Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 17 of 161
Found at i:5769161 original size:52 final size:52
Alignment explanation
Indices: 5769015--5769177 Score: 157
Period size: 52 Copynumber: 3.1 Consensus size: 52
5769005 AAGCAGAACC
* * * * * *
5769015 TTGAACCAGTGGTTATTTAGCAGGCTTTAAGTCAGTGATTATTTAGCAGGCC
1 TTGAGCCAGTGGTTATTTAGCAGACATTGAGTAAGTGATTATTTAGCAGGCT
* * * * * *
5769067 TCGAGCTAATGGTTATTTAGCAAACATTGAG-ACGATGTTTATTTAGCAGGCT
1 TTGAGCCAGTGGTTATTTAGCAGACATTGAGTAAG-TGATTATTTAGCAGGCT
* * ** *
5769119 TTGAGCCAGTGTTTATTTAGCAGACCTTGAGTTTGTGGTTATTTAGCAGGCT
1 TTGAGCCAGTGGTTATTTAGCAGACATTGAGTAAGTGATTATTTAGCAGGCT
5769171 TTGAGCC
1 TTGAGCC
5769178 GGTGTATATT
Statistics
Matches: 88, Mismatches: 21, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
51 1 0.01
52 86 0.98
53 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (52 bp):
TTGAGCCAGTGGTTATTTAGCAGACATTGAGTAAGTGATTATTTAGCAGGCT
Found at i:5769187 original size:26 final size:25
Alignment explanation
Indices: 5769015--5769194 Score: 119
Period size: 26 Copynumber: 6.9 Consensus size: 25
5769005 AAGCAGAACC
*
5769015 TTGAACCAGTGGTTATTTAGCAGGCT
1 TTGAGCCAGT-GTTATTTAGCAGGCT
* * *
5769041 TTAAGTCAGTGATTATTTAGCAGGCC
1 TTGAGCCAGTG-TTATTTAGCAGGCT
* * * ** *
5769067 TCGAGCTAATGGTTATTTAGCAAACA
1 TTGAGCCAGT-GTTATTTAGCAGGCT
*
5769093 TTGAGAC-GATGTTTATTTAGCAGGCT
1 TTGAGCCAG-TG-TTATTTAGCAGGCT
* *
5769119 TTGAGCCAGTGTTTATTTAGCAGACC
1 TTGAGCCAGTG-TTATTTAGCAGGCT
***
5769145 TTGAGTTTGTGGTTATTTAGCAGGCT
1 TTGAGCCAGT-GTTATTTAGCAGGCT
* *
5769171 TTGAGCCGGTGTATATTTATCAGG
1 TTGAGCCAGTGT-TATTTAGCAGG
5769195 TACTATGTAT
Statistics
Matches: 116, Mismatches: 31, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
25 4 0.03
26 109 0.94
27 3 0.03
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.37
Consensus pattern (25 bp):
TTGAGCCAGTGTTATTTAGCAGGCT
Found at i:5769188 original size:78 final size:78
Alignment explanation
Indices: 5769028--5769194 Score: 199
Period size: 78 Copynumber: 2.1 Consensus size: 78
5769018 AACCAGTGGT
* *
5769028 TATTTAGCAGGCTTTAAGTCAGTGATTATTTAGCAGGCCTCGAGCTAATGGTTATTTAGCAAACA
1 TATTTAGCAGGCTTTAAGCCAGTGATTATTTAGCAGACCTCGAGCTAATGGTTATTTAGCAAACA
*
5769093 TTGAGACGATGTT
66 TTGAGACGATGTA
* * * * ** ** *
5769106 TATTTAGCAGGCTTTGAGCCAGTGTTTATTTAGCAGACCTTGAGTTTGTGGTTATTTAGCAGGCT
1 TATTTAGCAGGCTTTAAGCCAGTGATTATTTAGCAGACCTCGAGCTAATGGTTATTTAGCAAACA
* *
5769171 TTGAGCCGGTGTA
66 TTGAGACGATGTA
*
5769184 TATTTATCAGG
1 TATTTAGCAGG
5769195 TACTATGTAT
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (78 bp):
TATTTAGCAGGCTTTAAGCCAGTGATTATTTAGCAGACCTCGAGCTAATGGTTATTTAGCAAACA
TTGAGACGATGTA
Found at i:5774120 original size:23 final size:24
Alignment explanation
Indices: 5774094--5774138 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
5774084 CCTTTTTTAT
5774094 AAATAT-TATTTATTTAAATTAAC
1 AAATATATATTTATTTAAATTAAC
* *
5774117 AAATATATGTTTTTTTAAATTA
1 AAATATATATTTATTTAAATTA
5774139 TGATTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
AAATATATATTTATTTAAATTAAC
Found at i:5774329 original size:27 final size:26
Alignment explanation
Indices: 5774298--5774355 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
5774288 AATTCATACA
* *
5774298 TTTTTCATGCACATTAATTTATTTAG
1 TTTTTCATGAACATTAAATTATTTAG
* * *
5774324 TGTTTTGATGAACTTTAAATTCTTTAG
1 T-TTTTCATGAACATTAAATTATTTAG
5774351 TTTTT
1 TTTTT
5774356 AAGTGTTAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.24, C:0.09, G:0.10, T:0.57
Consensus pattern (26 bp):
TTTTTCATGAACATTAAATTATTTAG
Found at i:5782195 original size:18 final size:18
Alignment explanation
Indices: 5782159--5782202 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
5782149 ACCTTTGCCA
*
5782159 TCTTCTTCCGGATCTTCT
1 TCTTCTTCCGGATCCTCT
* *
5782177 TCTTCTTCGGGGTCCTCT
1 TCTTCTTCCGGATCCTCT
*
5782195 TCATCTTC
1 TCTTCTTC
5782203 TTTTGGATCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.05, C:0.34, G:0.14, T:0.48
Consensus pattern (18 bp):
TCTTCTTCCGGATCCTCT
Found at i:5785488 original size:6 final size:6
Alignment explanation
Indices: 5785477--5785509 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
5785467 AAAAATTGAG
5785477 ATGGAA ATGGAA ATGGAA ATGGAA ATGGAA ATG
1 ATGGAA ATGGAA ATGGAA ATGGAA ATGGAA ATG
5785510 ATCTATTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.18
Consensus pattern (6 bp):
ATGGAA
Found at i:5786047 original size:32 final size:31
Alignment explanation
Indices: 5785997--5786059 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 31
5785987 TTCTCTTCTT
*
5785997 ATAAATAATGGTATTGGTAAAGCTATTAACA
1 ATAAATAATGGCATTGGTAAAGCTATTAACA
*
5786028 ATAAATAGATGGCATTGGTAGAGCTATTAACA
1 ATAAATA-ATGGCATTGGTAAAGCTATTAACA
5786060 CAATTTTGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 7 0.24
32 22 0.76
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.30
Consensus pattern (31 bp):
ATAAATAATGGCATTGGTAAAGCTATTAACA
Found at i:5786730 original size:21 final size:20
Alignment explanation
Indices: 5786691--5786730 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
5786681 TGAAAAGAAG
**
5786691 AAATAAATAAATTTAGTAAT
1 AAATAAATAAAAATAGTAAT
5786711 AAATAAATCAAAAATAGTAA
1 AAATAAAT-AAAAATAGTAA
5786731 AAGAAGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (20 bp):
AAATAAATAAAAATAGTAAT
Found at i:5786774 original size:24 final size:24
Alignment explanation
Indices: 5786746--5786791 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
5786736 GAAATTTGAG
*
5786746 AATAAAAAATAAATAAAAATTACA
1 AATAAAAAAGAAATAAAAATTACA
* *
5786770 AATAAATAAGAAATAGAAATTA
1 AATAAAAAAGAAATAAAAATTA
5786792 AAAAAGAACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (24 bp):
AATAAAAAAGAAATAAAAATTACA
Found at i:5796403 original size:40 final size:40
Alignment explanation
Indices: 5796340--5796421 Score: 121
Period size: 40 Copynumber: 2.0 Consensus size: 40
5796330 AGTCTTGTTG
* *
5796340 TCATTAACTTCTACAGCTCCATGAGGATAAACATGAACTA
1 TCATTAACTTCTAAACCTCCATGAGGATAAACATGAACTA
*
5796380 TCATTAACTTCTATAACCT-CATGAGGATAAACATGCACTA
1 TCATTAACTTCTA-AACCTCCATGAGGATAAACATGAACTA
5796420 TC
1 TC
5796422 TCAAATGGGC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 35 0.92
41 3 0.08
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (40 bp):
TCATTAACTTCTAAACCTCCATGAGGATAAACATGAACTA
Found at i:5802172 original size:40 final size:39
Alignment explanation
Indices: 5802141--5802350 Score: 251
Period size: 40 Copynumber: 5.3 Consensus size: 39
5802131 GGACTAAGAT
* *
5802141 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
5802181 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
5802221 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* *
5802261 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
5802301 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
5802340 CCGAAGGCATT
1 CCGAAGGCATT
5802351 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 33 0.21
40 120 0.77
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:5802304 original size:120 final size:120
Alignment explanation
Indices: 5802088--5802350 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
5802078 TTGAATGCTG
* *
5802088 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
5802152 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
5802208 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
5802271 TCGTGCGAGTTATTAAA-TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
5802327 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
5802351 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 38 0.31
120 75 0.61
121 9 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:5802370 original size:79 final size:80
Alignment explanation
Indices: 5802089--5802385 Score: 239
Period size: 80 Copynumber: 3.7 Consensus size: 80
5802079 TGAATGCTGT
* ** * * * **
5802089 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
5802152 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
5802169 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
5802233 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * *
5802249 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
5802313 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
5802328 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
5802386 TACGTGATTT
Statistics
Matches: 185, Mismatches: 26, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
78 16 0.09
79 47 0.25
80 111 0.60
81 11 0.06
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:5810122 original size:40 final size:39
Alignment explanation
Indices: 5810091--5810300 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
5810081 GGACTAAGAT
* *
5810091 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
5810131 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
5810171 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
5810211 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
5810251 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
5810290 CCGAAGGCATT
1 CCGAAGGCATT
5810301 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:5810254 original size:120 final size:120
Alignment explanation
Indices: 5810038--5810300 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
5810028 TTGAATGCTG
* *
5810038 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
5810102 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
5810158 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
5810221 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
5810277 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
5810301 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:5810320 original size:79 final size:80
Alignment explanation
Indices: 5810039--5810335 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
5810029 TGAATGCTGT
* ** * * * **
5810039 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
5810102 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
5810119 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
5810183 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
5810199 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
5810263 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
5810278 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
5810336 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:5816958 original size:17 final size:17
Alignment explanation
Indices: 5816936--5816971 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
5816926 GAGCTAAAAA
*
5816936 TTGTTATATGTCTATTT
1 TTGTTATATATCTATTT
*
5816953 TTGTTATATATTTATTT
1 TTGTTATATATCTATTT
5816970 TT
1 TT
5816972 AAAAATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.08, T:0.69
Consensus pattern (17 bp):
TTGTTATATATCTATTT
Found at i:5816983 original size:17 final size:17
Alignment explanation
Indices: 5816958--5816998 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
5816948 TATTTTTGTT
* *
5816958 ATATATTTATTTTTAAAA
1 ATAT-TTTATTATAAAAA
5816976 ATATTTTATTATAAAAA
1 ATATTTTATTATAAAAA
5816993 ATATTT
1 ATATTT
5816999 GGTGCACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATTTTATTATAAAAA
Found at i:5817699 original size:17 final size:16
Alignment explanation
Indices: 5817679--5817714 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
5817669 GCTAGCCCAA
5817679 AATTATAACCCAAACCT
1 AATTA-AACCCAAACCT
*
5817696 AATTAAGCCCAAACCT
1 AATTAAACCCAAACCT
5817712 AAT
1 AAT
5817715 CTGACCCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.47, C:0.28, G:0.03, T:0.22
Consensus pattern (16 bp):
AATTAAACCCAAACCT
Found at i:5822154 original size:41 final size:41
Alignment explanation
Indices: 5822097--5822176 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
5822087 AACTGAGGTT
5822097 CAATATAAAAACAAAACCCAAATTCTAAGTCTAATGCCATG
1 CAATATAAAAACAAAACCCAAATTCTAAGTCTAATGCCATG
*
5822138 CAATATAAAAACAAAACTCAAATTCTAAGTCTAATGCCA
1 CAATATAAAAACAAAACCCAAATTCTAAGTCTAATGCCA
5822177 CAGTTCAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.50, C:0.21, G:0.06, T:0.23
Consensus pattern (41 bp):
CAATATAAAAACAAAACCCAAATTCTAAGTCTAATGCCATG
Found at i:5822569 original size:14 final size:14
Alignment explanation
Indices: 5822550--5822580 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
5822540 CCTAGAATTC
5822550 CTCCAACCATAACA
1 CTCCAACCATAACA
5822564 CTCCAACCATAACA
1 CTCCAACCATAACA
5822578 CTC
1 CTC
5822581 TAGTTTGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.16
Consensus pattern (14 bp):
CTCCAACCATAACA
Found at i:5823841 original size:60 final size:61
Alignment explanation
Indices: 5823731--5823849 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 61
5823721 AGAAACGAGT
*
5823731 CAAATAGAAATCAGTTTCGGGATGCAAAAAATAATTTCAACAATAAGAGAATATATTTTTA
1 CAAACAGAAATCAGTTTCGGGATGCAAAAAATAATTTCAACAATAAGAGAATATATTTTTA
5823792 CAAACAGAAATCAGTTTCGGGATGC-AAAAATAATTTCAACAATAAGAGAATATATTTT
1 CAAACAGAAATCAGTTTCGGGATGCAAAAAATAATTTCAACAATAAGAGAATATATTTT
5823850 AATGTAAAAG
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
60 33 0.58
61 24 0.42
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (61 bp):
CAAACAGAAATCAGTTTCGGGATGCAAAAAATAATTTCAACAATAAGAGAATATATTTTTA
Found at i:5829008 original size:21 final size:19
Alignment explanation
Indices: 5828962--5829016 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
5828952 TGTCAAAAAT
5828962 AATTAAAAT--AAGTAATAA
1 AATTAAAATAAAAG-AATAA
5828980 AATTAAAATAAAAGAATAA
1 AATTAAAATAAAAGAATAA
*
5828999 AAGGTTAAAATATAAGAA
1 AA--TTAAAATAAAAGAA
5829017 AACATAATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
18 9 0.28
19 7 0.22
20 3 0.09
21 13 0.41
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (19 bp):
AATTAAAATAAAAGAATAA
Found at i:5829608 original size:40 final size:40
Alignment explanation
Indices: 5829460--5829623 Score: 176
Period size: 39 Copynumber: 4.2 Consensus size: 40
5829450 GCGTTATACT
* *
5829460 TTCTGTTTGGCATGA-TTCGGGTGGATC-GACTCTTATGAGC
1 TTCTATTTGGCAT-ACTTCGGGTGGACCAG-CTCTTATGAGC
** *
5829500 TT-T-TGTTGGGGTGCTTCGGGTGGACCAGCTCTTATGAGC
1 TTCTAT-TTGGCATACTTCGGGTGGACCAGCTCTTATGAGC
**
5829539 TTCTA-TTGGTGTACTTCGGGTGGACCAGCTCTTATGAGC
1 TTCTATTTGGCATACTTCGGGTGGACCAGCTCTTATGAGC
* * *
5829578 TTCTATTTGGCATATTTCGGTTGGATCAGCTCTTATGAGC
1 TTCTATTTGGCATACTTCGGGTGGACCAGCTCTTATGAGC
5829618 TTCTAT
1 TTCTAT
5829624 CTGGTGTGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 12
0.82 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 67 0.63
40 39 0.36
ACGTcount: A:0.15, C:0.18, G:0.28, T:0.39
Consensus pattern (40 bp):
TTCTATTTGGCATACTTCGGGTGGACCAGCTCTTATGAGC
Found at i:5830848 original size:18 final size:18
Alignment explanation
Indices: 5830827--5830865 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
5830817 TTGTTAGATT
5830827 TTGATTTTTAGGATTGAA
1 TTGATTTTTAGGATTGAA
5830845 TTGATTTTTAGGATTGAA
1 TTGATTTTTAGGATTGAA
5830863 TTG
1 TTG
5830866 TGAAAATGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (18 bp):
TTGATTTTTAGGATTGAA
Found at i:5831469 original size:21 final size:21
Alignment explanation
Indices: 5831451--5831525 Score: 116
Period size: 21 Copynumber: 3.6 Consensus size: 21
5831441 TTAGCTCTTT
5831451 CGAGCTTTTGTTCAGCTCTCA
1 CGAGCTTTTGTTCAGCTCTCA
5831472 CGAGCTTTTG-TCTAGCTCTCA
1 CGAGCTTTTGTTC-AGCTCTCA
5831493 CGAGCTTTTGTTCAGCTCTCA
1 CGAGCTTTTGTTCAGCTCTCA
* *
5831514 TGAGTTTTTGTT
1 CGAGCTTTTGTT
5831526 GGCGTGTTCG
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 2 0.04
21 46 0.92
22 2 0.04
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (21 bp):
CGAGCTTTTGTTCAGCTCTCA
Found at i:5831501 original size:42 final size:42
Alignment explanation
Indices: 5831442--5831524 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
5831432 TTGGGTAAAT
**
5831442 TAGCTCTTTCGAGCTTTTGTTCAGCTCTCACGAGCTTTTGTC
1 TAGCTCTCACGAGCTTTTGTTCAGCTCTCACGAGCTTTTGTC
* *
5831484 TAGCTCTCACGAGCTTTTGTTCAGCTCTCATGAGTTTTTGT
1 TAGCTCTCACGAGCTTTTGTTCAGCTCTCACGAGCTTTTGT
5831525 TGGCGTGTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.43
Consensus pattern (42 bp):
TAGCTCTCACGAGCTTTTGTTCAGCTCTCACGAGCTTTTGTC
Found at i:5832614 original size:20 final size:21
Alignment explanation
Indices: 5832589--5832627 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
5832579 CTTAGAGTCC
*
5832589 AAAATTTTCAAAT-TTTTCCT
1 AAAATTTCCAAATGTTTTCCT
5832609 AAAATTTCCAAATGTTTTC
1 AAAATTTCCAAATGTTTTC
5832628 GATTTAGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.36, C:0.15, G:0.03, T:0.46
Consensus pattern (21 bp):
AAAATTTCCAAATGTTTTCCT
Found at i:5839360 original size:51 final size:50
Alignment explanation
Indices: 5839235--5839381 Score: 246
Period size: 47 Copynumber: 3.0 Consensus size: 50
5839225 TGTTCCCCTA
*
5839235 AATTCCTTCTACTTTCCTCACTTACTTGATGACCACATTTAAAGATTTCT
1 AATTCCTTCTACTTTCCTCACTTAGTTGATGACCACATTTAAAGATTTCT
*
5839285 AA---CTTCTACTTTCCTCACTTAGTTGATGATCACATTTAAAGATTTCT
1 AATTCCTTCTACTTTCCTCACTTAGTTGATGACCACATTTAAAGATTTCT
5839332 AACTTCCTTCTACTTTCCTCACTTAGTTGATGACCACATTTAAAGATTTC
1 AA-TTCCTTCTACTTTCCTCACTTAGTTGATGACCACATTTAAAGATTTC
5839382 AATCTCATAA
Statistics
Matches: 90, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
47 45 0.50
50 2 0.02
51 43 0.48
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.41
Consensus pattern (50 bp):
AATTCCTTCTACTTTCCTCACTTAGTTGATGACCACATTTAAAGATTTCT
Found at i:5841786 original size:22 final size:22
Alignment explanation
Indices: 5841761--5841809 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
5841751 TCTTGTATTT
*
5841761 AAATCTCATTTACTCTTTCACG
1 AAATCTCATTTACTCTTTAACG
*
5841783 AAATCTCATTTACTCTTTAATG
1 AAATCTCATTTACTCTTTAACG
5841805 AAATC
1 AAATC
5841810 ATTAATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (22 bp):
AAATCTCATTTACTCTTTAACG
Found at i:5841816 original size:12 final size:12
Alignment explanation
Indices: 5841799--5841827 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
5841789 CATTTACTCT
5841799 TTAATGAAATCA
1 TTAATGAAATCA
5841811 TTAATGAAATCA
1 TTAATGAAATCA
5841823 TTAAT
1 TTAAT
5841828 TTCCTTTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (12 bp):
TTAATGAAATCA
Found at i:5843057 original size:25 final size:25
Alignment explanation
Indices: 5842886--5843053 Score: 169
Period size: 25 Copynumber: 6.8 Consensus size: 25
5842876 AGATAACATG
*
5842886 CCACAAAGGCTTTCCAGAGGATTCA
1 CCACAAAGGCTTTCTAGAGGATTCA
* * **
5842911 CCA-TAAGGCTTTCCAGAGGATTTG
1 CCACAAAGGCTTTCTAGAGGATTCA
* * * *
5842935 CCAAAAATGCTTTTTAGAGGATTCT
1 CCACAAAGGCTTTCTAGAGGATTCA
* * *
5842960 CCATAAAGGATTT-TCAGAGGATTCT
1 CCACAAAGGCTTTCT-AGAGGATTCA
* *
5842985 CCAAAAAGGCTTTCGAGAGGATTCA
1 CCACAAAGGCTTTCTAGAGGATTCA
* *
5843010 CCACAATGGCTTTCTAGAGAATTCA
1 CCACAAAGGCTTTCTAGAGGATTCA
5843035 CCACAAAGGCTTTCTAGAG
1 CCACAAAGGCTTTCTAGAG
5843054 AATTATGTGT
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
24 22 0.18
25 97 0.82
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (25 bp):
CCACAAAGGCTTTCTAGAGGATTCA
Found at i:5844179 original size:320 final size:320
Alignment explanation
Indices: 5843597--5844815 Score: 1744
Period size: 320 Copynumber: 3.9 Consensus size: 320
5843587 GTCTTGTGAC
5843597 ACCCTTCCCTTCTGTAACTGTAATGTGCAAAGCTTGAAGACTTACTAGAAGACAGAATCATCTAT
1 ACCCTTCCCTTCTGTAACTGTAATGTGCAAAGCTTGAAGACTTACTAGAAGACAGAATCATCTAT
*
5843662 GCATTAGACGAGATCTTAGTCTAATATTAATGAAGAATAAAAAGCAAGTGTTAAGGTTAGAAAGA
66 GCATTAGACGAGATCTTAGTCTGATATTAATGAAGAATAAAAAGCAAGTGTTAAGGTTAGAAAGA
5843727 AAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAATGTTACCTTCCCATAAATATACTCTC
131 AAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAATGTTACCTTCCCATAAATATACTCTC
5843792 AGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAAGAAAATCTGGTGAAGGTTTCACTTT
196 AGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAAGAAAATCTGGTGAAGGTTTCACTTT
5843857 CTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTTGAAGACTTACTAGAAGGGAG
261 CTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTTGAAGACTTACTAGAAGGGAG
5843917 ACCCTTCCCTTCTGTAACTGTAATGTGCAAAGCTTGAAGACTTACTAGAAGACAGAATCATCTAT
1 ACCCTTCCCTTCTGTAACTGTAATGTGCAAAGCTTGAAGACTTACTAGAAGACAGAATCATCTAT
5843982 GCATTAGACGAGATCTTAGTCTGATATTAATGAAGAATAAAAAGCAAGTGTTAAGGTTAGAAAGA
66 GCATTAGACGAGATCTTAGTCTGATATTAATGAAGAATAAAAAGCAAGTGTTAAGGTTAGAAAGA
5844047 AAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAATGTTACCTTCCCATAAATATACTCTC
131 AAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAATGTTACCTTCCCATAAATATACTCTC
5844112 AGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAAGAAAATCTGGTGAAGGTTTCACTTT
196 AGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAAGAAAATCTGGTGAAGGTTTCACTTT
5844177 CTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTTGAAGACTTACTAGAAGGGAG
261 CTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTTGAAGACTTACTAGAAGGGAG
* * * * * * * * ** * **
5844237 ---CTT-AC-T-AGAAGACAG-AATCAT-CTATGCATTAGACGAGATCTTAGTCTAATA-TTAAT
1 ACCCTTCCCTTCTGTA-ACTGTAAT-GTGCAAAGC-TT-GA--AGA-CTTACTAGAAGACAGAAT
* *** * ** * * * ***
5844293 GAAGAAT-AAAAAG-CAAG-TGTTGAGGT-T-AGA--AA-GAAGAACCTAAA-C-A---TTAA-G
59 CATCTATGCATTAGACGAGATCTT-A-GTCTGATATTAATGAAGAATAAAAAGCAAGTGTTAAGG
* *
5844344 -TAGAAAGAAAAA-C----C--------------------ATCTGAAATGGTACCCTCCCATAAA
122 TTAGAAAGAAAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAATGTTACCTTCCCATAAA
5844383 TATACTCTCAGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAAGAAAATCTGGTGAAGG
187 TATACTCTCAGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAAGAAAATCTGGTGAAGG
5844448 TTTCACTTTCTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTTGAAGACTTACTAGAAG
252 TTTCACTTTCTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTTGAAGACTTACTAGAAG
5844513 GGAG
317 GGAG
5844517 ACCCTTCCCTTCTGTAACTGTAATGTGCAAAGCTTGAAGACTTACTAGAAGACAGAATCATCTAT
1 ACCCTTCCCTTCTGTAACTGTAATGTGCAAAGCTTGAAGACTTACTAGAAGACAGAATCATCTAT
5844582 GCATTAGACGAGATCTTAGTCTGATATTAATGAAGAATAAAAAGCAAGTGTTAAGGTTAGAAAGA
66 GCATTAGACGAGATCTTAGTCTGATATTAATGAAGAATAAAAAGCAAGTGTTAAGGTTAGAAAGA
5844647 AAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAATGTTACCTTCCCATAAATATACTCTC
131 AAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAATGTTACCTTCCCATAAATATACTCTC
5844712 AGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAAGAAAATCTGGTGAAGGTTTCACTTT
196 AGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAAGAAAATCTGGTGAAGGTTTCACTTT
*
5844777 CTGTTGACCAGTCAGGGAGAGGCTCAAATTAATCTAATT
261 CTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATT
5844816 GACTACTGTA
Statistics
Matches: 783, Mismatches: 58, Indels: 116
0.82 0.06 0.12
Matches are distributed among these distances:
280 157 0.20
281 8 0.01
282 9 0.01
283 8 0.01
284 8 0.01
285 12 0.02
286 9 0.01
287 2 0.00
288 9 0.01
289 1 0.00
290 1 0.00
293 4 0.01
294 1 0.00
295 12 0.02
296 1 0.00
300 2 0.00
304 1 0.00
305 12 0.02
306 1 0.00
307 4 0.01
310 1 0.00
311 1 0.00
312 9 0.01
313 2 0.00
314 9 0.01
315 12 0.02
316 8 0.01
317 8 0.01
318 9 0.01
319 8 0.01
320 454 0.58
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (320 bp):
ACCCTTCCCTTCTGTAACTGTAATGTGCAAAGCTTGAAGACTTACTAGAAGACAGAATCATCTAT
GCATTAGACGAGATCTTAGTCTGATATTAATGAAGAATAAAAAGCAAGTGTTAAGGTTAGAAAGA
AAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAATGTTACCTTCCCATAAATATACTCTC
AGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAAGAAAATCTGGTGAAGGTTTCACTTT
CTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTTGAAGACTTACTAGAAGGGAG
Found at i:5844458 original size:280 final size:280
Alignment explanation
Indices: 5843957--5844516 Score: 1075
Period size: 280 Copynumber: 2.0 Consensus size: 280
5843947 AGCTTGAAGA
*
5843957 CTTACTAGAAGACAGAATCATCTATGCATTAGACGAGATCTTAGTCTGATATTAATGAAGAATAA
1 CTTACTAGAAGACAGAATCATCTATGCATTAGACGAGATCTTAGTCTAATATTAATGAAGAATAA
5844022 AAAGCAAGTGTTAAGGTTAGAAAGAAAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAAT
66 AAAGCAAGTGTTAAGGTTAGAAAGAAAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAAT
* *
5844087 GTTACCTTCCCATAAATATACTCTCAGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAA
131 GGTACCCTCCCATAAATATACTCTCAGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAA
5844152 GAAAATCTGGTGAAGGTTTCACTTTCTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTT
196 GAAAATCTGGTGAAGGTTTCACTTTCTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTT
5844217 GAAGACTTACTAGAAGGGAG
261 GAAGACTTACTAGAAGGGAG
5844237 CTTACTAGAAGACAGAATCATCTATGCATTAGACGAGATCTTAGTCTAATATTAATGAAGAATAA
1 CTTACTAGAAGACAGAATCATCTATGCATTAGACGAGATCTTAGTCTAATATTAATGAAGAATAA
* *
5844302 AAAGCAAGTGTTGAGGTTAGAAAGAAGAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAAT
66 AAAGCAAGTGTTAAGGTTAGAAAGAAAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAAT
5844367 GGTACCCTCCCATAAATATACTCTCAGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAA
131 GGTACCCTCCCATAAATATACTCTCAGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAA
5844432 GAAAATCTGGTGAAGGTTTCACTTTCTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTT
196 GAAAATCTGGTGAAGGTTTCACTTTCTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTT
5844497 GAAGACTTACTAGAAGGGAG
261 GAAGACTTACTAGAAGGGAG
5844517 ACCCTTCCCT
Statistics
Matches: 275, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
280 275 1.00
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.25
Consensus pattern (280 bp):
CTTACTAGAAGACAGAATCATCTATGCATTAGACGAGATCTTAGTCTAATATTAATGAAGAATAA
AAAGCAAGTGTTAAGGTTAGAAAGAAAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAAT
GGTACCCTCCCATAAATATACTCTCAGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAA
GAAAATCTGGTGAAGGTTTCACTTTCTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTT
GAAGACTTACTAGAAGGGAG
Found at i:5844777 original size:600 final size:600
Alignment explanation
Indices: 5843637--5844815 Score: 2313
Period size: 600 Copynumber: 2.0 Consensus size: 600
5843627 AGCTTGAAGA
5843637 CTTACTAGAAGACAGAATCATCTATGCATTAGACGAGATCTTAGTCTAATATTAATGAAGAATAA
1 CTTACTAGAAGACAGAATCATCTATGCATTAGACGAGATCTTAGTCTAATATTAATGAAGAATAA
5843702 AAAGCAAGTGTTAAGGTTAGAAAGAAAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAAT
66 AAAGCAAGTGTTAAGGTTAGAAAGAAAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAAT
* *
5843767 GTTACCTTCCCATAAATATACTCTCAGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAA
131 GGTACCCTCCCATAAATATACTCTCAGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAA
5843832 GAAAATCTGGTGAAGGTTTCACTTTCTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTT
196 GAAAATCTGGTGAAGGTTTCACTTTCTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTT
5843897 GAAGACTTACTAGAAGGGAGACCCTTCCCTTCTGTAACTGTAATGTGCAAAGCTTGAAGACTTAC
261 GAAGACTTACTAGAAGGGAGACCCTTCCCTTCTGTAACTGTAATGTGCAAAGCTTGAAGACTTAC
5843962 TAGAAGACAGAATCATCTATGCATTAGACGAGATCTTAGTCTGATATTAATGAAGAATAAAAAGC
326 TAGAAGACAGAATCATCTATGCATTAGACGAGATCTTAGTCTGATATTAATGAAGAATAAAAAGC
5844027 AAGTGTTAAGGTTAGAAAGAAAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAATGTTAC
391 AAGTGTTAAGGTTAGAAAGAAAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAATGTTAC
5844092 CTTCCCATAAATATACTCTCAGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAAGAAAA
456 CTTCCCATAAATATACTCTCAGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAAGAAAA
5844157 TCTGGTGAAGGTTTCACTTTCTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTTGAAGA
521 TCTGGTGAAGGTTTCACTTTCTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTTGAAGA
5844222 CTTACTAGAAGGGAG
586 CTTACTAGAAGGGAG
5844237 CTTACTAGAAGACAGAATCATCTATGCATTAGACGAGATCTTAGTCTAATATTAATGAAGAATAA
1 CTTACTAGAAGACAGAATCATCTATGCATTAGACGAGATCTTAGTCTAATATTAATGAAGAATAA
* *
5844302 AAAGCAAGTGTTGAGGTTAGAAAGAAGAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAAT
66 AAAGCAAGTGTTAAGGTTAGAAAGAAAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAAT
5844367 GGTACCCTCCCATAAATATACTCTCAGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAA
131 GGTACCCTCCCATAAATATACTCTCAGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAA
5844432 GAAAATCTGGTGAAGGTTTCACTTTCTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTT
196 GAAAATCTGGTGAAGGTTTCACTTTCTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTT
5844497 GAAGACTTACTAGAAGGGAGACCCTTCCCTTCTGTAACTGTAATGTGCAAAGCTTGAAGACTTAC
261 GAAGACTTACTAGAAGGGAGACCCTTCCCTTCTGTAACTGTAATGTGCAAAGCTTGAAGACTTAC
5844562 TAGAAGACAGAATCATCTATGCATTAGACGAGATCTTAGTCTGATATTAATGAAGAATAAAAAGC
326 TAGAAGACAGAATCATCTATGCATTAGACGAGATCTTAGTCTGATATTAATGAAGAATAAAAAGC
5844627 AAGTGTTAAGGTTAGAAAGAAAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAATGTTAC
391 AAGTGTTAAGGTTAGAAAGAAAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAATGTTAC
5844692 CTTCCCATAAATATACTCTCAGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAAGAAAA
456 CTTCCCATAAATATACTCTCAGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAAGAAAA
*
5844757 TCTGGTGAAGGTTTCACTTTCTGTTGACCAGTCAGGGAGAGGCTCAAATTAATCTAATT
521 TCTGGTGAAGGTTTCACTTTCTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATT
5844816 GACTACTGTA
Statistics
Matches: 574, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
600 574 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (600 bp):
CTTACTAGAAGACAGAATCATCTATGCATTAGACGAGATCTTAGTCTAATATTAATGAAGAATAA
AAAGCAAGTGTTAAGGTTAGAAAGAAAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAAT
GGTACCCTCCCATAAATATACTCTCAGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAA
GAAAATCTGGTGAAGGTTTCACTTTCTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTT
GAAGACTTACTAGAAGGGAGACCCTTCCCTTCTGTAACTGTAATGTGCAAAGCTTGAAGACTTAC
TAGAAGACAGAATCATCTATGCATTAGACGAGATCTTAGTCTGATATTAATGAAGAATAAAAAGC
AAGTGTTAAGGTTAGAAAGAAAAACCTAAACATTAAGTAGAAAGAAAAACCATCTGAAATGTTAC
CTTCCCATAAATATACTCTCAGACCCCCCGATTTCCCTACCAAATCCAGGGTAGGTAAAAGAAAA
TCTGGTGAAGGTTTCACTTTCTGTTGACCAGTCAGAGAGAGGCTCAAATTAATCTAATTTGAAGA
CTTACTAGAAGGGAG
Found at i:5852641 original size:22 final size:21
Alignment explanation
Indices: 5852616--5852659 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
5852606 AAATAGAGGA
*
5852616 TATTGTGATATCCACTATTGGG
1 TATTGGGATATCCA-TATTGGG
*
5852638 TATTGGGATATCCATGTTGGG
1 TATTGGGATATCCATATTGGG
5852659 T
1 T
5852660 TGGGTAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.20, C:0.11, G:0.27, T:0.41
Consensus pattern (21 bp):
TATTGGGATATCCATATTGGG
Found at i:5864885 original size:43 final size:43
Alignment explanation
Indices: 5864826--5864942 Score: 135
Period size: 52 Copynumber: 2.5 Consensus size: 43
5864816 TGAATAAGTT
*
5864826 TAGTACTTTGCTAATGGGCGAATTATATAAATTCTGCTTGTGGA
1 TAGTA-TTTGCCAATGGGCGAATTATATAAATTCTGCTTGTGGA
5864870 TAGTATTTGCCAATGGGTGAACTGGGCGAATTATATAAATTCTGCTTGTGGA
1 TAGTATTTGCC--------AA-TGGGCGAATTATATAAATTCTGCTTGTGGA
5864922 TAGTATTTGCCAATGGGCGAA
1 TAGTATTTGCCAATGGGCGAA
5864943 CTATGTGTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 19
0.76 0.01 0.23
Matches are distributed among these distances:
43 13 0.21
44 7 0.11
51 2 0.03
52 41 0.65
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (43 bp):
TAGTATTTGCCAATGGGCGAATTATATAAATTCTGCTTGTGGA
Found at i:5864918 original size:52 final size:52
Alignment explanation
Indices: 5864840--5864944 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
5864830 ACTTTGCTAA
*
5864840 TGGGCGAATTATATAAATTCTGCTTGTGGATAGTATTTGCCAATGGGTGAAC
1 TGGGCGAATTATATAAATTCTGCTTGTGGATAGTATTTGCCAATGGGCGAAC
5864892 TGGGCGAATTATATAAATTCTGCTTGTGGATAGTATTTGCCAATGGGCGAAC
1 TGGGCGAATTATATAAATTCTGCTTGTGGATAGTATTTGCCAATGGGCGAAC
5864944 T
1 T
5864945 ATGTGTTTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (52 bp):
TGGGCGAATTATATAAATTCTGCTTGTGGATAGTATTTGCCAATGGGCGAAC
Found at i:5881019 original size:23 final size:25
Alignment explanation
Indices: 5880956--5881036 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
5880946 CCATCAATTA
*
5880956 GGAAGCTCCGGATAGCCATATATCG
1 GGAAGCTCCGGAGAGCCATATATCG
* ** *
5880981 GGAAGTTCAAGCGAGCCATAT-T-G
1 GGAAGCTCCGGAGAGCCATATATCG
*
5881004 GGAAGCTCCGGAGAGCCAT-TAATCA
1 GGAAGCTCCGGAGAGCCATAT-ATCG
5881029 GGAAGCTC
1 GGAAGCTC
5881037 ACAAAAAGCC
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
22 1 0.02
23 16 0.37
24 2 0.05
25 24 0.56
ACGTcount: A:0.30, C:0.22, G:0.30, T:0.19
Consensus pattern (25 bp):
GGAAGCTCCGGAGAGCCATATATCG
Found at i:5881082 original size:26 final size:26
Alignment explanation
Indices: 5881015--5881083 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
5881005 GAAGCTCCGG
*
5881015 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCGGGAAGCTCACAA
* * * * *
5881041 AAAGCCTTTAACCGGGAAGCTGACGA
1 AGAGCCATTAATCGGGAAGCTCACAA
*
5881067 AGAGCCATAAATCGGGA
1 AGAGCCATTAATCGGGA
5881084 CACTCATAAG
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.39, C:0.22, G:0.25, T:0.14
Consensus pattern (26 bp):
AGAGCCATTAATCGGGAAGCTCACAA
Found at i:5881785 original size:20 final size:20
Alignment explanation
Indices: 5881744--5881785 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
5881734 AGCCCATGTA
* *
5881744 TTTCATAAAATTTAGAATTT
1 TTTCATAAAATTTACAACTT
*
5881764 TTTCATAAATTTTACAACTT
1 TTTCATAAAATTTACAACTT
5881784 TT
1 TT
5881786 CAATTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTCATAAAATTTACAACTT
Found at i:5885830 original size:16 final size:16
Alignment explanation
Indices: 5885809--5885846 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
5885799 TTTGGTTCGC
*
5885809 TGTAATGGAATAGATG
1 TGTAATGGAATAGAGG
5885825 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
5885841 TGTAAT
1 TGTAAT
5885847 AGCAAATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.32, T:0.32
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:5885914 original size:44 final size:45
Alignment explanation
Indices: 5885825--5885915 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
5885815 GGAATAGATG
*
5885825 TGTAATGGAATAGAGGTGTAATAGCAAATCTACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAATCTACTGTTTGGTTGAA
* **
5885870 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAATCTACTGTTTGGTTGAA
5885914 TG
1 TG
5885916 GAATAGAGGT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 19 0.45
45 23 0.55
ACGTcount: A:0.31, C:0.05, G:0.29, T:0.35
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCAAATCTACTGTTTGGTTGAA
Found at i:5885930 original size:39 final size:43
Alignment explanation
Indices: 5885825--5885934 Score: 138
Period size: 45 Copynumber: 2.6 Consensus size: 43
5885815 GGAATAGATG
5885825 TGTAATGGAATAGAGGTGTAATAGCAAATCTACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCTACTGTTTGGTT--A
* * **
5885870 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCTACTGTTTGGTTA
5885910 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
5885935 TAAGGGAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
39 20 0.34
40 2 0.03
43 1 0.02
44 12 0.21
45 23 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCTACTGTTTGGTTA
Found at i:5886278 original size:120 final size:120
Alignment explanation
Indices: 5886065--5886466 Score: 671
Period size: 120 Copynumber: 3.4 Consensus size: 120
5886055 ATATTTTAAC
* *
5886065 ATAATTATTATTAAATATTTTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
5886130 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAA
*
5886185 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
5886250 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAA
* * *
5886305 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATATTAAATAT
1 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
* * *
5886370 TCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTT-AA
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAA
* ** *
5886424 CATAATTATTATTAAATATAAGTTAATAAAAATATATAATTTA
1 -ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTA
5886467 TCATCATACT
Statistics
Matches: 268, Mismatches: 13, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
119 2 0.01
120 266 0.99
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTGAA
Found at i:5886412 original size:61 final size:60
Alignment explanation
Indices: 5886094--5886414 Score: 200
Period size: 61 Copynumber: 5.3 Consensus size: 60
5886084 TTTTAATTAA
* * * * *
5886094 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATGATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCT-AAATCAT
* * * * * * *
5886155 AATATATGATACT-ATAAAA-T-ATAAT-TTGAAATAAT-TAATATTAAATATATT-TTAATTAA
1 AATATATGAT-CTAATAAAATTCTTAATATT-AAATATTCTTATA-TGAAT-T-TTCTAAATCAT
* * * *
5886214 AATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATGATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCT-AAATCAT
* * * * * * *
5886275 AATATATGATACT-ATAAAA-T-ATAAT-TTGAAATAAT-TAATATTAAATATATT-TTAATTAA
1 AATATATGAT-CTAATAAAATTCTTAATATT-AAATATTCTTATA-TGAAT-T-TTCTAAATCAT
*
5886334 AATATATGATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATGATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCT-AAATCAT
*
5886395 AATATATAATACT-ATAAAAT
1 AATATATGAT-CTAATAAAAT
5886415 ATAATTTAAC
Statistics
Matches: 191, Mismatches: 44, Indels: 50
0.67 0.15 0.18
Matches are distributed among these distances:
58 12 0.06
59 69 0.36
60 12 0.06
61 84 0.44
62 14 0.07
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (60 bp):
AATATATGATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAATCAT
Found at i:5892121 original size:7 final size:6
Alignment explanation
Indices: 5892092--5892122 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
5892082 AGTAATTATG
5892092 GTTTTA GTTTTA GTTTTA GTTTTAA GTTTTA
1 GTTTTA GTTTTA GTTTTA GTTTT-A GTTTTA
5892123 TTCCATTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.75
7 6 0.25
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (6 bp):
GTTTTA
Found at i:5904420 original size:66 final size:66
Alignment explanation
Indices: 5904314--5904444 Score: 253
Period size: 66 Copynumber: 2.0 Consensus size: 66
5904304 TATCAGAAAA
5904314 CAAGTTGTGGACCACCTTCGACTCAGTTAAAATATATGAATAAGTCATTGTGCTCTTCGTAAATT
1 CAAGTTGTGGACCACCTTCGACTCAGTTAAAATATATGAATAAGTCATTGTGCTCTTCGTAAATT
5904379 C
66 C
*
5904380 CAAGTTGTGGACCACCTTCGACTGAGTTAAAATATATGAATAAGTCATTGTGCTCTTCGTAAATT
1 CAAGTTGTGGACCACCTTCGACTCAGTTAAAATATATGAATAAGTCATTGTGCTCTTCGTAAATT
5904445 TGGAATTTTA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (66 bp):
CAAGTTGTGGACCACCTTCGACTCAGTTAAAATATATGAATAAGTCATTGTGCTCTTCGTAAATT
C
Found at i:5904624 original size:76 final size:77
Alignment explanation
Indices: 5904492--5904639 Score: 228
Period size: 76 Copynumber: 1.9 Consensus size: 77
5904482 CAAGTCCAAC
* * * *
5904492 TATTTACATTGTTAAAATTATTTTTGTTAAAATTTAGTTTCATTAGAACGTCATTTATTAGTTAC
1 TATTAACATTGTTAAAATTATTTTTGTTAAAATTCAGTTTCATTACAACGTCATTTACTAGTTAC
5904557 ATTGCTATCAGT
66 ATTGCTATCAGT
*
5904569 TATTAACATTGTTAAAATTA-TTTTGTTAAAATTCAGATTT-ATTACAATGTCATTTACTAGTTA
1 TATTAACATTGTTAAAATTATTTTTGTTAAAATTCAG-TTTCATTACAACGTCATTTACTAGTTA
5904632 CATTGCTA
65 CATTGCTA
5904640 CTAAGAAAGT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
76 43 0.66
77 22 0.34
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.48
Consensus pattern (77 bp):
TATTAACATTGTTAAAATTATTTTTGTTAAAATTCAGTTTCATTACAACGTCATTTACTAGTTAC
ATTGCTATCAGT
Found at i:5906792 original size:5 final size:5
Alignment explanation
Indices: 5906782--5906816 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
5906772 TCTACAACAA
*
5906782 AAAAG AAAAG AAAAG AAAAAG AAGAG AAAAG AAAA
1 AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG AAAA
5906817 ATGAAAACCT
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:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:5906800 original size:16 final size:16
Alignment explanation
Indices: 5906781--5906823 Score: 68
Period size: 16 Copynumber: 2.6 Consensus size: 16
5906771 TTCTACAACA
5906781 AAAAAGAAAAGAAAAG
1 AAAAAGAAAAGAAAAG
*
5906797 AAAAAGAAGAGAAAAG
1 AAAAAGAAAAGAAAAG
5906813 AAAAATGAAAA
1 AAAAA-GAAAA
5906824 CCTAAACTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 20 0.83
17 4 0.17
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAAGAAAAG
Found at i:5910191 original size:10 final size:10
Alignment explanation
Indices: 5910176--5910203 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
5910166 TTAAATGTGG
5910176 CCATCTTTTT
1 CCATCTTTTT
5910186 CCATCTTTTT
1 CCATCTTTTT
5910196 CCATCTTT
1 CCATCTTT
5910204 GTGTAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.32, G:0.00, T:0.57
Consensus pattern (10 bp):
CCATCTTTTT
Found at i:5910450 original size:24 final size:24
Alignment explanation
Indices: 5910418--5910466 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
5910408 ATGTTTGTTT
5910418 TTCGTGAAAAAATACCAATTGAGG
1 TTCGTGAAAAAATACCAATTGAGG
5910442 TTCGTGAAAAAATACCAATTGAGG
1 TTCGTGAAAAAATACCAATTGAGG
5910466 T
1 T
5910467 GGAGGGTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (24 bp):
TTCGTGAAAAAATACCAATTGAGG
Found at i:5911718 original size:9 final size:9
Alignment explanation
Indices: 5911683--5911725 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
5911673 AAATTTTAAC
5911683 TTTTTATAT
1 TTTTTATAT
*
5911692 ATTTTTAGAAT
1 -TTTTTA-TAT
*
5911703 ATTTTATAT
1 TTTTTATAT
5911712 TTTTTATAT
1 TTTTTATAT
5911721 TTTTT
1 TTTTT
5911726 TAAATATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 15 0.54
10 11 0.39
11 2 0.07
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (9 bp):
TTTTTATAT
Found at i:5911731 original size:28 final size:27
Alignment explanation
Indices: 5911668--5911732 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 27
5911658 TTTAGAAAAG
5911668 TTTTAAA-ATTTTAACTTTTTATATAT
1 TTTTAAATATTTTAACTTTTTATATAT
* *
5911694 TTTTAGAATATTTTATATTTTTTATATTT
1 TTTTA-AATATTTTA-ACTTTTTATATAT
5911723 TTTTAAATAT
1 TTTTAAATAT
5911733 AAAATTTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 5 0.15
27 2 0.06
28 11 0.32
29 16 0.47
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTAAATATTTTAACTTTTTATATAT
Found at i:5911762 original size:20 final size:19
Alignment explanation
Indices: 5911737--5911801 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
5911727 AAATATAAAA
5911737 TTTGAAATTTTTATAAATAT
1 TTTGAAATTTTTA-AAATAT
*
5911757 TTTG-AATTTTAAAAATAAT
1 TTTGAAATTTTTAAAAT-AT
* *
5911776 TTTAAAATTTTGAAAATTAT
1 TTTGAAATTTTTAAAA-TAT
5911796 TTTGAA
1 TTTGAA
5911802 TTATTTTGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 4 0.11
19 12 0.32
20 21 0.55
21 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (19 bp):
TTTGAAATTTTTAAAATAT
Found at i:5913482 original size:47 final size:47
Alignment explanation
Indices: 5913412--5913506 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
5913402 TTCAGCAAAA
*
5913412 ATTTCTATCATCGAATAGTTGGTCTCCAACCATGGTGTTGAACACCT
1 ATTTCTATCATCGAATAGGTGGTCTCCAACCATGGTGTTGAACACCT
5913459 ATTTCTATCATCGAATAGGTGGTCTCCAACCATGGTGTTGAACACCT
1 ATTTCTATCATCGAATAGGTGGTCTCCAACCATGGTGTTGAACACCT
5913506 A
1 A
5913507 ACTTTGTTGC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (47 bp):
ATTTCTATCATCGAATAGGTGGTCTCCAACCATGGTGTTGAACACCT
Found at i:5914171 original size:49 final size:49
Alignment explanation
Indices: 5914099--5914196 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
5914089 TTGTGCTCAT
*
5914099 TAGCCTCTATTTTCATAAGAATATTGTAGGTGGAGCCATGTCGAACCAC
1 TAGCCTCTATTTTCATAAGAATATTGTAGGTGGAGACATGTCGAACCAC
5914148 TAGCCTCTATTTTCATAAGAATATTGTAGGTGGAGACATGTCGAACCAC
1 TAGCCTCTATTTTCATAAGAATATTGTAGGTGGAGACATGTCGAACCAC
5914197 CTTATCCGCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (49 bp):
TAGCCTCTATTTTCATAAGAATATTGTAGGTGGAGACATGTCGAACCAC
Found at i:5915084 original size:47 final size:47
Alignment explanation
Indices: 5915031--5915124 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
5915021 AAAATTACCT
*
5915031 CAAGAGCTCGTGTATTCAATTTAAGTTTCCTCAACCGATTAATGGCG
1 CAAGAGCGCGTGTATTCAATTTAAGTTTCCTCAACCGATTAATGGCG
5915078 CAAGAGCGCGTGTATTCAATTTAAGTTTCCTCAACCGATTAATGGCG
1 CAAGAGCGCGTGTATTCAATTTAAGTTTCCTCAACCGATTAATGGCG
5915125 TGAAAAGTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (47 bp):
CAAGAGCGCGTGTATTCAATTTAAGTTTCCTCAACCGATTAATGGCG
Found at i:5915888 original size:14 final size:14
Alignment explanation
Indices: 5915869--5915896 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5915859 CCTCATCACT
5915869 GCCTAACTCCCACC
1 GCCTAACTCCCACC
5915883 GCCTAACTCCCACC
1 GCCTAACTCCCACC
5915897 ATCACCTAAC
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:0.21, C:0.57, G:0.07, T:0.14
Consensus pattern (14 bp):
GCCTAACTCCCACC
Found at i:5918497 original size:27 final size:27
Alignment explanation
Indices: 5918443--5918500 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
5918433 ACACAATCTT
*
5918443 GCCAGACTAGCTAGCGTATACATTTTC
1 GCCAGACTAGCTAGCGTATACATGTTC
* *
5918470 GCCAGACTTGCTATCGTATAC-TAGTTC
1 GCCAGACTAGCTAGCGTATACAT-GTTC
5918497 GCCA
1 GCCA
5918501 AGCATCAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (27 bp):
GCCAGACTAGCTAGCGTATACATGTTC
Found at i:5924671 original size:16 final size:15
Alignment explanation
Indices: 5924633--5924674 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
5924623 ATCTCTATTC
5924633 TCTATTCCATTCTCA
1 TCTATTCCATTCTCA
5924648 -CTTAATTCCATTCCTCA
1 TC-T-ATTCCATT-CTCA
5924665 TCTATTCCAT
1 TCTATTCCAT
5924675 GTCAATGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 1 0.04
15 1 0.04
16 15 0.65
17 5 0.22
18 1 0.04
ACGTcount: A:0.21, C:0.33, G:0.00, T:0.45
Consensus pattern (15 bp):
TCTATTCCATTCTCA
Found at i:5931525 original size:230 final size:230
Alignment explanation
Indices: 5931122--5931696 Score: 1141
Period size: 230 Copynumber: 2.5 Consensus size: 230
5931112 CTATTATATA
*
5931122 CTATTACGAAAGCAACTTAGATTTAAGTTTTGTCCAATGACCTTGTCATTAGCGTGTTACTCTTA
1 CTATTACGAAAGCAACTTAGATTTAAGTTTTGTCCAATGACCTTGTCATTAGCGTGTTACTTTTA
5931187 TAACATATAATTAATCCATTTGGGTTAAATCTGTCCACCTAATACAATCTAAGTAACACGCTAAT
66 TAACATATAATTAATCCATTTGGGTTAAATCTGTCCACCTAATACAATCTAAGTAACACGCTAAT
5931252 GACAAGGTCATTGGACAAAACTTAAATCTAAGTTGCTTTCGTAATAGTATTGAAAGCCTATCTTC
131 GACAAGGTCATTGGACAAAACTTAAATCTAAGTTGCTTTCGTAATAGTATTGAAAGCCTATCTTC
5931317 CATTGGTCTCGGAACCAAGAGCTGGTATGTTGGGT
196 CATTGGTCTCGGAACCAAGAGCTGGTATGTTGGGT
5931352 CTATTACGAAAGCAACTTAGATTTAAGTTTTGTCCAATGACCTTGTCATTAGCGTGTTACTTTTA
1 CTATTACGAAAGCAACTTAGATTTAAGTTTTGTCCAATGACCTTGTCATTAGCGTGTTACTTTTA
5931417 TAACATATAATTAATCCATTTGGGTTAAATCTGTCCACCTAATACAATCTAAGTAACACGCTAAT
66 TAACATATAATTAATCCATTTGGGTTAAATCTGTCCACCTAATACAATCTAAGTAACACGCTAAT
5931482 GACAAGGTCATTGGACAAAACTTAAATCTAAGTTGCTTTCGTAATAGTATTGAAAGCCTATCTTC
131 GACAAGGTCATTGGACAAAACTTAAATCTAAGTTGCTTTCGTAATAGTATTGAAAGCCTATCTTC
5931547 CATTGGTCTCGGAACCAAGAGCTGGTATGTTGGGT
196 CATTGGTCTCGGAACCAAGAGCTGGTATGTTGGGT
5931582 CTATTACGAAAGCAACTTAGATTTAAGTTTTGTCCAATGACCTTGTCATTAGCGTGTTACTTTTA
1 CTATTACGAAAGCAACTTAGATTTAAGTTTTGTCCAATGACCTTGTCATTAGCGTGTTACTTTTA
5931647 TAACATATAATTAATCCATTTGGGTTAAATCTGTCCACCTAATACAATCT
66 TAACATATAATTAATCCATTTGGGTTAAATCTGTCCACCTAATACAATCT
5931697 TATTTTATCT
Statistics
Matches: 344, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
230 344 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (230 bp):
CTATTACGAAAGCAACTTAGATTTAAGTTTTGTCCAATGACCTTGTCATTAGCGTGTTACTTTTA
TAACATATAATTAATCCATTTGGGTTAAATCTGTCCACCTAATACAATCTAAGTAACACGCTAAT
GACAAGGTCATTGGACAAAACTTAAATCTAAGTTGCTTTCGTAATAGTATTGAAAGCCTATCTTC
CATTGGTCTCGGAACCAAGAGCTGGTATGTTGGGT
Found at i:5932285 original size:381 final size:381
Alignment explanation
Indices: 5931582--5932348 Score: 1527
Period size: 381 Copynumber: 2.0 Consensus size: 381
5931572 TATGTTGGGT
5931582 CTATTACGAAAGCAACTTAGATTTAAGTTTTGTCCAATGACCTTGTCATTAGCGTGTTACTTTTA
1 CTATTACGAAAGCAACTTAGATTTAAGTTTTGTCCAATGACCTTGTCATTAGCGTGTTACTTTTA
5931647 TAACATATAATTAATCCATTTGGGTTAAATCTGTCCACCTAATACAATCTTATTTTATCTCATAG
66 TAACATATAATTAATCCATTTGGGTTAAATCTGTCCACCTAATACAATCTTATTTTATCTCATAG
5931712 TCACCATTGCATCTTTCACAATGAAAAAATTATTACTAACTAATTGTAATAACGATCATTCATCC
131 TCACCATTGCATCTTTCACAATGAAAAAATTATTACTAACTAATTGTAATAACGATCATTCATCC
5931777 CTTAACAAATGACCCATGACCACATTCCTTTTTTCATAATCCATGCAATGTTAGTAGTAAGTTAT
196 CTTAACAAATGACCCATGACCACATTCCTTTTTTCATAATCCATGCAATGTTAGTAGTAAGTTAT
5931842 CATTTACCCTTTAATCGAGTTATGAATTTCATTTTTGTAATTGAAGTCATGTTATACAAGAGTTA
261 CATTTACCCTTTAATCGAGTTATGAATTTCATTTTTGTAATTGAAGTCATGTTATACAAGAGTTA
5931907 CATACCCAACATACCAGCTCTTGGTTCCGAGACCAATGGAAGATAGGCTTTCAATA
326 CATACCCAACATACCAGCTCTTGGTTCCGAGACCAATGGAAGATAGGCTTTCAATA
5931963 CTATTACGAAAGCAACTTAGATTTAAGTTTTGTCCAATGACCTTGTCATTAGCGTGTTACTTTTA
1 CTATTACGAAAGCAACTTAGATTTAAGTTTTGTCCAATGACCTTGTCATTAGCGTGTTACTTTTA
5932028 TAACATATAATTAATCCATTTGGGTTAAATCTGTCCACCTAATACAATCTTATTTTATCTCATAG
66 TAACATATAATTAATCCATTTGGGTTAAATCTGTCCACCTAATACAATCTTATTTTATCTCATAG
5932093 TCACCATTGCATCTTTCACAATGAAAAAATTATTACTAACTAATTGTAATAACGATCATTCATCC
131 TCACCATTGCATCTTTCACAATGAAAAAATTATTACTAACTAATTGTAATAACGATCATTCATCC
5932158 CTTAACAAATGACCCATGACCACATTCCTTTTTTCATAATCCATGCAATGTTAGTAGTAAGTTAT
196 CTTAACAAATGACCCATGACCACATTCCTTTTTTCATAATCCATGCAATGTTAGTAGTAAGTTAT
5932223 CATTTACCCTTTAATCGAGTTATGAATTTCATTTTTGTAATTGAAGTCATGTTATACAAGAGTTA
261 CATTTACCCTTTAATCGAGTTATGAATTTCATTTTTGTAATTGAAGTCATGTTATACAAGAGTTA
5932288 CATACCCAACATACCAGCTCTTGGTTCCGAGACCAATGGAAGATAGGCTTTCAATA
326 CATACCCAACATACCAGCTCTTGGTTCCGAGACCAATGGAAGATAGGCTTTCAATA
5932344 -TATTA
1 CTATTA
5932349 AAATATATGA
Statistics
Matches: 386, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
380 5 0.01
381 381 0.99
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (381 bp):
CTATTACGAAAGCAACTTAGATTTAAGTTTTGTCCAATGACCTTGTCATTAGCGTGTTACTTTTA
TAACATATAATTAATCCATTTGGGTTAAATCTGTCCACCTAATACAATCTTATTTTATCTCATAG
TCACCATTGCATCTTTCACAATGAAAAAATTATTACTAACTAATTGTAATAACGATCATTCATCC
CTTAACAAATGACCCATGACCACATTCCTTTTTTCATAATCCATGCAATGTTAGTAGTAAGTTAT
CATTTACCCTTTAATCGAGTTATGAATTTCATTTTTGTAATTGAAGTCATGTTATACAAGAGTTA
CATACCCAACATACCAGCTCTTGGTTCCGAGACCAATGGAAGATAGGCTTTCAATA
Found at i:5934408 original size:46 final size:46
Alignment explanation
Indices: 5934334--5934532 Score: 260
Period size: 46 Copynumber: 4.6 Consensus size: 46
5934324 TACGTATGAT
* *
5934334 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
5934378 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
5934424 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AG----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
5934460 CACTTATCACATTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
5934506 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
5934533 AGTACTCAAA
Statistics
Matches: 135, Mismatches: 8, Indels: 22
0.82 0.05 0.13
Matches are distributed among these distances:
36 28 0.21
38 2 0.01
39 1 0.01
40 3 0.02
42 3 0.02
43 1 0.01
44 12 0.09
45 5 0.04
46 80 0.59
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:5934465 original size:36 final size:36
Alignment explanation
Indices: 5934424--5934496 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
5934414 CTAAAGCTAC
* *
5934424 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 CACTTATCACATTGTCACTTGATCAGATAAGTGTAG
5934460 CACTTATCACATTGTCACTTGATCAGATAAGTGTAG
1 CACTTATCACATTGTCACTTGATCAGATAAGTGTAG
5934496 C
1 C
5934497 TAAAGCTACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (36 bp):
CACTTATCACATTGTCACTTGATCAGATAAGTGTAG
Found at i:5934515 original size:82 final size:82
Alignment explanation
Indices: 5934378--5934532 Score: 292
Period size: 82 Copynumber: 1.9 Consensus size: 82
5934368 CTAAGGCTAC
* *
5934378 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACATTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
5934443 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
5934460 CACTTATCACATTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
1 CACTTATCACATTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
5934525 TGATCAGA
66 TGATCAGA
5934533 AGTACTCAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (82 bp):
CACTTATCACATTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCTCT
TGATCAGATAAGTGTAG
Found at i:5940790 original size:30 final size:30
Alignment explanation
Indices: 5940733--5940798 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
5940723 AATCTATATT
*
5940733 TTTATT-TTAATTTCAAAATATTGCATTTG
1 TTTATTATTAATTTCAAAATATTACATTTG
* *
5940762 TATTATTATTAATTT-GAAATTTTACATTTG
1 T-TTATTATTAATTTCAAAATATTACATTTG
5940792 TTTATTA
1 TTTATTA
5940799 ATGTATACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 7 0.22
30 18 0.56
31 7 0.22
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.58
Consensus pattern (30 bp):
TTTATTATTAATTTCAAAATATTACATTTG
Found at i:5943485 original size:20 final size:19
Alignment explanation
Indices: 5943430--5943485 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
5943420 TGATCCAAAG
*
5943430 AATAATATAAATATATTTA
1 AATAATATAAATATATTAA
* *
5943449 AATAATAAAGAAAATATTAA
1 AATAATATA-AATATATTAA
*
5943469 AATTGATATAAATATAT
1 AA-TAATATAAATATAT
5943486 GTTCGCTCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 8 0.28
20 16 0.55
21 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (19 bp):
AATAATATAAATATATTAA
Found at i:5952025 original size:57 final size:57
Alignment explanation
Indices: 5951962--5952077 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
5951952 TTTTATGTAA
5951962 TTAAATTAGTTAATTTATGAGAGTGCACCACTAATTTTCCCATGTTTATATTGAATT
1 TTAAATTAGTTAATTTATGAGAGTGCACCACTAATTTTCCCATGTTTATATTGAATT
* * *
5952019 TTAAATTGGTTAATTTATGAGAGTGCACCACTGATTTTTCCATGTTTATATTGAATT
1 TTAAATTAGTTAATTTATGAGAGTGCACCACTAATTTTCCCATGTTTATATTGAATT
5952076 TT
1 TT
5952078 GTGCAGAGGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (57 bp):
TTAAATTAGTTAATTTATGAGAGTGCACCACTAATTTTCCCATGTTTATATTGAATT
Found at i:5954657 original size:33 final size:32
Alignment explanation
Indices: 5954575--5954694 Score: 138
Period size: 32 Copynumber: 3.8 Consensus size: 32
5954565 AAACGCGTGG
5954575 TTTTGTGAAATGATAACAAATATCAACTTTC-A
1 TTTTGTGAAATGATAACAAATATCAAC-TTCAA
**
5954607 TTTTGTGAAATTCTAACAAAT-TACAACTTCAA
1 TTTTGTGAAATGATAACAAATAT-CAACTTCAA
* *
5954639 TTTTTGTAAAATGATAACAAATATCAACTTTAA
1 -TTTTGTGAAATGATAACAAATATCAACTTCAA
* *
5954672 TTTTGTTAAATGATGAC-AATATC
1 TTTTGTGAAATGATAACAAATATC
5954695 CCTCTAAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
31 10 0.13
32 39 0.51
33 26 0.34
34 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (32 bp):
TTTTGTGAAATGATAACAAATATCAACTTCAA
Found at i:5955513 original size:32 final size:32
Alignment explanation
Indices: 5955472--5955536 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
5955462 GGATCCTAAA
5955472 CCATGACATGTACTCCGGATCACATGCTAACT
1 CCATGACATGTACTCCGGATCACATGCTAACT
*
5955504 CCATGACATGTACTCTGGATCACATGCTAACT
1 CCATGACATGTACTCCGGATCACATGCTAACT
5955536 C
1 C
5955537 TGGAACGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (32 bp):
CCATGACATGTACTCCGGATCACATGCTAACT
Found at i:5955538 original size:18 final size:18
Alignment explanation
Indices: 5955483--5955540 Score: 61
Period size: 16 Copynumber: 3.4 Consensus size: 18
5955473 CATGACATGT
*
5955483 ACTCCGGATCACATGCTA
1 ACTCTGGATCACATGCTA
* *
5955501 ACTC--CATGACATG-T-
1 ACTCTGGATCACATGCTA
5955515 ACTCTGGATCACATGCTA
1 ACTCTGGATCACATGCTA
5955533 ACTCTGGA
1 ACTCTGGA
5955541 ACGATAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 4 0.12
15 1 0.03
16 14 0.44
17 1 0.03
18 12 0.38
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (18 bp):
ACTCTGGATCACATGCTA
Found at i:5956226 original size:5 final size:5
Alignment explanation
Indices: 5956216--5956263 Score: 87
Period size: 5 Copynumber: 9.6 Consensus size: 5
5956206 TTTTTATGCT
*
5956216 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTGTA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA
5956264 AAAAAAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:5963924 original size:41 final size:39
Alignment explanation
Indices: 5963815--5963924 Score: 134
Period size: 37 Copynumber: 2.8 Consensus size: 39
5963805 AGATAATTCA
**
5963815 AAGTAGTAAATTGGCACCCAGTGTCTCATCGGTTAAACCG
1 AAGTAGT-AATTGGCACCCAGTGTCTCATCGAATAAACCG
*
5963855 AAGTA--AATTGGCACCCAGTGCCTCATCGAATAAATCCG
1 AAGTAGTAATTGGCACCCAGTGTCTCATCGAATAAA-CCG
* *
5963893 AAGTAGTATATTGACACCTAGTGTCTCATCGA
1 AAGTAGTA-ATTGGCACCCAGTGTCTCATCGA
5963925 CTCGAAGTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
37 26 0.43
38 8 0.13
40 6 0.10
41 20 0.33
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (39 bp):
AAGTAGTAATTGGCACCCAGTGTCTCATCGAATAAACCG
Found at i:5964828 original size:15 final size:16
Alignment explanation
Indices: 5964798--5964836 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
5964788 CTTGCGTCTA
5964798 TTTCTTTCTCCTTTTC
1 TTTCTTTCTCCTTTTC
*
5964814 TTTCTTT-TTCTTTTC
1 TTTCTTTCTCCTTTTC
5964829 TTTCTTTC
1 TTTCTTTC
5964837 CTTTCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTCTTTCTCCTTTTC
Found at i:5966328 original size:13 final size:13
Alignment explanation
Indices: 5966294--5966463 Score: 111
Period size: 13 Copynumber: 12.8 Consensus size: 13
5966284 CCAATGTTTC
* *
5966294 ATTTTATATATCT
1 ATTTCATATAACT
5966307 ATTTCCATATAACT
1 ATTT-CATATAACT
5966321 GA-TTCATATAA-T
1 -ATTTCATATAACT
*
5966333 CATTTCATATATCT
1 -ATTTCATATAACT
5966347 ATTTCCATATAACT
1 ATTT-CATATAACT
5966361 GA-TTCATATAA-T
1 -ATTTCATATAACT
*
5966373 CATTTCATATATCT
1 -ATTTCATATAACT
* *
5966387 ACTTCTATATAAAT
1 ATTTC-ATATAACT
* *
5966401 GA-TTCGTATAACC
1 -ATTTCATATAACT
*
5966414 ATCTT-ATATATCT
1 AT-TTCATATAACT
5966427 ATTTCCATATAACT
1 ATTT-CATATAACT
5966441 GA-TTCATATAACT
1 -ATTTCATATAACT
5966454 ATTTCATATA
1 ATTTCATATA
5966464 TTCATTATTC
Statistics
Matches: 124, Mismatches: 17, Indels: 32
0.72 0.10 0.18
Matches are distributed among these distances:
12 8 0.06
13 71 0.57
14 41 0.33
15 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.45
Consensus pattern (13 bp):
ATTTCATATAACT
Found at i:5966329 original size:27 final size:27
Alignment explanation
Indices: 5966294--5966464 Score: 101
Period size: 27 Copynumber: 6.4 Consensus size: 27
5966284 CCAATGTTTC
*
5966294 ATTTTATATATCTATTTCCATATAACTG
1 ATTTCATATATCTATTT-CATATAACTG
*
5966322 A-TTCATATAATC-ATTTCATATATCT-
1 ATTTCATAT-ATCTATTTCATATAACTG
* *
5966347 ATTTCCATATAACTGA-TTCATATAA-TC
1 ATTT-CATATATCT-ATTTCATATAACTG
* *
5966374 ATTTCATATATCTACTTCTATATAAATG
1 ATTTCATATATCTATTTC-ATATAACTG
* * * *
5966402 A-TTCGTATAACCATCTT-ATATATCT-
1 ATTTCATATATCTAT-TTCATATAACTG
*
5966427 ATTTCCATATAACTGA-TTCATATAACT-
1 ATTT-CATATATCT-ATTTCATATAACTG
5966454 ATTTCATATAT
1 ATTTCATATAT
5966465 TCATTATTCA
Statistics
Matches: 113, Mismatches: 16, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
25 3 0.03
26 40 0.35
27 60 0.53
28 10 0.09
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.46
Consensus pattern (27 bp):
ATTTCATATATCTATTTCATATAACTG
Found at i:5966336 original size:40 final size:40
Alignment explanation
Indices: 5966292--5966464 Score: 260
Period size: 40 Copynumber: 4.3 Consensus size: 40
5966282 ATCCAATGTT
*
5966292 TCATTTTATATATCTATTTCCATATAACTGATTCATATAA
1 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
5966332 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
1 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
* * * *
5966372 TCATTTCATATATCTACTTCTATATAAATGATTCGTATAA
1 TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
*
5966412 CCATCTT-ATATATCTATTTCCATATAACTGATTCATATAA
1 TCAT-TTCATATATCTATTTCCATATAACTGATTCATATAA
5966452 -CTATTTCATATAT
1 TC-ATTTCATATAT
5966465 TCATTATTCA
Statistics
Matches: 120, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
39 3 0.03
40 115 0.96
41 2 0.02
ACGTcount: A:0.35, C:0.17, G:0.03, T:0.46
Consensus pattern (40 bp):
TCATTTCATATATCTATTTCCATATAACTGATTCATATAA
Found at i:5968940 original size:25 final size:25
Alignment explanation
Indices: 5968904--5969094 Score: 108
Period size: 25 Copynumber: 7.6 Consensus size: 25
5968894 ACCAAACAAA
*
5968904 GCCTTTGTGGCAAGTTATCTGAAAG
1 GCCTATGTGGCAAGTTATCTGAAAG
*
5968929 GCCTATGCGGCATA-TTATCTGGAAA-
1 GCCTATGTGGCA-AGTTATCT-GAAAG
* * *
5968954 TCCTTTGTGGCGAGTTATCTGAAAG
1 GCCTATGTGGCAAGTTATCTGAAAG
*
5968979 GCCTATGTGGCATA-TTATTTGGAAA-
1 GCCTATGTGGCA-AGTTATCT-GAAAG
* * * *
5969004 ACCTTTGTGGCAAGTTACCTAAAAG
1 GCCTATGTGGCAAGTTATCTGAAAG
* * * *
5969029 ACCAATGTGGCATA-TTATTTGAAAA
1 GCCTATGTGGCA-AGTTATCTGAAAG
*
5969054 GCCT-TAGTCGCGAAGTTATCTAGAAA-
1 GCCTAT-GTGGC-AAGTTATCT-GAAAG
* *
5969080 GCCTTTGCGGCAAGT
1 GCCTATGTGGCAAGT
5969095 CATTTGGAAA
Statistics
Matches: 125, Mismatches: 27, Indels: 28
0.69 0.15 0.16
Matches are distributed among these distances:
24 10 0.08
25 86 0.69
26 24 0.19
27 5 0.04
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (25 bp):
GCCTATGTGGCAAGTTATCTGAAAG
Found at i:5968980 original size:50 final size:50
Alignment explanation
Indices: 5968905--5969106 Score: 230
Period size: 50 Copynumber: 4.0 Consensus size: 50
5968895 CCAAACAAAG
* *
5968905 CCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATCTGGAAAT
1 CCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATTTGGAAAA
* *
5968955 CCTTTGTGGCGAGTTATCTGAAAGGCCTATGTGGCATATTATTTGGAAAA
1 CCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATTTGGAAAA
* * * * *
5969005 CCTTTGTGGCAAGTTACCTAAAAGACCAATGTGGCATATTATTT-GAAAA
1 CCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATTTGGAAAA
* * * *
5969054 GCCTTAGTCGCGAAGTTATCTAGAAA-GCCTTTGCGGCA-AGTCATTTGGAAAA
1 -CCTTTGTGGC-AAGTTATCT-GAAAGGCCTATGCGGCATA-TTATTTGGAAAA
5969106 C
1 C
5969107 TTGTATGGCG
Statistics
Matches: 129, Mismatches: 18, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
49 5 0.04
50 94 0.73
51 22 0.17
52 8 0.06
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (50 bp):
CCTTTGTGGCAAGTTATCTGAAAGGCCTATGCGGCATATTATTTGGAAAA
Found at i:5974353 original size:18 final size:17
Alignment explanation
Indices: 5974311--5974354 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
5974301 TGCCTTTCGT
5974311 TTTCAAAACATTATTCA
1 TTTCAAAACATTATTCA
* *
5974328 TTTACAAATCGTTATTCAA
1 TTT-CAAAACATTATTC-A
5974347 TTTCAAAA
1 TTTCAAAA
5974355 AGTTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 15 0.68
19 4 0.18
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (17 bp):
TTTCAAAACATTATTCA
Found at i:5981263 original size:7 final size:7
Alignment explanation
Indices: 5981247--5981327 Score: 83
Period size: 7 Copynumber: 10.9 Consensus size: 7
5981237 CAACCCAATT
5981247 TTTATT-
1 TTTATTA
5981253 TTTATTA
1 TTTATTA
5981260 TTTATTA
1 TTTATTA
5981267 TTTATTA
1 TTTATTA
*
5981274 TTTATTC
1 TTTATTA
5981281 TTTAATTTA
1 TTT-A-TTA
5981290 TTTATTA
1 TTTATTA
5981297 CTTTAATTTA
1 -TTT-A-TTA
5981307 TTTTATTA
1 -TTTATTA
5981315 TTTATTA
1 TTTATTA
*
5981322 CTTATT
1 TTTATT
5981328 TGGATATTAA
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
6 6 0.09
7 38 0.58
8 8 0.12
9 7 0.11
10 6 0.09
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (7 bp):
TTTATTA
Found at i:5981271 original size:4 final size:4
Alignment explanation
Indices: 5981247--5981320 Score: 50
Period size: 4 Copynumber: 18.5 Consensus size: 4
5981237 CAACCCAATT
* *
5981247 TTTA TTTT TATTA TTTA -TTA TTTA -TTA TTTA TTCT- TTAA TTTA TTTA
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA
5981294 -TTA CTTTAA TTTA TTT- TATTA TTTA TT
1 TTTA -TTT-A TTTA TTTA T-TTA TTTA TT
5981321 ACTTATTTGG
Statistics
Matches: 56, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
3 10 0.18
4 35 0.62
5 10 0.18
6 1 0.02
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:5981302 original size:17 final size:16
Alignment explanation
Indices: 5981257--5981318 Score: 83
Period size: 17 Copynumber: 3.9 Consensus size: 16
5981247 TTTATTTTTA
5981257 TTATTTATTATTT-A-
1 TTATTTATTATTTAAT
*
5981271 TTATTTATTCTTTAAT
1 TTATTTATTATTTAAT
5981287 TTATTTATTACTTTAAT
1 TTATTTATTA-TTTAAT
5981304 TTATTTTATTATTTA
1 TTA-TTTATTATTTA
5981319 TTACTTATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
14 12 0.29
15 1 0.02
16 9 0.21
17 13 0.31
18 7 0.17
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTTATTATTTAAT
Found at i:5982999 original size:12 final size:14
Alignment explanation
Indices: 5982959--5982994 Score: 63
Period size: 15 Copynumber: 2.5 Consensus size: 14
5982949 GACTCTATTT
5982959 TAATTATATTAAGA
1 TAATTATATTAAGA
5982973 TAATTAATATTAAGA
1 TAATT-ATATTAAGA
5982988 TAATTAT
1 TAATTAT
5982995 TAAGAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (14 bp):
TAATTATATTAAGA
Found at i:5991389 original size:20 final size:21
Alignment explanation
Indices: 5991364--5991402 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
5991354 ATTCTAAAAA
5991364 TAATATTAT-TTTAATATATT
1 TAATATTATATTTAATATATT
5991384 TAATATTATATTTAATATA
1 TAATATTATATTTAATATA
5991403 ATATTTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATATTATATTTAATATATT
Found at i:5991395 original size:12 final size:12
Alignment explanation
Indices: 5991378--5991409 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
5991368 ATTATTTTAA
5991378 TATATTTAATAT
1 TATATTTAATAT
5991390 TATATTTAATAT
1 TATATTTAATAT
*
5991402 AATATTTA
1 TATATTTA
5991410 TCTTATAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TATATTTAATAT
Found at i:5991458 original size:61 final size:59
Alignment explanation
Indices: 5991366--5991498 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 59
5991356 TCTAAAAATA
* * *
5991366 ATATTATTTTAAT-ATATTTAATATTATATTTAATA-TAATATTTATCTTATAGACAAATATT
1 ATATTAATTTAATAATATTTAATAATAGATTTAA-ACTAATATTTATC-T-T-GACAAATATT
* *
5991427 CTATTAA-TTAATAATATTTAATAATAGATTTAAACTAATATTTATCTTGATAAATATT
1 ATATTAATTTAATAATATTTAATAATAGATTTAAACTAATATTTATCTTGACAAATATT
5991485 ATATTAATTTAATA
1 ATATTAATTTAATA
5991499 TTAAAGTGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
58 15 0.24
59 7 0.11
60 7 0.11
61 34 0.54
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (59 bp):
ATATTAATTTAATAATATTTAATAATAGATTTAAACTAATATTTATCTTGACAAATATT
Found at i:5992076 original size:25 final size:25
Alignment explanation
Indices: 5992046--5992097 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
5992036 CCTAGAAGGG
5992046 AATTGAATGATAGTTAGACAATTTT
1 AATTGAATGATAGTTAGACAATTTT
5992071 AATTGAATGATAGTTAGACAATTTT
1 AATTGAATGATAGTTAGACAATTTT
5992096 AA
1 AA
5992098 GTATTATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.38
Consensus pattern (25 bp):
AATTGAATGATAGTTAGACAATTTT
Found at i:5994728 original size:19 final size:19
Alignment explanation
Indices: 5994704--5994742 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
5994694 CAATGTAGCC
5994704 ATTGAGAAAAACAGTCTTA
1 ATTGAGAAAAACAGTCTTA
* *
5994723 ATTGAGAAACATAGTCTTA
1 ATTGAGAAAAACAGTCTTA
5994742 A
1 A
5994743 CATCCATCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.28
Consensus pattern (19 bp):
ATTGAGAAAAACAGTCTTA
Found at i:6000019 original size:40 final size:39
Alignment explanation
Indices: 5999975--6000097 Score: 112
Period size: 40 Copynumber: 3.2 Consensus size: 39
5999965 TTCCTAGTGT
5999975 TGGGCACACGATTATATTTGTCGGTTTATTCGACTAGCGC
1 TGGGCACAC-ATTATATTTGTCGGTTTATTCGACTAGCGC
* * * *
6000015 TGGGCACA-A--CT-TTCGTCAGTTTA-TCTGACTAGTGC
1 TGGGCACACATTATATTTGTCGGTTTATTC-GACTAGCGC
* * * *
6000050 TGGGCACATCATTATATCTGTCGGTTTATCCGGCTAGCAC
1 TGGGCACA-CATTATATTTGTCGGTTTATTCGACTAGCGC
6000090 TGGGCACA
1 TGGGCACA
6000098 ACTTTCGTCA
Statistics
Matches: 64, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
34 2 0.03
35 26 0.41
36 1 0.02
37 1 0.02
38 1 0.02
39 1 0.02
40 31 0.48
41 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (39 bp):
TGGGCACACATTATATTTGTCGGTTTATTCGACTAGCGC
Found at i:6000045 original size:35 final size:35
Alignment explanation
Indices: 5999998--6000121 Score: 124
Period size: 35 Copynumber: 3.4 Consensus size: 35
5999988 ATATTTGTCG
5999998 GTTTAT-TCGACTAGCGCTGGGCACAACTTTCGTCA
1 GTTTATCT-GACTAGCGCTGGGCACAACTTTCGTCA
* * *
6000033 GTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCG
1 GTTTATCTGACTAGCGCTGGGCACA--ACT-T-TC-GTCA
* * *
6000073 GTTTATCCGGCTAGCACTGGGCACAACTTTCGTCA
1 GTTTATCTGACTAGCGCTGGGCACAACTTTCGTCA
*
6000108 GTTTATTTGACTAG
1 GTTTATCTGACTAG
6000122 TACTGGGTAC
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
35 36 0.51
36 3 0.04
37 3 0.04
38 3 0.04
39 2 0.03
40 24 0.34
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (35 bp):
GTTTATCTGACTAGCGCTGGGCACAACTTTCGTCA
Found at i:6000078 original size:75 final size:75
Alignment explanation
Indices: 5999955--6000234 Score: 348
Period size: 75 Copynumber: 3.7 Consensus size: 75
5999945 ACGAATATTA
** * * * *
5999955 TCAGTTTATCTTCCTAGTGTTGGGCACA-CGATTATATTTGTCGGTTTATTCGACTAGCGCTGGG
1 TCAGTTTATCTGACTAGTGCTGGGCACATC-ATTATATCTGTCGGTTTATCCGACTAGCACTGGG
6000019 CACAACTTTCG
65 CACAACTTTCG
*
6000030 TCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGGCTAGCACTGGGC
1 TCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTAGCACTGGGC
6000095 ACAACTTTCG
66 ACAACTTTCG
* * * * * * *
6000105 TCAGTTTATTTGACTAGTACTGGGTACATCGTTATATCTATCGGTTTATCCAACTAGCACTGGGT
1 TCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTAGCACTGGGC
* *
6000170 GCAACTTT-T
66 ACAACTTTCG
* * * * *
6000179 TCAGTTTATATGACTAGTGATGGGCACATCAATATATATGTCGGTTTATCTGACTA
1 TCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTA
6000235 ACGTGGGGCG
Statistics
Matches: 177, Mismatches: 27, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
74 46 0.26
75 130 0.73
76 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (75 bp):
TCAGTTTATCTGACTAGTGCTGGGCACATCATTATATCTGTCGGTTTATCCGACTAGCACTGGGC
ACAACTTTCG
Found at i:6007949 original size:47 final size:47
Alignment explanation
Indices: 6007880--6007978 Score: 153
Period size: 47 Copynumber: 2.1 Consensus size: 47
6007870 TTATTGGACG
* * *
6007880 TTTATCTATGATTTTGGTGGCTTGTCCACGATATTGATTGTTGGCAA
1 TTTATCTACGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAA
* *
6007927 TTTATCTGCGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAG
1 TTTATCTACGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAA
6007974 TTTAT
1 TTTAT
6007979 AAGTGTTACT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.19, C:0.13, G:0.22, T:0.45
Consensus pattern (47 bp):
TTTATCTACGATTTTAGTGGCTTGTCCACGATATTGATTATTGGCAA
Found at i:6010054 original size:42 final size:42
Alignment explanation
Indices: 6009947--6010106 Score: 144
Period size: 42 Copynumber: 3.8 Consensus size: 42
6009937 TCATGTTTAC
* * * *
6009947 TTTCCGTTTAGCTCTCACGAGCTTCTGTTTAACTCATATGAG
1 TTTCCGTTCAGCTCTCACGAGCTTCTGTTCAACCCATATGGG
* * ** * *
6009989 TTTCTGTTCAGTTCT-ATTAAGCTTCTGTTTAACCCTTATGGG
1 TTTCCGTTCAGCTCTCA-CGAGCTTCTGTTCAACCCATATGGG
* *
6010031 TTCCCGTTCAGCTCTTACGAGCTT-TCGTTCAACCCATATGGG
1 TTTCCGTTCAGCTCTCACGAGCTTCT-GTTCAACCCATATGGG
** * *
6010073 TTTCTATTTAGCTCTCATGAGCTTCTGTTCAACC
1 TTTCCGTTCAGCTCTCACGAGCTTCTGTTCAACC
6010107 TTCAGGCTTC
Statistics
Matches: 93, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
41 2 0.02
42 89 0.96
43 2 0.02
ACGTcount: A:0.17, C:0.25, G:0.16, T:0.41
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTCACGAGCTTCTGTTCAACCCATATGGG
Found at i:6010096 original size:84 final size:84
Alignment explanation
Indices: 6009950--6010106 Score: 192
Period size: 84 Copynumber: 1.9 Consensus size: 84
6009940 TGTTTACTTT
* * * * *
6009950 CCGTTTAGCTCTCACGAGCTTCTGTTTAACTCATATGAGTTTCTGTTCAGTTCTATTAAGCTTCT
1 CCGTTCAGCTCTCACGAGCTTCTGTTCAACCCATATGAGTTTCTATTCAGCTCTATTAAGCTTCT
*
6010015 GTTTAACCCTTATGGGTTC
66 GTTCAACCCTTATGGGTTC
* * * *
6010034 CCGTTCAGCTCTTACGAGCTT-TCGTTCAACCCATATGGGTTTCTATTTAGCTCTCA-TGAGCTT
1 CCGTTCAGCTCTCACGAGCTTCT-GTTCAACCCATATGAGTTTCTATTCAGCTCT-ATTAAGCTT
6010097 CTGTTCAACC
64 CTGTTCAACC
6010107 TTCAGGCTTC
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
83 1 0.02
84 59 0.97
85 1 0.02
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (84 bp):
CCGTTCAGCTCTCACGAGCTTCTGTTCAACCCATATGAGTTTCTATTCAGCTCTATTAAGCTTCT
GTTCAACCCTTATGGGTTC
Found at i:6012574 original size:16 final size:16
Alignment explanation
Indices: 6012553--6012585 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6012543 ATTAAATAAC
6012553 TAAAATAAACAAACAA
1 TAAAATAAACAAACAA
6012569 TAAAATAAACAAACAA
1 TAAAATAAACAAACAA
6012585 T
1 T
6012586 TAAACCAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (16 bp):
TAAAATAAACAAACAA
Found at i:6014574 original size:15 final size:15
Alignment explanation
Indices: 6014554--6014584 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6014544 AAAACAACAT
6014554 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
6014569 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
6014584 A
1 A
6014585 CTTACATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:6018515 original size:559 final size:558
Alignment explanation
Indices: 6017522--6018639 Score: 2121
Period size: 559 Copynumber: 2.0 Consensus size: 558
6017512 CCTTTTACCT
6017522 CAACCTTCGACGCATCTCCAAATGACACATGTCCCGTTTCAACCTTTTGCATCTCTTTGAATAGG
1 CAACCTTCGACGCATCTCCAAATGACACATGTCCCGTTTCAACCTTTTGCATCTCTTTGAATAGG
*
6017587 TGCTTGAGCCCACACATATGGTTGCTTGCACCTGTGTCAAGGTACCACACCATGTTGTTGTTGGT
66 TGCTTGAACCCACACATATGGTTGCTTGCACCTGTGTCAAGGTACCACACCATGTTGTTGTTGGT
6017652 GTTGACTTCGTTGTGTGCCATCAAGAGAAAACCTTCTTTTGCCTCCTCATTTTCCGTGGTTAGGT
131 GTTGACTTCGTTGTGTGCCATCAAGAGAAAACCTTCTTTTGCCTCCTCATTTTCCGTGGTTAGGT
*
6017717 TGGTTGTCTCTTCCACCTTTTTTGAGACACGACATTCTTTCGCGAATGTCCCGCCTTACCACAAT
196 TGGTTGTCTCTTCCACCTTTTTCGAGACACGACATTCTTTCGCGAATGTCCCGCCTTACCACAAT
6017782 TGTAACACTTATCAGAGTTACAATCCTTCGCATAGTGACCATATTTGCCACACTTGTAGCACTCG
261 TGTAACACTTATCAGAGTTACAATCCTTCGCATAGTGACCATATTTGCCACACTTGTAGCACTCG
6017847 ACATTGGAATAATTTGACCATCCGCCTCTTCCACGACCACGTCTTCTTCCACGCCAATTTTGTTG
326 ACATTGGAATAATTTGACCATCCGCCTCTTCCACGACCACGTCTTCTTCCACGCCAATTTTGTTG
*
6017912 GTTTGAATGCTCCTTTTCTTCATAATTCCCTTCTTGACCACGACCTTTTCCACCATGACCATTTC
391 GTTTGAATGCTCCTTTTCTTCATAATTCCCTTCTTGACCACGACCTTTTCCACCACGACCATTTC
*
6017977 CTCGATCTCCACGACCACGACCTCTACCTCGAAGGCTTTGAAAATAGAAAACCTTCTCGTCTTTG
456 CTCGATCTCCACGACCACGACCTCTACCTCGAAAGCTTTGAAAATAGAAAACCTTCTCGTCTTTG
6018042 ATTGATGCCTTGGTTTGAAGTGCTTGCTCGAGTGTCTC
521 ATTGATGCCTTGGTTTGAAGTGCTTGCTCGAGTGTCTC
*
6018080 CAACCTTCGACGCATCTCGAAATGACACATGTCCCGTTTCAACCTTTTGCATCTCTTTGAATAGG
1 CAACCTTCGACGCATCTCCAAATGACACATGTCCCGTTTCAACCTTTTGCATCTCTTTGAATAGG
*
6018145 TGCTTGAACCCACACATATGGTTGCTTGCACGTGTGTCAAGGTACCACACCATGTTGTTGTTGGT
66 TGCTTGAACCCACACATATGGTTGCTTGCACCTGTGTCAAGGTACCACACCATGTTGTTGTTGGT
6018210 GTTGACTTCGTTGTGTGCCATCAAGAGAAAACCTTCTTTTGCCTCCTCATTTTCCGTGGTTAGGT
131 GTTGACTTCGTTGTGTGCCATCAAGAGAAAACCTTCTTTTGCCTCCTCATTTTCCGTGGTTAGGT
6018275 TGGTTGTCTCTTCCACCTTTTTCGAGA-AGCGACATTCTTTCGCGAAGTGTCCCGCCTTACCACA
196 TGGTTGTCTCTTCCACCTTTTTCGAGACA-CGACATTCTTTCGCGAA-TGTCCCGCCTTACCACA
6018339 ATTGTAACACTTATCAGAGTTACAATCCTTCGCATAGTGACCATATTTGCCACACTTGTAGCACT
259 ATTGTAACACTTATCAGAGTTACAATCCTTCGCATAGTGACCATATTTGCCACACTTGTAGCACT
6018404 CGACATTGGAATAATTTGACCATCCGCCTCTTCCACGACCACGTCTTCTTCCACGCCAATTTTGT
324 CGACATTGGAATAATTTGACCATCCGCCTCTTCCACGACCACGTCTTCTTCCACGCCAATTTTGT
6018469 TGGTTTGAATGCTCCTTTTCTTCATAATTCCCTTCTTGACCACGACCTTTTCCACCACGACCATT
389 TGGTTTGAATGCTCCTTTTCTTCATAATTCCCTTCTTGACCACGACCTTTTCCACCACGACCATT
* * * *
6018534 TCCTCGATCTCCACGACCACGGCCTCTACCTCGAAAGCTTTGAGAATAGAGAACCTTTTCGTCTT
454 TCCTCGATCTCCACGACCACGACCTCTACCTCGAAAGCTTTGAAAATAGAAAACCTTCTCGTCTT
6018599 TGATTGATGCCTTGGTTTGAAGTGCTTGCTCGAGTGTCTC
519 TGATTGATGCCTTGGTTTGAAGTGCTTGCTCGAGTGTCTC
6018639 C
1 C
6018640 TCTTTCTTCT
Statistics
Matches: 548, Mismatches: 10, Indels: 3
0.98 0.02 0.01
Matches are distributed among these distances:
557 1 0.00
558 235 0.43
559 312 0.57
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (558 bp):
CAACCTTCGACGCATCTCCAAATGACACATGTCCCGTTTCAACCTTTTGCATCTCTTTGAATAGG
TGCTTGAACCCACACATATGGTTGCTTGCACCTGTGTCAAGGTACCACACCATGTTGTTGTTGGT
GTTGACTTCGTTGTGTGCCATCAAGAGAAAACCTTCTTTTGCCTCCTCATTTTCCGTGGTTAGGT
TGGTTGTCTCTTCCACCTTTTTCGAGACACGACATTCTTTCGCGAATGTCCCGCCTTACCACAAT
TGTAACACTTATCAGAGTTACAATCCTTCGCATAGTGACCATATTTGCCACACTTGTAGCACTCG
ACATTGGAATAATTTGACCATCCGCCTCTTCCACGACCACGTCTTCTTCCACGCCAATTTTGTTG
GTTTGAATGCTCCTTTTCTTCATAATTCCCTTCTTGACCACGACCTTTTCCACCACGACCATTTC
CTCGATCTCCACGACCACGACCTCTACCTCGAAAGCTTTGAAAATAGAAAACCTTCTCGTCTTTG
ATTGATGCCTTGGTTTGAAGTGCTTGCTCGAGTGTCTC
Found at i:6018517 original size:15 final size:15
Alignment explanation
Indices: 6018507--6018536 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6018497 TCCCTTCTTG
6018507 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
6018522 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
6018537 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:6023331 original size:26 final size:26
Alignment explanation
Indices: 6023293--6023349 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
6023283 CGGCTATGGC
6023293 AACATAGAGAGTCCACC-GAGACAGTA
1 AACATAGAGAGTCCACCAG-GACAGTA
* *
6023319 AACATA-AGAAGTCCGCCAGGACATTA
1 AACATAGAG-AGTCCACCAGGACAGTA
6023345 AACAT
1 AACAT
6023350 GGAACCTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 2 0.07
26 24 0.89
27 1 0.04
ACGTcount: A:0.44, C:0.23, G:0.19, T:0.14
Consensus pattern (26 bp):
AACATAGAGAGTCCACCAGGACAGTA
Found at i:6027442 original size:16 final size:14
Alignment explanation
Indices: 6027405--6027443 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 14
6027395 GCGAAAAATA
6027405 AATAATAAAAAAAG
1 AATAATAAAAAAAG
6027419 AA-AATAAAAAAACG
1 AATAATAAAAAAA-G
6027433 AATAATTAAAA
1 AATAA-TAAAA
6027444 GAATGATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 5 0.23
15 2 0.09
16 5 0.23
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (14 bp):
AATAATAAAAAAAG
Found at i:6028711 original size:39 final size:39
Alignment explanation
Indices: 6028646--6028733 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
6028636 GTGTTGTTTG
*
6028646 AAATTATA-TTTAAGTATTTAAATAAATTATATTAAGTT
1 AAATTATATTTTAAGTATCTAAATAAATTATATTAAGTT
* * * *
6028684 AACTTATATTTTAAGTCTCTAAGTAAATTATGTTAAGTT
1 AAATTATATTTTAAGTATCTAAATAAATTATATTAAGTT
6028723 AAATTATATTT
1 AAATTATATTT
6028734 GAGCCTTGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 7 0.16
39 36 0.84
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (39 bp):
AAATTATATTTTAAGTATCTAAATAAATTATATTAAGTT
Found at i:6035394 original size:41 final size:43
Alignment explanation
Indices: 6035330--6035410 Score: 130
Period size: 41 Copynumber: 1.9 Consensus size: 43
6035320 TAAACATTAA
*
6035330 AAAATTATTTTAAAAATAAAAAAAATAAAAATAAAAATATTTT
1 AAAAGTATTTTAAAAATAAAAAAAATAAAAATAAAAATATTTT
*
6035373 AAAAGTATTTT-AAAAT-TAAAAAATAAAAATAAAAATAT
1 AAAAGTATTTTAAAAATAAAAAAAATAAAAATAAAAATAT
6035411 ATATTTATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 21 0.58
42 5 0.14
43 10 0.28
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (43 bp):
AAAAGTATTTTAAAAATAAAAAAAATAAAAATAAAAATATTTT
Found at i:6036601 original size:13 final size:14
Alignment explanation
Indices: 6036583--6036643 Score: 67
Period size: 13 Copynumber: 4.6 Consensus size: 14
6036573 CATAAGTATA
*
6036583 TTCATATAAAC-AC
1 TTCATATAAACTAT
6036596 TTCATAT-AACTAT
1 TTCATATAAACTAT
*
6036609 TTCATAT-ATCTAT
1 TTCATATAAACTAT
6036622 TTCCATATAAAC-AT
1 TT-CATATAAACTAT
6036636 TTCATATA
1 TTCATATA
6036644 TCCATTTCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
12 3 0.07
13 28 0.67
14 9 0.21
15 2 0.05
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (14 bp):
TTCATATAAACTAT
Found at i:6036612 original size:40 final size:40
Alignment explanation
Indices: 6036568--6036652 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
6036558 AAATGTCCCT
* *
6036568 TTTCACATAAGTATATT-CATATAAACACTTCATATAACTA
1 TTTCACATAACTAT-TTCCATATAAACACTTCATATAACCA
* * * *
6036608 TTTCATATATCTATTTCCATATAAACATTTCATATATCCA
1 TTTCACATAACTATTTCCATATAAACACTTCATATAACCA
6036648 TTTCA
1 TTTCA
6036653 TATTACCATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 36 0.95
ACGTcount: A:0.38, C:0.19, G:0.01, T:0.42
Consensus pattern (40 bp):
TTTCACATAACTATTTCCATATAAACACTTCATATAACCA
Found at i:6036628 original size:27 final size:25
Alignment explanation
Indices: 6036596--6036664 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 25
6036586 ATATAAACAC
*
6036596 TTCATATAACTATTTCATATATCTAT
1 TTCATATAAC-ATTTCATATATCCAT
6036622 TTCCATATAAACATTTCATATATCCAT
1 TT-CATAT-AACATTTCATATATCCAT
*
6036649 TTCATATTACCATTTC
1 TTCATA-TAACATTTC
6036665 TGTTTACTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 13 0.34
27 22 0.58
28 3 0.08
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCATATAACATTTCATATATCCAT
Found at i:6036649 original size:13 final size:13
Alignment explanation
Indices: 6036596--6036664 Score: 68
Period size: 13 Copynumber: 5.2 Consensus size: 13
6036586 ATATAAACAC
* *
6036596 TTCATATAACTAT
1 TTCATATATCCAT
*
6036609 TTCATATATCTAT
1 TTCATATATCCAT
**
6036622 TTCCATATAAACAT
1 TT-CATATATCCAT
6036636 TTCATATATCCAT
1 TTCATATATCCAT
6036649 TTCATAT-TACCAT
1 TTCATATAT-CCAT
6036662 TTC
1 TTC
6036665 TGTTTACTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
12 1 0.02
13 37 0.77
14 10 0.21
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.46
Consensus pattern (13 bp):
TTCATATATCCAT
Found at i:6036664 original size:40 final size:40
Alignment explanation
Indices: 6036585--6036664 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
6036575 TAAGTATATT
* *
6036585 CATATAAACACTTCATATAACTATTTCATATATCTATTTC
1 CATATAAACACTTCATATAACCATTTCATATATCCATTTC
* *
6036625 CATATAAACATTTCATATATCCATTTCATAT-TACCATTTC
1 CATATAAACACTTCATATAACCATTTCATATAT-CCATTTC
6036665 TGTTTACTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.03
40 34 0.97
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.42
Consensus pattern (40 bp):
CATATAAACACTTCATATAACCATTTCATATATCCATTTC
Found at i:6043165 original size:51 final size:51
Alignment explanation
Indices: 6043100--6043231 Score: 167
Period size: 51 Copynumber: 2.6 Consensus size: 51
6043090 TGATAGGTCG
* ***
6043100 CATGTGTAGTACTATGTGAAGGCTACTATGCGTACCGGAT-AGCTTCGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAAT-GATCA
* * * *
6043151 CATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGGTCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGATCA
*
6043202 CATGTGTAATACTATGTGCAGGCTACTATG
1 CATGTGTAGTACTATGTGCAGGCTACTATG
6043232 TGAACCAGGT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
51 68 0.97
52 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (51 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGATCA
Found at i:6043270 original size:102 final size:101
Alignment explanation
Indices: 6043054--6043237 Score: 262
Period size: 102 Copynumber: 1.8 Consensus size: 101
6043044 AGGTCACGTT
* * * * *
6043054 TGTAGTGCTATGTCCAGGCTACTACGTGTATCGGAATGATAGGTCGCATGTGTAGTACTATGTGA
1 TGTAGTACTATGTGCAGGCTACTACGTGTATCGGAATGAAAGGTCACATGTGTAATACTATGTGA
* *
6043119 AGGCTACTATGCGTACCGGATAGCTTCGATCACATG
66 AGGCTACTATGCGAACCGGATAGCTTCGATCACAAG
6043155 TGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGAAAATGGTCACATGTGTAATACTATGT
1 TGTAGTACTATGTGCAGGCTACTACGTGTATCGGAATG-AAA-GGTCACATGTGTAATACTATGT
* *
6043219 GCAGGCTACTATGTGAACC
64 GAAGGCTACTATGCGAACC
6043238 AGGTATCATT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
100 3 0.04
101 34 0.47
102 36 0.49
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (101 bp):
TGTAGTACTATGTGCAGGCTACTACGTGTATCGGAATGAAAGGTCACATGTGTAATACTATGTGA
AGGCTACTATGCGAACCGGATAGCTTCGATCACAAG
Found at i:6052687 original size:51 final size:51
Alignment explanation
Indices: 6052544--6052726 Score: 165
Period size: 51 Copynumber: 3.6 Consensus size: 51
6052534 AGTTGCTAGG
* * * *
6052544 TCACGTGTGTAGTGCTATGTGCATGCTACTACGTGTATCAGA-ATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATATGATAGA
* * * * * * * *
6052594 TCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTACCGGATA-GCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATATG-ATAGA
* ** *
6052645 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAAT-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT-ATGATAGA
* *
6052696 TCACATGTGTAATACTATGTGCAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
6052727 TGTGAACCGG
Statistics
Matches: 104, Mismatches: 25, Indels: 7
0.76 0.18 0.05
Matches are distributed among these distances:
50 34 0.33
51 68 0.65
52 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATATGATAGA
Found at i:6052736 original size:102 final size:101
Alignment explanation
Indices: 6052544--6052736 Score: 271
Period size: 101 Copynumber: 1.9 Consensus size: 101
6052534 AGTTGCTAGG
* * * * * *
6052544 TCACGTGTGTAGTGCTATGTGCATGCTACTACGTGTATCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCAGAATGAAAGGTCACATGTGTAATAC
* *
6052609 TATGTGTAGGCTACTATGCGTACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGAACCGGATAGCTTCGA
*
6052645 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATC-GGATGAAAATGGTCACATGTGTAAT
1 TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCAGAATG-AAA-GGTCACATGTGTAAT
*
6052709 ACTATGTGCAGGCTACTATGTGAACCGG
64 ACTATGTGCAGGCTACTATGCGAACCGG
6052737 GTATCATTTA
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
100 4 0.05
101 38 0.47
102 38 0.47
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTATAGTACTATGTGCAGGCTACTACGTGTATCAGAATGAAAGGTCACATGTGTAATAC
TATGTGCAGGCTACTATGCGAACCGGATAGCTTCGA
Found at i:6057829 original size:19 final size:19
Alignment explanation
Indices: 6057794--6057842 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
6057784 TTTTCATATG
*
6057794 GGGACCATTTT-TTGATAA
1 GGGAACATTTTGTTGATAA
6057812 GGGAACATTTTGTTGATAA
1 GGGAACATTTTGTTGATAA
6057831 -GGACACATTTTG
1 GGGA-ACATTTTG
6057843 AGGATATTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 13 0.46
19 15 0.54
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (19 bp):
GGGAACATTTTGTTGATAA
Found at i:6057848 original size:19 final size:19
Alignment explanation
Indices: 6057807--6057848 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
6057797 ACCATTTTTT
**
6057807 GATAAGGGAACATTTTGTT
1 GATAAGGGAACATTTTGAG
6057826 GATAA-GGACACATTTTGAG
1 GATAAGGGA-ACATTTTGAG
6057845 GATA
1 GATA
6057849 TTGAAGATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (19 bp):
GATAAGGGAACATTTTGAG
Found at i:6065094 original size:18 final size:19
Alignment explanation
Indices: 6065062--6065100 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
6065052 ATCAAGAGAA
*
6065062 TTTTTTGGTGATTTTTTTCT
1 TTTTTTGGT-ATTTTTCTCT
6065082 TTTTTTGGT-TTTTTCTCT
1 TTTTTTGGTATTTTTCTCT
6065100 T
1 T
6065101 CAAAAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.03, C:0.08, G:0.13, T:0.77
Consensus pattern (19 bp):
TTTTTTGGTATTTTTCTCT
Found at i:6068330 original size:3 final size:3
Alignment explanation
Indices: 6068322--6068406 Score: 107
Period size: 3 Copynumber: 28.3 Consensus size: 3
6068312 TATGTATATT
* * *
6068322 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATT ATA AGA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
6068370 ATA ATA AAA ATA ATA AGA ATA AGA ATA ATA AGA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6068407 CTTAATAACA
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:6069415 original size:44 final size:44
Alignment explanation
Indices: 6069365--6069476 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 44
6069355 GATATGCTCT
* * *
6069365 CTGCAACTTTAGAGAGATAAGATCTA-TCACTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAAGAT-TATTCACTTTAATCCACTCCA
** ** *
6069409 CTGCAACTTCAGGGAGATTGGATTATTGGCTTTAATCTACTCCA
1 CTGCAACTTCAGGGAGATAAGATTATTCACTTTAATCCACTCCA
6069453 CTGCAACTTCAGGGAGATAAGATT
1 CTGCAACTTCAGGGAGATAAGATT
6069477 CGCTATCTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 2 0.04
44 55 0.96
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATTATTCACTTTAATCCACTCCA
Done.