Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, 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: 6671611
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 27
Found at i:4931368 original size:20 final size:20
Alignment explanation
Indices: 4931345--4931416 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 20
4931335 GTTTCTAGAT
4931345 TCGCAACACGATTTTGACTA
1 TCGCAACACGATTTTGACTA
* * * *
4931365 TCGCAATACGAATATGTA-AA
1 TCGCAACACGATTTTG-ACTA
* *
4931385 TCGCAACGCAATTTTGACTA
1 TCGCAACACGATTTTGACTA
* *
4931405 TCACAACGCGAT
1 TCGCAACACGAT
4931417 AATACATAAT
Statistics
Matches: 38, Mismatches: 12, Indels: 4
0.70 0.22 0.07
Matches are distributed among these distances:
19 1 0.03
20 36 0.95
21 1 0.03
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (20 bp):
TCGCAACACGATTTTGACTA
Found at i:4931434 original size:21 final size:21
Alignment explanation
Indices: 4931404--4931458 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
4931394 AATTTTGACT
*
4931404 ATCACAACGCGATAATACATA
1 ATCACAACGCGATAATACAAA
*
4931425 ATCGCAACGCGATAATACAAA
1 ATCACAACGCGATAATACAAA
*
4931446 ATCACAATGCGAT
1 ATCACAACGCGAT
4931459 TTTCATAGCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.45, C:0.24, G:0.13, T:0.18
Consensus pattern (21 bp):
ATCACAACGCGATAATACAAA
Found at i:4932136 original size:20 final size:20
Alignment explanation
Indices: 4932079--4932136 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
4932069 TTCATTTAGA
*
4932079 GTTGCGATAGTCAA-ATTCGC
1 GTTGCGATAGT-AAGTTTCGC
* *
4932099 GTTGCGATAGTAATTTTCGT
1 GTTGCGATAGTAAGTTTCGC
**
4932119 GTTGCGATTTTAAGTTTC
1 GTTGCGATAGTAAGTTTC
4932137 AGAAACTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.41
Consensus pattern (20 bp):
GTTGCGATAGTAAGTTTCGC
Found at i:4933735 original size:21 final size:21
Alignment explanation
Indices: 4933711--4933766 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
4933701 TGGTGCATGG
* *
4933711 CGTGATGAGGTATCTACTTTA
1 CGTGATGAGGTAGCGACTTTA
* *
4933732 CGTGGTGAGGTAGCGGCTTTA
1 CGTGATGAGGTAGCGACTTTA
4933753 CGTGA-GATGGTAGC
1 CGTGATGA-GGTAGC
4933767 ATCGTTGCAG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.20, C:0.14, G:0.36, T:0.30
Consensus pattern (21 bp):
CGTGATGAGGTAGCGACTTTA
Found at i:4933891 original size:18 final size:18
Alignment explanation
Indices: 4933845--4933894 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
4933835 TTTACTCGTA
*
4933845 ATTTCACTTAAATTAACC
1 ATTTCACTTAGATTAACC
4933863 ATTTCACTTAGATTAACC
1 ATTTCACTTAGATTAACC
4933881 ATTTCACTTAGATT
1 ATTTCACTTAGATT
4933895 GCTTAGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (18 bp):
ATTTCACTTAGATTAACC
Found at i:4934077 original size:20 final size:20
Alignment explanation
Indices: 4934052--4934120 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
4934042 ATGAAACTTA
4934052 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
4934072 ATCGCAATGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
4934092 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
4934112 ATCGCAACG
1 ATCGCAACG
4934121 AGATAATCGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:4934149 original size:19 final size:20
Alignment explanation
Indices: 4934125--4934171 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
4934115 GCAACGAGAT
*
4934125 AATCGCAATGC-GAAATAAA
1 AATCGCAATGCAAAAATAAA
*
4934144 AATCGCAATGCAAAAATGAA
1 AATCGCAATGCAAAAATAAA
4934164 AATCGCAA
1 AATCGCAA
4934172 CGAGAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.53, C:0.17, G:0.15, T:0.15
Consensus pattern (20 bp):
AATCGCAATGCAAAAATAAA
Found at i:4934209 original size:19 final size:19
Alignment explanation
Indices: 4934190--4934254 Score: 94
Period size: 19 Copynumber: 3.4 Consensus size: 19
4934180 TAGTTTAGCG
** *
4934190 TTGCGATTTTGGTTTCGCG
1 TTGCGATTTTTATTTCGCA
4934209 TTGCGATTTTTATTTCGCA
1 TTGCGATTTTTATTTCGCA
*
4934228 TTGCGCTTTTTATTTCGCA
1 TTGCGATTTTTATTTCGCA
4934247 TTGCGATT
1 TTGCGATT
4934255 ATCTTGTTGC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.11, C:0.17, G:0.22, T:0.51
Consensus pattern (19 bp):
TTGCGATTTTTATTTCGCA
Found at i:4934321 original size:20 final size:20
Alignment explanation
Indices: 4934260--4934323 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
4934250 CGATTATCTT
** *
4934260 GTTGCGATAGTCAAATTTGT
1 GTTGCGATAGTCATTTTTGC
* *
4934280 GTAGCGATAGTC-TTTTCCGC
1 GTTGCGATAGTCATTTT-TGC
4934300 GTTGCGATAGTCATTTTTGC
1 GTTGCGATAGTCATTTTTGC
4934320 GTTG
1 GTTG
4934324 TGATTTTAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
19 2 0.06
20 29 0.83
21 4 0.11
ACGTcount: A:0.17, C:0.16, G:0.27, T:0.41
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTTGC
Found at i:4934882 original size:18 final size:18
Alignment explanation
Indices: 4934841--4934900 Score: 93
Period size: 18 Copynumber: 3.2 Consensus size: 18
4934831 CTCACCTGTC
4934841 ATCGTTCAAGAGGCCTCTCCT
1 ATCGTTCAAGAGG-C-C-CCT
4934862 ATCGTTCAAGAGGCCCCT
1 ATCGTTCAAGAGGCCCCT
4934880 ATCGTTCAAGAGGCCCCT
1 ATCGTTCAAGAGGCCCCT
4934898 ATC
1 ATC
4934901 ATCCCTCAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
18 24 0.62
19 1 0.03
20 1 0.03
21 13 0.33
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (18 bp):
ATCGTTCAAGAGGCCCCT
Found at i:4934930 original size:21 final size:21
Alignment explanation
Indices: 4934840--4934974 Score: 123
Period size: 21 Copynumber: 6.6 Consensus size: 21
4934830 ACTCACCTGT
*
4934840 CATCGTTCAAGAGGCCTCTCC
1 CATCGTTCAAGAGGCCCCTCC
*
4934861 TATCGTTCAAGAGGCCCCT--
1 CATCGTTCAAGAGGCCCCTCC
**
4934880 -ATCGTTCAAGAGGCCCCTAT
1 CATCGTTCAAGAGGCCCCTCC
** **
4934900 CATCCCTCAAGAGTTCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
* **
4934921 CATCGTTCAATAGGCCCCTGT
1 CATCGTTCAAGAGGCCCCTCC
* *
4934942 CATCGTTGAAGAGGTCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
*
4934963 CATCGTTTAAGA
1 CATCGTTCAAGA
4934975 TCCCGATTCA
Statistics
Matches: 90, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
18 18 0.20
21 72 0.80
ACGTcount: A:0.21, C:0.34, G:0.19, T:0.26
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCCCTCC
Found at i:4936524 original size:20 final size:20
Alignment explanation
Indices: 4936499--4936576 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
4936489 AGGTACACTT
*
4936499 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAACTCAAAA
* *
4936519 TCGCAACGCGAAAGTTAAAA
1 TCGCAACGCGAAACTCAAAA
* *
4936539 TCGAAATGCGAAAGC-CAAAA
1 TCGCAACGCGAAA-CTCAAAA
*
4936559 TCGCAACGCGAAAGTCAA
1 TCGCAACGCGAAACTCAA
4936577 TTCGCGTTGT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.45, C:0.24, G:0.18, T:0.13
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:4936680 original size:20 final size:20
Alignment explanation
Indices: 4936615--4936745 Score: 112
Period size: 20 Copynumber: 6.8 Consensus size: 20
4936605 TTGATTTTCT
*
4936615 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
** * *
4936635 CGCCGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCG
*
4936655 CTTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
4936675 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
*
4936689 CGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
* *
4936709 CGTTGCGATTGTCATATTCG
1 CGTTGCGATAGTCAAATTCG
* *
4936729 CGTTGTGATATTCAAAT
1 CGTTGCGATAGTCAAAT
4936746 AAATGTGTAC
Statistics
Matches: 88, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
14 12 0.14
16 1 0.01
18 1 0.01
20 74 0.84
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:4936744 original size:74 final size:73
Alignment explanation
Indices: 4936565--4936746 Score: 177
Period size: 74 Copynumber: 2.5 Consensus size: 73
4936555 AAAATCGCAA
* * * **
4936565 CGCGAAAGTCAATTCGCGTTGTGATAGTCTAATACGATTTTTGATTTTCTCGTTGCGATAGTCAA
1 CGCGATAGTCAATTCGCGTTGTGATAGTCAAATACGAGTTGCGATTTTCTCGTTGCGATAGTCAA
4936630 ATTCCCGC
66 ATTCCCGC
* * * * * *
4936638 CGCGATAATCAAATTCACTTTGCGATAGTCAAATTCGCGTTGCGATTTT-TGCGTTGCGATAGTC
1 CGCGATAGTC-AATTCGCGTTGTGATAGTCAAATACGAGTTGCGATTTTCT-CGTTGCGATAGTC
* * *
4936702 ATATTCGCGT
64 AAATTCCCGC
* * *
4936712 TGCGATTGTCATATTCGCGTTGTGATATTCAAATA
1 CGCGATAGTCA-ATTCGCGTTGTGATAGTCAAATA
4936747 AATGTGTACT
Statistics
Matches: 84, Mismatches: 22, Indels: 5
0.76 0.20 0.05
Matches are distributed among these distances:
73 10 0.12
74 74 0.88
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (73 bp):
CGCGATAGTCAATTCGCGTTGTGATAGTCAAATACGAGTTGCGATTTTCTCGTTGCGATAGTCAA
ATTCCCGC
Found at i:4936976 original size:140 final size:140
Alignment explanation
Indices: 4936719--4936987 Score: 493
Period size: 140 Copynumber: 1.9 Consensus size: 140
4936709 CGTTGCGATT
* * *
4936719 GTCATATTCGCGTTGTGATATTCAAATAAATGTGTACTAAGTGATAACAACTGAACAGATCATAG
1 GTCAAATTCGCGTTGCGATATTCAAATAAATGTGTAATAAGTGATAACAACTGAACAGATCATAG
4936784 CAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAAT
66 CAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAAT
4936849 ACACATAATA
131 ACACATAATA
* *
4936859 GTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATCATAG
1 GTCAAATTCGCGTTGCGATATTCAAATAAATGTGTAATAAGTGATAACAACTGAACAGATCATAG
4936924 CAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAA
66 CAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAA
4936988 GGTGAAGCCG
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 124 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (140 bp):
GTCAAATTCGCGTTGCGATATTCAAATAAATGTGTAATAAGTGATAACAACTGAACAGATCATAG
CAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAAAAT
ACACATAATA
Found at i:4939082 original size:14 final size:14
Alignment explanation
Indices: 4939063--4939099 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4939053 TCCCGTGGCA
4939063 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
4939077 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
4939091 TTCTTCTTC
1 TT-TTCTTC
4939100 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:4939325 original size:24 final size:24
Alignment explanation
Indices: 4939289--4939348 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
4939279 CTGAAACATC
*
4939289 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
*
4939313 ATCAAAGTTCGAGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
*
4939337 ATCAAATTTCGA
1 ATCAAAATTCGA
4939349 ATACTGACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (24 bp):
ATCAAAATTCGAGTATTGACCAAG
Found at i:4939356 original size:24 final size:24
Alignment explanation
Indices: 4939305--4939356 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4939295 ATCCGAGTAT
* *
4939305 TGACCAAGATCAAAGTTCGAGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
4939329 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
4939353 TGAC
1 TGAC
4939357 TAGTACTCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:4940183 original size:20 final size:20
Alignment explanation
Indices: 4940158--4940225 Score: 118
Period size: 20 Copynumber: 3.4 Consensus size: 20
4940148 GAAATTCAGC
*
4940158 GTTGCGATAATCAGAATCGT
1 GTTGCGATAGTCAGAATCGT
4940178 GTTGCGATAGTCAGAATCGT
1 GTTGCGATAGTCAGAATCGT
*
4940198 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGT
4940218 GTTGCGAT
1 GTTGCGAT
4940226 TTACATATTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGT
Found at i:4940331 original size:20 final size:19
Alignment explanation
Indices: 4940308--4940353 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4940298 GGAAACTGAT
*
4940308 TTGCGATACTGGAGATCGCA
1 TTGCGAT-CTAGAGATCGCA
*
4940328 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
*
4940347 TTACGAT
1 TTGCGAT
4940354 TTTGTTGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:4940343 original size:19 final size:19
Alignment explanation
Indices: 4940319--4940355 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4940309 TGCGATACTG
*
4940319 GAGATCGCATTGCGATTTA
1 GAGATCGCATTACGATTTA
4940338 GAGATCGCATTACGATTT
1 GAGATCGCATTACGATTT
4940356 TGTTGGTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTACGATTTA
Found at i:4941113 original size:22 final size:22
Alignment explanation
Indices: 4941087--4941129 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4941077 TAATAAATTA
*
4941087 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATACATAT
*
4941109 TTTAAAATAAATTAATACATA
1 TTTAAAATAAATCAATACATA
4941130 CTAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:4941182 original size:80 final size:80
Alignment explanation
Indices: 4941092--4941649 Score: 786
Period size: 80 Copynumber: 6.9 Consensus size: 80
4941082 AATTATTTAA
* *
4941092 AATAAATCAATCCATATTTTAAAATAAATTAATACATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
4941157 CCATACAACTACAAT
66 CCATACAACTACAAT
* * *
4941172 AATAAATCAATCAATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATAAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
4941237 CCATACTAA-TAAATTATTT
66 CCATAC-AACTACA--A--T
*
4941256 AAAATAAATCAATCCATATTTTAAAATAAATTAATCCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
4941321 ATCCATACAACTACAAT
64 ATCCATACAACTACAAT
4941338 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* **
4941403 CCAT---ATTTTAA-
66 CCATACAACTACAAT
* * *
4941414 AATAAATTAATCAATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
** *
4941479 AAATACTAA-TAAATTATTT
66 CCATAC-AACTACA--A--T
* *
4941498 AAAATAAGTCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCA
1 --AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCA
4941563 ATCCATACAACTACAAT
64 ATCCATACAACTACAAT
4941580 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
4941645 CCATA
66 CCATA
4941650 TTTTAAAATA
Statistics
Matches: 426, Mismatches: 32, Indels: 40
0.86 0.06 0.08
Matches are distributed among these distances:
76 64 0.15
77 4 0.01
79 2 0.00
80 206 0.48
81 3 0.01
82 3 0.01
84 3 0.01
85 4 0.01
86 137 0.32
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.34
Consensus pattern (80 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:4941218 original size:22 final size:22
Alignment explanation
Indices: 4941145--4941218 Score: 53
Period size: 22 Copynumber: 3.2 Consensus size: 22
4941135 AAATTATTTA
*
4941145 AAATAAATCAATCCATACAACT
1 AAATAAATCAATCCATACAAAT
* *
4941167 ACAAT-AATAAATCAAT-CAATATTTT
1 A-AATAAATCAATCCATACAA-A---T
4941192 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
4941215 AAAT
1 AAAT
4941219 TATTTAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 16
0.65 0.08 0.27
Matches are distributed among these distances:
21 3 0.08
22 14 0.36
23 4 0.10
25 4 0.10
26 11 0.28
27 3 0.08
ACGTcount: A:0.57, C:0.16, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:4941225 original size:32 final size:32
Alignment explanation
Indices: 4941189--4941694 Score: 236
Period size: 32 Copynumber: 16.4 Consensus size: 32
4941179 CAATCAATAT
4941189 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
4941221 TTTAAAATAAATAAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
4941253 TTTAAAATAAATCAATCCATATTTTAAAATAAATTAA
1 TTTAAAATAAATCAATCCATA----CAAATAAATT-A
* * * * *
4941290 TCCATACTAATAAAT-TAT--TTA-AAATAAATCAA
1 T--TTA-AAATAAATCAATCCATACAAATAAAT-TA
* * ** **
4941322 TCCATACAACTACAAT-AATAAAT-C-AATCCA-TA
1 T--TTA-AAATA-AATCAATCCATACAAATAAATTA
*
4941354 TTTTAAAATAAATCAATCCATACTAATAAATTA
1 -TTTAAAATAAATCAATCCATACAAATAAATTA
*
4941387 TTTAAAATAAATCAATCCATATTTTAAAATAAATTAATCAATA
1 TTTAAAATAAATCAATCCATA----CAAAT--A--AAT---TA
4941430 TTTTAAAATAAATCAATCCATACAAATAAATTA
1 -TTTAAAATAAATCAATCCATACAAATAAATTA
** *
4941463 TTTAAAATAAATCAATAAATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
4941495 TTTAAAATAAGTCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
4941517 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
* *
4941549 TTTAAAATAAATCAATCCATACAACTACA--A
1 TTTAAAATAAATCAATCCATACAAATAAATTA
4941579 --T--AATAAATCAATCCAT----AT------
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
4941597 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
4941629 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACAAATAAATTA
*
4941651 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACAAATAAATTA
4941683 TTTAAAATAAAT
1 TTTAAAATAAAT
4941695 TATTTTAAAA
Statistics
Matches: 373, Mismatches: 37, Indels: 128
0.69 0.07 0.24
Matches are distributed among these distances:
20 1 0.00
22 47 0.13
23 4 0.01
24 2 0.01
26 23 0.06
28 7 0.02
29 3 0.01
30 12 0.03
31 6 0.02
32 192 0.51
33 10 0.03
34 4 0.01
35 1 0.00
36 14 0.04
37 4 0.01
38 2 0.01
39 4 0.01
40 14 0.04
43 2 0.01
44 21 0.06
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACAAATAAATTA
Found at i:4941279 original size:22 final size:22
Alignment explanation
Indices: 4941253--4941295 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4941243 TAATAAATTA
4941253 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
4941275 TTTAAAATAAATTAATCCATA
1 TTTAAAATAAATCAATCCATA
4941296 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:4941279 original size:54 final size:55
Alignment explanation
Indices: 4941077--4941694 Score: 423
Period size: 54 Copynumber: 11.4 Consensus size: 55
4941067 ACAACTACAA
* *
4941077 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATTAATACATAC
1 TAATAAATTATTTAAAATAAATCAATCCATACTTTTAAAATAAATAAATCCATAC
*** * *
4941131 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATACTTTTAAAATAAATAAATCCATAC
4941184 -AAT--A-T-TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATAAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATAC--------T-TTTAAAATAAATAAATCCATAC
*
4941243 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATTAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATACTTTTAAAATAAATAAATCCATAC
*** * *
4941297 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATACTTTTAAAATAAATAAATCCATAC
* ** * ** **
4941350 -CAT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATACTTTTAAAATAAAT-AAATCCATAC
** * * *
4941400 -AATCCA-TATTTTAAAATAAATTAATCAATA-TTTTAAAATAAATCAATCCATAC
1 TAATAAATTA-TTTAAAATAAATCAATCCATACTTTTAAAATAAATAAATCCATAC
* ** ** * ** *
4941453 AAATAAATTATTTAAAATAAATCAATAAATACTAATAAATTATTTAAA---ATAAG
1 TAATAAATTATTTAAAATAAATCAATCCATACTTTTAAAATAAATAAATCCAT-AC
** * ** *
4941506 TCAATCCA-TATTTTAAAATAAATCAATTCATACTAATAAATTATTTAAAATAAATCAAT-C
1 T-AATAAATTA-TTTAAAATAAATCAATCCATACTTTTAAA--A--T-AAATAAATCCATAC
* * * *
4941566 -CATACAACTA--CAATAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATAC
1 TAATA-AATTATTTAA-AATAAATCAATCCATACTTTTAAAATAAATAAATCCATAC
*
4941619 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATACTTTTAAAATAAATAAATCCATAC
4941673 TAATAAATTATTTAAAATAAAT
1 TAATAAATTATTTAAAATAAAT
4941695 TATTTTAAAA
Statistics
Matches: 448, Mismatches: 70, Indels: 92
0.73 0.11 0.15
Matches are distributed among these distances:
48 49 0.11
49 3 0.01
50 12 0.03
52 24 0.05
53 20 0.04
54 237 0.53
55 26 0.06
57 12 0.03
58 28 0.06
59 7 0.02
60 5 0.01
62 3 0.01
63 1 0.00
64 21 0.05
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (55 bp):
TAATAAATTATTTAAAATAAATCAATCCATACTTTTAAAATAAATAAATCCATAC
Found at i:4941304 original size:22 final size:22
Alignment explanation
Indices: 4941255--4941303 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
4941245 ATAAATTATT
**
4941255 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
4941277 TAAAATAAATTAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
4941300 TAAA
1 TAAA
4941304 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:4941357 original size:166 final size:164
Alignment explanation
Indices: 4941078--4941649 Score: 812
Period size: 166 Copynumber: 3.5 Consensus size: 164
4941068 CAACTACAAT
* *
4941078 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATTAATACATACTAATAAATTATT
1 AATAAA-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
*
4941143 TAAAATAAATCAATCCATACAACTACAATAATAAATCAATCAATATTTTAAAATAAATCAATCCA
65 TAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCA
* *
4941208 TACAAATAAATTATTTAAAATAAATAAATCCATAC
130 TACTAATAAATTATTTAAAATAAATCAATCCATAC
*
4941243 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATTAATCCATACTAATAAATTAT
1 -AATAAA-TATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
4941308 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
64 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
4941373 ATACTAATAAATTATTTAAAATAAATCAAT-C---C
129 ATACTAATAAATTATTTAAAATAAATCAATCCATAC
* * *
4941405 -AT--AT-TTTAAAATAAATTAATCAATATTTTAAAATAAATCAATCCATACAAATAAATTATTT
1 AATAAATATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
** * *
4941466 AAAATAAATCAATAAATACTAA-TAAATTATTTAAAATAAGTCAATCCATATTTTAAAATAAATC
66 AAAATAAATCAATCCATAC-AACTACA--A--T--AATAAATCAATCCATATTTTAAAATAAATC
*
4941530 AATTCATACTAATAAATTATTTAAAATAAATCAATCCATAC
124 AATCCATACTAATAAATTATTTAAAATAAATCAATCCATAC
*
4941571 AACTACA-A--T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
1 AA-TAAATATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATT
4941631 TAAAATAAATCAATCCATA
65 TAAAATAAATCAATCCATA
4941650 TTTTAAAATA
Statistics
Matches: 372, Mismatches: 18, Indels: 32
0.88 0.04 0.08
Matches are distributed among these distances:
156 73 0.20
157 3 0.01
158 2 0.01
160 3 0.01
162 64 0.17
163 1 0.00
165 1 0.00
166 221 0.59
167 1 0.00
168 2 0.01
170 1 0.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (164 bp):
AATAAATATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTT
AAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCAT
ACTAATAAATTATTTAAAATAAATCAATCCATAC
Found at i:4941384 original size:22 final size:23
Alignment explanation
Indices: 4941309--4941383 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
4941299 ATAAATTATT
4941309 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
4941331 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
4941357 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
4941380 TAAA
1 TAAA
4941384 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:4941413 original size:22 final size:22
Alignment explanation
Indices: 4941387--4941451 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
4941377 TAATAAATTA
4941387 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
* *
4941409 TTTAAAATAAATTAATCAATAT
1 TTTAAAATAAATCAATCCATAT
4941431 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
4941452 CAAATAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:4941521 original size:22 final size:22
Alignment explanation
Indices: 4941495--4941537 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4941485 TAATAAATTA
*
4941495 TTTAAAATAAGTCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
4941517 TTTAAAATAAATCAATTCATA
1 TTTAAAATAAATCAATCCATA
4941538 CTAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:4941521 original size:242 final size:242
Alignment explanation
Indices: 4941092--4941667 Score: 1008
Period size: 242 Copynumber: 2.4 Consensus size: 242
4941082 AATTATTTAA
* *
4941092 AATAAATCAATCCATATTTTAAAATAAATTAATACATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
* **
4941157 CCATACAACTACAATAATAAATCAATCAATATTTTAAAATAAATCAATCCATACAAATAAATTAT
66 CCAT---ATTTTAA-AATAAATCAATCAATATTTTAAAATAAATCAATCCATACAAATAAATTAT
**
4941222 TTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAAT
127 TTAAAATAAATAAATAAATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAAT
*
4941287 TAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
192 CAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
4941338 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
*
4941403 CCATATTTTAAAATAAATTAATCAATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAA
66 CCATATTTTAAAATAAATCAATCAATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAA
* *
4941468 AATAAATCAATAAATACTAATAAATTATTTAAAATAAGTCAATCCATATTTTAAAATAAATCAAT
131 AATAAATAAATAAATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
*
4941533 TCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
196 CCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
4941580 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
4941645 CCATATTTTAAAATAAATCAATC
66 CCATATTTTAAAATAAATCAATC
4941668 CATACTAATA
Statistics
Matches: 317, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
242 246 0.78
243 4 0.01
246 67 0.21
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (242 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATATTTTAAAATAAATCAATCAATATTTTAAAATAAATCAATCCATACAAATAAATTATTTAA
AATAAATAAATAAATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAAT
CCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT
Found at i:4941626 original size:22 final size:23
Alignment explanation
Indices: 4941551--4941625 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
4941541 ATAAATTATT
4941551 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
4941573 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
4941599 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
4941622 TAAA
1 TAAA
4941626 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:4941655 original size:22 final size:22
Alignment explanation
Indices: 4941629--4941729 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
4941619 TAATAAATTA
4941629 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
4941651 TTTAAAATAAATCAATCCATACT
1 TTTAAAATAAATCAATCCATA-T
** * ** * **
4941674 AATAAATTATTTAAAATAAATTAT
1 TTTAAAATAAAT-CAATCCA-TAT
4941698 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
*
4941720 TTTATAATAA
1 TTTAAAATAA
4941730 TTTATTTTAA
Statistics
Matches: 59, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
22 33 0.56
23 12 0.20
24 12 0.20
25 2 0.03
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:4941703 original size:15 final size:15
Alignment explanation
Indices: 4941674--4941776 Score: 109
Period size: 15 Copynumber: 6.5 Consensus size: 15
4941664 AATCCATACT
4941674 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
4941688 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
4941703 AATAAATCAATCCATATTTTAT
1 AAT--A--AAT---TATTTTAA
*
4941725 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
4941740 AATAAATTATTTTAT
1 AATAAATTATTTTAA
4941755 AATAAATTATTTTAA
1 AATAAATTATTTTAA
4941770 AATAAAT
1 AATAAAT
4941777 AACCTTATTA
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
14 9 0.12
15 49 0.65
17 1 0.01
18 2 0.03
19 3 0.04
20 1 0.01
22 10 0.13
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:4941716 original size:69 final size:67
Alignment explanation
Indices: 4941620--4941776 Score: 210
Period size: 69 Copynumber: 2.3 Consensus size: 67
4941610 AATCCATACT
*
4941620 AATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA-
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAAT-AATCAAT-CATA-AAATAAATTAT
4941683 TTTAA
63 TTTAA
* ** **
4941688 AATAAATTATTTTAAAATAAATCAATCCATATTTTATAATAATTTATTTTAAAATAAATTATTTT
1 AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAATCAATCATAAAATAAATTATTTT
*
4941753 AT
66 AA
4941755 AATAAATTATTTTAAAATAAAT
1 AATAAATTATTTTAAAATAAAT
4941777 AACCTTATTA
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
66 9 0.11
67 28 0.35
68 14 0.17
69 29 0.36
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (67 bp):
AATAAATTATTTTAAAATAAATCAATCCATATTTTAAAATAATCAATCATAAAATAAATTATTTT
AA
Found at i:4941753 original size:30 final size:29
Alignment explanation
Indices: 4941717--4941819 Score: 109
Period size: 30 Copynumber: 3.4 Consensus size: 29
4941707 AATCAATCCA
4941717 TATTTTATAATAATTTATTTTAAAATAAAT
1 TATTTTATAATAA-TTATTTTAAAATAAAT
4941747 TATTTTATAATAAATTATTTTAAAATAAAT
1 TATTTTATAAT-AATTATTTTAAAATAAAT
* ** *
4941777 AACCTTATTAA-AATTATTTTAATAAATAACT
1 TATTTTA-TAATAATTATTTT-A-AAATAAAT
4941808 ATATTTTATAAT
1 -TATTTTATAAT
4941820 TGTTTTGAAG
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
29 9 0.15
30 32 0.53
31 15 0.25
32 4 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.50
Consensus pattern (29 bp):
TATTTTATAATAATTATTTTAAAATAAAT
Found at i:4944012 original size:28 final size:28
Alignment explanation
Indices: 4943980--4944037 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
4943970 GAAAAAAATG
4943980 AATATTTTAAGTACCTATTTTGAACAAA
1 AATATTTTAAGTACCTATTTTGAACAAA
* ** *
4944008 AATATTTTAGGTGTCTATTTTGACCAAA
1 AATATTTTAAGTACCTATTTTGAACAAA
4944036 AA
1 AA
4944038 GACACGTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (28 bp):
AATATTTTAAGTACCTATTTTGAACAAA
Found at i:4945659 original size:19 final size:21
Alignment explanation
Indices: 4945623--4945664 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
4945613 AATGTCTTTT
4945623 AAAATAATTTTAAGAAGA-AA
1 AAAATAATTTTAAGAAGACAA
* *
4945643 AAAATCATTTTTA-AAGACAA
1 AAAATAATTTTAAGAAGACAA
4945663 AA
1 AA
4945665 TTGATCTGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.26
Consensus pattern (21 bp):
AAAATAATTTTAAGAAGACAA
Found at i:4946421 original size:29 final size:29
Alignment explanation
Indices: 4946333--4946421 Score: 83
Period size: 29 Copynumber: 3.0 Consensus size: 29
4946323 TTGAATTTAC
*
4946333 AAGGACCAAAATAGCAAAAATAGAAACTTA
1 AAGGACTAAAATAGC-AAAATAGAAACTTA
* * *
4946363 AGGGACT-AAATAGC-AAATACATACATTTA
1 AAGGACTAAAATAGCAAAATAGA-A-ACTTA
* *
4946392 AAGGATTAAAATAACAAAATAGAAACTTA
1 AAGGACTAAAATAGCAAAATAGAAACTTA
4946421 A
1 A
4946422 GTAATTAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
27 6 0.13
28 1 0.02
29 21 0.46
30 12 0.26
31 6 0.13
ACGTcount: A:0.57, C:0.11, G:0.12, T:0.19
Consensus pattern (29 bp):
AAGGACTAAAATAGCAAAATAGAAACTTA
Found at i:4948191 original size:3 final size:3
Alignment explanation
Indices: 4948183--4948226 Score: 61
Period size: 3 Copynumber: 14.0 Consensus size: 3
4948173 TAATTACTAT
*
4948183 TAA TAA TAA TCAA TAA TAA TAA TAT TAA TAA TAA TAAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
4948227 GTATAATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 31 0.84
4 6 0.16
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4948211 original size:22 final size:22
Alignment explanation
Indices: 4948185--4948234 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
4948175 ATTACTATTA
4948185 ATAATAATCAAT-AATAATAA-T
1 ATAATAAT-AATAAATAATAAGT
4948206 ATTAATAATAATAAATAATAAGT
1 A-TAATAATAATAAATAATAAGT
4948229 ATAATA
1 ATAATA
4948235 TTTTAAGTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.15
22 20 0.77
23 2 0.08
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (22 bp):
ATAATAATAATAAATAATAAGT
Found at i:4948225 original size:28 final size:28
Alignment explanation
Indices: 4948183--4948236 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
4948173 TAATTACTAT
4948183 TAATAATAATCAATAA-TAATAATATTAA
1 TAATAATAATCAATAAGT-ATAATATTAA
4948211 TAATAATAAAT-AATAAGTATAATATT
1 TAATAAT-AATCAATAAGTATAATATT
4948237 TTAAGTCCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (28 bp):
TAATAATAATCAATAAGTATAATATTAA
Found at i:4948445 original size:52 final size:52
Alignment explanation
Indices: 4948389--4948516 Score: 238
Period size: 52 Copynumber: 2.5 Consensus size: 52
4948379 GACGACTCTG
* *
4948389 CTCATATGTGATGAAGAGTTCTTGACCGTATTTAGGAAGGGTGATAACACGA
1 CTCATACGTGATGAAGAGTTCTTGAACGTATTTAGGAAGGGTGATAACACGA
4948441 CTCATACGTGATGAAGAGTTCTTGAACGTATTTAGGAAGGGTGATAACACGA
1 CTCATACGTGATGAAGAGTTCTTGAACGTATTTAGGAAGGGTGATAACACGA
4948493 CTCATACGTGATGAAGAGTTCTTG
1 CTCATACGTGATGAAGAGTTCTTG
4948517 TTATCAAGGT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (52 bp):
CTCATACGTGATGAAGAGTTCTTGAACGTATTTAGGAAGGGTGATAACACGA
Found at i:4948940 original size:41 final size:43
Alignment explanation
Indices: 4948823--4948946 Score: 128
Period size: 44 Copynumber: 2.9 Consensus size: 43
4948813 GAAATTGGTC
4948823 GGGTGATGACACTGCTCATCTGTTCATGAGTCTTGGCCATCTAA
1 GGGT-ATGACACTGCTCATCTGTTCATGAGTCTTGGCCATCTAA
* * * * ** *
4948867 GGGTGATAACACTGCTCATACT-ATGATAAGTCTTGGTTATC-CA
1 GGGT-ATGACACTGCTCAT-CTGTTCATGAGTCTTGGCCATCTAA
*
4948910 GGGT-TGACACTACTCATCTGTTCATGAGTCTTGGCCA
1 GGGTATGACACTGCTCATCTGTTCATGAGTCTTGGCCA
4948947 AAGGATTTTG
Statistics
Matches: 64, Mismatches: 14, Indels: 7
0.75 0.16 0.08
Matches are distributed among these distances:
40 2 0.03
41 23 0.36
43 5 0.08
44 32 0.50
45 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (43 bp):
GGGTATGACACTGCTCATCTGTTCATGAGTCTTGGCCATCTAA
Found at i:4960979 original size:21 final size:21
Alignment explanation
Indices: 4960911--4960991 Score: 92
Period size: 23 Copynumber: 3.8 Consensus size: 21
4960901 TATTTGGCAG
* *
4960911 AGGGAATCGATACCCCC-ATA
1 AGGGAATCGATTCCCCCTTTA
4960931 AGGGAATCGATTCCCCCTTTGA
1 AGGGAATCGATTCCCCCTTT-A
* *
4960953 ATGGGAACCGATTCCCTCTTTA
1 A-GGGAATCGATTCCCCCTTTA
*
4960975 AGGGAATCGATGCCCCC
1 AGGGAATCGATTCCCCC
4960992 CACGGGTTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
20 16 0.31
21 14 0.27
22 4 0.08
23 17 0.33
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (21 bp):
AGGGAATCGATTCCCCCTTTA
Found at i:4968892 original size:3 final size:3
Alignment explanation
Indices: 4968884--4968927 Score: 61
Period size: 3 Copynumber: 14.0 Consensus size: 3
4968874 TAATTACTAT
*
4968884 TAA TAA TAA TCAA TAA TAA TAA TAT TAA TAA TAA TAAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
4968928 GTATAATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 31 0.84
4 6 0.16
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4968912 original size:22 final size:22
Alignment explanation
Indices: 4968886--4968935 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
4968876 ATTACTATTA
4968886 ATAATAATCAAT-AATAATAA-T
1 ATAATAAT-AATAAATAATAAGT
4968907 ATTAATAATAATAAATAATAAGT
1 A-TAATAATAATAAATAATAAGT
4968930 ATAATA
1 ATAATA
4968936 TTTTAAGTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.15
22 20 0.77
23 2 0.08
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (22 bp):
ATAATAATAATAAATAATAAGT
Found at i:4968926 original size:28 final size:28
Alignment explanation
Indices: 4968884--4968937 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
4968874 TAATTACTAT
4968884 TAATAATAATCAATAA-TAATAATATTAA
1 TAATAATAATCAATAAGT-ATAATATTAA
4968912 TAATAATAAAT-AATAAGTATAATATT
1 TAATAAT-AATCAATAAGTATAATATT
4968938 TTAAGTCCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (28 bp):
TAATAATAATCAATAAGTATAATATTAA
Found at i:4969216 original size:17 final size:17
Alignment explanation
Indices: 4969192--4969232 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
4969182 AACCCTATTA
4969192 AAAATCATAAGC-TCCAC
1 AAAATCATAA-CATCCAC
*
4969209 ATAATCATAACATCCAC
1 AAAATCATAACATCCAC
4969226 AAAATCA
1 AAAATCA
4969233 AACTAATGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.51, C:0.27, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAATCATAACATCCAC
Found at i:4969384 original size:81 final size:81
Alignment explanation
Indices: 4969249--4969399 Score: 248
Period size: 81 Copynumber: 1.9 Consensus size: 81
4969239 TGCTCCCTAA
* *
4969249 TTTTAATACTGGAATCTGCTGAATTTTGCTATTTGGGGTTAAGATTTTGTGTTATGATTTAATTT
1 TTTTAATACTGGAATCTGCTGAATTTTGCTAATTGAGGTTAAGATTTTGTGTTATGATTTAATTT
*
4969314 TATAACTATCGTTTAG
66 CATAACTATCGTTTAG
* * *
4969330 TTTTAATACTGGAATCTGCTGAATTTTTCTAATTGAGGTTAGGATTTTGTGTTATGATTTAGTTT
1 TTTTAATACTGGAATCTGCTGAATTTTGCTAATTGAGGTTAAGATTTTGTGTTATGATTTAATTT
4969395 CATAA
66 CATAA
4969400 GACTCTGGAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 64 1.00
ACGTcount: A:0.25, C:0.07, G:0.19, T:0.49
Consensus pattern (81 bp):
TTTTAATACTGGAATCTGCTGAATTTTGCTAATTGAGGTTAAGATTTTGTGTTATGATTTAATTT
CATAACTATCGTTTAG
Found at i:4970297 original size:16 final size:16
Alignment explanation
Indices: 4970248--4970300 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
4970238 TGGGTTTGAT
4970248 TTTGTGGAGCTTATGA
1 TTTGTGGAGCTTATGA
* *
4970264 TTTTCAATGG-GGTTATGA
1 -TTT--GTGGAGCTTATGA
4970282 TTTGTGGAGCTTATGA
1 TTTGTGGAGCTTATGA
4970298 TTT
1 TTT
4970301 TTTTGGAGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 3 0.10
16 10 0.34
17 6 0.21
18 7 0.24
19 3 0.10
ACGTcount: A:0.19, C:0.06, G:0.28, T:0.47
Consensus pattern (16 bp):
TTTGTGGAGCTTATGA
Found at i:4971218 original size:19 final size:21
Alignment explanation
Indices: 4971179--4971228 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 21
4971169 TTATTGGAAA
*
4971179 TATTATTATTTCTATCGGTTT
1 TATTATTATTTCTATCAGTTT
*
4971200 TGTTATT-TTT-TATCAGTTT
1 TATTATTATTTCTATCAGTTT
4971219 TATTATTATT
1 TATTATTATT
4971229 GGACACTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 14 0.56
20 5 0.20
21 6 0.24
ACGTcount: A:0.20, C:0.06, G:0.08, T:0.66
Consensus pattern (21 bp):
TATTATTATTTCTATCAGTTT
Found at i:4973488 original size:21 final size:21
Alignment explanation
Indices: 4973463--4973512 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
4973453 CTTATGATCA
*
4973463 GTCTTTTCCCTTATAAAATTG
1 GTCTTCTCCCTTATAAAATTG
4973484 GTCTTCTCCCTTATAAAATTG
1 GTCTTCTCCCTTATAAAATTG
4973505 GTCTTCTC
1 GTCTTCTC
4973513 ATTGTACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.46
Consensus pattern (21 bp):
GTCTTCTCCCTTATAAAATTG
Found at i:4990735 original size:20 final size:20
Alignment explanation
Indices: 4990712--4990764 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
4990702 CTGAGGGGTA
4990712 GTATCGATACCATAAGGCAT
1 GTATCGATACCATAAGGCAT
4990732 GTATCGATACCATAAGGCAT
1 GTATCGATACCATAAGGCAT
4990752 GTATCGATACCAT
1 GTATCGATACCAT
4990765 TTTTGAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (20 bp):
GTATCGATACCATAAGGCAT
Found at i:4991308 original size:23 final size:22
Alignment explanation
Indices: 4991270--4991314 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
4991260 AAACATAAGC
4991270 TATATGATATGAGATAGATGAT
1 TATATGATATGAGATAGATGAT
*
4991292 TATATGTATATGTGATAGATGAT
1 TATATG-ATATGAGATAGATGAT
4991315 ATGTGGTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.40
Consensus pattern (22 bp):
TATATGATATGAGATAGATGAT
Found at i:4991318 original size:14 final size:14
Alignment explanation
Indices: 4991298--4991335 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
4991288 TGATTATATG
4991298 TATATGTGAT-AGA
1 TATATGTGATGAGA
*
4991311 TGATATGTGGTGAGA
1 T-ATATGTGATGAGA
4991326 TATATGTGAT
1 TATATGTGAT
4991336 TATAAGAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 1 0.05
14 16 0.76
15 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (14 bp):
TATATGTGATGAGA
Found at i:4991502 original size:21 final size:21
Alignment explanation
Indices: 4991473--4991512 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
4991463 AGTCAAGGGT
*
4991473 TATATGAGGTCCTTCGGGATA
1 TATACGAGGTCCTTCGGGATA
4991494 TATACGAGGTCCTTCGGGA
1 TATACGAGGTCCTTCGGGA
4991513 CAAATTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (21 bp):
TATACGAGGTCCTTCGGGATA
Found at i:4995376 original size:13 final size:13
Alignment explanation
Indices: 4995358--4995385 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4995348 CCTAGACCAC
4995358 ACTCGAGAGTGAA
1 ACTCGAGAGTGAA
4995371 ACTCGAGAGTGAA
1 ACTCGAGAGTGAA
4995384 AC
1 AC
4995386 ACTCATCATA
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:0.39, C:0.18, G:0.29, T:0.14
Consensus pattern (13 bp):
ACTCGAGAGTGAA
Found at i:4996361 original size:1 final size:1
Alignment explanation
Indices: 4996355--4996383 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
4996345 AGAACATGCG
4996355 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4996384 GCTTTGGAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4999739 original size:15 final size:15
Alignment explanation
Indices: 4999706--4999739 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4999696 TACATTTATT
* *
4999706 TATTATTGTTATTAT
1 TATTATTGTTAATAA
4999721 TATTATTGTTAATAA
1 TATTATTGTTAATAA
4999736 TATT
1 TATT
4999740 TTTATTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
TATTATTGTTAATAA
Found at i:5001310 original size:11 final size:10
Alignment explanation
Indices: 5001290--5001430 Score: 54
Period size: 12 Copynumber: 12.6 Consensus size: 10
5001280 GGTCATTTTC
5001290 TTTATTTATTT
1 TTTA-TTATTT
5001301 TTTATCTATTTT
1 TTTAT-TA-TTT
5001313 TTTATTATTTT
1 TTTATTA-TTT
*
5001324 CTTTTTTACTATCT
1 -TTTATTA-T-T-T
5001338 TTTATT-TTT
1 TTTATTATTT
*
5001347 CTTTGTTATCTAT
1 -TTTATTAT-T-T
5001360 TTTATTATTAT
1 TTTATTATT-T
5001371 TATTATTATTAT
1 T-TTATTATT-T
5001383 TATTATTATATT
1 T-TTATTAT-TT
**
5001395 AATATT-TTT
1 TTTATTATTT
*
5001404 TTTCTT-TTT
1 TTTATTATTT
5001413 TTTATATATTT
1 TTTAT-TATTT
5001424 GTTTATT
1 -TTTATT
5001431 TTATAATATA
Statistics
Matches: 105, Mismatches: 11, Indels: 28
0.73 0.08 0.19
Matches are distributed among these distances:
9 13 0.12
10 9 0.09
11 26 0.25
12 48 0.46
13 8 0.08
14 1 0.01
ACGTcount: A:0.21, C:0.05, G:0.01, T:0.73
Consensus pattern (10 bp):
TTTATTATTT
Found at i:5001310 original size:15 final size:15
Alignment explanation
Indices: 5001292--5001389 Score: 51
Period size: 15 Copynumber: 6.3 Consensus size: 15
5001282 TCATTTTCTT
5001292 TATTTATTTT-TTATC
1 TATTT-TTTTATTATC
5001307 TATTTTTTTATTAT-
1 TATTTTTTTATTATC
* *
5001321 TTTCTTTTTTACTATC
1 TAT-TTTTTTATTATC
*
5001337 TTTTATTTTTCTTTGTTATC
1 ---TA-TTTT-TTTATTATC
*
5001357 TATTTTATTATTAT-
1 TATTTTTTTATTATC
*
5001371 TATTATTATTATTAT-
1 TATT-TTTTTATTATC
5001386 TATT
1 TATT
5001390 ATATTAATAT
Statistics
Matches: 67, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
14 10 0.15
15 39 0.58
16 4 0.06
17 2 0.03
19 4 0.06
20 8 0.12
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.72
Consensus pattern (15 bp):
TATTTTTTTATTATC
Found at i:5001369 original size:3 final size:3
Alignment explanation
Indices: 5001352--5001400 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
5001342 TTTTTCTTTG
5001352 TTA TCTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
5001396 ATA TT
1 TTA TT
5001401 TTTTTTCTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:5020562 original size:95 final size:95
Alignment explanation
Indices: 5020435--5020611 Score: 282
Period size: 95 Copynumber: 1.9 Consensus size: 95
5020425 AAAACTGTTA
5020435 AAAATCCAGAAAAAAGCAAAGGAACAGAACCTCCAACCAAAGCTGTTAAAAATCCAGACAAAGGA
1 AAAATCCAGAAAAAAGCAAAGGAACAGAACCTCCAACCAAAGCTGTTAAAAATCCAGACAAAGGA
5020500 AAAGGAGCAGAAACTCCAACCAAATCTGTC
66 AAAGGAGCAGAAACTCCAACCAAATCTGTC
* * ** * * *
5020530 AAAATCCAGACAAAGGCAAAGGGGCAGAACCTCCTACCAAATCTGTTAAAAATCCATACAAAGGA
1 AAAATCCAGAAAAAAGCAAAGGAACAGAACCTCCAACCAAAGCTGTTAAAAATCCAGACAAAGGA
*
5020595 AAAGGAGCAGAATCTCC
66 AAAGGAGCAGAAACTCC
5020612 TGCCACGTAA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 74 1.00
ACGTcount: A:0.48, C:0.23, G:0.17, T:0.12
Consensus pattern (95 bp):
AAAATCCAGAAAAAAGCAAAGGAACAGAACCTCCAACCAAAGCTGTTAAAAATCCAGACAAAGGA
AAAGGAGCAGAAACTCCAACCAAATCTGTC
Found at i:5020612 original size:48 final size:48
Alignment explanation
Indices: 5020401--5020612 Score: 261
Period size: 48 Copynumber: 4.5 Consensus size: 48
5020391 CTCATCGGAT
* * *
5020401 AAAGGAAAAGGAACAGAACCT--T-CCAAAACTGTTAAAAATCCAGAA
1 AAAGGAAAAGGAGCAGAACCTCCTACCAAATCTGTTAAAAATCCAGAC
* * * * *
5020446 AAAAGCAAAGGAACAGAACCTCCAACCAAAGCTGTTAAAAATCCAGAC
1 AAAGGAAAAGGAGCAGAACCTCCTACCAAATCTGTTAAAAATCCAGAC
* * *
5020494 AAAGGAAAAGGAGCAGAAACTCCAACCAAATCTG-TCAAAATCCAGAC
1 AAAGGAAAAGGAGCAGAACCTCCTACCAAATCTGTTAAAAATCCAGAC
* * *
5020541 AAAGGCAAAGGGGCAGAACCTCCTACCAAATCTGTTAAAAATCCATAC
1 AAAGGAAAAGGAGCAGAACCTCCTACCAAATCTGTTAAAAATCCAGAC
*
5020589 AAAGGAAAAGGAGCAGAATCTCCT
1 AAAGGAAAAGGAGCAGAACCTCCT
5020613 GCCACGTAAA
Statistics
Matches: 143, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
45 19 0.13
47 42 0.29
48 82 0.57
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.13
Consensus pattern (48 bp):
AAAGGAAAAGGAGCAGAACCTCCTACCAAATCTGTTAAAAATCCAGAC
Found at i:5025380 original size:94 final size:95
Alignment explanation
Indices: 5025274--5025463 Score: 328
Period size: 94 Copynumber: 2.0 Consensus size: 95
5025264 ATTTTCTTTA
* * *
5025274 ACCGTTAATCGAACCGGAATTTATTTGAAAATTATTAACCGAACCAAATTAACCGATTTTTTTTC
1 ACCGTTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATTAACCGAATTTTTTTC
*
5025339 TTTAACATTAATCGAACTGAAA-TTATTTG
66 TTTAACATTAATCGAACCGAAATTTATTTG
*
5025368 ACCGTTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCACATTAACCGAATTTTTTTC
1 ACCGTTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATTAACCGAATTTTTTTC
5025433 TTTAACATTAATCGAACCGAAATTTATTTG
66 TTTAACATTAATCGAACCGAAATTTATTTG
5025463 A
1 A
5025464 AAATTATTAA
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
94 82 0.91
95 8 0.09
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.36
Consensus pattern (95 bp):
ACCGTTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATTAACCGAATTTTTTTC
TTTAACATTAATCGAACCGAAATTTATTTG
Found at i:5025446 original size:68 final size:68
Alignment explanation
Indices: 5025372--5025528 Score: 280
Period size: 68 Copynumber: 2.3 Consensus size: 68
5025362 TATTTGACCG
* *
5025372 TTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCACATTAACCGAATTTTTTTCTTTA
1 TTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATTAACCAAATTTTTTTCTTTA
5025437 ACA
66 ACA
*
5025440 TTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCAAATTTTTTTCTTTA
1 TTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATTAACCAAATTTTTTTCTTTA
5025505 ACA
66 ACA
5025508 TTAATCGAACCGAAA-TTATTT
1 TTAATCGAACCGAAATTTATTT
5025529 TACCGTTAAT
Statistics
Matches: 86, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
67 6 0.07
68 80 0.93
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (68 bp):
TTAATCGAACCGAAATTTATTTAAAAATTATTAACCGAACCAAATTAACCAAATTTTTTTCTTTA
ACA
Found at i:5025467 original size:162 final size:163
Alignment explanation
Indices: 5025260--5025569 Score: 541
Period size: 162 Copynumber: 1.9 Consensus size: 163
5025250 TGTTTAAATA
* *
5025260 AATTATTTTCTTTAACCGTTAATCGAACCGGAATTTATTTGAAAATTATTAACCGAACCAAATTA
1 AATTATTTTCTTTAACCATTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTA
* * *
5025325 ACCGATTTTTTTTCTTTAACATTAATCGAACTGAAATTATTTGACCGTTAATCGAACCGAAATTT
66 ACCAAATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTT
5025390 ATTTAAAAATTATTAACCGAACCACATTAACCG
131 ATTTAAAAATTATTAACCGAACCACATTAACCG
*
5025423 AATTTTTTTCTTTAA-CATTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTA
1 AATTATTTTCTTTAACCATTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTA
*
5025487 ACCAAATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTTACCGTTAATCGAACCGAAATTT
66 ACCAAATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTT
*
5025552 ATTTGAAAATTATTAACC
131 ATTTAAAAATTATTAACC
5025570 AATTTTTTTC
Statistics
Matches: 139, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
162 125 0.90
163 14 0.10
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.37
Consensus pattern (163 bp):
AATTATTTTCTTTAACCATTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTA
ACCAAATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTT
ATTTAAAAATTATTAACCGAACCACATTAACCG
Found at i:5025494 original size:94 final size:94
Alignment explanation
Indices: 5025301--5025487 Score: 245
Period size: 94 Copynumber: 2.0 Consensus size: 94
5025291 AATTTATTTG
* *
5025301 AAAATTATTAACCGAACCAAATTAACCGATTTTTTTTCTTTAACATTAATCGAACTGAAATTATT
1 AAAATTATTAACCGAACCAAATTAACCGAATTTTTTTCTTTAACATTAATCGAACCGAAATTATT
*** *** *
5025366 TGACCGTTAATCGAACCGAAATTTATTTA
66 TGAAAATTAATCGAACCGAAACCAAATTA
*
5025395 AAAATTATTAACCGAACCACATTAACCGAATTTTTTTCTTTAACATTAATCGAACCGAAATTTAT
1 AAAATTATTAACCGAACCAAATTAACCGAATTTTTTTCTTTAACATTAATCGAACCGAAA-TTAT
*
5025460 TTGAAAATT-AT-TAACCG-AACCAAATTA
65 TTGAAAATTAATCGAACCGAAACCAAATTA
5025487 A
1 A
5025488 CCAAATTTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
92 7 0.09
93 5 0.06
94 59 0.73
95 10 0.12
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (94 bp):
AAAATTATTAACCGAACCAAATTAACCGAATTTTTTTCTTTAACATTAATCGAACCGAAATTATT
TGAAAATTAATCGAACCGAAACCAAATTA
Found at i:5025577 original size:80 final size:80
Alignment explanation
Indices: 5025483--5025648 Score: 280
Period size: 80 Copynumber: 2.1 Consensus size: 80
5025473 ACCGAACCAA
* * *
5025483 ATTAACCAAATTTTTTTCTTTAA-CATTAATCGAACCGAAATTATTTTACCGTTAATCGAACCGA
1 ATTAACC-AATTTTTTTCTTTAACCATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCA
5025547 AATTTATTTGAAAATT
65 AATTTATTTGAAAATT
*
5025563 ATTAACCAATTTTTTTCTTTAACCATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCAT
1 ATTAACCAATTTTTTTCTTTAACCATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCAA
5025628 ATTTATTTGAAAATT
66 ATTTATTTGAAAATT
5025643 ATTAAC
1 ATTAAC
5025649 TAAATTAACC
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
79 15 0.19
80 66 0.81
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (80 bp):
ATTAACCAATTTTTTTCTTTAACCATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCAA
ATTTATTTGAAAATT
Found at i:5025783 original size:26 final size:27
Alignment explanation
Indices: 5025752--5025805 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
5025742 TTTTTCTTTA
5025752 ACCATTAACCGAA-CTAAAA-TTATTTG
1 ACCATTAACCGAATC-AAAATTTATTTG
*
5025778 ACCATTAATCGAATCAAAATTTATTTG
1 ACCATTAACCGAATCAAAATTTATTTG
5025805 A
1 A
5025806 AAATTGTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (27 bp):
ACCATTAACCGAATCAAAATTTATTTG
Found at i:5025801 original size:248 final size:242
Alignment explanation
Indices: 5025321--5025822 Score: 677
Period size: 248 Copynumber: 2.0 Consensus size: 242
5025311 ACCGAACCAA
* * * *
5025321 ATTAACCGATTTTTTTTCTTTAACATTAATCGAACTGAAATTATTTGACCGTTAATCGAACCGAA
1 ATTAACCGAATTTTTTTCTTTAACATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCAA
* * *
5025386 ATTTATTTAAAAATTATTAACCGAACCACATTAACCGAATTTTTTTCTTTAACATTAATCGAACC
66 ATTTATTTAAAAATTATTAACCGAACCACATAAAACAAATTTTTTTCTTTAACATTAATCGAACC
* * *
5025451 GAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCAAATTTTTTTCTTTAACATTAATCGA
131 GAAATTTATTTGAAAATTATTAACCAAACCAAATCAACCAAATTTTTTTCTTTAACATTAACCGA
* * * *
5025516 ACCGAAATTATTTTACCGTTAATCGAACCGAAATTTATTTGAAAATT
196 ACCAAAATTATTTGACCATTAATCGAACCAAAATTTATTTGAAAATT
5025563 ATTAACC-AATTTTTTTCTTTAACCATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCA
1 ATTAACCGAATTTTTTTCTTTAA-CATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCA
* * ** * *
5025627 TATTTATTTGAAAATTATTAACTAAATTAACCGA-ATAAAATAAATTATTTTTCTTTAACCGTTA
65 AATTTATTTAAAAATTATTAAC----CGAACC-ACATAAAACAAATT-TTTTTCTTTAA-CATTA
* *
5025691 ATCGAACCGAAATTTATTTGAAAATTATTAATCAAACCAAATCAACC-GATTTTTTTCTTTAACC
123 ATCGAACCGAAATTTATTTGAAAATTATTAACCAAACCAAATCAACCAAATTTTTTTCTTTAA-C
* *
5025755 ATTAACCGAACTAAAATTATTTGACCATTAATCGAATCAAAATTTATTTGAAAATT
187 ATTAACCGAACCAAAATTATTTGACCATTAATCGAACCAAAATTTATTTGAAAATT
*
5025811 GTTAACCGAATT
1 ATTAACCGAATT
5025823 AACCGAATAA
Statistics
Matches: 225, Mismatches: 25, Indels: 13
0.86 0.10 0.05
Matches are distributed among these distances:
241 14 0.06
242 65 0.29
246 12 0.05
247 26 0.12
248 104 0.46
249 4 0.02
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (242 bp):
ATTAACCGAATTTTTTTCTTTAACATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCAA
ATTTATTTAAAAATTATTAACCGAACCACATAAAACAAATTTTTTTCTTTAACATTAATCGAACC
GAAATTTATTTGAAAATTATTAACCAAACCAAATCAACCAAATTTTTTTCTTTAACATTAACCGA
ACCAAAATTATTTGACCATTAATCGAACCAAAATTTATTTGAAAATT
Found at i:5025904 original size:248 final size:243
Alignment explanation
Indices: 5025341--5025947 Score: 562
Period size: 248 Copynumber: 2.5 Consensus size: 243
5025331 TTTTTTTCTT
* * * * * *
5025341 TAACATTAATCGAACTGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTAAAAATTATTAA
1 TAACATTAATAGAAC-GAAATTACTTAACCGTTAATCGAACCAAAATTTATTTGAAAATTATGAA
* * ***
5025406 CC----GAACC-ACATTAACCGAATTTTTTTCTTTAACATTAATCGAACCGAAATTTATTTGAAA
65 CCAAATTAACCGA-ATAAAATAAATTTTTTTCTTTAACATTAATCGAACCGAAATTTATTTGAAA
* * * * *
5025466 ATTATTAACCGAACCAAATTAACCAAATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTTA
129 ATTATTAACCAAACCAAATCAACCAAATTTTTTTCTTTAACATTAACCGAACCAAAATTATTTGA
* * *** **
5025531 CCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCAATTTTTTTCTT
194 CCATTAATCGAACCAAAATTTATTTGAAAATTATTAACCAA-TTTAACCAA
* * * * *
5025582 TAACCATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCATATTTATTTGAAAATTATTA
1 TAA-CATTAATAGAA-CGAAATTACTTAACCGTTAATCGAACCAAAATTTATTTGAAAATTATGA
* *
5025647 ACTAAATTAACCGAATAAAATAAATTATTTTTCTTTAACCGTTAATCGAACCGAAATTTATTTGA
64 ACCAAATTAACCGAATAAAATAAATT-TTTTTCTTTAA-CATTAATCGAACCGAAATTTATTTGA
* * *
5025712 AAATTATTAATCAAACCAAATCAACC-GATTTTTTTCTTTAACCATTAACCGAACTAAAATTATT
127 AAATTATTAACCAAACCAAATCAACCAAATTTTTTTCTTTAA-CATTAACCGAACCAAAATTATT
* *
5025776 TGACCATTAATCGAATCAAAATTTATTTGAAAATTGTTAACCGAA-TTAACCGAA
191 TGACCATTAATCGAACCAAAATTTATTTGAAAATTATTAACC-AATTTAACC-AA
** **** *
5025830 TAA-ATTAA-ATTA-TTTTTTCCTTAACCGTTAATCGAACCAAAATTTATTTGAAAATTAAT-AA
1 TAACATTAATAGAACGAAATTACTTAACCGTTAATCGAACCAAAATTTATTTGAAAATT-ATGAA
* * * *** *
5025891 CC----GAACCAAATTAACCGAATTTTTTTCTTTAACATTAATCGAGCCGAAA-TTATTTGA
65 CCAAATTAACCGAATAAAATAAATTTTTTTCTTTAACATTAATCGAACCGAAATTTATTTGA
5025948 CCGTTAACTG
Statistics
Matches: 305, Mismatches: 48, Indels: 31
0.79 0.12 0.08
Matches are distributed among these distances:
236 8 0.03
237 15 0.05
238 11 0.04
239 13 0.04
241 3 0.01
242 57 0.19
243 39 0.13
244 2 0.01
245 2 0.01
246 17 0.06
247 29 0.10
248 107 0.35
249 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.37
Consensus pattern (243 bp):
TAACATTAATAGAACGAAATTACTTAACCGTTAATCGAACCAAAATTTATTTGAAAATTATGAAC
CAAATTAACCGAATAAAATAAATTTTTTTCTTTAACATTAATCGAACCGAAATTTATTTGAAAAT
TATTAACCAAACCAAATCAACCAAATTTTTTTCTTTAACATTAACCGAACCAAAATTATTTGACC
ATTAATCGAACCAAAATTTATTTGAAAATTATTAACCAATTTAACCAA
Found at i:5025948 original size:169 final size:169
Alignment explanation
Indices: 5025563--5025989 Score: 619
Period size: 169 Copynumber: 2.5 Consensus size: 169
5025553 TTTGAAAATT
* *
5025563 ATTAACC-AATTTTTTTCTTTAACCATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCCA
1 ATTAACCGAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAA
* ** *
5025627 TATTTATTTGAAAATTATTAACTAAATTAACCGAATAAAATAAATTATTTTTCTTTAACCGTTAA
66 AATTTATTTGAAAATTATTAACCGAATTAACCGAATAAAATAAATTATTTTTCCTTAACCGTTAA
* * *
5025692 TCGAACCGAAATTTATTTGAAAATTATTAATCAAACCAA
131 TCGAACCAAAATTTATTTGAAAATTAATAACCAAACCAA
* * ** * *
5025731 ATCAACCG-ATTTTTTTCTTTAACCATTAACCGAACTAAAATTATTTGACCATTAATCGAATCAA
1 ATTAACCGAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAA
* *
5025795 AATTTATTTGAAAATTGTTAACCGAATTAACCGAATAAATTAAATTATTTTTTCCTTAACCGTTA
66 AATTTATTTGAAAATTATTAACCGAATTAACCGAATAAAATAAATTA-TTTTTCCTTAACCGTTA
*
5025860 ATCGAACCAAAATTTATTTGAAAATTAATAACCGAACCAA
130 ATCGAACCAAAATTTATTTGAAAATTAATAACCAAACCAA
* *
5025900 ATTAACCGAATTTTTTTCTTTAA-CATTAATCGAGCCGAAATTATTTGACCGTTAA-CTGAACCT
1 ATTAACCGAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATC-GAACCA
*
5025963 AAATTTATTTGAAAATTATTAATCGAA
65 AAATTTATTTGAAAATTATTAACCGAA
5025990 CCAAATTAAT
Statistics
Matches: 227, Mismatches: 28, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
168 98 0.43
169 115 0.51
170 14 0.06
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.37
Consensus pattern (169 bp):
ATTAACCGAATTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAACCAA
AATTTATTTGAAAATTATTAACCGAATTAACCGAATAAAATAAATTATTTTTCCTTAACCGTTAA
TCGAACCAAAATTTATTTGAAAATTAATAACCAAACCAA
Found at i:5025969 original size:94 final size:94
Alignment explanation
Indices: 5025853--5026216 Score: 572
Period size: 94 Copynumber: 3.9 Consensus size: 94
5025843 TTTTTCCTTA
* *
5025853 ACCGTTAATCGAACCAAAATTTATTTGAAAATTAATAACCGAACCAAATTAACCGAATTTTTTTC
1 ACCGTTAATCGAACCTAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCGAATTTTTTTC
*
5025918 TTTAACATTAATCGAGCCGAAATTATTTG
66 TTTAACATTAATCGAACCGAAATTATTTG
* * *
5025947 ACCGTTAA-CTGAACCTAAATTTATTTGAAAATTATTAATCGAACCAAATTAATCGAATTTGTTT
1 ACCGTTAATC-GAACCTAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCGAATTTTTTT
5026011 CTTTAACATTAATCGAACCGAAATTATTTG
65 CTTTAACATTAATCGAACCGAAATTATTTG
* * * *
5026041 TCCGTTAATCGAA-CTGAAATTTATTTGAAACTTATTAACCGAACCACATTAACCGAATTGTTTT
1 ACCGTTAATCGAACCT-AAATTTATTTGAAAATTATTAACCGAACCAAATTAACCGAATTTTTTT
*
5026105 CTTTAACATTAATTGAACCGAAATTATTTG
65 CTTTAACATTAATCGAACCGAAATTATTTG
* *
5026135 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTAACCGAACCAAATTAACC-TATTTTTTTC
1 ACCGTTAATCGAACCTAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCGAATTTTTTTC
5026199 TTTAACATTAATCGAACC
66 TTTAACATTAATCGAACC
5026217 TGTAACACCC
Statistics
Matches: 245, Mismatches: 21, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
93 28 0.11
94 215 0.88
95 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.36
Consensus pattern (94 bp):
ACCGTTAATCGAACCTAAATTTATTTGAAAATTATTAACCGAACCAAATTAACCGAATTTTTTTC
TTTAACATTAATCGAACCGAAATTATTTG
Found at i:5026423 original size:12 final size:12
Alignment explanation
Indices: 5026406--5026436 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
5026396 ATTATACGGT
5026406 ATGAACAGTATC
1 ATGAACAGTATC
5026418 ATGAACAGTATC
1 ATGAACAGTATC
5026430 ATGAACA
1 ATGAACA
5026437 ATATTAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (12 bp):
ATGAACAGTATC
Found at i:5028040 original size:24 final size:24
Alignment explanation
Indices: 5028013--5028066 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
5028003 CATTTTAGGA
5028013 GTCACTTCTTACCACAGTAACTCG
1 GTCACTTCTTACCACAGTAACTCG
5028037 GTCACTTCTTACCACAGTAACTCG
1 GTCACTTCTTACCACAGTAACTCG
*
5028061 ATCACT
1 GTCACT
5028067 GGCTCATTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.26, C:0.33, G:0.11, T:0.30
Consensus pattern (24 bp):
GTCACTTCTTACCACAGTAACTCG
Found at i:5030528 original size:26 final size:27
Alignment explanation
Indices: 5030479--5030534 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
5030469 TTTTTTTTCT
* *
5030479 TTTTACCATTAATTGAACTAAAA-TTA
1 TTTTACCATTAATCGAACCAAAATTTA
* *
5030505 TTTTACCGTTAATCGAACCCAAATTTA
1 TTTTACCATTAATCGAACCAAAATTTA
5030532 TTT
1 TTT
5030535 GAAAATTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (27 bp):
TTTTACCATTAATCGAACCAAAATTTA
Found at i:5030803 original size:66 final size:66
Alignment explanation
Indices: 5030677--5030803 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 66
5030667 AAATTATTTG
*** * ** * *
5030677 ACCGTTAATCGAATTGAAATTTATTTGAAAATTATTAACCGAATGAATTAAATTATTTTTTCCTT
1 ACCGTTAATCGAACCAAAATTTATTTAAAAATTATTAACCGAACAAATTAAATCAATTTTTCCTT
5030742 A
66 A
*
5030743 ACCGTTAATCGAACCAAAATTTTTTTAAAAATTATTAACCGAACCAAATTAAA-CAATTTTT
1 ACCGTTAATCGAACCAAAATTTATTTAAAAATTATTAACCGAA-CAAATTAAATCAATTTTT
5030804 TTCTTTAACA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 44 0.86
67 7 0.14
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (66 bp):
ACCGTTAATCGAACCAAAATTTATTTAAAAATTATTAACCGAACAAATTAAATCAATTTTTCCTT
A
Found at i:5030830 original size:67 final size:66
Alignment explanation
Indices: 5030692--5030834 Score: 164
Period size: 66 Copynumber: 2.2 Consensus size: 66
5030682 TAATCGAATT
* ** ** * *
5030692 GAAATTTATTTGAAAATTATTAACCGAATGAATTAAATTATTTTTTCCTTAACCGTTAATCGAAC
1 GAAATTTATTTAAAAATTATTAACCGAACAAATTAAACAATTTTTTCCTTAACCATTAATAGAAC
5030757 C
66 C
* * *
5030758 AAAATTTTTTTAAAAATTATTAACCGAACCAAATTAAACAATTTTTTTCTTTAA-CATTAATAGA
1 GAAATTTATTTAAAAATTATTAACCGAA-CAAATTAAACAA-TTTTTTCCTTAACCATTAATAGA
5030822 ACC
64 ACC
5030825 GAAA-TTATTT
1 GAAATTTATTT
5030835 GACCGTTAAT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
66 30 0.48
67 22 0.35
68 11 0.17
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (66 bp):
GAAATTTATTTAAAAATTATTAACCGAACAAATTAAACAATTTTTTCCTTAACCATTAATAGAAC
C
Found at i:5030834 original size:159 final size:159
Alignment explanation
Indices: 5030470--5030872 Score: 511
Period size: 159 Copynumber: 2.5 Consensus size: 159
5030460 ATTTACCCAT
* * ** * *
5030470 TTTTTTTCTTTTTACCATTAATTGAACTAAAATTATTTTACCGTTAATCGAACCCAAATTTATTT
1 TTTTTTTC-TTTAACCATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTT
* * * *
5030535 GAAAATTATTAACTGAATTAACCGAATAAAATACATTATTTTTCTTTAACCGTTAATTGAACCGA
65 G-AAA--A-T---T--ATTAACCGAATAAAATAAATTATTTTTCCTTAACCGTTAATCGAACCAA
* * * *
5030600 AATTTATTTGAAAATTATTAACCGTACCAAATCAACCGA
121 AATTTATTTAAAAATTATTAACCGAACCAAATCAAACAA
* **
5030639 TTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAATTGAAATTTATTTG
1 TTTTTTTCTTTAACCATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTG
* * *
5030704 AAAATTATTAACCGAATGAATTAAATTATTTTTTCCTTAACCGTTAATCGAACCAAAATTTTTTT
66 AAAATTATTAACCGAATAAAATAAATTA-TTTTTCCTTAACCGTTAATCGAACCAAAATTTATTT
*
5030769 AAAAATTATTAACCGAACCAAATTAAACAA
130 AAAAATTATTAACCGAACCAAATCAAACAA
5030799 TTTTTTTCTTTAA-CATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTG
1 TTTTTTTCTTTAACCATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTG
5030863 AAAATTATTA
66 AAAATTATTA
5030873 TCATAACCAA
Statistics
Matches: 210, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
159 77 0.37
160 70 0.33
161 1 0.00
164 1 0.00
165 1 0.00
167 3 0.01
168 49 0.23
169 8 0.04
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (159 bp):
TTTTTTTCTTTAACCATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTG
AAAATTATTAACCGAATAAAATAAATTATTTTTCCTTAACCGTTAATCGAACCAAAATTTATTTA
AAAATTATTAACCGAACCAAATCAAACAA
Found at i:5030850 original size:93 final size:95
Alignment explanation
Indices: 5030743--5030956 Score: 315
Period size: 96 Copynumber: 2.3 Consensus size: 95
5030733 TTTTTCCTTA
* * *
5030743 ACCGTTAATCGAACCAAAATTTTTTTAAAAATTATTAACCGAACCAAATTAAAC-A-ATTTTTTT
1 ACCGTTAATCGAACCGAAATTTATTTAAAAATTATTAACAGAACCAAATTAAACGATATTTTTTT
5030806 CTTTAACATTAATAGAACCGAAATTATTTG
66 CTTTAACATTAATAGAACCGAAATTATTTG
* * * * *
5030836 ACCGTTAATCGAACCGAAATTTATTTGAAAATTATTATCATAACCAAATTAACCGATTTTTTTTT
1 ACCGTTAATCGAACCGAAATTTATTTAAAAATTATTAACAGAACCAAATTAAACGA-TATTTTTT
* *
5030901 TCTTTAACATTAATCGAATCGAAATTATTTG
65 TCTTTAACATTAATAGAACCGAAATTATTTG
5030932 ACCGTTAATCGAACCGAAATTTATT
1 ACCGTTAATCGAACCGAAATTTATT
5030957 AGCCGATTAA
Statistics
Matches: 108, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
93 47 0.44
94 1 0.01
96 60 0.56
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.38
Consensus pattern (95 bp):
ACCGTTAATCGAACCGAAATTTATTTAAAAATTATTAACAGAACCAAATTAAACGATATTTTTTT
CTTTAACATTAATAGAACCGAAATTATTTG
Found at i:5030897 original size:160 final size:159
Alignment explanation
Indices: 5030470--5030897 Score: 489
Period size: 160 Copynumber: 2.6 Consensus size: 159
5030460 ATTTACCCAT
* * ** * *
5030470 TTTTTTTCTTTTTACCATTAATTGAACTAAAATTATTTTACCGTTAATCGAACCCAAATTTATTT
1 TTTTTTTC--TTTAACATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTT
* * * * *
5030535 GAAAATTATTAACTGAATTAACCGAATAAAATACATTATTTTTCTTTAACCGTTAATTGAACCGA
64 GAAAATTATT-A-T-CA-TAACCGAAT-TAA-ACA-T-TTTTTCCTTAACCGTTAATCGAACCAA
* * * *
5030600 AATTTATTTGAAAATTATTAACCGTACCAAATCAACCGA
121 AATTTATTTAAAAATTATTAACCGAACCAAATCAAACAA
* **
5030639 TTTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCGTTAATCGAATTGAAATTTATTTG
1 TTTTTTTCTTTAA-CATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTG
* ** * * *
5030704 AAAATTATTAACCGAA-TGAATTAAATTATTTTTTCCTTAACCGTTAATCGAACCAAAATTTTTT
65 AAAATTATTATCATAACCGAATTAAA-CATTTTTTCCTTAACCGTTAATCGAACCAAAATTTATT
*
5030768 TAAAAATTATTAACCGAACCAAATTAAACAA
129 TAAAAATTATTAACCGAACCAAATCAAACAA
5030799 TTTTTTTCTTTAACATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGA
1 TTTTTTTCTTTAACATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGA
* *
5030864 AAATTATTATCATAACCAAATTAACCGATTTTTT
66 AAATTATTATCATAACCGAATTAAAC-ATTTTTT
5030898 TTTTCTTTAA
Statistics
Matches: 221, Mismatches: 34, Indels: 17
0.81 0.12 0.06
Matches are distributed among these distances:
159 61 0.28
160 83 0.38
161 2 0.01
162 3 0.01
163 4 0.02
164 2 0.01
167 5 0.02
168 53 0.24
169 8 0.04
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (159 bp):
TTTTTTTCTTTAACATTAATAGAACCGAAATTATTTGACCGTTAATCGAACCGAAATTTATTTGA
AAATTATTATCATAACCGAATTAAACATTTTTTCCTTAACCGTTAATCGAACCAAAATTTATTTA
AAAATTATTAACCGAACCAAATCAAACAA
Found at i:5030966 original size:27 final size:27
Alignment explanation
Indices: 5030909--5030966 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
5030899 TTTCTTTAAC
* *
5030909 ATTAATCGAATCGAAATTATTTGACCG
1 ATTAATCGAACCGAAATTATTAGACCG
5030936 -TTAATCGAACCGAAATTTATTAG-CCG
1 ATTAATCGAACCGAAA-TTATTAGACCG
5030962 ATTAA
1 ATTAA
5030967 CGGTTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (27 bp):
ATTAATCGAACCGAAATTATTAGACCG
Found at i:5031039 original size:30 final size:29
Alignment explanation
Indices: 5030972--5031046 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
5030962 ATTAACGGTT
5030972 AATTTGGTTCGGTTAATAATTTTCAAATA
1 AATTTGGTTCGGTTAATAATTTTCAAATA
5031001 AATTTGGTTCGGTTAATAATTTTCAAATA
1 AATTTGGTTCGGTTAATAATTTTCAAATA
*
5031030 AATTTTGGTTCGATTAA
1 AA-TTTGGTTCGGTTAA
5031047 CGATTAAAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 31 0.70
30 13 0.30
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.45
Consensus pattern (29 bp):
AATTTGGTTCGGTTAATAATTTTCAAATA
Found at i:5034008 original size:7 final size:7
Alignment explanation
Indices: 5033996--5034030 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
5033986 TTAGACCAAC
5033996 GCCATTG
1 GCCATTG
5034003 GCCATTG
1 GCCATTG
5034010 GCCATTG
1 GCCATTG
5034017 GCCATTG
1 GCCATTG
5034024 GCCATTG
1 GCCATTG
5034031 AACCCCAACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (7 bp):
GCCATTG
Found at i:5035581 original size:58 final size:61
Alignment explanation
Indices: 5035459--5035583 Score: 152
Period size: 59 Copynumber: 2.1 Consensus size: 61
5035449 TTTTAAGACC
* * *
5035459 TTAATAATTAAAAAATTATTTTATAACTTTTAATAGTTAGAAATTATAAAAATATAATATT
1 TTAATAATTAAAAAATTATTTTATAAATTTTAATAGATAGAAATAATAAAAATATAATATT
* *
5035520 TTAA-AATT-AAAATTTATTTTATAAATTTTAATAGATA-AAA-AACTCAATAA-ATAATATT
1 TTAATAATTAAAAAATTATTTTATAAATTTTAATAGATAGAAATAA-T-AAAAATATAATATT
5035578 TTAATA
1 TTAATA
5035584 TCGACCATCG
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
57 1 0.02
58 16 0.29
59 31 0.55
60 4 0.07
61 4 0.07
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (61 bp):
TTAATAATTAAAAAATTATTTTATAAATTTTAATAGATAGAAATAATAAAAATATAATATT
Found at i:5043861 original size:30 final size:30
Alignment explanation
Indices: 5043826--5044055 Score: 100
Period size: 30 Copynumber: 7.3 Consensus size: 30
5043816 TTTAATTAAA
5043826 ATATTTATATATATATTTTAATTATTTATT
1 ATATTTATATATATATTTTAATTATTTATT
* *
5043856 ATATTTAATAATTTAAATTATTAATTA-TTATT
1 ATATTT-AT-ATATATATT-TTAATTATTTATT
* *
5043888 ATATTTATTTATTATAAATAAATTTTTCATTATTTCA-A
1 ATATTTA--TA-TAT--AT--A-TTTTAATTATTT-ATT
* * * *
5043926 AT-TTTAAAAAATAAATTATAATTATTT-TT
1 ATATTT-ATATATATATTTTAATTATTTATT
* *
5043955 -TA-TAATATATCTATTTTAATTATTATATT
1 ATATTTATATATATATTTTAATTATT-TATT
*
5043984 -TATATAT-TATTATATTTTAATTATTTATT
1 ATATTTATATA-TATATTTTAATTATTTATT
*
5044013 ATATTTAT-TAATTAATATTATTACTTATTATTATT
1 ATATTTATAT-A-T-ATATT-TTAATTA-T-TTATT
5044048 ATATTTAT
1 ATATTTAT
5044056 TTATTATAAT
Statistics
Matches: 151, Mismatches: 23, Indels: 47
0.68 0.10 0.21
Matches are distributed among these distances:
27 15 0.10
28 3 0.02
29 10 0.07
30 39 0.26
31 7 0.05
32 24 0.16
33 17 0.11
34 1 0.01
35 16 0.11
36 1 0.01
37 10 0.07
38 7 0.05
39 1 0.01
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (30 bp):
ATATTTATATATATATTTTAATTATTTATT
Found at i:5043899 original size:13 final size:13
Alignment explanation
Indices: 5043826--5043903 Score: 51
Period size: 13 Copynumber: 6.2 Consensus size: 13
5043816 TTTAATTAAA
*
5043826 ATATTTATATA-T
1 ATATTTATTTATT
*
5043838 ATATTTTAATTATT
1 ATA-TTTATTTATT
*
5043852 -TATTATATTTAAT
1 ATATT-TATTTATT
*
5043865 A-ATTTAAATTATT
1 ATATTT-ATTTATT
5043878 A-A-TTA-TTATT
1 ATATTTATTTATT
5043888 ATATTTATTTATT
1 ATATTTATTTATT
5043901 ATA
1 ATA
5043904 AATAAATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
10 6 0.12
11 2 0.04
12 11 0.21
13 32 0.62
14 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATTTATTTATT
Found at i:5043994 original size:16 final size:16
Alignment explanation
Indices: 5043973--5044067 Score: 86
Period size: 13 Copynumber: 6.6 Consensus size: 16
5043963 ATCTATTTTA
5043973 ATTATTATATTTATAT
1 ATTATTATATTTATAT
5043989 ATTATTATATTT-TA-
1 ATTATTATATTTATAT
5044003 ATTATT-TA-TTATAT
1 ATTATTATATTTATAT
5044017 -TTATTA-A-TTA-AT
1 ATTATTATATTTATAT
*
5044029 ATTA-T-TACTTAT-T
1 ATTATTATATTTATAT
*
5044042 ATTATTATATTTATTT
1 ATTATTATATTTATAT
*
5044058 ATTATAATAT
1 ATTATTATAT
5044068 AATTTTTCAT
Statistics
Matches: 67, Mismatches: 2, Indels: 20
0.75 0.02 0.22
Matches are distributed among these distances:
12 6 0.09
13 24 0.36
14 7 0.10
15 8 0.12
16 22 0.33
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATTATATTTATAT
Found at i:5044013 original size:18 final size:17
Alignment explanation
Indices: 5043973--5044067 Score: 67
Period size: 16 Copynumber: 5.6 Consensus size: 17
5043963 ATCTATTTTA
5043973 ATTATTATA-TTTATAT
1 ATTATTATATTTTATAT
5043989 ATTATTATATTTTA-ATT
1 ATTATTATATTTTATA-T
5044006 ATTTATTATA-TTTAT-T
1 A-TTATTATATTTTATAT
*
5044022 AATTAATATTATTACTTAT-T
1 -ATTATTA-TATT--TTATAT
*
5044042 ATTATTATA-TTTATTT
1 ATTATTATATTTTATAT
*
5044058 ATTATAATAT
1 ATTATTATAT
5044068 AATTTTTCAT
Statistics
Matches: 65, Mismatches: 3, Indels: 21
0.73 0.03 0.24
Matches are distributed among these distances:
15 4 0.06
16 25 0.38
17 14 0.22
18 11 0.17
19 6 0.09
20 5 0.08
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTATTATATTTTATAT
Found at i:5044062 original size:13 final size:13
Alignment explanation
Indices: 5043940--5044063 Score: 69
Period size: 13 Copynumber: 9.5 Consensus size: 13
5043930 TAAAAAATAA
*
5043940 ATTATAATTATTT
1 ATTATATTTATTT
* * *
5043953 TTTATAATATATCT
1 ATTAT-ATTTATTT
* *
5043967 ATTTTAATTATTAT
1 ATTATATTTATT-T
5043981 ATTTATATATTATTAT
1 A-TTATAT-TTATT-T
* *
5043997 ATTTTAATTATTT
1 ATTATATTTATTT
*
5044010 ATTATATTTATTA
1 ATTATATTTATTT
5044023 ATTA-ATATTA-TT
1 ATTATAT-TTATTT
*
5044035 ACT-TA-TTA-TT
1 ATTATATTTATTT
5044045 ATTATATTTATTT
1 ATTATATTTATTT
5044058 ATTATA
1 ATTATA
5044064 ATATAATTTT
Statistics
Matches: 83, Mismatches: 19, Indels: 18
0.69 0.16 0.15
Matches are distributed among these distances:
10 7 0.08
11 2 0.02
12 9 0.11
13 34 0.41
14 15 0.18
15 8 0.10
16 8 0.10
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTATATTTATTT
Found at i:5044153 original size:3 final size:3
Alignment explanation
Indices: 5044132--5044223 Score: 52
Period size: 3 Copynumber: 30.7 Consensus size: 3
5044122 TTCTATTTTA
5044132 ATT ATT A-T ATTT ATAT ATT ATT A-T ATT -TT AATT ATTT ATT A-T ATT
1 ATT ATT ATT A-TT AT-T ATT ATT ATT ATT ATT -ATT A-TT ATT ATT ATT
* * * *
5044177 A-A ATA ATT AAT ATT ATT ACTT GTT ATT ATT ATT ATT A-T ATTT ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT A-TT ATT
5044222 AT
1 AT
5044224 AATATAATTT
Statistics
Matches: 71, Mismatches: 6, Indels: 24
0.70 0.06 0.24
Matches are distributed among these distances:
2 11 0.15
3 46 0.65
4 14 0.20
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:5044153 original size:16 final size:16
Alignment explanation
Indices: 5044132--5044220 Score: 61
Period size: 16 Copynumber: 5.9 Consensus size: 16
5044122 TTCTATTTTA
5044132 ATTATTATATTTATAT
1 ATTATTATATTTATAT
5044148 ATTATTATATTT-TA-
1 ATTATTATATTTATAT
5044162 ATTATT-TA--T-TAT
1 ATTATTATATTTATAT
* *
5044174 ATTA-AATAATTA-AT
1 ATTATTATATTTATAT
5044188 ATTATTACT-TGTTATTATT
1 ATTATTA-TAT-TTA-TA-T
5044207 ATTATTATATTTAT
1 ATTATTATATTTAT
5044221 TATAATATAA
Statistics
Matches: 58, Mismatches: 3, Indels: 23
0.69 0.04 0.27
Matches are distributed among these distances:
11 3 0.05
12 6 0.10
13 2 0.03
14 13 0.22
15 3 0.05
16 16 0.28
17 1 0.02
18 5 0.09
19 9 0.16
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (16 bp):
ATTATTATATTTATAT
Found at i:5044168 original size:159 final size:160
Alignment explanation
Indices: 5043784--5044235 Score: 690
Period size: 159 Copynumber: 2.9 Consensus size: 160
5043774 CTTTCATAAT
**
5043784 ATATTATAATTATTTTTTTATAAAATATCTATTTTAATTAAAATA-TT-TATA-TA-TATATTTT
1 ATATTATAATTA-TTTTTTATAAAATATCTATTTTAATTATTATATTTATATATTATTATATTTT
5043845 AATTATTTATTATATTTAATAATTTAA-ATTATTA---ATTATTATTATATTTATTTATTATAA-
65 AATTATTTATTATATTTAATAA-TTAATATTATTACTTATTATTATTATATTTATTTATTATAAT
* * *
5043905 ATAAATTTTTCATTATTTCAAATTTTAAAAAAT
129 AT-AATTTTTCATTATTTCAAAATTGAAAAAAC
* *
5043938 AAATTATAATTATTTTTTATAATATATCTATTTTAATTATTATATTTATATATTATTATATTTTA
1 ATATTATAATTATTTTTTATAAAATATCTATTTTAATTATTATATTTATATATTATTATATTTTA
*
5044003 ATTATTTATTATATTTATTAATTAATATTATTACTTATTATTATTATATTTATTTATTATAATAT
66 ATTATTTATTATATTTAATAATTAATATTATTACTTATTATTATTATATTTATTTATTATAATAT
5044068 AATTTTTCATTATTTCAAAATTGAAAAAAC
131 AATTTTTCATTATTTCAAAATTGAAAAAAC
*
5044098 ATATTATAATTA-TTTTTATAAAATTTCTATTTTAATTATTATATTTATATATTATTATATTTTA
1 ATATTATAATTATTTTTTATAAAATATCTATTTTAATTATTATATTTATATATTATTATATTTTA
* *
5044162 ATTATTTATTATATTAAATAATTAATATTATTACTTGTTATTATTATTATTATATTTATTATAAT
66 ATTATTTATTATATTTAATAATTAATATTATTACTTATTATTATTA-TATT-TATTTATTATAAT
5044227 ATAATTTTT
129 ATAATTTTT
5044236 GGATCATAAA
Statistics
Matches: 273, Mismatches: 14, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
153 29 0.11
154 13 0.05
155 4 0.01
156 6 0.02
157 36 0.13
159 93 0.34
160 68 0.25
161 24 0.09
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (160 bp):
ATATTATAATTATTTTTTATAAAATATCTATTTTAATTATTATATTTATATATTATTATATTTTA
ATTATTTATTATATTTAATAATTAATATTATTACTTATTATTATTATATTTATTTATTATAATAT
AATTTTTCATTATTTCAAAATTGAAAAAAC
Found at i:5046255 original size:2 final size:2
Alignment explanation
Indices: 5046244--5046278 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
5046234 CAAATCAAAG
5046244 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5046279 CATAAAAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:5046684 original size:31 final size:31
Alignment explanation
Indices: 5046642--5046702 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
5046632 TTTTAAACAT
* **
5046642 TTCGGGTTCGGGTCGGGTTTTTTTTTTTAAA
1 TTCGGGATCGGGTCGGGTTGGTTTTTTTAAA
5046673 TTCGGGATCGGGTCGGGTTGGTTTTTTTAA
1 TTCGGGATCGGGTCGGGTTGGTTTTTTTAA
5046703 GTTTGATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.10, C:0.10, G:0.33, T:0.48
Consensus pattern (31 bp):
TTCGGGATCGGGTCGGGTTGGTTTTTTTAAA
Found at i:5047285 original size:17 final size:17
Alignment explanation
Indices: 5047241--5047303 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
5047231 TCAGATTCAA
**
5047241 ATTCCAATTCAAGACAG
1 ATTCCAATTCCTGACAG
5047258 ATTCCAATTCCTGACAG
1 ATTCCAATTCCTGACAG
* * *
5047275 ATTTCAATTCCTTCACAA
1 ATTCCAATTCC-TGACAG
5047293 ATTCCAATTCC
1 ATTCCAATTCC
5047304 CTCAGAAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
17 25 0.64
18 14 0.36
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (17 bp):
ATTCCAATTCCTGACAG
Found at i:5047937 original size:203 final size:202
Alignment explanation
Indices: 5047589--5047995 Score: 787
Period size: 203 Copynumber: 2.0 Consensus size: 202
5047579 ATTTATCCTT
5047589 AAACTATTTTAGATTTACTAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGAGGTTAAAAT
1 AAACTATTTTAGATTTACTAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGAGGTTAAAAT
5047654 AAAATTTTACCATTTCATTAAACATTTTTTATATTTTAATTTTGTAAAAAATTATATAAATTTAT
66 AAAATTTTACCATTTCATTAAACATTTTTTATATTTTAATTTTGTAAAAAATTATATAAATTTAT
*
5047719 GAATTTAAGTTTTTTAAAGAAAATATATAATATTTTCCAACTTGTAATATTATACAAATATATAA
131 GAATTTAAATTTTTTAAAGAAAATATATAATATTTTCCAACTTGTAATATTATACAAATATATAA
5047784 TAAGGAC
196 TAAGGAC
5047791 AAACTATTTTAGATTTACTAAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGAGGTTAAAA
1 AAACTATTTTAGATTTACT-AAAAAATCTATAATTAAAATTTTATATGAAGTTCAGAGGTTAAAA
*
5047856 TAAAATTTTACCATTTCATTAAACCTTTTTTATATTTTAATTTTGTAAAAAATTATATAAATTTA
65 TAAAATTTTACCATTTCATTAAACATTTTTTATATTTTAATTTTGTAAAAAATTATATAAATTTA
5047921 TGAATTTAAATTTTTTAAAGAAAATATATAATATTTTCCAACTTGTAATATTATACAAATATATA
130 TGAATTTAAATTTTTTAAAGAAAATATATAATATTTTCCAACTTGTAATATTATACAAATATATA
5047986 ATAAGGAC
195 ATAAGGAC
5047994 AA
1 AA
5047996 TTTGGTTAAA
Statistics
Matches: 202, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
202 19 0.09
203 183 0.91
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (202 bp):
AAACTATTTTAGATTTACTAAAAAATCTATAATTAAAATTTTATATGAAGTTCAGAGGTTAAAAT
AAAATTTTACCATTTCATTAAACATTTTTTATATTTTAATTTTGTAAAAAATTATATAAATTTAT
GAATTTAAATTTTTTAAAGAAAATATATAATATTTTCCAACTTGTAATATTATACAAATATATAA
TAAGGAC
Found at i:5048145 original size:20 final size:20
Alignment explanation
Indices: 5048109--5048146 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5048099 ATCATATTCC
**
5048109 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
5048129 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
5048147 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:5048566 original size:2 final size:2
Alignment explanation
Indices: 5048559--5048584 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5048549 ATTTTGTAAA
5048559 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
5048585 TAAGAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5049279 original size:39 final size:37
Alignment explanation
Indices: 5049200--5049274 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
5049190 TCATTAAACT
* *
5049200 TTTTTATATTTTAAATTTTGTAAAAAATATATATAAA
1 TTTTAATAATTTAAATTTTGTAAAAAATATATATAAA
*
5049237 TTTTAATAATTTAAATTTTTTAAAGAAA-ATATATAAA
1 TTTTAATAATTTAAATTTTGTAAA-AAATATATATAAA
5049274 T
1 T
5049275 ATTTTTCAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 31 0.91
38 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (37 bp):
TTTTAATAATTTAAATTTTGTAAAAAATATATATAAA
Found at i:5049472 original size:20 final size:20
Alignment explanation
Indices: 5049435--5049506 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
5049425 TATTATCTAA
* *
5049435 TAATCTTACAATCTCACTAT
1 TAATCTTATATTCTCACTAT
*
5049455 TAATCTTATATTCCCACT-T
1 TAATCTTATATTCTCACTAT
5049474 ATAATCTTATATTCTCACTGA-
1 -TAATCTTATATTCTCACT-AT
*
5049495 TAATTTTATATT
1 TAATCTTATATT
5049507 TGATAATTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 1 0.02
20 43 0.98
ACGTcount: A:0.32, C:0.19, G:0.01, T:0.47
Consensus pattern (20 bp):
TAATCTTATATTCTCACTAT
Found at i:5049512 original size:15 final size:15
Alignment explanation
Indices: 5049492--5049522 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
5049482 ATATTCTCAC
5049492 TGATAATTTTATATT
1 TGATAATTTTATATT
5049507 TGATAATTTTATATT
1 TGATAATTTTATATT
5049522 T
1 T
5049523 TAAACTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
TGATAATTTTATATT
Found at i:5050997 original size:15 final size:16
Alignment explanation
Indices: 5050971--5051003 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
5050961 GAAAGGGCGA
5050971 GGTTGCTGTTGGTGTT
1 GGTTGCTGTTGGTGTT
5050987 GGTTG-TGTTGGTGTT
1 GGTTGCTGTTGGTGTT
5051002 GG
1 GG
5051004 GGATGAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.00, C:0.03, G:0.48, T:0.48
Consensus pattern (16 bp):
GGTTGCTGTTGGTGTT
Found at i:5055253 original size:47 final size:49
Alignment explanation
Indices: 5055134--5055241 Score: 127
Period size: 47 Copynumber: 2.2 Consensus size: 49
5055124 TTATACAAAA
* *
5055134 CGCGGTACCTCCCCGT--GCTATATAAAATTATGTCAGGAGTAAAGGTATGT
1 CGCGGTACCTGCCC-TACGCTATATAAAATTATGTC--GAGTAAAGATATGT
5055184 CGCGGTACCTGCCCTACGCTATATAAAATTATG-C-AGTAAAGATATAG-
1 CGCGGTACCTGCCCTACGCTATATAAAATTATGTCGAGTAAAGATAT-GT
5055231 CGCGGTACCTG
1 CGCGGTACCTG
5055242 ATCCGCGCTA
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
47 21 0.40
48 1 0.02
49 1 0.02
50 14 0.26
51 16 0.30
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (49 bp):
CGCGGTACCTGCCCTACGCTATATAAAATTATGTCGAGTAAAGATATGT
Found at i:5055372 original size:51 final size:50
Alignment explanation
Indices: 5055265--5055392 Score: 141
Period size: 51 Copynumber: 2.5 Consensus size: 50
5055255 CCATACGTGG
* **
5055265 CGTATAGCGT-GGTGCAGGGGACGCGCTATACCCACGTGGCGCCAGCTCAC
1 CGTATAGC-TCGGTGCAGGGGACGCGCTATACCCACGTGACGCCAAATCAC
* * *
5055315 CGTATAGCTCGGTGCAGGGGGCGCGCTATACCCCACGTGACGTCAAATCAT
1 CGTATAGCTCGGTGCAGGGGACGCGCTATA-CCCACGTGACGCCAAATCAC
* * * *
5055366 CGTATAGCGCGATGCAGGAGATGCGCT
1 CGTATAGCTCGGTGCAGGGGACGCGCT
5055393 TTACTACCAA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.02
50 27 0.42
51 37 0.57
ACGTcount: A:0.20, C:0.29, G:0.33, T:0.18
Consensus pattern (50 bp):
CGTATAGCTCGGTGCAGGGGACGCGCTATACCCACGTGACGCCAAATCAC
Found at i:5058651 original size:47 final size:47
Alignment explanation
Indices: 5058574--5058795 Score: 298
Period size: 47 Copynumber: 4.9 Consensus size: 47
5058564 GATAAACTTG
* * *
5058574 TTTTTATTTATTTTGTTTATTAATG--TAT-TTATTTAATTATG-AT
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTATTTAATTATGAAA
*
5058617 TTTTTATTTATTTTGTTTCTTAATG--TTT-TTATTTAAATATGAAA
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTATTTAATTATGAAA
* *
5058661 TTTTTATTTATTTTGTTTCTCAATGTCTTTATTATTTAATTATGAAA
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTATTTAATTATGAAA
* **
5058708 TTTTTATTTATTTTATTTCTTAATGTTTTTATTATTTAATTATGTACT
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTATTTAATTATG-AAA
5058756 TTTTTATTTATTTTGTTTCTTAATG-TTTTATTATTTAATT
1 TTTTTATTTATTTTGTTTCTTAATGTTTTTATTATTTAATT
5058796 GTTTGAATTG
Statistics
Matches: 162, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
43 38 0.23
44 25 0.15
46 3 0.02
47 71 0.44
48 25 0.15
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (47 bp):
TTTTTATTTATTTTGTTTCTTAATGTTTTTATTATTTAATTATGAAA
Found at i:5058720 original size:23 final size:23
Alignment explanation
Indices: 5058644--5058768 Score: 76
Period size: 24 Copynumber: 5.3 Consensus size: 23
5058634 TCTTAATGTT
*
5058644 TTTATTTAAATATGAAATTTTTA
1 TTTATTTAATTATGAAATTTTTA
** **
5058667 TTTATTTTGTT-TCTCAATGTCTTTA
1 TTTATTTAATTAT-GAAAT-T-TTTA
5058692 -TTATTTAATTATGAAATTTTTA
1 TTTATTTAATTATGAAATTTTTA
* * * *
5058714 TTTATTTTATTTCTTAATGTTTTTA
1 TTTA-TTTAATTATGAA-ATTTTTA
**
5058739 -TTATTTAATTATGTACTTTTTTA
1 TTTATTTAATTATG-AAATTTTTA
5058762 TTTATTT
1 TTTATTT
5058769 TGTTTCTTAA
Statistics
Matches: 75, Mismatches: 18, Indels: 17
0.68 0.16 0.15
Matches are distributed among these distances:
22 5 0.07
23 28 0.37
24 31 0.41
25 11 0.15
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.65
Consensus pattern (23 bp):
TTTATTTAATTATGAAATTTTTA
Found at i:5058736 original size:24 final size:24
Alignment explanation
Indices: 5058662--5058791 Score: 92
Period size: 24 Copynumber: 5.5 Consensus size: 24
5058652 AATATGAAAT
* *
5058662 TTTTATTTATTTTGTTTCTCAATG
1 TTTTATTTATTTTATTTCTTAATG
* **
5058686 TCTTTA-TTATTTAATTAT-GAAAT-
1 T-TTTATTTATTTTATT-TCTTAATG
5058709 TTTTATTTATTTTATTTCTTAATG
1 TTTTATTTATTTTATTTCTTAATG
* * * *
5058733 TTTT-TATTATTTAATTAT-GTACTT
1 TTTTAT-TTATTTTATT-TCTTAATG
*
5058757 TTTTATTTATTTTGTTTCTTAATG
1 TTTTATTTATTTTATTTCTTAATG
5058781 TTTTA-TTATTT
1 TTTTATTTATTT
5058792 AATTGTTTGA
Statistics
Matches: 81, Mismatches: 16, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
22 5 0.06
23 21 0.26
24 48 0.59
25 7 0.09
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (24 bp):
TTTTATTTATTTTATTTCTTAATG
Found at i:5058831 original size:94 final size:94
Alignment explanation
Indices: 5058574--5058856 Score: 227
Period size: 91 Copynumber: 3.1 Consensus size: 94
5058564 GATAAACTTG
* * * * * * * * *
5058574 TTTTTATTTATTTTGTTTATTAATG--TAT-TTATTTAATTATG-ATTTTTTATTTATTTTGTTT
1 TTTTTATTTATTTTGTTTCTCAATGTCTTTATTATTTAATTATGAAATTGTAATGTATTGTATTT
* **
5058635 CTTAATG--TTT-TTATTTAAATATG-AAA
66 C-TAATGTTTTTATTATTTAATTATGTACT
* * * *
5058661 TTTTTATTTATTTTGTTTCTCAATGTCTTTATTATTTAATTATGAAATTTTTATTTATTTTATTT
1 TTTTTATTTATTTTGTTTCTCAATGTCTTTATTATTTAATTATGAAATTGTAATGTATTGTATTT
5058726 CTTAATGTTTTTATTATTTAATTATGTACT
66 C-TAATGTTTTTATTATTTAATTATGTACT
* *
5058756 TTTTTATTTATTTTGTTTCTTAATGT-TTTATTATTTAATTGTTTG-AATTGTAATGT-TTGTA-
1 TTTTTATTTATTTTGTTTCTCAATGTCTTTATTATTTAA-T-TATGAAATTGTAATGTATTGTAT
* *
5058817 TTC-AATTGTTTTT-TTATTTAGTT-TGTAAT
64 TTCTAA-TGTTTTTATTATTTAATTATGTACT
5058846 GTTTTTATTTA
1 -TTTTTATTTA
5058857 ATTTCACTTG
Statistics
Matches: 168, Mismatches: 16, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
87 23 0.14
89 2 0.01
90 18 0.11
91 46 0.27
92 7 0.04
93 6 0.04
94 28 0.17
95 35 0.21
96 3 0.02
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.66
Consensus pattern (94 bp):
TTTTTATTTATTTTGTTTCTCAATGTCTTTATTATTTAATTATGAAATTGTAATGTATTGTATTT
CTAATGTTTTTATTATTTAATTATGTACT
Found at i:5084730 original size:16 final size:17
Alignment explanation
Indices: 5084699--5084736 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
5084689 TAACATTTCA
5084699 ATCCTAATCCCCCTTCG
1 ATCCTAATCCCCCTTCG
*
5084716 ATCCTAAT-TCCCTTCG
1 ATCCTAATCCCCCTTCG
*
5084732 CTCCT
1 ATCCT
5084737 CCCCCAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.16, C:0.45, G:0.05, T:0.34
Consensus pattern (17 bp):
ATCCTAATCCCCCTTCG
Found at i:5088518 original size:21 final size:22
Alignment explanation
Indices: 5088489--5088530 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
5088479 TTGCTCAACT
*
5088489 TTAACAATTTTCAATTTCATTA
1 TTAACAATTTTAAATTTCATTA
5088511 TTAA-AATTTTAAATTTCATT
1 TTAACAATTTTAAATTTCATT
5088531 CTTTTTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (22 bp):
TTAACAATTTTAAATTTCATTA
Found at i:5091297 original size:21 final size:21
Alignment explanation
Indices: 5091271--5091312 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5091261 ATTCGAGGCT
* *
5091271 AGACCATAGAACAGGGTAGCA
1 AGACCAAAAAACAGGGTAGCA
*
5091292 AGACCAAAAAATAGGGTAGCA
1 AGACCAAAAAACAGGGTAGCA
5091313 GATTCTGCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.48, C:0.17, G:0.26, T:0.10
Consensus pattern (21 bp):
AGACCAAAAAACAGGGTAGCA
Found at i:5097371 original size:18 final size:17
Alignment explanation
Indices: 5097348--5097381 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
5097338 ATGTATATAA
5097348 TTTATTTAAGTATTTTAT
1 TTTATTTAA-TATTTTAT
5097366 TTTATTTAATATTTTA
1 TTTATTTAATATTTTA
5097382 CTAATATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTATTTAATATTTTAT
Found at i:5099204 original size:18 final size:18
Alignment explanation
Indices: 5099181--5099232 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
5099171 GCCACCGTAG
5099181 CCATATATGATGCCGCAA
1 CCATATATGATGCCGCAA
**
5099199 CCATATATGATGATGCAA
1 CCATATATGATGCCGCAA
5099217 CCATATATGATGCCGC
1 CCATATATGATGCCGC
5099233 CATCACCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (18 bp):
CCATATATGATGCCGCAA
Found at i:5100440 original size:51 final size:51
Alignment explanation
Indices: 5100338--5100445 Score: 121
Period size: 51 Copynumber: 2.1 Consensus size: 51
5100328 CCCTACGTGA
* * *
5100338 CGTATAGCGCGGAGAAGGGGGCGCGCTATACCCCACGTGTAACCCAGTCAG
1 CGTATAGCGCGGAGAAGGGAGCGCGCTATACCCCACGTGTAACCAAATCAG
* * *
5100389 CGTATAGCGCGGTA-CAGGGAGCGCGCTATACTCCACGTGGT-GCCAAATCAG
1 CGTATAGCGCGG-AGAAGGGAGCGCGCTATACCCCACGT-GTAACCAAATCAG
*
5100440 CATATA
1 CGTATA
5100446 ACGCTGTTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
51 45 0.94
52 3 0.06
ACGTcount: A:0.25, C:0.28, G:0.31, T:0.17
Consensus pattern (51 bp):
CGTATAGCGCGGAGAAGGGAGCGCGCTATACCCCACGTGTAACCAAATCAG
Found at i:5100458 original size:51 final size:51
Alignment explanation
Indices: 5100353--5100458 Score: 115
Period size: 51 Copynumber: 2.1 Consensus size: 51
5100343 AGCGCGGAGA
* * * * *
5100353 AGGGGGCGCGCTATACCCCACGTGTAACCCAGTCAGCGTATAGCGCGGTAC
1 AGGGAGCGCGCTATACCCCACGTGTAACCAAATCAGCATATAACGCGGTAC
* * * *
5100404 AGGGAGCGCGCTATACTCCACGTGGT-GCCAAATCAGCATATAACGCTGTTC
1 AGGGAGCGCGCTATACCCCACGT-GTAACCAAATCAGCATATAACGCGGTAC
5100455 AGGG
1 AGGG
5100459 GACGTACTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
51 43 0.96
52 2 0.04
ACGTcount: A:0.24, C:0.28, G:0.30, T:0.18
Consensus pattern (51 bp):
AGGGAGCGCGCTATACCCCACGTGTAACCAAATCAGCATATAACGCGGTAC
Done.