Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 89 of 103
Found at i:32798929 original size:3 final size:3
Alignment explanation
Indices: 32798921--32798949 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
32798911 CGCATCATGA
32798921 ATT ATT ATT ATT ATT ATT ATT -TT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
32798950 TGCAAGCCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:32799999 original size:24 final size:24
Alignment explanation
Indices: 32799967--32800014 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
32799957 ATGGCTGGGC
32799967 GTACGCCCAGCCATC-CACTTTTTT
1 GTACGCCCAGCCATCTC-CTTTTTT
32799991 GTACGCCCAGCCATCTCCTTTTTT
1 GTACGCCCAGCCATCTCCTTTTTT
32800015 TTATATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.15, C:0.38, G:0.12, T:0.35
Consensus pattern (24 bp):
GTACGCCCAGCCATCTCCTTTTTT
Found at i:32800042 original size:10 final size:8
Alignment explanation
Indices: 32800012--32800049 Score: 58
Period size: 8 Copynumber: 4.5 Consensus size: 8
32800002 CATCTCCTTT
32800012 TTTTTATA
1 TTTTTATA
32800020 TTTTTATA
1 TTTTTATA
32800028 TTTTTATA
1 TTTTTATA
32800036 TTATTTTATA
1 -T-TTTTATA
32800046 TTTT
1 TTTT
32800050 AGTTTATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 19 0.68
9 2 0.07
10 7 0.25
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTATA
Found at i:32800049 original size:17 final size:18
Alignment explanation
Indices: 32800012--32800061 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
32800002 CATCTCCTTT
32800012 TTTTTATA-T-TTTTATA
1 TTTTTATATTATTTTATA
32800028 TTTTTATATTATTTTATA
1 TTTTTATATTATTTTATA
32800046 -TTTTAGT-TTATTTTAT
1 TTTTTA-TATTATTTTAT
32800062 TATAAATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.26
17 15 0.48
18 8 0.26
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (18 bp):
TTTTTATATTATTTTATA
Found at i:32800103 original size:10 final size:9
Alignment explanation
Indices: 32800014--32800108 Score: 56
Period size: 8 Copynumber: 10.4 Consensus size: 9
32800004 TCTCCTTTTT
32800014 TTTATATT-
1 TTTATATTA
32800022 TTTATATT-
1 TTTATATTA
32800030 TTTATATTA
1 TTTATATTA
32800039 TTTTATATTTTA
1 -TTTATA--TTA
*
32800051 GTTTATTTTA
1 -TTTATATTA
*
32800061 -TTATA-AA
1 TTTATATTA
* *
32800068 TTAAAATTA
1 TTTATATTA
32800077 TTTAT-TTA
1 TTTATATTA
32800085 TTTATTATTA
1 TTTA-TATTA
*
32800095 TTATATATTT
1 TT-TATATTA
32800105 TTTA
1 TTTA
32800109 AGTGTCTACA
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
7 1 0.01
8 30 0.44
9 7 0.10
10 20 0.29
11 2 0.03
12 8 0.12
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (9 bp):
TTTATATTA
Found at i:32800103 original size:25 final size:25
Alignment explanation
Indices: 32800015--32800108 Score: 68
Period size: 25 Copynumber: 3.6 Consensus size: 25
32800005 CTCCTTTTTT
*
32800015 TTATATTTTTATATT-TTTA-TATTA
1 TTATATATTTAT-TTATTTATTATTA
* *
32800039 TTTTATATTTTAGTTTATTTTATTATAAA
1 TTATATA-TTTA-TTTA-TTTATTAT-TA
*
32800068 TTAAAATTATTTATTTATTTATTATTA
1 TT-ATA-TATTTATTTATTTATTATTA
32800095 TTATATATTT-TTTA
1 TTATATATTTATTTA
32800109 AGTGTCTACA
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
24 9 0.16
25 11 0.20
26 3 0.05
27 7 0.13
28 11 0.20
29 7 0.13
30 5 0.09
31 2 0.04
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (25 bp):
TTATATATTTATTTATTTATTATTA
Found at i:32801222 original size:17 final size:18
Alignment explanation
Indices: 32801196--32801229 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32801186 CAAATTGTTG
*
32801196 GTTAT-TTTTTTTGAAAA
1 GTTATATTTTATTGAAAA
32801213 GTTATATTTTATTGAAA
1 GTTATATTTTATTGAAA
32801230 TCTCACAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (18 bp):
GTTATATTTTATTGAAAA
Found at i:32805662 original size:22 final size:22
Alignment explanation
Indices: 32805637--32805722 Score: 104
Period size: 22 Copynumber: 3.9 Consensus size: 22
32805627 GTATTGCATT
**
32805637 ACTAGTTTTTAGATATTGTGTC
1 ACTAGTTTTTAGATATTGTGAG
*
32805659 ACTAGTTTTTAGATATTGTAAG
1 ACTAGTTTTTAGATATTGTGAG
32805681 ACT-GATTTTTA-AGTATTGTGAG
1 ACTAG-TTTTTAGA-TATTGTGAG
*
32805703 ACTAGTTTTTAGGTATTGTG
1 ACTAGTTTTTAGATATTGTG
32805723 TAACTTAATC
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
21 2 0.04
22 52 0.95
23 1 0.02
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.48
Consensus pattern (22 bp):
ACTAGTTTTTAGATATTGTGAG
Found at i:32805839 original size:22 final size:23
Alignment explanation
Indices: 32805807--32805961 Score: 93
Period size: 23 Copynumber: 6.9 Consensus size: 23
32805797 GTAATGCCTA
*
32805807 AGTCATACAATG-CTAAAAAACT
1 AGTCACACAATGCCTAAAAAACT
* * **
32805829 AGTCACGCAATGCCTTACTAACT
1 AGTCACACAATGCCTAAAAAACT
* * * **
32805852 AATCACGCAATGCCTTACTAACT
1 AGTCACACAATGCCTAAAAAACT
* * **
32805875 AATCACACAATGTC-ATATCAACT
1 AGTCACACAATGCCTA-AAAAACT
* * *
32805898 AGTCACACAATACTTAAAAATC-
1 AGTCACACAATGCCTAAAAAACT
**
32805920 AGTCACGTAATGCCT-AAAAACT
1 AGTCACACAATGCCTAAAAAACT
*
32805942 AGTCACACAATGTCTAAAAA
1 AGTCACACAATGCCTAAAAA
32805962 TCGATTACGT
Statistics
Matches: 102, Mismatches: 26, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
21 5 0.05
22 33 0.32
23 63 0.62
24 1 0.01
ACGTcount: A:0.43, C:0.25, G:0.09, T:0.24
Consensus pattern (23 bp):
AGTCACACAATGCCTAAAAAACT
Found at i:32805857 original size:23 final size:23
Alignment explanation
Indices: 32805825--32805886 Score: 106
Period size: 23 Copynumber: 2.7 Consensus size: 23
32805815 AATGCTAAAA
*
32805825 AACTAGTCACGCAATGCCTTACT
1 AACTAATCACGCAATGCCTTACT
32805848 AACTAATCACGCAATGCCTTACT
1 AACTAATCACGCAATGCCTTACT
*
32805871 AACTAATCACACAATG
1 AACTAATCACGCAATG
32805887 TCATATCAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.24
Consensus pattern (23 bp):
AACTAATCACGCAATGCCTTACT
Found at i:32805944 original size:44 final size:44
Alignment explanation
Indices: 32805894--32805984 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
32805884 ATGTCATATC
32805894 AACTAGTCACACAATACT-TAAAAATC-AGTCACGTAATGCCTAAA
1 AACTAGTCACACAAT-CTCTAAAAATCGA-TCACGTAATGCCTAAA
* * *
32805938 AACTAGTCACACAATGTCTAAAAATCGATTACGTAATGCTTAAA
1 AACTAGTCACACAATCTCTAAAAATCGATCACGTAATGCCTAAA
32805982 AAC
1 AAC
32805985 CACTAAAACT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 40 0.95
45 1 0.02
ACGTcount: A:0.45, C:0.21, G:0.10, T:0.24
Consensus pattern (44 bp):
AACTAGTCACACAATCTCTAAAAATCGATCACGTAATGCCTAAA
Found at i:32806152 original size:60 final size:60
Alignment explanation
Indices: 32806084--32806214 Score: 201
Period size: 60 Copynumber: 2.2 Consensus size: 60
32806074 CTTGGGAAAG
* * *
32806084 AATGCTTAAAATGCTTAA-AGGTTTTTCTTCATGTATCAAAAACCACTCCAAAATACTTAA
1 AATGCTTAAAATGCTCAATA-GTTTTTCTTCATGTATCAAAAACAACTCCAAAATACTCAA
* *
32806144 AATGCTTAAAATGCTCAATAGTTTTTCTTCGTGTATCAAAAATAACTCCAAAATACTCAA
1 AATGCTTAAAATGCTCAATAGTTTTTCTTCATGTATCAAAAACAACTCCAAAATACTCAA
32806204 AATGCTTAAAA
1 AATGCTTAAAA
32806215 ATTTTTCTTT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
60 64 0.98
61 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (60 bp):
AATGCTTAAAATGCTCAATAGTTTTTCTTCATGTATCAAAAACAACTCCAAAATACTCAA
Found at i:32807153 original size:15 final size:15
Alignment explanation
Indices: 32807133--32807201 Score: 88
Period size: 15 Copynumber: 4.6 Consensus size: 15
32807123 CCATTTAAAA
32807133 AAAATAAAAAATAAT
1 AAAATAAAAAATAAT
*
32807148 AAAATAAATAATAAT
1 AAAATAAAAAATAAT
32807163 AAAATGAAAAAAT-AT
1 AAAAT-AAAAAATAAT
*
32807178 AAAATAAAATAATAAG
1 AAAATAAAA-AATAAT
32807194 AAAA-AAAA
1 AAAATAAAA
32807202 GAGGAATGGT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
14 4 0.08
15 33 0.69
16 11 0.23
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
AAAATAAAAAATAAT
Found at i:32807176 original size:31 final size:30
Alignment explanation
Indices: 32807133--32807201 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 30
32807123 CCATTTAAAA
*
32807133 AAAATAAAAAATAATAAAAT-AAATAATAAT
1 AAAATAAAAAAT-ATAAAATAAAATAATAAG
32807163 AAAATGAAAAAATATAAAATAAAATAATAAG
1 AAAAT-AAAAAATATAAAATAAAATAATAAG
32807194 AAAA-AAAA
1 AAAATAAAA
32807202 GAGGAATGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 4 0.11
30 12 0.33
31 20 0.56
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (30 bp):
AAAATAAAAAATATAAAATAAAATAATAAG
Found at i:32807179 original size:25 final size:21
Alignment explanation
Indices: 32807131--32807201 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 21
32807121 ACCCATTTAA
32807131 AAAAAATAAAAAATAATAAAAT
1 AAAAAATAAAAAATAA-AAAAT
*
32807153 AAATAATAATAAAATGAAAAAAT
1 AAAAAATAA-AAAAT-AAAAAAT
* *
32807176 ATAAAATAAAATAATAAGAAA-
1 AAAAAATAAAA-AATAAAAAAT
32807197 AAAAA
1 AAAAA
32807202 GAGGAATGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
21 4 0.10
22 15 0.37
23 20 0.49
24 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (21 bp):
AAAAAATAAAAAATAAAAAAT
Found at i:32807519 original size:11 final size:10
Alignment explanation
Indices: 32807493--32807517 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32807483 AATCAAAAAG
32807493 AAAAATACCA
1 AAAAATACCA
32807503 AAAAATACCA
1 AAAAATACCA
32807513 AAAAA
1 AAAAA
32807518 ATCAGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.76, C:0.16, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAATACCA
Found at i:32808795 original size:16 final size:15
Alignment explanation
Indices: 32808774--32808821 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 15
32808764 ATTATTGTTT
32808774 AAAATAATATACATAA
1 AAAATAATATA-ATAA
32808790 AAAATAATAATAATAA
1 AAAATAAT-ATAATAA
*
32808806 CAAATAATAATAATAA
1 AAAATAAT-ATAATAA
32808822 TATTAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 27 0.90
17 3 0.10
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAATAATATAATAA
Found at i:32808798 original size:3 final size:3
Alignment explanation
Indices: 32808776--32808830 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
32808766 TATTGTTTAA
*
32808776 AAT AAT -AT ACAT AA- AA- AAT AAT AAT AAT AACA AAT AAT AAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
*
32808820 AAT ATT AAT AA
1 AAT AAT AAT AA
32808831 ATATATAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 6 0.14
3 33 0.75
4 5 0.11
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:32808800 original size:19 final size:18
Alignment explanation
Indices: 32808776--32808820 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
32808766 TATTGTTTAA
*
32808776 AATAATATACATAAAAAAT
1 AATAATATA-ACAAAAAAT
*
32808795 AATAATAATAACAAATAAT
1 AATAAT-ATAACAAAAAAT
32808814 AATAATA
1 AATAATA
32808821 ATATTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 19 0.83
20 3 0.13
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (18 bp):
AATAATATAACAAAAAAT
Found at i:32813967 original size:22 final size:22
Alignment explanation
Indices: 32813942--32813993 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
32813932 GAAAAAAAAT
32813942 GAGTGAAAAAGATAAAGCTTTA
1 GAGTGAAAAAGATAAAGCTTTA
* *
32813964 GAGTGAAAATGATGAAGCTTTA
1 GAGTGAAAAAGATAAAGCTTTA
32813986 GAGTGAAA
1 GAGTGAAA
32813994 GCCCAAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.46, C:0.04, G:0.27, T:0.23
Consensus pattern (22 bp):
GAGTGAAAAAGATAAAGCTTTA
Found at i:32832017 original size:21 final size:21
Alignment explanation
Indices: 32831993--32832034 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
32831983 ATTTATAGTA
32831993 TAATAGCTAGAACTAATTATT
1 TAATAGCTAGAACTAATTATT
*
32832014 TAATAGCTATAACTAATTATT
1 TAATAGCTAGAACTAATTATT
32832035 CTATTCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (21 bp):
TAATAGCTAGAACTAATTATT
Found at i:32832186 original size:22 final size:24
Alignment explanation
Indices: 32832143--32832188 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
32832133 TAATCATAAT
32832143 ATAGAACTAATGATAATAAAAAAA
1 ATAGAACTAATGATAATAAAAAAA
32832167 ATAGAACTAA-GAT-ATAAAAAAA
1 ATAGAACTAATGATAATAAAAAAA
32832189 TGTAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 9 0.41
23 3 0.14
24 10 0.45
ACGTcount: A:0.67, C:0.04, G:0.09, T:0.20
Consensus pattern (24 bp):
ATAGAACTAATGATAATAAAAAAA
Found at i:32832253 original size:14 final size:14
Alignment explanation
Indices: 32832236--32832329 Score: 85
Period size: 14 Copynumber: 7.1 Consensus size: 14
32832226 ATTAAGATTT
32832236 AATTATATAATATA
1 AATTATATAATATA
32832250 AATTATATAA-ATA
1 AATTATATAATATA
32832263 TAATTATATAATATA
1 -AATTATATAATATA
* *
32832278 TAAATA-ATTATATA
1 -AATTATATAATATA
* *
32832292 AATTAAATTATAT-
1 AATTATATAATATA
32832305 AA-TATATAA-ATA
1 AATTATATAATATA
32832317 AA-TATATAA-ATA
1 AATTATATAATATA
32832329 A
1 A
32832330 GGCAATAAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
11 2 0.03
12 18 0.25
13 9 0.13
14 34 0.48
15 8 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATTATATAATATA
Found at i:32832277 original size:21 final size:21
Alignment explanation
Indices: 32832240--32832322 Score: 74
Period size: 19 Copynumber: 4.2 Consensus size: 21
32832230 AGATTTAATT
32832240 ATATAA-TATA-AATTATATAA
1 ATATAATTATATAA-TATATAA
32832260 ATATAATTATATAATATAT-A
1 ATATAATTATATAATATATAA
32832280 A-ATAATTATATAA-AT-TAA
1 ATATAATTATATAATATATAA
* *
32832298 AT-TATATAATAT-ATAAATAA
1 ATATA-ATTATATAATATATAA
32832318 ATATA
1 ATATA
32832323 TAAATAAGGC
Statistics
Matches: 53, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
17 1 0.02
18 7 0.13
19 19 0.36
20 13 0.25
21 11 0.21
22 2 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATATAATTATATAATATATAA
Found at i:32832277 original size:33 final size:34
Alignment explanation
Indices: 32832240--32832328 Score: 114
Period size: 33 Copynumber: 2.7 Consensus size: 34
32832230 AGATTTAATT
32832240 ATATAATATAAATTATATAAATAT-AATTATATA
1 ATATAATATAAATTATATAAATATAAATTATATA
*
32832273 ATAT-ATAAATAATTATATAAAT-TAAATTATATA
1 ATATAATATA-AATTATATAAATATAAATTATATA
*
32832306 ATATATAAATAAA-TATATAAATA
1 ATATA-ATATAAATTATATAAATA
32832329 AGGCAATAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
32 5 0.10
33 38 0.79
34 2 0.04
35 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (34 bp):
ATATAATATAAATTATATAAATATAAATTATATA
Found at i:32832284 original size:19 final size:19
Alignment explanation
Indices: 32832262--32832325 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
32832252 TTATATAAAT
32832262 ATAATTATATAATATATAA
1 ATAATTATATAATATATAA
32832281 ATAATTATATAA-AT-T--
1 ATAATTATATAATATATAA
32832296 A-AATTATATAATATATAA
1 ATAATTATATAATATATAA
*
32832314 ATAAATATATAA
1 ATAATTATATAA
32832326 ATAAGGCAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 10 0.26
15 3 0.08
16 1 0.03
17 1 0.03
18 3 0.08
19 21 0.54
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAATTATATAATATATAA
Found at i:32832299 original size:47 final size:45
Alignment explanation
Indices: 32832235--32832329 Score: 140
Period size: 47 Copynumber: 2.1 Consensus size: 45
32832225 AATTAAGATT
32832235 TAATTATATAATATAAATTATATAA-ATATAATTATATAATATATAAA
1 TAATTATATAATATAAATTATATAATATATAA--ATA-AATATATAAA
32832282 TAATTATATAA-ATTAAATTATATAATATATAAATAAATATATAAA
1 TAATTATATAATA-TAAATTATATAATATATAAATAAATATATAAA
32832327 TAA
1 TAA
32832330 GGCAATAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
45 13 0.28
46 4 0.09
47 23 0.50
48 6 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (45 bp):
TAATTATATAATATAAATTATATAATATATAAATAAATATATAAA
Found at i:32834373 original size:20 final size:20
Alignment explanation
Indices: 32834316--32834377 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
32834306 TTTTGGACTA
*
32834316 AATGTATTGATACATTTTGG
1 AATGTATTCATACATTTTGG
* * * *
32834336 AAATTTGTCCATATATTTTGG
1 -AATGTATTCATACATTTTGG
32834357 AATGTATTCATACATTTTGG
1 AATGTATTCATACATTTTGG
32834377 A
1 A
32834378 TAGAACCATT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (20 bp):
AATGTATTCATACATTTTGG
Found at i:32834601 original size:21 final size:21
Alignment explanation
Indices: 32834562--32834607 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
32834552 AAACAAGTGT
**
32834562 AAAAATCATTCAATTAATTTC
1 AAAAATCATTCAAGCAATTTC
*
32834583 AAAAATCATTCAAGCAATTTT
1 AAAAATCATTCAAGCAATTTC
32834604 AAAA
1 AAAA
32834608 CTTTTCGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (21 bp):
AAAAATCATTCAAGCAATTTC
Found at i:32834672 original size:21 final size:22
Alignment explanation
Indices: 32834648--32834734 Score: 65
Period size: 21 Copynumber: 4.1 Consensus size: 22
32834638 AAACTTAATT
* *
32834648 AAACAAGTTTAAAAGCT-ATTC
1 AAACAAGTTCAAAAACTCATTC
32834669 AAACAAGTTCAAAAACTCATTC
1 AAACAAGTTCAAAAACTCATTC
* * *
32834691 ATA-TAGCGTCAAAAA-TCATTC
1 AAACAAG-TTCAAAAACTCATTC
* * *
32834712 AAATAACTTCAAAGA-TCATTC
1 AAACAAGTTCAAAAACTCATTC
32834733 AA
1 AA
32834735 GTAATTTTGA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
21 39 0.74
22 14 0.26
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.26
Consensus pattern (22 bp):
AAACAAGTTCAAAAACTCATTC
Found at i:32834855 original size:21 final size:21
Alignment explanation
Indices: 32834823--32834887 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
32834813 TTAAGTTCAA
32834823 AAACAT-ATTCAAACAACTTC
1 AAACATCATTCAAACAACTTC
32834843 AAACATCATTCAAACAACTTC
1 AAACATCATTCAAACAACTTC
** *
32834864 AAGGATCATTCAAACAAGTTC
1 AAACATCATTCAAACAACTTC
32834885 AAA
1 AAA
32834888 GATAATTGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 6 0.15
21 34 0.85
ACGTcount: A:0.49, C:0.23, G:0.05, T:0.23
Consensus pattern (21 bp):
AAACATCATTCAAACAACTTC
Found at i:32834856 original size:11 final size:11
Alignment explanation
Indices: 32834823--32834879 Score: 57
Period size: 10 Copynumber: 5.5 Consensus size: 11
32834813 TTAAGTTCAA
32834823 AAACAT-ATTC
1 AAACATCATTC
*
32834833 AAACAAC-TTC
1 AAACATCATTC
32834843 AAACATCATTC
1 AAACATCATTC
*
32834854 AAACAAC-TTC
1 AAACATCATTC
**
32834864 AAGGATCATTC
1 AAACATCATTC
32834875 AAACA
1 AAACA
32834880 AGTTCAAAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
10 21 0.58
11 15 0.42
ACGTcount: A:0.49, C:0.25, G:0.04, T:0.23
Consensus pattern (11 bp):
AAACATCATTC
Found at i:32839947 original size:21 final size:22
Alignment explanation
Indices: 32839923--32839974 Score: 52
Period size: 25 Copynumber: 2.3 Consensus size: 22
32839913 TATAAAAATC
*
32839923 ATAATAAAAT-TAAAAAAATAT
1 ATAATAAAATATAAAAAAATAA
*
32839944 ATAAACAAAATGAATAAAAAAATAA
1 AT-AATAAAAT--ATAAAAAAATAA
32839969 ATAATA
1 ATAATA
32839975 GAGAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 2 0.08
22 7 0.29
24 3 0.12
25 12 0.50
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (22 bp):
ATAATAAAATATAAAAAAATAA
Found at i:32839971 original size:12 final size:12
Alignment explanation
Indices: 32839933--32839972 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
32839923 ATAATAAAAT
*
32839933 TAAAAAAATATA
1 TAAAAAAATAAA
*
32839945 TAAACAAAATGAA
1 TAAA-AAAATAAA
32839958 TAAAAAAATAAA
1 TAAAAAAATAAA
32839970 TAA
1 TAA
32839973 TAGAGAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (12 bp):
TAAAAAAATAAA
Found at i:32841205 original size:3 final size:3
Alignment explanation
Indices: 32841199--32841263 Score: 114
Period size: 3 Copynumber: 21.7 Consensus size: 3
32841189 TATATAAAAA
32841199 AAT AAT AAT AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32841246 AAT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT A-AT AA
32841264 GTTAATGAGA
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.03
3 55 0.92
4 3 0.05
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:32841612 original size:11 final size:11
Alignment explanation
Indices: 32841596--32841676 Score: 50
Period size: 10 Copynumber: 7.6 Consensus size: 11
32841586 TACTTAATAA
32841596 AAATAATAAAT
1 AAATAATAAAT
32841607 AAATAAT-AAT
1 AAATAATAAAT
*
32841617 AGATAA-AAA-
1 AAATAATAAAT
32841626 AATATAA-AAAT
1 AA-ATAATAAAT
32841637 ATAA-AA-AAAT
1 A-AATAATAAAT
32841647 -AATAATTCAAAT
1 AAATAA-T-AAAT
*
32841659 ATATAATAAAT
1 AAATAATAAAT
*
32841670 AATTAAT
1 AAATAAT
32841677 TTCTGAAAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
8 2 0.04
9 3 0.05
10 23 0.41
11 18 0.32
12 6 0.11
13 4 0.07
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:32841676 original size:24 final size:22
Alignment explanation
Indices: 32841619--32841677 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 22
32841609 ATAATAATAG
32841619 ATAAAAAAAT-ATAA---AAAT
1 ATAAAAAAATAATAATTCAAAT
32841637 ATAAAAAAATAATAATTCAAAT
1 ATAAAAAAATAATAATTCAAAT
*
32841659 ATATAATAAATAATTAATT
1 ATA-AAAAAATAA-TAATT
32841678 TCTGAAAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
18 10 0.29
19 4 0.12
22 7 0.21
23 8 0.24
24 5 0.15
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
ATAAAAAAATAATAATTCAAAT
Found at i:32841723 original size:16 final size:17
Alignment explanation
Indices: 32841704--32841740 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
32841694 ACATGACATT
*
32841704 AAATAAATAAA-AAATA
1 AAATAAATAAATAAAAA
32841720 AAATAAATAAATAAAAA
1 AAATAAATAAATAAAAA
32841737 AAAT
1 AAAT
32841741 CTAAAACAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (17 bp):
AAATAAATAAATAAAAA
Found at i:32842112 original size:17 final size:17
Alignment explanation
Indices: 32842092--32842162 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 17
32842082 AAAAAAAAGG
32842092 AATAAAATAGAAAATAT
1 AATAAAATAGAAAATAT
*
32842109 AAT--AATAAAAAATAT
1 AATAAAATAGAAAATAT
*
32842124 AATGAAAT-GAAAATAAT
1 AATAAAATAGAAAAT-AT
* *
32842141 AATTAAATA-ATAATA-
1 AATAAAATAGAAAATAT
32842156 AATAAAA
1 AATAAAA
32842163 AATAGACAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
15 20 0.44
16 6 0.13
17 19 0.42
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.25
Consensus pattern (17 bp):
AATAAAATAGAAAATAT
Found at i:32842152 original size:14 final size:14
Alignment explanation
Indices: 32842096--32842166 Score: 56
Period size: 14 Copynumber: 4.9 Consensus size: 14
32842086 AAAAGGAATA
32842096 AAATAGAAAATATAAT
1 AAATA-AAAA-ATAAT
32842112 -AATAAAAAATATAAT
1 AAAT-AAAAA-ATAAT
*
32842127 GAAAT-GAAAATAAT
1 -AAATAAAAAATAAT
* *
32842141 AATTAAATAATAAT
1 AAATAAAAAATAAT
32842155 AAATAAAAAATA
1 AAATAAAAAATA
32842167 GACAATTGCA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
13 3 0.07
14 22 0.49
15 16 0.36
16 1 0.02
17 3 0.07
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.25
Consensus pattern (14 bp):
AAATAAAAAATAAT
Found at i:32844414 original size:2 final size:2
Alignment explanation
Indices: 32844407--32844436 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
32844397 TTTAATAAGC
32844407 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32844437 GAGTAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:32855552 original size:33 final size:33
Alignment explanation
Indices: 32855513--32855578 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
32855503 TCTTCAAATA
* *
32855513 ATTTTTCTAAAAGCTAAAAACAAAAGTTTTTAG
1 ATTTTTCCAAAAACTAAAAACAAAAGTTTTTAG
32855546 ATTTTTCCAAAAACTAAAAACAAAAGTTTTTAG
1 ATTTTTCCAAAAACTAAAAACAAAAGTTTTTAG
32855579 TTGTTATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.35
Consensus pattern (33 bp):
ATTTTTCCAAAAACTAAAAACAAAAGTTTTTAG
Found at i:32864204 original size:148 final size:148
Alignment explanation
Indices: 32863928--32864398 Score: 615
Period size: 148 Copynumber: 3.2 Consensus size: 148
32863918 TTAGCTCTAA
* * *
32863928 GCCTTCTATAAAGCCGCCACCTTCACTCTCCA-TGTTTGCAGCAATTTTGAAATGTTCAACTTTC
1 GCCTTCTATAAAACCGCCACCTTCACTCT-CATTGTCTGCAGCAATTTCGAAATG-TCAACTTTC
* * * *
32863992 TGTTCTCACCCATAATTCTACTATCTATGTTCAAATAAGATTCTGCATTGCAACAGGCCCCTACG
64 TGTTCTCACCCATTATTCTGCTATCTAAGTTCAAATAAGATTCTGCATTGCAACAGGCCTCTACG
32864057 TGTTTCTCACCCATCTCCAT
129 TGTTTCTCACCCATCTCCAT
* * * *
32864077 GCCTTCTATAAAACTGCCACCTTCACTCTCATTGTCTGCACCAATTTCGAAATGTCAAGTTTCTA
1 GCCTTCTATAAAACCGCCACCTTCACTCTCATTGTCTGCAGCAATTTCGAAATGTCAACTTTCTG
* * * *
32864142 TTCTCAACCATTATTGTGCTATCTAAGTTCAAATAAGATTTTGCATTGCAACAGGTCTCTACGTG
66 TTCTCACCCATTATTCTGCTATCTAAGTTCAAATAAGATTCTGCATTGCAACAGGCCTCTACGTG
32864207 TTTCTCACCCATCTCCAT
131 TTTCTCACCCATCTCCAT
* * * * * * * *
32864225 GCATTCTATAAAACCGCCAACTTTACTCTCCTTGCCTGCAGCAATTTCAAAATGTCATCTTTTTG
1 GCCTTCTATAAAACCGCCACCTTCACTCTCATTGTCTGCAGCAATTTCGAAATGTCAACTTTCTG
* * * *
32864290 TTCTCACCCA-TAGTTCTGCTATCAAAGTTCATATCAGATTCTGCATTGCAACTGGCCTCTACGT
66 TTCTCACCCATTA-TTCTGCTATCTAAGTTCAAATAAGATTCTGCATTGCAACAGGCCTCTACGT
* *
32864354 GTTTCTCATCCATCTCCAA
130 GTTTCTCACCCATCTCCAT
* *
32864373 GCTTTCTATAAAACCGTC-CCTTCACT
1 GCCTTCTATAAAACCGCCACCTTCACT
32864399 TTCTCAGTTG
Statistics
Matches: 279, Mismatches: 41, Indels: 6
0.86 0.13 0.02
Matches are distributed among these distances:
147 8 0.03
148 225 0.81
149 46 0.16
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.35
Consensus pattern (148 bp):
GCCTTCTATAAAACCGCCACCTTCACTCTCATTGTCTGCAGCAATTTCGAAATGTCAACTTTCTG
TTCTCACCCATTATTCTGCTATCTAAGTTCAAATAAGATTCTGCATTGCAACAGGCCTCTACGTG
TTTCTCACCCATCTCCAT
Found at i:32877339 original size:113 final size:113
Alignment explanation
Indices: 32877197--32877523 Score: 564
Period size: 113 Copynumber: 2.9 Consensus size: 113
32877187 TCTTTTCTCA
32877197 ATTAAGGCTGAAAGAGATGAGGTATATTCCCCACCCACAACACTAAAAGCACTCCAGTGCTTGAC
1 ATTAAGGCTGAAAGAGATGAGGTATATTCCCCACCCACAACACTAAAAGCACTCCAGTGCTTGAC
32877262 TACTCTTTTCTCTTCATCTTTGTGCTTATCCTTTGATTGTTTATACAT
66 TACTCTTTTCTCTTCATCTTTGTGCTTATCCTTTGATTGTTTATACAT
* *
32877310 ATTAAGGCCGAAAGAGATGAGGTAGATTCCCCACCCACAACACTAAAAGCACTCCAGTGCTTGAC
1 ATTAAGGCTGAAAGAGATGAGGTATATTCCCCACCCACAACACTAAAAGCACTCCAGTGCTTGAC
* * * *
32877375 TACTCTTATCTCTGCATCTTTGTGCTTATCCTTTAATTGTTTATATAT
66 TACTCTTTTCTCTTCATCTTTGTGCTTATCCTTTGATTGTTTATACAT
* *
32877423 ATTAAGGCTGAAAGGGATGAGGTATTTTCCCCCACCCACAACACTAAAAGCACTCCAGTGCTTGA
1 ATTAAGGCTGAAAGAGATGAGGTATATT-CCCCACCCACAACACTAAAAGCACTCCAGTGCTTGA
*
32877488 CTACTCTTTTCTCTTCATCTTCGTGCTTATCCTTTG
65 CTACTCTTTTCTCTTCATCTTTGTGCTTATCCTTTG
32877524 TTGCTAACTC
Statistics
Matches: 199, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
113 131 0.66
114 68 0.34
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (113 bp):
ATTAAGGCTGAAAGAGATGAGGTATATTCCCCACCCACAACACTAAAAGCACTCCAGTGCTTGAC
TACTCTTTTCTCTTCATCTTTGTGCTTATCCTTTGATTGTTTATACAT
Found at i:32878765 original size:39 final size:39
Alignment explanation
Indices: 32878711--32878794 Score: 159
Period size: 39 Copynumber: 2.2 Consensus size: 39
32878701 GGATGACAAG
*
32878711 AATATTGCCCCTGATGAGAATGAAGGATCTATCATGCAA
1 AATATTGCCCCTGATGAGAATCAAGGATCTATCATGCAA
32878750 AATATTGCCCCTGATGAGAATCAAGGATCTATCATGCAA
1 AATATTGCCCCTGATGAGAATCAAGGATCTATCATGCAA
32878789 AATATT
1 AATATT
32878795 AACGGAAGTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (39 bp):
AATATTGCCCCTGATGAGAATCAAGGATCTATCATGCAA
Found at i:32886662 original size:13 final size:13
Alignment explanation
Indices: 32886644--32886668 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32886634 TTCACTGGAA
32886644 AAATAAAATAATT
1 AAATAAAATAATT
32886657 AAATAAAATAAT
1 AAATAAAATAAT
32886669 CATTTGGTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATAAAATAATT
Found at i:32891213 original size:119 final size:118
Alignment explanation
Indices: 32891014--32891246 Score: 346
Period size: 119 Copynumber: 2.0 Consensus size: 118
32891004 CTACGTTGTT
*
32891014 TTTTTACATTTGAAGGGTTTTTTTTCTTTCTTACTTTTATTTATTTTAATAAAAAAACTTAAAAA
1 TTTTTACATTTGAAGGG-TTTTTTTCTTTCTTACTTTTATTTATTTTAATAAAAAAACATAAAAA
* *
32891079 CAATAATTTCTAACTTTTAATGCTTATAAGATATATTCATTTAATATTTNCATTG
65 CAATAATTTCTAACTTTTAATGCTTAGAAGATAAATTCATTTAATATTT-CATTG
* *
32891134 TTTTTACCATTTGAAGGG-TTTTTT-TTT-TTACTTTTATTTATTTTAGTAAAAAAATACATGAA
1 TTTTTA-CATTTGAAGGGTTTTTTTCTTTCTTACTTTTATTTATTTTAAT-AAAAAA-ACATAAA
*
32891196 AACAATAATTTCTAACTTTTAATGCTTAGAGGATAAATTCATTTAATATTT
63 AACAATAATTTCTAACTTTTAATGCTTAGAAGATAAATTCATTTAATATTT
32891247 ATCATTGCAA
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
117 19 0.18
118 9 0.09
119 59 0.57
120 6 0.06
121 11 0.11
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (118 bp):
TTTTTACATTTGAAGGGTTTTTTTCTTTCTTACTTTTATTTATTTTAATAAAAAAACATAAAAAC
AATAATTTCTAACTTTTAATGCTTAGAAGATAAATTCATTTAATATTTCATTG
Found at i:32892630 original size:23 final size:23
Alignment explanation
Indices: 32892604--32892648 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
32892594 CCGATATTCT
*
32892604 TCAAACTGCATACTTACATTAGG
1 TCAAACTACATACTTACATTAGG
*
32892627 TCAAACTACATATTTACATTAG
1 TCAAACTACATACTTACATTAG
32892649 AACATCAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (23 bp):
TCAAACTACATACTTACATTAGG
Found at i:32909988 original size:31 final size:33
Alignment explanation
Indices: 32909924--32909997 Score: 107
Period size: 31 Copynumber: 2.3 Consensus size: 33
32909914 TAAGACAGAC
*
32909924 GGTGAGTTCATAAAAAAAAAAAAGAAGTCAGAT
1 GGTGAGTTCATAAAAAAAAAAAAGAAGTAAGAT
**
32909957 GGTGAGTTCAT-ATTAAAAAAAA-AAGTAAGAT
1 GGTGAGTTCATAAAAAAAAAAAAGAAGTAAGAT
32909988 GGTGAGTTCA
1 GGTGAGTTCA
32909998 ATTTGCAGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 18 0.47
32 9 0.24
33 11 0.29
ACGTcount: A:0.49, C:0.05, G:0.23, T:0.23
Consensus pattern (33 bp):
GGTGAGTTCATAAAAAAAAAAAAGAAGTAAGAT
Found at i:32921491 original size:76 final size:76
Alignment explanation
Indices: 32921398--32921622 Score: 297
Period size: 76 Copynumber: 2.9 Consensus size: 76
32921388 TTTAGTATGG
* *
32921398 GCAGCTACCTAATGCATTCTTGGCTTTGTTCCATATTTTCCCCTAATGCATTTGTTGTAATATAC
1 GCAGCTACCTAATGCATTCTTGGCTTTCTTCCATATTTTCCCCTAATGCATTCGTTGTAATATAC
*
32921463 TATATTTTATT
66 TATATTTTAGT
* * * * *
32921474 GCAGCTACCTAATGCATTCTTGGATTTCTTCCAAAATTTCCCCCAATGCATTCGTTGCAATATAC
1 GCAGCTACCTAATGCATTCTTGGCTTTCTTCCATATTTTCCCCTAATGCATTCGTTGTAATATAC
32921539 TATATTTTAGT
66 TATATTTTAGT
* * * * ** * *
32921550 GCAGCTACCTAACGCATTCTTGACTTTCTTGCATGTTTTTTTCCTAATACAGTCGTTGTAATATA
1 GCAGCTACCTAATGCATTCTTGGCTTTCTTCCAT-ATTTTCCCCTAATGCATTCGTTGTAATATA
32921615 CTATATTT
65 CTATATTT
32921623 GGTACTAGTT
Statistics
Matches: 127, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
76 97 0.76
77 30 0.24
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (76 bp):
GCAGCTACCTAATGCATTCTTGGCTTTCTTCCATATTTTCCCCTAATGCATTCGTTGTAATATAC
TATATTTTAGT
Found at i:32923510 original size:31 final size:31
Alignment explanation
Indices: 32923475--32923537 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
32923465 TGATAGAGAT
* *
32923475 TAAATTGAACAAAATACTATAGTATAAGGAC
1 TAAATTGAACAAAATACTACAATATAAGGAC
* *
32923506 TAAATTGAACAAATTTCTACAATATAAGGAC
1 TAAATTGAACAAAATACTACAATATAAGGAC
32923537 T
1 T
32923538 TTGTGGGTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (31 bp):
TAAATTGAACAAAATACTACAATATAAGGAC
Found at i:32924523 original size:108 final size:108
Alignment explanation
Indices: 32924404--32924613 Score: 341
Period size: 108 Copynumber: 1.9 Consensus size: 108
32924394 TATAAGAAAT
*
32924404 TTTGAGTAAATTTAAAT-AAAGGTTAAATTGGGTAAGAGTTAAATAATTTCAAAAGAATATGTAT
1 TTTGAGTAAATTTAAATAAAACG-TAAATTGGGTAAGAGTTAAATAATTTCAAAAGAATATGTAT
*
32924468 TTGTAAATTGTGAAAATTATGACTAAATCAACATATTTTGCTAA
65 TTGTAAATTGTGAAAATTATAACTAAATCAACATATTTTGCTAA
* * *
32924512 TTTGAGTAAATTTAAATAAAACGTAAATTGGGTAAGAGTTTAATAATTTCAAAATAATGTGTATT
1 TTTGAGTAAATTTAAATAAAACGTAAATTGGGTAAGAGTTAAATAATTTCAAAAGAATATGTATT
* *
32924577 TGTAAATTGTGAAAGTTGTAACTAAATCAACATATTT
66 TGTAAATTGTGAAAATTATAACTAAATCAACATATTT
32924614 AGTTATTTTA
Statistics
Matches: 94, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
108 90 0.96
109 4 0.04
ACGTcount: A:0.43, C:0.05, G:0.15, T:0.38
Consensus pattern (108 bp):
TTTGAGTAAATTTAAATAAAACGTAAATTGGGTAAGAGTTAAATAATTTCAAAAGAATATGTATT
TGTAAATTGTGAAAATTATAACTAAATCAACATATTTTGCTAA
Found at i:32925796 original size:75 final size:75
Alignment explanation
Indices: 32925711--32925863 Score: 225
Period size: 75 Copynumber: 2.0 Consensus size: 75
32925701 GCATTAATTA
* **
32925711 TTGGCTTTCTTCCATTTTTTCCCTAGTGTATTCGTTAAAATATACTATATCCTAGCGTAGCTACC
1 TTGGCTTTCTTCCATTTTTTCCCTAATAAATTCGTTAAAATATACTATATCCTAGCGTAGCTACC
32925776 TAATGCATTC
66 TAATGCATTC
* ** ** *
32925786 TTGGCTTTCTTCTATTTTTTCCCTAATAAATTCGTTGCAATATACTATATTTTAGTGTAGCTACC
1 TTGGCTTTCTTCCATTTTTTCCCTAATAAATTCGTTAAAATATACTATATCCTAGCGTAGCTACC
32925851 TAATGCATTC
66 TAATGCATTC
32925861 TTG
1 TTG
32925864 ACTATCTTAC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (75 bp):
TTGGCTTTCTTCCATTTTTTCCCTAATAAATTCGTTAAAATATACTATATCCTAGCGTAGCTACC
TAATGCATTC
Found at i:32945744 original size:78 final size:78
Alignment explanation
Indices: 32945619--32945899 Score: 314
Period size: 78 Copynumber: 3.6 Consensus size: 78
32945609 CATGGGCATG
* * * *
32945619 TGGCATTCCTATTATACATTAAGGTACAATGATGTCACTATATAAATACTATCAAAGTCCTTTTG
1 TGGCATTCCTATTATACATTAAGGTATAATGATGCCAATATATAAATACTATCAAAGTCCTTGTG
*
32945684 ATAAGTGGACATG
66 ATAAGTGGACATA
* * * * * *
32945697 TGACATTCCTATTATATATTAAGATATAATGATGCCAATATGTAAATACCATCAAAGTCATTGTG
1 TGGCATTCCTATTATACATTAAGGTATAATGATGCCAATATATAAATACTATCAAAGTCCTTGTG
* *
32945762 AAAAGTAGACATA
66 ATAAGTGGACATA
* * *
32945775 TGGCATTGCTATTATACATTAAGGTAAAATGATGCCAATATATAAATA-TCATC-AAGATCCATG
1 TGGCATTCCTATTATACATTAAGGTATAATGATGCCAATATATAAATACT-ATCAAAG-TCCTTG
* *
32945838 TGATAGGTGGGCATA
64 TGATAAGTGGACATA
* ** * * *
32945853 TGGCATTCTTATTATACACGAAGGTATAATGGTACCAATATGTAAAT
1 TGGCATTCCTATTATACATTAAGGTATAATGATGCCAATATATAAAT
32945900 TTAAGATCTT
Statistics
Matches: 167, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
77 3 0.02
78 164 0.98
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (78 bp):
TGGCATTCCTATTATACATTAAGGTATAATGATGCCAATATATAAATACTATCAAAGTCCTTGTG
ATAAGTGGACATA
Found at i:32954161 original size:38 final size:34
Alignment explanation
Indices: 32954099--32954179 Score: 117
Period size: 38 Copynumber: 2.3 Consensus size: 34
32954089 GGCAGGAATG
32954099 GAATAGAATTCTATCTGTGGATAGAATAAAGTGA
1 GAATAGAATTCTATCTGTGGATAGAATAAAGTGA
*
32954133 GAATAGAATTGCTATTCTGTGGGAATAGAATAAAGTGG
1 GAATAGAATT-CTA-TCTGT-GG-ATAGAATAAAGTGA
32954171 GAATAGAAT
1 GAATAGAAT
32954180 AGAATAGAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
34 10 0.24
35 3 0.07
36 5 0.12
37 2 0.05
38 22 0.52
ACGTcount: A:0.41, C:0.05, G:0.26, T:0.28
Consensus pattern (34 bp):
GAATAGAATTCTATCTGTGGATAGAATAAAGTGA
Found at i:32954601 original size:19 final size:19
Alignment explanation
Indices: 32954579--32954618 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
32954569 TATATNAAAT
32954579 AAAAAATCAT-ATTACTTTA
1 AAAAAAT-ATCATTACTTTA
*
32954598 AAAAAATATCATTTCTTTA
1 AAAAAATATCATTACTTTA
32954617 AA
1 AA
32954619 CCAAGCATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAAATATCATTACTTTA
Found at i:32959666 original size:35 final size:35
Alignment explanation
Indices: 32959627--32959873 Score: 362
Period size: 35 Copynumber: 7.2 Consensus size: 35
32959617 GGGGAAGACT
32959627 GGTGAGAGCGGCTGAGAGAGAGGGGCAGACCCACG
1 GGTGAGAGCGGCTGAGAGAGAGGGGCAGACCCACG
* *
32959662 GGTGAGAGCTGCTGAAAGAGAGGGGCAGACCCACG
1 GGTGAGAGCGGCTGAGAGAGAGGGGCAGACCCACG
32959697 GGTGAGAGCGGCTGAGAGAGAGGGGCAGACCCACG
1 GGTGAGAGCGGCTGAGAGAGAGGGGCAGACCCACG
* *
32959732 GGT--GAGCGGTTGAGAGAGAGGGGCAGACCCATG
1 GGTGAGAGCGGCTGAGAGAGAGGGGCAGACCCACG
* *
32959765 GGT--GAGCGGTTGAGAGAGAGGGGCAGACCCACC
1 GGTGAGAGCGGCTGAGAGAGAGGGGCAGACCCACG
* * *
32959798 GGTGAGAGTGGCTGAGAAAGAGGGGCAGACCTACG
1 GGTGAGAGCGGCTGAGAGAGAGGGGCAGACCCACG
32959833 GGT--GAGCGGCTGAGAGAGAGGGGCAGACCCACG
1 GGTGAGAGCGGCTGAGAGAGAGGGGCAGACCCACG
*
32959866 GCTGAGAG
1 GGTGAGAG
32959874 AGAGAGGCAA
Statistics
Matches: 191, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
33 91 0.48
35 100 0.52
ACGTcount: A:0.26, C:0.19, G:0.47, T:0.09
Consensus pattern (35 bp):
GGTGAGAGCGGCTGAGAGAGAGGGGCAGACCCACG
Found at i:32959739 original size:33 final size:33
Alignment explanation
Indices: 32959632--32959871 Score: 336
Period size: 33 Copynumber: 7.1 Consensus size: 33
32959622 AGACTGGTGA
32959632 GAGCGGCTGAGAGAGAGGGGCAGACCCACGGGT
1 GAGCGGCTGAGAGAGAGGGGCAGACCCACGGGT
* *
32959665 GAGAGCTGCTGAAAGAGAGGGGCAGACCCACGGGT
1 --GAGCGGCTGAGAGAGAGGGGCAGACCCACGGGT
32959700 GAGAGCGGCTGAGAGAGAGGGGCAGACCCACGGGT
1 --GAGCGGCTGAGAGAGAGGGGCAGACCCACGGGT
* *
32959735 GAGCGGTTGAGAGAGAGGGGCAGACCCATGGGT
1 GAGCGGCTGAGAGAGAGGGGCAGACCCACGGGT
* *
32959768 GAGCGGTTGAGAGAGAGGGGCAGACCCACCGGTGA
1 GAGCGGCTGAGAGAGAGGGGCAGACCCA-CGG-GT
* * *
32959803 GAGTGGCTGAGAAAGAGGGGCAGACCTACGGGT
1 GAGCGGCTGAGAGAGAGGGGCAGACCCACGGGT
*
32959836 GAGCGGCTGAGAGAGAGGGGCAGACCCACGGCT
1 GAGCGGCTGAGAGAGAGGGGCAGACCCACGGGT
32959869 GAG
1 GAG
32959872 AGAGAGAGGC
Statistics
Matches: 186, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
33 92 0.49
34 5 0.03
35 89 0.48
ACGTcount: A:0.26, C:0.19, G:0.47, T:0.08
Consensus pattern (33 bp):
GAGCGGCTGAGAGAGAGGGGCAGACCCACGGGT
Found at i:32959761 original size:68 final size:65
Alignment explanation
Indices: 32959627--32959960 Score: 336
Period size: 68 Copynumber: 5.2 Consensus size: 65
32959617 GGGGAAGACT
*
32959627 GGTGAGAGCGGCTGAGAGAGAGGGGCAGACCCACGGGTGAGAGCTGCTGAAAGAGAGGGGCAGAC
1 GGTGAGAGCGGCTGAGAGAGAGGGGCAGACCCAC-GG-G-GAGC-G-TGAGAGAGAGGGGCAGAC
32959692 CCACG
61 CCACG
32959697 GGTGAGAGCGGCTGAGAGAGAGGGGCAGACCCACGGGTGAGCGGTTGAGAGAGAGGGGCAGACCC
1 GGTGAGAGCGGCTGAGAGAGAGGGGCAGACCCACGGG-GAGC-G-TGAGAGAGAGGGGCAGACCC
*
32959762 ATG
63 ACG
* * *
32959765 GGT--GAGCGGTTGAGAGAGAGGGGCAGACCCACCGGTGAGAGTGGCTGAGAAAGAGGGGCAGAC
1 GGTGAGAGCGGCTGAGAGAGAGGGGCAGACCCA-CGG-G-GAG-CG-TGAGAGAGAGGGGCAGAC
*
32959828 CTACG
61 CCACG
* *
32959833 GGT--GAGCGGCTGAGAGAGAGGGGCAGACCCAC---G-GC-TGAGAGAGAGAGGCAAACCCACG
1 GGTGAGAGCGGCTGAGAGAGAGGGGCAGACCCACGGGGAGCGTGAGAGAGAGGGGCAGACCCACG
* * * *
32959891 GCTGAGAGCGGTTGAGAGCGAGGGGAAGACCCAC----AGC-TGAGAGAGAGGGGCAGACCCACG
1 GGTGAGAGCGGCTGAGAGAGAGGGGCAGACCCACGGGGAGCGTGAGAGAGAGGGGCAGACCCACG
*
32959951 TGTGAGAGCG
1 GGTGAGAGCG
32959961 AGGGGAAGAC
Statistics
Matches: 232, Mismatches: 26, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
58 21 0.09
60 57 0.25
61 1 0.00
62 1 0.00
66 27 0.12
67 4 0.02
68 85 0.37
69 2 0.01
70 34 0.15
ACGTcount: A:0.27, C:0.19, G:0.46, T:0.08
Consensus pattern (65 bp):
GGTGAGAGCGGCTGAGAGAGAGGGGCAGACCCACGGGGAGCGTGAGAGAGAGGGGCAGACCCACG
Found at i:32959873 original size:25 final size:25
Alignment explanation
Indices: 32959839--32959898 Score: 102
Period size: 25 Copynumber: 2.4 Consensus size: 25
32959829 TACGGGTGAG
* *
32959839 CGGCTGAGAGAGAGGGGCAGACCCA
1 CGGCTGAGAGAGAGAGGCAAACCCA
32959864 CGGCTGAGAGAGAGAGGCAAACCCA
1 CGGCTGAGAGAGAGAGGCAAACCCA
32959889 CGGCTGAGAG
1 CGGCTGAGAG
32959899 CGGTTGAGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.30, C:0.23, G:0.42, T:0.05
Consensus pattern (25 bp):
CGGCTGAGAGAGAGAGGCAAACCCA
Found at i:32959901 original size:60 final size:60
Alignment explanation
Indices: 32959836--32959960 Score: 180
Period size: 60 Copynumber: 2.1 Consensus size: 60
32959826 ACCTACGGGT
* *
32959836 GAGCGGCTGAGAGAGAGGGGCAGACCCACGGCTGAGAGAGAGAGGCAAACCCACG-GCTGA
1 GAGCGGCTGAGAGAGAGGGGAAGACCCACAGCTGAGAGAGAGAGGCAAACCCACGTG-TGA
* * * *
32959896 GAGCGGTTGAGAGCGAGGGGAAGACCCACAGCTGAGAGAGAGGGGCAGACCCACGTGTGA
1 GAGCGGCTGAGAGAGAGGGGAAGACCCACAGCTGAGAGAGAGAGGCAAACCCACGTGTGA
32959956 GAGCG
1 GAGCG
32959961 AGGGGAAGAC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
60 57 0.98
61 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.43, T:0.06
Consensus pattern (60 bp):
GAGCGGCTGAGAGAGAGGGGAAGACCCACAGCTGAGAGAGAGAGGCAAACCCACGTGTGA
Found at i:32959938 original size:25 final size:24
Alignment explanation
Indices: 32959903--32959988 Score: 100
Period size: 25 Copynumber: 3.5 Consensus size: 24
32959893 TGAGAGCGGT
*
32959903 TGAGAGCGAGGGGAAGACCCACAGC
1 TGAGAGAGAGGGGAAGACCCAC-GC
* *
32959928 TGAGAGAGAGGGGCAGACCCACGTG
1 TGAGAGAGAGGGGAAGACCCACG-C
*
32959953 TGAGAGCGAGGGGAAGACCCACGGC
1 TGAGAGAGAGGGGAAGACCCAC-GC
*
32959978 TAAGAGAGAGG
1 TGAGAGAGAGG
32959989 AAGATGACCA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
24 1 0.02
25 49 0.96
26 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.43, T:0.06
Consensus pattern (24 bp):
TGAGAGAGAGGGGAAGACCCACGC
Found at i:32967097 original size:29 final size:29
Alignment explanation
Indices: 32967063--32967132 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
32967053 GTGTAACAAA
*
32967063 ATTTTTTGAACACGGCATATAACAATAAT
1 ATTTTTTGAACACGGCATATAACAAAAAT
* * * *
32967092 ATTTTTTGAACATGGTATGTAATAAAAAT
1 ATTTTTTGAACACGGCATATAACAAAAAT
*
32967121 ATTTTTTTAACA
1 ATTTTTTGAACA
32967133 TAGCGTGTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (29 bp):
ATTTTTTGAACACGGCATATAACAAAAAT
Found at i:32967231 original size:81 final size:80
Alignment explanation
Indices: 32967123--32967390 Score: 292
Period size: 79 Copynumber: 3.3 Consensus size: 80
32967113 ATAAAAATAT
*
32967123 TTTTTTAA-CAT-AGCGTGTAACATGTTTTTGTACATGACATGTAACAATAATTTTTTTTTTCAA
1 TTTTTTAACCATGA-CGTGTAACATGTTTTTGTATATGACATGTAACAATAATTTTTTTTTT-AA
*
32967186 CATGACATGTAACAATC
64 CATGACGTGTAACAATC
* * *
32967203 TTTTTTAACCATGACGTGTAACATGTTTTTGTATATAACGTGAAACAATAA--TTTTTTTTAACA
1 TTTTTTAACCATGACGTGTAACATGTTTTTGTATATGACATGTAACAATAATTTTTTTTTTAACA
**
32967266 TGGTGTGTAACAATC
66 TGACGTGTAACAATC
* * * * * * * *
32967281 TTTTTTTAACTATAACGTTTAATATATTTTTATATATGACATGTGAGAATAATATTTTTTTTTAA
1 -TTTTTTAACCATGACGTGTAACATGTTTTTGTATATGACATGTAACAATAAT-TTTTTTTTTAA
* *
32967346 TATGACGTGTAACAAATT
64 CATGACGTGTAAC-AATC
* *
32967364 TTTTTTAACCATGATGTGTAATATGTT
1 TTTTTTAACCATGACGTGTAACATGTT
32967391 CACTACAAAA
Statistics
Matches: 154, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
78 16 0.10
79 48 0.31
80 8 0.05
81 36 0.23
82 43 0.28
83 3 0.02
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (80 bp):
TTTTTTAACCATGACGTGTAACATGTTTTTGTATATGACATGTAACAATAATTTTTTTTTTAACA
TGACGTGTAACAATC
Found at i:32967342 original size:160 final size:163
Alignment explanation
Indices: 32967083--32967390 Score: 399
Period size: 160 Copynumber: 1.9 Consensus size: 163
32967073 CACGGCATAT
* *
32967083 AACAATAATATTTTTTGAACATGGTATGTAATAAAAATATTTTTTTAACATAGCGTGTAACATGT
1 AACAATAATATTTTTTGAACATGG-ATGTAATAAAAATATTTTTTTAACATAACGTGTAACATAT
* *
32967148 TTTTGTACATGACATGTAACAATAATTTTTTTTTTCAACATGACATGTAAC-AATCTTTTTTAAC
65 TTTTATACATGACATGTAACAATAATATTTTTTTTCAACATGACATGTAACAAATCTTTTTTAAC
32967212 CATGACGTGTAACATGTTTTTGTATATAACGTGA
130 CATGACGTGTAACATGTTTTTGTATATAACGTGA
* * * * * *
32967246 AACAATAAT-TTTTTTTAACATGG-TGT-GTAACAATCTTTTTTTAACTATAACGTTTAATATAT
1 AACAATAATATTTTTTGAACATGGATGTAATAAAAATATTTTTTTAAC-ATAACGTGTAACATAT
* * * * * * *
32967308 TTTTATATATGACATGTGAGAATAATATTTTTTTTTAATATGACGTGTAACAAATTTTTTTTAAC
65 TTTTATACATGACATGTAACAATAATATTTTTTTTCAACATGACATGTAACAAATCTTTTTTAAC
* *
32967373 CATGATGTGTAATATGTT
130 CATGACGTGTAACATGTT
32967391 CACTACAAAA
Statistics
Matches: 124, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
159 16 0.13
160 58 0.47
161 28 0.23
162 13 0.10
163 9 0.07
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.44
Consensus pattern (163 bp):
AACAATAATATTTTTTGAACATGGATGTAATAAAAATATTTTTTTAACATAACGTGTAACATATT
TTTATACATGACATGTAACAATAATATTTTTTTTCAACATGACATGTAACAAATCTTTTTTAACC
ATGACGTGTAACATGTTTTTGTATATAACGTGA
Found at i:32967367 original size:26 final size:26
Alignment explanation
Indices: 32967175--32967371 Score: 84
Period size: 26 Copynumber: 7.4 Consensus size: 26
32967165 AACAATAATT
* *
32967175 TTTTTTTTCAACATGACATGTAAC-AA
1 TTTTTTTT-AATATGACGTGTAACAAA
* *
32967201 TCTTTTTTAACCATGACGTGTAAC--A
1 TTTTTTTTAA-TATGACGTGTAACAAA
* * *
32967226 TGTTTTTGT-ATATAACGTGAAACAATAA
1 T-TTTTTTTAATATGACGTGTAAC-A-AA
* **
32967254 TTTTTTTTAACATGGTGTGTAAC-AA
1 TTTTTTTTAATATGACGTGTAACAAA
* * * *
32967279 TCTTTTTTTAACTATAACGTTTAATATA
1 T-TTTTTTTAA-TATGACGTGTAACAAA
* * *
32967307 -TTTTTAT-ATATGACATGTGAGAATAATA
1 TTTTTTTTAATATGAC--GTG-TAACAA-A
32967335 TTTTTTTTTAATATGACGTGTAACAAA
1 -TTTTTTTTAATATGACGTGTAACAAA
32967362 TTTTTTTTAA
1 TTTTTTTTAA
32967372 CCATGATGTG
Statistics
Matches: 126, Mismatches: 28, Indels: 34
0.67 0.15 0.18
Matches are distributed among these distances:
24 15 0.12
25 9 0.07
26 51 0.40
27 18 0.14
28 17 0.13
29 3 0.02
30 6 0.05
31 7 0.06
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.47
Consensus pattern (26 bp):
TTTTTTTTAATATGACGTGTAACAAA
Found at i:32967555 original size:14 final size:13
Alignment explanation
Indices: 32967529--32967553 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32967519 TCGTTGGAAA
32967529 TCCGTTGAAAAAT
1 TCCGTTGAAAAAT
32967542 TCCGTTGAAAAA
1 TCCGTTGAAAAA
32967554 ATGTGATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
TCCGTTGAAAAAT
Found at i:32967731 original size:18 final size:17
Alignment explanation
Indices: 32967692--32967729 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
32967682 TCAAACGAAA
32967692 TTTTCCGTTAGAATAGT
1 TTTTCCGTTAGAATAGT
*
32967709 TTTTCCGTTAGAATTGT
1 TTTTCCGTTAGAATAGT
32967726 TTTT
1 TTTT
32967730 TCGACAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.11, G:0.16, T:0.55
Consensus pattern (17 bp):
TTTTCCGTTAGAATAGT
Found at i:32968771 original size:162 final size:162
Alignment explanation
Indices: 32968504--32968823 Score: 586
Period size: 162 Copynumber: 2.0 Consensus size: 162
32968494 CTCAAATCAA
* *
32968504 TCTTGAAATCTTGAGTGATTTCTCTCACCAGCCTCTAGAAAGGAAGCTTCCTGATCAAGAGTTGG
1 TCTTGAAATCTTGAGGGATTTCTCTCACCAGCCTCTAGAAAGGAAGCTTCCTGATCAAAAGTTGG
* *
32968569 GTACTCTTCTGGTACTTTCTGATTTCTCTCAGAGCCACAGTTCCTGGCCTGAAACAGTGACGTTT
66 GTACTCTTCTGGTACTTTCTGATTTCTCTCAGAGCCACAGTTCCTGGCCTGAAACAATGACGCTT
*
32968634 CTTCACTCCTCCGGTTGCCGGAGTCGATACAG
131 CTTCACTCCTCCGGTTACCGGAGTCGATACAG
32968666 TCTTGAAATCTTGAGGGATTTCTCTCACCAGCCTCTAGAAAGGAAGCTTCCTGATCAAAAGTTGG
1 TCTTGAAATCTTGAGGGATTTCTCTCACCAGCCTCTAGAAAGGAAGCTTCCTGATCAAAAGTTGG
*
32968731 GTACTCTTCTGGTACTTTCTGATTTCTCTCAGAGCCACAGTTCCTGGCCTGAAACAATGAGGCTT
66 GTACTCTTCTGGTACTTTCTGATTTCTCTCAGAGCCACAGTTCCTGGCCTGAAACAATGACGCTT
32968796 CTTCACTCCTCCGGTTACCGGAGTCGAT
131 CTTCACTCCTCCGGTTACCGGAGTCGAT
32968824 TTGTGAGAGG
Statistics
Matches: 152, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 152 1.00
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (162 bp):
TCTTGAAATCTTGAGGGATTTCTCTCACCAGCCTCTAGAAAGGAAGCTTCCTGATCAAAAGTTGG
GTACTCTTCTGGTACTTTCTGATTTCTCTCAGAGCCACAGTTCCTGGCCTGAAACAATGACGCTT
CTTCACTCCTCCGGTTACCGGAGTCGATACAG
Found at i:32971029 original size:15 final size:15
Alignment explanation
Indices: 32971006--32971037 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
32970996 TTTTTTCAAT
32971006 ATGGCGTGTAACATC
1 ATGGCGTGTAACATC
*
32971021 ATGGTGTGTAACATC
1 ATGGCGTGTAACATC
32971036 AT
1 AT
32971038 TAAAGATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (15 bp):
ATGGCGTGTAACATC
Found at i:32988814 original size:55 final size:54
Alignment explanation
Indices: 32988723--32988908 Score: 246
Period size: 55 Copynumber: 3.4 Consensus size: 54
32988713 GTTAGAGTTA
* *
32988723 TTTTAGCGTGTCACGGCTGTTCCTAGCGTGTTGTGGGTTAACTAGTTTTTTGAGT
1 TTTTAGCGTGTCACGGCTGTTCCTGGCGTGTCGTGGGTTAACT-GTTTTTTGAGT
* * * * * *
32988778 TGTTAGCGTGTCACGGCTGTTCCTGGTGTGTCGTGGGATAACTGAATTTATGGGT
1 TTTTAGCGTGTCACGGCTGTTCCTGGCGTGTCGTGGGTTAACTG-TTTTTTGAGT
* * *
32988833 TTTTGGCGTGTCAAGGTTGTTCCTGGCGTGTCGTGGGTTAACTGGTTTTTTGAGT
1 TTTTAGCGTGTCACGGCTGTTCCTGGCGTGTCGTGGGTTAACT-GTTTTTTGAGT
32988888 TTTTAGCGTGTCACGGCTGTT
1 TTTTAGCGTGTCACGGCTGTT
32988909 GGTGTAACGA
Statistics
Matches: 109, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
54 1 0.01
55 107 0.98
56 1 0.01
ACGTcount: A:0.12, C:0.15, G:0.32, T:0.41
Consensus pattern (54 bp):
TTTTAGCGTGTCACGGCTGTTCCTGGCGTGTCGTGGGTTAACTGTTTTTTGAGT
Found at i:32988990 original size:31 final size:31
Alignment explanation
Indices: 32988955--32989054 Score: 103
Period size: 31 Copynumber: 3.2 Consensus size: 31
32988945 CACGACAGTG
*
32988955 ATGCATGACGTCTCACGACTTTTGACTTGAT
1 ATGCATGACGTCTCACGACATTTGACTTGAT
** *
32988986 ATGCATGGTGTGTCACGACATTTGACTTGAT
1 ATGCATGACGTCTCACGACATTTGACTTGAT
* * * * *
32989017 ATGCATGGCGTGTTACAACATTTTACGTT-AT
1 ATGCATGACGTCTCACGACATTTGAC-TTGAT
32989048 ATGCATG
1 ATGCATG
32989055 GCGTGTAACA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
31 58 0.97
32 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (31 bp):
ATGCATGACGTCTCACGACATTTGACTTGAT
Found at i:32989055 original size:31 final size:31
Alignment explanation
Indices: 32988975--32989067 Score: 125
Period size: 31 Copynumber: 3.0 Consensus size: 31
32988965 TCTCACGACT
* * *
32988975 TTTGACTTGATATGCATGGTGTGTCACGACA
1 TTTGACTTGATATGCATGGCGTGTAACAACA
*
32989006 TTTGACTTGATATGCATGGCGTGTTACAACA
1 TTTGACTTGATATGCATGGCGTGTAACAACA
*
32989037 TTTTACGTT-ATATGCATGGCGTGTAACAACA
1 TTTGAC-TTGATATGCATGGCGTGTAACAACA
32989068 CGACTGACAA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 54 0.96
32 2 0.04
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (31 bp):
TTTGACTTGATATGCATGGCGTGTAACAACA
Found at i:32992824 original size:31 final size:31
Alignment explanation
Indices: 32992732--32993114 Score: 186
Period size: 31 Copynumber: 12.4 Consensus size: 31
32992722 CTAACTTCTT
* * *
32992732 GCAGATTTATGGGGTGACACACTGAGTGCAA
1 GCAGATTTATGGGCTGACACGCTGAGTGGAA
* * * * * *
32992763 GCATATGTAT-GTCGAGACACGTTGAATGGAA
1 GCAGATTTATGGGC-TGACACGCTGAGTGGAA
*
32992794 GCAGATTTATGGGCTGACATGCTGAGTGGAA
1 GCAGATTTATGGGCTGACACGCTGAGTGGAA
* * * **
32992825 GCAGATTTATCGACTGACACGTTGAGTGTTA
1 GCAGATTTATGGGCTGACACGCTGAGTGGAA
** * * * * ***
32992856 GTGGATTTA-CGACGTCACACGCTGACTTTTTA
1 GCAGATTTATGGGC-TGACACGCTGA-GTGGAA
* * *
32992888 -CAGATTTATCGAG-TGACACACTGAGTGCAA
1 GCAGATTTAT-GGGCTGACACGCTGAGTGGAA
* *
32992918 GCAGATGTATGTGG-GGACACGCTGAGTGGAA
1 GCAGATTTATG-GGCTGACACGCTGAGTGGAA
*
32992949 GCAGATTTATGGGCTAACACGCTGAGTGGAA
1 GCAGATTTATGGGCTGACACGCTGAGTGGAA
* * **
32992980 GCAGATTTGTCGGCTGACACGCTGAGTGTTA
1 GCAGATTTATGGGCTGACACGCTGAGTGGAA
** * * * * * ****
32993011 GTGGATTTA-CGACGTCACACACTGACTTTTT
1 GCAGATTTATGGGC-TGACACGCTGAGTGGAA
* * *
32993042 GCAAATTTATGGGGTGACACGCTGAGTGCAA
1 GCAGATTTATGGGCTGACACGCTGAGTGGAA
* * *
32993073 GCAGATGTATGTGG-GGACACGCTGAGTGGTA
1 GCAGATTTATG-GGCTGACACGCTGAGTGGAA
*
32993104 GCATATTTATG
1 GCAGATTTATG
32993115 ATGTCACACG
Statistics
Matches: 259, Mismatches: 81, Indels: 24
0.71 0.22 0.07
Matches are distributed among these distances:
30 13 0.05
31 237 0.92
32 9 0.03
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.27
Consensus pattern (31 bp):
GCAGATTTATGGGCTGACACGCTGAGTGGAA
Found at i:32993112 original size:93 final size:93
Alignment explanation
Indices: 32992953--32993123 Score: 220
Period size: 93 Copynumber: 1.8 Consensus size: 93
32992943 GTGGAAGCAG
* * * **
32992953 ATTTATGGGCTAACACGCTGAGTGGAAGCAGATTTGTCGGCTGACACGCTGAGTGTTAGTGGATT
1 ATTTATGGGCTAACACGCTGAGTGCAAGCAGATTTGTCGGCGGACACGCTGAGTGGTAGCAGATT
32993018 TACGACGTCACACACTGACTTTTTGCAA
66 TACGACGTCACACACTGACTTTTTGCAA
* * *
32993046 ATTTATGGGGTGACACGCTGAGTGCAAGCAGATGTATGT-GG-GGACACGCTGAGTGGTAGCATA
1 ATTTATGGGCTAACACGCTGAGTGCAAGCAGAT-T-TGTCGGCGGACACGCTGAGTGGTAGCAGA
* *
32993109 TTTATGATGTCACAC
64 TTTACGACGTCACAC
32993124 GCTAACTACT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
93 60 0.91
94 3 0.05
95 3 0.05
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (93 bp):
ATTTATGGGCTAACACGCTGAGTGCAAGCAGATTTGTCGGCGGACACGCTGAGTGGTAGCAGATT
TACGACGTCACACACTGACTTTTTGCAA
Found at i:32993126 original size:155 final size:155
Alignment explanation
Indices: 32992684--32993114 Score: 657
Period size: 155 Copynumber: 2.8 Consensus size: 155
32992674 ATTTATGGCA
* * *
32992684 TGACACGCTGAGTGTTAGTGGATTTAC-AGCATCACACGCTAACTTCTTGCAGATTTATGGGGTG
1 TGACACGCTGAGTGTTAGTGGATTTACGA-CGTCACACGCTGACTTTTTGCAGATTTATGGGGTG
* * * * * *
32992748 ACACACTGAGTGCAAGCATATGTATGTCGAGACACGTTGAATGGAAGCAGATTTATGGGCTGACA
65 ACACACTGAGTGCAAGCAGATGTATGTGGGGACACGCTGAGTGGAAGCAGATTTATGGGCTAACA
*
32992813 TGCTGAGTGGAAGCAGATTTATCGAC
130 CGCTGAGTGGAAGCAGATTTATCGAC
* * * *
32992839 TGACACGTTGAGTGTTAGTGGATTTACGACGTCACACGCTGACTTTTTACAGATTTATCGAGTGA
1 TGACACGCTGAGTGTTAGTGGATTTACGACGTCACACGCTGACTTTTTGCAGATTTATGGGGTGA
32992904 CACACTGAGTGCAAGCAGATGTATGTGGGGACACGCTGAGTGGAAGCAGATTTATGGGCTAACAC
66 CACACTGAGTGCAAGCAGATGTATGTGGGGACACGCTGAGTGGAAGCAGATTTATGGGCTAACAC
* *
32992969 GCTGAGTGGAAGCAGATTTGTCGGC
131 GCTGAGTGGAAGCAGATTTATCGAC
* *
32992994 TGACACGCTGAGTGTTAGTGGATTTACGACGTCACACACTGACTTTTTGCAAATTTATGGGGTGA
1 TGACACGCTGAGTGTTAGTGGATTTACGACGTCACACGCTGACTTTTTGCAGATTTATGGGGTGA
* * *
32993059 CACGCTGAGTGCAAGCAGATGTATGTGGGGACACGCTGAGTGGTAGCATATTTATG
66 CACACTGAGTGCAAGCAGATGTATGTGGGGACACGCTGAGTGGAAGCAGATTTATG
32993115 ATGTCACACG
Statistics
Matches: 250, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
155 249 1.00
156 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.27
Consensus pattern (155 bp):
TGACACGCTGAGTGTTAGTGGATTTACGACGTCACACGCTGACTTTTTGCAGATTTATGGGGTGA
CACACTGAGTGCAAGCAGATGTATGTGGGGACACGCTGAGTGGAAGCAGATTTATGGGCTAACAC
GCTGAGTGGAAGCAGATTTATCGAC
Found at i:32993299 original size:14 final size:14
Alignment explanation
Indices: 32993280--32993337 Score: 62
Period size: 14 Copynumber: 4.0 Consensus size: 14
32993270 GAATTAATTC
* *
32993280 TGTATACAATGAAT
1 TGTATAAAATAAAT
32993294 TGTATAAAATAAATT
1 TGTATAAAATAAA-T
*
32993309 ATGTATAAAATTAAT
1 -TGTATAAAATAAAT
*
32993324 TGTATAAAAAAAAT
1 TGTATAAAATAAAT
32993338 CAATATACAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 23 0.62
15 2 0.05
16 12 0.32
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (14 bp):
TGTATAAAATAAAT
Found at i:32993314 original size:30 final size:30
Alignment explanation
Indices: 32993275--32993337 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
32993265 AGAAAGAATT
* * *
32993275 AATTCTGTATACAATGAATTGTATAAAATA
1 AATTATGTATAAAATGAATTGTATAAAAAA
*
32993305 AATTATGTATAAAATTAATTGTATAAAAAA
1 AATTATGTATAAAATGAATTGTATAAAAAA
32993335 AAT
1 AAT
32993338 CAATATACAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.37
Consensus pattern (30 bp):
AATTATGTATAAAATGAATTGTATAAAAAA
Found at i:32995788 original size:156 final size:156
Alignment explanation
Indices: 32995303--32995773 Score: 710
Period size: 156 Copynumber: 3.0 Consensus size: 156
32995293 AACTACAATA
*
32995303 ACATATATAACTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCGTTACAACTTT
1 ACATATATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCGTTACAACTTT
* * * * ** *
32995368 AATATCCTAACCGAT-GACTTGTTAGCAGTCCACGGTGGAGCTGGACCGATCTGTGCTTGAGGAC
66 AATATCCTTACCG-TCGGCTCGTTAGCTGTCTGCGGTGGAGCTGGACCGATCGGTGCTTGAGGAC
*
32995432 TTGTCGTCGCTTTCGTAAATTGTAATT
130 TTGTCGTCGCTTTCGTAAACTGTAATT
32995459 ACATATATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCGTTACAACTTT
1 ACATATATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCGTTACAACTTT
* * * * *
32995524 AATATCCTTACCGTCGGCTCGTTTGCTGTCTGTGGTGGAGCCGGACCGATCGGTGCTTGAAGACC
66 AATATCCTTACCGTCGGCTCGTTAGCTGTCTGCGGTGGAGCTGGACCGATCGGTGCTTGAGGACT
* * *
32995589 TGTCATCGCTTTCGCAAACTGCAATT
131 TGTCGTCGCTTTCGTAAACTGTAATT
*
32995615 ACATATATAACTGTGTTATTCAATAATCATGTATGGAATTATTGAACATTAACCGTTACAACTTT
1 ACATATATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCGTTACAACTTT
* ** * *
32995680 AATATCCTTACCGTCGGCTCATTAGCTGTCTGCGGTTAAGCTGAACCGATCGGTACTTGAGGACT
66 AATATCCTTACCGTCGGCTCGTTAGCTGTCTGCGGTGGAGCTGGACCGATCGGTGCTTGAGGACT
*
32995745 TGTCGTCGCTTTCGTAAGCTGTAATT
131 TGTCGTCGCTTTCGTAAACTGTAATT
32995771 ACA
1 ACA
32995774 AAAATTACTA
Statistics
Matches: 282, Mismatches: 32, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
155 1 0.00
156 281 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (156 bp):
ACATATATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCGTTACAACTTT
AATATCCTTACCGTCGGCTCGTTAGCTGTCTGCGGTGGAGCTGGACCGATCGGTGCTTGAGGACT
TGTCGTCGCTTTCGTAAACTGTAATT
Found at i:32997678 original size:31 final size:31
Alignment explanation
Indices: 32997434--32997674 Score: 311
Period size: 31 Copynumber: 7.8 Consensus size: 31
32997424 AATAAGGAAT
* *
32997434 AAATGTTGTGACATGCCATGCATAGCAAGCA
1 AAATGTTGTGACACGCCATGCATAGCAAGTA
*
32997465 AAATGTTGTGACACGCCATGCATAGCAAGCA
1 AAATGTTGTGACACGCCATGCATAGCAAGTA
*
32997496 AAATGTTGTGACACGCCATGCATAGCAAGCA
1 AAATGTTGTGACACGCCATGCATAGCAAGTA
* *
32997527 AAATGTTGTGACACGCCATGCATAACAAGTT
1 AAATGTTGTGACACGCCATGCATAGCAAGTA
* * * *
32997558 AAATATTGTGACATGCCATGCATAACAAGTT
1 AAATGTTGTGACACGCCATGCATAGCAAGTA
* * *
32997589 AAACGTTGTGACACACCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATAGCAAGTA
* * *
32997620 AAATGTTGTCACACGTCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATAGCAAGTA
* * *
32997651 AAATGTTCTCACATGCCATGCATA
1 AAATGTTGTGACACGCCATGCATA
32997675 TCAAATCATA
Statistics
Matches: 191, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 191 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAGCAAGTA
Found at i:32998347 original size:47 final size:47
Alignment explanation
Indices: 32998278--32998644 Score: 344
Period size: 47 Copynumber: 7.8 Consensus size: 47
32998268 TAAACCATGA
* * * * * *
32998278 CCATGGTGTGTCACTAACTCTGAACTCTAGTGTGTCACAGCTTCCCT
1 CCATGGCGTCTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
* * * * *
32998325 CCATGGTGTGTCACTAACTCTGAACTCTGACGTGTCATAGATTCCCT
1 CCATGGCGTCTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
* ** * ** * *
32998372 CCACGGCGTCTCATGAACTTTGAAAGCTGGCGTGTCATAAATTCCCT
1 CCATGGCGTCTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
* ** *
32998419 CCATGGAGTCTCATGAACTCTGAAGGT-TGGCGTGTCACAGATTCCCT
1 CCATGGCGTCTCACCAACTCTGAA-CTCTGGCGTGTCACAGATTCCCT
* * *
32998466 CCAT-GCGTGTCACCAACTCTTAACTCTGGCATGTCACAGATTCCCT
1 CCATGGCGTCTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
* * * *
32998512 CCATGACGTCTCACCAACTCT-AAATGCTGGCGTGTCACAGTTTCCCA
1 CCATGGCGTCTCACCAACTCTGAACT-CTGGCGTGTCACAGATTCCCT
* * * * *
32998559 CCATGGCGTGTTACCAACTCTTAACTCTAGCGTCTCACAGATTCCCT
1 CCATGGCGTCTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
* ** *
32998606 CCATGGTGTCTCACCAACTCTGAACGGTGTCGTGTCACA
1 CCATGGCGTCTCACCAACTCTGAACTCTGGCGTGTCACA
32998645 CATTACCAAC
Statistics
Matches: 263, Mismatches: 52, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
45 1 0.00
46 40 0.15
47 219 0.83
48 3 0.01
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.29
Consensus pattern (47 bp):
CCATGGCGTCTCACCAACTCTGAACTCTGGCGTGTCACAGATTCCCT
Found at i:33003107 original size:7 final size:7
Alignment explanation
Indices: 33003097--33003149 Score: 52
Period size: 8 Copynumber: 7.0 Consensus size: 7
33003087 TTTTTATCAT
33003097 TTTTTTA
1 TTTTTTA
*
33003104 TTTTATA
1 TTTTTTA
33003111 TTTTTTTA
1 -TTTTTTA
*
33003119 TTATTTA
1 TTTTTTA
33003126 TTATTTTA
1 TT-TTTTA
33003134 TTTTTATA
1 TTTTT-TA
33003142 TTTATTTA
1 TTT-TTTA
33003150 ATGTCATGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
7 17 0.45
8 19 0.50
9 2 0.05
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTTA
Found at i:33003107 original size:18 final size:17
Alignment explanation
Indices: 33003080--33003149 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 17
33003070 AAATTTTAAA
33003080 TTTTACTTTTTTATCATTT
1 TTTTA-TTTTTTAT-ATTT
33003099 TTTTA--TTTTATATTT
1 TTTTATTTTTTATATTT
* *
33003114 TTTTA-TTATT-TATTA
1 TTTTATTTTTTATATTT
33003129 TTTTA-TTTTTATATTT
1 TTTTATTTTTTATATTT
*
33003145 ATTTA
1 TTTTA
33003150 ATGTCATGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
15 22 0.50
16 17 0.39
19 5 0.11
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTTATATTT
Found at i:33003114 original size:25 final size:24
Alignment explanation
Indices: 33003086--33003138 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
33003076 TAAATTTTAC
* *
33003086 TTTTTTATCATTTTTTTATTTTATAT
1 TTTTTTATTA-TTTATTATTTTAT-T
33003112 TTTTTTATTATTTATTATTTTATT
1 TTTTTTATTATTTATTATTTTATT
33003136 TTT
1 TTT
33003139 ATATTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 4 0.16
25 12 0.48
26 9 0.36
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTTTATTATTTATTATTTTATT
Found at i:33003115 original size:15 final size:15
Alignment explanation
Indices: 33003088--33003149 Score: 72
Period size: 15 Copynumber: 4.0 Consensus size: 15
33003078 AATTTTACTT
33003088 TTTTATCATTTTTTTA
1 TTTTAT-ATTTTTTTA
33003104 TTTTATATTTTTTTA
1 TTTTATATTTTTTTA
*
33003119 TTATT-TATTATTTTA
1 TT-TTATATTTTTTTA
*
33003134 TTTTTATATTTATTTA
1 -TTTTATATTTTTTTA
33003150 ATGTCATGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
15 22 0.55
16 18 0.45
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTATATTTTTTTA
Found at i:33003580 original size:9 final size:9
Alignment explanation
Indices: 33003568--33003607 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
33003558 TTTATTACAC
33003568 TTATTATTT
1 TTATTATTT
33003577 TTATTATTT
1 TTATTATTT
*
33003586 TTATTTTATTA
1 TTA--TTATTT
33003597 TTATTATTT
1 TTATTATTT
33003606 TT
1 TT
33003608 TTACATCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 19 0.70
11 8 0.30
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTATTATTT
Found at i:33003594 original size:14 final size:14
Alignment explanation
Indices: 33003568--33003606 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
33003558 TTTATTACAC
33003568 TTATTATTTTTATTA
1 TTATTA-TTTTATTA
*
33003583 TTTTTATTTTATTA
1 TTATTATTTTATTA
33003597 TTATTATTTT
1 TTATTATTTT
33003607 TTTACATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTATTATTTTATTA
Found at i:33003599 original size:17 final size:17
Alignment explanation
Indices: 33003577--33003610 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
33003567 CTTATTATTT
33003577 TTATTATT-TTTATTTTA
1 TTATTATTATTT-TTTTA
33003594 TTATTATTATTTTTTTA
1 TTATTATTATTTTTTTA
33003611 CATCTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTATTATTTTTTTA
Found at i:33005058 original size:29 final size:29
Alignment explanation
Indices: 33005004--33005089 Score: 68
Period size: 29 Copynumber: 3.0 Consensus size: 29
33004994 TTTTATTTTA
* * *
33005004 ATTTTTAAATTTTTAATTCA-GTTTTTATC
1 ATTTTT-AATTTTTTATTTATGATTTTATC
* *
33005033 ATTTTTAATTTTTTATTTATGATTTTTTT
1 ATTTTTAATTTTTTATTTATGATTTTATC
* **
33005062 ATTTAATAAAATTTTA-TTATGATTTTAT
1 ATTT-TTAATTTTTTATTTATGATTTTAT
33005090 AGTGTCTACA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 11 0.24
29 27 0.59
30 8 0.17
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.65
Consensus pattern (29 bp):
ATTTTTAATTTTTTATTTATGATTTTATC
Found at i:33005216 original size:11 final size:10
Alignment explanation
Indices: 33005189--33005227 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
33005179 CTTACCAAGG
33005189 TTTTTTTGTT
1 TTTTTTTGTT
*
33005199 TTGTTTTGTT
1 TTTTTTTGTT
33005209 ATTTTTTTGTT
1 -TTTTTTTGTT
33005220 GTTTTTTT
1 -TTTTTTT
33005228 TTAATGAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.03, C:0.00, G:0.13, T:0.85
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:33005387 original size:38 final size:38
Alignment explanation
Indices: 33005259--33005717 Score: 633
Period size: 38 Copynumber: 12.2 Consensus size: 38
33005249 AGGTAATGAC
* **
33005259 ACTTTTAAAAATAAACTCCGT-AAAATTGAGGCAACGAA
1 ACTTTTAAAAATGAACTCC-TCAAAGCTGAGGCAACGAA
* *
33005297 AC-TTTAAAAATGAACTCTTCAAAGCTAAGGCAACGAA
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
* *
33005334 AC-TTTAAAAATGAACTCCTCAAAGTTAAGGCAACGAA
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
33005371 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
* *
33005409 ACTTTTAAAAATGAACTCTTCCAAGCTGAGGCAACGAA
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
* * * *
33005447 ACTTCTT-TAAACGAACTCTTCAAAGCTGAGGCAATGAA
1 ACTT-TTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
*
33005485 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAATGAA
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
** *
33005523 ACTTTTTTAAATGAACTCCTCAAAGTTGAGGCAAC-AA
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
*
33005560 GACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACAAA
1 -ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
* *
33005599 ACTTTT-AAAATGAACTCCTCAATGCTAAGGCAACGAA
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
* *
33005636 ACTTTTAAAAATGAACTCCTCAAGGCTGAGGCAACAAA
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
* *
33005674 ACTTTTAAAAATGAACTCCTCAAAACTGAGGTAACGAA
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
33005712 ACTTTT
1 ACTTTT
33005718 TTTCTTTTTT
Statistics
Matches: 379, Mismatches: 35, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
36 1 0.00
37 103 0.27
38 271 0.72
39 4 0.01
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (38 bp):
ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
Found at i:33005654 original size:113 final size:114
Alignment explanation
Indices: 33005259--33005717 Score: 633
Period size: 113 Copynumber: 4.1 Consensus size: 114
33005249 AGGTAATGAC
* ** *
33005259 ACTTTTAAAAATAAACTCCGT-AAAATTGAGGCAACGAAAC-TTTAAAAATGAACTCTTCAAAGC
1 ACTTTTAAAAATGAACTCC-TCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAGC
* * *
33005322 TAAGGCAACGAAAC-TTTAAAAATGAACTCCTCAAAGTTAAGGCAACGAA
65 TGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
* *
33005371 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCTTCCAAGCT
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAGCT
* * * *
33005436 GAGGCAACGAAACTTCTT-TAAACGAACTCTTCAAAGCTGAGGCAATGAA
66 GAGGCAACGAAACTT-TTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
* ** *
33005485 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAATGAAACTTTTTTAAATGAACTCCTCAAAGTT
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAGCT
*
33005550 GAGGCAAC-AAGACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACAAA
66 GAGGCAACGAA-ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
* * *
33005599 ACTTTT-AAAATGAACTCCTCAATGCTAAGGCAACGAAACTTTTAAAAATGAACTCCTCAAGGCT
1 ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAGCT
* * *
33005663 GAGGCAACAAAACTTTTAAAAATGAACTCCTCAAAACTGAGGTAACGAA
66 GAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
33005712 ACTTTT
1 ACTTTT
33005718 TTTCTTTTTT
Statistics
Matches: 308, Mismatches: 32, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
111 1 0.00
112 35 0.11
113 139 0.45
114 131 0.43
115 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (114 bp):
ACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAGCT
GAGGCAACGAAACTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAA
Found at i:33017744 original size:44 final size:41
Alignment explanation
Indices: 33017667--33017760 Score: 93
Period size: 43 Copynumber: 2.2 Consensus size: 41
33017657 TGCAATTGTC
* *
33017667 TATTTTTTTACTTATTGTCATTTATTATTATTTTACTTCAT-TT
1 TATTTTTTTA-TTATTATCATTTATTATTATTTT-CTT-ATCAT
*
33017710 TATTTTTTT-TTATTATCATATTTTCTATTCATTTTCTTATCAT
1 TATTTTTTTATTATTATCAT-TTAT-TATT-ATTTTCTTATCAT
33017753 TATTTTTT
1 TATTTTTT
33017761 CATACTTTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
41 9 0.20
42 5 0.11
43 25 0.57
44 5 0.11
ACGTcount: A:0.20, C:0.10, G:0.01, T:0.69
Consensus pattern (41 bp):
TATTTTTTTATTATTATCATTTATTATTATTTTCTTATCAT
Found at i:33017895 original size:16 final size:14
Alignment explanation
Indices: 33017869--33017935 Score: 66
Period size: 16 Copynumber: 4.6 Consensus size: 14
33017859 TAAATTTCAC
33017869 TTTTT-TTTTATCAT
1 TTTTTATTTTAT-AT
33017883 TTTTGTATTTTATAT
1 TTTT-TATTTTATAT
33017898 TTTTTATTATTATTAT
1 TTTTTATT-TTA-TAT
*
33017914 TTATTATTTTAT-T
1 TTTTTATTTTATAT
*
33017927 TTTATATTT
1 TTTTTATTT
33017936 ATTTAATGTC
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
13 8 0.17
14 9 0.20
15 13 0.28
16 16 0.35
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.76
Consensus pattern (14 bp):
TTTTTATTTTATAT
Found at i:33017916 original size:13 final size:13
Alignment explanation
Indices: 33017895--33017940 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
33017885 TTGTATTTTA
*
33017895 TATTTTTTATTAT
1 TATTATTTATTAT
33017908 TATTATTTATTAT
1 TATTATTTATTAT
33017921 T-TTATTT-TTA-
1 TATTATTTATTAT
33017931 TATTTATTTA
1 TA-TTATTTA
33017941 ATGTCATGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 1 0.03
11 3 0.10
12 12 0.41
13 13 0.45
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
TATTATTTATTAT
Found at i:33017940 original size:16 final size:15
Alignment explanation
Indices: 33017869--33017935 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 15
33017859 TAAATTTCAC
33017869 TTTT-TTTTTATCATT
1 TTTTATTTTTAT-ATT
33017884 TTTGTA-TTTTATATT
1 TTT-TATTTTTATATT
*
33017899 TTTTATTATTATTATT
1 TTTTATTTTTA-TATT
*
33017915 TATTA-TTTTAT-TT
1 TTTTATTTTTATATT
*
33017928 TTATATTT
1 TTTTATTT
33017936 ATTTAATGTC
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
13 5 0.12
14 5 0.12
15 17 0.40
16 15 0.36
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.76
Consensus pattern (15 bp):
TTTTATTTTTATATT
Found at i:33018014 original size:18 final size:17
Alignment explanation
Indices: 33017991--33018034 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
33017981 ATATATTTGA
33017991 ATTATTA-TTATTTTATCT
1 ATTATTATTTA-TTTAT-T
33018009 ATTATTATTTATTTATT
1 ATTATTATTTATTTATT
*
33018026 ATTTTTATT
1 ATTATTATT
33018035 GAGTAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 9 0.38
18 12 0.50
19 3 0.12
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTATTATTTATTTATT
Found at i:33018358 original size:8 final size:8
Alignment explanation
Indices: 33018347--33018385 Score: 51
Period size: 8 Copynumber: 4.5 Consensus size: 8
33018337 TTATAATTAC
33018347 TTTTATTT
1 TTTTATTT
33018355 TTTTATTAT
1 TTTTATT-T
33018364 TTTTATTATT
1 TTTTA-T-TT
33018374 TTTTATTT
1 TTTTATTT
33018382 TTTT
1 TTTT
33018386 TACATCTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 13 0.46
9 7 0.25
10 7 0.25
11 1 0.04
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTATTT
Found at i:33018364 original size:29 final size:27
Alignment explanation
Indices: 33018332--33018385 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 27
33018322 CATCTACATA
33018332 TATTTTTATAATTACTTTTATTTTTTTAT
1 TATTTTTATAATT--TTTTATTTTTTTAT
*
33018361 TATTTTTATTATTTTTTATTTTTTT
1 TATTTTTATAATTTTTTATTTTTTT
33018386 TACATCTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 12 0.50
29 12 0.50
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (27 bp):
TATTTTTATAATTTTTTATTTTTTTAT
Found at i:33018368 original size:9 final size:9
Alignment explanation
Indices: 33018342--33018387 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
33018332 TATTTTTATA
*
33018342 ATTACTTTT
1 ATTATTTTT
33018351 ATT-TTTTT
1 ATTATTTTT
33018359 ATTATTTTT
1 ATTATTTTT
33018368 ATTATTTTTT
1 ATTA-TTTTT
*
33018378 ATTTTTTTT
1 ATTATTTTT
33018387 A
1 A
33018388 CATCTTTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 7 0.21
9 18 0.55
10 8 0.24
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (9 bp):
ATTATTTTT
Found at i:33018384 original size:17 final size:17
Alignment explanation
Indices: 33018342--33018383 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
33018332 TATTTTTATA
* *
33018342 ATTACTTTTATTTTTTT
1 ATTATTTTTATTATTTT
33018359 ATTATTTTTATTATTTT
1 ATTATTTTTATTATTTT
33018376 -TTATTTTT
1 ATTATTTTT
33018384 TTTACATCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (17 bp):
ATTATTTTTATTATTTT
Found at i:33018395 original size:27 final size:26
Alignment explanation
Indices: 33018347--33018400 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
33018337 TTATAATTAC
* *
33018347 TTTTATTTTTTTATTATTTTTATTATT
1 TTTTATTTTTTTATCATCTTTA-TATT
33018374 TTTTATTTTTTT-TACATCTTTATATT
1 TTTTATTTTTTTAT-CATCTTTATATT
33018400 T
1 T
33018401 ATTTTTACCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.78
Consensus pattern (26 bp):
TTTTATTTTTTTATCATCTTTATATT
Found at i:33019743 original size:14 final size:14
Alignment explanation
Indices: 33019724--33019771 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
33019714 AGTCGTACCT
33019724 TTTTTTTTAATTTA
1 TTTTTTTTAATTTA
*
33019738 TTTTTTTT-ATTTT
1 TTTTTTTTAATTTA
*
33019751 TTTTCTTTTATTTTAA
1 TTTT-TTTTAATTT-A
33019767 TTTTT
1 TTTTT
33019772 AAATTTTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 8 0.29
14 12 0.43
15 4 0.14
16 4 0.14
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTTTAATTTA
Found at i:33019752 original size:8 final size:9
Alignment explanation
Indices: 33019734--33019808 Score: 51
Period size: 9 Copynumber: 7.8 Consensus size: 9
33019724 TTTTTTTTAA
33019734 TTTATTTTT
1 TTTATTTTT
33019743 TTTATTTTT
1 TTTATTTTT
*
33019752 TTTCTTTTAT
1 TTTATTTT-T
*
33019762 TTTAATTTT
1 TTTATTTTT
**
33019771 TAAATTTTT
1 TTTATTTTT
33019780 AATTTAGTTTTT
1 --TTTA-TTTTT
* *
33019792 ATCATTTTTT
1 TTTA-TTTTT
33019802 TTTATTT
1 TTTATTT
33019809 ATGATTTTTT
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
9 26 0.53
10 16 0.33
11 2 0.04
12 5 0.10
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (9 bp):
TTTATTTTT
Found at i:33019779 original size:20 final size:21
Alignment explanation
Indices: 33019756--33019805 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
33019746 ATTTTTTTTC
33019756 TTTTATTTTAATTTTTA-AAT
1 TTTTATTTTAATTTTTATAAT
* * *
33019776 TTTTAATTTAGTTTTTATCAT
1 TTTTATTTTAATTTTTATAAT
33019797 TTTT-TTTTA
1 TTTTATTTTA
33019806 TTTATGATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTATTTTAATTTTTATAAT
Found at i:33019819 original size:48 final size:47
Alignment explanation
Indices: 33019727--33019820 Score: 111
Period size: 49 Copynumber: 2.0 Consensus size: 47
33019717 CGTACCTTTT
* * *
33019727 TTTTTAATTTATTTTTTTTATTTTTTTTCTTTTATTTTAATTTTTAAA
1 TTTTTAATTTATTTTTATCATTTTTTTTCTTTTATATT-ATTTTTAAA
33019775 TTTTTAATTTAGTTTTTATCATTTTTTTT-TATTTATGATT-TTTTTA
1 TTTTTAATTTA-TTTTTATCATTTTTTTTCT-TTTAT-ATTATTTTTA
33019821 TTTAATAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
48 18 0.45
49 20 0.50
50 2 0.05
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (47 bp):
TTTTTAATTTATTTTTATCATTTTTTTTCTTTTATATTATTTTTAAA
Found at i:33022089 original size:27 final size:25
Alignment explanation
Indices: 33022057--33022134 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 25
33022047 GAAAAGAAAA
33022057 TAACAAGAAAGGAAAATGGGCATGG
1 TAACAAGAAAGGAAAATGGGCATGG
* * *
33022082 CCTAACAAGCAAGAAAAATGGACATGG
1 --TAACAAGAAAGGAAAATGGGCATGG
* *
33022109 T-CCAATAAAGGAAGAATGGGCATGG
1 TAACAAGAAAGGAA-AATGGGCATGG
33022134 T
1 T
33022135 CCAATTAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
24 8 0.19
25 12 0.29
27 22 0.52
ACGTcount: A:0.45, C:0.13, G:0.28, T:0.14
Consensus pattern (25 bp):
TAACAAGAAAGGAAAATGGGCATGG
Found at i:33022132 original size:25 final size:24
Alignment explanation
Indices: 33022064--33022139 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 24
33022054 AAATAACAAG
*
33022064 AAAGGAAAATGGGCATGG-CCTAACA
1 AAAGGAAAATGGGCATGGTCC-AA-T
* *
33022089 AGCAAGAAAAATGGACATGGTCCAAT
1 A--AAGGAAAATGGGCATGGTCCAAT
33022115 AAAGGAAGAATGGGCATGGTCCAAT
1 AAAGGAA-AATGGGCATGGTCCAAT
33022140 TAAAAAGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
24 5 0.12
25 17 0.40
26 1 0.02
27 17 0.40
28 2 0.05
ACGTcount: A:0.43, C:0.14, G:0.28, T:0.14
Consensus pattern (24 bp):
AAAGGAAAATGGGCATGGTCCAAT
Found at i:33022151 original size:25 final size:25
Alignment explanation
Indices: 33022092--33022151 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
33022082 CCTAACAAGC
33022092 AAGAA-AAATGGACATGGTCCAATA
1 AAGAAGAAATGGACATGGTCCAATA
*
33022116 AAGGAAG-AATGGGCATGGTCCAATTA
1 AA-GAAGAAATGGACATGGTCCAA-TA
33022142 AA-AAGAAATG
1 AAGAAGAAATG
33022152 AGAGAAGTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 5 0.16
25 22 0.71
26 4 0.13
ACGTcount: A:0.48, C:0.10, G:0.25, T:0.17
Consensus pattern (25 bp):
AAGAAGAAATGGACATGGTCCAATA
Found at i:33025759 original size:29 final size:29
Alignment explanation
Indices: 33025718--33025778 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
33025708 AAAGAACCAT
33025718 ACAACACCACCAATAGACTACTGTCTAAA
1 ACAACACCACCAATAGACTACTGTCTAAA
33025747 ACAACACCACCAATAGACTACTGTCTAAA
1 ACAACACCACCAATAGACTACTGTCTAAA
33025776 ACA
1 ACA
33025779 GGACTCTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.46, C:0.31, G:0.07, T:0.16
Consensus pattern (29 bp):
ACAACACCACCAATAGACTACTGTCTAAA
Found at i:33033148 original size:20 final size:20
Alignment explanation
Indices: 33033123--33033162 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
33033113 GTCTACCACA
*
33033123 GGGATAGGATCACCGGTATT
1 GGGATAGAATCACCGGTATT
*
33033143 GGGATAGAATCATCGGTATT
1 GGGATAGAATCACCGGTATT
33033163 CCGTGACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.33, T:0.28
Consensus pattern (20 bp):
GGGATAGAATCACCGGTATT
Found at i:33034524 original size:23 final size:24
Alignment explanation
Indices: 33034498--33034543 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
33034488 AATTTATGAG
33034498 AATTCATT-TTTAATTAT-TTCAAA
1 AATT-ATTCTTTAATTATATTCAAA
*
33034521 AATTATTCTTTACTTATATTCAA
1 AATTATTCTTTAATTATATTCAA
33034544 CCTATTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 12 0.60
24 5 0.25
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (24 bp):
AATTATTCTTTAATTATATTCAAA
Found at i:33034637 original size:30 final size:28
Alignment explanation
Indices: 33034592--33034658 Score: 73
Period size: 27 Copynumber: 2.3 Consensus size: 28
33034582 AATTTTAGTG
*
33034592 AAATTGTTTTATGAATAAATATTTATTTGA
1 AAATTATTTTATGAATAAATA--TATTTGA
* *
33034622 TAAATTATTTT-TGAATTAATATATTTTA
1 -AAATTATTTTATGAATAAATATATTTGA
33034650 AAATTATTT
1 AAATTATTT
33034659 ATTAGAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 9 0.27
28 6 0.18
30 9 0.27
31 9 0.27
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (28 bp):
AAATTATTTTATGAATAAATATATTTGA
Found at i:33034646 original size:16 final size:16
Alignment explanation
Indices: 33034598--33034648 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
33034588 AGTGAAATTG
33034598 TTTTATGAATAAATAT-
1 TTTT-TGAATAAATATA
33034614 TTATTTG-ATAAAT-TA
1 TT-TTTGAATAAATATA
*
33034629 TTTTTGAATTAATATA
1 TTTTTGAATAAATATA
33034645 TTTT
1 TTTT
33034649 AAAATTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
14 5 0.17
15 13 0.43
16 10 0.33
17 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (16 bp):
TTTTTGAATAAATATA
Found at i:33037901 original size:26 final size:26
Alignment explanation
Indices: 33037864--33037999 Score: 123
Period size: 26 Copynumber: 5.3 Consensus size: 26
33037854 AGCACACGTA
*
33037864 AAAAAAAATTATTACATGTCATATTG
1 AAAAAAAGTTATTACATGTCATATTG
***
33037890 AAAAAAAGTTATTACACACCATATTG
1 AAAAAAAGTTATTACATGTCATATTG
* * *
33037916 AGAAAATGTTATTACATGTCATGTT-
1 AAAAAAAGTTATTACATGTCATATTG
* * * *
33037941 -CAAAATGTTGTTACATGTCATGTTG
1 AAAAAAAGTTATTACATGTCATATTG
* * *
33037966 CAAAAAAAATTATTGCATGTCATATTT
1 -AAAAAAAGTTATTACATGTCATATTG
33037993 AAAAAAA
1 AAAAAAA
33038000 AAAATTATAA
Statistics
Matches: 88, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
24 22 0.25
26 48 0.55
27 18 0.20
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (26 bp):
AAAAAAAGTTATTACATGTCATATTG
Found at i:33037975 original size:29 final size:24
Alignment explanation
Indices: 33037918--33037970 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
33037908 CCATATTGAG
33037918 AAAATGTTATTACATGTCATGTTC
1 AAAATGTTATTACATGTCATGTTC
*
33037942 AAAATGTTGTTACATGTCATGTTGC
1 AAAATGTTATTACATGTCATGTT-C
33037967 AAAA
1 AAAA
33037971 AAAATTATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (24 bp):
AAAATGTTATTACATGTCATGTTC
Found at i:33038078 original size:80 final size:78
Alignment explanation
Indices: 33037936--33038104 Score: 189
Period size: 80 Copynumber: 2.1 Consensus size: 78
33037926 ATTACATGTC
* ** * * *
33037936 ATGTTCAAAATGTTGTTACATGTCATGTTGCAAAAAAAATTATTGCATGTCATATTTAAAAAAAA
1 ATGTTGAAAATGTTGTTACATCACATGTTGAAAAAAAAATTATTCCATGTCATA-TT-GAAAAAA
33038001 AAATTA-TAACACATT
64 AAATTACTAA-ACATT
* * *
33038016 ATGTTGAAAATGTTGTTACA-CACAGTGTTGAAAAAAAAATTATTCCATTTCATGTTGGAAAAAA
1 ATGTTGAAAATGTTGTTACATCACA-TGTTGAAAAAAAAATTATTCCATGTCATATTGAAAAAAA
*
33038080 AGTTACTAAACATT
65 AATTACTAAACATT
33038094 ATGTTTGAAAA
1 ATG-TTGAAAA
33038105 ACAGTTACTA
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
78 18 0.24
79 14 0.18
80 44 0.58
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (78 bp):
ATGTTGAAAATGTTGTTACATCACATGTTGAAAAAAAAATTATTCCATGTCATATTGAAAAAAAA
ATTACTAAACATT
Found at i:33048969 original size:2 final size:2
Alignment explanation
Indices: 33048964--33049019 Score: 60
Period size: 2 Copynumber: 28.0 Consensus size: 2
33048954 AATACACACA
* * **
33048964 AT AT AT AT AT AT AT AT AT AT AT -T CAA AG GC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
33049006 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
33049020 TAATAAGATG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:33051666 original size:34 final size:34
Alignment explanation
Indices: 33051628--33051695 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
33051618 TAGATGATAA
*
33051628 CTTTAGTTTGTTTATTTTTAATCGTAATTAATTT
1 CTTTAGTTTGTTTATTTTTAATCATAATTAATTT
33051662 CTTTAGTTTGTTTATTTTTAATCATAATTAATTT
1 CTTTAGTTTGTTTATTTTTAATCATAATTAATTT
33051696 TATCTTCTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.25, C:0.06, G:0.07, T:0.62
Consensus pattern (34 bp):
CTTTAGTTTGTTTATTTTTAATCATAATTAATTT
Found at i:33056477 original size:12 final size:11
Alignment explanation
Indices: 33056457--33056487 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
33056447 ATGCTCAACA
33056457 TTTTTTTTGTC
1 TTTTTTTTGTC
33056468 TTTTTCTTTGTC
1 TTTTT-TTTGTC
33056480 TTTTTTTT
1 TTTTTTTT
33056488 TTTTTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.00, C:0.10, G:0.06, T:0.84
Consensus pattern (11 bp):
TTTTTTTTGTC
Done.