Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 131 of 144
Found at i:32709844 original size:60 final size:59
Alignment explanation
Indices: 32709754--32709901 Score: 174
Period size: 60 Copynumber: 2.5 Consensus size: 59
32709744 GGCCATAGCC
* *
32709754 CTTTTTATCTGATAAAAAATTCAAATTTTTTTATGTTGGCCA-TGTCATGGCCGACACCC-
1 CTTTTTATCTGA-AAAAAATTCAAATTTTTTTATATTGGCCATTG-CATGACCGACACCCT
* * *
32709813 CTTTTTTATCTGACAAAAAATTCAAATTTTTTTGTATTGGTCATTGCATGACCGACATCCT
1 C-TTTTTATCTGA-AAAAAATTCAAATTTTTTTATATTGGCCATTGCATGACCGACACCCT
* * *
32709874 CTTTTTGTCAGATAAAAATTCAAATTTT
1 CTTTTTATCTGAAAAAAATTCAAATTTT
32709902 CATGGCCAAC
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
59 16 0.21
60 58 0.75
61 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (59 bp):
CTTTTTATCTGAAAAAAATTCAAATTTTTTTATATTGGCCATTGCATGACCGACACCCT
Found at i:32710016 original size:161 final size:162
Alignment explanation
Indices: 32709611--32710071 Score: 440
Period size: 168 Copynumber: 2.8 Consensus size: 162
32709601 TCAGATAGAT
* **
32709611 TTTTTTTGTGTTGGCCATGCAATGGTCGACACCTCCTTTTTGTCAAATAAAAAATTCAAATTTTT
1 TTTTTTTGTGTTGGCCATGC-ATGGTCGACACC-CCTTTTTATCTGATAAAAAATTCAAATTTTT
* * * * * *
32709676 TGGTGTTTGCCATTGCATGGCCGACACCCCTTTTTTGTCAGATAAAAAAATTTAAATTTTTTGGT
64 TGGTGTTGGTCATTGCATGACCGACATCCC-TTTTTGTCAGAT-AAAAAATTCAAATTTTATGGT
*** *
32709741 GTCGGCCATAGCCCTTTTTATCTGATAAAAAATTCAAA
127 GTCCAACATA-CACTTTTTATCT-ATAAAAAATTCAAA
* * *
32709779 TTTTTTTATGTTGGCCATGTCATGGCCGACACCCCTTTTTTATCTGACAAAAAATTCAAATTTTT
1 TTTTTTTGTGTTGGCCATG-CATGGTCGACACCCC-TTTTTATCTGATAAAAAATTCAAATTTTT
* *
32709844 TTGTATTGGTCATTGCATGACCGACATCCTCTTTTTGTCAGAT-AAAAATTCAAATTTTCAT-G-
64 TGGTGTTGGTCATTGCATGACCGACATCC-CTTTTTGTCAGATAAAAAATTCAAATTTT-ATGGT
32709906 G-CCAACAT-CAACTTTTTAT-T-TAAAAAATAATC-AA
127 GTCCAACATAC-ACTTTTTATCTATAAAAAAT--TCAAA
* *
32709940 TTTTTTTGTATTGGTCATTGCATGGTCGACACCACCTTTTTATCTGATAAAAAAATT-AAATTTT
1 TTTTTTTGTGTTGGCCA-TGCATGGTCGACACC-CCTTTTTATCTGAT-AAAAAATTCAAATTTT
* *
32710004 TTGGTGTTGGTCA-TACTATGACCGACATCACCTTTTTAT-ATGATAAAAAAATAATCAAATTTT
63 TTGGTGTTGGTCATTGC-ATGACCGACATC-CCTTTTTGTCA-GAT-AAAAAAT--TCAAATTTT
*
32710067 TTGGT
122 ATGGT
32710072 TTTGGCAATT
Statistics
Matches: 246, Mismatches: 28, Indels: 40
0.78 0.09 0.13
Matches are distributed among these distances:
160 11 0.04
161 79 0.32
162 17 0.07
163 14 0.06
164 5 0.02
165 11 0.04
166 15 0.06
167 3 0.01
168 89 0.36
169 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (162 bp):
TTTTTTTGTGTTGGCCATGCATGGTCGACACCCCTTTTTATCTGATAAAAAATTCAAATTTTTTG
GTGTTGGTCATTGCATGACCGACATCCCTTTTTGTCAGATAAAAAATTCAAATTTTATGGTGTCC
AACATACACTTTTTATCTATAAAAAATTCAAA
Found at i:32710138 original size:61 final size:60
Alignment explanation
Indices: 32709938--32710164 Score: 253
Period size: 60 Copynumber: 3.7 Consensus size: 60
32709928 AAAAATAATC
* * * *
32709938 AATTTTTTTGTATTGGTCATTGCATGGTCGACACCACCTTTTTATCTGATAAAAAAATTA
1 AATTTTTTGGTGTTGGTCATTGCATGGCCGACACCACCTTATTATCTGATAAAAAAATTA
* * * * *
32709998 AATTTTTTGGTGTTGGTCA-TACTATGACCGACATCACCTTTTTATATGATAAAAAAATAATCA
1 AATTTTTTGGTGTTGGTCATTGC-ATGGCCGACACCACCTTATTATCTGATAAAAAAAT--T-A
* *
32710061 AATTTTTTGGTTTTGG-CAATTGCATGGCCGACACCACATTATTATCTGATTAAAAAAATTA
1 AATTTTTTGGTGTTGGTC-ATTGCATGGCCGACACCACCTTATTATCTGA-TAAAAAAATTA
* *
32710122 ATTTTTTTGGTGTTGG-CTATTGCATGGTCGACACCACCTTATT
1 AATTTTTTGGTGTTGGTC-ATTGCATGGCCGACACCACCTTATT
32710165 CTCCCAGATA
Statistics
Matches: 141, Mismatches: 19, Indels: 13
0.82 0.11 0.08
Matches are distributed among these distances:
59 2 0.01
60 48 0.34
61 39 0.28
62 3 0.02
63 38 0.27
64 11 0.08
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (60 bp):
AATTTTTTGGTGTTGGTCATTGCATGGCCGACACCACCTTATTATCTGATAAAAAAATTA
Found at i:32710501 original size:111 final size:111
Alignment explanation
Indices: 32710307--32710514 Score: 317
Period size: 111 Copynumber: 1.9 Consensus size: 111
32710297 ACCTCGACGG
** *
32710307 AACACCCGAGTGACGACCGGTGTACTCTGAAACCCAAAAAATCTCCAACTCCCGCGAATAAATTT
1 AACACCCGAACGACGACCGGTGTACTCTGAAACCCAAAAAATCTCCAACTCCCGCAAATAAATTT
* * *
32710372 TTGTGTTCATCGTTCGAGCTCTCTGACTGTTTTCCACTATAGGCGA
66 CTGCGTTCATCGTTCGAGCTCTCTAACTGTTTTCCACTATAGGCGA
* * ** *
32710418 AACACCCGAACGATGACTGGTGTACTCTGAAACCTGAAAAATCTCCAACTCCTGCAAATAAATTT
1 AACACCCGAACGACGACCGGTGTACTCTGAAACCCAAAAAATCTCCAACTCCCGCAAATAAATTT
32710483 CTGCGTTCATCGTTCGAGCTCTCTAACTGTTT
66 CTGCGTTCATCGTTCGAGCTCTCTAACTGTTT
32710515 GCCGCTTGAC
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
111 86 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (111 bp):
AACACCCGAACGACGACCGGTGTACTCTGAAACCCAAAAAATCTCCAACTCCCGCAAATAAATTT
CTGCGTTCATCGTTCGAGCTCTCTAACTGTTTTCCACTATAGGCGA
Found at i:32714452 original size:85 final size:84
Alignment explanation
Indices: 32714331--32714537 Score: 242
Period size: 85 Copynumber: 2.4 Consensus size: 84
32714321 CAATGCATGA
* * **
32714331 CCAACACAAAAAAATTTATTTTTATT-T-GGCCAAAAAATTTGATTATTTTTTATCATATAAAAA
1 CCAACACAAAAAAATTAATTTTT-TTATCAGATAAAAAATTTGATT-TTTTTT-TCATATAAAAA
* * *
32714394 AGTGGTG-TCGGTCATGGGATTG
63 AGTGG-GATCGATCATGGCATAG
*
32714416 CCAACACAAAAAAATTTAA-TTTTTTATCAGATAAAAAAATTTGATTTTTTTTTCATATAAAAAG
1 CCAACACAAAAAAA-TTAATTTTTTTATCAGAT-AAAAAATTTGATTTTTTTTTCATATAAAAAA
32714480 GTGGGATCGATCATGGCATAG
64 GTGGGATCGATCATGGCATAG
* *
32714501 TCAACACAAAAAAATTAATTTTTTTATTAGATAAAAA
1 CCAACACAAAAAAATTAATTTTTTTATCAGATAAAAA
32714538 GGGGGTGTCG
Statistics
Matches: 106, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
84 12 0.11
85 71 0.67
86 10 0.09
87 13 0.12
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (84 bp):
CCAACACAAAAAAATTAATTTTTTTATCAGATAAAAAATTTGATTTTTTTTTCATATAAAAAAGT
GGGATCGATCATGGCATAG
Found at i:32714559 original size:59 final size:60
Alignment explanation
Indices: 32714448--32714880 Score: 299
Period size: 60 Copynumber: 7.3 Consensus size: 60
32714438 TTTATCAGAT
* * * * * *
32714448 AAAAAAATTTGATTTTTTT-TTCATATAAAAAGGTGGG-ATCGATCATGGCATAGTCAACAC
1 AAAAAAATTTAATTTTTTTATT-AGATAAAAAGG-GGGTGTCGACCATGTCATAGCCAACAC
*
32714508 AAAAAAA-TTAATTTTTTTATTAGATAAAAAGGGGGTGTCGACCATGTCATAGCCAGCAC
1 AAAAAAATTTAATTTTTTTATTAGATAAAAAGGGGGTGTCGACCATGTCATAGCCAACAC
* * * **
32714567 AAAAAAATTTAATTTTTTTATCAGATAAAAAGGTGATGTCGGTCATAGT-AT-GACCAACAC
1 AAAAAAATTTAATTTTTTTATTAGATAAAAAGGGGGTGTCGACCAT-GTCATAG-CCAACAC
* ** * ** * *
32714627 AAAAAAATTTGAA-TTTTTTATCT-GACAAAAAGAAGGTGTTGATTATGTAAT-GGC--CA-
1 AAAAAAATTT-AATTTTTTTAT-TAGATAAAAAGGGGGTGTCGACCATGTCATAGCCAACAC
* * * * *
32714683 AAAAAAATTTAAATTTTTTATTAGATAAAAAGGGGATGTCGGCCATAGT-ATAGCTAGCAC
1 AAAAAAATTTAATTTTTTTATTAGATAAAAAGGGGGTGTCGACCAT-GTCATAGCCAACAC
* ** *
32714743 AAAAAAATTTGAA-TTTTTTATCAGATAAAAA-GGGGTGTCGACCATGGGAT-GACCAATATC
1 AAAAAAATTT-AATTTTTTTATTAGATAAAAAGGGGGTGTCGACCATGTCATAG-CCAACA-C
* * * * * * *
32714803 -AAAAAATTTAAATTTTTTATTTGACAAAAAGGGAGTGTTGGCCATG-CA-ATGATCAACAC
1 AAAAAAATTTAATTTTTTTATTAGATAAAAAGGGGGTGTCGACCATGTCATA-G-CCAACAC
32714862 AAAAAAATTTGAATTTTTT
1 AAAAAAATTT-AATTTTTT
32714881 ATCTGAAAAA
Statistics
Matches: 299, Mismatches: 49, Indels: 49
0.75 0.12 0.12
Matches are distributed among these distances:
55 3 0.01
56 35 0.12
57 5 0.02
58 7 0.02
59 94 0.31
60 142 0.47
61 13 0.04
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.32
Consensus pattern (60 bp):
AAAAAAATTTAATTTTTTTATTAGATAAAAAGGGGGTGTCGACCATGTCATAGCCAACAC
Found at i:32714715 original size:116 final size:116
Alignment explanation
Indices: 32714502--32714892 Score: 375
Period size: 119 Copynumber: 3.3 Consensus size: 116
32714492 ATGGCATAGT
* * **
32714502 CAACACAAAAAAA-TT-AATTTTTTTAT-TAGATAAAAAGGGGGTGTCGACCATGTCAT-AGCCA
1 CAACACAAAAAAATTTGAA-TTTTTTATCT-GA-AAAAAAGAGGTGTCGACCATGGAATGA-CCA
* * * *
32714563 GCACAAAAAAATTTAATTTTTTTATCAGATAAAAAGGTGATGTCGGTCATAGTATGAC
62 --ATAAAAAAATTTAAATTTTTTATTAGATAAAAAGG-GATGTCGGCCATAGTATGAC
* * ** * *
32714621 CAACACAAAAAAATTTGAATTTTTTATCTGACAAAAAGAAGGTGTTGATTATGTAATGGCC-A-A
1 CAACACAAAAAAATTTGAATTTTTTATCTGAAAAAAAG-AGGTGTCGACCATGGAATGACCAATA
32714684 AAAAAATTTAAATTTTTTATTAGATAAAAAGGGGATGTCGGCCATAGTAT-AGC
65 AAAAAATTTAAATTTTTTATTAGATAAAAA-GGGATGTCGGCCATAGTATGA-C
* * * * * *
32714737 TAGCACAAAAAAATTTGAATTTTTTATCAGATAAAAAGGGGTGTCGACCATGGGATGACCAATAT
1 CAACACAAAAAAATTTGAATTTTTTATCTGAAAAAAAGAGGTGTCGACCATGGAATGACCAATA-
* * * * *
32714802 CAAAAAATTTAAATTTTTTATTTGACAAAAAGGGAGTGTTGGCCAT-GCAATGAT
65 -AAAAAATTTAAATTTTTTATTAGATAAAAAGGGA-TGTCGGCCATAG-TATGAC
32714856 CAACACAAAAAAATTTGAATTTTTTATCTGAAAAAAA
1 CAACACAAAAAAATTTGAATTTTTTATCTGAAAAAAA
32714893 AATTTAAATT
Statistics
Matches: 227, Mismatches: 31, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
115 16 0.07
116 81 0.36
117 4 0.02
118 5 0.02
119 90 0.40
120 28 0.12
121 3 0.01
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (116 bp):
CAACACAAAAAAATTTGAATTTTTTATCTGAAAAAAAGAGGTGTCGACCATGGAATGACCAATAA
AAAAATTTAAATTTTTTATTAGATAAAAAGGGATGTCGGCCATAGTATGAC
Found at i:32714745 original size:176 final size:174
Alignment explanation
Indices: 32714508--32714833 Score: 478
Period size: 176 Copynumber: 1.9 Consensus size: 174
32714498 TAGTCAACAC
* *
32714508 AAAAAAATTAATTTTTTTATTAGATAAAAAGGGGGTGTCGACCATGTCATAGCCAGCACAAAAAA
1 AAAAAAATTAAATTTTTTATTAGATAAAAAGGGGATGTCGACCATGTCATAGCCAGCACAAAAAA
** *
32714573 ATTT-AATTTTTTTATCAGATAAAAAGGTGATGTCGGTCATAGTATGACCAACA-CAAAAAAATT
66 ATTTGAA-TTTTTTATCAGATAAAAAGG-GATGTCGACCATAGGATGACCAACATC-AAAAAATT
*
32714636 TGAATTTTTTATCTGACAAAAAGAAGGTGTTGATTATGTAATGGCCA
128 TAAATTTTTTATCTGACAAAAAGAAGGTGTTGATTATGTAATGGCCA
* *
32714683 AAAAAAATTTAAATTTTTTATTAGATAAAAAGGGGATGTCGGCCATAGT-ATAGCTAGCACAAAA
1 AAAAAAA-TTAAATTTTTTATTAGATAAAAAGGGGATGTCGACCAT-GTCATAGCCAGCACAAAA
* * *
32714747 AAATTTGAATTTTTTATCAGATAAAAAGGGGTGTCGACCATGGGATGACCAATATCAAAAAATTT
64 AAATTTGAATTTTTTATCAGATAAAAAGGGATGTCGACCATAGGATGACCAACATCAAAAAATTT
*
32714812 AAATTTTTTATTTGACAAAAAG
129 AAATTTTTTATCTGACAAAAAG
32714834 GGAGTGTTGG
Statistics
Matches: 135, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
175 55 0.41
176 76 0.56
177 4 0.03
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (174 bp):
AAAAAAATTAAATTTTTTATTAGATAAAAAGGGGATGTCGACCATGTCATAGCCAGCACAAAAAA
ATTTGAATTTTTTATCAGATAAAAAGGGATGTCGACCATAGGATGACCAACATCAAAAAATTTAA
ATTTTTTATCTGACAAAAAGAAGGTGTTGATTATGTAATGGCCA
Found at i:32714896 original size:26 final size:26
Alignment explanation
Indices: 32714862--32714918 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
32714852 TGATCAACAC
*
32714862 AAAAAAATTTGAATTTTTTATCTGAA
1 AAAAAAATTTAAATTTTTTATCTGAA
*
32714888 AAAAAAATTTAAATTTTTTATCTGAC
1 AAAAAAATTTAAATTTTTTATCTGAA
32714914 AAAAA
1 AAAAA
32714919 TGGCCAACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (26 bp):
AAAAAAATTTAAATTTTTTATCTGAA
Found at i:32724643 original size:18 final size:18
Alignment explanation
Indices: 32724620--32724659 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
32724610 TAACCACTTT
32724620 AATTAACATAATTGTTTG
1 AATTAACATAATTGTTTG
32724638 AATTAACATAATTGTTTG
1 AATTAACATAATTGTTTG
32724656 AATT
1 AATT
32724660 GATCATTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (18 bp):
AATTAACATAATTGTTTG
Found at i:32734517 original size:12 final size:12
Alignment explanation
Indices: 32734498--32734567 Score: 54
Period size: 12 Copynumber: 5.9 Consensus size: 12
32734488 ATCAAAACAG
32734498 TAACAAAAATAA
1 TAACAAAAATAA
*
32734510 TAGA-AAAAATAG
1 TA-ACAAAAATAA
32734522 TAACAAAAATAA
1 TAACAAAAATAA
* * *
32734534 CAATAAAAACAA
1 TAACAAAAATAA
* *
32734546 -CACCAAAATAA
1 TAACAAAAATAA
*
32734557 TAAAAAAAATA
1 TAACAAAAATA
32734568 GCATCAAAAC
Statistics
Matches: 43, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
11 8 0.19
12 34 0.79
13 1 0.02
ACGTcount: A:0.73, C:0.10, G:0.03, T:0.14
Consensus pattern (12 bp):
TAACAAAAATAA
Found at i:32734541 original size:24 final size:24
Alignment explanation
Indices: 32734484--32734600 Score: 80
Period size: 23 Copynumber: 5.0 Consensus size: 24
32734474 ATAACATCTA
*
32734484 AACAATCAAAACAGTAACAAAAAT
1 AACAATAAAAACAGTAACAAAAAT
* *
32734508 AATAGA-AAAAATAGTAACAAAAAT
1 AACA-ATAAAAACAGTAACAAAAAT
*
32734532 AACAATAAAAACA--ACACCAAAAT
1 AACAATAAAAACAGTA-ACAAAAAT
* * * * * *
32734555 AATAAAAAAAATAGCATC-AAAAC
1 AACAATAAAAACAGTAACAAAAAT
* *
32734578 AACAATCAAAACAGTAAAAAAAA
1 AACAATAAAAACAGTAACAAAAA
32734601 CCAAAACAGT
Statistics
Matches: 69, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
22 1 0.01
23 33 0.48
24 33 0.48
25 2 0.03
ACGTcount: A:0.70, C:0.14, G:0.04, T:0.12
Consensus pattern (24 bp):
AACAATAAAAACAGTAACAAAAAT
Found at i:32734554 original size:35 final size:35
Alignment explanation
Indices: 32734515--32734600 Score: 102
Period size: 35 Copynumber: 2.5 Consensus size: 35
32734505 AATAATAGAA
*
32734515 AAAATAGTAACAAAAATAACAATAAAAACAAC-ACC
1 AAAATAGTAAAAAAAATAAC-ATAAAAACAACAACC
* * * *
32734550 AAAATAATAAAAAAAATAGCATCAAAACAACAATC
1 AAAATAGTAAAAAAAATAACATAAAAACAACAACC
*
32734585 AAAACAGTAAAAAAAA
1 AAAATAGTAAAAAAAA
32734601 CCAAAACAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 10 0.23
35 33 0.77
ACGTcount: A:0.71, C:0.14, G:0.03, T:0.12
Consensus pattern (35 bp):
AAAATAGTAAAAAAAATAACATAAAAACAACAACC
Found at i:32734625 original size:22 final size:20
Alignment explanation
Indices: 32734584--32734662 Score: 72
Period size: 22 Copynumber: 3.9 Consensus size: 20
32734574 AAACAACAAT
*
32734584 CAAAACAG-TAAAAAAA-AC
1 CAAAACAGCAAAAAAAACAC
*
32734602 CAAAACAGTAAAAACACAACAC
1 CAAAACAGCAAAAA-A-AACAC
* *
32734624 CAAAATAGCAAAAAATAGCAAC
1 CAAAACAGCAAAAAA-AAC-AC
32734646 CAAAACAGCAAAAAAAA
1 CAAAACAGCAAAAAAAA
32734663 AACATTACCA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
18 8 0.16
19 4 0.08
20 1 0.02
21 6 0.12
22 30 0.61
ACGTcount: A:0.68, C:0.20, G:0.06, T:0.05
Consensus pattern (20 bp):
CAAAACAGCAAAAAAAACAC
Found at i:32747310 original size:32 final size:32
Alignment explanation
Indices: 32747255--32747317 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
32747245 CTCGACCCGA
*
32747255 CCTAAATTCAATTTAAATAATAAAAAAGTATT
1 CCTAAATTAAATTTAAATAATAAAAAAGTATT
* *
32747287 CCTAAATTAAAATTT-AATTATAAAAATGTAT
1 CCTAAATT-AAATTTAAATAATAAAAAAGTAT
32747318 AAAATAGCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 22 0.81
33 5 0.19
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (32 bp):
CCTAAATTAAATTTAAATAATAAAAAAGTATT
Found at i:32757062 original size:14 final size:12
Alignment explanation
Indices: 32757043--32757085 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 12
32757033 AGGTTTATAT
32757043 TCTTTTCTTCTTAC
1 TCTTTTC-TCTT-C
32757057 TCTTTTGCTCTTC
1 TCTTTT-CTCTTC
*
32757070 TCTTTTCCCTTC
1 TCTTTTCTCTTC
32757082 TCTT
1 TCTT
32757086 CAAATTGGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 9 0.33
13 7 0.26
14 10 0.37
15 1 0.04
ACGTcount: A:0.02, C:0.33, G:0.02, T:0.63
Consensus pattern (12 bp):
TCTTTTCTCTTC
Found at i:32758708 original size:23 final size:23
Alignment explanation
Indices: 32758626--32758714 Score: 99
Period size: 23 Copynumber: 3.9 Consensus size: 23
32758616 GTTCTCTGTT
* *
32758626 ATTAGCACTGTGTGCGCCCTCTG
1 ATTAGCACTGTGTGTGCTCTCTG
*
32758649 ATTAGCACTTTGTGTGCTCTCTG
1 ATTAGCACTGTGTGTGCTCTCTG
* * * *
32758672 ATTAGTAATTTGTGTACTCTCT-
1 ATTAGCACTGTGTGTGCTCTCTG
32758694 ATTTAGCACTGTGTGTGCTCT
1 A-TTAGCACTGTGTGTGCTCT
32758715 TTGTTGCCCA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
22 1 0.02
23 54 0.98
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (23 bp):
ATTAGCACTGTGTGTGCTCTCTG
Found at i:32759331 original size:13 final size:13
Alignment explanation
Indices: 32759313--32759337 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32759303 TACTTTTAGA
32759313 TCGATTTTAATTT
1 TCGATTTTAATTT
32759326 TCGATTTTAATT
1 TCGATTTTAATT
32759338 ATACATAGTC
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:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (13 bp):
TCGATTTTAATTT
Found at i:32760347 original size:57 final size:58
Alignment explanation
Indices: 32760238--32760355 Score: 159
Period size: 57 Copynumber: 2.1 Consensus size: 58
32760228 ATAGAAATGG
* * * *
32760238 TGAAAATGGAGAAATAAAAAACATTTGGAAATCATTGTGGTTTTCTACAAAATGAAAA
1 TGAAAATGAAGAAATAAAAAACATTTGAAAATAAATGTGGTTTTCTACAAAATGAAAA
* *
32760296 TGAAAATGAAGAAAT-AAAATCATTTGAAAATAAATGTGGTTTT-TTCTAAAATGAAAA
1 TGAAAATGAAGAAATAAAAAACATTTGAAAATAAATGTGGTTTTCTAC-AAAATGAAAA
32760353 TGA
1 TGA
32760356 CACGTAAATG
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
56 2 0.04
57 37 0.70
58 14 0.26
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (58 bp):
TGAAAATGAAGAAATAAAAAACATTTGAAAATAAATGTGGTTTTCTACAAAATGAAAA
Found at i:32761514 original size:78 final size:78
Alignment explanation
Indices: 32761386--32761620 Score: 409
Period size: 78 Copynumber: 3.0 Consensus size: 78
32761376 TAACACTTAT
* *
32761386 AAATCACAATTTATTTATTTTGAAAAAAA-TATCTTGTAATTGCTCAAAATAATATCGTTATGAT
1 AAATCACAATTCATTTATTTTGAAAAAAATTATCTTGTAATTGCTCAAAATAATATCGTTACGAT
32761450 CAAAAGGCTTTCA
66 CAAAAGGCTTTCA
* *
32761463 AAATCACAATTCATTTATGTTAAAAAAAATTATCTTGTAATTGCTCAAAATAATATCGTTACGAT
1 AAATCACAATTCATTTATTTTGAAAAAAATTATCTTGTAATTGCTCAAAATAATATCGTTACGAT
*
32761528 CAAAAGACTTTCA
66 CAAAAGGCTTTCA
*
32761541 AAATCACAATTCATTTATTTTGAAAAAAATTATCTTGTAATTGCTCAAAATAATATTGTTACGAT
1 AAATCACAATTCATTTATTTTGAAAAAAATTATCTTGTAATTGCTCAAAATAATATCGTTACGAT
32761606 CAAAAGGCTTTCA
66 CAAAAGGCTTTCA
32761619 AA
1 AA
32761621 TGTCTTATAC
Statistics
Matches: 148, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
77 26 0.18
78 122 0.82
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.36
Consensus pattern (78 bp):
AAATCACAATTCATTTATTTTGAAAAAAATTATCTTGTAATTGCTCAAAATAATATCGTTACGAT
CAAAAGGCTTTCA
Found at i:32762240 original size:31 final size:31
Alignment explanation
Indices: 32762191--32762258 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
32762181 TACAAAATTA
*
32762191 TTATTGAACTATCTGAAAG-TTTTCATTTAAG
1 TTATTGAACTATCTGAAAGCTTAT-ATTTAAG
*
32762222 TTATTGAAGTAT-TCGAAAGCTTATATTTAAG
1 TTATTGAACTATCT-GAAAGCTTATATTTAAG
*
32762253 TAATTG
1 TTATTG
32762259 GGGTGTTAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 1 0.03
31 28 0.88
32 3 0.09
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (31 bp):
TTATTGAACTATCTGAAAGCTTATATTTAAG
Found at i:32764031 original size:16 final size:16
Alignment explanation
Indices: 32764012--32764063 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
32764002 ATGTATTATT
32764012 ATATTAAATTATTTAA
1 ATATTAAATTATTTAA
*
32764028 ATATTTAATGTA--T-A
1 ATATTAAAT-TATTTAA
*
32764042 ATATTAAATTTTTTAA
1 ATATTAAATTATTTAA
32764058 ATATTA
1 ATATTA
32764064 TTTATAGAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
13 1 0.03
14 9 0.31
15 2 0.07
16 15 0.52
17 2 0.07
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATTAAATTATTTAA
Found at i:32764266 original size:27 final size:26
Alignment explanation
Indices: 32764207--32764266 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
32764197 TTATATATTA
32764207 TTATAA-A-TAAATATTTAAATATCT
1 TTATAATATTAAATATTTAAATATCT
* *
32764231 TTATTATATTAAATTATTTAAACT-TTT
1 TTATAATATTAAA-TATTTAAA-TATCT
32764258 TTATAATAT
1 TTATAATAT
32764267 CTTATTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 5 0.17
25 1 0.03
26 4 0.14
27 18 0.62
28 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (26 bp):
TTATAATATTAAATATTTAAATATCT
Found at i:32771747 original size:3 final size:3
Alignment explanation
Indices: 32771730--32771770 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
32771720 GATAACTCAG
* *
32771730 CAT CAT CTT CTT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
32771771 ATGTATGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37
Consensus pattern (3 bp):
CAT
Found at i:32774367 original size:20 final size:19
Alignment explanation
Indices: 32774326--32774417 Score: 57
Period size: 20 Copynumber: 4.7 Consensus size: 19
32774316 ATATAACATT
*
32774326 AAAAATTATCAAAACT-TAAG
1 AAAAATTATTAAAA-TAT-AG
32774346 AAAAATTATTAAAAGTATAG
1 AAAAATTATTAAAA-TATAG
* *
32774366 AAAAGTTA-TAAAATATATT
1 AAAAATTATTAAAATATA-G
*
32774385 ATAAAA-TATAAAACATATAG
1 A-AAAATTATTAAA-ATATAG
*
32774405 -AAAATTGTTAAAA
1 AAAAATTATTAAAA
32774418 ATTATATATA
Statistics
Matches: 57, Mismatches: 9, Indels: 14
0.71 0.11 0.17
Matches are distributed among these distances:
18 9 0.16
19 13 0.23
20 29 0.51
21 6 0.11
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (19 bp):
AAAAATTATTAAAATATAG
Found at i:32774827 original size:10 final size:10
Alignment explanation
Indices: 32774808--32774893 Score: 61
Period size: 10 Copynumber: 8.5 Consensus size: 10
32774798 AGATCCTTTT
32774808 TTTTTATATAA
1 TTTTT-TATAA
32774819 TTTTTTATAA
1 TTTTTTATAA
* *
32774829 TTTCTAATAA
1 TTTTTTATAA
32774839 TTTTTTTTATATA
1 --TTTTTTATA-A
*
32774852 TTTTTAATAA
1 TTTTTTATAA
*
32774862 TTTTCTAT-A
1 TTTTTTATAA
*
32774871 GTTTTTAT--
1 TTTTTTATAA
*
32774879 TTTTTTATCA
1 TTTTTTATAA
32774889 TTTTT
1 TTTTT
32774894 CGAAAAGTGC
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
8 7 0.12
9 7 0.12
10 25 0.42
11 13 0.22
12 7 0.12
13 1 0.02
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:32774854 original size:23 final size:22
Alignment explanation
Indices: 32774819--32774865 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
32774809 TTTTATATAA
32774819 TTTTTTATAATTTCTAATAATT
1 TTTTTTATAATTTCTAATAATT
*
32774841 TTTTTTATATATTTTTAATAATT
1 TTTTTTATA-ATTTCTAATAATT
32774864 TT
1 TT
32774866 CTATAGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTTTATAATTTCTAATAATT
Found at i:32774867 original size:34 final size:33
Alignment explanation
Indices: 32774805--32774876 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
32774795 AATAGATCCT
*
32774805 TTTTTTTTATATAATTTTTTATAATTTCTAATAA
1 TTTTTTTTATATAATTTTTAATAATTTCT-ATAA
*
32774839 TTTTTTTTATAT-ATTTTTAATAATTTTCTATAG
1 TTTTTTTTATATAATTTTTAATAA-TTTCTATAA
32774872 TTTTT
1 TTTTT
32774877 ATTTTTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
33 18 0.51
34 17 0.49
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (33 bp):
TTTTTTTTATATAATTTTTAATAATTTCTATAA
Found at i:32774964 original size:10 final size:9
Alignment explanation
Indices: 32774949--32775038 Score: 78
Period size: 10 Copynumber: 9.7 Consensus size: 9
32774939 TATATATATA
*
32774949 ATTTTTTCT
1 ATTTTTTAT
32774958 ATATTTTTAT
1 AT-TTTTTAT
32774968 ATTTTATTAGT
1 ATTTT-TTA-T
*
32774979 -TTTTATAT
1 ATTTTTTAT
32774987 ATTTTTTAAT
1 ATTTTTT-AT
*
32774997 ATTTTCTAT
1 ATTTTTTAT
32775006 A-TTTTTAT
1 ATTTTTTAT
32775014 AATTTTTT-T
1 -ATTTTTTAT
32775023 ATTTTTCTAT
1 ATTTTT-TAT
32775033 ATTTTT
1 ATTTTT
32775039 ATTACATTTA
Statistics
Matches: 67, Mismatches: 5, Indels: 17
0.75 0.06 0.19
Matches are distributed among these distances:
8 13 0.19
9 18 0.27
10 35 0.52
11 1 0.01
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.72
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:32774974 original size:7 final size:8
Alignment explanation
Indices: 32774952--32775040 Score: 63
Period size: 9 Copynumber: 9.9 Consensus size: 8
32774942 ATATATAATT
32774952 TTTTCTATA
1 TTTT-TATA
32774961 TTTTTATA
1 TTTTTATA
32774969 -TTTTATTA
1 TTTTTA-TA
32774977 GTTTTTATATA
1 --TTTT-TATA
32774988 TTTTTTAATA
1 -TTTTT-ATA
32774998 TTTTCTATA
1 TTTT-TATA
32775007 TTTTTATAA
1 TTTTTAT-A
*
32775016 TTTTTTTA
1 TTTTTATA
32775024 TTTTTCTATA
1 -TTTT-TATA
32775034 TTTTTAT
1 TTTTTAT
32775041 TACATTTATT
Statistics
Matches: 68, Mismatches: 2, Indels: 21
0.75 0.02 0.23
Matches are distributed among these distances:
7 5 0.07
8 13 0.19
9 31 0.46
10 12 0.18
11 5 0.07
12 2 0.03
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (8 bp):
TTTTTATA
Found at i:32774987 original size:19 final size:18
Alignment explanation
Indices: 32774958--32775040 Score: 84
Period size: 19 Copynumber: 4.6 Consensus size: 18
32774948 AATTTTTTCT
32774958 ATATTTTTATATTTTATTA
1 ATATTTTTATATTTT-TTA
*
32774977 GT-TTTTATATATTTTTTA
1 ATATTTT-TATATTTTTTA
32774995 ATATTTTCTATATTTTTATA
1 ATATTTT-TATATTTTT-TA
32775015 AT-TTTTT-TATTTTTCT-
1 ATATTTTTATATTTTT-TA
32775031 ATATTTTTAT
1 ATATTTTTAT
32775041 TACATTTATT
Statistics
Matches: 55, Mismatches: 4, Indels: 11
0.79 0.06 0.16
Matches are distributed among these distances:
16 2 0.04
17 13 0.24
18 10 0.18
19 26 0.47
20 4 0.07
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.71
Consensus pattern (18 bp):
ATATTTTTATATTTTTTA
Found at i:32774998 original size:29 final size:28
Alignment explanation
Indices: 32774951--32775040 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 28
32774941 TATATATAAT
*
32774951 TTTTTCTATA-TTTTTATATTTTAT-TA
1 TTTTTATATATTTTTTATATTTTATATA
*
32774977 GTTTTTATATATTTTTTAATATTTTCTATA
1 -TTTTTATATATTTTTT-ATATTTTATATA
*
32775007 TTTTTATA-ATTTTTT-TATTTTTCTATA
1 TTTTTATATATTTTTTATA-TTTTATATA
32775034 TTTTTAT
1 TTTTTAT
32775041 TACATTTATT
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
26 2 0.04
27 25 0.44
28 12 0.21
29 16 0.28
30 2 0.04
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.72
Consensus pattern (28 bp):
TTTTTATATATTTTTTATATTTTATATA
Found at i:32775004 original size:46 final size:46
Alignment explanation
Indices: 32774947--32775038 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
32774937 TATATATATA
*
32774947 TAATTTTTTCTATATTTTTAT-ATTTTATTAGTTTTTATATATTTTT
1 TAATATTTTCTATATTTTTATAATTTTATTA-TTTTTATATATTTTT
* *
32774993 TAATATTTTCTATATTTTTATAATTTTTTTATTTTTCTATATTTTT
1 TAATATTTTCTATATTTTTATAATTTTATTATTTTTATATATTTTT
32775039 ATTACATTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
46 34 0.81
47 8 0.19
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (46 bp):
TAATATTTTCTATATTTTTATAATTTTATTATTTTTATATATTTTT
Found at i:32775025 original size:17 final size:19
Alignment explanation
Indices: 32774935--32775040 Score: 73
Period size: 17 Copynumber: 5.7 Consensus size: 19
32774925 GGCAAAGTAA
* *
32774935 TATATATATATATAATTTTT
1 TATATATTTTTATAA-TTTT
*
32774955 TCTATATTTTTAT-A-TTT
1 TATATATTTTTATAATTTT
32774972 TAT-TAGTTTTTATATATTTT
1 TATATA-TTTTTATA-ATTTT
32774992 T-TAATATTTTCTAT-ATTTT
1 TAT-ATATTTT-TATAATTTT
*
32775011 TATA-ATTTTT-TTATTTT
1 TATATATTTTTATAATTTT
*
32775028 TCTATATTTTTAT
1 TATATATTTTTAT
32775041 TACATTTATT
Statistics
Matches: 70, Mismatches: 5, Indels: 23
0.71 0.05 0.23
Matches are distributed among these distances:
16 3 0.04
17 21 0.30
18 11 0.16
19 11 0.16
20 19 0.27
21 5 0.07
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (19 bp):
TATATATTTTTATAATTTT
Found at i:32779534 original size:14 final size:14
Alignment explanation
Indices: 32779515--32779541 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32779505 TATTTTAGTG
32779515 TATTTTGTGTATTA
1 TATTTTGTGTATTA
32779529 TATTTTGTGTATT
1 TATTTTGTGTATT
32779542 TTTAGCTCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.15, T:0.67
Consensus pattern (14 bp):
TATTTTGTGTATTA
Found at i:32782550 original size:9 final size:9
Alignment explanation
Indices: 32782532--32782573 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
32782522 CACGTGTCAA
*
32782532 ACATTGTTT
1 ACATTATTT
32782541 ACATTATTT
1 ACATTATTT
32782550 ACATTA-TT
1 ACATTATTT
*
32782558 ATA-TATTT
1 ACATTATTT
32782566 ACATTATT
1 ACATTATT
32782574 ATATAGTCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
7 2 0.07
8 8 0.29
9 18 0.64
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.55
Consensus pattern (9 bp):
ACATTATTT
Found at i:32782566 original size:16 final size:16
Alignment explanation
Indices: 32782545--32782578 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
32782535 TTGTTTACAT
32782545 TATTTACATTATTATA
1 TATTTACATTATTATA
32782561 TATTTACATTATTATA
1 TATTTACATTATTATA
32782577 TA
1 TA
32782579 GTCATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTTACATTATTATA
Found at i:32783264 original size:12 final size:12
Alignment explanation
Indices: 32783249--32783274 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32783239 ATAAAGTTAA
32783249 AAATATTAAAAC
1 AAATATTAAAAC
32783261 AAATATTAAAAC
1 AAATATTAAAAC
32783273 AA
1 AA
32783275 CAAACAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (12 bp):
AAATATTAAAAC
Found at i:32784109 original size:30 final size:31
Alignment explanation
Indices: 32784045--32784107 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
32784035 ACGTTTTTAT
*
32784045 AATATTTTATAAAAAGTAAAAAATTATAAAA
1 AATATTTTATAAAAAGTAAAAAACTATAAAA
* *
32784076 AATATTTTTATCAAAA-TAAAAAGCTATAAAA
1 AATA-TTTTATAAAAAGTAAAAAACTATAAAA
32784107 A
1 A
32784108 TACAATGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 18 0.64
32 10 0.36
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (31 bp):
AATATTTTATAAAAAGTAAAAAACTATAAAA
Found at i:32785897 original size:12 final size:10
Alignment explanation
Indices: 32785870--32785918 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
32785860 TCAAATACAT
32785870 TTAAAAAAATA
1 TTAAAAAAA-A
32785881 TTAAAACAAACA
1 TTAAAA-AAA-A
32785893 TTAAAAAAAA
1 TTAAAAAAAA
* *
32785903 TTAAAATACA
1 TTAAAAAAAA
32785913 TTAAAA
1 TTAAAA
32785919 TTTTTTTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
10 15 0.44
11 9 0.26
12 10 0.29
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.24
Consensus pattern (10 bp):
TTAAAAAAAA
Found at i:32785905 original size:10 final size:11
Alignment explanation
Indices: 32785870--32785918 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
32785860 TCAAATACAT
*
32785870 TTAAAAAAATA
1 TTAAAAAAACA
32785881 TTAAAACAAACA
1 TTAAAA-AAACA
32785893 TTAAAAAAA-A
1 TTAAAAAAACA
*
32785903 TT-AAAATACA
1 TTAAAAAAACA
32785913 TTAAAA
1 TTAAAA
32785919 TTTTTTTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 5 0.15
10 6 0.18
11 12 0.36
12 10 0.30
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.24
Consensus pattern (11 bp):
TTAAAAAAACA
Found at i:32786087 original size:12 final size:12
Alignment explanation
Indices: 32786055--32786099 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
32786045 ATCCAAACAA
* *
32786055 CAAAAATAACAA
1 CAAAAATAGCAG
*
32786067 CCAAAATAGCAG
1 CAAAAATAGCAG
32786079 CAAAAATAGCAG
1 CAAAAATAGCAG
32786091 CAAACAATA
1 CAAA-AATA
32786100 TTAAAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 24 0.86
13 4 0.14
ACGTcount: A:0.62, C:0.20, G:0.09, T:0.09
Consensus pattern (12 bp):
CAAAAATAGCAG
Found at i:32786129 original size:6 final size:6
Alignment explanation
Indices: 32786102--32786173 Score: 51
Period size: 6 Copynumber: 12.2 Consensus size: 6
32786092 AAACAATATT
* * * *
32786102 AAAAA- AAAAA- AAAAAC AAAAAC AAAAAC -AACAC GAAAAT AACAAC
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC
* *
32786147 CAAAAC AATAAAAA AAAAAC AAAAAC A
1 AAAAAC -A-AAAAC AAAAAC AAAAAC A
32786174 GCAAAAAACA
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
5 14 0.27
6 33 0.63
7 1 0.02
8 4 0.08
ACGTcount: A:0.81, C:0.15, G:0.01, T:0.03
Consensus pattern (6 bp):
AAAAAC
Found at i:32786159 original size:20 final size:19
Alignment explanation
Indices: 32786136--32786198 Score: 54
Period size: 21 Copynumber: 3.1 Consensus size: 19
32786126 AAACAACACG
*
32786136 AAAATAACAACCAAAACAATA
1 AAAA-AACAACCAAAACAA-C
* * *
32786157 AAAAAAAAACAAAAACAGC
1 AAAAAACAACCAAAACAAC
32786176 AAAAAACAGTACCAAAACAAC
1 AAAAAACA--ACCAAAACAAC
32786197 AA
1 AA
32786199 TATAATTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
19 7 0.21
20 11 0.33
21 15 0.45
ACGTcount: A:0.73, C:0.19, G:0.03, T:0.05
Consensus pattern (19 bp):
AAAAAACAACCAAAACAAC
Found at i:32787432 original size:28 final size:26
Alignment explanation
Indices: 32787401--32787461 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 26
32787391 TTCATATATT
32787401 TTTAATTAAATAAATGAT-AAATTTATAA
1 TTTAATT-AA-AAATGATAAAATTT-TAA
*
32787429 TTTAGACTAAAAATGATAAAATTTTAA
1 TTTA-ATTAAAAATGATAAAATTTTAA
32787456 TTTAAT
1 TTTAAT
32787462 CTTTTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
26 1 0.03
27 14 0.48
28 12 0.41
29 2 0.07
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.43
Consensus pattern (26 bp):
TTTAATTAAAAATGATAAAATTTTAA
Found at i:32805553 original size:22 final size:22
Alignment explanation
Indices: 32805514--32805555 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
32805504 AAATATTAAA
*
32805514 TTAAAATAAATATAAATATATT
1 TTAAAATAAAAATAAATATATT
32805536 TTAAAATAAAAA-ATAATATA
1 TTAAAATAAAAATA-AATATA
32805556 AGTAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
TTAAAATAAAAATAAATATATT
Found at i:32810116 original size:34 final size:33
Alignment explanation
Indices: 32810045--32810114 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
32810035 GGTTTATTCT
32810045 AAAATAAAATAAAAAATTCATTTAAACCTCTTA
1 AAAATAAAATAAAAAATTCATTTAAACCTCTTA
* *
32810078 AAAATGAAAA-AAAAAAGTTTATTTAAATCT-TTA
1 AAAAT-AAAATAAAAAA-TTCATTTAAACCTCTTA
32810111 AAAA
1 AAAA
32810115 ATTTTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 18 0.55
34 15 0.45
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (33 bp):
AAAATAAAATAAAAAATTCATTTAAACCTCTTA
Found at i:32810201 original size:30 final size:29
Alignment explanation
Indices: 32810139--32810208 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
32810129 ATTAGTAAAG
32810139 ATAAAATTATATTTAACTCCTCTAAAAAT
1 ATAAAATTATATTTAACTCCTCTAAAAAT
* * *
32810168 ATAAAATTTTAATTTAA-TCTTTTAAAAATT
1 ATAAAATTAT-ATTTAACTCCTCTAAAAA-T
*
32810198 ATAAAAATATA
1 ATAAAATTATA
32810209 AACTATTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
29 19 0.56
30 15 0.44
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (29 bp):
ATAAAATTATATTTAACTCCTCTAAAAAT
Found at i:32813310 original size:59 final size:59
Alignment explanation
Indices: 32813218--32813334 Score: 182
Period size: 59 Copynumber: 2.0 Consensus size: 59
32813208 ATATTGAGGT
* * *
32813218 AATGTTCTTTATTTCGAGAACTTGAGAGGATTATGTTCTAACTCATGGGGTGTGATTTC
1 AATGTTCTTTATTTCGAAAACTTGAGAGGATTATGCTCTAACTCATGAGGTGTGATTTC
*
32813277 AATGTTCTTTATTTC-ATAAACTTGAGAGGATTATGCTCTAACTCATTAGGTGTGATTT
1 AATGTTCTTTATTTCGA-AAACTTGAGAGGATTATGCTCTAACTCATGAGGTGTGATTT
32813335 TTTATTTGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
58 1 0.02
59 52 0.98
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.42
Consensus pattern (59 bp):
AATGTTCTTTATTTCGAAAACTTGAGAGGATTATGCTCTAACTCATGAGGTGTGATTTC
Found at i:32814566 original size:16 final size:18
Alignment explanation
Indices: 32814547--32814580 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32814537 AAAAATTAAA
32814547 AAAAT-TAA-ATTTTTTT
1 AAAATATAATATTTTTTT
32814563 AAAATATAATATTTTTTT
1 AAAATATAATATTTTTTT
32814581 TAGAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 3 0.19
18 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AAAATATAATATTTTTTT
Found at i:32814566 original size:18 final size:18
Alignment explanation
Indices: 32814545--32814591 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
32814535 TTAAAAATTA
32814545 AAAAAATTAA-ATTTTTTT
1 AAAAAA-TAATATTTTTTT
*
32814563 AAAATATAATATTTTTTTT
1 AAAAAATAATA-TTTTTTT
32814582 AGAAAAATAA
1 A-AAAAATAA
32814592 GTTAATTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 3 0.12
18 6 0.25
19 8 0.33
20 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
AAAAAATAATATTTTTTT
Found at i:32833918 original size:8 final size:8
Alignment explanation
Indices: 32833907--32833937 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
32833897 TAAACAGATA
32833907 ATACATAT
1 ATACATAT
32833915 ATACATAT
1 ATACATAT
*
32833923 ATACATAC
1 ATACATAT
32833931 ATACATA
1 ATACATA
32833938 CACACACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (8 bp):
ATACATAT
Found at i:32837250 original size:20 final size:20
Alignment explanation
Indices: 32837213--32837371 Score: 97
Period size: 20 Copynumber: 8.0 Consensus size: 20
32837203 TATTTATAAG
*
32837213 GATTTACCAATGA-ATCTAAA
1 GATTTACCAA-AATATCTAAA
*
32837233 GATTTACCAAAATCTCTAAA
1 GATTTACCAAAATATCTAAA
* * *
32837253 AATTTACTAAAATATCTAAT
1 GATTTACCAAAATATCTAAA
*
32837273 GATTTACCAAATTATC-AAA
1 GATTTACCAAAATATCTAAA
* * * *
32837292 TGATTAACCACAATTTTTAAA
1 -GATTTACCAAAATATCTAAA
* * * *
32837313 AATTTATCAAAATATTTAAC
1 GATTTACCAAAATATCTAAA
* * * * *
32837333 GATTTATCAATATTTTTAAG
1 GATTTACCAAAATATCTAAA
* *
32837353 GATTTATCAATATATCTAA
1 GATTTACCAAAATATCTAA
32837372 CAATTTACTA
Statistics
Matches: 109, Mismatches: 27, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
19 3 0.03
20 103 0.94
21 3 0.03
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.38
Consensus pattern (20 bp):
GATTTACCAAAATATCTAAA
Found at i:32837279 original size:60 final size:59
Alignment explanation
Indices: 32837213--32837344 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 59
32837203 TATTTATAAG
* *
32837213 GATTTACCAATGAATCTAAA-GATTTACCAAAATCTCTAAAAATTTA-CTAAAATATCTAAT
1 GATTTACCAAT-AATC-AAATGATTAACCAAAATCTCTAAAAATTTATC-AAAATATCTAAC
* * * * *
32837273 GATTTACCAAATTATCAAATGATTAACCACAATTTTTAAAAATTTATCAAAATATTTAAC
1 GATTTACC-AATAATCAAATGATTAACCAAAATCTCTAAAAATTTATCAAAATATCTAAC
*
32837333 GATTTATCAATA
1 GATTTACCAATA
32837345 TTTTTAAGGA
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
59 6 0.10
60 50 0.83
61 4 0.07
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.36
Consensus pattern (59 bp):
GATTTACCAATAATCAAATGATTAACCAAAATCTCTAAAAATTTATCAAAATATCTAAC
Found at i:32837348 original size:40 final size:40
Alignment explanation
Indices: 32837304--32837387 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
32837294 ATTAACCACA
* *
32837304 ATTTTTAAAAATTTATCAAAATATTTAACGATTTA-TCAAT
1 ATTTTTAAAAATTTATCAAAATATCTAACAATTTACT-AAT
** *
32837344 ATTTTTAAGGATTTATCAATATATCTAACAATTTACTAAT
1 ATTTTTAAAAATTTATCAAAATATCTAACAATTTACTAAT
32837384 ATTT
1 ATTT
32837388 CTTAGAAACC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 37 0.97
41 1 0.03
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (40 bp):
ATTTTTAAAAATTTATCAAAATATCTAACAATTTACTAAT
Found at i:32837706 original size:20 final size:20
Alignment explanation
Indices: 32837683--32837734 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
32837673 ATCCAATGTT
* *
32837683 TTATCAATATTTCTAAGGAC
1 TTATCAAAATTTCTAACGAC
* * *
32837703 TTATAAAAATATCTAACGAT
1 TTATCAAAATTTCTAACGAC
32837723 TTATCAAAATTT
1 TTATCAAAATTT
32837735 TTATTGTTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.40
Consensus pattern (20 bp):
TTATCAAAATTTCTAACGAC
Found at i:32837884 original size:40 final size:40
Alignment explanation
Indices: 32837823--32837920 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
32837813 TACCAAGTGT
* *
32837823 TAACAA-TTACAAAAATTTATAA-AGATTTATCAA-AATATC
1 TAACAATTTACCAAAATTTATAAGAG-TTTATAAATAATA-C
* *
32837862 TAACAATTTATCAATATTTATAAGAGTTTATAAATAATAC
1 TAACAATTTACCAAAATTTATAAGAGTTTATAAATAATAC
*
32837902 TAACGATTTACCAAAATTT
1 TAACAATTTACCAAAATTT
32837921 TTAGTTTTAC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
39 6 0.12
40 37 0.76
41 6 0.12
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (40 bp):
TAACAATTTACCAAAATTTATAAGAGTTTATAAATAATAC
Found at i:32837891 original size:20 final size:19
Alignment explanation
Indices: 32837837--32837897 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 19
32837827 AATTACAAAA
*
32837837 ATTTATAAAGATTTATCAAA
1 ATTTATAAAG-TTTATCAAT
* * *
32837857 ATATCTAACAATTTATCAAT
1 ATTTATAA-AGTTTATCAAT
*
32837877 ATTTATAAGAGTTTATAAAT
1 ATTTATAA-AGTTTATCAAT
32837897 A
1 A
32837898 ATACTAACGA
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.41
Consensus pattern (19 bp):
ATTTATAAAGTTTATCAAT
Found at i:32837968 original size:20 final size:20
Alignment explanation
Indices: 32837945--32838009 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
32837935 AAATCTAATG
32837945 ATTTACTAAAATTTATAAGA
1 ATTTACTAAAATTTATAAGA
*
32837965 ATTTA-TCAATATTTATAAGA
1 ATTTACT-AAAATTTATAAGA
* * * *
32837985 GTTTACCAAAATAT-TAAGT
1 ATTTACTAAAATTTATAAGA
32838004 ATTTAC
1 ATTTAC
32838010 CAATAAATCT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
19 10 0.28
20 26 0.72
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.42
Consensus pattern (20 bp):
ATTTACTAAAATTTATAAGA
Found at i:32837990 original size:78 final size:79
Alignment explanation
Indices: 32837859--32838037 Score: 211
Period size: 78 Copynumber: 2.3 Consensus size: 79
32837849 TTATCAAAAT
* * * * * * *
32837859 ATCTAACAATTTATCAATATTTATAAGAGTTTATAAATAATACTAACGATTTACCAAAATTTTTA
1 ATCTAACGATATACCAAAATTTATAAGAATTTATAAATAATACTAACGATTTACCAAAATATTAA
32837924 GT-TTTACCAATAA
66 GTATTTACCAATAA
* * * * *
32837937 ATCTAATGATTTACTAAAATTTATAAGAATTTATCAATATTTA-TAA-GAGTTTACCAAAATATT
1 ATCTAACGATATACCAAAATTTATAAGAATTTATAAATA-ATACTAACGA-TTTACCAAAATATT
32838000 AAGTATTTACCAATAA
64 AAGTATTTACCAATAA
32838016 ATCTAACGATATACCAAAATTT
1 ATCTAACGATATACCAAAATTT
32838038 TTACTGTTTT
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
77 2 0.02
78 51 0.60
79 32 0.38
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.39
Consensus pattern (79 bp):
ATCTAACGATATACCAAAATTTATAAGAATTTATAAATAATACTAACGATTTACCAAAATATTAA
GTATTTACCAATAA
Found at i:32838031 original size:39 final size:39
Alignment explanation
Indices: 32837901--32838038 Score: 154
Period size: 39 Copynumber: 3.5 Consensus size: 39
32837891 ATAAATAATA
*
32837901 CTAACGATTTACCAAAATTTTTAGT-TTTACCAATAAAT
1 CTAACGATTTACCAAAATTTTAAGTATTTACCAATAAAT
* * * * **
32837939 CTAATGATTTACTAAAATTTATAAGAATTTATCAATATTT
1 CTAACGATTTACCAAAATTT-TAAGTATTTACCAATAAAT
* *
32837979 ATAA-GAGTTTACCAAAATATTAAGTATTTACCAATAAAT
1 CTAACGA-TTTACCAAAATTTTAAGTATTTACCAATAAAT
*
32838018 CTAACGATATACCAAAATTTT
1 CTAACGATTTACCAAAATTTT
32838039 TACTGTTTTA
Statistics
Matches: 79, Mismatches: 17, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
38 18 0.23
39 35 0.44
40 26 0.33
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.38
Consensus pattern (39 bp):
CTAACGATTTACCAAAATTTTAAGTATTTACCAATAAAT
Found at i:32838054 original size:79 final size:78
Alignment explanation
Indices: 32837908--32838091 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 78
32837898 ATACTAACGA
* * * * * *
32837908 TTTACCAAAATTTTTAGTTTTACCAATAAATCTAATGATTTACTAAAATTTATAAGAATTTATCA
1 TTTACCAAAATATTAAGTTTTACCAATAAATCTAACGATATACCAAAATTTATAAGAATTTACCA
* *
32837973 ATATTTAT-AAGAG
66 ATACTTATGAA-AC
* * *
32837986 TTTACCAAAATATTAAGTATTTACCAATAAATCTAACGATATACCAAAATTTTTACTG-TTTTAC
1 TTTACCAAAATATTAAGT-TTTACCAATAAATCTAACGATATACCAAAATTTATA-AGAATTTAC
32838050 CAATACTTATGAAAC
64 CAATACTTATGAAAC
*
32838065 TTTACCAAAATATCTTAGATTTTACCA
1 TTTACCAAAATAT-TAAG-TTTTACCA
32838092 TTATTTTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 16 0.18
79 59 0.66
80 13 0.15
81 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.05, T:0.40
Consensus pattern (78 bp):
TTTACCAAAATATTAAGTTTTACCAATAAATCTAACGATATACCAAAATTTATAAGAATTTACCA
ATACTTATGAAAC
Found at i:32839316 original size:21 final size:20
Alignment explanation
Indices: 32839292--32839350 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
32839282 ATTTACCAAT
32839292 ATTTTCAAAGACTTATCAAAA
1 ATTTT-AAAGACTTATCAAAA
*
32839313 ATTTTAAAGATTTATC-AAA
1 ATTTTAAAGACTTATCAAAA
* *
32839332 ATTTCTAATGACTAATCAA
1 ATTT-TAAAGACTTATCAA
32839351 TATATCTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 7 0.22
20 19 0.59
21 6 0.19
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (20 bp):
ATTTTAAAGACTTATCAAAA
Found at i:32839365 original size:40 final size:38
Alignment explanation
Indices: 32839321--32839452 Score: 120
Period size: 40 Copynumber: 3.3 Consensus size: 38
32839311 AAATTTTAAA
* * *
32839321 GATTTATCAAAATTTCTAATGACTAATCAATATATCTTAC
1 GATTTACCAAAATTT-TAATGACTTA-CAATATATCTAAC
* * ** *
32839361 GATTTACCAAAAGATATAAAAATTTACAAATATATCTAAC
1 GATTTACCAAAA-TTTTAATGACTTAC-AATATATCTAAC
*
32839401 GATTTATCAAAATTTTAAATGACTTACCAATATATCTAAC
1 GATTTACCAAAATTTT-AATGACTTA-CAATATATCTAAC
*
32839441 TATTTACCAAAA
1 GATTTACCAAAA
32839453 ACTATAAAGA
Statistics
Matches: 72, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
39 3 0.04
40 67 0.93
41 2 0.03
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (38 bp):
GATTTACCAAAATTTTAATGACTTACAATATATCTAAC
Found at i:32839405 original size:80 final size:80
Alignment explanation
Indices: 32839321--32839498 Score: 225
Period size: 80 Copynumber: 2.2 Consensus size: 80
32839311 AAATTTTAAA
* *
32839321 GATTTATCAAAATTTCT-AATGACTAATCAATATATCTTACGATTTACCAAAAGA-TATAAAAAT
1 GATTTATCAAAATTT-TAAATGACTAACCAATATATCTAACGATTTACCAAAA-ACTATAAAAAT
* * *
32839384 TTACAAATATATCTAAC
64 TAACAAACACATCTAAC
* * *
32839401 GATTTATCAAAATTTTAAATGACTTACCAATATATCTAACTATTTACCAAAAACTATAAAGATTA
1 GATTTATCAAAATTTTAAATGACTAACCAATATATCTAACGATTTACCAAAAACTATAAAAATTA
*
32839466 ATAAACACATCTAAC
66 ACAAACACATCTAAC
* *
32839481 GATTTACCAAATTTTTAA
1 GATTTATCAAAATTTTAA
32839499 CTGAAAGTTT
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
79 2 0.02
80 83 0.98
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (80 bp):
GATTTATCAAAATTTTAAATGACTAACCAATATATCTAACGATTTACCAAAAACTATAAAAATTA
ACAAACACATCTAAC
Found at i:32839449 original size:20 final size:20
Alignment explanation
Indices: 32839348--32839450 Score: 73
Period size: 20 Copynumber: 5.2 Consensus size: 20
32839338 AATGACTAAT
*
32839348 CAATATATCTTACGATTTAC
1 CAATATATCTAACGATTTAC
* * * **
32839368 CAAAAGATATAAAAATTTAC
1 CAATATATCTAACGATTTAC
* *
32839388 AAATATATCTAACGATTTAT
1 CAATATATCTAACGATTTAC
* * * *
32839408 CAAAAT-TTTAAATGACTTAC
1 CAATATATCT-AACGATTTAC
*
32839428 CAATATATCTAACTATTTAC
1 CAATATATCTAACGATTTAC
32839448 CAA
1 CAA
32839451 AAACTATAAA
Statistics
Matches: 57, Mismatches: 24, Indels: 4
0.67 0.28 0.05
Matches are distributed among these distances:
19 2 0.04
20 53 0.93
21 2 0.04
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.35
Consensus pattern (20 bp):
CAATATATCTAACGATTTAC
Found at i:32839599 original size:62 final size:61
Alignment explanation
Indices: 32839532--32839661 Score: 242
Period size: 62 Copynumber: 2.1 Consensus size: 61
32839522 ACAATTATCA
*
32839532 AAATTTTTATTACTTTACCAAAATAATTTCTAAGTATTTTTTAATATATTTAATGATTTATT
1 AAATTTTTATTACTTTACCAAAATAATTTCTAAGTA-TTTTTAATATATTTAATGATTTACT
32839594 AAATTTTTATTACTTTACCAAAATAATTTCTAAGTATTTTTAATATATTTAATGATTTACT
1 AAATTTTTATTACTTTACCAAAATAATTTCTAAGTATTTTTAATATATTTAATGATTTACT
32839655 AAATTTT
1 AAATTTT
32839662 ATAAGGATTC
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
61 31 0.46
62 36 0.54
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.52
Consensus pattern (61 bp):
AAATTTTTATTACTTTACCAAAATAATTTCTAAGTATTTTTAATATATTTAATGATTTACT
Found at i:32839676 original size:62 final size:62
Alignment explanation
Indices: 32839532--32839680 Score: 203
Period size: 62 Copynumber: 2.4 Consensus size: 62
32839522 ACAATTATCA
* * * *
32839532 AAATTTTTATTACTTTACCAAAATAATTTCTAAGTATTTTTTAATATATTTAATGATTTATT
1 AAATTTTTATAAATTCACCAAAATAATTTCTAAGTATTTTTTAATATATTTAATGATTTACT
* * *
32839594 AAATTTTTATTACTTTACCAAAATAATTTCTAAGTA-TTTTTAATATATTTAATGATTTACT
1 AAATTTTTATAAATTCACCAAAATAATTTCTAAGTATTTTTTAATATATTTAATGATTTACT
32839655 AAA-TTTTATAAGGATTCACCAAAATA
1 AAATTTTTATAA--ATTCACCAAAATA
32839681 TTTAACAATA
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
60 7 0.09
61 27 0.33
62 47 0.58
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (62 bp):
AAATTTTTATAAATTCACCAAAATAATTTCTAAGTATTTTTTAATATATTTAATGATTTACT
Found at i:32842681 original size:14 final size:13
Alignment explanation
Indices: 32842670--32842704 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
32842660 ACTTTATAAA
32842670 AAATTTTTTATAT
1 AAATTTTTTATAT
32842683 AAATTTTTATATTAT
1 AAATTTTT-TA-TAT
32842698 AAATTTT
1 AAATTTT
32842705 ATATTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.40
14 2 0.10
15 10 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
AAATTTTTTATAT
Found at i:32842688 original size:13 final size:15
Alignment explanation
Indices: 32842670--32842711 Score: 63
Period size: 14 Copynumber: 3.0 Consensus size: 15
32842660 ACTTTATAAA
32842670 AAATTTTT-TA-TAT
1 AAATTTTTATATTAT
32842683 AAATTTTTATATTAT
1 AAATTTTTATATTAT
32842698 AAA-TTTTATATTAT
1 AAATTTTTATATTAT
32842712 TTTCAACTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.30
14 13 0.48
15 6 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AAATTTTTATATTAT
Found at i:32843362 original size:20 final size:19
Alignment explanation
Indices: 32843326--32843372 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
32843316 ACTCGTTTAG
32843326 AATTTTTATTAGTATTAAT
1 AATTTTTATTAGTATTAAT
32843345 AATTATTTA-TAGTAATTAAT
1 AATT-TTTATTAGT-ATTAAT
*
32843365 ATTTTTTA
1 AATTTTTA
32843373 ATTATATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (19 bp):
AATTTTTATTAGTATTAAT
Found at i:32843627 original size:17 final size:18
Alignment explanation
Indices: 32843585--32843630 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
32843575 ATTTATATTT
* *
32843585 TAAAAATATTAATTACTA
1 TAAAAATATTAAGTACGA
32843603 TGAAAAATATT-AGTACGA
1 T-AAAAATATTAAGTACGA
32843621 TAAAAATATT
1 TAAAAATATT
32843631 TTCTAAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 9 0.36
18 7 0.28
19 9 0.36
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (18 bp):
TAAAAATATTAAGTACGA
Found at i:32844811 original size:25 final size:25
Alignment explanation
Indices: 32844777--32844825 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
32844767 AATTTACAAC
32844777 AAATTTTTATCATATTGTGCCAAAG
1 AAATTTTTATCATATTGTGCCAAAG
32844802 AAATTTTTATCATATTGTGCCAAA
1 AAATTTTTATCATATTGTGCCAAA
32844826 AAAAAAATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (25 bp):
AAATTTTTATCATATTGTGCCAAAG
Found at i:32849405 original size:16 final size:17
Alignment explanation
Indices: 32849379--32849411 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
32849369 TCATTTAGAT
*
32849379 TTTTAAAATTATTAAAA
1 TTTTAAAATTAATAAAA
32849396 TTTT-AAATTAATAAAA
1 TTTTAAAATTAATAAAA
32849412 ATAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTTAAAATTAATAAAA
Found at i:32849510 original size:23 final size:23
Alignment explanation
Indices: 32849445--32849510 Score: 55
Period size: 23 Copynumber: 3.0 Consensus size: 23
32849435 TAAAAATGAT
* *
32849445 AAAATTTTGATTTAATTTT--TA
1 AAAATTATAATTTAATTTTAGTA
* * * * *
32849466 AAAATAACATTTTTATTATAGTA
1 AAAATTATAATTTAATTTTAGTA
32849489 AAAATTATAATTTAATTTTAGT
1 AAAATTATAATTTAATTTTAGT
32849511 CTCCTAATTT
Statistics
Matches: 31, Mismatches: 12, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
21 12 0.39
23 19 0.61
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (23 bp):
AAAATTATAATTTAATTTTAGTA
Found at i:32857961 original size:987 final size:973
Alignment explanation
Indices: 32856562--32858359 Score: 2556
Period size: 988 Copynumber: 1.8 Consensus size: 973
32856552 AATAAAATAA
**
32856562 AAAAATATTATTTACGGTTTAATAGAGTTAATATTTTAAAGTTTTTATGATTTTGTAAATGAAAT
1 AAAAATATTATTTACGGTTTAATAGAGTTAATATTTTAAAACTTTTATGATTTTGTAAATGAAAT
* * *
32856627 ATTTTATTTGAAATTGAATTGCAATTGTAAAATAATTTTAAGGATATTTTTTATACAATAAATGT
66 ATTTTATTTGAAATTGAAATGCAATTGAAAAATAATTTT-AGGATATTTTTTATACAACAAATGT
*
32856692 TAACTCTATTACAATTTAAAGTTATTTTTTTAATGATATAGGAACTAAATTAATTCATTTTAGGA
130 TAACTCTATTACAATTTAAAGTTATTTTTTTAATGATATAGGAACTAAATTAATTCATTTAAGGA
* * * *
32856757 GGACTAATTTGATATTGTCCTTATAATATAAGGATCTGTATAGTACTTAACCTAATTTAGAAAGA
195 GGACTAATATGATATTGTCCTTATAATATAAGGATCTGCACAGTACTTAACCTAATCTAGAAAGA
* * * * *
32856822 ACGAATGTGTTCGTACCTTGTAGCGTCACAGGATCTTACGTAGGCAATTAATTACTAAAAGAGAA
260 ACGAATGTGTCCATACCTTATAGCGCCACAGGATCCTACGTAGGCAATTAATTACTAAAAGAGAA
* * * *
32856887 GCACGTGATTTCCTTGCCTCACAATCACATTAATGATGGTACTTAATCTTCTCATAAAGGTATTT
325 GCACGTGATTTCCTTGCCTCACAATCACATTAATGATGGTACCTAATCTTCCCATAAAAGCATTT
* *
32856952 TTATCCAACTAACCCCAAAAAATAAATATTTATGAAAATGACCC-AGATTGAAAAATTATAACAA
390 TTACCCAACTAACCCCAAAAAATAAATATTTATGAAAATGACCCAAG-TTGAAAAACTATAACAA
**** *
32857016 AAATAACCTAAAACCTACT-GTGCCAAGCGATGCTGGTCAACTCA-TCGTTGACACCACCCTCCA
454 AAATAACCTAAAACCTA-TAGTGCCAAGCGATGCCAACCAACTCACT-GTCGACACCACCCTCCA
* * *
32857079 TCATCCCCTAACCATGCCTTAATGATTGCCCAGCGTATAAAAAAAATG-AATTTTCCATTTTAGG
517 TCATCCCCTAACCATGCCTTAATGATTGCCCAACGTATAAAAAAAATGAAAATTT-CATTTTA-A
* *
32857143 AGGTCGATCTCCTGCTAACCCTCTAGTTTCGCCC-CTGTTACAAAGGCCTCCTCATAGTACTTTT
580 AGG--G----CCAGC---CCC-CTAGTTTCGCCCTCTATTACAAAGGCCTCCTCATAGTACTTTT
* * * * *
32857207 ACTAGCATGTTACGAGTACAAAACCGACTAACTTATTAACTGTTAATAGCTACATTAGTAGGAAT
635 ACTAGCATGCTACGAGAACAAAACCGACTAACTTATTAACTGCTAACAACTACATTAGTAGGAAT
* *
32857272 GTTAATATTTAATGGTTAAGGATGGTTTCAATAAATAAGACAAATTGATTGAATTAATCGGTTTA
700 GTTAATATTTAATGGTGAAGGATGGTTTCAATAAATAAGACAAATTGATTGAATTAATCAGTTTA
*
32857337 AAAGCTCAATTAAATATAAGGAAAGCTTAGTCATATTTTAAAAAAATATTAACCCAAAAATAAAC
765 AAAGCTCAATTAAATATAAGGAAAGCTTAATCATATTTTAAAAAAATATTAACCCAAAAATAAAC
32857402 ATAAGGATGTTGTGGTCTAAGCCTTAATCTAGAAGGTGAAAGTGCATGAAATTAGTTTTTCACTA
830 ATAAGGATGTTGTGGTCTAAGCCTTAATCTAGAAGGTGAAAGTGCATGAAATTAGTTTTTCACTA
32857467 AATGGATTAATTTAGTTATAATACTATTACAAAAATTAAATAAGAATAAAATAGAATAAAGTTAA
895 AATGGATTAATTTAGTTATAATACTATTACAAAAATTAAATAAGAATAAAATAGAATAAAGTTAA
32857532 CATTTACTGTTTTT
960 CATTTACTGTTTTT
* * *
32857546 AAAAATATCT-TTTACGGTTTAATGGAGTTAATATTTTAAAACTTTTATGGTTTTGTTAATGAAA
1 AAAAATAT-TATTTACGGTTTAATAGAGTTAATATTTTAAAACTTTTATGATTTTGTAAATGAAA
* *
32857610 TCTTTTATTTGGAATTGAAATGCAATTGAAAAAAAGTAATTTT-GGATATTTTTTATACAACAAA
65 TATTTTATTTGAAATTGAAATGCAATTG--AAAAA-TAATTTTAGGATATTTTTTATACAACAAA
* *
32857674 TGTTAACTCTGTTATAATTTAAAGTTATTTTATTTTTAATGATATATGG-ACTAAATTAATTCAT
127 TGTTAACTCTATTACAATTTAAAGTTA--TT-TTTTTAATGATATA-GGAACTAAATTAATTCAT
* *
32857738 TTAAGGAGGGCTAATATGATATTGTCCTTATAATATAAGGATTTGCACAGTA-TTAACCTAATCT
188 TTAAGGAGGACTAATATGATATTGTCCTTATAATATAAGGATCTGCACAGTACTTAACCTAATCT
32857802 AGAAAGAACGAATGTGTCCAT-CTCTTATAGCGCCACAGGATCCTACGTAGGCAATTAATTACTA
253 AGAAAGAACGAATGTGTCCATAC-CTTATAGCGCCACAGGATCCTACGTAGGCAATTAATTACTA
32857866 AAAGAGAAGCACGTGATTT-CTTGCCTCACAATCACATTAATGATGGTACCTAATCTTCCCATAA
317 AAAGAGAAGCACGTGATTTCCTTGCCTCACAATCACATTAATGATGGTACCTAATCTTCCCATAA
* * **
32857930 AAGCGTTTTTACCCAACTAACCTCCAAAAAATAAATATTTATGAAAGTGACTTAATGTTGAAAAA
382 AAGCATTTTTACCCAACTAACC-CCAAAAAATAAATATTTATGAAAATGACCCAA-GTTGAAAAA
* * * * * * * * *
32857995 CTATAACGAAAATAACTTGAAATCTATAGTGTCGAGCGGTGCCAACCATCTCACTGTCGGCACCA
445 CTATAACAAAAATAACCTAAAACCTATAGTGCCAAGCGATGCCAACCAACTCACTGTCGACACCA
* * *
32858060 CCCTCCATCATCCCCTAATCATGCCTTAATGATTGTCCAATGTATAAAAAAAATGAAAATTTCAT
510 CCCTCCATCATCCCCTAACCATGCCTTAATGATTGCCCAACGTATAAAAAAAATGAAAATTTCAT
* *
32858125 TTTAAAGGGCCAGCCCCCTATTTTCGCCCTCTATTATAAAGGCCTCCTCATAGTACTTTTACTAG
575 TTTAAAGGGCCAGCCCCCTAGTTTCGCCCTCTATTACAAAGGCCTCCTCATAGTACTTTTACTAG
* * * * * ** ***
32858190 CATGCTACGAGAATAAGACCGATTAATTTTTTAGTTGCTAACAACTACATTAGTCTTAATGTTAA
640 CATGCTACGAGAACAAAACCGACTAACTTATTAACTGCTAACAACTACATTAGTAGGAATGTTAA
*
32858255 TATTTAATGGTGAAGGATGGTTTCAATAAATAAGACAGATTGATTGAATTAATCAGTTTAAAAGC
705 TATTTAATGGTGAAGGATGGTTTCAATAAATAAGACAAATTGATTGAATTAATCAGTTTAAAAGC
* **
32858320 TCAATTAAATGTAAGGAAAGCTTAATTTTATTTTAAAAAA
770 TCAATTAAATATAAGGAAAGCTTAATCATATTTTAAAAAA
32858360 GGGTAAGTTA
Statistics
Matches: 718, Mismatches: 80, Indels: 38
0.86 0.10 0.05
Matches are distributed among these distances:
977 11 0.02
978 184 0.26
981 4 0.01
984 82 0.11
985 47 0.07
986 66 0.09
987 127 0.18
988 188 0.26
989 9 0.01
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (973 bp):
AAAAATATTATTTACGGTTTAATAGAGTTAATATTTTAAAACTTTTATGATTTTGTAAATGAAAT
ATTTTATTTGAAATTGAAATGCAATTGAAAAATAATTTTAGGATATTTTTTATACAACAAATGTT
AACTCTATTACAATTTAAAGTTATTTTTTTAATGATATAGGAACTAAATTAATTCATTTAAGGAG
GACTAATATGATATTGTCCTTATAATATAAGGATCTGCACAGTACTTAACCTAATCTAGAAAGAA
CGAATGTGTCCATACCTTATAGCGCCACAGGATCCTACGTAGGCAATTAATTACTAAAAGAGAAG
CACGTGATTTCCTTGCCTCACAATCACATTAATGATGGTACCTAATCTTCCCATAAAAGCATTTT
TACCCAACTAACCCCAAAAAATAAATATTTATGAAAATGACCCAAGTTGAAAAACTATAACAAAA
ATAACCTAAAACCTATAGTGCCAAGCGATGCCAACCAACTCACTGTCGACACCACCCTCCATCAT
CCCCTAACCATGCCTTAATGATTGCCCAACGTATAAAAAAAATGAAAATTTCATTTTAAAGGGCC
AGCCCCCTAGTTTCGCCCTCTATTACAAAGGCCTCCTCATAGTACTTTTACTAGCATGCTACGAG
AACAAAACCGACTAACTTATTAACTGCTAACAACTACATTAGTAGGAATGTTAATATTTAATGGT
GAAGGATGGTTTCAATAAATAAGACAAATTGATTGAATTAATCAGTTTAAAAGCTCAATTAAATA
TAAGGAAAGCTTAATCATATTTTAAAAAAATATTAACCCAAAAATAAACATAAGGATGTTGTGGT
CTAAGCCTTAATCTAGAAGGTGAAAGTGCATGAAATTAGTTTTTCACTAAATGGATTAATTTAGT
TATAATACTATTACAAAAATTAAATAAGAATAAAATAGAATAAAGTTAACATTTACTGTTTTT
Found at i:32858598 original size:20 final size:20
Alignment explanation
Indices: 32858560--32858609 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
32858550 TGGACAGTAA
* *
32858560 AAGAA-AAGAAGAAGCATAT
1 AAGAAGAAGAAAAAGAATAT
32858579 AAGAAGAAGAAAAAGAATAT
1 AAGAAGAAGAAAAAGAATAT
* *
32858599 GAGGAGAAGAA
1 AAGAAGAAGAA
32858610 GAGAAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.64, C:0.02, G:0.26, T:0.08
Consensus pattern (20 bp):
AAGAAGAAGAAAAAGAATAT
Found at i:32859420 original size:23 final size:24
Alignment explanation
Indices: 32859394--32859446 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
32859384 TAGATCGGAA
* * * *
32859394 TTTGAAGAGTCTCC-TATTGATTT
1 TTTGAAAAGTCACCTTAATGATCT
32859417 TTTGAAAAGTCACCTTAATGATCT
1 TTTGAAAAGTCACCTTAATGATCT
32859441 TTTGAA
1 TTTGAA
32859447 TGCTTGAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (24 bp):
TTTGAAAAGTCACCTTAATGATCT
Found at i:32860051 original size:50 final size:49
Alignment explanation
Indices: 32859968--32860083 Score: 135
Period size: 50 Copynumber: 2.3 Consensus size: 49
32859958 ATAACTTAAT
* * *
32859968 TTAATAATGCAAACTTTAAGTAACATTGAAGTTACATAATACATGTCATAA
1 TTAA-AATACAAAC-TTAAATAACATTGAAGTTACATAATACATGACATAA
** *
32860019 TTTATTATACAAACTTAAATAACA-TGAGAGTTACATAATGCATGACATAA
1 -TTAAAATACAAACTTAAATAACATTGA-AGTTACATAATACATGACATAA
32860069 TTAAAATACAAACTT
1 TTAAAATACAAACTT
32860084 TATCAACAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
49 16 0.29
50 29 0.53
51 7 0.13
52 3 0.05
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.33
Consensus pattern (49 bp):
TTAAAATACAAACTTAAATAACATTGAAGTTACATAATACATGACATAA
Found at i:32860180 original size:31 final size:32
Alignment explanation
Indices: 32860145--32860207 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
32860135 AGTTGCTTCT
* *
32860145 ATGCATGACTTAATTA-A-ATGCAAAACACTTA
1 ATGCAAGACATAATTAGATATGC-AAACACTTA
32860176 ATGCAAGACATAATTAGATATGCAAACACTTA
1 ATGCAAGACATAATTAGATATGCAAACACTTA
32860208 TTAAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.50
32 10 0.36
33 4 0.14
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (32 bp):
ATGCAAGACATAATTAGATATGCAAACACTTA
Found at i:32860563 original size:111 final size:111
Alignment explanation
Indices: 32860369--32860578 Score: 350
Period size: 111 Copynumber: 1.9 Consensus size: 111
32860359 CTTGGGCTCT
* *
32860369 TCTCGTTTGGGTCAATCTGAACATTTCTGAAATGCATCATAATATGATGTGATCGAAATCACATC
1 TCTCGTTTGGGCCAATCTGAACACTTCTGAAATGCATCATAATATGATGTGATCGAAATCACATC
* *
32860434 ATAAGAATGGTCGGGAGCTTTTCTTCGTCGTATCTGGCCAAATGCA
66 ATAAGAACGATCGGGAGCTTTTCTTCGTCGTATCTGGCCAAATGCA
**
32860480 TCTCGTTTGGGCCAATCTGAACACTTCTGAAATGCATCATAATATGATGTGATC-AGAATTGCAT
1 TCTCGTTTGGGCCAATCTGAACACTTCTGAAATGCATCATAATATGATGTGATCGA-AATCACAT
32860544 CATAAGAACGATCGGGAGCTTTTCTTCGTCGTATC
65 CATAAGAACGATCGGGAGCTTTTCTTCGTCGTATC
32860579 CGACTAAATG
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
110 1 0.01
111 91 0.99
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (111 bp):
TCTCGTTTGGGCCAATCTGAACACTTCTGAAATGCATCATAATATGATGTGATCGAAATCACATC
ATAAGAACGATCGGGAGCTTTTCTTCGTCGTATCTGGCCAAATGCA
Found at i:32861777 original size:27 final size:27
Alignment explanation
Indices: 32861741--32861819 Score: 94
Period size: 25 Copynumber: 3.0 Consensus size: 27
32861731 GCTTTGAATT
32861741 TTCTTTGAATTTATGTCTCAAAAAAAA
1 TTCTTTGAATTTATGTCTCAAAAAAAA
*
32861768 TTCTTTGAATTT-TGTAT-AAAAAAAA
1 TTCTTTGAATTTATGTCTCAAAAAAAA
* *
32861793 ATCTCTGAATCTTAT-TC-CAAAAAAAA
1 TTCTTTGAAT-TTATGTCTCAAAAAAAA
32861819 T
1 T
32861820 ATTTCTCTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
25 16 0.36
26 15 0.34
27 13 0.30
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.39
Consensus pattern (27 bp):
TTCTTTGAATTTATGTCTCAAAAAAAA
Found at i:32868366 original size:168 final size:166
Alignment explanation
Indices: 32868058--32868370 Score: 437
Period size: 166 Copynumber: 1.9 Consensus size: 166
32868048 ATCCTTAATC
* * * *
32868058 TTTTTGGGATAAATTCGTTCTCCCAATATTATCCTATTTCATCTCATGATAACCATTACATCTCT
1 TTTTTGAGATAAATTCGTTCTCCCAATATGATCATATTTCATCTCATGATAACCATTACATCTCC
* * * * * *
32868123 TTTCAGGAATAATTGTCATTTATCAAAAAGGTAAACGACTTGTTACCAGGTTTACTTTCTCTCTA
66 CTTCAGGAATAATTGTCATTTATCAAAAAGGTAAAAGACTCGTGACCACGTTTACTTTCTATCTA
32868188 TCATGTAATGTCAATTACAGGATGTCATTTACCCAT
131 TCATGTAATGTCAATTACAGGATGTCATTTACCCAT
* * * * *
32868224 TTTTTGAGATAAATTCGTTCTCCCAATATGATCATATTTTATCTTATGGTAACTATTACATTTCC
1 TTTTTGAGATAAATTCGTTCTCCCAATATGATCATATTTCATCTCATGATAACCATTACATCTCC
* * * *
32868289 CTTCATGAATAATTAAGTCATTTATCAGAAGGGTAAAAGACTCGTGACTACGTTTACTTTCTATC
66 CTTCAGGAATAATT--GTCATTTATCAAAAAGGTAAAAGACTCGTGACCACGTTTACTTTCTATC
32868354 TATCATGTAATGTCAAT
129 TATCATGTAATGTCAAT
32868371 GTGAGGATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
166 68 0.54
168 58 0.46
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (166 bp):
TTTTTGAGATAAATTCGTTCTCCCAATATGATCATATTTCATCTCATGATAACCATTACATCTCC
CTTCAGGAATAATTGTCATTTATCAAAAAGGTAAAAGACTCGTGACCACGTTTACTTTCTATCTA
TCATGTAATGTCAATTACAGGATGTCATTTACCCAT
Found at i:32879828 original size:21 final size:21
Alignment explanation
Indices: 32879802--32879843 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
32879792 ATATATTAGA
32879802 AATAAAATATATAAAAAAATT
1 AATAAAATATATAAAAAAATT
*
32879823 AATAAAATATATAAATAAATT
1 AATAAAATATATAAAAAAATT
32879844 CTAATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
AATAAAATATATAAAAAAATT
Found at i:32879842 original size:12 final size:12
Alignment explanation
Indices: 32879801--32879885 Score: 51
Period size: 12 Copynumber: 7.4 Consensus size: 12
32879791 AATATATTAG
32879801 AAATAAAATATAT
1 AAAT-AAATATAT
32879814 AAA-AAA-AT-T
1 AAATAAATATAT
32879823 -AATAAAATATAT
1 AAAT-AAATATAT
*
32879835 AAATAAAT-TCT
1 AAATAAATATAT
*
32879846 -AATATATAT-T
1 AAATAAATATAT
*
32879856 AGAATATATATAT
1 A-AATAAATATAT
32879869 -AATAGAATATAT
1 AAATA-AATATAT
32879881 AAATA
1 AAATA
32879886 TATAATAGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 22
0.70 0.04 0.27
Matches are distributed among these distances:
8 2 0.03
9 1 0.02
10 12 0.21
11 12 0.21
12 20 0.34
13 11 0.19
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (12 bp):
AAATAAATATAT
Found at i:32879866 original size:14 final size:15
Alignment explanation
Indices: 32879847--32879892 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 15
32879837 ATAAATTCTA
32879847 ATATATAT-TAGAAT
1 ATATATATATAGAAT
32879861 ATATATATAATAGAAT
1 ATATATAT-ATAGAAT
* *
32879877 ATATAAATATATAAT
1 ATATATATATAGAAT
32879892 A
1 A
32879893 GAATTAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 8 0.29
15 7 0.25
16 13 0.46
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (15 bp):
ATATATATATAGAAT
Found at i:32879866 original size:16 final size:16
Alignment explanation
Indices: 32879847--32879886 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
32879837 ATAAATTCTA
32879847 ATATATATTAGAATAT
1 ATATATATTAGAATAT
*
32879863 ATATATAATAGAATAT
1 ATATATATTAGAATAT
*
32879879 ATAAATAT
1 ATATATAT
32879887 ATAATAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (16 bp):
ATATATATTAGAATAT
Found at i:32879931 original size:21 final size:21
Alignment explanation
Indices: 32879905--32879948 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
32879895 ATTAATATTC
32879905 TAACATCTAATATAAATTATA
1 TAACATCTAATATAAATTATA
32879926 TAACATCTAATATAAATTATA
1 TAACATCTAATATAAATTATA
32879947 TA
1 TA
32879949 TTATAAGCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (21 bp):
TAACATCTAATATAAATTATA
Found at i:32879940 original size:12 final size:12
Alignment explanation
Indices: 32879905--32879940 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
32879895 ATTAATATTC
32879905 TAACATCTAATA
1 TAACATCTAATA
32879917 TAA-AT-T-ATA
1 TAACATCTAATA
32879926 TAACATCTAATA
1 TAACATCTAATA
32879938 TAA
1 TAA
32879941 ATTATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
9 6 0.29
10 3 0.14
11 3 0.14
12 9 0.43
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (12 bp):
TAACATCTAATA
Found at i:32883307 original size:15 final size:15
Alignment explanation
Indices: 32883287--32883317 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
32883277 TTGTATCAGT
32883287 AATGAATCAGAGCAC
1 AATGAATCAGAGCAC
32883302 AATGAATCAGAGCAC
1 AATGAATCAGAGCAC
32883317 A
1 A
32883318 CGGAACCGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.13
Consensus pattern (15 bp):
AATGAATCAGAGCAC
Found at i:32884209 original size:16 final size:16
Alignment explanation
Indices: 32884188--32884218 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32884178 CAGAATCTCA
*
32884188 TATATATATATATAAC
1 TATATATAGATATAAC
32884204 TATATATAGATATAA
1 TATATATAGATATAA
32884219 AATACAAATT
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:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (16 bp):
TATATATAGATATAAC
Found at i:32886795 original size:30 final size:30
Alignment explanation
Indices: 32886750--32886812 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
32886740 TTATTTTTCT
*
32886750 ATTTTTTAAAATAAATATTATTTATTAAATTA
1 ATTTTTT-AAATAAATAATATTTA-TAAATTA
*
32886782 ATTTTTT-AATAAATAATATTTATAACTTA
1 ATTTTTTAAATAAATAATATTTATAAATTA
32886811 AT
1 AT
32886813 CCAACATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 8 0.28
30 14 0.48
32 7 0.24
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (30 bp):
ATTTTTTAAATAAATAATATTTATAAATTA
Found at i:32889997 original size:23 final size:22
Alignment explanation
Indices: 32889967--32890114 Score: 152
Period size: 23 Copynumber: 6.5 Consensus size: 22
32889957 ACGCTAGCGC
32889967 GCTTACTGTTTCGCACTTTGTGT
1 GCTTACTGTTT-GCACTTTGTGT
32889990 GCTTACTGTTTCGCACTTTGTGT
1 GCTTACTGTTT-GCACTTTGTGT
*
32890013 GCTTACTGTTTTGCACCTTGTGT
1 GCTTACTG-TTTGCACTTTGTGT
* * * *
32890036 GCCTACTGATTTGCGCTATGTGA
1 GCTTACTG-TTTGCACTTTGTGT
* * *
32890059 GCCTACTGATTGCACTGTGTGT
1 GCTTACTGTTTGCACTTTGTGT
* * *
32890081 GCCTACTGGATTGCACTGTGTGT
1 GCTTACT-GTTTGCACTTTGTGT
32890104 GCTTACTGTTT
1 GCTTACTGTTT
32890115 CCTCAGCACT
Statistics
Matches: 110, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
22 20 0.18
23 87 0.79
24 3 0.03
ACGTcount: A:0.11, C:0.22, G:0.24, T:0.43
Consensus pattern (22 bp):
GCTTACTGTTTGCACTTTGTGT
Found at i:32908842 original size:27 final size:27
Alignment explanation
Indices: 32908812--32908869 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
32908802 TTTTTTGAGC
32908812 TAAAAAAGTTCACTTTCGAACAAATAA
1 TAAAAAAGTTCACTTTCGAACAAATAA
*
32908839 TAAAAAAGTTCACTTTTGAACAAATAA
1 TAAAAAAGTTCACTTTCGAACAAATAA
32908866 TAAA
1 TAAA
32908870 TAGATGAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (27 bp):
TAAAAAAGTTCACTTTCGAACAAATAA
Found at i:32924524 original size:21 final size:21
Alignment explanation
Indices: 32924500--32924542 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
32924490 ATTTTAATAT
*
32924500 ATTTTTATAC-TATAAAATTAA
1 ATTTTTAT-CTTAAAAAATTAA
32924521 ATTTTTATCTTAAAAAATTAA
1 ATTTTTATCTTAAAAAATTAA
32924542 A
1 A
32924543 GTATGAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTTTATCTTAAAAAATTAA
Found at i:32930986 original size:20 final size:19
Alignment explanation
Indices: 32930942--32930986 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
32930932 TTGTAAGTTT
32930942 ATATATTGATTAAGTATAG
1 ATATATTGATTAAGTATAG
* * *
32930961 AGATATTGGATTAGGTATTG
1 ATATATT-GATTAAGTATAG
32930981 ATATAT
1 ATATAT
32930987 ATGGGTGTAG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (19 bp):
ATATATTGATTAAGTATAG
Found at i:32931328 original size:20 final size:18
Alignment explanation
Indices: 32931300--32931347 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 18
32931290 TCACGTCAAC
*
32931300 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAA-TA-TA
32931320 AAATTATTTTTTAAAATATA
1 AAATTA--TTTTAAAATATA
32931340 AAATTATT
1 AAATTATT
32931348 AAATAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 2 0.08
20 13 0.52
21 2 0.08
22 8 0.32
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AAATTATTTTAAAATATA
Found at i:32931644 original size:19 final size:19
Alignment explanation
Indices: 32931620--32931658 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
32931610 CATCCAACTA
32931620 TCGCTTCAATTAAAAATAT
1 TCGCTTCAATTAAAAATAT
32931639 TCGCTTCAATTAAAAATAT
1 TCGCTTCAATTAAAAATAT
32931658 T
1 T
32931659 ATGAAAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.38
Consensus pattern (19 bp):
TCGCTTCAATTAAAAATAT
Found at i:32932335 original size:18 final size:17
Alignment explanation
Indices: 32932312--32932364 Score: 52
Period size: 20 Copynumber: 2.9 Consensus size: 17
32932302 TTTTTTGGTC
*
32932312 TTTTATTTGTTTATATAT
1 TTTTATTT-TTTATAAAT
32932330 TTTTATAATCTTTTATAAAT
1 TTTTAT--T-TTTTATAAAT
*
32932350 TTTTATTTTATATAA
1 TTTTATTTTTTATAA
32932365 TATAAATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
17 7 0.23
18 7 0.23
20 15 0.50
21 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTATTTTTTATAAAT
Found at i:32934614 original size:2 final size:2
Alignment explanation
Indices: 32934607--32934631 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32934597 TTGGTAGACG
32934607 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
32934632 GGTGCATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32935693 original size:20 final size:20
Alignment explanation
Indices: 32935649--32935699 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
32935639 CAAAATAATC
*
32935649 AAAATAATTT-TAAAAAATTT
1 AAAAT-ATTTATAAAAAAATT
32935669 AAAATATTTATAAAAAAATT
1 AAAATATTTATAAAAAAATT
*
32935689 CAAAT-TTTATA
1 AAAATATTTATA
32935700 TTTTAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATATTTATAAAAAAATT
Found at i:32938246 original size:5 final size:5
Alignment explanation
Indices: 32938215--32938245 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
32938205 AAACTGTTAA
*
32938215 AAAAG AAAAG AAAAG AAAAG AAAAG AGAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
32938246 GGCAAGTTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:32951021 original size:20 final size:20
Alignment explanation
Indices: 32950982--32951023 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
32950972 TCTGACTATA
* *
32950982 TATCAATATTTTTAAAAATT
1 TATCAATATATCTAAAAATT
*
32951002 TATCAATATATCTAATAATT
1 TATCAATATATCTAAAAATT
32951022 TA
1 TA
32951024 CTAAATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (20 bp):
TATCAATATATCTAAAAATT
Found at i:32951099 original size:20 final size:20
Alignment explanation
Indices: 32951061--32951102 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
32951051 TTTGTGAGAC
*
32951061 TTTACCAAATTTTTTAAAAT
1 TTTACCAAATTTTTCAAAAT
32951081 TTTACC-AATATTTTCAAAAT
1 TTTACCAAAT-TTTTCAAAAT
32951101 TT
1 TT
32951103 CTATCCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTACCAAATTTTTCAAAAT
Found at i:32951224 original size:20 final size:20
Alignment explanation
Indices: 32951167--32951224 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
32951157 CTTCTGTGAG
*
32951167 CTTACCAATATTTCTAATAAT
1 CTTACCAATATTTCT-ATAAA
* * *
32951188 TTTATCAA-ATTTATATAAA
1 CTTACCAATATTTCTATAAA
32951207 CTTACCAATATTTCTATA
1 CTTACCAATATTTCTATA
32951225 GATATAACAA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 10 0.34
20 13 0.45
21 6 0.21
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.45
Consensus pattern (20 bp):
CTTACCAATATTTCTATAAA
Found at i:32951241 original size:40 final size:40
Alignment explanation
Indices: 32951167--32951243 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
32951157 CTTCTGTGAG
* *
32951167 CTTACCAATATTTCTAATAATTTTATCAAATTTATATAAA
1 CTTACCAATATTTCTAATAATTATAACAAATTTATATAAA
*
32951207 CTTACCAATATTTCT-ATAGA-TATAACAATTTTTATAT
1 CTTACCAATATTTCTAATA-ATTATAACAA-ATTTATAT
32951244 GAATTTACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 9 0.28
40 23 0.72
ACGTcount: A:0.40, C:0.13, G:0.01, T:0.45
Consensus pattern (40 bp):
CTTACCAATATTTCTAATAATTATAACAAATTTATATAAA
Found at i:32952113 original size:6 final size:6
Alignment explanation
Indices: 32952102--32952129 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
32952092 ATCATAATTG
32952102 AAATCC AAATCC AAATCC AAATCC AAAT
1 AAATCC AAATCC AAATCC AAATCC AAAT
32952130 TACCATGCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATCC
Found at i:32956009 original size:18 final size:16
Alignment explanation
Indices: 32955977--32956020 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
32955967 ATAAAATGAG
32955977 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
32955993 AATAAA--TTTAATTA
1 AATAAATTTTTAATTA
*
32956007 ATTAAAATTTTTAA
1 AAT-AAATTTTTAA
32956021 GCCGTAAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 6 0.25
17 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:32957296 original size:23 final size:24
Alignment explanation
Indices: 32957251--32957296 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
32957241 AAATTAAAAA
* * *
32957251 ATTTATAAAAATGTCAAATTTTAT
1 ATTTATAAAAATATAAAACTTTAT
32957275 ATTTA-AAAAATATAAAACTTTA
1 ATTTATAAAAATATAAAACTTTA
32957297 AAAAATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.41
Consensus pattern (24 bp):
ATTTATAAAAATATAAAACTTTAT
Found at i:32957298 original size:17 final size:17
Alignment explanation
Indices: 32957276--32957308 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
32957266 AAATTTTATA
32957276 TTTAAAAAATATAAAAC
1 TTTAAAAAATATAAAAC
32957293 TTTAAAAAATATAAAA
1 TTTAAAAAATATAAAA
32957309 AAGTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
TTTAAAAAATATAAAAC
Found at i:32959377 original size:29 final size:30
Alignment explanation
Indices: 32959325--32959382 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
32959315 AATTGGATTT
*
32959325 AATCAAAATTTCATGTATAAAATTGCACAA
1 AATCAAAATATCATGTATAAAATTGCACAA
*
32959355 AATCAAAA-ATCATGTATACAATTGCACA
1 AATCAAAATATCATGTATAAAATTGCACA
32959383 TCAAACAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.50, C:0.16, G:0.07, T:0.28
Consensus pattern (30 bp):
AATCAAAATATCATGTATAAAATTGCACAA
Found at i:32963683 original size:99 final size:99
Alignment explanation
Indices: 32963512--32963713 Score: 377
Period size: 99 Copynumber: 2.0 Consensus size: 99
32963502 TAGGATCTGC
* *
32963512 AATAAGATACCCCACATTCTTCGACAAACATAAAGAGCTAATCATAGGTGTGTTAACAAACTTAG
1 AATAAGAGACCCCACATTCTTCAACAAACATAAAGAGCTAATCATAGGTGTGTTAACAAACTTAG
32963577 CACTTTGCATGTGACACCGATCAAGAATATCTAG
66 CACTTTGCATGTGACACCGATCAAGAATATCTAG
*
32963611 AATAAGAGACCCTACATTCTTCAACAAACATAAAGAGCTAATCATAGGTGTGTTAACAAACTTAG
1 AATAAGAGACCCCACATTCTTCAACAAACATAAAGAGCTAATCATAGGTGTGTTAACAAACTTAG
32963676 CACTTTGCATGTGACACCGATCAAGAATATCTAG
66 CACTTTGCATGTGACACCGATCAAGAATATCTAG
32963710 AATA
1 AATA
32963714 TACTTACGTT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (99 bp):
AATAAGAGACCCCACATTCTTCAACAAACATAAAGAGCTAATCATAGGTGTGTTAACAAACTTAG
CACTTTGCATGTGACACCGATCAAGAATATCTAG
Found at i:32964154 original size:39 final size:39
Alignment explanation
Indices: 32964100--32964180 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
32964090 GATGCATATA
32964100 AACCTCCTCAGTCAAATCCCCATTCAAAAAAGCATTATT
1 AACCTCCTCAGTCAAATCCCCATTCAAAAAAGCATTATT
32964139 AACCTCCTCAGTCAAATCCCCATTCAAAAAAGCATTATT
1 AACCTCCTCAGTCAAATCCCCATTCAAAAAAGCATTATT
32964178 AAC
1 AAC
32964181 GTCCACCTGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.40, C:0.31, G:0.05, T:0.25
Consensus pattern (39 bp):
AACCTCCTCAGTCAAATCCCCATTCAAAAAAGCATTATT
Found at i:32965998 original size:21 final size:21
Alignment explanation
Indices: 32965972--32966011 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
32965962 AATACTTTGC
32965972 AACTAAT-ACAAACTGATTAGA
1 AACTAATAAC-AACTGATTAGA
32965993 AACTAATAACAACTGATTA
1 AACTAATAACAACTGATTA
32966012 CAACTGCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.53, C:0.15, G:0.07, T:0.25
Consensus pattern (21 bp):
AACTAATAACAACTGATTAGA
Found at i:32967067 original size:6 final size:7
Alignment explanation
Indices: 32967050--32967080 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
32967040 GATTGAAGTA
32967050 AAAAAAG
1 AAAAAAG
32967057 AAAAAAG
1 AAAAAAG
32967064 AAAAAAG
1 AAAAAAG
*
32967071 AAAAGAG
1 AAAAAAG
32967078 AAA
1 AAA
32967081 TGTGAAGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:32969536 original size:31 final size:31
Alignment explanation
Indices: 32969478--32969536 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 31
32969468 TGAAAAACTC
* * *
32969478 AAAATAAAATAAACTCGTTATATTAAATTAA
1 AAAATAAAATAAACTAGTTAAACTAAATTAA
* *
32969509 AAAATAAATTAAATTAGTTAAACTAAAT
1 AAAATAAAATAAACTAGTTAAACTAAAT
32969537 ATAATTGAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 23 1.00
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (31 bp):
AAAATAAAATAAACTAGTTAAACTAAATTAA
Found at i:32980096 original size:30 final size:30
Alignment explanation
Indices: 32980061--32980117 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
32980051 CCAATTTTTA
*
32980061 TTACAGACGTAACGAATA-TGTCATTTTTCG
1 TTACAGACATAACGAA-ACTGTCATTTTTCG
*
32980091 TTACAGACATAATGAAACTGTCATTTT
1 TTACAGACATAACGAAACTGTCATTTT
32980118 CCATCCTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (30 bp):
TTACAGACATAACGAAACTGTCATTTTTCG
Found at i:32980443 original size:21 final size:21
Alignment explanation
Indices: 32980404--32980443 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32980394 GAACTTCTAT
* **
32980404 AATATTTTTTTAATTTTTAAC
1 AATATTTTTATAAAATTTAAC
32980425 AATATTTTTATAAAATTTA
1 AATATTTTTATAAAATTTA
32980444 TATTTTTACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (21 bp):
AATATTTTTATAAAATTTAAC
Found at i:32980457 original size:36 final size:33
Alignment explanation
Indices: 32980410--32980475 Score: 87
Period size: 36 Copynumber: 1.9 Consensus size: 33
32980400 CTATAATATT
*
32980410 TTTTTAATTTTTAACAATATTTTTATAAAATTTATA
1 TTTTTAATTTTT-A-AATAATTTT-TAAAATTTATA
*
32980446 TTTTTACTTTTTAAATAATTTTTAAAATTT
1 TTTTTAATTTTTAAATAATTTTTAAAATTT
32980476 TAATTAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 8 0.29
34 8 0.29
35 1 0.04
36 11 0.39
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (33 bp):
TTTTTAATTTTTAAATAATTTTTAAAATTTATA
Found at i:32982776 original size:11 final size:11
Alignment explanation
Indices: 32982760--32982784 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
32982750 TTAGGCTTTC
32982760 TTTTTAATTGA
1 TTTTTAATTGA
32982771 TTTTTAATTGA
1 TTTTTAATTGA
32982782 TTT
1 TTT
32982785 GGGTATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTTTAATTGA
Done.