Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 37 of 100
Found at i:9862807 original size:30 final size:30
Alignment explanation
Indices: 9862734--9862808 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
9862724 AATTTAAAGG
** *
9862734 TTTATTTGAATACAAATTAAAATTTAAAAA
1 TTTATTTGAATGTAAATTAAAATTCAAAAA
9862764 TTTATTTGAATGTAAATTAAAATTCAAAAA
1 TTTATTTGAATGTAAATTAAAATTCAAAAA
*
9862794 -TTATTTTGGATGTAA
1 TTTA-TTTGAATGTAA
9862809 TAACAATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 3 0.08
30 37 0.93
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.43
Consensus pattern (30 bp):
TTTATTTGAATGTAAATTAAAATTCAAAAA
Found at i:9863185 original size:49 final size:49
Alignment explanation
Indices: 9863045--9863183 Score: 136
Period size: 49 Copynumber: 2.8 Consensus size: 49
9863035 GGAGTTTTCT
* *
9863045 TGTCAAACTGAACAAGTAATTAGAGTATTTCTTAAAAAAAATAGAAGAAT
1 TGTCAAA-TGAACAAGTAATAAGAGTATTTCTTAAAAAAAATAGAAGAAC
* * * ** * *
9863095 TGTCGAACGTAACAAGTAATAGGAGTATTT-TTCCAAAAAATAGGAGAGC
1 TGTCAAATG-AACAAGTAATAAGAGTATTTCTTAAAAAAAATAGAAGAAC
* * *
9863144 TGTCAAATGAAACAAATAATAAGAGTGTTTCTTTAAAAAA
1 TGTCAAATG-AACAAGTAATAAGAGTATTTCTTAAAAAAA
9863184 TAAAATTTTC
Statistics
Matches: 70, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
49 39 0.56
50 31 0.44
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.27
Consensus pattern (49 bp):
TGTCAAATGAACAAGTAATAAGAGTATTTCTTAAAAAAAATAGAAGAAC
Found at i:9863367 original size:45 final size:46
Alignment explanation
Indices: 9863307--9863394 Score: 144
Period size: 45 Copynumber: 1.9 Consensus size: 46
9863297 TGAAATAAAT
*
9863307 AATGGAGAGTGTTTTTGTAAAA-AATAGGAGAATTGTTGAAACAATC
1 AATGGAGAGTGTTTTTGTAAAACAATAGGACAATTGTT-AAACAATC
9863353 AATGG-GAGTGTTTTTGTAAAACAATAGGACAATTGTTAAACA
1 AATGGAGAGTGTTTTTGTAAAACAATAGGACAATTGTTAAACA
9863395 TGATATATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
45 21 0.52
46 19 0.47
ACGTcount: A:0.41, C:0.06, G:0.23, T:0.31
Consensus pattern (46 bp):
AATGGAGAGTGTTTTTGTAAAACAATAGGACAATTGTTAAACAATC
Found at i:9868584 original size:18 final size:18
Alignment explanation
Indices: 9868544--9868585 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
9868534 TTTTTGTATT
*
9868544 ATTCTTCTTTTATTTTCA
1 ATTCTTCTTTTATTTGCA
9868562 ATTCTTCATTTT-TTTGCA
1 ATTCTTC-TTTTATTTGCA
*
9868580 TTTCTT
1 ATTCTT
9868586 TGTACTTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.14, C:0.17, G:0.02, T:0.67
Consensus pattern (18 bp):
ATTCTTCTTTTATTTGCA
Found at i:9868953 original size:22 final size:22
Alignment explanation
Indices: 9868913--9868954 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9868903 AAAACTCTTT
*
9868913 TATGTGATATTTTCTTTGTTTA
1 TATGTGATATTTTCATTGTTTA
* *
9868935 TATGTGCTATTTTGATTGTT
1 TATGTGATATTTTCATTGTT
9868955 GGAGAAAATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.17, C:0.05, G:0.17, T:0.62
Consensus pattern (22 bp):
TATGTGATATTTTCATTGTTTA
Found at i:9871148 original size:87 final size:87
Alignment explanation
Indices: 9870998--9871165 Score: 273
Period size: 87 Copynumber: 1.9 Consensus size: 87
9870988 CCTCCTCAGT
* ** * *
9870998 TTTATACCATCCTGATATATCCTTCATTCTCTTCCTGAAACTCTGATTATTATATTTTTCATTTA
1 TTTATACCATCCTAATATATCCTTCATTCTCTTCCTGAAACTCAAATTACTATATTTTCCATTTA
*
9871063 AAATAATGAATTCGACAATAGG
66 AAACAATGAATTCGACAATAGG
*
9871085 TTTATACCATCCTAATATATCCTTCATTTTCTTCCTGAAACTCAAATTACTATATTTTCCATTTA
1 TTTATACCATCCTAATATATCCTTCATTCTCTTCCTGAAACTCAAATTACTATATTTTCCATTTA
9871150 AAACAATGAATTCGAC
66 AAACAATGAATTCGAC
9871166 CACAGCCTCC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 74 1.00
ACGTcount: A:0.32, C:0.20, G:0.06, T:0.42
Consensus pattern (87 bp):
TTTATACCATCCTAATATATCCTTCATTCTCTTCCTGAAACTCAAATTACTATATTTTCCATTTA
AAACAATGAATTCGACAATAGG
Found at i:9873721 original size:21 final size:20
Alignment explanation
Indices: 9873660--9873721 Score: 56
Period size: 21 Copynumber: 3.1 Consensus size: 20
9873650 TTCTTCTTCC
*
9873660 TTTATT-TTCAATTTTTTTT
1 TTTATTCTTCATTTTTTTTT
* *
9873679 TGTATTCTTC-TTCCTTTATTT
1 TTTATTCTTCATT--TTTTTTT
*
9873700 TTAATTCTTCATTTTTTTTT
1 TTTATTCTTCATTTTTTTTT
9873720 TT
1 TT
9873722 CACTTCTTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
19 6 0.18
20 11 0.33
21 14 0.42
22 2 0.06
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTATTCTTCATTTTTTTTT
Found at i:9880111 original size:2 final size:2
Alignment explanation
Indices: 9880104--9880128 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9880094 GAATTTATTT
9880104 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
9880129 GAAATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9885902 original size:16 final size:15
Alignment explanation
Indices: 9885878--9885917 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
9885868 AAAGATGAAA
*
9885878 AGAATAAAAAAAAAG
1 AGAAAAAAAAAAAAG
*
9885893 AGGAAAAAAAAGAAAG
1 A-GAAAAAAAAAAAAG
9885909 AGAAAAAAA
1 AGAAAAAAA
9885918 TGGAAGAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (15 bp):
AGAAAAAAAAAAAAG
Found at i:9885903 original size:15 final size:15
Alignment explanation
Indices: 9885874--9885917 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
9885864 GGAAAAAGAT
9885874 GAAA-AGAATAAAAAA
1 GAAAGAGAA-AAAAAA
9885889 -AAAGAGGAAAAAAAA
1 GAAAGA-GAAAAAAAA
9885904 GAAAGAGAAAAAAA
1 GAAAGAGAAAAAAA
9885918 TGGAAGAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.12
15 15 0.58
16 8 0.31
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (15 bp):
GAAAGAGAAAAAAAA
Found at i:9885924 original size:15 final size:16
Alignment explanation
Indices: 9885883--9885956 Score: 64
Period size: 15 Copynumber: 4.6 Consensus size: 16
9885873 TGAAAAGAAT
9885883 AAAAAA-AAAGAGGAA
1 AAAAAAGAAAGAGGAA
9885898 AAAAAAGAAAGA-GAA
1 AAAAAAGAAAGAGGAA
* *
9885913 AAAAATGGAAGAATGGAA
1 AAAAAAGAAAG-A-GGAA
* *
9885931 AAAATATGAAA-ATGAA
1 AAAA-AAGAAAGAGGAA
9885947 AAAAAAGAAA
1 AAAAAAGAAA
9885957 TACTCAAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
15 23 0.47
16 13 0.27
17 1 0.02
18 7 0.14
19 5 0.10
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.07
Consensus pattern (16 bp):
AAAAAAGAAAGAGGAA
Found at i:9885931 original size:18 final size:15
Alignment explanation
Indices: 9885865--9885956 Score: 55
Period size: 15 Copynumber: 5.9 Consensus size: 15
9885855 CTAATGGATG
*
9885865 GAAAAAGATGAAAA-
1 GAAAAAAATGAAAAT
* *
9885879 GAATAAAAA-AAAAGAG
1 GAA-AAAAATGAAA-AT
*
9885895 GAAAAAAAAGAAAGA-
1 GAAAAAAATGAAA-AT
9885910 GAAAAAAATGGAAGAAT
1 GAAAAAAAT-GAA-AAT
9885927 GGAAAAAATATGAAAAT
1 -GAAAAAA-ATGAAAAT
*
9885944 GAAAAAAAAGAAA
1 GAAAAAAATGAAA
9885957 TACTCAAATT
Statistics
Matches: 64, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
14 6 0.09
15 23 0.36
16 19 0.30
17 4 0.06
18 10 0.16
19 2 0.03
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.08
Consensus pattern (15 bp):
GAAAAAAATGAAAAT
Found at i:9885944 original size:17 final size:17
Alignment explanation
Indices: 9885910--9885951 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
9885900 AAAAGAAAGA
9885910 GAAAAAAATGGAAGAAT
1 GAAAAAAATGGAAGAAT
9885927 GGAAAAAATAT-GAA-AAT
1 -GAAAAAA-ATGGAAGAAT
9885944 GAAAAAAA
1 GAAAAAAA
9885952 AGAAATACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 7 0.30
17 3 0.13
18 10 0.43
19 2 0.09
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.12
Consensus pattern (17 bp):
GAAAAAAATGGAAGAAT
Found at i:9887746 original size:41 final size:41
Alignment explanation
Indices: 9887672--9887823 Score: 232
Period size: 41 Copynumber: 3.7 Consensus size: 41
9887662 GACTCATCTA
* *
9887672 TTTAGATGAGTATTTTATTTTCTCAAAGTTGTGGTGCCTCTG
1 TTTAGAGGAGCATTTTATTTT-TCAAAGTTGTGGTGCCTCTG
*
9887714 TTTAGAGGAGCATTTTAATTTTCAAAGTTGTGGTGCCTCTG
1 TTTAGAGGAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTG
* * *
9887755 TTTAGAGGAGCAATTTATTTTTCGAAGTTATGGTGCCTCTG
1 TTTAGAGGAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTG
*
9887796 TTTAAAGGAGCATTTTATTTTTCAAAGT
1 TTTAGAGGAGCATTTTATTTTTCAAAGT
9887824 CATTGAGCCT
Statistics
Matches: 100, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 82 0.82
42 18 0.18
ACGTcount: A:0.23, C:0.11, G:0.22, T:0.44
Consensus pattern (41 bp):
TTTAGAGGAGCATTTTATTTTTCAAAGTTGTGGTGCCTCTG
Found at i:9888358 original size:15 final size:14
Alignment explanation
Indices: 9888338--9888371 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
9888328 TAAATTTTGG
9888338 ATTTTTTTGAAAAAA
1 ATTTTTTT-AAAAAA
9888353 ATTTTTTTAAAAAA
1 ATTTTTTTAAAAAA
9888367 ATTTT
1 ATTTT
9888372 CTAGAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
ATTTTTTTAAAAAA
Found at i:9891940 original size:16 final size:16
Alignment explanation
Indices: 9891921--9891952 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9891911 GTTTTGAGTG
*
9891921 ATTTGATTTTTTTCAA
1 ATTTGATTATTTTCAA
9891937 ATTTGATTATTTTCAA
1 ATTTGATTATTTTCAA
9891953 GTTAGTCTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.59
Consensus pattern (16 bp):
ATTTGATTATTTTCAA
Found at i:9892882 original size:24 final size:24
Alignment explanation
Indices: 9892855--9892920 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
9892845 ATTTTAAATT
9892855 TATTATTATATTA-AGAATTAAAAA
1 TATTATTATATTATA-AATTAAAAA
* *
9892879 TATTATTATTTTATAAATTAAAAT
1 TATTATTATATTATAAATTAAAAA
* *
9892903 TTTTATTACA-TATAAATT
1 TATTATTATATTATAAATT
9892921 TTAATTTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
23 8 0.22
24 27 0.75
25 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
TATTATTATATTATAAATTAAAAA
Found at i:9900352 original size:22 final size:21
Alignment explanation
Indices: 9900318--9900368 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
9900308 CATAAAATTT
*
9900318 TTATTCTTGTTAAAATTATTATAA
1 TTATT-TTATTAAAATT-TTA-AA
9900342 TT-TTTTATTAAAATTTTAAA
1 TTATTTTATTAAAATTTTAAA
9900362 TTATTTT
1 TTATTTT
9900369 TTATTGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 4 0.16
21 7 0.28
22 10 0.40
23 2 0.08
24 2 0.08
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TTATTTTATTAAAATTTTAAA
Found at i:9901442 original size:21 final size:21
Alignment explanation
Indices: 9901418--9901460 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
9901408 TGTGAGGAGT
9901418 ATTTTAAAAGTAAAATTTTGA
1 ATTTTAAAAGTAAAATTTTGA
9901439 ATTTTAAAAGTAAAATTTTGA
1 ATTTTAAAAGTAAAATTTTGA
9901460 A
1 A
9901461 ATATAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (21 bp):
ATTTTAAAAGTAAAATTTTGA
Found at i:9901467 original size:21 final size:21
Alignment explanation
Indices: 9901422--9901468 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
9901412 AGGAGTATTT
* *
9901422 TAAAAGTAAAATTTTGAATTT
1 TAAAAGTAAAATTTTGAAATA
9901443 TAAAAGTAAAATTTTGAAATA
1 TAAAAGTAAAATTTTGAAATA
9901464 TAAAA
1 TAAAA
9901469 AAAATACATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (21 bp):
TAAAAGTAAAATTTTGAAATA
Found at i:9904360 original size:16 final size:16
Alignment explanation
Indices: 9904335--9904368 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9904325 CCAAGCCCAA
9904335 TTGTTCATTTATTTAT
1 TTGTTCATTTATTTAT
*
9904351 TTGTTTATTTATTTAT
1 TTGTTCATTTATTTAT
9904367 TT
1 TT
9904369 TGGGTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.03, G:0.06, T:0.74
Consensus pattern (16 bp):
TTGTTCATTTATTTAT
Found at i:9904682 original size:31 final size:31
Alignment explanation
Indices: 9904618--9904684 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
9904608 GCAGAGAAAC
* *
9904618 AGAGAGAGAGAACAAAAAAGTAGAGGAATAG
1 AGAGAGAGAGAACAAAAAAATAGAAGAATAG
9904649 AGAGAGAGAGAACAAAAAACATA-AAG-ATCAG
1 AGAGAGAGAGAACAAAAAA-ATAGAAGAAT-AG
9904680 AGAGA
1 AGAGA
9904685 CAAAGATCAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 2 0.06
31 28 0.88
32 2 0.06
ACGTcount: A:0.60, C:0.06, G:0.28, T:0.06
Consensus pattern (31 bp):
AGAGAGAGAGAACAAAAAAATAGAAGAATAG
Found at i:9905372 original size:14 final size:14
Alignment explanation
Indices: 9905353--9905407 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
9905343 GCCATTTCTA
*
9905353 TTTATTTGGTATTT
1 TTTATTTAGTATTT
9905367 TTTATTTAGTATTT
1 TTTATTTAGTATTT
9905381 TATT-TTT-G--TTT
1 T-TTATTTAGTATTT
9905392 TTT-TTTAGTATTT
1 TTTATTTAGTATTT
9905405 TTT
1 TTT
9905408 GCATGATTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
10 5 0.14
11 5 0.14
13 7 0.19
14 17 0.47
15 2 0.06
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (14 bp):
TTTATTTAGTATTT
Found at i:9905406 original size:12 final size:12
Alignment explanation
Indices: 9905365--9905407 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
9905355 TATTTGGTAT
9905365 TTTTTATTTAGTA
1 TTTTT-TTTAGTA
*
9905378 TTTTATTTTTGT-
1 TTTT-TTTTAGTA
9905390 TTTTTTTTAGTA
1 TTTTTTTTAGTA
9905402 TTTTTT
1 TTTTTT
9905408 GCATGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 6 0.23
12 10 0.38
13 9 0.35
14 1 0.04
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (12 bp):
TTTTTTTTAGTA
Found at i:9905624 original size:13 final size:13
Alignment explanation
Indices: 9905608--9905633 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9905598 TTTTTCAATA
9905608 AAAAAATAAAAAT
1 AAAAAATAAAAAT
9905621 AAAAAATAAAAAT
1 AAAAAATAAAAAT
9905634 TTGGGTTGAA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:9905895 original size:53 final size:49
Alignment explanation
Indices: 9905818--9905980 Score: 201
Period size: 53 Copynumber: 3.3 Consensus size: 49
9905808 ATGAAAAATG
9905818 AAAAAAAT-TTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTTCAA
1 AAAAAAATATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTT--A
* *
9905868 AAAGGAAAATATTTCTAAATTGACCCAAATGGTGAAAAATTTAGAAA--TA
1 AAA--AAAATATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTTA
* * *
9905917 AAAAAAA-A-TTCTAAATAGGTCTAAATGGTGAAAAATTTAGAAATTTTT
1 AAAAAAATATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAA-TTTA
9905965 AAAAAAATATTTCTAA
1 AAAAAAATATTTCTAA
9905981 TTTGGCATAA
Statistics
Matches: 98, Mismatches: 7, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
45 31 0.32
46 1 0.01
47 4 0.04
48 8 0.08
49 5 0.05
50 9 0.09
51 1 0.01
52 5 0.05
53 34 0.35
ACGTcount: A:0.52, C:0.07, G:0.12, T:0.29
Consensus pattern (49 bp):
AAAAAAATATTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTTA
Found at i:9906021 original size:98 final size:97
Alignment explanation
Indices: 9905813--9906004 Score: 244
Period size: 98 Copynumber: 2.0 Consensus size: 97
9905803 AAAAAATGAA
**
9905813 AAATGAAAAAAATTTTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTTCAAAAAGGAAAAT
1 AAAT-AAAAAAAAATTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTTCAAAAA-GAAAAT
*
9905878 ATTTCTAAATTGACCCAAATGGTGAAAAATTTAG
64 ATTTCTAAATTGACACAAATGGTGAAAAATTTAG
* * **
9905912 AAATAAAAAAAAATTCTAAATAGGTCTAAATGGTGAAAAATTTAGAAATTT-TTAAA-AAAATAT
1 AAATAAAAAAAAATTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTTCAAAAAGAAAATAT
* * * *
9905975 TTCTAATTTGGCATAAATGGTAGAATAATT
66 TTCTAAATTGACACAAATGGT-GAAAAATT
9906005 AGATATATTT
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
95 24 0.30
96 7 0.09
97 3 0.04
98 43 0.53
99 4 0.05
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (97 bp):
AAATAAAAAAAAATTCTAAATAGGCCCAAATGGTGAAAAATTTAGAAATTTCAAAAAGAAAATAT
TTCTAAATTGACACAAATGGTGAAAAATTTAG
Found at i:9910095 original size:9 final size:9
Alignment explanation
Indices: 9910081--9910191 Score: 56
Period size: 8 Copynumber: 12.2 Consensus size: 9
9910071 CTAATGGATG
9910081 GAAAAAGAA
1 GAAAAAGAA
9910090 GAAAAAGAA
1 GAAAAAGAA
9910099 -AAAAA-AA
1 GAAAAAGAA
* *
9910106 AAAAAAAAA
1 GAAAAAGAA
9910115 GGAAAAA-AA
1 -GAAAAAGAA
9910124 GAAAACA-AGA
1 GAAAA-AGA-A
9910134 GAAAAA-AA
1 GAAAAAGAA
9910142 GAAAAA-AA
1 GAAAAAGAA
*
9910150 -ATGAAAGAA
1 GA-AAAAGAA
*
9910159 TGGAAAATAGAT
1 --GAAAA-AGAA
9910171 GAAAAAGAGA
1 GAAAAAGA-A
*
9910181 GAAAATGAA
1 GAAAAAGAA
9910190 GA
1 GA
9910192 CTCAAAGTGA
Statistics
Matches: 84, Mismatches: 6, Indels: 24
0.74 0.05 0.21
Matches are distributed among these distances:
7 3 0.04
8 27 0.32
9 25 0.30
10 23 0.27
11 2 0.02
12 4 0.05
ACGTcount: A:0.76, C:0.01, G:0.19, T:0.05
Consensus pattern (9 bp):
GAAAAAGAA
Found at i:9910102 original size:8 final size:8
Alignment explanation
Indices: 9910081--9910149 Score: 75
Period size: 9 Copynumber: 8.0 Consensus size: 8
9910071 CTAATGGATG
9910081 GAAAAAGAA
1 GAAAAA-AA
9910090 GAAAAAGAA
1 GAAAAA-AA
*
9910099 AAAAAAAA
1 GAAAAAAA
*
9910107 AAAAAAAA
1 GAAAAAAA
9910115 GGAAAAAAA
1 -GAAAAAAA
9910124 GAAAACAAGA
1 GAAAA-AA-A
9910134 GAAAAAAA
1 GAAAAAAA
9910142 GAAAAAAA
1 GAAAAAAA
9910150 ATGAAAGAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
8 24 0.44
9 25 0.45
10 6 0.11
ACGTcount: A:0.84, C:0.01, G:0.14, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:9910104 original size:10 final size:10
Alignment explanation
Indices: 9910082--9910155 Score: 68
Period size: 10 Copynumber: 7.9 Consensus size: 10
9910072 TAATGGATGG
*
9910082 AAAAAG-AAG
1 AAAAAGAAAA
9910091 AAAAAGAAAA
1 AAAAAGAAAA
9910101 AAAAA-AAAA
1 AAAAAGAAAA
*
9910110 AAAAAG-GAA
1 AAAAAGAAAA
9910119 AAAAAG--AA
1 AAAAAGAAAA
* *
9910127 AACAAGAGAA
1 AAAAAGAAAA
9910137 AAAAAGAAAA
1 AAAAAGAAAA
*
9910147 AAAATGAAA
1 AAAAAGAAA
9910156 GAATGGAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
8 7 0.13
9 23 0.42
10 25 0.45
ACGTcount: A:0.84, C:0.01, G:0.14, T:0.01
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:9910165 original size:27 final size:27
Alignment explanation
Indices: 9910082--9910155 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
9910072 TAATGGATGG
* * * *
9910082 AAAAAGAAGAAAAAGAAAAAAAAAAAAA
1 AAAAAGAAAAAAAAG-AAAACAAGAGAA
*
9910110 AAAAAGGAAAAAAAGAAAACAAGAGAA
1 AAAAAGAAAAAAAAGAAAACAAGAGAA
9910137 AAAAAGAAAAAAAATGAAA
1 AAAAAGAAAAAAAA-GAAA
9910156 GAATGGAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.84, C:0.01, G:0.14, T:0.01
Consensus pattern (27 bp):
AAAAAGAAAAAAAAGAAAACAAGAGAA
Found at i:9910176 original size:37 final size:36
Alignment explanation
Indices: 9910082--9910155 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
9910072 TAATGGATGG
* * *
9910082 AAAAAGAAGAAAAAGAAAAAAAAAAAAAAAAAAGGAA
1 AAAAAGAA-AACAAGAGAAAAAAAGAAAAAAAAGGAA
*
9910119 AAAAAGAAAACAAGAGAAAAAAAGAAAAAAAATGAA
1 AAAAAGAAAACAAGAGAAAAAAAGAAAAAAAAGGAA
9910155 A
1 A
9910156 GAATGGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
36 25 0.76
37 8 0.24
ACGTcount: A:0.84, C:0.01, G:0.14, T:0.01
Consensus pattern (36 bp):
AAAAAGAAAACAAGAGAAAAAAAGAAAAAAAAGGAA
Found at i:9911039 original size:67 final size:62
Alignment explanation
Indices: 9910884--9911056 Score: 186
Period size: 67 Copynumber: 2.7 Consensus size: 62
9910874 GGATCAGTGG
** * * * *
9910884 CAAAATTTGTTTTGAAATAATTAGTGTTGAAAAACCTATAAGTGATGACCAAGTGATGGAGGA
1 CAAAATTT-TTTTGAAATGGTTAGTGCTGAGAAACCTATGAGTGATGACCAAGTGAAGGAGGA
*
9910947 CCAAATTTTTTCTGAAATGGTTAGTGCTGAGAAACCTATGAGTGATGACCAACCCAGT-AAGGAA
1 CAAAATTTTTT-TGAAATGGTTAGTGCTGAGAAACCTATGAGTGATGACC-A---AGTGAAGG-A
9911011 GGA
60 GGA
* *
9911014 TAAAATTTATTTTGAAATGGTTAGTGCTGAGAAACTTATGAGT
1 CAAAATTT-TTTTGAAATGGTTAGTGCTGAGAAACCTATGAGT
9911057 AGTGATAAAG
Statistics
Matches: 93, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
62 3 0.03
63 40 0.43
64 1 0.01
66 3 0.03
67 43 0.46
68 3 0.03
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (62 bp):
CAAAATTTTTTTGAAATGGTTAGTGCTGAGAAACCTATGAGTGATGACCAAGTGAAGGAGGA
Found at i:9911505 original size:46 final size:46
Alignment explanation
Indices: 9911455--9911609 Score: 138
Period size: 46 Copynumber: 3.4 Consensus size: 46
9911445 ATTATGAATC
9911455 TTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATATT
1 TTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATATT
* * * * * * *
9911501 TTCAAATGATAAGCTTTGAATCTTAAATAAAAATCTTTAAAATGTT
1 TTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATATT
* * * * *
9911547 TTTAAATGAAAATCTTTAAGATGTTTTCAAATGAGAAGCTTT--GA-ATC
1 TTCAAATGAGAATCTTT--GA-GTCTT-AAATGAGAATCTTTAAGATATT
9911594 TT-AAATGAGAATCTTT
1 TTCAAATGAGAATCTTT
9911610 AAGACATTTT
Statistics
Matches: 86, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
46 66 0.77
47 3 0.03
48 3 0.03
49 3 0.03
50 11 0.13
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (46 bp):
TTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATATT
Found at i:9911562 original size:71 final size:71
Alignment explanation
Indices: 9911477--9911749 Score: 238
Period size: 71 Copynumber: 3.9 Consensus size: 71
9911467 TCTTTGAGTC
*
9911477 TTAAATGAGAATCTTTAAGATATTTTCAAATGATAAGCTTTGAATCTTAAATAAAAATCTTTAAA
1 TTAAATGAGAATCTTTAAGATATTTTCAAATGAGAAGCTTTGAATCTTAAATAAAAATCTTTAAA
**
9911542 ATGTTT
66 ACATTT
* * * * *
9911548 TTAAATGAAAATCTTTAAGATGTTTTCAAATGAGAAGCTTTGAATCTTAAATGAGAATCTTTAAG
1 TTAAATGAGAATCTTTAAGATATTTTCAAATGAGAAGCTTTGAATCTTAAATAAAAATCTTTAAA
9911613 ACATTT
66 ACATTT
* * * * * * * *
9911619 TCAAATGAGAATCTTT--GA-GTCTT-AAATGAAAATCTTTAAGATATTTTTAAATGAGAATCTT
1 TTAAATGAGAATCTTTAAGATATTTTCAAATGAGAAGCTTT--GA-A-TCTTAAATAAAAATCTT
* * *
9911680 T----GAGTC
62 TAAAACATTT
* * * * *
9911686 TTAAATGAGAATTTTTAAGATGTTTTCAAATGAGAAGCTTTGAGTCTTAAATGAGAATCTTTAA
1 TTAAATGAGAATCTTTAAGATATTTTCAAATGAGAAGCTTTGAATCTTAAATAAAAATCTTTAA
9911750 GATGTTAAAT
Statistics
Matches: 168, Mismatches: 24, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
67 45 0.27
68 4 0.02
69 8 0.05
70 5 0.03
71 106 0.63
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (71 bp):
TTAAATGAGAATCTTTAAGATATTTTCAAATGAGAAGCTTTGAATCTTAAATAAAAATCTTTAAA
ACATTT
Found at i:9911599 original size:117 final size:117
Alignment explanation
Indices: 9911455--9911680 Score: 362
Period size: 117 Copynumber: 1.9 Consensus size: 117
9911445 ATTATGAATC
* * * *
9911455 TTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAGATATTTTCAAATGATAAGCTTTGA
1 TTCAAATGAGAAGCTTTGAATCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAAGCTTTGA
*
9911520 ATCTTAAATAAAAATCTTTAAAATGTTTTTAAATGAAAATCTTTAAGATGTT
66 ATCTTAAATAAAAATCTTTAAAATATTTTTAAATGAAAATCTTTAAGATGTT
*
9911572 TTCAAATGAGAAGCTTTGAATCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGA
1 TTCAAATGAGAAGCTTTGAATCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAAGCTTTGA
* * * *
9911637 GTCTTAAATGAAAATCTTTAAGATATTTTTAAATGAGAATCTTT
66 ATCTTAAATAAAAATCTTTAAAATATTTTTAAATGAAAATCTTT
9911681 GAGTCTTAAA
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
117 99 1.00
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (117 bp):
TTCAAATGAGAAGCTTTGAATCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAAGCTTTGA
ATCTTAAATAAAAATCTTTAAAATATTTTTAAATGAAAATCTTTAAGATGTT
Found at i:9911753 original size:46 final size:46
Alignment explanation
Indices: 9911548--9911755 Score: 326
Period size: 46 Copynumber: 4.5 Consensus size: 46
9911538 TAAAATGTTT
* *
9911548 TTAAATGAAAATCTTTAAGATGTTTTCAAATGAGAAGCTTTGAATC
1 TTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAAGCTTTGAGTC
** *
9911594 TTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTGAGTC
1 TTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAAGCTTTGAGTC
* * * *
9911640 TTAAATGAAAATCTTTAAGATATTTTTAAATGAGAATCTTTGAGTC
1 TTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAAGCTTTGAGTC
*
9911686 TTAAATGAGAATTTTTAAGATGTTTTCAAATGAGAAGCTTTGAGTC
1 TTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAAGCTTTGAGTC
9911732 TTAAATGAGAATCTTTAAGATGTT
1 TTAAATGAGAATCTTTAAGATGTT
9911756 AAATCTTTAA
Statistics
Matches: 148, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 148 1.00
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.39
Consensus pattern (46 bp):
TTAAATGAGAATCTTTAAGATGTTTTCAAATGAGAAGCTTTGAGTC
Found at i:9912321 original size:42 final size:40
Alignment explanation
Indices: 9912169--9912338 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
9912159 CATGATTGTT
* * * ** *
9912169 GAGGAGCTTTTGTTTTTCCAAAGTTATGGTATCTTTATTTA
1 GAGGAGCATTTATTTTT-TAAAGTTATGGTGCCTCTATTTA
* *
9912210 GAGGAGCATTTATTTTTTAAAGTTGTGGTGTCTCTATTTA
1 GAGGAGCATTTATTTTTTAAAGTTATGGTGCCTCTATTTA
* * *
9912250 GAGGAGCATTTATTTTTTAAAGTTGTGGTGCCTTTGTTTA
1 GAGGAGCATTTATTTTTTAAAGTTATGGTGCCTCTATTTA
* *
9912290 GAGGAGTAATTTATTTTTTAAAAGTTATGGTGCCTCTGTTTA
1 GAGGAG-CATTTATTTTTT-AAAGTTATGGTGCCTCTATTTA
9912332 GAGGAGC
1 GAGGAGC
9912339 TTTGTTTACT
Statistics
Matches: 114, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 62 0.54
41 26 0.23
42 26 0.23
ACGTcount: A:0.23, C:0.08, G:0.24, T:0.45
Consensus pattern (40 bp):
GAGGAGCATTTATTTTTTAAAGTTATGGTGCCTCTATTTA
Found at i:9912332 original size:82 final size:81
Alignment explanation
Indices: 9912169--9912338 Score: 216
Period size: 81 Copynumber: 2.1 Consensus size: 81
9912159 CATGATTGTT
* * * *
9912169 GAGGAGCTTTTGTTTTTCCAAAGTTATGGTATCTTTATTTAGAGGAGCATTTATTTTTTAAAGTT
1 GAGGAGCATTTATTTTTCCAAAGTTATGGTACCTTTATTTAGAGGAGAATTTATTTTTTAAAGTT
* *
9912234 GTGGTGTCTCTATTTA
66 ATGGTGCCTCTATTTA
* * * *
9912250 GAGGAGCATTTATTTTT-TAAAGTTGTGGTGCCTTTGTTTAGAGGAGTAATTTATTTTTTAAAAG
1 GAGGAGCATTTATTTTTCCAAAGTTATGGTACCTTTATTTAGAGGAG-AATTTATTTTTT-AAAG
*
9912314 TTATGGTGCCTCTGTTTA
64 TTATGGTGCCTCTATTTA
9912332 GAGGAGC
1 GAGGAGC
9912339 TTTGTTTACT
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
80 24 0.32
81 26 0.34
82 26 0.34
ACGTcount: A:0.23, C:0.08, G:0.24, T:0.45
Consensus pattern (81 bp):
GAGGAGCATTTATTTTTCCAAAGTTATGGTACCTTTATTTAGAGGAGAATTTATTTTTTAAAGTT
ATGGTGCCTCTATTTA
Found at i:9913078 original size:20 final size:20
Alignment explanation
Indices: 9913050--9913092 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
9913040 GAAAAATCTA
*
9913050 GAAAATTCTCAGATTTTGGT
1 GAAAATTCTCAGATTTTGAT
* * *
9913070 GAAATTTCTTAGTTTTTGAT
1 GAAAATTCTCAGATTTTGAT
9913090 GAA
1 GAA
9913093 TTTTTCAATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (20 bp):
GAAAATTCTCAGATTTTGAT
Found at i:9913606 original size:12 final size:12
Alignment explanation
Indices: 9913591--9913631 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
9913581 TTTTGGTATT
9913591 TTTTATTTAGTA
1 TTTTATTTAGTA
*
9913603 TTTTATTTATGTG
1 TTTTATTTA-GTA
*
9913616 TTTTTTTTAGTA
1 TTTTATTTAGTA
9913628 TTTT
1 TTTT
9913632 TTGCATGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (12 bp):
TTTTATTTAGTA
Found at i:9913633 original size:12 final size:12
Alignment explanation
Indices: 9913578--9913633 Score: 58
Period size: 13 Copynumber: 4.4 Consensus size: 12
9913568 CTTGTTTCTA
*
9913578 TTTTTTTGGTATT
1 TTTTTTTAGTA-T
9913591 TTTTATTTAGTAT
1 TTTT-TTTAGTAT
* *
9913604 TTTATTTATGTGT
1 TTTTTTTA-GTAT
9913617 TTTTTTTAGTAT
1 TTTTTTTAGTAT
9913629 TTTTT
1 TTTTT
9913634 GCATGATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
12 12 0.33
13 18 0.50
14 6 0.17
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.75
Consensus pattern (12 bp):
TTTTTTTAGTAT
Found at i:9917662 original size:15 final size:15
Alignment explanation
Indices: 9917642--9917672 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9917632 TAGAATATTC
*
9917642 TTAGTGAAACAACTT
1 TTAGTGAAAAAACTT
9917657 TTAGTGAAAAAACTT
1 TTAGTGAAAAAACTT
9917672 T
1 T
9917673 CAATAAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (15 bp):
TTAGTGAAAAAACTT
Found at i:9918499 original size:17 final size:16
Alignment explanation
Indices: 9918479--9918512 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9918469 TAACAATCAT
9918479 ATGCATGTAACAGAAAC
1 ATGCAT-TAACAGAAAC
*
9918496 ATGCATTGACAGAAAC
1 ATGCATTAACAGAAAC
9918512 A
1 A
9918513 AAAAGACTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (16 bp):
ATGCATTAACAGAAAC
Found at i:9918999 original size:24 final size:23
Alignment explanation
Indices: 9918972--9919016 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
9918962 TATTAAGAGC
9918972 TTATTTAAATACAAATTTAAAAAT
1 TTATTTAAATACAAA-TTAAAAAT
* *
9918996 TTATTTGAATATAAATTAAAA
1 TTATTTAAATACAAATTAAAA
9919017 GTTAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TTATTTAAATACAAATTAAAAAT
Found at i:9919011 original size:30 final size:30
Alignment explanation
Indices: 9918984--9919062 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
9918974 ATTTAAATAC
*
9918984 AAATTTAAAAATTTATTTGAATATAAATTA
1 AAATTTAAAAAATTATTTGAATATAAATTA
* * *
9919014 AAAGTTAAAAAATTATATGAATACAAATTA
1 AAATTTAAAAAATTATTTGAATATAAATTA
* *
9919044 AAATTCAAAAACTTATTTG
1 AAATTTAAAAAATTATTTG
9919063 GATTTAATAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.37
Consensus pattern (30 bp):
AAATTTAAAAAATTATTTGAATATAAATTA
Found at i:9919418 original size:49 final size:50
Alignment explanation
Indices: 9919316--9919605 Score: 150
Period size: 49 Copynumber: 5.8 Consensus size: 50
9919306 TTTCAAACCG
** * * * * * *
9919316 AACAAGTAATTGGAGTATTTCT-TAAAAACATAGAAGAATTATCGAACG-T
1 AACAAGTAATAAGAGTATTTTTCTAAAAA-ATAGGAGAATTGTCAAATGAC
* *
9919365 AACAAGTAATAGGAGTATTTTTCTAAAAAATAGGAGAGTTGTCAAATGA-
1 AACAAGTAATAAGAGTATTTTTCTAAAAAATAGGAGAATTGTCAAATGAC
* * * *
9919414 AACAAGCAATAAGAGTATTTCTCTACAAAATA--A-AACTT-TCATATAGAAC
1 AACAAGTAATAAGAGTATTTTTCTAAAAAATAGGAGAA-TTGTCAAAT-G-AC
* * * * * ** *
9919463 AAGAAGTAATATGAGTA-TTTCCTTAAAAAGTAAGAGAATTGT-AAAAAAT
1 AACAAGTAATAAGAGTATTTTTC-TAAAAAATAGGAGAATTGTCAAATGAC
* * * *
9919512 AACAAGTAATAAGAGTATTTTTCTAAAAAATAAGAAAAGTGTCCAATGA-
1 AACAAGTAATAAGAGTATTTTTCTAAAAAATAGGAGAATTGTCAAATGAC
* * * * * *
9919561 AATAAATAATGGAGAGTGTTTCTGTCAAAAAAATAAGAGAATTGT
1 AACAAGTAAT-AAGAGTATTT-T-TCTAAAAAATAGGAGAATTGT
9919606 TGAAACAATC
Statistics
Matches: 185, Mismatches: 40, Indels: 29
0.73 0.16 0.11
Matches are distributed among these distances:
46 6 0.03
47 4 0.02
48 4 0.02
49 123 0.66
50 21 0.11
51 6 0.03
52 21 0.11
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (50 bp):
AACAAGTAATAAGAGTATTTTTCTAAAAAATAGGAGAATTGTCAAATGAC
Found at i:9919479 original size:98 final size:98
Alignment explanation
Indices: 9919368--9919544 Score: 232
Period size: 98 Copynumber: 1.8 Consensus size: 98
9919358 CGAACGTAAC
* * * **
9919368 AAGTAATAGGAGTATTT-TTCTAAAAAATAGGAGAGTTGTCAAATGA-AACAAGCAATAAGAGTA
1 AAGTAATAGGAGTATTTCCT-TAAAAAATAAGAGAATTGT-AAAAAATAACAAGCAATAAGAGTA
*
9919431 TTTCTCTACAAAATAAAACTTTCATATAGAACAAG
64 TTTCTCTAAAAAATAAAACTTTCATATAGAACAAG
* * *
9919466 AAGTAATATGAGTATTTCCTTAAAAAGTAAGAGAATTGTAAAAAATAACAAGTAATAAGAGTATT
1 AAGTAATAGGAGTATTTCCTTAAAAAATAAGAGAATTGTAAAAAATAACAAGCAATAAGAGTATT
*
9919531 TTTCTAAAAAATAA
66 TCTCTAAAAAATAA
9919545 GAAAAGTGTC
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
97 4 0.06
98 62 0.93
99 1 0.01
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (98 bp):
AAGTAATAGGAGTATTTCCTTAAAAAATAAGAGAATTGTAAAAAATAACAAGCAATAAGAGTATT
TCTCTAAAAAATAAAACTTTCATATAGAACAAG
Found at i:9923229 original size:24 final size:25
Alignment explanation
Indices: 9923183--9923233 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
9923173 TCAAGCCCAA
*
9923183 TTATCCATTTTATTTTTGGTTTTAT
1 TTATCCATTTTATTTTTGATTTTAT
*
9923208 TTATCCATTTT-TTTTTTATTTTAT
1 TTATCCATTTTATTTTTGATTTTAT
9923232 TT
1 TT
9923234 CATCTTGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.16, C:0.08, G:0.04, T:0.73
Consensus pattern (25 bp):
TTATCCATTTTATTTTTGATTTTAT
Found at i:9923300 original size:22 final size:22
Alignment explanation
Indices: 9923272--9923313 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9923262 TTTGTTTATC
* *
9923272 TTTGATTTATTTCTTTTTTTTA
1 TTTGATTTATCTATTTTTTTTA
9923294 TTTGATTTATCTATTTTTTT
1 TTTGATTTATCTATTTTTTT
9923314 CTTTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (22 bp):
TTTGATTTATCTATTTTTTTTA
Found at i:9928757 original size:10 final size:10
Alignment explanation
Indices: 9928729--9928771 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
9928719 GGTAGAAAGG
9928729 AAAAAAGCAAA
1 AAAAAAG-AAA
*
9928740 AAGAAAGAAA
1 AAAAAAGAAA
**
9928750 AACCAAGAAA
1 AAAAAAGAAA
9928760 AAAAAAGAAA
1 AAAAAAGAAA
9928770 AA
1 AA
9928772 TGAATGCCAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 21 0.78
11 6 0.22
ACGTcount: A:0.81, C:0.07, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:9929172 original size:17 final size:16
Alignment explanation
Indices: 9929138--9929197 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
9929128 GTGAAAGAAT
* *
9929138 GAAAGAAAAAATAAAG
1 GAAAAAAAAAAAAAAG
9929154 GAAAAAAATAAAAAAAG
1 GAAAAAAA-AAAAAAAG
*
9929171 GAAAAATAAAAGAAAAAC
1 GAAAAA-AAAA-AAAAAG
9929189 GAAAAAAAA
1 GAAAAAAAA
9929198 TAGAAGAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
16 7 0.18
17 18 0.47
18 13 0.34
ACGTcount: A:0.80, C:0.02, G:0.13, T:0.05
Consensus pattern (16 bp):
GAAAAAAAAAAAAAAG
Found at i:9929187 original size:21 final size:21
Alignment explanation
Indices: 9929163--9929226 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
9929153 GGAAAAAAAT
9929163 AAAAAAAGGAAAAATAAAAGA
1 AAAAAAAGGAAAAATAAAAGA
*
9929184 AAAACGAAA--AAAAATAGAAG-
1 AAAA--AAAGGAAAAATAAAAGA
*
9929204 AAAAAAAGAGAAAAATGAAAGA
1 AAAAAAAG-GAAAAATAAAAGA
9929226 A
1 A
9929227 TGAAAAAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
18 3 0.09
20 4 0.12
21 23 0.68
22 1 0.03
23 3 0.09
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.05
Consensus pattern (21 bp):
AAAAAAAGGAAAAATAAAAGA
Found at i:9929194 original size:28 final size:28
Alignment explanation
Indices: 9929139--9929233 Score: 86
Period size: 28 Copynumber: 3.3 Consensus size: 28
9929129 TGAAAGAATG
*
9929139 AAAGAAAAAATAAAGGAAAAAAATAAAA
1 AAAGAAAAAATAAAAGAAAAAAATAAAA
*
9929167 AAAGGAAAAATAAAAGAAAAACGAA-AAAA
1 AAAGAAAAAATAAAAGAAAAA--AATAAAA
* * *
9929196 AATAGAAGAAA-AAAAGAGAAAAATGAAAG
1 AA-AGAAAAAATAAAAGAAAAAAAT-AAAA
*
9929225 AATGAAAAA
1 AAAGAAAAA
9929234 GAAATGAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
27 2 0.04
28 24 0.44
29 20 0.37
30 8 0.15
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.06
Consensus pattern (28 bp):
AAAGAAAAAATAAAAGAAAAAAATAAAA
Found at i:9929197 original size:11 final size:10
Alignment explanation
Indices: 9929139--9929237 Score: 54
Period size: 12 Copynumber: 8.7 Consensus size: 10
9929129 TGAAAGAATG
9929139 AAAGAAAAAA
1 AAAGAAAAAA
9929149 TAAAGGAAAAAA
1 -AAA-GAAAAAA
*
9929161 ATAAAAAAAGGAA
1 A-AAGAAAA--AA
*
9929174 AAATAAAAGAA
1 AAAGAAAA-AA
9929185 AAACGAAAAAA
1 AAA-GAAAAAA
9929196 AATAGAAGAAAA
1 AA-AGAA-AAAA
9929208 AAAGAGAAAAA
1 AAAGA-AAAAA
**
9929219 TGAAAGAATGAA
1 --AAAGAAAAAA
9929231 AAAGAAA
1 AAAGAAA
9929238 TGAAAATGAG
Statistics
Matches: 72, Mismatches: 6, Indels: 21
0.73 0.06 0.21
Matches are distributed among these distances:
10 6 0.08
11 28 0.39
12 30 0.42
13 8 0.11
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.06
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:9929202 original size:18 final size:18
Alignment explanation
Indices: 9929155--9929202 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
9929145 AAAATAAAGG
* *
9929155 AAAAAAATAAAAAAAGGA
1 AAAAAAATAGAAAAACGA
9929173 AAAATAAA-AGAAAAACGA
1 AAAA-AAATAGAAAAACGA
9929191 AAAAAAATAGAA
1 AAAAAAATAGAA
9929203 GAAAAAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.81, C:0.02, G:0.10, T:0.06
Consensus pattern (18 bp):
AAAAAAATAGAAAAACGA
Found at i:9930091 original size:79 final size:79
Alignment explanation
Indices: 9929925--9930083 Score: 187
Period size: 79 Copynumber: 2.0 Consensus size: 79
9929915 GAAGTTTATT
* * *
9929925 AATGATGATCAAGTGATGAACATAATATGGATCATAGGACAAAATTCATTCTAGAATAGTTAGTG
1 AATGGTGATCAAGTGATGAACATAATATGGATAATAGGACAAAATTCATTCTAGAATAGATAGTG
9929990 CTAAGAAACCTATG
66 CTAAGAAACCTATG
* * * * * *
9930004 AATGGTGATCAAGTTATGAACATAATATGGATTAAT-TGATAGAATTTATTCTA-AGATTGATAG
1 AATGGTGATCAAGTGATGAACATAATATGGA-TAATAGGACAAAATTCATTCTAGA-ATAGATAG
* *
9930067 TGCTGAGAAGCCTATG
64 TGCTAAGAAACCTATG
9930083 A
1 A
9930084 GTTGTGATTA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
79 63 0.94
80 3 0.04
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (79 bp):
AATGGTGATCAAGTGATGAACATAATATGGATAATAGGACAAAATTCATTCTAGAATAGATAGTG
CTAAGAAACCTATG
Found at i:9930533 original size:21 final size:21
Alignment explanation
Indices: 9930507--9930788 Score: 231
Period size: 21 Copynumber: 12.7 Consensus size: 21
9930497 GTGAACCTTC
9930507 AAATGAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
* * *
9930528 AAATGAGAATTTTTAAGAAATCCTC
1 AAATGAGAATCTTT--G-AGT-CTT
* *
9930553 AAATGAGAATCTTTGAATTTT
1 AAATGAGAATCTTTGAGTCTT
*
9930574 AAATAAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
* *
9930595 CAAATGAGAATCTTTGAATTTT
1 -AAATGAGAATCTTTGAGTCTT
* * * *
9930617 CAAATAGAAAATATTTAAGTTTT
1 -AAAT-GAGAATCTTTGAGTCTT
*
9930640 AAATGAGAATCTTTGAGTTTT
1 AAATGAGAATCTTTGAGTCTT
*
9930661 AAATGTGAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
* * *
9930682 AAATGAGAATCTTTAAAAAATTTT
1 AAATGAGAATCTTT---GAGTCTT
*
9930706 CAAATAAGAATCTTTGAGTCTTT
1 -AAATGAGAATCTTTGAGTC-TT
* * *
9930729 AAATGAAAATCTTTAAGAAATCCTC
1 AAATGAGAATCTTT--G-AGT-CTT
9930754 AAATGAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTGAGTCTT
9930775 AAATGAGAATCTTT
1 AAATGAGAATCTTT
9930789 AAAAAAATTT
Statistics
Matches: 210, Mismatches: 36, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
21 94 0.45
22 46 0.22
23 18 0.09
24 7 0.03
25 44 0.21
26 1 0.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (21 bp):
AAATGAGAATCTTTGAGTCTT
Found at i:9930661 original size:87 final size:87
Alignment explanation
Indices: 9930553--9930792 Score: 304
Period size: 87 Copynumber: 2.7 Consensus size: 87
9930543 AGAAATCCTC
* *
9930553 AAATGAGAATCTTTGAATTTTAAATAAGAATCTTTGAGTCTTCAAATGAGAATCTTT-GAATTTT
1 AAATGAGAATCTTTGAATTTTAAATGAGAATCTTTGAGTCTT-AAATGAGAATCTTTAAAATTTT
9930617 CAAATAGAAAATATTTAAGT-TTT
65 CAAATA-AAAATATTTAAGTCTTT
* *
9930640 AAATGAGAATCTTTGAGTTTTAAATGTGAATCTTTGAGTCTTAAATGAGAATCTTTAAAAAATTT
1 AAATGAGAATCTTTGAATTTTAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTT--AAAATTT
* * *
9930705 TCAAATAAGAATCTTTGAGTCTTT
64 TCAAATAAAAATATTTAAGTCTTT
* * *
9930729 AAATGAAAATCTTTAAGAAATCCTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAAA
1 AAATGAGAATCTTT--G-AAT-TTTAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAAA
9930793 AAATTTCAAA
Statistics
Matches: 133, Mismatches: 12, Indels: 12
0.85 0.08 0.08
Matches are distributed among these distances:
86 14 0.11
87 39 0.29
88 10 0.08
89 28 0.21
91 5 0.04
92 2 0.02
93 35 0.26
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (87 bp):
AAATGAGAATCTTTGAATTTTAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAAATTTTC
AAATAAAAATATTTAAGTCTTT
Found at i:9930733 original size:133 final size:133
Alignment explanation
Indices: 9930507--9930788 Score: 340
Period size: 133 Copynumber: 2.1 Consensus size: 133
9930497 GTGAACCTTC
* *
9930507 AAATGAGAATCTTTGAGTCTTAAATGAGAATTTTTAAGAAATCCTCAAATGAGAATCTTTGAATT
1 AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTT-AGAAATCCTCAAATGAGAATCTTTAAATT
* **
9930572 TTAAATAAGAATCTTTGAGTCTTCAAATGAGAATCTTT-G-AATTTTCAAATAGAAAATATTTAA
65 TTAAATAAGAATCTTTGAGTCTTCAAATGAAAATCTTTAGAAATCCTCAAAT-GAAAATATTTAA
*
9930635 GTTTT
129 GTCTT
* * * *
9930640 AAATGAGAATCTTTGAGTTTTAAATGTGAATCTTT-G-AGT-CTTAAATGAGAATCTTTAAAAAA
1 AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAGAAATCCTCAAATGAGAATCTTT---AAA
* * *
9930702 TTTTCAAATAAGAATCTTTGAGTCTTTAAATGAAAATCTTTAAGAAATCCTCAAATGAGAATCTT
63 TTTT-AAATAAGAATCTTTGAGTCTTCAAATGAAAATCTTT-AGAAATCCTCAAATGAAAATATT
*
9930767 TGAGTCTT
126 TAAGTCTT
9930775 AAATGAGAATCTTT
1 AAATGAGAATCTTT
9930789 AAAAAAATTT
Statistics
Matches: 128, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
129 16 0.12
130 2 0.02
131 1 0.01
132 6 0.05
133 66 0.52
135 28 0.22
136 9 0.07
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (133 bp):
AAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAGAAATCCTCAAATGAGAATCTTTAAATTT
TAAATAAGAATCTTTGAGTCTTCAAATGAAAATCTTTAGAAATCCTCAAATGAAAATATTTAAGT
CTT
Found at i:9930782 original size:93 final size:88
Alignment explanation
Indices: 9930553--9930836 Score: 331
Period size: 93 Copynumber: 3.2 Consensus size: 88
9930543 AGAAATCCTC
* * * * *
9930553 AAATGAGAATCTTTGAATTTTAAATAAGAATCTTTGAGTCTTCAAATGAGAATCTTT---GAATT
1 AAATGAAAATCTTTGAATCTCAAATGAGAATCTTTGAGTCTT-AAATGAGAATCTTTAAAAAATT
* * *
9930615 TTCAAATAGAAAATATTTAAGTTTT
65 TTCAAATA-AGAATCTTTGAGTTTT
* * * * *
9930640 AAATGAGAATCTTTGAGTTTTAAATGTGAATCTTTGAGTCTTAAATGAGAATCTTTAAAAAATTT
1 AAATGAAAATCTTTGAATCTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAAAAATTT
9930705 TCAAATAAGAATCTTTGAGTCTTT
66 TCAAATAAGAATCTTTGAGT-TTT
9930729 AAATGAAAATCTTTAAGAAATCCTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAAAA
1 AAATGAAAATCTTT--G-AAT-CTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAAAA
* *
9930794 AATTTCAAATGAGAATCTTTGAGTTTT
62 ATTTTCAAATAAGAATCTTTGAGTTTT
*
9930821 CAAATGAAACTCTTTG
1 -AAATGAAAATCTTTG
9930837 GACATGAACC
Statistics
Matches: 173, Mismatches: 15, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
86 14 0.08
87 39 0.23
88 10 0.06
89 28 0.16
91 2 0.01
92 5 0.03
93 75 0.43
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (88 bp):
AAATGAAAATCTTTGAATCTCAAATGAGAATCTTTGAGTCTTAAATGAGAATCTTTAAAAAATTT
TCAAATAAGAATCTTTGAGTTTT
Found at i:9930802 original size:46 final size:45
Alignment explanation
Indices: 9930553--9930835 Score: 269
Period size: 46 Copynumber: 6.3 Consensus size: 45
9930543 AGAAATCCTC
* * *
9930553 AAATGAGAATCTTT---GAATTTTAAATAAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTAAAAAATTTCAAATGAGAATCTTTGAGTCTT
* * * * * *
9930595 CAAATGAGAATCTTT--GAATTTTCAAATAGAAAATATTTAAGTTTT
1 -AAATGAGAATCTTTAAAAAATTTCAAAT-GAGAATCTTTGAGTCTT
* * * *
9930640 AAATGAGAATCTTT---GAGTTTTAAATGTGAATCTTTGAGTCTT
1 AAATGAGAATCTTTAAAAAATTTCAAATGAGAATCTTTGAGTCTT
*
9930682 AAATGAGAATCTTTAAAAAATTTTCAAATAAGAATCTTTGAGTCTTT
1 AAATGAGAATCTTTAAAAAA-TTTCAAATGAGAATCTTTGAGTC-TT
* * *
9930729 AAATGAAAATCTTTAAGAAATCCTCAAATGAGAATCTTTGAGTCTT
1 AAATGAGAATCTTTAAAAAAT-TTCAAATGAGAATCTTTGAGTCTT
*
9930775 AAATGAGAATCTTTAAAAAAATTTCAAATGAGAATCTTTGAGTTTT
1 AAATGAGAATCTTT-AAAAAATTTCAAATGAGAATCTTTGAGTCTT
9930821 CAAATGA-AACTCTTT
1 -AAATGAGAA-TCTTT
9930836 GGACATGAAC
Statistics
Matches: 200, Mismatches: 29, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
42 26 0.13
43 22 0.11
44 22 0.11
45 13 0.06
46 60 0.30
47 57 0.28
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (45 bp):
AAATGAGAATCTTTAAAAAATTTCAAATGAGAATCTTTGAGTCTT
Found at i:9931027 original size:21 final size:20
Alignment explanation
Indices: 9930965--9931034 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 20
9930955 ACTCGAATAA
*
9930965 AATCTTTAAACTTTTGGATGTG
1 AATCTTTAAA--TTTGGATGAG
***
9930987 AATCTCTTAAATTCAAATGAG
1 AATCT-TTAAATTTGGATGAG
9931008 AATCTTTAAATGTTGGATGAG
1 AATCTTTAAAT-TTGGATGAG
*
9931029 AGTCTT
1 AATCTT
9931035 GTAATTTGCA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
20 6 0.16
21 22 0.58
22 5 0.13
23 5 0.13
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (20 bp):
AATCTTTAAATTTGGATGAG
Found at i:9931577 original size:25 final size:26
Alignment explanation
Indices: 9931524--9931578 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
9931514 TCAAGCCCAA
* *
9931524 TTATCCATTTTTATTTTTGATTTTAT
1 TTATCCATTTTGATTTTTGATTATAT
9931550 TTATCCATTTTGATTTTAT-ATTAT-T
1 TTATCCATTTTGATTTT-TGATTATAT
9931575 TTAT
1 TTAT
9931579 TTTATTTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 5 0.19
26 20 0.77
27 1 0.04
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.67
Consensus pattern (26 bp):
TTATCCATTTTGATTTTTGATTATAT
Found at i:9931590 original size:15 final size:15
Alignment explanation
Indices: 9931543--9931591 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
9931533 TTTATTTTTG
*
9931543 ATTTTA-TTTA-TCC
1 ATTTTATTTTATTTC
9931556 ATTTTGATTTTATATT-
1 ATTTT-ATTTTAT-TTC
9931572 ATTTTATTTTATTTC
1 ATTTTATTTTATTTC
9931587 ATTTT
1 ATTTT
9931592 GTGTTGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
13 5 0.17
14 3 0.10
15 16 0.53
16 5 0.17
17 1 0.03
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.69
Consensus pattern (15 bp):
ATTTTATTTTATTTC
Found at i:9931638 original size:32 final size:30
Alignment explanation
Indices: 9931595--9931656 Score: 72
Period size: 32 Copynumber: 2.0 Consensus size: 30
9931585 TCATTTTGTG
*
9931595 TTGATTATTCATTCATTTGTTTG-TTTATCT
1 TTGATTATTCATT-ATTTATTTGATTTATCT
*
9931625 TTGATCTATTTCATTTTTTATTTGATTTATCT
1 TTGAT-TA-TTCATTATTTATTTGATTTATCT
9931657 ATTTTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 5 0.19
31 9 0.33
32 13 0.48
ACGTcount: A:0.18, C:0.10, G:0.08, T:0.65
Consensus pattern (30 bp):
TTGATTATTCATTATTTATTTGATTTATCT
Found at i:9931650 original size:21 final size:20
Alignment explanation
Indices: 9931624--9931663 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
9931614 TTTGTTTATC
*
9931624 TTTGATCTATTTCATTTTTTA
1 TTTGATCTATCT-ATTTTTTA
*
9931645 TTTGATTTATCTATTTTTT
1 TTTGATCTATCTATTTTTT
9931664 TCTTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTGATCTATCTATTTTTTA
Found at i:9933496 original size:61 final size:60
Alignment explanation
Indices: 9933410--9933530 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 60
9933400 ATTTTCTTTC
* *
9933410 AAAAAAATAAAAAGAAAAAATAATTTCTAAATAGGCCCAAATAGTGAAAAATTTAAAAAT
1 AAAAAAATAAAAAGAAAAAAGAATTTCTAAATAAGCCCAAATAGTGAAAAATTTAAAAAT
* * * *
9933470 AAAAAAAT-AAATGAATTAAAAGAATTTCTAAATAAGCCCAAATGGTGAAGAATTTAGAAAT
1 AAAAAAATAAAAAGAA--AAAAGAATTTCTAAATAAGCCCAAATAGTGAAAAATTTAAAAAT
9933531 TTAAAACAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
59 6 0.11
60 8 0.15
61 39 0.74
ACGTcount: A:0.60, C:0.07, G:0.11, T:0.23
Consensus pattern (60 bp):
AAAAAAATAAAAAGAAAAAAGAATTTCTAAATAAGCCCAAATAGTGAAAAATTTAAAAAT
Found at i:9942813 original size:2 final size:2
Alignment explanation
Indices: 9942806--9942831 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9942796 GAAGCAAGAT
9942806 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
9942832 GGCAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9944810 original size:13 final size:13
Alignment explanation
Indices: 9944794--9944844 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
9944784 TAATACTTGA
9944794 TTATAATTATAAT
1 TTATAATTATAAT
9944807 TTATAATTATAAT
1 TTATAATTATAAT
*
9944820 CTCATAA--A-AAT
1 -TTATAATTATAAT
*
9944831 TTACAATTATAAT
1 TTATAATTATAAT
9944844 T
1 T
9944845 AATTGTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
10 4 0.13
11 3 0.10
12 2 0.06
13 17 0.55
14 5 0.16
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (13 bp):
TTATAATTATAAT
Found at i:9945507 original size:61 final size:61
Alignment explanation
Indices: 9945441--9945560 Score: 195
Period size: 61 Copynumber: 2.0 Consensus size: 61
9945431 AGAATACACG
*
9945441 TATGTGTACATATAAGTGCATGTATACATGAATGTACGTTTAAATAGAATCAGTCCATTCT
1 TATGTGTACATATAAGTGCATGTATACATGAATGCACGTTTAAATAGAATCAGTCCATTCT
* * * *
9945502 TATGTGTACATATAAGTGCATGTCTATATGTATGCATGTTTAAATAGAATCAGTCCATT
1 TATGTGTACATATAAGTGCATGTATACATGAATGCACGTTTAAATAGAATCAGTCCATT
9945561 AGCCGTGTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 54 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (61 bp):
TATGTGTACATATAAGTGCATGTATACATGAATGCACGTTTAAATAGAATCAGTCCATTCT
Found at i:9948044 original size:75 final size:75
Alignment explanation
Indices: 9947921--9948070 Score: 255
Period size: 75 Copynumber: 2.0 Consensus size: 75
9947911 TACTTAGTAG
* * *
9947921 TGGACTCCTTATCAACTAGATTTCTTAGCTCAAAACTAGAAATGAAAAGAGGTCTACTATTAGAT
1 TGGACTCCATATCAACTAGATTTCTCAACTCAAAACTAGAAATGAAAAGAGGTCTACTATTAGAT
*
9947986 TAATAAGTTA
66 TAACAAGTTA
*
9947996 TGGACTCCATATCAACTAGTTTTCTCAACTCAAAACTAGAAATGAAAAGAGGTCTACTATTAGAT
1 TGGACTCCATATCAACTAGATTTCTCAACTCAAAACTAGAAATGAAAAGAGGTCTACTATTAGAT
9948061 TAACAAGTTA
66 TAACAAGTTA
9948071 AATACAAGAT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (75 bp):
TGGACTCCATATCAACTAGATTTCTCAACTCAAAACTAGAAATGAAAAGAGGTCTACTATTAGAT
TAACAAGTTA
Found at i:9949207 original size:2 final size:2
Alignment explanation
Indices: 9949202--9949228 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9949192 TAAAAAATTG
9949202 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 T
9949229 TTTATGACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9949553 original size:17 final size:16
Alignment explanation
Indices: 9949533--9949566 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9949523 TAACAATCAT
9949533 ATGCATGTAACAGAAAC
1 ATGCAT-TAACAGAAAC
*
9949550 ATGCATTGACAGAAAC
1 ATGCATTAACAGAAAC
9949566 A
1 A
9949567 AAAAGACTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (16 bp):
ATGCATTAACAGAAAC
Found at i:9950041 original size:24 final size:22
Alignment explanation
Indices: 9950014--9950062 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 22
9950004 TATTAAGGAC
9950014 TTATTTAAATACAAATTTAAAAGT
1 TTATTTAAATACAAA-TTAAAA-T
*
9950038 TTATTTGAATACAAATTAAAAT
1 TTATTTAAATACAAATTAAAAT
9950060 TTA
1 TTA
9950063 AAAATTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 4 0.17
23 6 0.25
24 14 0.58
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (22 bp):
TTATTTAAATACAAATTAAAAT
Found at i:9950060 original size:30 final size:30
Alignment explanation
Indices: 9950026--9950103 Score: 120
Period size: 30 Copynumber: 2.6 Consensus size: 30
9950016 ATTTAAATAC
*
9950026 AAATTTAAAAGTTTATTTGAATACAAATTA
1 AAATTTAAAAATTTATTTGAATACAAATTA
*
9950056 AAATTTAAAAATTTATTTGAATGCAAATTA
1 AAATTTAAAAATTTATTTGAATACAAATTA
* *
9950086 AAATTCAAAAACTTATTT
1 AAATTTAAAAATTTATTT
9950104 TGGATGTAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (30 bp):
AAATTTAAAAATTTATTTGAATACAAATTA
Found at i:9950429 original size:49 final size:49
Alignment explanation
Indices: 9950351--9950455 Score: 108
Period size: 49 Copynumber: 2.1 Consensus size: 49
9950341 ATTTTTTTTT
* * *
9950351 TGTCAAACCGAACAAGTAATTGGAATA-TTTCTTTAAAAAATCGAAGAAC
1 TGTCAAACCGAACAAATAATTGGAATATTTTC-CTAAAAAATAGAAGAAC
* * *
9950400 TGTCAAA-CGTAACAAATAATAT-GAGTATTTTCCTAAAAAATAGGAGAGC
1 TGTCAAACCG-AACAAATAAT-TGGAATATTTTCCTAAAAAATAGAAGAAC
9950449 TGTCAAA
1 TGTCAAA
9950456 TGAAACAAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
48 2 0.04
49 40 0.85
50 5 0.11
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (49 bp):
TGTCAAACCGAACAAATAATTGGAATATTTTCCTAAAAAATAGAAGAAC
Found at i:9956560 original size:21 final size:21
Alignment explanation
Indices: 9956534--9956576 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
9956524 GAGGATTGGT
9956534 CTCTTGCCTCTGAAAGCTGCC
1 CTCTTGCCTCTGAAAGCTGCC
*
9956555 CTCTTGCTTCTGAAAGCTGCC
1 CTCTTGCCTCTGAAAGCTGCC
9956576 C
1 C
9956577 CGTCAAAGAG
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:0.14, C:0.37, G:0.19, T:0.30
Consensus pattern (21 bp):
CTCTTGCCTCTGAAAGCTGCC
Found at i:9960873 original size:88 final size:88
Alignment explanation
Indices: 9960771--9960932 Score: 272
Period size: 88 Copynumber: 1.8 Consensus size: 88
9960761 TATAAAAACT
* **
9960771 CTTAATAACAATAAAATTAAAATGA-ATAGTGAAATATATGTTTAAATATAAATATAATGATAAT
1 CTTAATAACAATAAAATTAAAAT-ACACAGCAAAATATATGTTTAAATATAAATATAATGATAAT
9960835 AATAAAATTGAATATGAAAATAAC
65 AATAAAATTGAATATGAAAATAAC
9960859 CTTAATAACAATAAAATTAAAATACACAGCAAAATATATGTTTAAATATAAATATAATGATAATA
1 CTTAATAACAATAAAATTAAAATACACAGCAAAATATATGTTTAAATATAAATATAATGATAATA
*
9960924 ATGAAATTG
66 ATAAAATTG
9960933 GCAGTAAACT
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
87 1 0.01
88 68 0.99
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.31
Consensus pattern (88 bp):
CTTAATAACAATAAAATTAAAATACACAGCAAAATATATGTTTAAATATAAATATAATGATAATA
ATAAAATTGAATATGAAAATAAC
Found at i:9963071 original size:2 final size:2
Alignment explanation
Indices: 9963064--9963093 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9963054 TCTTTAATTG
*
9963064 AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9963094 TATGATTTCA
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9963676 original size:16 final size:16
Alignment explanation
Indices: 9963655--9963685 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9963645 AGGTTTCAAT
*
9963655 AAATTTTAACAAATAA
1 AAATTTTAAAAAATAA
9963671 AAATTTTAAAAAATA
1 AAATTTTAAAAAATA
9963686 TGAAAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTTTAAAAAATAA
Found at i:9964868 original size:16 final size:17
Alignment explanation
Indices: 9964849--9964890 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
9964839 ACTAATGTTA
9964849 TATTTGCATAATA-ATT
1 TATTTGCATAATATATT
* *
9964865 TATTTACCTAATATATT
1 TATTTGCATAATATATT
*
9964882 TGTTTGCAT
1 TATTTGCAT
9964891 GATTATTAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (17 bp):
TATTTGCATAATATATT
Found at i:9964900 original size:24 final size:24
Alignment explanation
Indices: 9964873--9964988 Score: 118
Period size: 24 Copynumber: 5.0 Consensus size: 24
9964863 TTTATTTACC
**
9964873 TAATATATTTGTTTGCATGATTAT
1 TAATATATTTAATTGCATGATTAT
* *
9964897 TAATATATTTATTTGTATGATTA-
1 TAATATATTTAATTGCATGATTAT
* *
9964920 T-ATTTAATTTGATTGCATGATTAT
1 TAATAT-ATTTAATTGCATGATTAT
9964944 TAATATATTTAATTGCATG---AT
1 TAATATATTTAATTGCATGATTAT
*
9964965 T-ATATATTTAATTGCATGTTTAT
1 TAATATATTTAATTGCATGATTAT
9964988 T
1 T
9964989 TGTATGATTA
Statistics
Matches: 78, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
20 17 0.22
21 3 0.04
22 3 0.04
23 18 0.23
24 34 0.44
25 3 0.04
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.54
Consensus pattern (24 bp):
TAATATATTTAATTGCATGATTAT
Found at i:9964948 original size:47 final size:47
Alignment explanation
Indices: 9964879--9964969 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
9964869 TACCTAATAT
* * *
9964879 ATTTGTTTGCATGATTATTAATATATTTATTTGTATGATTATATTTA
1 ATTTGATTGCATGATTATTAATATATTTAATTGCATGATTATATTTA
9964926 ATTTGATTGCATGATTATTAATATATTTAATTGCATGATTATAT
1 ATTTGATTGCATGATTATTAATATATTTAATTGCATGATTATAT
9964970 ATTTAATTGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.54
Consensus pattern (47 bp):
ATTTGATTGCATGATTATTAATATATTTAATTGCATGATTATATTTA
Found at i:9964971 original size:20 final size:20
Alignment explanation
Indices: 9964899--9964987 Score: 79
Period size: 20 Copynumber: 4.1 Consensus size: 20
9964889 ATGATTATTA
* *
9964899 ATATATTTATTTGTATGATT
1 ATATATTTAATTGCATGATT
*
9964919 ATATTTAATTTGATTGCATGATTATT
1 ATA--T-ATTTAATTGCATG---ATT
9964945 AATATATTTAATTGCATGATT
1 -ATATATTTAATTGCATGATT
*
9964966 ATATATTTAATTGCATGTTT
1 ATATATTTAATTGCATGATT
9964986 AT
1 AT
9964988 TTGTATGATT
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
20 24 0.42
21 3 0.05
22 1 0.02
23 10 0.18
24 12 0.21
25 1 0.02
26 3 0.05
27 3 0.05
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (20 bp):
ATATATTTAATTGCATGATT
Found at i:9965060 original size:31 final size:31
Alignment explanation
Indices: 9965018--9965078 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
9965008 TTGTATATTT
*
9965018 TGCATGGTTTATATATTATTATTTACATGAC
1 TGCATGATTTATATATTATTATTTACATGAC
*
9965049 TGCATGATTTATATATTATTATTTGCATGA
1 TGCATGATTTATATATTATTATTTACATGA
9965079 TTATATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.49
Consensus pattern (31 bp):
TGCATGATTTATATATTATTATTTACATGAC
Found at i:9965075 original size:23 final size:21
Alignment explanation
Indices: 9965049--9965102 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
9965039 TTTACATGAC
*
9965049 TGCATGATTTATATATTATTATT
1 TGCATGATTTATATA-T-TTAAT
9965072 TGCATGA-TTATATATTTAAT
1 TGCATGATTTATATATTTAAT
9965092 TGCAT-ATTTAT
1 TGCATGATTTAT
9965103 TGCATGATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 1 0.03
20 13 0.45
21 1 0.03
22 7 0.24
23 7 0.24
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (21 bp):
TGCATGATTTATATATTTAAT
Found at i:9965094 original size:20 final size:20
Alignment explanation
Indices: 9965095--9965184 Score: 73
Period size: 20 Copynumber: 4.8 Consensus size: 20
9965085 ATTTAATTGC
9965095 ATATTT-ATTGCATGATTAT
1 ATATTTAATTGCATGATTAT
* *
9965114 ATATTTAATTACATGTTTAT
1 ATATTTAATTGCATGATTAT
* * * * *
9965134 TTATATGATT--ATTAATAT
1 ATATTTAATTGCATGATTAT
*
9965152 -TA-TTATTTGCATGATTAT
1 ATATTTAATTGCATGATTAT
9965170 ATATTTAATTGCATG
1 ATATTTAATTGCATG
9965185 TCTAATTGCA
Statistics
Matches: 52, Mismatches: 14, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
16 3 0.06
17 2 0.04
18 11 0.21
19 8 0.15
20 28 0.54
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.53
Consensus pattern (20 bp):
ATATTTAATTGCATGATTAT
Found at i:9965106 original size:31 final size:31
Alignment explanation
Indices: 9965071--9965295 Score: 169
Period size: 32 Copynumber: 7.3 Consensus size: 31
9965061 ATATTATTAT
*
9965071 TTGCATGATTATATATTTAATTGCATATTTA
1 TTGCATGATTATATATTTAATTACATATTTA
*
9965102 TTGCATGATTATATATTTAATTACATGTTTA
1 TTGCATGATTATATATTTAATTACATATTTA
* * *
9965133 TT-TAT-ATGAT-TA-TTAA-TA-TTA-TTA
1 TTGCATGATTATATATTTAATTACATATTTA
* * *
9965157 TTTGCATGATTATATATTTAATTGCATGTCTAA
1 -TTGCATGATTATATATTTAATTACATAT-TTA
* *** * *
9965190 TTGCATGATTAT-TAATTTATTTGTTTGTGTGA
1 TTGCATGATTATAT-ATTTAATTACATAT-TTA
**
9965222 TTGCATGATTATATATTTAATTGTATATTTA
1 TTGCATGATTATATATTTAATTACATATTTA
* * *
9965253 TTTGAATGATTTATATATTTAATTGCATGTTTA
1 -TTGCATGA-TTATATATTTAATTACATATTTA
9965286 TTGCATGATT
1 TTGCATGATT
9965296 TACATTTTTA
Statistics
Matches: 156, Mismatches: 25, Indels: 26
0.75 0.12 0.13
Matches are distributed among these distances:
24 3 0.02
25 3 0.02
26 4 0.03
27 8 0.05
28 4 0.03
29 8 0.05
30 3 0.02
31 37 0.24
32 62 0.40
33 24 0.15
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (31 bp):
TTGCATGATTATATATTTAATTACATATTTA
Found at i:9965208 original size:32 final size:31
Alignment explanation
Indices: 9965071--9965130 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
9965061 ATATTATTAT
* *
9965071 TTGCATGATTATATATTTAATTGCATATTTA
1 TTGCATGATTATATATTTAATTGCATGTTAA
*
9965102 TTGCATGATTATATATTTAATTACATGTT
1 TTGCATGATTATATATTTAATTGCATGTT
9965131 TATTTATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.52
Consensus pattern (31 bp):
TTGCATGATTATATATTTAATTGCATGTTAA
Found at i:9965223 original size:56 final size:56
Alignment explanation
Indices: 9965102--9965210 Score: 166
Period size: 56 Copynumber: 2.0 Consensus size: 56
9965092 TGCATATTTA
* * *
9965102 TTGCATGATTATATATTTAATTACATGTTTATTTATATGATTATTAATATTATTAT
1 TTGCATGATTATATATTTAATTACATGTCTAATTACATGATTATTAATATTATTAT
* *
9965158 TTGCATGATTATATATTTAATTGCATGTCTAATTGCATGATTATTAAT-TTATT
1 TTGCATGATTATATATTTAATTACATGTCTAATTACATGATTATTAATATTATT
9965211 TGTTTGTGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
55 5 0.10
56 43 0.90
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (56 bp):
TTGCATGATTATATATTTAATTACATGTCTAATTACATGATTATTAATATTATTAT
Found at i:9965270 original size:21 final size:20
Alignment explanation
Indices: 9965245--9965286 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
9965235 TATTTAATTG
*
9965245 TATATTTATTTGAATGATTTA
1 TATATTTAATTGAATG-TTTA
*
9965266 TATATTTAATTGCATGTTTA
1 TATATTTAATTGAATGTTTA
9965286 T
1 T
9965287 TGCATGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (20 bp):
TATATTTAATTGAATGTTTA
Found at i:9965306 original size:32 final size:32
Alignment explanation
Indices: 9965158--9965318 Score: 150
Period size: 32 Copynumber: 5.0 Consensus size: 32
9965148 ATATTATTAT
*
9965158 TTGCATGA-TTATATATTTAATTGCATGTCTAA
1 TTGCATGATTTATATATTTAATTGCATGT-TTA
* ** *
9965190 TTGCATGA-TTAT-TAATTTATTTGTTTGTGTGA
1 TTGCATGATTTATAT-ATTTAATTGCATGT-TTA
* *
9965222 TTGCATGA-TTATATATTTAATTGTATATTTA
1 TTGCATGATTTATATATTTAATTGCATGTTTA
*
9965253 TTTGAATGATTTATATATTTAATTGCATGTTTA
1 -TTGCATGATTTATATATTTAATTGCATGTTTA
* * * *
9965286 TTGCATGATTTACATTTTTAAGTGCATGATTA
1 TTGCATGATTTATATATTTAATTGCATGTTTA
9965318 T
1 T
9965319 ATATTTAATT
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
31 3 0.03
32 83 0.77
33 22 0.20
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.52
Consensus pattern (32 bp):
TTGCATGATTTATATATTTAATTGCATGTTTA
Found at i:9965337 original size:20 final size:20
Alignment explanation
Indices: 9965285--9965338 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
9965275 TTGCATGTTT
* *
9965285 ATTGCATGATTTACATTTTTA
1 ATTGCATGA-TTATATATTTA
*
9965306 AGTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
9965326 ATTGCATGATTAT
1 ATTGCATGATTAT
9965339 TAATTTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 21 0.72
21 8 0.28
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (20 bp):
ATTGCATGATTATATATTTA
Found at i:9965427 original size:22 final size:21
Alignment explanation
Indices: 9965400--9965469 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
9965390 GTTATTTCTT
9965400 TATTATTATTGCATGATTTTA
1 TATTATTATTGCATGATTTTA
* * *
9965421 TATTTATTACATGATATGATATTA
1 TA-TTATTA-TTG-CATGATTTTA
*
9965445 TA-TATTATTGCATGA-TTAA
1 TATTATTATTGCATGATTTTA
9965464 TATTAT
1 TATTAT
9965470 ATTTAAATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
19 4 0.11
20 7 0.18
21 4 0.11
22 11 0.29
23 2 0.05
24 10 0.26
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (21 bp):
TATTATTATTGCATGATTTTA
Found at i:9965445 original size:24 final size:24
Alignment explanation
Indices: 9965412--9965474 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 24
9965402 TTATTATTGC
*
9965412 ATGATTTTATATTTATTACATGAT
1 ATGATATTATATTTATTACATGAT
*
9965436 ATGATATTATATATTATTGCATGAT
1 ATGATATTATAT-TTATTACATGAT
*
9965461 -TAATATTATATTTA
1 ATGATATTATATTTA
9965475 AATAATATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.09
24 21 0.60
25 11 0.31
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (24 bp):
ATGATATTATATTTATTACATGAT
Found at i:9965472 original size:19 final size:20
Alignment explanation
Indices: 9965400--9965469 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 20
9965390 GTTATTTCTT
*
9965400 TATTATTATTGCATGATT-T
1 TATTATTATTGCATGATTAA
*
9965419 TA-TATTTATTACATGATATGATA
1 TATTA-TTATTGCATGAT-T-A-A
9965442 TTATATATTATTGCATGATTAA
1 -TAT-TATTATTGCATGATTAA
9965464 TATTAT
1 TATTAT
9965470 ATTTAAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 15
0.69 0.05 0.26
Matches are distributed among these distances:
18 2 0.05
19 13 0.32
20 4 0.10
21 3 0.08
22 1 0.03
23 1 0.03
24 3 0.08
25 11 0.28
26 2 0.05
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (20 bp):
TATTATTATTGCATGATTAA
Found at i:9965732 original size:14 final size:14
Alignment explanation
Indices: 9965693--9965734 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
9965683 CATGATAATT
*
9965693 AATATATTTGCATG
1 AATATTTTTGCATG
* *
9965707 -ACATTCTTGCATG
1 AATATTTTTGCATG
9965720 AATATTTTTGCATG
1 AATATTTTTGCATG
9965734 A
1 A
9965735 TCTAAGCATG
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (14 bp):
AATATTTTTGCATG
Found at i:9971097 original size:3 final size:3
Alignment explanation
Indices: 9971089--9971121 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
9971079 TATCAATTTA
9971089 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9971122 ATAAAAGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9977626 original size:13 final size:13
Alignment explanation
Indices: 9977608--9977632 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9977598 GTATGTACAT
9977608 AGATTTGACTTAC
1 AGATTTGACTTAC
9977621 AGATTTGACTTA
1 AGATTTGACTTA
9977633 TTAGTTATTC
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:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (13 bp):
AGATTTGACTTAC
Found at i:9978794 original size:551 final size:547
Alignment explanation
Indices: 9977861--9979499 Score: 2795
Period size: 548 Copynumber: 3.0 Consensus size: 547
9977851 AATCCAAATT
* * *
9977861 AAGTATGACTAC-AACTGTAATACACAATTTTCTTCTCTCCTGG-TTTAACTATCTG-AAGTAAT
1 AAGTATGACTACAAACTATAATACACAATTTTCTTCTCTGCTGGTTTTAACTATCTGAAAGTCAT
* *
9977923 CGTAACGGTAACAACATCAGCC-TTTTCTTACACAACTACCATTCTA--TTTTTATAGTATTATC
66 TGTAACGGTAACAATATCA-CCTTTTTCTTACACAACTACCATTCTACTTTTTTATAGTATT-TC
* * *
9977985 TGTCAACTTGATT-CCATATATTTATACATTAAAATGGTCCATCAACTTTGTA-TAAGTTCTTTT
129 TGTCAACTTGATTCCCATATATTTATACATTAAAACGGTCAATCAACTTTGTACAAAGTTCTTTT
9978048 GCAACGGACAAACGAGTAAAACCAAAGGGGCTTGTGTTAGCTGGCAGGTCATATGTAGACCCAAG
194 GCAACGGACAAACGAGTAAAACCAAAGGGGCTTGTGTTAGCTGGCAGGTCATATGTAGACCCAAG
9978113 TT-GAATATATTAGCGTCTGGAATC-AGCCTGT-TACTTAGA-TCTTATGGTCTATTTTCACGCA
259 TTGGAATATATTAGCGTCTGGAATCAAGCCTGTATACTTAGATTCTTATGGTCTATTTTCACGCA
9978174 AGCCAGGGTTTTTGTGGATTGCATAGGTGAATAGGTATATGCTAAAAGGTAGAAGTATATGGGAA
324 AG-CAGGGTTTTTGTGGATTGCATAGGTGAATAGGTATATGCTAAAAGGTAGAAGTATATGGGAA
*
9978239 ATACCCGTTACTCTCCAAGCCACAGCTAGGGAATTAAAAAAGCTACTTCCAAATGAGAAGATTAG
388 ATACCCGTTA--CTCCGAGCCACAGCTAGGGAATTAAAAAAGCTACTT-CAAATGAGAAGATTAG
*
9978304 CTTCTAAATTTCTTAACGTAGACAAAGAATGAAGTGCTTTGGCAC-ATAAGGCAACCAGCAACTC
450 CTTCTAAA-TTCTTAACGTAGACAAAGAATGAAGTGATTTGGCACAATAAGG-AACCAGCAACTC
9978368 TATTGCAAGTGTCTATGATGAATTAAGGGTAAGAC
513 TATTGCAAGTGTCTATGATGAATTAAGGGTAAGAC
*
9978403 AAGTATGACTACAAACTATAATACACAATTTTTTTCTCTGCTGGTTTTAACTATCTGAAAGTCAT
1 AAGTATGACTACAAACTATAATACACAATTTTCTTCTCTGCTGGTTTTAACTATCTGAAAGTCAT
9978468 TGTAACGGTAACAATATCACCTTTTTCTTACACAACTACCATTCTACTTTTTTATAGTATTTCTG
66 TGTAACGGTAACAATATCACCTTTTTCTTACACAACTACCATTCTACTTTTTTATAGTATTTCTG
*
9978533 TCAACTTGATTCCCATATATTTATACATTAAAACGGTCAATCAACTGTGTACAAAGTTCTTTTGC
131 TCAACTTGATTCCCATATATTTATACATTAAAACGGTCAATCAACTTTGTACAAAGTTCTTTTGC
* *
9978598 AACGGACAAACGAGTAAAACCAAAGGGGCTTGTGTTGGGTGGCAGGTCATATGTAGACCCAAGTT
196 AACGGACAAACGAGTAAAACCAAAGGGGCTTGTGTTAGCTGGCAGGTCATATGTAGACCCAAGTT
*
9978663 GGAATATATTAGCATCTGGAATCAAGCCTGTATACTTAGATTCTTATGGTCTATTTTCACGCAAG
261 GGAATATATTAGCGTCTGGAATCAAGCCTGTATACTTAGATTCTTATGGTCTATTTTCACGCAAG
*
9978728 CAGGGTTTTTGTGGATTGCATAGTTGAATAGGTATATGCTAAAAGGTAGAAGTATATGGGAAATA
326 CAGGGTTTTTGTGGATTGCATAGGTGAATAGGTATATGCTAAAAGGTAGAAGTATATGGGAAATA
*
9978793 CCCGTTACTCCGAGCCACAGCTAGGGAATTAAAAAGGCTACTTCAAATGAGAAGATTAGCTTCTA
391 CCCGTTACTCCGAGCCACAGCTAGGGAATTAAAAAAGCTACTTCAAATGAGAAGATTAGCTTCTA
9978858 AATTCTTAACGTAGACAAAGAATGAAGTGATTTGGCACAATAAGGAACCCAGCAACTCTATTGCA
456 AATTCTTAACGTAGACAAAGAATGAAGTGATTTGGCACAATAAGGAA-CCAGCAACTCTATTGCA
* *
9978923 AGTGTTTTTGATGAATTAAGGGTAAGAC
520 AGTGTCTATGATGAATTAAGGGTAAGAC
9978951 AAGTATGACTACAAA-TATAATACACAATTTTCTTCTCTGCTGGTTTTAACTATCTGAAAGTCAT
1 AAGTATGACTACAAACTATAATACACAATTTTCTTCTCTGCTGGTTTTAACTATCTGAAAGTCAT
9979015 TGTAACGGTAACAATATCACCTTTTTCTTACACAACTACCATTCTACTTTTTTATAGTATTTCTG
66 TGTAACGGTAACAATATCACCTTTTTCTTACACAACTACCATTCTACTTTTTTATAGTATTTCTG
*
9979080 TCAACTTGATTCCCATATAATTTATACATTAAAAGGGTCAATCAACTTTGTACAAAGTTCTTTTG
131 TCAACTTGATTCCCATAT-ATTTATACATTAAAACGGTCAATCAACTTTGTACAAAGTTCTTTTG
* *
9979145 CAACGGAAAAACGAGTAAAACCAAAGTGGCTTGTGTTAGCTGGCAGGTCATATGTAGACCCAAGT
195 CAACGGACAAACGAGTAAAACCAAAGGGGCTTGTGTTAGCTGGCAGGTCATATGTAGACCCAAGT
*
9979210 TGGAATATATTAGCGTCTGGAATCAAGCCTGTATACTTAGATTCTTATGGTCTATTTTCCCGCAA
260 TGGAATATATTAGCGTCTGGAATCAAGCCTGTATACTTAGATTCTTATGGTCTATTTTCACGCAA
** * * *
9979275 AAAGGGTTTTTGTAGATTGCATAGGTGAAAAGGTATATGCTAAAAGGTAGAAGCATATGGGAAAT
325 GCAGGGTTTTTGTGGATTGCATAGGTGAATAGGTATATGCTAAAAGGTAGAAGTATATGGGAAAT
*
9979340 ATCCGTTACTCCGAGCCACAGCTAGGGAATT-AAAAAGCTACTTCAAATGAGAAGATTAGCTTCT
390 ACCCGTTACTCCGAGCCACAGCTAGGGAATTAAAAAAGCTACTTCAAATGAGAAGATTAGCTTCT
* *
9979404 AAATTCTTAAAGTAGACAAAGAATGAAGTGATTTGGCACAATAAGGAACCGAGCTACTCTATTGC
455 AAATTCTTAACGTAGACAAAGAATGAAGTGATTTGGCACAATAAGGAACC-AGCAACTCTATTGC
9979469 AAGTGTCTATGATGAATTAAGGGTAAGAC
519 AAGTGTCTATGATGAATTAAGGGTAAGAC
9979498 AA
1 AA
9979500 TGAAACGTCT
Statistics
Matches: 1041, Mismatches: 40, Indels: 27
0.94 0.04 0.02
Matches are distributed among these distances:
542 12 0.01
543 28 0.03
544 14 0.01
545 47 0.05
546 17 0.02
547 338 0.32
548 420 0.40
549 55 0.05
550 7 0.01
551 79 0.08
552 24 0.02
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (547 bp):
AAGTATGACTACAAACTATAATACACAATTTTCTTCTCTGCTGGTTTTAACTATCTGAAAGTCAT
TGTAACGGTAACAATATCACCTTTTTCTTACACAACTACCATTCTACTTTTTTATAGTATTTCTG
TCAACTTGATTCCCATATATTTATACATTAAAACGGTCAATCAACTTTGTACAAAGTTCTTTTGC
AACGGACAAACGAGTAAAACCAAAGGGGCTTGTGTTAGCTGGCAGGTCATATGTAGACCCAAGTT
GGAATATATTAGCGTCTGGAATCAAGCCTGTATACTTAGATTCTTATGGTCTATTTTCACGCAAG
CAGGGTTTTTGTGGATTGCATAGGTGAATAGGTATATGCTAAAAGGTAGAAGTATATGGGAAATA
CCCGTTACTCCGAGCCACAGCTAGGGAATTAAAAAAGCTACTTCAAATGAGAAGATTAGCTTCTA
AATTCTTAACGTAGACAAAGAATGAAGTGATTTGGCACAATAAGGAACCAGCAACTCTATTGCAA
GTGTCTATGATGAATTAAGGGTAAGAC
Found at i:9980001 original size:115 final size:111
Alignment explanation
Indices: 9979767--9979974 Score: 258
Period size: 115 Copynumber: 1.8 Consensus size: 111
9979757 TTTATGCCAC
* * *
9979767 GATTCTTGGATCTGGTTTTTCATTTTTCTTTTACCTAATTTCCTTATAAAGGGAGGCCAATTTTT
1 GATTCTCGGATCTGGTTTTTCATTTTTCTTTTAACTAATTTCCTTAT--A--GAGACCAATTTTT
* * * * *
9979832 AGACAGGAGGGGACCAATTAACAAGAAATCCATTCCTGGTTTTATGCCAT
62 AGACAAGAGGGGACCAATTAACAAGAAATCCATTCCGGGTCTGATACCAT
* *
9979882 GATTCTCGGATCTGGTTTTTCATTTTTCTTTTAACTAATTTTC-TAT-GAGACCAATTTTTAGAG
1 GATTCTCGGATCTGGTTTTTCATTTTTCTTTTAACTAATTTCCTTATAGAGACCAATTTTTAGAC
*
9979945 AAGAGGGCGAGCAATTAACAAGAAATCCAT
66 AAGAGGG-GACCAATTAACAAGAAATCCAT
9979975 ACTGCCGGCG
Statistics
Matches: 85, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
109 21 0.25
110 21 0.25
114 3 0.04
115 40 0.47
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (111 bp):
GATTCTCGGATCTGGTTTTTCATTTTTCTTTTAACTAATTTCCTTATAGAGACCAATTTTTAGAC
AAGAGGGGACCAATTAACAAGAAATCCATTCCGGGTCTGATACCAT
Found at i:9981841 original size:34 final size:34
Alignment explanation
Indices: 9981797--9981871 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
9981787 ATAAATTATG
* * *
9981797 ATATATAATTTTCATATAAAACATGATATAAAAT
1 ATATAAAATTTTAATATAAAACATGATAAAAAAT
*** *
9981831 ATATAAAATTTTAATATTTTACATTATAAAAAAT
1 ATATAAAATTTTAATATAAAACATGATAAAAAAT
9981865 ATATAAA
1 ATATAAA
9981872 TGATCCAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (34 bp):
ATATAAAATTTTAATATAAAACATGATAAAAAAT
Found at i:9982502 original size:18 final size:18
Alignment explanation
Indices: 9982479--9982515 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
9982469 TTGCTTTCCA
9982479 CACTTATTTTTGAAATAT
1 CACTTATTTTTGAAATAT
9982497 CACTTATTTTTGAAATAT
1 CACTTATTTTTGAAATAT
9982515 C
1 C
9982516 CAAACAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.49
Consensus pattern (18 bp):
CACTTATTTTTGAAATAT
Found at i:9983145 original size:14 final size:14
Alignment explanation
Indices: 9983126--9983153 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9983116 AGATGTTGGC
9983126 GAAGGAGAAAAAAA
1 GAAGGAGAAAAAAA
9983140 GAAGGAGAAAAAAA
1 GAAGGAGAAAAAAA
9983154 AAACCAGGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (14 bp):
GAAGGAGAAAAAAA
Found at i:9983598 original size:2 final size:2
Alignment explanation
Indices: 9983591--9983616 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9983581 ACCATCTCAA
9983591 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
9983617 CAGAAAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9987148 original size:19 final size:20
Alignment explanation
Indices: 9987094--9987153 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
9987084 TCAATTAAGG
* *
9987094 TTAGGTTCTCACTTAGGGTT
1 TTAGGGTCTCACTTAAGGTT
9987114 TTAGGGTCTCACTTAAGGTT
1 TTAGGGTCTCACTTAAGGTT
* *
9987134 TTAGGGT-TTACTTAAAGTT
1 TTAGGGTCTCACTTAAGGTT
9987153 T
1 T
9987154 AAAGTTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 11 0.31
20 25 0.69
ACGTcount: A:0.20, C:0.12, G:0.23, T:0.45
Consensus pattern (20 bp):
TTAGGGTCTCACTTAAGGTT
Found at i:9987211 original size:20 final size:20
Alignment explanation
Indices: 9987186--9987240 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
9987176 TTTTTTGGAG
*
9987186 TTTAAGTTTTCACTTAGGAT
1 TTTAAGGTTTCACTTAGGAT
* *
9987206 TTTAAGGTCTCACTTAGGCT
1 TTTAAGGTTTCACTTAGGAT
9987226 TTTAAGGTTT-ACTTA
1 TTTAAGGTTTCACTTA
9987241 AGGTTTAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 5 0.16
20 26 0.84
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (20 bp):
TTTAAGGTTTCACTTAGGAT
Found at i:9987286 original size:14 final size:14
Alignment explanation
Indices: 9987267--9987326 Score: 56
Period size: 13 Copynumber: 4.5 Consensus size: 14
9987257 TTATGGTTTC
**
9987267 TTTAAGGGTTTTGT
1 TTTAAGGGTTTCCT
9987281 TTTAA-GGTTTCCT
1 TTTAAGGGTTTCCT
9987294 TTTAA-GGTTTCAC-
1 TTTAAGGGTTTC-CT
*
9987307 TTTAA-GGTTTCAT
1 TTTAAGGGTTTCCT
9987320 TTTAAGG
1 TTTAAGG
9987327 TTTGATTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
13 33 0.82
14 7 0.17
ACGTcount: A:0.20, C:0.08, G:0.20, T:0.52
Consensus pattern (14 bp):
TTTAAGGGTTTCCT
Found at i:9987334 original size:13 final size:13
Alignment explanation
Indices: 9987280--9987336 Score: 87
Period size: 13 Copynumber: 4.4 Consensus size: 13
9987270 AAGGGTTTTG
*
9987280 TTTTAAGGTTTCC
1 TTTTAAGGTTTCA
9987293 TTTTAAGGTTTCA
1 TTTTAAGGTTTCA
*
9987306 CTTTAAGGTTTCA
1 TTTTAAGGTTTCA
*
9987319 TTTTAAGGTTTGA
1 TTTTAAGGTTTCA
9987332 TTTTA
1 TTTTA
9987337 GGATTCTACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.21, C:0.09, G:0.16, T:0.54
Consensus pattern (13 bp):
TTTTAAGGTTTCA
Found at i:9987336 original size:26 final size:26
Alignment explanation
Indices: 9987267--9987336 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
9987257 TTATGGTTTC
*
9987267 TTTAAGGGTTTTG-TTTTAAGGTTTCCT
1 TTTAA-GG-TTTGATTTTAAGGTTTCAT
* *
9987294 TTTAAGGTTTCACTTTAAGGTTTCAT
1 TTTAAGGTTTGATTTTAAGGTTTCAT
9987320 TTTAAGGTTTGATTTTA
1 TTTAAGGTTTGATTTTA
9987337 GGATTCTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 3 0.08
26 29 0.78
27 5 0.14
ACGTcount: A:0.20, C:0.07, G:0.19, T:0.54
Consensus pattern (26 bp):
TTTAAGGTTTGATTTTAAGGTTTCAT
Found at i:9989340 original size:26 final size:26
Alignment explanation
Indices: 9989311--9989362 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
9989301 AATTTTTATA
9989311 TTTTA-TATTATTTTGTTATATTTAAT
1 TTTTATTA-TATTTTGTTATATTTAAT
* *
9989337 TTTTGTTATATTTTTTTATATTTAAT
1 TTTTATTATATTTTGTTATATTTAAT
9989363 AATCAACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (26 bp):
TTTTATTATATTTTGTTATATTTAAT
Found at i:9990655 original size:19 final size:19
Alignment explanation
Indices: 9990609--9990669 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
9990599 CTCGAAATTA
9990609 ATAAAATA--ATTTTTAAT
1 ATAAAATATTATTTTTAAT
9990626 ATAAAAATATTATTTTTAAT
1 AT-AAAATATTATTTTTAAT
*
9990646 ATAAAGTATTATTTTTAAT
1 ATAAAATATTATTTTTAAT
9990665 ATAAA
1 ATAAA
9990670 TTTAAAATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
17 2 0.05
18 6 0.15
19 21 0.52
20 11 0.28
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
ATAAAATATTATTTTTAAT
Found at i:9990712 original size:28 final size:27
Alignment explanation
Indices: 9990644--9990712 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
9990634 ATTATTTTTA
9990644 ATATAAAGTAT-TATTTTTAATATAAAT
1 ATATAAA-TATATATTTTTAATATAAAT
* * *
9990671 TTA-AAATAAAATATTTTTAAATGTAAAT
1 ATATAAAT-ATATATTTTT-AATATAAAT
9990699 ATATAAATATATAT
1 ATATAAATATATAT
9990713 AATATTAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
25 1 0.03
26 4 0.12
27 9 0.27
28 15 0.45
29 4 0.12
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (27 bp):
ATATAAATATATATTTTTAATATAAAT
Found at i:9990721 original size:24 final size:24
Alignment explanation
Indices: 9990663--9990728 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 24
9990653 ATTATTTTTA
9990663 ATATA-AAT-TTAAA-ATA-AAAT
1 ATATATAATATTAAATATATAAAT
* *
9990683 ATTTTTAA-ATGTAAATATATAAAT
1 ATATATAATAT-TAAATATATAAAT
*
9990707 ATATATAATATTAAATAAATAA
1 ATATATAATATTAAATATATAA
9990729 TTTTAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
20 3 0.09
21 3 0.09
22 4 0.11
23 3 0.09
24 20 0.57
25 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (24 bp):
ATATATAATATTAAATATATAAAT
Found at i:9994308 original size:12 final size:12
Alignment explanation
Indices: 9994293--9994317 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9994283 CTTTCTTTTC
9994293 TTTTCTTAGTTT
1 TTTTCTTAGTTT
9994305 TTTTCTTAGTTT
1 TTTTCTTAGTTT
9994317 T
1 T
9994318 CTCTTTAGTT
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:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTTCTTAGTTT
Found at i:9996471 original size:17 final size:17
Alignment explanation
Indices: 9996446--9996480 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9996436 TTTTGTGAAG
* *
9996446 TTTTTAAAAAAATTTAA
1 TTTTAAAAAAAAATTAA
9996463 TTTTAAAAAAAAATTAA
1 TTTTAAAAAAAAATTAA
9996480 T
1 T
9996481 ATTTCAACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTTAAAAAAAAATTAA
Found at i:9996744 original size:53 final size:54
Alignment explanation
Indices: 9996557--9996745 Score: 183
Period size: 53 Copynumber: 3.5 Consensus size: 54
9996547 TTTTCTACTC
* *
9996557 TTTGAAA-T-TTTTTTTTAAGG-AAAGATTGATACTTAAACTTTTTCCTTAAAAA
1 TTTGAAATTATTTTTTTTAAGGAAAAAATTGATACTTAAACTTTTTCC-TCAAAA
* * * * * * *
9996609 TATGAAATTATTTTGTTTAAGGAAAAAAATTAAAACATCAACTTTTTTCTCAAAA
1 TTTGAAATTATTTTTTTTAAGG-AAAAAATTGATACTTAAACTTTTTCCTCAAAA
* *
9996664 TTTGAAATTATTTTTTATTTAA--AAAAAATTGGTA-TTTAACTTTTTCCTCAAAA
1 TTTGAAATTA-TTTTT-TTTAAGGAAAAAATTGATACTTAAACTTTTTCCTCAAAA
*
9996717 TTTGAGATTATTTTTTTTAAGGTAAAAAA
1 TTTGAAATTATTTTTTTTAAGG-AAAAAA
9996746 CTCACTAAAA
Statistics
Matches: 110, Mismatches: 18, Indels: 16
0.76 0.12 0.11
Matches are distributed among these distances:
51 5 0.05
52 11 0.10
53 26 0.24
54 26 0.24
55 14 0.13
56 23 0.21
57 5 0.05
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (54 bp):
TTTGAAATTATTTTTTTTAAGGAAAAAATTGATACTTAAACTTTTTCCTCAAAA
Found at i:9997282 original size:21 final size:20
Alignment explanation
Indices: 9997258--9997431 Score: 77
Period size: 21 Copynumber: 8.3 Consensus size: 20
9997248 AATTTAGTAA
9997258 AATTTTAGTAACCTTTAATAT
1 AATTTT-GTAACCTTTAATAT
*
9997279 AATTTTGATAACCTTTACTAT
1 AATTTTG-TAACCTTTAATAT
* * * *
9997300 TATTTTGATAA-CTCATGACAT
1 AATTTTG-TAACCT-TTAATAT
*
9997321 AATTTGAGTAACCATTT-ATAT
1 AATTT-TGTAACC-TTTAATAT
* * * *
9997342 AACTTTGGTAATCTTTGATAA
1 AA-TTTTGTAACCTTTAATAT
* *
9997363 AATTTTAATAA--GTTAGATAT
1 AATTTT-GTAACCTTTA-ATAT
* *
9997383 AATTTTGATAACTTTTAATAC
1 AATTTTG-TAACCTTTAATAT
**
9997404 AATTTTGGTAAGTTTTAATAT
1 AATTTT-GTAACCTTTAATAT
9997425 AATTTTG
1 AATTTTG
9997432 ATTTTGATAA
Statistics
Matches: 117, Mismatches: 23, Indels: 27
0.70 0.14 0.16
Matches are distributed among these distances:
19 2 0.02
20 22 0.19
21 82 0.70
22 10 0.09
23 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (20 bp):
AATTTTGTAACCTTTAATAT
Found at i:9997392 original size:11 final size:11
Alignment explanation
Indices: 9997350--9997433 Score: 50
Period size: 11 Copynumber: 7.9 Consensus size: 11
9997340 ATAACTTTGG
9997350 TAATCTTTGATA
1 TAAT-TTTGATA
*
9997362 AAATTTT-A-A
1 TAATTTTGATA
* *
9997371 TAAGTTAGATA
1 TAATTTTGATA
9997382 TAATTTTGATA
1 TAATTTTGATA
* *
9997393 -ACTTTTAATA
1 TAATTTTGATA
* *
9997403 CAATTTTGGTA
1 TAATTTTGATA
* *
9997414 -AGTTTTAATA
1 TAATTTTGATA
9997424 TAATTTTGAT
1 TAATTTTGAT
9997434 TTTGATAACC
Statistics
Matches: 52, Mismatches: 16, Indels: 9
0.68 0.21 0.12
Matches are distributed among these distances:
9 5 0.10
10 17 0.33
11 27 0.52
12 3 0.06
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.49
Consensus pattern (11 bp):
TAATTTTGATA
Done.