Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 6 of 189
Found at i:2081361 original size:47 final size:47
Alignment explanation
Indices: 2081187--2081366 Score: 140
Period size: 47 Copynumber: 3.9 Consensus size: 47
2081177 AAGCCCCTGC
* **
2081187 TTTTATTAAAAATTATAAAAAATTATAAAAAAT-TTAAAATAAATAAAA
1 TTTTATTAAAAATTA-AAAAAATTATAAAAAATATAAAAAT-TGTAAAA
* * * ** *
2081235 -TTTA-TATATATTATTAAATTTTAATAAAAAAT-T-CAAATAT-TAAAA
1 TTTTATTAAAAATTA-AAAAAATT-ATAAAAAATATAAAAAT-TGTAAAA
*
2081280 TTTTATTAAAAATTAAAAAAATTGTAAAAAATATAAAAATTGTAAAA
1 TTTTATTAAAAATTAAAAAAATTATAAAAAATATAAAAATTGTAAAA
* * *
2081327 TTTTA-TAAAAATTGTAAAAAATTATAAAATATATAGAAAT
1 TTTTATTAAAAATT-AAAAAAATTATAAAAAATATAAAAAT
2081367 ATAAAAAAAT
Statistics
Matches: 107, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
45 13 0.12
46 37 0.35
47 57 0.53
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (47 bp):
TTTTATTAAAAATTAAAAAAATTATAAAAAATATAAAAATTGTAAAA
Found at i:2083765 original size:14 final size:11
Alignment explanation
Indices: 2083743--2083785 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
2083733 AAAATAGTAG
2083743 CAAAACAACAA
1 CAAAACAACAA
* *
2083754 CATACCAACAA
1 CAAAACAACAA
2083765 CAAAACAACAA
1 CAAAACAACAA
2083776 C-AAACAACAA
1 CAAAACAACAA
2083786 TAGGGAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.67, C:0.30, G:0.00, T:0.02
Consensus pattern (11 bp):
CAAAACAACAA
Found at i:2083771 original size:22 final size:21
Alignment explanation
Indices: 2083743--2083785 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
2083733 AAAATAGTAG
*
2083743 CAAAACAACAACATACCAACAA
1 CAAAACAACAACA-AACAACAA
2083765 CAAAACAACAACAAACAACAA
1 CAAAACAACAACAAACAACAA
2083786 TAGGGAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.67, C:0.30, G:0.00, T:0.02
Consensus pattern (21 bp):
CAAAACAACAACAAACAACAA
Found at i:2084465 original size:34 final size:34
Alignment explanation
Indices: 2084422--2084490 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
2084412 TAAAATAAAA
2084422 TAAAAAGAAGTGTAGTTCTATATGGATTTTACTT
1 TAAAAAGAAGTGTAGTTCTATATGGATTTTACTT
2084456 TAAAAAGAAGTGTAGTTCTATATGGATTTTACTT
1 TAAAAAGAAGTGTAGTTCTATATGGATTTTACTT
2084490 T
1 T
2084491 TATTTTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (34 bp):
TAAAAAGAAGTGTAGTTCTATATGGATTTTACTT
Found at i:2091840 original size:10 final size:8
Alignment explanation
Indices: 2091816--2091863 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
2091806 TAGCAAATCA
2091816 TATATTTT
1 TATATTTT
2091824 TATATTTT
1 TATATTTT
*
2091832 TAATAATTT
1 T-ATATTTT
2091841 TAT-TTTT
1 TATATTTT
2091848 TGATATTTT
1 T-ATATTTT
*
2091857 TAAATTT
1 TATATTT
2091864 AAAAAAATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
7 4 0.12
8 18 0.53
9 12 0.35
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (8 bp):
TATATTTT
Found at i:2092302 original size:10 final size:9
Alignment explanation
Indices: 2092289--2092333 Score: 58
Period size: 8 Copynumber: 5.0 Consensus size: 9
2092279 AACTAATAAA
2092289 ATATTATTTT
1 ATATT-TTTT
2092299 ATA-TTTTT
1 ATATTTTTT
2092307 ATATTTTTT
1 ATATTTTTT
2092316 AATATTTTTT
1 -ATATTTTTT
2092326 -TATTTTTT
1 ATATTTTTT
2092334 TGACATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
8 15 0.45
9 6 0.18
10 12 0.36
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
ATATTTTTT
Found at i:2092320 original size:18 final size:17
Alignment explanation
Indices: 2092289--2092333 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 17
2092279 AACTAATAAA
2092289 ATATTATTTTATATTTTT
1 ATATT-TTTTATATTTTT
2092307 ATATTTTTTAATATTTTT
1 ATATTTTTT-ATATTTTT
*
2092325 TTATTTTTT
1 ATATTTTTT
2092334 TGACATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
ATATTTTTTATATTTTT
Found at i:2092334 original size:10 final size:10
Alignment explanation
Indices: 2092289--2092334 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
2092279 AACTAATAAA
*
2092289 ATATTATTTT
1 ATATTTTTTT
2092299 ATA--TTTTT
1 ATATTTTTTT
*
2092307 ATATTTTTTA
1 ATATTTTTTT
2092317 ATATTTTTTT
1 ATATTTTTTT
2092327 AT-TTTTTT
1 ATATTTTTT
2092335 GACATTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
8 7 0.23
9 6 0.19
10 18 0.58
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
ATATTTTTTT
Found at i:2092342 original size:18 final size:20
Alignment explanation
Indices: 2092302--2092343 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
2092292 TTATTTTATA
*
2092302 TTTTTATATTTTTTAATATT
1 TTTTTATATTTTTTAACATT
*
2092322 TTTTTAT-TTTTTTGACATT
1 TTTTTATATTTTTTAACATT
2092341 TTT
1 TTT
2092344 AAAATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTTATATTTTTTAACATT
Found at i:2092344 original size:28 final size:28
Alignment explanation
Indices: 2092288--2092351 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
2092278 AAACTAATAA
* *
2092288 AATATTATTTTATATTTTTATATTTTTT
1 AATATTTTTTTATATTTTTACATTTTTT
*
2092316 AATATTTTTTTATTTTTTTGACA-TTTTT
1 AATATTTTTTTATATTTTT-ACATTTTTT
*
2092344 AAAATTTT
1 AATATTTT
2092352 AAAAAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 29 0.94
29 2 0.06
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (28 bp):
AATATTTTTTTATATTTTTACATTTTTT
Found at i:2094435 original size:31 final size:30
Alignment explanation
Indices: 2094387--2094445 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
2094377 GGAAATTGCA
* * *
2094387 GAAAAAAGATCCTTCGAGGTAGCGTTTTGG
1 GAAAAAAGATCCCTCGAGGGAGCATTTTGG
*
2094417 GAAAAAATGCTCCCTCGAGGGAGCATTTT
1 GAAAAAA-GATCCCTCGAGGGAGCATTTT
2094446 TGCCCGTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (30 bp):
GAAAAAAGATCCCTCGAGGGAGCATTTTGG
Found at i:2094579 original size:29 final size:30
Alignment explanation
Indices: 2094536--2094594 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
2094526 GGTTTTTGAA
2094536 AAAATAAACAATAAACCCTAATTTATTTTT
1 AAAATAAACAATAAACCCTAATTTATTTTT
*
2094566 AAAA-AAACCATAAACCCTAATTTATTTTT
1 AAAATAAACAATAAACCCTAATTTATTTTT
2094595 CCAATACCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (30 bp):
AAAATAAACAATAAACCCTAATTTATTTTT
Found at i:2095723 original size:14 final size:14
Alignment explanation
Indices: 2095704--2095733 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2095694 ATTATATTAG
2095704 ATTTGATATGGCTA
1 ATTTGATATGGCTA
*
2095718 ATTTGATATGGTTA
1 ATTTGATATGGCTA
2095732 AT
1 AT
2095734 CTAGTTCGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (14 bp):
ATTTGATATGGCTA
Found at i:2098286 original size:24 final size:24
Alignment explanation
Indices: 2098250--2098315 Score: 87
Period size: 24 Copynumber: 2.7 Consensus size: 24
2098240 CCCATTTTTT
*
2098250 AATAAACACTAAAAATAATTTAAAA
1 AATAAA-AATAAAAATAATTTAAAA
*
2098275 AATAAAAATAAAAATATTTTAAAA
1 AATAAAAATAAAAATAATTTAAAA
**
2098299 TTTAAAAATAAAAATAA
1 AATAAAAATAAAAATAA
2098316 AAAAATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
24 30 0.83
25 6 0.17
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (24 bp):
AATAAAAATAAAAATAATTTAAAA
Found at i:2108870 original size:22 final size:21
Alignment explanation
Indices: 2108828--2108873 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
2108818 ATTATGCTTC
2108828 AATATAATATAGATTTAATTT
1 AATATAATATAGATTTAATTT
* *
2108849 AATATAATTATAGTTTTGATTT
1 AATATAA-TATAGATTTAATTT
2108871 AAT
1 AAT
2108874 GAAAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
AATATAATATAGATTTAATTT
Found at i:2110645 original size:2 final size:2
Alignment explanation
Indices: 2110634--2110672 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
2110624 GTTTATAAAT
2110634 AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2110673 TAGGAGAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2117761 original size:29 final size:28
Alignment explanation
Indices: 2117728--2117816 Score: 81
Period size: 31 Copynumber: 3.0 Consensus size: 28
2117718 CAATTTTTGA
2117728 AAATTGAATCAAATCAAAATTTCATGTAT
1 AAATTGAATCAAATCAAAA-TTCATGTAT
* * *
2117757 AAATTTGCA-CAAATCATAGTTCATGTAT
1 AAA-TTGAATCAAATCAAAATTCATGTAT
**
2117785 AACATTGTACATTTAATCAAAATTCATGTAT
1 AA-ATTG-A-ATCAAATCAAAATTCATGTAT
2117816 A
1 A
2117817 GTTTTAAGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
28 14 0.30
29 12 0.26
30 5 0.11
31 16 0.34
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (28 bp):
AAATTGAATCAAATCAAAATTCATGTAT
Found at i:2117811 original size:31 final size:28
Alignment explanation
Indices: 2117737--2117816 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 28
2117727 AAAATTGAAT
2117737 CAAATCAAAATTTCATGTATAAATTTGCA
1 CAAATCAAAA-TTCATGTATAAATTTGCA
* * *
2117766 CAAATCATAGTTCATGTATAACA-TTGTA
1 CAAATCAAAATTCATGTATAA-ATTTGCA
2117794 CATTTAATCAAAATTCATGTATA
1 CA---AATCAAAATTCATGTATA
2117817 GTTTTAAGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
28 17 0.40
29 9 0.21
31 16 0.38
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.36
Consensus pattern (28 bp):
CAAATCAAAATTCATGTATAAATTTGCA
Found at i:2118145 original size:21 final size:21
Alignment explanation
Indices: 2118119--2118161 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
2118109 GGTTCGCTGT
*
2118119 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
2118140 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
2118161 A
1 A
2118162 ATAGGGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:2118219 original size:45 final size:44
Alignment explanation
Indices: 2118153--2118247 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 44
2118143 GGATTAGAGG
* * *
2118153 TGTAATGGAATAGGGGTGTAATAACAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAACAAAAC-ACTGTTTGGTTGAA
** **
2118198 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAACAAAACACTGTTTGGTTGAA
2118242 TGTAAT
1 TGTAAT
2118248 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 18 0.42
45 25 0.58
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAACAAAACACTGTTTGGTTGAA
Found at i:2118430 original size:18 final size:17
Alignment explanation
Indices: 2118409--2118443 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2118399 TTATTATTTA
*
2118409 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
2118427 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
2118444 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:2118437 original size:28 final size:27
Alignment explanation
Indices: 2118367--2118439 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
2118357 TTTATTATCA
*
2118367 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
2118395 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
2118422 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
2118440 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:2118535 original size:144 final size:147
Alignment explanation
Indices: 2118327--2118599 Score: 489
Period size: 144 Copynumber: 1.9 Consensus size: 147
2118317 AATGATTATT
2118327 ATTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTA
1 ATTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTA
*
2118392 AACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAG
64 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAG
2118457 CAGAAATTTGTTTTGGTAA
129 CAGAAATTTGTTTTGGTAA
*
2118476 ATTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAA
1 ATTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAA
2118538 CATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 CATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
2118600 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.75
145 1 0.01
148 23 0.19
149 6 0.05
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
ATTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAA
CATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCA
GAAATTTGTTTTGGTAA
Found at i:2118574 original size:18 final size:17
Alignment explanation
Indices: 2118553--2118587 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2118543 TTATTATTAA
*
2118553 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
2118571 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
2118588 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:2118631 original size:54 final size:54
Alignment explanation
Indices: 2118573--2118751 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
2118563 ATTAAAATAT
*
2118573 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
2118627 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
2118690 TAT
53 -AC
*
2118693 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
2118747 ATAAT
1 ATAAT
2118752 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:2118633 original size:61 final size:61
Alignment explanation
Indices: 2118568--2118755 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
2118558 TTTTAATTAA
*
2118568 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
2118629 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
2118688 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
2118749 AATATAT
1 AATATAT
2118756 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:2118666 original size:120 final size:120
Alignment explanation
Indices: 2118536--2118758 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
2118526 ATCATATTTA
* *
2118536 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
2118601 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
2118656 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
2118721 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
2118759 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:2118694 original size:18 final size:17
Alignment explanation
Indices: 2118673--2118707 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2118663 TTATTATTAA
2118673 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
2118691 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
2118708 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:2118770 original size:17 final size:16
Alignment explanation
Indices: 2118748--2118794 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
2118738 ACTCAAATCA
2118748 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
2118765 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
2118779 TAAATATATGATTTAA
1 T-AATATATGATTTAA
2118795 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:2118795 original size:17 final size:17
Alignment explanation
Indices: 2118767--2118800 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2118757 ATTATAACTA
*
2118767 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
2118784 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
2118801 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:2118943 original size:93 final size:92
Alignment explanation
Indices: 2118833--2119027 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
2118823 GATTATAGTT
* * *
2118833 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
2118896 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
2118926 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
2118991 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
2119018 TATGAATTTA
1 TATGAATTTA
2119028 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:2125171 original size:44 final size:44
Alignment explanation
Indices: 2125120--2125208 Score: 144
Period size: 44 Copynumber: 2.0 Consensus size: 44
2125110 ATAATTGTAA
**
2125120 ATTAAATTATAATTATTTTTAAATGTGTAATTATCAC-AACTTCT
1 ATTAAATTATAATTATTTTTAAATGTACAATTATCACGAA-TTCT
2125164 ATTAAATTATAATTATTTTTAAATGTACAATTATCACGAATTCT
1 ATTAAATTATAATTATTTTTAAATGTACAATTATCACGAATTCT
2125208 A
1 A
2125209 CTTTGCCTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 40 0.95
45 2 0.05
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.46
Consensus pattern (44 bp):
ATTAAATTATAATTATTTTTAAATGTACAATTATCACGAATTCT
Found at i:2129856 original size:25 final size:25
Alignment explanation
Indices: 2129808--2129856 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
2129798 CGTGCTTGAT
*
2129808 AAGAAAAAAAGAAGTGAGAAAATTG
1 AAGAAAAAAAGAAGAGAGAAAATTG
*
2129833 AAGAGAAAAAG-AGAGAGAATAATT
1 AAGAAAAAAAGAAGAGAGAA-AATT
2129857 TCCCATAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.63, C:0.00, G:0.24, T:0.12
Consensus pattern (25 bp):
AAGAAAAAAAGAAGAGAGAAAATTG
Found at i:2130593 original size:21 final size:21
Alignment explanation
Indices: 2130547--2130593 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
2130537 ACATTAAAAA
*
2130547 ATATA-AAAAAATAGAAATAC
1 ATATATAAAAAATACAAATAC
* * *
2130567 ACATATAAAAAATTCAAATAT
1 ATATATAAAAAATACAAATAC
2130588 ATATAT
1 ATATAT
2130594 GTGAAATCTA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (21 bp):
ATATATAAAAAATACAAATAC
Found at i:2139550 original size:41 final size:41
Alignment explanation
Indices: 2139505--2139599 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
2139495 GAAAAAAACT
*
2139505 TTCTTTAGCGGCGCTTAGAAAAAACGCCTCTAAAGACCATG
1 TTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGACCATG
*
2139546 TTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGATCATG
1 TTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGACCATG
*
2139587 TTTTTTAGCGGCG
1 TTCTTTAGCGGCG
2139600 TTTTTGTATT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.27
Consensus pattern (41 bp):
TTCTTTAGCGGCGCTTAGAAAAAACGCCGCTAAAGACCATG
Found at i:2139645 original size:21 final size:22
Alignment explanation
Indices: 2139600--2139648 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
2139590 TTTAGCGGCG
* *
2139600 TTTTTGTATTAAATTTTTGGGAT
1 TTTTTATATTAAATTTTT-GCAT
2139623 TTTTTATATTAAATTTTT-CAT
1 TTTTTATATTAAATTTTTGCAT
2139644 TTTTT
1 TTTTT
2139649 CAGCCTCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.29
23 17 0.71
ACGTcount: A:0.22, C:0.02, G:0.08, T:0.67
Consensus pattern (22 bp):
TTTTTATATTAAATTTTTGCAT
Found at i:2139959 original size:21 final size:21
Alignment explanation
Indices: 2139910--2139959 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
2139900 TTTTGGCCTG
* *
2139910 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCCGCAGC
* * *
2139931 TTCCGCTTCCCTCGCCGCCGC
1 CTCTGCTTCCCTCGCCGCAGC
2139952 CTCTGCTT
1 CTCTGCTT
2139960 TAAGTTGTAG
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.48, G:0.18, T:0.32
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCCGCAGC
Found at i:2145858 original size:21 final size:20
Alignment explanation
Indices: 2145815--2145861 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
2145805 CATTTTGATA
*
2145815 TATATTTTAAAATATTAATT
1 TATATTTTAAAATTTTAATT
* *
2145835 TATATTTATATAATTTTCATT
1 TATATTT-TAAAATTTTAATT
2145856 TATATT
1 TATATT
2145862 AATCTAGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TATATTTTAAAATTTTAATT
Found at i:2146176 original size:25 final size:26
Alignment explanation
Indices: 2146145--2146196 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
2146135 TGTCGTAAAC
* * *
2146145 ATTAACCGTAGATCTTAAACCC-TAA
1 ATTAACCATAAATATTAAACCCATAA
2146170 ATTAACCATAAATATTAAACCCATAA
1 ATTAACCATAAATATTAAACCCATAA
2146196 A
1 A
2146197 CCACAAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.48, C:0.21, G:0.04, T:0.27
Consensus pattern (26 bp):
ATTAACCATAAATATTAAACCCATAA
Found at i:2147333 original size:114 final size:114
Alignment explanation
Indices: 2146955--2147744 Score: 1314
Period size: 114 Copynumber: 6.9 Consensus size: 114
2146945 TAATAATGTG
* *
2146955 CTTCAGCGGCGTTTTTATAGAAACGCCACCAATTCTACTATGCCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
*
2147020 TGTTTAACATTTTTTTGTGGCGCTTACAAACAAACGCCGCTAATGATCCA
66 TGTTTAACA-TTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
* * *
2147070 CTTCAGCGGCGTTTTTACAGAAACGCCACAAATTCAACTATACCTCAATCTTGTATGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
* * *
2147135 TGTTTAACATTTTTTTACGGCGCTTACAAACAAACGCCGCTATTTATCCA
66 TGTTTAACA-TTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
* * *
2147185 CTTCGGCGGCATTTTTACAGAAACGCCACTAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
* *
2147250 TGTTTAACATTTTTTGCGGCGCTTACAAGCAAACGCTGCTAATGATCCA
66 TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
* * *
2147299 CTTCAGCGGCGTTTTGACAGAAACGCCACCAATTCTACTATACCTCAATCCTGTACGCTGCGCTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
* * *
2147364 TGTTTAACATTTTTTGCGGCGCTTACAAATAAATGCCGCTAATGATACA
66 TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
*
2147413 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATT-TACTATACCTCAATCTTGTACGTTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
* *
2147477 TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTATTTATCCA
66 TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
2147526 CTTCAG-GGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
*
2147590 TGTTTAACATTTTTTGCGGCGCTTACAAAAAAACGCCGCTAATGATCCA
66 TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
2147639 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
* *
2147704 TGTTTAACATTGTTTGCGGTGCTTACAAACAAACGCCGCTA
66 TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTA
2147745 CTGGCACTAT
Statistics
Matches: 627, Mismatches: 46, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
112 27 0.04
113 158 0.25
114 267 0.43
115 175 0.28
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (114 bp):
CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATCCA
Found at i:2147610 original size:340 final size:343
Alignment explanation
Indices: 2146955--2147744 Score: 1352
Period size: 340 Copynumber: 2.3 Consensus size: 343
2146945 TAATAATGTG
* *
2146955 CTTCAGCGGCGTTTTTATAGAAACGCCACCAATTCTACTATGCCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
* *
2147020 TGTTTAACATTTTTTTGTGGCGCTTACAAACAAACGCCGCTAATGATCCACTTCAGCGGCGTTTT
66 TGTTTAACA-TTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATACACTTCAGCGGCGTTTT
*
2147085 TACAGAAACGCCACAAATTCAACTATACCTCAATCTTGTATGCTGCGTTTTGTTTAACATTTTTT
130 TACAGAAACGCCACAAATTCAACTATACCTCAATCTTGTACGCTGCGTTTTGTTTAACATTTTTT
* *
2147150 TACGGCGCTTACAAACAAACGCCGCTATTTATCCACTTCGGCGGCATTTTTACAGAAACGCCACT
195 TACGGCGCTTACAAACAAACGCCGCTATTTATCCACTTCAGCGGCATTTTTACAGAAACGCCACC
**
2147215 AATTCTACTATACCTCAATCTTGTACGCTGCGTTTTGTTTAACATTTTTTGCGGCGCTTACAAGC
260 AATTCTACTATACCTCAATCTTGTACGCTGCGTTTTGTTTAACATTTTTTGCGGCGCTTACAAAA
*
2147280 AAACGCTGCTAATGATCCA
325 AAACGCCGCTAATGATCCA
* * *
2147299 CTTCAGCGGCGTTTTGACAGAAACGCCACCAATTCTACTATACCTCAATCCTGTACGCTGCGCTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
* *
2147364 TGTTTAACATTTTTTGCGGCGCTTACAAATAAATGCCGCTAATGATACACTTCAGCGGCGTTTTT
66 TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATACACTTCAGCGGCGTTTTT
* * *
2147429 ACAGAAACGCCACCAATT-TACTATACCTCAATCTTGTACGTTGCGTTTTGTTTAACA-TTTTTT
131 ACAGAAACGCCACAAATTCAACTATACCTCAATCTTGTACGCTGCGTTTTGTTTAACATTTTTTT
* *
2147492 GCGGCGCTTACAAACAAACGCCGCTATTTATCCACTTCAG-GGCGTTTTTACAGAAACGCCACCA
196 ACGGCGCTTACAAACAAACGCCGCTATTTATCCACTTCAGCGGCATTTTTACAGAAACGCCACCA
2147556 ATTCTACTATACCTCAATCTTGTACGCTGCGTTTTGTTTAACATTTTTTGCGGCGCTTACAAAAA
261 ATTCTACTATACCTCAATCTTGTACGCTGCGTTTTGTTTAACATTTTTTGCGGCGCTTACAAAAA
2147621 AACGCCGCTAATGATCCA
326 AACGCCGCTAATGATCCA
2147639 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
1 CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
* *
2147704 TGTTTAACATTGTTTGCGGTGCTTACAAACAAACGCCGCTA
66 TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTA
2147745 CTGGCACTAT
Statistics
Matches: 419, Mismatches: 27, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
340 201 0.48
341 44 0.11
342 36 0.09
343 69 0.16
344 69 0.16
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (343 bp):
CTTCAGCGGCGTTTTTACAGAAACGCCACCAATTCTACTATACCTCAATCTTGTACGCTGCGTTT
TGTTTAACATTTTTTGCGGCGCTTACAAACAAACGCCGCTAATGATACACTTCAGCGGCGTTTTT
ACAGAAACGCCACAAATTCAACTATACCTCAATCTTGTACGCTGCGTTTTGTTTAACATTTTTTT
ACGGCGCTTACAAACAAACGCCGCTATTTATCCACTTCAGCGGCATTTTTACAGAAACGCCACCA
ATTCTACTATACCTCAATCTTGTACGCTGCGTTTTGTTTAACATTTTTTGCGGCGCTTACAAAAA
AACGCCGCTAATGATCCA
Found at i:2148178 original size:19 final size:19
Alignment explanation
Indices: 2148154--2148192 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2148144 AAGGTTATTG
*
2148154 AAATTTCGATTATCAATTA
1 AAATTTCAATTATCAATTA
* *
2148173 AAATTTTAATTATTAATTA
1 AAATTTCAATTATCAATTA
2148192 A
1 A
2148193 TTCGGTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (19 bp):
AAATTTCAATTATCAATTA
Found at i:2148327 original size:23 final size:24
Alignment explanation
Indices: 2148301--2148347 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
2148291 TTGGCCAAAG
* *
2148301 AAAAAATAATAATAAATA-AAATT
1 AAAAAATAACAAAAAATAGAAATT
*
2148324 AAAATATAACAAAAAATAGAAATT
1 AAAAAATAACAAAAAATAGAAATT
2148348 TAAGTTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (24 bp):
AAAAAATAACAAAAAATAGAAATT
Found at i:2160033 original size:22 final size:22
Alignment explanation
Indices: 2159999--2160041 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2159989 ATCATCATTT
2159999 AATTAATTTTTAAAAATATATA
1 AATTAATTTTTAAAAATATATA
*
2160021 AATT-ATTTATTAAAATTATAT
1 AATTAATTT-TTAAAAATATAT
2160042 GTTTAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATTAATTTTTAAAAATATATA
Found at i:2163595 original size:6 final size:6
Alignment explanation
Indices: 2163584--2163619 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
2163574 GAACATTAGT
2163584 CCCATC CCCATC CCCATC CCCATC CCCATC CCCATC
1 CCCATC CCCATC CCCATC CCCATC CCCATC CCCATC
2163620 TTTAACCAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.17, C:0.67, G:0.00, T:0.17
Consensus pattern (6 bp):
CCCATC
Found at i:2166936 original size:30 final size:30
Alignment explanation
Indices: 2166902--2166962 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
2166892 TATCATTTTG
2166902 TATGAGTCATAAAAATAAATTTGTTTGTTA
1 TATGAGTCATAAAAATAAATTTGTTTGTTA
* *
2166932 TATGAGTCATAAAAGTAAGTTTGTTTGTTA
1 TATGAGTCATAAAAATAAATTTGTTTGTTA
2166962 T
1 T
2166963 GTAAAAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.44
Consensus pattern (30 bp):
TATGAGTCATAAAAATAAATTTGTTTGTTA
Found at i:2171836 original size:22 final size:23
Alignment explanation
Indices: 2171778--2171838 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
2171768 GAAATTTTAA
*
2171778 AAATATTAATTCTATAAAATAGT
1 AAATGTTAATTCTATAAAATAGT
* *
2171801 AAATGATATTTTCTA-AAAATAGT
1 AAATGTTA-ATTCTATAAAATAGT
*
2171824 AAGTGTTAATTCTAT
1 AAATGTTAATTCTAT
2171839 TTCAATTTGG
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
22 5 0.17
23 20 0.67
24 5 0.17
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (23 bp):
AAATGTTAATTCTATAAAATAGT
Found at i:2175291 original size:41 final size:41
Alignment explanation
Indices: 2175047--2175285 Score: 299
Period size: 41 Copynumber: 5.8 Consensus size: 41
2175037 TTAAACAGAT
** * * *
2175047 TCACCGGCATTTTGCCTGCTAGGCTTAAAGACTG-ATTCAGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
2175089 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
2175129 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
2175170 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
2175211 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
2175250 CTTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
2175286 TATTACATTC
Statistics
Matches: 181, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 2 0.01
40 8 0.04
41 167 0.92
42 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:2182833 original size:41 final size:41
Alignment explanation
Indices: 2182591--2182827 Score: 281
Period size: 41 Copynumber: 5.8 Consensus size: 41
2182581 TTAAACAGAT
** * * *
2182591 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
2182633 -CACCGGCACTT-AGCCTGCTAGACATATAGT-TGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
2182672 TCACCGGCATTAAG-CTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
2182712 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
2182753 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
2182792 CTTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
2182828 TATTACATTC
Statistics
Matches: 177, Mismatches: 10, Indels: 17
0.87 0.05 0.08
Matches are distributed among these distances:
39 23 0.13
40 38 0.21
41 114 0.64
42 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:2185396 original size:51 final size:51
Alignment explanation
Indices: 2185332--2185432 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
2185322 ACGGATACCC
*
2185332 AGTGGCCTACACATGGTACCACCCTTGTAGCCAAAGCTACCTTCTTCACAA
1 AGTGGCCTACACATAGTACCACCCTTGTAGCCAAAGCTACCTTCTTCACAA
* *
2185383 AGTGGCCTGCACATAGTACCACCCTTGTAGTCAAAGCTACCTTCTTCACA
1 AGTGGCCTACACATAGTACCACCCTTGTAGCCAAAGCTACCTTCTTCACA
2185433 TAGTACCACA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.25
Consensus pattern (51 bp):
AGTGGCCTACACATAGTACCACCCTTGTAGCCAAAGCTACCTTCTTCACAA
Found at i:2185433 original size:37 final size:38
Alignment explanation
Indices: 2185392--2185470 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 38
2185382 AAGTGGCCTG
* *
2185392 CACATAGTACCACCCTTGT-AGTCAAAGCTA-CCTTCTT
1 CACATAGTACCACACTTGTGA-CCAAAGCTATCCTTCTT
*
2185429 CACATAGTACCACACTTGTGACCAAAGCTATCTTTCTT
1 CACATAGTACCACACTTGTGACCAAAGCTATCCTTCTT
2185467 CACA
1 CACA
2185471 AAGTGGCCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 26 0.70
38 11 0.30
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.29
Consensus pattern (38 bp):
CACATAGTACCACACTTGTGACCAAAGCTATCCTTCTT
Found at i:2185503 original size:88 final size:88
Alignment explanation
Indices: 2185341--2185503 Score: 249
Period size: 89 Copynumber: 1.9 Consensus size: 88
2185331 CAGTGGCCTA
* * *
2185341 CACATGGTACCACCCTTGTAGCCAAAGCTACCTTCTTCACAAAGTGGCCTGCACATAGTACCACC
1 CACATAGTACCACACTTGTAGCCAAAGCTACCTTCTTCACAAAGTGGCCTGCACATAGTACCACA
2185406 CTTGTAGTCAAAGCTACCTTCTT
66 CTTGTAGTCAAAGCTACCTTCTT
* *
2185429 CACATAGTACCACACTTGT-GACCAAAGCTATCTTTCTTCACAAAGTGGCCTTCACATAGTACCA
1 CACATAGTACCACACTTGTAG-CCAAAGCTA-CCTTCTTCACAAAGTGGCCTGCACATAGTACCA
2185493 CACTTG-AGTCA
64 CACTTGTAGTCA
2185504 CTAGTGACAT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
87 1 0.01
88 31 0.46
89 36 0.53
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.26
Consensus pattern (88 bp):
CACATAGTACCACACTTGTAGCCAAAGCTACCTTCTTCACAAAGTGGCCTGCACATAGTACCACA
CTTGTAGTCAAAGCTACCTTCTT
Found at i:2189054 original size:262 final size:262
Alignment explanation
Indices: 2188589--2189116 Score: 1029
Period size: 262 Copynumber: 2.0 Consensus size: 262
2188579 TCATTGTCAG
2188589 TGAGTAAAAAGAATGTCATCTGGGTAATTGTCGATCGACTCACAAAGTCAGCTCATTTTATAGCA
1 TGAGTAAAAAGAATGTCATCTGGGTAATTGTCGATCGACTCACAAAGTCAGCTCATTTTATAGCA
*
2188654 GTTAGAACCGACTGGTCACTATAGAAGCTTGCCGAGGTTTATATCCGGAAAATTGTTAGATTACA
66 GTTAGAACCGACTGGTCACTACAGAAGCTTGCCGAGGTTTATATCCGGAAAATTGTTAGATTACA
*
2188719 CGGTATTTCAGTATCGATAATTTCAGATCGGGATCCTTGATTTACATTAAGATTTTGGAAGCAGT
131 CGGTATTTCAGTATCGATAATTTCAGATCGGGATCCTTGATTTACATCAAGATTTTGGAAGCAGT
2188784 TACATGAGTCATTGGGTACGTGACTTAATTTTAGCACTGCATTTCATCTGCAAACCGACAGATAG
196 TACATGAGTCATTGGGTACGTGACTTAATTTTAGCACTGCATTTCATCTGCAAACCGACAGATAG
2188849 TT
261 TT
2188851 TGAGTAAAAAGAATGTCATCTGGGTAATTGTCGATCGACTCACAAAGTCAGCTCATTTTATAGCA
1 TGAGTAAAAAGAATGTCATCTGGGTAATTGTCGATCGACTCACAAAGTCAGCTCATTTTATAGCA
*
2188916 GTTATAACCGACTGGTCACTACAGAAGCTTGCCGAGGTTTATATCCGGAAAATTGTTAGATTACA
66 GTTAGAACCGACTGGTCACTACAGAAGCTTGCCGAGGTTTATATCCGGAAAATTGTTAGATTACA
2188981 CGGTATTTCAGTATCGATAATTTCAGATCGGGATCCTTGATTTACATCAAGATTTTGGAAGCAGT
131 CGGTATTTCAGTATCGATAATTTCAGATCGGGATCCTTGATTTACATCAAGATTTTGGAAGCAGT
2189046 TACATGAGTCATTGGGTACGTGACTTAATTTTAGCACTGCATTTCATCTGCAAACCGACAGATAG
196 TACATGAGTCATTGGGTACGTGACTTAATTTTAGCACTGCATTTCATCTGCAAACCGACAGATAG
2189111 TT
261 TT
2189113 TGAG
1 TGAG
2189117 CGAGTAATTC
Statistics
Matches: 263, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
262 263 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (262 bp):
TGAGTAAAAAGAATGTCATCTGGGTAATTGTCGATCGACTCACAAAGTCAGCTCATTTTATAGCA
GTTAGAACCGACTGGTCACTACAGAAGCTTGCCGAGGTTTATATCCGGAAAATTGTTAGATTACA
CGGTATTTCAGTATCGATAATTTCAGATCGGGATCCTTGATTTACATCAAGATTTTGGAAGCAGT
TACATGAGTCATTGGGTACGTGACTTAATTTTAGCACTGCATTTCATCTGCAAACCGACAGATAG
TT
Found at i:2200155 original size:13 final size:13
Alignment explanation
Indices: 2200123--2200167 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
2200113 CTTTTCATGC
*
2200123 TTAAATCTAACTG
1 TTAAATCTAATTG
2200136 TTAAAATCTAATTG
1 TT-AAATCTAATTG
* *
2200150 TTAAATTTATTTG
1 TTAAATCTAATTG
2200163 TTAAA
1 TTAAA
2200168 ATATTTTAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (13 bp):
TTAAATCTAATTG
Found at i:2200169 original size:14 final size:14
Alignment explanation
Indices: 2200125--2200169 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
2200115 TTTCATGCTT
*
2200125 AAATCTAACTGTTA
1 AAATCTAATTGTTA
2200139 AAATCTAATTGTT-
1 AAATCTAATTGTTA
* *
2200152 AAATTTATTTGTTA
1 AAATCTAATTGTTA
2200166 AAAT
1 AAAT
2200170 ATTTTAGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (14 bp):
AAATCTAATTGTTA
Found at i:2212885 original size:42 final size:42
Alignment explanation
Indices: 2212762--2212885 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 42
2212752 CGCTTTACTT
* *
2212762 AGTTTAATTTTTGAATTCGAAGTAAGGTTAATAGTATGTTTC
1 AGTTTAATTTTTGGATTCGAAGTAAGATTAATAGTATGTTTC
* * * **
2212804 AGTTTACTTTTTTTGATTCGAAGTAAGTTTCTTAGTATGTTTC
1 AGTTTA-ATTTTTGGATTCGAAGTAAGATTAATAGTATGTTTC
* *
2212847 AGTTTAATTTTCGGATT-GCAAGTAAGATTAATAATATGT
1 AGTTTAATTTTTGGATTCG-AAGTAAGATTAATAGTATGT
2212886 GTGATTAAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.01
42 30 0.45
43 36 0.54
ACGTcount: A:0.29, C:0.06, G:0.18, T:0.47
Consensus pattern (42 bp):
AGTTTAATTTTTGGATTCGAAGTAAGATTAATAGTATGTTTC
Found at i:2213092 original size:42 final size:42
Alignment explanation
Indices: 2213033--2213115 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
2213023 CTTAGTTCTA
*
2213033 TTTTTGGATTCGAAGTAAGATTAATAGTATGTTTCAGTTTAC
1 TTTTTGGATTCGAAGTAAGATTAAGAGTATGTTTCAGTTTAC
*
2213075 TTTTTGGATTCGAAGTAAGATTTAGAGTATGTTTCAGTTTA
1 TTTTTGGATTCGAAGTAAGATTAAGAGTATGTTTCAGTTTA
2213116 TATTTGATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.28, C:0.06, G:0.20, T:0.46
Consensus pattern (42 bp):
TTTTTGGATTCGAAGTAAGATTAAGAGTATGTTTCAGTTTAC
Found at i:2213330 original size:97 final size:98
Alignment explanation
Indices: 2213172--2213358 Score: 272
Period size: 97 Copynumber: 1.9 Consensus size: 98
2213162 TTTAGTTTAA
* *
2213172 TTTTTGGATTTGAAGTAAGATTCATGATATGTTCTTTTGTTTGATTAAGTTATCTCGTAGCT-TT
1 TTTTTGGATTTGAAGTAAGATTCATGATATGTTCTTTTGTTTGATTAAATTATCTCATAGCTCTT
*
2213236 ACATTTCTACATTTCCTC-TTTACTTAATTTATT
66 -CATTTCCACATTTCCTCTTTTACTTAATTTATT
* *
2213269 TTTTTTGATTTGATGTAAGATTCATGATATGTTCTTTTGTTTGATTAAATT-TCCTCATAGCTCT
1 TTTTTGGATTTGAAGTAAGATTCATGATATGTTCTTTTGTTTGATTAAATTAT-CTCATAGCTCT
* *
2213333 TCGTTTCCATATTTCCTCTTTTACTT
65 TCATTTCCACATTTCCTCTTTTACTT
2213359 TGGTGTTCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
96 1 0.01
97 70 0.88
98 9 0.11
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (98 bp):
TTTTTGGATTTGAAGTAAGATTCATGATATGTTCTTTTGTTTGATTAAATTATCTCATAGCTCTT
CATTTCCACATTTCCTCTTTTACTTAATTTATT
Found at i:2220590 original size:16 final size:16
Alignment explanation
Indices: 2220571--2220605 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2220561 ACCTAAATTC
*
2220571 TTTTAGTAATATTTAA
1 TTTTAATAATATTTAA
*
2220587 TTTTAATTATATTTAA
1 TTTTAATAATATTTAA
2220603 TTT
1 TTT
2220606 ATTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TTTTAATAATATTTAA
Found at i:2223237 original size:16 final size:16
Alignment explanation
Indices: 2223203--2223236 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2223193 AATTCCTTAC
*
2223203 TTTAATTTTTATGATT
1 TTTAATATTTATGATT
2223219 TTTAATATTTAT-ATT
1 TTTAATATTTATGATT
2223234 TTT
1 TTT
2223237 TTATTAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTAATATTTATGATT
Found at i:2235596 original size:4 final size:4
Alignment explanation
Indices: 2235589--2235613 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2235579 TACACTTATG
2235589 TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
2235614 AAATTTGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:2237169 original size:15 final size:15
Alignment explanation
Indices: 2237149--2237182 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2237139 ACAAGTTTTC
2237149 TTTAA-TTTTAATATA
1 TTTAATTTTTAATA-A
2237164 TTTAATTTTTAATAA
1 TTTAATTTTTAATAA
2237179 TTTA
1 TTTA
2237183 TTAAATCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTAATTTTTAATAA
Found at i:2239698 original size:24 final size:24
Alignment explanation
Indices: 2239669--2239722 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
2239659 TCTTCCATTC
* *
2239669 CTCTCCTCAAATTCA-CTCTTCTGT
1 CTCTCCACAAATTCATCTCTT-TGA
2239693 CTCTCCACAAATTCATCTCTTTGA
1 CTCTCCACAAATTCATCTCTTTGA
2239717 CTCTCC
1 CTCTCC
2239723 CATTTCTCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.19, C:0.39, G:0.04, T:0.39
Consensus pattern (24 bp):
CTCTCCACAAATTCATCTCTTTGA
Found at i:2243056 original size:7 final size:6
Alignment explanation
Indices: 2243020--2243049 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
2243010 TGTTAAAGTG
2243020 TTTTTC TTTTTC TTTTTCC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTT-C TTTTTC TTTTT
2243050 TCGTTTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:2243056 original size:13 final size:13
Alignment explanation
Indices: 2243020--2243056 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
2243010 TGTTAAAGTG
2243020 TTTTTCTTTTTCT
1 TTTTTCTTTTTCT
*
2243033 TTTTCCTTTTTCT
1 TTTTTCTTTTTCT
2243046 TTTTTCGTTTT
1 TTTTTC-TTTT
2243057 GATAGGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (13 bp):
TTTTTCTTTTTCT
Found at i:2243900 original size:65 final size:65
Alignment explanation
Indices: 2243793--2243916 Score: 203
Period size: 65 Copynumber: 1.9 Consensus size: 65
2243783 CTAACAATAC
* * *
2243793 TCATCAATCCATCACATTTGACAGATTCCTCATCTAATCCCTTCAAGTTGATTCTAATAGTGCAT
1 TCATCAATCCATCACATTTGACAGATTCCTCATCTAACCCCTTCAAGTCGACTCTAATAGTGCAT
* *
2243858 TCATCAATCCATTACATTTGATAGATTCCTCATCTAACCCCTTCAAGTCGACTCTAATA
1 TCATCAATCCATCACATTTGACAGATTCCTCATCTAACCCCTTCAAGTCGACTCTAATA
2243917 ATGCCCTAGC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (65 bp):
TCATCAATCCATCACATTTGACAGATTCCTCATCTAACCCCTTCAAGTCGACTCTAATAGTGCAT
Found at i:2247553 original size:5 final size:5
Alignment explanation
Indices: 2247543--2247625 Score: 130
Period size: 5 Copynumber: 16.6 Consensus size: 5
2247533 TTAAATATAA
* * *
2247543 ATATT ATATT ATATT ATATT TTATT ATATT ATGTT ATGTT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
*
2247593 ATATT ATAAT ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATATT ATA
2247626 AAAGAAATAA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 72 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (5 bp):
ATATT
Found at i:2248605 original size:25 final size:25
Alignment explanation
Indices: 2248577--2248645 Score: 111
Period size: 25 Copynumber: 2.8 Consensus size: 25
2248567 ACTTTAGCGC
2248577 GCTCTCTGATTATTAGCACATTGGT
1 GCTCTCTGATTATTAGCACATTGGT
*
2248602 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACATTGGT
* *
2248627 GCTATCTGATTACTAGCAC
1 GCTCTCTGATTATTAGCAC
2248646 GTCAATGCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATTGGT
Found at i:2248654 original size:25 final size:25
Alignment explanation
Indices: 2248601--2248654 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
2248591 AGCACATTGG
* * ***
2248601 TGCTCTCTGATTATTAGCACGTTGG
1 TGCTATCTGATTACTAGCACGTCAA
2248626 TGCTATCTGATTACTAGCACGTCAA
1 TGCTATCTGATTACTAGCACGTCAA
2248651 TGCT
1 TGCT
2248655 CTCCGTTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (25 bp):
TGCTATCTGATTACTAGCACGTCAA
Found at i:2251314 original size:22 final size:22
Alignment explanation
Indices: 2251289--2251333 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
2251279 ATACTTTACT
2251289 TAAAAACTCACATAAATCTAAG
1 TAAAAACTCACATAAATCTAAG
*
2251311 TAAAAACTCAGATAAATCTAAG
1 TAAAAACTCACATAAATCTAAG
2251333 T
1 T
2251334 GAACACTGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.53, C:0.16, G:0.07, T:0.24
Consensus pattern (22 bp):
TAAAAACTCACATAAATCTAAG
Found at i:2261492 original size:23 final size:24
Alignment explanation
Indices: 2261465--2261509 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2261455 GAAAAATATT
*
2261465 AAATAT-ATATTTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
2261488 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
2261510 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:2261639 original size:59 final size:59
Alignment explanation
Indices: 2261576--2261745 Score: 295
Period size: 59 Copynumber: 2.9 Consensus size: 59
2261566 TCAAGTTTGT
* *
2261576 TTTACTAATTAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
* *
2261635 TTTACTAATCAAGTGTTAAATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
*
2261694 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
2261746 AATAATTTGA
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
59 104 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:2261777 original size:16 final size:16
Alignment explanation
Indices: 2261756--2261797 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
2261746 AATAATTTGA
*
2261756 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
2261772 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
2261788 TAGTTTTAAT
1 TAATTTTAAT
2261798 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:2261781 original size:22 final size:23
Alignment explanation
Indices: 2261771--2261826 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
2261761 TTACTAACAA
* * *
2261771 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
2261793 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
2261816 TTAATTTTAAT
1 TTAATTTTAAT
2261827 TTTAATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:2262896 original size:18 final size:16
Alignment explanation
Indices: 2262861--2262893 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2262851 TCTTACAATC
2262861 AAACAGACCCTCAGAG
1 AAACAGACCCTCAGAG
2262877 AAACAGACCCTCAGAG
1 AAACAGACCCTCAGAG
2262893 A
1 A
2262894 GAATGATCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.30, G:0.18, T:0.06
Consensus pattern (16 bp):
AAACAGACCCTCAGAG
Found at i:2266561 original size:22 final size:23
Alignment explanation
Indices: 2266536--2266582 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
2266526 TTTAGCTCGA
2266536 ATTTTTCT-ATTATTTTCCTGTT
1 ATTTTTCTCATTATTTTCCTGTT
**
2266558 A-TTTTCTCATTATTTTGTTGTT
1 ATTTTTCTCATTATTTTCCTGTT
2266580 ATT
1 ATT
2266583 GTTTGGATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
21 6 0.29
22 14 0.67
23 1 0.05
ACGTcount: A:0.15, C:0.11, G:0.06, T:0.68
Consensus pattern (23 bp):
ATTTTTCTCATTATTTTCCTGTT
Found at i:2269695 original size:27 final size:26
Alignment explanation
Indices: 2269660--2269714 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
2269650 TAAAATTAAA
* * *
2269660 AATATTTTTTATAATTTTACACTTTTT
1 AATAGTTTTAATAATTTTA-AATTTTT
*
2269687 AATAGTTTTAATATTTTTAAATTTTT
1 AATAGTTTTAATAATTTTAAATTTTT
2269713 AA
1 AA
2269715 AAACAATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (26 bp):
AATAGTTTTAATAATTTTAAATTTTT
Found at i:2269715 original size:8 final size:9
Alignment explanation
Indices: 2269660--2269714 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
2269650 TAAAATTAAA
2269660 AATATTTTT
1 AATATTTTT
* *
2269669 TATAATTTT
1 AATATTTTT
*
2269678 ACA-CTTTTT
1 A-ATATTTTT
*
2269687 AATAGTTTT
1 AATATTTTT
2269696 AATATTTTT
1 AATATTTTT
2269705 AA-ATTTTT
1 AATATTTTT
2269713 AA
1 AA
2269715 AAACAATTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
8 9 0.25
9 26 0.72
10 1 0.03
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (9 bp):
AATATTTTT
Found at i:2269919 original size:20 final size:20
Alignment explanation
Indices: 2269891--2269944 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
2269881 TAGAAAAATA
2269891 AATGATTTTTTAAATAATTTT
1 AATG-TTTTTTAAATAATTTT
*
2269912 TATGTTTTTT-AATAATTTT
1 AATGTTTTTTAAATAATTTT
*
2269931 AATGATTTTTAAAT
1 AATGTTTTTTAAAT
2269945 TTTAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 17 0.59
20 9 0.31
21 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
AATGTTTTTTAAATAATTTT
Found at i:2277334 original size:27 final size:28
Alignment explanation
Indices: 2277295--2277350 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
2277285 TGTTGAACCC
*
2277295 TATTTTAACA-TTTTGCAATTTTTATTT
1 TATTTTAACATTTTTACAATTTTTATTT
2277322 TATTTTATA-ATTTTTACAATTTTTATTT
1 TATTTTA-ACATTTTTACAATTTTTATTT
2277350 T
1 T
2277351 TTGTAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 8 0.31
28 18 0.69
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (28 bp):
TATTTTAACATTTTTACAATTTTTATTT
Found at i:2277336 original size:9 final size:9
Alignment explanation
Indices: 2277324--2277498 Score: 68
Period size: 9 Copynumber: 19.4 Consensus size: 9
2277314 TTTTATTTTA
2277324 TTTTATAAT
1 TTTTATAAT
*
2277333 TTTTACAAT
1 TTTTATAAT
2277342 TTTTAT--T
1 TTTTATAAT
*
2277349 TTTTGTAAT
1 TTTTATAAT
*
2277358 TTATAT-A-
1 TTTTATAAT
2277365 TTTT-TAAT
1 TTTTATAAT
*
2277373 TTTTATAAA
1 TTTTATAAT
*
2277382 ATTTA-AACT
1 TTTTATAA-T
*
2277391 TTTCGAT-AT
1 TTT-TATAAT
2277400 TTTTATAATAT
1 TTTTAT-A-AT
*
2277411 TTTTAAATAT
1 TTTTATA-AT
2277421 TTTTCATAAT
1 TTTT-ATAAT
2277431 TTTTAT-AT
1 TTTTATAAT
*
2277439 TTTGT-T-CT
1 TTT-TATAAT
*
2277447 TTTAATAAT
1 TTTTATAAT
2277456 TTTTA-AAT
1 TTTTATAAT
2277464 GCTTTT-TGAAT
1 --TTTTAT-AAT
2277475 TTTTAATAAT
1 TTTT-ATAAT
*
2277485 TTATATAACT
1 TTTTATAA-T
2277495 TTTT
1 TTTT
2277499 GTCATCTATA
Statistics
Matches: 124, Mismatches: 20, Indels: 43
0.66 0.11 0.23
Matches are distributed among these distances:
6 1 0.01
7 10 0.08
8 23 0.19
9 47 0.38
10 30 0.24
11 13 0.10
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:2277358 original size:25 final size:25
Alignment explanation
Indices: 2277305--2277380 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 25
2277295 TATTTTAACA
*
2277305 TTTTGCAATTTTTATTTTATTTTATAAT
1 TTTTACAATTTTTA--TT-TTTTATAAT
*
2277333 TTTTACAATTTTTATTTTTTGTAAT
1 TTTTACAATTTTTATTTTTTATAAT
* * *
2277358 TTATA-TATTTTTAATTTTTATAA
1 TTTTACAATTTTTATTTTTTATAA
2277381 AATTTAAACT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
24 15 0.36
25 12 0.29
26 2 0.05
28 13 0.31
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (25 bp):
TTTTACAATTTTTATTTTTTATAAT
Found at i:2277412 original size:11 final size:11
Alignment explanation
Indices: 2277396--2277434 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
2277386 AAACTTTTCG
2277396 ATATTTTTATA
1 ATATTTTTATA
2277407 ATATTTTTA-A
1 ATATTTTTATA
2277417 ATATTTTTCATA
1 ATATTTTT-ATA
2277429 AT-TTTT
1 ATATTTT
2277435 ATATTTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 9 0.35
11 14 0.54
12 3 0.12
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (11 bp):
ATATTTTTATA
Found at i:2281196 original size:22 final size:22
Alignment explanation
Indices: 2281149--2281198 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 22
2281139 TTTTAATTTT
2281149 ATATATATTTAATTTAATAATTA
1 ATATATATTTAA-TTAATAATTA
2281172 ATATAT-TTTAA-TAATAATTA
1 ATATATATTTAATTAATAATTA
*
2281192 AAATATA
1 ATATATA
2281199 GATTATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 14 0.56
22 5 0.20
23 6 0.24
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATATATTTAATTAATAATTA
Found at i:2292454 original size:20 final size:19
Alignment explanation
Indices: 2292429--2292469 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
2292419 AGTTTTTTTT
2292429 TTTAAT-ATTCAAAGTTCTAA
1 TTTAATAATT-AAAGTTC-AA
2292449 TTTAATAATTAAAGTTCAA
1 TTTAATAATTAAAGTTCAA
2292468 TT
1 TT
2292470 CATAAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 13 0.65
21 3 0.15
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (19 bp):
TTTAATAATTAAAGTTCAA
Found at i:2293092 original size:21 final size:20
Alignment explanation
Indices: 2293062--2293114 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
2293052 TAAATTATCG
* *
2293062 ATTATGTAAATTAATTCATTTT
1 ATTAT-TAAATT-ATTAATTTA
2293084 ATTATTAAAATTATTAATTTA
1 ATTATT-AAATTATTAATTTA
*
2293105 ATTGTTAAAT
1 ATTATTAAAT
2293115 AATATATGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.15
21 13 0.48
22 10 0.37
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (20 bp):
ATTATTAAATTATTAATTTA
Found at i:2295670 original size:42 final size:42
Alignment explanation
Indices: 2295603--2295737 Score: 153
Period size: 42 Copynumber: 3.2 Consensus size: 42
2295593 GGCTAAACAA
* * *
2295603 AAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGAATGG
1 AAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTGAATGG
* * ** **
2295645 AAGCTTATAAGAGCTGAACGGAAACCCATAAGGGTCAAACAG
1 AAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTGAATGG
* * *
2295687 AAGCTCAAAAGAGCTGAACAAAAACCCATATGGGTTGAATGG
1 AAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTGAATGG
*
2295729 AAACTCATA
1 AAGCTCATA
2295738 TGAGTTAAAC
Statistics
Matches: 73, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (42 bp):
AAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTGAATGG
Found at i:2295675 original size:21 final size:21
Alignment explanation
Indices: 2295608--2295676 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
2295598 AACAAAAGCA
* * *
2295608 CATAAGTGCTAAACAGAAACC
1 CATAAGAGCTGAACGGAAACC
* * * * *
2295629 CATAAGGGTTGAATGGAAGCT
1 CATAAGAGCTGAACGGAAACC
*
2295650 TATAAGAGCTGAACGGAAACC
1 CATAAGAGCTGAACGGAAACC
2295671 CATAAG
1 CATAAG
2295677 GGTCAAACAG
Statistics
Matches: 34, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (21 bp):
CATAAGAGCTGAACGGAAACC
Found at i:2301335 original size:12 final size:11
Alignment explanation
Indices: 2301308--2301332 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2301298 TAAAAATTTT
2301308 AAATATTTTAA
1 AAATATTTTAA
2301319 AAATATTTTAA
1 AAATATTTTAA
2301330 AAA
1 AAA
2301333 ATAATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AAATATTTTAA
Found at i:2301355 original size:23 final size:24
Alignment explanation
Indices: 2301329--2301374 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
2301319 AAATATTTTA
*
2301329 AAAAATA-ATATTTTTTTAAAAAT
1 AAAAATACATAATTTTTTAAAAAT
2301352 AAAAATACTATAATTTTTTAAAA
1 AAAAATAC-ATAATTTTTTAAAA
2301375 GAAATTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
25 13 0.65
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
AAAAATACATAATTTTTTAAAAAT
Found at i:2303461 original size:31 final size:31
Alignment explanation
Indices: 2303423--2303484 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
2303413 ACAGAATTCG
2303423 GATGATGTTCTCGTTTGTTTCTTTTGAAAAT
1 GATGATGTTCTCGTTTGTTTCTTTTGAAAAT
2303454 GATGATGTTCTCGTTTGTTTCTTTTGAAAAT
1 GATGATGTTCTCGTTTGTTTCTTTTGAAAAT
2303485 AGACTCATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (31 bp):
GATGATGTTCTCGTTTGTTTCTTTTGAAAAT
Found at i:2327446 original size:30 final size:30
Alignment explanation
Indices: 2327371--2327448 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 30
2327361 AAAAAAGACC
* * *
2327371 AATTTACTCTTTGATTTAGCGTATATGAATT
1 AATTTACTC-ATGATTTGGCGAATATGAATT
** * *
2327402 AATTTGTTCATGATTTGGCGAATGTGGATT
1 AATTTACTCATGATTTGGCGAATATGAATT
*
2327432 AATTTACTCCTGATTTG
1 AATTTACTCATGATTTG
2327449 AGTAGAAAGA
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
30 30 0.81
31 7 0.19
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (30 bp):
AATTTACTCATGATTTGGCGAATATGAATT
Found at i:2332114 original size:15 final size:16
Alignment explanation
Indices: 2332082--2332114 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2332072 TGCTGCTGTT
*
2332082 AGTTGCCATTCAAATG
1 AGTTGCCAATCAAATG
2332098 AGTTGCCAATC-AATG
1 AGTTGCCAATCAAATG
2332113 AG
1 AG
2332115 CTGTGTCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.27
Consensus pattern (16 bp):
AGTTGCCAATCAAATG
Found at i:2334639 original size:30 final size:28
Alignment explanation
Indices: 2334601--2334660 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
2334591 ATTAGACCTG
*
2334601 AATTTTGAAATCTGAAAAGTAGAGG-ATTA
1 AATTTTGAAA-ATG-AAAGTAGAGGCATTA
2334630 AATTCTTGAAAATGAAAGTAGAGGCATTA
1 AATT-TTGAAAATGAAAGTAGAGGCATTA
2334659 AA
1 AA
2334661 CTCCAAATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 10 0.36
29 12 0.43
30 6 0.21
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.28
Consensus pattern (28 bp):
AATTTTGAAAATGAAAGTAGAGGCATTA
Found at i:2346059 original size:29 final size:30
Alignment explanation
Indices: 2346020--2346077 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 30
2346010 GGGTCAACTT
2346020 TTTTCTCGCCTATACAATGACCCTATCTTG
1 TTTTCTCGCCTATACAATGACCCTATCTTG
2346050 TTTT-TCGCCTATACAATGACCCTATCTT
1 TTTTCTCGCCTATACAATGACCCTATCTT
2346078 TTGTGCCTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.21, C:0.29, G:0.09, T:0.41
Consensus pattern (30 bp):
TTTTCTCGCCTATACAATGACCCTATCTTG
Found at i:2349376 original size:60 final size:60
Alignment explanation
Indices: 2349309--2349423 Score: 167
Period size: 60 Copynumber: 1.9 Consensus size: 60
2349299 ATAAAATATA
* * * * *
2349309 ATTTAGTTTTTGAACTTGACAATTTTTCTTAACTTAGTCCCTAAACCTTTTTTAATTCAC
1 ATTTAGTTTCTGAACTTAACAACTTTTCTTAACTTAATCCCAAAACCTTTTTTAATTCAC
* *
2349369 ATTTAGTTTCTGAACTTAACAACTTTTCTTAATTTAATCCCAAAACTTTTTTTAA
1 ATTTAGTTTCTGAACTTAACAACTTTTCTTAACTTAATCCCAAAACCTTTTTTAA
2349424 ACCACAATAG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.30, C:0.17, G:0.05, T:0.48
Consensus pattern (60 bp):
ATTTAGTTTCTGAACTTAACAACTTTTCTTAACTTAATCCCAAAACCTTTTTTAATTCAC
Found at i:2349452 original size:59 final size:59
Alignment explanation
Indices: 2349316--2349454 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 59
2349306 ATAATTTAGT
* * * ** *
2349316 TTTTGAACTTGACAATTTTTCTTAACTTAGTCCCTAAACCTTTTTTAATTCACATTTAG
1 TTTTGAACTTGACAACTTTTCTTAACTTAATCCCAAAACCTTTTTTAAACCACATATAG
* * *
2349375 TTTCTGAACTTAACAACTTTTCTTAATTTAATCCCAAAACTTTTTTTAAACCACA-ATAG
1 TTT-TGAACTTGACAACTTTTCTTAACTTAATCCCAAAACCTTTTTTAAACCACATATAG
*
2349434 TTTTGAAACTTGATAACTTTT
1 TTTTG-AACTTGACAACTTTT
2349455 TCCAATGTTG
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
58 2 0.03
59 22 0.33
60 43 0.64
ACGTcount: A:0.31, C:0.18, G:0.06, T:0.45
Consensus pattern (59 bp):
TTTTGAACTTGACAACTTTTCTTAACTTAATCCCAAAACCTTTTTTAAACCACATATAG
Found at i:2354354 original size:300 final size:296
Alignment explanation
Indices: 2353806--2354384 Score: 731
Period size: 299 Copynumber: 1.9 Consensus size: 296
2353796 CAATTCACTG
* * * * ** * *
2353806 AGATAATAATTGTGTATATTAAAACAAAATTGTATAAGTTATATTAAAATGAAGTTTTTGTTGAG
1 AGATAATAATTGTGTATATTAAAACAAAAATGTATAAGATATATGAAAATAAAACTTTGGTTGAA
* * *
2353871 TGATAAATTTAATGTTTTAGTAATCCAATTGGTGCGAGTTCGAATTCCACCATATGCATATTTAT
66 TAATAAATTTAAGGTTTTAGTAATCCAATTGGTGCGAGTTCGAACTCCACCA-ATGCATATTTAT
* *
2353936 TGATTTTTGTTTAAATAGAAAACTAAAATACCCTCGAATAATTTAACTTTTTTTAATTACAAAAG
130 TGATTTTTGTTAAAATAGAAAACTAAAATACCCTCGAATAATATAACTTTTTTTAATTACAAAAG
* * *
2354001 GATATTTTCATAATTTCTCAACCGAGTTGGTGATCCGGTTGAAGGTGACACCAACTCAG-CTAGA
195 GACATTTTCATAATTTCTCAACCGAGTTAGTGACCCGGTTGAAGGTGACACCAACTCAGTC-AGA
2354065 AGCTTAATAAAACAGTATAGATATATAAACAACTAATGT
259 AGCTTAAT-AAACAGTATAGATATATAAACAACTAATGT
*
2354104 AGATAATAAATTGTGTATATTAAAATAAAAATGTATAAGATATATGAAAATAAAACTTTGGTTGA
1 AGATAAT-AATTGTGTATATTAAAACAAAAATGTATAAGATATATGAAAATAAAACTTTGGTTGA
* * *
2354169 ATAATAAATTTAAGGTTTTAGTAATTCAATTGGCATG-G-GTT-TAACTCTTACC-ATGCATATT
65 ATAATAAATTTAAGGTTTTAGTAATCCAATTGG--TGCGAGTTCGAACTC-CACCAATGCATA-T
*
2354230 TTAATTGGTTTTTGTTAAAAT-GAAAGGACTAAAATACCCTCGAATAATATAACTTTTTTTAATT
126 TT-ATTGATTTTTGTTAAAATAGAAA--ACTAAAATACCCTCGAATAATATAACTTTTTTTAATT
*** ** *
2354294 ATGGATTGACATTTTCATAATTTC-CTAATCGAGTTAGTGACCCGGTTGAAGGTGACACCAACTC
188 ACAAAAGGACATTTTCATAATTTCTC-AACCGAGTTAGTGACCCGGTTGAAGGTGACACCAACTC
** *
2354358 AGTCAGGGGCTTAATAAATAGTATAGA
252 AGTCAGAAGCTTAATAAACAGTATAGA
2354385 AGCATATAAT
Statistics
Matches: 241, Mismatches: 30, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
297 7 0.03
298 18 0.07
299 112 0.46
300 101 0.42
301 3 0.01
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (296 bp):
AGATAATAATTGTGTATATTAAAACAAAAATGTATAAGATATATGAAAATAAAACTTTGGTTGAA
TAATAAATTTAAGGTTTTAGTAATCCAATTGGTGCGAGTTCGAACTCCACCAATGCATATTTATT
GATTTTTGTTAAAATAGAAAACTAAAATACCCTCGAATAATATAACTTTTTTTAATTACAAAAGG
ACATTTTCATAATTTCTCAACCGAGTTAGTGACCCGGTTGAAGGTGACACCAACTCAGTCAGAAG
CTTAATAAACAGTATAGATATATAAACAACTAATGT
Found at i:2356618 original size:50 final size:50
Alignment explanation
Indices: 2356503--2356745 Score: 333
Period size: 50 Copynumber: 4.8 Consensus size: 50
2356493 GATAATAACA
* ** *
2356503 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTTGG
* * * * * *
2356554 TGCCCATGCCATGTCCCAGACATTGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
*
2356604 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
* * *
2356654 TGCCTACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCGTCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
* *
2356704 TGCCTACGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
2356746 TTACCCAAAT
Statistics
Matches: 172, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 140 0.81
51 32 0.19
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
Found at i:2356861 original size:13 final size:13
Alignment explanation
Indices: 2356840--2356871 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2356830 GCTTGGATCA
*
2356840 TCATCAAATAAAT
1 TCATAAAATAAAT
2356853 TCATAAAATAAAT
1 TCATAAAATAAAT
2356866 TCATAA
1 TCATAA
2356872 TTGCTGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:2371092 original size:15 final size:13
Alignment explanation
Indices: 2371069--2371116 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
2371059 ATATAGATAA
2371069 AAAAAATTTATAT
1 AAAAAATTTATAT
*
2371082 AACAAATATTTTTAT
1 AA-AAA-ATTTATAT
2371097 AAAAAATTTGATAT
1 AAAAAATTT-ATAT
2371111 AAAAAA
1 AAAAAA
2371117 ATGAAACTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 6 0.20
14 15 0.50
15 9 0.30
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (13 bp):
AAAAAATTTATAT
Found at i:2371117 original size:15 final size:14
Alignment explanation
Indices: 2371068--2371118 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
2371058 GATATAGATA
2371068 AAAAAAATTTATAT
1 AAAAAAATTTATAT
* *
2371082 AACAAATATTTTTAT
1 AA-AAAAATTTATAT
2371097 -AAAAAATTTGATAT
1 AAAAAAATTT-ATAT
2371111 AAAAAAAT
1 AAAAAAAT
2371119 GAAACTTTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
13 7 0.23
14 6 0.20
15 17 0.57
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (14 bp):
AAAAAAATTTATAT
Found at i:2378147 original size:21 final size:22
Alignment explanation
Indices: 2378112--2378161 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
2378102 TTTTTGGTAG
*
2378112 AAATTATTTAAAAATTATTATT
1 AAATTATTAAAAAATTATTATT
*
2378134 AAATT-TTAAAAAATTATTA-A
1 AAATTATTAAAAAATTATTATT
2378154 AAATTATT
1 AAATTATT
2378162 TTTAAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 5 0.20
21 15 0.60
22 5 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AAATTATTAAAAAATTATTATT
Found at i:2378151 original size:18 final size:19
Alignment explanation
Indices: 2378118--2378154 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
2378108 GTAGAAATTA
2378118 TTTAAAAATTATTATTAAAT
1 TTTAAAAA-TATTATTAAAT
2378138 TTTAAAAA-ATTATTAAA
1 TTTAAAAATATTATTAAA
2378155 AATTATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTAAAAATATTATTAAAT
Found at i:2378155 original size:10 final size:10
Alignment explanation
Indices: 2378112--2378195 Score: 59
Period size: 10 Copynumber: 8.3 Consensus size: 10
2378102 TTTTTGGTAG
2378112 AAATTATTTAA
1 AAATTA-TTAA
*
2378123 AAATTATTATT
1 AAATTATTA-A
2378134 AAATT-TTAAA
1 AAATTATT-AA
2378144 AAATTATTAA
1 AAATTATTAA
**
2378154 AAATTATTTTT
1 AAATTA-TTAA
*
2378165 AAA--ATGAA
1 AAATTATTAA
2378173 AAA-TATTTAA
1 AAATTA-TTAA
2378183 AAATTATTAA
1 AAATTATTAA
2378193 AAA
1 AAA
2378196 CCACGCTTGG
Statistics
Matches: 58, Mismatches: 8, Indels: 15
0.72 0.10 0.19
Matches are distributed among these distances:
8 4 0.07
9 2 0.03
10 31 0.53
11 21 0.36
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (10 bp):
AAATTATTAA
Found at i:2378157 original size:31 final size:30
Alignment explanation
Indices: 2378112--2378191 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
2378102 TTTTTGGTAG
*
2378112 AAATTATTTAAAAATTATTATTAAATTTTAAA
1 AAATTATTTAAAAATTATTATTAAA--ATAAA
* *
2378144 AAATTA-TTAAAAATTATTTTTAAAATGAA
1 AAATTATTTAAAAATTATTATTAAAATAAA
2378173 AAA-TATTTAAAAATTATTA
1 AAATTATTTAAAAATTATTA
2378192 AAAACCACGC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
28 2 0.05
29 18 0.42
31 17 0.40
32 6 0.14
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (30 bp):
AAATTATTTAAAAATTATTATTAAAATAAA
Found at i:2378184 original size:29 final size:30
Alignment explanation
Indices: 2378116--2378191 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 30
2378106 TGGTAGAAAT
* *
2378116 TATTTAAAAATTATTATTAAATTTTAAAAA
1 TATTTAAAAATTATTATTAAATATGAAAAA
*
2378146 -ATTATTAAAAATTATTTTTAAA-ATGAAAAA
1 TA-T-TTAAAAATTATTATTAAATATGAAAAA
2378176 TATTTAAAAATTATTA
1 TATTTAAAAATTATTA
2378192 AAAACCACGC
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
29 13 0.33
30 8 0.21
31 18 0.46
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (30 bp):
TATTTAAAAATTATTATTAAATATGAAAAA
Found at i:2378189 original size:60 final size:59
Alignment explanation
Indices: 2378078--2378191 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 59
2378068 ATAAGTGATT
* *** *
2378078 TTTTAAAAAATTATTTAAAATTTATTTTTGGTAGAAATTATTTAAAAATTATTATTAAA
1 TTTTAAAAAATTATTTAAAAATTATTTTTAAAAGAAAATATTTAAAAATTATTATTAAA
2378137 TTTTAAAAAATTA-TTAAAAATTATTTTTAAAATGAAAAATATTTAAAAATTATTA
1 TTTTAAAAAATTATTTAAAAATTATTTTTAAAA-G-AAAATATTTAAAAATTATTA
2378192 AAAACCACGC
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 15 0.31
59 14 0.29
60 19 0.40
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (59 bp):
TTTTAAAAAATTATTTAAAAATTATTTTTAAAAGAAAATATTTAAAAATTATTATTAAA
Found at i:2384085 original size:13 final size:13
Alignment explanation
Indices: 2384067--2384093 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2384057 ATTTAGTATT
2384067 TATATAATAAATA
1 TATATAATAAATA
2384080 TATATAATAAATA
1 TATATAATAAATA
2384093 T
1 T
2384094 TTATTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATATAATAAATA
Found at i:2395776 original size:25 final size:24
Alignment explanation
Indices: 2395732--2395778 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
2395722 AAAATACTTT
*
2395732 TTAGAGAAAATGCTTTTGAAAAGC
1 TTAGAGAAAATGCTTGTGAAAAGC
2395756 TTAGAAGAAAAGTGC-TGTGAAAA
1 TTAG-AGAAAA-TGCTTGTGAAAA
2395779 AAATGTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 13 0.65
26 3 0.15
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (24 bp):
TTAGAGAAAATGCTTGTGAAAAGC
Found at i:2396028 original size:32 final size:31
Alignment explanation
Indices: 2395992--2396076 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 31
2395982 AAACATAAAT
* *
2395992 TATTTAAAAAA-CTTAAATATAATAATAATTTG
1 TATTTAAAAAATC-T-AATATAATAATAAATTA
* *
2396024 TATTTAAATAATCTAATATAATGATAAATTA
1 TATTTAAAAAATCTAATATAATAATAAATTA
* * *
2396055 TATTTAAATAATTTGATATAAT
1 TATTTAAAAAATCTAATATAAT
2396077 GATACATAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
31 34 0.74
32 11 0.24
33 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (31 bp):
TATTTAAAAAATCTAATATAATAATAAATTA
Found at i:2396077 original size:31 final size:31
Alignment explanation
Indices: 2396007--2396080 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
2395997 AAAAAACTTA
* * *
2396007 AATATAATAATAATTTGTATTTAAATAATCT
1 AATATAATGATAAATTATATTTAAATAATCT
*
2396038 AATATAATGATAAATTATATTTAAATAATTT
1 AATATAATGATAAATTATATTTAAATAATCT
*
2396069 GATATAATGATA
1 AATATAATGATA
2396081 CATAAAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.50, C:0.01, G:0.05, T:0.43
Consensus pattern (31 bp):
AATATAATGATAAATTATATTTAAATAATCT
Found at i:2396094 original size:31 final size:31
Alignment explanation
Indices: 2396028--2396101 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
2396018 AATTTGTATT
* * *
2396028 TAAATAATCTAATATAATGATAAATTATATT
1 TAAATAATCTAATATAATGATAAATAAAATA
* * *
2396059 TAAATAATTTGATATAATGATACATAAAATA
1 TAAATAATCTAATATAATGATAAATAAAATA
2396090 TAAATTAATCTA
1 TAAA-TAATCTA
2396102 TGTAACAGCC
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
31 29 0.85
32 5 0.15
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (31 bp):
TAAATAATCTAATATAATGATAAATAAAATA
Found at i:2397300 original size:24 final size:23
Alignment explanation
Indices: 2397239--2397292 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
2397229 CGAACACACC
* * * *
2397239 ATAGCTCACAAGATCGTCCTGTT
1 ATAGCTCACATGAGCATCCTGAT
2397262 ATAGCTCACATGAGCATCCTGAT
1 ATAGCTCACATGAGCATCCTGAT
2397285 ATAAGCTC
1 AT-AGCTC
2397293 TCTTGAGCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (23 bp):
ATAGCTCACATGAGCATCCTGAT
Found at i:2405111 original size:17 final size:18
Alignment explanation
Indices: 2405089--2405122 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2405079 TCAACGTCAA
*
2405089 CCATCT-CTACATCTTCT
1 CCATCTCCTAAATCTTCT
2405106 CCATCTCCTAAATCTTC
1 CCATCTCCTAAATCTTC
2405123 GTCTTCGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.41, G:0.00, T:0.38
Consensus pattern (18 bp):
CCATCTCCTAAATCTTCT
Found at i:2417452 original size:25 final size:26
Alignment explanation
Indices: 2417391--2417462 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
2417381 TGATTCTTTT
* * *
2417391 TAAAAAAT-TAATAATCAAATTTAAC
1 TAAAAAATATAAAAATAAAAATTAAC
2417416 TAATAAAA-ATAAAAATAAAAATT-AC
1 TAA-AAAATATAAAAATAAAAATTAAC
*
2417441 TAAAAAATATAAACATTAAAAA
1 TAAAAAATATAAA-AATAAAAA
2417463 CTAAATTTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 4 0.10
25 13 0.33
26 22 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (26 bp):
TAAAAAATATAAAAATAAAAATTAAC
Found at i:2417465 original size:23 final size:22
Alignment explanation
Indices: 2417413--2417467 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 22
2417403 AATCAAATTT
2417413 AACTAATAAAAATAAAAATAAAA
1 AACTAA-AAAAATAAAAATAAAA
* *
2417436 ATTACTAAAAAATATAAACATTAAA
1 A--ACTAAAAAA-ATAAAAATAAAA
2417461 AACTAAA
1 AACTAAA
2417468 TTTATTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 7 0.26
24 4 0.15
25 16 0.59
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (22 bp):
AACTAAAAAAATAAAAATAAAA
Found at i:2423599 original size:3 final size:3
Alignment explanation
Indices: 2423591--2423643 Score: 79
Period size: 3 Copynumber: 17.7 Consensus size: 3
2423581 AACAATAACA
* * *
2423591 ACC ACC ACC ACC ACC ACC ACC ACC ACC ATC ACC ACC ATC ACT ACC ACC
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC
2423639 ACC AC
1 ACC AC
2423644 AACAACAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.60, G:0.00, T:0.06
Consensus pattern (3 bp):
ACC
Found at i:2426287 original size:22 final size:22
Alignment explanation
Indices: 2426253--2426295 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2426243 TATTCAAATA
2426253 ATAATAACAAAAT-AGTAGCAAT
1 ATAATAACAAAATGA-TAGCAAT
* *
2426275 ATAATAGCGAAATGATAGCAA
1 ATAATAACAAAATGATAGCAA
2426296 AACAACATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAATAACAAAATGATAGCAAT
Found at i:2434635 original size:13 final size:13
Alignment explanation
Indices: 2434617--2434641 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2434607 ATTATATTAA
2434617 TAAATTTTTAAAC
1 TAAATTTTTAAAC
2434630 TAAATTTTTAAA
1 TAAATTTTTAAA
2434642 AATTTTAAAA
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:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAATTTTTAAAC
Done.