Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 26 of 344
Found at i:8869632 original size:29 final size:29
Alignment explanation
Indices: 8869599--8869658 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
8869589 TAGGAATAGG
*
8869599 AAATTCCATTAGGATATCTTAGGTTAGTT
1 AAATTCCATTAGGATATCTTAGGTTAATT
* * *
8869628 AAATTCCATTAGGTTATGTTTGGTTAATT
1 AAATTCCATTAGGATATCTTAGGTTAATT
8869657 AA
1 AA
8869659 TTTAATTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (29 bp):
AAATTCCATTAGGATATCTTAGGTTAATT
Found at i:8877281 original size:40 final size:40
Alignment explanation
Indices: 8877198--8877540 Score: 280
Period size: 40 Copynumber: 8.6 Consensus size: 40
8877188 TTGAATGCTG
* * * * *
8877198 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGA-T-ACTAAA
* * *
8877238 TCCGGACTAAGAT-CCGAAGGCCTTTGTTCGAGATACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTCGTGCGAGATACTAAA
** * *
8877278 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
** * * *
8877318 TCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
** * *
8877358 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
** * **
8877398 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
** * **
8877438 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
** * * *
8877478 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
* * *
8877517 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATT
8877541 TGAACGAGGA
Statistics
Matches: 278, Mismatches: 21, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.13
40 233 0.84
41 9 0.03
42 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:8877338 original size:80 final size:80
Alignment explanation
Indices: 8877198--8877540 Score: 449
Period size: 80 Copynumber: 4.3 Consensus size: 80
8877188 TTGAATGCTG
* * * * * * ** *
8877198 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
8877261 TTGTTCGAGATACTAAA
64 TCGTGCGAGTTACTAAA
*
8877278 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCAAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
8877343 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
8877358 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
**
8877423 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* *
8877438 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
8877502 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* * *
8877517 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
8877541 TGAACGAGGA
Statistics
Matches: 237, Mismatches: 24, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
79 34 0.14
80 197 0.83
81 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:8877411 original size:120 final size:119
Alignment explanation
Indices: 8877251--8877540 Score: 454
Period size: 120 Copynumber: 2.4 Consensus size: 119
8877241 GGACTAAGAT
* * *
8877251 CCGAAGGCCTTTGTTCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTA
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTA
8877316 AATCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
65 AATCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
8877371 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTA
* * *
8877436 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
65 AATCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * *
8877491 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
8877541 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
119 37 0.24
120 119 0.76
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (119 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
ATCCGGGTTAAGTCCCAAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:8891081 original size:15 final size:15
Alignment explanation
Indices: 8891061--8891092 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8891051 TTTATTAATA
8891061 AAATGTACAAGGATT
1 AAATGTACAAGGATT
8891076 AAATGTACAAGGATT
1 AAATGTACAAGGATT
8891091 AA
1 AA
8891093 GTACTCAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (15 bp):
AAATGTACAAGGATT
Found at i:8899616 original size:59 final size:59
Alignment explanation
Indices: 8899516--8899633 Score: 173
Period size: 59 Copynumber: 2.0 Consensus size: 59
8899506 CATTGATTTA
*
8899516 TTTTTGAATATTTTTGTACAAATTATTTTTAAATTGCTTCATCTAATAAAATAGAAGTT
1 TTTTTGAATATGTTTGTACAAATTATTTTTAAATTGCTTCATCTAATAAAATAGAAGTT
* * * * * *
8899575 TTTTTGAATATGTTTGTGCAAATTATTTTTATATTGTTTCATTTAATAAATTAGGAGTT
1 TTTTTGAATATGTTTGTACAAATTATTTTTAAATTGCTTCATCTAATAAAATAGAAGTT
8899634 ACTTCGATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (59 bp):
TTTTTGAATATGTTTGTACAAATTATTTTTAAATTGCTTCATCTAATAAAATAGAAGTT
Found at i:8905165 original size:5 final size:5
Alignment explanation
Indices: 8905157--8905231 Score: 55
Period size: 5 Copynumber: 14.2 Consensus size: 5
8905147 CTTTTCTTTC
*
8905157 TTTAT TTTAT TTTAT TTTAT CTTTA- TTTA- TTTATT TATTAT GCTTATT
1 TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT TTTA-T T-TTAT -TTTA-T
* *
8905205 TGTTAT ATTAA TTTAT TTTAT TTTAT T
1 T-TTAT TTTAT TTTAT TTTAT TTTAT T
8905232 CCTGTATTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
4 8 0.14
5 32 0.56
6 10 0.18
7 7 0.12
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (5 bp):
TTTAT
Found at i:8906105 original size:23 final size:23
Alignment explanation
Indices: 8906079--8906122 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
8906069 CTTACAGCAA
8906079 GTGATGTCGACCCATAACAAGAC
1 GTGATGTCGACCCATAACAAGAC
*
8906102 GTGATGTCGACCCATGACAAG
1 GTGATGTCGACCCATAACAAG
8906123 CCGGGCACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (23 bp):
GTGATGTCGACCCATAACAAGAC
Found at i:8906993 original size:6 final size:6
Alignment explanation
Indices: 8906984--8907040 Score: 69
Period size: 6 Copynumber: 9.0 Consensus size: 6
8906974 TTTCTTTTCA
* *
8906984 TTTTAG TTTTAT TTTTAT TTTTAT CTTTAT TTTTAT TTTTAGT TATTTAAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T T-TTT-AT
8907035 TTTTAT
1 TTTTAT
8907041 GTTCTTAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
6 34 0.76
7 5 0.11
8 5 0.11
9 1 0.02
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:8908029 original size:12 final size:13
Alignment explanation
Indices: 8908012--8908043 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
8908002 CTGATTGTTC
8908012 AGAAAAAAAA-CA
1 AGAAAAAAAATCA
8908024 AGAAAAAAAATCA
1 AGAAAAAAAATCA
8908037 A-AAAAAA
1 AGAAAAAA
8908044 TATATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 16 0.84
13 3 0.16
ACGTcount: A:0.84, C:0.06, G:0.06, T:0.03
Consensus pattern (13 bp):
AGAAAAAAAATCA
Found at i:8915004 original size:6 final size:6
Alignment explanation
Indices: 8914993--8915043 Score: 66
Period size: 6 Copynumber: 8.0 Consensus size: 6
8914983 GTTTAAGAAC
*
8914993 ATAAAA ATAAAACA ACTAAAA ATAAAA ATAAAA ATAAAG ATAAAA ATAAAA
1 ATAAAA AT-AAA-A A-TAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
8915044 CTATAACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
6 29 0.73
7 5 0.12
8 5 0.12
9 1 0.03
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:8915068 original size:42 final size:39
Alignment explanation
Indices: 8914993--8915074 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 39
8914983 GTTTAAGAAC
* *
8914993 ATAAAAATAAAACAACTAAAAATAAAAATAAAAATAAAG
1 ATAAAAATAAAACAACTAAAAATAAAAAGAAAAAAAAAG
* *
8915032 ATAAAAATAAAACTATAACTATAACTAAAAAGAAAAAAAAAG
1 ATAAAAATAAAAC---AACTAAAAATAAAAAGAAAAAAAAAG
8915074 A
1 A
8915075 AATAAACTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 13 0.36
42 23 0.64
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.16
Consensus pattern (39 bp):
ATAAAAATAAAACAACTAAAAATAAAAAGAAAAAAAAAG
Found at i:8920209 original size:56 final size:57
Alignment explanation
Indices: 8920149--8920263 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
8920139 TATTATTTAA
*
8920149 ATTAATAAATTTATATTTT-GTATCATTCATAAATGAAATATAATATAATATATTTT
1 ATTAATAAATTTATATTTTGGTATCATTCATAAATGAAATATAATAAAATATATTTT
*
8920205 ATTAATAAATTTATATTTTGGTATCATTTATAAATGAAATATAATAAAATATATTTT
1 ATTAATAAATTTATATTTTGGTATCATTCATAAATGAAATATAATAAAATATATTTT
8920262 AT
1 AT
8920264 CATTTTAAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 19 0.34
57 37 0.66
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (57 bp):
ATTAATAAATTTATATTTTGGTATCATTCATAAATGAAATATAATAAAATATATTTT
Found at i:8920234 original size:29 final size:29
Alignment explanation
Indices: 8920155--8920244 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 29
8920145 TTAAATTAAT
*
8920155 AAATTTATATTTTGTATCATTCATAAATG
1 AAATTTATATTTTGTATCATTTATAAATG
* * ** *
8920184 AAATATA-ATATAATAT-ATTTTATTAAT-
1 AAATTTATATTTTGTATCA-TTTATAAATG
8920211 AAATTTATATTTTGGTATCATTTATAAATG
1 AAATTTATATTTT-GTATCATTTATAAATG
8920241 AAAT
1 AAAT
8920245 ATAATAAAAT
Statistics
Matches: 45, Mismatches: 11, Indels: 9
0.69 0.17 0.14
Matches are distributed among these distances:
27 7 0.16
28 16 0.36
29 17 0.38
30 5 0.11
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (29 bp):
AAATTTATATTTTGTATCATTTATAAATG
Found at i:8924276 original size:4 final size:4
Alignment explanation
Indices: 8924262--8924301 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
8924252 ATGTAAAAAT
8924262 ATAA A-AA ATAA ATAA ATAA TATAA A-AA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA -ATAA ATAA ATAA ATAA ATAA A
8924302 GGCAAACTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 6 0.18
4 23 0.70
5 4 0.12
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:8924282 original size:20 final size:20
Alignment explanation
Indices: 8924255--8924300 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
8924245 TCTTATAATG
8924255 TAAA-AATATAAAAAATAAA
1 TAAATAATATAAAAAATAAA
8924274 TAAATAATATAAAAAATAAA
1 TAAATAATATAAAAAATAAA
8924294 TAAATAA
1 TAAATAA
8924301 AGGCAAACTC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (20 bp):
TAAATAATATAAAAAATAAA
Found at i:8925016 original size:61 final size:62
Alignment explanation
Indices: 8924942--8925072 Score: 169
Period size: 61 Copynumber: 2.1 Consensus size: 62
8924932 ACTTTTAGGA
* * * *
8924942 GCTTAATGGGAATTTCTAAAAATTTT-GGGAATCTAATTAAAATT-TTAAAATATTTTTAAAG
1 GCTTAATGGGAATTTCTAAAAATTTTAGAG-ACCTAATTAAAATTATTAAAAAATTTATAAAG
* *
8925003 GCTTAA-GGAGAATTTTTAAAAATTTTAGAGCCCTAATTAAAATTATTAAAAAATTTATAAAG
1 GCTTAATGG-GAATTTCTAAAAATTTTAGAGACCTAATTAAAATTATTAAAAAATTTATAAAG
8925065 GCTTAATG
1 GCTTAATG
8925073 ATAAATTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
60 2 0.03
61 34 0.57
62 23 0.38
63 1 0.02
ACGTcount: A:0.43, C:0.06, G:0.13, T:0.38
Consensus pattern (62 bp):
GCTTAATGGGAATTTCTAAAAATTTTAGAGACCTAATTAAAATTATTAAAAAATTTATAAAG
Found at i:8927984 original size:4 final size:4
Alignment explanation
Indices: 8927977--8928001 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
8927967 AAAATGTTAC
8927977 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
8928002 CAATATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:8929228 original size:39 final size:39
Alignment explanation
Indices: 8929174--8929320 Score: 213
Period size: 39 Copynumber: 3.8 Consensus size: 39
8929164 ATTTAATCAA
* *
8929174 TAACAATCAGTTATTCAATACAGTAATTTAGTTATTCAG
1 TAACTATCAATTATTCAATACAGTAATTTAGTTATTCAG
* * * * *
8929213 TAACTATCAAATATTCATTGCAGTAGTTTAGTTATTCAA
1 TAACTATCAATTATTCAATACAGTAATTTAGTTATTCAG
8929252 TAACTATCAATTATTCAATACAGTAATTTAGTTATTCAG
1 TAACTATCAATTATTCAATACAGTAATTTAGTTATTCAG
* *
8929291 TAACTATCAATTATTCAGTACAGTAGTTTA
1 TAACTATCAATTATTCAATACAGTAATTTA
8929321 CCCCTATTAA
Statistics
Matches: 94, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 94 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (39 bp):
TAACTATCAATTATTCAATACAGTAATTTAGTTATTCAG
Found at i:8929270 original size:78 final size:78
Alignment explanation
Indices: 8929170--8929320 Score: 257
Period size: 78 Copynumber: 1.9 Consensus size: 78
8929160 TCATATTTAA
* * *
8929170 TCAATAACAATCAGTTATTCAATACAGTAATTTAGTTATTCAGTAACTATCAAATATTCATTGCA
1 TCAATAACAATCAATTATTCAATACAGTAATTTAGTTATTCAGTAACTATCAAATATTCAGTACA
8929235 GTAGTTTAGTTAT
66 GTAGTTTAGTTAT
* *
8929248 TCAATAACTATCAATTATTCAATACAGTAATTTAGTTATTCAGTAACTATCAATTATTCAGTACA
1 TCAATAACAATCAATTATTCAATACAGTAATTTAGTTATTCAGTAACTATCAAATATTCAGTACA
8929313 GTAGTTTA
66 GTAGTTTA
8929321 CCCCTATTAA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (78 bp):
TCAATAACAATCAATTATTCAATACAGTAATTTAGTTATTCAGTAACTATCAAATATTCAGTACA
GTAGTTTAGTTAT
Found at i:8929310 original size:18 final size:18
Alignment explanation
Indices: 8929244--8929307 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
8929234 AGTAGTTTAG
8929244 TTATTCAATAACTATCAA
1 TTATTCAATAACTATCAA
* * *
8929262 TTATTCAATACAGTAATTTAG
1 TTATTCAATA-ACT-A-TCAA
*
8929283 TTATTCAGTAACTATCAA
1 TTATTCAATAACTATCAA
8929301 TTATTCA
1 TTATTCA
8929308 GTACAGTAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
18 19 0.53
19 3 0.08
20 3 0.08
21 11 0.31
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (18 bp):
TTATTCAATAACTATCAA
Found at i:8930538 original size:27 final size:30
Alignment explanation
Indices: 8930503--8930563 Score: 92
Period size: 27 Copynumber: 2.1 Consensus size: 30
8930493 ATTATTTAAT
8930503 TAATAAATATCT-TTTAC-T-AATAATAAA
1 TAATAAATATCTATTTACTTAAATAATAAA
*
8930530 TAATAAATATCTATTTACTTAAATAATAAG
1 TAATAAATATCTATTTACTTAAATAATAAA
8930560 TAAT
1 TAAT
8930564 TTAAATCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 12 0.40
28 5 0.17
29 1 0.03
30 12 0.40
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.41
Consensus pattern (30 bp):
TAATAAATATCTATTTACTTAAATAATAAA
Found at i:8932772 original size:20 final size:20
Alignment explanation
Indices: 8932747--8932786 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8932737 AATTTGAAGA
8932747 TGTTGCTCATGTTCAGATTC
1 TGTTGCTCATGTTCAGATTC
8932767 TGTTGCTCATGTTCAGATTC
1 TGTTGCTCATGTTCAGATTC
8932787 AGACTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.45
Consensus pattern (20 bp):
TGTTGCTCATGTTCAGATTC
Found at i:8937036 original size:21 final size:21
Alignment explanation
Indices: 8937012--8937057 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
8937002 AAAATCTTAT
8937012 AATATA-ATTATTTAATTAATA
1 AATATATATTATTTAA-TAATA
*
8937033 AATATATTTTATTTAATAATA
1 AATATATATTATTTAATAATA
8937054 AATA
1 AATA
8937058 ATAAATATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATATATATTATTTAATAATA
Found at i:8938161 original size:26 final size:26
Alignment explanation
Indices: 8938132--8938184 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
8938122 ATAAAAAGAA
*
8938132 AAATAAATATTATTTTCTCTTTATAT
1 AAATAAATATTATTTTCTCATTATAT
*
8938158 AAATAAATGTTATTTTCTCATTATAT
1 AAATAAATATTATTTTCTCATTATAT
8938184 A
1 A
8938185 TATATATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.51
Consensus pattern (26 bp):
AAATAAATATTATTTTCTCATTATAT
Found at i:8939287 original size:10 final size:10
Alignment explanation
Indices: 8939272--8939303 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
8939262 TGGAAAAACC
8939272 AAAAAAGAAA
1 AAAAAAGAAA
8939282 AAAAAAGAAAA
1 AAAAAAG-AAA
8939293 AAAAAAGAAA
1 AAAAAAGAAA
8939303 A
1 A
8939304 GAGAATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:8939293 original size:11 final size:11
Alignment explanation
Indices: 8939272--8939303 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
8939262 TGGAAAAACC
8939272 AAAAAAG-AAA
1 AAAAAAGAAAA
8939282 AAAAAAGAAAA
1 AAAAAAGAAAA
8939293 AAAAAAGAAAA
1 AAAAAAGAAAA
8939304 GAGAATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:8943599 original size:2 final size:2
Alignment explanation
Indices: 8943592--8943616 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8943582 GGGTTCTTCT
8943592 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
8943617 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:8943621 original size:2 final size:2
Alignment explanation
Indices: 8943616--8943640 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8943606 TCTCTCTCTC
8943616 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8943641 GAAAATCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8945406 original size:6 final size:6
Alignment explanation
Indices: 8945390--8945428 Score: 69
Period size: 6 Copynumber: 6.3 Consensus size: 6
8945380 CTCACCTTAA
8945390 ACCCAAT ACCCAT ACCCAT ACCCAT ACCCAT ACCCAT AC
1 ACCC-AT ACCCAT ACCCAT ACCCAT ACCCAT ACCCAT AC
8945429 TAAAATAGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.36, C:0.49, G:0.00, T:0.15
Consensus pattern (6 bp):
ACCCAT
Found at i:8946556 original size:20 final size:20
Alignment explanation
Indices: 8946528--8946599 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
8946518 CAAAGAGTGA
8946528 TTGTCAATTGGCACAGTCAT
1 TTGTCAATTGGCACAGTCAT
* ** * * *
8946548 TTGTGAATTGTTAGCTGTAACG
1 TTGTCAATTGGCA-CAGTCA-T
*
8946570 TTATCAATTGGCACAGTCAT
1 TTGTCAATTGGCACAGTCAT
*
8946590 TTGTGAATTG
1 TTGTCAATTG
8946600 TTAGCTGTAA
Statistics
Matches: 35, Mismatches: 15, Indels: 4
0.65 0.28 0.07
Matches are distributed among these distances:
20 18 0.51
21 8 0.23
22 9 0.26
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGTCAATTGGCACAGTCAT
Found at i:8946577 original size:42 final size:42
Alignment explanation
Indices: 8946531--8946615 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
8946521 AGAGTGATTG
8946531 TCAATTGGCACAGTCATTTGTGAATTGTTAGCTGTAACGTTA
1 TCAATTGGCACAGTCATTTGTGAATTGTTAGCTGTAACGTTA
8946573 TCAATTGGCACAGTCATTTGTGAATTGTTAGCTGTAACGTTA
1 TCAATTGGCACAGTCATTTGTGAATTGTTAGCTGTAACGTTA
8946615 T
1 T
8946616 AAACATGAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (42 bp):
TCAATTGGCACAGTCATTTGTGAATTGTTAGCTGTAACGTTA
Found at i:8947144 original size:13 final size:13
Alignment explanation
Indices: 8947111--8947138 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8947101 AACACTCAAA
8947111 ACGAAAAGTAATT
1 ACGAAAAGTAATT
8947124 ACGAAAAGTAATT
1 ACGAAAAGTAATT
8947137 AC
1 AC
8947139 TCAAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.11, G:0.14, T:0.21
Consensus pattern (13 bp):
ACGAAAAGTAATT
Found at i:8961406 original size:31 final size:31
Alignment explanation
Indices: 8961365--8961441 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
8961355 GTGTCCCAAG
* * *
8961365 CCACACGGGCATGTGTGATCACATGGCCTAC
1 CCACAAGGGCATGTGTGACCACAAGGCCTAC
*
8961396 CCACAAGGGCATGTGTGACCACAAGGCTTAC
1 CCACAAGGGCATGTGTGACCACAAGGCCTAC
8961427 CCACACA-GGCATGTG
1 CCACA-AGGGCATGTG
8961442 ACTCTCCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 40 0.98
32 1 0.02
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.17
Consensus pattern (31 bp):
CCACAAGGGCATGTGTGACCACAAGGCCTAC
Found at i:8970609 original size:23 final size:22
Alignment explanation
Indices: 8970571--8970652 Score: 119
Period size: 23 Copynumber: 3.6 Consensus size: 22
8970561 TCTGAGTTGA
8970571 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATTGAGC
*
8970593 TGAATCAGTAAGTTCTATTGAGC
1 TGAA-CAGTAAGCTCTATTGAGC
*
8970616 TGAATCAGTCAGCTCTATTGAGC
1 TGAA-CAGTAAGCTCTATTGAGC
*
8970639 TGAACAGTAGGCTC
1 TGAACAGTAAGCTC
8970653 ATACGAGCTA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 12 0.22
23 42 0.78
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATTGAGC
Found at i:8978648 original size:39 final size:38
Alignment explanation
Indices: 8978591--8978680 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 38
8978581 TTTTACAATA
8978591 CCACTTGGTGTGTAGGGCTGGATGGGTCGATATTATCC
1 CCACTTGGTGTGTAGGGCTGGATGGGTCGATATTATCC
* * *
8978629 CCATCTTGGTGTGTAGGGCTGGGTGGGTTGATTTTATCC
1 CCA-CTTGGTGTGTAGGGCTGGATGGGTCGATATTATCC
8978668 CCACTTGGTGTGT
1 CCACTTGGTGTGT
8978681 TGGGTTAGAC
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
38 13 0.27
39 35 0.73
ACGTcount: A:0.12, C:0.18, G:0.34, T:0.36
Consensus pattern (38 bp):
CCACTTGGTGTGTAGGGCTGGATGGGTCGATATTATCC
Found at i:8980584 original size:12 final size:12
Alignment explanation
Indices: 8980567--8980591 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8980557 CTATTTATCA
8980567 AAATTAAGGTGT
1 AAATTAAGGTGT
8980579 AAATTAAGGTGT
1 AAATTAAGGTGT
8980591 A
1 A
8980592 GGAGACACAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (12 bp):
AAATTAAGGTGT
Found at i:8990468 original size:61 final size:60
Alignment explanation
Indices: 8990351--8990478 Score: 168
Period size: 61 Copynumber: 2.1 Consensus size: 60
8990341 TGAGAAATAG
* * * *
8990351 ACATGGCCTGGACTTCCTTACACGGGTAGACCACACGCCTGTGTAGTTTTAGCAGACTCTA
1 ACATGGCCTAGACTTCCTTACACGGGTAGACCACACGCCTGTCTAG-TTCAACAGACTCTA
* *
8990412 ACATGGCCTAGACTTCTTTACATGGGTAGACCACACGCTCATGTCTA-TTCAACAGACTCTA
1 ACATGGCCTAGACTTCCTTACACGGGTAGACCACACGC-C-TGTCTAGTTCAACAGACTCTA
8990473 ACATGG
1 ACATGG
8990479 TTTGAAGCAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
61 53 0.90
62 1 0.02
63 5 0.08
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (60 bp):
ACATGGCCTAGACTTCCTTACACGGGTAGACCACACGCCTGTCTAGTTCAACAGACTCTA
Found at i:8990510 original size:13 final size:13
Alignment explanation
Indices: 8990492--8990517 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8990482 GAAGCATTTG
8990492 CACACGGGCGTGT
1 CACACGGGCGTGT
8990505 CACACGGGCGTGT
1 CACACGGGCGTGT
8990518 ACCTATCGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:8993857 original size:21 final size:21
Alignment explanation
Indices: 8993827--8993866 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8993817 CATGTTTGAC
8993827 TGTTACTATT-TCTGCATGCCA
1 TGTTACTATTATCTG-ATGCCA
*
8993848 TGTTATTATTATCTGATGC
1 TGTTACTATTATCTGATGC
8993867 ATGAGACTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (21 bp):
TGTTACTATTATCTGATGCCA
Found at i:8995618 original size:22 final size:23
Alignment explanation
Indices: 8995593--8995638 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
8995583 AATGTCTTAT
8995593 GTTAGAAATAATA-AAAT-AAAAG
1 GTTAGAAATAA-AGAAATGAAAAG
*
8995615 GTTAGTAATAAAGAAATGAAAAG
1 GTTAGAAATAAAGAAATGAAAAG
8995638 G
1 G
8995639 GAGGGGTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 14 0.67
23 6 0.29
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.22
Consensus pattern (23 bp):
GTTAGAAATAAAGAAATGAAAAG
Found at i:8997009 original size:40 final size:40
Alignment explanation
Indices: 8996954--8997173 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
8996944 TATTCGGATG
8996954 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
8996994 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTG-CA--AGTTACT
* * * *
8997037 ATACCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
8997077 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
8997117 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTTCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
8997157 ATATCC-GGCTAAATCCC
1 ATATCCGGGCTAAGTCCC
8997174 AAAGATACTT
Statistics
Matches: 157, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 9 0.06
40 112 0.71
41 1 0.01
43 35 0.22
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:8997097 original size:83 final size:80
Alignment explanation
Indices: 8996958--8997173 Score: 283
Period size: 83 Copynumber: 2.7 Consensus size: 80
8996948 CGGATGATAT
**
8996958 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
8997023 TG-TGAGTAGTTGCTATAC
66 TGCT-AGT-G--ACTATAC
* * *
8997041 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
8997106 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * * *
8997121 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTTCTATATCC-GGCTAAATCCC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCC
8997174 AAAGATACTT
Statistics
Matches: 119, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
79 10 0.08
80 42 0.35
82 1 0.01
83 65 0.55
84 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:8997445 original size:22 final size:22
Alignment explanation
Indices: 8997405--8997446 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
8997395 GAATGTGCAT
*
8997405 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
8997427 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
8997447 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:8998936 original size:29 final size:29
Alignment explanation
Indices: 8998870--8998989 Score: 152
Period size: 29 Copynumber: 4.2 Consensus size: 29
8998860 TACATTCATG
* **
8998870 CATATGGCCCACTAGGCCC-AATCTTATT
1 CATATGGCCCATTAGGCCCAAATCACATT
* * *
8998898 CATATTGCCCATTTGGCCTAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
* *
8998927 CGTATGGCCCATTGGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
*
8998956 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCCAAATCACATT
8998985 CATAT
1 CATAT
8998990 ACATGCTTTC
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 15 0.19
29 63 0.81
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACATT
Found at i:9003501 original size:73 final size:73
Alignment explanation
Indices: 9003382--9003529 Score: 278
Period size: 73 Copynumber: 2.0 Consensus size: 73
9003372 CCAAATTTGG
*
9003382 AAATCACGAACACACGGGCTAAAATAAGGGCACTCGGGCATGCCCTACGGCTGTGTGCCCTCATA
1 AAATCACGAACACACGGGCTAAAATAAGGGCACTCGGGCATGCCCTACGGCCGTGTGCCCTCATA
9003447 TCTATATA
66 TCTATATA
*
9003455 AAATCACGAACACACGGGCTAAAATAAGGGCACTTGGGCATGCCCTACGGCCGTGTGCCCTCATA
1 AAATCACGAACACACGGGCTAAAATAAGGGCACTCGGGCATGCCCTACGGCCGTGTGCCCTCATA
9003520 TCTATATA
66 TCTATATA
9003528 AA
1 AA
9003530 CCCCCACTAT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (73 bp):
AAATCACGAACACACGGGCTAAAATAAGGGCACTCGGGCATGCCCTACGGCCGTGTGCCCTCATA
TCTATATA
Found at i:9007476 original size:61 final size:60
Alignment explanation
Indices: 9007353--9007480 Score: 141
Period size: 61 Copynumber: 2.1 Consensus size: 60
9007343 GTGAGAAATC
* * * * * * *
9007353 AACACGGCTGGACTTCCTTAAACGGGTAGACCACACGCCCGTGTAGTTTTAGCAGACCCT
1 AACACGGCTAGACTTCCTTAAACGGGTAGACCACAAGCCCATCTACTTTCAACAGACCCT
* * *
9007413 AACACGGCCTAGACTTCCTTACACGGGTAGACCACAAGCCCATCT-CTATTCAATAGACTCT
1 AACACGG-CTAGACTTCCTTAAACGGGTAGACCACAAGCCCATCTACT-TTCAACAGACCCT
9007474 AACACGG
1 AACACGG
9007481 TTTGAAGCAC
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
60 8 0.14
61 48 0.86
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (60 bp):
AACACGGCTAGACTTCCTTAAACGGGTAGACCACAAGCCCATCTACTTTCAACAGACCCT
Found at i:9011667 original size:29 final size:27
Alignment explanation
Indices: 9011634--9011696 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
9011624 AATCCTCCAT
*
9011634 AACACACTAGTATAAT-ATAGCCTCCCA
1 AACACACCAGTAT-ATCATAGCCTCCCA
* *
9011661 AACACACCGGTATATCATATCCTCCCA
1 AACACACCAGTATATCATAGCCTCCCA
9011688 AACACACCA
1 AACACACCA
9011697 ATAAGGCATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.40, C:0.35, G:0.06, T:0.19
Consensus pattern (27 bp):
AACACACCAGTATATCATAGCCTCCCA
Found at i:9012227 original size:17 final size:18
Alignment explanation
Indices: 9012197--9012230 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9012187 AATTTTTATT
*
9012197 CAATTTATTCCCTAATTC
1 CAATTTAATCCCTAATTC
9012215 CAATTTAAT-CCTAATT
1 CAATTTAATCCCTAATT
9012231 AACTCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (18 bp):
CAATTTAATCCCTAATTC
Found at i:9013106 original size:3 final size:3
Alignment explanation
Indices: 9013098--9013153 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
9013088 ATTTAAATCA
* *
9013098 AAT AAT AAT AAT AAT AAT AAT AA- AAT AAT AAT AAT AAC AAC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9013145 AATT AAT AA
1 AA-T AAT AA
9013154 AATCTAAGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:9015042 original size:8 final size:8
Alignment explanation
Indices: 9015031--9015060 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
9015021 CTAGATCGGC
9015031 AAAAGCCG
1 AAAAGCCG
9015039 AAAAGCCG
1 AAAAGCCG
*
9015047 AAATGCCG
1 AAAAGCCG
9015055 AAAAGC
1 AAAAGC
9015061 TGGCATTTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.23, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:9024022 original size:52 final size:52
Alignment explanation
Indices: 9023943--9024041 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
9023933 CGCACGACCG
* * *
9023943 TGTCTAGCTTCGTTCGCTTCTCTCACGCCCGTGTGTGCAAGCCCTACACCCA
1 TGTCTAGCTCCGTTCGCTTCTCCCACGCCCGTGTGGGCAAGCCCTACACCCA
9023995 TGTCTAGCTCCGTTCGCTTCTCCCACGCCCGTGTGGGCAAGCCCTAC
1 TGTCTAGCTCCGTTCGCTTCTCCCACGCCCGTGTGGGCAAGCCCTAC
9024042 GCCCGTGTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.12, C:0.39, G:0.21, T:0.27
Consensus pattern (52 bp):
TGTCTAGCTCCGTTCGCTTCTCCCACGCCCGTGTGGGCAAGCCCTACACCCA
Found at i:9024112 original size:55 final size:55
Alignment explanation
Indices: 9024053--9024165 Score: 127
Period size: 55 Copynumber: 2.1 Consensus size: 55
9024043 CCCGTGTTCA
* * * * *
9024053 TTTAATAGGTTTGACCACGGGTATTAGACATGGGCGTGTCGCACGCCCGTGCTGT
1 TTTAACAGGTTTGACCACAGGTATTACACACGGGCGTGTCACACGCCCGTGCTGT
* * * * * *
9024108 TTTAACAGGTTTGTCCATAGTTCTTCCACACGGGCGTGTCACACGCCCGTGGTGT
1 TTTAACAGGTTTGACCACAGGTATTACACACGGGCGTGTCACACGCCCGTGCTGT
9024163 TTT
1 TTT
9024166 GGTAGGCTCG
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.17, C:0.24, G:0.27, T:0.32
Consensus pattern (55 bp):
TTTAACAGGTTTGACCACAGGTATTACACACGGGCGTGTCACACGCCCGTGCTGT
Found at i:9028112 original size:21 final size:21
Alignment explanation
Indices: 9028088--9028127 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9028078 TCTTCAGTCT
*
9028088 AGATGG-TGAATCTGGCTTCTG
1 AGATGGATCAATC-GGCTTCTG
9028109 AGATGGATCAATCGGCTTC
1 AGATGGATCAATCGGCTTC
9028128 CTTGGAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (21 bp):
AGATGGATCAATCGGCTTCTG
Found at i:9040209 original size:41 final size:41
Alignment explanation
Indices: 9040163--9040299 Score: 202
Period size: 41 Copynumber: 3.3 Consensus size: 41
9040153 TAGCCCAGCT
9040163 ATGGTCTTACACGATTCTCATATTGATGCCATGTCCCAGAC
1 ATGGTCTTACACGATTCTCATATTGATGCCATGTCCCAGAC
*
9040204 ATGGTCTTACACGATTCTAATATTGATGCCATGTCCCAGAC
1 ATGGTCTTACACGATTCTCATATTGATGCCATGTCCCAGAC
* * ** * *
9040245 ATGGTCTTACACAAAATCTCATAACGATGCCATATCCCAGAT
1 ATGGTCTTACAC-GATTCTCATATTGATGCCATGTCCCAGAC
9040287 ATGGTCTTACACG
1 ATGGTCTTACACG
9040300 TAAACTCATA
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 52 0.60
42 34 0.40
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (41 bp):
ATGGTCTTACACGATTCTCATATTGATGCCATGTCCCAGAC
Found at i:9040311 original size:42 final size:41
Alignment explanation
Indices: 9040104--9040309 Score: 214
Period size: 42 Copynumber: 4.9 Consensus size: 41
9040094 AATCATACCA
* * * * *
9040104 ATGCCATATCCCAGATATGGTTTTACATGGGATCTCACATTA
1 ATGCCATATCCCAGATATGGTCTTACA-CGAATCTCATATTG
* * *
9040146 ATGCCAATAGCCCAGCTATGGTCTTACACGATTCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAATCTCATATTG
* * * *
9040188 ATGCCATGTCCCAGACATGGTCTTACACGATTCTAATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAATCTCATATTG
* * * **
9040229 ATGCCATGTCCCAGACATGGTCTTACACAAAATCTCATAACG
1 ATGCCATATCCCAGATATGGTCTTACAC-GAATCTCATATTG
*
9040271 ATGCCATATCCCAGATATGGTCTTACACGTAAACTCATA
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCATA
9040310 ACCCTAATGT
Statistics
Matches: 139, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
41 59 0.42
42 61 0.44
43 19 0.14
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCTCATATTG
Found at i:9049356 original size:17 final size:19
Alignment explanation
Indices: 9049314--9049357 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9049304 ATGAAATTTT
*
9049314 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
9049333 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
9049351 AA-TATTA
1 AATTATTA
9049358 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:9055178 original size:21 final size:21
Alignment explanation
Indices: 9055152--9055194 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
9055142 TCAGGTGCAT
9055152 TTCAATCACGTATGAACGAAA
1 TTCAATCACGTATGAACGAAA
*
9055173 TTCAATCATGTATGAACGAAA
1 TTCAATCACGTATGAACGAAA
9055194 T
1 T
9055195 CTAGACTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (21 bp):
TTCAATCACGTATGAACGAAA
Found at i:9059231 original size:41 final size:41
Alignment explanation
Indices: 9059186--9059266 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
9059176 CTAATTATGG
*
9059186 GCACTTAGTGTACGAAATCGAGATAGCTTCGGTTATATATT
1 GCACTTAGTGTACGAAATCGAGATAGCTTCGGCTATATATT
* ** *
9059227 GCACTTAGTGTGCGAGGTTGAGATAGCTTCGGCTATATAT
1 GCACTTAGTGTACGAAATCGAGATAGCTTCGGCTATATAT
9059267 ATTCATTGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (41 bp):
GCACTTAGTGTACGAAATCGAGATAGCTTCGGCTATATATT
Found at i:9061397 original size:48 final size:47
Alignment explanation
Indices: 9061273--9061401 Score: 161
Period size: 47 Copynumber: 2.7 Consensus size: 47
9061263 AATCGATAAG
* * *
9061273 TACCTATACCATGGCACGAAGCCAAATCAAGGTAACTTATCCCCAGA
1 TACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCCCCAAA
* **
9061320 TACTTATACCATGGCCC-ATAGCCAAATCAAGGTAACTCATCTCTGAAA
1 TACCTATACCATGGCCCGA-AGCCAAATCAAGGTAACTCATC-CCCAAA
* *
9061368 TACCTATGCCATGGCCCGAACCCAAATCAAGGTA
1 TACCTATACCATGGCCCGAAGCCAAATCAAGGTA
9061402 TAATTCACAC
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.01
47 36 0.51
48 32 0.46
49 1 0.01
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (47 bp):
TACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTCATCCCCAAA
Found at i:9074880 original size:42 final size:42
Alignment explanation
Indices: 9074819--9074909 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 42
9074809 AGATTACGTG
* * *
9074819 TAAGACCATATCTGGGATATGGCATCGATATAAGACTTCGTA
1 TAAGACCACATCTGAGATATGACATCGATATAAGACTTCGTA
* * *
9074861 TAAGACCACATCTGAGATATGACATCGATATGAGATTTCGTG
1 TAAGACCACATCTGAGATATGACATCGATATAAGACTTCGTA
9074903 TAAGACC
1 TAAGACC
9074910 GTAGCTGGGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (42 bp):
TAAGACCACATCTGAGATATGACATCGATATAAGACTTCGTA
Found at i:9074959 original size:85 final size:84
Alignment explanation
Indices: 9074807--9074965 Score: 203
Period size: 85 Copynumber: 1.9 Consensus size: 84
9074797 TTAGGGCTAT
* * *
9074807 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATATAAGACTTCGTATAAGACCACAT
1 TGAGATTACGTGTAAGACCATAGCTGGGATATGGCATCGATACAAGACTTCATATAAGACCACAT
9074872 CTGAGATATGACATCGATA
66 CTGAGATATGACATCGATA
* * * * * *
9074891 TGAGATTTCGTGTAAGACCGTAGCTGGGCTATTGGCATCGATACGAGA-TTACATGTAAGACCAT
1 TGAGATTACGTGTAAGACCATAGCTGGGATA-TGGCATCGATACAAGACTT-CATATAAGACCAC
*
9074955 ATCTGGGATAT
64 ATCTGAGATAT
9074966 CGCATTGGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
84 29 0.46
85 34 0.54
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (84 bp):
TGAGATTACGTGTAAGACCATAGCTGGGATATGGCATCGATACAAGACTTCATATAAGACCACAT
CTGAGATATGACATCGATA
Found at i:9078487 original size:26 final size:26
Alignment explanation
Indices: 9078458--9078543 Score: 75
Period size: 26 Copynumber: 3.2 Consensus size: 26
9078448 TTCTCATGAT
9078458 ATTTCCATGTCAATGCCTATCATTCA
1 ATTTCCATGTCAATGCCTATCATTCA
* * * * *
9078484 ATTTACATTTACCATGCTCATTCTCA-TGA
1 ATTTCCATGT-CAATGC-C--TATCATTCA
9078513 TATTTCCATGTCAATGCCTATCATTCA
1 -ATTTCCATGTCAATGCCTATCATTCA
9078540 ATTT
1 ATTT
9078544 ACATTTTTCA
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
26 16 0.36
27 7 0.16
28 2 0.05
29 7 0.16
30 12 0.27
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.42
Consensus pattern (26 bp):
ATTTCCATGTCAATGCCTATCATTCA
Found at i:9078521 original size:56 final size:56
Alignment explanation
Indices: 9078435--9078549 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
9078425 TACCCATGAC
9078435 TTTACCATGCTCATTCTCATGATATTTCCATGTCAATGCCTATCATTCAATTTACA
1 TTTACCATGCTCATTCTCATGATATTTCCATGTCAATGCCTATCATTCAATTTACA
9078491 TTTACCATGCTCATTCTCATGATATTTCCATGTCAATGCCTATCATTCAATTTACA
1 TTTACCATGCTCATTCTCATGATATTTCCATGTCAATGCCTATCATTCAATTTACA
9078547 TTT
1 TTT
9078550 TTCAATTATG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (56 bp):
TTTACCATGCTCATTCTCATGATATTTCCATGTCAATGCCTATCATTCAATTTACA
Found at i:9083685 original size:13 final size:13
Alignment explanation
Indices: 9083667--9083692 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9083657 CTGTACATTC
9083667 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
9083680 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
9083693 AACAAATCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:9092069 original size:13 final size:13
Alignment explanation
Indices: 9092051--9092076 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9092041 CTGTGCATTC
9092051 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
9092064 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
9092077 AACAAATCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:9102781 original size:14 final size:14
Alignment explanation
Indices: 9102736--9102782 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
9102726 TTAGAATTTT
9102736 TTAAATTAAATATTA
1 TTAAATTAAATA-TA
9102751 TTAATAATTTAAA-ATA
1 TT-A-AA-TTAAATATA
9102767 TTAAATTAAATATA
1 TTAAATTAAATATA
9102781 TT
1 TT
9102783 TTAATATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
13 5 0.18
14 7 0.25
15 3 0.11
16 5 0.18
17 3 0.11
18 5 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTAAATTAAATATA
Found at i:9104034 original size:20 final size:18
Alignment explanation
Indices: 9104011--9104073 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 18
9104001 ATGCCCCAGT
9104011 TTGTACTTCGGTACTCTTGA
1 TTGTACTTC-GTAC-CTTGA
* *
9104031 TTGTACTTACGTGCCTCTGT
1 TTGTACTT-CGTACCT-TGA
9104051 TTGTACTTCAGTACCCTTGA
1 TTGTACTTC-GTA-CCTTGA
9104071 TTG
1 TTG
9104074 CATGTACATG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 3 0.09
20 28 0.80
21 4 0.11
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.44
Consensus pattern (18 bp):
TTGTACTTCGTACCTTGA
Found at i:9104109 original size:20 final size:20
Alignment explanation
Indices: 9104084--9104149 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
9104074 CATGTACATG
*
9104084 CCCCTGTTTGTAGTTTGGTA
1 CCCCTGTTTGTACTTTGGTA
* * * ** *
9104104 CCCCTGATTGCACATACGTG
1 CCCCTGTTTGTACTTTGGTA
9104124 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTTGGTA
9104144 CCCCTG
1 CCCCTG
9104150 ATTTCACTTA
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.12, C:0.30, G:0.21, T:0.36
Consensus pattern (20 bp):
CCCCTGTTTGTACTTTGGTA
Found at i:9104158 original size:20 final size:20
Alignment explanation
Indices: 9104101--9104179 Score: 61
Period size: 20 Copynumber: 4.0 Consensus size: 20
9104091 TTGTAGTTTG
* * *
9104101 GTACCCCTGATTGCACATAC
1 GTACCCCTGATTTCACTTTC
* * *
9104121 GTGCCCCTG-TTTGTACTTTG
1 GTACCCCTGATTT-CACTTTC
*
9104141 GTACCCCTGATTTCACTTAC
1 GTACCCCTGATTTCACTTTC
* *
9104161 GTGCCCCTGTTTTCACTTT
1 GTACCCCTGATTTCACTTT
9104180 AGTGCCCCTA
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
19 2 0.05
20 39 0.89
21 3 0.07
ACGTcount: A:0.14, C:0.32, G:0.16, T:0.38
Consensus pattern (20 bp):
GTACCCCTGATTTCACTTTC
Found at i:9104179 original size:40 final size:40
Alignment explanation
Indices: 9103988--9104172 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
9103978 AATTATTAAA
* * * * *
9103988 TGATTGCACTTACATGCCCCAGTTTGTACTTCGGTACTCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTTGGTACCCC
* * ** *
9104028 TGATTGTACTTACGTGCCTCTGTTTGTACTTCAGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTTGGTACCCC
* *
9104068 TGATTGCA-TGTACATGCCCCTGTTTGTAGTTTGGTACCCC
1 TGATTGCACT-TACGTGCCCCTGTTTGTACTTTGGTACCCC
*
9104108 TGATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTTGGTACCCC
*
9104148 TGATTTCACTTACGTGCCCCTGTTT
1 TGATTGCACTTACGTGCCCCTGTTT
9104173 TCACTTTAGT
Statistics
Matches: 125, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 124 0.99
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.39
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCCTGTTTGTACTTTGGTACCCC
Found at i:9104184 original size:20 final size:20
Alignment explanation
Indices: 9104121--9104188 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
9104111 TTGCACATAC
*
9104121 GTGCCCCTGTTTGT-ACTTTG
1 GTGCCCCTGTTT-TCACTTTA
* *
9104141 GTACCCCTGATTTCAC-TTA
1 GTGCCCCTGTTTTCACTTTA
9104160 CGTGCCCCTGTTTTCACTTTA
1 -GTGCCCCTGTTTTCACTTTA
9104181 GTGCCCCT
1 GTGCCCCT
9104189 AATCGCACAT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 3 0.08
20 34 0.85
21 3 0.08
ACGTcount: A:0.10, C:0.32, G:0.18, T:0.40
Consensus pattern (20 bp):
GTGCCCCTGTTTTCACTTTA
Found at i:9104188 original size:80 final size:80
Alignment explanation
Indices: 9103988--9104198 Score: 212
Period size: 80 Copynumber: 2.6 Consensus size: 80
9103978 AATTATTAAA
* ** * * * * *
9103988 TGATTGCACT-TACATGCCCCAGTTTGTACTTCGGTACTCTTGATTGTACTTACGTGCCTCTGTT
1 TGATTGCA-TGTACATGCCCCTGTTTGTACTTTAGTACCCCTGATTGCACATACGTGCCCCTGTT
*
9104052 TGTACTTCAGTACCCT
65 TGTACTTCAGTACCCC
* *
9104068 TGATTGCATGTACATGCCCCTGTTTGTAGTTTGGTACCCCTGATTGCACATACGTGCCCCTGTTT
1 TGATTGCATGTACATGCCCCTGTTTGTACTTTAGTACCCCTGATTGCACATACGTGCCCCTGTTT
**
9104133 GTACTTTGGTACCCC
66 GTACTTCAGTACCCC
* * * * *
9104148 TGATTTCACT-TACGTGCCCCTGTTT-TCACTTTAGTGCCCCTAATCGCACAT
1 TGATTGCA-TGTACATGCCCCTGTTTGT-ACTTTAGTACCCCTGATTGCACAT
9104199 TCATGCTCCT
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
79 2 0.02
80 107 0.97
81 1 0.01
ACGTcount: A:0.16, C:0.28, G:0.18, T:0.38
Consensus pattern (80 bp):
TGATTGCATGTACATGCCCCTGTTTGTACTTTAGTACCCCTGATTGCACATACGTGCCCCTGTTT
GTACTTCAGTACCCC
Found at i:9105800 original size:14 final size:13
Alignment explanation
Indices: 9105763--9105807 Score: 65
Period size: 12 Copynumber: 3.5 Consensus size: 13
9105753 ATAATTATAA
9105763 AACAAGAATTAA-
1 AACAAGAATTAAG
9105775 AACAAGAATTAAG
1 AACAAGAATTAAG
*
9105788 AACACATAATTAAG
1 AACA-AGAATTAAG
9105802 AACAAG
1 AACAAG
9105808 TCAAATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 12 0.41
13 5 0.17
14 12 0.41
ACGTcount: A:0.62, C:0.11, G:0.11, T:0.16
Consensus pattern (13 bp):
AACAAGAATTAAG
Found at i:9105907 original size:137 final size:136
Alignment explanation
Indices: 9105633--9105903 Score: 470
Period size: 137 Copynumber: 2.0 Consensus size: 136
9105623 ATCCTGGAAT
*
9105633 ATTAAAATAAGAATTAAGAACACAAAATTAAGAACAAGTCAAATATTTATCATACAATTCAGATA
1 ATTAAAACAAGAATTAAGAACACAAAATTAAGAACAAGTCAAATATTTATCATACAATTCAGATA
* *
9105698 ATAATAAGATCTGTCTTAGGTTTCATTCCCCTTAGTTATTTAGGGGGTTTAGTTCATAATTATAA
66 ATAATAAGATCCGTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGTTTAGTTCATAATTAT-A
9105763 AACAAGA
130 AACAAGA
*
9105770 ATTAAAACAAGAATTAAGAACACATAATTAAGAACAAGTCAAATATTTATCATACAATTCAGATA
1 ATTAAAACAAGAATTAAGAACACAAAATTAAGAACAAGTCAAATATTTATCATACAATTCAGATA
9105835 ATAATAACAAGATCCGTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGTTTAGTTCATAATTA
66 ATAAT---AAGATCCGTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGTTTAGTTCATAATTA
9105900 TAAA
128 TAAA
9105904 AGAAAACATC
Statistics
Matches: 127, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
137 68 0.54
139 3 0.02
140 56 0.44
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (136 bp):
ATTAAAACAAGAATTAAGAACACAAAATTAAGAACAAGTCAAATATTTATCATACAATTCAGATA
ATAATAAGATCCGTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGTTTAGTTCATAATTATAA
ACAAGA
Found at i:9105923 original size:140 final size:136
Alignment explanation
Indices: 9105641--9105909 Score: 457
Period size: 140 Copynumber: 1.9 Consensus size: 136
9105631 ATATTAAAAT
9105641 AAGAATTAAGAACACAAAATTAAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAAG
1 AAGAATTAAGAACACAAAATTAAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAAG
* * *
9105706 ATCTGTCTTAGGTTTCATTCCCCTTAGTTATTTAGGGGGTTTAGTTCATAATTATAAAACAAGAA
66 ATCCGTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGTTTAGTTCATAATTATAAAACAAAAA
9105771 TTAAAAC
131 TT-AAAC
*
9105778 AAGAATTAAGAACACATAATTAAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAAC
1 AAGAATTAAGAACACAAAATTAAGAACAAGTCAAATATTTATCATACAATTCAGATAATAAT---
*
9105843 AAGATCCGTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGTTTAGTTCATAATTATAAAAGAA
63 AAGATCCGTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGTTTAGTTCATAATTATAAAACAA
9105908 AA
128 AA
9105910 CATCTCAGAA
Statistics
Matches: 124, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
137 61 0.49
140 63 0.51
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.32
Consensus pattern (136 bp):
AAGAATTAAGAACACAAAATTAAGAACAAGTCAAATATTTATCATACAATTCAGATAATAATAAG
ATCCGTCTTAGGTTTCATTCCCCTTAGGTATTTAGGGGGTTTAGTTCATAATTATAAAACAAAAA
TTAAAC
Found at i:9125831 original size:79 final size:81
Alignment explanation
Indices: 9125722--9125904 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
9125712 TACTCGTTCA
* *
9125722 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCG-GATCTTAACCCGG
* *
9125785 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
9125802 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
9125865 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
9125881 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
9125905 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 2 0.02
79 60 0.67
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:9125904 original size:40 final size:40
Alignment explanation
Indices: 9125701--9125904 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
9125691 CGGAATTTAA
** *
9125701 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
9125741 CCGGTTATAGTAACTCGCACAAATGCCTTCGAGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
9125781 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
9125820 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
9125860 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
9125900 CCGGA
1 CCGGA
9125905 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:9130856 original size:23 final size:24
Alignment explanation
Indices: 9130768--9130923 Score: 98
Period size: 23 Copynumber: 6.7 Consensus size: 24
9130758 ACTCACCACG
*
9130768 GCTCATAT-GAGCTTACCGATATATCA
1 GCTCGTATAGAGCTTACCG-T-T-TCA
* *
9130794 ACTCGTAT-GAGCTTACTGTTTTCA
1 GCTCGTATAGAGCTTACCG-TTTCA
*
9130818 GCT--TATTGGAGCTTACCGTTTCA
1 GCTCGTA-TAGAGCTTACCGTTTCA
* *
9130841 GCTCGTAT-GAGTTTA-CTTTTCA
1 GCTCGTATAGAGCTTACCGTTTCA
* **
9130863 GCTAG-ATAGAGCTTACAATTTCA
1 GCTCGTATAGAGCTTACCGTTTCA
*
9130886 GCTCG-ATAGAGCTTACAGTTTCA
1 GCTCGTATAGAGCTTACCGTTTCA
*
9130909 GCT--AATAGAGCTTAC
1 GCTCGTATAGAGCTTAC
9130924 TGTTCATTAG
Statistics
Matches: 109, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
21 2 0.02
22 29 0.27
23 44 0.40
24 15 0.14
25 3 0.03
26 16 0.15
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (24 bp):
GCTCGTATAGAGCTTACCGTTTCA
Found at i:9130876 original size:45 final size:45
Alignment explanation
Indices: 9130776--9130923 Score: 147
Period size: 45 Copynumber: 3.2 Consensus size: 45
9130766 CGGCTCATAT
* * * *
9130776 GAGCTTACCGATATATCAACTCGTATGAGCTTACTGTTTTCAGCTTATTG
1 GAGCTTACCG-T-T-TCAGCTCGTATGAGCTTAC-ATTTTCAGC-TAATA
*
9130826 GAGCTTACCGTTTCAGCTCGTATGAGTTTAC-TTTTCAGCTAGATA
1 GAGCTTACCGTTTCAGCTCGTATGAGCTTACATTTTCAGCTA-ATA
** *
9130871 GAGCTTACAATTTCAGCTCG-ATAGAGCTTACAGTTTCAGCTAATA
1 GAGCTTACCGTTTCAGCTCGTAT-GAGCTTACATTTTCAGCTAATA
9130916 GAGCTTAC
1 GAGCTTAC
9130924 TGTTCATTAG
Statistics
Matches: 87, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
44 4 0.05
45 45 0.52
46 9 0.10
47 17 0.20
48 1 0.01
49 1 0.01
50 10 0.11
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (45 bp):
GAGCTTACCGTTTCAGCTCGTATGAGCTTACATTTTCAGCTAATA
Found at i:9130878 original size:22 final size:22
Alignment explanation
Indices: 9130826--9130923 Score: 101
Period size: 23 Copynumber: 4.4 Consensus size: 22
9130816 CAGCTTATTG
*
9130826 GAGCTTACCGTTTCAGCTCG-TA
1 GAGCTTA-CGTTTCAGCTAGATA
* *
9130848 TGAGTTTACTTTTCAGCTAGATA
1 -GAGCTTACGTTTCAGCTAGATA
* *
9130871 GAGCTTACAATTTCAGCTCGATA
1 GAGCTTAC-GTTTCAGCTAGATA
9130894 GAGCTTACAGTTTCAGCTA-ATA
1 GAGCTTAC-GTTTCAGCTAGATA
9130916 GAGCTTAC
1 GAGCTTAC
9130924 TGTTCATTAG
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
22 28 0.43
23 37 0.57
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (22 bp):
GAGCTTACGTTTCAGCTAGATA
Found at i:9134426 original size:118 final size:118
Alignment explanation
Indices: 9134218--9134456 Score: 460
Period size: 118 Copynumber: 2.0 Consensus size: 118
9134208 CCAAACAAGC
9134218 CAACACTTAGGACATTATATACATCACATATATCATTTATAAAACATGTAATTCAAGCCAACTTA
1 CAACACTTAGGACATTATATACATCACATATATCATTTATAAAACATGTAATTCAAGCCAACTTA
*
9134283 ATTGGCCAAGTACCAACAATTACAAGTAAAATCTCATGGCTATAATCATAATT
66 ATTGGCCAAGTACCAACAATTACAAGCAAAATCTCATGGCTATAATCATAATT
9134336 CAACACTTAGGACATTATATACATCACATATATCATTTATAAAACATGTAATTCAAGCCAACTTA
1 CAACACTTAGGACATTATATACATCACATATATCATTTATAAAACATGTAATTCAAGCCAACTTA
*
9134401 ATTGGCCAAGTACCAATAATTACAAGCAAAATCTCATGGCTATAATCATAATT
66 ATTGGCCAAGTACCAACAATTACAAGCAAAATCTCATGGCTATAATCATAATT
9134454 CAA
1 CAA
9134457 GACATACCAA
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 119 1.00
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (118 bp):
CAACACTTAGGACATTATATACATCACATATATCATTTATAAAACATGTAATTCAAGCCAACTTA
ATTGGCCAAGTACCAACAATTACAAGCAAAATCTCATGGCTATAATCATAATT
Found at i:9135044 original size:40 final size:40
Alignment explanation
Indices: 9134965--9135076 Score: 102
Period size: 40 Copynumber: 2.8 Consensus size: 40
9134955 TCTCATTAAA
* * * * *
9134965 CCGAAGCTATCT-CAGTACCGCACACTTAGTTCCACATATAG
1 CCGAAGCTATCTCCA--AACGCACACTAAGTGCTATATATAG
* *
9135006 CTGAAGCTAT-TCCAATTCGCACACTAAGTGCTATATATAG
1 CCGAAGCTATCTCCAA-ACGCACACTAAGTGCTATATATAG
* *
9135046 CCGAAGTTATCTCGAAACGCACACTAAGTGC
1 CCGAAGCTATCTCCAAACGCACACTAAGTGC
9135077 CAAACATAGT
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
39 1 0.02
40 42 0.72
41 15 0.26
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (40 bp):
CCGAAGCTATCTCCAAACGCACACTAAGTGCTATATATAG
Found at i:9151476 original size:75 final size:75
Alignment explanation
Indices: 9151353--9151501 Score: 289
Period size: 75 Copynumber: 2.0 Consensus size: 75
9151343 CAAGAAATGT
*
9151353 CTCCCTAAGAGTATAAGAATTTCAAGATCTTCTTCAAAGTCAAGCATGATAAAGTCAATGGGAAA
1 CTCCCTAAGAGTATAAGAATTTCAAGATCTTCCTCAAAGTCAAGCATGATAAAGTCAATGGGAAA
9151418 AATAAATTGC
66 AATAAATTGC
9151428 CTCCCTAAGAGTATAAGAATTTCAAGATCTTCCTCAAAGTCAAGCATGATAAAGTCAATGGGAAA
1 CTCCCTAAGAGTATAAGAATTTCAAGATCTTCCTCAAAGTCAAGCATGATAAAGTCAATGGGAAA
9151493 AATAAATTG
66 AATAAATTG
9151502 TTTAACCCTT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (75 bp):
CTCCCTAAGAGTATAAGAATTTCAAGATCTTCCTCAAAGTCAAGCATGATAAAGTCAATGGGAAA
AATAAATTGC
Found at i:9155639 original size:37 final size:37
Alignment explanation
Indices: 9155578--9155670 Score: 136
Period size: 37 Copynumber: 2.5 Consensus size: 37
9155568 AGTACACAAG
* *
9155578 TAATCCAACCGA-AACACAAC-AAACGCTCATGAGAGC
1 TAATCCAACCGATAACAC-GCTAAACGCTCATAAGAGC
*
9155614 TAATCCAATCGATAACACGCTAAACGCTCATAAGAGC
1 TAATCCAACCGATAACACGCTAAACGCTCATAAGAGC
9155651 TAATCCAACCGATAACACGC
1 TAATCCAACCGATAACACGC
9155671 CTCGGCACTA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
36 12 0.24
37 39 0.76
ACGTcount: A:0.42, C:0.30, G:0.13, T:0.15
Consensus pattern (37 bp):
TAATCCAACCGATAACACGCTAAACGCTCATAAGAGC
Found at i:9167712 original size:26 final size:26
Alignment explanation
Indices: 9167673--9167737 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
9167663 AATGATTTTT
9167673 TTCAAAATTTTACC-ATGGATAAAATCG
1 TTCAAAATTTTACCGA-GGATAAAAT-G
* *
9167700 TT-AAAATTTTACCGAGGGTAAAATT
1 TTCAAAATTTTACCGAGGATAAAATG
9167725 TTCAAAATTTTAC
1 TTCAAAATTTTAC
9167738 TGGGTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 2 0.06
26 29 0.85
27 3 0.09
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (26 bp):
TTCAAAATTTTACCGAGGATAAAATG
Found at i:9172380 original size:12 final size:12
Alignment explanation
Indices: 9172360--9172394 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
9172350 AGGATTGTAA
*
9172360 ATTTTCATTTTC
1 ATTTCCATTTTC
9172372 ATTTCCATTTTC
1 ATTTCCATTTTC
*
9172384 ATTTCTATTTT
1 ATTTCCATTTT
9172395 TGAAAAGCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (12 bp):
ATTTCCATTTTC
Found at i:9174774 original size:31 final size:31
Alignment explanation
Indices: 9174739--9174797 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
9174729 CACATGCAGA
* *
9174739 TGTGGTCTGCCCGTGTGGGCCCACACGCTTT
1 TGTGGCCTGCCCATGTGGGCCCACACGCTTT
* *
9174770 TGTGGCCTGCGCATGTGGGTCCACACGC
1 TGTGGCCTGCCCATGTGGGCCCACACGC
9174798 CTGTGTGGGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.08, C:0.32, G:0.34, T:0.25
Consensus pattern (31 bp):
TGTGGCCTGCCCATGTGGGCCCACACGCTTT
Found at i:9184676 original size:19 final size:19
Alignment explanation
Indices: 9184654--9184690 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
9184644 ACACATGAAG
* *
9184654 TGCATCCTATCACACAAAA
1 TGCATCCCAACACACAAAA
9184673 TGCATCCCAACACACAAA
1 TGCATCCCAACACACAAA
9184691 GTGTATCTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.35, G:0.05, T:0.16
Consensus pattern (19 bp):
TGCATCCCAACACACAAAA
Found at i:9185805 original size:20 final size:20
Alignment explanation
Indices: 9185775--9185822 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
9185765 CTTAATTAGT
*
9185775 TAAATTAATCATG-TTTAAC
1 TAAACTAATCATGCTTTAAC
*
9185794 TAACACTAATCATGCTTTAAT
1 TAA-ACTAATCATGCTTTAAC
9185815 TAAACTAA
1 TAAACTAA
9185823 AGACATCCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 14 0.56
21 8 0.32
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.38
Consensus pattern (20 bp):
TAAACTAATCATGCTTTAAC
Found at i:9187582 original size:16 final size:16
Alignment explanation
Indices: 9187561--9187592 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9187551 CTTAAGTTAG
9187561 AATTTTCAATGAAAAT
1 AATTTTCAATGAAAAT
*
9187577 AATTTTCAATGGAAAT
1 AATTTTCAATGAAAAT
9187593 TTTCTTTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (16 bp):
AATTTTCAATGAAAAT
Found at i:9199664 original size:5 final size:5
Alignment explanation
Indices: 9199654--9199681 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
9199644 ATGTCTTATA
9199654 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
9199682 TTTCCTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:9200007 original size:20 final size:20
Alignment explanation
Indices: 9199960--9200011 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
9199950 TGGTAAAGTC
*
9199960 AATATTGATAAATCCTTAGA
1 AATATTGGTAAATCCTTAGA
*
9199980 AATATTGGTAAATCGTTAGA
1 AATATTGGTAAATCCTTAGA
* *
9200000 TATTTTGGTAAA
1 AATATTGGTAAA
9200012 AGCTTTTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.38
Consensus pattern (20 bp):
AATATTGGTAAATCCTTAGA
Found at i:9207824 original size:23 final size:23
Alignment explanation
Indices: 9207796--9207842 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
9207786 AGAGTAATTG
9207796 AAGGAGAATGAAGAGTTAAAAGT
1 AAGGAGAATGAAGAGTTAAAAGT
9207819 AAGGAGAATGAAGAGTTAAAAGT
1 AAGGAGAATGAAGAGTTAAAAGT
9207842 A
1 A
9207843 TACTTTTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (23 bp):
AAGGAGAATGAAGAGTTAAAAGT
Found at i:9216118 original size:125 final size:125
Alignment explanation
Indices: 9215896--9216149 Score: 321
Period size: 125 Copynumber: 2.0 Consensus size: 125
9215886 TGACTATCAG
* * * * * **
9215896 AGACAGCTTCTCGATTCCAGTAATAGATGAGCTATTAGGCAAGCTTGGTCAGGTAATATTTTTCT
1 AGACAACTTCCCGATTCCAGTAATAGAAGAACTATTAGACAAGCTTGGTCAGACAATATTTTTCT
* * * *
9215961 TTAAACTTGACCTTCGATTAGGTTATTATCAAATCCACATGCATAAAGGGGACATAC-ACA
66 CTAAACTTGACATTCGATCAGGTTATCATCAAATCCACATGCATAAAGGGGACAT-CTACA
* * *
9216021 AGACAACTTCCCGATTCCATTAATAGAAGAACTATTAGACAAGCTTGGTTAGACAATGTTTTTCT
1 AGACAACTTCCCGATTCCAGTAATAGAAGAACTATTAGACAAGCTTGGTCAGACAATATTTTTCT
* *** *
9216086 CTAAACTTGACATTCGATCATGTTATCATCAAATCTGTATGCATGAAGGGGACATCTACA
66 CTAAACTTGACATTCGATCAGGTTATCATCAAATCCACATGCATAAAGGGGACATCTACA
9216146 AGAC
1 AGAC
9216150 CAATTTTCGG
Statistics
Matches: 109, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
124 1 0.01
125 108 0.99
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (125 bp):
AGACAACTTCCCGATTCCAGTAATAGAAGAACTATTAGACAAGCTTGGTCAGACAATATTTTTCT
CTAAACTTGACATTCGATCAGGTTATCATCAAATCCACATGCATAAAGGGGACATCTACA
Found at i:9222084 original size:40 final size:40
Alignment explanation
Indices: 9222029--9222256 Score: 420
Period size: 40 Copynumber: 5.7 Consensus size: 40
9222019 GAGCATTGGA
9222029 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
9222069 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
9222109 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
9222149 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
9222189 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
9222229 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
9222257 ATGTGTTTGC
Statistics
Matches: 183, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 183 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:9224183 original size:15 final size:14
Alignment explanation
Indices: 9224159--9224190 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
9224149 CCACTCTTAG
9224159 TTTCACTAACCCAA
1 TTTCACTAACCCAA
9224173 TTTCTACTAACCCAA
1 TTTC-ACTAACCCAA
9224188 TTT
1 TTT
9224191 TTTGGGTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (14 bp):
TTTCACTAACCCAA
Found at i:9238814 original size:16 final size:16
Alignment explanation
Indices: 9238795--9238839 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
9238785 TAGTAATTTT
9238795 AATGTTAAAGGACTAA
1 AATGTTAAAGGACTAA
9238811 AATGTTAAAGTGA-TAA
1 AATGTTAAAG-GACTAA
*
9238827 AAT-TAAAAGGACT
1 AATGTTAAAGGACT
9238840 TGATGTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 2 0.08
15 6 0.23
16 16 0.62
17 2 0.08
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.27
Consensus pattern (16 bp):
AATGTTAAAGGACTAA
Found at i:9239515 original size:45 final size:45
Alignment explanation
Indices: 9239464--9239781 Score: 340
Period size: 45 Copynumber: 7.1 Consensus size: 45
9239454 ATTGAATAAA
* **
9239464 ACCATAGTTGAAAGATGTTATGGCATCAT-AGTGGAAACGAGTAAG
1 ACCATAGCTGAAAGATGTTATGGCATCATGA-TTTAAACGAGTAAG
* * *
9239509 AACATAGCTGAAAGATGTTATGACATCATGATTTTAACGAGTAAG
1 ACCATAGCTGAAAGATGTTATGGCATCATGATTTAAACGAGTAAG
9239554 ACCATAGCTGAAAG-TCGTTATGGCATCATGATTTAAA-GAGTAAG
1 ACCATAGCTGAAAGAT-GTTATGGCATCATGATTTAAACGAGTAAG
** *
9239598 ACCATAGCTGAAAGACATTATGGCATCATGATTTTAAC-AGTAAG
1 ACCATAGCTGAAAGATGTTATGGCATCATGATTTAAACGAGTAAG
* ** *
9239642 CCCATAGCTGAAAGACATTATGGCATCATGATTTTAACGAGTAAG
1 ACCATAGCTGAAAGATGTTATGGCATCATGATTTAAACGAGTAAG
* * * * *
9239687 ACCATAGCTAAAAGACGTTATAGCATCACGATTCT-AACGCGTAAG
1 ACCATAGCTGAAAGATGTTATGGCATCATGATT-TAAACGAGTAAG
* * * * * * * *
9239732 ACCATATCTGAAAGGTGCTGTGGCATCATGAATCAGACGAATAAG
1 ACCATAGCTGAAAGATGTTATGGCATCATGATTTAAACGAGTAAG
9239777 ACCAT
1 ACCAT
9239782 GATTGAAAAA
Statistics
Matches: 234, Mismatches: 32, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
44 84 0.36
45 148 0.63
46 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.25
Consensus pattern (45 bp):
ACCATAGCTGAAAGATGTTATGGCATCATGATTTAAACGAGTAAG
Found at i:9242181 original size:17 final size:18
Alignment explanation
Indices: 9242159--9242192 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9242149 CCAATTGGGC
9242159 CGTGTAGG-CCACACGGA
1 CGTGTAGGCCCACACGGA
9242176 CGTGTAGGCCCACACGG
1 CGTGTAGGCCCACACGG
9242193 GTGAACCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.21, C:0.32, G:0.35, T:0.12
Consensus pattern (18 bp):
CGTGTAGGCCCACACGGA
Found at i:9248076 original size:42 final size:42
Alignment explanation
Indices: 9248024--9248105 Score: 164
Period size: 42 Copynumber: 2.0 Consensus size: 42
9248014 CACCTAACCA
9248024 TGTTTCACACACGGCTGAGACACATGCCCGTGTGGACAAACG
1 TGTTTCACACACGGCTGAGACACATGCCCGTGTGGACAAACG
9248066 TGTTTCACACACGGCTGAGACACATGCCCGTGTGGACAAA
1 TGTTTCACACACGGCTGAGACACATGCCCGTGTGGACAAA
9248106 AATAGGCTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.27, C:0.28, G:0.26, T:0.20
Consensus pattern (42 bp):
TGTTTCACACACGGCTGAGACACATGCCCGTGTGGACAAACG
Found at i:9253943 original size:20 final size:21
Alignment explanation
Indices: 9253918--9253956 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
9253908 TTTAGACTCA
*
9253918 TTTTATTTTTATTT-TTTTAC
1 TTTTATTTCTATTTATTTTAC
9253938 TTTTATTTCTATTTATTTT
1 TTTTATTTCTATTTATTTT
9253957 TGAAGACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTATTTCTATTTATTTTAC
Found at i:9261501 original size:43 final size:43
Alignment explanation
Indices: 9261435--9261523 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
9261425 AAATCGTACA
* *
9261435 ATGCCAATGTCCTAGACGTGGTCTTACAT-GTAACCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTAC-TCGTAAACACATATCG
*
9261478 ATGCCACTGTCCCAGACAG-GGTCTTACTCGTAAACACATATCG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACTCGTAAACACATATCG
9261521 ATG
1 ATG
9261524 TCATGGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
42 1 0.02
43 39 0.95
44 1 0.02
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACTCGTAAACACATATCG
Found at i:9273422 original size:43 final size:44
Alignment explanation
Indices: 9273253--9273423 Score: 131
Period size: 43 Copynumber: 4.0 Consensus size: 44
9273243 ACATAGGTTC
*
9273253 CGATATATG-TTTTCATGTAAGACCACATCTGGGACGTTGGCAT
1 CGATATATGATTTACATGTAAGACCACATCTGGGACGTTGGCAT
*** * * **
9273296 CGACT-TATGATTTACATGTAAGACCATGCCTAGGACATCAGCAT
1 CGA-TATATGATTTACATGTAAGACCACATCTGGGACGTTGGCAT
* * *** *
9273340 C-ATATTTGATTT-CA-ATAAGACCTTGTCTGGGATAG-TGGCAT
1 CGATATATGATTTACATGTAAGACCACATCTGGGA-CGTTGGCAT
* *
9273381 CGATATTTG-TTTACATGCAAGACCACATCTGGGACGTTGGCAT
1 CGATATATGATTTACATGTAAGACCACATCTGGGACGTTGGCAT
9273424 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 23, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
41 22 0.23
42 13 0.13
43 34 0.35
44 28 0.29
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (44 bp):
CGATATATGATTTACATGTAAGACCACATCTGGGACGTTGGCAT
Found at i:9275266 original size:21 final size:21
Alignment explanation
Indices: 9275241--9275303 Score: 126
Period size: 21 Copynumber: 3.0 Consensus size: 21
9275231 ATGGGAGTTG
9275241 TATATTTAGGTTCAACACTTA
1 TATATTTAGGTTCAACACTTA
9275262 TATATTTAGGTTCAACACTTA
1 TATATTTAGGTTCAACACTTA
9275283 TATATTTAGGTTCAACACTTA
1 TATATTTAGGTTCAACACTTA
9275304 GCTTGATTGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (21 bp):
TATATTTAGGTTCAACACTTA
Found at i:9283276 original size:27 final size:26
Alignment explanation
Indices: 9283246--9283319 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
9283236 CCCCTAGTTG
*
9283246 TAAAATTACCAAAGTACCCCCGGTTTA
1 TAAAATTACCAAA-TACCCCCGATTTA
* * *
9283273 TAAAATTACCCAAATATCCTCGATTTG
1 TAAAATTA-CCAAATACCCCCGATTTA
*
9283300 TAAAATTATCAAAATACCCC
1 TAAAATTA-CCAAATACCCC
9283320 TGTAAGGTAG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
27 33 0.87
28 5 0.13
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (26 bp):
TAAAATTACCAAATACCCCCGATTTA
Found at i:9283884 original size:27 final size:27
Alignment explanation
Indices: 9283311--9283874 Score: 769
Period size: 27 Copynumber: 20.9 Consensus size: 27
9283301 AAAATTATCA
*
9283311 AAATACCCCTGTAAGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
9283338 AAATGCCCCTGTAAGGTAAAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
9283365 AAATACCCCTGTAGAGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
9283392 AAATACCCCTGTAAGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
9283419 AAATACCCCTGTAAGGTACAATTATTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* * *
9283446 AAATACCCCTGTAAGGTAAAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
9283473 AAATACCCTTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACTG
* * * *
9283500 AAATATCCTTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
9283527 -AATACCCCTGTAGTGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
9283553 AAATACCCCTATAAGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
9283580 AAATACCCCTGTAGGGTAAAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
9283607 AAATACCCCTGTAAGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACTG
* *
9283634 AAATACCCCTATATGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
9283661 AAATACCCCTATAGGGTAGAATTA-TCG
1 AAATACCCCTGTAGGGTAGAATTACT-G
* * *
9283688 AAATATCCCTGTAAGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACTG
9283715 AAATACCCCTGTAGGGTAGAATTA-TCG
1 AAATACCCCTGTAGGGTAGAATTACT-G
9283742 AAATACCCCTGTAGGGTAGAATTA-TCG
1 AAATACCCCTGTAGGGTAGAATTACT-G
*
9283769 AAATACCCCTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
9283796 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACTG
*
9283823 AAATACCCTTGTAGGGTAGGAA-TACTG
1 AAATACCCCTGTAGGGTA-GAATTACTG
9283850 AAATACCCCTGTAGGGTAGAATTAC
1 AAATACCCCTGTAGGGTAGAATTAC
9283875 CGAGAAACCC
Statistics
Matches: 481, Mismatches: 49, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
26 25 0.05
27 452 0.94
28 4 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACTG
Found at i:9284335 original size:6 final size:6
Alignment explanation
Indices: 9284304--9284434 Score: 99
Period size: 6 Copynumber: 21.3 Consensus size: 6
9284294 TTGCATTCAC
* * *
9284304 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
9284353 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTA ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
*
9284403 ATTCTG ATTCTG ATCCTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
9284435 AATGTTTCTT
Statistics
Matches: 100, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
5 6 0.06
6 82 0.82
7 9 0.09
8 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:9284336 original size:19 final size:19
Alignment explanation
Indices: 9284314--9284371 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
9284304 ATTCTGATTT
9284314 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
9284333 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
9284345 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
9284364 TGATTCTG
1 TGATTCTG
9284372 ATTCTGATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:9284342 original size:31 final size:31
Alignment explanation
Indices: 9284304--9284422 Score: 168
Period size: 31 Copynumber: 3.9 Consensus size: 31
9284294 TTGCATTCAC
*
9284304 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
9284335 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * * *
9284366 ATTCTGATTCTGATTCTGTCACCTAATTCTA
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
9284397 ATTCTGATTCTGATTCTGAT-CCTGAT
1 ATTCTGATTCTGATTCTGTTACCTGAT
9284423 TCTAGTTCTG
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
30 5 0.06
31 75 0.94
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:9286655 original size:69 final size:69
Alignment explanation
Indices: 9286524--9286656 Score: 198
Period size: 69 Copynumber: 1.9 Consensus size: 69
9286514 TAGTTTATTA
* * *
9286524 CTAATTAATTTGCTGCTGTAATGCTGTAAATTAATGGCTGCCAAATTAGGACAAATTTATGGTAC
1 CTAATTAATATGCTGCTGTAATACTGTAAATTAATGGCTGCCAAATTAGGACAAATTCATGGTAC
9286589 TTAG
66 TTAG
*
9286593 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACGAAA-TCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTAATGGCTG-CCAAATTAGGAC-AAATTCATGGT
9286656 A
64 A
9286657 TTATGTGCTA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
68 13 0.22
69 42 0.72
70 3 0.05
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (69 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTAATGGCTGCCAAATTAGGACAAATTCATGGTAC
TTAG
Found at i:9287475 original size:39 final size:39
Alignment explanation
Indices: 9287421--9287920 Score: 456
Period size: 39 Copynumber: 12.7 Consensus size: 39
9287411 GTATATCCAA
* *
9287421 ACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTGTCCGG
1 ACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGG
*
9287460 ACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATCCGG
1 ACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGG
* * * * * *
9287499 GCTTAAAGACTCGCAGGCTAT-ATGCTGGAATTATGTCCGG
1 ACTTAAGGTC-CGCAGGCT-TCGTGCTGGAATTGTATCCGG
* **
9287539 -GTGTAAAGACCCGCAGGCGTT-GTGCTGGAATTGTATCCGG
1 ACT-T-AAGGTCCGCAGGC-TTCGTGCTGGAATTGTATCCGG
*
9287579 ACTTAAGGTCCGCAGGCTTCATGCTGGAATTGTATCCGG
1 ACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGG
* *
9287618 ACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATTCGG
1 ACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGG
* ** * *
9287657 GCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTATATCCAGG
1 ACTT-AAGGTCCGCAGGCT-TCGTGCTGGAATTGTATCC-GG
** *
9287698 -CTTAAAGACCCGCAGGCTTTGTGCTGGAATTGTATCCGG
1 ACTT-AAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGG
*
9287737 ACTTAAGGTCCGCAGGCTTCGTGCT-GATTTGTATCCGG
1 ACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGG
* * * *
9287775 GCTTAAAGACCTACAGGCTTCGTGCTGGAATTGTATCTCGG
1 ACTTAAGGTCC-GCAGGCTTCGTGCTGGAATTGTATC-CGG
** * * *
9287816 -CTTAAAGACCCGTAGGCTTCATGCTGGAATTGTATCCTG
1 ACTT-AAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGG
* ** * * * * *
9287855 ACTTAAGATCCATAGGCTTCGTGCTGGTACTATATTCGA
1 ACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGG
* *
9287894 ACTTAAGGTCCGTAGGCTTCGTACTGG
1 ACTTAAGGTCCGCAGGCTTCGTGCTGG
9287921 TACTATATCC
Statistics
Matches: 385, Mismatches: 59, Indels: 34
0.81 0.12 0.07
Matches are distributed among these distances:
38 22 0.06
39 200 0.52
40 147 0.38
41 16 0.04
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
ACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGG
Found at i:9287538 original size:40 final size:39
Alignment explanation
Indices: 9287430--9287881 Score: 450
Period size: 40 Copynumber: 11.5 Consensus size: 39
9287420 AACTTAAGGT
* * * * *
9287430 CCGCAAGCTTCGTGCTGGAATTGTGTCCGGACTTAAGGT
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGA
*
9287469 CCGCAAGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGA
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGA
* * *
9287508 CTCGCAGGCTAT-ATGCTGGAATTATGTCCGGG-TGTAAAGA
1 C-CGCAGGCT-TCGTGCTGGAATTGTATCCGGGCT-TAAAGA
* * *
9287548 CCCGCAGGCGTT-GTGCTGGAATTGTATCCGGACTTAAGGT
1 -CCGCAGGC-TTCGTGCTGGAATTGTATCCGGGCTTAAAGA
* * * *
9287588 CCGCAGGCTTCATGCTGGAATTGTATCCGGACTTAAGGT
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGA
* *
9287627 CCGCAAGCTTCGTGCTGGAATTGTATTCGGGCTTAAAGA
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGA
* * *
9287666 CCCGCAGGCTAT-ATGCTGGAATTATATCCAGGCTTAAAGA
1 -CCGCAGGCT-TCGTGCTGGAATTGTATCCGGGCTTAAAGA
* * * *
9287706 CCCGCAGGCTTTGTGCTGGAATTGTATCCGGACTTAAGGT
1 -CCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGA
*
9287746 CCGCAGGCTTCGTGCT-GATTTGTATCCGGGCTTAAAGA
1 CCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGA
*
9287784 CCTACAGGCTTCGTGCTGGAATTGTATCTC-GGCTTAAAGA
1 CC-GCAGGCTTCGTGCTGGAATTGTATC-CGGGCTTAAAGA
* * * *
9287824 CCCGTAGGCTTCATGCTGGAATTGTATCCTGACTT-AAGA
1 -CCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGA
**
9287863 TCCATAGGCTTCGTGCTGG
1 -CCGCAGGCTTCGTGCTGG
9287882 TACTATATTC
Statistics
Matches: 352, Mismatches: 46, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
38 22 0.06
39 155 0.44
40 167 0.47
41 8 0.02
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.28
Consensus pattern (39 bp):
CCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGA
Found at i:9287704 original size:158 final size:156
Alignment explanation
Indices: 9287421--9287920 Score: 657
Period size: 158 Copynumber: 3.2 Consensus size: 156
9287411 GTATATCCAA
* *
9287421 ACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTGTCCGGACTTAAGGTCCGCAAGCTTCGTGCTG
1 ACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTG
* * * *
9287486 GAATTGTATCCGGGCTTAAAGACTCGCAGGCTATATGCTGGAATTATGTCCGGGTGTAAAGACCC
66 GAATTGTATTCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGCT-TAAAGACCC
9287551 GCAGGCGTTGTGCTGGAATTGTATCCGG
130 GCAGGC-TTGTGCTGGAATTGTATCCGG
*
9287579 ACTTAAGGTCCGCAGGCTTCATGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTG
1 ACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTG
9287644 GAATTGTATTCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCAGGCTTAAAGACCC
66 GAATTGTATTCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCC-GGCTTAAAGACCC
9287709 GCAGGCTTTGTGCTGGAATTGTATCCGG
130 GCAGGC-TTGTGCTGGAATTGTATCCGG
* * * * * *
9287737 ACTTAAGGTCCGCAGGCTTCGTGCT-GATTTGTATCCGGGCTTAAAGACCTACAGGCTTCGTGCT
1 ACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCC-GCAAGCTTCGTGCT
* * *
9287801 GGAATTGTATCTC-GGCTTAAAGACCCGTAGGCT-TCATGCTGGAATTGTATCCTGACTT-AAGA
65 GGAATTGTAT-TCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTATATCC-GGCTTAAAGA
* ** * * * * *
9287863 TCCATAGGCTTCGTGCTGGTACTATATTCGA
127 CCCGCAGGCTT-GTGCTGGAATTGTATCCGG
* *
9287894 ACTTAAGGTCCGTAGGCTTCGTACTGG
1 ACTTAAGGTCCGCAGGCTTCGTGCTGG
9287921 TACTATATCC
Statistics
Matches: 307, Mismatches: 29, Indels: 12
0.88 0.08 0.03
Matches are distributed among these distances:
156 2 0.01
157 68 0.22
158 232 0.76
159 5 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (156 bp):
ACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTG
GAATTGTATTCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGCTTAAAGACCCG
CAGGCTTGTGCTGGAATTGTATCCGG
Found at i:9287778 original size:118 final size:117
Alignment explanation
Indices: 9287430--9287881 Score: 518
Period size: 118 Copynumber: 3.8 Consensus size: 117
9287420 AACTTAAGGT
* * ** * *
9287430 CCGCAAGCTTCGTGCTGGAATTGTGTCCGGACTT-AAGGTCCGCAAGCTTCGTGCTGGAATTGTA
1 CCGCAGGCTT-GTGCTGGAATTGTATCCGG-CTTAAAGACCCGCAGGCTTCATGCTGGAATTGTA
* * * * * *
9287494 TCCGGGCTTAAAGACTCGCAGGCTAT-ATGCTGGAATTATGTCCGGG-TGTAAAGAC
64 TCCGGACTTAAGGTC-CGCAGGCT-TCGTGCTGGAATTGTATCCGGGCT-TAAAGAC
**
9287549 CCGCAGGCGTTGTGCTGGAATTGTATCCGGACTT-AAGGTCCGCAGGCTTCATGCTGGAATTGTA
1 CCGCAGGC-TTGTGCTGGAATTGTATCCGG-CTTAAAGACCCGCAGGCTTCATGCTGGAATTGTA
* *
9287613 TCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATTCGGGCTTAAAGAC
64 TCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
* * **
9287667 CCGCAGGCTATATGCTGGAATTATATCCAGGCTTAAAGACCCGCAGGCTTTGTGCTGGAATTGTA
1 CCGCAGGCT-TGTGCTGGAATTGTATCC-GGCTTAAAGACCCGCAGGCTTCATGCTGGAATTGTA
*
9287732 TCCGGACTTAAGGTCCGCAGGCTTCGTGCT-GATTTGTATCCGGGCTTAAAGAC
64 TCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
** *
9287785 CTACAGGCTTCGTGCTGGAATTGTATCTCGGCTTAAAGACCCGTAGGCTTCATGCTGGAATTGTA
1 CCGCAGGCTT-GTGCTGGAATTGTATC-CGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTGTA
* * **
9287850 TCCTGACTTAAGATCCATAGGCTTCGTGCTGG
64 TCCGGACTTAAGGTCCGCAGGCTTCGTGCTGG
9287882 TACTATATTC
Statistics
Matches: 292, Mismatches: 32, Indels: 18
0.85 0.09 0.05
Matches are distributed among these distances:
117 3 0.01
118 158 0.54
119 129 0.44
120 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.28
Consensus pattern (117 bp):
CCGCAGGCTTGTGCTGGAATTGTATCCGGCTTAAAGACCCGCAGGCTTCATGCTGGAATTGTATC
CGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGAC
Found at i:9287911 original size:118 final size:117
Alignment explanation
Indices: 9287422--9287952 Score: 448
Period size: 118 Copynumber: 4.5 Consensus size: 117
9287412 TATATCCAAA
* * * * * ** * *
9287422 CTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTGTCCGGACTT-AAGGTCCGCAAGCTTCGTGCTG
1 CTTAAGGACCGTAGGCTTCGTGCTGGAATTATATCCGG-CTTAAAGACCCGCAGGCTTCATGCTG
* * * * * * * *
9287486 GAATTGTATCCGGGCTTAAAGACTCGCAGGCTAT-ATGCTGGAATTATGTCCGGG
65 GAATTGTATCCGGACTTAAGGTC-CGCAGGCT-TCGTGCTGGTATTGTATTCGGG
* * * **
9287540 -TGTAAAGACCCGCAGGCGTT-GTGCTGGAATTGTATCCGGACTT-AAGGTCCGCAGGCTTCATG
1 CT-TAAGGA-CCGTAGGC-TTCGTGCTGGAATTATATCCGG-CTTAAAGACCCGCAGGCTTCATG
* *
9287602 CTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATTCGGG
62 CTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGTATTGTATTCGGG
* * * **
9287658 CTTAAAGACCCGCAGGCTAT-ATGCTGGAATTATATCCAGGCTTAAAGACCCGCAGGCTTTGTGC
1 CTTAAGGA-CCGTAGGCT-TCGTGCTGGAATTATATCC-GGCTTAAAGACCCGCAGGCTTCATGC
* *
9287722 TGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGAT-TTGTATCCGGG
63 TGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGTATTGTATTCGGG
* * *
9287776 CTTAAAGACC-TACAGGCTTCGTGCTGGAATTGTATCTCGGCTTAAAGACCCGTAGGCTTCATGC
1 CTTAAGGACCGT--AGGCTTCGTGCTGGAATTATATC-CGGCTTAAAGACCCGCAGGCTTCATGC
* * ** * * **
9287840 TGGAATTGTATCCTGACTTAAGATCCATAGGCTTCGTGCTGGTACTATATTCGAA
63 TGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGTATTGTATTCGGG
* * * * * *
9287895 CTTAAGGTCCGTAGGCTTCGTACTGGTACTATATCCGAGCTTAAAGTCCCGTAGGCTT
1 CTTAAGGACCGTAGGCTTCGTGCTGGAATTATATCCG-GCTTAAAGACCCGCAGGCTT
9287953 TGTGTTGGTG
Statistics
Matches: 351, Mismatches: 47, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
117 8 0.02
118 197 0.56
119 143 0.41
120 3 0.01
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (117 bp):
CTTAAGGACCGTAGGCTTCGTGCTGGAATTATATCCGGCTTAAAGACCCGCAGGCTTCATGCTGG
AATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGTATTGTATTCGGG
Found at i:9287921 original size:39 final size:39
Alignment explanation
Indices: 9287855--9287952 Score: 133
Period size: 39 Copynumber: 2.5 Consensus size: 39
9287845 TTGTATCCTG
* * * *
9287855 ACTTAAGATCCATAGGCTTCGTGCTGGTACTATATTCGA
1 ACTTAAGGTCCGTAGGCTTCGTACTGGTACTATATCCGA
9287894 ACTTAAGGTCCGTAGGCTTCGTACTGGTACTATATCCGA
1 ACTTAAGGTCCGTAGGCTTCGTACTGGTACTATATCCGA
* *
9287933 GCTTAAAGTCCCGTAGGCTT
1 ACTTAAGGT-CCGTAGGCTT
9287953 TGTGTTGGTG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 42 0.81
40 10 0.19
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.32
Consensus pattern (39 bp):
ACTTAAGGTCCGTAGGCTTCGTACTGGTACTATATCCGA
Found at i:9301620 original size:68 final size:69
Alignment explanation
Indices: 9301471--9301605 Score: 236
Period size: 68 Copynumber: 2.0 Consensus size: 69
9301461 CAAGACTAAT
*
9301471 AACGTCTAATCCCTAGATTGAATAACCGAGACTTTTCTCTAATTAACACTCTAGGGTTGCATTAA
1 AACGTATAATCCCTAGATTGAATAACCGAGACTTTTCTCTAATTAACACTCTAGGGTTGCATTAA
*
9301536 CTAT
66 CTAG
*
9301540 AACGTCTAATCCCTAGATTGAATAACCGAGAC-TTTCTCTAATTAACACTCTAGGGTTGCATTAA
1 AACGTATAATCCCTAGATTGAATAACCGAGACTTTTCTCTAATTAACACTCTAGGGTTGCATTAA
9301604 CT
66 CT
9301606 CGATCTATGG
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
68 34 0.52
69 32 0.48
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (69 bp):
AACGTATAATCCCTAGATTGAATAACCGAGACTTTTCTCTAATTAACACTCTAGGGTTGCATTAA
CTAG
Found at i:9315859 original size:25 final size:27
Alignment explanation
Indices: 9315830--9315891 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 27
9315820 TTTTACTGTA
9315830 TTTATTATTACAGATATTT-T-AAATT
1 TTTATTATTACAGATATTTATAAAATT
* * *
9315855 TTTATGATTAGATATATTTATAAAATT
1 TTTATTATTACAGATATTTATAAAATT
*
9315882 ATTATTATTA
1 TTTATTATTA
9315892 TTATAATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 16 0.53
26 1 0.03
27 13 0.43
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (27 bp):
TTTATTATTACAGATATTTATAAAATT
Found at i:9321821 original size:30 final size:30
Alignment explanation
Indices: 9321787--9321847 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
9321777 TCCTTAACTC
9321787 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
9321817 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
9321847 A
1 A
9321848 GGATCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Done.