Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 35 of 444
Found at i:8564547 original size:20 final size:20
Alignment explanation
Indices: 8564510--8564549 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8564500 AAAATGTTAA
**
8564510 AATCTTTATTTGACCATTTT
1 AATCTTTATTACACCATTTT
*
8564530 AATCTTTATTACAGCATTTT
1 AATCTTTATTACACCATTTT
8564550 TATGAATGTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.53
Consensus pattern (20 bp):
AATCTTTATTACACCATTTT
Found at i:8570518 original size:10 final size:10
Alignment explanation
Indices: 8570503--8570533 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
8570493 ATCGTGTTGA
8570503 TTACATAATT
1 TTACATAATT
8570513 TTACATAATT
1 TTACATAATT
8570523 TTACATAATT
1 TTACATAATT
8570533 T
1 T
8570534 GGGTTCGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.52
Consensus pattern (10 bp):
TTACATAATT
Found at i:8570982 original size:17 final size:18
Alignment explanation
Indices: 8570960--8571001 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
8570950 TTTTATATTG
* *
8570960 ATTTAATAATTTATA-AA
1 ATTTAAAAATATATATAA
8570977 ATTTAAAAATATATATAA
1 ATTTAAAAATATATATAA
8570995 ATTTAAA
1 ATTTAAA
8571002 TTTTCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTAAAAATATATATAA
Found at i:8572193 original size:30 final size:30
Alignment explanation
Indices: 8572159--8572219 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
8572149 AATAAATGTG
*
8572159 AAATTACACTTT-GTCCTTTAAAAATGATAA
1 AAATTACA-TTTAATCCTTTAAAAATGATAA
** *
8572189 AAATTTGATTTAATCCTTTAAAAATTATAA
1 AAATTACATTTAATCCTTTAAAAATGATAA
8572219 A
1 A
8572220 GATATAGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (30 bp):
AAATTACATTTAATCCTTTAAAAATGATAA
Found at i:8573965 original size:16 final size:18
Alignment explanation
Indices: 8573924--8573969 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
8573914 ATATAGTATA
*
8573924 AAATAAAATATATTATTT
1 AAATAAAATATATTATTC
*
8573942 ATAT-AAAT-TATT-TTC
1 AAATAAAATATATTATTC
8573957 AAATAAAATATAT
1 AAATAAAATATAT
8573970 ACTAAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
15 5 0.22
16 8 0.35
17 7 0.30
18 3 0.13
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATAAAATATATTATTC
Found at i:8579565 original size:14 final size:15
Alignment explanation
Indices: 8579540--8579572 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
8579530 CATTAACATT
8579540 AAAAGAAAGAAAAAG
1 AAAAGAAAGAAAAAG
*
8579555 AAAAG-AAGAAACAG
1 AAAAGAAAGAAAAAG
8579569 AAAA
1 AAAA
8579573 CCATAAGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAGAAAGAAAAAG
Found at i:8581842 original size:18 final size:17
Alignment explanation
Indices: 8581814--8581873 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 17
8581804 TTATAAAAAT
8581814 AAATTTAAAAAACATTA
1 AAATTTAAAAAACATTA
*
8581831 AAATTATAAAAAAGATTA
1 AAATT-TAAAAAACATTA
8581849 AAATTTATAAAAACTATTA
1 AAATTTA-AAAAAC-ATTA
8581868 GAAATT
1 -AAATT
8581874 AATTAAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
17 7 0.19
18 21 0.57
19 4 0.11
20 5 0.14
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
AAATTTAAAAAACATTA
Found at i:8581881 original size:20 final size:19
Alignment explanation
Indices: 8581821--8581882 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
8581811 AATAAATTTA
8581821 AAAAAC-ATTAAAATT-AT
1 AAAAACTATTAAAATTAAT
** *
8581838 AAAAAAGATTAAAATTTAT
1 AAAAACTATTAAAATTAAT
8581857 AAAAACTATTAGAAATTAATT
1 AAAAACTATTA-AAATTAA-T
8581878 AAAAA
1 AAAAA
8581883 TCACAAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
17 5 0.14
18 9 0.24
19 11 0.30
20 6 0.16
21 6 0.16
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (19 bp):
AAAAACTATTAAAATTAAT
Found at i:8584186 original size:11 final size:12
Alignment explanation
Indices: 8584162--8584201 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
8584152 AGGAAACAGG
8584162 AAAAATCAGAAA
1 AAAAATCAGAAA
*
8584174 AAAAATAGCAAAAA
1 AAAAAT--CAGAAA
8584188 AAAAATCAGAAA
1 AAAAATCAGAAA
8584200 AA
1 AA
8584202 TTCTCAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 13 0.54
14 11 0.46
ACGTcount: A:0.78, C:0.07, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAAATCAGAAA
Found at i:8586864 original size:22 final size:21
Alignment explanation
Indices: 8586833--8586921 Score: 66
Period size: 22 Copynumber: 4.4 Consensus size: 21
8586823 TCATTGAAAT
8586833 TTATTAAAAATTTAAAATAAAA
1 TTATTAAAAATTTAAAA-AAAA
* *
8586855 TTATTTAAAATTTATAAAAAA
1 TTATTAAAAATTTAAAAAAAA
8586876 -TA--AAAAA--TAATAAAAAA
1 TTATTAAAAATTTAA-AAAAAA
* *
8586893 -T-TTAAAAATATTAATAATAA
1 TTATTAAAAAT-TTAAAAAAAA
8586913 TTATTAAAA
1 TTATTAAAA
8586922 TATTAACGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
16 2 0.04
17 7 0.13
18 9 0.17
20 6 0.11
21 8 0.15
22 21 0.40
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TTATTAAAAATTTAAAAAAAA
Found at i:8587115 original size:22 final size:22
Alignment explanation
Indices: 8587088--8587136 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
8587078 ATAGAGTTAA
8587088 TATTTATTATTTAAAAAATTAT
1 TATTTATTATTTAAAAAATTAT
*
8587110 TATTTATTATTTAACAAATTAT
1 TATTTATTATTTAAAAAATTAT
8587132 T-TTTA
1 TATTTA
8587137 AATTTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTTATTATTTAAAAAATTAT
Found at i:8588934 original size:50 final size:51
Alignment explanation
Indices: 8588829--8588935 Score: 135
Period size: 50 Copynumber: 2.1 Consensus size: 51
8588819 TGGTATAGTT
* * * *
8588829 TGTAAATGTTGCTAGCTAAATTTGTTAAATCAAGACTAAATTGACAAAATG
1 TGTAAATGTTGCAAGCTAAATCTGTTAAATCAAGACGAAATTGACAAAATA
* * * *
8588880 TGTAAATGTTG-AAGGTAAATCTGTTAAATCAAGACGGAATTGATAGAATA
1 TGTAAATGTTGCAAGCTAAATCTGTTAAATCAAGACGAAATTGACAAAATA
8588930 TGTAAA
1 TGTAAA
8588936 CTTTGAGGGC
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
50 37 0.77
51 11 0.23
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (51 bp):
TGTAAATGTTGCAAGCTAAATCTGTTAAATCAAGACGAAATTGACAAAATA
Found at i:8590839 original size:16 final size:17
Alignment explanation
Indices: 8590816--8590860 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
8590806 TAAATTTATT
8590816 TAAAAAATTCAAAAAAA
1 TAAAAAATTCAAAAAAA
*
8590833 T-AAAAATT-ATGAAAAA
1 TAAAAAATTCA-AAAAAA
8590849 TAAAAAATTCAA
1 TAAAAAATTCAA
8590861 TTTTTCTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
15 1 0.04
16 13 0.57
17 8 0.35
18 1 0.04
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (17 bp):
TAAAAAATTCAAAAAAA
Found at i:8592407 original size:21 final size:22
Alignment explanation
Indices: 8592361--8592407 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
8592351 AAATTTTATT
* *
8592361 TATTTATTTTTTAAAAATGTTA
1 TATTTATTTTTAAAAAATGTCA
8592383 TATTT-TTTTTAAAAAAT-TCA
1 TATTTATTTTTAAAAAATGTCA
8592403 CTATT
1 -TATT
8592408 ATAAATATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 15 0.68
22 5 0.23
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.57
Consensus pattern (22 bp):
TATTTATTTTTAAAAAATGTCA
Found at i:8592428 original size:17 final size:16
Alignment explanation
Indices: 8592404--8592438 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
8592394 AAAAATTCAC
8592404 TATTATAAATATAATA
1 TATTATAAATATAATA
*
8592420 TATTCATAAATATAGTA
1 TATT-ATAAATATAATA
8592437 TA
1 TA
8592439 ATAATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (16 bp):
TATTATAAATATAATA
Found at i:8594540 original size:2 final size:2
Alignment explanation
Indices: 8594533--8594563 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8594523 TAGAATCATG
8594533 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8594564 CAACAAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8595894 original size:12 final size:12
Alignment explanation
Indices: 8595872--8595908 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
8595862 CTTTTACCAA
*
8595872 AAAAAAAAAAAG
1 AAAAAACAAAAG
*
8595884 AAAAGACAAAAG
1 AAAAAACAAAAG
8595896 AAAAAACAAAAG
1 AAAAAACAAAAG
8595908 A
1 A
8595909 GAGGCTTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (12 bp):
AAAAAACAAAAG
Found at i:8595899 original size:19 final size:19
Alignment explanation
Indices: 8595872--8595908 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8595862 CTTTTACCAA
*
8595872 AAAAAAAAAAAGAAAAGAC
1 AAAAAAAAAAACAAAAGAC
*
8595891 AAAAGAAAAAACAAAAGA
1 AAAAAAAAAAACAAAAGA
8595909 GAGGCTTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAACAAAAGAC
Found at i:8596944 original size:12 final size:12
Alignment explanation
Indices: 8596927--8596959 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
8596917 TGGCTCGCCC
8596927 ATATTAATTTTT
1 ATATTAATTTTT
8596939 ATATT-ATTTTT
1 ATATTAATTTTT
8596950 ATA-TAATTTT
1 ATATTAATTTT
8596960 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:8597126 original size:30 final size:30
Alignment explanation
Indices: 8597082--8597144 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
8597072 ACTTAACAAG
8597082 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
8597112 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
8597142 CAA
1 CAA
8597145 TAAAATATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:8600569 original size:23 final size:23
Alignment explanation
Indices: 8600543--8600589 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
8600533 GATTTTACTC
8600543 AATGCATATTTGTATGGATTGAT
1 AATGCATATTTGTATGGATTGAT
8600566 AATGCATATTTGTATGGATTGAT
1 AATGCATATTTGTATGGATTGAT
8600589 A
1 A
8600590 GGCATGCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.43
Consensus pattern (23 bp):
AATGCATATTTGTATGGATTGAT
Found at i:8603473 original size:156 final size:156
Alignment explanation
Indices: 8603189--8603500 Score: 588
Period size: 156 Copynumber: 2.0 Consensus size: 156
8603179 TTTCATTATA
8603189 TTTTCTAAATTTAATTGTTGTTTCCTTTCGTAATATTTTATTTTATTTTTGTCTTACTTTTACTC
1 TTTTCTAAATTTAATTGTTGTTTCCTTTCGTAATATTTTATTTTATTTTTGTCTTACTTTTACTC
8603254 TTTTATTTCAAAAAACATAAGATCAAAAATTGAATATGTTAACTGTGGAGTATGCATCATATTTT
66 TTTTATTTCAAAAAACATAAGATCAAAAATTGAATATGTTAACTGTGGAGTATGCATCATATTTT
8603319 CGAACACTTTTAAGCCTTTATCGCAG
131 CGAACACTTTTAAGCCTTTATCGCAG
*
8603345 TTTTCTAAATTTATTTGTTGTTTCCTTTCGTAATATTTTATTTTATTTTTGTCTTACTTTTACTC
1 TTTTCTAAATTTAATTGTTGTTTCCTTTCGTAATATTTTATTTTATTTTTGTCTTACTTTTACTC
* *
8603410 TTTTATTTCAAAAAACATAAGATCAAAAATTGAATATGTTAACTGTGGAGTATGCCTCGTATTTT
66 TTTTATTTCAAAAAACATAAGATCAAAAATTGAATATGTTAACTGTGGAGTATGCATCATATTTT
*
8603475 CGAACACTTTTAAGTCTTTATCGCAG
131 CGAACACTTTTAAGCCTTTATCGCAG
8603501 CCCATATTAT
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 152 1.00
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.48
Consensus pattern (156 bp):
TTTTCTAAATTTAATTGTTGTTTCCTTTCGTAATATTTTATTTTATTTTTGTCTTACTTTTACTC
TTTTATTTCAAAAAACATAAGATCAAAAATTGAATATGTTAACTGTGGAGTATGCATCATATTTT
CGAACACTTTTAAGCCTTTATCGCAG
Found at i:8610721 original size:58 final size:56
Alignment explanation
Indices: 8610585--8610723 Score: 163
Period size: 58 Copynumber: 2.4 Consensus size: 56
8610575 TTTTTAATTC
* * *
8610585 ATTTAATAATAAT-TATATTAAGAATTTTATTAAATTATATATTATTTATTAAATTAT
1 ATTTAATAATAATCT-TATTAA-AATATGATTAAATTATATATTATTTATTAAAATAT
* * * *
8610642 ATTTAGTAATAATCATGTTAAAATATGATTAAATTATTTATTATTTTTATTAAAATAT
1 ATTTAATAATAATCTTATTAAAATATGATTAAATTATATATTA--TTTATTAAAATAT
*
8610700 TTTTAATAATAATCTTATTAAAAT
1 ATTTAATAATAATCTTATTAAAAT
8610724 TTAATAATAA
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
56 19 0.28
57 17 0.25
58 32 0.47
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (56 bp):
ATTTAATAATAATCTTATTAAAATATGATTAAATTATATATTATTTATTAAAATAT
Found at i:8610920 original size:12 final size:11
Alignment explanation
Indices: 8610857--8610921 Score: 64
Period size: 12 Copynumber: 5.7 Consensus size: 11
8610847 AATAATAATT
8610857 TTATATTAAAA
1 TTATATTAAAA
8610868 TTATTATT-AAA
1 TTA-TATTAAAA
8610879 -TATTATTAATAA
1 TTA-TATTAA-AA
8610891 TTATATTAATAA
1 TTATATTAA-AA
8610903 TT-TATTAAAA
1 TTATATTAAAA
8610913 TATATATTA
1 T-TATATTA
8610922 TTTTATTAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
10 10 0.21
11 14 0.29
12 22 0.46
13 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TTATATTAAAA
Found at i:8610928 original size:20 final size:21
Alignment explanation
Indices: 8610860--8610931 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 21
8610850 AATAATTTTA
8610860 TATTAAAATTATTATTAA-ATAT
1 TATTAAAATTA-TATTAATAT-T
8610882 TATTAATAATTATATTAATAATT
1 TATTAA-AATTATATTAAT-ATT
8610905 TATTAAAATATATATT-AT-TT
1 TATTAAAAT-TATATTAATATT
8610925 TATTAAA
1 TATTAAA
8610932 TTGTATTTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
20 9 0.20
22 17 0.37
23 18 0.39
24 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTAAAATTATATTAATATT
Found at i:8611176 original size:44 final size:46
Alignment explanation
Indices: 8611106--8611199 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 46
8611096 ATTACAACAT
*
8611106 CATTCCATTCAACCAAACACAAGAATT-CT-ATTATAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
***
8611150 CATTCCATTCAACCAAACAGTTGAATTACTGATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
8611196 CATT
1 CATT
8611200 ACAGCTCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 24 0.55
45 2 0.05
46 18 0.41
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (46 bp):
CATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTATTC
Found at i:8611202 original size:16 final size:16
Alignment explanation
Indices: 8611181--8611235 Score: 85
Period size: 16 Copynumber: 3.4 Consensus size: 16
8611171 TGAATTACTG
8611181 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
8611197 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
8611213 ATTACAGC-CTTATTCC
1 ATTACAGCTC-TATTCC
8611229 ATTACAG
1 ATTACAG
8611236 TGAACCAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
15 1 0.03
16 35 0.97
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:8620301 original size:28 final size:28
Alignment explanation
Indices: 8620276--8620329 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
8620266 TTCACCAAGA
*
8620276 ACTATCTTATGTGGAAAGTCCGCCAATG
1 ACTATCTTATATGGAAAGTCCGCCAATG
* * *
8620304 ACTGTCTTATATGGGAAGTCTGCCAA
1 ACTATCTTATATGGAAAGTCCGCCAA
8620330 AGACAGTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (28 bp):
ACTATCTTATATGGAAAGTCCGCCAATG
Found at i:8621759 original size:40 final size:40
Alignment explanation
Indices: 8621715--8621795 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
8621705 CCAAATGGAG
*
8621715 TAAAGTTAGACTTGATGGGATATGCTAATGCATGATATCT
1 TAAAGTTAGAATTGATGGGATATGCTAATGCATGATATCT
8621755 TAAAGTTAGAATTGATGGGATATGCTAATGCATGATATCT
1 TAAAGTTAGAATTGATGGGATATGCTAATGCATGATATCT
8621795 T
1 T
8621796 TCAAATCCTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (40 bp):
TAAAGTTAGAATTGATGGGATATGCTAATGCATGATATCT
Found at i:8637191 original size:17 final size:17
Alignment explanation
Indices: 8637150--8637193 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
8637140 TGTTCGAAAT
* * *
8637150 TTTATTTTTTTATTTAT
1 TTTAATTTTTTATGTAA
8637167 TTTAAATTTTTTATGTAA
1 TTT-AATTTTTTATGTAA
8637185 TTTAATTTT
1 TTTAATTTT
8637194 GTTAAATGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTAATTTTTTATGTAA
Found at i:8638721 original size:20 final size:20
Alignment explanation
Indices: 8638696--8638741 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
8638686 CCTAAAAAAG
8638696 AAATAATATAATAAAATAAT
1 AAATAATATAATAAAATAAT
8638716 AAATAATATAATAAAATAAT
1 AAATAATATAATAAAATAAT
8638736 AAATAA
1 AAATAA
8638742 GACCCCAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATAATATAATAAAATAAT
Found at i:8643269 original size:15 final size:16
Alignment explanation
Indices: 8643237--8643269 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8643227 ATAAAATAAA
8643237 ATAAATTATATAAATT
1 ATAAATTATATAAATT
*
8643253 ATAAATT-TATGAATT
1 ATAAATTATATAAATT
8643268 AT
1 AT
8643270 TTCATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
ATAAATTATATAAATT
Found at i:8643347 original size:22 final size:23
Alignment explanation
Indices: 8643305--8643348 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
8643295 ATTTCAAAAA
* *
8643305 ATTAAAATTTCTATATTTTTAAT
1 ATTAAAATCTCTATATATTTAAT
8643328 ATTAAAATCT-TATATATTTAA
1 ATTAAAATCTCTATATATTTAA
8643349 ATAATTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTAAAATCTCTATATATTTAAT
Found at i:8643351 original size:23 final size:24
Alignment explanation
Indices: 8643294--8643356 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
8643284 ATTCTATCTT
* * *
8643294 TATTTCAAAAAATTAAAATTTCTA
1 TATTTTAAATAATTAAAATTTATA
*
8643318 TATTTTTAAT-ATTAAAATCTTATA
1 TATTTTAAATAATTAAAAT-TTATA
8643342 TA-TTTAAATAATTAA
1 TATTTTAAATAATTAA
8643357 TTGATAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
23 14 0.44
24 18 0.56
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (24 bp):
TATTTTAAATAATTAAAATTTATA
Found at i:8648639 original size:13 final size:12
Alignment explanation
Indices: 8648621--8648658 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
8648611 TAGGCTTGCA
8648621 TTATTATTATAAT
1 TTATTATT-TAAT
8648634 TTATTATTTTAAT
1 TTATTA-TTTAAT
8648647 TT-TTATTTAAT
1 TTATTATTTAAT
8648658 T
1 T
8648659 AATCAATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.29
12 3 0.12
13 12 0.50
14 2 0.08
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTATTTAAT
Found at i:8650341 original size:2 final size:2
Alignment explanation
Indices: 8650334--8650369 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
8650324 TCTATGATAA
8650334 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8650370 ATTGACTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8674612 original size:47 final size:47
Alignment explanation
Indices: 8674561--8674654 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
8674551 CCAATTAATG
*
8674561 AAAACGCAATCAAGACATTCTAAAAAACAAACTGAGGTCGTACCTCT
1 AAAACGCAATCAAGACATTCTAAAAAAAAAACTGAGGTCGTACCTCT
8674608 AAAACGCAATCAAGACATTCTAAAAAAAAAACTGAGGTCGTACCTCT
1 AAAACGCAATCAAGACATTCTAAAAAAAAAACTGAGGTCGTACCTCT
8674655 TCCTTGTTCT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.46, C:0.22, G:0.13, T:0.19
Consensus pattern (47 bp):
AAAACGCAATCAAGACATTCTAAAAAAAAAACTGAGGTCGTACCTCT
Found at i:8677872 original size:30 final size:30
Alignment explanation
Indices: 8677827--8677919 Score: 89
Period size: 30 Copynumber: 3.0 Consensus size: 30
8677817 ATTTAATTAC
* *
8677827 TTTTTTAAAATTTAAAAATTTTAAAAAATA
1 TTTTTAAAAAATTAAAAATTTTAAAAAATA
* **
8677857 TTTTTAAAAAATTAAAAATCATT-AAATTTA
1 TTTTTAAAAAATTAAAAAT-TTTAAAAAATA
*
8677887 TTTTTAAAATATATTTTAAAATTTTAAAAAATA
1 TTTTTAAAA-A-A-TTAAAAATTTTAAAAAATA
8677920 ATTAAATGCT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
30 31 0.63
31 3 0.06
32 3 0.06
33 12 0.24
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (30 bp):
TTTTTAAAAAATTAAAAATTTTAAAAAATA
Found at i:8677905 original size:42 final size:44
Alignment explanation
Indices: 8677845--8677926 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 44
8677835 AATTTAAAAA
*
8677845 TTTTAAAAAATATTTTTAAAAAATT-AAAAATCATTAAATTTAT
1 TTTTAAAAAATATTTTTAAAAAATTAAAAAATAATTAAATTTAT
* **
8677888 TTTTAAAATATA-TTTTAAAATTTTAAAAAATAATTAAAT
1 TTTTAAAAAATATTTTTAAAAAATTAAAAAATAATTAAAT
8677927 GCTTACGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 10 0.29
43 24 0.71
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (44 bp):
TTTTAAAAAATATTTTTAAAAAATTAAAAAATAATTAAATTTAT
Found at i:8678654 original size:5 final size:5
Alignment explanation
Indices: 8678644--8678676 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
8678634 TTTATGTATA
*
8678644 TATGG TATGG TATGG TATGG TATAG TAT-G TATG
1 TATGG TATGG TATGG TATGG TATGG TATGG TATG
8678677 TAGCCTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.42
Consensus pattern (5 bp):
TATGG
Found at i:8683211 original size:30 final size:30
Alignment explanation
Indices: 8683170--8683227 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
8683160 GTTTTTGGAT
*
8683170 CACACGAGCGGTTGACATGGCCATGTGCCG
1 CACACGAGCGGTTCACATGGCCATGTGCCG
* *
8683200 CACACGGGCGGTTCACATGGTCATGTGC
1 CACACGAGCGGTTCACATGGCCATGTGC
8683228 TGCTTAGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.29, G:0.33, T:0.19
Consensus pattern (30 bp):
CACACGAGCGGTTCACATGGCCATGTGCCG
Found at i:8683628 original size:47 final size:47
Alignment explanation
Indices: 8683530--8683642 Score: 106
Period size: 47 Copynumber: 2.4 Consensus size: 47
8683520 AGTGTCTTCG
* * * * *
8683530 ATTCTGTATATCCGTATTGAATTCGTTATTCAAAATAATTATGTCTG
1 ATTCTGTATATCTGTATTGAATTCGTTATTAAAAATAATTACGACTA
8683577 ATTCTGTATATCTGTATTG-ATTC-TGTATCTAAAAATAAATT-CGACTA
1 ATTCTGTATATCTGTATTGAATTCGT-TAT-TAAAAAT-AATTACGACTA
** *
8683624 ATTCTAAATATATGTATTG
1 ATTCTGTATATCTGTATTG
8683643 TTTCGATTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
45 1 0.02
46 7 0.13
47 43 0.78
48 4 0.07
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (47 bp):
ATTCTGTATATCTGTATTGAATTCGTTATTAAAAATAATTACGACTA
Found at i:8686886 original size:18 final size:17
Alignment explanation
Indices: 8686846--8686897 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
8686836 AAATTTTAAT
*
8686846 TATTTTTAAAATAAGATTT
1 TATTTTTAAAA-AA-ATTA
8686865 TATTTTTAAAAAAACTTA
1 TATTTTTAAAAAAA-TTA
*
8686883 TATTTTCAAAAAAAT
1 TATTTTTAAAAAAAT
8686898 ATTTTTGTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 2 0.07
18 17 0.57
19 11 0.37
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (17 bp):
TATTTTTAAAAAAATTA
Found at i:8688051 original size:24 final size:24
Alignment explanation
Indices: 8688019--8688066 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
8688009 AGAATAATTC
8688019 AAACATTAGAAAATATCAACTTTT
1 AAACATTAGAAAATATCAACTTTT
*
8688043 AAACATTAGAAAATATCAGCTTTT
1 AAACATTAGAAAATATCAACTTTT
8688067 CTAGAAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (24 bp):
AAACATTAGAAAATATCAACTTTT
Found at i:8690264 original size:20 final size:20
Alignment explanation
Indices: 8690239--8690276 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8690229 TAAGGACGGG
* *
8690239 ATTAAATTAATCATTTTATT
1 ATTAAATGAATCAATTTATT
8690259 ATTAAATGAATCAATTTA
1 ATTAAATGAATCAATTTA
8690277 ATTTTTATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (20 bp):
ATTAAATGAATCAATTTATT
Found at i:8696108 original size:47 final size:47
Alignment explanation
Indices: 8695998--8696109 Score: 147
Period size: 47 Copynumber: 2.4 Consensus size: 47
8695988 TCCGGGATAA
* *
8695998 ACACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGT
1 ACACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGT
* * *
8696045 ACACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-
1 ACACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGT
8696092 ACACATAGTG-TCTCATCG
1 ACACATAGTGCT-TCATCG
8696110 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (47 bp):
ACACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGT
Found at i:8696880 original size:4 final size:4
Alignment explanation
Indices: 8696871--8696899 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
8696861 CCCTTTTCTA
8696871 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
8696900 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:8697942 original size:11 final size:11
Alignment explanation
Indices: 8697926--8697967 Score: 63
Period size: 11 Copynumber: 4.1 Consensus size: 11
8697916 ATATTATAAC
8697926 TTTTATAAAAT
1 TTTTATAAAAT
8697937 TTTTATAAAA-
1 TTTTATAAAAT
8697947 --TTATAAAAT
1 TTTTATAAAAT
8697956 TTTTATAAAAT
1 TTTTATAAAAT
8697967 T
1 T
8697968 ATATATTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 8 0.29
11 20 0.71
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTTATAAAAT
Found at i:8697952 original size:19 final size:19
Alignment explanation
Indices: 8697928--8697970 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
8697918 ATTATAACTT
8697928 TTATAAAATTTTTATAAAA
1 TTATAAAATTTTTATAAAA
8697947 TTATAAAATTTTTATAAAA
1 TTATAAAATTTTTATAAAA
8697966 TTATA
1 TTATA
8697971 TATTAGTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATAAAATTTTTATAAAA
Found at i:8718955 original size:31 final size:31
Alignment explanation
Indices: 8718920--8718980 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
8718910 TTAATTATAC
*
8718920 TTGCTCAA-AATTTACTC-CTTTTGCCACATGA
1 TTGCTCAACAA-TTACTCTC-TTCGCCACATGA
8718951 TTGCTCAACAATTACTCTCTTCGCCACATG
1 TTGCTCAACAATTACTCTCTTCGCCACATG
8718981 TATCTATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 24 0.89
32 3 0.11
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.36
Consensus pattern (31 bp):
TTGCTCAACAATTACTCTCTTCGCCACATGA
Found at i:8720276 original size:50 final size:50
Alignment explanation
Indices: 8720201--8720477 Score: 455
Period size: 50 Copynumber: 5.5 Consensus size: 50
8720191 CCATGGCAAC
8720201 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
8720251 AAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
8720301 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
8720351 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
8720401 AAGTGATAAGTGATAGCTTCAGCTACACTTATTTGATCAAGGACAAATGGC
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT-GA
* * *
8720452 AAGTAAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
8720478 CTGATCAATG
Statistics
Matches: 211, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
50 188 0.89
51 23 0.11
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:8720495 original size:31 final size:31
Alignment explanation
Indices: 8720457--8720515 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
8720447 ATGGCAAGTA
8720457 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAATG
8720488 AAAAGTGGTAGCTTCGGCTACCTGATCA
1 AAAAGTGGTAGCTTCGGCTACCTGATCA
8720516 TCGGCTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAATG
Found at i:8720522 original size:46 final size:46
Alignment explanation
Indices: 8720470--8720561 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
8720460 AGTGGTAGCT
*
8720470 TCGGCTACCTGATCAATGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTTCGGCTACCTGATCA
* * *
8720516 TCGGCTACTTGATTAGTGAAAAATGGTAGCTTCGGCTACCTGATCA
1 TCGGCTACCTGATCAATGAAAAATGGTAGCTTCGGCTACCTGATCA
8720562 GTGAATAGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (46 bp):
TCGGCTACCTGATCAATGAAAAATGGTAGCTTCGGCTACCTGATCA
Found at i:8720554 original size:31 final size:31
Alignment explanation
Indices: 8720516--8720585 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
8720506 TACCTGATCA
* * *
8720516 TCGGCTACTTGATTAGTGAAAAATGGTAGCT
1 TCGGCTACCTGATCAGTGAAAAATGATAGCT
* *
8720547 TCGGCTACCTGATCAGTGAATAGTGATAGCT
1 TCGGCTACCTGATCAGTGAAAAATGATAGCT
8720578 TCGGCTAC
1 TCGGCTAC
8720586 AAGTGACAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (31 bp):
TCGGCTACCTGATCAGTGAAAAATGATAGCT
Found at i:8728450 original size:24 final size:24
Alignment explanation
Indices: 8728423--8728470 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
8728413 ATATATTTTT
8728423 AGTATGGA-TTATGTATATTATATA
1 AGTAT-GATTTATGTATATTATATA
8728447 AGTATGATTTATGTATATTATATA
1 AGTATGATTTATGTATATTATATA
8728471 CAATAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.48
Consensus pattern (24 bp):
AGTATGATTTATGTATATTATATA
Found at i:8731245 original size:9 final size:8
Alignment explanation
Indices: 8731225--8731263 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
8731215 CTGAATTTTC
8731225 TTTTAAAT
1 TTTTAAAT
8731233 TTTTAATAT
1 TTTTAA-AT
*
8731242 TTTTAAAA
1 TTTTAAAT
8731250 TTTTAAGAT
1 TTTTAA-AT
8731259 TTTTA
1 TTTTA
8731264 TAGAAATTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 13 0.48
9 14 0.52
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (8 bp):
TTTTAAAT
Found at i:8731247 original size:17 final size:17
Alignment explanation
Indices: 8731225--8731263 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
8731215 CTGAATTTTC
* *
8731225 TTTTAAATTTTTAATAT
1 TTTTAAAATTTTAAGAT
8731242 TTTTAAAATTTTAAGAT
1 TTTTAAAATTTTAAGAT
8731259 TTTTA
1 TTTTA
8731264 TAGAAATTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTAAAATTTTAAGAT
Found at i:8731742 original size:27 final size:26
Alignment explanation
Indices: 8731691--8731746 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
8731681 AACCACTGAT
*
8731691 AAAATTATATAAGTATCATAATAAAA
1 AAAATTATATAAATATCATAATAAAA
*
8731717 AAAATATATTTAAATATCA-AAGTAAAA
1 AAAAT-TATATAAATATCATAA-TAAAA
8731744 AAA
1 AAA
8731747 TCGATATAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.29
Consensus pattern (26 bp):
AAAATTATATAAATATCATAATAAAA
Found at i:8735782 original size:17 final size:17
Alignment explanation
Indices: 8735760--8735813 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
8735750 TCAGATACAT
8735760 ATATGTGTCCTACATGG
1 ATATGTGTCCTACATGG
**
8735777 ATATGT-T-C-A-ATTCT
1 ATATGTGTCCTACA-TGG
8735791 ATATGTGTCCTACATGG
1 ATATGTGTCCTACATGG
8735808 ATATGT
1 ATATGT
8735814 TCAATTCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 10
0.67 0.10 0.24
Matches are distributed among these distances:
13 1 0.04
14 8 0.29
15 2 0.07
16 2 0.07
17 14 0.50
18 1 0.04
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.41
Consensus pattern (17 bp):
ATATGTGTCCTACATGG
Found at i:8735797 original size:31 final size:31
Alignment explanation
Indices: 8735759--8735821 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
8735749 ATCAGATACA
8735759 TATATGTGTCCTACATGGATATGTTCAATTC
1 TATATGTGTCCTACATGGATATGTTCAATTC
8735790 TATATGTGTCCTACATGGATATGTTCAATTC
1 TATATGTGTCCTACATGGATATGTTCAATTC
8735821 T
1 T
8735822 TTAAAGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (31 bp):
TATATGTGTCCTACATGGATATGTTCAATTC
Found at i:8736369 original size:92 final size:92
Alignment explanation
Indices: 8736256--8736440 Score: 334
Period size: 92 Copynumber: 2.0 Consensus size: 92
8736246 AAGTGTCAGA
*
8736256 TACTGTAATGTGTTCAACATGAGTATGTTTTTTGATATATTTGGAGGATAATGCCTCTATGCTCG
1 TACTGTAATGTGTTCAACATGAGTACGTTTTTTGATATATTTGGAGGATAATGCCTCTATGCTCG
*
8736321 TTTCCATATAATTCTCGAATTTGGGTG
66 TTTCCATATAATTCTCAAATTTGGGTG
* *
8736348 TACTGTAATGTGTTCAACATGAGTACGTTTTTTGATATATTTGGAGGATCATGCCTTTATGCTCG
1 TACTGTAATGTGTTCAACATGAGTACGTTTTTTGATATATTTGGAGGATAATGCCTCTATGCTCG
8736413 TTTCCATATAATTCTCAAATTTGGGTG
66 TTTCCATATAATTCTCAAATTTGGGTG
8736440 T
1 T
8736441 CATACATGAG
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.43
Consensus pattern (92 bp):
TACTGTAATGTGTTCAACATGAGTACGTTTTTTGATATATTTGGAGGATAATGCCTCTATGCTCG
TTTCCATATAATTCTCAAATTTGGGTG
Found at i:8736456 original size:38 final size:38
Alignment explanation
Indices: 8736414--8736487 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
8736404 TTATGCTCGT
8736414 TTCCATATAATTCTCAAATTTGGGTGTCATACATGAGC
1 TTCCATATAATTCTCAAATTTGGGTGTCATACATGAGC
*
8736452 TTCCATATAATTCTCGAATTTGGGTGTCATACATGA
1 TTCCATATAATTCTCAAATTTGGGTGTCATACATGA
8736488 TTACTTCAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (38 bp):
TTCCATATAATTCTCAAATTTGGGTGTCATACATGAGC
Found at i:8738322 original size:15 final size:15
Alignment explanation
Indices: 8738302--8738367 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 15
8738292 ATTAAAAATT
8738302 AATAAAATTTTATAA
1 AATAAAATTTTATAA
* *
8738317 AATAAAA---AAT-T
1 AATAAAATTTTATAA
8738328 AATAAAATTTTATAA
1 AATAAAATTTTATAA
** *
8738343 AATAAAAAATTATTA
1 AATAAAATTTTATAA
8738358 AA-AAAATTTT
1 AATAAAATTTT
8738368 TGTTACTTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
11 7 0.18
12 2 0.05
14 8 0.21
15 21 0.55
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAAAATTTTATAA
Found at i:8738330 original size:26 final size:26
Alignment explanation
Indices: 8738295--8738360 Score: 123
Period size: 26 Copynumber: 2.5 Consensus size: 26
8738285 AAAAGATATT
8738295 AAAAATTAATAAAATTTTATAAAATA
1 AAAAATTAATAAAATTTTATAAAATA
8738321 AAAAATTAATAAAATTTTATAAAATA
1 AAAAATTAATAAAATTTTATAAAATA
*
8738347 AAAAATTATTAAAA
1 AAAAATTAATAAAA
8738361 AAATTTTTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAAATTAATAAAATTTTATAAAATA
Found at i:8739224 original size:19 final size:20
Alignment explanation
Indices: 8739200--8739237 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
8739190 TAAAAATAGA
8739200 AAATATA-AAAAATTATTAC
1 AAATATATAAAAATTATTAC
8739219 AAATATATAAAAATTATTA
1 AAATATATAAAAATTATTA
8739238 TAAAGTATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
AAATATATAAAAATTATTAC
Found at i:8739252 original size:21 final size:20
Alignment explanation
Indices: 8739200--8739262 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
8739190 TAAAAATAGA
*
8739200 AAATATA-AAAAATTATTAC
1 AAATATAGAAAAATTATTAT
*
8739219 AAATATATAAAAATTATTAT
1 AAATATAGAAAAATTATTAT
*
8739239 AAAGTATAGGAAAAA-AATTAT
1 AAA-TATA-GAAAAATTATTAT
8739260 AAA
1 AAA
8739263 AAATCATAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 7 0.18
20 14 0.37
21 12 0.32
22 5 0.13
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (20 bp):
AAATATAGAAAAATTATTAT
Found at i:8739384 original size:9 final size:9
Alignment explanation
Indices: 8739372--8739525 Score: 57
Period size: 9 Copynumber: 16.3 Consensus size: 9
8739362 AAAAGATAAA
8739372 AAAAATATT
1 AAAAATATT
** *
8739381 AAAAGCAAT
1 AAAAATATT
*
8739390 AAAAATGATA
1 AAAAAT-ATT
8739400 AAAAATA-T
1 AAAAATATT
* *
8739408 AGAAAAAATA
1 A-AAAATATT
8739418 AAAAATATTT
1 AAAAATA-TT
***
8739428 AATTTTTATT
1 AAAAAT-ATT
8739438 AAAAAT-TT
1 AAAAATATT
* *
8739446 AGAAAAAAAT
1 A-AAAATATT
8739456 ACAAAAGTA-T
1 A-AAAA-TATT
8739466 AAAAATATT
1 AAAAATATT
8739475 AAAAGA-A-T
1 AAAA-ATATT
8739483 AAAAATATT
1 AAAAATATT
*
8739492 ATAAAATATA
1 A-AAAATATT
8739502 AAAAATTTATT
1 AAAAA--TATT
8739513 AAAAATCATT
1 AAAAAT-ATT
8739523 AAA
1 AAA
8739526 TTATAAGATA
Statistics
Matches: 105, Mismatches: 24, Indels: 31
0.66 0.15 0.19
Matches are distributed among these distances:
7 1 0.01
8 12 0.11
9 42 0.40
10 40 0.38
11 10 0.10
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (9 bp):
AAAAATATT
Found at i:8739478 original size:17 final size:17
Alignment explanation
Indices: 8739458--8739505 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
8739448 AAAAAAATAC
8739458 AAAAGTATAAAAATATT
1 AAAAGTATAAAAATATT
*
8739475 AAAAGAATAAAAATATT
1 AAAAGTATAAAAATATT
*
8739492 ATAAAATATAAAAA
1 A-AAAGTATAAAAA
8739506 ATTTATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 17 0.63
18 10 0.37
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (17 bp):
AAAAGTATAAAAATATT
Found at i:8739478 original size:27 final size:26
Alignment explanation
Indices: 8739448--8739506 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
8739438 AAAAATTTAG
8739448 AAAAAAATACAAAAGTA-TA-AAAATATT
1 AAAAAAATA-AAAA-TATTATAAAATA-T
*
8739475 AAAAGAATAAAAATATTATAAAATAT
1 AAAAAAATAAAAATATTATAAAATAT
8739501 AAAAAA
1 AAAAAA
8739507 TTTATTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 2 0.07
26 12 0.43
27 14 0.50
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (26 bp):
AAAAAAATAAAAATATTATAAAATAT
Found at i:8739505 original size:8 final size:8
Alignment explanation
Indices: 8739450--8739505 Score: 51
Period size: 8 Copynumber: 6.6 Consensus size: 8
8739440 AAATTTAGAA
*
8739450 AAAAATAC
1 AAAAATAT
*
8739458 AAAAGTAT
1 AAAAATAT
8739466 AAAAATATT
1 AAAAATA-T
8739475 AAAAGA-AT
1 AAAA-ATAT
8739483 AAAAATATT
1 AAAAATA-T
8739492 ATAAAATAT
1 A-AAAATAT
8739501 AAAAA
1 AAAAA
8739506 ATTTATTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
7 1 0.03
8 22 0.55
9 10 0.25
10 7 0.17
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.23
Consensus pattern (8 bp):
AAAAATAT
Found at i:8739523 original size:10 final size:9
Alignment explanation
Indices: 8739434--8739525 Score: 57
Period size: 10 Copynumber: 9.8 Consensus size: 9
8739424 ATTTAATTTT
8739434 TATTAAAAA
1 TATTAAAAA
8739443 T-TTAGAAAA
1 TATTA-AAAA
* *
8739452 AAATACAAAA
1 TATTA-AAAA
8739462 GTA-TAAAAA
1 -TATTAAAAA
8739471 TATTAAAAGA
1 TATTAAAA-A
8739481 -A-TAAAAA
1 TATTAAAAA
8739488 TATTATAAAA
1 TATTA-AAAA
*
8739498 TATAAAAAA
1 TATTAAAAA
8739507 TTTATTAAAAA
1 --TATTAAAAA
8739518 TCATTAAA
1 T-ATTAAA
8739526 TTATAAGATA
Statistics
Matches: 66, Mismatches: 6, Indels: 21
0.71 0.06 0.23
Matches are distributed among these distances:
7 1 0.02
8 11 0.17
9 22 0.33
10 23 0.35
11 9 0.14
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.29
Consensus pattern (9 bp):
TATTAAAAA
Found at i:8739547 original size:7 final size:7
Alignment explanation
Indices: 8739535--8739566 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
8739525 ATTATAAGAT
8739535 ATTTATA
1 ATTTATA
8739542 ATTTATA
1 ATTTATA
8739549 ATTTATA
1 ATTTATA
8739556 ATTTAATA
1 ATTT-ATA
8739564 ATT
1 ATT
8739567 GCAAACATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATTTATA
Found at i:8739902 original size:28 final size:29
Alignment explanation
Indices: 8739870--8739936 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 29
8739860 TTATGTCTTA
8739870 TAATTTTTATGATTTTTTTA-AA-AATGTT
1 TAATTTTT-TGATTTTTTTACAATAATGTT
* *
8739898 TAATTTTTTTATTTTTTTACAATAATTTT
1 TAATTTTTTGATTTTTTTACAATAATGTT
8739927 TATATTTTTT
1 TA-ATTTTTT
8739937 TCTAAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 10 0.29
28 10 0.29
29 7 0.21
30 7 0.21
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.67
Consensus pattern (29 bp):
TAATTTTTTGATTTTTTTACAATAATGTT
Found at i:8739934 original size:30 final size:29
Alignment explanation
Indices: 8739862--8739937 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
8739852 TTATAATTTT
* *
8739862 ATGTCTTATAATTTTTATGATTTTTTTAAAA
1 ATGTTTTAT-ATTTTT-TTATTTTTTTAAAA
8739893 ATG-TTTA-ATTTTTTTATTTTTTTACAATA
1 ATGTTTTATATTTTTTTATTTTTTTA-AA-A
8739922 AT-TTTTATATTTTTTT
1 ATGTTTTATATTTTTTT
8739938 CTAAAATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
27 10 0.26
28 8 0.21
29 7 0.18
30 11 0.28
31 3 0.08
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.66
Consensus pattern (29 bp):
ATGTTTTATATTTTTTTATTTTTTTAAAA
Found at i:8740669 original size:13 final size:13
Alignment explanation
Indices: 8740651--8740676 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8740641 AAGTAATCGA
8740651 ACACGGGCGTGTC
1 ACACGGGCGTGTC
8740664 ACACGGGCGTGTC
1 ACACGGGCGTGTC
8740677 CCTGCTGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:8749241 original size:30 final size:29
Alignment explanation
Indices: 8749200--8749260 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
8749190 AAACAGAAGT
*
8749200 TTTGTCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
*
8749230 TTTGGCACTAAGTGTGTGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
8749259 TT
1 TT
8749261 CGGCTACTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:8751948 original size:20 final size:19
Alignment explanation
Indices: 8751925--8752184 Score: 80
Period size: 20 Copynumber: 13.5 Consensus size: 19
8751915 TCCAAAAAAA
8751925 TCTAAGCATTTACCAAAATT
1 TCTAAG-ATTTACCAAAATT
* *
8751945 TCTAAGGTTATACCAAAATA
1 TCTAAGATT-TACCAAAATT
8751965 TCTAAAGATTTACCAAAGATT
1 TCT-AAGATTTACCAAA-ATT
* * **
8751986 T-TAAGGCTTCATTAAAATT
1 TCTAA-GATTTACCAAAATT
* *
8752005 TCTAATG-TTTAACAAACATC
1 TCTAA-GATTTACCAAA-ATT
*
8752025 T-TAA-ATTTTATCAAAATT
1 TCTAAGA-TTTACCAAAATT
*
8752043 TCT-A-ATGTT------ATA
1 TCTAAGAT-TTACCAAAATT
8752055 TCTAAGGATTTACCAAAATT
1 TCTAA-GATTTACCAAAATT
* * *
8752075 CCTAAGGTTATACCAAAATA
1 TCTAAGATT-TACCAAAATT
**
8752095 TCTAAAGATTTACCTGAATT
1 TCT-AAGATTTACCAAAATT
* *
8752115 T-TACGGCTTTACCAAAATT
1 TCTA-AGATTTACCAAAATT
* *
8752134 TTTAAGGATTTA-AAAATATT
1 TCTAA-GATTTACCAAA-ATT
* *
8752154 TCTAAAAGTTTACCAATATT
1 TCTAAGA-TTTACCAAAATT
8752174 TCTAAAGATTT
1 TCT-AAGATTT
8752185 CCTTAGTGTC
Statistics
Matches: 175, Mismatches: 37, Indels: 56
0.65 0.14 0.21
Matches are distributed among these distances:
12 5 0.03
13 1 0.01
14 2 0.01
15 2 0.01
17 1 0.01
18 8 0.05
19 46 0.26
20 92 0.53
21 18 0.10
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (19 bp):
TCTAAGATTTACCAAAATT
Found at i:8752338 original size:20 final size:20
Alignment explanation
Indices: 8752301--8752392 Score: 107
Period size: 20 Copynumber: 4.6 Consensus size: 20
8752291 ATGCCAAATT
* *
8752301 ATCCTTAGATATTCTGGTAA
1 ATCCTTAGAAATTTTGGTAA
*
8752321 ATCCATA-AAATTTTTGGTATA
1 ATCCTTAGAAA-TTTTGGTA-A
*
8752342 A-CCTTAGAAATGTTGGTAA
1 ATCCTTAGAAATTTTGGTAA
*
8752361 ATCCTTATAAATTTTGGTAA
1 ATCCTTAGAAATTTTGGTAA
8752381 ATCCTTAGAAAT
1 ATCCTTAGAAAT
8752393 AGTGATAAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.07
20 51 0.85
21 5 0.08
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (20 bp):
ATCCTTAGAAATTTTGGTAA
Found at i:8752359 original size:40 final size:40
Alignment explanation
Indices: 8752301--8752392 Score: 118
Period size: 40 Copynumber: 2.3 Consensus size: 40
8752291 ATGCCAAATT
*
8752301 ATCCTTAGATAT-TCTGGTAAATCCATA-AAATTTTTGGTATA
1 ATCCTTAGAAATGT-TGGTAAATCCATATAAA-TTTTGGTA-A
*
8752342 A-CCTTAGAAATGTTGGTAAATCCTTATAAATTTTGGTAA
1 ATCCTTAGAAATGTTGGTAAATCCATATAAATTTTGGTAA
8752381 ATCCTTAGAAAT
1 ATCCTTAGAAAT
8752393 AGTGATAAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
39 2 0.04
40 39 0.85
41 5 0.11
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (40 bp):
ATCCTTAGAAATGTTGGTAAATCCATATAAATTTTGGTAA
Found at i:8752401 original size:20 final size:19
Alignment explanation
Indices: 8752343--8752405 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
8752333 TTTGGTATAA
8752343 CCTTAGAAATGTTGGTAAAT
1 CCTTAGAAATG-TGGTAAAT
* *
8752363 CCTTATAAATTTTGGTAAAT
1 CCTTAGAAA-TGTGGTAAAT
*
8752383 CCTTAGAAATAGTGATAAA-
1 CCTTAGAAAT-GTGGTAAAT
8752402 CCTT
1 CCTT
8752406 TAAAAATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.14
20 30 0.83
21 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (19 bp):
CCTTAGAAATGTGGTAAAT
Found at i:8752413 original size:40 final size:40
Alignment explanation
Indices: 8752318--8752420 Score: 113
Period size: 40 Copynumber: 2.6 Consensus size: 40
8752308 GATATTCTGG
* * *
8752318 TAAATCCATAAAATTTTTGGTATAACCTTAGAAATGTTGG
1 TAAATCCTTAAAAATTTTGGTATAACCTTAGAAATGTTGA
*
8752358 TAAATCCTTATAAATTTTGGTA-AATCCTTAGAAATAG-TGA
1 TAAATCCTTAAAAATTTTGGTATAA-CCTTAGAAAT-GTTGA
*
8752398 TAAA-CCTTTAAAAATTATGGTAT
1 TAAATCC-TTAAAAATTTTGGTAT
8752421 GTCAAAATGT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
39 4 0.08
40 48 0.91
41 1 0.02
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.38
Consensus pattern (40 bp):
TAAATCCTTAAAAATTTTGGTATAACCTTAGAAATGTTGA
Found at i:8753535 original size:13 final size:13
Alignment explanation
Indices: 8753517--8753556 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
8753507 ATGTGAATAA
8753517 TATTATTTAAAAT
1 TATTATTTAAAAT
8753530 TATTATTTTAAAATT
1 TATTA-TTTAAAA-T
8753545 TATTA-TTAAAAT
1 TATTATTTAAAAT
8753557 AAAATTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.04
13 11 0.44
14 7 0.28
15 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTATTTAAAAT
Found at i:8753549 original size:15 final size:14
Alignment explanation
Indices: 8753517--8753551 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
8753507 ATGTGAATAA
8753517 TATTA-TTTAAAAT
1 TATTATTTTAAAAT
8753530 TATTATTTTAAAATT
1 TATTATTTTAAAA-T
8753545 TATTATT
1 TATTATT
8753552 AAAATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 5 0.25
14 7 0.35
15 8 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTATTTTAAAAT
Found at i:8753604 original size:22 final size:22
Alignment explanation
Indices: 8753564--8753619 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
8753554 AATAAAATTG
*
8753564 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
8753584 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
8753606 TATTAATAATTTAT
1 AAATAATAAATTAT
8753620 TATATGACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:8756294 original size:43 final size:44
Alignment explanation
Indices: 8756246--8756412 Score: 189
Period size: 43 Copynumber: 3.9 Consensus size: 44
8756236 GGTTATCGAG
*
8756246 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
8756290 -TGTGATTACGTCTAAGACCATGTCTAGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * * * *
8756332 ATATAATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
8756375 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
8756413 TATATGAGCT
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 7 0.07
43 95 0.93
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:8762627 original size:16 final size:16
Alignment explanation
Indices: 8762589--8762628 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
8762579 AATTGGTACA
8762589 ATGGAAAATTGAAGGG
1 ATGGAAAATTGAAGGG
*
8762605 ATAGAAAATTAGAA-GG
1 ATGGAAAATT-GAAGGG
8762621 ATGGAAAA
1 ATGGAAAA
8762629 CATAATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (16 bp):
ATGGAAAATTGAAGGG
Found at i:8782930 original size:2 final size:2
Alignment explanation
Indices: 8782923--8782952 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8782913 TATTCAATAA
*
8782923 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8782953 TTTTTTTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8783593 original size:28 final size:27
Alignment explanation
Indices: 8783553--8783605 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
8783543 TTTGCACACT
*
8783553 AATTTTTAATTAATTTGTTGGTTCACC
1 AATTTTTAATTAATTTGTTAGTTCACC
*
8783580 AATTTCTTTATTAATTTGTTAGTTCA
1 AATTT-TTAATTAATTTGTTAGTTCA
8783606 TCTACCAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.55
Consensus pattern (27 bp):
AATTTTTAATTAATTTGTTAGTTCACC
Found at i:8787880 original size:17 final size:19
Alignment explanation
Indices: 8787858--8787892 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
8787848 CTAAAATAGT
8787858 AACAAAA-TTA-ACAATAA
1 AACAAAAGTTATACAATAA
8787875 AACAAAAGTTATACAATA
1 AACAAAAGTTATACAATA
8787893 TCCAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.66, C:0.11, G:0.03, T:0.20
Consensus pattern (19 bp):
AACAAAAGTTATACAATAA
Found at i:8790651 original size:14 final size:14
Alignment explanation
Indices: 8790634--8790664 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8790624 AGTAAAATAT
8790634 TTTCCGGAAAATGA
1 TTTCCGGAAAATGA
*
8790648 TTTCTGGAAAATGA
1 TTTCCGGAAAATGA
8790662 TTT
1 TTT
8790665 ACTTTTCTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (14 bp):
TTTCCGGAAAATGA
Found at i:8792948 original size:17 final size:18
Alignment explanation
Indices: 8792928--8792963 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8792918 TTATGGAATC
*
8792928 CCCAATTA-CTTGGACCT
1 CCCAATTATCATGGACCT
8792945 CCCAATTATCATGGACCT
1 CCCAATTATCATGGACCT
8792963 C
1 C
8792964 AAAGGAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.25, C:0.36, G:0.11, T:0.28
Consensus pattern (18 bp):
CCCAATTATCATGGACCT
Found at i:8794225 original size:6 final size:6
Alignment explanation
Indices: 8794214--8794263 Score: 73
Period size: 6 Copynumber: 8.2 Consensus size: 6
8794204 CCGATTTCAA
**
8794214 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGAAG AAGGGG AAAGGGG
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG
8794263 A
1 A
8794264 GAAGAAGTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
6 33 0.85
7 6 0.15
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:8794237 original size:18 final size:18
Alignment explanation
Indices: 8794214--8794270 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
8794204 CCGATTTCAA
**
8794214 AAGGGGAAGGGGAAGGGG
1 AAGGGGAAGGGGAAGAAG
8794232 AAGGGGAAGGGGAAGAAG
1 AAGGGGAAGGGGAAGAAG
8794250 AAGGGGAAAGGGG-AGAAG
1 AAGGGG-AAGGGGAAGAAG
8794268 AAG
1 AAG
8794271 TGTCAATTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 30 0.83
19 6 0.17
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGGAAGAAG
Found at i:8796629 original size:4 final size:4
Alignment explanation
Indices: 8796622--8796667 Score: 56
Period size: 4 Copynumber: 10.8 Consensus size: 4
8796612 TAAAATAAAT
*
8796622 ATTA ATTA ATTA ATTA ATTTA ATTG ATTAA ATTA ATTAA ATTA ATT
1 ATTA ATTA ATTA ATTA A-TTA ATTA ATT-A ATTA ATT-A ATTA ATT
8796668 TCTCAATTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
4 26 0.70
5 11 0.30
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:8796645 original size:9 final size:9
Alignment explanation
Indices: 8796623--8796668 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
8796613 AAAATAAATA
8796623 TTAATTAA-
1 TTAATTAAT
8796631 TTAATTAAT
1 TTAATTAAT
*
8796640 TTAATTGAT
1 TTAATTAAT
*
8796649 TAAATTAAT
1 TTAATTAAT
*
8796658 TAAATTAAT
1 TTAATTAAT
8796667 TT
1 TT
8796669 CTCAATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
8 8 0.24
9 25 0.76
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (9 bp):
TTAATTAAT
Found at i:8796645 original size:13 final size:13
Alignment explanation
Indices: 8796622--8796668 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
8796612 TAAAATAAAT
8796622 ATTAA-TTAATTA
1 ATTAATTTAATTA
*
8796634 ATTAATTTAATTG
1 ATTAATTTAATTA
*
8796647 ATTAAATTAATTAA
1 ATTAATTTAATT-A
8796661 ATTAATTT
1 ATTAATTT
8796669 CTCAATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 5 0.17
13 17 0.59
14 7 0.24
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
ATTAATTTAATTA
Found at i:8804035 original size:15 final size:15
Alignment explanation
Indices: 8804011--8804045 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
8804001 ATTCAATATT
*
8804011 AATATTTTAATAATA
1 AATATATTAATAATA
8804026 AATATATTAATAATA
1 AATATATTAATAATA
8804041 AATAT
1 AATAT
8804046 TTTGTAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATATATTAATAATA
Found at i:8809364 original size:29 final size:29
Alignment explanation
Indices: 8809330--8809408 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
8809320 ATTTTTATAC
**
8809330 TTTTTTCATATTTAAAAATTAGTTTTTCTA
1 TTTTTT-ATATTTAAAAATTAGTCATTCTA
* *
8809360 -TTTTTATTTTTAAGAATTTAGTCATTCTA
1 TTTTTTATATTTAA-AAATTAGTCATTCTA
8809389 TTTTTTGA-ATTTAAAAATTA
1 TTTTTT-ATATTTAAAAATTA
8809409 AGTGCAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
28 7 0.17
29 22 0.55
30 10 0.25
31 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (29 bp):
TTTTTTATATTTAAAAATTAGTCATTCTA
Found at i:8812107 original size:12 final size:12
Alignment explanation
Indices: 8812090--8812131 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
8812080 TTGTATATAG
8812090 TATTATCAT-TT
1 TATTATCATATT
8812101 CTATTATCATATT
1 -TATTATCATATT
*
8812114 TATTATTATATT
1 TATTATCATATT
8812126 TATTAT
1 TATTAT
8812132 TTTCACTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 26 0.93
13 2 0.07
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATCATATT
Found at i:8812304 original size:17 final size:17
Alignment explanation
Indices: 8812277--8812325 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
8812267 CATTCTTATA
*
8812277 TTATGTATATTAT-TTT
1 TTATATATATTATGTTT
*
8812293 TTTTACTATATTATGTTT
1 TTATA-TATATTATGTTT
8812311 TTATATATATTATGT
1 TTATATATATTATGT
8812326 ATATACATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 3 0.11
17 18 0.64
18 7 0.25
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (17 bp):
TTATATATATTATGTTT
Found at i:8812317 original size:15 final size:17
Alignment explanation
Indices: 8812282--8812318 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
8812272 TTATATTATG
*
8812282 TATATTATTTTTTTTAC
1 TATATTATTGTTTTTAC
8812299 TATATTA-TGTTTTTA-
1 TATATTATTGTTTTTAC
8812314 TATAT
1 TATAT
8812319 ATTATGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 7 0.37
17 7 0.37
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TATATTATTGTTTTTAC
Found at i:8812361 original size:23 final size:24
Alignment explanation
Indices: 8812317--8812367 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
8812307 GTTTTTATAT
*
8812317 ATATTATGTATATACAT-TTTTTA
1 ATATTATATATATACATATTTTTA
* *
8812340 ATATTATATATGTATATATTTTTA
1 ATATTATATATATACATATTTTTA
8812364 ATAT
1 ATAT
8812368 GTATGCGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
ATATTATATATATACATATTTTTA
Found at i:8812700 original size:26 final size:26
Alignment explanation
Indices: 8812657--8812708 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
8812647 TATCATTCTA
8812657 ATATAAATATATATTGTA-TATATTTT
1 ATATAAATATATATTGTACT-TATTTT
8812683 ATATAAATATAT-TATGTACTTATTTT
1 ATATAAATATATAT-TGTACTTATTTT
8812709 TAATGTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 1 0.04
26 22 0.92
27 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (26 bp):
ATATAAATATATATTGTACTTATTTT
Found at i:8813839 original size:54 final size:52
Alignment explanation
Indices: 8813781--8813956 Score: 203
Period size: 54 Copynumber: 3.3 Consensus size: 52
8813771 TTTCAAACCT
8813781 TTTTACTTTCCCCCTAAAAATTGTACTTCCCCCAAACCTCCAAAACTTTTTTCC
1 TTTTACTTTCCCCCTAAAAATT-TACTTCCCCCAAACC-CCAAAACTTTTTTCC
* * * *
8813835 TTTTACTTTCCCCTTAAAACATTTACTTTCTCAAAACCCCTTAAAA-TTTTTTCC
1 TTTTACTTTCCCCCTAAAA-ATTTACTTCCCCCAAACCCC--AAAACTTTTTTCC
* *
8813889 TTTTACTTTTCTCCC-AAAACTTTTACTTCCCCCAAACCCCCAAAACTTTTTTCC
1 TTTTAC-TTTCCCCCTAAAA-ATTTACTTCCCCCAAA-CCCCAAAACTTTTTTCC
*
8813943 TTTTGCTTTCCCCC
1 TTTTACTTTCCCCC
8813957 AAACCTCATC
Statistics
Matches: 104, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
53 13 0.12
54 74 0.71
55 17 0.16
ACGTcount: A:0.24, C:0.34, G:0.01, T:0.41
Consensus pattern (52 bp):
TTTTACTTTCCCCCTAAAAATTTACTTCCCCCAAACCCCAAAACTTTTTTCC
Found at i:8817535 original size:3 final size:3
Alignment explanation
Indices: 8817493--8817573 Score: 51
Period size: 3 Copynumber: 26.3 Consensus size: 3
8817483 TTTTATTTAA
* *
8817493 ATT ATAT ATAT ATAT ATT A-T ATA ATT GATT ATT ATA ATT ATT AATT
1 ATT AT-T AT-T AT-T ATT ATT ATT ATT -ATT ATT ATT ATT ATT -ATT
* * *
8817539 GTT ATG GTT -TT A-T ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8817574 AATAAATTAA
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
2 6 0.10
3 40 0.63
4 17 0.27
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:8818060 original size:16 final size:15
Alignment explanation
Indices: 8818035--8818089 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
8818025 TTTATTAATT
*
8818035 AAATATAATATAAATA
1 AAATAAAATA-AAATA
8818051 AAATAAAATAAAA-A
1 AAATAAAATAAAATA
8818065 GAAATAAAGCATAAAAT-
1 -AAATAAA--ATAAAATA
8818082 AAATAAAA
1 AAATAAAA
8818090 CAAACAGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 2 0.06
15 10 0.29
16 16 0.47
17 6 0.18
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (15 bp):
AAATAAAATAAAATA
Found at i:8818064 original size:6 final size:5
Alignment explanation
Indices: 8818035--8818089 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
8818025 TTTATTAATT
*
8818035 AAATA TAATA TAAATA AAATA AAATA AAA-A GAAATA AAGCATA AAAT-
1 AAATA AAATA -AAATA AAATA AAATA AAATA -AAATA AA--ATA AAATA
8818082 AAATA AAA
1 AAATA AAA
8818090 CAAACAGAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
4 5 0.12
5 27 0.64
6 5 0.12
7 5 0.12
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:8820239 original size:13 final size:14
Alignment explanation
Indices: 8820223--8820258 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
8820213 CAATCTCATA
8820223 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
8820236 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
8820249 TCTC-ATTTCA
1 TCTCAATTTCA
8820259 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:8820241 original size:26 final size:25
Alignment explanation
Indices: 8820203--8820265 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 25
8820193 AACCTTTTAG
*
8820203 TTCATATTTTCAATCTC-ATATCTCAAT
1 TTCA-ATTCTCAAT-TCAATATCTC-AT
*
8820230 TTCAATTCTCAATTCAATTTCTCAT
1 TTCAATTCTCAATTCAATATCTCAT
8820255 TTC-ATTC-CAAT
1 TTCAATTCTCAAT
8820266 AGCTCAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
23 4 0.12
24 4 0.12
25 7 0.21
26 14 0.42
27 4 0.12
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.48
Consensus pattern (25 bp):
TTCAATTCTCAATTCAATATCTCAT
Found at i:8820248 original size:18 final size:19
Alignment explanation
Indices: 8820210--8820250 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
8820200 TAGTTCATAT
8820210 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
8820229 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
8820247 TTTC
1 TTTC
8820251 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:8820676 original size:8 final size:10
Alignment explanation
Indices: 8820647--8820687 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
8820637 ATTCTAATAA
*
8820647 TCACATATTT
1 TCACACATTT
8820657 TCACACATTT
1 TCACACATTT
8820667 TCACA-A-TT
1 TCACACATTT
*
8820675 TCATACATTT
1 TCACACATTT
8820685 TCA
1 TCA
8820688 TTCAATTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 6 0.22
9 2 0.07
10 19 0.70
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (10 bp):
TCACACATTT
Found at i:8823333 original size:25 final size:24
Alignment explanation
Indices: 8823305--8823353 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
8823295 AAATAAAAAA
*
8823305 ATTT-AAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
8823330 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
8823354 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 7 0.32
26 8 0.36
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:8823365 original size:22 final size:21
Alignment explanation
Indices: 8823295--8823382 Score: 65
Period size: 21 Copynumber: 4.1 Consensus size: 21
8823285 TCATTAAATG
*
8823295 AAAT-AAAAAAAT-TTAAAAT
1 AAATAAAAAAAATATTAAAAC
*
8823314 ATAATAAATCAAATATATTTAAAA-
1 A-AATAAA--AAAAATA-TTAAAAC
*
8823338 ACATAAAAACAAATATTAAAAC
1 AAATAAAAA-AAATATTAAAAC
* *
8823360 AAATAAAAATAATACTAAAAC
1 AAATAAAAAAAATATTAAAAC
8823381 AA
1 AA
8823383 TTCTTAAAAC
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
19 1 0.02
20 3 0.05
21 22 0.40
22 12 0.22
23 10 0.18
24 1 0.02
25 6 0.11
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATAAAAAAAATATTAAAAC
Found at i:8824464 original size:132 final size:132
Alignment explanation
Indices: 8824196--8824522 Score: 310
Period size: 132 Copynumber: 2.5 Consensus size: 132
8824186 AAGAATTCTT
* *
8824196 TAAAACAAAGGTGATATTCGATATTTGACAATTCGAGGAATCGTGCCCTAACGTGCTGGGTTGCA
1 TAAAACAAAGGTAATATTCGATATTCGACAATTCGAGGAATCGTGCCCTAACGTGCTGGGTTGCA
* * ** * * *
8824261 ATTTCTTGTTTGCTCAAAACAATCAAATGTCCCTCTGGAATTCCATTCATGTATTCTAAAAACTC
66 ATTTCCTGTTGGCTCAAAACAATCAAATCCCCCTCTAGAATTCCACTCATGTATTCTAAAAAATC
*
8824326 TT
131 TC
* * * *
8824328 TAAAACGAAGGTAATGTTCGATGTTCGACAATTC-AGAGAATCGTGCCCTATCGTGCTGGGTTGC
1 TAAAACAAAGGTAATATTCGATATTCGACAATTCGAG-GAATCGTGCCCTAACGTGCTGGGTTGC
* * *
8824392 AATTTCCTGTTGGTTCAAAATAATCGAACA-CCCCCTTTAGAATTTCC-CTCATGT-TTCTTAAA
65 AATTTCCTGTTGGCTCAAAACAATC-AA-ATCCCCCTCTAGAA-TTCCACTCATGTATTC-TAAA
8824454 AAAT-TC
126 AAATCTC
* * * * * *
8824460 TAAAA-AATGAGATAATACTCGATGTTTAGA-AATTCGAAGAACCGTGCCCT-ACTGTGCTGGGT
1 TAAAACAA--AGGTAATATTCGAT-ATTCGACAATTCGAGGAATCGTGCCCTAAC-GTGCTGGGT
8824522 T
62 T
8824523 TTGATTCTCT
Statistics
Matches: 159, Mismatches: 26, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
131 3 0.02
132 86 0.54
133 60 0.38
134 10 0.06
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (132 bp):
TAAAACAAAGGTAATATTCGATATTCGACAATTCGAGGAATCGTGCCCTAACGTGCTGGGTTGCA
ATTTCCTGTTGGCTCAAAACAATCAAATCCCCCTCTAGAATTCCACTCATGTATTCTAAAAAATC
TC
Found at i:8826065 original size:21 final size:22
Alignment explanation
Indices: 8826012--8826068 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
8826002 CAATTTAAAT
*
8826012 AATAATAACAATAACAATAATA
1 AATAATAATAATAACAATAATA
* *
8826034 ATTAA-ATATAA-AACTATAATA
1 AATAATA-ATAATAACAATAATA
8826055 AATAATAATAATAA
1 AATAATAATAATAA
8826069 TTTAATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (22 bp):
AATAATAATAATAACAATAATA
Found at i:8826448 original size:12 final size:12
Alignment explanation
Indices: 8826431--8826455 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8826421 TGCCGACACT
8826431 GTTACTGTTACC
1 GTTACTGTTACC
8826443 GTTACTGTTACC
1 GTTACTGTTACC
8826455 G
1 G
8826456 ATTCAACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:8826483 original size:45 final size:45
Alignment explanation
Indices: 8826433--8826539 Score: 187
Period size: 45 Copynumber: 2.4 Consensus size: 45
8826423 CCGACACTGT
*
8826433 TACTGTTACCGTTACTGTTACCGATTCAACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
*
8826478 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
*
8826523 TACTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
8826540 CTACTGCTAC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAACACTTTGTGTGTCGAA
Found at i:8826554 original size:18 final size:18
Alignment explanation
Indices: 8826523--8826557 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8826513 GTGTGTTGAA
* *
8826523 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
8826541 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
8826558 ATTACTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:8829355 original size:22 final size:22
Alignment explanation
Indices: 8829330--8829373 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8829320 ATTTTTGAAG
*
8829330 TTGGGTTTTAATGCATTTAACA
1 TTGGGCTTTAATGCATTTAACA
8829352 TTGGGCTTTAATGCATTTAACA
1 TTGGGCTTTAATGCATTTAACA
8829374 GTTGATGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.43
Consensus pattern (22 bp):
TTGGGCTTTAATGCATTTAACA
Found at i:8831417 original size:19 final size:20
Alignment explanation
Indices: 8831393--8831445 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
8831383 ATATAAAAAT
*
8831393 AAAATTATTTAAAA-TTCA-A
1 AAAATTA-TAAAAAGTTCATA
8831412 AAAATTATAAAAAGTTCATA
1 AAAATTATAAAAAGTTCATA
8831432 AAAATTTATAAAAA
1 AAAA-TTATAAAAA
8831446 TTAGCATGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 5 0.17
19 11 0.37
20 5 0.17
21 9 0.30
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAATTATAAAAAGTTCATA
Done.