTTTCTTTAATTAATCC
130 TTGAGAATAATTTTCGATAATTAATTACTTGGCTGATTTTGATTTTTTTTTTCTTTAATTAATCC
2887337 GACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTT
195 GACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTT
2887402 CTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
260 CTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
2887448 AACAACTAAC
Statistics
Matches: 298, Mismatches: 4, Indels: 4
0.97 0.01 0.01
Matches are distributed among these distances:
321 133 0.45
322 115 0.39
323 46 0.15
324 4 0.01
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (323 bp):
TGATTTTATTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAGT
TTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAAT
TGAGAATAATTTTCGATAATTAATTACTTGGCTGATTTTGATTTTTTTTTTCTTTAATTAATCCG
ACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTC
TCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGATAATTAATTACTTGGC
Found at i:2887464 original size:160 final size:161
Alignment explanation
Indices: 2886822--2887447 Score: 1184
Period size: 161 Copynumber: 3.9 Consensus size: 161
2886812 ATTTTGATCT
* * *
2886822 TGATTTT-TTTTTCTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAGTAG
1 TGATTTTGATTTT-TTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGT-GAAACAGTAG
2886886 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
64 TTTTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAA
2886951 TTGAGAATAATTTTCGATAATTAATTACTTGGC
129 TTGAGAATAATTTTCGATAATTAATTACTTGGC
2886984 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
1 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
2887049 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
2887114 GAGAATAATTTTCGATAATTAATTACTTGGC
131 GAGAATAATTTTCGATAATTAATTACTTGGC
2887145 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
1 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
2887210 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
*
2887275 GAGAATAATTTTTGATAATTAATTACTTGGC
131 GAGAATAATTTTCGATAATTAATTACTTGGC
2887306 TGATTTTGA-TTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
1 TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
2887370 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
66 TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
2887435 GAGAATAATTTTC
131 GAGAATAATTTTC
2887448 AACAACTAAC
Statistics
Matches: 458, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
160 132 0.29
161 276 0.60
162 46 0.10
163 4 0.01
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (161 bp):
TGATTTTGATTTTTTTTTTCTTTAATTAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTT
TTTCTTGCATACTCCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATT
GAGAATAATTTTCGATAATTAATTACTTGGC
Found at i:2890735 original size:1 final size:1
Alignment explanation
Indices: 2890731--2890764 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
2890721 GTAATTTTTG
*
2890731 AAAAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2890765 CACCACAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:2891177 original size:9 final size:9
Alignment explanation
Indices: 2891163--2891198 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 9
2891153 AGAAGATGAT
2891163 GAAAAAAAA
1 GAAAAAAAA
2891172 GAAAAAAATA
1 GAAAAAAA-A
2891182 GAAAAAAAA
1 GAAAAAAAA
2891191 GGAAAAAA
1 -GAAAAAA
2891199 TGAGAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:2891185 original size:19 final size:20
Alignment explanation
Indices: 2891138--2891206 Score: 76
Period size: 19 Copynumber: 3.6 Consensus size: 20
2891128 ACAATGGATG
2891138 AAAAATGAG-AAAAAAAG--
1 AAAAATGAGAAAAAAAAGAA
*
2891155 -AAGATGATGAAAAAAAAGAA
1 AAAAATGA-GAAAAAAAAGAA
*
2891175 AAAAAT-AGAAAAAAAAGGA
1 AAAAATGAGAAAAAAAAGAA
2891194 AAAAATGAGAAAA
1 AAAAATGAGAAAA
2891207 TGAAAAAAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
16 6 0.14
17 1 0.02
18 8 0.19
19 17 0.40
20 7 0.16
21 4 0.09
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.07
Consensus pattern (20 bp):
AAAAATGAGAAAAAAAAGAA
Found at i:2892582 original size:41 final size:41
Alignment explanation
Indices: 2892456--2893097 Score: 952
Period size: 42 Copynumber: 15.5 Consensus size: 41
2892446 AAAGTTCCGT
*
2892456 TGCCTCTGTTTAGAGGAGCAATTTATCTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTA-CTTTTCAAAGTCGTGG
*
2892498 TGCCTCTGTTGAGAGGAGCAATTTATTTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTA-CTTTTCAAAGTCGTGG
2892540 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
2892581 TGCCTCTGTTGAGAGGAGCAATTTATTTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTA-CTTTTCAAAGTCGTGG
*
2892623 TGCCTCTGTTGAGAGGAGCAATTTATTTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTA-CTTTTCAAAGTCGTGG
*
2892665 TGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
2892706 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
2892747 TGCCTCTGTTGAGAGGAGCAATTTAATTTCCAAAGTTCCGT--
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAG-T-CGTGG
*
2892788 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
2892829 TGCCTCTGTTGAGAGGAGCAAATTTAATTTCCAAAGTTCCGT--
1 TGCCTCTGTTGAGAGGAGC-AATTTACTTTTCAAAG-T-CGTGG
* *
2892871 TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTT-CAAAGTCGTGG
*
2892913 TACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
2892954 TGCCTCTGTTGAAGAGGAGCAATTTACTTTCCAAAGTCGTCGG
1 TGCCTCTGTTG-AGAGGAGCAATTTACTTTTCAAAGTCGT-GG
*
2892997 TGCCTCTGTTGAGAGGAGCAATCTACTTTTCAAAGTCGTGG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* *
2893038 TACCTCTGTTGAGAGGAGCAATTTAC-TTTCAAAAGTCGTTG
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTC-AAAGTCGTGG
* * *
2893079 AGTCTCTGTTTAGAGGAGC
1 TGCCTCTGTTGAGAGGAGC
2893098 TTCGGCAAAA
Statistics
Matches: 554, Mismatches: 32, Indels: 29
0.90 0.05 0.05
Matches are distributed among these distances:
39 3 0.01
40 8 0.01
41 258 0.47
42 265 0.48
43 17 0.03
44 3 0.01
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (41 bp):
TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
Found at i:2892623 original size:125 final size:124
Alignment explanation
Indices: 2892456--2893097 Score: 974
Period size: 125 Copynumber: 5.2 Consensus size: 124
2892446 AAAGTTCCGT
*
2892456 TGCCTCTGTTTAGAGGAGCAATTTATCTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATT
1 TGCCTCTGTTGAGAGGAGCAATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATT
2892521 TATTTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
65 TATTTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
2892581 TGCCTCTGTTGAGAGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATT
1 TGCCTCTGTTGAGAGGAGCAATTTA-CTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATT
*
2892646 TATTTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGG
65 TATTTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
2892706 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTT
1 TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTT
* * *
2892771 A-ATTTCCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGG
66 ATTTTTTCAAAG-T-CGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
* * *
2892829 TGCCTCTGTTGAGAGGAGCAAATTTAATTTCCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCAA
1 TGCCTCTGTTGAGAGGAGC-AATTTACTTTTCAAAG-T-CGTGGTGCCTCTGTTGAGAGGAGCAA
* *
2892892 TTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
63 TTTATTTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
*
2892954 TGCCTCTGTTGAAGAGGAGCAATTTACTTTCCAAAGTCGTCGGTGCCTCTGTTGAGAGGAGCAAT
1 TGCCTCTGTTG-AGAGGAGCAATTTACTTTTCAAAGTCGT-GGTGCCTCTGTTGAGAGGAGCAAT
* * * *
2893019 CTA-CTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTAC-TTTCAAAAGTCGTTG
64 TTATTTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTC-AAAGTCGTGG
* * *
2893079 AGTCTCTGTTTAGAGGAGC
1 TGCCTCTGTTGAGAGGAGC
2893098 TTCGGCAAAA
Statistics
Matches: 481, Mismatches: 23, Indels: 27
0.91 0.04 0.05
Matches are distributed among these distances:
123 72 0.15
124 93 0.19
125 282 0.59
126 34 0.07
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (124 bp):
TGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTT
ATTTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGG
Found at i:2893120 original size:9 final size:9
Alignment explanation
Indices: 2893106--2893208 Score: 107
Period size: 10 Copynumber: 10.6 Consensus size: 9
2893096 GCTTCGGCAA
2893106 AAAAAAAAC
1 AAAAAAAAC
2893115 AAAAAAAAC
1 AAAAAAAAC
2893124 AAAAAAAAAC
1 -AAAAAAAAC
2893134 AAAAAAAAC
1 AAAAAAAAC
2893143 AAAAAAAAATC
1 -AAAAAAAA-C
*
2893154 AAAAAAATC
1 AAAAAAAAC
2893163 AAAAAAAAATC
1 -AAAAAAAA-C
*
2893174 AAAAAAATAA
1 AAAAAAA-AC
*
2893184 AAAACAAAAT
1 AAAA-AAAAC
2893194 AAAAAAAATC
1 AAAAAAAA-C
2893204 AAAAA
1 AAAAA
2893209 TAAAAATGTT
Statistics
Matches: 81, Mismatches: 5, Indels: 15
0.80 0.05 0.15
Matches are distributed among these distances:
9 23 0.28
10 52 0.64
11 6 0.07
ACGTcount: A:0.85, C:0.09, G:0.00, T:0.06
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:2893129 original size:19 final size:19
Alignment explanation
Indices: 2893105--2893213 Score: 139
Period size: 20 Copynumber: 5.5 Consensus size: 19
2893095 AGCTTCGGCA
2893105 AAAAAAAAACAAAAAAAAC
1 AAAAAAAAACAAAAAAAAC
2893124 AAAAAAAAACAAAAAAAAC
1 AAAAAAAAACAAAAAAAAC
*
2893143 AAAAAAAAATCAAAAAAATC
1 AAAAAAAAA-CAAAAAAAAC
2893163 AAAAAAAAATCAAAAAAATA-
1 AAAAAAAAA-CAAAAAAA-AC
*
2893183 AAAAACAAAATAAAAAAAATC
1 AAAAA-AAAACAAAAAAAA-C
2893204 AAAAATAAAA
1 AAAAA-AAAA
2893214 ATGTTGAGTT
Statistics
Matches: 81, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
19 29 0.36
20 39 0.48
21 13 0.16
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.06
Consensus pattern (19 bp):
AAAAAAAAACAAAAAAAAC
Found at i:2893214 original size:1 final size:1
Alignment explanation
Indices: 2893104--2893201 Score: 79
Period size: 1 Copynumber: 98.0 Consensus size: 1
2893094 GAGCTTCGGC
* * * * ** **
2893104 AAAAAAAAAACAAAAAAAACAAAAAAAAACAAAAAAAACAAAAAAAAATCAAAAAAATCAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * * *
2893169 AAATCAAAAAAATAAAAAACAAAATAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
2893202 TCAAAAATAA
Statistics
Matches: 74, Mismatches: 23, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 74 1.00
ACGTcount: A:0.87, C:0.08, G:0.00, T:0.05
Consensus pattern (1 bp):
A
Found at i:2893439 original size:24 final size:23
Alignment explanation
Indices: 2893384--2893437 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 23
2893374 TTTTCTTTTG
2893384 TATTTTATGTATTCTATTATTAT
1 TATTTTATGTATTCTATTATTAT
2893407 TATTATTATGTATATCT-TTATTCATT
1 TATT-TTATGTAT-TCTATTATT-A-T
2893433 TATTT
1 TATTT
2893438 ATTTTTATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 4 0.15
24 13 0.48
25 5 0.19
26 5 0.19
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.65
Consensus pattern (23 bp):
TATTTTATGTATTCTATTATTAT
Found at i:2893496 original size:3 final size:3
Alignment explanation
Indices: 2893488--2893513 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2893478 AGTTATATAT
2893488 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
2893514 TTTGTAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2894115 original size:20 final size:20
Alignment explanation
Indices: 2894092--2894129 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2894082 GTTTCCGACG
2894092 AAGAATCCCAGAAACCGGCA
1 AAGAATCCCAGAAACCGGCA
2894112 AAGAATCCCAGAAACCGG
1 AAGAATCCCAGAAACCGG
2894130 TGAATTTTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.29, G:0.21, T:0.05
Consensus pattern (20 bp):
AAGAATCCCAGAAACCGGCA
Found at i:2894457 original size:14 final size:15
Alignment explanation
Indices: 2894438--2894479 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
2894428 CCGAGCCGAG
2894438 CCGAGCCGTTCTTC-
1 CCGAGCCGTTCTTCT
2894452 CCGAGCCG--CTTCT
1 CCGAGCCGTTCTTCT
2894465 CCGAGCCGTT-TTCT
1 CCGAGCCGTTCTTCT
2894479 C
1 C
2894480 TTCCTTGAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.16
13 8 0.32
14 13 0.52
ACGTcount: A:0.07, C:0.43, G:0.21, T:0.29
Consensus pattern (15 bp):
CCGAGCCGTTCTTCT
Found at i:2894470 original size:13 final size:14
Alignment explanation
Indices: 2894438--2894474 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
2894428 CCGAGCCGAG
2894438 CCGAGCCGTTCTTC
1 CCGAGCCGTTCTTC
2894452 CCGAGCCG--CTTC
1 CCGAGCCGTTCTTC
2894464 TCCGAGCCGTT
1 -CCGAGCCGTT
2894475 TTCTCTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
14 8 0.40
ACGTcount: A:0.08, C:0.43, G:0.24, T:0.24
Consensus pattern (14 bp):
CCGAGCCGTTCTTC
Found at i:2894967 original size:152 final size:152
Alignment explanation
Indices: 2894583--2895025 Score: 764
Period size: 151 Copynumber: 2.9 Consensus size: 152
2894573 TTTTTTTTCT
* *
2894583 TTTTTTCTTTAATTAAT-CGACGACGGAGCCTCTACAAGTGAAACAGTAGTTTTTCTTGCATACT
1 TTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
* *
2894647 CTTGAGGTGAGGGAATTTTTTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 CTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
2894712 AATAATTAATTGGATGATTTTG
131 AATAATTAATTGGATGATTTTG
* *
2894734 TATTTT-TTTAATAAATCCGACGACGGAACCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
1 TTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
* *
2894798 CTTGAGGTGAGGAAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTTAATTGAGAATAATTTCC
66 CTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
2894863 AATAATTAATTGGATGATTTTG
131 AATAATTAATTGGATGATTTTG
*
2894885 TTTTTTCTTTAATAAATCCGACGACGGAGCCCCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
1 TTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
*
2894950 CCTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
66 CTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
* *
2895015 AACAACTAATT
131 AATAATTAATT
2895026 ACTTGGTAAA
Statistics
Matches: 274, Mismatches: 16, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
150 9 0.03
151 138 0.50
152 127 0.46
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (152 bp):
TTTTTTCTTTAATAAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACT
CTTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTCC
AATAATTAATTGGATGATTTTG
Found at i:2895405 original size:12 final size:12
Alignment explanation
Indices: 2895388--2895413 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2895378 AACTATAAAC
2895388 AAATAATTTAAT
1 AAATAATTTAAT
2895400 AAATAATTTAAT
1 AAATAATTTAAT
2895412 AA
1 AA
2895414 TTAAATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATAATTTAAT
Found at i:2900440 original size:17 final size:18
Alignment explanation
Indices: 2900397--2900443 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 18
2900387 TTTTTAATAT
2900397 AATA-TAATTAAATTTATC
1 AATATTAATTAAATTTA-C
2900415 ATATCATTAATTAAATTTA-
1 A-AT-ATTAATTAAATTTAC
2900434 AATATTAATT
1 AATATTAATT
2900444 TTAATAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 7 0.27
18 3 0.12
19 3 0.12
20 1 0.04
21 12 0.46
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (18 bp):
AATATTAATTAAATTTAC
Found at i:2900495 original size:24 final size:23
Alignment explanation
Indices: 2900463--2900518 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
2900453 TTCATTTAAT
2900463 ATAATTTTTTAATTCACAATTATA
1 ATAATTTTTTAATT-ACAATTATA
*
2900487 ATAATTTTTTAATTATAATTATA
1 ATAATTTTTTAATTACAATTATA
2900510 ATAATTTTT
1 ATAATTTTT
2900519 ATTTTTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 17 0.55
24 14 0.45
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (23 bp):
ATAATTTTTTAATTACAATTATA
Found at i:2900925 original size:19 final size:20
Alignment explanation
Indices: 2900886--2900929 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
2900876 CCAAATCAAA
*
2900886 TTATATATATTTATTAATTT
1 TTATATATATTTATAAATTT
2900906 TTATATATATTTA-AAATTT
1 TTATATATATTTATAAATTT
2900925 TTATA
1 TTATA
2900930 AAATAAAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTATATATATTTATAAATTT
Found at i:2900984 original size:22 final size:24
Alignment explanation
Indices: 2900958--2901001 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
2900948 ATATAAATTT
2900958 ATTAAAAT-ATAT-TAAAAATTAG
1 ATTAAAATAATATATAAAAATTAG
2900980 ATTAAAATAATATATAAAAATT
1 ATTAAAATAATATATAAAAATT
2901002 TTAAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 4 0.20
24 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
ATTAAAATAATATATAAAAATTAG
Found at i:2904141 original size:3 final size:3
Alignment explanation
Indices: 2904133--2904178 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
2904123 ATTTACTAAA
2904133 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
2904179 CATCCATGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2905265 original size:100 final size:98
Alignment explanation
Indices: 2905112--2905304 Score: 237
Period size: 100 Copynumber: 1.9 Consensus size: 98
2905102 AAAGAAAGAC
* * * * * *
2905112 ATAATTCAAAAAAAGAAAAATGATTTAATCTCATCATTAGATTTATTAAAATCAAT-ATT-AGAA
1 ATAACTCAAAAAAAGAAAAATGATTGAATCGCATCACTAAATTTATTAAAATCAATGATTAAAAA
* *
2905175 ACTAGTGTAAAATTAAAAATTTTTATACTATAATG
66 ACTA-TG-AAAATTAAAAAATTTTAAACTATAATG
* *
2905210 ATAACTCAAAAAGAGAAAAAATGATTGAATCGCATCCCCTAAATTTATTAAAATCAATGATTAAA
1 ATAACTCAAAAAAAG-AAAAATGATTGAATCGCAT-CACTAAATTTATTAAAATCAATGATTAAA
*
2905275 AAATTATGAAAATTAAAAAATTTTAAACTA
64 AAACTATGAAAATTAAAAAATTTTAAACTA
2905305 GAGTAAATTA
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
98 13 0.16
99 17 0.21
100 39 0.49
101 5 0.06
102 6 0.08
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.32
Consensus pattern (98 bp):
ATAACTCAAAAAAAGAAAAATGATTGAATCGCATCACTAAATTTATTAAAATCAATGATTAAAAA
ACTATGAAAATTAAAAAATTTTAAACTATAATG
Found at i:2909191 original size:200 final size:200
Alignment explanation
Indices: 2908941--2909319 Score: 733
Period size: 200 Copynumber: 1.9 Consensus size: 200
2908931 TATTTAAATT
2908941 TGAAATTTTAAAATTTTTAAAATTATGAAACTTACCAAAGACATAGTGGAATAAGAGAC-AATCT
1 TGAAATTTTAAAATTTTTAAAATTATGAAACTTACCAAAGACATAGTGGAATAAGAGACAAATCT
*
2909005 TTTTAAATTATTACTATAATTTTTTCCGTTAAATTTAATTTGTTTTTTAATATTTTATATTCAAA
66 TTTTAAATTATTACTATAATTTTTTCCATTAAATTTAATTTGTTTTTTAATATTTTATATTCAAA
2909070 ATTATATGCATTTTTTTTATCAAAATTATATCCAATTAAATATATAATAATAAGATATATTTCTC
131 ATTATATGCA-TTTTTTTATCAAAATTATATCCAATTAAATATATAATAATAAGATATATTTCTC
2909135 TTATTA
195 TTATTA
2909141 TGAAATTTTAAAATTTTTAAAATTATGAAACTTACCAAAGACATAGTGGAATAAGAGACAAATCT
1 TGAAATTTTAAAATTTTTAAAATTATGAAACTTACCAAAGACATAGTGGAATAAGAGACAAATCT
2909206 TTTTAAATTATTACTATAATTTTTTCCATTAAATTTAATTTGTTTTTTAATATTTTATATTCAAA
66 TTTTAAATTATTACTATAATTTTTTCCATTAAATTTAATTTGTTTTTTAATATTTTATATTCAAA
2909271 ATTATATGCATTTTTTTATCAAAATTATATCCAATTAAATATATAATAA
131 ATTATATGCATTTTTTTATCAAAATTATATCCAATTAAATATATAATAA
2909320 GATATATTTC
Statistics
Matches: 177, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
200 98 0.55
201 79 0.45
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (200 bp):
TGAAATTTTAAAATTTTTAAAATTATGAAACTTACCAAAGACATAGTGGAATAAGAGACAAATCT
TTTTAAATTATTACTATAATTTTTTCCATTAAATTTAATTTGTTTTTTAATATTTTATATTCAAA
ATTATATGCATTTTTTTATCAAAATTATATCCAATTAAATATATAATAATAAGATATATTTCTCT
TATTA
Found at i:2918875 original size:108 final size:108
Alignment explanation
Indices: 2918735--2918951 Score: 398
Period size: 108 Copynumber: 2.0 Consensus size: 108
2918725 TCAACCCAAA
*
2918735 TAAACACAAACCCAAACCCTTGTGCACCCTTTCAACATAACCAAACACATACCCATATGCTCCCA
1 TAAACACAAACCCAAACCCTTGTCCACCCTTTCAACATAACCAAACACATACCCATATGCTCCCA
2918800 TACATCATACCTATGTGGACCCTCTCAATCTCCTCTAGTCCAC
66 TACATCATACCTATGTGGACCCTCTCAATCTCCTCTAGTCCAC
* *
2918843 TAAACACAAACCCAAATCCTTGTCCACCCTTTCAACATAACCAAACACATACCCATATGCTCCCG
1 TAAACACAAACCCAAACCCTTGTCCACCCTTTCAACATAACCAAACACATACCCATATGCTCCCA
*
2918908 TACATTATACCTATGTGGACCCTCTCAATCTCCTCTAGTCCAC
66 TACATCATACCTATGTGGACCCTCTCAATCTCCTCTAGTCCAC
2918951 T
1 T
2918952 CACAAACAAA
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.32, C:0.37, G:0.06, T:0.24
Consensus pattern (108 bp):
TAAACACAAACCCAAACCCTTGTCCACCCTTTCAACATAACCAAACACATACCCATATGCTCCCA
TACATCATACCTATGTGGACCCTCTCAATCTCCTCTAGTCCAC
Found at i:2919176 original size:52 final size:53
Alignment explanation
Indices: 2919090--2919246 Score: 189
Period size: 52 Copynumber: 3.0 Consensus size: 53
2919080 TATAACCATA
* * * *
2919090 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTTTTC-TGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTTCTCTTGCAAGT
*
2919142 CAAACTTGCCTATTAAGAATCCCTTTCCTTTTAGAATTC-TTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTTCTCTTGCAAGT
* * *
2919194 TAAACTTACCTATTAAGAATCCTCTTT-CTCTTGGAATTC-TTCAT-TTGCAAGT
1 CAAACTTGCCTATTAAGAATCC-CTTTCCTCTTAGAATTCTTTC-TCTTGCAAGT
2919246 C
1 C
2919247 TTCTTGTCCA
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
51 4 0.04
52 83 0.90
53 5 0.05
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (53 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTTCTCTTGCAAGT
Found at i:2922879 original size:259 final size:257
Alignment explanation
Indices: 2922399--2923076 Score: 652
Period size: 259 Copynumber: 2.6 Consensus size: 257
2922389 TTGGCACACT
* * * * * * * *
2922399 AGTTAAGTCCGAAAACTTAGAAGATTGTATT-CCAATAGCTCCTCTTCTGGTAGCAATGATACCT
1 AGTTAATTCCAAAAACTCAAAAGATCGTATTGCCAACAGCTCATCTTCT--T-GCAATAATACCT
* ** * * * * * * * * *
2922463 GATATTTACTAAAAATTTAAACGTAATAGTCAGAGATAAGTATTCAAAGCAT-AGAGCAAAATAT
63 AATATAAACTAGAAATTGAAACATAATAATCAAAGACAGGTATTAAAAGCATGA-AGCAACATA-
* * *
2922527 ATA-TTTAGCAAGCATTACAAAATAAAACAGTAACAAAAACATGATGAGGAGGAAAAAATCTTCT
126 AAAGTTTAGCAAGCATTACAAAATAAAACAGTAACAAAAACATAATGAGGAGGAAAAAAACTTCT
*** *
2922591 CACACAAAGGAAATTCTGTTGTTTAACTCCTAAATCTCCTGCTATAATGAACCCTAAAACTCTTT
191 CACACAAAGGAAATTCTGTCCATTAACTCCTAAATCTCCTGCCATAATGAACCCTAAAACT-TTT
2922656 -AA
255 CAA
* * * *
2922658 AGTTAAAGTT-CAAAAACTCAAAAGATTGTGTTGCCAATAGCTCATCTTTGTTGCAATAATACCT
1 AGTT-AA-TTCCAAAAACTCAAAAGATCGTATTGCCAACAGCTCATC-TTCTTGCAATAATACCT
* * * * **
2922722 AGTATAAATTAGAAATTTAAACGTAATGGTCAAAGACAGGTATATAAAAG-ATGAAGCAACATAA
63 AATATAAACTAGAAATTGAAACATAATAATCAAAGACAGGTAT-TAAAAGCATGAAGCAACATAA
* * * * * * *
2922786 AAGTTTAGTAAGC-TTACACAATAAAGCAGTAACAATAACCTAATGATGAGGAAAAAGGAACTTT
127 AAGTTTAGCAAGCATTACAAAATAAAACAGTAACAAAAACATAATGAGGAGGAAAAA--AACTTC
*
2922850 TCACATAAAGGAAATTCTG-CCATTAACTCCTAAATCTCCTGCCATAATGAACCCTAAAACTTTT
190 TCACACAAAGGAAATTCTGTCCATTAACTCCTAAATCTCCTGCCATAATGAACCCTAAAACTTTT
*
2922914 CCA
255 CAA
* * * *
2922917 AGTTAATTCCTAAAACTCAGAAGATCGTATTGCCAACAGCTCTTCTTCTTGTAATAATACCTAAT
1 AGTTAATTCCAAAAACTCAAAAGATCGTATTGCCAACAGCTCATCTTCTTGCAATAATACCTAAT
* * * * * *
2922982 ATAAACTAGAAATTGAAACATAATAATCACAGATAGGTATTCAAAGCATGAAGCAAAATATATGT
66 ATAAACTAGAAATTGAAACATAATAATCAAAGACAGGTATTAAAAGCATGAAGCAACATAAAAGT
* * * *
2923047 TCAACAAGTATTACAAAATAAAACAATAAC
131 TTAGCAAGCATTACAAAATAAAACAGTAAC
2923077 TAGACCTACC
Statistics
Matches: 343, Mismatches: 63, Indels: 27
0.79 0.15 0.06
Matches are distributed among these distances:
256 5 0.01
257 72 0.21
258 91 0.27
259 110 0.32
260 49 0.14
261 13 0.04
262 3 0.01
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.28
Consensus pattern (257 bp):
AGTTAATTCCAAAAACTCAAAAGATCGTATTGCCAACAGCTCATCTTCTTGCAATAATACCTAAT
ATAAACTAGAAATTGAAACATAATAATCAAAGACAGGTATTAAAAGCATGAAGCAACATAAAAGT
TTAGCAAGCATTACAAAATAAAACAGTAACAAAAACATAATGAGGAGGAAAAAAACTTCTCACAC
AAAGGAAATTCTGTCCATTAACTCCTAAATCTCCTGCCATAATGAACCCTAAAACTTTTCAA
Found at i:2923642 original size:26 final size:26
Alignment explanation
Indices: 2923599--2923655 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
2923589 AATTATATTT
* *
2923599 TATAATAAATAAAATATTCTTAATTA
1 TATAAGAAATAAAATATTCTTAAATA
*
2923625 TATAAGAAA-AAAATTATTTTTAAATA
1 TATAAGAAATAAAA-TATTCTTAAATA
2923651 TATAA
1 TATAA
2923656 AAGATATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 4 0.15
26 23 0.85
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (26 bp):
TATAAGAAATAAAATATTCTTAAATA
Found at i:2924693 original size:15 final size:15
Alignment explanation
Indices: 2924670--2924750 Score: 55
Period size: 15 Copynumber: 5.5 Consensus size: 15
2924660 AAAATTATCT
*
2924670 TATAAATTTAAAAAA
1 TATATATTTAAAAAA
2924685 TATATATTT-AAAAA
1 TATATATTTAAAAAA
* *
2924699 TATTTA-TTAATATAA
1 TATATATTTAA-AAAA
2924714 TAT-TATTTATAAATAA
1 TATATATTTA-AAA-AA
*
2924730 TAT-TATATTAATAAA
1 TATATAT-TTAAAAAA
2924745 TA-ATAT
1 TATATAT
2924751 AATACCATAT
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
13 2 0.04
14 13 0.24
15 25 0.46
16 11 0.20
17 3 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TATATATTTAAAAAA
Found at i:2924722 original size:18 final size:18
Alignment explanation
Indices: 2924699--2924792 Score: 72
Period size: 18 Copynumber: 5.2 Consensus size: 18
2924689 TATTTAAAAA
2924699 TATTTATTAATATAATAT
1 TATTTATTAATATAATAT
2924717 TATTTA-TAA-ATAATAT
1 TATTTATTAATATAATAT
*
2924733 TATATTAATAA-ATAATAT
1 TAT-TTATTAATATAATAT
** *
2924751 AATACCATATCAATA-AATAT
1 --TA-TTTATTAATATAATAT
2924771 TATTATATTAATA-AATAT
1 TATT-TATTAATATAATAT
2924789 TATT
1 TATT
2924793 ATAACATATT
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
16 10 0.16
17 6 0.10
18 34 0.55
20 11 0.18
21 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTTATTAATATAATAT
Found at i:2924760 original size:23 final size:22
Alignment explanation
Indices: 2924706--2924880 Score: 108
Period size: 23 Copynumber: 8.4 Consensus size: 22
2924696 AAATATTTAT
* *
2924706 TAATATAATA-TTATTTATAAA
1 TAATATAATACATATTAATAAA
2924727 TAATAT--T--ATATTAATAAA
1 TAATATAATACATATTAATAAA
*
2924745 TAATATAATACCATATCAATAAA
1 TAATATAATA-CATATTAATAAA
*
2924768 T-AT-T-AT-TATATTAATAAA
1 TAATATAATACATATTAATAAA
* *
2924786 TATTATTATAACATATTAATAAA
1 TAATATAAT-ACATATTAATAAA
*
2924809 TAACAT-AT---TATTAATATAA
1 TAATATAATACATATTAATA-AA
*
2924828 TAATATAATAAATATTTAA-AAA
1 TAATATAATACATA-TTAATAAA
* * *
2924850 TAATGTATTAATATATTAATAAA
1 TAATATAAT-ACATATTAATAAA
2924873 TAATATAA
1 TAATATAA
2924881 AAAATAAATA
Statistics
Matches: 121, Mismatches: 15, Indels: 34
0.71 0.09 0.20
Matches are distributed among these distances:
18 34 0.28
19 9 0.07
20 6 0.05
21 9 0.07
22 17 0.14
23 42 0.35
24 4 0.03
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (22 bp):
TAATATAATACATATTAATAAA
Found at i:2924767 original size:41 final size:40
Alignment explanation
Indices: 2924706--2924880 Score: 167
Period size: 41 Copynumber: 4.2 Consensus size: 40
2924696 AAATATTTAT
* *
2924706 TAATATAATA-TTATTTATAAATAATATTATATTAATAAA
1 TAATATAATACATATTAATAAATAATATTATATTAATAAA
* *
2924745 TAATATAATACCATATCAATAAATATTATTATATTAATAAA
1 TAATATAATA-CATATTAATAAATAATATTATATTAATAAA
* * *
2924786 TATTATTATAACATATTAATAAATAACA-TATTATTAATATAA
1 TAATATAAT-ACATATTAATAAATAATATTA-TATTAATA-AA
*
2924828 TAATATAATAAATATTTAA-AAATAATGTATTAATATATTAATAAA
1 TAATATAATACATA-TTAATAAATAA--TA-T--TATATTAATAAA
2924873 TAATATAA
1 TAATATAA
2924881 AAAATAAATA
Statistics
Matches: 111, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
39 10 0.09
40 2 0.02
41 64 0.58
42 14 0.13
43 1 0.01
45 10 0.09
46 8 0.07
47 2 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (40 bp):
TAATATAATACATATTAATAAATAATATTATATTAATAAA
Found at i:2924793 original size:18 final size:18
Alignment explanation
Indices: 2924714--2924795 Score: 78
Period size: 18 Copynumber: 4.4 Consensus size: 18
2924704 ATTAATATAA
*
2924714 TATTAT-TT-ATAAATAA
1 TATTATATTAATAAATAT
2924730 TATTATATTAATAAATAAT
1 TATTATATTAATAAAT-AT
* *
2924749 ATAATACCATATCAATAAATAT
1 -T-AT--TATATTAATAAATAT
2924771 TATTATATTAATAAATAT
1 TATTATATTAATAAATAT
2924789 TATTATA
1 TATTATA
2924796 ACATATTAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
16 6 0.11
17 2 0.04
18 26 0.48
19 1 0.02
20 3 0.06
21 3 0.06
22 2 0.04
23 11 0.20
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTATATTAATAAATAT
Found at i:2924870 original size:38 final size:35
Alignment explanation
Indices: 2924817--2924887 Score: 97
Period size: 38 Copynumber: 1.9 Consensus size: 35
2924807 AATAACATAT
*
2924817 TATTAATATAATAATATAATAAATATTTAAAAATAATG
1 TATTAATATAATAATA-AAT-AATA-TAAAAAATAATG
*
2924855 TATTAATATATTAATAAATAATATAAAAAATAA
1 TATTAATATAATAATAAATAATATAAAAAATAA
2924888 ATAGTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
35 9 0.29
36 4 0.13
37 3 0.10
38 15 0.48
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (35 bp):
TATTAATATAATAATAAATAATATAAAAAATAATG
Found at i:2924943 original size:18 final size:18
Alignment explanation
Indices: 2924904--2924983 Score: 71
Period size: 18 Copynumber: 4.6 Consensus size: 18
2924894 TTATTTTAAA
*
2924904 TATTTT-ATATTAATGTAA
1 TATTTTAATATTAA-GTAT
2924922 TATTTTAATATTAAGTAT
1 TATTTTAATATTAAGTAT
* *
2924940 TATTATTAAAATATAATTAT
1 TATT-TTAATAT-TAAGTAT
2924960 T-TTTTAATATTAA-TA-
1 TATTTTAATATTAAGTAT
2924975 -ATTTTAATA
1 TATTTTAATA
2924984 ACAAATAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
15 8 0.15
16 2 0.04
17 3 0.06
18 19 0.35
19 15 0.28
20 7 0.13
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
TATTTTAATATTAAGTAT
Found at i:2924981 original size:15 final size:16
Alignment explanation
Indices: 2924906--2925025 Score: 64
Period size: 18 Copynumber: 6.8 Consensus size: 16
2924896 ATTTTAAATA
2924906 TTTT-ATATTAATGTAAT
1 TTTTAATATTAA--TAAT
2924923 ATTTTAATATTAAGTATTAT
1 -TTTTAATATTAA-TA--AT
* * *
2924943 TATTAAAATATAATTATT
1 TTTTAATAT-TAA-TAAT
2924961 TTTTAATATTAATAA-
1 TTTTAATATTAATAAT
**
2924976 TTTTAATAACAAATAAT
1 TTTTAAT-ATTAATAAT
2924993 TTTTAATATTTTAATAAT
1 TTTTAATA--TTAATAAT
2925011 TATATTAATATTAAT
1 T-T-TTAATATTAAT
2925026 TAAAAATAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 20
0.72 0.10 0.18
Matches are distributed among these distances:
15 7 0.09
16 9 0.11
17 10 0.12
18 27 0.33
19 15 0.19
20 13 0.16
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (16 bp):
TTTTAATATTAATAAT
Found at i:2925129 original size:14 final size:14
Alignment explanation
Indices: 2925106--2925150 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 14
2925096 TAAAAAATAT
2925106 AAATTA-TTTTCAA
1 AAATTATTTTTCAA
2925119 AAATTATTTTTCAA
1 AAATTATTTTTCAA
2925133 AAATTATTATTTGCAA
1 AAATTATT-TTT-CAA
2925149 AA
1 AA
2925151 CAATAGGAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.21
14 15 0.52
15 3 0.10
16 5 0.17
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:2926597 original size:17 final size:18
Alignment explanation
Indices: 2926575--2926609 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2926565 ATGTATAATG
2926575 TTAC-TTTTTTTAATAAC
1 TTACTTTTTTTTAATAAC
2926592 TTACTTTTTTTTAATAAC
1 TTACTTTTTTTTAATAAC
2926610 AGTTTCCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (18 bp):
TTACTTTTTTTTAATAAC
Found at i:2928711 original size:59 final size:58
Alignment explanation
Indices: 2928631--2929044 Score: 419
Period size: 59 Copynumber: 7.0 Consensus size: 58
2928621 TAAAAAATAA
* * * * *
2928631 AAAACTTCAAAAACATGTTTTTGAAGAAAAGTTGAAAGTATTAATTTTTCTTGAAACT
1 AAAATTTCAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
* *
2928689 AAAGATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGCAAAT
1 AAA-ATTTCAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
***
2928748 AAAGATTTCAAAAAGGGATTTTTG-AGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
1 AAA-ATTTCAAAAAAATATTTTTGAAG-AAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
* * *
2928807 AAAAATTTCAAAAAAATAATTTT-AAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAAT
1 -AAAATTTCAAAAAAATATTTTTGAA-GAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
* * *
2928866 AAAAATTTCAAAAAAATAATTTT-AAGAAAGAGTTGAAAATATCAATTTTTCTTAAAAAT
1 -AAAATTTCAAAAAAATATTTTTGAAGAAA-AGTTGAAAGTATCAATTTTTCTTGAAAAT
* * *
2928925 AAAATTTTC-AAAAAATATATTTTGCAGGGAAAGTT-AGAAGTATCAATTTTTCTTTAAAAT
1 AAAA-TTTCAAAAAAATAT-TTTTG-AAGAAAAGTTGA-AAGTATCAATTTTTCTTGAAAAT
* * ** * *
2928985 AAAACTTTC-AAGAAATGTTTGTTTG-AGAAAAAGTTGAAAGTCCCGATATTTCTTGAAAAT
1 AAAA-TTTCAAAAAAAT-ATT-TTTGAAG-AAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
2929045 TTTTAGTGTA
Statistics
Matches: 306, Mismatches: 35, Indels: 28
0.83 0.09 0.08
Matches are distributed among these distances:
58 20 0.07
59 208 0.68
60 68 0.22
61 10 0.03
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (58 bp):
AAAATTTCAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT
Found at i:2928936 original size:177 final size:178
Alignment explanation
Indices: 2928624--2928995 Score: 468
Period size: 177 Copynumber: 2.1 Consensus size: 178
2928614 TGATTTTTAA
* * ** * * * *
2928624 AAAATAAAAAACTTCAAAAACATGTTTTTGAAGAAAAGTTGAAAGTATTAATTTTTCTTGAAACT
1 AAAAT-AAAAATTTCAAAAAAATAATTTTGAAGAAAAGTTAAAAGTATCAATTTTTCTTAAAAAT
* * * * **
2928689 AAAGATTTCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGCAAATAAAGAT
65 AAAAATTTCAAAAAAATAATTTTGAAGAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAAGAT
*
2928754 TTCAAAAAGGGAT-TTTTG-AGAAAAAGTT-GAAAGTATCAATTTTTCTTG
130 TTCAAAAA-AGATATTTTGCAGAAAAAGTTAG-AAGTATCAATTTTTCTTG
2928802 AAAATAAAAATTTCAAAAAAATAATTTT-AAGGAAAAGTTAAAAGTATCAATTTTTCTTAAAAAT
1 AAAATAAAAATTTCAAAAAAATAATTTTGAA-GAAAAGTTAAAAGTATCAATTTTTCTTAAAAAT
2928866 AAAAATTTCAAAAAAATAATTTT-AAGAAAGAGTTGAAAATATCAATTTTTCTTAAAAATAAA-A
65 AAAAATTTCAAAAAAATAATTTTGAAGAAA-AGTTGAAAATATCAATTTTTCTTAAAAATAAAGA
* ** *
2928929 TTTTCAAAAAATATATTTTGCAGGGAAAGTTAGAAGTATCAATTTTTCTTT
129 -TTTCAAAAAAGATATTTTGCAGAAAAAGTTAGAAGTATCAATTTTTCTTG
*
2928980 AAAATAAAACTTTCAA
1 AAAATAAAAATTTCAA
2928996 GAAATGTTTG
Statistics
Matches: 168, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
176 10 0.06
177 112 0.67
178 45 0.27
179 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (178 bp):
AAAATAAAAATTTCAAAAAAATAATTTTGAAGAAAAGTTAAAAGTATCAATTTTTCTTAAAAATA
AAAATTTCAAAAAAATAATTTTGAAGAAAAGTTGAAAATATCAATTTTTCTTAAAAATAAAGATT
TCAAAAAAGATATTTTGCAGAAAAAGTTAGAAGTATCAATTTTTCTTG
Found at i:2932507 original size:18 final size:19
Alignment explanation
Indices: 2932476--2932511 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2932466 TCTCAAATTG
*
2932476 AAAGAAAGATAAAGAAAAA
1 AAAGAAAGAAAAAGAAAAA
2932495 AAAG-AAGAAAAAGAAAA
1 AAAGAAAGAAAAAGAAAA
2932512 TGAATGTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (19 bp):
AAAGAAAGAAAAAGAAAAA
Found at i:2932906 original size:22 final size:21
Alignment explanation
Indices: 2932878--2932943 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 21
2932868 TGAAAGAATG
2932878 AAAGAAAGGAAAAAGAATGAAA
1 AAAGAAA-GAAAAAGAATGAAA
*
2932900 AAAGAAAGAAAAATGAGA-AAAA
1 AAAGAAAGAAAAA-GA-ATGAAA
2932922 AAAGAAAATGAAAAA-AATGAAA
1 AAAG-AAA-GAAAAAGAATGAAA
2932944 GGATAAGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
21 7 0.19
22 20 0.54
23 4 0.11
24 6 0.16
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (21 bp):
AAAGAAAGAAAAAGAATGAAA
Found at i:2932914 original size:18 final size:18
Alignment explanation
Indices: 2932869--2932937 Score: 72
Period size: 18 Copynumber: 3.8 Consensus size: 18
2932859 AATGATGGGT
2932869 GAAAGAATGAAAGAAAGGAAA
1 GAAA-AATGAAA-AAA-GAAA
*
2932890 -AAGAATGAAAAAAGAAA
1 GAAAAATGAAAAAAGAAA
2932907 GAAAAATGAGAAAAA-AAA
1 GAAAAATGA-AAAAAGAAA
2932925 G-AAAATGAAAAAA
1 GAAAAATGAAAAAA
2932938 ATGAAAGGAT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.11
17 11 0.25
18 14 0.32
19 12 0.27
20 2 0.05
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.06
Consensus pattern (18 bp):
GAAAAATGAAAAAAGAAA
Found at i:2932941 original size:44 final size:42
Alignment explanation
Indices: 2932878--2932974 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 42
2932868 TGAAAGAATG
*
2932878 AAAG-AAAGGAAAAAGAATGAAAAAAGA-AAGAAAAATGAGAAAAA
1 AAAGAAAATGAAAAAGAATG--AAAAGATAAGAAAAAT-A-AAAAA
*
2932922 AAAGAAAATGAAAAA-AATGAAAGGATAAGAAAAATAAAAAA
1 AAAGAAAATGAAAAAGAATGAAAAGATAAGAAAAATAAAAAA
*
2932963 TAA-AAAATGAAA
1 AAAGAAAATGAAA
2932975 GATGAAAATG
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
40 9 0.19
41 7 0.15
42 6 0.12
43 9 0.19
44 8 0.17
45 9 0.19
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.08
Consensus pattern (42 bp):
AAAGAAAATGAAAAAGAATGAAAAGATAAGAAAAATAAAAAA
Found at i:2933216 original size:15 final size:14
Alignment explanation
Indices: 2933196--2933229 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
2933186 AATGTTAGAA
2933196 ATTATTTGAATATT
1 ATTATTTGAATATT
*
2933210 CATTATTTGGATATT
1 -ATTATTTGAATATT
2933225 ATTAT
1 ATTAT
2933230 ACCATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (14 bp):
ATTATTTGAATATT
Found at i:2934160 original size:34 final size:34
Alignment explanation
Indices: 2934058--2934514 Score: 341
Period size: 34 Copynumber: 13.4 Consensus size: 34
2934048 GTTTTTTCAA
* * *
2934058 CTTATGAATCTAAAAACTTTGTGAATC-TCAAATT
1 CTTACGAATCTGAAAACTTTGCGAATCTTC-AATT
* ** * *
2934092 CTTGCGAATCTG-AAGGTCTTACAAATCTTCAATT
1 CTTACGAATCTGAAAACT-TTGCGAATCTTCAATT
* * *
2934126 CTTACGAATCTGAAAACTTTACGAATATTGAATT
1 CTTACGAATCTGAAAACTTTGCGAATCTTCAATT
* * * * * * *
2934160 CTTGCGAATTTAAAAATTTTACGATTGTTCAATT
1 CTTACGAATCTGAAAACTTTGCGAATCTTCAATT
*** *
2934194 CTTACGAATCTGAAGGTTTTGCGACTCTTCAATT
1 CTTACGAATCTGAAAACTTTGCGAATCTTCAATT
* * * *
2934228 CTTGCAAATCTGAAAACTTTGTGAATATTCAATT
1 CTTACGAATCTGAAAACTTTGCGAATCTTCAATT
* * * *
2934262 CTTATGAATCTGAAAATTTTACAAATCTTCAATT
1 CTTACGAATCTGAAAACTTTGCGAATCTTCAATT
* *
2934296 CTTGCGAATCTAAAAACTTTGCGAATC-TCTAATT
1 CTTACGAATCTGAAAACTTTGCGAATCTTC-AATT
* * * *
2934330 CTTACAAATTTGAAAGCTGTGCGAATCTTCAATT
1 CTTACGAATCTGAAAACTTTGCGAATCTTCAATT
* *
2934364 CTTACGAATCTGAAAACTTTGTGAATCTCCAATT
1 CTTACGAATCTGAAAACTTTGCGAATCTTCAATT
* * * * *
2934398 CTTGCAAATCTAAAAACTTAGTGAATC-TCTAATT
1 CTTACGAATCTGAAAACTTTGCGAATCTTC-AATT
** * *
2934432 CTTGTGAATCT-AAAAGCTTTGTGAATCTCCAATT
1 CTTACGAATCTGAAAA-CTTTGCGAATCTTCAATT
** *
2934466 CTTGA-GAATCTGAAAGTTTTTACGAATCTTCAATT
1 CTT-ACGAATCTGAAA-ACTTTGCGAATCTTCAATT
* *
2934501 CTTGCAAATCTGAA
1 CTTACGAATCTGAA
2934515 TGTCTTGCCA
Statistics
Matches: 331, Mismatches: 80, Indels: 23
0.76 0.18 0.05
Matches are distributed among these distances:
33 10 0.03
34 285 0.86
35 36 0.11
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.37
Consensus pattern (34 bp):
CTTACGAATCTGAAAACTTTGCGAATCTTCAATT
Found at i:2934305 original size:17 final size:17
Alignment explanation
Indices: 2934285--2934511 Score: 54
Period size: 17 Copynumber: 13.3 Consensus size: 17
2934275 AAATTTTACA
2934285 AATCTTCAATTCTTGCG
1 AATCTTCAATTCTTGCG
* **
2934302 AATC-TAAAAACTTTGCG
1 AATCTTCAATTC-TTGCG
* *
2934319 AATC-TCTAATTCTTACA
1 AATCTTC-AATTCTTGCG
* **
2934336 AAT-TTGAAAGCTGTGCG
1 AATCTTCAATTCT-TGCG
*
2934353 AATCTTCAATTCTTACG
1 AATCTTCAATTCTTGCG
* ** *
2934370 AATC-TGAAAACTTTGTG
1 AATCTTCAATTC-TTGCG
* *
2934387 AATCTCCAATTCTTGCA
1 AATCTTCAATTCTTGCG
* ** *
2934404 AATC-TAAAAACTTAGTG
1 AATCTTCAATTCTT-GCG
*
2934421 AATC-TCTAATTCTTGTG
1 AATCTTC-AATTCTTGCG
* ** *
2934438 AATC-TAAAAGCTTTGTG
1 AATCTTCAATTC-TTGCG
* *
2934455 AATCTCCAATTCTTGAG
1 AATCTTCAATTCTTGCG
** * *
2934472 AATCTGAAAGTTTTTACG
1 AATCTTCAA-TTCTTGCG
*
2934490 AATCTTCAATTCTTGCA
1 AATCTTCAATTCTTGCG
2934507 AATCT
1 AATCT
2934512 GAATGTCTTG
Statistics
Matches: 143, Mismatches: 55, Indels: 24
0.64 0.25 0.11
Matches are distributed among these distances:
16 20 0.14
17 91 0.64
18 32 0.22
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (17 bp):
AATCTTCAATTCTTGCG
Found at i:2934569 original size:34 final size:34
Alignment explanation
Indices: 2934507--2934571 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
2934497 AATTCTTGCA
* *
2934507 AATCTGAATGTCTTGCCAATCTCCAAAACTTGTG
1 AATCTGAATGTCTTACCAATATCCAAAACTTGTG
* * *
2934541 AATCTGAATGTTTTACGAATATCTAAAACTT
1 AATCTGAATGTCTTACCAATATCCAAAACTT
2934572 ACGAATTTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.35
Consensus pattern (34 bp):
AATCTGAATGTCTTACCAATATCCAAAACTTGTG
Found at i:2934918 original size:86 final size:85
Alignment explanation
Indices: 2934773--2934944 Score: 220
Period size: 86 Copynumber: 2.0 Consensus size: 85
2934763 CTGTAAAGAT
* * * **
2934773 AGACTTTGATTCAATCCAAGTCATCTTGTTTTCGAATTTTGACATATGCCTAATTTTTCTTTGGC
1 AGACTTCGATTCAATCCAAGTCATCTTGTTTTCGAATTTTGACATATGCCAAATCTTTCTTCAGC
*
2934838 TCAGTCCAAGTTATTCATTTC
66 TCAAT-CAAGTTATTCATTTC
* * * * *
2934859 AGACTTCGATTCAATCCAAGTCGTTTTGTCTTT-GGATTTTGACTTATGTCAAATCTTTCTTCAG
1 AGACTTCGATTCAATCCAAGTCATCTTGT-TTTCGAATTTTGACATATGCCAAATCTTTCTTCAG
2934923 CTCAATCAAGTTATTCATTTC
65 CTCAATCAAGTTATTCATTTC
2934944 A
1 A
2934945 TATTACGGTT
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
85 16 0.22
86 55 0.74
87 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.44
Consensus pattern (85 bp):
AGACTTCGATTCAATCCAAGTCATCTTGTTTTCGAATTTTGACATATGCCAAATCTTTCTTCAGC
TCAATCAAGTTATTCATTTC
Found at i:2936138 original size:60 final size:58
Alignment explanation
Indices: 2936065--2936411 Score: 346
Period size: 59 Copynumber: 5.9 Consensus size: 58
2936055 AATTAAAAGC
*
2936065 TTCAAAGAAAT-TTTTTGA-AGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGAT
1 TTCAAAAAAATATTTTTGAGA-AAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAA-AT
*** *
2936123 TTCAAAAAGGGATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGAA
1 TTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAA-AT
* * *
2936182 TTCAAAAAAATATTTTTGAGAAAAAGTTGAAATTATCAGTATTTCTTGAAAATAAAAAT
1 TTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-AAAAT
* * * * *
2936241 TTTAAAAAAATAATTTTAAGGAAAAGTTGAAAGTATCAATTTTT-TT-TAAATAAAATT
1 TTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA-T
* ** * * *
2936298 TTCAAAAAATATATTTTGGAGGGAAAGTTGGAAGTATCAATTTTCCTTTAAAATAAAACT
1 TTCAAAAAA-ATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA-T
* * * * *
2936358 TTC-AAGAAATGTTTGTTTGAGCAAAAGTTGAAAGT-CCTAATATTTCTTGAAAAT
1 TTCAAAAAAAT-ATT-TTTGAGAAAAAGTTGAAAGTATC-AATTTTTCTTGAAAAT
2936412 TTTTAGTATA
Statistics
Matches: 240, Mismatches: 39, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
56 4 0.02
57 13 0.05
58 40 0.17
59 138 0.57
60 45 0.19
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.36
Consensus pattern (58 bp):
TTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAT
Found at i:2936404 original size:177 final size:177
Alignment explanation
Indices: 2936084--2936411 Score: 409
Period size: 177 Copynumber: 1.9 Consensus size: 177
2936074 ATTTTTTGAA
*
2936084 GAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGATTTCAAAAAGGGATTTTTGAGAAAAAG
1 GAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGATTTCAAAAAGAGATTTTTGAGAAAAAG
*
2936149 TTGAAAGTATCAATTTTTCTTGAAAATAAAGAATTCAAAAAAATATTTTTGAGAAAAAGTTGAAA
66 TTGAAAGTATCAATTTTCCTTGAAAATAAAGAATTCAAAAAAATATTTTTGAGAAAAAGTTGAAA
* *
2936214 TTATCAGTATTTCTTGAAAATAAAAATTTTAAAAAAATAATTTTAAG
131 TCATCAATATTTCTTGAAAATAAAAATTTTAAAAAAATAATTTTAAG
* * **
2936261 GAAAAGTTGAAAGTATCAATTTTT-TT-TAAATAAA-ATTTTCAAAAA-ATATATTTTGGAGGGA
1 GAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGA-TTTCAAAAAGAGAT-TTTT-GAGAAA
* * * * * *
2936322 AAGTTGGAAGTATCAATTTTCCTTTAAAATAAA-ACTTTC-AAGAAATGTTTGTTTGAGCAAAAG
63 AAGTTGAAAGTATCAATTTTCCTTGAAAATAAAGA-ATTCAAAAAAAT-ATT-TTTGAGAAAAAG
*
2936385 TTGAAAGTCCT-AATATTTCTTGAAAAT
125 TTGAAA-TCATCAATATTTCTTGAAAAT
2936412 TTTTAGTATA
Statistics
Matches: 129, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
174 3 0.02
175 27 0.21
176 41 0.32
177 56 0.43
178 2 0.02
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.36
Consensus pattern (177 bp):
GAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAGATTTCAAAAAGAGATTTTTGAGAAAAAG
TTGAAAGTATCAATTTTCCTTGAAAATAAAGAATTCAAAAAAATATTTTTGAGAAAAAGTTGAAA
TCATCAATATTTCTTGAAAATAAAAATTTTAAAAAAATAATTTTAAG
Found at i:2937540 original size:12 final size:12
Alignment explanation
Indices: 2937523--2937549 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2937513 CTATTTGATT
2937523 AAAAAAAAAGAA
1 AAAAAAAAAGAA
2937535 AAAAAAAAAGAA
1 AAAAAAAAAGAA
2937547 AAA
1 AAA
2937550 CACTTTTACT
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:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:2938167 original size:44 final size:46
Alignment explanation
Indices: 2938110--2938201 Score: 116
Period size: 44 Copynumber: 2.0 Consensus size: 46
2938100 GAACTTCAGG
* ** *
2938110 AATTTTTTTTAAAATTTGATTTTAATG-TATTTAATATT-AAAATA
1 AATTTTTTATAAAATTAAAGTTTAATGATATTTAATATTAAAAATA
* *
2938154 AATTTTTTATAAAATTAAAGTTTCATGATTTTTAATATTAAAAATA
1 AATTTTTTATAAAATTAAAGTTTAATGATATTTAATATTAAAAATA
2938200 AA
1 AA
2938202 AAAATTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
44 22 0.55
45 10 0.25
46 8 0.20
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (46 bp):
AATTTTTTATAAAATTAAAGTTTAATGATATTTAATATTAAAAATA
Found at i:2938208 original size:24 final size:24
Alignment explanation
Indices: 2938181--2938281 Score: 80
Period size: 23 Copynumber: 4.0 Consensus size: 24
2938171 AAGTTTCATG
*
2938181 ATTTTTAATATTAAAAATAA-AAAA
1 ATTTTAAATATTAAAAA-AATAAAA
*
2938205 ATTTTAAATA-TAAAAAAATAAAT
1 ATTTTAAATATTAAAAAAATAAAA
*
2938228 ATTTTAAATATTCTAAAAAATAGAATATA
1 ATTTTAAATA-T-TAAAAAA-ATAA-A-A
* *
2938257 ATTTTAAGATATTACAAAAAGAAAA
1 ATTTTAA-ATATTAAAAAAATAAAA
2938282 TATGGATAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
22 2 0.03
23 19 0.30
24 9 0.14
25 1 0.02
26 8 0.12
27 7 0.11
28 7 0.11
29 8 0.12
30 3 0.05
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (24 bp):
ATTTTAAATATTAAAAAAATAAAA
Found at i:2938217 original size:17 final size:17
Alignment explanation
Indices: 2938191--2938223 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2938181 ATTTTTAATA
2938191 TTAAAAATAAAAAAATT
1 TTAAAAATAAAAAAATT
*
2938208 TTAAATATAAAAAAAT
1 TTAAAAATAAAAAAAT
2938224 AAATATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TTAAAAATAAAAAAATT
Found at i:2938442 original size:59 final size:59
Alignment explanation
Indices: 2938375--2938487 Score: 208
Period size: 59 Copynumber: 1.9 Consensus size: 59
2938365 ACCTTCTAAT
*
2938375 TATTTTATTAATTAATATATCAATAATTATGTTATTATTTTTATTAAAAAACTTGTAAC
1 TATTTTATTAATCAATATATCAATAATTATGTTATTATTTTTATTAAAAAACTTGTAAC
*
2938434 TATTTTATTAATCAATATATCAATAATTATGTTATTTTTTTTATTAAAAAACTT
1 TATTTTATTAATCAATATATCAATAATTATGTTATTATTTTTATTAAAAAACTT
2938488 TCAAGTCTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (59 bp):
TATTTTATTAATCAATATATCAATAATTATGTTATTATTTTTATTAAAAAACTTGTAAC
Found at i:2945113 original size:63 final size:63
Alignment explanation
Indices: 2945003--2945225 Score: 306
Period size: 63 Copynumber: 3.5 Consensus size: 63
2944993 AATCACAAGT
* * * * *
2945003 TTCTCCAATGAAGGAAGACAACAAGGTAGACTTCTCAGTTGTTGACACAAATTAATCTCTAGC
1 TTCTTCAAGGAAGGAAGACAACTAGGTAAACTTCTCAGTTGTAGACACAAATTAATCTCTAGC
* *
2945066 TTCTTCAAGGAAGGAAGACGATTAGGTAAACTTCTCAGTTGTAGACACCAAA-TAATCTCTAGC
1 TTCTTCAAGGAAGGAAGACAACTAGGTAAACTTCTCAGTTGTAGACA-CAAATTAATCTCTAGC
* *
2945129 TTCTTCAAGGAAGGAAGACAACTAGGTAAACTTCTCAGTTG-ATCACACATATTAATCTCTAGC
1 TTCTTCAAGGAAGGAAGACAACTAGGTAAACTTCTCAGTTGTA-GACACAAATTAATCTCTAGC
* * *
2945192 TTCTTCAAGGAAGTAAGACGATTAGGTAAACTTC
1 TTCTTCAAGGAAGGAAGACAACTAGGTAAACTTC
2945226 CTGACAACTT
Statistics
Matches: 143, Mismatches: 14, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
62 4 0.03
63 135 0.94
64 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (63 bp):
TTCTTCAAGGAAGGAAGACAACTAGGTAAACTTCTCAGTTGTAGACACAAATTAATCTCTAGC
Found at i:2948501 original size:25 final size:27
Alignment explanation
Indices: 2948473--2948531 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 27
2948463 AAACACTTTT
*
2948473 TAAAATTTAATAAAATGA-T-AAAAAC-
1 TAAAATTAAATAAAAT-ATTCAAAAACA
*
2948498 TAAAATAAAATAAAATATTCAAAAACA
1 TAAAATTAAATAAAATATTCAAAAACA
2948525 TAAAATT
1 TAAAATT
2948532 GGCAACAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 1 0.04
25 15 0.54
26 6 0.21
27 6 0.21
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (27 bp):
TAAAATTAAATAAAATATTCAAAAACA
Found at i:2949063 original size:9 final size:8
Alignment explanation
Indices: 2949049--2949082 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
2949039 GAACAAAAAT
2949049 AAAAATAA
1 AAAAATAA
2949057 AATAAATACA
1 AA-AAATA-A
2949067 AAAAATAA
1 AAAAATAA
2949075 AAAAATAA
1 AAAAATAA
2949083 TTATGAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 11 0.46
9 10 0.42
10 3 0.12
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (8 bp):
AAAAATAA
Found at i:2955497 original size:17 final size:17
Alignment explanation
Indices: 2955468--2955501 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
2955458 TTATTTTCAT
2955468 AATATTAAATAATATTA
1 AATATTAAATAATATTA
2955485 AATA-TAAATTAATATTA
1 AATATTAAA-TAATATTA
2955502 TTTTTAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATTAAATAATATTA
Found at i:2956318 original size:66 final size:67
Alignment explanation
Indices: 2956248--2956372 Score: 207
Period size: 66 Copynumber: 1.9 Consensus size: 67
2956238 TCAATATTAC
* *
2956248 GAATTTTCATTTCTTTCTAAAAATAAAAATG-CAAAAATTAATTTGATAGAAAAGTAATCAACAA
1 GAATTTTCATTTATTTCTAAAAATAAAAATGACAAAAATTAAATTGATAGAAAAGTAATCAACAA
2956312 AA
66 AA
* *
2956314 GAATTTTCATTTATTTCTAAAAATAAATATGACAAAAATTAAATTGATAGAAAATTAAT
1 GAATTTTCATTTATTTCTAAAAATAAAAATGACAAAAATTAAATTGATAGAAAAGTAAT
2956373 TGATAAAATA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
66 29 0.54
67 25 0.46
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.34
Consensus pattern (67 bp):
GAATTTTCATTTATTTCTAAAAATAAAAATGACAAAAATTAAATTGATAGAAAAGTAATCAACAA
AA
Found at i:2956375 original size:15 final size:16
Alignment explanation
Indices: 2956348--2956377 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2956338 AAATATGACA
2956348 AAAATTAAATTGATAG
1 AAAATTAAATTGATAG
2956364 AAAATT-AATTGATA
1 AAAATTAAATTGATA
2956378 AAATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (16 bp):
AAAATTAAATTGATAG
Found at i:2962257 original size:23 final size:21
Alignment explanation
Indices: 2962227--2962269 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2962217 CTTCCCATTC
*
2962227 TTTTTTGCATTTCTTTTTTTTTT
1 TTTTTTGC-TTT-TTTTATTTTT
2962250 TTTTTTGCTTTTTTTATTTT
1 TTTTTTGCTTTTTTTATTTT
2962270 CCTATTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 3 0.16
23 8 0.42
ACGTcount: A:0.05, C:0.07, G:0.05, T:0.84
Consensus pattern (21 bp):
TTTTTTGCTTTTTTTATTTTT
Found at i:2963965 original size:23 final size:23
Alignment explanation
Indices: 2963922--2963966 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
2963912 ATCACTTGTG
2963922 TTAATTTTATTGACATTTATACAC
1 TTAATTTTATTGACA-TTATACAC
*
2963946 TTAATTTATATTTACA-TATAC
1 TTAATTT-TATTGACATTATAC
2963967 CTCCAGTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 7 0.37
25 7 0.37
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (23 bp):
TTAATTTTATTGACATTATACAC
Found at i:2964586 original size:15 final size:16
Alignment explanation
Indices: 2964566--2964595 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2964556 CTACTTGATT
2964566 AAAAAGAAA-AAAAAA
1 AAAAAGAAAGAAAAAA
2964581 AAAAAGAAAGAAAAA
1 AAAAAGAAAGAAAAA
2964596 CACTTTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAGAAAAAA
Found at i:2965342 original size:29 final size:28
Alignment explanation
Indices: 2965264--2965343 Score: 71
Period size: 29 Copynumber: 3.0 Consensus size: 28
2965254 TAAAAAAGTA
*
2965264 AATTTTAAATA-TA-AAAAAG-GAA-AT
1 AATTTTAAATATTACAAAAAGAAAATAT
** * *
2965288 -ATTTTAAATATTTTAAAAATAGAATAT
1 AATTTTAAATATTACAAAAAGAAAATAT
2965315 AATTTTAAGATATTACAAAAAGAAAATAT
1 AATTTTAA-ATATTACAAAAAGAAAATAT
2965344 GGATAAAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
23 10 0.23
24 1 0.02
25 5 0.11
26 3 0.07
27 2 0.05
28 7 0.16
29 16 0.36
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.35
Consensus pattern (28 bp):
AATTTTAAATATTACAAAAAGAAAATAT
Found at i:2971480 original size:63 final size:63
Alignment explanation
Indices: 2971408--2971562 Score: 204
Period size: 63 Copynumber: 2.5 Consensus size: 63
2971398 CAAGTTCCTC
* * * *
2971408 CAATGAAGGAAGACAACTAGGTAGATTTCTCAGTTGGTAACACCACCA-AATCACTAGCTTCTT
1 CAATGAAGGAAGACAATTAGGTAAACTTCTCAGTTGGTAACACC-CAATAATCACTAGCTTCTT
** * *
2971471 CAATGAAGGAAGACAATTAGGTAAACTTCTCAGTTTTTTACACCCAATAATCTCTAGCTTCTT
1 CAATGAAGGAAGACAATTAGGTAAACTTCTCAGTTGGTAACACCCAATAATCACTAGCTTCTT
* *
2971534 CAAGGAAGGAAGACGATTAGGTAAACTTC
1 CAATGAAGGAAGACAATTAGGTAAACTTC
2971563 CTAACAACTT
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
62 2 0.02
63 79 0.98
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (63 bp):
CAATGAAGGAAGACAATTAGGTAAACTTCTCAGTTGGTAACACCCAATAATCACTAGCTTCTT
Found at i:2975914 original size:9 final size:9
Alignment explanation
Indices: 2975900--2975942 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
2975890 AAACAAAAAT
2975900 AAAAATAAA
1 AAAAATAAA
*
2975909 ATAAATACAA
1 AAAAATA-AA
2975919 AAAAAT--A
1 AAAAATAAA
2975926 AAAAATAAA
1 AAAAATAAA
2975935 AAAAATAA
1 AAAAATAA
2975943 TTATGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
7 7 0.24
9 15 0.52
10 7 0.24
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (9 bp):
AAAAATAAA
Found at i:2977440 original size:15 final size:16
Alignment explanation
Indices: 2977413--2977442 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2977403 TTTATTTCTA
2977413 AAAATTAAATTGATAG
1 AAAATTAAATTGATAG
2977429 AAAATT-AATTGATA
1 AAAATTAAATTGATA
2977443 AAATAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (16 bp):
AAAATTAAATTGATAG
Found at i:2980206 original size:19 final size:19
Alignment explanation
Indices: 2980182--2980221 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
2980172 CCACATCAAA
*
2980182 CTAAAATTCTTTCAAAGGG
1 CTAAAATTCTTTCAAAAGG
2980201 CTAAAATTCTTTCAAAAGG
1 CTAAAATTCTTTCAAAAGG
2980220 CT
1 CT
2980222 TAATCTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (19 bp):
CTAAAATTCTTTCAAAAGG
Found at i:2980711 original size:15 final size:16
Alignment explanation
Indices: 2980686--2980715 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2980676 TAAAAATAAA
2980686 AAAATTAAATTGATAG
1 AAAATTAAATTGATAG
2980702 AAAATT-AATTGATA
1 AAAATTAAATTGATA
2980716 AAGTAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (16 bp):
AAAATTAAATTGATAG
Found at i:2982701 original size:260 final size:250
Alignment explanation
Indices: 2982237--2982711 Score: 557
Period size: 252 Copynumber: 1.9 Consensus size: 250
2982227 TCAGCAAGCA
* * * *
2982237 TTACAAAATAAAACAGTAACAAGAACTTGATGAGGAGGAAAAAAGCTTCTCACACGAAAGAAGTT
1 TTACAAAATAAAACAGTAACAAGAACCTGATAAGGAGGAAAAAAACTTCTCACACGAAAGAAATT
* * ** *
2982302 CTGTCGTTATCTCTTAAATCTCCTGCTATAATGAACCCTAAAACTCTTTCCAGTTAAAGTTCGAA
66 CTGCCGTTAACTCCAAAATCTCCTGCCATAATGAACCCTAAAACTCTTTCCAGTTAAAGTTCGAA
* * * * *
2982367 AACTCAAAAGATTGTGTTGCCAACAGTCGTTGCAATAATACCTGATATAAATTAGAAATTTACAC
131 AACTCAAAAGATCGTATTGCCAACAGTCGTTGCAATAATACCTAATATAAACTAGAAATTGACAC
*
2982432 GTAATAGTCAAAGACAGGTATATAAAAGATGAGGCAAAATTAAAGTTTAGTAGGC
196 ATAATAGTCAAAGACAGGTATATAAAAGATGAGGCAAAATTAAAGTTTAGTAGGC
* * * *
2982487 TTACAAAATAAAGCAGTAACAAGAACCTGATAATGAGGAAAAAGGAACTTTTCAC-CTAAAGGAA
1 TTACAAAATAAAACAGTAACAAGAACCTGATAAGGAGGAAAAA--AACTTCTCACACGAAA-GAA
*
2982551 ATTCTGCCGTTAACTCCAAAATCTCCTGCCATAATGGACCCTAAAACT-TTTCCAAGTT-AA-TT
63 ATTCTGCCGTTAACTCCAAAATCTCCTGCCATAATGAACCCTAAAACTCTTTCC-AGTTAAAGTT
* *
2982613 CTTG-AAACTCAGAAGATCGTATTGCCAACAGCTATTCTTCTGGTTGTAATAATACCTAATATAA
127 C--GAAAACTCAAAAGATCGTATTGCCAACAG-------TC--GTTGCAATAATACCTAATATAA
*
2982677 ACTAGAAATTGA-AGCATAATAGTCAAAGATAGGTA
181 ACTAGAAATTGACA-CATAATAGTCAAAGACAGGTA
2982712 CTCAAAGCAT
Statistics
Matches: 186, Mismatches: 23, Indels: 22
0.81 0.10 0.10
Matches are distributed among these distances:
250 42 0.23
251 35 0.19
252 57 0.31
258 2 0.01
259 1 0.01
260 49 0.26
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (250 bp):
TTACAAAATAAAACAGTAACAAGAACCTGATAAGGAGGAAAAAAACTTCTCACACGAAAGAAATT
CTGCCGTTAACTCCAAAATCTCCTGCCATAATGAACCCTAAAACTCTTTCCAGTTAAAGTTCGAA
AACTCAAAAGATCGTATTGCCAACAGTCGTTGCAATAATACCTAATATAAACTAGAAATTGACAC
ATAATAGTCAAAGACAGGTATATAAAAGATGAGGCAAAATTAAAGTTTAGTAGGC
Found at i:2982731 original size:260 final size:252
Alignment explanation
Indices: 2982182--2982767 Score: 582
Period size: 251 Copynumber: 2.3 Consensus size: 252
2982172 AATTTAAACG
* * * * * *
2982182 TAATAGTCAGATATAAGTATTCAAAGCATAAAGCAAAA-TATATGTTCAGCAAGCATTACAAAAT
1 TAATAGTCAAAGATAGGTAATCAAAGCATGAAGCAAAATTATAAGTTCAGCAAGCATTACAAAAT
* * * * *
2982246 AAAACAGTAACAAGAACTTGATGAGGAGGAAAAAAGCTTCTCACACGAAAGAAGTTCTGTCGTTA
66 AAAACAGTAACAAGAACCTGATAAGGAGGAAAAAAACTTCTCACACGAAAGAAATTCTGCCGTTA
* ** *
2982311 TCTCTTAAATCTCCTGCTATAATGAACCCTAAAACTCTTTCCAGTTAAAGTTCGAAAACTCAAAA
131 ACTCCAAAATCTCCTGCCATAATGAACCCTAAAACTCTTTCCAGTTAAAGTTCGAAAACTCAAAA
* * * * * *
2982376 GATTGTGTTGCCAACAGTCGTTGCAATAATACCTGATATAAATTAGAAATTTACACG
196 GATCGTATTGCCAACAGTCGTTGCAATAATACCTAATATAAACTAGAAATTGACACA
* * * * * *
2982433 TAATAGTCAAAGACAGGTATATAAAAG-ATGAGGCAAAATTA-AAGTTTAGTAGGC-TTACAAAA
1 TAATAGTCAAAGATAGGTA-ATCAAAGCATGAAGCAAAATTATAAGTTCAGCAAGCATTACAAAA
* * * *
2982495 TAAAGCAGTAACAAGAACCTGATAATGAGGAAAAAGGAACTTTTCAC-CTAAAGGAAATTCTGCC
65 TAAAACAGTAACAAGAACCTGATAAGGAGGAAAAA--AACTTCTCACACGAAA-GAAATTCTGCC
*
2982559 GTTAACTCCAAAATCTCCTGCCATAATGGACCCTAAAACT-TTTCCAAGTT-AA-TTCTTG-AAA
127 GTTAACTCCAAAATCTCCTGCCATAATGAACCCTAAAACTCTTTCC-AGTTAAAGTTC--GAAAA
* *
2982620 CTCAGAAGATCGTATTGCCAACAGCTATTCTTCTGGTTGTAATAATACCTAATATAAACTAGAAA
189 CTCAAAAGATCGTATTGCCAACAG-------TC--GTTGCAATAATACCTAATATAAACTAGAAA
2982685 TTGA-AGCA
245 TTGACA-CA
* * * *
2982693 TAATAGTCAAAGATAGGTACTCAAAGCATGAAGCAAAA-TATATGTTCAACAAGTATTACAAAAT
1 TAATAGTCAAAGATAGGTAATCAAAGCATGAAGCAAAATTATAAGTTCAGCAAGCATTACAAAAT
* *
2982757 AACACAATAAC
66 AAAACAGTAAC
2982768 TAGACCTACT
Statistics
Matches: 267, Mismatches: 47, Indels: 32
0.77 0.14 0.09
Matches are distributed among these distances:
250 42 0.16
251 68 0.25
252 64 0.24
258 2 0.01
259 8 0.03
260 66 0.25
261 17 0.06
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.26
Consensus pattern (252 bp):
TAATAGTCAAAGATAGGTAATCAAAGCATGAAGCAAAATTATAAGTTCAGCAAGCATTACAAAAT
AAAACAGTAACAAGAACCTGATAAGGAGGAAAAAAACTTCTCACACGAAAGAAATTCTGCCGTTA
ACTCCAAAATCTCCTGCCATAATGAACCCTAAAACTCTTTCCAGTTAAAGTTCGAAAACTCAAAA
GATCGTATTGCCAACAGTCGTTGCAATAATACCTAATATAAACTAGAAATTGACACA
Found at i:2986565 original size:58 final size:58
Alignment explanation
Indices: 2986434--2987008 Score: 730
Period size: 58 Copynumber: 9.7 Consensus size: 58
2986424 TCTTATGCGG
* *
2986434 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAAATTTTGATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA----TTTTTTG-AAACTTTGATTTTTAA
* * *
2986497 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTGGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAACTTTGATTTTTAA
** *
2986555 GGAAAATTGATACTTTCAACTTTTCCTCCAAGACCT-TTTTTTGAAA-TTTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCT-CAA-AAATATTTTTTGAAACTTTGATTTTTAA
* * *
2986613 GGAAAATTGATACTTTCAACTTTT-CTCCAAAATATTTTTTTTGAAAATTCTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCT-CAAAA-ATATTTTTTGAAACTT-TGATTTTTAA
*
2986673 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCATTTTTTTTGAAAATTT-ATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-A--TTTTTTGAAACTTTGATTTTTAA
* * *
2986733 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTG-AAACTTTGATTTTTAA
* * * *
2986793 AGAAAATTGATACTTTCAACTTTCCCTCAAAAATCCTTTTTTGAAAATTT-ATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTGAAACTTTGATTTTTAA
* * *
2986851 GAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTCTTTGGAAACTTTGATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATT-TTTTGAAACTTTGATTTTTAA
* *
2986910 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAACTTTGATTTTTAA
2986968 GGAAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTT
2987009 TTGATTTTTA
Statistics
Matches: 456, Mismatches: 40, Indels: 37
0.86 0.08 0.07
Matches are distributed among these distances:
56 1 0.00
57 11 0.02
58 197 0.43
59 75 0.16
60 122 0.27
61 3 0.01
62 13 0.03
63 34 0.07
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (58 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAACTTTGATTTTTAA
Found at i:2986689 original size:118 final size:117
Alignment explanation
Indices: 2986434--2987009 Score: 748
Period size: 118 Copynumber: 4.9 Consensus size: 117
2986424 TCTTATGCGG
**
2986434 GGAAAATTGATACTTTCAACTTTTCC-CCAAAAATATTTTTTTTTTGAAAATTTTGATTTTTAAG
1 GGAAAATTGATACTTTCAACTTTTCCTCC--AAA-ATCCTTTTTTTG-AAATTTT-ATTTTTAAG
* ** * *
2986498 GAAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTGGAAACTTTGATTTTCAA
61 GAAAATTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTGAAAATTTGATTTTCAA
*
2986555 GGAAAATTGATACTTTCAACTTTTCCTCCAAGA-CCTTTTTTTGAAATTTTATTTTTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCCAAAATCCTTTTTTTGAAATTTTATTTTTAAGGAAAA
*
2986619 TTGATACTTTCAACTTTTCTCCAAAATATTTTTTTTGAAAATTCTGATTTTCAA
66 TTGATACTTTCAACTTTTCCCCAAAA-ATTTTTTTTGAAAATT-TGATTTTCAA
* * * *
2986673 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCATTTTTTTTGAAAATTTATTTTTAAGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCCAAAATC-CTTTTTTTGAAATTTTATTTTTAAGGAAA
2986738 ATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTTGATTTTCAA
65 ATTGATACTTTCAACTTTTCCCCAAAAAT-TTTTTTTGAAAA-TTTGATTTTCAA
* * * * *
2986793 AGAAAATTGATACTTTCAACTTTCCCTCAAAAATCC-TTTTTTGAAAATTTATTTTTAAGAAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCCAAAATCCTTTTTTTGAAATTTTATTTTTAAGGAAAA
* * * *
2986857 TTGATACTTTCAACTTTTCCCCAAAAATATTCTTTGGAAACTTTGATTTTTAA
66 TTGATACTTTCAACTTTTCCCCAAAAAT-TTTTTTTGAAAATTTGATTTTCAA
* * * * *
2986910 GGAAAATTGATACTTTCAACTTTTTCTCAAAAAT--ATTTTTTGAAACTTTGATTTTCAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCCAAAATCCTTTTTTTGAAA-TTTTATTTTTAAGGAAA
*
2986973 ATTGATACTTTCAACTTTTCTCCAAAAATATTTTTTT
65 ATTGATACTTTCAACTTTTCCCCAAAAAT-TTTTTTT
2987010 TGATTTTTAT
Statistics
Matches: 414, Mismatches: 32, Indels: 22
0.88 0.07 0.05
Matches are distributed among these distances:
116 48 0.12
117 108 0.26
118 115 0.28
119 4 0.01
120 109 0.26
121 28 0.07
122 2 0.00
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (117 bp):
GGAAAATTGATACTTTCAACTTTTCCTCCAAAATCCTTTTTTTGAAATTTTATTTTTAAGGAAAA
TTGATACTTTCAACTTTTCCCCAAAAATTTTTTTTGAAAATTTGATTTTCAA
Found at i:2987036 original size:5 final size:5
Alignment explanation
Indices: 2987026--2987183 Score: 59
Period size: 5 Copynumber: 31.6 Consensus size: 5
2987016 TTATTTAAAG
*
2987026 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT AAAA- AAAAT AAAGA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAA-AT
* * * *
2987075 AAAGT AAAAC AAAA- ATAA- AAAAT AAAAT AAAGGT -AAA- AAAAT ACTAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT A--AAAT
* * **
2987124 AAACCT AATCTAAT GAAA- AAAAT AAAA- AATTT CAAAA- AAAAT AAAAT
1 AAA-AT AA---AAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT
2987171 AAAAT AAAAT AAA
1 AAAAT AAAAT AAA
2987184 GAAATAAAAA
Statistics
Matches: 115, Mismatches: 17, Indels: 42
0.66 0.10 0.24
Matches are distributed among these distances:
3 3 0.03
4 22 0.19
5 69 0.60
6 9 0.08
7 9 0.08
8 2 0.02
9 1 0.01
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:2987049 original size:18 final size:18
Alignment explanation
Indices: 2987026--2987101 Score: 66
Period size: 18 Copynumber: 3.9 Consensus size: 18
2987016 TTATTTAAAG
2987026 AAAATAAAATAATAAAAC
1 AAAATAAAATAATAAAAC
2987044 AAAATAAAAGTGAAAATAAAA-
1 AAAATAAAA-T---AATAAAAC
*
2987065 AAAATAAAGAAAAGTAAAAC
1 AAAATAAA-ATAA-TAAAAC
2987085 AAAAATAAAA-AATAAAA
1 -AAAATAAAATAATAAAA
2987102 TAAAGGTAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 16
0.74 0.02 0.24
Matches are distributed among these distances:
18 16 0.33
19 8 0.16
20 1 0.02
21 16 0.33
22 8 0.16
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (18 bp):
AAAATAAAATAATAAAAC
Found at i:2987059 original size:25 final size:23
Alignment explanation
Indices: 2987026--2987115 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 23
2987016 TTATTTAAAG
*
2987026 AAAA-TAAAATAATAAAACAAAAT
1 AAAAGTAAAATAA-AAAAAAAAAT
*
2987049 AAAAGTGAAAATAAAAAAAATAAAG
1 AAAAGT-AAAATAAAAAAAA-AAAT
*
2987074 AAAAGTAAAACAAAAATAAAAAAT
1 AAAAGTAAAATAAAAA-AAAAAAT
*
2987098 AAAA-TAAAGGTAAAAAAA
1 AAAAGTAAA-ATAAAAAAA
2987116 TACTAAATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
23 10 0.18
24 27 0.48
25 19 0.34
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (23 bp):
AAAAGTAAAATAAAAAAAAAAAT
Found at i:2987234 original size:12 final size:12
Alignment explanation
Indices: 2987217--2987248 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
2987207 AAACCTGGAG
2987217 CGGCTCGGAGTA
1 CGGCTCGGAGTA
2987229 CGGCTCGGAGTA
1 CGGCTCGGAGTA
2987241 CGGCTCGG
1 CGGCTCGG
2987249 CTCGGCTCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.28, G:0.44, T:0.16
Consensus pattern (12 bp):
CGGCTCGGAGTA
Found at i:2987999 original size:4 final size:4
Alignment explanation
Indices: 2987990--2988016 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2987980 GACAAATCAA
2987990 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
2988017 AGAAAAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:2988106 original size:3 final size:3
Alignment explanation
Indices: 2988100--2988246 Score: 71
Period size: 3 Copynumber: 48.7 Consensus size: 3
2988090 AGAAGAAAAA
2988100 AAT AAT AAT AA- AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AA- AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* **
2988146 ATAT ACAT ATT AAT AAAT ACAT AAAT CCCT AA- AA- AAT AAT AAT AA-
1 A-AT A-AT AAT AAT -AAT A-AT -AAT -AAT AAT AAT AAT AAT AAT AAT
* * *
2988191 AAG AA- AAA AAT -AT ATAT ATAT ACAT ATAT AA- AAT AAT AAT AAT AAA
1 AAT AAT AAT AAT AAT A-AT A-AT A-AT A-AT AAT AAT AAT AAT AAT AAT
2988237 AAT AA- AAT AA
1 AAT AAT AAT AA
2988247 AAATGTAAAA
Statistics
Matches: 116, Mismatches: 14, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
2 19 0.16
3 68 0.59
4 28 0.24
5 1 0.01
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:2988243 original size:20 final size:20
Alignment explanation
Indices: 2988095--2988294 Score: 71
Period size: 20 Copynumber: 9.9 Consensus size: 20
2988085 AAAAAAGAAG
*
2988095 AAAAAAATAATAAT-AAAAT
1 AAAATAATAATAATAAAAAT
*
2988114 AAAATAATAATAATAATAAT
1 AAAATAATAATAATAAAAAT
* *
2988134 AATAATAA-AGAT-ATATACAT
1 AA-AATAATA-ATAATAAAAAT
* **
2988154 --ATTAATAAATACATAAATCCCT
1 AAAATAAT-AATA-ATAAA--AAT
2988176 AAAA-AATAATAATAAAAGA-
1 AAAATAATAATAATAAAA-AT
2988195 AAAA-AATATATATATATACATATAT
1 AAAATAATA-ATA-ATA-A-A-A-AT
2988220 AAAATAATAATAATAAAAAT
1 AAAATAATAATAATAAAAAT
* *
2988240 AAAATAAAAAT-GT-AAAAT
1 AAAATAATAATAATAAAAAT
* * **
2988258 ACAA-AATAAAAATAAATTT
1 AAAATAATAATAATAAAAAT
* *
2988277 AAAAAAATAAAAATAAAA
1 AAAATAATAATAATAAAA
2988295 TGAAGAGAAA
Statistics
Matches: 137, Mismatches: 22, Indels: 43
0.68 0.11 0.21
Matches are distributed among these distances:
17 8 0.06
18 11 0.08
19 29 0.21
20 43 0.31
21 16 0.12
22 8 0.06
23 5 0.04
24 6 0.04
25 7 0.05
26 4 0.03
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.26
Consensus pattern (20 bp):
AAAATAATAATAATAAAAAT
Found at i:2988263 original size:7 final size:6
Alignment explanation
Indices: 2988225--2988294 Score: 63
Period size: 6 Copynumber: 11.2 Consensus size: 6
2988215 TATATAAAAT
* *
2988225 AATAAT AATAAA AAT-AA AATAAA AATGTAA AATACAA AATAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AAT-AAA AATA-AA AATAAA AATAAA
2988274 TTTAA-AAA AATAAA AATAAA A
1 ---AATAAA AATAAA AATAAA A
2988295 TGAAGAGAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
5 7 0.13
6 31 0.57
7 11 0.20
8 3 0.06
9 2 0.04
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (6 bp):
AATAAA
Found at i:2988267 original size:45 final size:47
Alignment explanation
Indices: 2988115--2988294 Score: 122
Period size: 46 Copynumber: 3.7 Consensus size: 47
2988105 TAATAAAATA
* *
2988115 AAATAATAATAATAATAATAATAATAAAGATATATACATATTAATAAATACAT
1 AAATAA-AATAATAATAATAAAAATAAA-ATA-A-AAATA-T-ATAAATACAT
* * *
2988168 AAATCCCTAAAA-AATAATAAT-AAAAGAAAA-AAATATATATATATACAT
1 AAA----TAAAATAATAATAATAAAAATAAAATAAAAATATATAAATACAT
* *
2988216 ATATAAAATAATAATAATAAAAATAAAATAAAAATGTA-AAATACA-
1 AAATAAAATAATAATAATAAAAATAAAATAAAAATATATAAATACAT
*
2988261 AAATAAAAATAA-ATTTAA-AAAAATAAAAATAAAA
1 AAAT-AAAATAATA-ATAATAAAAAT-AAAATAAAA
2988295 TGAAGAGAAA
Statistics
Matches: 106, Mismatches: 11, Indels: 27
0.74 0.08 0.19
Matches are distributed among these distances:
44 5 0.05
45 19 0.18
46 33 0.31
47 7 0.07
48 11 0.10
49 1 0.01
50 4 0.04
51 1 0.01
52 1 0.01
53 4 0.04
54 6 0.06
55 9 0.08
56 2 0.02
57 3 0.03
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (47 bp):
AAATAAAATAATAATAATAAAAATAAAATAAAAATATATAAATACAT
Found at i:2988274 original size:24 final size:24
Alignment explanation
Indices: 2988231--2988294 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
2988221 AAATAATAAT
2988231 AATAAAAATAAAATAAAAATGTAA
1 AATAAAAATAAAATAAAAATGTAA
* *
2988255 AATACAAAATAAAA-ATAAATTTAA
1 AATA-AAAATAAAATAAAAATGTAA
*
2988279 AA-AAATA-AAAATAAAA
1 AATAAAAATAAAATAAAA
2988295 TGAAGAGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 4 0.12
22 6 0.18
23 1 0.03
24 14 0.41
25 9 0.26
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (24 bp):
AATAAAAATAAAATAAAAATGTAA
Found at i:2993314 original size:52 final size:52
Alignment explanation
Indices: 2993228--2993384 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 52
2993218 TATAACCATA
* * * *
2993228 CAAACTTGCCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCATTTCCTCTTAGAATTCTTCTCCTGCAAGT
* *
2993280 CAAACTTGCCTATTAAGAATCCATTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCATTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * * **
2993332 TAAACTTACCTATTAAGAAT-CATCTTTCTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCAT-TTCCTCTTAGAATTCTTCTCCTGCAAGT
2993384 C
1 C
2993385 TTCTTGTCCA
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
51 3 0.03
52 88 0.97
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.39
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCATTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:2993448 original size:11 final size:11
Alignment explanation
Indices: 2993409--2993450 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
2993399 GCAATATCTG
*
2993409 ACAAATTTCAA
1 ACAAATCTCAA
**
2993420 ACAAATCTTTA
1 ACAAATCTCAA
2993431 ACAAATCTCAA
1 ACAAATCTCAA
2993442 ACAAATCTC
1 ACAAATCTC
2993451 TTATGGGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:3003456 original size:22 final size:22
Alignment explanation
Indices: 3003431--3003476 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
3003421 CATAATACTT
3003431 GATAAATTTTCAAATAAATGGG
1 GATAAATTTTCAAATAAATGGG
3003453 GATAAATTTTCAAATAAATGGG
1 GATAAATTTTCAAATAAATGGG
3003475 GA
1 GA
3003477 ACATGACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.30
Consensus pattern (22 bp):
GATAAATTTTCAAATAAATGGG
Found at i:3006802 original size:19 final size:18
Alignment explanation
Indices: 3006778--3006820 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
3006768 TCAAATCAAA
*
3006778 TTATATATTTTTATTAATT
1 TTATATATTTTT-TAAATT
3006797 TTATATATTTTTTAAATT
1 TTATATATTTTTTAAATT
3006815 TT-TATA
1 TTATATA
3006821 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.17
18 7 0.30
19 12 0.52
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTATATATTTTTTAAATT
Found at i:3008426 original size:2 final size:2
Alignment explanation
Indices: 3008419--3008446 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3008409 AGAGCTCTTA
3008419 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3008447 GATTAATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3009982 original size:27 final size:27
Alignment explanation
Indices: 3009952--3010005 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
3009942 AACAGAATAC
*
3009952 TCAGATTATCAAAACACAGTAGCATAA
1 TCAGAGTATCAAAACACAGTAGCATAA
*
3009979 TCAGAGTATCAAAACACAGTAGTATAA
1 TCAGAGTATCAAAACACAGTAGCATAA
3010006 GTAAGATGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (27 bp):
TCAGAGTATCAAAACACAGTAGCATAA
Found at i:3011605 original size:63 final size:63
Alignment explanation
Indices: 3011483--3011632 Score: 153
Period size: 62 Copynumber: 2.4 Consensus size: 63
3011473 GATTAAAACA
* ** ** * *
3011483 CCTTGAATAATCCTTTCTAAAAAATTGAAGTGATTATTGAAGATATTTTTTTAC-AAAAAATG
1 CCTTGAATAATCCTCTCTAAAAAATAAAAGCAATTATTGAAGACATTTTTCTACAAAAAAATG
* *
3011545 CTTTGAATAATCCTCTCATAAAAAATAAAAGCAATTATTGAAGGCA-TTTTCTACAAAAAAAATG
1 CCTTGAATAATCCTCTC-TAAAAAATAAAAGCAATTATTGAAGACATTTTTCTAC-AAAAAAATG
* * *
3011609 CCTTCAATAATTCT-TTTAAAAAAT
1 CCTTGAATAATCCTCTCTAAAAAAT
3011633 TATAGAGGAT
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
62 30 0.42
63 23 0.32
64 19 0.26
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (63 bp):
CCTTGAATAATCCTCTCTAAAAAATAAAAGCAATTATTGAAGACATTTTTCTACAAAAAAATG
Found at i:3011707 original size:63 final size:63
Alignment explanation
Indices: 3011578--3011778 Score: 171
Period size: 63 Copynumber: 3.2 Consensus size: 63
3011568 AATAAAAGCA
* * * * * ****
3011578 ATTATTGAAGGCATTTTCTACAAAAAAAATGCCTTCAATAATTCTTTTAA-AAAATTAT-AGAGG
1 ATTATTGAAAGCATTTTGTACAAAAAAAA--CCTTCAATAATCCCTTCAATTTTTTTATGAGAGG
* * * *
3011641 ATTATTGAAAGTATTTTTTATCAAAAAAAACCTTCAATAATCTCCTT-TA-TTTTTTATGAGAAG
1 ATTATTGAAAGCATTTTGTA-CAAAAAAAACCTTCAATAATC-CCTTCAATTTTTTTATGAGAGG
* *
3011704 ATTATT-AAAGGCGTTTTGTACAAAAAACACCTTCAATAATCCCTTCCAATTTTTTTATGAG-GG
1 ATTATTGAAA-GCATTTTGTACAAAAAAAACCTTCAATAATCCCTT-CAATTTTTTTATGAGAGG
3011767 ATTATTGAAAGC
1 ATTATTGAAAGC
3011779 GTTTCAAACA
Statistics
Matches: 113, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
61 4 0.04
62 39 0.35
63 47 0.42
64 23 0.20
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (63 bp):
ATTATTGAAAGCATTTTGTACAAAAAAAACCTTCAATAATCCCTTCAATTTTTTTATGAGAGG
Found at i:3011781 original size:63 final size:63
Alignment explanation
Indices: 3011632--3011782 Score: 177
Period size: 63 Copynumber: 2.4 Consensus size: 63
3011622 TTTTAAAAAA
** * *
3011632 TTAT-AGAGGATTATTGAAAGTATTTTTTATCAAAAAAAACCTTCAATAATCTCCTTTATTTT
1 TTATGAGAGGATTATTGAAAGCGTTTTGTATCAAAAAAAACCTTCAATAATCTCCTTAATTTT
* *
3011694 TTATGAGAAGATTATT-AAAGGCGTTTTGTA-CAAAAAACACCTTCAATAATC-CCTTCCAATTT
1 TTATGAGAGGATTATTGAAA-GCGTTTTGTATCAAAAAAAACCTTCAATAATCTCCTT--AA-TT
3011756 TT
62 TT
3011758 TTATGAG-GGATTATTGAAAGCGTTT
1 TTATGAGAGGATTATTGAAAGCGTTT
3011783 CAAACAAAAA
Statistics
Matches: 76, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
61 4 0.05
62 27 0.36
63 31 0.41
64 14 0.18
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (63 bp):
TTATGAGAGGATTATTGAAAGCGTTTTGTATCAAAAAAAACCTTCAATAATCTCCTTAATTTT
Found at i:3011792 original size:62 final size:62
Alignment explanation
Indices: 3011662--3011807 Score: 156
Period size: 62 Copynumber: 2.4 Consensus size: 62
3011652 TATTTTTTAT
* * ***
3011662 CAAAAAAAACCTTCAATAATCTCCTTTATTTTTTATGAGAAGATTATTAAAGGCGTTTTGTA
1 CAAAAAACACCTTCAATAATCTCCTTAATTTTTTATGAGAAGATTATTAAAGGCGTTTCAAA
*
3011724 CAAAAAACACCTTCAATAATC-CCTTCCAATTTTTTTATGAG-GGATTATTGAAA-GCGTTTCAA
1 CAAAAAACACCTTCAATAATCTCCTT--AA-TTTTTTATGAGAAGATTATT-AAAGGCGTTTCAA
3011786 A
62 A
* *
3011787 C-AAAAACATCTTAAATAATCT
1 CAAAAAACACCTTCAATAATCT
3011808 ACTCATAAAG
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
61 4 0.06
62 37 0.52
63 16 0.23
64 14 0.20
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (62 bp):
CAAAAAACACCTTCAATAATCTCCTTAATTTTTTATGAGAAGATTATTAAAGGCGTTTCAAA
Found at i:3012419 original size:62 final size:62
Alignment explanation
Indices: 3012313--3012491 Score: 186
Period size: 63 Copynumber: 2.8 Consensus size: 62
3012303 ATTGAAGGCG
* * *
3012313 TAATCCCCTTATAAAAAAATGAAAAGG-ATTATTGAAAGTATTTTTTG-CAGAAAACACCT-TCA
1 TAATCCCC-TCTAAAAAATTG-AAAGGAATTATTGAAAGTA-TTTTTGACAAAAAACA-CTATCA
3012375 A
62 A
* * * *
3012376 TAGTCCCCTCTAAAAAATTGGAGGGAATTATTGAATG-AGTTTTTGACCAAAAAACACTATCAA
1 TAATCCCCTCTAAAAAATTGAAAGGAATTATTGAAAGTA-TTTTTGA-CAAAAAACACTATCAA
* *
3012439 TAATCCCCTCTAAAAAATTGAAAGGAATTATCGAAGGTATTTTTGATCAAAAA
1 TAATCCCCTCTAAAAAATTGAAAGGAATTATTGAAAGTATTTTTGA-CAAAAA
3012492 TACTTTTAAT
Statistics
Matches: 97, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
61 10 0.10
62 22 0.23
63 64 0.66
64 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (62 bp):
TAATCCCCTCTAAAAAATTGAAAGGAATTATTGAAAGTATTTTTGACAAAAAACACTATCAA
Found at i:3012787 original size:15 final size:16
Alignment explanation
Indices: 3012756--3012793 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
3012746 ATATACCAAT
3012756 AATTATATATAAATTA
1 AATTATATATAAATTA
3012772 AATTATATAT-AATTA
1 AATTATATATAAATTA
3012787 AATTATA
1 AATTATA
3012794 AATATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATTATATATAAATTA
Found at i:3012918 original size:23 final size:22
Alignment explanation
Indices: 3012891--3012933 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
3012881 GAATTTTAAT
3012891 AATTAA-AGTTATTAGATATTATA
1 AATTAATA-TTATTAG-TATTATA
3012914 AATTAATATTATTAGTATTA
1 AATTAATATTATTAGTATTA
3012934 GAATAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 13 0.68
24 1 0.05
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (22 bp):
AATTAATATTATTAGTATTATA
Found at i:3018046 original size:27 final size:27
Alignment explanation
Indices: 3018006--3018058 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
3017996 AACTTGCCTA
3018006 TTAAGAATCCATTTCCTTTTAAAATTC
1 TTAAGAATCCATTTCCTTTTAAAATTC
** *
3018033 TTAAGAATTTATTTCCTTTTAGAATT
1 TTAAGAATCCATTTCCTTTTAAAATT
3018059 TTTTTTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.49
Consensus pattern (27 bp):
TTAAGAATCCATTTCCTTTTAAAATTC
Found at i:3023575 original size:38 final size:38
Alignment explanation
Indices: 3023506--3023578 Score: 92
Period size: 38 Copynumber: 1.9 Consensus size: 38
3023496 TGTTCACTTG
* * *
3023506 ATAAAAGTGATATGTTTCGGCTCACACGCATTCGGTTA
1 ATAAAAATGATATATTTCCGCTCACACGCATTCGGTTA
* **
3023544 ATAAAAATGATATATTTCCGTTCACGGGCATTCGG
1 ATAAAAATGATATATTTCCGCTCACACGCATTCGG
3023579 ATAGGTTGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 29 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (38 bp):
ATAAAAATGATATATTTCCGCTCACACGCATTCGGTTA
Found at i:3032912 original size:19 final size:19
Alignment explanation
Indices: 3032885--3032924 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
3032875 ACATGTCAGA
*
3032885 CTAAAATTCTTTCAAAGGG
1 CTAAAATTCTTTCAAAAGG
*
3032904 CTAAGATTCTTTCAAAAGG
1 CTAAAATTCTTTCAAAAGG
3032923 CT
1 CT
3032925 TAATCTACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (19 bp):
CTAAAATTCTTTCAAAAGG
Found at i:3035955 original size:22 final size:22
Alignment explanation
Indices: 3035912--3035957 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
3035902 TAAAAATTAA
* *
3035912 ATTTTAAATATTTTATATTTAT
1 ATTTTAAATATTTAATACTTAT
3035934 ATTTTAAAT-TTTAATCACTTAT
1 ATTTTAAATATTTAAT-ACTTAT
3035956 AT
1 AT
3035958 GAATCTCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (22 bp):
ATTTTAAATATTTAATACTTAT
Done.