Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 27 of 218
Found at i:8843526 original size:503 final size:502
Alignment explanation
Indices: 8842559--8843547 Score: 1261
Period size: 503 Copynumber: 2.0 Consensus size: 502
8842549 AAAGTACGTT
* * *
8842559 AAGTATTAGTGGCGTTTTAACATAAAACGCCAGAAACAATGCAATTTGAGAGTAACAAAACGGCG
1 AAGTATTAGTGGCGTTTTAACATAAAACGCCAGAAAAAATGCAATTAGAGACTAACAAAACGGCG
* * * * * *
8842624 CCGTTTCTGTTTACGACTTTAAATATTTGTGGCGTTTTTGGCAAAACACCGGAACTTTGGAAGCA
66 CCGTTCCTCTTTACAACTTTAAATATTTGTGGCGTTTTTGGCAAAACACCAGAAATGTGGAAGCA
* * * * *
8842689 ATAGCGGCGTTTGTACAGTAAACGCCGCAAAAGGGTATTAAAATAATGTCTAAACGGCACCGTTT
131 ATAACGGCGTTTGTACAGAAAACGCAGCAAAAGGGTATTAAAATAATGGCTAAACGACACCGTTT
* * **
8842754 CTGTACACGATTTTTAACTTAAAGAAATTTTAGAATTATTTATTTAAAACATCACCGTTTGGGTT
196 CCGTAAACGATTTTTAACTTAAAGAAATTTTAGAATTATTTATTTAAAACATCACCGTTTGACTT
* * * *
8842819 AAAGTAAATTAAGTATTAATAGCGTTTTTACATAAAACACTAGAAATAATGCAATTTGAGACTAA
261 AAAGTAAATTAAGTATTAATAGCGTTTTTACATAAAACACCACAAAAAATGCAATTTCAGACTAA
* *
8842884 CAAAACGGCGCCGTTTCCCTTTACAACTTTAATATTTAGTGGCATTTTTAGGAAAACGCCGAAAA
326 CAAAACAGCGCCGTTTCCCTTTACAACTTTAATATATAGTGGCATTTTTAGGAAAACGCCGAAAA
* * * *
8842949 TGTGGAATCAATAGTGGCGTTTTTATAGTAAATGCCGCAAAAGGGTATTAGAGTAATGGGTAAAC
391 TGTGGAATCAATAGTGGCGTTTTTAGAG-AAATACCGCAAAAGGGTATTAGAATAATGGCTAAAC
** ** *
8843014 GGTGCCGTTTCTGTGTACGATTTTTAACTTAGAAAAATTTTAGAAATC
455 GACGCCGTTTCTCCGGACGATTTTTAACTTAGAAAAATTTTAGAAATC
* *
8843062 AAGTATTAGTGGCGTTTTTACGTAAAACGCCAGAAAAAATGCAATTAGAGACTAACAAAACGGCG
1 AAGTATTAGTGGCGTTTTAACATAAAACGCCAGAAAAAATGCAATTAGAGACTAACAAAACGGCG
* * *
8843127 TCGTTCCTCTTTACAACTTT-AATATTTAGTGGCGTTTTTAGG-AAAACGCCAGAAATGTGTAAG
66 CCGTTCCTCTTTACAACTTTAAATATTT-GTGGCGTTTTT-GGCAAAACACCAGAAATGTGGAAG
* * * * *
8843190 TAATAACGGCGTTTGTACTGAAAATGCAGCAAAAGGGTATTAAAGTAATGGCTAAACGACGCCGT
129 CAATAACGGCGTTTGTACAGAAAACGCAGCAAAAGGGTATTAAAATAATGGCTAAACGACACCGT
*
8843255 TTCCGTAAACGATTTTTAACTTAGAA-AAATTTTAGAATTATTTATTTAAAACGTCACCGTTTGA
194 TTCCGTAAACGATTTTTAACTTA-AAGAAATTTTAGAATTATTTATTTAAAACATCACCGTTTGA
* * * * *
8843319 CTTAAAGTAAATTAAGTGTTAGTGGCGTTTTTACATTAAACGCCACAAAAAATGCAATTTCAGAC
258 CTTAAAGTAAATTAAGTATTAATAGCGTTTTTACATAAAACACCACAAAAAATGCAATTTCAGAC
* ** * * * * **
8843384 TAACAGAACAGCGCCGTTTCTGTTTACAAGTTTAATCTATCGTGGCGTTTTGTCTGAAAACGCCG
323 TAACAAAACAGCGCCGTTTCCCTTTACAACTTTAATATATAGTGGCATTTT-TAGGAAAACGCCG
* * * * ** *
8843449 GAAATGTGGAAT-AAGTA-TGGCGTTTGTTCGAG-AATCACCGCAAATGTGTATTAGAATTTTTG
387 AAAATGTGGAATCAA-TAGTGGCGTTT-TTAGAGAAAT-ACCGCAAAAGGGTATTAGAATAATGG
* *
8843511 CTGAACGACGCCGTTTCTCCGGACGTTTTTTAACTTA
449 CTAAACGACGCCGTTTCTCCGGACGATTTTTAACTTA
8843548 TCATTTACTC
Statistics
Matches: 412, Mismatches: 67, Indels: 14
0.84 0.14 0.03
Matches are distributed among these distances:
502 10 0.02
503 370 0.90
504 32 0.08
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (502 bp):
AAGTATTAGTGGCGTTTTAACATAAAACGCCAGAAAAAATGCAATTAGAGACTAACAAAACGGCG
CCGTTCCTCTTTACAACTTTAAATATTTGTGGCGTTTTTGGCAAAACACCAGAAATGTGGAAGCA
ATAACGGCGTTTGTACAGAAAACGCAGCAAAAGGGTATTAAAATAATGGCTAAACGACACCGTTT
CCGTAAACGATTTTTAACTTAAAGAAATTTTAGAATTATTTATTTAAAACATCACCGTTTGACTT
AAAGTAAATTAAGTATTAATAGCGTTTTTACATAAAACACCACAAAAAATGCAATTTCAGACTAA
CAAAACAGCGCCGTTTCCCTTTACAACTTTAATATATAGTGGCATTTTTAGGAAAACGCCGAAAA
TGTGGAATCAATAGTGGCGTTTTTAGAGAAATACCGCAAAAGGGTATTAGAATAATGGCTAAACG
ACGCCGTTTCTCCGGACGATTTTTAACTTAGAAAAATTTTAGAAATC
Found at i:8844098 original size:60 final size:60
Alignment explanation
Indices: 8844027--8844150 Score: 223
Period size: 60 Copynumber: 2.1 Consensus size: 60
8844017 GTGAATTTTG
* *
8844027 TGAATTTTGGTTACAGTGTGTGAGGGATTTAGGTATAATTTGTTTATTTAGCAGTTGCCC
1 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
8844087 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
1 TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
8844147 -GAAT
1 TGAAT
8844151 GAATTTTGTG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 4 0.06
60 58 0.94
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.42
Consensus pattern (60 bp):
TGAATTTTGGTTACAGTGTATGAGGGATTTAGGTATAAATTGTTTATTTAGCAGTTGCCC
Found at i:8844215 original size:13 final size:13
Alignment explanation
Indices: 8844191--8844231 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
8844181 ATTTTGTGAG
*
8844191 ATTTTCTAAATGA
1 ATTTTCTTAATGA
8844204 ATTTT-TTGAATGA
1 ATTTTCTT-AATGA
8844217 ATTTTCTTAATGA
1 ATTTTCTTAATGA
8844230 AT
1 AT
8844232 ATAGTAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 1 0.04
13 22 0.88
14 2 0.08
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (13 bp):
ATTTTCTTAATGA
Found at i:8844581 original size:23 final size:23
Alignment explanation
Indices: 8844529--8844581 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
8844519 TCTTCATTTT
* *
8844529 TTTGCT-TGCATTTCTTTGCTTA
1 TTTGCTCTACATTTCTTCGCTTA
8844551 TCTT-CTCTACATTTCTTCGCTTA
1 T-TTGCTCTACATTTCTTCGCTTA
8844574 TTTGCTCT
1 TTTGCTCT
8844582 TTGTTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.09, C:0.25, G:0.09, T:0.57
Consensus pattern (23 bp):
TTTGCTCTACATTTCTTCGCTTA
Found at i:8845772 original size:50 final size:47
Alignment explanation
Indices: 8845653--8845772 Score: 122
Period size: 51 Copynumber: 2.4 Consensus size: 47
8845643 CAATATTTAT
8845653 TATAT-TTTTTAATATA-TTTTTAAAATTTAATTTAACTTATTACTAA
1 TATATATTTTTAATATATTTTTTAAAATTTAATTTAACTTATTAC-AA
*
8845699 TATATATTGTTAATATATAATTTTTTAAAATTTATATCTT-ACATTACTTA-AA
1 TATATATT-TTTA-ATAT-ATTTTTTAAAATTTA-AT-TTAAC-TTA-TTACAA
8845751 TATATATTTTTAAGTATATTTT
1 TATATATTTTTAA-TATATTTT
8845773 ACATTACTTA
Statistics
Matches: 62, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
46 5 0.08
47 2 0.03
48 3 0.05
49 4 0.06
50 7 0.11
51 19 0.31
52 14 0.23
53 5 0.08
54 3 0.05
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (47 bp):
TATATATTTTTAATATATTTTTTAAAATTTAATTTAACTTATTACAA
Found at i:8845823 original size:13 final size:13
Alignment explanation
Indices: 8845807--8845905 Score: 83
Period size: 13 Copynumber: 7.5 Consensus size: 13
8845797 TTACTAAAAT
*
8845807 TTACTTTAATATA
1 TTACTTAAATATA
*
8845820 TTACTTGAATATA
1 TTACTTAAATATA
*
8845833 TTACTTAAATAAA
1 TTACTTAAATATA
*
8845846 TTACTTAAATACA
1 TTACTTAAATATA
* *
8845859 TCACTTACTAAAAT-
1 TTACTTA--AATATA
** *
8845873 TTGGTTAAATTTA
1 TTACTTAAATATA
*
8845886 TTACTTAAATACA
1 TTACTTAAATATA
8845899 TTACTTA
1 TTACTTA
8845906 CTAAAATTTA
Statistics
Matches: 67, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
12 3 0.04
13 57 0.85
14 4 0.06
15 3 0.04
ACGTcount: A:0.41, C:0.11, G:0.03, T:0.44
Consensus pattern (13 bp):
TTACTTAAATATA
Found at i:8845881 original size:40 final size:40
Alignment explanation
Indices: 8845837--8845914 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
8845827 AATATATTAC
8845837 TTAAATAAATTACTTAAATACATCACTTACTAAAATTTGG
1 TTAAATAAATTACTTAAATACATCACTTACTAAAATTTGG
** *
8845877 TTAAATTTATTACTTAAATACATTACTTACTAAAATTT
1 TTAAATAAATTACTTAAATACATCACTTACTAAAATTT
8845915 AAGTATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.42
Consensus pattern (40 bp):
TTAAATAAATTACTTAAATACATCACTTACTAAAATTTGG
Found at i:8845938 original size:9 final size:9
Alignment explanation
Indices: 8845924--8846272 Score: 179
Period size: 9 Copynumber: 40.4 Consensus size: 9
8845914 TAAGTATATA
*
8845924 TTACATTAC
1 TTACATAAC
8845933 TTACATAAC
1 TTACATAAC
8845942 TTACATAA-
1 TTACATAAC
8845950 -TACATAAC
1 TTACATAAC
*
8845958 TCT-GATAAC
1 T-TACATAAC
*
8845967 TAACAT-A-
1 TTACATAAC
*
8845974 -TACACAAC
1 TTACATAAC
8845982 TTACATAA-
1 TTACATAAC
* *
8845990 -GACATTAC
1 TTACATAAC
8845998 TTACATAAC
1 TTACATAAC
*
8846007 TTACATTA-
1 TTACATAAC
8846015 -TACATAAC
1 TTACATAAC
*
8846023 TTACATAAT
1 TTACATAAC
*** *
8846032 TTTTTTAATAT
1 TTACAT-A-AC
8846043 TATACATAAC
1 T-TACATAAC
* *
8846053 ATACATTA-
1 TTACATAAC
8846061 -TACATAAC
1 TTACATAAC
8846069 TTACATAAC
1 TTACATAAC
8846078 -T-CATAAC
1 TTACATAAC
8846085 TTACATAAC
1 TTACATAAC
*
8846094 TTA-ATTAC
1 TTACATAAC
**
8846102 ATTATGCA-CCC
1 -TTA--CATAAC
8846113 TTTACATAAC
1 -TTACATAAC
8846123 TTACATAAC
1 TTACATAAC
* *
8846132 TTACACAGC
1 TTACATAAC
*
8846141 TTACAT-TC
1 TTACATAAC
*
8846149 -TACACAAC
1 TTACATAAC
8846157 TTACATAAC
1 TTACATAAC
* *
8846166 ATACATTAC
1 TTACATAAC
**
8846175 TTTGATAAC
1 TTACATAAC
8846184 TTACATAAC
1 TTACATAAC
8846193 TTACATAA-
1 TTACATAAC
*
8846201 -TACACAAC
1 TTACATAAC
*
8846209 TTACATAGC
1 TTACATAAC
*
8846218 TTACTTAA-
1 TTACATAAC
8846226 -TACATAAC
1 TTACATAAC
8846234 TTACATAAC
1 TTACATAAC
8846243 TT--ATACAC
1 TTACATA-AC
*
8846251 GTACATAAC
1 TTACATAAC
*
8846260 TTACATAAT
1 TTACATAAC
8846269 TTAC
1 TTAC
8846273 TTAATAAATA
Statistics
Matches: 254, Mismatches: 54, Indels: 64
0.68 0.15 0.17
Matches are distributed among these distances:
6 3 0.01
7 50 0.20
8 12 0.05
9 171 0.67
10 7 0.03
11 8 0.03
12 3 0.01
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.35
Consensus pattern (9 bp):
TTACATAAC
Found at i:8845954 original size:25 final size:24
Alignment explanation
Indices: 8845925--8845989 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 24
8845915 AAGTATATAT
* *
8845925 TACATTACTTACATAACTTACATAA
1 TACATAACTTACATAACTAACAT-A
*
8845950 TACATAACTCT-GATAACTAACATA
1 TACATAACT-TACATAACTAACATA
*
8845974 TACACAACTTACATAA
1 TACATAACTTACATAA
8845990 GACATTACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
23 1 0.03
24 13 0.39
25 18 0.55
26 1 0.03
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.31
Consensus pattern (24 bp):
TACATAACTTACATAACTAACATA
Found at i:8846007 original size:25 final size:25
Alignment explanation
Indices: 8845974--8846030 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
8845964 AACTAACATA
* *
8845974 TACACAACTTACATAAGACATTACT
1 TACATAACTTACATAAGACATAACT
* *
8845999 TACATAACTTACATTATACATAACT
1 TACATAACTTACATAAGACATAACT
8846024 TACATAA
1 TACATAA
8846031 TTTTTTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.32
Consensus pattern (25 bp):
TACATAACTTACATAAGACATAACT
Found at i:8846018 original size:16 final size:16
Alignment explanation
Indices: 8845999--8846106 Score: 77
Period size: 16 Copynumber: 7.1 Consensus size: 16
8845989 AGACATTACT
8845999 TACATAACTTACATTA
1 TACATAACTTACATTA
8846015 TACATAACTTACA-TA
1 TACATAACTTACATTA
* *** *
8846030 -A-TTTTTTTAATATTA
1 TACATAACTT-ACATTA
*
8846045 TACATAACATACATTA
1 TACATAACTTACATTA
*
8846061 TACATAACTTACATAA
1 TACATAACTTACATTA
8846077 CT-CATAACTTACA-TA
1 -TACATAACTTACATTA
*
8846092 -ACTTAA-TTACATTA
1 TACATAACTTACATTA
8846106 T
1 T
8846107 GCACCCTTTA
Statistics
Matches: 69, Mismatches: 15, Indels: 17
0.68 0.15 0.17
Matches are distributed among these distances:
13 8 0.12
14 9 0.13
15 5 0.07
16 44 0.64
17 3 0.04
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.40
Consensus pattern (16 bp):
TACATAACTTACATTA
Found at i:8846152 original size:25 final size:26
Alignment explanation
Indices: 8846124--8846283 Score: 132
Period size: 25 Copynumber: 6.3 Consensus size: 26
8846114 TTACATAACT
* * *
8846124 TACATAACTTACACAGCTTACATT-C
1 TACATAACTTACATAACTTACATTAA
* * *
8846149 TACACAACTTACATAACATACATTACT
1 TACATAACTTACATAACTTACATTA-A
**
8846176 TTGATAACTTACATAACTTACA-TAA
1 TACATAACTTACATAACTTACATTAA
* *
8846201 TACACAACTTACATAGCTTAC-TTAA
1 TACATAACTTACATAACTTACATTAA
* * *
8846226 TACATAACTTACATAACTTATA-CACG
1 TACATAACTTACATAACTTACATTA-A
*
8846252 TACATAACTTACATAATTTAC-TTAA
1 TACATAACTTACATAACTTACATTAA
*
8846277 TAAATAA
1 TACATAA
8846284 ATATATATCA
Statistics
Matches: 105, Mismatches: 24, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
25 65 0.62
26 22 0.21
27 18 0.17
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (26 bp):
TACATAACTTACATAACTTACATTAA
Found at i:8846221 original size:34 final size:33
Alignment explanation
Indices: 8846114--8846268 Score: 109
Period size: 34 Copynumber: 4.5 Consensus size: 33
8846104 TATGCACCCT
* *
8846114 TTACATAACTTACATAACTTACACAGCTTACATTC
1 TTACATAACTTACATAA--TACACAACTTACATAC
* ** **
8846149 -TACACAACTTACATAACATACATTACTTTGATAAC
1 TTACATAACTTACAT-A-ATACACAACTTACAT-AC
8846184 TTACATAACTTACATAATACACAACTTACATAGC
1 TTACATAACTTACATAATACACAACTTACATA-C
* * * *
8846218 TTACTTAA--TACATAACTTACATAACTTATACAC
1 TTACATAACTTACATAA--TACACAACTTACATAC
*
8846251 GTACATAACTTACATAAT
1 TTACATAACTTACATAAT
8846269 TTACTTAATA
Statistics
Matches: 93, Mismatches: 18, Indels: 20
0.71 0.14 0.15
Matches are distributed among these distances:
32 7 0.08
33 9 0.10
34 53 0.57
35 10 0.11
36 14 0.15
ACGTcount: A:0.42, C:0.23, G:0.03, T:0.33
Consensus pattern (33 bp):
TTACATAACTTACATAATACACAACTTACATAC
Found at i:8852175 original size:114 final size:114
Alignment explanation
Indices: 8852042--8852521 Score: 692
Period size: 114 Copynumber: 4.2 Consensus size: 114
8852032 TATTTGCAAG
* *
8852042 CGCCGCAAAATATCTTAACCAAAACGCAGCGTTAGGTCTTGAGGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* * * *
8852107 TATGCAAAAATGCCGCTAAAGCACAGTATTAGGGGCACATTGTAAAAAA
66 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
*
8852156 CGCCGCAAAATATCTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* *
8852221 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGTATTATAAAAAG
66 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
* * *
8852270 CGCTGTAAAATATCTTAATCAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* * * *
8852335 TATGGAAAAACACCGCTAAAGCACAGTATTAGCAGCGCATTATACAAAA
66 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
* * ** *
8852384 CGCCGTAAAATATCTTAACCAAAACACAGTGTTTGGTCTTAAGGTATATTAGAATTAGTGGCGCT
1 CGCCGCAAAATATCTTAACCAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
* * * * * *
8852449 TATG-AAAAATGCCGCTAAATCACAGTATTAGCGGTGCTTTGTGAAAAA
66 TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
* *
8852497 TGTCGCAAAATATCTTAACCAAAAC
1 CGCCGCAAAATATCTTAACCAAAAC
8852522 AAAGTGTTTG
Statistics
Matches: 329, Mismatches: 37, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
113 57 0.17
114 272 0.83
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (114 bp):
CGCCGCAAAATATCTTAACCAAAACGCAGCATTTGGTCTTGAGGTATATTAGAATTAGTGGCGCT
TATGCAAAAACGCCGCTAAAGCACAGTATTAGCGGCGCATTATAAAAAA
Found at i:8853069 original size:7 final size:7
Alignment explanation
Indices: 8853046--8853121 Score: 59
Period size: 7 Copynumber: 11.0 Consensus size: 7
8853036 TATGATGTAA
8853046 GTTTA-G
1 GTTTAGG
8853052 GTTTA-G
1 GTTTAGG
8853058 GTTTAGG
1 GTTTAGG
*
8853065 GTTTAAG
1 GTTTAGG
*
8853072 GTTTGAGA
1 GTTT-AGG
*
8853080 GTTT-GAT
1 GTTTAG-G
*
8853087 GTTTAAG
1 GTTTAGG
*
8853094 GTTTGGG
1 GTTTAGG
8853101 GTTTAGG
1 GTTTAGG
*
8853108 GTTTGGG
1 GTTTAGG
8853115 GTTTAGG
1 GTTTAGG
8853122 CCACTTTAGT
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
6 12 0.22
7 38 0.69
8 5 0.09
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:8853075 original size:14 final size:14
Alignment explanation
Indices: 8853046--8853121 Score: 75
Period size: 14 Copynumber: 5.5 Consensus size: 14
8853036 TATGATGTAA
8853046 GTTTA-GGTTT-AG
1 GTTTAGGGTTTGAG
*
8853058 GTTTAGGGTTTAAG
1 GTTTAGGGTTTGAG
* *
8853072 GTTTGAGAGTTTGAT
1 GTTT-AGGGTTTGAG
* *
8853087 GTTTAAGGTTTGGG
1 GTTTAGGGTTTGAG
*
8853101 GTTTAGGGTTTGGG
1 GTTTAGGGTTTGAG
8853115 GTTTAGG
1 GTTTAGG
8853122 CCACTTTAGT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
12 5 0.09
13 5 0.09
14 32 0.60
15 11 0.21
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (14 bp):
GTTTAGGGTTTGAG
Found at i:8853725 original size:42 final size:42
Alignment explanation
Indices: 8853493--8853819 Score: 243
Period size: 42 Copynumber: 7.7 Consensus size: 42
8853483 ATAATTAAAA
* * * *
8853493 GCTAAAGAGCATGACC-ATAGCGGCGTTTGTTGAAAAAAACGCC
1 GCTAAAGAACATGACCTTTAGCGGCGTTT-TTG-AGAAAGCGCC
* *
8853536 GCTAAAGAACATTA-CTTGTAGCGGCGTTTGTG-GAAAAGGCGCC
1 GCTAAAGAACATGACCTT-TAGCGGCGTTTTTGAG-AAA-GCGCC
* * * * *
8853579 GCTAAAAGAACATGAGCTTTAGCGGTGTTTGTTG-GTATGCGTC
1 GCT-AAAGAACATGACCTTTAGCGGCGTTT-TTGAGAAAGCGCC
* ** ** * * * *
8853622 GATAAAGGTCATGTTCTTTAGCGGCGTTTGTCATAGAATCGCC
1 GCTAAAGAACATGACCTTTAGCGGCGTTTTTGAGA-AAGCGCC
* * *
8853665 ACTAAAGAACATTACCTTTAGCGGCGTTTCTGAGAAAGCGCC
1 GCTAAAGAACATGACCTTTAGCGGCGTTTTTGAGAAAGCGCC
**
8853707 GCTAAAGAACATGACCTTTAGCGGCGTTTTTTTTG-AAGCGCC
1 GCTAAAGAACATGACCTTTAGCGGCG-TTTTTGAGAAAGCGCC
* * ** *
8853749 ACTAAAGAACATGACCTTTAGCGACGTTTATTTTG-AAGCGCT
1 GCTAAAGAACATGACCTTTAGCGGCGTTT-TTGAGAAAGCGCC
*
8853791 ACTAAAGAACATGACCTTTAGCGGCGTTT
1 GCTAAAGAACATGACCTTTAGCGGCGTTT
8853820 ATTTCTGTAA
Statistics
Matches: 228, Mismatches: 45, Indels: 23
0.77 0.15 0.08
Matches are distributed among these distances:
41 4 0.02
42 125 0.55
43 61 0.27
44 32 0.14
45 6 0.03
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (42 bp):
GCTAAAGAACATGACCTTTAGCGGCGTTTTTGAGAAAGCGCC
Found at i:8857195 original size:3 final size:3
Alignment explanation
Indices: 8857189--8857219 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8857179 AAGAAGAGCT
8857189 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8857220 GTAACAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8857303 original size:5 final size:5
Alignment explanation
Indices: 8857293--8857326 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
8857283 TGGTTACCTG
*
8857293 AAAAT AAAAT AAAAT AAAAT AAATT AAAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA
8857327 GGTTGTCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:8864448 original size:29 final size:29
Alignment explanation
Indices: 8864391--8864448 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
8864381 GTGCTGGTGA
* *
8864391 TTACAGTTTTCAAGTATTATGTACCAGTG
1 TTACAGTTTTCAAGCATTATGTACAAGTG
* * *
8864420 TTACAGTTTTCAGGCATTCTGTGCAAGTG
1 TTACAGTTTTCAAGCATTATGTACAAGTG
8864449 ATATATTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.40
Consensus pattern (29 bp):
TTACAGTTTTCAAGCATTATGTACAAGTG
Found at i:8865544 original size:24 final size:25
Alignment explanation
Indices: 8865504--8865558 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
8865494 GTTAGATGAT
*
8865504 TAAAATAATTAAGAATT-AATTAAA
1 TAAAATAATTAAAAATTAAATTAAA
8865528 TAAAAT-ATTAAAAAATTAGAATTAAA
1 TAAAATAATT-AAAAATTA-AATTAAA
8865554 -AAAAT
1 TAAAAT
8865559 TAGGTTAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 3 0.11
24 12 0.44
25 5 0.19
26 7 0.26
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (25 bp):
TAAAATAATTAAAAATTAAATTAAA
Found at i:8865553 original size:14 final size:14
Alignment explanation
Indices: 8865502--8865579 Score: 50
Period size: 15 Copynumber: 5.3 Consensus size: 14
8865492 GGGTTAGATG
8865502 ATTAAAATAATTAAGA
1 ATTAAAA-AATT-AGA
* * *
8865518 ATTAATTAAATAAAA
1 ATTAA-AAAATTAGA
8865533 TATTAAAAAATTAGA
1 -ATTAAAAAATTAGA
8865548 ATTAAAAAAATTAG-
1 ATT-AAAAAATTAGA
* * *
8865562 GTTAAGAAATTAAA
1 ATTAAAAAATTAGA
8865576 ATTA
1 ATTA
8865580 GGTGTCTGGG
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
13 8 0.17
14 8 0.17
15 18 0.38
16 13 0.27
17 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (14 bp):
ATTAAAAAATTAGA
Found at i:8867017 original size:23 final size:23
Alignment explanation
Indices: 8866984--8867101 Score: 134
Period size: 23 Copynumber: 5.1 Consensus size: 23
8866974 TATGTTGAAA
8866984 GGTA-TATTGGTTGTGTTTGGAG
1 GGTATTATTGGTTGTGTTTGGAG
* *
8867006 GGTATTCTTGGTTGTGTTCGGAG
1 GGTATTATTGGTTGTGTTTGGAG
* *
8867029 GTTATATATATGGTTGTGTTCGGAG
1 GGTAT-TAT-TGGTTGTGTTTGGAG
8867054 GGTGATTA-TGGTTGTGTTTGGAG
1 GGT-ATTATTGGTTGTGTTTGGAG
* *
8867077 GGTA-GATTGGTTGTGTTTGGTG
1 GGTATTATTGGTTGTGTTTGGAG
8867099 GGT
1 GGT
8867102 GATAGCTTTA
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
21 1 0.01
22 22 0.27
23 37 0.45
24 2 0.02
25 19 0.23
26 2 0.02
ACGTcount: A:0.13, C:0.03, G:0.41, T:0.44
Consensus pattern (23 bp):
GGTATTATTGGTTGTGTTTGGAG
Found at i:8867054 original size:48 final size:47
Alignment explanation
Indices: 8866986--8867104 Score: 136
Period size: 48 Copynumber: 2.6 Consensus size: 47
8866976 TGTTGAAAGG
* *
8866986 TATATTGGTTGTGTTTGGAGGGT-ATTCTTGGTTGTGTTCGGAGGTTA
1 TATATTGGTTGTGTTCGGAGGGTGATT-ATGGTTGTGTTCGGAGGTTA
* *
8867033 TATATATGGTTGTGTTCGGAGGGTGATTATGGTTGTGTTTGGAGG--G
1 TATAT-TGGTTGTGTTCGGAGGGTGATTATGGTTGTGTTCGGAGGTTA
* * *
8867079 TAGATTGGTTGTGTTTGGTGGGTGAT
1 TATATTGGTTGTGTTCGGAGGGTGAT
8867105 AGCTTTATGC
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
45 19 0.30
46 4 0.06
47 5 0.08
48 32 0.51
49 3 0.05
ACGTcount: A:0.13, C:0.03, G:0.39, T:0.45
Consensus pattern (47 bp):
TATATTGGTTGTGTTCGGAGGGTGATTATGGTTGTGTTCGGAGGTTA
Found at i:8871795 original size:16 final size:16
Alignment explanation
Indices: 8871771--8871812 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
8871761 TTTGGTTCGC
* *
8871771 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
8871787 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
8871803 TGTAATGGAA
1 TGTAATGGAA
8871813 AAGCTGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:8872078 original size:18 final size:17
Alignment explanation
Indices: 8872057--8872091 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8872047 TTATTATTAA
*
8872057 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
8872075 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
8872092 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:8872099 original size:79 final size:79
Alignment explanation
Indices: 8872016--8872255 Score: 205
Period size: 79 Copynumber: 3.1 Consensus size: 79
8872006 TTATTATCAA
8872016 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
1 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
8872081 TTTAATAAAATTCT
66 TTTAATAAAATTCT
* * * **** * * *
8872095 TAATAATTAGCA-TAAAT-TTATTTTGGTA-AATTATTATT--GT-TATTGTT-ATTTAAAT-TT
1 TAATAAATA--ATTTAATCATATTTAAACATAATTATTATTAAATATATT-TTAATTAAAATATA
* * *
8872152 TAA--TAAGATTAATATCAA
63 TAATTTAATA-AAAT-TC-T
* * *
8872170 TAATAAATAATTTAATCATTTTTAAACATAATTATTATTAAATATATTATAATCAAAATATATAA
1 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
8872235 TTTAATAAAATTCT
66 TTTAATAAAATTCT
8872249 TAA-AAAT
1 TAATAAAT
8872256 TAATATTCTT
Statistics
Matches: 116, Mismatches: 29, Indels: 33
0.65 0.16 0.19
Matches are distributed among these distances:
72 4 0.03
73 4 0.03
74 10 0.09
75 24 0.21
76 13 0.11
78 16 0.14
79 27 0.23
80 10 0.09
81 4 0.03
82 4 0.03
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.46
Consensus pattern (79 bp):
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAA
TTTAATAAAATTCT
Found at i:8872234 original size:154 final size:156
Alignment explanation
Indices: 8871944--8872257 Score: 533
Period size: 154 Copynumber: 2.0 Consensus size: 156
8871934 TAGAATACCC
*
8871944 TTAGCAGAAATTTGTTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTATTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
* *
8872009 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATCAAAA
*
8872074 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAAAAA
* * *
8872101 TTAGCATAAATTTATTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTATTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
*
8872164 TATCAATAATAAATAATTTAATCATTTTTAAACATAATTATTATTAAATATATTATAATCAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATCAAAAT
8872229 ATATAATTTAATAAAATTCTTAAAAA
131 ATATAATTTAATAAAATTCTTAAAAA
8872255 TTA
1 TTA
8872258 ATATTCTTAT
Statistics
Matches: 149, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
154 90 0.60
155 1 0.01
157 58 0.39
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTATTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATCAAAAT
ATATAATTTAATAAAATTCTTAAAAA
Found at i:8872285 original size:61 final size:61
Alignment explanation
Indices: 8872220--8872413 Score: 161
Period size: 61 Copynumber: 3.2 Consensus size: 61
8872210 AATATATTAT
8872220 AATCAAAATATATAATTTAATAAAATTCTTAAAAATTAATATTCTTATATGAATTTACTCA
1 AATCAAAATATATAATTTAATAAAATTCTTAAAAATTAATATTCTTATATGAATTTACTCA
* * * * * * * * *
8872281 AATCATAATATATGATACT-GTAAAA----TATAAATTAACATAATTATTAT-TAAATATA-TTA
1 AATCAAAATATATAAT-TTAATAAAATTCTTAAAAATT-A-AT-ATTCTTATATGAATTTACTCA
* * *
8872339 TAATTAAAATATATAATTTAATAAAATTCTTAATAAA-TAAAATTCTTCTATGAATTTACTCA
1 -AATCAAAATATATAATTTAATAAAATTCTTAA-AAATTAATATTCTTATATGAATTTACTCA
*
8872401 AATCATAATATAT
1 AATCAAAATATAT
8872414 GATACTATAA
Statistics
Matches: 97, Mismatches: 23, Indels: 26
0.66 0.16 0.18
Matches are distributed among these distances:
57 7 0.07
58 4 0.04
59 26 0.27
60 13 0.13
61 37 0.38
62 4 0.04
63 3 0.03
64 3 0.03
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATCAAAATATATAATTTAATAAAATTCTTAAAAATTAATATTCTTATATGAATTTACTCA
Found at i:8872329 original size:120 final size:120
Alignment explanation
Indices: 8872194--8872485 Score: 441
Period size: 120 Copynumber: 2.4 Consensus size: 120
8872184 ATCATTTTTA
8872194 AACATAATTATTATTAAATATATTATAATCAAAATATATAATTTAATAAAATTCTTAA-AAATTA
1 AACATAATTATTATTAAATATATTATAAT-AAAATATATAATTTAATAAAATTCTTAATAAA-TA
* * *
8872258 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT-
64 AAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTTC
8872314 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAATAA
1 AACATAATTATTATTAAATATATTATAA-TAAAATATATAATTTAATAAAATTCTTAATAAATAA
*
8872379 AATTCTTCTATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTC
65 AATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTC
* * *
8872435 AA-ATAATTAATATTAAATATGATT-TAATTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATAT-ATTATAATAAAATATATAATTTAATAAAATT
8872486 TAAAATTATT
Statistics
Matches: 160, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
119 25 0.16
120 126 0.79
121 9 0.06
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.41
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATAAAATATATAATTTAATAAAATTCTTAATAAATAAA
ATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTC
Found at i:8872359 original size:14 final size:15
Alignment explanation
Indices: 8872310--8872361 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
8872300 GTAAAATATA
8872310 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
8872325 TATTAAATATATTAT
1 AATTAAATATATTAT
8872340 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
8872353 AATTTAATA
1 AATTAAATA
8872362 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:8872376 original size:44 final size:43
Alignment explanation
Indices: 8872287--8872377 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
8872277 CTCAAATCAT
* * *
8872287 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
8872330 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
8872374 AATA
1 AATA
8872378 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:8872412 original size:59 final size:59
Alignment explanation
Indices: 8872229--8872412 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
8872219 TAATCAAAAT
8872229 ATATAATTTAATAAAATTCTTAA-AAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAA-TAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * * *
8872288 ATAT-ATGATACTGTAAAA-TATAAATTAACATAATTATTATTAAAT-ATATTATAATTAAA--A
1 ATATAAT-TTA--ATAAAATTCTTAA-TAA-ATAA-TATTCTTATATGA-ATT-TACTCAAATCA
8872348 T-
58 TA
* *
8872349 ATATAATTTAATAAAATTCTTAATAAATAAAATTCTTCTATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
8872408 ATATA
1 ATATA
8872413 TGATACTATA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 9 0.10
59 19 0.21
60 8 0.09
61 11 0.12
62 10 0.11
63 13 0.14
64 6 0.07
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
Found at i:8872466 original size:15 final size:15
Alignment explanation
Indices: 8872446--8872484 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
8872436 AATAATTAAT
8872446 ATTAAATATGATTTA
1 ATTAAATATGATTTA
8872461 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
8872478 ATAAAAT
1 ATTAAAT
8872485 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:8872471 original size:17 final size:17
Alignment explanation
Indices: 8872451--8872484 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8872441 TTAATATTAA
*
8872451 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
8872468 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
8872485 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:8872627 original size:93 final size:92
Alignment explanation
Indices: 8872517--8872711 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
8872507 GATTATAGTT
* * *
8872517 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAGTAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTATA-TAATAATATATAATTTC
* *
8872580 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
8872610 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
8872675 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
8872702 TATGAATTTA
1 TATGAATTTA
8872712 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 67 0.72
94 5 0.05
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:8875258 original size:24 final size:24
Alignment explanation
Indices: 8875231--8875281 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
8875221 TGGGAAAAAC
8875231 ATTGGCAGATTAATTTAGGTCAGA
1 ATTGGCAGATTAATTTAGGTCAGA
8875255 ATTGGCAGATTAATTTAGGTCAGA
1 ATTGGCAGATTAATTTAGGTCAGA
8875279 ATT
1 ATT
8875282 TAAAACTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (24 bp):
ATTGGCAGATTAATTTAGGTCAGA
Found at i:8879444 original size:25 final size:25
Alignment explanation
Indices: 8879369--8879461 Score: 100
Period size: 25 Copynumber: 3.8 Consensus size: 25
8879359 TCATTAAGGA
*
8879369 TTACCTATTCTCAGCTCGTATGAGC
1 TTACCGATTCTCAGCTCGTATGAGC
* * *
8879394 TTACCGATT-GCAACTCGTAAGAGC
1 TTACCGATTCTCAGCTCGTATGAGC
* *
8879418 TTATCGATTCTCAGCTCATATGAGC
1 TTACCGATTCTCAGCTCGTATGAGC
*
8879443 TTACCG-TTTTACAGCTCGT
1 TTACCGATTCT-CAGCTCGT
8879462 GAGAGCATAC
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
24 23 0.43
25 31 0.57
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (25 bp):
TTACCGATTCTCAGCTCGTATGAGC
Found at i:8883692 original size:12 final size:12
Alignment explanation
Indices: 8883671--8883701 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
8883661 CCACACGCCC
8883671 GTGTGCCAAACT
1 GTGTGCCAAACT
*
8883683 GTGTGTCAAACT
1 GTGTGCCAAACT
8883695 GTGTGCC
1 GTGTGCC
8883702 CTTTCGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (12 bp):
GTGTGCCAAACT
Found at i:8884745 original size:37 final size:39
Alignment explanation
Indices: 8884654--8884751 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 39
8884644 AACACACCAG
* **
8884654 TTTGGCACCCAGTGCCTCATCGGATAATTCGAAATAGTAA
1 TTTGGCACCCAGTGTCTCATCGGATAAACCG-AATAGTAA
* * * *
8884694 ATTGACACCAAGTGTCTCATCGGTTAAACCG-A-AGTAA
1 TTTGGCACCCAGTGTCTCATCGGATAAACCGAATAGTAA
8884731 TTTGGCACCCAGTGTCTCATC
1 TTTGGCACCCAGTGTCTCATC
8884752 AACTCGAAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
37 23 0.48
38 1 0.02
40 24 0.50
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (39 bp):
TTTGGCACCCAGTGTCTCATCGGATAAACCGAATAGTAA
Found at i:8885604 original size:4 final size:4
Alignment explanation
Indices: 8885595--8885670 Score: 70
Period size: 4 Copynumber: 19.0 Consensus size: 4
8885585 TGTGTTTCTC
*
8885595 CTTT CTTT CTTT CTTT CTTT CCCTT -TTT C-TT -TTT CTTT CTTT C-TT
1 CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT CTTT CTTT
*
8885640 CTTT CTGTTT CGTTT CTAT CTTT CTTT CTTT
1 CTTT C--TTT C-TTT CTTT CTTT CTTT CTTT
8885671 ATTTTTTTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
3 9 0.15
4 40 0.66
5 8 0.13
6 4 0.07
ACGTcount: A:0.01, C:0.25, G:0.03, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:8885620 original size:22 final size:23
Alignment explanation
Indices: 8885589--8885643 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
8885579 TAGCCTTGTG
8885589 TTTCTCCTTTCTT-TCTTTCTTTC
1 TTTCTCCTTT-TTCTCTTTCTTTC
*
8885612 TTTC-CCTTTTTCTTTTTCTTTC
1 TTTCTCCTTTTTCTCTTTCTTTC
*
8885634 TTTCTTCTTT
1 TTTCTCCTTT
8885644 CTGTTTCGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 2 0.07
22 18 0.64
23 8 0.29
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTCTCCTTTTTCTCTTTCTTTC
Found at i:8885655 original size:26 final size:29
Alignment explanation
Indices: 8885587--8885670 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 29
8885577 CCTAGCCTTG
*
8885587 TGTTTCTCCTTTCTTTCTTTCTTTCTTTCCC
1 TGTTTCT-GTTTCTTTCTTTCTTTCTTT-CC
* *
8885618 TTTTTCTTTTTCTTTCTTTC-TTCTTT-C
1 TGTTTCTGTTTCTTTCTTTCTTTCTTTCC
*
8885645 TGTTTC-GTTTCTATCTTTCTTTCTTT
1 TGTTTCTGTTTCTTTCTTTCTTTCTTT
8885671 ATTTTTTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
26 11 0.23
27 12 0.26
29 6 0.13
30 12 0.26
31 6 0.13
ACGTcount: A:0.01, C:0.25, G:0.04, T:0.70
Consensus pattern (29 bp):
TGTTTCTGTTTCTTTCTTTCTTTCTTTCC
Found at i:8885664 original size:34 final size:34
Alignment explanation
Indices: 8885595--8885670 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
8885585 TGTGTTTCTC
* * *
8885595 CTTTCTTTCTTTCTTTCTTTCCCTTTTTCTTTTT
1 CTTTCTTTCTTTCTTTCTTTCCCTTTCTATCTTT
* *
8885629 CTTTCTTTC-TTCTTTCTGTTTCGTTTCTATCTTT
1 CTTTCTTTCTTTCTTTCT-TTCCCTTTCTATCTTT
8885663 CTTTCTTT
1 CTTTCTTT
8885671 ATTTTTTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
33 8 0.22
34 28 0.78
ACGTcount: A:0.01, C:0.25, G:0.03, T:0.71
Consensus pattern (34 bp):
CTTTCTTTCTTTCTTTCTTTCCCTTTCTATCTTT
Found at i:8893691 original size:26 final size:26
Alignment explanation
Indices: 8893655--8893707 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
8893645 AAGACCTCAT
8893655 TGAGTTACTTCGAGAATTCAAAGATC
1 TGAGTTACTTCGAGAATTCAAAGATC
8893681 TGAGTTACTTCGAGAATTCAAAGATC
1 TGAGTTACTTCGAGAATTCAAAGATC
8893707 T
1 T
8893708 CTTCACATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (26 bp):
TGAGTTACTTCGAGAATTCAAAGATC
Found at i:8896588 original size:19 final size:19
Alignment explanation
Indices: 8896561--8896616 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
8896551 TGTGTTATGC
*
8896561 ATATTTTAAATATATAAAA
1 ATATATTAAATATATAAAA
8896580 ATATATT-AATATAGTAAAA
1 ATATATTAAATATA-TAAAA
* * *
8896599 AGAAATTATATATATAAA
1 ATATATTAAATATATAAA
8896617 TATTACATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 6 0.19
19 20 0.65
20 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
ATATATTAAATATATAAAA
Found at i:8912154 original size:14 final size:14
Alignment explanation
Indices: 8912135--8912165 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8912125 TCAAAATTTG
*
8912135 AAAATAATAATAAA
1 AAAATAAAAATAAA
8912149 AAAATAAAAATAAA
1 AAAATAAAAATAAA
8912163 AAA
1 AAA
8912166 GAGTAAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAATAAAAATAAA
Found at i:8912487 original size:12 final size:12
Alignment explanation
Indices: 8912472--8912564 Score: 93
Period size: 12 Copynumber: 7.8 Consensus size: 12
8912462 AGGTATAAAT
*
8912472 ATAATGATAGTA
1 ATAATAATAGTA
8912484 ATAATAATAGTA
1 ATAATAATAGTA
* *
8912496 GTAATAATACTA
1 ATAATAATAGTA
*
8912508 ACAATAATAGTAAA
1 ATAATAATAGT--A
8912522 GATAATAATAGT-
1 -ATAATAATAGTA
*
8912534 A-AATAATAATA
1 ATAATAATAGTA
8912545 ATAATAATA-TA
1 ATAATAATAGTA
8912556 ATAATAATA
1 ATAATAATA
8912565 AAATTAACAA
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
10 8 0.12
11 13 0.19
12 36 0.53
14 1 0.01
15 10 0.15
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:8912490 original size:3 final size:3
Alignment explanation
Indices: 8912472--8912565 Score: 84
Period size: 3 Copynumber: 31.3 Consensus size: 3
8912462 AGGTATAAAT
* * * * * * *
8912472 ATA ATG ATA GTA ATA ATA ATA GTA GTA ATA ATA CTA ACA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
8912520 A-A GATA ATA ATA GTAA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA
1 ATA -ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8912565 A
1 A
8912566 AATTAACAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
2 3 0.04
3 67 0.92
4 3 0.04
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:8917618 original size:20 final size:20
Alignment explanation
Indices: 8917580--8917619 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
8917570 CCTTAAATTG
* *
8917580 TTTTATTTATAAGATTATTA
1 TTTTATTTATAAAACTATTA
8917600 TTTTATTTATAAAACTATTA
1 TTTTATTTATAAAACTATTA
8917620 CATTAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTATTTATAAAACTATTA
Found at i:8917695 original size:24 final size:23
Alignment explanation
Indices: 8917658--8917704 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
8917648 AATGAATATA
* *
8917658 ATTTATTTATATATTATTATTTT
1 ATTTATTTAAATATAATTATTTT
8917681 ATTTATTTTAAATATAATTATTTT
1 ATTTA-TTTAAATATAATTATTTT
8917705 TTAATTTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
ATTTATTTAAATATAATTATTTT
Found at i:8917716 original size:24 final size:24
Alignment explanation
Indices: 8917663--8917716 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
8917653 ATATAATTTA
* * *
8917663 TTTATATATTATTATTTTATTTAT
1 TTTAAATATAATTATTTTATTAAT
8917687 TTTAAATATAATTATTTT-TTAAT
1 TTTAAATATAATTATTTTATTAAT
8917710 TTGTAAA
1 TT-TAAA
8917717 ATTCTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (24 bp):
TTTAAATATAATTATTTTATTAAT
Found at i:8920023 original size:23 final size:23
Alignment explanation
Indices: 8919977--8920023 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
8919967 GAAAATGAAT
*
8919977 AATTTAAAAAATAAAGAGATTAA
1 AATTTAAAAAATAAAGAGACTAA
*
8920000 AATTTAACAAATAAA-ATGACTAA
1 AATTTAAAAAATAAAGA-GACTAA
8920023 A
1 A
8920024 TCCAAAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (23 bp):
AATTTAAAAAATAAAGAGACTAA
Found at i:8935520 original size:22 final size:22
Alignment explanation
Indices: 8935489--8935565 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
8935479 TTTTAAAAAA
* *
8935489 TTAAAGAAATATATCAATATAT
1 TTAAAAAAATATAACAATATAT
* *
8935511 TTAAAAAAAT-TAAAAAATAAAT
1 TTAAAAAAATAT-AACAATATAT
8935533 TTAAAAAATATAATAACAA-ATAT
1 TTAAAAAA-AT-ATAACAATATAT
8935556 TATAAAAAAA
1 T-TAAAAAAA
8935566 AAGTATTTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
21 1 0.02
22 24 0.55
23 7 0.16
24 11 0.25
25 1 0.02
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (22 bp):
TTAAAAAAATATAACAATATAT
Found at i:8936927 original size:18 final size:19
Alignment explanation
Indices: 8936899--8936937 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
8936889 TTTTTAAAAT
8936899 TTTTTATTTTGTAAA-TAAA
1 TTTTTATTTTG-AAATTAAA
8936918 TTTTTA-TTTGAAATTAAA
1 TTTTTATTTTGAAATTAAA
8936936 TT
1 TT
8936938 ATAATTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 10 0.53
19 6 0.32
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTATTTTGAAATTAAA
Found at i:8943637 original size:30 final size:31
Alignment explanation
Indices: 8943594--8943661 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
8943584 TAAGTTATAT
* *
8943594 TTTTATAAATTTTAA-AGAATTAAATTAAAA
1 TTTTATTAATTTTAAGAGAATTAAAGTAAAA
*
8943624 TTTTATTATTTTTAAGAGAATTAAAGTAAAA
1 TTTTATTAATTTTAAGAGAATTAAAGTAAAA
*
8943655 ATTTATT
1 TTTTATT
8943662 TTTACTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 13 0.39
31 20 0.61
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (31 bp):
TTTTATTAATTTTAAGAGAATTAAAGTAAAA
Found at i:8944007 original size:38 final size:37
Alignment explanation
Indices: 8943935--8944007 Score: 85
Period size: 38 Copynumber: 1.9 Consensus size: 37
8943925 TTAGCCATTT
*
8943935 TAAAAATAATAAAAATTTAATTTAATTTTTTAAAATTA
1 TAAAAATAAT-AAAATTTAATTTAATTTTATAAAATTA
* *
8943973 TAAAAATAAT-AAATTCTATTTTTATTATTATAAAA
1 TAAAAATAATAAAATT-TAATTTAATT-TTATAAAA
8944008 ATTAGAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
36 5 0.17
37 8 0.27
38 17 0.57
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (37 bp):
TAAAAATAATAAAATTTAATTTAATTTTATAAAATTA
Found at i:8944022 original size:29 final size:28
Alignment explanation
Indices: 8943931--8944022 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 28
8943921 TACTTTAGCC
* * *
8943931 ATTTTAAAAATAATAAAAATTTAATTTA
1 ATTTTTAAAATTATAAAAATTAAATTTA
8943959 ATTTTTTAAAATTATAAAAATAATAAATTCT-
1 A-TTTTTAAAATTATAAAAAT--TAAATT-TA
**
8943990 ATTTTTATTATTATAAAAATTAGAATTTA
1 ATTTTTAAAATTATAAAAATTA-AATTTA
8944019 ATTT
1 ATTT
8944023 CCACCTCTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
28 4 0.08
29 25 0.47
30 17 0.32
31 6 0.11
32 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (28 bp):
ATTTTTAAAATTATAAAAATTAAATTTA
Found at i:8956477 original size:26 final size:23
Alignment explanation
Indices: 8956448--8956509 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 23
8956438 GAACTATGAT
8956448 CGGTAAGCTCATTCCGAGCTGAAGAA
1 CGGTAAGCTCATT-CGAGCT-AA-AA
* *
8956474 CGGTAAGCTTTATTCTAGCTAAAA
1 CGGTAAGC-TCATTCGAGCTAAAA
8956498 CGGTAAGCTCAT
1 CGGTAAGCTCAT
8956510 AAGATTTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 3 0.09
24 10 0.31
25 2 0.06
26 13 0.41
27 4 0.12
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (23 bp):
CGGTAAGCTCATTCGAGCTAAAA
Found at i:8957948 original size:16 final size:16
Alignment explanation
Indices: 8957927--8957957 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8957917 TTTGTAAGTT
*
8957927 CAGGCTTTATGCCTGG
1 CAGGCTTTATACCTGG
8957943 CAGGCTTTATACCTG
1 CAGGCTTTATACCTG
8957958 TGAATTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.32
Consensus pattern (16 bp):
CAGGCTTTATACCTGG
Found at i:8958002 original size:41 final size:41
Alignment explanation
Indices: 8957926--8958082 Score: 161
Period size: 41 Copynumber: 3.8 Consensus size: 41
8957916 TTTTGTAAGT
* * * *
8957926 TCAGGCTTTATGCCTGGCAGGCTTTATACCTGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
* *
8957967 TCAGGCTTTATGCCTAGCAAGCTCTGTGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
* * ** * *
8958008 TCAGACTTTATGTCTAGCAGGCTTTGTGCTAGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
* * * * *
8958049 TCGGGTTTTGTGCTTAGCAGGCTTTATGCCGGTG
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTG
8958083 TTTTATACAA
Statistics
Matches: 93, Mismatches: 23, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 93 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
Found at i:8958938 original size:24 final size:23
Alignment explanation
Indices: 8958905--8959179 Score: 153
Period size: 23 Copynumber: 11.9 Consensus size: 23
8958895 TATGTTGCCT
*
8958905 ATTTGTTGTATATATGCTGTTAA
1 ATTTGGTGTATATATGCTGTTAA
* * * *
8958928 ATTTTGGTGTAAAAATGCTGCTCA
1 A-TTTGGTGTATATATGCTGTTAA
*** ***
8958952 ATTTGGTACGTATATGCTG-CCC
1 ATTTGGTGTATATATGCTGTTAA
*
8958974 ATTTGTTGTATATATGCTGTTAA
1 ATTTGGTGTATATATGCTGTTAA
* * * *
8958997 ATTTTGGTGTAAAAATGCTGCTCA
1 A-TTTGGTGTATATATGCTGTTAA
* * ***
8959021 ATTTGGTATGTATATGCTG-CCC
1 ATTTGGTGTATATATGCTGTTAA
*
8959043 ATTTGTTGTATATATGCTGTTAA
1 ATTTGGTGTATATATGCTGTTAA
*
8959066 ATTTTGGTGTA-AAAGTGCTGTTAA
1 A-TTTGGTGTATATA-TGCTGTTAA
* * **
8959090 ATTTGGTATGTATATGCTG-TCC
1 ATTTGGTGTATATATGCTGTTAA
* * *
8959112 ATTTGTTGTATATAAGCTGTCCAA
1 ATTTGGTGTATATATGCTGT-TAA
* *
8959136 ATTTTGGTGTATAAATGCTGTTTA
1 A-TTTGGTGTATATATGCTGTTAA
** *
8959160 ATTTGGAATATAAATGCTGT
1 ATTTGGTGTATATATGCTGT
8959180 CCAAATAGAT
Statistics
Matches: 185, Mismatches: 57, Indels: 20
0.71 0.22 0.08
Matches are distributed among these distances:
22 49 0.26
23 61 0.33
24 59 0.32
25 16 0.09
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (23 bp):
ATTTGGTGTATATATGCTGTTAA
Found at i:8958987 original size:22 final size:22
Alignment explanation
Indices: 8958895--8959155 Score: 112
Period size: 22 Copynumber: 11.3 Consensus size: 22
8958885 GTATTATGTC
* * *
8958895 TATGTTGCCTATTTGTTGTATA
1 TATGCTGCCAATTTGGTGTATA
** *
8958917 TATGCTGTTAAATTTTGGTGTAAA
1 TATGCTG-CCAA-TTTGGTGTATA
* ***
8958941 AATGCTGCTCAATTTGGTACGTA
1 TATGCTGC-CAATTTGGTGTATA
* *
8958964 TATGCTGCCCATTTGTTGTATA
1 TATGCTGCCAATTTGGTGTATA
** *
8958986 TATGCTGTTAAATTTTGGTGTAAA
1 TATGCTG-CCAA-TTTGGTGTATA
* * *
8959010 AATGCTGCTCAATTTGGTATGTA
1 TATGCTGC-CAATTTGGTGTATA
* *
8959033 TATGCTGCCCATTTGTTGTATA
1 TATGCTGCCAATTTGGTGTATA
**
8959055 TATGCTGTTAAATTTTGGTGTA-A
1 TATGCTG-CCAA-TTTGGTGTATA
* ** * *
8959078 AAGTGCTGTTAAATTTGGTATGTA
1 TA-TGCTG-CCAATTTGGTGTATA
*
8959102 TATGCTGTCC-ATTTGTTGTATA
1 TATGCTG-CCAATTTGGTGTATA
*
8959124 TAAGCTGTCCAAATTTTGGTGTATA
1 TATGCTG-CC-AA-TTTGGTGTATA
*
8959149 AATGCTG
1 TATGCTG
8959156 TTTAATTTGG
Statistics
Matches: 174, Mismatches: 52, Indels: 23
0.70 0.21 0.09
Matches are distributed among these distances:
22 57 0.33
23 47 0.27
24 55 0.32
25 15 0.09
ACGTcount: A:0.25, C:0.11, G:0.21, T:0.44
Consensus pattern (22 bp):
TATGCTGCCAATTTGGTGTATA
Found at i:8958987 original size:69 final size:69
Alignment explanation
Indices: 8958889--8959165 Score: 428
Period size: 69 Copynumber: 4.0 Consensus size: 69
8958879 TATGATGTAT
* * *
8958889 TATGTCTATGTTGCCTATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAAT
1 TATGTATATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAAT
8958954 TTGG
66 TTGG
*
8958958 TACGTATATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAAT
1 TATGTATATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAAT
8959023 TTGG
66 TTGG
* * *
8959027 TATGTATATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAAT
1 TATGTATATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAAT
8959092 TTGG
66 TTGG
* * * * * *
8959096 TATGTATATGCTGTCCATTTGTTGTATATAAGCTGTCCAAATTTTGGTGTATAAATGCTGTTTAA
1 TATGTATATGCTGCCCATTTGTTGTATATATGCTGT-TAAATTTTGGTGTAAAAATGCTGCTCAA
8959161 TTTGG
65 TTTGG
8959166 AATATAAATG
Statistics
Matches: 193, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
69 164 0.85
70 29 0.15
ACGTcount: A:0.24, C:0.10, G:0.21, T:0.45
Consensus pattern (69 bp):
TATGTATATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAATGCTGCTCAAT
TTGG
Found at i:8959154 original size:47 final size:45
Alignment explanation
Indices: 8958965--8959156 Score: 115
Period size: 47 Copynumber: 4.2 Consensus size: 45
8958955 TGGTACGTAT
* * * * *
8958965 ATGCTGCCCATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAA
1 ATGCTGTCAATTTGTTGTATATAAGCTGTCAAA-TTTGGTGTATAA
** * *
8959011 ATGCTGCTCAATTTGGTATGTATAT--GCTG-CCCATTTGTTGTATAT
1 ATGCTG-TCAATTT-GT-TGTATATAAGCTGTCAAATTTGGTGTATAA
* * * * * *
8959056 ATGCTGTTAAATTTTGGTGTA-A-AAGTGCTGTTAAATTTGGTATGTAT
1 ATGCTG-TCAA-TTTGTTGTATATAA--GCTGTCAAATTTGGTGTATAA
*
8959103 ATGCTGTCCATTTGTTGTATATAAGCTGTCCAAATTTTGGTGTATAA
1 ATGCTGTCAATTTGTTGTATATAAGCTGT-CAAA-TTTGGTGTATAA
8959150 ATGCTGT
1 ATGCTGT
8959157 TTAATTTGGA
Statistics
Matches: 109, Mismatches: 24, Indels: 25
0.69 0.15 0.16
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 32 0.29
46 20 0.18
47 43 0.39
48 2 0.02
49 7 0.06
ACGTcount: A:0.24, C:0.11, G:0.21, T:0.44
Consensus pattern (45 bp):
ATGCTGTCAATTTGTTGTATATAAGCTGTCAAATTTGGTGTATAA
Found at i:8961050 original size:37 final size:36
Alignment explanation
Indices: 8960982--8961099 Score: 144
Period size: 37 Copynumber: 3.5 Consensus size: 36
8960972 AACTATAAAC
*
8960982 GCCGAATGC--ACATAT-TCACTTATACCCACCTAT
1 GCCGAATGCATACATATATCACTTATATCCACCTAT
*
8961015 GCCGAATGCATACATATATACACTTATATCTACCTAT
1 GCCGAATGCATACATATAT-CACTTATATCCACCTAT
8961052 GCCGAATGCATACA-A-AT-A--TATATCCACCTAT
1 GCCGAATGCATACATATATCACTTATATCCACCTAT
*
8961083 GCCGAATGCCTACATAT
1 GCCGAATGCATACATAT
8961100 GCACACATAA
Statistics
Matches: 75, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
31 25 0.33
32 1 0.01
33 10 0.13
35 8 0.11
36 2 0.03
37 29 0.39
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (36 bp):
GCCGAATGCATACATATATCACTTATATCCACCTAT
Found at i:8961459 original size:41 final size:41
Alignment explanation
Indices: 8961284--8961452 Score: 266
Period size: 41 Copynumber: 4.1 Consensus size: 41
8961274 AATTCATCAT
* *
8961284 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
8961325 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* * * *
8961366 GTTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCTTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
8961407 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
8961448 ATTCA
1 ATTCA
8961453 ATTCACCAAT
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 115 1.00
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:8961459 original size:82 final size:82
Alignment explanation
Indices: 8961290--8961452 Score: 308
Period size: 82 Copynumber: 2.0 Consensus size: 82
8961280 TCATATTCGG
8961290 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
*
8961355 TTTATAACCTGGTTCAT
66 TTTATAACCTGATTCAT
*
8961372 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
8961437 TTTATAACCTGATTCA
66 TTTATAACCTGATTCA
8961453 ATTCACCAAT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:8961713 original size:15 final size:17
Alignment explanation
Indices: 8961672--8961715 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
8961662 TTGTTCGATC
8961672 CACATATATATATTACA
1 CACATATATATATTACA
*
8961689 CACATATATATATT-CG
1 CACATATATATATTACA
8961705 CACAT-TATATA
1 CACATATATATA
8961716 AACACAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.23
16 6 0.23
17 14 0.54
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.36
Consensus pattern (17 bp):
CACATATATATATTACA
Found at i:8962869 original size:13 final size:13
Alignment explanation
Indices: 8962851--8962875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8962841 CAATCAAATG
8962851 CACACAAAATAAA
1 CACACAAAATAAA
8962864 CACACAAAATAA
1 CACACAAAATAA
8962876 TATTAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:8963199 original size:43 final size:44
Alignment explanation
Indices: 8963152--8963266 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 44
8963142 ATCACAAATC
* * *
8963152 GATGCCACTGTCCCAGACAAGGTGTTATACGAAATCA-TATAAA
1 GATGCCAATGTCCCAGACAAGGTGTTACACGAAATCACAATAAA
* * * *
8963195 GATGCCAATGTCCCAGACATGGTTTTACACGTAATCACAATACA
1 GATGCCAATGTCCCAGACAAGGTGTTACACGAAATCACAATAAA
* *
8963239 -ATGCCAATGTCCCAGACATGGTCTTACA
1 GATGCCAATGTCCCAGACAAGGTGTTACA
8963267 TGTTATAACC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 59 0.94
44 4 0.06
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (44 bp):
GATGCCAATGTCCCAGACAAGGTGTTACACGAAATCACAATAAA
Found at i:8968562 original size:28 final size:28
Alignment explanation
Indices: 8968519--8968585 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
8968509 AACACCCACC
* * **
8968519 TGATTAAACGGGCTTGCCTGAAAGGGTT
1 TGATTAAATGGACTTGCCCAAAAGGGTT
8968547 TGATTAAATGGACTTGCCCAAAAGGGTT
1 TGATTAAATGGACTTGCCCAAAAGGGTT
8968575 TGATTAAATGG
1 TGATTAAATGG
8968586 GTCGTTGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (28 bp):
TGATTAAATGGACTTGCCCAAAAGGGTT
Found at i:8976320 original size:25 final size:25
Alignment explanation
Indices: 8976272--8976320 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
8976262 TTTAATGAAA
* *
8976272 TAAATAAATTAATTTATTTTTATAT
1 TAAATAAATTAATTTATGTGTATAT
8976297 TAAATAAATATAA-TTATGTGTATA
1 TAAATAAAT-TAATTTATGTGTATA
8976321 AAATATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (25 bp):
TAAATAAATTAATTTATGTGTATAT
Found at i:8984051 original size:26 final size:26
Alignment explanation
Indices: 8983981--8984051 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
8983971 ACATCTCGAC
* * *
8983981 TCACAGCTCGTGTGAGCAGGCCCGTT
1 TCACAGCTCGTGTGAGCATGACCATT
* *
8984007 TCACAACTCGTATGAGCATGACCATT
1 TCACAGCTCGTGTGAGCATGACCATT
8984033 TCACAGCTCGTGTGAGCAT
1 TCACAGCTCGTGTGAGCAT
8984052 ATATAGTTAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (26 bp):
TCACAGCTCGTGTGAGCATGACCATT
Found at i:8984272 original size:13 final size:13
Alignment explanation
Indices: 8984255--8984328 Score: 85
Period size: 13 Copynumber: 5.7 Consensus size: 13
8984245 GTTAAATATG
8984255 TAAATGAAATGGT
1 TAAATGAAATGGT
* *
8984268 AAAATGAAATGTT
1 TAAATGAAATGGT
*
8984281 TAGATGAAATGGT
1 TAAATGAAATGGT
* *
8984294 TATATGAAATGAT
1 TAAATGAAATGGT
*
8984307 TACATGAAATGGT
1 TAAATGAAATGGT
*
8984320 TATATGAAA
1 TAAATGAAA
8984329 ATAGATGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.46, C:0.01, G:0.20, T:0.32
Consensus pattern (13 bp):
TAAATGAAATGGT
Found at i:8984287 original size:26 final size:26
Alignment explanation
Indices: 8984258--8984328 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
8984248 AAATATGTAA
* * * *
8984258 ATGAAATGGTAAAATGAAATGTTTAG
1 ATGAAATGGTTATATGAAATGATTAC
8984284 ATGAAATGGTTATATGAAATGATTAC
1 ATGAAATGGTTATATGAAATGATTAC
8984310 ATGAAATGGTTATATGAAA
1 ATGAAATGGTTATATGAAA
8984329 ATAGATGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.45, C:0.01, G:0.21, T:0.32
Consensus pattern (26 bp):
ATGAAATGGTTATATGAAATGATTAC
Found at i:8985633 original size:35 final size:35
Alignment explanation
Indices: 8985594--8985681 Score: 149
Period size: 35 Copynumber: 2.5 Consensus size: 35
8985584 ATAGTGTTAC
8985594 CTGGTGTGCTGGATGGTTCTGGCTCTTATGAGCAT
1 CTGGTGTGCTGGATGGTTCTGGCTCTTATGAGCAT
* *
8985629 CTGGTGTGCTAGATGGTACTGGCTCTTATGAGCAT
1 CTGGTGTGCTGGATGGTTCTGGCTCTTATGAGCAT
*
8985664 CTGGTGTGTTGGATGGTT
1 CTGGTGTGCTGGATGGTT
8985682 AACCGTGTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.12, C:0.15, G:0.35, T:0.38
Consensus pattern (35 bp):
CTGGTGTGCTGGATGGTTCTGGCTCTTATGAGCAT
Found at i:8987449 original size:17 final size:17
Alignment explanation
Indices: 8987423--8987583 Score: 69
Period size: 18 Copynumber: 9.3 Consensus size: 17
8987413 TACGAGAATT
* *
8987423 TTTTTAAAACATGAAGA
1 TTTTTGAAACATGAAAA
* ***
8987440 TTTTTGAAACAATTATTT
1 TTTTTGAAAC-ATGAAAA
*
8987458 TTTTTGAAAACACGAAAAA
1 TTTTTG-AAACATG-AAAA
* * *
8987477 TTTTTAAAACACGAGAA
1 TTTTTGAAACATGAAAA
* *
8987494 TTTTAGAGACATGAAAA
1 TTTTTGAAACATGAAAA
* *
8987511 TTTTTAAAAACACGAAAA
1 TTTTT-GAAACATGAAAA
*
8987529 TTTTTGAAA-ATCG-GAA
1 TTTTTGAAACAT-GAAAA
**
8987545 TTTTTGAAA-ATACGAGGA
1 TTTTTGAAACAT--GAAAA
*
8987563 TTTTTGAAACACG-AAA
1 TTTTTGAAACATGAAAA
8987579 TTTTT
1 TTTTT
8987584 TTGCTGAAAA
Statistics
Matches: 108, Mismatches: 28, Indels: 17
0.71 0.18 0.11
Matches are distributed among these distances:
16 20 0.19
17 35 0.32
18 42 0.39
19 11 0.10
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.36
Consensus pattern (17 bp):
TTTTTGAAACATGAAAA
Found at i:8987548 original size:16 final size:18
Alignment explanation
Indices: 8987458--8987641 Score: 96
Period size: 18 Copynumber: 10.3 Consensus size: 18
8987448 ACAATTATTT
* *
8987458 TTTTTGAAAACACGAAAAA
1 TTTTTGAAAATACG-AGAA
*
8987477 TTTTT-AAAACACGAGAA
1 TTTTTGAAAATACGAGAA
* * *
8987494 TTTTAGAGACAT--GAAAA
1 TTTTTGA-AAATACGAGAA
* * *
8987511 TTTTTAAAAACACGAAAA
1 TTTTTGAAAATACGAGAA
8987529 TTTTTGAAAAT-CG-GAA
1 TTTTTGAAAATACGAGAA
*
8987545 TTTTTGAAAATACGAGGA
1 TTTTTGAAAATACGAGAA
*
8987563 TTTTTG-AAACACGA-AA
1 TTTTTGAAAATACGAGAA
* * *
8987579 TTTTTTTGCTGAAAACAAGAAAA
1 ---TTTT--TGAAAATACGAGAA
*
8987602 TTTTTGAAAA-ACGGGAA
1 TTTTTGAAAATACGAGAA
* *
8987619 TTTTTGAAAACACGGGAA
1 TTTTTGAAAATACGAGAA
8987637 TTTTT
1 TTTTT
8987642 TTTGAAAACA
Statistics
Matches: 132, Mismatches: 19, Indels: 29
0.73 0.11 0.16
Matches are distributed among these distances:
16 16 0.12
17 41 0.31
18 49 0.37
19 11 0.08
20 4 0.03
21 2 0.02
22 7 0.05
23 2 0.02
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAATACGAGAA
Found at i:8987645 original size:21 final size:21
Alignment explanation
Indices: 8987602--8987662 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
8987592 AACAAGAAAA
8987602 TTTTTGAAAA-ACGGGAA---
1 TTTTTGAAAACACGGGAATTT
8987619 TTTTTGAAAACACGGGAATTT
1 TTTTTGAAAACACGGGAATTT
**
8987640 TTTTTGAAAACACGAAAATTT
1 TTTTTGAAAACACGGGAATTT
8987661 TT
1 TT
8987663 AAAACACAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.26
18 7 0.18
21 21 0.55
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (21 bp):
TTTTTGAAAACACGGGAATTT
Found at i:8987648 original size:56 final size:56
Alignment explanation
Indices: 8987543--8987666 Score: 166
Period size: 56 Copynumber: 2.2 Consensus size: 56
8987533 TGAAAATCGG
8987543 AATTTTTGAAAATACGAGGATTTTTGAAACACGAAATTTTTTTGCTGAAAACAAGAA
1 AATTTTTGAAAATACGAGGATTTTTGAAACACGAAATTTTTTT-CTGAAAACAAGAA
* *
8987600 AATTTTTGAAAA-ACG-GGAATTTTTGAAAACACGGGAATTTTTTT-TGAAAACACGAA
1 AATTTTTGAAAATACGAGG-ATTTTTG-AAACAC-GAAATTTTTTTCTGAAAACAAGAA
8987656 AATTTTT-AAAA
1 AATTTTTGAAAA
8987667 CACAAAATTT
Statistics
Matches: 62, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
55 6 0.10
56 28 0.45
57 18 0.29
58 10 0.16
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (56 bp):
AATTTTTGAAAATACGAGGATTTTTGAAACACGAAATTTTTTTCTGAAAACAAGAA
Found at i:8987675 original size:16 final size:18
Alignment explanation
Indices: 8987458--8987678 Score: 170
Period size: 17 Copynumber: 12.3 Consensus size: 18
8987448 ACAATTATTT
8987458 TTTTTGAAAACACGAAAAA
1 TTTTTGAAAACACG-AAAA
*
8987477 TTTTT-AAAACACGAGAA
1 TTTTTGAAAACACGAAAA
* * *
8987494 TTTTAG-AGACATGAAAA
1 TTTTTGAAAACACGAAAA
*
8987511 TTTTTAAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
8987529 TTTTTGAAAA-TCG-GAA
1 TTTTTGAAAACACGAAAA
* **
8987545 TTTTTGAAAATACGAGGA
1 TTTTTGAAAACACGAAAA
*
8987563 TTTTTG-AAACACGAAATTT
1 TTTTTGAAAACACGAAA--A
*
8987582 TTTTGCTGAAAACAAGAAAA
1 TTTT--TGAAAACACGAAAA
**
8987602 TTTTTGAAAA-ACGGGAA
1 TTTTTGAAAACACGAAAA
**
8987619 TTTTTGAAAACACGGGAATTT
1 TTTTTGAAAACAC--GAA-AA
8987640 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
8987658 TTTTT-AAAACAC-AAAA
1 TTTTTGAAAACACGAAAA
8987674 TTTTT
1 TTTTT
8987679 TTTTGAAAAC
Statistics
Matches: 160, Mismatches: 29, Indels: 29
0.73 0.13 0.13
Matches are distributed among these distances:
16 21 0.13
17 51 0.32
18 47 0.29
19 12 0.08
20 5 0.03
21 15 0.09
22 9 0.06
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:8987676 original size:37 final size:40
Alignment explanation
Indices: 8987602--8987699 Score: 114
Period size: 38 Copynumber: 2.5 Consensus size: 40
8987592 AACAAGAAAA
** **
8987602 TTTTTGAAAA-ACGGGAATTTTTGAAAACACGGGAA-TTT
1 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTT
8987640 TTTTTGAAAACACGAAAATTTTT-AAAACAC-AAAATTTT
1 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTT
**
8987678 TTTTTGAAAACATAAAAATTTT
1 TTTTTGAAAACACGAAAATTTT
8987700 GATAAATTAC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
37 2 0.04
38 40 0.77
39 10 0.19
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (40 bp):
TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTT
Found at i:8987682 original size:21 final size:21
Alignment explanation
Indices: 8987619--8987699 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
8987609 AAAACGGGAA
***
8987619 TTTTTGAAAACACGGGAATTT
1 TTTTTGAAAACACAAAAATTT
*
8987640 TTTTTGAAAACACGAAAA---
1 TTTTTGAAAACACAAAAATTT
*
8987658 TTTTT-AAAACACAAAATTTT
1 TTTTTGAAAACACAAAAATTT
*
8987678 TTTTTGAAAACATAAAAATTT
1 TTTTTGAAAACACAAAAATTT
8987699 T
1 T
8987700 GATAAATTAC
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
17 10 0.20
18 5 0.10
20 5 0.10
21 30 0.60
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (21 bp):
TTTTTGAAAACACAAAAATTT
Found at i:8987788 original size:17 final size:17
Alignment explanation
Indices: 8987764--8987813 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
8987754 TTTTATTATT
8987764 ATTTTTGAAACACGAGAA
1 ATTTTTGAAACACGA-AA
* *
8987782 A-TTTTGAAAATATGAAA
1 ATTTTTG-AAACACGAAA
8987799 ATTTTTGAAACACGA
1 ATTTTTGAAACACGA
8987814 TTAGTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (17 bp):
ATTTTTGAAACACGAAA
Found at i:8988132 original size:5 final size:5
Alignment explanation
Indices: 8988122--8988171 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
8988112 GAATTTAACG
*
8988122 AATAA AATAA AATAA AATTAA AA-AA ACATAA ATACAA AATAA AA-AA
1 AATAA AATAA AATAA AA-TAA AATAA A-ATAA A-ATAA AATAA AATAA
8988168 AATA
1 AATA
8988172 CTTAAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
4 7 0.18
5 19 0.50
6 12 0.32
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:8988504 original size:30 final size:28
Alignment explanation
Indices: 8988468--8988550 Score: 78
Period size: 33 Copynumber: 2.7 Consensus size: 28
8988458 TTCTTTGGCA
*
8988468 GGCCTGCTGTTGGGCTGCTGGGAGTGGACT-
1 GGCCTGCTGTTGGGCTGCTGGAAG-GG--TG
8988498 GGCCTGCTGGTGTTGGGCTGCTGGAAGGGTG
1 GGCCTGC---TGTTGGGCTGCTGGAAGGGTG
8988529 GGCCTGCTGTTGTGGCCTGCTG
1 GGCCTGCTGTTG-GG-CTGCTG
8988551 TTTTTTTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
28 5 0.11
29 2 0.04
30 14 0.30
31 7 0.15
32 2 0.04
33 16 0.35
ACGTcount: A:0.05, C:0.20, G:0.47, T:0.28
Consensus pattern (28 bp):
GGCCTGCTGTTGGGCTGCTGGAAGGGTG
Found at i:8988704 original size:6 final size:6
Alignment explanation
Indices: 8988689--8988762 Score: 55
Period size: 6 Copynumber: 12.3 Consensus size: 6
8988679 TTCCCCCTTT
** **
8988689 TTTTTC -TTTTC TTTTTTC TTTTTC CCTTTC --TTTC TTTTTC TCCTTC
1 TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
*
8988735 TTTTTC TTCTTTC TTTTTTC TTCTTC TT
1 TTTTTC TT-TTTC -TTTTTC TTTTTC TT
8988763 CGGCAGCACC
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
4 4 0.07
5 5 0.09
6 31 0.56
7 13 0.24
8 2 0.04
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTC
Found at i:8988722 original size:16 final size:17
Alignment explanation
Indices: 8988699--8988748 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 17
8988689 TTTTTCTTTT
8988699 CTTT-TTTCTTTTTC-C
1 CTTTCTTTCTTTTTCTC
8988714 CTTTCTTTCTTTTTCTC
1 CTTTCTTTCTTTTTCTC
*
8988731 CTTCTTTTTCTTCTTTCT
1 CTT-TCTTTCTT-TTTCT
8988749 TTTTTCTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 4 0.13
16 10 0.33
17 4 0.13
18 7 0.23
19 5 0.17
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (17 bp):
CTTTCTTTCTTTTTCTC
Found at i:8988727 original size:29 final size:30
Alignment explanation
Indices: 8988691--8988760 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 30
8988681 CCCCCTTTTT
**
8988691 TTTC-TTTTCTTTTTTCTTTTTC-CCTTTC
1 TTTCTTTTTCTTCCTTCTTTTTCTCCTTTC
*
8988719 TTTCTTTTTC-TCCTTCTTTTTCTTCTTTC
1 TTTCTTTTTCTTCCTTCTTTTTCTCCTTTC
8988748 TTT-TTTCTTCTTC
1 TTTCTTT-TTCTTC
8988761 TTCGGCAGCA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
28 17 0.49
29 16 0.46
30 2 0.06
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (30 bp):
TTTCTTTTTCTTCCTTCTTTTTCTCCTTTC
Found at i:8988926 original size:21 final size:21
Alignment explanation
Indices: 8988870--8988936 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
8988860 TCTCCTTTTC
*
8988870 TTTTTC-TTCTTTGCTCTTTCTCT
1 TTTTTCTTTCTTTG--CTTGCT-T
*
8988893 TTTTTCTCT-TTTGCTTGCTT
1 TTTTTCTTTCTTTGCTTGCTT
*
8988913 TTTTTCTTTCTTTGTTTGCTT
1 TTTTTCTTTCTTTGCTTGCTT
8988934 TTT
1 TTT
8988937 ATGTTTAGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
20 9 0.24
21 18 0.47
23 10 0.26
24 1 0.03
ACGTcount: A:0.00, C:0.19, G:0.07, T:0.73
Consensus pattern (21 bp):
TTTTTCTTTCTTTGCTTGCTT
Found at i:8988980 original size:17 final size:17
Alignment explanation
Indices: 8988960--8988993 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8988950 GACGGTGGAA
*
8988960 CGACGATGGTGGTGGCG
1 CGACGATCGTGGTGGCG
*
8988977 CGACGGTCGTGGTGGCG
1 CGACGATCGTGGTGGCG
8988994 GTGGGGGCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.21, G:0.53, T:0.18
Consensus pattern (17 bp):
CGACGATCGTGGTGGCG
Found at i:8989356 original size:29 final size:30
Alignment explanation
Indices: 8989265--8989484 Score: 245
Period size: 30 Copynumber: 7.5 Consensus size: 30
8989255 TAAACTCAGT
* **
8989265 AAAAGTTTTGGGGTCAAAATGTAATTTTGA
1 AAAAGTTTAGGGGTTGAAATGTAATTTTGA
* * *
8989295 GAAAGTTTAGAGGTTAAAATGTAA-TTT-A
1 AAAAGTTTAGGGGTTGAAATGTAATTTTGA
*
8989323 TAAAAGTTTA-GGATTGAAATGTAATTTTGA
1 -AAAAGTTTAGGGGTTGAAATGTAATTTTGA
*
8989353 AAAA-TTTAGGGGTTGGAATGTAATTTT-A
1 AAAAGTTTAGGGGTTGAAATGTAATTTTGA
* * *
8989381 AAATGGTTTAGGGATTGAATTGTAATTTTGA
1 AAA-AGTTTAGGGGTTGAAATGTAATTTTGA
8989412 AAAA-TTTAGGGGTTGAAATGTAATTTTGA
1 AAAAGTTTAGGGGTTGAAATGTAATTTTGA
** *
8989441 AAAAGTTTAGGGGTCAAAATGTAATTTTAA
1 AAAAGTTTAGGGGTTGAAATGTAATTTTGA
*
8989471 AAAAGTTTAAGGGT
1 AAAAGTTTAGGGGT
8989485 CAAAATGCAA
Statistics
Matches: 161, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
28 20 0.12
29 61 0.38
30 76 0.47
31 4 0.02
ACGTcount: A:0.39, C:0.01, G:0.23, T:0.37
Consensus pattern (30 bp):
AAAAGTTTAGGGGTTGAAATGTAATTTTGA
Found at i:8989410 original size:59 final size:57
Alignment explanation
Indices: 8989281--8989484 Score: 248
Period size: 59 Copynumber: 3.5 Consensus size: 57
8989271 TTTGGGGTCA
* * *
8989281 AAATGTAATTTTGAGAAAGTTTAGAGGTTAAAATGTAATTTATAAAAGTTTA-GGATTG
1 AAATGTAATTTTGA-AAAATTTAGGGGTTGAAATGTAATTT-TAAAAGTTTAGGGATTG
*
8989339 AAATGTAATTTTGAAAAATTTAGGGGTTGGAATGTAATTTTAAAATGGTTTAGGGATTG
1 AAATGTAATTTTGAAAAATTTAGGGGTTGAAATGTAATTTTAAAA--GTTTAGGGATTG
* * **
8989398 AATTGTAATTTTGAAAAATTTAGGGGTTGAAATGTAATTTTGAAAAAGTTTAGGGGTCA
1 AAATGTAATTTTGAAAAATTTAGGGGTTGAAATGTAATTTT--AAAAGTTTAGGGATTG
* *
8989457 AAATGTAATTTTAAAAAAGTTTAAGGGT
1 AAATGTAATTTTGAAAAA-TTTAGGGGT
8989485 CAAAATGCAA
Statistics
Matches: 128, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
56 5 0.04
57 22 0.17
58 19 0.15
59 70 0.55
60 8 0.06
61 4 0.03
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.38
Consensus pattern (57 bp):
AAATGTAATTTTGAAAAATTTAGGGGTTGAAATGTAATTTTAAAAGTTTAGGGATTG
Found at i:8990481 original size:42 final size:41
Alignment explanation
Indices: 8990432--8990575 Score: 166
Period size: 42 Copynumber: 3.4 Consensus size: 41
8990422 AAAGCCAGCT
*
8990432 ATGGTCTTACACGAATCTCATATCGATACCAATGTCTCAAAC
1 ATGGTCTTACACGAATCTCATA-CGATGCCAATGTCTCAAAC
* * * *
8990474 ATAGTCTTACACTAATCTTATACAGATGCCAATGT-TCTAGAC
1 ATGGTCTTACACGAATCTCATAC-GATGCCAATGTCTC-AAAC
*
8990516 ATGGTCTTACACGAATCTCATAACGATGCCAATGTC-CAAGGC
1 ATGGTCTTACACGAATCTCAT-ACGATGCCAATGTCTCAA-AC
8990558 ATGGTCTTACACGTAATC
1 ATGGTCTTACACG-AATC
8990576 ACATCTCAGT
Statistics
Matches: 86, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
41 4 0.05
42 76 0.88
43 6 0.07
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (41 bp):
ATGGTCTTACACGAATCTCATACGATGCCAATGTCTCAAAC
Found at i:9001826 original size:27 final size:26
Alignment explanation
Indices: 9001795--9001855 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
9001785 AAATTAGAAC
*
9001795 AAAATATATTTA-TAAACATATTTTATA
1 AAAATATATTAATTAAA-ATATTTTA-A
9001822 AAAAT-TAATTAATTAAAATATTTTAA
1 AAAATAT-ATTAATTAAAATATTTTAA
*
9001848 ATAATATA
1 AAAATATA
9001856 ACTCAAAGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
26 7 0.24
27 18 0.62
28 4 0.14
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
AAAATATATTAATTAAAATATTTTAA
Found at i:9005035 original size:29 final size:31
Alignment explanation
Indices: 9005003--9005062 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
9004993 TCCCCTATTT
*
9005003 ACTTTT-CCCTAAAATTTTTACTCC-CTCCC
1 ACTTTTCCCCTAAAACTTTTACTCCTCTCCC
9005032 ACTTTTCCCCTAAAACTTTTACTCCTCTCCC
1 ACTTTTCCCCTAAAACTTTTACTCCTCTCCC
9005063 TTCCCAACCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 6 0.21
30 17 0.61
31 5 0.18
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
ACTTTTCCCCTAAAACTTTTACTCCTCTCCC
Found at i:9005069 original size:127 final size:127
Alignment explanation
Indices: 9004810--9005059 Score: 355
Period size: 127 Copynumber: 2.0 Consensus size: 127
9004800 CCCTTCTATA
* * * * *
9004810 CCCCAAACCAATTTTCTCCCAATTTTTTTTTTGAATATTTTCTTCCCAAAATTTACTTCCCTATT
1 CCCCAAACCCATTTTCTCCCAATCTTTTTTTTGAATATTTTCTCCCCAAAAGTTACTCCCCTATT
* * **
9004875 TACTTTTCCTCCAATATTTTTACTCCCTCTCACTTTCCTCACAAATTTTTTTACTCCTCTAC
66 TACTTTTCCTCCAAAATTTTTACTCCCTCCCACTTTCCTCACAAATACTTTTACTCCTCTAC
*
9004937 CCCCAAACCCATTTTCTCCCTATCTTTTTTTTGAATATTTTCTCCCCAAAAGTTACTCCCCTATT
1 CCCCAAACCCATTTTCTCCCAATCTTTTTTTTGAATATTTTCTCCCCAAAAGTTACTCCCCTATT
*
9005002 TACTTTTCC-CTAAAATTTTTACTCCCTCCCACTTTTCC-C-CTAAA-ACTTTTACTCCTCT
66 TACTTTTCCTCCAAAATTTTTACTCCCTCCCAC-TTTCCTCAC-AAATACTTTTACTCCTCT
9005060 CCCTTCCCAA
Statistics
Matches: 110, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
125 13 0.12
126 24 0.22
127 73 0.66
ACGTcount: A:0.22, C:0.33, G:0.01, T:0.44
Consensus pattern (127 bp):
CCCCAAACCCATTTTCTCCCAATCTTTTTTTTGAATATTTTCTCCCCAAAAGTTACTCCCCTATT
TACTTTTCCTCCAAAATTTTTACTCCCTCCCACTTTCCTCACAAATACTTTTACTCCTCTAC
Found at i:9005647 original size:34 final size:35
Alignment explanation
Indices: 9005603--9005669 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
9005593 CAGTAAAATG
* *
9005603 TTTTCCGTAAAAT-AATTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGAATTACTGGAAAATATTTTAC
* *
9005637 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGAATTACTGGAAAATATTTT
9005670 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 12 0.43
35 16 0.57
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGAATTACTGGAAAATATTTTAC
Found at i:9005656 original size:20 final size:20
Alignment explanation
Indices: 9005618--9005657 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
9005608 CGTAAAATAA
**
9005618 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
9005638 TTTCTGTAAAATGACTTACT
1 TTTCTGGAAAATGACTTACT
9005658 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:9007042 original size:27 final size:27
Alignment explanation
Indices: 9007012--9007081 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
9007002 AATAATCAAT
*
9007012 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
9007039 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAAC-AATTCAAAACATATA
*
9007067 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
9007082 CTAAAATTTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:9009017 original size:56 final size:57
Alignment explanation
Indices: 9008952--9009084 Score: 252
Period size: 56 Copynumber: 2.4 Consensus size: 57
9008942 ATAAACAAAA
9008952 AAATTTGACAATGTTATAAATTTTTTTATTTCTATTTTTTATAA-TTTTTAAATTAT
1 AAATTTGACAATGTTATAAATTTTTTTATTTCTATTTTTTATAATTTTTTAAATTAT
9009008 AAATTTGACAATGTTATAAA-TTTTTTATTTCTATTTTTTATAATTTTTTAAATTAT
1 AAATTTGACAATGTTATAAATTTTTTTATTTCTATTTTTTATAATTTTTTAAATTAT
9009064 AAATTTGACAATGTTATAAAT
1 AAATTTGACAATGTTATAAAT
9009085 AATGTTTAAC
Statistics
Matches: 75, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
55 23 0.31
56 52 0.69
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.56
Consensus pattern (57 bp):
AAATTTGACAATGTTATAAATTTTTTTATTTCTATTTTTTATAATTTTTTAAATTAT
Found at i:9009030 original size:32 final size:32
Alignment explanation
Indices: 9008990--9009084 Score: 91
Period size: 32 Copynumber: 3.2 Consensus size: 32
9008980 TTTCTATTTT
9008990 TTAT-AATTTTTAAATTATAAATTTGACAATG
1 TTATAAATTTTTAAATTATAAATTTGACAATG
* **
9009021 TTATAAATTTTT-TATT-TCTATTT-----T-
1 TTATAAATTTTTAAATTATAAATTTGACAATG
*
9009045 TTATAATTTTTTAAATTATAAATTTGACAATG
1 TTATAAATTTTTAAATTATAAATTTGACAATG
9009077 TTATAAAT
1 TTATAAAT
9009085 AATGTTTAAC
Statistics
Matches: 47, Mismatches: 8, Indels: 17
0.65 0.11 0.24
Matches are distributed among these distances:
24 11 0.23
25 4 0.09
26 5 0.11
30 5 0.11
31 8 0.17
32 14 0.30
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (32 bp):
TTATAAATTTTTAAATTATAAATTTGACAATG
Found at i:9009858 original size:14 final size:14
Alignment explanation
Indices: 9009839--9009866 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9009829 TCTTTAAAAA
9009839 GAATTAACTTATTT
1 GAATTAACTTATTT
9009853 GAATTAACTTATTT
1 GAATTAACTTATTT
9009867 TTAAAGGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
GAATTAACTTATTT
Found at i:9013859 original size:29 final size:28
Alignment explanation
Indices: 9013814--9013879 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
9013804 GGCGTGGTTT
* *
9013814 TTTAAATAATTAAAAAATTATATAAAATTA
1 TTTAAA-AATTAAAAAAATAT-TAAAAATA
*
9013844 TTTAAAAATTATAAAAATATTAAAAATA
1 TTTAAAAATTAAAAAAATATTAAAAATA
*
9013872 ATTAAAAA
1 TTTAAAAA
9013880 CAACATCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 14 0.44
29 12 0.38
30 6 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (28 bp):
TTTAAAAATTAAAAAAATATTAAAAATA
Found at i:9013875 original size:21 final size:19
Alignment explanation
Indices: 9013817--9013869 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 19
9013807 GTGGTTTTTT
9013817 AAATAATTAAAAAATTATATA
1 AAAT-ATTAAAAAATTATA-A
*
9013838 AAATTATTTAAAAATTATAA
1 AAA-TATTAAAAAATTATAA
9013858 AAATATTAAAAA
1 AAATATTAAAAA
9013870 TAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 8 0.28
20 4 0.14
21 16 0.55
22 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATATTAAAAAATTATAA
Found at i:9013877 original size:19 final size:20
Alignment explanation
Indices: 9013826--9013879 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
9013816 TAAATAATTA
*
9013826 AAAAATTATATAAAATTATTT
1 AAAAATTAT-TAAAAATATTT
9013847 AAAAATTA-TAAAAATA-TT
1 AAAAATTATTAAAAATATTT
*
9013865 AAAAATAATTAAAAA
1 AAAAATTATTAAAAA
9013880 CAACATCAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 9 0.30
19 13 0.43
21 8 0.27
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATTATTAAAAATATTT
Found at i:9013879 original size:11 final size:11
Alignment explanation
Indices: 9013817--9013879 Score: 55
Period size: 11 Copynumber: 6.2 Consensus size: 11
9013807 GTGGTTTTTT
*
9013817 AAATAATTAAA
1 AAATTATTAAA
*
9013828 AAATTA-TATA
1 AAATTATTAAA
*
9013838 AAATTATTTAA
1 AAATTATTAAA
9013849 AAATTA-T-AA
1 AAATTATTAAA
9013858 AAA-TATT-AA
1 AAATTATTAAA
*
9013867 AAATAATTAAA
1 AAATTATTAAA
9013878 AA
1 AA
9013880 CAACATCAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
8 2 0.05
9 11 0.26
10 13 0.30
11 17 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATTATTAAA
Found at i:9014236 original size:19 final size:18
Alignment explanation
Indices: 9014209--9014277 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
9014199 ATTTTTCTAT
*
9014209 AAAATATTATTAAAAATAA
1 AAAAAATTATTAAAAAT-A
9014228 AAAAAATTA-TAAAAATA
1 AAAAAATTATTAAAAATA
* *
9014245 AAAGAATTATCAAATAATA
1 AAAAAATTATTAAA-AATA
*
9014264 TAAAAATTATTAAA
1 AAAAAATTATTAAA
9014278 TGTTAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
17 9 0.21
18 10 0.24
19 23 0.55
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (18 bp):
AAAAAATTATTAAAAATA
Found at i:9014382 original size:10 final size:10
Alignment explanation
Indices: 9014334--9014493 Score: 55
Period size: 10 Copynumber: 16.1 Consensus size: 10
9014324 TTTTATAAAT
9014334 ATTATAAAAA
1 ATTATAAAAA
* *
9014344 A-TCTAATAA
1 ATTATAAAAA
* *
9014353 ATTCTAATAA
1 ATTATAAAAA
9014363 ATTATAAAAAA
1 ATTAT-AAAAA
9014374 ATTAT-AAAA
1 ATTATAAAAA
* *
9014383 GTAATAAAACA
1 ATTATAAAA-A
*
9014394 TATT-TAAAAC
1 -ATTATAAAAA
*
9014404 ATT-TAAAAT
1 ATTATAAAAA
*
9014413 TTTATAAAAA
1 ATTATAAAAA
* *
9014423 CA-TAT-TAAG
1 -ATTATAAAAA
*
9014432 ATTCTATAAAA
1 ATTATA-AAAA
*
9014443 ATCATAAAAA
1 ATTATAAAAA
*
9014453 ATTTTAAAAA
1 ATTATAAAAA
* *
9014463 A-TACATTAAA
1 ATTATA-AAAA
*
9014473 ATTATATAAA
1 ATTATAAAAA
*
9014483 CTTATAAAAA
1 ATTATAAAAA
9014493 A
1 A
9014494 ATCATAAAAC
Statistics
Matches: 109, Mismatches: 29, Indels: 24
0.67 0.18 0.15
Matches are distributed among these distances:
8 1 0.01
9 30 0.28
10 53 0.49
11 24 0.22
12 1 0.01
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (10 bp):
ATTATAAAAA
Found at i:9014439 original size:21 final size:21
Alignment explanation
Indices: 9014399--9014482 Score: 75
Period size: 21 Copynumber: 4.1 Consensus size: 21
9014389 AAACATATTT
*
9014399 AAAACAT-TTAAAATTTTATA
1 AAAACATATTAAAATTCTATA
*
9014419 AAAACATATTAAGATTCTATA
1 AAAACATATTAAAATTCTATA
* *
9014440 AAAATCATA-AAAAATTTTA-A
1 AAAA-CATATTAAAATTCTATA
* * *
9014460 AAAATACATTAAAATTATATA
1 AAAACATATTAAAATTCTATA
9014481 AA
1 AA
9014483 CTTATAAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
19 2 0.04
20 20 0.39
21 25 0.49
22 4 0.08
ACGTcount: A:0.60, C:0.06, G:0.01, T:0.33
Consensus pattern (21 bp):
AAAACATATTAAAATTCTATA
Found at i:9014954 original size:18 final size:18
Alignment explanation
Indices: 9014898--9014954 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 18
9014888 GGTTTTTATG
9014898 GTTTTTTTAAGTTTTATAA
1 GTTTTTTTAAG-TTTATAA
****
9014917 GTTTTTTTGCCATTAT--
1 GTTTTTTTAAGTTTATAA
9014933 GTTTTTTTAAGTTTATAA
1 GTTTTTTTAAGTTTATAA
9014951 GTTT
1 GTTT
9014955 ACATGAATTT
Statistics
Matches: 28, Mismatches: 8, Indels: 5
0.68 0.20 0.12
Matches are distributed among these distances:
16 12 0.43
18 8 0.29
19 8 0.29
ACGTcount: A:0.21, C:0.04, G:0.12, T:0.63
Consensus pattern (18 bp):
GTTTTTTTAAGTTTATAA
Found at i:9015036 original size:18 final size:18
Alignment explanation
Indices: 9014960--9015117 Score: 67
Period size: 18 Copynumber: 8.4 Consensus size: 18
9014950 AGTTTACATG
*
9014960 AATTTTATTTTATTTT-AT
1 AATTTTA-TTAATTTTAAT
*
9014978 AATTTTGTTTACATTTTAAT
1 AATTTT-ATTA-ATTTTAAT
* *
9014998 TATTTT-TTAAGAATTCTAAT
1 AATTTTATT---AATTTTAAT
9015018 AATTTT-TTAATTTTAA-
1 AATTTTATTAATTTTAAT
* *
9015034 ATATTTTAAATAAGTTTTTATT
1 A-ATTTT-ATTAA--TTTTAAT
*
9015056 AATTTTATTAATTTTATT
1 AATTTTATTAATTTTAAT
*
9015074 AATTTT-TATAA-TTTATT
1 AATTTTAT-TAATTTTAAT
* *
9015091 AGATTTTATTTATTTTTAT
1 A-ATTTTATTAATTTTAAT
9015110 AATATTTA
1 AAT-TTTA
9015118 CAAGTTTTTA
Statistics
Matches: 111, Mismatches: 12, Indels: 33
0.71 0.08 0.21
Matches are distributed among these distances:
16 1 0.01
17 20 0.18
18 35 0.32
19 18 0.16
20 25 0.23
21 11 0.10
22 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.63
Consensus pattern (18 bp):
AATTTTATTAATTTTAAT
Found at i:9015061 original size:9 final size:9
Alignment explanation
Indices: 9015049--9015106 Score: 75
Period size: 9 Copynumber: 6.4 Consensus size: 9
9015039 TTAAATAAGT
9015049 TTTTATTAA
1 TTTTATTAA
9015058 TTTTATTAA
1 TTTTATTAA
9015067 TTTTATTAA
1 TTTTATTAA
9015076 TTTT-TATAA
1 TTTTAT-TAA
9015085 -TTTATTAGA
1 TTTTATTA-A
*
9015094 TTTTATTTA
1 TTTTATTAA
9015103 TTTT
1 TTTT
9015107 TATAATATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
8 6 0.14
9 32 0.73
10 6 0.14
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTTATTAA
Found at i:9015147 original size:12 final size:11
Alignment explanation
Indices: 9015125--9015158 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
9015115 TTACAAGTTT
9015125 TTATATTTTTA
1 TTATATTTTTA
9015136 TTATAGTTTTTA
1 TTATA-TTTTTA
*
9015148 TTATAATTTTA
1 TTATATTTTTA
9015159 ATAAGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (11 bp):
TTATATTTTTA
Found at i:9015167 original size:20 final size:20
Alignment explanation
Indices: 9015036--9015181 Score: 69
Period size: 18 Copynumber: 7.5 Consensus size: 20
9015026 AATTTTAAAT
9015036 ATTTTAAATAAGTTT-TTATTA
1 ATTTT-AATAAGTTTATTA-TA
* *
9015057 ATTTTATTAATTTTA-T-TA
1 ATTTTAATAAGTTTATTATA
* *
9015075 ATTTTTATAA-TTTATTA-G
1 ATTTTAATAAGTTTATTATA
* *
9015093 ATTTTATTTA-TTT-TTATA
1 ATTTTAATAAGTTTATTATA
*
9015111 ATATTT-ACAAGTTT-TTATA
1 AT-TTTAATAAGTTTATTATA
* *
9015130 TTTTTATTATAGTTTTTATTATA
1 ATTTTAATA-AG--TTTATTATA
9015153 ATTTTAATAAGTTTA-TATCA
1 ATTTTAATAAGTTTATTAT-A
*
9015173 TTTTTAATA
1 ATTTTAATA
9015182 TTTAATATTT
Statistics
Matches: 95, Mismatches: 18, Indels: 25
0.69 0.13 0.18
Matches are distributed among these distances:
17 7 0.07
18 27 0.28
19 16 0.17
20 23 0.24
21 5 0.05
22 5 0.05
23 12 0.13
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (20 bp):
ATTTTAATAAGTTTATTATA
Found at i:9015769 original size:86 final size:86
Alignment explanation
Indices: 9015525--9015769 Score: 357
Period size: 86 Copynumber: 2.8 Consensus size: 86
9015515 TTAGTGGAAG
* *
9015525 CGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCACAAACGCCACGAAAGAACCTAATCTT
1 CGCCGCAATAGACCCTGATCTATAGTGGCGCTTTGACCACAAACGCCACTAAAGAACCTAATCTT
* * *
9015590 TAGCGGCACTTTCCCCTCAAA
66 TAGCGGCGCTTTACCCACAAA
*
9015611 CGCCGCAATAGACCCTGATCTATAGTGGCGCTTCGACCACAAACGCCACTAAAGAACCTAATCTT
1 CGCCGCAATAGACCCTGATCTATAGTGGCGCTTTGACCACAAACGCCACTAAAGAACCTAATCTT
9015676 TAGCGGCGCTTTACCCACAAA
66 TAGCGGCGCTTTACCCACAAA
* * ** * * *
9015697 CGCCGCTAA-AGACCATGATCTTTAGTGGCGCTTTTTCCACAAACGCCGCTAAAGACCCTTATCT
1 CGCCGC-AATAGACCCTGATCTATAGTGGCGCTTTGACCACAAACGCCACTAAAGAACCTAATCT
9015761 TTAGCGGCG
65 TTAGCGGCG
9015770 TTTTTTTTAA
Statistics
Matches: 144, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
86 142 0.99
87 2 0.01
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (86 bp):
CGCCGCAATAGACCCTGATCTATAGTGGCGCTTTGACCACAAACGCCACTAAAGAACCTAATCTT
TAGCGGCGCTTTACCCACAAA
Found at i:9015775 original size:43 final size:43
Alignment explanation
Indices: 9015525--9015769 Score: 262
Period size: 43 Copynumber: 5.7 Consensus size: 43
9015515 TTAGTGGAAG
*
9015525 CGCCGC-AATAGACCCTGATCTATAGCGGCGCTTTGACCACAAA
1 CGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTGACCACAAA
* * * * * ** *
9015568 CGCCACGAAAGAACCTAATCTTTAGCGGCACTTTCCCCTCAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCACAAA
* * *
9015611 CGCCGC-AATAGACCCTGATCTATAGTGGCGCTTCGACCACAAA
1 CGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTGACCACAAA
* * *
9015654 CGCCACTAAAGAACCTAATCTTTAGCGGCGCTTT-ACCCACAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGA-CCACAAA
* * **
9015697 CGCCGCTAAAGACCATGATCTTTAGTGGCGCTTTTTCCACAAA
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCACAAA
*
9015740 CGCCGCTAAAGACCCTTATCTTTAGCGGCG
1 CGCCGCTAAAGACCCTGATCTTTAGCGGCG
9015770 TTTTTTTTAA
Statistics
Matches: 164, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
42 3 0.02
43 157 0.96
44 4 0.02
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (43 bp):
CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTGACCACAAA
Found at i:9016094 original size:21 final size:21
Alignment explanation
Indices: 9016068--9016180 Score: 127
Period size: 21 Copynumber: 5.4 Consensus size: 21
9016058 TTTGACGCTG
*
9016068 CTCTGCTTCCCTTGCTGCAGC
1 CTCTGCTTCTCTTGCTGCAGC
* * **
9016089 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCTCTTGCTGCAGC
*
9016110 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCTCTTGCTGCAGC
* * *
9016131 CTATACTTCTCTTGCTGCTGC
1 CTCTGCTTCTCTTGCTGCAGC
*
9016152 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCTCTTGCTGCAGC
*
9016173 ATCTGCTT
1 CTCTGCTT
9016181 TAAGCTGCTG
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 78 1.00
ACGTcount: A:0.05, C:0.40, G:0.17, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCTCTTGCTGCAGC
Found at i:9016228 original size:66 final size:66
Alignment explanation
Indices: 9016151--9016297 Score: 199
Period size: 66 Copynumber: 2.2 Consensus size: 66
9016141 CTTGCTGCTG
* *
9016151 CCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTT
9016214 GAA
64 GAA
* * * *
9016217 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
9016282 A
66 A
*
9016283 TCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
9016298 ATGTTGCCTC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
65 1 0.01
66 67 0.93
67 4 0.06
ACGTcount: A:0.12, C:0.29, G:0.18, T:0.41
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Done.