Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 28 of 109
Found at i:4818208 original size:18 final size:19
Alignment explanation
Indices: 4818187--4818254 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 19
4818177 TATGGTATTT
*
4818187 TATATTTGCATTA-TGTTA
1 TATATTTGCATGATTGTTA
*
4818205 TATATTTACATGATTGTTA
1 TATATTTGCATGATTGTTA
**
4818224 T-TA-TTGCATGATAATTAA
1 TATATTTGCATGATTGTT-A
*
4818242 TATATTTGAATGA
1 TATATTTGCATGA
4818255 CATTCCCGCA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
17 10 0.25
18 15 0.38
19 8 0.20
20 7 0.17
ACGTcount: A:0.34, C:0.04, G:0.12, T:0.50
Consensus pattern (19 bp):
TATATTTGCATGATTGTTA
Found at i:4820510 original size:20 final size:20
Alignment explanation
Indices: 4820485--4820536 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
4820475 GAAAGTCATT
4820485 GAAATCTAGAATATGATGCC
1 GAAATCTAGAATATGATGCC
* * *
4820505 GAAATCTAGAAAATGGTGTC
1 GAAATCTAGAATATGATGCC
4820525 GAAATCTAGAAT
1 GAAATCTAGAAT
4820537 TTCTAGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (20 bp):
GAAATCTAGAATATGATGCC
Found at i:4821061 original size:18 final size:19
Alignment explanation
Indices: 4821024--4821065 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
4821014 AATTTTAAGA
4821024 ATTATCCTATATCTTTTTT
1 ATTATCCTATATCTTTTTT
4821043 ATTATCCT-TAT-TATTTTT
1 ATTATCCTATATCT-TTTTT
4821061 ATTAT
1 ATTAT
4821066 TTTTTAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 1 0.05
18 13 0.59
19 8 0.36
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTATCCTATATCTTTTTT
Found at i:4821114 original size:20 final size:21
Alignment explanation
Indices: 4821084--4821134 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
4821074 ACCTAATTTG
*
4821084 ATAATATAAAACT-AAAGATAA
1 ATAA-ATAAAAATCAAAGATAA
* *
4821105 ATCAATAAAAATCAAGGATAA
1 ATAAATAAAAATCAAAGATAA
4821126 ATAAATAAA
1 ATAAATAAA
4821135 TAAATAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.22
Consensus pattern (21 bp):
ATAAATAAAAATCAAAGATAA
Found at i:4821131 original size:4 final size:4
Alignment explanation
Indices: 4821122--4821203 Score: 62
Period size: 4 Copynumber: 20.2 Consensus size: 4
4821112 AAAATCAAGG
* * *
4821122 ATAA ATAA ATAA ATAA ATAA ATAA AT-A ATCAA CATAG ATAT ATACA AAAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA -ATAA ATAA ATA-A ATAA
* *
4821172 GATAA A-AC CT-A ATAA ATAA ATAA ATAA ATAA A
1 -ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
4821204 AACATAAAAC
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
3 5 0.08
4 48 0.77
5 7 0.11
6 2 0.03
ACGTcount: A:0.68, C:0.06, G:0.02, T:0.23
Consensus pattern (4 bp):
ATAA
Found at i:4822277 original size:22 final size:22
Alignment explanation
Indices: 4822249--4822306 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 22
4822239 TTTATTGAAT
* *
4822249 GAGTTAAAAAGTTAATGTTAGA
1 GAGTTAAAAAGGTAAGGTTAGA
* *
4822271 GAGTTAAATAGGTAGGGTTAGA
1 GAGTTAAAAAGGTAAGGTTAGA
4822293 GAGTT-AAAAGGTAA
1 GAGTTAAAAAGGTAA
4822307 AATTAAGAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 7 0.23
22 23 0.77
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.28
Consensus pattern (22 bp):
GAGTTAAAAAGGTAAGGTTAGA
Found at i:4823794 original size:15 final size:15
Alignment explanation
Indices: 4823774--4823811 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
4823764 TGTTTTTTTA
4823774 TAATAGTAGTAATAG
1 TAATAGTAGTAATAG
*
4823789 TAATAGTAGTAGTAG
1 TAATAGTAGTAATAG
4823804 TAATAGTA
1 TAATAGTA
4823812 TATATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (15 bp):
TAATAGTAGTAATAG
Found at i:4825408 original size:22 final size:22
Alignment explanation
Indices: 4825383--4825428 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4825373 TAACGATGGC
4825383 TTATCGACGAATTA-CAAACAGA
1 TTATCGACGAATTATC-AACAGA
* *
4825405 TTATTGACGGATTATCAACAGA
1 TTATCGACGAATTATCAACAGA
4825427 TT
1 TT
4825429 TCACCGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (22 bp):
TTATCGACGAATTATCAACAGA
Found at i:4826883 original size:15 final size:15
Alignment explanation
Indices: 4826863--4826899 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
4826853 AGCACTTACA
4826863 TTCTTTTATTTTTTT
1 TTCTTTTATTTTTTT
4826878 TTCTTTT-TTTTTTT
1 TTCTTTTATTTTTTT
*
4826892 TTTTTTTA
1 TTCTTTTA
4826900 GTTTAAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.05, C:0.05, G:0.00, T:0.89
Consensus pattern (15 bp):
TTCTTTTATTTTTTT
Found at i:4829053 original size:19 final size:18
Alignment explanation
Indices: 4829029--4829113 Score: 63
Period size: 19 Copynumber: 4.8 Consensus size: 18
4829019 AGTAATGAGT
* *
4829029 AAATAATAATTAAAGATGA
1 AAATAATAATAAAAG-TAA
4829048 AAATAATAATAAAAGTAA
1 AAATAATAATAAAAGTAA
4829066 AAATAA-AATGAAAA-TAA
1 AAATAATAAT-AAAAGTAA
* *
4829083 AATAGAAAAAGTAAAA-T-A
1 AA-ATAATAA-TAAAAGTAA
4829101 AAATAA-AATAAAA
1 AAATAATAATAAAA
4829114 TCAATACAGA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
15 5 0.09
16 2 0.03
17 11 0.19
18 18 0.31
19 21 0.36
20 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (18 bp):
AAATAATAATAAAAGTAA
Found at i:4829084 original size:5 final size:5
Alignment explanation
Indices: 4829047--4829114 Score: 75
Period size: 5 Copynumber: 13.0 Consensus size: 5
4829037 ATTAAAGATG
* *
4829047 AAAAT AATAAT AAAAGT AAAAAT AAAAT GAAAAT AAAAT AGAA- AAAGT
1 AAAAT AA-AAT AAAA-T -AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT
4829095 AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT
4829115 CAATACAGAA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
4 2 0.04
5 36 0.67
6 12 0.22
7 4 0.07
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:4829103 original size:24 final size:24
Alignment explanation
Indices: 4829047--4829110 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 24
4829037 ATTAAAGATG
4829047 AAAATAATAAT-AAA-AGTAAAAAT
1 AAAATAA-AATAAAATAGTAAAAAT
4829070 AAAATGAAAATAAAATAG-AAAAAGT
1 AAAAT-AAAATAAAATAGTAAAAA-T
4829095 AAAATAAAATAAAATA
1 AAAATAAAATAAAATA
4829111 AAATCAATAC
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
23 8 0.22
24 21 0.57
25 8 0.22
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (24 bp):
AAAATAAAATAAAATAGTAAAAAT
Found at i:4829880 original size:16 final size:16
Alignment explanation
Indices: 4829861--4829907 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
4829851 AAAATTTAGA
*
4829861 ACTAGATAAATAAAAG
1 ACTAAATAAATAAAAG
*
4829877 ACTAAAATATAAAAAAAG
1 ACT-AAATA-AATAAAAG
4829895 A-TAAATAAATAAA
1 ACTAAATAAATAAA
4829908 TAAGACAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 5 0.19
16 8 0.31
17 5 0.19
18 8 0.31
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.19
Consensus pattern (16 bp):
ACTAAATAAATAAAAG
Found at i:4829899 original size:17 final size:18
Alignment explanation
Indices: 4829866--4829910 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
4829856 TTAGAACTAG
4829866 ATAAATAAAAGACTAAAAT
1 ATAAATAAAAGA-TAAAAT
*
4829885 ATAAA-AAAAGATAAATAA
1 ATAAATAAAAGATAAA-AT
4829903 ATAAATAA
1 ATAAATAA
4829911 GACAAATAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 4 0.17
18 12 0.52
19 7 0.30
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (18 bp):
ATAAATAAAAGATAAAAT
Found at i:4830282 original size:18 final size:18
Alignment explanation
Indices: 4830259--4830305 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
4830249 CAAAGATTCA
*
4830259 AGATTCGCAAAGGTTTTC
1 AGATTCGCAAAGATTTTC
4830277 AGATTCGCAAAGATTTTC
1 AGATTCGCAAAGATTTTC
* *
4830295 AAATTCACAAA
1 AGATTCGCAAA
4830306 AATGGAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (18 bp):
AGATTCGCAAAGATTTTC
Found at i:4830435 original size:86 final size:86
Alignment explanation
Indices: 4830274--4830558 Score: 245
Period size: 86 Copynumber: 3.3 Consensus size: 86
4830264 CGCAAAGGTT
* * * * *
4830274 TTCAGATTCGCAAAGA-TTTTCAAATTCACAAAAATGGAAGATTCGCAAGATTCTAAGTTTCGTA
1 TTCAGGTTCGCAAGGACTTTT-AGATTCACAAGAATGGAAGATTCGCAAGATTCTAAGTTTCGCA
* * *
4830338 GAAGTTCTAGATTCCCAGAGGC
65 GAAGTTCTAGATTCACAAAAGC
* * *
4830360 TTCAGGTTCGCAAGGACTTTTAGATTCACAAGAATGGAAGATTTGGAAGATTCTAAGTTTTGCA-
1 TTCAGGTTCGCAAGGACTTTTAGATTCACAAGAATGGAAGATTCGCAAGATTCTAAGTTTCGCAG
* *
4830424 AAGGTTTTAGATTCACAAAAGT
66 AA-GTTCTAGATTCACAAAAGC
** * * * * * ** * *
4830446 TTCAGGTTCATAAGAACTTTCAGATTCGCAAGAATGAAAAATTCAAAAAATT-TCAAGTTTCACA
1 TTCAGGTTCGCAAGGACTTTTAGATTCACAAGAATGGAAGATTCGCAAGATTCT-AAGTTTCGCA
* * *
4830510 TAGGTTCTAGATTCAC-AAAGAT
65 GAAGTTCTAGATTCACAAAAG-C
* *
4830532 TTCAGGTTCGTAAGGACATTTAGATTC
1 TTCAGGTTCGCAAGGACTTTTAGATTC
4830559 GCAAAAAGTT
Statistics
Matches: 162, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
85 7 0.04
86 150 0.93
87 5 0.03
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (86 bp):
TTCAGGTTCGCAAGGACTTTTAGATTCACAAGAATGGAAGATTCGCAAGATTCTAAGTTTCGCAG
AAGTTCTAGATTCACAAAAGC
Found at i:4830577 original size:19 final size:19
Alignment explanation
Indices: 4830553--4830595 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
4830543 AAGGACATTT
* *
4830553 AGATTCGCAAAAAGTTTAA
1 AGATTCACAAAAAGTTCAA
*
4830572 AGATTCACAATAAGTTCAA
1 AGATTCACAAAAAGTTCAA
4830591 AGATT
1 AGATT
4830596 TTCGTAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.28
Consensus pattern (19 bp):
AGATTCACAAAAAGTTCAA
Found at i:4830620 original size:17 final size:17
Alignment explanation
Indices: 4830595--4830645 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
4830585 GTTCAAAGAT
* *
4830595 TTTCGTAAGAATTTCAA
1 TTTCATAAGAAATTCAA
*
4830612 TTTCATAAGAAATTCAG
1 TTTCATAAGAAATTCAA
* *
4830629 GTTCACAAGAAATTCAA
1 TTTCATAAGAAATTCAA
4830646 AGATTCACAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTCATAAGAAATTCAA
Found at i:4830654 original size:19 final size:17
Alignment explanation
Indices: 4830613--4830881 Score: 92
Period size: 19 Copynumber: 14.9 Consensus size: 17
4830603 GAATTTCAAT
* *
4830613 TTCATAAGAAATTCAGG
1 TTCACAAGAAATTCAGA
4830630 TTCACAAGAAATTCAAAGA
1 TTCACAAGAAATTC--AGA
* *
4830649 TTCACAA-AAGCTTCAGT
1 TTCACAAGAA-ATTCAGA
*** * *
4830666 TTTGTAAGAAATTTAGG
1 TTCACAAGAAATTCAGA
* * *
4830683 TTCGCAAAAAATTTAAAGA
1 TTCACAAGAAA-TT-CAGA
*
4830702 TTCACAAGAAATTTAAAGA
1 TTCACAAGAAA-TT-CAGA
**
4830721 TTTGCAAGAAATTCAAAGA
1 TTCACAAGAAATTC--AGA
* ** * *
4830740 TTCATAAGAGCTTTAGT
1 TTCACAAGAAATTCAGA
* *
4830757 TTCACAATAAATTCAGG
1 TTCACAAGAAATTCAGA
*
4830774 TTCACAAGAAATTCAAAAA
1 TTCACAAGAAATTC--AGA
*
4830793 TTCACAAGAAATTCAAATA
1 TTCACAAGAAATTC--AGA
** *
4830812 TTCGTAAAAAATTCAAAGA
1 TTCACAAGAAATTC--AGA
*
4830831 TTCACAAGAACTTCAAAGA
1 TTCACAAGAAATTC--AGA
*
4830850 TTCACAA-AAGATTCAGG
1 TTCACAAGAA-ATTCAGA
*
4830867 TTCGCAAGAAATTCA
1 TTCACAAGAAATTCA
4830882 AAGATTCGAA
Statistics
Matches: 192, Mismatches: 48, Indels: 24
0.73 0.18 0.09
Matches are distributed among these distances:
17 70 0.36
18 12 0.06
19 110 0.57
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.28
Consensus pattern (17 bp):
TTCACAAGAAATTCAGA
Found at i:4830735 original size:91 final size:91
Alignment explanation
Indices: 4830613--4830888 Score: 272
Period size: 91 Copynumber: 3.0 Consensus size: 91
4830603 GAATTTCAAT
* * * ***
4830613 TTCATAAGAAATTC--AGGTTCACAAGAAATTCAAAGATTCACAAAAGCTTCAGTTTTGTAAGAA
1 TTCACAAGAAATTCAAAGATTCGCAAGAAATTCAAAGATTCACAAAAGCTTCAGTTTCACAAGAA
* * * *
4830676 ATTTAGGTTCGCAAAAAATTTAAAGA
66 ATTCAGGTTCACAAAAAATTCAAAAA
* * * * * *
4830702 TTCACAAGAAATTTAAAGATTTGCAAGAAATTCAAAGATTCATAAGAGCTTTAGTTTCACAATAA
1 TTCACAAGAAATTCAAAGATTCGCAAGAAATTCAAAGATTCACAAAAGCTTCAGTTTCACAAGAA
*
4830767 ATTCAGGTTCACAAGAAATTCAAAAA
66 ATTCAGGTTCACAAAAAATTCAAAAA
* * * *
4830793 TTCACAAGAAATTCAAATATTCGTAAAAAATTCAAAGATTCACAAGAA-CTTCAAAGATTCACAA
1 TTCACAAGAAATTCAAAGATTCGCAAGAAATTCAAAGATTCACAA-AAGCTTC--AGTTTCACAA
* * *
4830857 -AAGATTCAGGTTCGCAAGAAATTCAAAGA
63 GAA-ATTCAGGTTCACAAAAAATTCAAAAA
4830886 TTC
1 TTC
4830889 GAATTCAAAA
Statistics
Matches: 153, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
89 12 0.08
91 102 0.67
92 3 0.02
93 36 0.24
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.28
Consensus pattern (91 bp):
TTCACAAGAAATTCAAAGATTCGCAAGAAATTCAAAGATTCACAAAAGCTTCAGTTTCACAAGAA
ATTCAGGTTCACAAAAAATTCAAAAA
Found at i:4830739 original size:38 final size:38
Alignment explanation
Indices: 4830553--4830888 Score: 166
Period size: 36 Copynumber: 9.2 Consensus size: 38
4830543 AAGGACATTT
* * *
4830553 AGATTCGCAA-AAAGTTTAAAGATTCACAATAAGTTCAA
1 AGATTCACAAGAAA-TTTAAAGATTCACAAGAAATTCAA
** * * *
4830591 AGATTTTCGTAAG-AATTTCAA-TTTCATAAGAAATTC--
1 AGA--TTCACAAGAAATTTAAAGATTCACAAGAAATTCAA
* * *
4830627 AGGTTCACAAGAAATTCAAAGATTCACAA-AAGCTTC--
1 AGATTCACAAGAAATTTAAAGATTCACAAGAA-ATTCAA
* *** * * * *
4830663 AGTTTTGTAAGAAATTT--AGGTTCGCAAAAAATTTAA
1 AGATTCACAAGAAATTTAAAGATTCACAAGAAATTCAA
**
4830699 AGATTCACAAGAAATTTAAAGATTTGCAAGAAATTCAA
1 AGATTCACAAGAAATTTAAAGATTCACAAGAAATTCAA
* ** * *
4830737 AGATTCATAAGAGCTTT--AGTTTCACAATAAATTC--
1 AGATTCACAAGAAATTTAAAGATTCACAAGAAATTCAA
* * *
4830771 AGGTTCACAAGAAATTCAAAAATTCACAAGAAATTCAA
1 AGATTCACAAGAAATTTAAAGATTCACAAGAAATTCAA
* ** * * *
4830809 ATATTCGTAAAAAATTCAAAGATTCACAAGAACTTCAA
1 AGATTCACAAGAAATTTAAAGATTCACAAGAAATTCAA
* * *
4830847 AGATTCACAA-AAGA-TT-CAGGTTCGCAAGAAATTCAA
1 AGATTCACAAGAA-ATTTAAAGATTCACAAGAAATTCAA
4830883 AGATTC
1 AGATTC
4830889 GAATTCAAAA
Statistics
Matches: 221, Mismatches: 61, Indels: 34
0.70 0.19 0.11
Matches are distributed among these distances:
34 28 0.13
35 10 0.05
36 85 0.38
37 3 0.01
38 82 0.37
39 5 0.02
40 8 0.04
ACGTcount: A:0.45, C:0.14, G:0.13, T:0.28
Consensus pattern (38 bp):
AGATTCACAAGAAATTTAAAGATTCACAAGAAATTCAA
Found at i:4830744 original size:127 final size:128
Alignment explanation
Indices: 4830518--4830771 Score: 300
Period size: 127 Copynumber: 2.0 Consensus size: 128
4830508 CATAGGTTCT
* * * *
4830518 AGATTCACAAAGATTTCAGGTTCGTAAGGACATTTAGATTCGCAAAAAGTTTAAAGATTCACAAT
1 AGATTCACAAAGACTTCAGGTTCGTAAGGAAATTTAGATTCGCAAAAAATTTAAAGATTCACAAG
* * * *
4830583 AAGTTCAAAGATTTTCGTAAGAATTTCAATTTCATAAGAAATTCAGGTTCACAAGAAATTCAA
66 AAATTCAAAGATTTTCGCAAGAAATTCAAATTCATAAGAAATTCAGGTTCACAAGAAATTCAA
* * *
4830646 AGATTCACAAA-AGCTTCAGTTTTGTAA-GAAATTTAGGTTCGCAAAAAATTTAAAGATTCACAA
1 AGATTCACAAAGA-CTTCAGGTTCGTAAGGAAATTTAGATTCGCAAAAAATTTAAAGATTCACAA
* ** * * *
4830709 GAAATTTAAAGA-TTT-GCAAGAAATTCAAAGATTCATAAGAGCTTTAGTTTCACAATAAATTCA
65 GAAATTCAAAGATTTTCGCAAGAAATTC-AA-ATTCATAAGAAATTCAGGTTCACAAGAAATTCA
4830772 GGTTCACAAG
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
125 9 0.08
126 5 0.05
127 70 0.66
128 22 0.21
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.31
Consensus pattern (128 bp):
AGATTCACAAAGACTTCAGGTTCGTAAGGAAATTTAGATTCGCAAAAAATTTAAAGATTCACAAG
AAATTCAAAGATTTTCGCAAGAAATTCAAATTCATAAGAAATTCAGGTTCACAAGAAATTCAA
Found at i:4832355 original size:8 final size:8
Alignment explanation
Indices: 4832342--4832371 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
4832332 CCTATCAATT
4832342 TTTTTTTA
1 TTTTTTTA
4832350 TTTTTTTA
1 TTTTTTTA
4832358 -TTTTTTA
1 TTTTTTTA
4832365 TTTTTTT
1 TTTTTTT
4832372 TATTCATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTA
Found at i:4832361 original size:15 final size:15
Alignment explanation
Indices: 4832343--4832371 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4832333 CTATCAATTT
4832343 TTTTTTATTTTTTTA
1 TTTTTTATTTTTTTA
4832358 TTTTTTATTTTTTT
1 TTTTTTATTTTTTT
4832372 TATTCATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTATTTTTTTA
Found at i:4839176 original size:15 final size:14
Alignment explanation
Indices: 4839149--4839184 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
4839139 TTTTATTTGA
4839149 TAAATATATATATG
1 TAAATATATATATG
*
4839163 TAAATATAATATATT
1 TAAATAT-ATATATG
4839178 TAAATAT
1 TAAATAT
4839185 CTTTAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (14 bp):
TAAATATATATATG
Found at i:4841977 original size:1 final size:1
Alignment explanation
Indices: 4841961--4842005 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
4841951 CTTGAGCCGC
* * * *
4841961 TTTTCTTTTTTCTTTTTTTTTTTTTTTTTTTGTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4842006 AAAGTCTGCT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.00, C:0.04, G:0.04, T:0.91
Consensus pattern (1 bp):
T
Found at i:4841989 original size:20 final size:21
Alignment explanation
Indices: 4841961--4842005 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
4841951 CTTGAGCCGC
4841961 TTTTCTTTTTTCTTTTTT-TT
1 TTTTCTTTTTTCTTTTTTGTT
* *
4841981 TTTTTTTTTTTGTTTTTTGTT
1 TTTTCTTTTTTCTTTTTTGTT
4842002 TTTT
1 TTTT
4842006 AAAGTCTGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.00, C:0.04, G:0.04, T:0.91
Consensus pattern (21 bp):
TTTTCTTTTTTCTTTTTTGTT
Found at i:4842469 original size:2 final size:2
Alignment explanation
Indices: 4842462--4842495 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4842452 TTTACTGATC
4842462 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
4842496 CACAAAAATA
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:4848089 original size:4 final size:4
Alignment explanation
Indices: 4848080--4848118 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
4848070 GCTGATCTGC
4848080 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT
4848119 ATCTAGAGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:4857620 original size:15 final size:16
Alignment explanation
Indices: 4857581--4857625 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
4857571 ATTTTTTAAT
4857581 TAATTATTTA-ATTTTA
1 TAATT-TTTATATTTTA
*
4857597 TAATTTTTATATTTTT
1 TAATTTTTATATTTTA
4857613 TAA-TTTTATATTT
1 TAATTTTTATATTT
4857626 ATATTAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TAATTTTTATATTTTA
Found at i:4858038 original size:20 final size:21
Alignment explanation
Indices: 4858002--4858053 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
4857992 CAAAAAATTA
4858002 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
4858024 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
4858045 AT-AAATATT
1 ATAAAATATT
4858054 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:4858044 original size:21 final size:22
Alignment explanation
Indices: 4858002--4858053 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
4857992 CAAAAAATTA
4858002 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
4858024 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
4858045 AT-AAATATT
1 ATAAAATATT
4858054 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:4858061 original size:30 final size:31
Alignment explanation
Indices: 4858026--4858091 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
4858016 TTTAAAATAT
* * * *
4858026 AAAATATTATTTTTTAAATATAAAT-ATTTA
1 AAAATATCATTATATAAATATAAATAAATTA
*
4858056 AAAATATCATTATATAAATATATATAAATTA
1 AAAATATCATTATATAAATATAAATAAATTA
4858087 AAAAT
1 AAAAT
4858092 TAAAAATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 21 0.70
31 9 0.30
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (31 bp):
AAAATATCATTATATAAATATAAATAAATTA
Found at i:4866888 original size:30 final size:30
Alignment explanation
Indices: 4866852--4866910 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
4866842 CACGTCTGGG
*
4866852 GTGGGCTATGCGTTGGTCAAGTGGATGGAT
1 GTGGGCTATGCGTTAGTCAAGTGGATGGAT
* *
4866882 GTGGGCTATGTGTTAGTTAAGTGGATGGA
1 GTGGGCTATGCGTTAGTCAAGTGGATGGA
4866911 CGCTGCTCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.07, G:0.42, T:0.32
Consensus pattern (30 bp):
GTGGGCTATGCGTTAGTCAAGTGGATGGAT
Found at i:4870512 original size:17 final size:15
Alignment explanation
Indices: 4870492--4870532 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
4870482 ATTTAATCTA
4870492 ATCTTATTTATAATATT
1 ATCTTATTTAT-AT-TT
4870509 ATCTTATTT-TATTT
1 ATCTTATTTATATTT
4870523 AT-TTATTTAT
1 ATCTTATTTAT
4870533 TTATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 6 0.26
14 5 0.22
15 2 0.09
16 1 0.04
17 9 0.39
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
ATCTTATTTATATTT
Found at i:4870512 original size:22 final size:22
Alignment explanation
Indices: 4870479--4870524 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4870469 ATAAAATAAA
4870479 ATAATTTAATCTAATCTTATTT
1 ATAATTTAATCTAATCTTATTT
* *
4870501 ATAATATT-ATCTTATTTTATTT
1 ATAAT-TTAATCTAATCTTATTT
4870523 AT
1 AT
4870525 TTATTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.59
Consensus pattern (22 bp):
ATAATTTAATCTAATCTTATTT
Found at i:4870525 original size:4 final size:4
Alignment explanation
Indices: 4870516--4870542 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4870506 ATTATCTTAT
4870516 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
4870543 TTGGGTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:4871161 original size:16 final size:15
Alignment explanation
Indices: 4871129--4871168 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
4871119 AGGACAACTC
*
4871129 AAAAATCTAAAAAAA
1 AAAAATTTAAAAAAA
*
4871144 AAAAATTTAAAAGGAA
1 AAAAATTTAAAA-AAA
4871160 AAAAATTTA
1 AAAAATTTA
4871169 GCTTCCATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (15 bp):
AAAAATTTAAAAAAA
Found at i:4871528 original size:12 final size:12
Alignment explanation
Indices: 4871508--4871552 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
4871498 TAATATAATA
4871508 TTAAATTTAAGT
1 TTAAATTTAAGT
* *
4871520 TTGAATTTAATT
1 TTAAATTTAAGT
4871532 TTAAATTTAAGAT
1 TTAAATTTAAG-T
4871545 TTCAAATT
1 TT-AAATT
4871553 CAGTTCGAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 19 0.70
13 3 0.11
14 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (12 bp):
TTAAATTTAAGT
Found at i:4872226 original size:29 final size:30
Alignment explanation
Indices: 4872150--4872253 Score: 113
Period size: 29 Copynumber: 3.5 Consensus size: 30
4872140 TTTATTATAA
* * *
4872150 TTAATTAAATTCTCATATATTTATTTTTAT
1 TTAATTAAATTTTTAAATATTTATTTTTAT
* * *
4872180 TTAATCAAATATTCAAAT-TTTATTTTTAT
1 TTAATTAAATTTTTAAATATTTATTTTTAT
*
4872209 TTAATTAAATTTTTAAATATTT-TTTTCAT
1 TTAATTAAATTTTTAAATATTTATTTTTAT
* *
4872238 ATAATTAAACTTTTAA
1 TTAATTAAATTTTTAA
4872254 TTGAAAAGAA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
29 46 0.73
30 17 0.27
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.57
Consensus pattern (30 bp):
TTAATTAAATTTTTAAATATTTATTTTTAT
Found at i:4872679 original size:30 final size:30
Alignment explanation
Indices: 4872632--4872690 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
4872622 ATTTTTACTC
*
4872632 AATTAAATTCTTCAATATCTAATTTCACCA
1 AATTAAATTCTTAAATATCTAATTTCACCA
* *
4872662 AATTAAATAT-TTAAATATTTATTTTCACC
1 AATTAAAT-TCTTAAATATCTAATTTCACC
4872691 TCAATTGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (30 bp):
AATTAAATTCTTAAATATCTAATTTCACCA
Found at i:4874130 original size:26 final size:25
Alignment explanation
Indices: 4874066--4874122 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
4874056 AAATAATAAT
* *
4874066 AAAAATAATTATAACTGTAATTAAA
1 AAAAATTACTATAACTGTAATTAAA
*
4874091 AAAAATTACTATAATTGTAATTAAA
1 AAAAATTACTATAACTGTAATTAAA
4874116 AAAAATT
1 AAAAATT
4874123 TTGAATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (25 bp):
AAAAATTACTATAACTGTAATTAAA
Found at i:4875638 original size:32 final size:33
Alignment explanation
Indices: 4875588--4875653 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 33
4875578 ATTCATATAA
* *
4875588 AAAAAAAAGTGCTTTTCAT-TATCATAATATACT
1 AAAAAAAAGAGCTATTCATCT-TCATAATATACT
*
4875621 AAAAAAAAGAGC-ATTCATCTTCGTAATATACT
1 AAAAAAAAGAGCTATTCATCTTCATAATATACT
4875653 A
1 A
4875654 TTAGTATACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.32
Consensus pattern (33 bp):
AAAAAAAAGAGCTATTCATCTTCATAATATACT
Found at i:4879589 original size:16 final size:16
Alignment explanation
Indices: 4879568--4879599 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4879558 TCTGCTAGCA
4879568 TTTGCGGGCACTGGCT
1 TTTGCGGGCACTGGCT
4879584 TTTGCGGGCACTGGCT
1 TTTGCGGGCACTGGCT
4879600 GCTATTAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.38, T:0.31
Consensus pattern (16 bp):
TTTGCGGGCACTGGCT
Found at i:4881549 original size:24 final size:24
Alignment explanation
Indices: 4881522--4881592 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
4881512 CAAACTCGTT
4881522 TTGTATCACGCAAACCAGCAAGAG
1 TTGTATCACGCAAACCAGCAAGAG
* * **
4881546 TTGTA--ATGCAAA-C-TC--GTT
1 TTGTATCACGCAAACCAGCAAGAG
4881564 TTGTATCACGCAAACCAGCAAGAG
1 TTGTATCACGCAAACCAGCAAGAG
4881588 TTGTA
1 TTGTA
4881593 ATATCAAGTG
Statistics
Matches: 33, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
18 6 0.18
20 7 0.21
21 2 0.06
22 7 0.21
24 11 0.33
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (24 bp):
TTGTATCACGCAAACCAGCAAGAG
Found at i:4881564 original size:42 final size:42
Alignment explanation
Indices: 4881511--4881594 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
4881501 ATGTAAAACG
4881511 GCAAACTCGTTTTGTATCACGCAAACCAGCAAGAGTTGTAAT
1 GCAAACTCGTTTTGTATCACGCAAACCAGCAAGAGTTGTAAT
4881553 GCAAACTCGTTTTGTATCACGCAAACCAGCAAGAGTTGTAAT
1 GCAAACTCGTTTTGTATCACGCAAACCAGCAAGAGTTGTAAT
4881595 ATCAAGTGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (42 bp):
GCAAACTCGTTTTGTATCACGCAAACCAGCAAGAGTTGTAAT
Found at i:4885906 original size:18 final size:18
Alignment explanation
Indices: 4885883--4885923 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
4885873 TAAAATCGAA
*
4885883 TTATATATTTTTTAGTTT
1 TTATATATTTTTTAATTT
4885901 TTATATATTTTTTAATTT
1 TTATATATTTTTTAATTT
4885919 TTATA
1 TTATA
4885924 AAATAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
TTATATATTTTTTAATTT
Found at i:4886000 original size:32 final size:30
Alignment explanation
Indices: 4885928--4886002 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 30
4885918 TTTATAAAAT
* *
4885928 AAAATTAATAATTTTATATTAAAATTATTTA
1 AAAATTAA-AATTTTACATTAAAATTATATA
4885959 AATATATTAAAATTTTACATTAAAATAATATATA
1 AA-A-ATTAAAATTTTACATTAAAAT--TATATA
4885993 AAAATTAAAA
1 AAAATTAAAA
4886003 ATCGATAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
31 2 0.05
32 23 0.61
33 6 0.16
34 7 0.18
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (30 bp):
AAAATTAAAATTTTACATTAAAATTATATA
Found at i:4886405 original size:22 final size:23
Alignment explanation
Indices: 4886371--4886423 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
4886361 ATTTTTTATT
4886371 TTTATTAAATTT-AT-ATATAATA
1 TTTA-TAAATTTAATCATATAATA
*
4886393 TTTATAAATTTTAAATCATATAATT
1 TTTATAAA-TTT-AATCATATAATA
4886418 TTTATA
1 TTTATA
4886424 TTTTTTTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.15
22 7 0.27
24 2 0.08
25 13 0.50
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTATAAATTTAATCATATAATA
Found at i:4886962 original size:19 final size:20
Alignment explanation
Indices: 4886931--4886972 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
4886921 TATGTCATAT
4886931 AATTATATTATTA-AAAATTA
1 AATTATATTATTATAAAA-TA
4886951 AATTAT-TTATTATAAAATA
1 AATTATATTATTATAAAATA
4886970 AAT
1 AAT
4886973 AATCATTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTATATTATTATAAAATA
Found at i:4887034 original size:27 final size:27
Alignment explanation
Indices: 4886986--4887062 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 27
4886976 CATTTTGTTA
* **
4886986 ATATAAATAATTATTATTTAATT-ATTT
1 ATATAAAT-ATAATTACATAATTAATTT
4887013 CATATAATATATAATTA-ATAATTAATTT
1 -ATATAA-ATATAATTACATAATTAATTT
* *
4887041 TTATTAATATAATTACATAATT
1 ATATAAATATAATTACATAATT
4887063 TAAATAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
26 9 0.21
27 15 0.36
28 16 0.38
29 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (27 bp):
ATATAAATATAATTACATAATTAATTT
Found at i:4887038 original size:31 final size:28
Alignment explanation
Indices: 4886978--4887051 Score: 76
Period size: 31 Copynumber: 2.5 Consensus size: 28
4886968 TAAATAATCA
* * *
4886978 TTTTGTTAATATAAATAATTATTATTTAAT
1 TTTTATTAATAT--ATAATTAATAATTAAT
4887008 TATTTCATATAATATATAATTAATAATTAAT
1 T-TTT-AT-TAATATATAATTAATAATTAAT
4887039 TTTTATTAATATA
1 TTTTATTAATATA
4887052 ATTACATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
28 7 0.18
29 2 0.05
30 4 0.11
31 18 0.47
32 1 0.03
33 6 0.16
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (28 bp):
TTTTATTAATATATAATTAATAATTAAT
Found at i:4892246 original size:15 final size:15
Alignment explanation
Indices: 4892226--4892256 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4892216 TTTTATTTCG
*
4892226 ATTATTATTTGATTA
1 ATTATTATTTCATTA
4892241 ATTATTATTTCATTA
1 ATTATTATTTCATTA
4892256 A
1 A
4892257 ATGACATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (15 bp):
ATTATTATTTCATTA
Found at i:4898850 original size:59 final size:58
Alignment explanation
Indices: 4898738--4898981 Score: 269
Period size: 59 Copynumber: 4.1 Consensus size: 58
4898728 ATTAATTTTT
* ** * * * *
4898738 AATTTTT-TTGAAAATAAATTTTCTAAAAAATATTTTTAAGAAAAAGTTAAAAGTATT
1 AATTTTTCTTAAAAATAAGCTTTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATC
* *
4898795 AATTTTTCTTAAAAATAAGCTTTCAAAAAATAGATTTTTGAGAAAAAATTGAAAGTATC
1 AATTTTTCTTAAAAATAAGCTTTCAAAAAA-ATATTTTTGAGAAAAAGTTGAAAGTATC
* *
4898854 AATTTTTTTTGAAAATAAGCTTTCTAAAAAAAATAATATTTTTGGAGAAAAAGTTGAAAGTATC
1 AATTTTTCTTAAAAATAAGCTTTC----AAAAA-AATATTTTT-GAGAAAAAGTTGAAAGTATC
* * * *
4898918 AATTTTCCTTAAATATTAGTTTTC--AAAAATATTTTTGAGAAAAAGTTGAAAGTATC
1 AATTTTTCTTAAAAATAAGCTTTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATC
4898974 AATTTTTC
1 AATTTTTC
4898982 CTACACAAAA
Statistics
Matches: 159, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
56 27 0.17
57 16 0.10
58 21 0.13
59 45 0.28
63 12 0.08
64 38 0.24
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (58 bp):
AATTTTTCTTAAAAATAAGCTTTCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATC
Found at i:4898851 original size:123 final size:121
Alignment explanation
Indices: 4898715--4898980 Score: 312
Period size: 123 Copynumber: 2.2 Consensus size: 121
4898705 ATTCTCGAAG
* *
4898715 AAAAGTTGAAAGTATTAATTTTTAATTTTTTTGAAAATAAATTTTCT-AAAA-AATATTTTT-AA
1 AAAAGTTGAAAGTATCAATTTTT--TTTTTTTGAAAATAAACTTTCTAAAAATAATATTTTTGAA
* *
4898777 GAAAAAGTTAAAAGTATTAATTTTTCTTAAAAATAAGCTTTCAAAAAATAGATTTTTGAGA
64 GAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAGCTTTC-AAAAAT--ATTTTTGAGA
* * *
4898838 AAAAATTGAAAGTATCAA----TTTTTTTTGAAAATAAGCTTTCTAAAAAAAATAATATTTTTGG
1 AAAAGTTGAAAGTATCAATTTTTTTTTTTTGAAAATAAACTTTCT---AAAAATAATATTTTTGA
* * * *
4898899 AGAAAAAGTTGAAAGTATCAATTTTCCTTAAATATTAGTTTTCAAAAATATTTTTGAGA
63 AGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAGCTTTCAAAAATATTTTTGAGA
4898958 AAAAGTTGAAAGTATCAATTTTT
1 AAAAGTTGAAAGTATCAATTTTT
4898981 CCTACACAAA
Statistics
Matches: 121, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
117 20 0.17
119 1 0.01
120 27 0.22
121 4 0.03
122 15 0.12
123 53 0.44
124 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (121 bp):
AAAAGTTGAAAGTATCAATTTTTTTTTTTTGAAAATAAACTTTCTAAAAATAATATTTTTGAAGA
AAAAGTTAAAAGTATCAATTTTCCTTAAAAATAAGCTTTCAAAAATATTTTTGAGA
Found at i:4902896 original size:31 final size:32
Alignment explanation
Indices: 4902841--4902904 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
4902831 GCAATGTATA
*
4902841 TCACTCAAATTAAAAAAAAGAAAAAATTAAAG
1 TCACCCAAATTAAAAAAAAGAAAAAATTAAAG
*
4902873 TCACCCAAATTATAAAAAA-AAAAAATTAAAG
1 TCACCCAAATTAAAAAAAAGAAAAAATTAAAG
4902904 T
1 T
4902905 GAAGTCAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.64, C:0.11, G:0.05, T:0.20
Consensus pattern (32 bp):
TCACCCAAATTAAAAAAAAGAAAAAATTAAAG
Found at i:4910265 original size:2 final size:2
Alignment explanation
Indices: 4910258--4910293 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4910248 AGATTGGCAC
*
4910258 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4910294 TAATGAATGC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4924508 original size:3 final size:3
Alignment explanation
Indices: 4924494--4924541 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
4924484 TTTTTAAGAA
*
4924494 ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4924542 CCATCCCATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:4925110 original size:18 final size:18
Alignment explanation
Indices: 4925087--4925159 Score: 83
Period size: 18 Copynumber: 4.1 Consensus size: 18
4925077 TCAAAATTTT
4925087 ATTATAATTATTTAAATA
1 ATTATAATTATTTAAATA
* *
4925105 ATTATAACTATTTAAACA
1 ATTATAATTATTTAAATA
* * * *
4925123 AATATGATTATATAAATT
1 ATTATAATTATTTAAATA
*
4925141 ATCATAATTATTTAAATA
1 ATTATAATTATTTAAATA
4925159 A
1 A
4925160 AAATTTATGA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (18 bp):
ATTATAATTATTTAAATA
Found at i:4929249 original size:25 final size:23
Alignment explanation
Indices: 4929215--4929262 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
4929205 ATTTTTTGTG
*
4929215 TTTACGTAAACTATAACATATAAAT
1 TTTACGTAAAATAT-A-ATATAAAT
*
4929240 TTTATGTAAAATATAATATAAAT
1 TTTACGTAAAATATAATATAAAT
4929263 ACATAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
24 1 0.05
25 12 0.57
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (23 bp):
TTTACGTAAAATATAATATAAAT
Found at i:4933196 original size:38 final size:38
Alignment explanation
Indices: 4933122--4933225 Score: 117
Period size: 38 Copynumber: 2.8 Consensus size: 38
4933112 AAAAATAAAA
* * *
4933122 ATAATAAGATAATACATGTA-CCCTATCTTATACATATC
1 ATAATAAGATAATACATGCATTCC-ATCTCATACATATC
*
4933160 ATAATAAGATAATACATGCATTCCATCTCATCCATATC
1 ATAATAAGATAATACATGCATTCCATCTCATACATATC
* *
4933198 --AAT-AGATAGTACATGCATTTCATCTCAT
1 ATAATAAGATAATACATGCATTCCATCTCAT
4933226 TATATATCTT
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
35 23 0.39
36 3 0.05
38 31 0.53
39 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (38 bp):
ATAATAAGATAATACATGCATTCCATCTCATACATATC
Found at i:4938520 original size:148 final size:146
Alignment explanation
Indices: 4938200--4938576 Score: 379
Period size: 148 Copynumber: 2.6 Consensus size: 146
4938190 AAGATGAAAT
* * *
4938200 AAGCTTTAGTTAGAATCCCAAGTAAAAAAAAGATAAAATTAAGAAAAGTAGAATGCTAAAGTTAA
1 AAGCTTCAGTTAGAATCTCAA-TAAAAAAAA-ATAAAATTAAG-AAAGTAGAATGCTAAAATTAA
* * * *
4938265 AGTTAAATGTTT-T---CAAAATAAAAAGCAAAGAAAGAAAGACATGCACTTTAGAGATAAGAGT
63 AGTAAAATGTTTCTAAAAAAAAAAAAAAGCAAAGAAAGAAAGACATGCACTTGAGAGATAAGAGT
* * *
4938326 CCAAGGTAAAAGGTGAGTG
128 CCAAGGTAAAAAGTGAATA
* * * * *
4938345 AAGCTTCAATCAGAATCTCAATTAAAAAAATATATAATTGAAGAAAGTAGAAGGCTAAAATTAAA
1 AAGCTTCAGTTAGAATCTCAA-TAAAAAAAAATAAAATT-AAGAAAGTAGAATGCTAAAATTAAA
* * *
4938410 GTAAAATGTTTCTAAAAAAAAAAAAAAGCAAAGAAAGAAAGATTTATGCA-TTGA-ATATGAGAG
64 GTAAAATGTTTCTAAAAAAAAAAAAAAGCAAAGAAAGAAAGA--CATGCACTTGAGAGATAAGAG
***
4938473 TCTTGGGTAAAAAGTGAATA
127 TCCAAGGTAAAAAGTGAATA
* * * ** *
4938493 AAGCTTGAGTTAGAATCTGAATAAAAAAAAATAGAATTCAAGAAAGTAGAATGCTATGATTGAAG
1 AAGCTTCAGTTAGAATCTCAATAAAAAAAAATAAAATT-AAGAAAGTAGAATGCTAAAATTAAAG
* *
4938558 TCAAATGTTTCCAAAAAAA
65 TAAAATGTTTCTAAAAAAA
4938577 TAAAGAGCAA
Statistics
Matches: 190, Mismatches: 35, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
144 37 0.19
145 29 0.15
147 54 0.28
148 62 0.33
149 3 0.02
150 5 0.03
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.24
Consensus pattern (146 bp):
AAGCTTCAGTTAGAATCTCAATAAAAAAAAATAAAATTAAGAAAGTAGAATGCTAAAATTAAAGT
AAAATGTTTCTAAAAAAAAAAAAAAGCAAAGAAAGAAAGACATGCACTTGAGAGATAAGAGTCCA
AGGTAAAAAGTGAATA
Found at i:4938589 original size:15 final size:14
Alignment explanation
Indices: 4938569--4938599 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
4938559 CAAATGTTTC
4938569 CAAAAAAATAAAGAG
1 CAAAAAAATAAA-AG
4938584 CAAAAAAATAAAAG
1 CAAAAAAATAAAAG
4938598 CA
1 CA
4938600 TACACCTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.74, C:0.10, G:0.10, T:0.06
Consensus pattern (14 bp):
CAAAAAAATAAAAG
Found at i:4939761 original size:62 final size:63
Alignment explanation
Indices: 4939685--4939802 Score: 166
Period size: 63 Copynumber: 1.9 Consensus size: 63
4939675 AAAAAAAATC
* * * *
4939685 GCATCACTTACATGTGC-TTATGAGAAAAACATTTGATCTACATGATATAAAAAAATGCATTT
1 GCATCACTTACATGTACATAATAAGAAAAACATTTGATCTACATGATAAAAAAAAATGCATTT
* * *
4939747 GCATCACTTACATGTACATAATAAGAAAGACATTTGATCTATATGTTAAAAAAAAA
1 GCATCACTTACATGTACATAATAAGAAAAACATTTGATCTACATGATAAAAAAAAA
4939803 AGACATTCAC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
62 16 0.33
63 32 0.67
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.31
Consensus pattern (63 bp):
GCATCACTTACATGTACATAATAAGAAAAACATTTGATCTACATGATAAAAAAAAATGCATTT
Found at i:4940950 original size:27 final size:27
Alignment explanation
Indices: 4940905--4940956 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
4940895 TATTTTGAAA
***
4940905 ACTTATTTGAAATTTTTTTTTTTTTTT
1 ACTTATTTGAAAAGGTTTTTTTTTTTT
4940932 ACTTATTTGAAAAGGTTTTTTTTTT
1 ACTTATTTGAAAAGGTTTTTTTTTT
4940957 ATATATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.21, C:0.04, G:0.08, T:0.67
Consensus pattern (27 bp):
ACTTATTTGAAAAGGTTTTTTTTTTTT
Found at i:4941043 original size:21 final size:20
Alignment explanation
Indices: 4941019--4941058 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
4941009 AAAATTTCTC
4941019 AAAAATAAAATCATAAAAAAT
1 AAAAATAAAATCA-AAAAAAT
*
4941040 AAAAATAAAATGAAAAAAA
1 AAAAATAAAATCAAAAAAA
4941059 GTAACCTGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (20 bp):
AAAAATAAAATCAAAAAAAT
Found at i:4941401 original size:12 final size:12
Alignment explanation
Indices: 4941384--4941408 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4941374 CTACTGATCG
4941384 TCAAAAAATTCA
1 TCAAAAAATTCA
4941396 TCAAAAAATTCA
1 TCAAAAAATTCA
4941408 T
1 T
4941409 GTTCCTCCTA
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:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (12 bp):
TCAAAAAATTCA
Found at i:4941920 original size:3 final size:3
Alignment explanation
Indices: 4941909--4941964 Score: 64
Period size: 3 Copynumber: 19.3 Consensus size: 3
4941899 AGAAGAAAAA
* *
4941909 AAT AA- AAT AAT AA- ATAT AAT GAT GAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4941953 AAT AAT -AT AAT A
1 AAT AAT AAT AAT A
4941965 CTATACAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 5 0.11
3 41 0.87
4 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4942020 original size:21 final size:21
Alignment explanation
Indices: 4941996--4942042 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4941986 AAAATAATGA
*
4941996 AACACGATCTAATTGACCCTG
1 AACACGATCCAATTGACCCTG
* * *
4942017 AACATGGTCCGATTGACCCTG
1 AACACGATCCAATTGACCCTG
4942038 AACAC
1 AACAC
4942043 AGATGGGTGT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (21 bp):
AACACGATCCAATTGACCCTG
Found at i:4942760 original size:86 final size:86
Alignment explanation
Indices: 4942633--4943022 Score: 366
Period size: 86 Copynumber: 4.6 Consensus size: 86
4942623 TTGCAAAGGT
* * * **
4942633 TTTCAAATTC-TCAAGAATAG-AAGATTCACAA-AATTCTAAGTTTCGTAGAGGTCCTAGATTTG
1 TTTCAAATTCAT-AAGAA-AGAAAGATTCACAAGATTTC-AAGTTTCGTAAAGGTTCTAGATTCA
*
4942695 TAAAGATTTTAGGTTCGCAAGGAC
63 TAAAGATTTTAGGTTCACAAGGAC
* * * * *
4942719 TTTCAAATTCACAGGAAAGAAATATTCACAAGATTTCAAGTTTCGTAAAGGTTCTTGATTCACAA
1 TTTCAAATTCATAAGAAAGAAAGATTCACAAGATTTCAAGTTTCGTAAAGGTTCTAGATTCATAA
* *
4942784 AGATTCTAGGTT------GAT
66 AGATTTTAGGTTCACAAGGAC
* ** * * * *
4942799 TTTCATATTTGTAAGAAAAAAAGATTCATAAGATTTCAAGTTTCATAAAGGTTCTAGATTCGTAA
1 TTTCAAATTCATAAGAAAGAAAGATTCACAAGATTTCAAGTTTCGTAAAGGTTCTAGATTCATAA
* *
4942864 AGATTTTAAGTTTACAAGGAC
66 AGATTTTAGGTTCACAAGGAC
* * * * * *
4942885 TTTTAGATTCATAAAAAAGAAAGATTCACAAGATGTCAAGTTTTGCAAAGGTTCTAGATTCATAA
1 TTTCAAATTCATAAGAAAGAAAGATTCACAAGATTTCAAGTTTCGTAAAGGTTCTAGATTCATAA
*
4942950 AGATTTTAGGTTCACAAAGAC
66 AGATTTTAGGTTCACAAGGAC
* * *** * *
4942971 TTTTAGATTCATAAGAAAGAAAGATTTGTAAGATTTCAAGTTTTGGAAAGGT
1 TTTCAAATTCATAAGAAAGAAAGATTCACAAGATTTCAAGTTTCGTAAAGGT
4943023 GAAAAAAATG
Statistics
Matches: 247, Mismatches: 48, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
80 65 0.26
85 2 0.01
86 176 0.71
87 4 0.02
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (86 bp):
TTTCAAATTCATAAGAAAGAAAGATTCACAAGATTTCAAGTTTCGTAAAGGTTCTAGATTCATAA
AGATTTTAGGTTCACAAGGAC
Found at i:4942927 original size:166 final size:166
Alignment explanation
Indices: 4942653--4942961 Score: 413
Period size: 166 Copynumber: 1.9 Consensus size: 166
4942643 TCAAGAATAG
* * * * *
4942653 AAGATTCACAAAATTCTAAGTTTCGTAGAGGTCCTAGATTTGTAAAGATTTTAGGTTCGCAAGGA
1 AAGATTCACAAAATTCTAAGTTTCATAAAGGTCCTAGATTCGTAAAGATTTTAAGTTCACAAGGA
** * * * *
4942718 CTTTCAAATTCACAGGAAAGAAATATTCACAAGATTTCAAGTTTCGTAAAGGTTCTTGATTCACA
66 CTTTCAAATTCACAAAAAAGAAAGATTCACAAGATGTCAAGTTTCGCAAAGGTTCTAGATTCACA
4942783 AAGATTCTAGGTTGATTTTCATATTTGTAAGAAAAA
131 AAGATTCTAGGTTGATTTTCATATTTGTAAGAAAAA
* * * *
4942819 AAGATTCATAAGATT-TCAAGTTTCATAAAGGTTCTAGATTCGTAAAGATTTTAAGTTTACAAGG
1 AAGATTCACAAAATTCT-AAGTTTCATAAAGGTCCTAGATTCGTAAAGATTTTAAGTTCACAAGG
* * * * *
4942883 ACTTTTAGATTCATAAAAAAGAAAGATTCACAAGATGTCAAGTTTTGCAAAGGTTCTAGATTCAT
65 ACTTTCAAATTCACAAAAAAGAAAGATTCACAAGATGTCAAGTTTCGCAAAGGTTCTAGATTCAC
*
4942948 AAAGATTTTAGGTT
130 AAAGATTCTAGGTT
4942962 CACAAAGACT
Statistics
Matches: 121, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
165 1 0.01
166 120 0.99
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.34
Consensus pattern (166 bp):
AAGATTCACAAAATTCTAAGTTTCATAAAGGTCCTAGATTCGTAAAGATTTTAAGTTCACAAGGA
CTTTCAAATTCACAAAAAAGAAAGATTCACAAGATGTCAAGTTTCGCAAAGGTTCTAGATTCACA
AAGATTCTAGGTTGATTTTCATATTTGTAAGAAAAA
Found at i:4942963 original size:17 final size:18
Alignment explanation
Indices: 4942939--4942984 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
4942929 GCAAAGGTTC
4942939 TAGATTCATAAAGA-TTT
1 TAGATTCATAAAGACTTT
* *
4942956 TAGGTTCACAAAGACTTT
1 TAGATTCATAAAGACTTT
4942974 TAGATTCATAA
1 TAGATTCATAA
4942985 GAAAGAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
TAGATTCATAAAGACTTT
Found at i:4943623 original size:120 final size:120
Alignment explanation
Indices: 4943462--4943772 Score: 358
Period size: 120 Copynumber: 2.6 Consensus size: 120
4943452 TCGAGTTGAG
* * * * *
4943462 GTAAAAAATAAATGATCGAGATAAAACCACGAGTCATAAGAAATGATCTGAACTGAGCCAAGATC
1 GTAAAAAATGAATAATCGGGATGAAACTACGAGTCATAAGAAATGATCTGAACTGAGCCAAGATC
** * * *
4943527 AGGTGAC-TAAGGCAAAATCATGAGTCACAAATTAAGCCACCAGGACTGAGTTAAA
66 AGGTGACAT-AGGCAAAATCACAAGTCACAAATGAAGCCACCAGGACTGAATCAAA
* * *
4943582 GTTAAAAATGAATGAAT-GGGATGAAATTATGAGTCATAAGAAATGATCT-ACACTGAGCCAAGA
1 GTAAAAAATGAAT-AATCGGGATGAAACTACGAGTCATAAGAAATGATCTGA-ACTGAGCCAAGA
* * ** * *
4943645 TCAGGTGACATAGGTAAAATCACAAGTCACAAATGAAGCGATTAGGATTGAATCAAG
64 TCAGGTGACATAGGCAAAATCACAAGTCACAAATGAAGCCACCAGGACTGAATCAAA
* * * *
4943702 GTAAAAAATGAATAATCGGGATGAAACTACAAGTCATAAGAAATGATTTGGACTAAGCCAAGATC
1 GTAAAAAATGAATAATCGGGATGAAACTACGAGTCATAAGAAATGATCTGAACTGAGCCAAGATC
*
4943767 GGGTGA
66 AGGTGA
4943773 TCGGGTGATC
Statistics
Matches: 159, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
119 4 0.03
120 152 0.96
121 3 0.02
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.21
Consensus pattern (120 bp):
GTAAAAAATGAATAATCGGGATGAAACTACGAGTCATAAGAAATGATCTGAACTGAGCCAAGATC
AGGTGACATAGGCAAAATCACAAGTCACAAATGAAGCCACCAGGACTGAATCAAA
Found at i:4944982 original size:17 final size:17
Alignment explanation
Indices: 4944948--4944999 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
4944938 GCCCCATCAA
4944948 TTTTTATTT-TTT-TCTT
1 TTTTTATTTGTTTAT-TT
*
4944964 TTTTTGTTTGTTTATTT
1 TTTTTATTTGTTTATTT
*
4944981 TTTTTATTTTTTTATTT
1 TTTTTATTTGTTTATTT
4944998 TT
1 TT
4945000 CACAAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 8 0.26
17 22 0.71
18 1 0.03
ACGTcount: A:0.08, C:0.02, G:0.04, T:0.87
Consensus pattern (17 bp):
TTTTTATTTGTTTATTT
Found at i:4944986 original size:9 final size:8
Alignment explanation
Indices: 4944948--4944999 Score: 68
Period size: 8 Copynumber: 6.4 Consensus size: 8
4944938 GCCCCATCAA
4944948 TTTTTATT
1 TTTTTATT
*
4944956 TTTTTCTT
1 TTTTTATT
*
4944964 TTTTTGTT
1 TTTTTATT
*
4944972 TGTTTATTT
1 TTTTTA-TT
4944981 TTTTTATT
1 TTTTTATT
4944989 TTTTTATT
1 TTTTTATT
4944997 TTT
1 TTT
4945000 CACAAAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
8 31 0.82
9 7 0.18
ACGTcount: A:0.08, C:0.02, G:0.04, T:0.87
Consensus pattern (8 bp):
TTTTTATT
Found at i:4948706 original size:21 final size:22
Alignment explanation
Indices: 4948680--4948726 Score: 87
Period size: 21 Copynumber: 2.2 Consensus size: 22
4948670 GAAAAGGTTT
4948680 TTTTTTTTAGAAAACCT-TTTA
1 TTTTTTTTAGAAAACCTATTTA
4948701 TTTTTTTTAGAAAACCTATTTA
1 TTTTTTTTAGAAAACCTATTTA
4948723 TTTT
1 TTTT
4948727 CAAAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTTTTTAGAAAACCTATTTA
Found at i:4949718 original size:3 final size:3
Alignment explanation
Indices: 4949687--4949768 Score: 82
Period size: 3 Copynumber: 28.3 Consensus size: 3
4949677 GGAAGAAATA
* * * * *
4949687 AAT AAA AAT AAT AAA AAT AAT GAT GAT AAT AAT AAT -AT AAT AAG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4949734 AAT AGA- AAT -AT AAT AAT AAT AAT AAT AAT -AT AAT A
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4949769 CTATACAATA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
2 7 0.11
3 58 0.88
4 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:4950601 original size:23 final size:22
Alignment explanation
Indices: 4950559--4950610 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 22
4950549 AGATAAGATG
*
4950559 TTTTTAAACAAAAAAATGAAAAA
1 TTTTGAAACAAAAAAATG-AAAA
*
4950582 CTTTTGAAAC-AAAAAGTGAAAA
1 -TTTTGAAACAAAAAAATGAAAA
4950604 TTTTGAA
1 TTTTGAA
4950611 GTGAAATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 7 0.27
22 4 0.15
23 7 0.27
24 8 0.31
ACGTcount: A:0.56, C:0.06, G:0.10, T:0.29
Consensus pattern (22 bp):
TTTTGAAACAAAAAAATGAAAA
Found at i:4951064 original size:22 final size:21
Alignment explanation
Indices: 4951039--4951097 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 21
4951029 GACCTTCAAA
4951039 CATAATCTTTAAGAC-CTACGAG
1 CATAATCTTTAAGACACTA-G-G
4951061 CATAAT-TTCTAAGACATCTAGG
1 CATAATCTT-TAAGACA-CTAGG
*
4951083 CATAATCTCTAAGAC
1 CATAATCTTTAAGAC
4951098 TTTCAGCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
21 2 0.06
22 25 0.78
23 2 0.06
24 3 0.09
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (21 bp):
CATAATCTTTAAGACACTAGG
Found at i:4951208 original size:23 final size:22
Alignment explanation
Indices: 4951175--4951443 Score: 144
Period size: 22 Copynumber: 11.8 Consensus size: 22
4951165 TAAAACCTCT
4951175 AGGCATAATCTTTAAGACTTTC
1 AGGCATAATCTTTAAGACTTTC
*
4951197 GGGTCATAATCTTTAAGAC-TTC
1 AGG-CATAATCTTTAAGACTTTC
* *
4951219 TAGGAATAATCTTTAAGACTTCC
1 -AGGCATAATCTTTAAGACTTTC
4951242 AGGCATAATCTTTAAGACTTTC
1 AGGCATAATCTTTAAGACTTTC
* *
4951264 A-GCA-AAACATTTTAA-AGTTTC
1 AGGCATAATC--TTTAAGACTTTC
* ** *
4951285 AAGGCTTTTAATC-AAAAGAGCTTTGAA
1 -AGGC--ATAATCTTTAAGA-CTTT--C
* * *
4951312 AGATGTCGA-GAT-TTGTAAAAC-CTC
1 AG--G-C-ATAATCTT-TAAGACTTTC
*
4951336 TAGGCATAATCTTTAAGACTTCC
1 -AGGCATAATCTTTAAGACTTTC
4951359 AGGTCATAATCTTTAAGAC-TTC
1 AGG-CATAATCTTTAAGACTTTC
* *
4951381 TAGGAATAATCTTTAAGACTTTT
1 -AGGCATAATCTTTAAGACTTTC
4951404 AGGCATAATCTTTAAGAC-TTC
1 AGGCATAATCTTTAAGACTTTC
**
4951425 TAAACATAATCTTTAAGAC
1 -AGGCATAATCTTTAAGAC
4951444 CTCTGAGTGT
Statistics
Matches: 187, Mismatches: 33, Indels: 54
0.68 0.12 0.20
Matches are distributed among these distances:
20 3 0.02
21 11 0.06
22 106 0.57
23 47 0.25
24 1 0.01
25 5 0.03
26 6 0.03
27 3 0.02
28 4 0.02
29 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (22 bp):
AGGCATAATCTTTAAGACTTTC
Found at i:4951306 original size:162 final size:162
Alignment explanation
Indices: 4951039--4951423 Score: 659
Period size: 162 Copynumber: 2.4 Consensus size: 162
4951029 GACCTTCAAA
* * *
4951039 CATAATCTTTAAGAC--CTACGAGCATAAT-TTCTAAGACATCTAGGCATAATCTCTAAGACTTT
1 CATAATCTTTAAGACTTCTA-G-GAATAATCTT-TAAGACTTCTAGGCATAATCTTTAAGACTTT
4951101 CAGCAAAACATTTTAAAGTTTCAAGGCTTTTAATCAAAAGAGCTTTGAAAGATGTCGAGATTTGT
63 CAGCAAAACATTTTAAAGTTTCAAGGCTTTTAATCAAAAGAGCTTTGAAAGATGTCGAGATTTGT
* *
4951166 AAAACCTCTAGGCATAATCTTTAAGACTTTCGGGT
128 AAAACCTCTAGGCATAATCTTTAAGACTTCCAGGT
*
4951201 CATAATCTTTAAGACTTCTAGGAATAATCTTTAAGACTTCCAGGCATAATCTTTAAGACTTTCAG
1 CATAATCTTTAAGACTTCTAGGAATAATCTTTAAGACTTCTAGGCATAATCTTTAAGACTTTCAG
4951266 CAAAACATTTTAAAGTTTCAAGGCTTTTAATCAAAAGAGCTTTGAAAGATGTCGAGATTTGTAAA
66 CAAAACATTTTAAAGTTTCAAGGCTTTTAATCAAAAGAGCTTTGAAAGATGTCGAGATTTGTAAA
4951331 ACCTCTAGGCATAATCTTTAAGACTTCCAGGT
131 ACCTCTAGGCATAATCTTTAAGACTTCCAGGT
*
4951363 CATAATCTTTAAGACTTCTAGGAATAATCTTTAAGACTTTTAGGCATAATCTTTAAGACTT
1 CATAATCTTTAAGACTTCTAGGAATAATCTTTAAGACTTCTAGGCATAATCTTTAAGACTT
4951424 CTAAACATAA
Statistics
Matches: 212, Mismatches: 8, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
162 206 0.97
163 3 0.01
164 3 0.01
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (162 bp):
CATAATCTTTAAGACTTCTAGGAATAATCTTTAAGACTTCTAGGCATAATCTTTAAGACTTTCAG
CAAAACATTTTAAAGTTTCAAGGCTTTTAATCAAAAGAGCTTTGAAAGATGTCGAGATTTGTAAA
ACCTCTAGGCATAATCTTTAAGACTTCCAGGT
Found at i:4951392 original size:22 final size:22
Alignment explanation
Indices: 4951334--4951443 Score: 166
Period size: 22 Copynumber: 5.0 Consensus size: 22
4951324 TTGTAAAACC
4951334 TCTAGGCATAATCTTTAAGACT
1 TCTAGGCATAATCTTTAAGACT
*
4951356 TCCAGGTCATAATCTTTAAGACT
1 TCTAGG-CATAATCTTTAAGACT
*
4951379 TCTAGGAATAATCTTTAAGACT
1 TCTAGGCATAATCTTTAAGACT
*
4951401 TTTAGGCATAATCTTTAAGACT
1 TCTAGGCATAATCTTTAAGACT
**
4951423 TCTAAACATAATCTTTAAGAC
1 TCTAGGCATAATCTTTAAGAC
4951444 CTCTGAGTGT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
22 58 0.73
23 21 0.27
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (22 bp):
TCTAGGCATAATCTTTAAGACT
Found at i:4951457 original size:44 final size:43
Alignment explanation
Indices: 4951341--4951469 Score: 120
Period size: 44 Copynumber: 2.9 Consensus size: 43
4951331 ACCTCTAGGC
* *
4951341 ATAATCTTTAAGACT-TCCAGGTCATAATCTTTAAGACTTCTAGGA
1 ATAATCTTTAAGACTCT-GAGG--ATAATCTTTAAGACTTCTAGAA
* *
4951386 ATAATCTTTAAGACTTTTAGGCATAATCTTTAAGACTTCTA-AA
1 ATAATCTTTAAGACTCTGAGG-ATAATCTTTAAGACTTCTAGAA
* *
4951429 CATAATCTTTAAGACCTCTGAGTG-TAATCTCTAAGTCTTCT
1 -ATAATCTTTAAGA-CTCTGAG-GATAATCTTTAAGACTTCT
4951470 TGGTAAAATT
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
43 1 0.01
44 48 0.65
45 23 0.31
46 2 0.03
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.38
Consensus pattern (43 bp):
ATAATCTTTAAGACTCTGAGGATAATCTTTAAGACTTCTAGAA
Found at i:4951683 original size:21 final size:19
Alignment explanation
Indices: 4951659--4951698 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
4951649 GAAATCAAGA
4951659 AAAACCAAAAAACGAAAAAAC
1 AAAACCAAAAAA--AAAAAAC
4951680 AAAACCAAAAAAAAAAAAC
1 AAAACCAAAAAAAAAAAAC
4951699 CTTTTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
21 12 0.63
ACGTcount: A:0.80, C:0.17, G:0.03, T:0.00
Consensus pattern (19 bp):
AAAACCAAAAAAAAAAAAC
Found at i:4952044 original size:34 final size:35
Alignment explanation
Indices: 4951972--4952047 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 35
4951962 TTTATCATTT
* **
4951972 AAAATTAATTAAATTAATTGAAAAATTGTAAAGAAA
1 AAAATTAATTAAA-TAAGTGAAAAATTACAAAGAAA
*
4952008 AAAATTAATTAAA-AAGTGAAAAATTACAAAATAAA
1 AAAATTAATTAAATAAGTGAAAAATTAC-AAAGAAA
4952043 AAAAT
1 AAAAT
4952048 GAAATGAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 11 0.31
35 11 0.31
36 13 0.37
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.26
Consensus pattern (35 bp):
AAAATTAATTAAATAAGTGAAAAATTACAAAGAAA
Found at i:4955050 original size:22 final size:23
Alignment explanation
Indices: 4955022--4955082 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
4955012 CATTATTGGT
4955022 TAATCTTTAAGACTTCTAG-GCA
1 TAATCTTTAAGACTTCTAGAGCA
* *
4955044 TAATCTTTAAGACCTC-CGAGCA
1 TAATCTTTAAGACTTCTAGAGCA
* *
4955066 TAATCTCTAAGTCTTCT
1 TAATCTTTAAGACTTCT
4955083 TGATAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 1 0.03
22 31 0.97
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (23 bp):
TAATCTTTAAGACTTCTAGAGCA
Found at i:4955322 original size:25 final size:24
Alignment explanation
Indices: 4955264--4955323 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
4955254 CAAAAAAATG
* *
4955264 AAAAAAAAAGAAGAAAAATCAAGA
1 AAAAAAAAAAAAGAAAAAACAAGA
* *
4955288 AAAACTAAAAAAGGAAAAAACAA-A
1 AAAA-AAAAAAAAGAAAAAACAAGA
*
4955312 ACAAAAAAAAAA
1 AAAAAAAAAAAA
4955324 CTTTTGAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
23 6 0.21
24 8 0.29
25 14 0.50
ACGTcount: A:0.82, C:0.07, G:0.08, T:0.03
Consensus pattern (24 bp):
AAAAAAAAAAAAGAAAAAACAAGA
Found at i:4955576 original size:3 final size:3
Alignment explanation
Indices: 4955564--4955597 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
4955554 TTTAATTTTT
*
4955564 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4955598 CATTTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4955689 original size:15 final size:14
Alignment explanation
Indices: 4955667--4955708 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
4955657 AAAAATTACA
4955667 AAAT-AAAAAAATG
1 AAATAAAAAAAATG
*
4955680 AAATGAAAAAAAATA
1 AAAT-AAAAAAAATG
*
4955695 AAATAACAAAAATG
1 AAATAAAAAAAATG
4955709 CACCAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 4 0.17
14 8 0.33
15 12 0.50
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.14
Consensus pattern (14 bp):
AAATAAAAAAAATG
Found at i:4958120 original size:20 final size:21
Alignment explanation
Indices: 4958081--4958120 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4958071 TTTTTAAATA
4958081 TCAAAATTAAGATAATTTTAG
1 TCAAAATTAAGATAATTTTAG
*
4958102 TCAAAATTAA-ATGATTTTA
1 TCAAAATTAAGATAATTTTA
4958121 CATAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (21 bp):
TCAAAATTAAGATAATTTTAG
Found at i:4963291 original size:108 final size:109
Alignment explanation
Indices: 4963081--4963292 Score: 264
Period size: 108 Copynumber: 2.0 Consensus size: 109
4963071 GATTAAAATT
* * * * *
4963081 TTTTAAAAATTTTCTATTGTAGTGACCATTCTTTGCTTTCAGTGTTTTTGTTATCGCAAAGAAAA
1 TTTTAAAAATTTTCTATTGTAGTAACCATTATTTGCTTTCAGAGTTTTCGTTATCACAAAGAAAA
* * * *
4963146 CCATATACATAAATTTACATTTGTTATTGTTTCATTAGCCTAAC
66 CCAGATACATAAATCTACAATTATTATTGTTTCATTAGCCTAAC
* * * * *
4963190 TTTTAGAAATTTTTTATTGTATTAACCCTTATTTGCTTTCAGAG-TTTCGTTCTCACAAAGAAAA
1 TTTTAAAAATTTTCTATTGTAGTAACCATTATTTGCTTTCAGAGTTTTCGTTATCACAAAGAAAA
* * *
4963254 CTAGGTACATTAATCTACAATTATTATTGTTTCATTAGC
66 CCAGATACATAAATCTACAATTATTATTGTTTCATTAGC
4963293 TTATTTTTAT
Statistics
Matches: 86, Mismatches: 17, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
108 49 0.57
109 37 0.43
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.45
Consensus pattern (109 bp):
TTTTAAAAATTTTCTATTGTAGTAACCATTATTTGCTTTCAGAGTTTTCGTTATCACAAAGAAAA
CCAGATACATAAATCTACAATTATTATTGTTTCATTAGCCTAAC
Found at i:4963731 original size:27 final size:29
Alignment explanation
Indices: 4963671--4963745 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
4963661 AAATCATAAG
* * *
4963671 AAAATATTTAATATCATATTTAAATTTAA
1 AAAATTTTTAATATAATATTTAAATGTAA
4963700 AAAATTTTTAATATAATATTTAAA-GT-A
1 AAAATTTTTAATATAATATTTAAATGTAA
*
4963727 TAAATTTATTAAT-TAATAT
1 AAAATTT-TTAATATAATAT
4963746 AATATTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 13 0.32
28 6 0.15
29 22 0.54
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (29 bp):
AAAATTTTTAATATAATATTTAAATGTAA
Found at i:4965215 original size:4 final size:4
Alignment explanation
Indices: 4965200--4965229 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
4965190 TTTGTGAAAT
4965200 TTAA TATAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA T-TAA TTAA TTAA TTAA TTAA TTAA T
4965230 GTTATTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:4969374 original size:14 final size:14
Alignment explanation
Indices: 4969348--4969393 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
4969338 CGCTGCCCTG
4969348 TTTTT-TTGCTTTC
1 TTTTTCTTGCTTTC
*
4969361 TTTTTCTTGTTTTC
1 TTTTTCTTGCTTTC
4969375 TTTTTCTTGACTTT-
1 TTTTTCTTG-CTTTC
4969389 TTTTT
1 TTTTT
4969394 TAGTTTTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 5 0.17
14 21 0.72
15 3 0.10
ACGTcount: A:0.02, C:0.13, G:0.07, T:0.78
Consensus pattern (14 bp):
TTTTTCTTGCTTTC
Found at i:4969805 original size:2 final size:2
Alignment explanation
Indices: 4969798--4969833 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4969788 TGCCATTTGA
4969798 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4969834 TTTACTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4975874 original size:23 final size:24
Alignment explanation
Indices: 4975838--4975882 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
4975828 ACACATTGAT
4975838 TTATCTAACTTTTTACTATTTATA
1 TTATCTAACTTTTTACTATTTATA
* *
4975862 TTATC-AATTTTTTATTATTTA
1 TTATCTAACTTTTTACTATTTA
4975883 AATAATTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (24 bp):
TTATCTAACTTTTTACTATTTATA
Found at i:4977461 original size:21 final size:22
Alignment explanation
Indices: 4977437--4977489 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
4977427 TTCGAAATTA
4977437 ATAAAATATTA-TTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
4977458 ATAAAATATTATTTTTTTAAAT
1 ATAAAATATTATTTTTTTAAAT
4977480 ATAAATATAT
1 ATAAA-ATAT
4977490 ATAAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 11 0.37
22 15 0.50
23 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATAAAATATTATTTTTTTAAAT
Found at i:4980429 original size:21 final size:21
Alignment explanation
Indices: 4980405--4980454 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4980395 GACCACTAGC
4980405 GGTCAAGGTA-AGGATGAAGAG
1 GGTCAAGGTAGAGGA-GAAGAG
* *
4980426 GGTCAGGGTAGAGGAGATGAG
1 GGTCAAGGTAGAGGAGAAGAG
4980447 GGTCAAGG
1 GGTCAAGG
4980455 CAGCTAGGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.32, C:0.06, G:0.48, T:0.14
Consensus pattern (21 bp):
GGTCAAGGTAGAGGAGAAGAG
Found at i:4989222 original size:15 final size:15
Alignment explanation
Indices: 4989204--4989233 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4989194 TATTATTATA
4989204 ATATAATTTATAATT
1 ATATAATTTATAATT
4989219 ATATAATTTATAATT
1 ATATAATTTATAATT
4989234 GAAATTAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATAATTTATAATT
Found at i:4989758 original size:12 final size:12
Alignment explanation
Indices: 4989741--4989767 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
4989731 TTGATACTTT
4989741 CTTGATTATAAA
1 CTTGATTATAAA
4989753 CTTGATTATAAA
1 CTTGATTATAAA
4989765 CTT
1 CTT
4989768 CCGGAGGTTT
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:0.37, C:0.11, G:0.07, T:0.44
Consensus pattern (12 bp):
CTTGATTATAAA
Found at i:4992767 original size:173 final size:172
Alignment explanation
Indices: 4992525--4992874 Score: 404
Period size: 173 Copynumber: 2.0 Consensus size: 172
4992515 GGTATTATTT
* ** *
4992525 TATTCTAAATAATTTTGTATGAATAGAAACAATTATTTTATAATAAAACAAAATGTCATAACAAT
1 TATTCCAAATAAACTTGTATGAATAGAAACAATTATTTTATAACAAAACAAAATGTCATAACAAT
* * * *
4992590 TTGAAATAAATAACAGTTCAAATAG-ACATGACTATTTAAACTTATTCGGTAAACAGATTTATTT
66 TTGAAATAAATAACAGTTCAAATAGAACA--ACTATTTAAACTTACTCGATAAACAAATTTATTA
*
4992654 TTTAAAT-CTCTAACATATTAATTTTTAG-AATAATAATAAATTAG
129 TTTAAATACTCTAA-ATATTAA-TTTTAGAAATAATAATAAATTAA
* * * *
4992698 TATTCCAAATAAACTTGTGTGAATATAAACAATTGTTTTATGACAAAACAAAA-GATCATAA-AG
1 TATTCCAAATAAACTTGTATGAATAGAAACAATTATTTTATAACAAAACAAAATG-TCATAACA-
* ** * *
4992761 ATTTGAAATATATAATTGTTCAAATAGTAACAACTATTTGAACTTGCTCGATAAACAAATTTATT
64 ATTTGAAATAAATAACAGTTCAAATAG-AACAACTATTTAAACTTACTCGATAAACAAATTTATT
* * * *
4992826 ATTTAAATATTTTAATTATTAATTTTAGAAATATTAATAAATTAA
128 ATTTAAATACTCTAAATATTAATTTTAGAAATAATAATAAATTAA
4992871 TATT
1 TATT
4992875 ATTTTATTTT
Statistics
Matches: 149, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
172 8 0.05
173 134 0.90
174 4 0.03
175 3 0.02
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (172 bp):
TATTCCAAATAAACTTGTATGAATAGAAACAATTATTTTATAACAAAACAAAATGTCATAACAAT
TTGAAATAAATAACAGTTCAAATAGAACAACTATTTAAACTTACTCGATAAACAAATTTATTATT
TAAATACTCTAAATATTAATTTTAGAAATAATAATAAATTAA
Found at i:4993100 original size:179 final size:180
Alignment explanation
Indices: 4992728--4993158 Score: 492
Period size: 179 Copynumber: 2.4 Consensus size: 180
4992718 GAATATAAAC
* * * * *
4992728 AATTGTTTTATGACAAAACAAA-AGATCATAAAGATTTGAAATATATAATTGTTCAAATAGTAAC
1 AATTATTTTATGACAAAACAAATAG-TCATAATGATTTGAAATAGATAATTGTTCAAATAGTCAT
* * *
4992792 AACTATTTGAACTTGCTCGATAAACAAATTTATTATTTAAATATTTTAATTATTAATTTTAGAAA
65 AACTA-TTGAAATTGCTCAAAAAACAAATTTATTATTTAAATATTTTAATTATTAATTTTAGAAA
* * * *
4992857 TATTAATAAATTAATATTATTTTATTTTGAATAAGCTTGTATGAATATAAAT
129 TATTAATAAATTAATAATATTTTATTTTGAATAAGCTTGCATGAACAGAAAT
* * *
4992909 AATTAGTTTATGACAAAACAAATTGTCATAATGATTTGAAATAGATAATTGTTCACATAGTCATA
1 AATTATTTTATGACAAAACAAATAGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * * * * * *
4992974 ACTATT-AAATGTGTTCAAAAAACATATTTGTTTTTTAAAT-TTTTATTTATTAATTTTTGAAGT
66 ACTATTGAAAT-TGCTCAAAAAACAAATTTATTATTTAAATATTTTAATTATTAATTTTAGAAAT
* * *
4993037 TTTAATAAATTTATAATATTTTA-TTTGAAATAAGCTTGCATGAACAGAACT
130 ATTAATAAATTAATAATATTTTATTTTG-AATAAGCTTGCATGAACAGAAAT
* * * * * * * * *
4993088 AATTATTTTATGATAAAACAAATGGTAATGATGTTTTGAAATAGATAACTATTTAGATAGTCATA
1 AATTATTTTATGACAAAACAAATAGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATA
4993153 ACTATT
66 ACTATT
4993159 TGAACTTATT
Statistics
Matches: 212, Mismatches: 35, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
178 4 0.02
179 123 0.58
180 25 0.12
181 59 0.28
182 1 0.00
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (180 bp):
AATTATTTTATGACAAAACAAATAGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATA
ACTATTGAAATTGCTCAAAAAACAAATTTATTATTTAAATATTTTAATTATTAATTTTAGAAATA
TTAATAAATTAATAATATTTTATTTTGAATAAGCTTGCATGAACAGAAAT
Found at i:4993473 original size:19 final size:18
Alignment explanation
Indices: 4993449--4993495 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
4993439 TATTTACAAA
4993449 ACTATTTCAAATAATTAT
1 ACTATTTCAAATAATTAT
*
4993467 GACTATTT-GAATAATTAT
1 -ACTATTTCAAATAATTAT
4993485 -CTATTTCAAAT
1 ACTATTTCAAAT
4993496 TGTTTTTACC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 6 0.24
17 3 0.12
18 9 0.36
19 7 0.28
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (18 bp):
ACTATTTCAAATAATTAT
Found at i:4994020 original size:181 final size:178
Alignment explanation
Indices: 4993454--4994099 Score: 617
Period size: 181 Copynumber: 3.6 Consensus size: 178
4993444 ACAAAACTAT
* * * *
4993454 TTCAAATAATTATGACTATTTGAATAATTATCTATTTCAAATTGTTTTTACCTTTTGTTTTGTCA
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCA
* * * * *
4993519 TAAAA-AAATGTTTTTATTCATATAAGTTTATTTGAAATAAAAATAATAT-TAATTTATTAATAT
66 TAAAATAATTGTTTTTATTCATACAAGCTTA-TTCAAA-ATAAATAAT-TCTAATTTATTAATAT
* * *
4993582 TTCAAAAATTAATACGTAAGAGATTTAAAAAAT-AATTCTGTTTGCTATACCAG
128 TT-AAAAATTAATAAGTAAGAGATTTAAAAAATGAA-TCTGTTTCCGA-ACCAG
* * * * * * *
4993635 TTTAATTAGTTATAACTATTT-AACCAAATATTTATTTCAAATCGTTATGACCATTTGTTTT-TC
1 TTCAAATAATTATGACTATTTGAA-CAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGT-
* * * * * * *
4993698 CATAAAATAATTGTTTCTGTTCATATAATCTTATTTAGAATAAAGTAATGCTAATTTATTAATAT
64 CATAAAATAATTGTTTTTATTCATACAAGCTTATTCAAAATAAA-TAATTCTAATTTATTAATA-
* * *
4993763 TTTAAAAATTAATAAGTAATG-GATTTAGAAAATGTATCT-TTTGGCTTG-ACCAG
127 TTTAAAAATTAATAAGTAA-GAGATTTAAAAAATGAATCTGTTT--C-CGAACCAG
* * * * *
4993816 TGCAAACAATCATGACCATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTCTCA
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCA
* * * * *
4993881 CAAAACAATTATTTTTGTTCATACAAACTTATTCAAAATAACATAATTCTAATTTATTAATATTC
66 TAAAATAATTGTTTTTATTCATACAAGCTTATTCAAAATAA-ATAATTCTAATTTATTAATATT-
* *
4993946 TAAAAATTAATAAGTGAGAGATTTAAAAAATGAATCTGTTTACCGAACAAG
129 TAAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTGTTT-CCGAACCAG
* * * * * * *
4993997 TTCAAATAATTATGGCTATTTGAACAACTATCTAGTTCAAATTGCTATAACCTTTTGTATTGTCA
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCA
*
4994062 TAAAATAATT-TTTTCTATTTATACAAGCTTATTTCAAA
66 TAAAATAATTGTTTT-TATTCATACAAGCTTA-TTCAAA
4994100 TCTATTTACC
Statistics
Matches: 376, Mismatches: 69, Indels: 39
0.78 0.14 0.08
Matches are distributed among these distances:
180 18 0.05
181 320 0.85
182 38 0.10
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (178 bp):
TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCA
TAAAATAATTGTTTTTATTCATACAAGCTTATTCAAAATAAATAATTCTAATTTATTAATATTTA
AAAATTAATAAGTAAGAGATTTAAAAAATGAATCTGTTTCCGAACCAG
Found at i:4994954 original size:27 final size:27
Alignment explanation
Indices: 4994892--4994954 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
4994882 CCAATTTCCC
*
4994892 AACCAACCTCTTCAAAACCAGATTCGT
1 AACCAACCTCTTCAAAACCAAATTCGT
* * * *
4994919 AATCAACCTTTTCAAAACTAAATTCTT
1 AACCAACCTCTTCAAAACCAAATTCGT
*
4994946 AACCCACCT
1 AACCAACCT
4994955 AGCCTATCAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.32, G:0.03, T:0.27
Consensus pattern (27 bp):
AACCAACCTCTTCAAAACCAAATTCGT
Found at i:4998175 original size:3 final size:3
Alignment explanation
Indices: 4998134--4998158 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4998124 CCAAAAAGTT
4998134 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
4998159 CGCAGCTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:5001127 original size:22 final size:23
Alignment explanation
Indices: 5001102--5001156 Score: 94
Period size: 22 Copynumber: 2.4 Consensus size: 23
5001092 CCCAAAATTA
5001102 ATAAAATATTATTTTTT-TAAAT
1 ATAAAATATTATTTTTTATAAAT
5001124 ATAAAATATTATTTTTTATAAAT
1 ATAAAATATTATTTTTTATAAAT
5001147 ATATAAATAT
1 ATA-AAATAT
5001157 ATATAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 17 0.55
23 8 0.26
24 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
ATAAAATATTATTTTTTATAAAT
Found at i:5004737 original size:16 final size:15
Alignment explanation
Indices: 5004712--5004753 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
5004702 TTAAATTTTT
* *
5004712 ATTATTTTTTTAATTA
1 ATTATATTTTTAA-AA
5004728 ATTATATTTTTAAAA
1 ATTATATTTTTAAAA
5004743 ATT-TATTTTTA
1 ATTATATTTTTA
5004754 TCAACTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 8 0.33
15 4 0.17
16 12 0.50
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTATATTTTTAAAA
Found at i:5004826 original size:30 final size:29
Alignment explanation
Indices: 5004782--5004854 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 29
5004772 AATGAAAGGG
5004782 TTAATTAA-AAAAATAAATATTTAAAAAT
1 TTAATTAATAAAAATAAATATTTAAAAAT
*
5004810 TTAATTAAATAAAAATAAATATTTAAAGAT
1 TTAATT-AATAAAAATAAATATTTAAAAAT
*
5004840 TTAATTGAATTAAAA
1 TTAATT-AATAAAAA
5004855 CAAAAAATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.15
29 2 0.05
30 32 0.80
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (29 bp):
TTAATTAATAAAAATAAATATTTAAAAAT
Found at i:5010777 original size:10 final size:11
Alignment explanation
Indices: 5010757--5010782 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
5010747 CAGATGGAGC
5010757 TTTTTCTTTTT
1 TTTTTCTTTTT
5010768 TTTTTCTTTTT
1 TTTTTCTTTTT
5010779 TTTT
1 TTTT
5010783 AATCTAGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:5011290 original size:27 final size:28
Alignment explanation
Indices: 5011228--5011281 Score: 92
Period size: 27 Copynumber: 1.9 Consensus size: 28
5011218 TACTACCAAA
5011228 TACAGCTACCAAAAAAAAAAAAAGAACCT
1 TACAGCTACC-AAAAAAAAAAAAGAACCT
5011257 TACAGCTACC-AAAAAAAAAAAGAAC
1 TACAGCTACCAAAAAAAAAAAAGAAC
5011282 TTTGAAGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 15 0.60
29 10 0.40
ACGTcount: A:0.63, C:0.20, G:0.07, T:0.09
Consensus pattern (28 bp):
TACAGCTACCAAAAAAAAAAAAGAACCT
Found at i:5013300 original size:3 final size:3
Alignment explanation
Indices: 5013292--5013326 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
5013282 AAAAAGTTAA
*
5013292 AAT AAT AAT AAT AAT AAT AAT AAT CAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
5013327 CGCAGCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:5018037 original size:17 final size:17
Alignment explanation
Indices: 5018015--5018049 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5018005 TAAGATGGGA
*
5018015 AATAGAAAGGAAAAAAT
1 AATAGAAAAGAAAAAAT
*
5018032 AATAGAAAAGAGAAAAT
1 AATAGAAAAGAAAAAAT
5018049 A
1 A
5018050 GACAATAGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.11
Consensus pattern (17 bp):
AATAGAAAAGAAAAAAT
Found at i:5018453 original size:2 final size:2
Alignment explanation
Indices: 5018448--5018482 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5018438 AAAAAGAAAA
5018448 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
5018483 CCGGAAACCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:5020523 original size:35 final size:35
Alignment explanation
Indices: 5020478--5023376 Score: 386
Period size: 35 Copynumber: 82.4 Consensus size: 35
5020468 AACGATCAAT
*
5020478 AAAAAA-AAAAACGATCAGGATTAAATTACGAGTC
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* * * * **
5020512 AAAAAATAAAAA-TAACAAAGATTAAATAATAAGTC
1 AAAAAATAAAAACGATC-AGGATTAAATCACGAGTC
** **
5020547 AAAAAATAAAAATAATCAAAATTAAATCACGAGT-
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* ** ** *
5020581 AAAAAA-AAAAATGACTGGGGGATTAAATCACGTCTT
1 AAAAAATAAAAACGA-T-CAGGATTAAATCACGAGTC
* * * * *
5020617 AAAAAATAAAAAACAATC-GAAATTAAACCACAAATC
1 AAAAAAT-AAAAACGATCAG-GATTAAATCACGAGTC
* * * * *
5020653 AAAAAATATAAACGATCAAGATTAAACCATGAGTA
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* **
5020688 AAAAAATAAAAATGATCAAAATTAAAT--C-A--C
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* * *
5020718 --AAAATAAAAACGA-CAACGATTAAACCA-GAAGTT
1 AAAAAATAAAAACGATC-AGGATTAAATCACG-AGTC
* * * * *
5020751 AAAAAATAAAAA-GACCCGAATTAAACCACGAGTT
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* * * * *
5020785 AGAAAATGAAAATGAAC-GAGATTAAATTACGAGTC
1 AAAAAATAAAAACGATCAG-GATTAAATCACGAGTC
* ** * *
5020820 AAAAAATGAAAACGATCAAAATTAAATAATGAGTC
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* * * * * *
5020855 AAAAAATGAACATGA-CTGGGTTTAAATCACAAGTC
1 AAAAAATAAAAACGATC-AGGATTAAATCACGAGTC
* * * * *** *
5020890 AAAAAATGAAAACAACCGGGATTAAATCGTAAGTT
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* * * *
5020925 AGAAAATGAAAAACAAT-TGGAATTAAACCACGAGTC
1 AAAAAAT-AAAAACGATCAGG-ATTAAATCACGAGTC
** * * *
5020961 AGGAAATAAAAACAATC-GAGATTAAATCACAAGTG
1 AAAAAATAAAAACGATCAG-GATTAAATCACGAGTC
* * * * * *
5020996 AGAAAATGAAAATGATCAAGATTAAACCACGAGTT
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* * ** * *
5021031 AGAAAATGAAAACGATTGGGATTTAA-CTACAAGTC
1 AAAAAATAAAAACGATCAGGATTAAATC-ACGAGTC
* ** * * *
5021066 AGAAAATAAAAATTAAT-TGAGATTAAACCACAAGT-
1 AAAAAATAAAAA-CGATCAG-GATTAAATCACGAGTC
* * **
5021101 AAGAAAATTAAAACAATCAAAATTAAATCACGAGTC
1 AA-AAAATAAAAACGATCAGGATTAAATCACGAGTC
* * ** *
5021137 AGAGAA-AAAAATAATCAGGATTAAATCA-TAGATC
1 AAAAAATAAAAACGATCAGGATTAAATCACGAG-TC
* *
5021171 AAAAAATAAAAATGA-CTAAGATTAAA-CTACGAGTC
1 AAAAAATAAAAACGATC-AGGATTAAATC-ACGAGTC
* ** **
5021206 -AGAAATAAAAACGATCAAAATTAAATCATAAGTC
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* * *
5021240 AGAAAATAAAAATGA-CAGAAATTAAATCACGAGTC
1 AAAAAATAAAAACGATCAG-GATTAAATCACGAGTC
* * *
5021275 -AAAAATGAAAACAATC-GAGATTAAACCACGAGTC
1 AAAAAATAAAAACGATCAG-GATTAAATCACGAGTC
* * * *
5021309 AAAAAATAAAAAATGATC-GAAATTAAACCACAAGTC
1 AAAAAAT-AAAAACGATCAG-GATTAAATCACGAGTC
* * * * *
5021345 AGAAAATCAAAACTATCA-AATTTAAATCATGAGTC
1 AAAAAATAAAAACGATCAGGA-TTAAATCACGAGTC
* * * * * *
5021380 AGAGAGA-AAAAATGATCAAGATT-AATCATGGGTC
1 A-AAAAATAAAAACGATCAGGATTAAATCACGAGTC
* * * * * * * * *
5021414 AGAAAATGAAAGCAATCCGAATTAAACCAAGAGTT
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* * * *
5021449 AGAAAATGAAAATGA-CCGAGATTAAA-CTACGAGT-
1 AAAAAATAAAAACGATCAG-GATTAAATC-ACGAGTC
* ** *
5021483 ---AAA-AAAAATGATC-GAGATTAAATCATTAGTT
1 AAAAAATAAAAACGATCAG-GATTAAATCACGAGTC
* * ** * *** **
5021514 AGAGAATAAAAGTGA-CCGAGATTAGGCCATAAGTC
1 AAAAAATAAAAACGATCAG-GATTAAATCACGAGTC
* * *
5021549 AAAAAATTAAAACGATC-GAGATTAAACCACAAGTC
1 AAAAAATAAAAACGATCAG-GATTAAATCACGAGTC
* *
5021584 AAAAAATAAAAAATGATCAGGATTAAA-CTATGAGAT-
1 AAAAAAT-AAAAACGATCAGGATTAAATC-ACGAG-TC
* * * ** * *
5021620 AGAAAATGAAAAC-AACAAAAACTAAAACCACGAGTC
1 AAAAAATAAAAACGATC-AGGA-TTAAATCACGAGTC
* * *
5021656 AAAAAATGAAAAATGA-CGGGATTAAACCA-GAGTC
1 AAAAAAT-AAAAACGATCAGGATTAAATCACGAGTC
* * * *
5021690 AAAAAATGAAAACAATC-GAGATTAAACCATGAGTC
1 AAAAAATAAAAACGATCAG-GATTAAATCACGAGTC
* * * *
5021725 AAAAAATGAAAATGATC-GATATTAAATCACAAGTC
1 AAAAAATAAAAACGATCAG-GATTAAATCACGAGTC
** * * * *
5021760 -AGGAA-AAAAATGAT-TGAGATTAAACCATGAGTC
1 AAAAAATAAAAACGATCAG-GATTAAATCACGAGTC
* * *
5021793 AGAAAATAAAAACAATC-GAGATTAAATTACGAGTC
1 AAAAAATAAAAACGATCAG-GATTAAATCACGAGTC
* * * * *
5021828 AAAAAATAAAAACAACCAAGATT-AACCA-GAAGTT
1 AAAAAATAAAAACGATCAGGATTAAATCACG-AGTC
* ** * *
5021862 AAAAAATAAAAATGA-CTAAAATTAAACCTCGAGT-
1 AAAAAATAAAAACGATC-AGGATTAAATCACGAGTC
*
5021896 AAGAAAATGAAAAACGATCAAGATTAAATCAC-ATGTC
1 AA-AAAAT-AAAAACGATCAGGATTAAATCACGA-GTC
* * * * * **
5021933 AAAAAATGAAAATGA-CCGAGATTAAACCATGAGGA
1 AAAAAATAAAAACGATCAG-GATTAAATCACGAGTC
* * * ** *
5021968 AAAAAATAAAAACATAAAAATGACCAAGATTAAATAATAAGTT
1 AAAAAATAAAAAC--------GATCAGGATTAAATCACGAGTC
* * * *
5022011 AGAAAATGAAAACAACCCA-GATTAAA-CTACGAGTC
1 AAAAAATAAAAACGA-TCAGGATTAAATC-ACGAGTC
** * * ** * *
5022046 ATGAAATGAAAATGATCAAAATTAAACCATGA-TC
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* * *
5022080 AGAAAATAAAAATGATCAGGATTAAACCATC-AGTC
1 AAAAAATAAAAACGATCAGGATTAAATCA-CGAGTC
* * * *
5022115 AAAAATAAAAAAATGA-CTGAGATT-AACCACGAGTC
1 AAAAA-ATAAAAACGATCAG-GATTAAATCACGAGTC
* * ** * *
5022150 AAAAAATGAAAACTATTGGGATTAAACCATGAGTC
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* * * * *
5022185 ACAAAATGAAAAC-AACTGAGATTAAA-CAACAAGTC
1 AAAAAATAAAAACGATCAG-GATTAAATC-ACGAGTC
* *
5022220 AGAAAATGAAACAAC--CCA-GATTAAATCACGAGTC
1 AAAAAAT-AAA-AACGATCAGGATTAAATCACGAGTC
* ** *
5022254 AAAAAATGAAAATAATC-GAGATTAAACCATC-AGTC
1 AAAAAATAAAAACGATCAG-GATTAAATCA-CGAGTC
* * * * * *
5022289 AAAATA-AAAAAGGCTGA-GATTAAACCACAAGTC
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* * * * *
5022322 AAAAAATGAAAACGAT-TGAAATTATACCACGAGTC
1 AAAAAATAAAAACGATCAG-GATTAAATCACGAGTC
* * * ** * * ** *
5022357 AAAAAATGAAAACAACCAAAAAATGAAA-AAAAATGAC
1 AAAAAATAAAAACGATC--AGGATTAAATCACGA-GTC
** * * * * * *
5022394 TGAAATTAAACAATGAGTCAGAAAATGAATATGAC-AGGTTT
1 AAAAAATAAA-AACGA-TCAG--GATTAA-ATCACGA-G-TC
* * * * *
5022435 AAATCACGAGTCAAAAAATGAAAATAACTGGGATTAAAGCACAAGTC
1 AAA--A--AAT--AAAAACG---AT--C-AGGATTAAATCACGAGTC
** * * * * *
5022482 AGGAAATGAAAAACAACCAAGATTAAATCATGAGTG
1 AAAAAAT-AAAAACGATCAGGATTAAATCACGAGTC
* * * * *
5022518 AAAAAATGAAAACGA-CTA-TATT-TACCATGAGTC
1 AAAAAATAAAAACGATC-AGGATTAAATCACGAGTC
* * * **
5022551 AGAAAATAAAAATGACCAGGATTAAA-CTGTGAGTC
1 AAAAAATAAAAACGATCAGGATTAAATC-ACGAGTC
* * * * *
5022586 AAAAGATGAATACGACCAGGATTAAATCACGAGTT
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* * * *
5022621 AAAAAATGAAAATGA-CTATGATTAAAGCACGAGTC
1 AAAAAATAAAAACGATC-AGGATTAAATCACGAGTC
* * *
5022656 AAAAAATGAAAAAC-AACTGGCATTAAAATCACGAGTT
1 AAAAAAT-AAAAACGATCAGG-ATT-AAATCACGAGTC
* * * * * * * * *
5022693 AGACAATGAAAACAACCA-TATTTAAACCATGAGTT
1 AAAAAATAAAAACGATCAGGA-TTAAATCACGAGTC
* * * * * * * *
5022728 AGAAAATGAAAGC-AACTAAGATTAAACCATGAGTT
1 AAAAAATAAAAACGATC-AGGATTAAATCACGAGTC
* * * ** *
5022763 AGAAAATGAAAATGATTGGGATTAAACCATC-AGTC
1 AAAAAATAAAAACGATCAGGATTAAATCA-CGAGTC
* * *
5022798 AAAAAAAATAAAAATGATCAAGATTAAA-CTATGAGTC
1 --AAAAAATAAAAACGATCAGGATTAAATC-ACGAGTC
* * * * * *
5022835 AAAAAATGAAAAA-AAACCGAGATTAAACCATGAGTT
1 AAAAAAT-AAAAACGATCAG-GATTAAATCACGAGTC
* * * * *
5022871 AAAAAATAAAAATGACCTA-GATTAAACCACAAATC
1 AAAAAATAAAAACGATC-AGGATTAAATCACGAGTC
* * **
5022906 AAAAAATAAAAACGACCAAGATTAAATCACGTCTC
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* * * *
5022941 AAAAAATAAAAATGAT-TGAAATTAAATCAAGAGTC
1 AAAAAATAAAAACGATCAG-GATTAAATCACGAGTC
*
5022976 AAAAAATAAAAATC-A-CAGGGATTAAATCATGAGTC
1 AAAAAATAAAAA-CGATCA-GGATTAAATCACGAGTC
* * *
5023011 AAAAAATAAAAACAAT-AAGATTAAACCACGAGTC
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* * ** * *
5023045 AAAAAATGAAAACGATTA-GAACAAATCATGAATC
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* * * ** *
5023079 AAAAAATGAAAACGA-CTGAGATTAAACCATAAGTT
1 AAAAAATAAAAACGATCAG-GATTAAATCACGAGTC
* * *** * *
5023114 AGAAAATGAAAGTAACCAGGATTAAACCACGAGTC
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* * * * *
5023149 AAAAAA-AGGAATAC-AACTAGGTTTAAATTACGAGTT
1 AAAAAATA--AAAACGATC-AGGATTAAATCACGAGTC
* * ** * *
5023185 AAGAAATAACAATAACCGGGATTAAATCACGAGTC
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
* * *
5023220 AACAAATGAAGAACAATC-GGAATTAAATCACGAGTC
1 AAAAAAT-AAAAACGATCAGG-ATTAAATCACGAGTC
* * ** *
5023256 CAAAAATGAAAATAATCAAGATTAAA-CTACGAGTC
1 AAAAAATAAAAACGATCAGGATTAAATC-ACGAGTC
* * * * *
5023291 AAAAAATGAAAATGACTCA-GATTAAAACACTAGTT
1 AAAAAATAAAAACGA-TCAGGATTAAATCACGAGTC
* * ** *
5023326 AGAAAATAAAAATGATCAAAATTAAATCATGAGTC
1 AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
*
5023361 AAAAAAAGAAAAACGA
1 -AAAAAATAAAAACGA
5023377 CCGGGCTTAA
Statistics
Matches: 2116, Mismatches: 544, Indels: 408
0.69 0.18 0.13
Matches are distributed among these distances:
27 1 0.00
28 19 0.01
30 20 0.01
31 6 0.00
32 4 0.00
33 83 0.04
34 354 0.17
35 1142 0.54
36 330 0.16
37 76 0.04
38 10 0.00
39 8 0.00
40 3 0.00
41 2 0.00
42 5 0.00
43 27 0.01
44 1 0.00
45 3 0.00
46 4 0.00
47 5 0.00
48 5 0.00
49 6 0.00
50 1 0.00
51 1 0.00
ACGTcount: A:0.55, C:0.13, G:0.14, T:0.19
Consensus pattern (35 bp):
AAAAAATAAAAACGATCAGGATTAAATCACGAGTC
Found at i:5021063 original size:70 final size:71
Alignment explanation
Indices: 5020946--5021356 Score: 249
Period size: 69 Copynumber: 5.9 Consensus size: 71
5020936 AACAATTGGA
* * * * *
5020946 ATTAAACCACGAGTCAGGAAATAAAAACAATCGAGATTAAATCACAAGTGAGAAAATGAAAA-TG
1 ATTAAACCACGAGTAAGAAAATAAAAACAATCGAGATTAAATCACAAGTCAGAAAATAAAAATTA
5021010 ATCAAG
66 ATCAAG
* * * * * *
5021016 ATTAAACCACGAGTTAGAAAATGAAAACGATTGGGATTTAA-CTACAAGTCAGAAAATAAAAATT
1 ATTAAACCACGAGTAAGAAAATAAAAACAATCGAGATTAAATC-ACAAGTCAGAAAATAAAAATT
**
5021080 AATTGAG
65 AATCAAG
* * * * * *
5021087 ATTAAACCACAAGTAAGAAAATTAAAACAATCAAAATTAAATCACGAGTCAGAGAA-AAAAA-TA
1 ATTAAACCACGAGTAAGAAAATAAAAACAATCGAGATTAAATCACAAGTCAGAAAATAAAAATTA
*
5021150 ATCAGG
66 ATCAAG
* * ** * *
5021156 ATTAAATCA-TAGATCAA-AAAATAAAAATGA-CTAAGATTAAA-CTACGAGTCAG-AAATAAAA
1 ATTAAACCACGAG-T-AAGAAAATAAAAACAATC-GAGATTAAATC-ACAAGTCAGAAAATAAAA
** *
5021216 A-CGATCAAA
62 ATTAATCAAG
* ** * ** * * * *
5021225 ATTAAATCATAAGTCAGAAAATAAAAATGA-CAGAAATTAAATCACGAGTCA-AAAATGAAAA-C
1 ATTAAACCACGAGTAAGAAAATAAAAACAATC-GAGATTAAATCACAAGTCAGAAAATAAAAATT
*
5021287 AATCGAG
65 AATCAAG
* * *
5021294 ATTAAACCACGAGTCAA-AAAATAAAAA-ATGATCGAAATTAAACCACAAGTCAGAAAATCAAAA
1 ATTAAACCACGAGT-AAGAAAATAAAAACA--ATCGAGATTAAATCACAAGTCAGAAAATAAAAA
5021357 CTATCAAATT
Statistics
Matches: 270, Mismatches: 54, Indels: 33
0.76 0.15 0.09
Matches are distributed among these distances:
68 7 0.03
69 124 0.46
70 80 0.30
71 58 0.21
72 1 0.00
ACGTcount: A:0.55, C:0.12, G:0.13, T:0.19
Consensus pattern (71 bp):
ATTAAACCACGAGTAAGAAAATAAAAACAATCGAGATTAAATCACAAGTCAGAAAATAAAAATTA
ATCAAG
Found at i:5021195 original size:69 final size:67
Alignment explanation
Indices: 5021120--5021948 Score: 226
Period size: 69 Copynumber: 12.0 Consensus size: 67
5021110 AAAACAATCA
*
5021120 AAATTAAATCACGAGTCAGAGAAAAAAATAATCAGGATTAAATCATAGA-TCAAAAAATAAAAAT
1 AAATTAAATCACGAGTCAGA-AAAAAAACAATCAGGATTAAATCATAGAGTCAAAAAATAAAAAT
5021184 GAC
65 GAC
* ** *
5021187 TAAGATTAAA-CTACGAGTCAGAAATAAAAACGATCAAAATTAAATCATA-AGTCAGAAAATAAA
1 -AA-ATTAAATC-ACGAGTCAGAAA-AAAAACAATCAGGATTAAATCATAGAGTCAAAAAATAAA
5021250 AATGAC
62 AATGAC
* *
5021256 AGAAATTAAATCACGAGTCA-AAAATGAAAACAATC-GAGATTAAACCA-CGAGTCAAAAAATAA
1 --AAATTAAATCACGAGTCAGAAAA--AAAACAATCAG-GATTAAATCATAGAGTCAAAAAAT-A
5021318 AAAATGATC
60 AAAATGA-C
* * * * * *
5021327 GAAATTAAACCACAAGTCAGAAAATCAAAACTATCA-AATTTAAATCAT-GAGTCAGAGAGA-AA
1 -AAATTAAATCACGAGTCAGAAAA--AAAACAATCAGGA-TTAAATCATAGAGTCA-AAAAATAA
5021389 AAATGATC
61 AAATGA-C
* * * * * * * * *
5021397 AAGATT-AATCATGGGTCAGAAAATGAAAGCAATCCGAATTAAACCA-AGAGTTAGAAAATGAAA
1 AA-ATTAAATCACGAGTCAGAAAA--AAAACAATCAGGATTAAATCATAGAGTCAAAAAATAAAA
5021460 ATGACC
63 ATGA-C
* ** * * * *
5021466 GAGATTAAA-CTACGAGT---AAAAAAAATGATC-GAGATTAAATCAT-TAGTTAGAGAATAAAA
1 -AAATTAAATC-ACGAGTCAGAAAAAAAACAATCAG-GATTAAATCATAGAGTCAAAAAATAAAA
*
5021525 GTGACC
63 ATGA-C
* *** ** * * * *
5021531 GAGATTAGGCCATAAGTCAAAAAATTAAAACGATC-GAGATTAAACCACA-AGTCAAAAAATAAA
1 -AAATTAAATCACGAGTCAGAAAA--AAAACAATCAG-GATTAAATCATAGAGTCAAAAAAT-AA
5021594 AAATGATC
61 AAATGA-C
* * ** * * *
5021602 AGGATTAAA-CTATGAGAT-AGAAAATGAAAACAA-CAAAAACTAAAACCA-CGAGTCAAAAAAT
1 A-AATTAAATC-ACGAG-TCAGAAAA--AAAACAATC-AGGA-TTAAATCATAGAGTCAAAAAAT
5021663 GAAAAATGAC
59 -AAAAATGAC
** * * * *
5021673 GGGATTAAACCA-GAGTCAAAAAATGAAAACAATC-GAGATTAAACCAT-GAGTCAAAAAATGAA
1 -AAATTAAATCACGAGTCAGAAAA--AAAACAATCAG-GATTAAATCATAGAGTCAAAAAATAAA
5021735 AATGATC
62 AATGA-C
* * * ** * * *
5021742 GATATTAAATCACAAGTCAGGAAAAAAATGAT-TGAGATTAAACCAT-GAGTCAGAAAATAAAAA
1 -AAATTAAATCACGAGTCAGAAAAAAAACAATCAG-GATTAAATCATAGAGTCAAAAAATAAAAA
**
5021805 CAATC
64 TGA-C
* * * * * * * *
5021810 GAGATTAAATTACGAGTCAAAAAATAAAAACAACCAAGATT-AACCAGA-AGTTAAAAAATAAAA
1 -AAATTAAATCACGAGTC-AGAAA-AAAAACAATCAGGATTAAATCATAGAGTCAAAAAATAAAA
5021873 ATGAC
63 ATGAC
* * * * * * * *
5021878 TAAAATTAAACCTCGAGTAAGAAAATGAAAAACGATCAAGATTAAATCACA-TGTCAAAAAATGA
1 --AAATTAAATCACGAGTCAG-AAA--AAAAACAATCAGGATTAAATCATAGAGTCAAAAAATAA
5021942 AAATGAC
61 AAATGAC
5021949 CGAGATTAAA
Statistics
Matches: 585, Mismatches: 118, Indels: 113
0.72 0.14 0.14
Matches are distributed among these distances:
64 1 0.00
65 43 0.07
66 1 0.00
67 5 0.01
68 76 0.13
69 208 0.36
70 131 0.22
71 89 0.15
72 31 0.05
ACGTcount: A:0.55, C:0.12, G:0.14, T:0.19
Consensus pattern (67 bp):
AAATTAAATCACGAGTCAGAAAAAAAACAATCAGGATTAAATCATAGAGTCAAAAAATAAAAATG
AC
Found at i:5021420 original size:105 final size:104
Alignment explanation
Indices: 5020945--5022369 Score: 398
Period size: 104 Copynumber: 13.6 Consensus size: 104
5020935 AAACAATTGG
* * * * * * * *
5020945 AATTAAACCACGAGTCAGGAAAT-AAAAACAATCGAGATTAAATCACAAGTGAGAAAATGAAAAT
1 AATTAAATCACGAGTCA-AAAATGAAAAA-AATCAAGATTAAACCACGAGTCAGAAAATAAAAAC
* * * * * ** *
5021009 GATCAAGATTAAACCACGAGTTAGAAAATGAAAACGATTGG
64 GATCAAAATTAAACCACAAGTCAGAAAATAAAAATGACAGA
* * * ** * * *
5021050 GATTTAA-CTACAAGTCAGAAAAT-AAAAATTAATTGAGATTAAACCACAAGTAAGAAAATTAAA
1 AATTAAATC-ACGAGTCA-AAAATGAAAAA--AATCAAGATTAAACCACGAGTCAGAAAATAAAA
* * * * *
5021113 ACAATCAAAATTAAATCACGAGTCAGAGAA-AAAAATAATCAG-
62 ACGATCAAAATTAAACCACAAGTCAGAAAATAAAAATGA-CAGA
* * * *
5021155 GATTAAATCA-TAGATCAAAAA--ATAAAAATGACTAAGATTAAACTACGAGTCAG-AAATAAAA
1 AATTAAATCACGAG-TCAAAAATGAAAAAAAT--C-AAGATTAAACCACGAGTCAGAAAATAAAA
* *
5021216 ACGATCAAAATTAAATCATAAGTCAGAAAATAAAAATGACAGA
62 ACGATCAAAATTAAACCACAAGTCAGAAAATAAAAATGACAGA
* * * *
5021259 AATTAAATCACGAGTCAAAAATGAAAACAATCGAGATTAAACCACGAGTCAAAAAATAAAAAATG
1 AATTAAATCACGAGTCAAAAATGAAAAAAATCAAGATTAAACCACGAGTCAGAAAAT-AAAAACG
* *
5021324 ATCGAAATTAAACCACAAGTCAGAAAATCAAAACT-ATCA-A
65 ATCAAAATTAAACCACAAGTCAGAAAAT-AAAAATGA-CAGA
* * * * * * * * *
5021364 ATTTAAATCATGAGTCAGAGA-GAAAAAATGATCAAGATT-AATCATGGGTCAGAAAATGAAAGC
1 AATTAAATCACGAGTCAAAAATGAAAAAA--ATCAAGATTAAACCACGAGTCAGAAAATAAAAAC
* ** * * *
5021427 AATCCGAATTAAACCA-AGAGTTAGAAAATGAAAATGACCGA
64 GATCAAAATTAAACCACA-AGTCAGAAAATAAAAATGACAGA
* ** * * ** * * **
5021468 GATTAAA-CTACGAGT--AAAA--AAAATGATCGAGATTAAATCATTAGTTAGAGAATAAAAGTG
1 AATTAAATC-ACGAGTCAAAAATGAAAAAAATCAAGATTAAACCACGAGTCAGAAAATAAAAACG
* * * ** * * * *
5021528 ACCGAGATTAGGCCATAAGTCAAAAAATTAAAACGATC-GA
65 ATCAAAATTAAACCACAAGTCAGAAAATAAAAATGA-CAGA
* * * * * * *
5021568 GATTAAACCACAAGTCAAAAAAT-AAAAAATGATCAGGATTAAACTATGAGAT-AGAAAATGAAA
1 AATTAAATCACGAGTC-AAAAATGAAAAAA--ATCAAGATTAAACCACGAG-TCAGAAAATAAAA
* * * * *
5021631 AC-AACAAAAACTAAAACCACGAGTCAAAAAATGAAAAATGAC-GG
62 ACGATC-AAAA-TTAAACCACAAGTCAGAAAAT-AAAAATGACAGA
* * * * * * * *
5021675 GATTAAACCA-GAGTCAAAAAATGAAAACAATCGAGATTAAACCATGAGTCAAAAAATGAAAATG
1 AATTAAATCACGAGTC-AAAAATGAAAAAAATCAAGATTAAACCACGAGTCAGAAAATAAAAACG
* * * * **
5021739 ATCGATATTAAATCACAAGTCAG-GAA-AAAAATGATTGA
65 ATCAAAATTAAACCACAAGTCAGAAAATAAAAATGACAGA
* * * * ** *
5021777 GATTAAACCATGAGTCAGAAAAT-AAAAACAATCGAGATTAAATTACGAGTCAAAAAATAAAAAC
1 AATTAAATCACGAGTCA-AAAATGAAAAA-AATCAAGATTAAACCACGAGTCAGAAAATAAAAAC
* * * * * *
5021841 AACCAAGATT-AACCAGAAGTTAAAAAATAAAAATGACTA-A
64 GATCAAAATTAAACCACAAGTCAGAAAATAAAAATGAC-AGA
* * * * * * *
5021881 AATTAAACCTCGAGTAAGAAAATGAAAAACGATCAAGATTAAATCAC-ATGTCAAAAAATGAAAA
1 AATTAAATCACGAGTCA-AAAATGAAAAA-AATCAAGATTAAACCACGA-GTCAGAAAATAAAAA
* * * * ** ** * * *
5021945 TGACCGAGATTAAACCATGAGGAAAAAAATAAAAACATAAAAATGACCA
63 CGATCAAAATTAAACCACAAGTCAGAAAAT-AAAA-AT-GACA-G---A
* ** * * * * * *
5021994 AGATTAAATAATAAGTTAGAAAATGAAAACAACCCAGATTAAACTACGAGTCATG-AAATGAAAA
1 A-ATTAAATCACGAGTCA-AAAATGAAAAAAATCAAGATTAAACCACGAGTCA-GAAAATAAAAA
* **
5022058 TGATCAAAATTAAACCATGA-TCAGAAAATAAAAATGATCAG-
63 CGATCAAAATTAAACCACAAGTCAGAAAATAAAAATGA-CAGA
* * * * *
5022099 GATTAAACCATC-AGTCAAAAAT-AAAAAAATGACTGAGATT-AACCACGAGTCAAAAAATGAAA
1 AATTAAATCA-CGAGTCAAAAATGAAAAAAAT--C-AAGATTAAACCACGAGTCAGAAAATAAAA
* **** ** * * ** *
5022161 ACTATTGGGATTAAACCATGAGTCACAAAATGAAAACAACTGA
62 ACGATCAAAATTAAACCACAAGTCAGAAAATAAAAATGACAGA
* * * * * * * * *
5022204 GATTAAA-CAACAAGTCAGAAAATG-AAACAACCCAGATTAAATCACGAGTCAAAAAATGAAAAT
1 AATTAAATC-ACGAGTCA-AAAATGAAAAAAATCAAGATTAAACCACGAGTCAGAAAATAAAAAC
* * * * * *
5022267 AATCGAGATTAAACCATC-AGTC--AAAATAAAAAAGGCTGA
64 GATCAAAATTAAACCA-CAAGTCAGAAAATAAAAATGACAGA
* * * * * * * * *
5022306 GATTAAACCACAAGTCAAAAAATGAAAACGATTGAA-ATTATACCACGAGTCAAAAAATGAAAAC
1 AATTAAATCACGAGTC-AAAAATGAAAA-AAATCAAGATTAAACCACGAGTCAGAAAATAAAAAC
5022370 AACCAAAAAA
Statistics
Matches: 1013, Mismatches: 228, Indels: 160
0.72 0.16 0.11
Matches are distributed among these distances:
99 8 0.01
100 56 0.06
101 18 0.02
102 66 0.07
103 158 0.16
104 233 0.23
105 207 0.20
106 138 0.14
107 38 0.04
108 9 0.01
109 3 0.00
110 3 0.00
111 4 0.00
112 6 0.01
113 44 0.04
114 22 0.02
ACGTcount: A:0.54, C:0.13, G:0.14, T:0.19
Consensus pattern (104 bp):
AATTAAATCACGAGTCAAAAATGAAAAAAATCAAGATTAAACCACGAGTCAGAAAATAAAAACGA
TCAAAATTAAACCACAAGTCAGAAAATAAAAATGACAGA
Found at i:5021440 original size:243 final size:244
Alignment explanation
Indices: 5020925--5021447 Score: 608
Period size: 243 Copynumber: 2.1 Consensus size: 244
5020915 ATCGTAAGTT
** * *
5020925 AGAAAATGAAAAACAATTGGAATTAAACCACGAGTCAGGAAATAAAAACAATCGAGATTAAATCA
1 AGAAAATG--AAACAATCCGAATTAAACCACGAGTCAGGAAATAAAAACAATCAAAATTAAATCA
* * * * * * * *
5020990 CAAGTGAGAAAATGAAAATGATCAAGATTAAACCACGAGTTAGAAAATGAAAACGATTGGGATTT
64 CAAGTCAGAAAATAAAAATGATCAAAATTAAACCACGAGTCAGAAAATGAAAACAATCGAGATTA
* * * * * *
5021055 AACTACAAGTCAGAAAATAAAAATTAATTGAGATTAAACCACAAGTAAGAAAATTAAAACAATCA
129 AACCACAAGTCAAAAAATAAAAAATAATCGAAATTAAACCACAAGTAAGAAAATCAAAACAATCA
*
5021120 AAATTAAATCACGAGTCAGAGAAAAAAATAATCAGGATTAAATCATAGATC
194 AAATTAAATCACGAGTCAGAGAAAAAAATAATCAAGATTAAATCATAGATC
* ** * *
5021171 AAAAAAT-AAA-AATGACTAAGATTAAACTACGAGTCA-GAAATAAAAACGATCAAAATTAAATC
1 AGAAAATGAAACAAT--CCGA-ATTAAACCACGAGTCAGGAAATAAAAACAATCAAAATTAAATC
* *
5021233 ATAAGTCAGAAAATAAAAATGA-CAGAAATTAAATCACGAGTCA-AAAATGAAAACAATCGAGAT
63 ACAAGTCAGAAAATAAAAATGATCA-AAATTAAACCACGAGTCAGAAAATGAAAACAATCGAGAT
* * * *
5021296 TAAACCACGAGTCAAAAAATAAAAAATGATCGAAATTAAACCACAAGTCAGAAAATCAAAACTAT
127 TAAACCACAAGTCAAAAAATAAAAAATAATCGAAATTAAACCACAAGTAAGAAAATCAAAACAAT
* * * * *
5021361 CAAATTTAAATCATGAGTCAGAGAGAAAAAATGATCAAGATT-AATCATGGGTC
192 CAAAATTAAATCACGAGTCAGAGA-AAAAAATAATCAAGATTAAATCATAGATC
*
5021414 AGAAAATGAAAGCAATCCGAATTAAACCAAGAGT
1 AGAAAATGAAA-CAATCCGAATTAAACCACGAGT
5021448 TAGAAAATGA
Statistics
Matches: 230, Mismatches: 39, Indels: 19
0.80 0.14 0.07
Matches are distributed among these distances:
242 3 0.01
243 125 0.54
244 78 0.34
245 15 0.07
246 9 0.04
ACGTcount: A:0.54, C:0.12, G:0.14, T:0.19
Consensus pattern (244 bp):
AGAAAATGAAACAATCCGAATTAAACCACGAGTCAGGAAATAAAAACAATCAAAATTAAATCACA
AGTCAGAAAATAAAAATGATCAAAATTAAACCACGAGTCAGAAAATGAAAACAATCGAGATTAAA
CCACAAGTCAAAAAATAAAAAATAATCGAAATTAAACCACAAGTAAGAAAATCAAAACAATCAAA
ATTAAATCACGAGTCAGAGAAAAAAATAATCAAGATTAAATCATAGATC
Found at i:5021659 original size:72 final size:70
Alignment explanation
Indices: 5021572--5021704 Score: 187
Period size: 72 Copynumber: 1.9 Consensus size: 70
5021562 GATCGAGATT
* *
5021572 AAACCACAAGTCAAAAAATAAAAAATGATCAGGATTAAACTATGAGAT-AGAAAATGAAAACAAC
1 AAACCACAAGTCAAAAAATAAAAAATGA-CAGGATTAAACCA-GAG-TCAAAAAATGAAAACAAC
5021636 AAAAACTA
63 AAAAACTA
* * *
5021644 AAACCACGAGTCAAAAAATGAAAAATGACGGGATTAAACCAGAGTCAAAAAATGAAAACAA
1 AAACCACAAGTCAAAAAATAAAAAATGACAGGATTAAACCAGAGTCAAAAAATGAAAACAA
5021705 TCGAGATTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
69 1 0.02
70 17 0.31
71 11 0.20
72 26 0.47
ACGTcount: A:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (70 bp):
AAACCACAAGTCAAAAAATAAAAAATGACAGGATTAAACCAGAGTCAAAAAATGAAAACAACAAA
AACTA
Done.