Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 55 of 356
Found at i:17896122 original size:20 final size:21
Alignment explanation
Indices: 17896085--17896128 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
17896075 AAACCAGTAA
* * *
17896085 AAAATGTTATTTTTAGAAGAT
1 AAAATGTTATTCTAAGAAAAT
17896106 AAAAT-TTATTCTAAGAAAAT
1 AAAATGTTATTCTAAGAAAAT
17896126 AAA
1 AAA
17896129 TTTCCAATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.36
Consensus pattern (21 bp):
AAAATGTTATTCTAAGAAAAT
Found at i:17896472 original size:4 final size:4
Alignment explanation
Indices: 17896463--17896503 Score: 64
Period size: 4 Copynumber: 9.8 Consensus size: 4
17896453 CAAAATAGAT
17896463 ATTA ATTA ATTA ATTA ATTA ATTA ATTAA ATTAA ATTA ATT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATT-A ATT-A ATTA ATT
17896504 TCTCAATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 27 0.75
5 9 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:17902369 original size:14 final size:15
Alignment explanation
Indices: 17902352--17902382 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
17902342 AAATATGTGG
17902352 ATGAAATA-ATAGAA
1 ATGAAATACATAGAA
17902366 ATGAAATACATAGAA
1 ATGAAATACATAGAA
17902381 AT
1 AT
17902383 TTGATATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.61, C:0.03, G:0.13, T:0.23
Consensus pattern (15 bp):
ATGAAATACATAGAA
Found at i:17906637 original size:22 final size:20
Alignment explanation
Indices: 17906606--17906654 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
17906596 ATCTTTTATC
17906606 TAAAATTTATTTAA-AATAAT
1 TAAAATTTATTTAATAAT-AT
17906626 GTAAAATATTATTTAATAATAT
1 -TAAAAT-TTATTTAATAATAT
17906648 TAAAATT
1 TAAAATT
17906655 AAAAAATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 1 0.04
21 12 0.46
22 10 0.38
23 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TAAAATTTATTTAATAATAT
Found at i:17924546 original size:14 final size:15
Alignment explanation
Indices: 17924522--17924550 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17924512 TTTACAAATC
17924522 CCATATTTTTGTAAT
1 CCATATTTTTGTAAT
17924537 CCAT-TTTTTGTAAT
1 CCATATTTTTGTAAT
17924551 TCTCCTTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.24, C:0.14, G:0.07, T:0.55
Consensus pattern (15 bp):
CCATATTTTTGTAAT
Found at i:17925553 original size:46 final size:46
Alignment explanation
Indices: 17925486--17925579 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
17925476 AACCTGTCTT
17925486 TTCTGTGTGCATCAACTTGCTCATTACTCAATTACAGACAAATGCC
1 TTCTGTGTGCATCAACTTGCTCATTACTCAATTACAGACAAATGCC
17925532 TTCTGTGTGCATCAACTTGCTCATTACTCAATTACAGACAAATGCC
1 TTCTGTGTGCATCAACTTGCTCATTACTCAATTACAGACAAATGCC
17925578 TT
1 TT
17925580 ATCTGAATAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.34
Consensus pattern (46 bp):
TTCTGTGTGCATCAACTTGCTCATTACTCAATTACAGACAAATGCC
Found at i:17928951 original size:30 final size:30
Alignment explanation
Indices: 17928917--17928976 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
17928907 TAAGATTAAA
17928917 GCTTTTAATTTGATTTTCATTTCTGGGTCT
1 GCTTTTAATTTGATTTTCATTTCTGGGTCT
17928947 GCTTTTAATTTGATTTTCATTTCTGGGTCT
1 GCTTTTAATTTGATTTTCATTTCTGGGTCT
17928977 TTCTCTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.13, C:0.13, G:0.17, T:0.57
Consensus pattern (30 bp):
GCTTTTAATTTGATTTTCATTTCTGGGTCT
Found at i:17934115 original size:8 final size:8
Alignment explanation
Indices: 17934102--17934143 Score: 70
Period size: 8 Copynumber: 5.5 Consensus size: 8
17934092 CTTTTATACA
17934102 AAAAAAAG
1 AAAAAAAG
17934110 AAAAAAAG
1 AAAAAAAG
17934118 -AAAAAAG
1 AAAAAAAG
17934125 -AAAAAAG
1 AAAAAAAG
17934132 AAAAAAAG
1 AAAAAAAG
17934140 AAAA
1 AAAA
17934144 CATTTTCTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 14 0.42
8 19 0.58
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:17934121 original size:6 final size:7
Alignment explanation
Indices: 17934103--17934143 Score: 64
Period size: 7 Copynumber: 5.6 Consensus size: 7
17934093 TTTTATACAA
17934103 AAAAAAG
1 AAAAAAG
17934110 AAAAAAAG
1 -AAAAAAG
17934118 AAAAAAG
1 AAAAAAG
17934125 AAAAAAG
1 AAAAAAG
17934132 AAAAAAAG
1 -AAAAAAG
17934140 AAAA
1 AAAA
17934144 CATTTTCTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 18 0.56
8 14 0.44
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:17934123 original size:15 final size:14
Alignment explanation
Indices: 17934101--17934143 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 14
17934091 ACTTTTATAC
17934101 AAAAAAAAGAAAAA
1 AAAAAAAAGAAAAA
17934115 AAGAAAAAAGAAAAA
1 AA-AAAAAAGAAAAA
17934130 AGAAAAAAAGAAAA
1 A-AAAAAAAGAAAA
17934144 CATTTTCTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.07
15 24 0.89
16 1 0.04
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAAAAGAAAAA
Found at i:17940914 original size:13 final size:13
Alignment explanation
Indices: 17940896--17940922 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17940886 ATTGACTAAG
17940896 TTGAATTATACCT
1 TTGAATTATACCT
17940909 TTGAATTATACCT
1 TTGAATTATACCT
17940922 T
1 T
17940923 CTTTTGCAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.48
Consensus pattern (13 bp):
TTGAATTATACCT
Found at i:17942130 original size:32 final size:32
Alignment explanation
Indices: 17942089--17942150 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
17942079 AGCCTAGACA
17942089 TTAGACCCAAATTCGAAAGATTACATTAGTTG
1 TTAGACCCAAATTCGAAAGATTACATTAGTTG
*
17942121 TTAGACCCAAATTCGGAAGATTACATTAGT
1 TTAGACCCAAATTCGAAAGATTACATTAGT
17942151 CACCAAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (32 bp):
TTAGACCCAAATTCGAAAGATTACATTAGTTG
Found at i:17942497 original size:17 final size:19
Alignment explanation
Indices: 17942461--17942497 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
17942451 AATAATTAAG
17942461 ATATAATAATAAATCTAAA
1 ATATAATAATAAATCTAAA
*
17942480 ATAT-ATAATCAA-CTAAA
1 ATATAATAATAAATCTAAA
17942497 A
1 A
17942498 CTAAACCGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (19 bp):
ATATAATAATAAATCTAAA
Found at i:17942501 original size:23 final size:21
Alignment explanation
Indices: 17942461--17942502 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
17942451 AATAATTAAG
*
17942461 ATATAATAATAAATCTAAAAT
1 ATATAATAATAAAACTAAAAT
17942482 ATATAATCAACTAAAACTAAA
1 ATATAAT-AA-TAAAACTAAA
17942503 CCGAGACGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 2 0.11
23 9 0.50
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.29
Consensus pattern (21 bp):
ATATAATAATAAAACTAAAAT
Found at i:17944371 original size:40 final size:40
Alignment explanation
Indices: 17944279--17944373 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
17944269 ACTAGTTTCG
*
17944279 TCCAACCCA-ACACACC-ATATGGGGATAAAATTGACCCA
1 TCCAACCCATACACACCAATATGGGGATAAAATCGACCCA
*
17944317 --CATATCCC-TGCACACCAAATATGGGGATAAAATCGACCCA
1 TCCA-A-CCCATACACACC-AATATGGGGATAAAATCGACCCA
17944357 TCCAA-CCATACACACCA
1 TCCAACCCATACACACCA
17944374 TAAAGTACCG
Statistics
Matches: 46, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
36 2 0.04
37 1 0.02
38 9 0.20
39 3 0.07
40 28 0.61
41 1 0.02
42 2 0.04
ACGTcount: A:0.39, C:0.34, G:0.12, T:0.16
Consensus pattern (40 bp):
TCCAACCCATACACACCAATATGGGGATAAAATCGACCCA
Found at i:17944754 original size:17 final size:18
Alignment explanation
Indices: 17944724--17944757 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
17944714 ATGTGGCATG
17944724 CCCGTGTAGGCCCACACA
1 CCCGTGTAGGCCCACACA
17944742 CCCGTGT-GGCCCACAC
1 CCCGTGTAGGCCCACAC
17944758 GACCTGACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.12
Consensus pattern (18 bp):
CCCGTGTAGGCCCACACA
Found at i:17951119 original size:40 final size:39
Alignment explanation
Indices: 17951032--17951130 Score: 105
Period size: 40 Copynumber: 2.6 Consensus size: 39
17951022 ACCAACTTCG
* *
17951032 TCCAACCCAACACACC-ATATGGGGATAAAATCGACCCA
1 TCCAACCCTACACACCAATATAGGGATAAAATCGACCCA
* * *
17951070 -CCTATCCCTACACACCAAATATAGGGATAAAATTGACCTA
1 TCC-AACCCTACACACC-AATATAGGGATAAAATCGACCCA
*
17951110 TCCAACCCTACATACC-ATATA
1 TCCAACCCTACACACCAATATA
17951131 AGTACCGTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
37 2 0.04
38 16 0.32
40 30 0.60
41 2 0.04
ACGTcount: A:0.39, C:0.32, G:0.09, T:0.19
Consensus pattern (39 bp):
TCCAACCCTACACACCAATATAGGGATAAAATCGACCCA
Found at i:17953320 original size:25 final size:24
Alignment explanation
Indices: 17953292--17953360 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
17953282 CATATGACGA
* *
17953292 GAAGCTCATGTGAGCTATGTAACAG
1 GAAGCTCATGTGAGCCA-ATAACAG
** *
17953317 GAAGCTCATGCAAGCCAATATCAG
1 GAAGCTCATGTGAGCCAATAACAG
17953341 GAAGCTCATGTGAGCCAATA
1 GAAGCTCATGTGAGCCAATA
17953361 TCGGGAAACT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
24 23 0.62
25 14 0.38
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (24 bp):
GAAGCTCATGTGAGCCAATAACAG
Found at i:17953346 original size:24 final size:24
Alignment explanation
Indices: 17953314--17953396 Score: 94
Period size: 24 Copynumber: 3.4 Consensus size: 24
17953304 AGCTATGTAA
*
17953314 CAGGAAGCTCATGCAAGCCAATAT
1 CAGGAAGCTCATGAAAGCCAATAT
**
17953338 CAGGAAGCTCATGTGAGCCAATAT
1 CAGGAAGCTCATGAAAGCCAATAT
* * * *
17953362 CGGGAAACTCGTGAAAGACATATAT
1 CAGGAAGCTCATGAAAGCCA-ATAT
17953387 CAGGAAGCTC
1 CAGGAAGCTC
17953397 GAGAGAGACA
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 36 0.75
25 12 0.25
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (24 bp):
CAGGAAGCTCATGAAAGCCAATAT
Found at i:17953386 original size:25 final size:25
Alignment explanation
Indices: 17953358--17953406 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
17953348 ATGTGAGCCA
* *
17953358 ATATCGGGAAACTCGTGAAAGACAT
1 ATATCAGGAAACTCGAGAAAGACAT
* *
17953383 ATATCAGGAAGCTCGAGAGAGACA
1 ATATCAGGAAACTCGAGAAAGACA
17953407 AATGTTGGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.41, C:0.16, G:0.27, T:0.16
Consensus pattern (25 bp):
ATATCAGGAAACTCGAGAAAGACAT
Found at i:17954333 original size:13 final size:13
Alignment explanation
Indices: 17954315--17954340 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17954305 TTGGTCAAGT
17954315 ATCGATACCTTTG
1 ATCGATACCTTTG
17954328 ATCGATACCTTTG
1 ATCGATACCTTTG
17954341 TCCCTAGCAT
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:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
ATCGATACCTTTG
Found at i:17955788 original size:101 final size:99
Alignment explanation
Indices: 17955677--17956039 Score: 335
Period size: 102 Copynumber: 3.6 Consensus size: 99
17955667 GGAGTATAAA
* * *
17955677 AAATAATATATAAAAATTTAAA-AGATAATATATACAATAGTTTAAAATAAATAATATATGAAAA
1 AAATAATATATAAAAATTTAAATAAATAATATATAAAACAGTTTAAAATAAATAATATAT--AAA
*
17955741 AAAATTTAAATAAATAATATATAAAATGGTTCAGAAT
64 AAAATTTAAATAAATAATATATAAAAT-GTTCAAAAT
* * * * ** *
17955778 AAACAATATATATAAATTTTAACATAAATAAGATATAAAACAGTTTGAAATAAATGGTTTATAAA
1 AAATAATATATA-AAAATTTAA-ATAAATAATATATAAAACAGTTTAAAATAAATAATATATAAA
* * *
17955843 ACAATTTAAAGTAAATAATATATAAAATAATTTAAAAT
64 AAAATTTAAA-TAAATAATATATAAAAT-GTTCAAAAT
* * * * *
17955881 -AATAATACAAAACAAATTAAAATAAATAATATGATAAAACAATTTAAAATAAATACTATATAAA
1 AAATAATATATAA-AAATTTAAATAAATAATAT-ATAAAACAGTTTAAAATAAATAATATATAAA
*
17955945 AAAATTAAAATAAATAATA-ATAAAACTGTTCAAAAT
64 AAAATTTAAATAAATAATATATAAAA-TGTTCAAAAT
* * * * *
17955981 AAATAATAT-GAAAGATTTATAATGAATAA-A-ATAAGTA-AGTTTAAAAATAAATAACATAT
1 AAATAATATATAAAAATTTA-AATAAATAATATATAA-AACAGTTT-AAAATAAATAATATAT
17956040 GAAAGATTTA
Statistics
Matches: 212, Mismatches: 39, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
97 8 0.04
98 15 0.07
99 6 0.03
100 23 0.11
101 39 0.18
102 68 0.32
103 24 0.11
104 29 0.14
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.31
Consensus pattern (99 bp):
AAATAATATATAAAAATTTAAATAAATAATATATAAAACAGTTTAAAATAAATAATATATAAAAA
AATTTAAATAAATAATATATAAAATGTTCAAAAT
Found at i:17955866 original size:26 final size:26
Alignment explanation
Indices: 17955677--17955989 Score: 261
Period size: 26 Copynumber: 12.3 Consensus size: 26
17955667 GGAGTATAAA
17955677 AAATAATATAT-AAA-AATTT-AAA-
1 AAATAATATATAAAACAATTTAAAAT
* * * *
17955699 AGATAATATATACAATAGTTTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
*
17955725 AAATAATATATGAAAAAAAATTT-AAAT
1 AAATAATATAT--AAAACAATTTAAAAT
*** * *
17955752 AAATAATATATAAAATGGTTCAGAAT
1 AAATAATATATAAAACAATTTAAAAT
* * * *
17955778 AAACAATATATATAA-ATTTTAACAT
1 AAATAATATATAAAACAATTTAAAAT
* * *
17955803 AAATAAGATATAAAACAGTTTGAAAT
1 AAATAATATATAAAACAATTTAAAAT
** * *
17955829 AAATGGTTTATAAAACAATTTAAAGT
1 AAATAATATATAAAACAATTTAAAAT
*
17955855 AAATAATATATAAAATAATTTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
* *
17955881 -AAT-A-ATACAAAACAAATTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
17955904 AAATAATATGATAAAACAATTTAAAAT
1 AAATAATAT-ATAAAACAATTTAAAAT
* *
17955931 AAATACTATATAAAA-AAATTAAAAT
1 AAATAATATATAAAACAATTTAAAAT
** *
17955956 AAATAATA-ATAAAACTGTTCAAAAT
1 AAATAATATATAAAACAATTTAAAAT
17955981 AAATAATAT
1 AAATAATAT
17955990 GAAAGATTTA
Statistics
Matches: 228, Mismatches: 49, Indels: 24
0.76 0.16 0.08
Matches are distributed among these distances:
22 10 0.04
23 18 0.08
24 14 0.06
25 60 0.26
26 81 0.36
27 38 0.17
28 7 0.03
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (26 bp):
AAATAATATATAAAACAATTTAAAAT
Found at i:17955968 original size:152 final size:156
Alignment explanation
Indices: 17955701--17955984 Score: 344
Period size: 153 Copynumber: 1.8 Consensus size: 156
17955691 AATTTAAAAG
* * * *
17955701 ATAATATATACAATAGTTTAAAATAAATAATATATGAAAAAAAATTTAAATAAATAATATATAAA
1 ATAATATATAAAATAATTTAAAATAAATAATATATCAAAAAAAATTAAAATAAATAATATATAAA
*** * * ** * **
17955766 ATGGTTCAGAATAAACAATATATATAAATTTTAACATAAATAAGATATAAAACAGTTTGAAATAA
66 ACAATTCAAAATAAACAATATATAAAAAAATTAAAATAAATAAGATATAAAACAGTTCAAAATAA
17955831 ATGGTTTATAAAACAATTTAAAGTAA
131 ATGGTTTATAAAACAATTTAAAGTAA
*
17955857 ATAATATATAAAATAATTTAAAAT-AAT-A-ATA-CAAAACAAATTAAAATAAATAATATGATAA
1 ATAATATATAAAATAATTTAAAATAAATAATATATCAAAAAAAATTAAAATAAATAATAT-ATAA
* * * * *
17955918 AACAATTTAAAATAAATACTATATAAAAAAATTAAAATAAATAATA-ATAAAACTGTTCAAAATA
65 AACAATTCAAAATAAACAATATATAAAAAAATTAAAATAAATAAGATATAAAACAGTTCAAAATA
17955982 AAT
130 AAT
17955985 AATATGAAAG
Statistics
Matches: 107, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
152 40 0.37
153 41 0.38
154 1 0.01
155 3 0.03
156 22 0.21
ACGTcount: A:0.61, C:0.04, G:0.05, T:0.31
Consensus pattern (156 bp):
ATAATATATAAAATAATTTAAAATAAATAATATATCAAAAAAAATTAAAATAAATAATATATAAA
ACAATTCAAAATAAACAATATATAAAAAAATTAAAATAAATAAGATATAAAACAGTTCAAAATAA
ATGGTTTATAAAACAATTTAAAGTAA
Found at i:17956125 original size:50 final size:48
Alignment explanation
Indices: 17955846--17956129 Score: 195
Period size: 50 Copynumber: 5.8 Consensus size: 48
17955836 TTATAAAACA
* ** *
17955846 ATTTAAAGTAAATAATATATAAAATAA-TTTAAAAT-AATAATA-CAAAACA
1 ATTTAAAATAAATAA-A-AT-AAATAAGTTTAAAATAAATAATATTGAAA-G
* * * * *
17955895 AATTAAAATAAATAATATGATAAA-ACAATTTAAAATAAATACTATATAAAAA
1 ATTTAAAATAAATAA-A--ATAAATA-AGTTTAAAATAAATAATAT-TGAAAG
* * *
17955947 AATTAAAATAAATAATAATAAA-ACTGTTCAAAATAAATAATA-TGAAAG
1 ATTTAAAATAAATAA-AATAAATA-AGTTTAAAATAAATAATATTGAAAG
* * * *
17955995 ATTTATAATGAATAAAATAAGTAAGTTTAAAAATAAATAACATATGAAAG
1 ATTTAAAATAAATAAAATAAATAAGTTT-AAAATAAATAATAT-TGAAAG
* * * *
17956045 ATTTAAAAT-AACAAAATAAACAAGTTTAATATAAATAATATGTGAGAG
1 ATTTAAAATAAATAAAATAAATAAGTTTAAAATAAATAATAT-TGAAAG
*
17956093 ATTTAAAAATAAATAAAATAAATAAGTTTAATATAAA
1 ATTT-AAAATAAATAAAATAAATAAGTTTAAAATAAA
17956130 CAGTATCTGA
Statistics
Matches: 195, Mismatches: 28, Indels: 23
0.79 0.11 0.09
Matches are distributed among these distances:
47 8 0.04
48 51 0.26
49 39 0.20
50 69 0.35
51 6 0.03
52 18 0.09
53 4 0.02
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.30
Consensus pattern (48 bp):
ATTTAAAATAAATAAAATAAATAAGTTTAAAATAAATAATATTGAAAG
Found at i:17956889 original size:11 final size:11
Alignment explanation
Indices: 17956869--17956899 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
17956859 TGTATAGTCG
17956869 AAAA-AAATGA
1 AAAATAAATGA
17956879 AAAATAAATGA
1 AAAATAAATGA
17956890 AAAATAAATG
1 AAAATAAATG
17956900 GGACCTTGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (11 bp):
AAAATAAATGA
Found at i:17960695 original size:12 final size:12
Alignment explanation
Indices: 17960678--17960710 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
17960668 TTTGAGGACG
17960678 GTTTGAGGGATA
1 GTTTGAGGGATA
*
17960690 GTTTGACGGATA
1 GTTTGAGGGATA
17960702 GTTTGAGGG
1 GTTTGAGGG
17960711 TTCTGATTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.21, C:0.03, G:0.42, T:0.33
Consensus pattern (12 bp):
GTTTGAGGGATA
Found at i:17966639 original size:47 final size:47
Alignment explanation
Indices: 17966490--17966663 Score: 214
Period size: 47 Copynumber: 3.7 Consensus size: 47
17966480 AACCCGCCCC
* * *
17966490 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-GTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACATCCA
17966536 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-AGTTCACATCCA
* * * *
17966584 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACATCCA
17966630 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17966664 TGTTCAACCA
Statistics
Matches: 109, Mismatches: 10, Indels: 17
0.80 0.07 0.12
Matches are distributed among these distances:
43 3 0.03
44 5 0.05
45 1 0.01
46 34 0.31
47 56 0.51
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACATCCA
Found at i:17966655 original size:94 final size:93
Alignment explanation
Indices: 17966495--17966665 Score: 288
Period size: 94 Copynumber: 1.8 Consensus size: 93
17966485 GCCCCTAAGT
* * *
17966495 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
17966560 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
17966588 GAACTCAGACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTCGGAC-GTTCACATCCATAAGTGAACTCGGACTCAACTCA
17966653 ACGAGTTCGGATG
65 ACGAGTTCGGATG
17966666 TTCAACCATC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
93 27 0.38
94 45 0.62
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17967117 original size:29 final size:29
Alignment explanation
Indices: 17967084--17967139 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
17967074 CCTTAATACG
17967084 AACTTTGGCAAAATTAC-CATTTTGCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCTA
* *
17967113 AACTTTTGCACAATTACACTTTTGCCC
1 AACTTTGGCAAAATTACACTTTTGCCC
17967140 CTAGGCTCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.36
Consensus pattern (29 bp):
AACTTTGGCAAAATTACACTTTTGCCCTA
Found at i:17969938 original size:16 final size:16
Alignment explanation
Indices: 17969917--17969948 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17969907 CACGATTCAC
*
17969917 TATTATACTGTATTTA
1 TATTATACTATATTTA
17969933 TATTATACTATATTTA
1 TATTATACTATATTTA
17969949 ACTCATAAAT
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:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (16 bp):
TATTATACTATATTTA
Found at i:17973038 original size:24 final size:24
Alignment explanation
Indices: 17973002--17973049 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
17972992 ATACACCTCG
17973002 CAAAGAACAAATTTTAACATAATT
1 CAAAGAACAAATTTTAACATAATT
*
17973026 CAAAGAACCAATTTTAACATAATT
1 CAAAGAACAAATTTTAACATAATT
17973050 TACTCCTAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.29
Consensus pattern (24 bp):
CAAAGAACAAATTTTAACATAATT
Found at i:17973565 original size:21 final size:21
Alignment explanation
Indices: 17973541--17973580 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17973531 TAAATATGTA
*
17973541 TAAATCTAAAAAAATTAAATT
1 TAAAACTAAAAAAATTAAATT
17973562 TAAAACTAAAAAAATTAAA
1 TAAAACTAAAAAAATTAAA
17973581 CTAACATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAAACTAAAAAAATTAAATT
Found at i:17979820 original size:22 final size:23
Alignment explanation
Indices: 17979780--17979845 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 23
17979770 TTTTAGTATC
*
17979780 ATTTTTATTTGTTTTAAT-ATTT-
1 ATTTTTATTT-TTTAAATAATTTG
17979802 ATTTTTATGTTTTTAAATAAATTTG
1 ATTTTTAT-TTTTTAAAT-AATTTG
17979827 ATTTATTATATTTTTAAAT
1 ATTT-TTAT-TTTTTAAAT
17979846 TTTTTTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
22 14 0.38
23 2 0.05
24 4 0.11
25 4 0.11
26 13 0.35
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (23 bp):
ATTTTTATTTTTTAAATAATTTG
Found at i:17979842 original size:26 final size:24
Alignment explanation
Indices: 17979798--17979845 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
17979788 TTGTTTTAAT
*
17979798 ATTTATTTTTATGTTTTTAAATAA
1 ATTTATTTTTATATTTTTAAATAA
17979822 ATTTGATTTATTATATTTTTAAAT
1 ATTT-ATTT-TTATATTTTTAAAT
17979846 TTTTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.19
25 4 0.19
26 13 0.62
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (24 bp):
ATTTATTTTTATATTTTTAAATAA
Found at i:17980127 original size:20 final size:20
Alignment explanation
Indices: 17980090--17980140 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
17980080 AGGACTCTTC
*
17980090 TTTTTCTC--TTTAGTTTTT
1 TTTTTCTCATTTTTGTTTTT
17980108 TTTTTCTCATTTTTGTTTTT
1 TTTTTCTCATTTTTGTTTTT
*
17980128 TCTTT-TCATTTTT
1 TTTTTCTCATTTTT
17980141 CGGGTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 8 0.28
19 8 0.28
20 13 0.45
ACGTcount: A:0.06, C:0.12, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTTCTCATTTTTGTTTTT
Found at i:17985881 original size:17 final size:18
Alignment explanation
Indices: 17985859--17985907 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
17985849 GGTCCTAGAA
17985859 TATTTGGATAGATTA-TT
1 TATTTGGATAGATTAGTT
*
17985876 TATTTGAGA-AAATTAGTT
1 TATTTG-GATAGATTAGTT
*
17985894 AATTT-GATAGATTA
1 TATTTGGATAGATTA
17985908 ACTAATTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
16 2 0.08
17 16 0.62
18 8 0.31
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (18 bp):
TATTTGGATAGATTAGTT
Found at i:17989647 original size:14 final size:14
Alignment explanation
Indices: 17989628--17989657 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17989618 TTATATCGAG
17989628 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
17989642 ACCAATCCAATTCA
1 ACCAATCCAAATCA
17989656 AC
1 AC
17989658 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:17994400 original size:19 final size:20
Alignment explanation
Indices: 17994368--17994407 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
17994358 ACTATTAATT
17994368 TTAAATATTAAAATGTTTTA
1 TTAAATATTAAAATGTTTTA
*
17994388 TTAAATA-TAAAATTTTTTA
1 TTAAATATTAAAATGTTTTA
17994407 T
1 T
17994408 ATCCAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TTAAATATTAAAATGTTTTA
Found at i:17994556 original size:26 final size:27
Alignment explanation
Indices: 17994527--17994585 Score: 111
Period size: 26 Copynumber: 2.2 Consensus size: 27
17994517 CCTCAACAAA
17994527 TCCATTAGCATTTAATATTTAAATA-T
1 TCCATTAGCATTTAATATTTAAATATT
17994553 TCCATTAGCATTTAATATTTAAATATT
1 TCCATTAGCATTTAATATTTAAATATT
17994580 TCCATT
1 TCCATT
17994586 TAATTAGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 25 0.78
27 7 0.22
ACGTcount: A:0.36, C:0.14, G:0.03, T:0.47
Consensus pattern (27 bp):
TCCATTAGCATTTAATATTTAAATATT
Found at i:17995114 original size:17 final size:18
Alignment explanation
Indices: 17995092--17995128 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
17995082 ATAACATTCA
*
17995092 TTTT-AAAAATATTCATT
1 TTTTAAAAAAAATTCATT
17995109 TTTTAAAAAAAATTCATT
1 TTTTAAAAAAAATTCATT
17995127 TT
1 TT
17995129 AAATTATGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTTAAAAAAAATTCATT
Found at i:18005063 original size:12 final size:12
Alignment explanation
Indices: 18005046--18005072 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18005036 TGCAAAGGTG
18005046 TATATATATACA
1 TATATATATACA
18005058 TATATATATACA
1 TATATATATACA
18005070 TAT
1 TAT
18005073 GCACTGATTT
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:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATATATACA
Found at i:18006361 original size:18 final size:17
Alignment explanation
Indices: 18006333--18006383 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
18006323 TTTTTTTCAA
18006333 AAAAAATTATAAAAATATT
1 AAAAAA-TATAAAAATA-T
18006352 AAAAAATATAAAAATAT
1 AAAAAATATAAAAATAT
* *
18006369 AAAAATTAAAAAAAT
1 AAAAAATATAAAAAT
18006384 TATTTAAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 14 0.47
18 10 0.33
19 6 0.20
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAAAATATAAAAATAT
Found at i:18006372 original size:7 final size:8
Alignment explanation
Indices: 18006334--18006380 Score: 60
Period size: 8 Copynumber: 5.6 Consensus size: 8
18006324 TTTTTTCAAA
18006334 AAAAATTAT
1 AAAAA-TAT
18006343 AAAAATATT
1 AAAAATA-T
18006352 AAAAAATAT
1 -AAAAATAT
18006361 AAAAATAT
1 AAAAATAT
18006369 AAAAAT-T
1 AAAAATAT
18006376 AAAAA
1 AAAAA
18006381 AATTATTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 6 0.17
8 16 0.44
9 7 0.19
10 7 0.19
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAAAATAT
Found at i:18006431 original size:18 final size:19
Alignment explanation
Indices: 18006410--18006447 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
18006400 AAAATTTAAA
18006410 TTAACAAA-ACATAAAAAT
1 TTAACAAATACATAAAAAT
* *
18006428 TTAAGAAATATATAAAAAT
1 TTAACAAATACATAAAAAT
18006447 T
1 T
18006448 AATTTTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (19 bp):
TTAACAAATACATAAAAAT
Found at i:18006444 original size:26 final size:26
Alignment explanation
Indices: 18006341--18006444 Score: 72
Period size: 26 Copynumber: 4.0 Consensus size: 26
18006331 AAAAAAAATT
*
18006341 ATAAAAATATTAAAAAATATA-AAAAT
1 ATAAAAAT-TTAAAAAATATATAAAAC
* *
18006367 ATAAAAATTAAAAAAATTATTTAAAAC
1 ATAAAAATTTAAAAAA-TATATAAAAC
* * *
18006394 TTAAAAAAAATTT--AAATTA-ACAAAAC
1 ---ATAAAAATTTAAAAAATATATAAAAC
*
18006420 ATAAAAATTTAAGAAATATATAAAA
1 ATAAAAATTTAAAAAATATATAAAA
18006445 ATTAATTTTT
Statistics
Matches: 58, Mismatches: 12, Indels: 16
0.67 0.14 0.19
Matches are distributed among these distances:
23 9 0.16
25 11 0.19
26 21 0.36
27 6 0.10
28 3 0.05
30 8 0.14
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (26 bp):
ATAAAAATTTAAAAAATATATAAAAC
Found at i:18006449 original size:18 final size:16
Alignment explanation
Indices: 18006334--18006449 Score: 79
Period size: 18 Copynumber: 6.6 Consensus size: 16
18006324 TTTTTTCAAA
18006334 AAAAATTATAAAAATATT
1 AAAAATTA-AAAAATA-T
*
18006352 AAAAAATATAAAAATAT
1 AAAAATTA-AAAAATAT
18006369 AAAAATTAAAAAAATTATTT
1 AAAAATT-AAAAAA-TA--T
* *
18006389 AAAACTTAAAAAAAAT
1 AAAAATTAAAAAATAT
** *
18006405 TTAAATTAACAAAACAT
1 AAAAATTAA-AAAATAT
18006422 AAAAATTTAAGAAATATAT
1 AAAAA-TTAA-AAA-ATAT
18006441 AAAAATTAA
1 AAAAATTAA
18006450 TTTTTTTGAG
Statistics
Matches: 79, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
16 7 0.09
17 21 0.27
18 30 0.38
19 14 0.18
20 7 0.09
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (16 bp):
AAAAATTAAAAAATAT
Found at i:18006687 original size:20 final size:20
Alignment explanation
Indices: 18006662--18006703 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
18006652 ATTTCATATA
18006662 TATATCACTAAAGTTATAGT
1 TATATCACTAAAGTTATAGT
18006682 TATATCACTAAAGTTATAGT
1 TATATCACTAAAGTTATAGT
18006702 TA
1 TA
18006704 AAACTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (20 bp):
TATATCACTAAAGTTATAGT
Found at i:18013099 original size:12 final size:12
Alignment explanation
Indices: 18013082--18013106 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18013072 CTCGAACTCT
18013082 TCATATGTTTTA
1 TCATATGTTTTA
18013094 TCATATGTTTTA
1 TCATATGTTTTA
18013106 T
1 T
18013107 TTTTTTTTGG
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:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TCATATGTTTTA
Found at i:18014679 original size:19 final size:16
Alignment explanation
Indices: 18014646--18014683 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
18014636 ATCAATTTAA
18014646 TATTTTTTTAAATTTT
1 TATTTTTTTAAATTTT
18014662 TATTATTTTT-AATTATT
1 TATT-TTTTTAAATT-TT
18014679 TATTT
1 TATTT
18014684 ATTGTTGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTTTTTAAATTTT
Found at i:18023902 original size:2 final size:2
Alignment explanation
Indices: 18023895--18023919 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18023885 CGACTGTGAG
18023895 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
18023920 TTCTTTTATG
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:18030300 original size:12 final size:12
Alignment explanation
Indices: 18030283--18030315 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
18030273 ACAAAATCTG
18030283 AATTTAATTTCC
1 AATTTAATTTCC
*
18030295 AATTTAATTTCT
1 AATTTAATTTCC
18030307 AATTTAATT
1 AATTTAATT
18030316 AATTAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (12 bp):
AATTTAATTTCC
Found at i:18036144 original size:46 final size:46
Alignment explanation
Indices: 18036077--18036168 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
18036067 AAAAAGAGAC
*
18036077 TGTTTGAACTGAGTAATCGGGATAGGATGCTTGGGTTGTCATCCTA
1 TGTTTGAACTGAGTAATCGGGATAGGATGCTTGGGTTGCCATCCTA
* *
18036123 TGTTTGAATTTAGTAATCGGGATAGGATGCTTGGGTTGCCATCCTA
1 TGTTTGAACTGAGTAATCGGGATAGGATGCTTGGGTTGCCATCCTA
18036169 GTTCGCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.22, C:0.13, G:0.29, T:0.36
Consensus pattern (46 bp):
TGTTTGAACTGAGTAATCGGGATAGGATGCTTGGGTTGCCATCCTA
Found at i:18047834 original size:52 final size:52
Alignment explanation
Indices: 18047773--18047880 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
18047763 ATAATATTTT
*
18047773 AATAAAAAAATTAACAATATTAA-TCATTTTGATTAATTAATAATATTATAAA
1 AATAAAAAAATTAACAATATTAACT-ATTTTGACTAATTAATAATATTATAAA
18047825 AATAAAAAAATTAACAATATTAACTATTTTGACTAATTAATAATATTATAAA
1 AATAAAAAAATTAACAATATTAACTATTTTGACTAATTAATAATATTATAAA
18047877 AATA
1 AATA
18047881 TAGAGATCAA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
52 53 0.98
53 1 0.02
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (52 bp):
AATAAAAAAATTAACAATATTAACTATTTTGACTAATTAATAATATTATAAA
Found at i:18048089 original size:3 final size:3
Alignment explanation
Indices: 18048083--18048108 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18048073 GGTATTATTT
18048083 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
18048109 GATTAAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:18049703 original size:15 final size:16
Alignment explanation
Indices: 18049673--18049707 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
18049663 TTAAATGTTT
18049673 AATATTATTGTTAAAA
1 AATATTATTGTTAAAA
*
18049689 AATATT-TTTTTAAAA
1 AATATTATTGTTAAAA
18049704 AATA
1 AATA
18049708 AAATATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
AATATTATTGTTAAAA
Found at i:18050363 original size:18 final size:18
Alignment explanation
Indices: 18050342--18050377 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18050332 ATAGAAAATC
18050342 TATAAAAAAATATTTAAA
1 TATAAAAAAATATTTAAA
* *
18050360 TATAATAAAATTTTTAAA
1 TATAAAAAAATATTTAAA
18050378 ACTACTAAAT
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:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TATAAAAAAATATTTAAA
Found at i:18050462 original size:9 final size:9
Alignment explanation
Indices: 18050422--18050488 Score: 50
Period size: 9 Copynumber: 7.2 Consensus size: 9
18050412 AATATTAAAT
18050422 AAATATTATA
1 AAATA-TATA
18050432 AAAT-TATA
1 AAATATATA
*
18050440 GAAATTATAGA
1 -AAA-TATATA
18050451 AAATATATA
1 AAATATATA
18050460 AAATA-ATTA
1 AAATATA-TA
18050469 AAATGATA-A
1 AAAT-ATATA
*
18050478 AAATCTATA
1 AAATATATA
18050487 AA
1 AA
18050489 TTTTAATAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
8 7 0.15
9 27 0.57
10 9 0.19
11 4 0.09
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (9 bp):
AAATATATA
Found at i:18050472 original size:28 final size:27
Alignment explanation
Indices: 18050422--18050488 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
18050412 AATATTAAAT
* *
18050422 AAATATTATAAAATTATAGAAATTATAGA
1 AAATA-TATAAAATAATAGAAATGATA-A
18050451 AAATATATAAAATAATTA-AAATGATAA
1 AAATATATAAAATAA-TAGAAATGATAA
*
18050478 AAATCTATAAA
1 AAATATATAAA
18050489 TTTTAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 11 0.32
28 16 0.47
29 7 0.21
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (27 bp):
AAATATATAAAATAATAGAAATGATAA
Found at i:18050515 original size:9 final size:9
Alignment explanation
Indices: 18050420--18050569 Score: 81
Period size: 10 Copynumber: 15.8 Consensus size: 9
18050410 GAAATATTAA
*
18050420 ATAAATATT
1 ATAAAAATT
18050429 AT-AAAATT
1 ATAAAAATT
*
18050437 ATAGAAATT
1 ATAAAAATT
18050446 ATAGAAAA-T
1 ATA-AAAATT
*
18050455 ATATAAAATA
1 ATA-AAAATT
* *
18050465 ATTAAAATG
1 ATAAAAATT
18050474 ATAAAAATCT
1 ATAAAAAT-T
**
18050484 ATAAATTTT
1 ATAAAAATT
18050493 AATAAAAAAGTT
1 -AT-AAAAA-TT
18050505 ATAAAAATT
1 ATAAAAATT
*
18050514 ATTAAAAGTAT
1 A-TAAAAAT-T
*
18050525 AAAAAAAGTT
1 ATAAAAA-TT
*
18050535 GTAAAAATT
1 ATAAAAATT
18050544 -TAAAAATAT
1 ATAAAAAT-T
18050553 ATAAGAAATT
1 ATAA-AAATT
*
18050563 ACAAAAA
1 ATAAAAA
18050570 ATAAATTTTG
Statistics
Matches: 109, Mismatches: 19, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
8 14 0.13
9 40 0.37
10 41 0.38
11 12 0.11
12 2 0.02
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.31
Consensus pattern (9 bp):
ATAAAAATT
Found at i:18052601 original size:17 final size:17
Alignment explanation
Indices: 18052580--18052621 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
18052570 ACTTTACATG
18052580 TAATATATAAAATTTTAA
1 TAATATAT-AAATTTTAA
* *
18052598 -AATAAATAATTTTTAA
1 TAATATATAAATTTTAA
18052614 TAATATAT
1 TAATATAT
18052622 TATATTATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAATATATAAATTTTAA
Found at i:18063555 original size:18 final size:18
Alignment explanation
Indices: 18063534--18063569 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
18063524 TATAAATATC
18063534 ATAAACAAAAGTGTTCAA
1 ATAAACAAAAGTGTTCAA
18063552 ATAAACAAAAGTGTTCAA
1 ATAAACAAAAGTGTTCAA
18063570 CACATGACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (18 bp):
ATAAACAAAAGTGTTCAA
Found at i:18070084 original size:36 final size:37
Alignment explanation
Indices: 18070037--18070107 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
18070027 GAGATTATTA
*
18070037 GGAGAAAGTAG-AATCTG-TGGAAATACCTGTGGATTC
1 GGAGAAAGTAGAAATCCGAT-GAAATACCTGTGGATTC
18070073 GGAGAAAGTAGAAATCCGATGAAATACCTGTGGAT
1 GGAGAAAGTAGAAATCCGATGAAATACCTGTGGAT
18070108 ATTTTCGTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 11 0.34
37 20 0.62
38 1 0.03
ACGTcount: A:0.37, C:0.11, G:0.30, T:0.23
Consensus pattern (37 bp):
GGAGAAAGTAGAAATCCGATGAAATACCTGTGGATTC
Found at i:18071249 original size:18 final size:20
Alignment explanation
Indices: 18071215--18071255 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
18071205 TATTATAACA
18071215 TTAAAAAAAGAACAA-TTAT
1 TTAAAAAAAGAACAATTTAT
*
18071234 TTAAAAAAAGTA-AATTTAT
1 TTAAAAAAAGAACAATTTAT
18071253 TTA
1 TTA
18071256 TTTTTTCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (20 bp):
TTAAAAAAAGAACAATTTAT
Found at i:18073437 original size:16 final size:16
Alignment explanation
Indices: 18073413--18073447 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18073403 ATTGATTGTC
*
18073413 AAAAATATTTTTAGAT
1 AAAAATATTTTTAAAT
*
18073429 AAAAGTATTTTTAAAT
1 AAAAATATTTTTAAAT
18073445 AAA
1 AAA
18073448 CTGAATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (16 bp):
AAAAATATTTTTAAAT
Found at i:18075479 original size:18 final size:18
Alignment explanation
Indices: 18075458--18075502 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
18075448 TATACCAGGT
*
18075458 ATGTATCCTAGCCCTTAC
1 ATGTATCCTAACCCTTAC
*
18075476 ATGTATCCTAACCCTTAT
1 ATGTATCCTAACCCTTAC
*
18075494 ATGTTTCCT
1 ATGTATCCT
18075503 TTTCTCAGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.22, C:0.29, G:0.09, T:0.40
Consensus pattern (18 bp):
ATGTATCCTAACCCTTAC
Found at i:18075948 original size:24 final size:23
Alignment explanation
Indices: 18075921--18075977 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 23
18075911 TATTTAATAA
*
18075921 AATAAAATTTTTTTTGA-ATATTTT
1 AATAAAATTATTTTT-ATAT-TTTT
18075945 AATAGTAAATTATTTTTATATTTTT
1 AATA--AAATTATTTTTATATTTTT
18075970 AATAAAAT
1 AATAAAAT
18075978 AGAAGTTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 4 0.14
25 9 0.31
26 12 0.41
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
AATAAAATTATTTTTATATTTTT
Found at i:18079244 original size:126 final size:125
Alignment explanation
Indices: 18079017--18079413 Score: 523
Period size: 126 Copynumber: 3.2 Consensus size: 125
18079007 AAGGCCAAAC
* * * *
18079017 AAGAACTAGTGTA-AGAAAAGAGCGTCCACTG-GGAGCTTTTTTTAGTCATTTTGCTGACAGTGC
1 AAGAACTACTGTAGA-AAAAGAGCGTCCA-TGTGGAGCTTTTTTCAATAATTTTGCTGACAGTGC
* * *
18079080 ATCCTGCTTAAAGCCTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTTT
64 ATCCTGCTTGAAGCATTTTTGACACTATTTTTTTAGAACCGTCTTCTCAAAATTATTTTTTT
*
18079142 AAGAACTACTGTAGAAAAAGAGCGTCCATGTAAGAGCTTTTTTCAATAATTTTGCTGACAGTGCA
1 AAGAACTACTGTAGAAAAAGAGCGTCCATGT-GGAGCTTTTTTCAATAATTTTGCTGACAGTGCA
* * *
18079207 TCTTGCTTGAAGCATTTTTGA-AGCTATTTTTTTAGAACCATCTTCTCAAAATTATTTTTTC
65 TCCTGCTTGAAGCATTTTTGACA-CTATTTTTTTAGAACCGTCTTCTCAAAATTATTTTTTT
* * * * *
18079268 AGGAACTACTGTAGAAAAATAGCGTCTACGTGGGAGCTTTTTTCAATAATTTTGCTGACTGTGCA
1 AAGAACTACTGTAGAAAAAGAGCGTCCATGT-GGAGCTTTTTTCAATAATTTTGCTGACAGTGCA
* * * *
18079333 TCCTGCTTGAAGCATTTTTGACATTATTTTTTTAAAACCGTCTTCTCAAAATTAACTTTTCT
65 TCCTGCTTGAAGCATTTTTGACACTATTTTTTTAGAACCGTCTTCTCAAAATT-ATTTTTTT
*
18079395 GA-AACTACTGTAGAAAAAG
1 AAGAACTACTGTAGAAAAAG
18079414 CCAAAATCCT
Statistics
Matches: 238, Mismatches: 28, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
124 2 0.01
125 26 0.11
126 204 0.86
127 6 0.03
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (125 bp):
AAGAACTACTGTAGAAAAAGAGCGTCCATGTGGAGCTTTTTTCAATAATTTTGCTGACAGTGCAT
CCTGCTTGAAGCATTTTTGACACTATTTTTTTAGAACCGTCTTCTCAAAATTATTTTTTT
Found at i:18079527 original size:34 final size:33
Alignment explanation
Indices: 18079467--18079592 Score: 123
Period size: 34 Copynumber: 3.7 Consensus size: 33
18079457 CTAAACAAAA
* *
18079467 AATTATTTAAAAA-ACTAAA-CTCTAATTTAATT
1 AATTTTTTAAAAACTCTAAACCT-TAATTTAATT
18079499 AATTTTCTTAAAAACTCTAAACCTTAATTTAATT
1 AATTTT-TTAAAAACTCTAAACCTTAATTTAATT
* * *
18079533 TATTTATTTAAAACCCCTAAAACC-TAATTTAATT
1 AATTT-TTTAAAAACTCT-AAACCTTAATTTAATT
*
18079567 AATTTTTAAAAAAACCTCTAAACCTT
1 AATTTTT-TAAAAA-CTCTAAACCTT
18079593 GGTTTATTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
32 5 0.06
33 9 0.12
34 51 0.66
35 12 0.16
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.40
Consensus pattern (33 bp):
AATTTTTTAAAAACTCTAAACCTTAATTTAATT
Found at i:18081193 original size:18 final size:20
Alignment explanation
Indices: 18081156--18081199 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
18081146 AACTGATCGA
18081156 TTAATCGAATTAAATCGA-T
1 TTAATCGAATTAAATCGATT
* *
18081175 TTAATCG-ATTAACTTGATT
1 TTAATCGAATTAAATCGATT
18081194 TTAATC
1 TTAATC
18081200 AAACTATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.43
Consensus pattern (20 bp):
TTAATCGAATTAAATCGATT
Found at i:18081199 original size:19 final size:19
Alignment explanation
Indices: 18081151--18081186 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
18081141 TTGACAACTG
18081151 ATCGA-TTAATCGAATTAA
1 ATCGATTTAATCGAATTAA
18081169 ATCGATTTAATCG-ATTAA
1 ATCGATTTAATCGAATTAA
18081187 CTTGATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (19 bp):
ATCGATTTAATCGAATTAA
Found at i:18082869 original size:16 final size:16
Alignment explanation
Indices: 18082844--18082880 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
18082834 TAAACAAAAT
*
18082844 TTTTAAAATAT-TA-A
1 TTTTAAAAAATATATA
18082858 TTTTAAAAAATATATA
1 TTTTAAAAAATATATA
18082874 TTTTAAA
1 TTTTAAA
18082881 TACTGTAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 10 0.50
15 2 0.10
16 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTTAAAAAATATATA
Found at i:18084424 original size:23 final size:23
Alignment explanation
Indices: 18084387--18084431 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
18084377 CATCGTTTCA
*
18084387 TATATTATTATCAATTCACAATTT
1 TATATCATTATCAATTCA-AATTT
18084411 TATATCATT-TCAATTCAAATT
1 TATATCATTATCAATTCAAATT
18084432 ATACATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 8 0.40
24 8 0.40
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (23 bp):
TATATCATTATCAATTCAAATTT
Found at i:18089673 original size:5 final size:5
Alignment explanation
Indices: 18089665--18089714 Score: 84
Period size: 5 Copynumber: 10.2 Consensus size: 5
18089655 ATTATTAAAC
*
18089665 TAATA TAATA TAATA TAATA TAGTA TAATA T-ATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
18089714 T
1 T
18089715 TTAAACTTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
4 4 0.10
5 38 0.90
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:18091241 original size:240 final size:241
Alignment explanation
Indices: 18090695--18091325 Score: 641
Period size: 242 Copynumber: 2.6 Consensus size: 241
18090685 ATGTATTACT
* *
18090695 ATTATATATAACTATTATTATATTAT-GCATTATAATAAAATATACAATATTACATGATGTTATA
1 ATTATATATAACTATTATTATATTATAG-ATTATAATAAAATATATAATATTACATGATATTATA
*
18090759 ATGTTTAATCATTGATGC-ATATAT-AA-AAACTATTAACATATTATATACCATATAATATGATA
65 ATGTTTAATCATTGATGCAATATATAAATAAACCATTAACATATTATATACCATATAATATGATA
* * ** * * * * * *
18090821 TAATATTATATAATATATTATGAGGGCTAACTTTCAGATATATGAAAAGTACAGAAACTTAGAGT
130 TAACATTATACAATATAACAGGAGGACTAACATTCAAATATATGAAAAATACAGAAACTTAGAGC
** * *
18090886 ATATTTCAATTAGTATAATAACAAAAAATAATAAATAATATACTACC
195 ATATTTCAACCAGTATAATAACAAAAAATAATAAATAAGATAATACC
* ** * *
18090933 ATTATATATAACTATTATTATATTATAGATTATAATAGAATATATAGCATTACACGATATTTTAA
1 ATTATATATAACTATTATTATATTATAGATTATAATAAAATATATAATATTACATGATATTATAA
** * * *
18090998 TGTTTAATCATCAATGCATATATATAAATAAACCATTAATATATTATATACTC-TATGATATGTT
66 TGTTTAATCATTGATGCA-ATATATAAATAAACCATTAACATATTATATAC-CATATAATATGAT
* * * *
18091062 ATCACATTATACAATATAACAGGAGGACTAACATTCAAATGTATGAAAAATATAGAGACTTAGAG
129 ATAACATTATACAATATAACAGGAGGACTAACATTCAAATATATGAAAAATACAGAAACTTAGAG
* * * * ** **
18091127 CATATTTCAACCATTATAATTATAAACAATAATGTATAAGA-AATAGT
194 CATATTTCAACCAGTATAATAACAAAAAATAATAAATAAGATAATACC
* * * *
18091174 A-TATA-ATGTACTACTATTATATTATAGATTATAATAAAAGATATAATATTACATGTTATTATA
1 ATTATATAT-AACTATTATTATATTATAGATTATAATAAAATATATAATATTACATGATATTATA
* * * * *
18091237 ATGTTCAATTATTGATGCACATATATAAATTATAAGCATATTATACATATTATATGA-TATGGTA
65 ATGTTTAATCATTGATGCA-ATATATAAA-TA-AA-C-CATTA-ACATATTATAT-ACCAT-ATA
* *
18091301 TTATGATATAACATTATATAATATA
122 ATATGATATAACATTATACAATATA
18091326 GTAGAATAAG
Statistics
Matches: 316, Mismatches: 62, Indels: 22
0.79 0.16 0.05
Matches are distributed among these distances:
238 71 0.22
239 3 0.01
240 80 0.25
241 8 0.03
242 114 0.36
243 2 0.01
244 4 0.01
245 11 0.03
246 23 0.07
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.38
Consensus pattern (241 bp):
ATTATATATAACTATTATTATATTATAGATTATAATAAAATATATAATATTACATGATATTATAA
TGTTTAATCATTGATGCAATATATAAATAAACCATTAACATATTATATACCATATAATATGATAT
AACATTATACAATATAACAGGAGGACTAACATTCAAATATATGAAAAATACAGAAACTTAGAGCA
TATTTCAACCAGTATAATAACAAAAAATAATAAATAAGATAATACC
Found at i:18102190 original size:192 final size:192
Alignment explanation
Indices: 18101862--18102251 Score: 753
Period size: 192 Copynumber: 2.0 Consensus size: 192
18101852 CTATAATTTG
18101862 AATATGGCATGGCTTATGGATTACAGAGAGTAGAGGAGATAACATAGGTGAAGGTTGTATATATC
1 AATATGGCATGGCTTATGGATTACAGAGAGTAGAGGAGATAACATAGGTGAAGGTTGTATATATC
* *
18101927 TGAACCATTCGCCATGCTTTGATTTAGACTATGGAAAGATGTGAGTGATAGAGATAACACAGTAG
66 TGAACCATTCGCCATGCTTTGATTTAGACTATGGAAAGATGTGAGTGATAGAGATAAAACAATAG
18101992 TTCCAAACAAACAGGCAACCACCACTGGGCTTTCTCATTCCCTTTTTTTATGCCAATGCCTA
131 TTCCAAACAAACAGGCAACCACCACTGGGCTTTCTCATTCCCTTTTTTTATGCCAATGCCTA
*
18102054 TATATGGCATGGCTTATGGATTACAGAGAGTAGAGGAGATAACATAGGTGAAGGTTGTATATATC
1 AATATGGCATGGCTTATGGATTACAGAGAGTAGAGGAGATAACATAGGTGAAGGTTGTATATATC
18102119 TGAACCATTCGCCATGCTTTGATTTAGACTATGGAAAGATGTGAGTGATAGAGATAAAACAATAG
66 TGAACCATTCGCCATGCTTTGATTTAGACTATGGAAAGATGTGAGTGATAGAGATAAAACAATAG
18102184 TTCCAAACAAACAGGCAACCACCACTGGGCTTTCTCATTCCCTTTTTTTATGCCAATGCCTA
131 TTCCAAACAAACAGGCAACCACCACTGGGCTTTCTCATTCCCTTTTTTTATGCCAATGCCTA
18102246 AATATG
1 AATATG
18102252 CAGGGGACAC
Statistics
Matches: 194, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
192 194 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (192 bp):
AATATGGCATGGCTTATGGATTACAGAGAGTAGAGGAGATAACATAGGTGAAGGTTGTATATATC
TGAACCATTCGCCATGCTTTGATTTAGACTATGGAAAGATGTGAGTGATAGAGATAAAACAATAG
TTCCAAACAAACAGGCAACCACCACTGGGCTTTCTCATTCCCTTTTTTTATGCCAATGCCTA
Found at i:18102363 original size:6 final size:6
Alignment explanation
Indices: 18102352--18102387 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
18102342 TTTTTCTAAC
18102352 ATAGGA ATAGGA ATAGGA ATAGGA ATAGGA ATAGGA
1 ATAGGA ATAGGA ATAGGA ATAGGA ATAGGA ATAGGA
18102388 TGGTTTAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (6 bp):
ATAGGA
Found at i:18104552 original size:21 final size:21
Alignment explanation
Indices: 18104527--18104567 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
18104517 TGGGTGGATT
18104527 AGCTCTCATGAGCTTCTGTTC
1 AGCTCTCATGAGCTTCTGTTC
*
18104548 AGCTCTTATGAGCTTCTGTT
1 AGCTCTCATGAGCTTCTGTT
18104568 AGCGATGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.41
Consensus pattern (21 bp):
AGCTCTCATGAGCTTCTGTTC
Found at i:18106205 original size:24 final size:24
Alignment explanation
Indices: 18106178--18106223 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
18106168 TAATGGTTTG
* *
18106178 TTTTATTTTAATCATTTTAATTTT
1 TTTTAATTTAATCAATTTAATTTT
18106202 TTTTAATTTAATCAATTTAATT
1 TTTTAATTTAATCAATTTAATT
18106224 AAAATAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTTAATTTAATCAATTTAATTTT
Found at i:18108915 original size:19 final size:19
Alignment explanation
Indices: 18108893--18108930 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18108883 AAAAAACAAT
*
18108893 AAAATTTAATAAAATTAAC
1 AAAATGTAATAAAATTAAC
*
18108912 AAAATGTATTAAAATTAAC
1 AAAATGTAATAAAATTAAC
18108931 CTAAATGCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAATGTAATAAAATTAAC
Found at i:18109468 original size:32 final size:32
Alignment explanation
Indices: 18109429--18109495 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
18109419 AACATTAAAG
18109429 AATGATCAAATAATTTCGTTGATTAAATGGTT
1 AATGATCAAATAATTTCGTTGATTAAATGGTT
18109461 AATGATCAAATAATTTCGTTGATTAAATGGTT
1 AATGATCAAATAATTTCGTTGATTAAATGGTT
18109493 AAT
1 AAT
18109496 TAAAGCTCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.40
Consensus pattern (32 bp):
AATGATCAAATAATTTCGTTGATTAAATGGTT
Found at i:18111654 original size:3 final size:3
Alignment explanation
Indices: 18111646--18111700 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
18111636 TCAATACCAA
18111646 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18111694 AAT AAT A
1 AAT AAT A
18111701 CTTACCATTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18116041 original size:46 final size:46
Alignment explanation
Indices: 18115989--18116117 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
18115979 TATTTTGGCA
18115989 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
*
18116035 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
* * *
18116081 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
18116118 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
Found at i:18118358 original size:41 final size:40
Alignment explanation
Indices: 18118242--18118377 Score: 136
Period size: 41 Copynumber: 3.5 Consensus size: 40
18118232 ACCAGTTTGG
* *
18118242 CACCCAGTGCCTCATCGAAA-AATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATC-AAATAATCCGAAGTAGTAAATTGA
* *** * *
18118282 CACCCAGTGTCTCATCGGCTAAACCG-A--AGTAAATTGG
1 CACCCAGTGCCTCATCAAATAATCCGAAGTAGTAAATTGA
*
18118319 CACCCAGTGCCTTATCAAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCAAA-TAATCCGAAGTAGTAAATTGA
*
18118360 CACCCAGTGTCTCATCAA
1 CACCCAGTGCCTCATCAA
18118378 CTCAAGGTCG
Statistics
Matches: 74, Mismatches: 17, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
37 22 0.30
38 6 0.08
39 2 0.03
40 19 0.26
41 25 0.34
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.24
Consensus pattern (40 bp):
CACCCAGTGCCTCATCAAATAATCCGAAGTAGTAAATTGA
Found at i:18119205 original size:17 final size:18
Alignment explanation
Indices: 18119173--18119207 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
18119163 TGAACCCTAA
18119173 CTTTTTCTCCTTTCTTTCC
1 CTTTTTCT-CTTTCTTTCC
18119192 CTTTTTCT-TTTCTTTC
1 CTTTTTCTCTTTCTTTC
18119208 GTTTCGCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
19 8 0.50
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
CTTTTTCTCTTTCTTTCC
Found at i:18119263 original size:5 final size:5
Alignment explanation
Indices: 18119253--18119300 Score: 96
Period size: 5 Copynumber: 9.6 Consensus size: 5
18119243 ACTTATTATA
18119253 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
18119301 CTTAAACATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:18120395 original size:16 final size:16
Alignment explanation
Indices: 18120367--18120400 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
18120357 TTTATTTTAA
18120367 TATTTTTAGTATTTTT
1 TATTTTTAGTATTTTT
18120383 TATTTATTA-TATTTTT
1 TATTT-TTAGTATTTTT
18120399 TA
1 TA
18120401 AAAAAGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TATTTTTAGTATTTTT
Found at i:18124573 original size:21 final size:20
Alignment explanation
Indices: 18124549--18124587 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
18124539 CCTTTATAAG
*
18124549 GTAATCTTTCTCTTTCTATTT
1 GTAATCTTTCAC-TTCTATTT
*
18124570 GTAATTTTTCACTTCTAT
1 GTAATCTTTCACTTCTAT
18124588 GTTTTGCAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.18, C:0.18, G:0.05, T:0.59
Consensus pattern (20 bp):
GTAATCTTTCACTTCTATTT
Found at i:18126745 original size:34 final size:34
Alignment explanation
Indices: 18126702--18126804 Score: 181
Period size: 34 Copynumber: 3.0 Consensus size: 34
18126692 TTTCGCCTTT
18126702 TTGTTCAAAGTGGAAAGGAGATTGATTTGGTGTG
1 TTGTTCAAAGTGGAAAGGAGATTGATTTGGTGTG
18126736 TTGTTCAAAGTGGAAAGGAGATTGATTTGGTGTG
1 TTGTTCAAAGTGGAAAGGAGATTGATTTGGTGTG
*
18126770 TTGTTCAAAATGGAAAGGAGATTGATTCT-GTGTG
1 TTGTTCAAAGTGGAAAGGAGATTGATT-TGGTGTG
18126804 T
1 T
18126805 AACCTGGATT
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
34 66 0.99
35 1 0.01
ACGTcount: A:0.27, C:0.04, G:0.33, T:0.36
Consensus pattern (34 bp):
TTGTTCAAAGTGGAAAGGAGATTGATTTGGTGTG
Found at i:18132556 original size:12 final size:13
Alignment explanation
Indices: 18132539--18132577 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
18132529 TGCAAAAAAT
18132539 AAAAAT-ATTTTA
1 AAAAATAATTTTA
* *
18132551 AAAAATAAATATA
1 AAAAATAATTTTA
18132564 AAAAATAATTTTA
1 AAAAATAATTTTA
18132577 A
1 A
18132578 TTTTATTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAAATAATTTTA
Found at i:18132634 original size:21 final size:20
Alignment explanation
Indices: 18132609--18132647 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
18132599 ATTTTTTTTT
18132609 AAATGTGAATAAATCTATTAA
1 AAATGTGAATAAAT-TATTAA
*
18132630 AAATGTGTATAAATTATT
1 AAATGTGAATAAATTATT
18132648 TCATTATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (20 bp):
AAATGTGAATAAATTATTAA
Found at i:18132981 original size:18 final size:19
Alignment explanation
Indices: 18132960--18133003 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
18132950 GATTTTTATT
18132960 ATTTTTAATTTT-TTGAAA
1 ATTTTTAATTTTATTGAAA
* * *
18132978 ATTTTGAATTTTATTTAAT
1 ATTTTTAATTTTATTGAAA
18132997 ATTTTTA
1 ATTTTTA
18133004 TAATTTTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
ATTTTTAATTTTATTGAAA
Found at i:18133059 original size:15 final size:14
Alignment explanation
Indices: 18133032--18133066 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
18133022 TACAAATTAA
18133032 TAAAA-TATTTTTT
1 TAAAATTATTTTTT
18133045 TAAAATTATTTTTT
1 TAAAATTATTTTTT
18133059 TAAAATTA
1 TAAAATTA
18133067 AGCTTTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAAAATTATTTTTT
Found at i:18133311 original size:48 final size:48
Alignment explanation
Indices: 18133240--18133333 Score: 188
Period size: 48 Copynumber: 2.0 Consensus size: 48
18133230 ATTATACCTT
18133240 GATATATACTTAATGTTCTTTTTAAAGAAAAAATTTACAACATTCCTA
1 GATATATACTTAATGTTCTTTTTAAAGAAAAAATTTACAACATTCCTA
18133288 GATATATACTTAATGTTCTTTTTAAAGAAAAAATTTACAACATTCC
1 GATATATACTTAATGTTCTTTTTAAAGAAAAAATTTACAACATTCC
18133334 GTCTTTTATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.39
Consensus pattern (48 bp):
GATATATACTTAATGTTCTTTTTAAAGAAAAAATTTACAACATTCCTA
Found at i:18135795 original size:27 final size:28
Alignment explanation
Indices: 18135758--18135897 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
18135748 AGCATGGCTG
* *
18135758 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
18135784 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
*
18135812 CCAGA-ACAGATATATGTGGCAAAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
18135839 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
18135866 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
18135893 CCAGA
1 CCAGA
18135898 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.79
28 17 0.16
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:18136029 original size:26 final size:27
Alignment explanation
Indices: 18136000--18136075 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
18135990 CAAAATTAAC
* *
18136000 CCTAGGGGTATAACGGTAATTTT-GTA
1 CCTAGGGGTATAACAGTAATTTTCATA
18136026 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAACAGTAATTTT-CATA
* *
18136054 CATAGGGGTATTACAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
18136076 AGCTACTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 22 0.50
28 22 0.50
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.34
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTCATA
Found at i:18136069 original size:28 final size:26
Alignment explanation
Indices: 18136002--18136075 Score: 94
Period size: 28 Copynumber: 2.8 Consensus size: 26
18135992 AAATTAACCC
* * *
18136002 TAGGGGTATAACGGTAATTTTGTACC
1 TAGGGGTATAACAGTAATTTTATACA
18136028 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTT--ATACA
*
18136056 TAGGGGTATTACAGTAATTT
1 TAGGGGTATAACAGTAATTT
18136076 AGCTACTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 20 0.48
28 22 0.52
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTATACA
Found at i:18137555 original size:26 final size:26
Alignment explanation
Indices: 18137517--18137600 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
18137507 CATGAAATTC
*
18137517 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
18137543 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
18137569 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
18137595 TTATCA
1 TTATCA
18137601 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:18138016 original size:21 final size:22
Alignment explanation
Indices: 18137991--18138031 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18137981 AAAGTATTAA
18137991 TGAG-AATTATCTTTAAAAAAT
1 TGAGAAATTATCTTTAAAAAAT
* *
18138012 TGAGAAATTATTTTTCAAAA
1 TGAGAAATTATCTTTAAAAA
18138032 TCTTTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (22 bp):
TGAGAAATTATCTTTAAAAAAT
Found at i:18138487 original size:31 final size:32
Alignment explanation
Indices: 18138452--18138513 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
18138442 TTAAAAATAT
* * *
18138452 ATTTTATATTTTTCAATAATT-TTAATTTTAA
1 ATTTTAAATTTTTAAAAAATTATTAATTTTAA
18138483 ATTTTAAATTTTTAAAAAATTAATTAATTTT
1 ATTTTAAATTTTTAAAAAATT-ATTAATTTT
18138514 TGATGTAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 18 0.69
33 8 0.31
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (32 bp):
ATTTTAAATTTTTAAAAAATTATTAATTTTAA
Found at i:18139350 original size:20 final size:18
Alignment explanation
Indices: 18139309--18139354 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
18139299 TGATTTTATG
*
18139309 ATTA-TTTAATTAGATAT
1 ATTATTTTAATGAGATAT
18139326 ATTATTTTAATGAGATATTT
1 ATTATTTTAATGAGATA--T
18139346 ATTATTTTA
1 ATTATTTTA
18139355 TATTATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 4 0.16
18 11 0.44
20 10 0.40
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (18 bp):
ATTATTTTAATGAGATAT
Found at i:18141561 original size:46 final size:46
Alignment explanation
Indices: 18141509--18141873 Score: 579
Period size: 46 Copynumber: 7.9 Consensus size: 46
18141499 GTGTGCTCTT
* *
18141509 TGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGACAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
18141555 TGATATGAAATGTGTCAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
18141601 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACT
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
18141647 TGTTATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
18141693 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
18141739 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*** *
18141785 TGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* * * * *
18141831 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
18141874 TCATGTCAAA
Statistics
Matches: 299, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 298 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
Found at i:18142798 original size:85 final size:88
Alignment explanation
Indices: 18142693--18142877 Score: 245
Period size: 89 Copynumber: 2.1 Consensus size: 88
18142683 TTATGGGTGT
* *
18142693 AAAAA-GCCTTCAAACATTTTCAAAAAAAGCAATTAAG-CAT-CTTTTTTTT-CACTCAATTCGG
1 AAAAAGGCCTTCAAACATTTTCAAAAAAAGCAATTAAGCCATACTTTTTTTTACACTAAATTAGG
18142754 TAATTGAACTT-TCAAAATGCATA
66 TAATTGAA-TTGTCAAAATGCATA
* * *
18142777 AAAAAGGCCTTCAAACTTTTTCAAAAAAAGCAATTAGGTCCCTACTTTTTTTTACACTAAATTAG
1 AAAAAGGCCTTCAAACATTTTCAAAAAAAGCAATTAAG-CCATACTTTTTTTTACACTAAATTAG
* *
18142842 GTAATTGAATTGTCAAAATTCATC
65 GTAATTGAATTGTCAAAATGCATA
18142866 AAAAAGGACCTT
1 AAAAAGG-CCTT
18142878 TGACCGTTAA
Statistics
Matches: 87, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
84 5 0.06
85 30 0.34
87 2 0.02
88 11 0.13
89 35 0.40
90 4 0.05
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (88 bp):
AAAAAGGCCTTCAAACATTTTCAAAAAAAGCAATTAAGCCATACTTTTTTTTACACTAAATTAGG
TAATTGAATTGTCAAAATGCATA
Found at i:18143199 original size:16 final size:14
Alignment explanation
Indices: 18143161--18143200 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
18143151 ATCGGATTCG
18143161 TAAATATTTA-TTA
1 TAAATATTTATTTA
18143174 TAAATA-TTATTTA
1 TAAATATTTATTTA
18143187 T-AATA-TTATTTA
1 TAAATATTTATTTA
18143199 TA
1 TA
18143201 GTGATGCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TAAATATTTATTTA
Found at i:18145625 original size:39 final size:39
Alignment explanation
Indices: 18145536--18145630 Score: 101
Period size: 39 Copynumber: 2.5 Consensus size: 39
18145526 GATATTTTTG
* *
18145536 ATATAAAAT-ATATATTATATATTATATTAACTTAATAT
1 ATATAATATAATATATAATATATTATATTAACTTAATAT
18145574 -T-TAAGTATTAATATATAATATATTATATT-A-TTATATTAT
1 ATATAA-TA-TAATATATAATATATTATATTAACTTA-A-TAT
18145613 ATATAATATAATATATAA
1 ATATAATATAATATATAA
18145631 AACATAAAGT
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
36 3 0.06
37 5 0.10
38 3 0.06
39 31 0.65
40 3 0.06
41 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (39 bp):
ATATAATATAATATATAATATATTATATTAACTTAATAT
Found at i:18145630 original size:7 final size:7
Alignment explanation
Indices: 18145536--18145630 Score: 58
Period size: 7 Copynumber: 14.1 Consensus size: 7
18145526 GATATTTTTG
*
18145536 ATATAAA
1 ATATATA
18145543 ATATATA
1 ATATATA
*
18145550 TTATATA
1 ATATATA
*
18145557 TTATATTA
1 ATATA-TA
*
18145565 A-CT-TA
1 ATATATA
*
18145570 ATATTTA
1 ATATATA
18145577 AGTAT-TA
1 A-TATATA
18145584 ATATATA
1 ATATATA
*
18145591 ATATATT
1 ATATATA
18145598 ATAT-TA
1 ATATATA
* *
18145604 TTATATT
1 ATATATA
18145611 ATATAT-
1 ATATATA
18145617 A-ATATA
1 ATATATA
18145623 ATATATA
1 ATATATA
18145630 A
1 A
18145631 AACATAAAGT
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
5 7 0.10
6 10 0.14
7 48 0.69
8 5 0.07
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (7 bp):
ATATATA
Found at i:18146833 original size:22 final size:22
Alignment explanation
Indices: 18146804--18146860 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
18146794 TAGCACGTTA
18146804 AGTGCTCTCTGTTTAGCACATCT
1 AGTGCTCTCTGTTTAGCAC-TCT
* *
18146827 -GTGCTCTCTGTATAGCACTTT
1 AGTGCTCTCTGTTTAGCACTCT
18146848 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
18146861 CGTTTGTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTCT
Found at i:18151250 original size:26 final size:25
Alignment explanation
Indices: 18151224--18151275 Score: 59
Period size: 28 Copynumber: 2.0 Consensus size: 25
18151214 AAAGATAAAA
*
18151224 TAAATAAAAATTATAAAGTTATTAAATT
1 TAAATAAAAAATATAAA--TATTAAA-T
*
18151252 TTAATAAAAAATATAAATATTAAA
1 TAAATAAAAAATATAAATATTAAA
18151276 AATTAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.32
28 15 0.68
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (25 bp):
TAAATAAAAAATATAAATATTAAAT
Found at i:18151374 original size:11 final size:11
Alignment explanation
Indices: 18151325--18151384 Score: 58
Period size: 11 Copynumber: 5.8 Consensus size: 11
18151315 AAGTCGTAAG
18151325 AAAATTATAAA
1 AAAATTATAAA
18151336 AAAA-TATAAA
1 AAAATTATAAA
*
18151346 GAAA-TAT---
1 AAAATTATAAA
18151353 AAAATTCATAAA
1 AAAATT-ATAAA
18151365 AAAATTATAAA
1 AAAATTATAAA
*
18151376 AATATTATA
1 AAAATTATA
18151385 CCAAAAAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
7 3 0.07
8 1 0.02
9 2 0.05
10 12 0.29
11 17 0.41
12 6 0.15
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:18151589 original size:19 final size:19
Alignment explanation
Indices: 18151552--18151674 Score: 67
Period size: 19 Copynumber: 6.3 Consensus size: 19
18151542 AATGAATTTC
*
18151552 ATAAAATTTGTTATGATTTTT
1 ATAAAA-TT-TTATAATTTTT
18151573 ATAAAATTTTATAATTTTT
1 ATAAAATTTTATAATTTTT
18151592 -TAAAGATTTT-TATATATTTT
1 ATAAA-ATTTTATA-AT-TTTT
* * * **
18151612 CT-GACTTTTAATAAAATTT
1 ATAAAATTTT-ATAATTTTT
*
18151631 A-AATATTTT-TATATTTTT
1 ATAAAATTTTATA-ATTTTT
*
18151649 ATTAAAATTTAATAATTTTT
1 A-TAAAATTTTATAATTTTT
18151669 ATAAAA
1 ATAAAA
18151675 AAATTATTTT
Statistics
Matches: 78, Mismatches: 13, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
17 2 0.03
18 11 0.14
19 33 0.42
20 21 0.27
21 11 0.14
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (19 bp):
ATAAAATTTTATAATTTTT
Found at i:18151593 original size:20 final size:21
Alignment explanation
Indices: 18151568--18151611 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
18151558 TTTGTTATGA
18151568 TTTTTATAA-AATTTTATA-AT
1 TTTTTA-AAGAATTTTATATAT
*
18151588 TTTTTAAAGATTTTTATATAT
1 TTTTTAAAGAATTTTATATAT
18151609 TTT
1 TTT
18151612 CTGACTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 14 0.67
21 5 0.24
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTTTAAAGAATTTTATATAT
Found at i:18151648 original size:28 final size:28
Alignment explanation
Indices: 18151617--18151671 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
18151607 ATTTTCTGAC
18151617 TTTTAATAAAATTTAA-ATATTTTTATAT
1 TTTTAATAAAATTTAATA-ATTTTTATAT
*
18151645 TTTTATTAAAATTTAATAATTTTTATA
1 TTTTAATAAAATTTAATAATTTTTATA
18151672 AAAAAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (28 bp):
TTTTAATAAAATTTAATAATTTTTATAT
Found at i:18151660 original size:38 final size:37
Alignment explanation
Indices: 18151553--18151664 Score: 100
Period size: 38 Copynumber: 2.9 Consensus size: 37
18151543 ATGAATTTCA
* **
18151553 TAAAATTTGTTATGATTTTTATAAAATTTTATAATTTTT
1 TAAAATTT-TTAT-ATTTTTATAAAATTTAATAATAATT
* * **
18151592 TAAAGATTTTTATATATTTTCTGACTTTTAATAA-AATT
1 TAAA-ATTTTTATAT-TTTTATAAAATTTAATAATAATT
18151630 TAAATATTTTTATATTTTTATTAAAATTTAATAAT
1 TAAA-ATTTTTATATTTTTA-TAAAATTTAATAAT
18151665 TTTTATAAAA
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
37 4 0.07
38 28 0.49
39 21 0.37
40 4 0.07
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (37 bp):
TAAAATTTTTATATTTTTATAAAATTTAATAATAATT
Found at i:18160564 original size:14 final size:12
Alignment explanation
Indices: 18160515--18160578 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
18160505 CAAAATATTT
*
18160515 AAATTTATT-TA
1 AAATTAATTATA
* *
18160526 AATTTACTTATA
1 AAATTAATTATA
* *
18160538 ATATCAATTATA
1 AAATTAATTATA
18160550 AAATTAAATTTATA
1 AAATT-AA-TTATA
18160564 AAA-TAATTATA
1 AAATTAATTATA
18160575 AAAT
1 AAAT
18160579 ATTTTAATTG
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
11 14 0.35
12 15 0.38
13 3 0.08
14 8 0.20
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATTAATTATA
Found at i:18166663 original size:48 final size:48
Alignment explanation
Indices: 18166437--18166664 Score: 212
Period size: 48 Copynumber: 4.8 Consensus size: 48
18166427 AGGGTAAATT
* * * * *
18166437 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCACAT-GTCGAG
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
* * * *
18166485 GCCGATGCTATGTTCCAGACATGGTCTTACAGTAGCTCTCGTCTCAA--T-
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTC--AT-AATGTG
* * * * * * *
18166533 GCCGATGTCATGTTCCAAATATGGTCTTACACTAGCTGTCATAACGTT
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAATGTG
* *
18166581 GCCGATGTCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAATGTG
* *
18166629 GCCGATGCCATGTCCCAGACATGATCTTACACTGGC
1 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGC
18166665 ACACATATCA
Statistics
Matches: 148, Mismatches: 25, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
45 2 0.01
46 1 0.01
47 1 0.01
48 143 0.97
50 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCTCATAATGTG
Found at i:18174135 original size:43 final size:41
Alignment explanation
Indices: 18174088--18174255 Score: 151
Period size: 43 Copynumber: 4.0 Consensus size: 41
18174078 TCTACGACGT
* *
18174088 TGGCATCGATTTGAGATATCGTGTAAGACCGTGTCTGGGACA
1 TGGCATCGATTTGAGAT-TCATGTAAGACCATGTCTGGGACA
* * *
18174130 CTGGCATCGATTAGAGATTTCGTGTAAGACCATGTTTGGGACA
1 -TGGCATCGATTTGAGA-TTCATGTAAGACCATGTCTGGGACA
* * * *
18174173 TCGGCATCGTATTT--TATTCATGTAAGACCCTATCTGGGATA
1 T-GGCATCG-ATTTGAGATTCATGTAAGACCATGTCTGGGACA
* * *
18174214 GTGGCATCGATATGTGATTACATGTAAGACCACGTCTGGGAC
1 -TGGCATCGATTTGAGATT-CATGTAAGACCATGTCTGGGAC
18174256 GTTGGCATTG
Statistics
Matches: 102, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
40 3 0.03
41 27 0.26
42 6 0.06
43 62 0.61
44 4 0.04
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (41 bp):
TGGCATCGATTTGAGATTCATGTAAGACCATGTCTGGGACA
Found at i:18174262 original size:43 final size:43
Alignment explanation
Indices: 18174066--18174263 Score: 138
Period size: 43 Copynumber: 4.7 Consensus size: 43
18174056 TATGATTTCG
** * *
18174066 TGTAAGACCACGTCTACGACGTTGGCATCGATTTGAGA-TATCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGAGATTA-CA
** ** * *
18174109 TGTAAGACCGTGTCTGGGACACTGGCATCGAT-TAGAGATTTCG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATAT-GAGATTACA
* * * * ***
18174152 TGTAAGACCATGTTTGGGACATCGGCATCG-TATTTTATT-CA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGAGATTACA
* * *
18174193 TGTAAGACC-CTATCTGGGATAG-TGGCATCGATATGTGATTACA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATCGATATGAGATTACA
18174236 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
18174264 TGTACGATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
41 23 0.19
42 13 0.11
43 83 0.69
44 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATGAGATTACA
Found at i:18174263 original size:84 final size:85
Alignment explanation
Indices: 18174066--18174263 Score: 213
Period size: 84 Copynumber: 2.3 Consensus size: 85
18174056 TATGATTTCG
** * * *
18174066 TGTAAGACCACGTCTACGACGTTGGCATCGATTTGAGATATCGTGTAAGACCGTGTCTGGGACAC
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATTT-AGATATCATGTAAGACCCTATCTGGGACAC
* *
18174131 TGGCATCGATTAGAGATTTCG
65 TGGCATCGATTAGAGATTACA
* * * * * * *
18174152 TGTAAGACCATGTTTGGGACATCGGCATCGTATTT-TAT-TCATGTAAGACCCTATCTGGGATAG
1 TGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTAGATATCATGTAAGACCCTATCTGGGACAC
*
18174215 TGGCATCGA-TATGTGATTACA
65 TGGCATCGATTA-GAGATTACA
18174236 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
18174264 TGTACGATAT
Statistics
Matches: 91, Mismatches: 19, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
83 2 0.02
84 59 0.65
85 2 0.02
86 24 0.26
87 4 0.04
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.30
Consensus pattern (85 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATTTAGATATCATGTAAGACCCTATCTGGGACACT
GGCATCGATTAGAGATTACA
Found at i:18176373 original size:59 final size:59
Alignment explanation
Indices: 18176281--18176399 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
18176271 GGATATGTAC
*
18176281 AAAGGGATGATGTGATATATGTACTTGTATATGTAATGAAATATGCTTAACCATAATTT
1 AAAGGGATGATGTGATATATGCACTTGTATATGTAATGAAATATGCTTAACCATAATTT
18176340 AAAGGGATGATGTGATATATGCACTTGTATATGTAATGAAATATGCTTAACCATAATTT
1 AAAGGGATGATGTGATATATGCACTTGTATATGTAATGAAATATGCTTAACCATAATTT
18176399 A
1 A
18176400 TGTATTCGAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (59 bp):
AAAGGGATGATGTGATATATGCACTTGTATATGTAATGAAATATGCTTAACCATAATTT
Found at i:18176899 original size:24 final size:25
Alignment explanation
Indices: 18176836--18176901 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
18176826 CTTACAGATT
* *
18176836 TTTCAACTCGTAAAAGCTTATCGTA
1 TTTCAGCTCGTAAGAGCTTATCGTA
* *
18176861 TTTCAGCTTGGAAGAGCTTATCG-A
1 TTTCAGCTCGTAAGAGCTTATCGTA
**
18176885 TTTTGGCTCGTAAGAGC
1 TTTCAGCTCGTAAGAGC
18176902 ATACATGTAC
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 14 0.42
25 19 0.58
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (25 bp):
TTTCAGCTCGTAAGAGCTTATCGTA
Done.