Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 109 of 133
Found at i:21170523 original size:179 final size:173
Alignment explanation
Indices: 21170195--21170677 Score: 497
Period size: 172 Copynumber: 2.8 Consensus size: 173
21170185 AGAATAAATA
* *
21170195 ATAATTATCCAATGATGA-ATTCTTAGAAATTTCAAATGATAAATTTC-AATAAAAT-TCTTAGG
1 ATAATTATCCAATGATAAGATTCTTAGAAATTTCAAATGATAAATTTCTAA-GAAATCT-TTAGG
* * * * * * *
21170257 TGATAAGTTTTATCTGAATTTGTCCCCAATTGT-AGAATAATTTAAAT-AAAGTTTCAATAACAA
64 TGACAAATTTTCTCTAAATTTGTCCCAAATGGTGA-AATAATTTAAATGAAA-TTTAAATAA-AA
* * *
21170320 TAATT-AATGTTTATTCTCAATAAAAAATA-TT-AATAAAAATTTTTGGAGTT
126 TAATTGTATGTTTATTCTCAATAAAAAAAATTTGAATAAAAA-TATT----TT
* * *
21170370 AATACAAATTACCCAATGATAAGATTCTTAAAAATTTCAAATGGTAAATTTCTAAGAAATCTTTA
1 -AT---AATTATCCAATGATAAGATTCTTAGAAATTTCAAATGATAAATTTCTAAGAAATCTTTA
* *
21170435 GGTGA-AAATTTTCTCTAAATTTGTCCCAAATGGTGAAATAATTTAGATGAAATTTTAATAAAAG
62 GGTGACAAATTTTCTCTAAATTTGTCCCAAATGGTGAAATAATTTAAATGAAATTTAAATAAAA-
* *
21170499 TAATTGTAT-TCTT-TTC-CAAATAAAAAAAATTTGGATGAAAATATTTT
126 TAATTGTATGT-TTATTCTC-AATAAAAAAAATTTGAATAAAAATATTTT
* * * *
21170546 ATAATTATCCAATGATAAGATTTTTAGAAATTTCAAATGTTAAATTTCTACGAAATCTCTAGGTG
1 ATAATTATCCAATGATAAGATTCTTAGAAATTTCAAATGATAAATTTCTAAGAAATCTTTAGGTG
*
21170611 ACAAA-TTTCTCTAAATTTGTCCCAAGTGGTGAAATAATTTAAATGAAATTTAAATAAAAATAAT
66 ACAAATTTTCTCTAAATTTGTCCCAAATGGTGAAATAATTTAAATGAAATTTAAAT-AAAATAAT
21170675 TGT
130 TGT
21170678 CATATTATTT
Statistics
Matches: 265, Mismatches: 26, Indels: 36
0.81 0.08 0.11
Matches are distributed among these distances:
172 112 0.42
173 7 0.03
175 2 0.01
176 4 0.02
178 3 0.01
179 76 0.29
180 52 0.20
181 9 0.03
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (173 bp):
ATAATTATCCAATGATAAGATTCTTAGAAATTTCAAATGATAAATTTCTAAGAAATCTTTAGGTG
ACAAATTTTCTCTAAATTTGTCCCAAATGGTGAAATAATTTAAATGAAATTTAAATAAAATAATT
GTATGTTTATTCTCAATAAAAAAAATTTGAATAAAAATATTTT
Found at i:21175275 original size:24 final size:24
Alignment explanation
Indices: 21175248--21175298 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
21175238 TTTTTTATTA
21175248 TTCCTTTTTAGTTTAAAAAATTCT
1 TTCCTTTTTAGTTTAAAAAATTCT
*
21175272 TTCCTTTTTAGTTTAAAAAATTTT
1 TTCCTTTTTAGTTTAAAAAATTCT
21175296 TTC
1 TTC
21175299 TTCTCTTCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.04, T:0.57
Consensus pattern (24 bp):
TTCCTTTTTAGTTTAAAAAATTCT
Found at i:21182079 original size:32 final size:32
Alignment explanation
Indices: 21182038--21182103 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
21182028 TTTTTAATTC
*
21182038 TATATAGGTTGCTTCAATTAGTAATTACACGT
1 TATATAGGTTGCTTCAATTAATAATTACACGT
21182070 TATATAGGTTGCTTCAATTAATAATTACACGT
1 TATATAGGTTGCTTCAATTAATAATTACACGT
21182102 TA
1 TA
21182104 ACAGTTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (32 bp):
TATATAGGTTGCTTCAATTAATAATTACACGT
Found at i:21183857 original size:33 final size:33
Alignment explanation
Indices: 21183820--21183888 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
21183810 TCATGAATAG
*
21183820 TTTCTAAATTATAGTAAAATATTTAATTAAAAA
1 TTTCTAAATTATAATAAAATATTTAATTAAAAA
*
21183853 TTTCTAAATTATAATAAAATATTTAATTTAAAA
1 TTTCTAAATTATAATAAAATATTTAATTAAAAA
21183886 TTT
1 TTT
21183889 AAATTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.46
Consensus pattern (33 bp):
TTTCTAAATTATAATAAAATATTTAATTAAAAA
Found at i:21184041 original size:12 final size:12
Alignment explanation
Indices: 21184024--21184050 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21184014 TTTTTAAAAT
21184024 TTAAATATTTTA
1 TTAAATATTTTA
21184036 TTAAATATTTTA
1 TTAAATATTTTA
21184048 TTA
1 TTA
21184051 TAATTTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAAATATTTTA
Found at i:21184858 original size:20 final size:20
Alignment explanation
Indices: 21184835--21184891 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
21184825 TGAAATTAAA
21184835 TTATTAAAATCTATTAATAT
1 TTATTAAAATCTATTAATAT
*
21184855 TTATT-AAATACTTTTAAT-T
1 TTATTAAAAT-CTATTAATAT
*
21184874 TT-TCAAAAT-TATTAATAT
1 TTATTAAAATCTATTAATAT
21184892 GAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 6 0.19
18 2 0.06
19 11 0.35
20 12 0.39
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATTAAAATCTATTAATAT
Found at i:21185721 original size:18 final size:17
Alignment explanation
Indices: 21185700--21185733 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
21185690 AGTTAAAATT
21185700 TTATTTAATATAAATTAA
1 TTATTTAAT-TAAATTAA
21185718 TTATTTAATTAAATTA
1 TTATTTAATTAAATTA
21185734 TAATTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATTTAATTAAATTAA
Found at i:21185773 original size:24 final size:23
Alignment explanation
Indices: 21185705--21185780 Score: 61
Period size: 24 Copynumber: 3.3 Consensus size: 23
21185695 AAATTTTATT
* *
21185705 TAATATAA-ATTAATTATTTAAT
1 TAATATAATATTAATTATATAAA
21185727 TAAATTATAAT-TT-ATTA-ACTAAA
1 T-AA-TATAATATTAATTATA-TAAA
21185750 TAATATAATTATTAATTATATAAA
1 TAATATAA-TATTAATTATATAAA
*
21185774 TATTATA
1 TAATATA
21185781 TTTGATTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
21 5 0.12
22 4 0.09
23 12 0.28
24 21 0.49
25 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (23 bp):
TAATATAATATTAATTATATAAA
Found at i:21196806 original size:29 final size:29
Alignment explanation
Indices: 21196765--21196838 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
21196755 AAAGATACTA
21196765 TAATTTTAAAATAAAAAATTA-CAAATAT
1 TAATTTTAAAATAAAAAATTATCAAATAT
* *
21196793 TAATATTTAAAATATAAATTTATCAAATAT
1 TAAT-TTTAAAATAAAAAATTATCAAATAT
*
21196823 TATTTTTTAATAATAA
1 TA-ATTTTAA-AATAA
21196839 TTTCTTTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
28 4 0.11
29 15 0.39
30 14 0.37
31 5 0.13
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (29 bp):
TAATTTTAAAATAAAAAATTATCAAATAT
Found at i:21196807 original size:15 final size:15
Alignment explanation
Indices: 21196783--21196824 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
21196773 AAATAAAAAA
21196783 TTACAAATATTAATAT
1 TTACAAATATTAA-AT
21196799 TTA-AAATA-TAAAT
1 TTACAAATATTAAAT
21196812 TTATCAAATATTA
1 TTA-CAAATATTA
21196825 TTTTTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 5 0.22
14 3 0.13
15 10 0.43
16 5 0.22
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATATTAAAT
Found at i:21200021 original size:23 final size:22
Alignment explanation
Indices: 21199978--21200021 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
21199968 AAAGTTCAAA
* *
21199978 TTATTTTATTTTTAAACAATTT
1 TTATTTTAATTTAAAACAATTT
*
21200000 TTATATTTAATTTAAAATAATT
1 TTAT-TTTAATTTAAAACAATT
21200022 AAATTTTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATTTTAATTTAAAACAATTT
Found at i:21203576 original size:18 final size:19
Alignment explanation
Indices: 21203545--21203588 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
21203535 CAATCGGTAG
21203545 CCAAAAAATTCAAACAAAAT
1 CCAAAAAA-TCAAACAAAAT
*
21203565 CCAAAAAA-CAAATAAAAT
1 CCAAAAAATCAAACAAAAT
21203583 CCAAAA
1 CCAAAA
21203589 TTCGACCACC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 15 0.65
20 8 0.35
ACGTcount: A:0.68, C:0.20, G:0.00, T:0.11
Consensus pattern (19 bp):
CCAAAAAATCAAACAAAAT
Found at i:21204270 original size:6 final size:6
Alignment explanation
Indices: 21204251--21204307 Score: 51
Period size: 6 Copynumber: 9.5 Consensus size: 6
21204241 TGACTTTGAC
* * * * * **
21204251 TAAAAT GAACAT TAAAAT TAAAGT TAAACT AAAAAT TAAAAT TAAAGC
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT
21204299 TAAAAT TAA
1 TAAAAT TAA
21204308 CCAAGTCTAA
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.28
Consensus pattern (6 bp):
TAAAAT
Found at i:21204278 original size:24 final size:24
Alignment explanation
Indices: 21204250--21204304 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
21204240 TTGACTTTGA
* *
21204250 CTAAAATGAACATTAAAATTAAAG
1 CTAAAATAAAAATTAAAATTAAAG
* *
21204274 TTAAACTAAAAATTAAAATTAAAG
1 CTAAAATAAAAATTAAAATTAAAG
21204298 CTAAAAT
1 CTAAAAT
21204305 TAACCAAGTC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.27
Consensus pattern (24 bp):
CTAAAATAAAAATTAAAATTAAAG
Found at i:21204285 original size:18 final size:18
Alignment explanation
Indices: 21204263--21204307 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
21204253 AAATGAACAT
*
21204263 TAAAATTAAAGTTAAA-C
1 TAAAATTAAAATTAAAGC
21204280 TAAAAATTAAAATTAAAGC
1 T-AAAATTAAAATTAAAGC
21204299 TAAAATTAA
1 TAAAATTAA
21204308 CCAAGTCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 1 0.04
18 22 0.88
19 2 0.08
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.29
Consensus pattern (18 bp):
TAAAATTAAAATTAAAGC
Found at i:21204863 original size:18 final size:18
Alignment explanation
Indices: 21204806--21204866 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
21204796 TCAAATTTCT
21204806 CAAAGAT-TTTAAAATTCA
1 CAAAGATCTTT-AAATTCA
** **
21204824 CAAA-AGTCTCCAAATTTG
1 CAAAGA-TCTTTAAATTCA
21204842 CAAAGATCTTTAAATTCA
1 CAAAGATCTTTAAATTCA
21204860 CAAAGAT
1 CAAAGAT
21204867 TCTAGATTCA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 1 0.03
18 29 0.91
19 2 0.06
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.30
Consensus pattern (18 bp):
CAAAGATCTTTAAATTCA
Found at i:21204893 original size:18 final size:17
Alignment explanation
Indices: 21204852--21204898 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
21204842 CAAAGATCTT
* *
21204852 TAAATTCACAAAGATTC
1 TAAATTCATAAAAATTC
*
21204869 TAGATTCATAAAAACTTC
1 TAAATTCATAAAAA-TTC
21204887 TAAATTCATAAA
1 TAAATTCATAAA
21204899 GGTTCCCAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (17 bp):
TAAATTCATAAAAATTC
Found at i:21204916 original size:18 final size:19
Alignment explanation
Indices: 21204895--21204940 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
21204885 TCTAAATTCA
21204895 TAAAGGTTCC-CAGATTTG
1 TAAAGGTTCCGCAGATTTG
21204913 TAAAGG-TCCGCAGATTTG
1 TAAAGGTTCCGCAGATTTG
* *
21204931 CAAAGATTCC
1 TAAAGGTTCC
21204941 AAATTCACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (19 bp):
TAAAGGTTCCGCAGATTTG
Found at i:21205025 original size:18 final size:18
Alignment explanation
Indices: 21205003--21205063 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
21204993 CTAAAATTTG
*
21205003 CAAAGATTACAATATTCA
1 CAAAGATTACAAGATTCA
* *
21205021 TAAAGATTCCAAGATTCA
1 CAAAGATTACAAGATTCA
**
21205039 CAAAGATCTTTAAGATTCA
1 CAAAGAT-TACAAGATTCA
21205058 CAAAGA
1 CAAAGA
21205064 CTCTAAAGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
18 21 0.58
19 15 0.42
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (18 bp):
CAAAGATTACAAGATTCA
Found at i:21205658 original size:46 final size:45
Alignment explanation
Indices: 21205598--21205795 Score: 159
Period size: 46 Copynumber: 4.3 Consensus size: 45
21205588 AAGATCTTTT
* *
21205598 CATTCGAAAAAACTTAGGAATTCACATCCAAATTTTCAAAGATTTA
1 CATTTGAAAAAACTTAGGAATTCACATCCAAAATTT-AAAGATTTA
* * * *
21205644 CATTTGAAAAAACTTTAATG-TTTCACATCCAAAATTTTAAAGGTTTT
1 CATTTGAAAAAAC-TT-AGGAATTCACATCCAAAA-TTTAAAGATTTA
* ** * * * * *
21205691 CATTCGAAAAATTTTAGGAACTCACA-CTTAAAAGTTGAAGATTTT
1 CATTTGAAAAAACTTAGGAATTCACATC-CAAAATTTAAAGATTTA
* * * *
21205736 CA-TTCAAAAAACTTAGGGATTCATATCCAAAATTTCAAAGATTCA
1 CATTTGAAAAAACTTAGGAATTCACATCCAAAATTT-AAAGATTTA
21205781 CATTTGAAAAAACTT
1 CATTTGAAAAAACTT
21205796 TAGTGTTTAT
Statistics
Matches: 115, Mismatches: 29, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
44 22 0.19
45 23 0.20
46 34 0.30
47 31 0.27
48 5 0.04
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (45 bp):
CATTTGAAAAAACTTAGGAATTCACATCCAAAATTTAAAGATTTA
Found at i:21205791 original size:45 final size:45
Alignment explanation
Indices: 21205598--21205791 Score: 151
Period size: 45 Copynumber: 4.2 Consensus size: 45
21205588 AAGATCTTTT
*
21205598 CATTCGAAAAAACTTAGGAATTCACATCCAAATTTTCAAAGATTTA
1 CATTCG-AAAAACTTAGGAATTCACATCCAAAATTTCAAAGATTTA
* * * * * *
21205644 CATTTGAAAAAACTTTAATG-TTTCACATCCAAAATTTTAAAGGTTTT
1 CATTCG-AAAAAC-TT-AGGAATTCACATCCAAAATTTCAAAGATTTA
* * * * * *
21205691 CATTCGAAAAATTTTAGGAACTCACA-CTTAAAAGTT-GAAGATTTT
1 CATTCGAAAAA-CTTAGGAATTCACATC-CAAAATTTCAAAGATTTA
* * * *
21205736 CATTCAAAAAACTTAGGGATTCATATCCAAAATTTCAAAGATTCA
1 CATTCGAAAAACTTAGGAATTCACATCCAAAATTTCAAAGATTTA
*
21205781 CATTTGAAAAA
1 CATTCGAAAAA
21205792 ACTTTAGTGT
Statistics
Matches: 113, Mismatches: 28, Indels: 15
0.72 0.18 0.10
Matches are distributed among these distances:
44 16 0.14
45 36 0.32
46 30 0.27
47 29 0.26
48 2 0.02
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (45 bp):
CATTCGAAAAACTTAGGAATTCACATCCAAAATTTCAAAGATTTA
Found at i:21207215 original size:17 final size:18
Alignment explanation
Indices: 21207185--21207226 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
21207175 CAATTTCCTT
*
21207185 TTTTTTTCACTA-TTTCC
1 TTTTTTTCACTATTTTAC
**
21207202 TTTTTTTCTTTATTTTAC
1 TTTTTTTCACTATTTTAC
21207220 TTTTTTT
1 TTTTTTT
21207227 TTGCACTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTTCACTATTTTAC
Found at i:21207236 original size:19 final size:18
Alignment explanation
Indices: 21207182--21207237 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
21207172 TATCAATTTC
*
21207182 CTTTTTTTTTCACTATTTC
1 CTTTTTTTTTCACT-TTTA
*
21207201 CTTTTTTTCTTTA-TTTTA
1 CTTTTTTT-TTCACTTTTA
21207219 CTTTTTTTTTGCACTTTTA
1 CTTTTTTTTT-CACTTTTA
21207238 ATCATTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
17 2 0.06
18 12 0.39
19 14 0.45
20 3 0.10
ACGTcount: A:0.11, C:0.16, G:0.02, T:0.71
Consensus pattern (18 bp):
CTTTTTTTTTCACTTTTA
Found at i:21212089 original size:17 final size:18
Alignment explanation
Indices: 21212057--21212092 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
21212047 ATGACTCATG
*
21212057 AATTTATTTTTTAAAAAA
1 AATTTATTTTTGAAAAAA
21212075 AATTTA-TTTTGAAAAAA
1 AATTTATTTTTGAAAAAA
21212092 A
1 A
21212093 TCAATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
AATTTATTTTTGAAAAAA
Found at i:21212090 original size:18 final size:18
Alignment explanation
Indices: 21212057--21212092 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21212047 ATGACTCATG
**
21212057 AATTTATTTTTTAAAAAA
1 AATTTATTTTGAAAAAAA
21212075 AATTTATTTTGAAAAAAA
1 AATTTATTTTGAAAAAAA
21212093 TCAATTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
AATTTATTTTGAAAAAAA
Found at i:21213067 original size:15 final size:15
Alignment explanation
Indices: 21213027--21213067 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
21213017 TGTTTTTATT
*
21213027 TGATTTGATTTTTTG
1 TGATTTGATTTTTTA
* *
21213042 TGAATTAATTTTTTA
1 TGATTTGATTTTTTA
21213057 TGATTTGATTT
1 TGATTTGATTT
21213068 AATTAGTTTC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.63
Consensus pattern (15 bp):
TGATTTGATTTTTTA
Found at i:21215551 original size:2 final size:2
Alignment explanation
Indices: 21215546--21215574 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21215536 TCATATATTC
21215546 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21215575 CTTACCAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21216213 original size:100 final size:100
Alignment explanation
Indices: 21216015--21216213 Score: 290
Period size: 100 Copynumber: 2.0 Consensus size: 100
21216005 TCCCAAATAA
* * *
21216015 TTTTATTTTGACCGGTTTGATAGCTATAACAGCTATACCTTATTTAGGACTTAATATTAACAAAG
1 TTTTATGTTGACAGGTTTGATAGCTATAACAACTATACCTTATTTAGGACTTAATATTAACAAAG
* * * **
21216080 TTTGGATGAAAAAGACAAGATTTTGTTGGTGGATG
66 TTTAGACGAAAAAGACAAGATTCTGTTAATGGATG
*
21216115 TTTTATGTTGACAGGTTTGATAGCTATAGCAACTATACCTTATTTAGGACTTAATATTAACAAAG
1 TTTTATGTTGACAGGTTTGATAGCTATAACAACTATACCTTATTTAGGACTTAATATTAACAAAG
***
21216180 TTTAGACGAAAAAGTTGAGATTCTGTTAATGGAT
66 TTTAGACGAAAAAGACAAGATTCTGTTAATGGAT
21216214 CAAAGGTATG
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (100 bp):
TTTTATGTTGACAGGTTTGATAGCTATAACAACTATACCTTATTTAGGACTTAATATTAACAAAG
TTTAGACGAAAAAGACAAGATTCTGTTAATGGATG
Found at i:21216466 original size:30 final size:30
Alignment explanation
Indices: 21216389--21216467 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
21216379 GATTTTACAT
* *
21216389 ATAAGCTATTCTAAAGCTTAGATTCACCTC
1 ATAAGCTATCCTAAAACTTAGATTCACCTC
* ***
21216419 ATAAGCTATCCTCAAACTTAGATTGTTCTC
1 ATAAGCTATCCTAAAACTTAGATTCACCTC
*
21216449 ATAAGCTATGCTAAAACTT
1 ATAAGCTATCCTAAAACTT
21216468 GAACCCAAGC
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:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (30 bp):
ATAAGCTATCCTAAAACTTAGATTCACCTC
Found at i:21225076 original size:22 final size:23
Alignment explanation
Indices: 21225048--21225095 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
21225038 TTTTTTTATA
*
21225048 AAAAATAATAGG-AAAAAAAAAT
1 AAAAATAAGAGGTAAAAAAAAAT
*
21225070 AAAAATAAGAGGTAAAAAACAAT
1 AAAAATAAGAGGTAAAAAAAAAT
21225093 AAA
1 AAA
21225096 TAAAATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.12
Consensus pattern (23 bp):
AAAAATAAGAGGTAAAAAAAAAT
Found at i:21226460 original size:61 final size:60
Alignment explanation
Indices: 21226283--21226520 Score: 175
Period size: 60 Copynumber: 3.9 Consensus size: 60
21226273 TTAAAGGCCT
* *
21226283 TTTTTTTTGCATAAAATACCATGAATAAT-TCTCAAAAAAAT-AAAAGAGATTATTCAAGGTA
1 TTTTTTTTGCA-AAAATACCTTGAATAATCT-TCAAAAAAATGGAAAGAGATTATTCAA-GTA
* * * ***** *
21226344 --TTTTTTGCTAGAAACACCTTGAATAACCCCATTCAATTTTTTGTAAA-AGATTATTCAAGTA
1 TTTTTTTTGC-AAAAATACCTTGAATAA--TC-TTCAAAAAAATGGAAAGAGATTATTCAAGTA
*
21226405 TTTTTTTTTTCAAAAATACCTTGAATAATCTTCAAAAAAATGGAAAGAGATTATTCAAG-A
1 -TTTTTTTTGCAAAAATACCTTGAATAATCTTCAAAAAAATGGAAAGAGATTATTCAAGTA
** * * *
21226465 CATTTTTGGCTAAAAATGCCTTGAATAATCTTCAAAACAAATTGAAATG-GATTATT
1 TTTTTTTTGC-AAAAATACCTTGAATAATCTTCAAAA-AAATGGAAA-GAGATTATT
21226521 AAAGGCATTT
Statistics
Matches: 138, Mismatches: 26, Indels: 26
0.73 0.14 0.14
Matches are distributed among these distances:
59 27 0.20
60 37 0.27
61 31 0.22
62 17 0.12
63 19 0.14
64 7 0.05
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.37
Consensus pattern (60 bp):
TTTTTTTTGCAAAAATACCTTGAATAATCTTCAAAAAAATGGAAAGAGATTATTCAAGTA
Found at i:21226487 original size:60 final size:61
Alignment explanation
Indices: 21226416--21226543 Score: 179
Period size: 61 Copynumber: 2.1 Consensus size: 61
21226406 TTTTTTTTTC
* **
21226416 AAAAATACCTTGAATAATCTTCAAAA-AAATGGAAA-GAGATTATTCAAGACATTTTTGGCT
1 AAAAATACCTTGAATAATCTTCAAAACAAATGGAAATG-GATTATTAAAGACATTTTTAACT
* * *
21226476 AAAAATGCCTTGAATAATCTTCAAAACAAATTGAAATGGATTATTAAAGGCATTTTTAACT
1 AAAAATACCTTGAATAATCTTCAAAACAAATGGAAATGGATTATTAAAGACATTTTTAACT
21226537 AAAAATA
1 AAAAATA
21226544 TTCAAGGTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
60 25 0.42
61 33 0.56
62 1 0.02
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (61 bp):
AAAAATACCTTGAATAATCTTCAAAACAAATGGAAATGGATTATTAAAGACATTTTTAACT
Found at i:21226532 original size:122 final size:123
Alignment explanation
Indices: 21226264--21226532 Score: 271
Period size: 123 Copynumber: 2.2 Consensus size: 123
21226254 AAAAAAAGGA
* *
21226264 AAAAGAATATTAAAGGCCTTTTTTTTTGCATAAAATACCATGAATAATTCTCAAAAAAATAAAAG
1 AAAAGATTATTAAAGGCATTTTTTTTTGCATAAAATACCATGAATAATTCTCAAAAAAATAAAAG
** * * ****
21226329 AGATTATTCAAGGTATTTTTTGCTAGAAACACCTTGAATAACCCCATTCAATTTTTTGT
66 AGATTATTCAAGACATTTTTGGCTAAAAACACCTTGAATAA-CCCATTCAACAAATTGT
* * * * *
21226388 AAAAGATTATTCAA-GTATTTTTTTTTTCA-AAAATACCTTGAATAA-TCTTCAAAAAAATGGAA
1 AAAAGATTATTAAAGGCATTTTTTTTTGCATAAAATACCATGAATAATTC-TCAAAAAAAT-AAA
** *
21226450 AGAGATTATTCAAGACATTTTTGGCTAAAAATGCCTTGAATAA-TC-TTCAAAACAAATTG-
64 AGAGATTATTCAAGACATTTTTGGCTAAAAACACCTTGAATAACCCATTC--AACAAATTGT
*
21226509 AAATGGATTATTAAAGGCATTTTT
1 AAA-AGATTATTAAAGGCATTTTT
21226533 AACTAAAAAT
Statistics
Matches: 118, Mismatches: 21, Indels: 13
0.78 0.14 0.09
Matches are distributed among these distances:
120 3 0.03
121 6 0.05
122 39 0.33
123 58 0.49
124 12 0.10
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (123 bp):
AAAAGATTATTAAAGGCATTTTTTTTTGCATAAAATACCATGAATAATTCTCAAAAAAATAAAAG
AGATTATTCAAGACATTTTTGGCTAAAAACACCTTGAATAACCCATTCAACAAATTGT
Found at i:21226716 original size:207 final size:209
Alignment explanation
Indices: 21226333--21226749 Score: 470
Period size: 207 Copynumber: 2.0 Consensus size: 209
21226323 TAAAAGAGAT
* * * *
21226333 TATTCAAGGTATTTTTTGCTAGAAACACCTTGAATAACCCCATTCAATTTTTTGTAAAAGATTAT
1 TATTCAAGGTAGTTTTTGCTAGAAACACATTGAATAACCCCACTCAATTTTTTATAAAAGATTAT
* * * ***
21226398 TCAAGTATTTTTTTTTTCAAAAATACCTTGAATAATCTTCAAAAAAATGGAAAGAGATTATTCAA
66 TCAAGGAGTTTTCTAGCCAAAAATACCTTGAATAATCTTCAAAAAAATGGAAAGAGATTATTCAA
* * * *
21226463 GACATTTTTGGCTAAAAATGCCTTGAATAATCTTCAAAACAAATTGAAATGGATTATTAAAGGCA
131 GACATTTTTGGCTAAAAACGCCTTAAATAATCTTCAAAAAAAATTGAAAGGGATTATTAAAGGCA
*
21226528 TTTTTAACTAAAAA
196 TTTTTAACAAAAAA
* * *
21226542 TATTCAAGGT-GTTTTTGCTAGAAACACATTGAATAATCCTACTCAA-TTTTTATAAGAGATTAT
1 TATTCAAGGTAGTTTTTGCTAGAAACACATTGAATAACCCCACTCAATTTTTTATAAAAGATTAT
* * ** *
21226605 TCAAGGCGTTTTCTAGCCAAAAATGCCTTGAATAATC-TCTAAAAAAATTGGAGGGA-ATTATTG
66 TCAAGGAGTTTTCTAGCCAAAAATACCTTGAATAATCTTC-AAAAAAA-TGGAAAGAGATTATTC
** * * * *
21226668 AAGGTATTTTT-GATCAGAAACGCCTTAAATAA--TTCTAAACAAAAATTGAAGGGGATTATTGA
129 AAGACATTTTTGGCT-AAAAACGCCTTAAATAATCTTC-AAA-AAAAATTGAAAGGGATTATTAA
*
21226730 AGGCATTTTTAGCAAAAAA
191 AGGCATTTTTAACAAAAAA
21226749 T
1 T
21226750 GCCTTCAATA
Statistics
Matches: 173, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
205 3 0.02
206 7 0.04
207 116 0.67
208 37 0.21
209 10 0.06
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (209 bp):
TATTCAAGGTAGTTTTTGCTAGAAACACATTGAATAACCCCACTCAATTTTTTATAAAAGATTAT
TCAAGGAGTTTTCTAGCCAAAAATACCTTGAATAATCTTCAAAAAAATGGAAAGAGATTATTCAA
GACATTTTTGGCTAAAAACGCCTTAAATAATCTTCAAAAAAAATTGAAAGGGATTATTAAAGGCA
TTTTTAACAAAAAA
Found at i:21226754 original size:61 final size:59
Alignment explanation
Indices: 21226599--21226762 Score: 177
Period size: 61 Copynumber: 2.7 Consensus size: 59
21226589 TTTTATAAGA
* * * *
21226599 GATTATTCAAGGCGTTTTCTAGCCAAAAATGCCTTGAATAATCTCTAAAAAAATTGGAGGG
1 GATTATTGAAGGCATTTT-TAG-CAAAAATGCCTTAAATAATCTCTAAAAAAATTGAAGGG
* * * * *
21226660 AATTATTGAAGGTATTTTTGATCAGAAACGCCTTAAATAAT-TCTAAACAAAAATTGAAGGG
1 GATTATTGAAGGCATTTTT-AGCAAAAATGCCTTAAATAATCTCT-AA-AAAAATTGAAGGG
*
21226721 GATTATTGAAGGCATTTTTAGCAAAAAATGCCTTCAATAATC
1 GATTATTGAAGGCATTTTTAGC-AAAAATGCCTTAAATAATC
21226763 ACACTTTCCT
Statistics
Matches: 83, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
59 3 0.04
60 21 0.25
61 59 0.71
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (59 bp):
GATTATTGAAGGCATTTTTAGCAAAAATGCCTTAAATAATCTCTAAAAAAATTGAAGGG
Found at i:21229999 original size:34 final size:34
Alignment explanation
Indices: 21229916--21230002 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
21229906 TTAACTGCCA
*
21229916 AAATGTAGCGATACTTTT-TACTATAAATGCTACT
1 AAATTTAGCGATA-TTTTATACTATAAATGCTACT
* *
21229950 AAATTTAACGGTATTTTATACTATAAATGCCT-CT
1 AAATTTAGCGATATTTTATACTATAAATG-CTACT
*
21229984 AAATTTAGTGATATTTTAT
1 AAATTTAGCGATATTTTAT
21230003 GATAAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
33 4 0.09
34 39 0.87
35 2 0.04
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (34 bp):
AAATTTAGCGATATTTTATACTATAAATGCTACT
Found at i:21232188 original size:20 final size:19
Alignment explanation
Indices: 21232169--21232216 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
21232159 AATCATAAAT
21232169 TATTAATTAAATAAAAAAA
1 TATTAATTAAATAAAAAAA
* *
21232188 TATATATTTGAATAAAAAAA
1 TAT-TAATTAAATAAAAAAA
21232208 -ATTAATTAA
1 TATTAATTAA
21232217 GCTCATAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.21
19 5 0.21
20 14 0.58
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
TATTAATTAAATAAAAAAA
Found at i:21241778 original size:21 final size:23
Alignment explanation
Indices: 21241745--21241787 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
21241735 ATTAAAATTT
*
21241745 AATTATACAAA-TTCA-ATATAG
1 AATTAAACAAATTTCATATATAG
*
21241766 AATTAAACCAATTTCATATATA
1 AATTAAACAAATTTCATATATA
21241788 ATGAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 4 0.22
23 5 0.28
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.35
Consensus pattern (23 bp):
AATTAAACAAATTTCATATATAG
Found at i:21244957 original size:16 final size:16
Alignment explanation
Indices: 21244936--21244968 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
21244926 ATTATATGAG
*
21244936 TTTTTTTT-TTCGTTT
1 TTTTTTTTCTTCATTT
21244951 TTTTTTTTCTTCATTT
1 TTTTTTTTCTTCATTT
21244967 TT
1 TT
21244969 GAAGTTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.85
Consensus pattern (16 bp):
TTTTTTTTCTTCATTT
Found at i:21250767 original size:76 final size:76
Alignment explanation
Indices: 21250674--21250828 Score: 274
Period size: 76 Copynumber: 2.0 Consensus size: 76
21250664 ATAGAAACCA
*
21250674 TTTCATCCAAAACCAAAGACAATGCATGATTAATTGGTACTGTTTTTTTAAATGGGCACTATAGA
1 TTTCATCCAAAACCAAAGACAATGCATGATTAATTGGTACTATTTTTTTAAATGGGCACTATAGA
21250739 GGTGTTAATCT
66 GGTGTTAATCT
* * *
21250750 TTTCATCCAAAACCAAAGACAATGTATGATTAATTGGTACTATTTTTTTAAATGGGTACTATGGA
1 TTTCATCCAAAACCAAAGACAATGCATGATTAATTGGTACTATTTTTTTAAATGGGCACTATAGA
21250815 GGTGTTAATCT
66 GGTGTTAATCT
21250826 TTT
1 TTT
21250829 TCCATACATA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (76 bp):
TTTCATCCAAAACCAAAGACAATGCATGATTAATTGGTACTATTTTTTTAAATGGGCACTATAGA
GGTGTTAATCT
Found at i:21253186 original size:4 final size:4
Alignment explanation
Indices: 21253177--21253218 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
21253167 CATAATTGTC
* *
21253177 TATT TATT TATT TATT TGTT TATT TGTT TATTT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT TA-TT TATT TATT T
21253219 GACTATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:21253200 original size:20 final size:21
Alignment explanation
Indices: 21253172--21253214 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
21253162 TTTATCATAA
21253172 TTGTCTATTTATTTA-TTTAT
1 TTGTCTATTTATTTATTTTAT
* *
21253192 TTGTTTATTTGTTTATTTTAT
1 TTGTCTATTTATTTATTTTAT
21253213 TT
1 TT
21253215 ATTTGACTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.74
Consensus pattern (21 bp):
TTGTCTATTTATTTATTTTAT
Found at i:21253225 original size:25 final size:24
Alignment explanation
Indices: 21253179--21253226 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
21253169 TAATTGTCTA
**
21253179 TTTATTTATTTATTTGTTTATTTG
1 TTTATTTATTTATTTGACTATTTG
21253203 TTTATTTTATTTATTTGACTATTT
1 TTTA-TTTATTTATTTGACTATTT
21253227 ATGTATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (24 bp):
TTTATTTATTTATTTGACTATTTG
Found at i:21255871 original size:43 final size:43
Alignment explanation
Indices: 21255810--21255895 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
21255800 ATTGCGTATG
21255810 CATGTGATGAAAAATTACTCATCCATATATTTTAAGATAGCCT
1 CATGTGATGAAAAATTACTCATCCATATATTTTAAGATAGCCT
* *
21255853 CATGTGATGAAAAGTTACTCATCCATATCTTTTAAGATAGCCT
1 CATGTGATGAAAAATTACTCATCCATATATTTTAAGATAGCCT
21255896 TACTAGTTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (43 bp):
CATGTGATGAAAAATTACTCATCCATATATTTTAAGATAGCCT
Found at i:21259127 original size:44 final size:44
Alignment explanation
Indices: 21259079--21259162 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
21259069 GGCCTCCAAG
* * * *
21259079 CATAATTTTCAAAACTTCTAAGTATAATTTGTAAGACCTTTGGA
1 CATAATTCTCAAAACCTCCAAGCATAATTTGTAAGACCTTTGGA
* *
21259123 CATAATTCTCAAGACCTCCAAGCATGATTTGTAAGACCTT
1 CATAATTCTCAAAACCTCCAAGCATAATTTGTAAGACCTT
21259163 CGAGTATGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (44 bp):
CATAATTCTCAAAACCTCCAAGCATAATTTGTAAGACCTTTGGA
Found at i:21259158 original size:22 final size:22
Alignment explanation
Indices: 21259014--21259161 Score: 86
Period size: 22 Copynumber: 6.7 Consensus size: 22
21259004 AAGATAAAAA
***
21259014 ATAATTTGTAAGACCTCTGGGC
1 ATAATTTGTAAGACCTCCAAGC
* * * **
21259036 ATGATTTGTGAGACCTTCGGGC
1 ATAATTTGTAAGACCTCCAAGC
*
21259058 ATAATTTGTAAGGCCTCCAAGC
1 ATAATTTGTAAGACCTCCAAGC
* * * *
21259080 ATAATTT-TCAAAACTTCTAAGT
1 ATAATTTGT-AAGACCTCCAAGC
***
21259102 ATAATTTGTAAGACCT-TTGGAC
1 ATAATTTGTAAGACCTCCAAG-C
*
21259124 ATAATTCT-CAAGACCTCCAAGC
1 ATAATT-TGTAAGACCTCCAAGC
*
21259146 ATGATTTGTAAGACCT
1 ATAATTTGTAAGACCT
21259162 TCGAGTATGA
Statistics
Matches: 94, Mismatches: 26, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
21 4 0.04
22 87 0.93
23 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (22 bp):
ATAATTTGTAAGACCTCCAAGC
Found at i:21259169 original size:66 final size:67
Alignment explanation
Indices: 21259014--21259169 Score: 160
Period size: 66 Copynumber: 2.4 Consensus size: 67
21259004 AAGATAAAAA
* * * * * * *
21259014 ATAATTTGTAAGACC-TCTGGGCATGATTTGTGAGACCTTCGGGCATAATTTGTAAGGCCTCCAA
1 ATAATTTGTAAGACCTTCTGAGTATAATTTGTAAGACCTTCGGACATAATTTGCAAGACCTCCAA
21259078 GC
66 GC
* * *
21259080 ATAATTT-TCAA-AACTTCTAAGTATAATTTGTAAGACCTTTGGACATAATTCT-CAAGACCTCC
1 ATAATTTGT-AAGACCTTCTGAGTATAATTTGTAAGACCTTCGGACATAATT-TGCAAGACCTCC
21259142 AAGC
64 AAGC
*
21259146 ATGATTTGTAAGACCTTC-GAGTAT
1 ATAATTTGTAAGACCTTCTGAGTAT
21259170 GAGGAAAAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
65 3 0.04
66 62 0.86
67 7 0.10
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (67 bp):
ATAATTTGTAAGACCTTCTGAGTATAATTTGTAAGACCTTCGGACATAATTTGCAAGACCTCCAA
GC
Found at i:21259838 original size:46 final size:45
Alignment explanation
Indices: 21259762--21260128 Score: 228
Period size: 46 Copynumber: 8.0 Consensus size: 45
21259752 TATATATATA
* * * ** *
21259762 TATATATATATTTAAAGTTGTTTATTCTCTGTTGAGAGGAGCATTT
1 TATATATTTTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGC-TTT
* * *
21259808 TATATATTTTTTTAAAGTTGTTGAGGCTCTGTTTATAAGAGCTTT
1 TATATATTTTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTT
* *
21259853 T-TATA-TTTTTT-AAGTTGTTGAACCTCTGTTTAGAGGAACTTT
1 TATATATTTTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTT
* * * **
21259895 T-TATATTTTTTCAAAAGTTGTTGAGCATTTGTTTAGATTAGCCTTT
1 TATATATTTTTT-TAAAGTTGTTGAGCCTCTGTTTAGAGGAG-CTTT
* * *
21259941 TATAT-TTTTTTCAAAAGTTGTTGAGCCTTTGTTTCGAGGAGCTTT
1 TATATATTTTTT-TAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTT
* * * * * * *
21259986 TATATTTTTTTAAATTTTTGTAAAGTTATTGAGCCTCTATTGAAAAGAGCATT
1 TATA------T--ATTTTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTT
* * * *
21260039 T-TATATTTTTTTAAAATTGTTGAGCTTCTGTTGAGAGGA-ATATT
1 TATATATTTTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGCT-TT
** * * * * *
21260083 T-TATATTTTTCAAAAGTTATTTAGCTTCTATTTAGAGGAGCCTT
1 TATATATTTTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTT
21260127 TA
1 TA
21260129 ATGTTGTTTA
Statistics
Matches: 252, Mismatches: 52, Indels: 35
0.74 0.15 0.10
Matches are distributed among these distances:
42 31 0.12
43 11 0.04
44 69 0.27
45 33 0.13
46 72 0.29
47 3 0.01
51 1 0.00
52 2 0.01
53 25 0.10
54 5 0.02
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.49
Consensus pattern (45 bp):
TATATATTTTTTTAAAGTTGTTGAGCCTCTGTTTAGAGGAGCTTT
Found at i:21259928 original size:45 final size:44
Alignment explanation
Indices: 21259788--21260141 Score: 232
Period size: 44 Copynumber: 7.8 Consensus size: 44
21259778 GTTGTTTATT
* * *
21259788 CTCTGTTGAGAGGAGCATTTTATATATTTTTTTAAAGTTGTTGAGG
1 CTCTGTTTAGAGGAGC-TTTT-TATATTTTTTAAAAGTTGTTGAGC
* * *
21259834 CTCTGTTTATAAGAGCTTTTTATATTTTTT--AAGTTGTTGAAC
1 CTCTGTTTAGAGGAGCTTTTTATATTTTTTAAAAGTTGTTGAGC
*
21259876 CTCTGTTTAGAGGAACTTTTTATATTTTTTCAAAAGTTGTTGAGC
1 CTCTGTTTAGAGGAGCTTTTTATATTTTTT-AAAAGTTGTTGAGC
* * ** *
21259921 ATTTGTTTAGATTAGCCTTTTATATTTTTTTCAAAAGTTGTTGAGC
1 CTCTGTTTAGAGGAGCTTTTTATA-TTTTTT-AAAAGTTGTTGAGC
* * *
21259967 CTTTGTTTCGAGGAGC-TTTTATATTTTTTTAAATTTTTGTAAAGTTATTGAGC
1 CTCTGTTTAGAGGAGCTTTTTATA-TTTTTT--A-------AAAGTTGTTGAGC
* * * * *
21260020 CTCTATTGAAAAGAGCATTTTATATTTTTTTAAAA-TTGTTGAGC
1 CTCTGTTTAGAGGAGCTTTTTATA-TTTTTTAAAAGTTGTTGAGC
* * * * * *
21260064 TTCTGTTGAGAGGA-ATATTTTATATTTTTCAAAAGTTATTTAGC
1 CTCTGTTTAGAGGAGCT-TTTTATATTTTTTAAAAGTTGTTGAGC
* * * * * *
21260108 TTCTATTTAGAGGAGCCTTTAATGTTGTTTAAAA
1 CTCTGTTTAGAGGAGCTTTTTATATTTTTTAAAA
21260142 AGTCTGAGTT
Statistics
Matches: 247, Mismatches: 45, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
42 37 0.15
43 9 0.04
44 67 0.27
45 50 0.20
46 47 0.19
52 1 0.00
53 22 0.09
54 14 0.06
ACGTcount: A:0.26, C:0.08, G:0.17, T:0.49
Consensus pattern (44 bp):
CTCTGTTTAGAGGAGCTTTTTATATTTTTTAAAAGTTGTTGAGC
Found at i:21261409 original size:53 final size:54
Alignment explanation
Indices: 21261341--21261449 Score: 150
Period size: 53 Copynumber: 2.0 Consensus size: 54
21261331 CAAATAATAA
* * *
21261341 AAGGATATTTCTAAATTTA-ATCCAAATAGTGAAAATTTTAGAAATGAAATTTGT
1 AAGGATATTTCTAAA-TTAGACCCAAATAGTGAAAAATTTAGAAATAAAATTTGT
* *
21261395 AAGG-TATTTCTAAATTAGGCCCAAATTGTGAAAAATTTAGAAATAAAATTTGT
1 AAGGATATTTCTAAATTAGACCCAAATAGTGAAAAATTTAGAAATAAAATTTGT
21261448 AA
1 AA
21261450 AATAAAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
52 3 0.06
53 42 0.86
54 4 0.08
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.35
Consensus pattern (54 bp):
AAGGATATTTCTAAATTAGACCCAAATAGTGAAAAATTTAGAAATAAAATTTGT
Found at i:21267536 original size:129 final size:130
Alignment explanation
Indices: 21267341--21267593 Score: 292
Period size: 129 Copynumber: 2.0 Consensus size: 130
21267331 ATGGGGCATA
* * *** * * *
21267341 AAAAAATATTGATAGAACCACATCAGGAAGCTACAAACATGATTAATTTAGGGGACAAGGAAAAT
1 AAAAAATATTGATAAAACCACATCAGAAAAAAACAAACATAATTAATTTAGAGGACAAGAAAAAT
* * * * * *
21267406 AAAAAAGAAATCAAGATCGACACATTGTTTTTGCTTGTTGAAAAGGGAAAGTTGAAAGAAGCAAG
66 AAAAAAGAAATCAAGATCGACACATTGATTTTACCTATTGAAAAAGAAAAGTTGAAAGAAGCAAG
* * **
21267471 AAAAAATATTGATAAAACCACATCA-AAAAAAATATACATAATTAATTTAGAGGATGAGAAAAAT
1 AAAAAATATTGATAAAACCACATCAGAAAAAAACAAACATAATTAATTTAGAGGACAAGAAAAAT
** * * *
21267535 AAAATGGAAATCAGGATTGACACATTGATTTTACCTATTGAAAAAGAAAAGTTGGAAGA
66 AAAAAAGAAATCAAGATCGACACATTGATTTTACCTATTGAAAAAGAAAAGTTGAAAGA
21267594 TTTGCTTCGA
Statistics
Matches: 100, Mismatches: 23, Indels: 1
0.81 0.19 0.01
Matches are distributed among these distances:
129 76 0.76
130 24 0.24
ACGTcount: A:0.50, C:0.09, G:0.18, T:0.23
Consensus pattern (130 bp):
AAAAAATATTGATAAAACCACATCAGAAAAAAACAAACATAATTAATTTAGAGGACAAGAAAAAT
AAAAAAGAAATCAAGATCGACACATTGATTTTACCTATTGAAAAAGAAAAGTTGAAAGAAGCAAG
Found at i:21271412 original size:17 final size:17
Alignment explanation
Indices: 21271377--21271415 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
21271367 AAAGATAATT
*
21271377 GAAAAATGAAAAATGAA
1 GAAAAATGAAAAATCAA
21271394 GAAAAATG-AAAATCCAA
1 GAAAAATGAAAAAT-CAA
21271411 GAAAA
1 GAAAA
21271416 TAAGTGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.69, C:0.05, G:0.15, T:0.10
Consensus pattern (17 bp):
GAAAAATGAAAAATCAA
Found at i:21281286 original size:19 final size:19
Alignment explanation
Indices: 21281251--21281294 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
21281241 AATGGCGAAG
*
21281251 AAAAT-AAAAAAAAGAAAT
1 AAAATGAAAAAAAAGAAAA
* *
21281269 AAAATGAAAACAATGAAAA
1 AAAATGAAAAAAAAGAAAA
21281288 AAAATGA
1 AAAATGA
21281295 GAACTCATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.11
Consensus pattern (19 bp):
AAAATGAAAAAAAAGAAAA
Found at i:21282315 original size:51 final size:50
Alignment explanation
Indices: 21282223--21282554 Score: 293
Period size: 51 Copynumber: 6.6 Consensus size: 50
21282213 TGTCATGAAG
* * * *
21282223 CATTTTCAAACAAGA-TATTTAAAGTTCCAATGCCTATGTTTATAGGGAGC
1 CATTTTCAAACAAGATTTTTTAAAGTTTCAAAGCCTCTGTTTAT-GGGAGC
* *
21282273 AATTTTCAAACAAGATTTTTTAAAGTTTCAAAACCTCTGTTTATGGAGAGC
1 CATTTTCAAACAAGATTTTTTAAAGTTTCAAAGCCTCTGTTTATGG-GAGC
*
21282324 CATTTTCAAACAAGATTCCTTTTAAAGTTTCATAA-CCTCTGTTTATGGGGAGT
1 CATTTTCAAACAAGATT--TTTTAAAGTTTCA-AAGCCTCTGTTTAT-GGGAGC
* * * *
21282377 GATTTT-----TAGGTTTTTTAAAGTTTCAAAGCCTCTGTTTATGATGAGC
1 CATTTTCAAACAAGATTTTTTAAAGTTTCAAAGCCTCTGTTTATG-GGAGC
* * * * * * *
21282423 CATTTTCAGATAATATTTTTTAAAATTTCAAAGCATTTGTTTATGAAGAGC
1 CATTTTCAAACAAGATTTTTTAAAGTTTCAAAGCCTCTGTTTATG-GGAGC
* ** * **
21282474 CATTTTCAAACAAAATTTTTTAAAGTTTCAAAGTTTTTGTTTATAAAGAGC
1 CATTTTCAAACAAGATTTTTTAAAGTTTCAAAGCCTCTGTTTAT-GGGAGC
* *
21282525 CATTTTCAGATAAGA-TTTTTAAAGTTTCAA
1 CATTTTCAAACAAGATTTTTTAAAGTTTCAA
21282555 GGCATCTTAT
Statistics
Matches: 237, Mismatches: 31, Indels: 28
0.80 0.10 0.09
Matches are distributed among these distances:
45 3 0.01
46 32 0.14
48 4 0.02
50 31 0.13
51 131 0.55
53 32 0.14
54 4 0.02
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.41
Consensus pattern (50 bp):
CATTTTCAAACAAGATTTTTTAAAGTTTCAAAGCCTCTGTTTATGGGAGC
Found at i:21282823 original size:106 final size:104
Alignment explanation
Indices: 21282545--21282871 Score: 331
Period size: 106 Copynumber: 3.1 Consensus size: 104
21282535 TAAGATTTTT
* * * * * *
21282545 AAAGTTTCAAGGC-ATCTTATTAGAGGAGCTTTCATAGATTTCGAGATTTGTAAGTCTTTCTGAC
1 AAAGTTTCAAGGCTA-CTAATTAAAGAAGCTTTCATAGATTTCGAGATTTGTAAG-CCTT-AGGC
*
21282609 ATAATCTCTAAA-ACCGTTTGGGCAAAATATTTTAAATTTTCA
63 ATAATCTCTAAAGACC-TCTGGGCAAAATATTTTAAATTTTCA
* * * * * * *
21282651 AAAGTTTTAAGGCCT-CTAATTAAAAAAGTTTTCAAAGATTTCAAGATTTGTAAGTCCTCCAAGC
1 AAAGTTTCAAGG-CTACTAATTAAAGAAGCTTTCATAGATTTCGAGATTTGTAAG-CCT-TAGGC
* * *
21282715 ATAATCTCTAAAGACCTCTAGGAAAAACATTTTAAATTTTCA
63 ATAATCTCTAAAGACCTCTGGGCAAAATATTTTAAATTTTCA
* * *
21282757 AAAGTTTCAAGGCTACTAATTATAGAAGCTTTCATACATTTCGAGATTTGTAAGACCATTGGGCA
1 AAAGTTTCAAGGCTACTAATTAAAGAAGCTTTCATAGATTTCGAGATTTGTAAG-CC-TTAGGCA
* *
21282822 TAATCTTTAAAG-CTCTCTGGGCAAGATATTTTAAATTTTC-
64 TAATCTCTAAAGAC-CTCTGGGCAAAATATTTTAAATTTTCA
21282862 AAAGTTTCAA
1 AAAGTTTCAA
21282872 TGCCTTTTAC
Statistics
Matches: 181, Mismatches: 33, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
105 13 0.07
106 163 0.90
107 5 0.03
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
Consensus pattern (104 bp):
AAAGTTTCAAGGCTACTAATTAAAGAAGCTTTCATAGATTTCGAGATTTGTAAGCCTTAGGCATA
ATCTCTAAAGACCTCTGGGCAAAATATTTTAAATTTTCA
Found at i:21285882 original size:3 final size:3
Alignment explanation
Indices: 21285870--21285928 Score: 93
Period size: 3 Copynumber: 20.0 Consensus size: 3
21285860 ATATGTATAT
21285870 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
21285917 ATG TTA ATA ATA
1 ATA ATA ATA ATA
21285929 TTAGTAATAG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:21286240 original size:15 final size:15
Alignment explanation
Indices: 21286184--21286240 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 15
21286174 TATTTGCTTC
21286184 TTTAAAAAA-AATAA
1 TTTAAAAAATAATAA
* *
21286198 CTAAAAAATATAATAA
1 TTTAAAAA-ATAATAA
21286214 TGATTAATAAAATAATAA
1 T--TTAA-AAAATAATAA
21286232 TTTAAAAAA
1 TTTAAAAAA
21286241 GAATTAGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
14 6 0.18
15 5 0.15
16 9 0.26
18 11 0.32
19 3 0.09
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
TTTAAAAAATAATAA
Found at i:21287145 original size:20 final size:20
Alignment explanation
Indices: 21287120--21287158 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
21287110 TAAATATAAA
*
21287120 TATTGAAGATAATTATGAAC
1 TATTGAAGATAATCATGAAC
21287140 TATTGAAGATAATCATGAA
1 TATTGAAGATAATCATGAA
21287159 TTACCGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.33
Consensus pattern (20 bp):
TATTGAAGATAATCATGAAC
Found at i:21287167 original size:20 final size:20
Alignment explanation
Indices: 21287124--21287171 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
21287114 TATAAATATT
* **
21287124 GAAGATAATTATGAACTATT
1 GAAGATAATCATGAACTACC
*
21287144 GAAGATAATCATGAATTACC
1 GAAGATAATCATGAACTACC
21287164 GAAGATAA
1 GAAGATAA
21287172 AATTTTTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.48, C:0.08, G:0.17, T:0.27
Consensus pattern (20 bp):
GAAGATAATCATGAACTACC
Found at i:21289187 original size:18 final size:18
Alignment explanation
Indices: 21289164--21289198 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21289154 AAAGAAAAAA
*
21289164 AACCTTGAAACCCTAAAT
1 AACCTTAAAACCCTAAAT
*
21289182 AACCTTAAAACCTTAAA
1 AACCTTAAAACCCTAAA
21289199 ACACTTAAAC
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:0.49, C:0.26, G:0.03, T:0.23
Consensus pattern (18 bp):
AACCTTAAAACCCTAAAT
Found at i:21291016 original size:30 final size:26
Alignment explanation
Indices: 21290955--21291006 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
21290945 GTGGAGTGTA
*
21290955 AGCTGATGGAAAACAAACAGAACATG
1 AGCTGATGGAAAACAAACAAAACATG
*
21290981 AGCTGATGGAAAACAAAGAAAACATG
1 AGCTGATGGAAAACAAACAAAACATG
21291007 GCAGGGCTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.52, C:0.13, G:0.23, T:0.12
Consensus pattern (26 bp):
AGCTGATGGAAAACAAACAAAACATG
Found at i:21296415 original size:21 final size:21
Alignment explanation
Indices: 21296391--21296461 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 21
21296381 AAAACTAAAT
21296391 TATTATTTTATTTAATTATAA
1 TATTATTTTATTTAATTATAA
21296412 TATT-TTTTATATT-ATTAATAA
1 TATTATTTTAT-TTAATT-ATAA
*
21296433 TATTTATGTTTTTTATAATTATAAA
1 TA-TTAT-TTTATT-TAATTAT-AA
21296458 TATT
1 TATT
21296462 GAGTTTTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
20 9 0.22
21 12 0.29
22 2 0.05
23 2 0.05
24 9 0.22
25 7 0.17
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (21 bp):
TATTATTTTATTTAATTATAA
Found at i:21296430 original size:18 final size:18
Alignment explanation
Indices: 21296388--21296431 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
21296378 TCAAAAACTA
21296388 AATTATT-AT-TTTATTT
1 AATTATTAATATTTATTT
21296404 AATTA-TAATATTT-TTT
1 AATTATTAATATTTATTT
21296420 ATATTATTAATA
1 A-ATTATTAATA
21296432 ATATTTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 1 0.04
16 11 0.46
17 7 0.29
18 5 0.21
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
AATTATTAATATTTATTT
Found at i:21302614 original size:28 final size:29
Alignment explanation
Indices: 21302570--21302628 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 29
21302560 GATAATATGC
* *
21302570 TCTTGTTTTTTCATATCATTTTTATGTTA
1 TCTTATTTTTTCATATCATTTTTATATTA
21302599 TCTTATTTTTT-ATATCATTTTTATATTA
1 TCTTATTTTTTCATATCATTTTTATATTA
21302627 TC
1 TC
21302629 CTTTCATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 18 0.64
29 10 0.36
ACGTcount: A:0.20, C:0.10, G:0.03, T:0.66
Consensus pattern (29 bp):
TCTTATTTTTTCATATCATTTTTATATTA
Found at i:21303140 original size:15 final size:15
Alignment explanation
Indices: 21303122--21303167 Score: 56
Period size: 17 Copynumber: 2.9 Consensus size: 15
21303112 ATAATATATA
*
21303122 TTTAGTAAATAAATT
1 TTTATTAAATAAATT
21303137 TTTATTAAATAATAATT
1 TTTATTAAAT-A-AATT
*
21303154 TCTATTAAATAAAT
1 TTTATTAAATAAAT
21303168 ATATATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 12 0.44
16 2 0.07
17 13 0.48
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (15 bp):
TTTATTAAATAAATT
Found at i:21303159 original size:17 final size:17
Alignment explanation
Indices: 21303133--21303165 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21303123 TTAGTAAATA
*
21303133 AATTTTTATTAAATAAT
1 AATTTCTATTAAATAAT
21303150 AATTTCTATTAAATAA
1 AATTTCTATTAAATAA
21303166 ATATATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
AATTTCTATTAAATAAT
Found at i:21303315 original size:23 final size:23
Alignment explanation
Indices: 21303279--21303327 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
21303269 ATCAATCTAT
*
21303279 ATTTTTAATAAAATAAAAATTAA
1 ATTTTTAATAAAATAAAAATAAA
* * *
21303302 ATTTTTTATTAAATATAAATAAA
1 ATTTTTAATAAAATAAAAATAAA
21303325 ATT
1 ATT
21303328 AACATCTCTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
ATTTTTAATAAAATAAAAATAAA
Found at i:21303857 original size:20 final size:20
Alignment explanation
Indices: 21303823--21303887 Score: 58
Period size: 25 Copynumber: 3.0 Consensus size: 20
21303813 TATAAAAAAA
* *
21303823 TTATTTTTTAATTATTTAAT
1 TTATTTTATATTTATTTAAT
21303843 TTATTTTATATTTATTATAGTTAT
1 TTATTTTATATTTATT-TA---AT
21303867 TTAATTTTATATTTATATTAA
1 TT-ATTTTATATTTAT-TTAA
21303888 AAAAATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
20 14 0.38
21 2 0.05
22 1 0.03
24 4 0.11
25 15 0.41
26 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTATTTTATATTTATTTAAT
Found at i:21303895 original size:17 final size:17
Alignment explanation
Indices: 21303875--21303919 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
21303865 ATTTAATTTT
21303875 ATATTTATATTAAAAAA
1 ATATTTATATTAAAAAA
*
21303892 ATATTTTACATT--AAAA
1 ATA-TTTATATTAAAAAA
21303908 ATATTT-TATTAA
1 ATATTTATATTAA
21303920 TTTTGTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 7
0.72 0.06 0.22
Matches are distributed among these distances:
14 3 0.13
15 3 0.13
16 7 0.30
17 3 0.13
18 7 0.30
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATTTATATTAAAAAA
Found at i:21307679 original size:29 final size:29
Alignment explanation
Indices: 21307637--21307697 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
21307627 TAGCGTAAGT
* * *
21307637 ATGTCCTAGACTTACTAAAGGAAATTAGA
1 ATGTCCTAAACTTACTAAAAGAAACTAGA
21307666 ATGTCCTAAACTTACTAAAAGAAACTAGA
1 ATGTCCTAAACTTACTAAAAGAAACTAGA
21307695 ATG
1 ATG
21307698 CTTGGATACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (29 bp):
ATGTCCTAAACTTACTAAAAGAAACTAGA
Found at i:21309275 original size:25 final size:25
Alignment explanation
Indices: 21309237--21309287 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
21309227 TAGTCATCAT
*
21309237 ATTACTCCCTTAAAACCTAAAACCC
1 ATTACTCCCGTAAAACCTAAAACCC
*
21309262 ATTACTCCCGTAAAACCTAGAACCC
1 ATTACTCCCGTAAAACCTAAAACCC
21309287 A
1 A
21309288 GTGAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.35, G:0.04, T:0.22
Consensus pattern (25 bp):
ATTACTCCCGTAAAACCTAAAACCC
Found at i:21312531 original size:22 final size:21
Alignment explanation
Indices: 21312503--21312548 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
21312493 TTTTTTTATT
*
21312503 ATAATAAAATAATTATAATATG
1 ATAATAAAAAAATTATAA-ATG
21312525 ATAATAAAAAAATTATAAATG
1 ATAATAAAAAAATTATAAATG
21312546 ATA
1 ATA
21312549 TACTTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (21 bp):
ATAATAAAAAAATTATAAATG
Found at i:21313078 original size:16 final size:16
Alignment explanation
Indices: 21313054--21313086 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
21313044 AATTTTAAAC
21313054 TTTTTAAAT-ATTATA
1 TTTTTAAATAATTATA
21313069 TTTTTAAAATAATTATA
1 TTTTT-AAATAATTATA
21313086 T
1 T
21313087 AAATTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 4 0.25
17 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTTAAATAATTATA
Found at i:21313085 original size:17 final size:15
Alignment explanation
Indices: 21313039--21313086 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
21313029 GGATTCTAAA
* *
21313039 TTTTAAATTTTAAACT
1 TTTTAAATATTATA-T
21313055 TTTTAAATATTATAT
1 TTTTAAATATTATAT
21313070 TTTTAAAATAATTATAT
1 TTTT-AAAT-ATTATAT
21313087 AAATTAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 5 0.18
16 16 0.57
17 7 0.25
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTTAAATATTATAT
Found at i:21319716 original size:2 final size:2
Alignment explanation
Indices: 21319709--21319742 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
21319699 AACATTACTT
21319709 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21319743 AAGTTAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21320322 original size:18 final size:17
Alignment explanation
Indices: 21320292--21320325 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21320282 TCTTCACTTG
*
21320292 AAAATAAAATGAAAAAA
1 AAAAAAAAATGAAAAAA
21320309 AAAAAAAAACTGAAAAA
1 AAAAAAAAA-TGAAAAA
21320326 GACAAAGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.82, C:0.03, G:0.06, T:0.09
Consensus pattern (17 bp):
AAAAAAAAATGAAAAAA
Found at i:21320593 original size:18 final size:19
Alignment explanation
Indices: 21320567--21320615 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
21320557 ATTTTTATTT
*
21320567 TATAAAAATTTAA-AAAAA
1 TATATAAATTTAATAAAAA
21320585 TATATAAA-TTAATAAAAA
1 TATATAAATTTAATAAAAA
21320603 TATAT-AATTTAAT
1 TATATAAATTTAAT
21320616 TTATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 6 0.21
18 22 0.79
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TATATAAATTTAATAAAAA
Found at i:21336432 original size:19 final size:19
Alignment explanation
Indices: 21336416--21336455 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
21336406 TTTGGATTGC
21336416 AAAGTTTGAGATGGATTAA
1 AAAGTTTGAGATGGATTAA
* *
21336435 AAAGTTTGAGTTGCATTAA
1 AAAGTTTGAGATGGATTAA
21336454 AA
1 AA
21336456 TCTGAAAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.33
Consensus pattern (19 bp):
AAAGTTTGAGATGGATTAA
Found at i:21337607 original size:192 final size:185
Alignment explanation
Indices: 21337335--21337832 Score: 451
Period size: 186 Copynumber: 2.6 Consensus size: 185
21337325 TATGGAATTT
* * * * *
21337335 TTAGAAATTTCAAATAATAAA-TTTCTATA-AAATTTTTAGGTTAGAAAATTT-TCTAAATTTGT
1 TTAGAAATTTCAAATGATAAATTTTTTA-AGAAATCTTTAGGTGAG-AAATTTCTCTAAATTTAT
*
21337397 CTCAAATGCTAAAATAATTTAGAT-AAAGTTTCAATAATAA-TAATTCATATTTATTTTCAATTT
64 CCCAAATGCTAAAATAATTTAGATGAAA-TTTCAATAA-AAGTAATT-ATA-TTATTTTCAA---
* *
21337460 TAAAAAATAAAAAAAAAATTAATAAAAATT-TTGAAATTTATAT-ACTAATTATCCAAAGATGAG
122 -AAAAAA-AAAAAAAAAATTAA-AAAAATTGTTGAAA-ATATATGAC-AATTATCCAAAGATGAA
21337523 AATC
182 AATC
*
21337527 TTAGAAA-TTCAAATGATAAATTTTTTAAGAAATCTCTAGGTGAGAAATTTCTCTAAATTTATCC
1 TTAGAAATTTCAAATGATAAATTTTTTAAGAAATCTTTAGGTGAGAAATTTCTCTAAATTTATCC
* * * * * * *
21337591 CTAATGGTAGAATAATTTAGATGAAATTTCAATAAAAGTAATTGTATTCTTTTCCAAATAAAAAA
66 CAAATGCTAAAATAATTTAGATGAAATTTCAATAAAAGTAATTATATTATTTTCAAAAAAAAAAA
* * * ** * * *
21337656 ATATAACTTAAAAATTTTGGTTGAAAATATTTGACAATTATTCAAGGATGAAAATC
131 AAAAAAATTAAAAAAATT-GTTGAAAATATATGACAATTATCCAAAGATGAAAATC
* * * * *
21337712 TTAGAAATTTCAAATGGTAAATTTCTTAAGAAATCTTTAGGTGAGAAATTTCTTTAAATTTGTAC
1 TTAGAAATTTCAAATGATAAATTTTTTAAGAAATCTTTAGGTGAGAAATTTCTCTAAATTTATCC
* * *
21337777 CAAATAG-TGAAAA-AATTTAAATGAAA-TTCAAAAAAAATAATTGTCATATTATTTTC
66 CAAAT-GCT-AAAATAATTTAGATGAAATTTCAATAAAAGTAA-T-T-ATATTATTTTC
21337833 TTTCTAAAGA
Statistics
Matches: 255, Mismatches: 37, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
184 5 0.02
185 52 0.20
186 82 0.32
187 5 0.02
188 9 0.04
190 8 0.03
191 23 0.09
192 68 0.27
193 3 0.01
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (185 bp):
TTAGAAATTTCAAATGATAAATTTTTTAAGAAATCTTTAGGTGAGAAATTTCTCTAAATTTATCC
CAAATGCTAAAATAATTTAGATGAAATTTCAATAAAAGTAATTATATTATTTTCAAAAAAAAAAA
AAAAAAATTAAAAAAATTGTTGAAAATATATGACAATTATCCAAAGATGAAAATC
Found at i:21338794 original size:371 final size:371
Alignment explanation
Indices: 21338111--21338857 Score: 1494
Period size: 371 Copynumber: 2.0 Consensus size: 371
21338101 TAAATAAGAT
21338111 TTTGAATACTCTTGATATGAGAAAGTATTATTTAGAATTTACCAGATTGATAGAGAAATCTTAAG
1 TTTGAATACTCTTGATATGAGAAAGTATTATTTAGAATTTACCAGATTGATAGAGAAATCTTAAG
21338176 AATTATTTTTAATATTAAATTTAAGACCATTAGAATTAAAACTTCATGATAATTTAAAATAAAAT
66 AATTATTTTTAATATTAAATTTAAGACCATTAGAATTAAAACTTCATGATAATTTAAAATAAAAT
21338241 GGTACCATTACTTGGATGGGCATTTAAGGGTGCTATAACATTTTTCATATGTAACCGAACTCCTG
131 GGTACCATTACTTGGATGGGCATTTAAGGGTGCTATAACATTTTTCATATGTAACCGAACTCCTG
21338306 AACCTTGTTATGATTAATAAATCAGAACCTATTTTTTATGGACCCTTAGTCAAGCTTAAGAGATC
196 AACCTTGTTATGATTAATAAATCAGAACCTATTTTTTATGGACCCTTAGTCAAGCTTAAGAGATC
21338371 AATAAAATGATAGATTTATTAGGTGACCAATCACACCTAGTAATAAAAGATTTGTGGTAACTCTT
261 AATAAAATGATAGATTTATTAGGTGACCAATCACACCTAGTAATAAAAGATTTGTGGTAACTCTT
21338436 CTTATTAAGTTTAGCTATAAATTTACGGATTTATATGTTATGACAG
326 CTTATTAAGTTTAGCTATAAATTTACGGATTTATATGTTATGACAG
21338482 TTTGAATACTCTTGATATGAGAAAGTATTATTTAGAATTTACCAGATTGATAGAGAAATCTTAAG
1 TTTGAATACTCTTGATATGAGAAAGTATTATTTAGAATTTACCAGATTGATAGAGAAATCTTAAG
21338547 AATTATTTTTAATATTAAATTTAAGACCATTAGAATTAAAACTTCATGATAATTTAAAATAAAAT
66 AATTATTTTTAATATTAAATTTAAGACCATTAGAATTAAAACTTCATGATAATTTAAAATAAAAT
21338612 GGTACCATTACTTGGATGGGCATTTAAGGGTGCTATAACATTTTTCATATGTAACCGAACTCCTG
131 GGTACCATTACTTGGATGGGCATTTAAGGGTGCTATAACATTTTTCATATGTAACCGAACTCCTG
21338677 AACCTTGTTATGATTAATAAATCAGAACCTATTTTTTATGGACCCTTAGTCAAGCTTAAGAGATC
196 AACCTTGTTATGATTAATAAATCAGAACCTATTTTTTATGGACCCTTAGTCAAGCTTAAGAGATC
21338742 AATAAAATGATAGATTTATTAGGTGACCAATCACACCTAGTAATAAAAGATTTGTGGTAACTCTT
261 AATAAAATGATAGATTTATTAGGTGACCAATCACACCTAGTAATAAAAGATTTGTGGTAACTCTT
21338807 CTTATTAAGTTTAGCTATAAATTTACGGATTTATATGTTATGACAG
326 CTTATTAAGTTTAGCTATAAATTTACGGATTTATATGTTATGACAG
21338853 TTTGA
1 TTTGA
21338858 TGACTCCACT
Statistics
Matches: 376, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
371 376 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (371 bp):
TTTGAATACTCTTGATATGAGAAAGTATTATTTAGAATTTACCAGATTGATAGAGAAATCTTAAG
AATTATTTTTAATATTAAATTTAAGACCATTAGAATTAAAACTTCATGATAATTTAAAATAAAAT
GGTACCATTACTTGGATGGGCATTTAAGGGTGCTATAACATTTTTCATATGTAACCGAACTCCTG
AACCTTGTTATGATTAATAAATCAGAACCTATTTTTTATGGACCCTTAGTCAAGCTTAAGAGATC
AATAAAATGATAGATTTATTAGGTGACCAATCACACCTAGTAATAAAAGATTTGTGGTAACTCTT
CTTATTAAGTTTAGCTATAAATTTACGGATTTATATGTTATGACAG
Found at i:21341839 original size:19 final size:19
Alignment explanation
Indices: 21341815--21341851 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
21341805 GAACGATAAA
*
21341815 GTTGTGCTATGGAAATATG
1 GTTGTGATATGGAAATATG
*
21341834 GTTGTGATATGGTAATAT
1 GTTGTGATATGGAAATAT
21341852 AGGGGCAAAA
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:0.27, C:0.03, G:0.30, T:0.41
Consensus pattern (19 bp):
GTTGTGATATGGAAATATG
Found at i:21347996 original size:43 final size:43
Alignment explanation
Indices: 21347936--21348343 Score: 279
Period size: 43 Copynumber: 9.5 Consensus size: 43
21347926 CATAATTATC
*
21347936 GAGGAG-CTTATTTATTTTTAAAAGTCATTGAGCCTCTACTTA
1 GAGGAGCCTTATTTATTTTTAAAAGTTATTGAGCCTCTACTTA
* * *
21347978 GAGGAGCCTTATTTATTTTCAAAAGTCATTGAGCCTCTATTTA
1 GAGGAGCCTTATTTATTTTTAAAAGTTATTGAGCCTCTACTTA
** * * * * *
21348021 GAAAAACCTTATTTATTATTCAAAACTTATTGAGCCTTTATTTA
1 GAGGAGCCTTATTTATT-TTTAAAAGTTATTGAGCCTCTACTTA
* * * * *
21348065 GAGAAGTCTTATTTATTTTTTAAAAGTTATTGAGCTTATGCTTA
1 GAGGAGCCTTATTTA-TTTTTAAAAGTTATTGAGCCTCTACTTA
* * * * * * *
21348109 GAAGAGCTTTATTTATTTTTTAAAGTTGTTAAGCTTCTGCTTA
1 GAGGAGCCTTATTTATTTTTAAAAGTTATTGAGCCTCTACTTA
* * * * *
21348152 GAGGAGTCTTATTTATTTTTTAAAA-TTGTTGAGCATCTGCTAA
1 GAGGAGCCTTATTTA-TTTTTAAAAGTTATTGAGCCTCTACTTA
* * * * * *
21348195 AAGGAG--TTTTTTTTTTTTAAAAAAAATTGTTGAGCCTTTACTTA
1 GAGGAGCCTTATTTATTTTT---AAAAGTTATTGAGCCTCTACTTA
* * * * * * *
21348239 GAGAAGCCTTATTTGTTTCTCAAA-TTCGTTAAGCCTCT-TTTA
1 GAGGAGCCTTATTTATTTTTAAAAGTT-ATTGAGCCTCTACTTA
* * * * *
21348281 GAGGAGCTTTATTTATTTTTAAAAGTTGTTGAGTCTTTGCTTA
1 GAGGAGCCTTATTTATTTTTAAAAGTTATTGAGCCTCTACTTA
* *
21348324 GAAGAGTCTTATTTATTTTT
1 GAGGAGCCTTATTTATTTTT
21348344 TAAGGTCATT
Statistics
Matches: 293, Mismatches: 60, Indels: 25
0.78 0.16 0.07
Matches are distributed among these distances:
40 5 0.02
41 5 0.02
42 38 0.13
43 142 0.48
44 92 0.31
45 2 0.01
46 9 0.03
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.45
Consensus pattern (43 bp):
GAGGAGCCTTATTTATTTTTAAAAGTTATTGAGCCTCTACTTA
Found at i:21348063 original size:44 final size:43
Alignment explanation
Indices: 21347942--21348099 Score: 199
Period size: 44 Copynumber: 3.6 Consensus size: 43
21347932 TATCGAGGAG
* * *
21347942 CTTATTTATTTTTAAAAGTCATTGAGCCTCTACTTAGAGGAGC
1 CTTATTTATTTTCAAAAGTCATTGAGCCTCTATTTAGAGAAGC
* *
21347985 CTTATTTATTTTCAAAAGTCATTGAGCCTCTATTTAGAAAAAC
1 CTTATTTATTTTCAAAAGTCATTGAGCCTCTATTTAGAGAAGC
* * * *
21348028 CTTATTTATTATTCAAAACTTATTGAGCCTTTATTTAGAGAAGT
1 CTTATTTATT-TTCAAAAGTCATTGAGCCTCTATTTAGAGAAGC
* *
21348072 CTTATTTATTTTTTAAAAGTTATTGAGC
1 CTTATTTA-TTTTCAAAAGTCATTGAGC
21348100 TTATGCTTAG
Statistics
Matches: 100, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
43 48 0.48
44 50 0.50
45 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (43 bp):
CTTATTTATTTTCAAAAGTCATTGAGCCTCTATTTAGAGAAGC
Found at i:21348165 original size:87 final size:85
Alignment explanation
Indices: 21347939--21348346 Score: 312
Period size: 87 Copynumber: 4.7 Consensus size: 85
21347929 AATTATCGAG
** * * *
21347939 GAGC-TTATTTATTTTTAAAAGTCATTGAGCCTCTACTTAGAGGAGCCTTATTTA-TTTTCAAAA
1 GAGCTTTATTTATTTTTAAAAGTTGTTGAGCCTTTACTTAGAGGAGTCTTATTTATTTTTTAAAA
*
21348002 GTCATTGAGCCTCTAT-TTAGAA
66 -TTATTGAG-CT-TATCTTAGAA
* * * * * * * *
21348024 AAACCTTATTTATTATTCAAAACTTATTGAGCCTTTATTTAGAGAAGTCTTATTTATTTTTTAAA
1 GAGCTTTATTTATT-TTTAAAAGTTGTTGAGCCTTTACTTAGAGGAGTCTTATTTATTTTTTAAA
21348089 AGTTATTGAGCTTATGCTTAGAA
65 A-TTATTGAGCTTAT-CTTAGAA
* * *
21348112 GAGCTTTATTTATTTTTTAAAGTTGTTAAG-CTTCTGCTTAGAGGAGTCTTATTTATTTTTTAAA
1 GAGCTTTATTTATTTTTAAAAGTTGTTGAGCCTT-TACTTAGAGGAGTCTTATTTATTTTTTAAA
* *
21348176 ATTGTTGAGC--ATCTGCTAAAA
65 ATTATTGAGCTTATCT--TAGAA
* * * * * *
21348197 GGAG-TTT-TTTTTTTTTAAAAAAAATTGTTGAGCCTTTACTTAGAGAAGCCTTATTT-GTTTCT
1 -GAGCTTTATTTATTTTT---AAAAGTTGTTGAGCCTTTACTTAGAGGAGTCTTATTTATTTTTT
* * * * * * *
21348259 CAAATTCGTTAAGCCTCTTTTAGAG
62 AAAATT-ATTGAGCTTATCTTAGAA
* * *
21348284 GAGCTTTATTTATTTTTAAAAGTTGTTGAGTCTTTGCTTAGAAGAGTCTTATTTATTTTTTAA
1 GAGCTTTATTTATTTTTAAAAGTTGTTGAGCCTTTACTTAGAGGAGTCTTATTTATTTTTTAA
21348347 GGTCATTAAG
Statistics
Matches: 255, Mismatches: 49, Indels: 37
0.75 0.14 0.11
Matches are distributed among these distances:
83 2 0.01
84 10 0.04
85 40 0.16
86 43 0.17
87 114 0.45
88 44 0.17
89 2 0.01
ACGTcount: A:0.28, C:0.11, G:0.15, T:0.46
Consensus pattern (85 bp):
GAGCTTTATTTATTTTTAAAAGTTGTTGAGCCTTTACTTAGAGGAGTCTTATTTATTTTTTAAAA
TTATTGAGCTTATCTTAGAA
Found at i:21349188 original size:12 final size:11
Alignment explanation
Indices: 21349162--21349204 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
21349152 CATGGGTTTT
21349162 AGAGAGAAAGAA
1 AGAGA-AAAGAA
21349174 AGAGAAAAGATA
1 AGAGAAAAGA-A
*
21349186 AGAGAAGAGAA
1 AGAGAAAAGAA
*
21349197 AGACAAAA
1 AGAGAAAA
21349205 AAGAAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 12 0.44
12 15 0.56
ACGTcount: A:0.67, C:0.02, G:0.28, T:0.02
Consensus pattern (11 bp):
AGAGAAAAGAA
Found at i:21349482 original size:9 final size:9
Alignment explanation
Indices: 21349470--21349503 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
21349460 TTTTGGTATT
21349470 TTTATTTTA
1 TTTATTTTA
21349479 TTTATTTTA
1 TTTATTTTA
*
21349488 TTT-GTTTA
1 TTTATTTTA
21349496 TTTATTTT
1 TTTATTTT
21349504 TAAAGTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (9 bp):
TTTATTTTA
Found at i:21350802 original size:10 final size:10
Alignment explanation
Indices: 21350750--21350801 Score: 56
Period size: 9 Copynumber: 5.4 Consensus size: 10
21350740 TTTTTTTCAC
21350750 TTTTCATTTT
1 TTTTCATTTT
*
21350760 TTCTTC-TTTC
1 TT-TTCATTTT
21350770 TTTTC-TTTT
1 TTTTCATTTT
21350779 TTTTCATTTT
1 TTTTCATTTT
*
21350789 TTTT-GTTTT
1 TTTTCATTTT
21350798 TTTT
1 TTTT
21350802 TTTCTTAAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 19 0.51
10 15 0.41
11 3 0.08
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.83
Consensus pattern (10 bp):
TTTTCATTTT
Found at i:21351776 original size:45 final size:47
Alignment explanation
Indices: 21351695--21351790 Score: 126
Period size: 45 Copynumber: 2.1 Consensus size: 47
21351685 ATTTTACAAG
* *
21351695 TTTTATTTCTAAATTTTTTACCATTTCAGTAAATTTAG-AATT-TTT
1 TTTTATTTCTAAATTTTTCACCATTTCAATAAATTTAGAAATTCTTT
**
21351740 TTTTATTTCTAAATTTTTCACCA-TTCAAATCTATTTAGAAATTCTTT
1 TTTTATTTCTAAATTTTTCACCATTTC-AATAAATTTAGAAATTCTTT
21351787 TTTT
1 TTTT
21351791 TTTTTTATCT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
44 3 0.07
45 30 0.68
46 4 0.09
47 7 0.16
ACGTcount: A:0.28, C:0.11, G:0.03, T:0.57
Consensus pattern (47 bp):
TTTTATTTCTAAATTTTTCACCATTTCAATAAATTTAGAAATTCTTT
Found at i:21353275 original size:44 final size:43
Alignment explanation
Indices: 21353207--21353425 Score: 152
Period size: 43 Copynumber: 5.3 Consensus size: 43
21353197 ACTCAGGCTT
* * *
21353207 TTTGAATAATATAT-AAACTACTCTAAATAGAGGCTCAATGAC
1 TTTGAAAAATAAATAAAACTCCTCTAAATAGAGGCTCAATGAC
* ** * *
21353249 TTTTGAGAAATAAATAAAACTCCTCTAAGCAGAAGTTC-A--AC
1 -TTTGAAAAATAAATAAAACTCCTCTAAATAGAGGCTCAATGAC
** *
21353290 ---G---AATAAATAAGGCTCATCTAAATAGAGGCTCAATGAC
1 TTTGAAAAATAAATAAAACTCCTCTAAATAGAGGCTCAATGAC
* * * ** *
21353327 TTTGAAAAATAAATAAGACTCTTCTAAATAGAGACTCAACAATT
1 TTTGAAAAATAAATAAAACTCCTCTAAATAGAGGCTCAATGA-C
* * * * *
21353371 TTTAAAAAATAAATAAAATTCCTTTAAACAGAAGCTCAATGAC
1 TTTGAAAAATAAATAAAACTCCTCTAAATAGAGGCTCAATGAC
21353414 TTTGAAAAATAA
1 TTTGAAAAATAA
21353426 CATATCATTC
Statistics
Matches: 132, Mismatches: 33, Indels: 22
0.71 0.18 0.12
Matches are distributed among these distances:
34 23 0.17
35 1 0.01
37 3 0.02
40 1 0.01
41 2 0.02
43 53 0.40
44 49 0.37
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (43 bp):
TTTGAAAAATAAATAAAACTCCTCTAAATAGAGGCTCAATGAC
Found at i:21356645 original size:6 final size:6
Alignment explanation
Indices: 21356619--21356657 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
21356609 TTCTGCCATG
* *
21356619 TTTGTT TTTGGT TTTGTT TTTGTT TTT-TT TTTTTT TTTG
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTG
21356658 CATGATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTTGTT
Found at i:21356651 original size:18 final size:17
Alignment explanation
Indices: 21356619--21356657 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
21356609 TTCTGCCATG
21356619 TTTGTTTTTGGTTTTGTT
1 TTTGTTTTT-GTTTTGTT
* *
21356637 TTTGTTTTTTTTTTTTT
1 TTTGTTTTTGTTTTGTT
21356654 TTTG
1 TTTG
21356658 CATGATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (17 bp):
TTTGTTTTTGTTTTGTT
Found at i:21370490 original size:21 final size:23
Alignment explanation
Indices: 21370445--21370488 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
21370435 TTTTTAATCA
21370445 TAAAATAATATATATATAGATTT
1 TAAAATAATATATATATAGATTT
21370468 TAAAA-AATATA-ATATA-ATTT
1 TAAAATAATATATATATAGATTT
21370488 T
1 T
21370489 TATTTTCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 5 0.24
21 5 0.24
22 6 0.29
23 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TAAAATAATATATATATAGATTT
Found at i:21370539 original size:20 final size:21
Alignment explanation
Indices: 21370514--21370570 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
21370504 AACCAATAGG
*
21370514 TAAAAAA-AATAAAGTTGAAA
1 TAAAAAATAATAAAATTGAAA
*
21370534 TAAAAAATAATAAAATTGAAT
1 TAAAAAATAATAAAATTGAAA
21370555 TAAATAAATAAGTAAA
1 TAAA-AAATAA-TAAA
21370571 CAACTAGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 7 0.22
21 15 0.47
22 6 0.19
23 4 0.12
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (21 bp):
TAAAAAATAATAAAATTGAAA
Found at i:21371491 original size:43 final size:42
Alignment explanation
Indices: 21371443--21371550 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 42
21371433 ACCTCACCAG
21371443 AGGTTTTGAAACTTTGAAAAATTTAAAATGCTC-CCCCTACT-A
1 AGGTTTTGAAACTTTGAAAAA-TTAAAATGCTCTCCCC-ACTGA
* *
21371485 AGGGTTTTAAAACTTTAGAAAAA-TAAAATGCTCTCCCCATTGA
1 A-GGTTTTGAAACTTT-GAAAAATTAAAATGCTCTCCCCACTGA
*
21371528 AGGCTTTGAAACCTTTGAAAAAT
1 AGGTTTTGAAA-CTTTGAAAAAT
21371551 AAAGAAATAC
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
42 27 0.48
43 23 0.41
44 6 0.11
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (42 bp):
AGGTTTTGAAACTTTGAAAAATTAAAATGCTCTCCCCACTGA
Found at i:21373325 original size:11 final size:10
Alignment explanation
Indices: 21373290--21373335 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
21373280 AGAACATGCA
21373290 TTTTCATCTTT
1 TTTTCAT-TTT
* *
21373301 TTTTTATTTA
1 TTTTCATTTT
21373311 TTTTCATTCTT
1 TTTTCATT-TT
21373322 TTTTCATTTT
1 TTTTCATTTT
21373332 TTTT
1 TTTT
21373336 TGTTGCATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
10 15 0.50
11 15 0.50
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTCATTTT
Found at i:21373330 original size:21 final size:21
Alignment explanation
Indices: 21373289--21373335 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
21373279 TAGAACATGC
*
21373289 ATTTTCATCTTTTTTTTATTT
1 ATTTTCATCTTTTTTTCATTT
21373310 ATTTTCAT-TCTTTTTTCATTT
1 ATTTTCATCT-TTTTTTCATTT
*
21373331 TTTTT
1 ATTTT
21373336 TGTTGCATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.77
Consensus pattern (21 bp):
ATTTTCATCTTTTTTTCATTT
Found at i:21373336 original size:11 final size:11
Alignment explanation
Indices: 21373290--21373336 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
21373280 AGAACATGCA
21373290 TTTTCATCTTTT
1 TTTTCAT-TTTT
*
21373302 TTTT-A-TTTA
1 TTTTCATTTTT
*
21373311 TTTTCATTCTT
1 TTTTCATTTTT
21373322 TTTTCATTTTT
1 TTTTCATTTTT
21373333 TTTT
1 TTTT
21373337 GTTGCATGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
9 7 0.24
10 1 0.03
11 17 0.59
12 4 0.14
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCATTTTT
Found at i:21375537 original size:21 final size:21
Alignment explanation
Indices: 21375500--21375551 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
21375490 TAGCTTGACC
21375500 GGATCGAT-CCCTAAGGTACA
1 GGATCGATCCCCTAAGGTACA
*
21375520 GGATCGATCCCCTGAGGTACA
1 GGATCGATCCCCTAAGGTACA
*
21375541 TGATCGATCCC
1 GGATCGATCCC
21375552 TTAATTGACC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 8 0.28
21 21 0.72
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (21 bp):
GGATCGATCCCCTAAGGTACA
Found at i:21376774 original size:140 final size:137
Alignment explanation
Indices: 21376486--21376781 Score: 380
Period size: 140 Copynumber: 2.1 Consensus size: 137
21376476 TGAAAAGGCA
* *
21376486 AAAATAATGTATATACAAAAATTTACATGGATAAAAATGTATATACAAATACATATATGCAATAT
1 AAAATAATGTACATACAAAAATTTACATGGATAAAAATGTATATACAAATAAATATATGCAATAT
* * * * * * * *
21376551 ATAGTAATAATAAGAATTCATATTCACAACTATGTACAAAATTGAAAAGGCTAAGGTTGCCGCCC
66 ATAGTAAAAACAAGAATTCATATTCAAAACTATATACAAAACTGAAAAGGCAAAGATTGCCGCCA
* *
21376616 AATAAAT
131 AACAAAC
* * *
21376623 GAAATAATGTACGTACAAAAATGTTTACATGGATAAAAGATGTATATGCAAATAAATGA-ATGCA
1 AAAATAATGTACATACAAAAA--TTTACATGGATAAAA-ATGTATATACAAATAAAT-ATATGCA
* *
21376687 ATGTATAGTAAAAACAAGAATTCATATTCAAAACTATATACAAAACTGAAAAGGCAAATATTGCC
62 ATATATAGTAAAAACAAGAATTCATATTCAAAACTATATACAAAACTGAAAAGGCAAAGATTGCC
21376752 -CCTAAACAAAC
127 GCC-AAACAAAC
21376763 AAAATAATGTACATACAAA
1 AAAATAATGTACATACAAA
21376782 TATATTTGAT
Statistics
Matches: 135, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
137 18 0.13
139 17 0.13
140 99 0.73
141 1 0.01
ACGTcount: A:0.50, C:0.12, G:0.11, T:0.26
Consensus pattern (137 bp):
AAAATAATGTACATACAAAAATTTACATGGATAAAAATGTATATACAAATAAATATATGCAATAT
ATAGTAAAAACAAGAATTCATATTCAAAACTATATACAAAACTGAAAAGGCAAAGATTGCCGCCA
AACAAAC
Found at i:21377526 original size:44 final size:44
Alignment explanation
Indices: 21377442--21377528 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 44
21377432 ACAAATAATC
* * * *
21377442 AAATAAATTAGTACACATGAAGAATTGAAATCTACCAAATAAAAT
1 AAATAAATTAGTACACATAAAAAATT-AAAGCTACAAAATAAAAT
21377487 AAATAAATTAGTACACATAAAAAA-TATAAGCTACAAAATAAA
1 AAATAAATTAGTACACATAAAAAATTA-AAGCTACAAAATAAA
21377529 CAAATAGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 1 0.03
44 14 0.38
45 22 0.59
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (44 bp):
AAATAAATTAGTACACATAAAAAATTAAAGCTACAAAATAAAAT
Found at i:21379788 original size:9 final size:9
Alignment explanation
Indices: 21379770--21379804 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
21379760 GATAAATCCT
21379770 CTCT-TTTC
1 CTCTGTTTC
21379778 CTCTGTTTC
1 CTCTGTTTC
21379787 CTCTGTTTC
1 CTCTGTTTC
21379796 CTCTGTTTC
1 CTCTGTTTC
21379805 ATGATGAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.15
9 22 0.85
ACGTcount: A:0.00, C:0.34, G:0.09, T:0.57
Consensus pattern (9 bp):
CTCTGTTTC
Found at i:21381776 original size:18 final size:20
Alignment explanation
Indices: 21381738--21381776 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
21381728 AATTATTAAA
*
21381738 AGCTTTTAATATTTGTTAAG
1 AGCTTTTAATATTTGTCAAG
21381758 AGCTTTTAAT-TTT-TCAAG
1 AGCTTTTAATATTTGTCAAG
21381776 A
1 A
21381777 TTGTTAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 3 0.17
20 10 0.56
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.49
Consensus pattern (20 bp):
AGCTTTTAATATTTGTCAAG
Found at i:21384084 original size:3 final size:3
Alignment explanation
Indices: 21384076--21384112 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
21384066 GATAATGATA
21384076 AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
21384113 GTGTAGGCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21384086 original size:16 final size:16
Alignment explanation
Indices: 21384067--21384112 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
21384057 AATGATAACG
*
21384067 ATAATGATAAATAATA
1 ATAATAATAAATAATA
21384083 ATAATAATAAATAATA
1 ATAATAATAAATAATA
21384099 ATAATAAT-AATAAT
1 ATAATAATAAATAAT
21384113 GTGTAGGCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 6 0.21
16 23 0.79
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
ATAATAATAAATAATA
Found at i:21384637 original size:12 final size:12
Alignment explanation
Indices: 21384620--21384646 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
21384610 CTCAGTGTTG
21384620 TTGTTTTTTTTT
1 TTGTTTTTTTTT
21384632 TTGTTTTTTTTT
1 TTGTTTTTTTTT
21384644 TTG
1 TTG
21384647 GAGTGGTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (12 bp):
TTGTTTTTTTTT
Found at i:21384641 original size:15 final size:15
Alignment explanation
Indices: 21384617--21384645 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21384607 GTGCTCAGTG
21384617 TTGTTGTTTTTTTTT
1 TTGTTGTTTTTTTTT
21384632 TTGTT-TTTTTTTTT
1 TTGTTGTTTTTTTTT
21384646 GGAGTGGTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (15 bp):
TTGTTGTTTTTTTTT
Found at i:21388867 original size:16 final size:16
Alignment explanation
Indices: 21388846--21388878 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21388836 ATATTTTTTT
21388846 ATTTTTTA-AAAATATA
1 ATTTTTTACAAAA-ATA
21388862 ATTTTTTACAAAAATA
1 ATTTTTTACAAAAATA
21388878 A
1 A
21388879 AAAGTAGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTTTTACAAAAATA
Found at i:21389919 original size:86 final size:86
Alignment explanation
Indices: 21389769--21389958 Score: 213
Period size: 86 Copynumber: 2.2 Consensus size: 86
21389759 CAAAAGGGTA
* * * *
21389769 ATTTTTGTAATTATAGTTAGAAGGTATCATAGTAATTTTAGCTAATTATAATATGAAAAGTATTT
1 ATTTTTGTAATTATGGTTAAAAGGTATCATAATAATTTTAGATAATTATAATATGAAAAGTATTT
** * *
21389834 TTGTAGTTATGATAAGAGGGC
66 TCCTAATTATGATAAGAAGGC
* * * *
21389855 ATTTTCGTAATTATGGTTAAAAGGTATTATAATGATTTT-GATAAATTATAATAT-AAAGGATAT
1 ATTTTTGTAATTATGGTTAAAAGGTATCATAATAATTTTAGAT-AATTATAATATGAAAAG-TAT
* *
21389918 TTTCCTAATTATTATTAGAAGGC
64 TTTCCTAATTATGATAAGAAGGC
*
21389941 ATTTTTTTAATTATGGTT
1 ATTTTTGTAATTATGGTT
21389959 GTAGGGACAA
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
85 6 0.07
86 80 0.93
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.45
Consensus pattern (86 bp):
ATTTTTGTAATTATGGTTAAAAGGTATCATAATAATTTTAGATAATTATAATATGAAAAGTATTT
TCCTAATTATGATAAGAAGGC
Found at i:21390039 original size:26 final size:26
Alignment explanation
Indices: 21389983--21390040 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
21389973 GTAGTTTTGG
* *
21389983 CTAACTATGGTAAGAGGGATACTTTA
1 CTAATTATGGTAAGAGAGATACTTTA
* *
21390009 GTAATTATGTTAAGAGAGATA-TTATA
1 CTAATTATGGTAAGAGAGATACTT-TA
21390035 CTAATT
1 CTAATT
21390041 TTAATTAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 2 0.08
26 24 0.92
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (26 bp):
CTAATTATGGTAAGAGAGATACTTTA
Found at i:21390439 original size:55 final size:55
Alignment explanation
Indices: 21390371--21390481 Score: 150
Period size: 55 Copynumber: 2.0 Consensus size: 55
21390361 AAAGGGTAAG
* * * * *
21390371 TTTTTGTAATTATGGTTAGATAGTATTATAGTAATTTTTGCAAATTATAATATGA
1 TTTTCGTAATTATGGTTAAAGAGTATTATAGTAATTTTGGCAAATCATAATATGA
* * *
21390426 TTTTCGTAATTATGGTTAAAGGGTATTATATTAATTTTGGTAAATCATAATATGA
1 TTTTCGTAATTATGGTTAAAGAGTATTATAGTAATTTTGGCAAATCATAATATGA
21390481 T
1 T
21390482 AGGTAATTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.34, C:0.03, G:0.15, T:0.48
Consensus pattern (55 bp):
TTTTCGTAATTATGGTTAAAGAGTATTATAGTAATTTTGGCAAATCATAATATGA
Found at i:21394947 original size:26 final size:26
Alignment explanation
Indices: 21394909--21394971 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
21394899 TTATAGTAAC
21394909 TTTAGTCAATTATG-GTAAGAGGGGCAT
1 TTTAGT-AATTATGTG-AAGAGGGGCAT
21394936 TTTAGTAATTATGTGAAGAGGGGCAT
1 TTTAGTAATTATGTGAAGAGGGGCAT
* *
21394962 TATAATAATT
1 TTTAGTAATT
21394972 TTAGTTAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 26 0.79
27 7 0.21
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TTTAGTAATTATGTGAAGAGGGGCAT
Found at i:21395009 original size:36 final size:35
Alignment explanation
Indices: 21394933--21395009 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 35
21394923 GTAAGAGGGG
* *
21394933 CATTTTAGTAATTATGTGAAGAGGGGCATTATAAT
1 CATTTTAGTAATTATGTAAAGAGGGGCATCATAAT
* *
21394968 AATTTTAGTTAATTATAG-AAAGAGGGGCATCATAGT
1 CATTTTAG-TAATTAT-GTAAAGAGGGGCATCATAAT
21395004 CATTTT
1 CATTTT
21395010 GGATCTATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
35 7 0.20
36 27 0.77
37 1 0.03
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (35 bp):
CATTTTAGTAATTATGTAAAGAGGGGCATCATAAT
Found at i:21396613 original size:31 final size:30
Alignment explanation
Indices: 21396575--21396644 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
21396565 TTACTTTTAC
* *
21396575 TTTTCTTTTGTTTATG-TTTGCTTTTTTCTTT
1 TTTTCTTTT-TTT-TGCTTTGCTTTCTACTTT
*
21396606 TTTTCTTTTTTTTGCCTTTTCTTTCTACTTT
1 TTTTCTTTTTTTTG-CTTTGCTTTCTACTTT
21396637 TTTTCTTT
1 TTTTCTTT
21396645 ACTTTTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 2 0.06
30 3 0.09
31 29 0.85
ACGTcount: A:0.03, C:0.14, G:0.06, T:0.77
Consensus pattern (30 bp):
TTTTCTTTTTTTTGCTTTGCTTTCTACTTT
Found at i:21396644 original size:20 final size:18
Alignment explanation
Indices: 21396596--21396654 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 18
21396586 TTATGTTTGC
21396596 TTTTTTCTTTT-TTTCTT
1 TTTTTTCTTTTCTTTCTT
21396613 TTTTTTGCCTTTTCTTTCTACT
1 TTTTTT--CTTTTCTTTCT--T
*
21396635 TTTTTTCTTTACTTTTCTT
1 TTTTTTCTTTTC-TTTCTT
21396654 T
1 T
21396655 ACATACATCC
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
17 6 0.17
19 7 0.20
20 10 0.29
21 5 0.14
22 7 0.20
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTTTTCTTTTCTTTCTT
Found at i:21401510 original size:15 final size:16
Alignment explanation
Indices: 21401477--21401514 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
21401467 AGGTTTTGGT
21401477 GTTTCAAAATTTAAAG
1 GTTTCAAAATTTAAAG
* *
21401493 GTTT-AAAATTTTAGG
1 GTTTCAAAATTTAAAG
21401508 GTTTCAA
1 GTTTCAA
21401515 GGGTTTTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (16 bp):
GTTTCAAAATTTAAAG
Found at i:21401645 original size:15 final size:16
Alignment explanation
Indices: 21401622--21401655 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
21401612 AATATTTTGA
21401622 TTTTAAGGTTTA-GGT
1 TTTTAAGGTTTAGGGT
*
21401637 TTTTTAGGTTTAGGGT
1 TTTTAAGGTTTAGGGT
21401653 TTT
1 TTT
21401656 GGATGGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (16 bp):
TTTTAAGGTTTAGGGT
Found at i:21402050 original size:3 final size:3
Alignment explanation
Indices: 21402042--21402137 Score: 135
Period size: 3 Copynumber: 32.3 Consensus size: 3
21402032 TCATTTTCAT
21402042 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
21402090 TTA TTA TTA TTA TTA TTA TCTA GTTA TT- TTT TTA CT- TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA
21402134 TTA T
1 TTA T
21402138 AAGGTTTATT
Statistics
Matches: 85, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
2 5 0.06
3 75 0.88
4 4 0.05
5 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:21408282 original size:30 final size:30
Alignment explanation
Indices: 21408243--21408317 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
21408233 ATTAATTATT
*
21408243 TAAT-TTTTTATTTATATATATTTATATAA
1 TAATATTTTTATTTATATATATTTATAAAA
* ** * *
21408272 TGATATTTTTAAATATTTATATTTTTAAAA
1 TAATATTTTTATTTATATATATTTATAAAA
21408302 TAATATTTTATATTTA
1 TAATATTTT-TATTTA
21408318 AAAAAATTAT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
29 3 0.09
30 28 0.80
31 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (30 bp):
TAATATTTTTATTTATATATATTTATAAAA
Found at i:21408287 original size:18 final size:18
Alignment explanation
Indices: 21408266--21408305 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
21408256 ATATATATTT
21408266 ATATAATGATATTTTTAA
1 ATATAATGATATTTTTAA
*
21408284 ATAT--TTATATTTTTAA
1 ATATAATGATATTTTTAA
21408300 A-ATAAT
1 ATATAAT
21408306 ATTTTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 5
0.76 0.04 0.20
Matches are distributed among these distances:
15 2 0.11
16 12 0.63
17 1 0.05
18 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
ATATAATGATATTTTTAA
Found at i:21408308 original size:20 final size:19
Alignment explanation
Indices: 21408282--21408332 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
21408272 TGATATTTTT
21408282 AAATATTTATATTTTTAAA
1 AAATATTTATATTTTTAAA
*
21408301 ATAATATTT-TATATTTAAA
1 A-AATATTTATATTTTTAAA
21408320 AAA-A-TTATATTTT
1 AAATATTTATATTTT
21408333 ATTAATTTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 2 0.07
17 6 0.21
18 2 0.07
19 11 0.39
20 7 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AAATATTTATATTTTTAAA
Done.