Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 79 of 135
Found at i:24226498 original size:18 final size:18
Alignment explanation
Indices: 24226472--24226509 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
24226462 CATCGTTTCA
*
24226472 CTCATACGAGCCAATATG
1 CTCAAACGAGCCAATATG
*
24226490 CTCAAACGAGCCAGTATG
1 CTCAAACGAGCCAATATG
24226508 CT
1 CT
24226510 ATTCATTCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (18 bp):
CTCAAACGAGCCAATATG
Found at i:24226666 original size:7 final size:7
Alignment explanation
Indices: 24226654--24226679 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
24226644 ATTATGTAAT
24226654 TTTCCCC
1 TTTCCCC
24226661 TTTCCCC
1 TTTCCCC
24226668 TTTCCCC
1 TTTCCCC
24226675 TTTCC
1 TTTCC
24226680 ACGATCTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (7 bp):
TTTCCCC
Found at i:24238706 original size:18 final size:18
Alignment explanation
Indices: 24238680--24238715 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24238670 CATTGTTCCA
*
24238680 CTCATACAAGCCAATATG
1 CTCAAACAAGCCAATATG
*
24238698 CTCAAACAAGCCAGTATG
1 CTCAAACAAGCCAATATG
24238716 TTATTCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.28, G:0.14, T:0.19
Consensus pattern (18 bp):
CTCAAACAAGCCAATATG
Found at i:24247080 original size:37 final size:37
Alignment explanation
Indices: 24247029--24247186 Score: 208
Period size: 37 Copynumber: 4.3 Consensus size: 37
24247019 TAAAAGTTCA
* *
24247029 GGCTATGTGCCTAGCAGGCTTTGTGTCAGTGAATTCG
1 GGCTATGTGCCTAGCAGGCTTTGTGCCGGTGAATTCG
* *
24247066 AGCTATGTGCCTAGCAGGTTTTGTGCCGGTGAATTCG
1 GGCTATGTGCCTAGCAGGCTTTGTGCCGGTGAATTCG
* *
24247103 GGTTATGTGCCTAGCAGGCTTTGTGCCGGTGAATTTG
1 GGCTATGTGCCTAGCAGGCTTTGTGCCGGTGAATTCG
* * * * *
24247140 GGCTATGTGCCTAGTAGGCTTTATTCTGGTGTATTCG
1 GGCTATGTGCCTAGCAGGCTTTGTGCCGGTGAATTCG
*
24247177 GGCTTTGTGC
1 GGCTATGTGC
24247187 TCAGTAGGTC
Statistics
Matches: 105, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.14, C:0.18, G:0.33, T:0.35
Consensus pattern (37 bp):
GGCTATGTGCCTAGCAGGCTTTGTGCCGGTGAATTCG
Found at i:24254734 original size:19 final size:18
Alignment explanation
Indices: 24254710--24254750 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
24254700 TACAGTATAT
24254710 TGCTCTCACGAGCCAGTAA
1 TGCTCTCACGAGCCAGT-A
*
24254729 TGCTCTTACGAGCCAGTA
1 TGCTCTCACGAGCCAGTA
24254747 TGCT
1 TGCT
24254751 ATTCCTTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (18 bp):
TGCTCTCACGAGCCAGTA
Found at i:24256196 original size:32 final size:31
Alignment explanation
Indices: 24256139--24256199 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 31
24256129 TAAAAAAATG
*
24256139 TATAAAATTATTAAATATTAAAATAATATAA
1 TATAAAATTATTAAAAATTAAAATAATATAA
24256170 TATAAATATT-TTAAAAAATTAAAATAATAT
1 TATAAA-ATTATT-AAAAATTAAAATAATAT
24256200 GAGTAGGCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 8 0.30
32 19 0.70
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (31 bp):
TATAAAATTATTAAAAATTAAAATAATATAA
Found at i:24263890 original size:27 final size:27
Alignment explanation
Indices: 24263857--24263949 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 27
24263847 TAAAAATTGT
24263857 ATTTTTAGTGTTTCTTTAATATAAATA
1 ATTTTTAGTGTTTCTTTAATATAAATA
* *
24263884 ATTTTTATTGTTTCTTGCTTGAATAGTATAATTGT
1 ATTTTTAGTGTTTC-T--TT-AATA-TA-AA-T-A
24263919 ATTTTTAGTGTTTCTTTAATATAAATA
1 ATTTTTAGTGTTTCTTTAATATAAATA
24263946 ATTT
1 ATTT
24263950 AATCTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
27 17 0.31
28 2 0.04
29 2 0.04
30 4 0.07
31 8 0.15
32 4 0.07
33 2 0.04
34 2 0.04
35 13 0.24
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.57
Consensus pattern (27 bp):
ATTTTTAGTGTTTCTTTAATATAAATA
Found at i:24282024 original size:50 final size:50
Alignment explanation
Indices: 24281947--24282225 Score: 360
Period size: 50 Copynumber: 5.6 Consensus size: 50
24281937 ATATACATAT
* * * *
24281947 TGTGCAAGCTGGCGAGTGCAAACGCATAAATAAGTTGACGAGCATAAACG
1 TGTGCAAGCTGGCGAGCGTAAATGCATAAATAAGTTGACGAGCGTAAACG
* * *
24281997 TGTGCAAGCTAGCGAGCGTAAATGCATAAATAAGTTCACAAGCGTAAACG
1 TGTGCAAGCTGGCGAGCGTAAATGCATAAATAAGTTGACGAGCGTAAACG
* * * * * *
24282047 TGTTCAAGCTGGTGAGCGTAAAGGCATAAATAAGCTGGCGAGCATAAACG
1 TGTGCAAGCTGGCGAGCGTAAATGCATAAATAAGTTGACGAGCGTAAACG
* *
24282097 TGTACAAGCTGGCGAGCGTAAACGCATAAATAAGTTGACGAGCGTAAACG
1 TGTGCAAGCTGGCGAGCGTAAATGCATAAATAAGTTGACGAGCGTAAACG
* * * * *
24282147 TGTGCAAGCTGACGAGCGTAAATGCTTATATAAGCTAACGAGCGTAAACG
1 TGTGCAAGCTGGCGAGCGTAAATGCATAAATAAGTTGACGAGCGTAAACG
* *
24282197 TGTGCAAGTTGGCAAGCGTAAATGCATAA
1 TGTGCAAGCTGGCGAGCGTAAATGCATAA
24282226 GTATGCCGAT
Statistics
Matches: 195, Mismatches: 34, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 195 1.00
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.20
Consensus pattern (50 bp):
TGTGCAAGCTGGCGAGCGTAAATGCATAAATAAGTTGACGAGCGTAAACG
Found at i:24282068 original size:24 final size:24
Alignment explanation
Indices: 24282037--24282218 Score: 91
Period size: 24 Copynumber: 7.3 Consensus size: 24
24282027 TAAGTTCACA
*
24282037 AGCGTAAACGTGTTCAAGCTGGTG
1 AGCGTAAACGTGTTCAAGCTGGCG
* **
24282061 AGCGTAAAGGCATAAAT-AAGCTGGCG
1 AGCGTAAA--CGT-GTTCAAGCTGGCG
* *
24282087 AGCATAAACGTGTACAAGCTGGCG
1 AGCGTAAACGTGTTCAAGCTGGCG
** * *
24282111 AGCGTAAACGCATAAAT-AAGTTGACG
1 AGCGTAAACG--T-GTTCAAGCTGGCG
* *
24282137 AGCGTAAACGTGTGCAAGCTGACG
1 AGCGTAAACGTGTTCAAGCTGGCG
* * **
24282161 AGCGTAAATGCT-TATATAAGCTAACG
1 AGCGTAAACG-TGT-T-CAAGCTGGCG
* * *
24282187 AGCGTAAACGTGTGCAAGTTGGCA
1 AGCGTAAACGTGTTCAAGCTGGCG
24282211 AGCGTAAA
1 AGCGTAAA
24282219 TGCATAAGTA
Statistics
Matches: 116, Mismatches: 30, Indels: 24
0.68 0.18 0.14
Matches are distributed among these distances:
24 60 0.52
25 2 0.02
26 53 0.46
27 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.29, T:0.20
Consensus pattern (24 bp):
AGCGTAAACGTGTTCAAGCTGGCG
Found at i:24282145 original size:26 final size:26
Alignment explanation
Indices: 24281952--24282196 Score: 105
Period size: 26 Copynumber: 9.7 Consensus size: 26
24281942 CATATTGTGC
* * *
24281952 AAGCTGGCGAGTGCAAACGCATAAAT
1 AAGCTGACGAGCGTAAACGCATAAAT
* * ****
24281978 AAGTTGACGAGCATAAACG--TGTGC
1 AAGCTGACGAGCGTAAACGCATAAAT
*
24282002 AAGCT-AGCGAGCGTAAATGCATAAAT
1 AAGCTGA-CGAGCGTAAACGCATAAAT
* * * **
24282028 AAGTTCACAAGCGTAAACG--T-GTT
1 AAGCTGACGAGCGTAAACGCATAAAT
** *
24282051 CAAGCTGGTGAGCGTAAAGGCATAAAT
1 -AAGCTGACGAGCGTAAACGCATAAAT
* * ** *
24282078 AAGCTGGCGAGCATAAACG--TGTAC
1 AAGCTGACGAGCGTAAACGCATAAAT
*
24282102 AAGCTGGCGAGCGTAAACGCATAAAT
1 AAGCTGACGAGCGTAAACGCATAAAT
* ****
24282128 AAGTTGACGAGCGTAAACG--TGTGC
1 AAGCTGACGAGCGTAAACGCATAAAT
* * *
24282152 AAGCTGACGAGCGTAAATGCTTATAT
1 AAGCTGACGAGCGTAAACGCATAAAT
*
24282178 AAGCTAACGAGCGTAAACG
1 AAGCTGACGAGCGTAAACG
24282197 TGTGCAAGTT
Statistics
Matches: 155, Mismatches: 52, Indels: 24
0.67 0.23 0.10
Matches are distributed among these distances:
23 2 0.01
24 67 0.43
26 84 0.54
27 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (26 bp):
AAGCTGACGAGCGTAAACGCATAAAT
Found at i:24282224 original size:150 final size:150
Alignment explanation
Indices: 24281951--24282225 Score: 417
Period size: 150 Copynumber: 1.8 Consensus size: 150
24281941 ACATATTGTG
*
24281951 CAAGCTGGCGAGTGCAAACGCATAAATAAGTTGACGAGCATAAACGTGTGCAAGCTAGCGAGCGT
1 CAAGCTGGCGAGCGCAAACGCATAAATAAGTTGACGAGCATAAACGTGTGCAAGCTAGCGAGCGT
* * * **
24282016 AAATGCATAAATAAGTTCACAAGCGTAAACGTGTTCAAGCTGGTGAGCGTAAAGGCATAAATAAG
66 AAATGCATAAATAAGCTAACAAGCGTAAACGTGTGCAAGCTGGCAAGCGTAAAGGCATAAATAAG
24282081 CTGGCGAGCATAAACGTGTA
131 CTGGCGAGCATAAACGTGTA
* *
24282101 CAAGCTGGCGAGCGTAAACGCATAAATAAGTTGACGAGCGTAAACGTGTGCAAGCT-GACGAGCG
1 CAAGCTGGCGAGCGCAAACGCATAAATAAGTTGACGAGCATAAACGTGTGCAAGCTAG-CGAGCG
* * * * *
24282165 TAAATGCTTATATAAGCTAACGAGCGTAAACGTGTGCAAGTTGGCAAGCGTAAATGCATAA
65 TAAATGCATAAATAAGCTAACAAGCGTAAACGTGTGCAAGCTGGCAAGCGTAAAGGCATAA
24282226 GTATGCCGAT
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
149 1 0.01
150 110 0.99
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (150 bp):
CAAGCTGGCGAGCGCAAACGCATAAATAAGTTGACGAGCATAAACGTGTGCAAGCTAGCGAGCGT
AAATGCATAAATAAGCTAACAAGCGTAAACGTGTGCAAGCTGGCAAGCGTAAAGGCATAAATAAG
CTGGCGAGCATAAACGTGTA
Found at i:24284868 original size:51 final size:51
Alignment explanation
Indices: 24284792--24284907 Score: 187
Period size: 51 Copynumber: 2.3 Consensus size: 51
24284782 CCTATACCCT
24284792 TGAAGTTGCAGTGGGTCAGATTAAAACAGTAGTAGAGATCTCAATCTCTAC
1 TGAAGTTGCAGTGGGTCAGATTAAAACAGTAGTAGAGATCTCAATCTCTAC
* * * *
24284843 TGAAGTTGTAGTGGGTCAGATTAAAACAGTAGTAGAGATCTTAATCTCCAT
1 TGAAGTTGCAGTGGGTCAGATTAAAACAGTAGTAGAGATCTCAATCTCTAC
*
24284894 TAAAGTTGCAGTGG
1 TGAAGTTGCAGTGG
24284908 AATGGAGTGA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
TGAAGTTGCAGTGGGTCAGATTAAAACAGTAGTAGAGATCTCAATCTCTAC
Found at i:24286706 original size:5 final size:5
Alignment explanation
Indices: 24286696--24286730 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
24286686 TCCTTGTAAT
*
24286696 TTTTA TTTTA TTTTAA TTTTG TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTT-A TTTTA TTTTA TTTTA TTTT
24286731 TAATTCACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:24286714 original size:11 final size:11
Alignment explanation
Indices: 24286694--24286735 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
24286684 GGTCCTTGTA
*
24286694 ATTTTTATTTT
1 ATTTTAATTTT
24286705 ATTTTAATTTT
1 ATTTTAATTTT
*
24286716 GTTTT-ATTTT
1 ATTTTAATTTT
24286726 ATTTTTAATT
1 A-TTTTAATT
24286736 CACACCATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 5 0.19
11 18 0.69
12 3 0.12
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.76
Consensus pattern (11 bp):
ATTTTAATTTT
Found at i:24286715 original size:16 final size:16
Alignment explanation
Indices: 24286696--24286732 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
24286686 TCCTTGTAAT
24286696 TTTTATTTTATTTTAA
1 TTTTATTTTATTTTAA
* *
24286712 TTTTGTTTTATTTTAT
1 TTTTATTTTATTTTAA
24286728 TTTTA
1 TTTTA
24286733 ATTCACACCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTATTTTATTTTAA
Found at i:24288293 original size:14 final size:14
Alignment explanation
Indices: 24288274--24288308 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
24288264 AGTATTTCTC
24288274 TATATTTTC-ATTCA
1 TATATTTTCTA-TCA
24288288 TATATTTTCTATCA
1 TATATTTTCTATCA
24288302 TATATTT
1 TATATTT
24288309 AAATTCTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 19 0.95
15 1 0.05
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (14 bp):
TATATTTTCTATCA
Found at i:24290132 original size:22 final size:22
Alignment explanation
Indices: 24290075--24290121 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
24290065 CGATCTGTTG
24290075 AAAAATAAAAG-AAACAGAATT
1 AAAAATAAAAGAAAACAGAATT
*
24290096 AAAAATAAAAGAAAACATAATT
1 AAAAATAAAAGAAAACAGAATT
24290118 AAAA
1 AAAA
24290122 GAAATAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAGAAAACAGAATT
Found at i:24290967 original size:31 final size:30
Alignment explanation
Indices: 24290932--24291013 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
24290922 TAAACATAAA
*
24290932 TAAATACAAAATTAAATAATAAATAATATCT
1 TAAATATAAAATTAAATAA-AAATAATATCT
* *
24290963 TAAATATTAAATCCT-AATAAAAATAATATTT
1 TAAATATAAAAT--TAAATAAAAATAATATCT
*
24290994 TAAA-ATAAAATAAAATAAAA
1 TAAATATAAAATTAAATAAAA
24291014 TAAAACCAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
29 7 0.16
30 6 0.14
31 24 0.56
32 5 0.12
33 1 0.02
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (30 bp):
TAAATATAAAATTAAATAAAAATAATATCT
Found at i:24291004 original size:5 final size:5
Alignment explanation
Indices: 24290994--24291018 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
24290984 AATAATATTT
24290994 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
24291019 CCAAGTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:24292095 original size:79 final size:79
Alignment explanation
Indices: 24291965--24292285 Score: 572
Period size: 79 Copynumber: 4.1 Consensus size: 79
24291955 ATTACATCTA
24291965 AATTTATTATTATCATACTCATTTGTCACTTTTTACTTATTTTACAATTTAGTCCTTAAGTTCTC
1 AATTTATTATTATCATACTCATTTGTCACTTTTTACTTATTTTACAATTTAGTCCTTAAGTTCTC
* *
24292030 AATTCAACCTATAA
66 AATTCAACCCATAG
*
24292044 AATTTACTATTATCATACTCATTTGTCACTTTTTACTTATTTTACAATTTAGTCCTTAAGTTCTC
1 AATTTATTATTATCATACTCATTTGTCACTTTTTACTTATTTTACAATTTAGTCCTTAAGTTCTC
24292109 AATTCAACCCATAG
66 AATTCAACCCATAG
* *
24292123 AATTTATTATTATCATACTCATTTATCAATTTTTACTTATTTTAC-ATTTAGTCCTTAAGTTCTC
1 AATTTATTATTATCATACTCATTTGTCACTTTTTACTTATTTTACAATTTAGTCCTTAAGTTCTC
24292187 AATTCAACCCATAG
66 AATTCAACCCATAG
*
24292201 AATTTATTATTATCATACTCATTTGTCACTTTTTACTTATTTTACAATTTAGTCCTTAAGTTATC
1 AATTTATTATTATCATACTCATTTGTCACTTTTTACTTATTTTACAATTTAGTCCTTAAGTTCTC
24292266 AATTCAACCCATAG
66 AATTCAACCCATAG
*
24292280 GATTTA
1 AATTTA
24292286 CTACTCTTTT
Statistics
Matches: 231, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
78 76 0.33
79 155 0.67
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.47
Consensus pattern (79 bp):
AATTTATTATTATCATACTCATTTGTCACTTTTTACTTATTTTACAATTTAGTCCTTAAGTTCTC
AATTCAACCCATAG
Found at i:24292236 original size:157 final size:158
Alignment explanation
Indices: 24291965--24292285 Score: 572
Period size: 157 Copynumber: 2.0 Consensus size: 158
24291955 ATTACATCTA
* *
24291965 AATTTATTATTATCATACTCATTTGTCACTTTTTACTTATTTTACAATTTAGTCCTTAAGTTCTC
1 AATTTATTATTATCATACTCATTTATCAATTTTTACTTATTTTACAATTTAGTCCTTAAGTTCTC
*
24292030 AATTCAACCTATAAAATTTACTATTATCATACTCATTTGTCACTTTTTACTTATTTTACAATTTA
66 AATTCAACCCATAAAATTTACTATTATCATACTCATTTGTCACTTTTTACTTATTTTACAATTTA
*
24292095 GTCCTTAAGTTCTCAATTCAACCCATAG
131 GTCCTTAAGTTATCAATTCAACCCATAG
24292123 AATTTATTATTATCATACTCATTTATCAATTTTTACTTATTTTAC-ATTTAGTCCTTAAGTTCTC
1 AATTTATTATTATCATACTCATTTATCAATTTTTACTTATTTTACAATTTAGTCCTTAAGTTCTC
* *
24292187 AATTCAACCCATAGAATTTATTATTATCATACTCATTTGTCACTTTTTACTTATTTTACAATTTA
66 AATTCAACCCATAAAATTTACTATTATCATACTCATTTGTCACTTTTTACTTATTTTACAATTTA
24292252 GTCCTTAAGTTATCAATTCAACCCATAG
131 GTCCTTAAGTTATCAATTCAACCCATAG
*
24292280 GATTTA
1 AATTTA
24292286 CTACTCTTTT
Statistics
Matches: 156, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
157 113 0.72
158 43 0.28
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.47
Consensus pattern (158 bp):
AATTTATTATTATCATACTCATTTATCAATTTTTACTTATTTTACAATTTAGTCCTTAAGTTCTC
AATTCAACCCATAAAATTTACTATTATCATACTCATTTGTCACTTTTTACTTATTTTACAATTTA
GTCCTTAAGTTATCAATTCAACCCATAG
Found at i:24292329 original size:21 final size:21
Alignment explanation
Indices: 24292305--24292352 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
24292295 TTAATAAATG
24292305 TAATTTTCATAATTTCA-TCAC
1 TAATTTT-ATAATTTCATTCAC
*
24292326 TAATCTTTATCATTTCATTCAC
1 TAAT-TTTATAATTTCATTCAC
24292348 -AATTT
1 TAATTT
24292353 ATCTTTATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 15 0.62
22 7 0.29
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATTTTATAATTTCATTCAC
Found at i:24292602 original size:22 final size:23
Alignment explanation
Indices: 24292563--24292607 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
24292553 ACTAATAGAA
*
24292563 CACTAGGCACCGAAGTGC-AAAT
1 CACTAAGCACCGAAGTGCGAAAT
24292585 CACTAAGCACC-AATGTGCGAAAT
1 CACTAAGCACCGAA-GTGCGAAAT
24292608 AGTAAGCGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 14 0.70
23 4 0.20
ACGTcount: A:0.38, C:0.27, G:0.20, T:0.16
Consensus pattern (23 bp):
CACTAAGCACCGAAGTGCGAAAT
Found at i:24294512 original size:3 final size:3
Alignment explanation
Indices: 24294506--24294533 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
24294496 TTTATTTCCT
24294506 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
24294534 ATTTCACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24298718 original size:21 final size:20
Alignment explanation
Indices: 24298694--24298733 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
24298684 AGACAAACAT
*
24298694 TTGACGAAAGTTTTATAAAAG
1 TTGAC-AAAGTTATATAAAAG
*
24298715 TTGACAAGGTTATATAAAA
1 TTGACAAAGTTATATAAAA
24298734 CACAAGGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.33
Consensus pattern (20 bp):
TTGACAAAGTTATATAAAAG
Found at i:24301051 original size:15 final size:15
Alignment explanation
Indices: 24301027--24301074 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
24301017 TAGTTACGAT
* *
24301027 GATGACATCTATGAG
1 GATGATATCTATGAA
24301042 GATGATATCTATGAA
1 GATGATATCTATGAA
24301057 GATGGATA-CTATGAA
1 GAT-GATATCTATGAA
24301072 GAT
1 GAT
24301075 TGGGAGATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 26 0.87
16 4 0.13
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (15 bp):
GATGATATCTATGAA
Found at i:24305518 original size:31 final size:31
Alignment explanation
Indices: 24305480--24305541 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
24305470 AAGACAAGAA
24305480 GAGACAAGACGAAGACGATTTTGTAAGTTTT
1 GAGACAAGACGAAGACGATTTTGTAAGTTTT
24305511 GAGACAAGACGAAGACGATTTTGTAAGTTTT
1 GAGACAAGACGAAGACGATTTTGTAAGTTTT
24305542 CTAAACCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (31 bp):
GAGACAAGACGAAGACGATTTTGTAAGTTTT
Found at i:24317972 original size:15 final size:15
Alignment explanation
Indices: 24317961--24317993 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
24317951 TAATTAAGAT
*
24317961 ATTTAATTTTAAAAA
1 ATTTAAATTTAAAAA
24317976 ATTTAAATTTAAAAA
1 ATTTAAATTTAAAAA
24317991 ATT
1 ATT
24317994 AATAATTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTAAATTTAAAAA
Found at i:24324337 original size:29 final size:26
Alignment explanation
Indices: 24324282--24324337 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 26
24324272 ACACAATCAT
**
24324282 GATAAAAAAAATATAATTAAATCAAA
1 GATAAAAAAAATATAATTAAAGAAAA
24324308 GATAAATAAAAATATGTAATTAAAGAAAA
1 GATAAA-AAAAATA--TAATTAAAGAAAA
24324337 G
1 G
24324338 GCAAAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.24
27 7 0.28
29 12 0.48
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (26 bp):
GATAAAAAAAATATAATTAAAGAAAA
Found at i:24324414 original size:15 final size:14
Alignment explanation
Indices: 24324390--24324429 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
24324380 AAACAAAAAC
*
24324390 AAAATAAAAAATGA
1 AAAATGAAAAATGA
*
24324404 ATATATGAAAAATGA
1 A-AAATGAAAAATGA
24324419 AAAATGAAAAA
1 AAAATGAAAAA
24324430 AATATAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (14 bp):
AAAATGAAAAATGA
Found at i:24324418 original size:7 final size:7
Alignment explanation
Indices: 24324390--24324429 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
24324380 AAACAAAAAC
*
24324390 AAAATAA
1 AAAATGA
24324397 AAAATGA
1 AAAATGA
*
24324404 ATATATGA
1 A-AAATGA
24324412 AAAATGA
1 AAAATGA
24324419 AAAATGA
1 AAAATGA
24324426 AAAA
1 AAAA
24324430 AATATAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 23 0.79
8 6 0.21
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (7 bp):
AAAATGA
Found at i:24324589 original size:13 final size:13
Alignment explanation
Indices: 24324571--24324608 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
24324561 TTTAAAGGAT
24324571 AAAATAAAAATAG
1 AAAATAAAAATAG
*
24324584 AAAATATTAAAT-G
1 AAAATA-AAAATAG
24324597 AAAATAAAAATA
1 AAAATAAAAATA
24324609 AAATAAAGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 4 0.19
13 13 0.62
14 4 0.19
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (13 bp):
AAAATAAAAATAG
Found at i:24324911 original size:37 final size:37
Alignment explanation
Indices: 24324855--24324937 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
24324845 CGGGTTTGGA
*
24324855 CTCAAAACGGCATCATTTTGGAGCCTATTGAACCACG
1 CTCAAAACGGCATCATTTTGGAGCCTATTGAACCAAG
** * *
24324892 CTCAAAACGGTGTCGTTTTGGATCCTATTGAACCAAG
1 CTCAAAACGGCATCATTTTGGAGCCTATTGAACCAAG
24324929 CTCAAAACG
1 CTCAAAACG
24324938 ACACTGTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (37 bp):
CTCAAAACGGCATCATTTTGGAGCCTATTGAACCAAG
Found at i:24327380 original size:21 final size:21
Alignment explanation
Indices: 24327320--24327373 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
24327310 AGAGTTTTTA
* *
24327320 GTATCAGTAGAAG-CATAACTT
1 GTATCGGTAGAAGTC-TCACTT
*
24327341 GTTTCGGTAGAAGTCTCACTT
1 GTATCGGTAGAAGTCTCACTT
24327362 GTATCGGTAGAA
1 GTATCGGTAGAA
24327374 CGGTCACAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (21 bp):
GTATCGGTAGAAGTCTCACTT
Found at i:24333498 original size:158 final size:158
Alignment explanation
Indices: 24333208--24333498 Score: 474
Period size: 158 Copynumber: 1.8 Consensus size: 158
24333198 GTATCATGCA
*
24333208 TTGCTCACACGAGCTGTGGGTCGAGATGTTAAACTACATGATGCTGCTCACACGAGCTGTGGAGA
1 TTGCTCACACGAGCTGTGGGTCGAGATGTTAAACTACATGATGCTGCTCACACGAGCTGTGAAGA
* * *
24333273 ATCCGCAATAAATGTCAGATCTCAGCCATCGATAGGACATCTAAGACCAGCACCCATATAACTTG
66 ATCCGCAATAAATGTCAGATCTCAGCCATCGATAAGACATCTAAGACCAGCACCCATAAAACCTG
24333338 TAATGCTCACACGAGCTATGAAGTGGGC
131 TAATGCTCACACGAGCTATGAAGTGGGC
** * *
24333366 TTGCTCACACGAGCTGTGGGTCGAGATGTTAGGCTACATGATGTTGCTCACACGAGTTGTGAAGA
1 TTGCTCACACGAGCTGTGGGTCGAGATGTTAAACTACATGATGCTGCTCACACGAGCTGTGAAGA
* * * *
24333431 ATCTGTAATAAATGTCAGATCTCAGCCATCTATAAGACATCTAAGACCAGTACCCATAAAACCTG
66 ATCCGCAATAAATGTCAGATCTCAGCCATCGATAAGACATCTAAGACCAGCACCCATAAAACCTG
24333496 TAA
131 TAA
24333499 ATTCCTGAAA
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
158 121 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (158 bp):
TTGCTCACACGAGCTGTGGGTCGAGATGTTAAACTACATGATGCTGCTCACACGAGCTGTGAAGA
ATCCGCAATAAATGTCAGATCTCAGCCATCGATAAGACATCTAAGACCAGCACCCATAAAACCTG
TAATGCTCACACGAGCTATGAAGTGGGC
Found at i:24335667 original size:41 final size:41
Alignment explanation
Indices: 24335609--24335756 Score: 251
Period size: 41 Copynumber: 3.6 Consensus size: 41
24335599 GACAAACTCA
* *
24335609 ATATTAAATGGAAGACTCCTGTCTCGGGATGAGAATAAGATT
1 ATATTAAA-GGAAGACTCATGTCTCGGGATGAGAATGAGATT
*
24335651 ATATTAAAGGAAGACTCATGTCTCAGGATGAGAATGAGATT
1 ATATTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATT
*
24335692 ATATTAAAGGAAAACTCATGTCTCGGGATGAGAATGAGATT
1 ATATTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATT
24335733 ATATTAAAGGAAGACTCATGTCTC
1 ATATTAAAGGAAGACTCATGTCTC
24335757 AAAATGAGTG
Statistics
Matches: 100, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 92 0.92
42 8 0.08
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (41 bp):
ATATTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATT
Found at i:24341049 original size:228 final size:228
Alignment explanation
Indices: 24340652--24341109 Score: 898
Period size: 228 Copynumber: 2.0 Consensus size: 228
24340642 ATCTGCTAGA
24340652 GAAGCTGGTAGAGTTGTATGTATCTGAAATCATGCGTCTGCACGGGGTGCCAGCATCTATCATAT
1 GAAGCTGGTAGAGTTGTATGTATCTGAAATCATGCGTCTGCACGGGGTGCCAGCATCTATCATAT
24340717 TCGATAGGGATCCACGATTTACCTCGAGGTTCTGGGTAAGCTAAATAAAGTTTTAGGAACCAGAC
66 TCGATAGGGATCCACGATTTACCTCGAGGTTCTGGGTAAGCTAAATAAAGTTTTAGGAACCAGAC
24340782 TGAATTTTAGCACTACATATCATTAGCAGACAGATGGTCAGTCAAAGCGGGTGATACAAATTCTG
131 TGAATTTTAGCACTACATATCATTAGCAGACAGATGGTCAGTCAAAGCGGGTGATACAAATTCTG
24340847 GAGGACATGTTACAATGTTGCATACTTGAGTTC
196 GAGGACATGTTACAATGTTGCATACTTGAGTTC
*
24340880 GAAGCTGGTAGAGTTGTATGTATCTGAAATCATGCGTCTGCACGGGGTGCCATCATCTATCATAT
1 GAAGCTGGTAGAGTTGTATGTATCTGAAATCATGCGTCTGCACGGGGTGCCAGCATCTATCATAT
24340945 TCGATAGGGATCCACGATTTACCTCGAGGTTCTGGGTAAGCTAAATAAAGTTTTAGGAACCAGAC
66 TCGATAGGGATCCACGATTTACCTCGAGGTTCTGGGTAAGCTAAATAAAGTTTTAGGAACCAGAC
24341010 TGAATTTTAGCACTACATATCATTAGCAGACAGATGGTCAGTCAAAGCGGGTGATACAAATTCTG
131 TGAATTTTAGCACTACATATCATTAGCAGACAGATGGTCAGTCAAAGCGGGTGATACAAATTCTG
*
24341075 GAGGACATGTTACGATGTTGCATACTTGAGTTC
196 GAGGACATGTTACAATGTTGCATACTTGAGTTC
24341108 GA
1 GA
24341110 GGGTAGCTGG
Statistics
Matches: 228, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
228 228 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (228 bp):
GAAGCTGGTAGAGTTGTATGTATCTGAAATCATGCGTCTGCACGGGGTGCCAGCATCTATCATAT
TCGATAGGGATCCACGATTTACCTCGAGGTTCTGGGTAAGCTAAATAAAGTTTTAGGAACCAGAC
TGAATTTTAGCACTACATATCATTAGCAGACAGATGGTCAGTCAAAGCGGGTGATACAAATTCTG
GAGGACATGTTACAATGTTGCATACTTGAGTTC
Found at i:24342850 original size:41 final size:41
Alignment explanation
Indices: 24342761--24343017 Score: 460
Period size: 41 Copynumber: 6.2 Consensus size: 41
24342751 AATGGAGGAT
24342761 TCATGTCTCGGGATGAGAATGAGATTATATTAAAAGGAAGAC
1 TCATGTCTCGGGATGAGAATGAGATTATATT-AAAGGAAGAC
24342803 TCATGTCTCGGGATGAGAATGAGATTATATTAAAGGAAGAC
1 TCATGTCTCGGGATGAGAATGAGATTATATTAAAGGAAGAC
24342844 TCATGTCTCGGGATGAGAATGAGATTATATTAAAAGGAAGAC
1 TCATGTCTCGGGATGAGAATGAGATTATATT-AAAGGAAGAC
* * *
24342886 TCCTGTCTCGGGATGAGAGTAAGATTATATTAAAGGAAGAC
1 TCATGTCTCGGGATGAGAATGAGATTATATTAAAGGAAGAC
*
24342927 TCATGTCTCAGGATGAGAATGAGATTATATTAAAGGAAGAC
1 TCATGTCTCGGGATGAGAATGAGATTATATTAAAGGAAGAC
24342968 TCATGTCTCGGGATGAGAATGAGATTATATTAAAGGAAGAC
1 TCATGTCTCGGGATGAGAATGAGATTATATTAAAGGAAGAC
24343009 TCATGTCTC
1 TCATGTCTC
24343018 AAAATGAACG
Statistics
Matches: 206, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
41 137 0.67
42 69 0.33
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (41 bp):
TCATGTCTCGGGATGAGAATGAGATTATATTAAAGGAAGAC
Found at i:24342872 original size:83 final size:83
Alignment explanation
Indices: 24342761--24343017 Score: 471
Period size: 83 Copynumber: 3.1 Consensus size: 83
24342751 AATGGAGGAT
24342761 TCATGTCTCGGGATGAGAATGAGATTATATTAAAAGGAAGACTCATGTCTCGGGATGAGAATGAG
1 TCATGTCTCGGGATGAGAATGAGATTATATTAAAAGGAAGACTCATGTCTCGGGATGAGAATGAG
24342826 ATTATATTAAAGGAAGAC
66 ATTATATTAAAGGAAGAC
* * *
24342844 TCATGTCTCGGGATGAGAATGAGATTATATTAAAAGGAAGACTCCTGTCTCGGGATGAGAGTAAG
1 TCATGTCTCGGGATGAGAATGAGATTATATTAAAAGGAAGACTCATGTCTCGGGATGAGAATGAG
24342909 ATTATATTAAAGGAAGAC
66 ATTATATTAAAGGAAGAC
*
24342927 TCATGTCTCAGGATGAGAATGAGATTATATT-AAAGGAAGACTCATGTCTCGGGATGAGAATGAG
1 TCATGTCTCGGGATGAGAATGAGATTATATTAAAAGGAAGACTCATGTCTCGGGATGAGAATGAG
24342991 ATTATATTAAAGGAAGAC
66 ATTATATTAAAGGAAGAC
24343009 TCATGTCTC
1 TCATGTCTC
24343018 AAAATGAACG
Statistics
Matches: 167, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
82 57 0.34
83 110 0.66
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (83 bp):
TCATGTCTCGGGATGAGAATGAGATTATATTAAAAGGAAGACTCATGTCTCGGGATGAGAATGAG
ATTATATTAAAGGAAGAC
Found at i:24342953 original size:124 final size:124
Alignment explanation
Indices: 24342761--24343017 Score: 462
Period size: 124 Copynumber: 2.1 Consensus size: 124
24342751 AATGGAGGAT
* *
24342761 TCATGTCTCGGGATGAGAATGAGATTATATTAAAAGGAAGACTCATGTCTCGGGATGAGAATGAG
1 TCATGTCTCGGGATGAGAATAAGATTATATTAAAAGGAAGACTCATGTCTCAGGATGAGAATGAG
24342826 ATTATATTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTATATTAAAAGGAAGAC
66 ATTATATTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTATATT-AAAGGAAGAC
* *
24342886 TCCTGTCTCGGGATGAGAGTAAGATTATATT-AAAGGAAGACTCATGTCTCAGGATGAGAATGAG
1 TCATGTCTCGGGATGAGAATAAGATTATATTAAAAGGAAGACTCATGTCTCAGGATGAGAATGAG
24342950 ATTATATTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTATATTAAAGGAAGAC
66 ATTATATTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTATATTAAAGGAAGAC
24343009 TCATGTCTC
1 TCATGTCTC
24343018 AAAATGAACG
Statistics
Matches: 127, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
123 18 0.14
124 81 0.64
125 28 0.22
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (124 bp):
TCATGTCTCGGGATGAGAATAAGATTATATTAAAAGGAAGACTCATGTCTCAGGATGAGAATGAG
ATTATATTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTATATTAAAGGAAGAC
Found at i:24348766 original size:25 final size:25
Alignment explanation
Indices: 24348712--24348774 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 25
24348702 TCTACCGATA
* **
24348712 CAAGTACACGAACTATCGATACTTC
1 CAAGTACACGAACTACCGATACACC
*
24348737 TAAGTACA-GAACTACCGATACAACC
1 CAAGTACACGAACTACCGATAC-ACC
24348762 CAAGT-CAGCGAAC
1 CAAGTACA-CGAAC
24348775 AACCTCTCTC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
24 14 0.47
25 12 0.40
26 4 0.13
ACGTcount: A:0.40, C:0.29, G:0.14, T:0.17
Consensus pattern (25 bp):
CAAGTACACGAACTACCGATACACC
Found at i:24355829 original size:30 final size:30
Alignment explanation
Indices: 24355793--24355851 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
24355783 CCGATACAAG
*
24355793 TGAGATTTCTACCTATACTTATCATGCTTC
1 TGAGATTTCTACCGATACTTATCATGCTTC
24355823 TGAGATTTCTACCGATACTTATCATGCTT
1 TGAGATTTCTACCGATACTTATCATGCTT
24355852 TTACTGATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.42
Consensus pattern (30 bp):
TGAGATTTCTACCGATACTTATCATGCTTC
Found at i:24357914 original size:20 final size:20
Alignment explanation
Indices: 24357878--24357927 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
24357868 TCATTAAGCT
*
24357878 TTAATTAACCACTTTTA-ATC
1 TTAATTAAACACTTTTACA-C
24357898 TTAATTAAAC-CTATTTACAC
1 TTAATTAAACACT-TTTACAC
24357918 TTAATATAAA
1 TTAAT-TAAA
24357928 TCATGCTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 5 0.19
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATTAAACACTTTTACAC
Found at i:24359697 original size:158 final size:158
Alignment explanation
Indices: 24359404--24359720 Score: 436
Period size: 158 Copynumber: 2.0 Consensus size: 158
24359394 CCCGGTATCA
* *
24359404 TGTATTGCTCACACGAGCTGTGAAATAGGCCTGCTCACACGAGCTGTAGGTCGAAATGTTAGACT
1 TGTAATGCTCACACGAGCTATGAAATAGGCCTGCTCACACGAGCTGTAGGTCGAAATGTTAGACT
* * * *
24359469 ACACGATACTGCTCACACGAGCTGTGGAAAATCTGAAACAAATGTCGGATCTCAGCCATCGGTAG
66 ACACAATACTGCTCACACGAGCTATGGAAAATCTGAAACAAATGTCAGATCTCAGCCATCGATAG
*
24359534 GACATCTAAGGCCAGCACCCATATAACC
131 GACATCTAAGACCAGCACCCATATAACC
* * * * * *
24359562 TGTAATGCTCACACGAGCTATGAAGTGGGCCTGCTCACATGAGCTGTGGGTCGAGATGTTAGGCT
1 TGTAATGCTCACACGAGCTATGAAATAGGCCTGCTCACACGAGCTGTAGGTCGAAATGTTAGACT
* * **** *
24359627 ACACAATGCTGCTCACACGAGCTATGGAGAATCTGCTGTAAATTTCAGATCTCAGCCATCGATAG
66 ACACAATACTGCTCACACGAGCTATGGAAAATCTGAAACAAATGTCAGATCTCAGCCATCGATAG
* *
24359692 TACATCTAAGACCAGCACCTATATAACC
131 GACATCTAAGACCAGCACCCATATAACC
24359720 T
1 T
24359721 ATAAATTGGC
Statistics
Matches: 137, Mismatches: 22, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
158 137 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (158 bp):
TGTAATGCTCACACGAGCTATGAAATAGGCCTGCTCACACGAGCTGTAGGTCGAAATGTTAGACT
ACACAATACTGCTCACACGAGCTATGGAAAATCTGAAACAAATGTCAGATCTCAGCCATCGATAG
GACATCTAAGACCAGCACCCATATAACC
Found at i:24367719 original size:191 final size:195
Alignment explanation
Indices: 24367340--24367787 Score: 543
Period size: 195 Copynumber: 2.3 Consensus size: 195
24367330 GAAACCGACG
* * * * * * *
24367340 CGATGGTTGAGGTACCACATGTGTTACGAGTCCTCGCTAGCTCATGTGAGCAGCATCGTGAGTCG
1 CGATGGCTGAGGTACCACATATGTTGCGAGTCCTCAC-AGCTCGTGTGAGTAGCATCGTGACTCG
*
24367405 AAAAAAGAGATATGGATCCTAGAATGGATTACAGGCCCTACGATGGCTGAGATTTATGTATAAGT
65 AAAAAAGAGATATGGATCCTAGAATGGATTACAGGCCCTACGATGGCTGAGATCTATGTATAAGT
* * * *
24367470 GCATATTCTCGATAGCTCGTGTGAGCAGCATCGTTAGAGAACAGTTATATGCACAGAT-ACCGTA
130 GCATACTCTCAACAGCTCGTGTAAGCAGCATCGTTAGAGAACAGTTATATGCACAGATGACCGTA
*
24367534 T
195 C
* *
24367535 CGATGGCTGAGGTACCGCATATGTTGCGAGTCCTCTACAGCTCGTGTGAGTAGCATCGTGACTTG
1 CGATGGCTGAGGTACCACATATGTTGCGAGTCCTC-ACAGCTCGTGTGAGTAGCATCGTGACTCG
* * * *
24367600 -AGAAAGAGATATGGATCCTA-AATGGATTACAGGCCCTACGATGGTTGGGA-CTATGCT-T-AT
65 AAAAAAGAGATATGGATCCTAGAATGGATTACAGGCCCTACGATGGCTGAGATCTATG-TATAAG
* * *
24367660 TGCATACTCTCAACAGCTCGTGTAAGCAGTATCGTTAGGGAACAGTT-TATAGTACAGATAGGCA
129 TGCATACTCTCAACAGCTCGTGTAAGCAGCATCGTTAGAGAACAGTTATAT-GCACAGAT--G-A
24367724 CCGTAC
190 CCGTAC
* *
24367730 CGATGGCT-AGGGTACCACATACGTTGCGAGTCCTCGATAGCTCGTGTGAGTAGCATCG
1 CGATGGCTGA-GGTACCACATATGTTGCGAGTCCTC-ACAGCTCGTGTGAGTAGCATCG
24367788 AGTACTGGTA
Statistics
Matches: 219, Mismatches: 26, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
190 3 0.01
191 49 0.22
192 5 0.02
193 29 0.13
194 20 0.09
195 112 0.51
196 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (195 bp):
CGATGGCTGAGGTACCACATATGTTGCGAGTCCTCACAGCTCGTGTGAGTAGCATCGTGACTCGA
AAAAAGAGATATGGATCCTAGAATGGATTACAGGCCCTACGATGGCTGAGATCTATGTATAAGTG
CATACTCTCAACAGCTCGTGTAAGCAGCATCGTTAGAGAACAGTTATATGCACAGATGACCGTAC
Found at i:24368588 original size:21 final size:20
Alignment explanation
Indices: 24368539--24368589 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
24368529 GGAGTTTTTA
* *
24368539 GTATCAGTAGAAGCATTCAT
1 GTATCGGTAGAAGCATACAT
* *
24368559 GTTTCGGTAGAAGTCATACTT
1 GTATCGGTAGAAG-CATACAT
24368580 GTATCGGTAG
1 GTATCGGTAG
24368590 TATTGTCTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.33
Consensus pattern (20 bp):
GTATCGGTAGAAGCATACAT
Found at i:24370771 original size:9 final size:10
Alignment explanation
Indices: 24370734--24370845 Score: 76
Period size: 9 Copynumber: 11.2 Consensus size: 10
24370724 CCTGATGGCA
*
24370734 AAATAAAAAT
1 AAATAATAAT
*
24370744 ACATACATGAAT
1 AAATA-AT-AAT
24370756 AAAATAA-AAT
1 -AAATAATAAT
24370766 AAATAAATACAATT
1 AAAT-AAT--AA-T
24370780 AAATAA-AAT
1 AAATAATAAT
* *
24370789 TAATAA-CAT
1 AAATAATAAT
24370798 AAATAATAAT
1 AAATAATAAT
24370808 -AATAATAAT
1 AAATAATAAT
24370817 -AATAATAAT
1 AAATAATAAT
24370826 -AATAATAAT
1 AAATAATAAT
24370835 -AATAATAAT
1 AAATAATAAT
24370844 AA
1 AA
24370846 TAGTGATAAC
Statistics
Matches: 85, Mismatches: 7, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
9 53 0.62
10 14 0.16
11 1 0.01
12 4 0.05
13 8 0.09
14 5 0.06
ACGTcount: A:0.68, C:0.04, G:0.01, T:0.28
Consensus pattern (10 bp):
AAATAATAAT
Found at i:24370807 original size:3 final size:3
Alignment explanation
Indices: 24370799--24370847 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
24370789 TAATAACATA
24370799 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
24370847 A
1 A
24370848 GTGATAACAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:24374732 original size:70 final size:67
Alignment explanation
Indices: 24374639--24374771 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 67
24374629 TCCGATTAAG
* * *
24374639 AAAAGGTAAAACTACGTCGTTTTGATAAATGTTTACCCTTTCCAAAGTTAAAAGTCAAAACCATT
1 AAAAGGTAAAACTACGTCATTTTGATAAATGTTTACCCATT---AAGTTAAAAGACAAAACCATT
24374704 AAGTT
63 AAGTT
* * *
24374709 AAAAGGTAAAATTATGTCATTTTGATAAATGTTTACCCATTAAGTTAAAAGACAAAATCATTA
1 AAAAGGTAAAACTACGTCATTTTGATAAATGTTTACCCATTAAGTTAAAAGACAAAACCATTA
24374772 TATTATTTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
67 20 0.35
70 37 0.65
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (67 bp):
AAAAGGTAAAACTACGTCATTTTGATAAATGTTTACCCATTAAGTTAAAAGACAAAACCATTAAG
TT
Found at i:24374795 original size:28 final size:27
Alignment explanation
Indices: 24374764--24374851 Score: 115
Period size: 28 Copynumber: 3.1 Consensus size: 27
24374754 TAAAAGACAA
*
24374764 AATCATTATA-TTATTTATATAGTTAAAT
1 AATC-TTATACTTATTTA-CTAGTTAAAT
*
24374792 AATCTTGTACTTCATTTACTAGTTAAAT
1 AATCTTATACTT-ATTTACTAGTTAAAT
24374820 AATCTTATACTTTATTTACTAGTTAAAT
1 AATCTTATAC-TTATTTACTAGTTAAAT
24374848 AATC
1 AATC
24374852 AGTCTATGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
27 4 0.07
28 43 0.80
29 7 0.13
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.48
Consensus pattern (27 bp):
AATCTTATACTTATTTACTAGTTAAAT
Found at i:24377356 original size:25 final size:23
Alignment explanation
Indices: 24377315--24377360 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
24377305 CTAATTAGGG
24377315 AATTATTATTTAGATTTAATTCT
1 AATTATTATTTAGATTTAATTCT
*
24377338 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TATTTAG-ATTTAATT
24377361 TGAATCTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (23 bp):
AATTATTATTTAGATTTAATTCT
Found at i:24381312 original size:2 final size:2
Alignment explanation
Indices: 24381305--24381347 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
24381295 GTACCTACAT
24381305 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24381347 T
1 T
24381348 GTGGGGTGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24383171 original size:18 final size:18
Alignment explanation
Indices: 24383148--24383199 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
24383138 TTTTTAGTTG
24383148 TAATTAATTTAAATTT-TT
1 TAATTAA-TTAAATTTATT
24383166 TAATTAATTAAATTTATT
1 TAATTAATTAAATTTATT
24383184 TAATTAA--AAATTTATT
1 TAATTAATTAAATTTATT
24383200 CTCATTCCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.27
17 8 0.24
18 16 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTAATTAAATTTATT
Found at i:24383196 original size:16 final size:17
Alignment explanation
Indices: 24383157--24383199 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
24383147 GTAATTAATT
24383157 TAAATTT-TTTAATTAA
1 TAAATTTATTTAATTAA
24383173 TTAAATTTATTTAATTAA
1 -TAAATTTATTTAATTAA
24383191 -AAATTTATT
1 TAAATTTATT
24383200 CTCATTCCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.36
17 7 0.28
18 9 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAAATTTATTTAATTAA
Found at i:24383796 original size:25 final size:23
Alignment explanation
Indices: 24383747--24383796 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
24383737 ATATGAGCAA
**
24383747 AATATAAATACAAAAATTATTAG
1 AATATAAATACAAAAATTAAAAG
*
24383770 AATATATATACTAAAAATATAAAAG
1 AATATAAATAC-AAAAAT-TAAAAG
24383795 AA
1 AA
24383797 AACAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 10 0.45
24 6 0.27
25 6 0.27
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (23 bp):
AATATAAATACAAAAATTAAAAG
Found at i:24387667 original size:24 final size:24
Alignment explanation
Indices: 24387649--24387699 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
24387639 GGTTTGACTT
*
24387649 AAACAACTAAACAAAGTTTAATTG
1 AAACAAATAAACAAAGTTTAATTG
* *
24387673 AAACAAATAAACAGAGTTTAGTTG
1 AAACAAATAAACAAAGTTTAATTG
24387697 AAA
1 AAA
24387700 AATTATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.24
Consensus pattern (24 bp):
AAACAAATAAACAAAGTTTAATTG
Found at i:24391593 original size:172 final size:172
Alignment explanation
Indices: 24391304--24391650 Score: 649
Period size: 172 Copynumber: 2.0 Consensus size: 172
24391294 TTATCCCTCT
* * *
24391304 TAACTGCTGGGACATGTGCATAGAAAATGCAACAAAAAATCTTCAGATGAGCTATTGATGGTTTG
1 TAACTGCTAGGACATGTGCATAGAAAATGCAACAAAAAATCTTCAAATAAGCTATTGATGGTTTG
24391369 TAACCAAACCAAACATCGAATTATGTCTTTTCAAACAAGGCTTTTGTTGGTAATCTATTTTGAAG
66 TAACCAAACCAAACATCGAATTATGTCTTTTCAAACAAGGCTTTTGTTGGTAATCTATTTTGAAG
24391434 GTACACAGCAGCGTTGACTGCTTCAACCCAAAAGTTCCTTGG
131 GTACACAGCAGCGTTGACTGCTTCAACCCAAAAGTTCCTTGG
24391476 TAACTGCTAGGACATGTGCATAGAAAATGCAACAAAAAATCTTCAAATAAGCTATTGATGGTTTG
1 TAACTGCTAGGACATGTGCATAGAAAATGCAACAAAAAATCTTCAAATAAGCTATTGATGGTTTG
* *
24391541 TAACCAAACCTAACATCGAATTATGTCTTTTCAAACAAGGCTTTTTTTGGTAATCTATTTTGAAG
66 TAACCAAACCAAACATCGAATTATGTCTTTTCAAACAAGGCTTTTGTTGGTAATCTATTTTGAAG
24391606 GTACACAGCAGCGTTGACTGCTTCAACCCAAAAGTTCCTTGG
131 GTACACAGCAGCGTTGACTGCTTCAACCCAAAAGTTCCTTGG
24391648 TAA
1 TAA
24391651 ACTTCTTTCA
Statistics
Matches: 170, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
172 170 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (172 bp):
TAACTGCTAGGACATGTGCATAGAAAATGCAACAAAAAATCTTCAAATAAGCTATTGATGGTTTG
TAACCAAACCAAACATCGAATTATGTCTTTTCAAACAAGGCTTTTGTTGGTAATCTATTTTGAAG
GTACACAGCAGCGTTGACTGCTTCAACCCAAAAGTTCCTTGG
Found at i:24395790 original size:16 final size:18
Alignment explanation
Indices: 24395759--24395795 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
24395749 TAATTTAATT
24395759 AACTAAATTAATTTTC-C
1 AACTAAATTAATTTTCTC
24395776 AACTAAATT-ATTTTCTC
1 AACTAAATTAATTTTCTC
24395793 AAC
1 AAC
24395796 CCAATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (18 bp):
AACTAAATTAATTTTCTC
Found at i:24398716 original size:17 final size:17
Alignment explanation
Indices: 24398694--24398727 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
24398684 TTGGTATGAG
24398694 ATGGGATGATGATTCCT
1 ATGGGATGATGATTCCT
24398711 ATGGGATGATGATTCCT
1 ATGGGATGATGATTCCT
24398728 GTATATCTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (17 bp):
ATGGGATGATGATTCCT
Found at i:24408348 original size:26 final size:26
Alignment explanation
Indices: 24408319--24408390 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 26
24408309 TTAGATCATC
* *
24408319 TTATGCAGCGACACTTTTGGATAGGT
1 TTATGCAGCGACAATTTTGGACAGGT
* * * *
24408345 TTATGCATCGATATTTTTGAACAGGT
1 TTATGCAGCGACAATTTTGGACAGGT
*
24408371 TTCTGCAGCGACAATTTTGG
1 TTATGCAGCGACAATTTTGG
24408391 GCGCATAGCT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (26 bp):
TTATGCAGCGACAATTTTGGACAGGT
Found at i:24414771 original size:89 final size:84
Alignment explanation
Indices: 24414612--24414786 Score: 251
Period size: 89 Copynumber: 2.0 Consensus size: 84
24414602 GGCTAATTTG
*
24414612 TAAAACTGTCAAATGTTAAGGATTAAGCCATTGCTTAAGTTGTTCTTGATGATTTATGGAATATT
1 TAAAACTGTCAAATGTTAAGGATTAAGCCATTGCTTAAGTTGTTCTTGATGATTTATAGAATATT
24414677 ATTAAGCTTGATTGTTAAA
66 ATTAAGCTTGATTGTTAAA
* * * *
24414696 TAAAACTGTCAAATGTTAAGGATTAAGTCATTGATGAGTTTGAGTTGTTCTTGATTATTTATAGA
1 TAAAACTGTCAAATGTTAAGGATTAAGCCA-T--T--GCTTAAGTTGTTCTTGATGATTTATAGA
*
24414761 ATATTATTAAGCTTGGTTGTTAAA
61 ATATTATTAAGCTTGATTGTTAAA
24414785 TA
1 TA
24414787 GGACTATTTT
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
84 29 0.36
85 1 0.01
87 1 0.01
89 49 0.61
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (84 bp):
TAAAACTGTCAAATGTTAAGGATTAAGCCATTGCTTAAGTTGTTCTTGATGATTTATAGAATATT
ATTAAGCTTGATTGTTAAA
Found at i:24425753 original size:15 final size:15
Alignment explanation
Indices: 24425731--24425768 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
24425721 AATCACATAA
24425731 AAAAAAAGAGAAAAG
1 AAAAAAAGAGAAAAG
* *
24425746 AGAAAAAGGGAAAAG
1 AAAAAAAGAGAAAAG
24425761 AAAAAAAG
1 AAAAAAAG
24425769 TATATGTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAGAAAAG
Found at i:24432481 original size:21 final size:22
Alignment explanation
Indices: 24432442--24432483 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
24432432 TTTTTTCAAT
24432442 TTTTAAGGGGTTAAAAAAAATC
1 TTTTAAGGGGTTAAAAAAAATC
*
24432464 TTTTAAGGGGTCAAAAAAAA
1 TTTTAAGGGGTTAAAAAAAA
24432484 ATTTTACCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.29
Consensus pattern (22 bp):
TTTTAAGGGGTTAAAAAAAATC
Found at i:24432488 original size:21 final size:22
Alignment explanation
Indices: 24432442--24432489 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
24432432 TTTTTTCAAT
* *
24432442 TTTTAAGGGGTTAAAAAAAATC
1 TTTTAAGGGGTCAAAAAAAATA
24432464 TTTTAAGGGGTCAAAAAAAA-A
1 TTTTAAGGGGTCAAAAAAAATA
24432485 TTTTA
1 TTTTA
24432490 CCATTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (22 bp):
TTTTAAGGGGTCAAAAAAAATA
Found at i:24434440 original size:36 final size:36
Alignment explanation
Indices: 24434391--24434460 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
24434381 TTCTATAACA
*
24434391 ATATTAGTTCTGTTACTAAAAGGAAACATAAAGATT
1 ATATTAGTGCTGTTACTAAAAGGAAACATAAAGATT
*
24434427 ATATTAGTGCTGTTACTAAAATGAAACATAAAGA
1 ATATTAGTGCTGTTACTAAAAGGAAACATAAAGA
24434461 AATGTAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (36 bp):
ATATTAGTGCTGTTACTAAAAGGAAACATAAAGATT
Found at i:24435005 original size:23 final size:23
Alignment explanation
Indices: 24434975--24435022 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
24434965 TCAAAAAAGA
24434975 AAATATATACTAAATAACAAGTT
1 AAATATATACTAAATAACAAGTT
24434998 AAATATATACTAAATAACAAGTT
1 AAATATATACTAAATAACAAGTT
24435021 AA
1 AA
24435023 GGAACTGTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.29
Consensus pattern (23 bp):
AAATATATACTAAATAACAAGTT
Found at i:24439885 original size:108 final size:108
Alignment explanation
Indices: 24439689--24439899 Score: 273
Period size: 108 Copynumber: 2.0 Consensus size: 108
24439679 TAATTTAAAA
* ** * ** *
24439689 TATCGATTTTACATAGGATGTTCAATTACTTAAGTTCAAAGAAAACACCATACTTAGCACGTTGG
1 TATCGATTTTAAATAGGATACTCAATTACTTAAGCTCAAAGAAAACACCATACCCAACACGTTGG
**
24439754 GCACAATTTCTCGCGTCCCCTAAAATAATAA-AACATTGAGCAT
66 GCACAATTTCTCGAATCCCCTAAAATAA-AAGAACATTGAGCAT
* *
24439797 TATCGATTTTAAATAGGATACTCAATTATTTAGGCTCAAAGAAAA-ACCATACCCAACACGTTAG
1 TATCGATTTTAAATAGGATACTCAATTACTTAAGCTCAAAGAAAACACCATACCCAACACGTT-G
* *
24439861 GGCACAATTTCTCGAATTCTCTAAAATAAAAGAACATTG
65 GGCACAATTTCTCGAATCCCCTAAAATAAAAGAACATTG
24439900 TCTTGATTTT
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
107 16 0.18
108 72 0.82
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.29
Consensus pattern (108 bp):
TATCGATTTTAAATAGGATACTCAATTACTTAAGCTCAAAGAAAACACCATACCCAACACGTTGG
GCACAATTTCTCGAATCCCCTAAAATAAAAGAACATTGAGCAT
Found at i:24440084 original size:25 final size:25
Alignment explanation
Indices: 24440049--24440117 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
24440039 TACAGATAAT
*
24440049 TAAAAGAATTAA-ATAAACAAATAGAA
1 TAAAAGGATTAATATAAA-AAAT-GAA
*
24440075 -AAAAGGATTAATTTAAAAAATGAA
1 TAAAAGGATTAATATAAAAAATGAA
*
24440099 TAAAAGGATTTAATTTAAA
1 TAAAAGGA-TTAATATAAA
24440118 GATAAAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
24 3 0.08
25 21 0.55
26 14 0.37
ACGTcount: A:0.62, C:0.01, G:0.10, T:0.26
Consensus pattern (25 bp):
TAAAAGGATTAATATAAAAAATGAA
Found at i:24441010 original size:2 final size:2
Alignment explanation
Indices: 24441005--24441035 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
24440995 TTTTGAAATA
24441005 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
24441036 AAACAACAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24442480 original size:30 final size:28
Alignment explanation
Indices: 24442417--24442501 Score: 80
Period size: 30 Copynumber: 2.9 Consensus size: 28
24442407 CGATCGATAT
** ** *
24442417 ATAGCCATGAAGGCATCCACTTAACTAAG
1 ATAGCCACAAAGGCATCCACTGCA-TTAG
24442446 ATAGCCACAAAGGCATCCATACTGCATTAG
1 ATAGCCACAAAGGCATCC--ACTGCATTAG
* *
24442476 ATAGCCACTAAGGCGTCCACTGCATT
1 ATAGCCACAAAGGCATCCACTGCATT
24442502 CAAACAATTA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 8 0.17
29 16 0.34
30 19 0.40
31 4 0.09
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (28 bp):
ATAGCCACAAAGGCATCCACTGCATTAG
Found at i:24442698 original size:30 final size:29
Alignment explanation
Indices: 24442664--24442737 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 29
24442654 GAACGGTCAT
24442664 AAAGGCTCACACATGTAATAGAACAGA-CAC
1 AAAGGCTC-CACATGTAATAGAACA-ACCAC
* *
24442694 AAAGGCTTTCACA--TAATAGAATAACCAC
1 AAAGGC-TCCACATGTAATAGAACAACCAC
24442722 AAAGGCTTCCACATGT
1 AAAGGC-TCCACATGT
24442738 CATTAAATTG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
27 1 0.03
28 24 0.65
30 11 0.30
31 1 0.03
ACGTcount: A:0.43, C:0.23, G:0.15, T:0.19
Consensus pattern (29 bp):
AAAGGCTCCACATGTAATAGAACAACCAC
Found at i:24445824 original size:82 final size:82
Alignment explanation
Indices: 24445699--24445919 Score: 352
Period size: 82 Copynumber: 2.7 Consensus size: 82
24445689 GACCCCTACA
* *
24445699 ATGGCTGAGTTTCTACATACGTTGTGGATTGTCATAAGCTTGTGTGAGCAGCATCGTGAATGGGT
1 ATGGCTGAGTTTCTACATACGTTGTGGATTCTCATCAGCTTGTGTGAGCAGCATCGTGAATGGGT
24445764 AATTCTGGACCGTATCG
66 AATTCTGGACCGTATCG
* *
24445781 ATGGTTGAGTTTCTACATACGTTGTGGATTCTCATCAGCTTGTGTGAGCAGCATCGTGAGTGGGT
1 ATGGCTGAGTTTCTACATACGTTGTGGATTCTCATCAGCTTGTGTGAGCAGCATCGTGAATGGGT
24445846 AATTCTGGACCGTATCG
66 AATTCTGGACCGTATCG
* * * ***
24445863 ATGGCTGAGTTTTTGCATATGTTACAGATTCTCATCAGCTTGTGTGAGCAGCATCGT
1 ATGGCTGAGTTTCTACATACGTTGTGGATTCTCATCAGCTTGTGTGAGCAGCATCGT
24445920 ATACTGGTTA
Statistics
Matches: 128, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 128 1.00
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (82 bp):
ATGGCTGAGTTTCTACATACGTTGTGGATTCTCATCAGCTTGTGTGAGCAGCATCGTGAATGGGT
AATTCTGGACCGTATCG
Found at i:24447229 original size:82 final size:82
Alignment explanation
Indices: 24447090--24447275 Score: 266
Period size: 82 Copynumber: 2.3 Consensus size: 82
24447080 ATACCATATA
* * *
24447090 AACTTGTGTGAGCAGCATCCTAAGTGGGTAATTATGGTCCGTATCGATGGTTGAGTTTCTACATA
1 AACTTGTGTGAGCAGCATCGTAAGTGGGTAATTATGGACCGTATCGATGGCTGAGTTTCTACATA
**
24447155 CATTGTGGATTCTCATC
66 CATTACGGATTCTCATC
* * *
24447172 AGCTTGTGTGAGCAGCATCGTGAGTGGGTAATTCTGGACCGTATCTG-TGGCTGAGTTTCTACAT
1 AACTTGTGTGAGCAGCATCGTAAGTGGGTAATTATGGACCGTATC-GATGGCTGAGTTTCTACAT
**
24447236 ATGTTACGGATTCTCATC
65 ACATTACGGATTCTCATC
24447254 AACTTGTGTGAGCAGCATCGTA
1 AACTTGTGTGAGCAGCATCGTA
24447276 TATTGGTTAA
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
82 90 0.99
83 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (82 bp):
AACTTGTGTGAGCAGCATCGTAAGTGGGTAATTATGGACCGTATCGATGGCTGAGTTTCTACATA
CATTACGGATTCTCATC
Found at i:24447322 original size:24 final size:24
Alignment explanation
Indices: 24447290--24447368 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 24
24447280 GGTTAAACTC
*
24447290 TATCTGGGCTCGAATGAGCTAAGT
1 TATCTGGGCTCGAATGAGCTAAAT
*
24447314 TATCTGGGCTCGTAA-GAGCTAATTT
1 TATCTGGGCTCG-AATGAGCTAA-AT
* * *
24447339 TTTCTGGGTTCGTATGAGCTAAAT
1 TATCTGGGCTCGAATGAGCTAAAT
24447363 T-TCTGG
1 TATCTGG
24447369 AAGACTCAGT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
23 5 0.11
24 22 0.47
25 20 0.43
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.37
Consensus pattern (24 bp):
TATCTGGGCTCGAATGAGCTAAAT
Found at i:24450632 original size:16 final size:14
Alignment explanation
Indices: 24450611--24450653 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
24450601 TATATCTTTT
24450611 TTTTTCTGTTTTTCTC
1 TTTTTCT-TTTTTC-C
*
24450627 TTTTTCTTGCTTTCC
1 TTTTTCTT-TTTTCC
24450642 TTTTTCTTTTTT
1 TTTTTCTTTTTT
24450654 TTTATATGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 3 0.12
15 10 0.42
16 11 0.46
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.77
Consensus pattern (14 bp):
TTTTTCTTTTTTCC
Found at i:24451256 original size:17 final size:17
Alignment explanation
Indices: 24451236--24451278 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
24451226 AAATGAACTA
*
24451236 ACAAGTAAAATGCAACG
1 ACAACTAAAATGCAACG
*
24451253 ACAACTAAAATGCAATG
1 ACAACTAAAATGCAACG
*
24451270 ACAATTAAA
1 ACAACTAAA
24451279 TGAGATGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (17 bp):
ACAACTAAAATGCAACG
Found at i:24481850 original size:46 final size:45
Alignment explanation
Indices: 24481743--24481905 Score: 175
Period size: 46 Copynumber: 3.6 Consensus size: 45
24481733 GATTCTTCCC
* * * * * *
24481743 TAGGTTCCTAGCTCATGTATATGTTGCGGGCTGGAGAATATGGAT
1 TAGGTTCCCAGCTCCTGCATATGTTGCGGACTAGAGAATAAGGAT
* * *
24481788 TAGGTTCCCAGCTCCTGTATATGTTACAGACTAGAGAATAAGGAT
1 TAGGTTCCCAGCTCCTGCATATGTTGCGGACTAGAGAATAAGGAT
* *
24481833 GTAGGTTCCCAGCTCCTGCATACGTTGCGGACTAGAGAATACA-AATT
1 -TAGGTTCCCAGCTCCTGCATATGTTGCGGACTAGAGAATA-AGGA-T
* *
24481880 TAAGTTCCCAGTTCCTGCATATGTTG
1 TAGGTTCCCAGCTCCTGCATATGTTG
24481906 TGGATTGGAG
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
45 38 0.38
46 60 0.60
47 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (45 bp):
TAGGTTCCCAGCTCCTGCATATGTTGCGGACTAGAGAATAAGGAT
Found at i:24484163 original size:17 final size:17
Alignment explanation
Indices: 24484141--24484174 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
24484131 AATGGCTCAA
24484141 AGTAGAAATCAATGTAT
1 AGTAGAAATCAATGTAT
24484158 AGTAGAAATCAATGTAT
1 AGTAGAAATCAATGTAT
24484175 GAAAATAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.18, T:0.29
Consensus pattern (17 bp):
AGTAGAAATCAATGTAT
Found at i:24493582 original size:15 final size:16
Alignment explanation
Indices: 24493558--24493595 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
24493548 AGAAAAAGAT
24493558 AAAA-AAAATAAAC-A
1 AAAATAAAATAAACAA
*
24493572 AAAATAAAATAACCAA
1 AAAATAAAATAAACAA
24493588 AAAATAAA
1 AAAATAAA
24493596 GAAAATCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.19
15 8 0.38
16 9 0.43
ACGTcount: A:0.82, C:0.08, G:0.00, T:0.11
Consensus pattern (16 bp):
AAAATAAAATAAACAA
Found at i:24493589 original size:14 final size:14
Alignment explanation
Indices: 24493558--24493591 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
24493548 AGAAAAAGAT
24493558 AAAAAAAATAAACA
1 AAAAAAAATAAACA
*
24493572 AAAATAAAATAACCA
1 AAAA-AAAATAAACA
24493587 AAAAA
1 AAAAA
24493592 TAAAGAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (14 bp):
AAAAAAAATAAACA
Found at i:24495799 original size:48 final size:48
Alignment explanation
Indices: 24495746--24495840 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
24495736 TTGAATTTTA
*
24495746 AAAAAAAGGCTTAGGTATCGAA-TTAGGAAAAAAAATCAAGTTCAGGTCC
1 AAAAAAA-GCTTAGGTA-CCAACTTAGGAAAAAAAATCAAGTTCAGGTCC
* ***
24495795 AAAAAAAGTTTAGGTACCAACTTAGGAAAAAGTGTCAAGTTCAGGT
1 AAAAAAAGCTTAGGTACCAACTTAGGAAAAAAAATCAAGTTCAGGT
24495841 ATCAAATTGG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
47 3 0.08
48 30 0.75
49 7 0.17
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.22
Consensus pattern (48 bp):
AAAAAAAGCTTAGGTACCAACTTAGGAAAAAAAATCAAGTTCAGGTCC
Found at i:24495858 original size:59 final size:59
Alignment explanation
Indices: 24495794--24495906 Score: 163
Period size: 59 Copynumber: 1.9 Consensus size: 59
24495784 AGTTCAGGTC
* * * * *
24495794 CAAAAAAAGTTTAGGTACCAACTTAGGAAAAAGTGTCAAGTTCAGGTATCAAATTGGGT
1 CAAAAAAAGTTTAGATACCAAATTAGAAAAAAGTGCCAAGTTCAGGGATCAAATTGGGT
* *
24495853 CAAAAAAAGTTTAGATATCAAATTAGAAAAAAGTGCCAAGTTTAGGGATCAAAT
1 CAAAAAAAGTTTAGATACCAAATTAGAAAAAAGTGCCAAGTTCAGGGATCAAAT
24495907 GTTATATTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 47 1.00
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.25
Consensus pattern (59 bp):
CAAAAAAAGTTTAGATACCAAATTAGAAAAAAGTGCCAAGTTCAGGGATCAAATTGGGT
Found at i:24504672 original size:21 final size:21
Alignment explanation
Indices: 24504648--24504700 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
24504638 TTCTCTTTCA
24504648 CCTCTTCAACAT-AGACTTCCT
1 CCTCTTCAACATCA-ACTTCCT
*
24504669 CCTCTCCAACATCAACTTCCT
1 CCTCTTCAACATCAACTTCCT
*
24504690 CCTCATCAACA
1 CCTCTTCAACA
24504701 GGTTCTTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.26, C:0.43, G:0.02, T:0.28
Consensus pattern (21 bp):
CCTCTTCAACATCAACTTCCT
Found at i:24508212 original size:41 final size:41
Alignment explanation
Indices: 24508138--24508394 Score: 277
Period size: 41 Copynumber: 6.2 Consensus size: 41
24508128 ATTTGATGTA
* * *
24508138 TAAATGGAAGACTCATGTCTCGAGATGAGCATGAGGTTATAT
1 TAAA-GGAAGACTCATGACTCAAGATGAGCATGAGATTATAT
* * * *
24508180 TAAAGGAAGACTCGTGACTCAAAATGATCATGAAATTATAT
1 TAAAGGAAGACTCATGACTCAAGATGAGCATGAGATTATAT
** *
24508221 TAAAGGAAGACTTGTGACTCAAAATGAGCATGAGATTATAT
1 TAAAGGAAGACTCATGACTCAAGATGAGCATGAGATTATAT
* ** *
24508262 TAAAGGAAGACTCATGTCTCGGGATAAGCATGAGATTATAT
1 TAAAGGAAGACTCATGACTCAAGATGAGCATGAGATTATAT
* **
24508303 TAAAGGAAGACTCGTGACTCGGGATGAGCATGAGATTATATT
1 TAAAGGAAGACTCATGACTCAAGATGAGCATGAGATTATA-T
* * *
24508345 TAAAGGAAGACTTATGACTC-AG-TAGAGCATAAGATTGT-T
1 TAAAGGAAGACTCATGACTCAAGAT-GAGCATGAGATTATAT
24508384 TAAAAGGAAGA
1 T-AAAGGAAGA
24508395 TCTACGACTC
Statistics
Matches: 187, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.01
40 10 0.05
41 152 0.81
42 23 0.12
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (41 bp):
TAAAGGAAGACTCATGACTCAAGATGAGCATGAGATTATAT
Found at i:24508335 original size:123 final size:125
Alignment explanation
Indices: 24508138--24508365 Score: 361
Period size: 123 Copynumber: 1.8 Consensus size: 125
24508128 ATTTGATGTA
* *
24508138 TAAATGGAAGACTCATGTCTCGAGATGAGCATGAGGTTATATTAAAGGAAGACTCGTGACTCAAA
1 TAAATGGAAGACTCATGTCTCGAGATAAGCATGAGATTATATTAAAGGAAGACTCGTGACTCAAA
* *
24508203 ATGATCATGAAATTATA-TTAAAGGAAGACTTGTGACTCAAAATGAGCATGAGATTATAT
66 ATGAGCATGAAATTATATTTAAAGGAAGACTTATGACTCAAAATGAGCATGAGATTATAT
* ***
24508262 TAAA-GGAAGACTCATGTCTCGGGATAAGCATGAGATTATATTAAAGGAAGACTCGTGACTCGGG
1 TAAATGGAAGACTCATGTCTCGAGATAAGCATGAGATTATATTAAAGGAAGACTCGTGACTCAAA
*
24508326 ATGAGCATGAGATTATATTTAAAGGAAGACTTATGACTCA
66 ATGAGCATGAAATTATATTTAAAGGAAGACTTATGACTCA
24508366 GTAGAGCATA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
123 69 0.73
124 25 0.27
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (125 bp):
TAAATGGAAGACTCATGTCTCGAGATAAGCATGAGATTATATTAAAGGAAGACTCGTGACTCAAA
ATGAGCATGAAATTATATTTAAAGGAAGACTTATGACTCAAAATGAGCATGAGATTATAT
Found at i:24508373 original size:123 final size:122
Alignment explanation
Indices: 24508138--24508394 Score: 354
Period size: 123 Copynumber: 2.1 Consensus size: 122
24508128 ATTTGATGTA
* *
24508138 TAAATGGAAGACTCATGTCTCGAGATGAGCATGAGGTTATATTAAAGGAAGACTCGTGACTCAAA
1 TAAA-GGAAGACTCATGTCTCGAGATAAGCATGAGATTATATTAAAGGAAGACTCGTGACTCAAA
* * *
24508203 ATGATCATGAAATTATATTAAAGGAAGACTTGTGACTCAAAATGAGCATGAGATTATAT
65 ATGAGCATGAAATTATATTAAAGGAAGACTTATGACTCAAAATGAGCATAAGATTAT-T
* ***
24508262 TAAAGGAAGACTCATGTCTCGGGATAAGCATGAGATTATATTAAAGGAAGACTCGTGACTCGGGA
1 TAAAGGAAGACTCATGTCTCGAGATAAGCATGAGATTATATTAAAGGAAGACTCGTGACTCAAAA
* ** *
24508327 TGAGCATGAGATTATATTTAAAGGAAGACTTATGACTCAGTA-GAGCATAAGATTGTT
66 TGAGCATGAAATTATA-TTAAAGGAAGACTTATGACTCAAAATGAGCATAAGATTATT
24508384 TAAAAGGAAGA
1 T-AAAGGAAGA
24508395 TCTACGACTC
Statistics
Matches: 118, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
122 2 0.02
123 90 0.76
124 26 0.22
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (122 bp):
TAAAGGAAGACTCATGTCTCGAGATAAGCATGAGATTATATTAAAGGAAGACTCGTGACTCAAAA
TGAGCATGAAATTATATTAAAGGAAGACTTATGACTCAAAATGAGCATAAGATTATT
Found at i:24511695 original size:55 final size:54
Alignment explanation
Indices: 24511604--24511762 Score: 201
Period size: 55 Copynumber: 2.9 Consensus size: 54
24511594 ACACATCTAT
* * *
24511604 CAGATGCAGCGACAATTCTGGGCTTAGTTATAGATATGCTCATGCAGCGAGCTGC
1 CAGATGCAGCGACAATTCTGGGCATAATTCT-GATATGCTCATGCAGCGAGCTGC
* * *
24511659 CAGATGCAACGACAATTCTGGGCGTAATTCTGGATATGCTCATGCAACGAGCTGC
1 CAGATGCAGCGACAATTCTGGGCATAATTCT-GATATGCTCATGCAGCGAGCTGC
* * * * *
24511714 CAGATGTAGCGACAATTTTGGACACAATTCTGATATGCTAATGCAGCGA
1 CAGATGCAGCGACAATTCTGGGCATAATTCTGATATGCTCATGCAGCGA
24511763 AATTAGTATT
Statistics
Matches: 90, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
54 16 0.18
55 74 0.82
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (54 bp):
CAGATGCAGCGACAATTCTGGGCATAATTCTGATATGCTCATGCAGCGAGCTGC
Found at i:24516443 original size:26 final size:26
Alignment explanation
Indices: 24516395--24516499 Score: 97
Period size: 26 Copynumber: 4.0 Consensus size: 26
24516385 TTTTGGGCGT
* *
24516395 AATTTTGGACATGCTCATACAGCGAC
1 AATTCTGGACATGCTCATGCAGCGAC
* * * *
24516421 AACTCTGTACATGTTCATGCAGCGAT
1 AATTCTGGACATGCTCATGCAGCGAC
* * *
24516447 AATTATGGACAAGTTTCTAT--AGCGAC
1 AATTCTGGACATG-CTC-ATGCAGCGAC
24516473 AATTCTGGACATGCTCATGCAGCGAC
1 AATTCTGGACATGCTCATGCAGCGAC
24516499 A
1 A
24516500 TTAGTAGTAA
Statistics
Matches: 61, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
24 2 0.03
25 2 0.03
26 52 0.85
27 3 0.05
28 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (26 bp):
AATTCTGGACATGCTCATGCAGCGAC
Found at i:24516457 original size:52 final size:52
Alignment explanation
Indices: 24516394--24516497 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 52
24516384 ATTTTGGGCG
* * * *
24516394 TAATTTTGGACATG-CTCATACAGCGACAACTCTGTACATGTTCATGCAGCGA
1 TAATTATGGACAAGTCTC-TACAGCGACAACTCTGGACATGCTCATGCAGCGA
* * *
24516446 TAATTATGGACAAGTTTCTATAGCGACAATTCTGGACATGCTCATGCAGCGA
1 TAATTATGGACAAGTCTCTACAGCGACAACTCTGGACATGCTCATGCAGCGA
24516498 CATTAGTAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
52 42 0.95
53 2 0.05
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (52 bp):
TAATTATGGACAAGTCTCTACAGCGACAACTCTGGACATGCTCATGCAGCGA
Found at i:24524911 original size:26 final size:26
Alignment explanation
Indices: 24524853--24524957 Score: 104
Period size: 26 Copynumber: 4.0 Consensus size: 26
24524843 TTCTTGGCAT
* *
24524853 AATTCTGGACATGCTCATACAGTGAC
1 AATTCTGGACATGCTCATGCAGCGAC
* * *
24524879 AACTCTGGACATGTTCATGCAGCGAT
1 AATTCTGGACATGCTCATGCAGCGAC
* * * *
24524905 AATTCTGGATAAGTTTC-TGCAACGAC
1 AATTCTGGACATG-CTCATGCAGCGAC
*
24524931 AATTCTGGACATGCTCATGCAACGAC
1 AATTCTGGACATGCTCATGCAGCGAC
24524957 A
1 A
24524958 TTAGTAGTAA
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
25 2 0.03
26 59 0.92
27 3 0.05
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (26 bp):
AATTCTGGACATGCTCATGCAGCGAC
Found at i:24526296 original size:21 final size:21
Alignment explanation
Indices: 24526270--24526309 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
24526260 TGAACAATTT
24526270 TTTTTAAGACTTTGAATTTAA
1 TTTTTAAGACTTTGAATTTAA
*
24526291 TTTTTAAGACTTTTAATTT
1 TTTTTAAGACTTTGAATTT
24526310 TTGGGATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (21 bp):
TTTTTAAGACTTTGAATTTAA
Found at i:24527900 original size:26 final size:26
Alignment explanation
Indices: 24527862--24527911 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
24527852 CTCAAACTCC
*
24527862 TTTTTTTTGTTGTTTTA-TTGCTTTA
1 TTTTTTTTCTTGTTTTATTTGCTTTA
24527887 TTTTCTTTTCTTGTTTTATTTGCTT
1 TTTT-TTTTCTTGTTTTATTTGCTT
24527912 GAGGATAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 12 0.55
27 6 0.27
ACGTcount: A:0.06, C:0.08, G:0.10, T:0.76
Consensus pattern (26 bp):
TTTTTTTTCTTGTTTTATTTGCTTTA
Found at i:24532560 original size:3 final size:3
Alignment explanation
Indices: 24532552--24532581 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
24532542 GTATTTCTCA
*
24532552 TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
24532582 AAGCGAGGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:24535893 original size:15 final size:15
Alignment explanation
Indices: 24535873--24535911 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
24535863 TGACGACATA
24535873 TATGAAGAT-GATATC
1 TATGAAGATGGATA-C
24535888 TATGAAGATGGATAC
1 TATGAAGATGGATAC
24535903 TATGAAGAT
1 TATGAAGAT
24535912 TGGGAGATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (15 bp):
TATGAAGATGGATAC
Found at i:24541723 original size:24 final size:24
Alignment explanation
Indices: 24541675--24541729 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
24541665 ACAATCAATT
* *
24541675 CATTTTATATTACATTTGTATTGA
1 CATTTTATATTACATTTGCACTGA
24541699 CATTTTATATTACATTTGCACTGA
1 CATTTTATATTACATTTGCACTGA
24541723 CAATTTT
1 C-ATTTT
24541730 TACTCTTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
24 23 0.82
25 5 0.18
ACGTcount: A:0.29, C:0.13, G:0.07, T:0.51
Consensus pattern (24 bp):
CATTTTATATTACATTTGCACTGA
Found at i:24549909 original size:17 final size:16
Alignment explanation
Indices: 24549883--24549926 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
24549873 TTGCATGCAT
*
24549883 ATTTTTTTGTCATTGC
1 ATTTTTTTGTCACTGC
*
24549899 ATTTTTATTGTCCCTGC
1 ATTTTT-TTGTCACTGC
24549916 ATTTTATTTGT
1 ATTTT-TTTGT
24549927 TTCATAGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 6 0.25
17 17 0.71
18 1 0.04
ACGTcount: A:0.14, C:0.14, G:0.11, T:0.61
Consensus pattern (16 bp):
ATTTTTTTGTCACTGC
Found at i:24553108 original size:24 final size:24
Alignment explanation
Indices: 24553081--24553134 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
24553071 ACAATCAACT
*
24553081 CATTTTATATTACATTTGCACTGA
1 CATTTTATAGTACATTTGCACTGA
24553105 CATTTTATAGTACATTTGCACTGA
1 CATTTTATAGTACATTTGCACTGA
*
24553129 AATTTT
1 CATTTT
24553135 TTACTCGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (24 bp):
CATTTTATAGTACATTTGCACTGA
Found at i:24556151 original size:20 final size:20
Alignment explanation
Indices: 24556128--24556221 Score: 64
Period size: 20 Copynumber: 4.7 Consensus size: 20
24556118 TATATTTTCC
**
24556128 GACAAGCTGCCAGTTATGTG
1 GACAAGCTGCCAGTTATGCA
** * *
24556148 GACAAGCCACCAATAATGCA
1 GACAAGCTGCCAGTTATGCA
*
24556168 GACAAGCTGCCAGTTTTGCCA
1 GACAAGCTGCCAGTTATG-CA
* * * *
24556189 -ATAATCTGTCAGTAATGCA
1 GACAAGCTGCCAGTTATGCA
*
24556208 AACAAGCTGCCAGT
1 GACAAGCTGCCAGT
24556222 ATTGTGGACA
Statistics
Matches: 53, Mismatches: 19, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
19 2 0.04
20 49 0.92
21 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (20 bp):
GACAAGCTGCCAGTTATGCA
Found at i:24575820 original size:18 final size:16
Alignment explanation
Indices: 24575782--24575820 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
24575772 TTGTTAATAC
*
24575782 TGTCAATGCAATAAGT
1 TGTCAATGCAATAAAT
24575798 TGTCAATGCAAGTTAAAT
1 TGTCAATGCAA--TAAAT
24575816 TGTCA
1 TGTCA
24575821 GAGCAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
18 9 0.45
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (16 bp):
TGTCAATGCAATAAAT
Found at i:24597333 original size:3 final size:3
Alignment explanation
Indices: 24597310--24597372 Score: 76
Period size: 3 Copynumber: 21.0 Consensus size: 3
24597300 GTATTGAGGC
*
24597310 AGA AGA AGG AGAA AGA A-A AGA AGA AGA AGA AGA AGA AGA AG- AGA
1 AGA AGA AGA AG-A AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
24597354 AGGA AGA AAA AGA AGA AGA
1 A-GA AGA AGA AGA AGA AGA
24597373 TGTTGCCCCG
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
2 4 0.08
3 43 0.83
4 5 0.10
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:24600044 original size:24 final size:24
Alignment explanation
Indices: 24600010--24600056 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
24600000 ATTCATCTTT
*
24600010 TATTAATTTGTTCTGACA-TTTTA
1 TATTAATTTGTACTGACAGTTTTA
24600033 TATTACATTTGTACTGACAGTTTT
1 TATTA-ATTTGTACTGACAGTTTT
24600057 TACTCTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 12 0.57
25 4 0.19
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.53
Consensus pattern (24 bp):
TATTAATTTGTACTGACAGTTTTA
Found at i:24600870 original size:193 final size:193
Alignment explanation
Indices: 24600540--24600918 Score: 607
Period size: 193 Copynumber: 2.0 Consensus size: 193
24600530 ATGCGTTGTG
* *
24600540 GGCATTACGGACAGCGCACAAAACCCCGCTTGGGATGTTGTCGTATTAGCTTGTCTTCGGTAAAG
1 GGCATTACGGACAGCGCACAAAACCCCGCTTGGGATGTCGTCGTATCAGCTTGTCTTCGGTAAAG
*
24600605 CATGTCACTTCCCTGTGGAATTGGAACATAAAGCAATATGGGCAATAAAGCAAGTGAACATGGAT
66 CATGTCACTTCCCTGTGGAATTGGAACATAAAGCAATATGGGCAATAAAGCAAGTAAACATGGAT
*
24600670 TACGATGCAGCTAGGAAGAAAAGGTTGTTGGGCATCACTGAACTTGAGGAAATTAGGCACAAT
131 AACGATGCAGCTAGGAAGAAAAGGTTGTTGGGCATCACTGAACTTGAGGAAATTAGGCACAAT
* * * *
24600733 GGCATTAC-GAGCAGCGTACAAAACCTCGTTTGGGATGTCGTCGTATCAGCTTGTCTTTGGTAAA
1 GGCATTACGGA-CAGCGCACAAAACCCCGCTTGGGATGTCGTCGTATCAGCTTGTCTTCGGTAAA
* * * * *
24600797 TCATGTCACTTGCCTGTGGAATTGGAACATAAAGCAATGTGGGCAATCAAGCAAGTAAACATTGA
65 GCATGTCACTTCCCTGTGGAATTGGAACATAAAGCAATATGGGCAATAAAGCAAGTAAACATGGA
* *
24600862 TAACGATGCTGCTTGGAAGAAAAGGTTGTTGGGCATCACTGAACTTGAGGAAATTAG
130 TAACGATGCAGCTAGGAAGAAAAGGTTGTTGGGCATCACTGAACTTGAGGAAATTAG
24600919 CGCAAGCCTA
Statistics
Matches: 170, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
192 2 0.01
193 168 0.99
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.25
Consensus pattern (193 bp):
GGCATTACGGACAGCGCACAAAACCCCGCTTGGGATGTCGTCGTATCAGCTTGTCTTCGGTAAAG
CATGTCACTTCCCTGTGGAATTGGAACATAAAGCAATATGGGCAATAAAGCAAGTAAACATGGAT
AACGATGCAGCTAGGAAGAAAAGGTTGTTGGGCATCACTGAACTTGAGGAAATTAGGCACAAT
Found at i:24614973 original size:2 final size:2
Alignment explanation
Indices: 24614960--24614994 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
24614950 TAATATCAAA
24614960 AT AT AGT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24614995 TTACAACCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24616488 original size:14 final size:14
Alignment explanation
Indices: 24616465--24616499 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
24616455 ATACATTTAT
24616465 TAATAATAATAAAA
1 TAATAATAATAAAA
* *
24616479 TAATACTAATTAAA
1 TAATAATAATAAAA
24616493 TAATAAT
1 TAATAAT
24616500 TTATATTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (14 bp):
TAATAATAATAAAA
Found at i:24622243 original size:17 final size:17
Alignment explanation
Indices: 24622218--24622260 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
24622208 ATGCATCTCA
24622218 TTTAATTGTCATTGCAT
1 TTTAATTGTCATTGCAT
* *
24622235 TTTAGTTGTCGTTGCAT
1 TTTAATTGTCATTGCAT
*
24622252 TTTACTTGT
1 TTTAATTGT
24622261 TAGTTCATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.56
Consensus pattern (17 bp):
TTTAATTGTCATTGCAT
Found at i:24631630 original size:22 final size:22
Alignment explanation
Indices: 24631605--24631684 Score: 67
Period size: 22 Copynumber: 3.6 Consensus size: 22
24631595 ATATATAAAA
24631605 ATATAAAAAATATTTAGAATAT
1 ATATAAAAAATATTTAGAATAT
*
24631627 ATATAAAATAA-A-ATAGATATAAT
1 ATATAAAA-AATATTTAGA-AT-AT
* *
24631650 ATATAAAAAAAAATT-GAATAT
1 ATATAAAAAATATTTAGAATAT
*
24631671 AATATTAAAAATAT
1 -ATATAAAAAATAT
24631685 AAATAAATTA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
21 6 0.13
22 25 0.53
23 15 0.32
24 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
ATATAAAAAATATTTAGAATAT
Found at i:24631650 original size:25 final size:25
Alignment explanation
Indices: 24631592--24631689 Score: 89
Period size: 24 Copynumber: 3.8 Consensus size: 25
24631582 TATATATATG
24631592 ATAATATATAAAAATATAAA-A-AAT
1 ATAATATATAAAAATA-AAATAGAAT
24631616 ATTTAGAATATATATAAAATAAAATAG-AT
1 A--T--AATATATA-AAAATAAAATAGAAT
*
24631645 ATAATATATAAAAA-AAAATTGAAT
1 ATAATATATAAAAATAAAATAGAAT
24631669 ATAATAT-TAAAAATATAAATA
1 ATAATATATAAAAATA-AAATA
24631690 AATTAAACCA
Statistics
Matches: 62, Mismatches: 2, Indels: 19
0.75 0.02 0.23
Matches are distributed among these distances:
23 12 0.19
24 15 0.24
25 12 0.19
26 1 0.02
27 1 0.02
28 11 0.18
29 10 0.16
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (25 bp):
ATAATATATAAAAATAAAATAGAAT
Found at i:24631655 original size:23 final size:24
Alignment explanation
Indices: 24631625--24631689 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 24
24631615 TATTTAGAAT
24631625 ATATATAAAATAAAATAG-ATATA
1 ATATATAAAATAAAATAGAATATA
* *
24631648 ATATATAAAAAAAAATTGAATATA
1 ATATATAAAATAAAATAGAATATA
24631672 ATAT-TAAAAATATAAATA
1 ATATAT-AAAATA-AAATA
24631690 AATTAAACCA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
23 17 0.49
24 14 0.40
25 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (24 bp):
ATATATAAAATAAAATAGAATATA
Found at i:24633262 original size:3 final size:3
Alignment explanation
Indices: 24633254--24633281 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
24633244 AAATATCTAC
24633254 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
24633282 CATATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:24633381 original size:36 final size:36
Alignment explanation
Indices: 24633337--24633439 Score: 145
Period size: 36 Copynumber: 2.9 Consensus size: 36
24633327 ATATAATCAA
*
24633337 TCACATGGCATAAAGAATATACTCACATATTTTCTG
1 TCACATGGCATGAAGAATATACTCACATATTTTCTG
* * *
24633373 TTATATGGCATGAAG-ATCATACCCACATATTTTCTG
1 TCACATGGCATGAAGAAT-ATACTCACATATTTTCTG
*
24633409 TCACATAGCATGAAGAATATACTCACATATT
1 TCACATGGCATGAAGAATATACTCACATATT
24633440 CACAACAGTC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
35 2 0.04
36 53 0.93
37 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (36 bp):
TCACATGGCATGAAGAATATACTCACATATTTTCTG
Found at i:24633526 original size:23 final size:23
Alignment explanation
Indices: 24633495--24633973 Score: 570
Period size: 23 Copynumber: 20.9 Consensus size: 23
24633485 TTTCACAATT
*
24633495 TCACATTAATATTTAATCATAAA
1 TCACATTAATATTTAAGCATAAA
* * *
24633518 TGATATTAATATTTAAGCACAAA
1 TCACATTAATATTTAAGCATAAA
24633541 TCACATTAATATTTAAGCATAAA
1 TCACATTAATATTTAAGCATAAA
*
24633564 TCACATTAATATTTAAGTATAAA
1 TCACATTAATATTTAAGCATAAA
*
24633587 TCACATTAATATTTAAGCACAAA
1 TCACATTAATATTTAAGCATAAA
* * * * *
24633610 TAATATTAATATTTGAGTACAAA
1 TCACATTAATATTTAAGCATAAA
* *
24633633 TTATATTAATATTTAAGCATAAA
1 TCACATTAATATTTAAGCATAAA
*
24633656 T--CATTAATATTTATGCATAAA
1 TCACATTAATATTTAAGCATAAA
* * *
24633677 TTACATTAATATTTGAGCACAAA
1 TCACATTAATATTTAAGCATAAA
*
24633700 TCATATTAATATTTAAGTTCAT--A
1 TCACATTAATATTTAAG--CATAAA
* *
24633723 TCACATTAATATTTGAGCATGAA
1 TCACATTAATATTTAAGCATAAA
* *
24633746 TCGCATTAATATTTAAGCATGAA
1 TCACATTAATATTTAAGCATAAA
* * *
24633769 TCACATTATTATTTGAGCACAAA
1 TCACATTAATATTTAAGCATAAA
* * *
24633792 TCATATTAATATTTAAGTACAAA
1 TCACATTAATATTTAAGCATAAA
* *
24633815 TCACATTACTATTTGAGCATAAA
1 TCACATTAATATTTAAGCATAAA
*
24633838 TCACATTAATATTTAAGCACAAA
1 TCACATTAATATTTAAGCATAAA
*
24633861 TCACATTAATATTTATGCATAAA
1 TCACATTAATATTTAAGCATAAA
*
24633884 TCGCATTAATATTTAAGCATAAA
1 TCACATTAATATTTAAGCATAAA
* * *
24633907 TTACATTAATATTTGAGCACAAA
1 TCACATTAATATTTAAGCATAAA
* *
24633930 TCACATTAATATTTGAGCACAAA
1 TCACATTAATATTTAAGCATAAA
24633953 TCACATTAATATTTAAGCATA
1 TCACATTAATATTTAAGCATA
24633974 GATATAAGAA
Statistics
Matches: 391, Mismatches: 59, Indels: 12
0.85 0.13 0.03
Matches are distributed among these distances:
21 22 0.06
23 367 0.94
25 2 0.01
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (23 bp):
TCACATTAATATTTAAGCATAAA
Found at i:24634000 original size:12 final size:12
Alignment explanation
Indices: 24633985--24634009 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24633975 ATATAAGAAC
24633985 ACTTACACTCGG
1 ACTTACACTCGG
24633997 ACTTACACTCGG
1 ACTTACACTCGG
24634009 A
1 A
24634010 ATTTAGAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (12 bp):
ACTTACACTCGG
Found at i:24635361 original size:16 final size:16
Alignment explanation
Indices: 24635321--24635376 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
24635311 CGTTTGGTTC
**
24635321 GCTGTAATATAATAGA
1 GCTGTAATGGAATAGA
*
24635337 GGTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
24635353 GCTGTAATGGAGTAG-
1 GCTGTAATGGAATAGA
24635368 GACTGTAAT
1 G-CTGTAAT
24635377 AAGTAATTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
15 1 0.03
16 33 0.97
ACGTcount: A:0.36, C:0.05, G:0.30, T:0.29
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:24635626 original size:58 final size:58
Alignment explanation
Indices: 24635547--24635705 Score: 196
Period size: 58 Copynumber: 2.7 Consensus size: 58
24635537 TTTTAATAAG
*
24635547 ATTATTATTAAATATAATTTAATGAAAATAATA-ATTAATTTAATTAT-ATTTTAACATA
1 ATTATTATTAAATATAATTTAAT-AAAATAATATA-TAATTTAATAATGATTTTAACATA
* * *
24635605 ATTCTTATTAAATATAATTTAATAAAATAATATATAATTTAATAATGTTTTTAATATA
1 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAATGATTTTAACATA
*
24635663 ATTATTATTAAAATATGAATTAGTAAAAAATATAATATATAAT
1 ATTATTATT-AAATAT-AATT--TAATAAA-ATAATATATAAT
24635706 ATTAGAAAAA
Statistics
Matches: 88, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
57 20 0.23
58 40 0.45
59 6 0.07
60 4 0.05
62 6 0.07
63 12 0.14
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (58 bp):
ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAATGATTTTAACATA
Found at i:24639884 original size:16 final size:18
Alignment explanation
Indices: 24639858--24639896 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
24639848 AGACTACAGC
24639858 AAACAGTACACAAAT-CA
1 AAACAGTACACAAATCCA
*
24639875 AAACAG-ACACAAGTCCA
1 AAACAGTACACAAATCCA
24639892 AAACA
1 AAACA
24639897 ACATCTCACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.59, C:0.26, G:0.08, T:0.08
Consensus pattern (18 bp):
AAACAGTACACAAATCCA
Found at i:24656587 original size:33 final size:33
Alignment explanation
Indices: 24656545--24656715 Score: 202
Period size: 33 Copynumber: 5.2 Consensus size: 33
24656535 ATAAGAGCTA
*
24656545 ATCAATCAGTAT-CTAGTATGCTCGTATGAGTTG
1 ATCAATCAGTATAC-AGTAAGCTCGTATGAGTTG
24656578 ATCAATCAGTATACAGTAAGCTCGTATGAGTTG
1 ATCAATCAGTATACAGTAAGCTCGTATGAGTTG
* *
24656611 ATCAATCAGTATACAATAAGCTCGTATGATTTG
1 ATCAATCAGTATACAGTAAGCTCGTATGAGTTG
* * * *
24656644 ATCAATCATTATATAGTAAGCTCGTATGAGCTA
1 ATCAATCAGTATACAGTAAGCTCGTATGAGTTG
* * * * * *
24656677 ATCAATCTGTAAACAATATGCTCGTAAGCGTTG
1 ATCAATCAGTATACAGTAAGCTCGTATGAGTTG
24656710 -TCAATC
1 ATCAATC
24656716 TGGGAATAGT
Statistics
Matches: 118, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
32 6 0.05
33 111 0.94
34 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (33 bp):
ATCAATCAGTATACAGTAAGCTCGTATGAGTTG
Found at i:24656651 original size:66 final size:66
Alignment explanation
Indices: 24656539--24656715 Score: 232
Period size: 66 Copynumber: 2.7 Consensus size: 66
24656529 ATGATCATAA
*
24656539 GAGCTAATCAATCAGTAT-CTAGTATGCTCGTATGAGTTGATCAATCAGTATACAGTAAGCTCGT
1 GAGCTAATCAATCAGTATAC-AATATGCTCGTATGAGTTGATCAATCAGTATACAGTAAGCTCGT
24656603 AT
65 AT
* * * * * *
24656605 GAGTTGATCAATCAGTATACAATAAGCTCGTATGATTTGATCAATCATTATATAGTAAGCTCGTA
1 GAGCTAATCAATCAGTATACAATATGCTCGTATGAGTTGATCAATCAGTATACAGTAAGCTCGTA
24656670 T
66 T
* * * *
24656671 GAGCTAATCAATCTGTAAACAATATGCTCGTAAGCGTTG-TCAATC
1 GAGCTAATCAATCAGTATACAATATGCTCGTATGAGTTGATCAATC
24656716 TGGGAATAGT
Statistics
Matches: 95, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
65 6 0.06
66 88 0.93
67 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (66 bp):
GAGCTAATCAATCAGTATACAATATGCTCGTATGAGTTGATCAATCAGTATACAGTAAGCTCGTA
T
Found at i:24656716 original size:32 final size:32
Alignment explanation
Indices: 24656658--24657106 Score: 427
Period size: 32 Copynumber: 14.0 Consensus size: 32
24656648 ATCATTATAT
* * *
24656658 AGTAAGCTCGTATGAGCTAATCAATCTGTAAAC
1 AGTATGCTCGTAAGAGCT-ATCAATCTGTGAAC
* * * * * *
24656691 AATATGCTCGTAAGCGTTGTCAATCTGGGAAT
1 AGTATGCTCGTAAGAGCTATCAATCTGTGAAC
* * * *
24656723 AGTATGGTTGTAAGATCTATCAATCTATGAAC
1 AGTATGCTCGTAAGAGCTATCAATCTGTGAAC
*
24656755 AGTATGCTCGTAAGAGCTATCAATATGTGAAC
1 AGTATGCTCGTAAGAGCTATCAATCTGTGAAC
* * * *
24656787 AATAT-ATCGTAAGAGCTGTCAATCTATGAAC
1 AGTATGCTCGTAAGAGCTATCAATCTGTGAAC
* *
24656818 AGTGTGCTCGTAAGAGCTATCAA-CTTGTGAAT
1 AGTATGCTCGTAAGAGCTATCAATC-TGTGAAC
*
24656850 AGTATACTCGTAAGAGCTATCAATCTGTGAAC
1 AGTATGCTCGTAAGAGCTATCAATCTGTGAAC
* * *
24656882 AGTATGCTTGTAAAAGCTATCAATATGTGAAC
1 AGTATGCTCGTAAGAGCTATCAATCTGTGAAC
* * * * *
24656914 AATATACTCGTAAGAGCTGTCAATCTCTGAAT
1 AGTATGCTCGTAAGAGCTATCAATCTGTGAAC
* * *
24656946 AGTATGCTCGTAAGAGCTGTCAATTTGTAAAC
1 AGTATGCTCGTAAGAGCTATCAATCTGTGAAC
* * * **
24656978 ACTATGCTCATAAGAACTGCCAATCTGTGAAC
1 AGTATGCTCGTAAGAGCTATCAATCTGTGAAC
24657010 -GATATGCTCGTAAGAGCTATCAATCTGTGAAC
1 AG-TATGCTCGTAAGAGCTATCAATCTGTGAAC
** * ** * *
24657042 AGTATGCTAATAATAGAAATCAATCTTTGATC
1 AGTATGCTCGTAAGAGCTATCAATCTGTGAAC
* * *
24657074 AATATGCTCATAAAAGCTATCAATCTGTGAAC
1 AGTATGCTCGTAAGAGCTATCAATCTGTGAAC
24657106 A
1 A
24657107 TCTCCACAAC
Statistics
Matches: 330, Mismatches: 81, Indels: 11
0.78 0.19 0.03
Matches are distributed among these distances:
31 26 0.08
32 289 0.88
33 15 0.05
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (32 bp):
AGTATGCTCGTAAGAGCTATCAATCTGTGAAC
Found at i:24657433 original size:40 final size:40
Alignment explanation
Indices: 24657388--24657509 Score: 107
Period size: 40 Copynumber: 3.1 Consensus size: 40
24657378 AATTCCATTT
24657388 AATTAAATAATTGCAACAATAAAATTGACTCATTTTATGC
1 AATTAAATAATTGCAACAATAAAATTGACTCATTTTATGC
* ** * *
24657428 AATTAAGTCCTTTTTGAAAAAATAATAATT--C-CA--TT-T--
1 AATTAA---ATAATTGCAACAATAA-AATTGACTCATTTTATGC
24657464 AATTAAATAATTGCAACAATAAAATTGACTCATTTTATGC
1 AATTAAATAATTGCAACAATAAAATTGACTCATTTTATGC
24657504 AATTAA
1 AATTAA
24657510 GTCCTTTTTG
Statistics
Matches: 60, Mismatches: 10, Indels: 24
0.64 0.11 0.26
Matches are distributed among these distances:
32 4 0.07
33 11 0.18
34 1 0.02
35 2 0.03
36 6 0.10
37 2 0.03
38 2 0.03
39 2 0.03
40 12 0.20
41 2 0.03
42 1 0.02
43 11 0.18
44 4 0.07
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.37
Consensus pattern (40 bp):
AATTAAATAATTGCAACAATAAAATTGACTCATTTTATGC
Found at i:24657455 original size:76 final size:76
Alignment explanation
Indices: 24657370--24657522 Score: 306
Period size: 76 Copynumber: 2.0 Consensus size: 76
24657360 TTCTTCATCT
24657370 AAAATAATAATTCCATTTAATTAAATAATTGCAACAATAAAATTGACTCATTTTATGCAATTAAG
1 AAAATAATAATTCCATTTAATTAAATAATTGCAACAATAAAATTGACTCATTTTATGCAATTAAG
24657435 TCCTTTTTGAA
66 TCCTTTTTGAA
24657446 AAAATAATAATTCCATTTAATTAAATAATTGCAACAATAAAATTGACTCATTTTATGCAATTAAG
1 AAAATAATAATTCCATTTAATTAAATAATTGCAACAATAAAATTGACTCATTTTATGCAATTAAG
24657511 TCCTTTTTGAA
66 TCCTTTTTGAA
24657522 A
1 A
24657523 TTTTTACAAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.38
Consensus pattern (76 bp):
AAAATAATAATTCCATTTAATTAAATAATTGCAACAATAAAATTGACTCATTTTATGCAATTAAG
TCCTTTTTGAA
Done.