Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8249038
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 38 of 38
Found at i:8062363 original size:17 final size:17
Alignment explanation
Indices: 8062341--8062373 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8062331 GAGGTTGAAC
*
8062341 AAGTTCTTCTCGTTAGT
1 AAGTTCTTCTCATTAGT
8062358 AAGTTCTTCTCATTAG
1 AAGTTCTTCTCATTAG
8062374 GAACTTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.45
Consensus pattern (17 bp):
AAGTTCTTCTCATTAGT
Found at i:8068323 original size:2 final size:2
Alignment explanation
Indices: 8068316--8068340 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8068306 GCCAATTGAT
8068316 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8068341 CTGAAGTTAC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8068888 original size:18 final size:18
Alignment explanation
Indices: 8068865--8068905 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
8068855 AGGCATTTGA
8068865 TCCTCTAGCT-GTGCTTGT
1 TCCTCTA-CTCGTGCTTGT
*
8068883 TCCTCTACTCGTTCTTGT
1 TCCTCTACTCGTGCTTGT
8068901 TCCTC
1 TCCTC
8068906 GTGCTGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.05, C:0.34, G:0.15, T:0.46
Consensus pattern (18 bp):
TCCTCTACTCGTGCTTGT
Found at i:8070545 original size:22 final size:23
Alignment explanation
Indices: 8070482--8070566 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 23
8070472 ACCAAAACCC
* * *
8070482 CAAGGGGGTATCGATTCCCC-TA
1 CAAGGGGGAATCGGTTCCCCTTT
8070504 C-AGGGGGAATCGGTTCCCC-TT
1 CAAGGGGGAATCGGTTCCCCTTT
*
8070525 CAAAGGGGGAATTGGTT-CCCTTT
1 C-AAGGGGGAATCGGTTCCCCTTT
* *
8070548 CAAGGGGGTATCGATTCCC
1 CAAGGGGGAATCGGTTCCC
8070567 TCTGCACTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
21 18 0.35
22 16 0.31
23 18 0.35
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.25
Consensus pattern (23 bp):
CAAGGGGGAATCGGTTCCCCTTT
Found at i:8070567 original size:22 final size:22
Alignment explanation
Indices: 8070482--8070566 Score: 91
Period size: 23 Copynumber: 3.9 Consensus size: 22
8070472 ACCAAAACCC
* *
8070482 CAAGGGGGTATCGATTCCCCTA
1 CAAGGGGGAATCGATTCCCCTT
*
8070504 C-AGGGGGAATCGGTTCCCCTT
1 CAAGGGGGAATCGATTCCCCTT
* * *
8070525 CAAAGGGGGAATTGGTTCCCTTT
1 C-AAGGGGGAATCGATTCCCCTT
*
8070548 CAAGGGGGTATCGATTCCC
1 CAAGGGGGAATCGATTCCC
8070567 TCTGCACTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
21 18 0.34
22 16 0.30
23 19 0.36
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.25
Consensus pattern (22 bp):
CAAGGGGGAATCGATTCCCCTT
Found at i:8075612 original size:24 final size:24
Alignment explanation
Indices: 8075583--8075670 Score: 149
Period size: 24 Copynumber: 3.5 Consensus size: 24
8075573 CCGTTAAACA
8075583 GGGGGGAATCGGTACCCCCTTGGG
1 GGGGGGAATCGGTACCCCCTTGGG
8075607 GGGGGGAATCGGTACCCCCTTGGGGGG
1 GGGGGGAATCGGTACCCCCTT---GGG
8075634 GGGGGGAATCGGTACCCCCTTGGG
1 GGGGGGAATCGGTACCCCCTTGGG
8075658 GGGGGGAATCGGT
1 GGGGGGAATCGGT
8075671 TCCCTCCGAG
Statistics
Matches: 61, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
24 37 0.61
27 24 0.39
ACGTcount: A:0.12, C:0.22, G:0.50, T:0.16
Consensus pattern (24 bp):
GGGGGGAATCGGTACCCCCTTGGG
Found at i:8075642 original size:27 final size:27
Alignment explanation
Indices: 8075583--8075663 Score: 141
Period size: 27 Copynumber: 3.1 Consensus size: 27
8075573 CCGTTAAACA
8075583 GGGGGGAATCGGTACCCCCTT---GGG
1 GGGGGGAATCGGTACCCCCTTGGGGGG
8075607 GGGGGGAATCGGTACCCCCTTGGGGGG
1 GGGGGGAATCGGTACCCCCTTGGGGGG
8075634 GGGGGGAATCGGTACCCCCTTGGGGGG
1 GGGGGGAATCGGTACCCCCTTGGGGGG
8075661 GGG
1 GGG
8075664 AATCGGTTCC
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
24 21 0.39
27 33 0.61
ACGTcount: A:0.11, C:0.22, G:0.52, T:0.15
Consensus pattern (27 bp):
GGGGGGAATCGGTACCCCCTTGGGGGG
Found at i:8081030 original size:40 final size:40
Alignment explanation
Indices: 8080976--8081051 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
8080966 GAAGAATGAA
8080976 AAAAATATAGATCCAGTAAATCCTACTCAAAGCAAAGTAG
1 AAAAATATAGATCCAGTAAATCCTACTCAAAGCAAAGTAG
*
8081016 AAAAATATAGATCCAGTAGATCCTACTCAAAGCAAA
1 AAAAATATAGATCCAGTAAATCCTACTCAAAGCAAA
8081052 ACTACTTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.20
Consensus pattern (40 bp):
AAAAATATAGATCCAGTAAATCCTACTCAAAGCAAAGTAG
Found at i:8082166 original size:48 final size:50
Alignment explanation
Indices: 8082088--8082185 Score: 130
Period size: 48 Copynumber: 2.0 Consensus size: 50
8082078 ACAACTACTC
* *
8082088 CTTTAACCGAAAGAAATGATAGCAACCACGA-AA-ACATCGATCATCTAT
1 CTTTAACCGAAAGAAATGATAGAAACCACGACAACACATCGACCATCTAT
* *
8082136 CTTTAACCTACAA-AAATGATAGAAATCACGACAACACATCGACCATCTAT
1 CTTTAACCGA-AAGAAATGATAGAAACCACGACAACACATCGACCATCTAT
8082186 TTGTTGAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
48 25 0.58
49 4 0.09
50 14 0.33
ACGTcount: A:0.44, C:0.24, G:0.10, T:0.21
Consensus pattern (50 bp):
CTTTAACCGAAAGAAATGATAGAAACCACGACAACACATCGACCATCTAT
Found at i:8083251 original size:23 final size:23
Alignment explanation
Indices: 8083208--8083263 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
8083198 CTCTCCTTTA
8083208 AGAACAAGTGTGACTGCTTTT-T
1 AGAACAAGTGTGACTGCTTTTCT
**
8083230 AGAACAAGTGTGACTTTTTTTTCT
1 AGAACAAGTGTGAC-TGCTTTTCT
8083254 A-AACAAGTGT
1 AGAACAAGTGT
8083264 ACGACCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 14 0.47
23 14 0.47
24 2 0.07
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (23 bp):
AGAACAAGTGTGACTGCTTTTCT
Found at i:8085274 original size:2 final size:2
Alignment explanation
Indices: 8085267--8085338 Score: 78
Period size: 2 Copynumber: 37.0 Consensus size: 2
8085257 AGAAATCCTA
8085267 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
* * * *
8085309 TT TT AT AA AT AT AT -T AA AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8085339 TTTTTTCAGG
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
1 3 0.05
2 55 0.92
3 2 0.03
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8089139 original size:49 final size:49
Alignment explanation
Indices: 8089082--8089268 Score: 259
Period size: 49 Copynumber: 3.8 Consensus size: 49
8089072 GGTGCTAAAA
* *
8089082 TAAATGCATAAC-AGTGCATTTAGGCATAAAAGTTGCCACTAATGAAAGT
1 TAAATGCATAACGA-TGCATTTCGGCATAAAAGGTGCCACTAATGAAAGT
* * *
8089131 TAAATGCATAACGGTGCATTTCGGCATAAAAGGTGTCAGTAATGAAAGT
1 TAAATGCATAACGATGCATTTCGGCATAAAAGGTGCCACTAATGAAAGT
* ** * *
8089180 TAAATGCATAACGATACATTTCGAAATAAAGGGTGACACTAATGAAAGT
1 TAAATGCATAACGATGCATTTCGGCATAAAAGGTGCCACTAATGAAAGT
*
8089229 TAAATGCATAACGATGCATTTTGGCATAAAAGGTGCCACT
1 TAAATGCATAACGATGCATTTCGGCATAAAAGGTGCCACT
8089269 CATGGTATTC
Statistics
Matches: 119, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
49 119 1.00
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (49 bp):
TAAATGCATAACGATGCATTTCGGCATAAAAGGTGCCACTAATGAAAGT
Found at i:8091857 original size:59 final size:59
Alignment explanation
Indices: 8091783--8092018 Score: 325
Period size: 59 Copynumber: 4.0 Consensus size: 59
8091773 ATTACCAAAG
8091783 GGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCTAGATAT
1 GGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCTAGATAT
* * * *
8091842 GGCACTTTGTATGCTAAAATGGAAAGGAAATCATACTAAGTGTATGAATTTCCATAT-T
1 GGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCTAGATAT
* * * *
8091900 AGGAACTTTGTGTGCTAAAATGGTAAGGAAATTATA-AACAGTGTAT-AGATTTCTAGATAA
1 -GGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTA-AGTGTATGA-ATTTCTAGATAT
* * *
8091960 GGCACTTTATGTGCTAAAATGATAAGAAAATCATACTAAGTGTATGAATTTCTAGATAT
1 GGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCTAGATAT
8092019 AGGTGTATGA
Statistics
Matches: 152, Mismatches: 19, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
58 3 0.02
59 147 0.97
60 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (59 bp):
GGCACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCTAGATAT
Found at i:8092075 original size:81 final size:81
Alignment explanation
Indices: 8091940--8092098 Score: 232
Period size: 81 Copynumber: 2.0 Consensus size: 81
8091930 ATTATAAACA
*
8091940 GTGTATAGATTTCTAGATAAGGCACTTTATGTGCTAAAATGATAAGAAAATCATACTAAGTGTAT
1 GTGTATAGATTTCCAGATAAGGCACTTTATGTGCTAAAATGATAAGAAAATCATACTAAGTGTAT
*
8092005 GAATTTCTAGATATAG
66 GAATTTCCAGATATAG
* * * *
8092021 GTGTAT-GAATTTCCAGATAGGGCACTTT-GGTTGCTAAAATGATAAGGAAGTCATACTAAGTGT
1 GTGTATAG-ATTTCCAGATAAGGCACTTTATG-TGCTAAAATGATAAGAAAATCATACTAAGTGT
8092084 ATGAATTTCCAGATA
64 ATGAATTTCCAGATA
8092099 GGGAACTTCT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 68 0.97
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (81 bp):
GTGTATAGATTTCCAGATAAGGCACTTTATGTGCTAAAATGATAAGAAAATCATACTAAGTGTAT
GAATTTCCAGATATAG
Found at i:8092115 original size:59 final size:59
Alignment explanation
Indices: 8092021--8092153 Score: 196
Period size: 59 Copynumber: 2.3 Consensus size: 59
8092011 CTAGATATAG
* **
8092021 GTGTATGAATTTCCAGATAGGGCACTTTGGTTGCTAAAATGATAAGGAAGTCATACTAA
1 GTGTATGAATTTCCAGATAGGGAACTTTGGTTGCTAAAATGATAAGGAAAACATACTAA
* *
8092080 GTGTATGAATTTCCAGATAGGGAACTTCTTG-TGCTAAAATGATAAGGAAAACATACTGA
1 GTGTATGAATTTCCAGATAGGGAACTT-TGGTTGCTAAAATGATAAGGAAAACATACTAA
*
8092139 TTGTATGAATTTCCA
1 GTGTATGAATTTCCA
8092154 ATTGAATTTA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
59 65 0.97
60 2 0.03
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.32
Consensus pattern (59 bp):
GTGTATGAATTTCCAGATAGGGAACTTTGGTTGCTAAAATGATAAGGAAAACATACTAA
Found at i:8092135 original size:140 final size:140
Alignment explanation
Indices: 8091881--8092151 Score: 347
Period size: 140 Copynumber: 1.9 Consensus size: 140
8091871 ATCATACTAA
* * *
8091881 GTGTATGAATTTCCATATTAGGAACTTTGTGTGCTAAAATGGTAAGGAAATTATAAACAGTGTAT
1 GTGTATGAATTTCCAGATTAGGAACTTTGTGTGCTAAAATGATAAGGAAATCATAAACAGTGTAT
* *
8091946 AGATTTCTAGATAAGGCACTTTATGTGCTAAAATGATAAGAAAATCATACTAAGTGTATGAATTT
66 AGATTTCCAGATAAGGAACTTTATGTGCTAAAATGATAAGAAAATCATACTAAGTGTATGAATTT
8092011 CTAGATATAG
131 CTAGATATAG
* * *
8092021 GTGTATGAATTTCCAGA-TAGGGCACTTTG-GTTGCTAAAATGATAAGGAAGTCATACTA-AGTG
1 GTGTATGAATTTCCAGATTA-GGAACTTTGTG-TGCTAAAATGATAAGGAAATCATA-AACAGTG
* * *
8092083 TAT-GAATTTCCAGATAGGGAACTTCT-TGTGCTAAAATGATAAGGAAAA-CATACTGATTGTAT
63 TATAG-ATTTCCAGATAAGGAACTT-TATGTGCTAAAATGATAA-GAAAATCATACTAAGTGTAT
8092145 GAATTTC
125 GAATTTC
8092152 CAATTGAATT
Statistics
Matches: 114, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
139 4 0.04
140 103 0.90
141 7 0.06
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (140 bp):
GTGTATGAATTTCCAGATTAGGAACTTTGTGTGCTAAAATGATAAGGAAATCATAAACAGTGTAT
AGATTTCCAGATAAGGAACTTTATGTGCTAAAATGATAAGAAAATCATACTAAGTGTATGAATTT
CTAGATATAG
Found at i:8097459 original size:139 final size:139
Alignment explanation
Indices: 8097067--8097473 Score: 503
Period size: 139 Copynumber: 2.9 Consensus size: 139
8097057 AGACAATATG
* * * * * *
8097067 GTTCCTACATGATGAGGAAGTCTGGTTATTTGAGTATGACGTTGCTCCTACGCGTTGAGGAGATC
1 GTTCCTACGTGATGAGGAAGTCTAGTTATCTGAGGATGACGTTGCTCCTACGTGATGAGGAGATC
* * * ** * **
8097132 TGGTCGGTGGACGACATTGTTTCTACGTGATGAGGACGTTTAGCCACCTCTAGGGATAATTTGGA
66 TGGTCGGTGGACGACATTGTTCCTACGTGATGAGGACGTCTAGTCGTCTTTAGGGATAATTTAAA
8097197 GACAACACA
131 GACAACACA
* * * * * **
8097206 GTTCCTACGCGATAAGGGAGT-TTGTTTATCTGAGGATGACGCTGCTCCTATATGATGAGGAGAT
1 GTTCCTACGTGATGAGGAAGTCTAG-TTATCTGAGGATGACGTTGCTCCTACGTGATGAGGAGAT
* * * *
8097270 CTGGTCGGTGGACGATATTATTCCTACGTGATGAGGATGTCTAGTCGTCTTTATGGATAATTTAA
65 CTGGTCGGTGGACGACATTGTTCCTACGTGATGAGGACGTCTAGTCGTCTTTAGGGATAATTTAA
8097335 AGACAACACA
130 AGACAACACA
* *
8097345 GCTT-CTAGGTGATGAGGAAGTCTAGCTATCTGAGGATGACGTTGCTCCTACGTGATGAGGAGAT
1 G-TTCCTACGTGATGAGGAAGTCTAGTTATCTGAGGATGACGTTGCTCCTACGTGATGAGGAGAT
* * * *
8097409 CTGGTCAGTGGACGACATTGGTCCTACGTGATGAGGACGTCTATTTGTCTTTAGGGATAATTTAA
65 CTGGTCGGTGGACGACATTGTTCCTACGTGATGAGGACGTCTAGTCGTCTTTAGGGATAATTTAA
8097474 TTTTGTCCTA
Statistics
Matches: 224, Mismatches: 41, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
138 2 0.01
139 218 0.97
140 4 0.02
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (139 bp):
GTTCCTACGTGATGAGGAAGTCTAGTTATCTGAGGATGACGTTGCTCCTACGTGATGAGGAGATC
TGGTCGGTGGACGACATTGTTCCTACGTGATGAGGACGTCTAGTCGTCTTTAGGGATAATTTAAA
GACAACACA
Found at i:8098504 original size:127 final size:124
Alignment explanation
Indices: 8098360--8098613 Score: 289
Period size: 127 Copynumber: 2.0 Consensus size: 124
8098350 ACCATTGTTA
* * ** * *
8098360 TTTATTTATTTATTGTTTCTAA-TATTTTATTCGACGTTGTGGTGACCAGATTCAGA-GTATGAT
1 TTTATTAATTTATTGTTT-GAATTATTCGATTCGACCTTGTGGTGACCAGA-TCAGAGGTACGAT
* * *
8098423 CCACATTATTATGGTTT-GGACTATGCTAACCATTAACTTTTTTTTATTTTTTGTTATTTTAT
64 CCACATTATTAT-GTTTCGGACTATGCTAACCACTAACTTTTTTATATTTATT-TTATTTTAT
* ** * *
8098485 TTTATTAATTTAATCTGTTTGAATTATTCGATTCGACCTTTTGGTGATTAGATCCGAGGTACGTT
1 TTTATTAATTT-AT-TGTTTGAATTATTCGATTCGACCTTGTGGTGACCAGATCAGAGGTACGAT
* *
8098550 CCACATTATTATGTTTCGGACTCTGCTAACCACTAACTTTTTTATATTTATTTTATTTTGT
64 CCACATTATTATGTTTCGGACTATGCTAACCACTAACTTTTTTATATTTATTTTATTTTAT
8098611 TTT
1 TTT
8098614 GTTTGAATTA
Statistics
Matches: 108, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
125 10 0.09
126 23 0.21
127 75 0.69
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.51
Consensus pattern (124 bp):
TTTATTAATTTATTGTTTGAATTATTCGATTCGACCTTGTGGTGACCAGATCAGAGGTACGATCC
ACATTATTATGTTTCGGACTATGCTAACCACTAACTTTTTTATATTTATTTTATTTTAT
Found at i:8098687 original size:112 final size:112
Alignment explanation
Indices: 8098500--8098702 Score: 304
Period size: 112 Copynumber: 1.8 Consensus size: 112
8098490 TAATTTAATC
* *
8098500 TGTTTGAATTATTCGATTCGACCTTTTGGTGATTAGATCCGAGGTACGTTCCACATTATTATGTT
1 TGTTTGAATTATTCGATTCGACCTTTTGGTGATTAGATCCGAGGTACGATCCACATTATTATGAT
*
8098565 TCGGACTCTGCTAACCACTAACTTTTTTATATTTATTTTATTTTGTTT
66 CCGGACTCTGCTAACCACTAA-TTTTTTATATTTATTTTATTTTGTTT
* *
8098613 TGTTTGAATTATTCGATTCGA-CTTTATGGTGATCT-GATCTG-GGTATGATCCACATTATTATG
1 TGTTTGAATTATTCGATTCGACCTTT-TGGTGAT-TAGATCCGAGGTACGATCCACATTATTATG
*
8098675 ATCCGGACTCTGCTAACCGCTAATTTTT
64 ATCCGGACTCTGCTAACCACTAATTTTT
8098703 ATAACTGGTA
Statistics
Matches: 82, Mismatches: 6, Indels: 6
0.87 0.06 0.06
Matches are distributed among these distances:
111 5 0.06
112 43 0.52
113 33 0.40
114 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.45
Consensus pattern (112 bp):
TGTTTGAATTATTCGATTCGACCTTTTGGTGATTAGATCCGAGGTACGATCCACATTATTATGAT
CCGGACTCTGCTAACCACTAATTTTTTATATTTATTTTATTTTGTTT
Found at i:8098816 original size:16 final size:16
Alignment explanation
Indices: 8098791--8098826 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8098781 ATTTATGTTA
*
8098791 TTTAACTTTATGCACT
1 TTTAAATTTATGCACT
*
8098807 TTTAAATTTATGCATT
1 TTTAAATTTATGCACT
8098823 TTTA
1 TTTA
8098827 TTTTCTTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.06, T:0.56
Consensus pattern (16 bp):
TTTAAATTTATGCACT
Found at i:8100207 original size:20 final size:20
Alignment explanation
Indices: 8100178--8100216 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8100168 TTTCCACCAC
*
8100178 ATGCAACTATATGTTCCTAA
1 ATGCAACTATATGATCCTAA
*
8100198 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
8100217 TATGAGATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:8100753 original size:25 final size:24
Alignment explanation
Indices: 8100702--8100776 Score: 93
Period size: 21 Copynumber: 3.1 Consensus size: 24
8100692 GAAAATAAAA
*
8100702 ATAAAATATTTTTAAATTAAGTTAAT
1 ATAAAATATATTT-AA-TAAGTTAAT
8100728 AGTAAAATATATTTAATAAGTTAAT
1 A-TAAAATATATTTAATAAGTTAAT
8100753 ATAAAA-ATATTT--TAAGTTAAT
1 ATAAAATATATTTAATAAGTTAAT
8100774 ATA
1 ATA
8100777 TATAAAATTA
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
21 12 0.26
23 6 0.13
24 5 0.11
25 10 0.21
26 3 0.06
27 11 0.23
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (24 bp):
ATAAAATATATTTAATAAGTTAAT
Found at i:8100783 original size:24 final size:23
Alignment explanation
Indices: 8100718--8100784 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
8100708 TATTTTTAAA
*
8100718 TTAAGTTAATAGTA-AAATATATT
1 TTAAGTTAATA-TATAAAAATATT
8100741 TAATAAGTT-A-ATATAAAAATATT
1 T--TAAGTTAATATATAAAAATATT
8100764 TTAAGTTAATATATATAAAAT
1 TTAAGTTAATATATA-AAAAT
8100785 TATATTATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
21 6 0.16
22 3 0.08
23 16 0.43
24 6 0.16
25 6 0.16
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (23 bp):
TTAAGTTAATATATAAAAATATT
Found at i:8101074 original size:35 final size:32
Alignment explanation
Indices: 8101009--8101077 Score: 84
Period size: 35 Copynumber: 2.1 Consensus size: 32
8100999 ATTAAATTTC
* *
8101009 AAATGTTTTGAAGTTAAAATAAATATTTCAAA
1 AAATGTTTAGAAGTTAAAATAAATAATTCAAA
*
8101041 AAATAGTTTAGAAGGTTAAAGTGAAATAATTCAAA
1 AAAT-GTTTAGAA-GTTAAAAT-AAATAATTCAAA
8101076 AA
1 AA
8101078 TTAAGAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 4 0.13
33 7 0.23
34 7 0.23
35 13 0.42
ACGTcount: A:0.52, C:0.03, G:0.13, T:0.32
Consensus pattern (32 bp):
AAATGTTTAGAAGTTAAAATAAATAATTCAAA
Found at i:8101149 original size:39 final size:39
Alignment explanation
Indices: 8101047--8101149 Score: 97
Period size: 39 Copynumber: 2.7 Consensus size: 39
8101037 CAAAAAATAG
* * *
8101047 TTTAGAAGGTTA-AAGTGAAATAATTCAAAAATTAAGAA
1 TTTAGAACGTTATGAGTGAAATAATTTAAAAATTAAGAA
* * *
8101085 TTTAGAACGTTATG-GTGTCAA-AATTTAAGAAATTAGGAT
1 TTTAGAACGTTATGAGTG-AAATAATTTAA-AAATTAAGAA
*
8101124 TTTAGAACTTTA-GAGTGAAATAATTT
1 TTTAGAACGTTATGAGTGAAATAATTT
8101150 GAGGATTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
38 23 0.44
39 29 0.56
ACGTcount: A:0.44, C:0.04, G:0.17, T:0.35
Consensus pattern (39 bp):
TTTAGAACGTTATGAGTGAAATAATTTAAAAATTAAGAA
Found at i:8101184 original size:19 final size:19
Alignment explanation
Indices: 8101160--8101203 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
8101150 GAGGATTATG
8101160 AATAAAAATGAAAATATAA
1 AATAAAAATGAAAATATAA
*
8101179 AATAAAAATGAAAATATAT
1 AATAAAAATGAAAATATAA
8101198 AATAAA
1 AATAAA
8101204 TAGGTTACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (19 bp):
AATAAAAATGAAAATATAA
Found at i:8101610 original size:31 final size:30
Alignment explanation
Indices: 8101537--8101614 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 30
8101527 CATTTAACTC
*
8101537 AAAGTGACACATCTTAATTAAATAAAAATA
1 AAAGTGACATATCTTAATTAAATAAAAATA
*
8101567 AAAATGATCATATCTTAATTAAATAAAAACT-
1 AAAGTGA-CATATCTTAATTAAATAAAAA-TA
*
8101598 TAAGTGACCATATCTTA
1 AAAGTGA-CATATCTTA
8101615 TATATTTTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 6 0.15
31 34 0.83
32 1 0.02
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.31
Consensus pattern (30 bp):
AAAGTGACATATCTTAATTAAATAAAAATA
Found at i:8101999 original size:20 final size:20
Alignment explanation
Indices: 8101938--8101999 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 20
8101928 CCAAAAATAT
* *
8101938 TAATATAAAAAATATTTATTTT
1 TAATA-AAAAAATA-ATATTTC
*
8101960 TAGAT-AAAAAATCAACATTTC
1 TA-ATAAAAAAAT-AATATTTC
8101981 TAATAAAAAAATAATATTT
1 TAATAAAAAAATAATATTT
8102000 TTAAGTAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
20 8 0.24
21 20 0.61
22 3 0.09
23 2 0.06
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (20 bp):
TAATAAAAAAATAATATTTC
Found at i:8107163 original size:12 final size:12
Alignment explanation
Indices: 8107148--8107172 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8107138 TAATTTAGAA
8107148 TGAAATTCATAG
1 TGAAATTCATAG
8107160 TGAAATTCATAG
1 TGAAATTCATAG
8107172 T
1 T
8107173 TTGAGGATAA
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:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (12 bp):
TGAAATTCATAG
Found at i:8107190 original size:72 final size:72
Alignment explanation
Indices: 8107094--8107232 Score: 174
Period size: 72 Copynumber: 1.9 Consensus size: 72
8107084 AGAATGAGGG
* * * * *
8107094 TCATAGTTTAGGGATGAAATTGGAATGTTCAAAAGTTTAAGGACTAATTTAGAATGAA-ATTCAT
1 TCATAGTTTAGGGATAAAACTGGAATATTCAAAAGTTTAAGGACCAATTTAAAATGAAGA-TCAT
8107158 AGTGAAAT
65 AGTGAAAT
***
8107166 TCATAGTTT-GAGGATAAAACTGGAATATTTGTAAGTTTAAGGACCAATTTAAAATGAAGATCAT
1 TCATAGTTTAG-GGATAAAACTGGAATATTCAAAAGTTTAAGGACCAATTTAAAATGAAGATCAT
8107230 AGT
65 AGT
8107233 TTGAGGATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
71 1 0.02
72 55 0.96
73 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.20, T:0.33
Consensus pattern (72 bp):
TCATAGTTTAGGGATAAAACTGGAATATTCAAAAGTTTAAGGACCAATTTAAAATGAAGATCATA
GTGAAAT
Found at i:8108453 original size:16 final size:16
Alignment explanation
Indices: 8108433--8108470 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
8108423 AAATAGTGGG
8108433 AGCTATCAATAATAGA
1 AGCTATCAATAATAGA
*
8108449 CGCTATCAATAATAGA
1 AGCTATCAATAATAGA
8108465 AGCTAT
1 AGCTAT
8108471 GGTAACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (16 bp):
AGCTATCAATAATAGA
Found at i:8113543 original size:21 final size:21
Alignment explanation
Indices: 8113517--8113600 Score: 55
Period size: 21 Copynumber: 3.8 Consensus size: 21
8113507 AGTGTAGCAA
8113517 TATTCGAATCAACTTGAAAAT
1 TATTCGAATCAACTTGAAAAT
* * * *
8113538 TATTCGTGATCACGAGTGTAGCAAAG
1 TATTCG-AATCA--ACT-T-GAAAAT
8113564 T--TCGAATCAACTTGAAAAT
1 TATTCGAATCAACTTGAAAAT
*
8113583 TATTCGACTCAAGCTTGA
1 TATTCGAATCAA-CTTGA
8113601 TTCAATTTGT
Statistics
Matches: 46, Mismatches: 9, Indels: 15
0.66 0.13 0.21
Matches are distributed among these distances:
19 5 0.11
20 1 0.02
21 16 0.35
22 9 0.20
23 4 0.09
24 5 0.11
25 1 0.02
26 5 0.11
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (21 bp):
TATTCGAATCAACTTGAAAAT
Found at i:8113555 original size:45 final size:45
Alignment explanation
Indices: 8113500--8113588 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
8113490 TGAGTGATTC
*
8113500 GATCATGAGTGTAGCAATA-TTCGAATCAACTTGAAAATTATTCGT
1 GATCACGAGTGTAGCAA-AGTTCGAATCAACTTGAAAATTATTCGT
8113545 GATCACGAGTGTAGCAAAGTTCGAATCAACTTGAAAATTATTCG
1 GATCACGAGTGTAGCAAAGTTCGAATCAACTTGAAAATTATTCG
8113589 ACTCAAGCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
44 1 0.02
45 41 0.98
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (45 bp):
GATCACGAGTGTAGCAAAGTTCGAATCAACTTGAAAATTATTCGT
Found at i:8116013 original size:17 final size:17
Alignment explanation
Indices: 8115991--8116024 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8115981 AAGGTGATAC
8115991 TTTAAGAAAAACTTTAT
1 TTTAAGAAAAACTTTAT
8116008 TTTAAGAAAAACTTTAT
1 TTTAAGAAAAACTTTAT
8116025 CACCTTCATG
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:0.06, T:0.41
Consensus pattern (17 bp):
TTTAAGAAAAACTTTAT
Found at i:8117040 original size:3 final size:3
Alignment explanation
Indices: 8117034--8117120 Score: 106
Period size: 3 Copynumber: 29.3 Consensus size: 3
8117024 TTTTTTTTGT
*
8117034 TTC TTC TTC TTC TTC TTC TTC TTC GTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * * *
8117082 TTT TTC TTC TTTC TTT TTG TT- TTC TTC TT- TTC TTT TTC T
1 TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
8117121 GTTTTTTTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
2 4 0.05
3 66 0.90
4 3 0.04
ACGTcount: A:0.00, C:0.26, G:0.02, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:8117111 original size:18 final size:19
Alignment explanation
Indices: 8117064--8117118 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 19
8117054 CTTCGTCTTC
8117064 TTCTTCTTCTTCTTCTTCT-TT
1 TTCTTCTT-TTCTT-TT-TGTT
8117085 TTCTTC-TTTCTTTTTGTT
1 TTCTTCTTTTCTTTTTGTT
8117103 TTCTTCTTTTCTTTTT
1 TTCTTCTTTTCTTTTT
8117119 CTGTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.03
18 10 0.31
19 14 0.44
20 1 0.03
21 6 0.19
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (19 bp):
TTCTTCTTTTCTTTTTGTT
Found at i:8117130 original size:18 final size:17
Alignment explanation
Indices: 8117073--8117133 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 17
8117063 CTTCTTCTTC
*
8117073 TTCTTCTTCTTTTTCTTCT
1 TTCTTTTTCTTTTT-TT-T
*
8117092 TTCTTTTTGTTTTCTTCTT
1 TTCTTTTTCTTTT-TT-TT
8117111 TTCTTTTTCTGTTTTTTT
1 TTCTTTTTCT-TTTTTTT
8117129 TTCTT
1 TTCTT
8117134 ATAATATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
18 7 0.19
19 24 0.67
20 5 0.14
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (17 bp):
TTCTTTTTCTTTTTTTT
Found at i:8119936 original size:24 final size:22
Alignment explanation
Indices: 8119908--8119951 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
8119898 ATTGAAAACA
8119908 TTTTTTATGTTTTCATATTTTCAC
1 TTTTTTATGTTTT--TATTTTCAC
*
8119932 TTTTTTTTGTTTTTATTTTC
1 TTTTTTATGTTTTTATTTTC
8119952 CAAAAAATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
24 12 0.63
ACGTcount: A:0.11, C:0.09, G:0.05, T:0.75
Consensus pattern (22 bp):
TTTTTTATGTTTTTATTTTCAC
Found at i:8144425 original size:17 final size:17
Alignment explanation
Indices: 8144356--8144427 Score: 54
Period size: 17 Copynumber: 4.2 Consensus size: 17
8144346 CTTCATGCAT
* *
8144356 CTAGTTCATTGAATAAA
1 CTAGTTCATTTATTAAA
* *
8144373 GTTAGTTCTTTTATTAAA
1 -CTAGTTCATTTATTAAA
* * ** *
8144391 CTGGTTTATTCGTCAAA
1 CTAGTTCATTTATTAAA
8144408 CTAGTTCATTTATTAAA
1 CTAGTTCATTTATTAAA
8144425 CTA
1 CTA
8144428 ACTCTTAATT
Statistics
Matches: 38, Mismatches: 16, Indels: 1
0.69 0.29 0.02
Matches are distributed among these distances:
17 25 0.66
18 13 0.34
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.44
Consensus pattern (17 bp):
CTAGTTCATTTATTAAA
Found at i:8150928 original size:14 final size:14
Alignment explanation
Indices: 8150909--8150936 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8150899 TATGATATTC
8150909 ATGCATATAACATA
1 ATGCATATAACATA
8150923 ATGCATATAACATA
1 ATGCATATAACATA
8150937 TAGTCCGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
ATGCATATAACATA
Found at i:8153336 original size:22 final size:20
Alignment explanation
Indices: 8153288--8153340 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
8153278 TGGCCAAGAG
**
8153288 CATGTATTTTCATTAAAGTA
1 CATGTATTTTCATTAAAAAA
8153308 -ATGTATTTTCATTAAAAAAA
1 CATGTATTTTCATT-AAAAAA
8153328 CCATGTATTTTCA
1 -CATGTATTTTCA
8153341 AAGGGATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 13 0.46
20 4 0.14
22 11 0.39
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATTAAAAAA
Found at i:8155879 original size:17 final size:17
Alignment explanation
Indices: 8155857--8155890 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8155847 ACCTATAGTC
*
8155857 CACATTTTTATATTATA
1 CACATTGTTATATTATA
*
8155874 CACATTGTTATTTTATA
1 CACATTGTTATATTATA
8155891 TACTTAACTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.03, T:0.53
Consensus pattern (17 bp):
CACATTGTTATATTATA
Found at i:8157046 original size:13 final size:13
Alignment explanation
Indices: 8157028--8157052 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8157018 CACGCCTACA
8157028 CCATTACCATTTT
1 CCATTACCATTTT
8157041 CCATTACCATTT
1 CCATTACCATTT
8157053 CATCACCATT
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:0.32, G:0.00, T:0.44
Consensus pattern (13 bp):
CCATTACCATTTT
Found at i:8163571 original size:16 final size:17
Alignment explanation
Indices: 8163550--8163584 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
8163540 CTCCTACATC
8163550 AAAC-AAAAGAGTGCAA
1 AAACAAAAAGAGTGCAA
*
8163566 AAACAAAAAGAGTTCAA
1 AAACAAAAAGAGTGCAA
8163583 AA
1 AA
8163585 GGAAGAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.66, C:0.11, G:0.14, T:0.09
Consensus pattern (17 bp):
AAACAAAAAGAGTGCAA
Found at i:8166574 original size:15 final size:15
Alignment explanation
Indices: 8166538--8166575 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
8166528 TATGGCCAGC
*
8166538 TCACCTCCAGCTCAT
1 TCACCTTCAGCTCAT
8166553 TCACCTTCAGCTCAT
1 TCACCTTCAGCTCAT
8166568 TCACCTTC
1 TCACCTTC
8166576 GAACTAGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.18, C:0.45, G:0.05, T:0.32
Consensus pattern (15 bp):
TCACCTTCAGCTCAT
Found at i:8183149 original size:9 final size:9
Alignment explanation
Indices: 8183127--8183165 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
8183117 TCCTTTAAAC
*
8183127 TTTTTCTTT
1 TTTTTATTT
*
8183136 CTTTTATTT
1 TTTTTATTT
8183145 TTTTTA-TT
1 TTTTTATTT
8183153 TTTTTATTT
1 TTTTTATTT
8183162 TTTT
1 TTTT
8183166 ATTAATCTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
8 8 0.31
9 18 0.69
ACGTcount: A:0.08, C:0.05, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTATTT
Found at i:8183154 original size:8 final size:8
Alignment explanation
Indices: 8183127--8183168 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
8183117 TCCTTTAAAC
*
8183127 TTTTTCTT
1 TTTTTATT
8183135 TCTTTTATTT
1 T-TTTTA-TT
8183145 TTTTTATT
1 TTTTTATT
8183153 TTTTTATT
1 TTTTTATT
8183161 TTTTTATT
1 TTTTTATT
8183169 AATCTGGGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 19 0.61
9 9 0.29
10 3 0.10
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTATT
Found at i:8187034 original size:8 final size:8
Alignment explanation
Indices: 8187021--8187049 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
8187011 ACATGTATCA
8187021 TTATTATT
1 TTATTATT
8187029 TTATTATT
1 TTATTATT
8187037 TTATTATT
1 TTATTATT
8187045 TTATT
1 TTATT
8187050 TATATGTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTATT
Found at i:8191815 original size:16 final size:15
Alignment explanation
Indices: 8191790--8191823 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
8191780 AATCAAGAAC
8191790 AAAAAAAAGAAGCAA
1 AAAAAAAAGAAGCAA
8191805 AAAAGAAAAGAAGCAA
1 AAAA-AAAAGAAGCAA
8191821 AAA
1 AAA
8191824 TCAAAACGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAGCAA
Found at i:8191829 original size:16 final size:16
Alignment explanation
Indices: 8191790--8191829 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
8191780 AATCAAGAAC
8191790 AAAA-AAAAGAAGCAA
1 AAAACAAAAGAAGCAA
*
8191805 AAAAGAAAAGAAGCAA
1 AAAACAAAAGAAGCAA
*
8191821 AAATCAAAA
1 AAAACAAAA
8191830 CGAAAAGGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.78, C:0.07, G:0.12, T:0.03
Consensus pattern (16 bp):
AAAACAAAAGAAGCAA
Found at i:8193438 original size:36 final size:36
Alignment explanation
Indices: 8193389--8193460 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
8193379 GTGCTCACTA
* *
8193389 TTGTCTTTTTTGAGACAGTTTCCCTT-GAAACAAACT
1 TTGTCTCTATTGAGACAGTTTCCCTTGGAAA-AAACT
8193425 TTGTCTCTATTGAGACAGTTTCCCTTGGAAAAAACT
1 TTGTCTCTATTGAGACAGTTTCCCTTGGAAAAAACT
8193461 GTTGAAATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 29 0.88
37 4 0.12
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.39
Consensus pattern (36 bp):
TTGTCTCTATTGAGACAGTTTCCCTTGGAAAAAACT
Found at i:8193652 original size:37 final size:37
Alignment explanation
Indices: 8193611--8193696 Score: 88
Period size: 36 Copynumber: 2.4 Consensus size: 37
8193601 CATCTCCCCG
** * *
8193611 TGAGACAATTTCTT-TTGGAACTAAGTTTTGTCTCTCT
1 TGAGACAATTTCTTCTTAAAAC-AAATTTTGTCTCCCT
*
8193648 TGAGACAGTTT-TTCTTAAAACAAATTTTGTCTCCCT
1 TGAGACAATTTCTTCTTAAAACAAATTTTGTCTCCCT
8193684 TGAGATC-ATTTCT
1 TGAGA-CAATTTCT
8193697 CATGAAACAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
36 23 0.57
37 17 0.43
ACGTcount: A:0.24, C:0.17, G:0.14, T:0.44
Consensus pattern (37 bp):
TGAGACAATTTCTTCTTAAAACAAATTTTGTCTCCCT
Found at i:8193705 original size:36 final size:36
Alignment explanation
Indices: 8193636--8193706 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
8193626 TGGAACTAAG
* * *
8193636 TTTTGTCTCTCTTGAGACAGTTTTTCTTAAAACAAA
1 TTTTGTCTCCCTTGAGACAGTTTCTCATAAAACAAA
*
8193672 TTTTGTCTCCCTTGAGATCA-TTTCTCATGAAACAA
1 TTTTGTCTCCCTTGAGA-CAGTTTCTCATAAAACAA
8193707 CATATATCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 28 0.93
37 2 0.07
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (36 bp):
TTTTGTCTCCCTTGAGACAGTTTCTCATAAAACAAA
Found at i:8194459 original size:106 final size:105
Alignment explanation
Indices: 8194223--8194976 Score: 900
Period size: 106 Copynumber: 7.0 Consensus size: 105
8194213 ATATCGCGCC
* * * * * * **
8194223 ACTCGAGACAACACAAGTTTAACTTCACAATGAAGGGACGACTGATTTTCAACAAACCACTTTTC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACCA-TTCCC
* *
8194288 AGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
65 A--AT--TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
8194333 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGTTGGTTATCAACAAACCATTACCC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACCATT-CCC
* *
8194398 AATTTCAGAGCCAATTTCAACTTCAAAGTGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * **
8194439 ACTCGAGACAACACAAGTTCAACTTCACAATGAAGAGACGGCTGGTTGTCAACAAACCAGTTTTC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACCA-TTCCC
* **
8194504 AGTTTCATTCAGAGTGAATTTCAACTTCACAGCGAAGGATATTGG
65 A--AT--TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
8194549 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAAACAATTTCC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AAACCA-TTCC
* * *
8194614 CAGTTTCAGAGCCAATTTTAACTTCATAGCGAAGGATATTGG
64 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
8194656 ACTCAAGACAACACAAGTTCAATTTCACAACGAATGGACGACTGGTTGTCAACAAACCACTT-TC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACCA-TTCCC
* * *
8194720 AGTTTCAGAGCCAGTTTTAACTTCACAGCGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * **
8194761 ACTCAAGACGACACAAGTTAAAATTCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACCA-TTCCC
*
8194826 AATTTCATAGCCAATTTCAACTTCACAGCGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * **
8194867 ACTCAAGACGACACAAGTTCAACTTCACAACGAAGGGATGGTTGGTTGTCAACAAATAATTTCCC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACCA-TTCCC
* *
8194932 AATTTCAGAGCCAATTTCAACTTCA-TGACGGAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
8194973 ACTC
1 ACTC
8194977 GGAACAATAC
Statistics
Matches: 570, Mismatches: 65, Indels: 22
0.87 0.10 0.03
Matches are distributed among these distances:
105 96 0.17
106 237 0.42
107 85 0.15
108 2 0.00
109 3 0.01
110 138 0.24
111 9 0.02
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (105 bp):
ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACCATTCCCA
ATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:8194493 original size:216 final size:216
Alignment explanation
Indices: 8194223--8194922 Score: 1023
Period size: 216 Copynumber: 3.3 Consensus size: 216
8194213 ATATCGCGCC
* * * * *
8194223 ACTCGAGACAACACAAGTTTAACTTCACAATGAAGGGACGACTGATTTTCAACAAACCACTTTTC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACCACTTTTC
*
8194288 AGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTC
66 AGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTC
* * * *
8194353 AACTTCACAACGAAGGGACGGTTGGTTATCAACAAACCATTACCCAATTTCAGAGCCAATTTCAA
131 AACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAA
*
8194418 CTTCAAAGTGAAGGATATTGG
196 CTTCAAAGCGAAGGATATTGG
* * * * *
8194439 ACTCGAGACAACACAAGTTCAACTTCACAATGAAGAGACGGCTGGTTGTCAACAAACCAGTTTTC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACCACTTTTC
*
8194504 AGTTTCATTCAGAGTGAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTC
66 AGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTC
* * *
8194569 AACTTCACAACGAAGGGACAGCTGGTTGTCAACAAAACAATTTCCCAGTTTCAGAGCCAATTTTA
131 AACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AAACAATTTCCCAATTTCAGAGCCAATTTCA
*
8194634 ACTTCATAGCGAAGGATATTGG
195 ACTTCAAAGCGAAGGATATTGG
* *
8194656 ACTCAAGACAACACAAGTTCAATTTCACAACGAATGGACGACTGGTTGTCAACAAACCAC-TTTC
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACCACTTTTC
* * * * *
8194720 AG--T--TTCAGAGCCAGTTTTAACTTCACAGCGAAGGATATTGGACTCAAGACGACACAAGTTA
66 AGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTC
* * * *
8194781 AAATTCACAACGAAGGGACGACTGGTTGTCAACAAATAATTTCCCAATTTCATAGCCAATTTCAA
131 AACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAA
*
8194846 CTTCACAGCGAAGGATATTGG
196 CTTCAAAGCGAAGGATATTGG
* * **
8194867 ACTCAAGACGACACAAGTTCAACTTCACAACGAAGGGATGGTTGGTTGTCAACAAA
1 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAA
8194923 TAATTTCCCA
Statistics
Matches: 439, Mismatches: 44, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
211 98 0.22
212 82 0.19
214 1 0.00
216 158 0.36
217 100 0.23
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (216 bp):
ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACCACTTTTC
AGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTC
AACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTCAA
CTTCAAAGCGAAGGATATTGG
Found at i:8196243 original size:18 final size:17
Alignment explanation
Indices: 8196204--8196246 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
8196194 ATTATATGGA
8196204 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
8196220 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
8196238 TATTATTAT
1 TATTATTAT
8196247 ACGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:8196524 original size:8 final size:8
Alignment explanation
Indices: 8196511--8196540 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
8196501 TATATATATG
8196511 TTATTTTT
1 TTATTTTT
8196519 TTATTTTT
1 TTATTTTT
8196527 TTCATTTTT
1 TT-ATTTTT
8196536 TTATT
1 TTATT
8196541 CATTATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (8 bp):
TTATTTTT
Found at i:8196774 original size:38 final size:40
Alignment explanation
Indices: 8196723--8196802 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
8196713 AATGAGAGGG
*
8196723 TAGCTTTTCTATTTT-TAAATA-TTTGTTGTATATATATA
1 TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
*
8196761 TAGCTTATT-TATTTTATTAATACTTTGATGTATATATATA
1 TAGCTT-TTCTATTTTATAAATACTTTGATGTATATATATA
8196801 TA
1 TA
8196803 TTTTTCATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 12 0.32
39 7 0.19
40 18 0.49
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.56
Consensus pattern (40 bp):
TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
Found at i:8196813 original size:38 final size:37
Alignment explanation
Indices: 8196727--8196822 Score: 97
Period size: 40 Copynumber: 2.5 Consensus size: 37
8196717 AGAGGGTAGC
*
8196727 TTTTCTATTTTTAAATATTTGTTGTATATATATATAGCT
1 TTTTC-ATTTTTAAATATTTGATGTATATATATATA-CT
*
8196766 TATTT-ATTTTATTAATACTTTGATGTATATATATATA-T
1 T-TTTCATTTT-TAAATA-TTTGATGTATATATATATACT
*
8196804 TTTTCATTTTCCAAATATT
1 TTTTCATTTT-TAAATATT
8196823 ACTATATATA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
37 5 0.10
38 16 0.33
39 6 0.12
40 21 0.44
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.58
Consensus pattern (37 bp):
TTTTCATTTTTAAATATTTGATGTATATATATATACT
Found at i:8202037 original size:24 final size:25
Alignment explanation
Indices: 8201997--8202056 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 25
8201987 GGTAAGATAC
*
8201997 GTGTTAATTTCACTTGTGGAATTAT
1 GTGTTAATTTCACTTGTGGAAATAT
* *
8202022 GTGTTACTTT-ACTTGTGTAAATAT
1 GTGTTAATTTCACTTGTGGAAATAT
8202046 GTGTT-ATTTCA
1 GTGTTAATTTCA
8202057 TGAGATATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 3 0.10
24 18 0.60
25 9 0.30
ACGTcount: A:0.23, C:0.08, G:0.18, T:0.50
Consensus pattern (25 bp):
GTGTTAATTTCACTTGTGGAAATAT
Found at i:8202455 original size:33 final size:33
Alignment explanation
Indices: 8202411--8202732 Score: 286
Period size: 33 Copynumber: 9.9 Consensus size: 33
8202401 GTTATAAAAG
*
8202411 TTCTTGCCATGAAAGTTCATGTTATGATACAAT
1 TTCTTTCCATGAAAGTTCATGTTATGATACAAT
* * *
8202444 TTCTTTTCATGAAAGTTCATGTTGTGATACAAG
1 TTCTTTCCATGAAAGTTCATGTTATGATACAAT
*
8202477 TTCTTTCCATGAAAGTTC-----ATGATACAAG
1 TTCTTTCCATGAAAGTTCATGTTATGATACAAT
* * * * *
8202505 TACTTGCCATGAACGTTCATGTTAAGATACTAT
1 TTCTTTCCATGAAAGTTCATGTTATGATACAAT
* * * *
8202538 TTCTTACCATGGAAGTTCATGTTATGGTACAAG
1 TTCTTTCCATGAAAGTTCATGTTATGATACAAT
* *
8202571 TTCTTTCCGTGAAAGTTCATGTTATGATACAAG
1 TTCTTTCCATGAAAGTTCATGTTATGATACAAT
* * * *
8202604 TTCTTGCTATGAAAGTTCATGTTATGGTATTAACT
1 TTCTTTCCATGAAAGTTCATGTTATGATA-CAA-T
* * *
8202639 TT-TTGT-CATGACAGTTCATGTTATAATATAAGT
1 TTCTT-TCCATGAAAGTTCATGTTATGATACAA-T
* *
8202672 TT-TTGT-CATGAAAGTTCATGGTATGATAGAAT
1 TTCTT-TCCATGAAAGTTCATGTTATGATACAAT
*
8202704 TTCTTTCCATGAAAACTT-ATGTTATGATA
1 TTCTTTCCATG-AAAGTTCATGTTATGATA
8202733 TATTCATTAC
Statistics
Matches: 236, Mismatches: 42, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
28 24 0.10
32 4 0.02
33 179 0.76
34 27 0.11
35 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (33 bp):
TTCTTTCCATGAAAGTTCATGTTATGATACAAT
Found at i:8202514 original size:28 final size:28
Alignment explanation
Indices: 8202468--8202525 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
8202458 GTTCATGTTG
* *
8202468 TGATACAAGTTCTTTCCATGAAAGTTCA
1 TGATACAAGTACTTGCCATGAAAGTTCA
*
8202496 TGATACAAGTACTTGCCATGAACGTTCA
1 TGATACAAGTACTTGCCATGAAAGTTCA
8202524 TG
1 TG
8202526 TTAAGATACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (28 bp):
TGATACAAGTACTTGCCATGAAAGTTCA
Found at i:8202574 original size:94 final size:95
Alignment explanation
Indices: 8202408--8202688 Score: 298
Period size: 94 Copynumber: 2.9 Consensus size: 95
8202398 TATGTTATAA
* ** *
8202408 AAGTTCTTGCCATGAAAGTTCATGTTATGATACAATTTCTTTTCATGAAAGTTCATGTTGTGATA
1 AAGTTCTTGCCATGAAAGTTCATGTTAAGATACAATTTCTTACCATGAAAGTTCATGTTATGATA
8202473 CAAGTTCTTTCCATGAAAGTTC-ATGATAC
66 CAAGTTCTTTCCATGAAAGTTCTATGATAC
* * * * *
8202502 AAGTACTTGCCATGAACGTTCATGTTAAGATACTATTTCTTACCATGGAAGTTCATGTTATGGTA
1 AAGTTCTTGCCATGAAAGTTCATGTTAAGATACAATTTCTTACCATGAAAGTTCATGTTATGATA
*
8202567 CAAGTTCTTTCCGTGAAAGTTCATGTTATGATAC
66 CAAGTTCTTTCCATGAAAGTTC----TATGATAC
* * * * ** * *
8202601 AAGTTCTTGCTATGAAAGTTCATGTTATGGTATTAACTTT-TTGTCATGACAGTTCATGTTATAA
1 AAGTTCTTGCCATGAAAGTTCATGTTAAGATA-CAA-TTTCTTACCATGAAAGTTCATGTTATGA
* *
8202665 TATAAGTT-TTTGTCATGAAAGTTC
64 TACAAGTTCTTT-CCATGAAAGTTC
8202689 ATGGTATGAT
Statistics
Matches: 153, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
94 77 0.50
99 37 0.24
100 36 0.24
101 3 0.02
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (95 bp):
AAGTTCTTGCCATGAAAGTTCATGTTAAGATACAATTTCTTACCATGAAAGTTCATGTTATGATA
CAAGTTCTTTCCATGAAAGTTCTATGATAC
Found at i:8202629 original size:15 final size:15
Alignment explanation
Indices: 8202580--8202629 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
8202570 GTTCTTTCCG
8202580 TGAAAGTTCATGTTA
1 TGAAAGTTCATGTTA
* *
8202595 TGATACAAGTTCTTGCTA
1 TG--A-AAGTTCATGTTA
8202613 TGAAAGTTCATGTTA
1 TGAAAGTTCATGTTA
8202628 TG
1 TG
8202630 GTATTAACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 14 0.50
16 1 0.04
17 1 0.04
18 12 0.43
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (15 bp):
TGAAAGTTCATGTTA
Found at i:8208214 original size:22 final size:23
Alignment explanation
Indices: 8208175--8208236 Score: 83
Period size: 22 Copynumber: 2.7 Consensus size: 23
8208165 TTCCCCTGTG
8208175 GGGGGAATCGGTTCCCCTTCA-AA
1 GGGGGAATCGGTT-CCCTTCATAA
*
8208198 GGGGGAATCGGTTCCC-TCATGA
1 GGGGGAATCGGTTCCCTTCATAA
*
8208220 GGGGGGATCGGTTCCCT
1 GGGGGAATCGGTTCCCT
8208237 CTGCACCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 3 0.09
22 19 0.54
23 13 0.37
ACGTcount: A:0.16, C:0.24, G:0.37, T:0.23
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCTTCATAA
Found at i:8208237 original size:22 final size:22
Alignment explanation
Indices: 8208153--8208237 Score: 77
Period size: 22 Copynumber: 3.9 Consensus size: 22
8208143 ACAGAACCCC
* *
8208153 AGGGGGTATCGATTCCC-C-TG
1 AGGGGGGATCGGTTCCCTCATG
* *
8208173 TGGGGGGAATCGGTTCCCCTTCA-A
1 AGGGGGG-ATCGGTT-CCC-TCATG
*
8208197 AGGGGGAATCGGTTCCCTCATG
1 AGGGGGGATCGGTTCCCTCATG
8208219 AGGGGGGATCGGTTCCCTC
1 AGGGGGGATCGGTTCCCTC
8208238 TGCACCAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
20 5 0.10
21 9 0.18
22 24 0.47
23 7 0.14
24 6 0.12
ACGTcount: A:0.15, C:0.25, G:0.36, T:0.24
Consensus pattern (22 bp):
AGGGGGGATCGGTTCCCTCATG
Found at i:8222554 original size:2 final size:2
Alignment explanation
Indices: 8222547--8222619 Score: 146
Period size: 2 Copynumber: 36.5 Consensus size: 2
8222537 AGCTATATTC
8222547 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8222589 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
8222620 GCTATAATGA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8223126 original size:20 final size:20
Alignment explanation
Indices: 8223091--8223128 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8223081 CACCTATGGC
*
8223091 CACCTTATATCCAGCTCATT
1 CACCTTATAACCAGCTCATT
*
8223111 CACCTTATAACTAGCTCA
1 CACCTTATAACCAGCTCA
8223129 AACATGAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.34, G:0.05, T:0.32
Consensus pattern (20 bp):
CACCTTATAACCAGCTCATT
Found at i:8229711 original size:32 final size:32
Alignment explanation
Indices: 8229552--8229711 Score: 99
Period size: 32 Copynumber: 5.0 Consensus size: 32
8229542 AACACTAAAT
* * * *
8229552 ATTT-TTATAATTTTTTAGTGTGACTAAATAA
1 ATTTGTTACAATTTGTTATTGTGACAAAATAA
* *
8229583 TTTTGTTACAATTTGTTATTGTGA-AAGAATATT
1 ATTTGTTACAATTTGTTATTGTGACAA-AATA-A
* * ** * *
8229616 ATTTTTTACAATTTCTTATAATGAGAAATTAA
1 ATTTGTTACAATTTGTTATTGTGACAAAATAA
* * * **
8229648 TATTTGTTATAAATTGTTATTTTGATTAAATAA
1 -ATTTGTTACAATTTGTTATTGTGACAAAATAA
* * *
8229681 ATTTGTCACAATTTTTTATTTTGACAAAATA
1 ATTTGTTACAATTTGTTATTGTGACAAAATA
8229712 TTGGGACAAA
Statistics
Matches: 96, Mismatches: 28, Indels: 9
0.72 0.21 0.07
Matches are distributed among these distances:
31 4 0.04
32 45 0.47
33 45 0.47
34 2 0.02
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (32 bp):
ATTTGTTACAATTTGTTATTGTGACAAAATAA
Found at i:8229765 original size:24 final size:22
Alignment explanation
Indices: 8229734--8229778 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
8229724 AAATTTGACA
8229734 TAACTGTTTACTT-TGACTAAATT
1 TAACTG-TTA-TTGTGACTAAATT
8229757 TAACGTGTTATTGTGACTAAAT
1 TAAC-TGTTATTGTGACTAAAT
8229779 CACTTTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 2 0.10
23 16 0.80
24 2 0.10
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.44
Consensus pattern (22 bp):
TAACTGTTATTGTGACTAAATT
Found at i:8231554 original size:17 final size:17
Alignment explanation
Indices: 8231516--8231555 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
8231506 TATTACATGT
*
8231516 TATG-TGATATGTATTA
1 TATGATGATATGCATTA
8231532 -AT-ATGATATGCATTA
1 TATGATGATATGCATTA
8231547 TATGATGAT
1 TATGATGAT
8231556 GATTTGGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
15 13 0.65
16 2 0.10
17 5 0.25
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (17 bp):
TATGATGATATGCATTA
Found at i:8243284 original size:46 final size:46
Alignment explanation
Indices: 8243227--8243516 Score: 433
Period size: 46 Copynumber: 6.3 Consensus size: 46
8243217 TTCATTTATA
* * * *
8243227 CATTTAAATTATAGAAACCTTTCATGCCTTAATGCATCATTTCATG
1 CATTTTAATTATGGAATCCTTTCATGCCTTAATGCATCCTTTCATG
* *
8243273 CATTTTAATTATGGATTCCTTTCATGCCTTAATGAATCCTTTCATG
1 CATTTTAATTATGGAATCCTTTCATGCCTTAATGCATCCTTTCATG
* * *
8243319 CATTTTAATTCT-GACATCCTTTCATGCCTTAATGCCTCATTTCATG
1 CATTTTAATTATGGA-ATCCTTTCATGCCTTAATGCATCCTTTCATG
*
8243365 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTAATTATGGAATCCTTTCATGCCTTAATGCATCCTTTCATG
*
8243411 CATTTTAATTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTAATTATGGAATCCTTTCATGCCTTAATGCATCCTTTCATG
*
8243457 CATTTTAATTAT-GACATCCTTTCATGCC-TAGTGCATCCTTTCATG
1 CATTTTAATTATGGA-ATCCTTTCATGCCTTAATGCATCCTTTCATG
8243502 CATTTTAATTATGGA
1 CATTTTAATTATGGA
8243517 TCCAATTTAC
Statistics
Matches: 223, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
45 31 0.14
46 191 0.86
47 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.43
Consensus pattern (46 bp):
CATTTTAATTATGGAATCCTTTCATGCCTTAATGCATCCTTTCATG
Found at i:8243916 original size:20 final size:22
Alignment explanation
Indices: 8243891--8243936 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
8243881 TTAATAGTAT
*
8243891 CGATACTACTA-CCT-TGGTAC
1 CGATACTACTATACTATGGTAC
*
8243911 CGATACTTCTATACTATGGTAC
1 CGATACTACTATACTATGGTAC
8243933 CGAT
1 CGAT
8243937 TCCCCTTCGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 2 0.09
22 10 0.45
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (22 bp):
CGATACTACTATACTATGGTAC
Found at i:8245243 original size:55 final size:55
Alignment explanation
Indices: 8245157--8245282 Score: 180
Period size: 55 Copynumber: 2.3 Consensus size: 55
8245147 TGTATATTGG
* ** *
8245157 GATTGTACTAAAGTATTAGTGTATATAGTGGGCACAACCTTATGTGTCATATTCGA
1 GATTGCACT-AAGTATTAGTACATATAGTGGGCACAACCTTAAGTGTCATATTCGA
*
8245213 GATTGCACTAAGTATTAGTACATATGGTGGGCACAACCTTAAGTGTCATATTCGA
1 GATTGCACTAAGTATTAGTACATATAGTGGGCACAACCTTAAGTGTCATATTCGA
* *
8245268 GACTACACTAAGTAT
1 GATTGCACTAAGTAT
8245283 AACTAGTGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 55 0.87
56 8 0.13
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.33
Consensus pattern (55 bp):
GATTGCACTAAGTATTAGTACATATAGTGGGCACAACCTTAAGTGTCATATTCGA
Done.