Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 190 of 284
Found at i:64100025 original size:31 final size:31
Alignment explanation
Indices: 64099987--64100050 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
64099977 AATATTAGGG
*
64099987 GACTTAAAT-AATAACTTTCGAATAGTTCAGT
1 GACTTAAATGAA-AACTTTCAAATAGTTCAGT
*
64100018 GACTTAAATGAAAACTTTTAAATAGTTCAGT
1 GACTTAAATGAAAACTTTCAAATAGTTCAGT
64100049 GA
1 GA
64100051 TCATTTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (31 bp):
GACTTAAATGAAAACTTTCAAATAGTTCAGT
Found at i:64102196 original size:30 final size:32
Alignment explanation
Indices: 64102130--64102188 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
64102120 TCTACTATAT
64102130 TTTTTGTTATAAATATTTTATTTAAAATACAC
1 TTTTTGTTATAAATATTTTATTTAAAATACAC
*
64102162 TTTTTGTTATAGATA-TTT-TTTAAAATA
1 TTTTTGTTATAAATATTTTATTTAAAATA
64102189 TCGTTTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 9 0.35
31 3 0.12
32 14 0.54
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (32 bp):
TTTTTGTTATAAATATTTTATTTAAAATACAC
Found at i:64108950 original size:44 final size:44
Alignment explanation
Indices: 64108882--64109137 Score: 193
Period size: 44 Copynumber: 5.7 Consensus size: 44
64108872 CAGTGGGATG
*
64108882 CAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTA
* **
64108926 CTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-TA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAA-ATTA
* * * *
64108970 GCGAA-TCTTATTTCCCTGAAGTTTCAGTGGAAC-GGATTGAAGCTATA
1 -C-AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGG-TTGAA-AT-TA
* * * * *
64109017 AATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA-GAT--CA-TA
1 CA----AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTA
** * * *
64109062 GCAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAGTTA
1 -CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTA
64109107 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
64109138 TAGACTGAAG
Statistics
Matches: 160, Mismatches: 34, Indels: 36
0.70 0.15 0.16
Matches are distributed among these distances:
41 24 0.15
42 3 0.02
44 66 0.41
45 37 0.23
46 2 0.01
47 2 0.01
49 1 0.01
50 1 0.01
51 24 0.15
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTA
Found at i:64109054 original size:96 final size:94
Alignment explanation
Indices: 64108928--64109234 Score: 337
Period size: 96 Copynumber: 3.3 Consensus size: 94
64108918 TGAAATTACT
* * *
64108928 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATATCCCTAAAGTT
*
64108993 TCAGTGGAACGGATTGAAGCTATAAATTG
66 ACAGTGGAACGGATTGAAGCTATAAATTG
* * * * *
64109022 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T---CATAGCAAACCTTATCTCCCTAAAG
1 -AG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATATCCCTAAAG
* *
64109083 TTACAGTGGAGCAGG-TTGAAG-T-TACA---
64 TTACAGTGGAAC-GGATTGAAGCTATAAATTG
* * * *
64109109 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGTGAATTTTATATCCCTAAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATATCCCTAAAGTT
*
64109174 GCAGTGGAACGGATTGAAGCTATAAATTG
66 ACAGTGGAACGGATTGAAGCTATAAATTG
* *
64109203 TAGGTCTTATCTCTCTGAAGTTGCAATAGAGC
1 -A-GTCTTATCTCCCTGAAGTTGCAGTAGAGC
64109235 TGATCATAGA
Statistics
Matches: 172, Mismatches: 26, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
85 28 0.16
86 3 0.02
88 2 0.01
89 35 0.20
90 4 0.02
91 4 0.02
92 36 0.21
93 2 0.01
95 4 0.02
96 54 0.31
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (94 bp):
AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATATCCCTAAAGTT
ACAGTGGAACGGATTGAAGCTATAAATTG
Found at i:64109190 original size:181 final size:181
Alignment explanation
Indices: 64108881--64109330 Score: 659
Period size: 181 Copynumber: 2.5 Consensus size: 181
64108871 GCAGTGGGAT
* * * * *
64108881 GCAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACTAGTCTTATCTCCCTGAAG
1 GCAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAG
* * *
64108946 TTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTTCAGTGGAACGGATTGAA
66 TTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATATCCCTAAAGTTGCAGTGGAACGGATTGAA
*
64109011 GCTATAAATTGCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATA
131 GCTATAAATTGCAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCATA
64109062 GCAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAG
1 GCAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAG
* * *
64109127 TTGCAGTGGAGTAGACTGAAGATAGTGAATTTTATATCCCTAAAGTTGCAGTGGAACGGATTGAA
66 TTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATATCCCTAAAGTTGCAGTGGAACGGATTGAA
* * *
64109192 GCTATAAATTGTAGGTCTTATCTCTCTGAAGTTGCAATAGAGCTGATCATA
131 GCTATAAATTGCAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCATA
* * * * ** * *
64109243 GAAAACCTTATCTCCTTAAAATTACAGTGGAACAGACTGAAGATAACCAA-TCTTATCTCTCTGA
1 GCAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAG-TTA-CAAGTCTTATCTCCCTGA
*
64109307 AGTTGCAGTGGAGCAGATTGAAGA
64 AGTTGCAGTGGAGCAGACTGAAGA
64109331 CAGACTACAA
Statistics
Matches: 242, Mismatches: 25, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
181 202 0.83
182 37 0.15
183 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (181 bp):
GCAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAG
TTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATATCCCTAAAGTTGCAGTGGAACGGATTGAA
GCTATAAATTGCAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCATA
Found at i:64109357 original size:49 final size:48
Alignment explanation
Indices: 64109249--64109562 Score: 194
Period size: 44 Copynumber: 6.8 Consensus size: 48
64109239 CATAGAAAAC
* * * *
64109249 CTTATCTCCTTAAAATTACAGTGGAACAGACTGAAGATA-AC--C-AAT
1 CTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGA-AGACTACAAAT
*
64109294 CTTATCT-CTCTGAAGTTGCAGTGGAGCAGATTGAAGACAGACTACAAAT
1 CTTATCTCCT-TAAAGTTGCAGTGGAGCAGATTGAAGA-AGACTACAAAT
* * * *
64109343 CTTATCTCCTTGAAGTTGTAGTGGAGCAGATT--A-AAG-CCACAAAC
1 CTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGAAGACTACAAAT
* * * * * * * *
64109387 CTTATCTCAC-TGAAGTTGAAGTGGAACAGGTT-AAAAATA-AACCAAT
1 CTTATCTC-CTTAAAGTTGCAGTGGAGCAGATTGAAGAAGACTACAAAT
* *
64109433 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATGGGA-TACAAAT
1 CTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGA--AGACTACAAAT
* * * * * *
64109482 CTTATCTCCCTAAAGTTACAGTAGAGCAGATT--A-AAG-CCATAAAC
1 CTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGAAGACTACAAAT
* * * *
64109526 CTTATCTCCCTAAATTTACAGTGGAGCAGGTTGAAGA
1 CTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGA
64109563 TACCAATCTC
Statistics
Matches: 217, Mismatches: 34, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
44 69 0.32
45 35 0.16
46 37 0.17
47 6 0.03
48 1 0.00
49 67 0.31
50 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (48 bp):
CTTATCTCCTTAAAGTTGCAGTGGAGCAGATTGAAGAAGACTACAAAT
Found at i:64109401 original size:44 final size:45
Alignment explanation
Indices: 64109291--64109554 Score: 208
Period size: 49 Copynumber: 5.7 Consensus size: 45
64109281 GAAGATAACC
* *
64109291 AATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGACAGACTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-A-AG-CCACA
* *
64109340 AATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATT-AAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAGCCACA
* * * * * *** *
64109384 AACCTTATCTCACTGAAGTTGAAGTGGAACAGGTTAAAAATAAACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAAGCCACA
* * **
64109430 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATGGGATACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AA-A--AGCCACA
* * * *
64109479 AATCTTATCTCCCTAAAGTTACAGTAGAGCAGATT-AAAGCCATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAGCCACA
* * * *
64109523 AACCTTATCTCCCTAAATTTACAGTGGAGCAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
64109555 GTTGAAGATA
Statistics
Matches: 176, Mismatches: 34, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
44 65 0.37
45 2 0.01
46 38 0.22
47 3 0.02
49 68 0.39
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAGCCACA
Found at i:64109449 original size:46 final size:47
Alignment explanation
Indices: 64109249--64109516 Score: 140
Period size: 49 Copynumber: 5.7 Consensus size: 47
64109239 CATAGAAAAC
* * * * * *
64109249 CTTATCTCCTTAAAATT-ACAGTGGAACAGACTGAAGAT--AACCAAT
1 CTTATCTCCCTAAAGTTGA-AGTGGAACAGATTAAAAATGAAACAAAT
* * * * * *
64109294 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGACA-GACTACAAAT
1 CTTATCTCCCTAAAGTTGAAGTGGAACAGATT-AA-AAATGA-AACAAAT
* * * * ** *
64109343 CTTATCTCCTTGAAGTTGTAGTGGAGCAGATT--AAA-GCCACAAAC
1 CTTATCTCCCTAAAGTTGAAGTGGAACAGATTAAAAATGAAACAAAT
* * * *
64109387 CTTATCTCACTGAAGTTGAAGTGGAACAGGTTAAAAAT-AAACCAAT
1 CTTATCTCCCTAAAGTTGAAGTGGAACAGATTAAAAATGAAACAAAT
* * * * *
64109433 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATGGGATACAAAT
1 CTTATCTCCCTAAAGTTGAAGTGGAACAGATTAAAAAT--GAAACAAAT
* *
64109482 CTTATCTCCCTAAAGTT-ACAGTAGAGCAGATTAAA
1 CTTATCTCCCTAAAGTTGA-AGTGGAACAGATTAAA
64109517 GCCATAAACC
Statistics
Matches: 171, Mismatches: 39, Indels: 22
0.74 0.17 0.09
Matches are distributed among these distances:
44 32 0.19
45 27 0.16
46 39 0.23
47 2 0.01
49 71 0.42
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (47 bp):
CTTATCTCCCTAAAGTTGAAGTGGAACAGATTAAAAATGAAACAAAT
Found at i:64109549 original size:139 final size:138
Alignment explanation
Indices: 64109063--64109605 Score: 432
Period size: 139 Copynumber: 3.9 Consensus size: 138
64109053 CAGATCATAG
* * * * ** ** * *
64109063 CAAACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTAAAGTTACAGTAGAGCAGATTAAAGCCACAAACCTTATCTCCCTAAATT
* ** ** *** * * * *
64109128 TGCAGTGGAGTAGACTGAAGATAGTGAATTTTATATCCCTAAAGTTGCAGTGGAACGGATTGAAG
66 TACAGTGGAACAGGTTGAAGATAACCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG
* * * *
64109193 CTATAAATTG
131 --ACAGACTA
* ** * * * * * * * * *
64109203 TAGGTCTTATCTCTCTGAAGTTGCAATAGAGCTGATCATAG--A-AAACCTTATCTCCTTAAAAT
1 CAAATCTTATCTCCCTAAAGTTACAGTAGAGCAGATTAAAGCCACAAACCTTATCTCCCTAAATT
** * *
64109265 TACAGTGGAACAGACTGAAGATAACCAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAG
66 TACAGTGGAACAGGTTGAAGATAACCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG
64109330 ACAGACTA
131 ACAGACTA
* * ** * * *
64109338 CAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTAAAGCCACAAACCTTATCTCACTGAAGT
1 CAAATCTTATCTCCCTAAAGTTACAGTAGAGCAGATTAAAGCCACAAACCTTATCTCCCT-AAAT
* * *
64109403 TGA-AGTGGAACAGGTTAAAAATAAACCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGA
65 TTACAGTGGAACAGGTTGAAGAT-AACCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGA
**
64109467 AGATGGGA-TA
129 AGA-CAGACTA
*
64109477 CAAATCTTATCTCCCTAAAGTTACAGTAGAGCAGATTAAAGCCATAAACCTTATCTCCCTAAATT
1 CAAATCTTATCTCCCTAAAGTTACAGTAGAGCAGATTAAAGCCACAAACCTTATCTCCCTAAATT
* * * * * * * *
64109542 TACAGTGGAGCAGGTTGAAGAT-ACCAATCTCATATCCTTAAAGTTGTAGTAGATCAAATTGAAG
66 TACAGTGGAACAGGTTGAAGATAACCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG
64109606 CTACTAATCC
Statistics
Matches: 318, Mismatches: 78, Indels: 17
0.77 0.19 0.04
Matches are distributed among these distances:
135 34 0.11
137 104 0.33
138 34 0.11
139 117 0.37
140 29 0.09
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (138 bp):
CAAATCTTATCTCCCTAAAGTTACAGTAGAGCAGATTAAAGCCACAAACCTTATCTCCCTAAATT
TACAGTGGAACAGGTTGAAGATAACCAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG
ACAGACTA
Found at i:64111052 original size:26 final size:24
Alignment explanation
Indices: 64111021--64111076 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
64111011 AATTTAGTCC
* * *
64111021 TATTTCCCCTTTTAATTTCTTTTTT
1 TATTTCCCCATGTAATTT-TATTTT
64111046 TGATTTCCCCATGTAATTTTATTTT
1 T-ATTTCCCCATGTAATTTTATTTT
64111071 TATTTC
1 TATTTC
64111077 ATTTTAGTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 5 0.19
25 7 0.26
26 15 0.56
ACGTcount: A:0.16, C:0.18, G:0.04, T:0.62
Consensus pattern (24 bp):
TATTTCCCCATGTAATTTTATTTT
Found at i:64111376 original size:3 final size:3
Alignment explanation
Indices: 64111360--64111442 Score: 51
Period size: 3 Copynumber: 27.3 Consensus size: 3
64111350 TCAAATTTTA
* * * * *
64111360 TAT TAT TCAC TAT TAT TAT TAT TAT TAT TAA TGT CAT TGT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
64111406 CAT TAT TAT TGT CAT CAT T-T TCAT CAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT T
64111443 GTTTATGCAT
Statistics
Matches: 59, Mismatches: 18, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
2 2 0.03
3 54 0.92
4 3 0.05
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:64111402 original size:24 final size:24
Alignment explanation
Indices: 64111375--64111437 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
64111365 TTCACTATTA
*
64111375 TTATTATTATTATTAATGTCATTG
1 TTATTATCATTATTAATGTCATTG
* **
64111399 TTATTATCATTATTATTGTCATCA
1 TTATTATCATTATTAATGTCATTG
64111423 TT-TTCATCATTATTA
1 TTATT-ATCATTATTA
64111438 TTATTGTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 2 0.06
24 32 0.94
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.57
Consensus pattern (24 bp):
TTATTATCATTATTAATGTCATTG
Found at i:64116188 original size:118 final size:120
Alignment explanation
Indices: 64116047--64116282 Score: 422
Period size: 121 Copynumber: 2.0 Consensus size: 120
64116037 TGTTTGAATG
* *
64116047 AATATGAAGTTGAATTTTCATATAGTGTGTAC-AA-ATAGATTTTTTATGTCATTTTTCTTGTAT
1 AATATGAACTTGAATTTTCATATAGTGTGTACAAATATAGATTTTTTATGTCAATTTTCTTGTAT
64116110 GAAGATAAACTTGTCTTTTTAAAGAAAATTGGGTATGAATTTCCTACCTTATAAT
66 GAAGATAAACTTGTCTTTTTAAAGAAAATTGGGTATGAATTTCCTACCTTATAAT
*
64116165 AATATGAACTTGAATTTTCATATAGTGTGTACAAATTATAGATTTTTTATGTTAATTTTCTTGTA
1 AATATGAACTTGAATTTTCATATAGTGTGTACAAA-TATAGATTTTTTATGTCAATTTTCTTGTA
64116230 TGAAGATAAACTTGTCTTTTTAAAGAAAATTGGGTATGAATTTCCTACCTTAT
65 TGAAGATAAACTTGTCTTTTTAAAGAAAATTGGGTATGAATTTCCTACCTTAT
64116283 GTTAATGTCA
Statistics
Matches: 112, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
118 31 0.28
119 2 0.02
121 79 0.71
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.44
Consensus pattern (120 bp):
AATATGAACTTGAATTTTCATATAGTGTGTACAAATATAGATTTTTTATGTCAATTTTCTTGTAT
GAAGATAAACTTGTCTTTTTAAAGAAAATTGGGTATGAATTTCCTACCTTATAAT
Found at i:64118758 original size:23 final size:22
Alignment explanation
Indices: 64118732--64118777 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 22
64118722 ATACATAAAT
64118732 ATTTTAAAA-ATATATAATAACAA
1 ATTTTAAAATATAT-TAA-AACAA
64118755 ATTTTAAAATATATTAAAACAA
1 ATTTTAAAATATATTAAAACAA
64118777 A
1 A
64118778 AAAAGTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 6 0.27
23 12 0.55
24 4 0.18
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
ATTTTAAAATATATTAAAACAA
Found at i:64118763 original size:22 final size:23
Alignment explanation
Indices: 64118732--64118777 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 23
64118722 ATACATAAAT
64118732 ATTTTAAAAATATA-TAATAACAA
1 ATTTTAAAAATATATTAA-AACAA
64118755 ATTTT-AAAATATATTAAAACAA
1 ATTTTAAAAATATATTAAAACAA
64118777 A
1 A
64118778 AAAAGTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
ATTTTAAAAATATATTAAAACAA
Found at i:64119161 original size:15 final size:15
Alignment explanation
Indices: 64119141--64119182 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
64119131 TGGGATAGTG
64119141 TTTTATCTTA-TTTTA
1 TTTTAT-TTATTTTTA
64119156 TTTTATTTATTTTTA
1 TTTTATTTATTTTTA
64119171 -TTT-TTTATTTTT
1 TTTTATTTATTTTT
64119183 TTCAAATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 9 0.35
14 6 0.23
15 11 0.42
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTATTTATTTTTA
Found at i:64119940 original size:17 final size:17
Alignment explanation
Indices: 64119918--64119972 Score: 92
Period size: 17 Copynumber: 3.2 Consensus size: 17
64119908 GGCCAATGTA
64119918 GGCGTGTTGGCCACACG
1 GGCGTGTTGGCCACACG
64119935 GGCGTGTTGGCCACACG
1 GGCGTGTTGGCCACACG
*
64119952 GGCGTGTGTGCCCACACG
1 GGCGTGT-TGGCCACACG
64119970 GGC
1 GGC
64119973 ATGTGGGCCC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
17 24 0.67
18 12 0.33
ACGTcount: A:0.11, C:0.31, G:0.42, T:0.16
Consensus pattern (17 bp):
GGCGTGTTGGCCACACG
Found at i:64119977 original size:18 final size:18
Alignment explanation
Indices: 64119918--64119983 Score: 82
Period size: 17 Copynumber: 3.8 Consensus size: 18
64119908 GGCCAATGTA
*
64119918 GGCGTGT-TGGCCACACG
1 GGCGTGTGTGCCCACACG
*
64119935 GGCGTGT-TGGCCACACG
1 GGCGTGTGTGCCCACACG
64119952 GGCGTGTGTGCCCACACG
1 GGCGTGTGTGCCCACACG
* *
64119970 GGCATGTGGGCCCA
1 GGCGTGTGTGCCCA
64119984 TAATTCTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
17 24 0.53
18 21 0.47
ACGTcount: A:0.12, C:0.30, G:0.41, T:0.17
Consensus pattern (18 bp):
GGCGTGTGTGCCCACACG
Found at i:64126425 original size:13 final size:12
Alignment explanation
Indices: 64126405--64126439 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
64126395 ATGCTATAAC
64126405 AAAAAGAAAAGA
1 AAAAAGAAAAGA
64126417 AAAAGAGAAAAGA
1 AAAA-AGAAAAGA
*
64126430 AAAATGAAAA
1 AAAAAGAAAA
64126440 CCTAAACTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (12 bp):
AAAAAGAAAAGA
Found at i:64127585 original size:99 final size:99
Alignment explanation
Indices: 64127414--64127597 Score: 316
Period size: 99 Copynumber: 1.9 Consensus size: 99
64127404 GATAGCACAT
* *
64127414 AGTAATTGAATGAGTGTAATAATTCTTAGGGTAGTAATTACACTCTCTTGTAATTACAAAGAATT
1 AGTAATTGAATGAGTGTAATAATTATTAAGGTAGTAATTACACTCTCTTGTAATTACAAAGAATT
*
64127479 AGAATTCCCTAGATGTGTTTTTTGGACAGAACAG
66 AGAATTCCCTAGACGTGTTTTTTGGACAGAACAG
*
64127513 AGTAATTGAATGAGTGTAATAATTATTAAGGTAGTAATTACACTCTCTTGTAATTATAAAGAATT
1 AGTAATTGAATGAGTGTAATAATTATTAAGGTAGTAATTACACTCTCTTGTAATTACAAAGAATT
64127578 -GTAATTCCCTAGACGTGTTT
66 AG-AATTCCCTAGACGTGTTT
64127598 AGCTAGCAGA
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
98 1 0.01
99 79 0.99
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (99 bp):
AGTAATTGAATGAGTGTAATAATTATTAAGGTAGTAATTACACTCTCTTGTAATTACAAAGAATT
AGAATTCCCTAGACGTGTTTTTTGGACAGAACAG
Found at i:64127707 original size:16 final size:16
Alignment explanation
Indices: 64127686--64127731 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
64127676 TTATATTTTT
64127686 TAAAAAATAATTACTA
1 TAAAAAATAATTACTA
* *
64127702 TAAAAAATTATTAGTA
1 TAAAAAATAATTACTA
64127718 TGATAAAAATAATT
1 T-A-AAAAATAATT
64127732 TTTGGACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 15 0.60
17 1 0.04
18 9 0.36
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (16 bp):
TAAAAAATAATTACTA
Found at i:64130125 original size:57 final size:57
Alignment explanation
Indices: 64129992--64130134 Score: 171
Period size: 57 Copynumber: 2.4 Consensus size: 57
64129982 AATTGATGGT
*
64129992 AAAAAGGATCTAGCCCGGACGGGTGATCTTATCCTGATATAGCCCTCCCGAATAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGATC---T--TGATATAGCCCTCCCGAAGAATATGTGTG
* *
64130055 AAAAAGATCTAGCCTGGATGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTG-G
1 AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGTG
* *
64130111 AAAATGGATTTAGCCCGGACGGGT
1 AAAA-AGATCTAGCCCGGACGGGT
64130135 AATCCGAATT
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
56 5 0.07
57 41 0.57
59 1 0.01
62 20 0.28
63 5 0.07
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (57 bp):
AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGTG
Found at i:64130316 original size:67 final size:67
Alignment explanation
Indices: 64130208--64130338 Score: 253
Period size: 67 Copynumber: 2.0 Consensus size: 67
64130198 TTGACGTTGC
64130208 AGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTT
1 AGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTT
64130273 GT
66 GT
*
64130275 AGGGGATTTAGCCTGGACTGGTAATCCTGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
1 AGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCT
64130339 AAATTGGAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.28
Consensus pattern (67 bp):
AGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTT
GT
Found at i:64137692 original size:34 final size:34
Alignment explanation
Indices: 64137649--64137716 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
64137639 TTCAGGGAAT
64137649 GCAACAAATCTACTAGGACGGACTTATAAACATC
1 GCAACAAATCTACTAGGACGGACTTATAAACATC
64137683 GCAACAAATCTACTAGGACGGACTTATAAACATC
1 GCAACAAATCTACTAGGACGGACTTATAAACATC
64137717 CCAATAGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.21
Consensus pattern (34 bp):
GCAACAAATCTACTAGGACGGACTTATAAACATC
Found at i:64138937 original size:30 final size:30
Alignment explanation
Indices: 64138893--64138955 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
64138883 ACTTAACAAG
64138893 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* * *
64138923 CAAATGTCTTTAAAATGATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
64138953 CAA
1 CAA
64138956 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:64145616 original size:31 final size:30
Alignment explanation
Indices: 64145573--64145630 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
64145563 TTCTCAACCC
*
64145573 TAATGTAGGAACAATTGTCAAATTCAAGTCT
1 TAATATAGGAACAATTG-CAAATTCAAGTCT
*
64145604 TAATATAGGAACAATTGCAAGTTCAAG
1 TAATATAGGAACAATTGCAAATTCAAG
64145631 GACTAACTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 9 0.36
31 16 0.64
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.29
Consensus pattern (30 bp):
TAATATAGGAACAATTGCAAATTCAAGTCT
Found at i:64149995 original size:32 final size:31
Alignment explanation
Indices: 64149959--64150038 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
64149949 AAATATTTTT
* **
64149959 CAGATCTATATCATGAAAATTATATCCATTAA
1 CAGATCTATAACATGAAAA-TATATCCACAAA
* * *
64149991 CAGATCTAAAACATGAAGATATATTCACAAA
1 CAGATCTATAACATGAAAATATATCCACAAA
64150022 CAGATCTATAACATGAA
1 CAGATCTATAACATGAA
64150039 GTTATATACC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 25 0.61
32 16 0.39
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (31 bp):
CAGATCTATAACATGAAAATATATCCACAAA
Found at i:64151555 original size:30 final size:30
Alignment explanation
Indices: 64151521--64151582 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
64151511 AAAAGTGTTT
*
64151521 CTTATTGGCGAGACATCATTGGGTCTTTCC
1 CTTATTGGCGAGACATCATTGGGCCTTTCC
64151551 CTTATTGGCGAGACATCATTGGGCCTTTCC
1 CTTATTGGCGAGACATCATTGGGCCTTTCC
64151581 CT
1 CT
64151583 AATTTAGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (30 bp):
CTTATTGGCGAGACATCATTGGGCCTTTCC
Found at i:64162189 original size:33 final size:33
Alignment explanation
Indices: 64162147--64162212 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
64162137 GGTATGACAG
* *
64162147 ATAAACACGACGTTGATTTGGGAATGCACATTC
1 ATAAACACGACGCTGATTTGGAAATGCACATTC
*
64162180 ATAAACACGACGCTGATTTGGAAATGCAGATTC
1 ATAAACACGACGCTGATTTGGAAATGCACATTC
64162213 TGAACCAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (33 bp):
ATAAACACGACGCTGATTTGGAAATGCACATTC
Found at i:64181271 original size:15 final size:14
Alignment explanation
Indices: 64181222--64181277 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
64181212 AAATGACTAT
*
64181222 ATATAAA-TAAATA
1 ATATAAATTAAAAA
**
64181235 ATATAAATTACTAA
1 ATATAAATTAAAAA
64181249 ATATTAAATTAAAAA
1 ATA-TAAATTAAAAA
64181264 GATATAAATATAAA
1 -ATATAAAT-TAAA
64181278 TTATTAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 7 0.21
14 6 0.18
15 14 0.41
16 7 0.21
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (14 bp):
ATATAAATTAAAAA
Found at i:64191099 original size:28 final size:29
Alignment explanation
Indices: 64191067--64191133 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
64191057 GAGACTTTCC
* *
64191067 TTTTAATTCTTGACTAG-AGCTTATTCAA
1 TTTTAATGCTTCACTAGAAGCTTATTCAA
* *
64191095 TTTT-ATGCTTCAGTTGAAGCTTATTCAA
1 TTTTAATGCTTCACTAGAAGCTTATTCAA
64191123 TTTT-ATGCTTC
1 TTTTAATGCTTC
64191134 GGTTGAAAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 8 0.24
28 26 0.76
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.49
Consensus pattern (29 bp):
TTTTAATGCTTCACTAGAAGCTTATTCAA
Found at i:64191138 original size:28 final size:28
Alignment explanation
Indices: 64191084--64191140 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
64191074 TCTTGACTAG
64191084 AGCTTATTCAATTTTATGCTTCAGTTGA
1 AGCTTATTCAATTTTATGCTTCAGTTGA
*
64191112 AGCTTATTCAATTTTATGCTTCGGTTGA
1 AGCTTATTCAATTTTATGCTTCAGTTGA
64191140 A
1 A
64191141 AGCCAATCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.46
Consensus pattern (28 bp):
AGCTTATTCAATTTTATGCTTCAGTTGA
Found at i:64199287 original size:11 final size:11
Alignment explanation
Indices: 64199254--64199294 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
64199244 GAATTTTTAC
64199254 TTTTTAAT-AT
1 TTTTTAATGAT
64199264 TTTTT-ATGAAT
1 TTTTTAATG-AT
64199275 TTTTTAATGAT
1 TTTTTAATGAT
64199286 TTATTTAAT
1 TT-TTTAAT
64199295 CAAGCTAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.07
10 5 0.19
11 11 0.41
12 9 0.33
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (11 bp):
TTTTTAATGAT
Found at i:64202179 original size:95 final size:95
Alignment explanation
Indices: 64202016--64202300 Score: 527
Period size: 95 Copynumber: 3.0 Consensus size: 95
64202006 GGTCTAGGTT
* *
64202016 TCTTCACTACTGGTGAAGAATCTAAGAGAAGAC-TAAGAACAACAATGTTGAAACTACATATAAA
1 TCTTCACTACTGGTGAAGAATCTAAGGGAAGACAT-AGAACAATAATGTTGAAACTACATATAAA
64202080 CCCACAAAAACTAGGTAGGTTTATGACAACA
65 CCCACAAAAACTAGGTAGGTTTATGACAACA
64202111 TCTTCACTACTGGTGAAGAATCTAAGGGAAGACATAGAACAATAATGTTGAAACTACATATAAAC
1 TCTTCACTACTGGTGAAGAATCTAAGGGAAGACATAGAACAATAATGTTGAAACTACATATAAAC
64202176 CCACAAAAACTAGGTAGGTTTATGACAACA
66 CCACAAAAACTAGGTAGGTTTATGACAACA
64202206 TCTTCACTACTGGTGAAGAATCTAAGGGAAGACATAGAACAATAATGTTGAAACTACATATAAAC
1 TCTTCACTACTGGTGAAGAATCTAAGGGAAGACATAGAACAATAATGTTGAAACTACATATAAAC
*
64202271 CCACAAAAACTAGGTAGGTTTACGACAACA
66 CCACAAAAACTAGGTAGGTTTATGACAACA
64202301 CAACAATACC
Statistics
Matches: 186, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
95 185 0.99
96 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (95 bp):
TCTTCACTACTGGTGAAGAATCTAAGGGAAGACATAGAACAATAATGTTGAAACTACATATAAAC
CCACAAAAACTAGGTAGGTTTATGACAACA
Found at i:64219812 original size:25 final size:26
Alignment explanation
Indices: 64219778--64219826 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
64219768 CTGTTTTGAC
64219778 CAAATATCTAGAAA-CAAA-TTAATGT
1 CAAATATCTA-AAATCAAACTTAATGT
*
64219803 CAAATTTCTAAAATCAAACTTAAT
1 CAAATATCTAAAATCAAACTTAAT
64219827 AAAAAGGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 13 0.62
26 5 0.24
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.31
Consensus pattern (26 bp):
CAAATATCTAAAATCAAACTTAATGT
Found at i:64220281 original size:17 final size:17
Alignment explanation
Indices: 64220259--64220291 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
64220249 TATTTAATTT
64220259 TTATTT-ATAAATATATA
1 TTATTTAAT-AATATATA
64220276 TTATTTAATAATATAT
1 TTATTTAATAATATAT
64220292 TTGTTGATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATTTAATAATATATA
Found at i:64220439 original size:23 final size:21
Alignment explanation
Indices: 64220400--64220442 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
64220390 AAGGAGGAAT
*
64220400 TATAAAAAATTCTAAATATTG
1 TATAAAAAATTATAAATATTG
64220421 TATAAAAAATTAATAAAATATT
1 TATAAAAAATT-AT-AAATATT
64220443 TTAAACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 1 0.05
23 7 0.37
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
TATAAAAAATTATAAATATTG
Found at i:64227525 original size:26 final size:26
Alignment explanation
Indices: 64227496--64227555 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 26
64227486 TTTCTTTTGT
*
64227496 TTTGGGTTT-GTTTGGGTTATTGGGT-A
1 TTTGGGTTTAG-TTGGGTT-TTGGCTGA
64227522 TTT-GGTTTAGTTGGGTTTTGGCTGA
1 TTTGGGTTTAGTTGGGTTTTGGCTGA
64227547 TTTGGGTTT
1 TTTGGGTTT
64227556 TAGGTTTAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
24 5 0.17
25 16 0.53
26 9 0.30
ACGTcount: A:0.07, C:0.02, G:0.37, T:0.55
Consensus pattern (26 bp):
TTTGGGTTTAGTTGGGTTTTGGCTGA
Found at i:64227541 original size:16 final size:16
Alignment explanation
Indices: 64227506--64227564 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
64227496 TTTGGGTTTG
*
64227506 TTTGGGTTA-TTGGGT
1 TTTGGTTTAGTTGGGT
64227521 ATTTGGTTTAGTTGGGT
1 -TTTGGTTTAGTTGGGT
* * *
64227538 TTTGGCTGATTTGGGT
1 TTTGGTTTAGTTGGGT
64227554 TTTAGGTTTAG
1 TTT-GGTTTAG
64227565 GCCTGCTATT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
16 24 0.71
17 10 0.29
ACGTcount: A:0.10, C:0.02, G:0.36, T:0.53
Consensus pattern (16 bp):
TTTGGTTTAGTTGGGT
Found at i:64231912 original size:32 final size:32
Alignment explanation
Indices: 64231873--64231935 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
64231863 TCCTTAATGT
64231873 TTTTTGTTTTACTAGAGCACTATTGTAGGTTG
1 TTTTTGTTTTACTAGAGCACTATTGTAGGTTG
64231905 TTTTTGTTTTACTAGAGCACTATTGTAGGTT
1 TTTTTGTTTTACTAGAGCACTATTGTAGGTT
64231936 TGAAGGCATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.19, C:0.10, G:0.21, T:0.51
Consensus pattern (32 bp):
TTTTTGTTTTACTAGAGCACTATTGTAGGTTG
Found at i:64246043 original size:17 final size:18
Alignment explanation
Indices: 64246002--64246040 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
64245992 TTCTCATTTT
*
64246002 TTTTAAATATTTTTTTAA
1 TTTTAAATATTTTTATAA
64246020 TTTTAAAT-TTATTTATAA
1 TTTTAAATATT-TTTATAA
64246038 TTT
1 TTT
64246041 AAAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTAAATATTTTTATAA
Found at i:64246826 original size:27 final size:27
Alignment explanation
Indices: 64246796--64246855 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
64246786 ATAGGTGGTG
*
64246796 CCTATCC-AGTAGGCGCCACTGGTGACT
1 CCTATCCGA-TAGGCGCCACGGGTGACT
* * *
64246823 CCTATTCGATAGGTGCCTCGGGTGACT
1 CCTATCCGATAGGCGCCACGGGTGACT
64246850 CCTATC
1 CCTATC
64246856 AATAAAAGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.17, C:0.32, G:0.25, T:0.27
Consensus pattern (27 bp):
CCTATCCGATAGGCGCCACGGGTGACT
Found at i:64247074 original size:99 final size:102
Alignment explanation
Indices: 64246892--64247143 Score: 325
Period size: 100 Copynumber: 2.5 Consensus size: 102
64246882 ATTACATTAC
* *
64246892 AAAA-AATTTACATTAATAAAAAATCACAAAACACTAAACTAAACTCTAACAATTTATATAACTT
1 AAAATAATTTACATTACTAAAAAATCACAAAACAC---A--AAACACTAACAATTTATATAACTT
* **
64246956 AATCATAAATTATTAACAAAATAACTATAAAATTATTTTTTTA
61 AATCATAAATTACTAACAAAATAACTATAAAAACA-TTTTTTA
* *
64246999 AAAA-AATTT-CATTACTAAAAAATCACAAATCACAAAACACTAACAATTTATA-AAC-TAATTA
1 AAAATAATTTACATTACTAAAAAATCACAAAACACAAAACACTAACAATTTATATAACTTAATCA
*
64247060 TAAATTACTGACAAAATAACTATAAAAACATTTTTTA
66 TAAATTACTAACAAAATAACTATAAAAACATTTTTTA
* *
64247097 AAAATATTTTACATTACTAAAAAATCACAAAACACAAAAAACTAACA
1 AAAATAATTTACATTACTAAAAAATCACAAAACACAAAACACTAACA
64247144 TAAATTACTA
Statistics
Matches: 132, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
98 11 0.08
99 35 0.27
100 37 0.28
101 17 0.13
103 1 0.01
106 22 0.17
107 9 0.07
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (102 bp):
AAAATAATTTACATTACTAAAAAATCACAAAACACAAAACACTAACAATTTATATAACTTAATCA
TAAATTACTAACAAAATAACTATAAAAACATTTTTTA
Found at i:64247167 original size:12 final size:12
Alignment explanation
Indices: 64247130--64247171 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
64247120 ATCACAAAAC
64247130 ACAAAA-AACTA
1 ACAAAATAACTA
*
64247141 ACATAAATTACTA
1 ACA-AAATAACTA
*
64247154 ACAAAATAATTA
1 ACAAAATAACTA
64247166 ACAAAA
1 ACAAAA
64247172 CAGTTTTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 3 0.12
12 16 0.62
13 7 0.27
ACGTcount: A:0.67, C:0.14, G:0.00, T:0.19
Consensus pattern (12 bp):
ACAAAATAACTA
Found at i:64260055 original size:24 final size:24
Alignment explanation
Indices: 64260019--64260088 Score: 61
Period size: 25 Copynumber: 2.9 Consensus size: 24
64260009 CAGCTCGAAA
64260019 GAGCTT-CTCGTTATTAGCTCTCAT
1 GAGCTTCCT-GTTATTAGCTCTCAT
* * **
64260043 GAGCTTCCTGTTATATGGTTCTTGT
1 GAGCTTCCTGTTAT-TAGCTCTCAT
* *
64260068 CAGCTTCCTGTTAATAGCTCT
1 GAGCTTCCTGTTATTAGCTCT
64260089 TTAAGGCATC
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
24 16 0.44
25 20 0.56
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.43
Consensus pattern (24 bp):
GAGCTTCCTGTTATTAGCTCTCAT
Found at i:64260235 original size:25 final size:24
Alignment explanation
Indices: 64260164--64260243 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 24
64260154 TTGTTATATA
* *
64260164 GCTCTTCGGAGCTTCCCGACTAAAG
1 GCTCTTCGGAGCTTCCC-AATAATG
**
64260189 GCTCTTTTATGAGCTTCCCAATTAATG
1 GCTC--TTCGGAGCTTCCCAA-TAATG
*
64260216 GCTCTTCGGAGCTTCCCAATATTG
1 GCTCTTCGGAGCTTCCCAATAATG
64260240 GCTC
1 GCTC
64260244 GCTTGAACCT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
24 8 0.18
25 17 0.38
26 1 0.02
27 19 0.42
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.33
Consensus pattern (24 bp):
GCTCTTCGGAGCTTCCCAATAATG
Found at i:64260328 original size:25 final size:23
Alignment explanation
Indices: 64260197--64260342 Score: 89
Period size: 25 Copynumber: 6.0 Consensus size: 23
64260187 AGGCTCTTTT
64260197 ATGAGCTTCCCAATTAATGGCTCTTC
1 ATGAGCTTCCC-ATTAATGGCTC--C
* * *
64260223 -GGAGCTTCCCAATATTGGCTCGC
1 ATGAGCTTCCCATTAATGGCTC-C
* * * *
64260246 TTGAACCTTCCTATT-ATGTGCTCGT
1 ATG-AGCTTCCCATTAATG-GCTC-C
*
64260271 ATGAGCTTCCCATTAATGGCTCT
1 ATGAGCTTCCCATTAATGGCTCC
* *
64260294 ATGGAACTTCCCGTTACATGGCTCAC
1 AT-GAGCTTCCCATTA-ATGGCTC-C
64260320 ATGAGCTTCCCATTATATGGCTC
1 ATGAGCTTCCCATTA-ATGGCTC
64260343 GAGAGATAGC
Statistics
Matches: 94, Mismatches: 19, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
23 4 0.04
24 36 0.38
25 52 0.55
26 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (23 bp):
ATGAGCTTCCCATTAATGGCTCC
Found at i:64260329 original size:73 final size:74
Alignment explanation
Indices: 64260196--64260335 Score: 169
Period size: 73 Copynumber: 1.9 Consensus size: 74
64260186 AAGGCTCTTT
* * * * *
64260196 TATGAGCTTCCCAATTAATGGCTCTTCGGAGCTTCCCAATATTGGCTCGCTTGAACCTTCCTATT
1 TATGAGCTTCCCAATTAATGGCTCTTCGGAACTTCCCAATAATGGCTCACATGAACCTTCCCATT
64260261 ATGTGCTCG
66 ATGTGCTCG
** *
64260270 TATGAGCTTCCC-ATTAATGGCTCTAT-GGAACTTCCCGTTACATGGCTCACATG-AGCTTCCCA
1 TATGAGCTTCCCAATTAATGGCTCT-TCGGAACTTCCCAATA-ATGGCTCACATGAACCTTCCCA
64260332 TTAT
64 TTAT
64260336 ATGGCTCGAG
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
73 34 0.61
74 22 0.39
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (74 bp):
TATGAGCTTCCCAATTAATGGCTCTTCGGAACTTCCCAATAATGGCTCACATGAACCTTCCCATT
ATGTGCTCG
Found at i:64265790 original size:26 final size:26
Alignment explanation
Indices: 64265757--64265812 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
64265747 TAGGGAGAAT
*
64265757 AAGT-AAAACTCTTGTTGAATCATAG
1 AAGTCAAAACCCTTGTTGAATCATAG
*
64265782 AAGTCAAAACCCTTGTTGAATCGTAG
1 AAGTCAAAACCCTTGTTGAATCATAG
64265808 AAGTC
1 AAGTC
64265813 TATTTCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (26 bp):
AAGTCAAAACCCTTGTTGAATCATAG
Found at i:64269494 original size:11 final size:11
Alignment explanation
Indices: 64269478--64269517 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
64269468 CTCCCACAAC
64269478 TAAAATATAAA
1 TAAAATATAAA
*
64269489 TAAAATAGAAA
1 TAAAATATAAA
64269500 TAAAATAATAAA
1 TAAAAT-ATAAA
*
64269512 CAAAAT
1 TAAAAT
64269518 CTTCTATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (11 bp):
TAAAATATAAA
Found at i:64273460 original size:3 final size:3
Alignment explanation
Indices: 64273452--64273480 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
64273442 ACGTTTTTAA
64273452 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
64273481 ATTGCTACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:64275607 original size:31 final size:29
Alignment explanation
Indices: 64275569--64275663 Score: 84
Period size: 31 Copynumber: 3.1 Consensus size: 29
64275559 ATTGTTTGGT
*
64275569 TCAAATTGAATATTAAAGCAAAACTCAAGTA
1 TCAAATTGAATATTAAA-CAAAA-TAAAGTA
* * *
64275600 TCAAATTGAGATAATAAA-AAATTTAAGTA
1 TCAAATTGA-ATATTAAACAAAATAAAGTA
* *
64275629 CCGAATTGAATATTAAAATCAAAATAAAGTA
1 TCAAATTGAATATT-AAA-CAAAATAAAGTA
64275660 TCAA
1 TCAA
64275664 CGGATATATT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
28 4 0.08
29 16 0.32
30 3 0.06
31 20 0.40
32 7 0.14
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.27
Consensus pattern (29 bp):
TCAAATTGAATATTAAACAAAATAAAGTA
Found at i:64279102 original size:20 final size:20
Alignment explanation
Indices: 64279060--64279103 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
64279050 CAAAACCTTG
* *
64279060 AACCCTAACACTAAATTCAA
1 AACCCGAACACTAAACTCAA
* *
64279080 AACCCGAACCCTAAACTCTA
1 AACCCGAACACTAAACTCAA
64279100 AACC
1 AACC
64279104 TCAAATTCGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.36, G:0.02, T:0.16
Consensus pattern (20 bp):
AACCCGAACACTAAACTCAA
Found at i:64279179 original size:21 final size:21
Alignment explanation
Indices: 64279155--64279195 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
64279145 GGGTTTTGGA
*
64279155 TTTAAAGCTCGAAGTTTAGGG
1 TTTAAAGCTCAAAGTTTAGGG
*
64279176 TTTAAGGCTCAAAGTTTAGG
1 TTTAAAGCTCAAAGTTTAGG
64279196 ATAAAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.34
Consensus pattern (21 bp):
TTTAAAGCTCAAAGTTTAGGG
Found at i:64286508 original size:4 final size:4
Alignment explanation
Indices: 64286499--64286527 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
64286489 TGATGAACAC
64286499 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
64286528 AGATAAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:64288556 original size:50 final size:50
Alignment explanation
Indices: 64288493--64289183 Score: 519
Period size: 50 Copynumber: 13.8 Consensus size: 50
64288483 TAATTAACTA
* * **
64288493 CAATGTCGGGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTG
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
* * * * ** *
64288543 CAATATCGGGGAAGCCAGATTCACCGTTGTAGCTTCAATCTGTTCCACTG
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
* * * * *
64288593 CACA-GCCAAGGAAGCAAGATTCGCCATTGTGGCTTCAATCTTTTTAATTG
1 CA-ATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
* ** * ** *
64288643 CAATGTCGGGGAAGCAAGATTCGTCGTTGTAGCTTCAATCTGTTCCACTG
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
**** * * **
64288693 CACCACCAGGGAAGTAAGATTCACCGCTGCGGCTTCAATCTTTTTAATTG
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
* * * * * *
64288743 CAATGTC-GAGAAAACAAGATTCGCCGTTGTAGCTTCAATCTGTTTCACTG
1 CAATGTCAG-GGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
* * * **
64288793 CACT-ACTAGGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTG
1 CAATGTC-AGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
* * * * ** *
64288843 CAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTCCAATCTGTTCCACTG
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
** * * * * ** *
64288893 CACCGCCAGAGAAGTAAGATTCGCCGTTGCGGCTTCAATATTTTTAATTG
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
* * ** ** *
64288943 GAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGCTCCACTG
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
* * * ** * *
64288993 CACCT-CCAGGGAAGTAAGATTTGCCGTTGT-GAATTCAACCTTTTTAATTG
1 CA-ATGTCAGGGAAGCAAGATTCACCGTTGTAG-CTTCAATCTTTTTAATTG
* * ** * ** * *
64289043 CAATGTCGGGGAAGCAACATTCACTATTGTAGCTTCAATCTGTTCCACTA
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
* * * *
64289093 CACTGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTG
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
**
64289143 CAATGTCAGGGAAGCAAGATTTGCCGTTGTAGCTTCAATCT
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
64289184 GTTCCATTAC
Statistics
Matches: 471, Mismatches: 160, Indels: 20
0.72 0.25 0.03
Matches are distributed among these distances:
49 5 0.01
50 461 0.98
51 5 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (50 bp):
CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTTTTTAATTG
Found at i:64288639 original size:100 final size:100
Alignment explanation
Indices: 64288501--64289247 Score: 1003
Period size: 100 Copynumber: 7.5 Consensus size: 100
64288491 TACAATGTCG
* *
64288501 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATATCGGGGAAGCCAGATTCA
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
64288566 CCGTTGTAGCTTCAATCTGTTCCACTGCACAGCCA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCACAGCCA
* * * * * *
64288601 AGGAAGCAAGATTCGCCATTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCG
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
*
64288666 TCGTTGTAGCTTCAATCTGTTCCACTGCACCA-CCA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCA-CAGCCA
* * * * *
64288701 GGGAAGTAAGATTCACCGCTGCGGCTTCAATCTTTTTAATTGCAATGTCGAGAAAACAAGATTCG
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
* *
64288766 CCGTTGTAGCTTCAATCTGTTTCACTGCACTA-CTA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCAC-AGCCA
*
64288801 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTAAGATTCA
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
* *
64288866 CCGTTGTAGCTCCAATCTGTTCCACTGCACCGCCA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCACAGCCA
* * * *
64288901 GAGAAGTAAGATTCGCCGTTGCGGCTTCAATATTTTTAATTGGAATGTCGGGGAAGCAAGATTCA
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
* **
64288966 CCGTTGTAGCTTCAATCTGCTCCACTGCACCTCCA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCACAGCCA
** * ** * *
64289001 GGGAAGTAAGATTTGCCGTTGTGAATTCAACCTTTTTAATTGCAATGTCGGGGAAGCAACATTCA
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
** * *
64289066 CTATTGTAGCTTCAATCTGTTCCACTACACTGCCA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCACAGCCA
* * **
64289101 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCAGGGAAGCAAGATTTG
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
* * *
64289166 CCGTTGTAGCTTCAATCTGTTCCATTACACCGCCA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCACAGCCA
* ** * * *
64289201 GAGAAGTAAGATTTGCCATTGTGGTTTCAATCTTTTTTAATTGCAAT
1 GGGAAGTAAGATTCACCGTTGCGGCTTCAATC-TTTTTAATTGCAAT
64289248 CTCAGGGGTA
Statistics
Matches: 571, Mismatches: 72, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
99 1 0.00
100 554 0.97
101 16 0.03
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (100 bp):
GGGAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
CCGTTGTAGCTTCAATCTGTTCCACTGCACAGCCA
Found at i:64289420 original size:15 final size:15
Alignment explanation
Indices: 64289380--64289420 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
64289370 TAACTAGATG
64289380 TGTATGAATGATATT
1 TGTATGAATGATATT
*
64289395 TGCATTGAATGATATT
1 TGTA-TGAATGATATT
64289411 TGTATGAATG
1 TGTATGAATG
64289421 CAAAATGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.44
Consensus pattern (15 bp):
TGTATGAATGATATT
Found at i:64290166 original size:14 final size:13
Alignment explanation
Indices: 64290145--64290213 Score: 72
Period size: 14 Copynumber: 5.4 Consensus size: 13
64290135 TGGCCTCTTC
64290145 TTTTCTTTTTTC-
1 TTTTCTTTTTTCT
*
64290157 -GTTCTTCTTTTCT
1 TTTTCTT-TTTTCT
64290170 TTTTCTTTTTTCTT
1 TTTTCTTTTTTC-T
64290184 TTTTCTTTTTTCT
1 TTTTCTTTTTTCT
* *
64290197 TTTTATTTCTT-T
1 TTTTCTTTTTTCT
64290209 TTTTC
1 TTTTC
64290214 AAGTGAAGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
11 5 0.10
12 10 0.21
13 15 0.31
14 18 0.38
ACGTcount: A:0.01, C:0.16, G:0.01, T:0.81
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:64290173 original size:25 final size:25
Alignment explanation
Indices: 64290145--64290192 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
64290135 TGGCCTCTTC
64290145 TTTTCTTTTTTCGTTCTTCTTTTCT
1 TTTTCTTTTTTCGTTCTTCTTTTCT
* *
64290170 TTTTCTTTTTTCTTTTTTCTTTT
1 TTTTCTTTTTTCGTTCTTCTTTT
64290193 TTCTTTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (25 bp):
TTTTCTTTTTTCGTTCTTCTTTTCT
Found at i:64290181 original size:7 final size:7
Alignment explanation
Indices: 64290140--64290200 Score: 74
Period size: 7 Copynumber: 9.0 Consensus size: 7
64290130 CACCTTGGCC
64290140 TCTTCTTT
1 TCTT-TTT
64290148 TCTTTTT
1 TCTTTTT
* *
64290155 TCGTTCT
1 TCTTTTT
64290162 TC--TTT
1 TCTTTTT
64290167 TC-TTTT
1 TCTTTTT
64290173 TCTTTTT
1 TCTTTTT
64290180 TCTTTTT
1 TCTTTTT
64290187 TCTTTTT
1 TCTTTTT
64290194 TCTTTTT
1 TCTTTTT
64290201 ATTTCTTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
5 4 0.08
6 5 0.10
7 35 0.73
8 4 0.08
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (7 bp):
TCTTTTT
Found at i:64290183 original size:32 final size:31
Alignment explanation
Indices: 64290140--64290211 Score: 99
Period size: 32 Copynumber: 2.3 Consensus size: 31
64290130 CACCTTGGCC
*
64290140 TCTTCTTTTCTTTTTTCGTTCTTCTTTTCTTTT
1 TCTT-TTTTCTTTTTTCGTTCTTCTTTT-TATT
* *
64290173 TCTTTTTTCTTTTTTCTTTTTTCTTTTTATT
1 TCTTTTTTCTTTTTTCGTTCTTCTTTTTATT
64290204 TCTTTTTT
1 TCTTTTTT
64290212 TCAAGTGAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 11 0.31
32 21 0.58
33 4 0.11
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.81
Consensus pattern (31 bp):
TCTTTTTTCTTTTTTCGTTCTTCTTTTTATT
Found at i:64293439 original size:24 final size:25
Alignment explanation
Indices: 64293412--64293464 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
64293402 GGCCTTTTCG
*
64293412 TGAAATTTAATACAAATG-ATGCAA
1 TGAAATGTAATACAAATGCATGCAA
* * *
64293436 TGAAATGTAATGCAGATGCATGGAA
1 TGAAATGTAATACAAATGCATGCAA
64293461 TGAA
1 TGAA
64293465 TGCAAAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.45, C:0.08, G:0.21, T:0.26
Consensus pattern (25 bp):
TGAAATGTAATACAAATGCATGCAA
Found at i:64298349 original size:25 final size:23
Alignment explanation
Indices: 64298300--64298494 Score: 86
Period size: 25 Copynumber: 8.0 Consensus size: 23
64298290 CGAGCCCTAT
** *
64298300 ATAACAGGAAGCTCATGTGATCC
1 ATAACAGGAAGCTCATAAGAGCC
*
64298323 ATGTAACAGAAAGCTCATAAGAGCC
1 A--TAACAGGAAGCTCATAAGAGCC
*
64298348 ATAATCGGGAAGCTCATAAGAGCC
1 ATAA-CAGGAAGCTCATAAGAGCC
* * * *
64298372 AATTATCGGGAAGCTCCA-GAGAGTCA
1 -A-TAACAGGAAGCT-CATAAGAG-CC
*** *
64298398 ATTATTGGGAAGCTCATACGAGCC
1 A-TAACAGGAAGCTCATAAGAGCC
* *
64298422 ATAAACGGGAAGCTCATAAGAGCTAA
1 AT-AACAGGAAGCTCATAAGAGC--C
* *
64298448 ATAACGGGAAGCTCATGAGAGCC
1 ATAACAGGAAGCTCATAAGAGCC
* * *
64298471 TATTATCGGGACGCTCATAAGAGC
1 -A-TAACAGGAAGCTCATAAGAGC
64298495 TATGGTGTGT
Statistics
Matches: 137, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
23 5 0.04
24 39 0.28
25 86 0.63
26 7 0.05
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (23 bp):
ATAACAGGAAGCTCATAAGAGCC
Found at i:64298386 original size:49 final size:48
Alignment explanation
Indices: 64298333--64298494 Score: 175
Period size: 50 Copynumber: 3.3 Consensus size: 48
64298323 ATGTAACAGA
*
64298333 AAGCTCATAAGAGCCATAATCGGGAAGCTCATAAGAGCCAATTATCGGG
1 AAGCTCATAAGAGCAATAATCGGGAAGCTCATAAGAGCC-ATTATCGGG
* * * * * *
64298382 AAGCTCCA-GAGAGTCAATTATTGGGAAGCTCATACGAGCCATAAACGGG
1 AAGCT-CATAAGAG-CAATAATCGGGAAGCTCATAAGAGCCATTATCGGG
*
64298431 AAGCTCATAAGAGCTAAATAA-CGGGAAGCTCATGAGAGCCTATTATCGGG
1 AAGCTCATAAGAGC--AATAATCGGGAAGCTCATAAGAGCC-ATTATCGGG
*
64298481 ACGCTCATAAGAGC
1 AAGCTCATAAGAGC
64298495 TATGGTGTGT
Statistics
Matches: 92, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
48 3 0.03
49 41 0.45
50 48 0.52
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (48 bp):
AAGCTCATAAGAGCAATAATCGGGAAGCTCATAAGAGCCATTATCGGG
Found at i:64298411 original size:74 final size:74
Alignment explanation
Indices: 64298333--64298494 Score: 227
Period size: 74 Copynumber: 2.2 Consensus size: 74
64298323 ATGTAACAGA
* * * *
64298333 AAGCTCATAAGAGCCATAATCGGGAAGCTCATAAGAGCCAATTATCGGGAAGCTCCA-GAGAGTC
1 AAGCTCATAAGAGCCATAAACGGGAAGCTCATAAGAGCCAAATAACGGGAAGCT-CATGAGAGCC
*
64298397 AATTATTGGG
65 AATTATCGGG
* * *
64298407 AAGCTCATACGAGCCATAAACGGGAAGCTCATAAGAGCTAAATAACGGGAAGCTCATGAGAGCCT
1 AAGCTCATAAGAGCCATAAACGGGAAGCTCATAAGAGCCAAATAACGGGAAGCTCATGAGAGCCA
64298472 ATTATCGGG
66 ATTATCGGG
*
64298481 ACGCTCATAAGAGC
1 AAGCTCATAAGAGC
64298495 TATGGTGTGT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
73 2 0.03
74 75 0.97
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (74 bp):
AAGCTCATAAGAGCCATAAACGGGAAGCTCATAAGAGCCAAATAACGGGAAGCTCATGAGAGCCA
ATTATCGGG
Found at i:64298493 original size:50 final size:48
Alignment explanation
Indices: 64298333--64298496 Score: 156
Period size: 49 Copynumber: 3.3 Consensus size: 48
64298323 ATGTAACAGA
*
64298333 AAGCTCATAAGAGC--CATAATCGGGAAGCTCATAAGAGCCAATTATCGGG
1 AAGCTCATAAGAGCTAAATAA-CGGGAAGCTCAT-AGAGCC-ATTATCGGG
* * ** * *
64298382 AAGCTCCA-GAGAG-TCAATTATTGGGAAGCTCATACGAGCCATAAACGGG
1 AAGCT-CATAAGAGCT-AAATAACGGGAAGCTCATA-GAGCCATTATCGGG
64298431 AAGCTCATAAGAGCTAAATAACGGGAAGCTCATGAGAGCCTATTATCGGG
1 AAGCTCATAAGAGCTAAATAACGGGAAGCTCAT-AGAGCC-ATTATCGGG
*
64298481 ACGCTCATAAGAGCTA
1 AAGCTCATAAGAGCTA
64298497 TGGTGTGTCC
Statistics
Matches: 92, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
48 2 0.02
49 46 0.50
50 42 0.46
51 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.19
Consensus pattern (48 bp):
AAGCTCATAAGAGCTAAATAACGGGAAGCTCATAGAGCCATTATCGGG
Found at i:64300673 original size:31 final size:32
Alignment explanation
Indices: 64300635--64300702 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 32
64300625 TTCAAAATCC
** *
64300635 AAAAAGTACA-ATGACTAAATTTGA-CTAATTA
1 AAAAAGTACAGA-GACTAAAAATGATCAAATTA
64300666 AAAAAGTACAGAGACTAAAAATGATCAAATTA
1 AAAAAGTACAGAGACTAAAAATGATCAAATTA
64300698 AAAAA
1 AAAAA
64300703 TAAAGACCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 20 0.62
32 12 0.38
ACGTcount: A:0.59, C:0.09, G:0.10, T:0.22
Consensus pattern (32 bp):
AAAAAGTACAGAGACTAAAAATGATCAAATTA
Found at i:64303066 original size:16 final size:17
Alignment explanation
Indices: 64303045--64303076 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
64303035 TGTTCATACT
64303045 AAAAAGAAAA-GAAAAC
1 AAAAAGAAAAGGAAAAC
64303061 AAAAAGAAAAGGAAAA
1 AAAAAGAAAAGGAAAA
64303077 GCCTTACTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAGGAAAAC
Found at i:64303808 original size:3 final size:3
Alignment explanation
Indices: 64303790--64303874 Score: 71
Period size: 3 Copynumber: 27.7 Consensus size: 3
64303780 TAATGTGTGC
* * * *
64303790 TAT TATT TAT TTT TAT TAT TAT TAT ATAT TAT TAT TAA CAC TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
* * * * *
64303837 AAT TAT TAT TAT TAG CAT TAT TAT TAC TAA TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
64303875 AATACCTTTT
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
3 58 0.91
4 6 0.09
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:64303848 original size:24 final size:24
Alignment explanation
Indices: 64303806--64303875 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
64303796 TTATTTTTAT
64303806 TATTATTATATATTATTATTAACAC
1 TATTATTAT-TATTATTATTAACAC
* * *
64303831 TATTATAATTATTATTATTAGCAT
1 TATTATTATTATTATTATTAACAC
* *
64303855 TATTATTACTAATATTATTAA
1 TATTATTATTATTATTATTAA
64303876 ATACCTTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 30 0.79
25 8 0.21
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.53
Consensus pattern (24 bp):
TATTATTATTATTATTATTAACAC
Found at i:64305723 original size:12 final size:12
Alignment explanation
Indices: 64305706--64305732 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
64305696 GTTTTATTTT
64305706 TGAATTTCTTTG
1 TGAATTTCTTTG
64305718 TGAATTTCTTTG
1 TGAATTTCTTTG
64305730 TGA
1 TGA
64305733 GGTAATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.07, G:0.19, T:0.56
Consensus pattern (12 bp):
TGAATTTCTTTG
Found at i:64315377 original size:15 final size:14
Alignment explanation
Indices: 64315347--64315382 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
64315337 GACTCTATTT
*
64315347 TAATTATATTAGGA
1 TAATTATATTAAGA
64315361 TAATTACTATTAAGA
1 TAATTA-TATTAAGA
64315376 TAATTAT
1 TAATTAT
64315383 TAAGGATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (14 bp):
TAATTATATTAAGA
Found at i:64321852 original size:12 final size:11
Alignment explanation
Indices: 64321831--64321906 Score: 57
Period size: 12 Copynumber: 6.5 Consensus size: 11
64321821 CAACCCAATT
64321831 TTTA-TTTTTA
1 TTTATTTTTTA
64321841 TTTATTTATTTA
1 TTTATTT-TTTA
*
64321853 TTTATTTTGT-
1 TTTATTTTTTA
*
64321863 TTTGTTTCCTTTA
1 TTTATTT--TTTA
*
64321876 CTTTATTTATTA
1 -TTTATTTTTTA
64321888 CTTTATTTTATTA
1 -TTTATTTT-TTA
64321901 TTTATT
1 TTTATT
64321907 ACTTATTTGG
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
10 10 0.19
11 4 0.08
12 30 0.57
13 3 0.06
14 6 0.11
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:64323856 original size:15 final size:15
Alignment explanation
Indices: 64323831--64323865 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
64323821 GACTCTATTT
64323831 TAATT-ATATTAGGA
1 TAATTAATATTAGGA
*
64323845 TAATTAATATTATGA
1 TAATTAATATTAGGA
64323860 TAATTA
1 TAATTA
64323866 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (15 bp):
TAATTAATATTAGGA
Found at i:64326624 original size:3 final size:3
Alignment explanation
Indices: 64326618--64326663 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
64326608 TCTCTAACTC
64326618 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
64326664 GCTTTATACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:64327499 original size:26 final size:25
Alignment explanation
Indices: 64327460--64327541 Score: 83
Period size: 26 Copynumber: 3.0 Consensus size: 25
64327450 AACTTAACAC
*
64327460 TTTTTCTTTTTCTAATTTAGTATCTA
1 TTTTT-TTTTTCTAATTTAGTACCTA
*
64327486 TTTTTTTTTGTCTAATTTGGTACCTATGA
1 TTTTTTTTT-TCTAATTTAGTACC--T-A
64327515 TACTTTTTTTTTCTAATTTAGTACCTA
1 T--TTTTTTTTTCTAATTTAGTACCTA
64327542 AGCTTGTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
25 4 0.09
26 17 0.36
27 1 0.02
28 2 0.04
29 2 0.04
30 13 0.28
31 8 0.17
ACGTcount: A:0.20, C:0.12, G:0.07, T:0.61
Consensus pattern (25 bp):
TTTTTTTTTTCTAATTTAGTACCTA
Found at i:64342203 original size:49 final size:48
Alignment explanation
Indices: 64342131--64342227 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 48
64342121 CAAGGATTCT
64342131 CTTGTTCAAATCTTGATGGTGCACTACTTTAATCACTGCCATTCCTGC
1 CTTGTTCAAATCTTGATGGTGCACTACTTTAATCACTGCCATTCCTGC
*
64342179 NCTTGTTCAAATCTTGATGGTGCACTACTTTAATCATTGCCATTCCTGC
1 -CTTGTTCAAATCTTGATGGTGCACTACTTTAATCACTGCCATTCCTGC
64342228 TTTACCATTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.38
Consensus pattern (48 bp):
CTTGTTCAAATCTTGATGGTGCACTACTTTAATCACTGCCATTCCTGC
Found at i:64352549 original size:24 final size:24
Alignment explanation
Indices: 64352520--64352581 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
64352510 TCAAAGAAGT
*
64352520 TGATAGTAATAGTGCAAGCTATGA
1 TGATAGTAATAGTGCAAACTATGA
64352544 TGATAGTAATAGTGCAAACTATGA
1 TGATAGTAATAGTGCAAACTATGA
*
64352568 TGATAGTGATAGTG
1 TGATAGTAATAGTG
64352582 AACTTTTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (24 bp):
TGATAGTAATAGTGCAAACTATGA
Found at i:64357942 original size:26 final size:26
Alignment explanation
Indices: 64357906--64357959 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
64357896 TTCATCTCTC
64357906 CTAGGTATTTAGAAAATTAGTTAATG
1 CTAGGTATTTAGAAAATTAGTTAATG
* *
64357932 CTAGGTATTTAGAAAATTTGTTCATG
1 CTAGGTATTTAGAAAATTAGTTAATG
64357958 CT
1 CT
64357960 TGAAAATAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (26 bp):
CTAGGTATTTAGAAAATTAGTTAATG
Found at i:64367642 original size:21 final size:21
Alignment explanation
Indices: 64367620--64367672 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
64367610 ATATGGTCTA
*
64367620 AAAAT-AAATAGATTTGAAAT
1 AAAATAAAATAAATTTGAAAT
*
64367640 AAAATAAAATAAATTTG-AAC
1 AAAATAAAATAAATTTGAAAT
64367660 AAAATAAAATAAA
1 AAAATAAAATAAA
64367673 GTAGGTCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 20 0.67
21 10 0.33
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.25
Consensus pattern (21 bp):
AAAATAAAATAAATTTGAAAT
Found at i:64368298 original size:21 final size:20
Alignment explanation
Indices: 64368268--64368307 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
64368258 ATAATAAAAA
*
64368268 TACAAAGATATAGAATATAG
1 TACAAAGATAAAGAATATAG
*
64368288 TACAAATGATAAATAATATA
1 TACAAA-GATAAAGAATATA
64368308 TGCAACTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.57, C:0.05, G:0.10, T:0.28
Consensus pattern (20 bp):
TACAAAGATAAAGAATATAG
Found at i:64372294 original size:12 final size:12
Alignment explanation
Indices: 64372277--64372309 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
64372267 AGATAGATAA
64372277 CTCATATTTAAG
1 CTCATATTTAAG
64372289 CTCATATTTAAG
1 CTCATATTTAAG
64372301 -TCCATATTT
1 CT-CATATTT
64372310 CTAGTGACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 1 0.05
12 19 0.95
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.45
Consensus pattern (12 bp):
CTCATATTTAAG
Found at i:64375369 original size:17 final size:17
Alignment explanation
Indices: 64375303--64375465 Score: 70
Period size: 17 Copynumber: 9.4 Consensus size: 17
64375293 ATATATAAGA
64375303 AAATAATAAATAAATAAT
1 AAATAATAAATAAA-AAT
***
64375321 AACGATAATAAAGGCAAAT
1 AA--ATAATAAATAAAAAT
* *
64375340 GAAA-AAGAGATAAAAAT
1 -AAATAATAAATAAAAAT
64375357 AAATAATAAATAAAAAT
1 AAATAATAAATAAAAAT
** *
64375374 GCATAATAAATACAAAAAC
1 AAATAATAAAT--AAAAAT
* *
64375393 AAACCAATTTTAAATAAAAAGG
1 AAA-TAA---TAAATAAAAA-T
*
64375415 AAATAATAAGT--AAAT
1 AAATAATAAATAAAAAT
64375430 AAAT-A-AAAT--AAAT
1 AAATAATAAATAAAAAT
*
64375443 AAATAATACATAAAAAT
1 AAATAATAAATAAAAAT
64375460 AAATAA
1 AAATAA
64375466 CCTAGATAGG
Statistics
Matches: 108, Mismatches: 22, Indels: 31
0.67 0.14 0.19
Matches are distributed among these distances:
13 11 0.10
14 2 0.02
15 7 0.06
16 6 0.06
17 38 0.35
18 7 0.06
19 9 0.08
20 13 0.12
21 7 0.06
22 3 0.03
23 5 0.05
ACGTcount: A:0.68, C:0.05, G:0.06, T:0.21
Consensus pattern (17 bp):
AAATAATAAATAAAAAT
Found at i:64376926 original size:51 final size:49
Alignment explanation
Indices: 64376845--64377308 Score: 210
Period size: 44 Copynumber: 9.9 Consensus size: 49
64376835 GGTATAGGAT
* * * *
64376845 TTGTTGCTTCAATCT-TCTCCACT-ACAATTTCAGGGAGATAAGACTTGTAAC
1 TTGTAGCTTTAATCTGT-TCCACTGACAACTTCAGGGAAATAAGA-TTGT--C
*
64376896 TTGTAGCTTCT-ATCTGTTCCACTGA-AATTTCAGGGAAATAAGA---T-
1 TTGTAGCTT-TAATCTGTTCCACTGACAACTTCAGGGAAATAAGATTGTC
* *
64376940 TTGTAGCTTTAATCTGTTCCA-TTACAACTTCAGGGAGATAAGATTTGTGGC
1 TTGTAGCTTTAATCTGTTCCACTGACAACTTCAGGGAAATAAGA-TTGT--C
*
64376991 TTGTAGCTTTAATCTGTTCTACTG-CAACTTCAGGGAAATAAGA---T-
1 TTGTAGCTTTAATCTGTTCCACTGACAACTTCAGGGAAATAAGATTGTC
* * * * * * *
64377035 TTGCATCTTCAATCTG-TCCACTG-TAACTTGAAGGAGATAAGATTTGTAAC
1 TTGTAGCTTTAATCTGTTCCACTGACAACTTCAGGGAAATAAGA-TTGT--C
* *
64377085 TTGTAGTTTTAATCTGTTCCACT-ACAACTTCAGGGAAAAAAGA---T-
1 TTGTAGCTTTAATCTGTTCCACTGACAACTTCAGGGAAATAAGATTGTC
* * * *
64377129 TTGCTATCTTCAATTTGCTCCACTG-CAACTTCA-GGAAGATAAGA-T-TC
1 TTG-TAGCTTTAATCTGTTCCACTGACAACTTCAGGGAA-ATAAGATTGTC
** * * * * * * *
64377176 -ACTATCTTCAATCTGCTCTACTG-CAACTTCAAGGAGATATGA---T-
1 TTGTAGCTTTAATCTGTTCCACTGACAACTTCAGGGAAATAAGATTGTC
* * ** *
64377219 TTGTAGCTTCAATCTGCTCTTCTG-CAACTTCAGGGAGATAAGA---T-
1 TTGTAGCTTTAATCTGTTCCACTGACAACTTCAGGGAAATAAGATTGTC
* *
64377263 TTGCTACCTTTAATCTGTTCCACTG-CAACTTCAGGGAGATAAGATT
1 TTG-TAGCTTTAATCTGTTCCACTGACAACTTCAGGGAAATAAGATT
64377309 TGCTATCTTC
Statistics
Matches: 332, Mismatches: 49, Indels: 68
0.74 0.11 0.15
Matches are distributed among these distances:
43 24 0.07
44 96 0.29
45 95 0.29
46 4 0.01
47 4 0.01
48 1 0.00
50 12 0.04
51 93 0.28
52 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (49 bp):
TTGTAGCTTTAATCTGTTCCACTGACAACTTCAGGGAAATAAGATTGTC
Found at i:64376966 original size:95 final size:95
Alignment explanation
Indices: 64376842--64377322 Score: 445
Period size: 95 Copynumber: 5.2 Consensus size: 95
64376832 ATAGGTATAG
* * *
64376842 GATTTGTTGCTTCAATCT-TCTCCACTACAATTTCAGGGAGATAAGACTTGTAACTTGTAGCTTC
1 GATTTGTAGCTTCAATCTGT-TCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTT-
*
64376906 T-ATCTGTTCCACTGAAATTTCAGGGAAATAA
64 TAATCTGTTCCACTGAAACTTCAGGGAAATAA
* * **
64376937 GATTTGTAGCTTTAATCTGTTCCATTACAACTTCAGGGAGATAAGATTTGTGGCTTGTAGCTTTA
1 GATTTGTAGCTTCAATCTGTTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTA
* *
64377002 ATCTGTTCTACTGCAACTTCAGGGAAATAA
66 ATCTGTTCCACTGAAACTTCAGGGAAATAA
* * ** * * *
64377032 GATTTGCATCTTCAATCTG-TCCACTGTAACTTGAAGGAGATAAGATTTGTAACTTGTAGTTTTA
1 GATTTGTAGCTTCAATCTGTTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTA
*
64377096 ATCTGTTCCACT-ACAACTTCAGGGAAAAAA
66 ATCTGTTCCACTGA-AACTTCAGGGAAATAA
* * * * * * * *
64377126 GATTTGCTATCTTCAATTTGCTCCACTGCAACTTCAGGAAGATAAGA--T-TCAC---TATCTTC
1 GATTTG-TAGCTTCAATCTGTTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTT
* * * * * *
64377185 AATCTGCTCTACTGCAACTTCAAGGAGATAT
65 AATCTGTTCCACTGAAACTTCAGGGAAATAA
* ** * *
64377216 GATTTGTAGCTTCAATCTGCTCTTCTGCAACTTCAGGGAGATAAGATTTG---C---TACCTTTA
1 GATTTGTAGCTTCAATCTGTTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTA
* *
64377275 ATCTGTTCCACTGCAACTTCAGGGAGATAA
66 ATCTGTTCCACTGAAACTTCAGGGAAATAA
*
64377305 GATTTGCTATCTTCAATC
1 GATTTG-TAGCTTCAATC
64377323 CATCCCACTG
Statistics
Matches: 323, Mismatches: 53, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
89 74 0.23
90 43 0.13
91 1 0.00
93 3 0.01
94 71 0.22
95 108 0.33
96 23 0.07
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (95 bp):
GATTTGTAGCTTCAATCTGTTCCACTACAACTTCAGGGAGATAAGATTTGTAACTTGTAGCTTTA
ATCTGTTCCACTGAAACTTCAGGGAAATAA
Found at i:64377173 original size:45 final size:45
Alignment explanation
Indices: 64376902--64377343 Score: 314
Period size: 45 Copynumber: 9.6 Consensus size: 45
64376892 TAACTTGTAG
* * * * *
64376902 CTTCTATCTGTTCCACTGAAATTTCAGGGAA-ATAAGATTTG-TAG
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTGCTAT
* * * * * *
64376946 CTTTAATCTGTTCCATTACAACTTCAGGGAGATAAGATTTGTGGCTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA-TT-T-GC---TAT
* * *
64376997 CTTTAATCTGTTCTACTGCAACTTCAGGGAA-ATAAGATTTGC-AT
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTGCTAT
* *
64377041 CTTCAATCTG-TCCACTGTAACTTGAAGG-AGATAAGATTTGTAACTTGTAGT
1 CTTCAATCTGCTCCACTGCAACTT-CAGGAAGATAAGATTTG---C---TA-T
* * * *
64377092 -TTTAATCTGTTCCACTACAACTTCAGGGAA-AAAAGATTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTGCTAT
* **
64377136 CTTCAATTTGCTCCACTGCAACTTCAGGAAGATAAGATTCACTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCTAT
* * *
64377181 CTTCAATCTGCTCTACTGCAACTTCAAGG-AGATATGATTTG-TAG
1 CTTCAATCTGCTCCACTGCAACTTC-AGGAAGATAAGATTTGCTAT
** * *
64377225 CTTCAATCTGCTCTTCTGCAACTTCAGGGAGATAAGATTTGCTAC
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCTAT
* * *
64377270 CTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCTAT
*
64377315 CTTCAATC--CATCCCACTGCAACTTTAGGA
1 CTTCAATCTGC-T-CCACTGCAACTTCAGGA
64377344 GTATGAGTAA
Statistics
Matches: 323, Mismatches: 46, Indels: 57
0.76 0.11 0.13
Matches are distributed among these distances:
42 1 0.00
43 29 0.09
44 80 0.25
45 132 0.41
46 5 0.02
47 1 0.00
48 3 0.01
49 1 0.00
50 12 0.04
51 55 0.17
52 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGCTAT
Found at i:64377247 original size:89 final size:90
Alignment explanation
Indices: 64377001--64377343 Score: 302
Period size: 89 Copynumber: 3.8 Consensus size: 90
64376991 TTGTAGCTTT
* * * * *
64377001 AATCTGTTCTACTGCAACTTCAGGGAAATAAGATTTGC-ATCTTCAATCTG-TCCACTGTAACTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
* * ** *
64377064 GAAGG-AGATAAGATTTGTAACTTGTAGTTTT
66 -CAGGAAGATAAGA--T-TCAC---TACCTTC
* * * * * *
64377095 AATCTGTTCCACTACAACTTCAGGGAAAAAAGATTTGCTATCTTCAATTTGCTCCACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
*
64377160 CAGGAAGATAAGATTCACTATCTTC
66 CAGGAAGATAAGATTCACTACCTTC
* * * **
64377185 AATCTGCTCTACTGCAACTTCAAGGAGATATGATTTG-TAGCTTCAATCTGCTCTTCTGCAACTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
* ** *
64377249 CAGGGAGATAAGATTTGCTACCTTT
66 CAGGAAGATAAGATTCACTACCTTC
* *
64377274 AATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATC--CATCCCACTGCAAC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTCAATCTGC-T-CCACTGCAAC
*
64377337 TTTAGGA
64 TTCAGGA
64377344 GTATGAGTAA
Statistics
Matches: 208, Mismatches: 35, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
88 1 0.00
89 77 0.37
90 57 0.27
93 3 0.01
94 36 0.17
95 14 0.07
96 20 0.10
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (90 bp):
AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTT
CAGGAAGATAAGATTCACTACCTTC
Found at i:64377333 original size:134 final size:133
Alignment explanation
Indices: 64376914--64377338 Score: 401
Period size: 134 Copynumber: 3.1 Consensus size: 133
64376904 TCTATCTGTT
* * * * *
64376914 CCACTGAAATTTCAGGGAAATAAGATTTGTAGCTTTAATCTGTTCCAT-TACAACTTCAGGGAGA
1 CCACTGCAACTTCAAGGAGATATGATTTGTAGCTTTAATCTGTT-CATCTACAACTTCAGGGAGA
* * *
64376978 TAAGATTTGTGGCTTGTAGCTTTAATCTGTTCTACTGCAACTTCAGGGAAATAAGATTTGC-ATC
65 TAAGA-TT-T-GC---TACCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATC
*
64377042 TTCAAT-CTGT
124 TTCAATCCT-C
* * * *
64377052 CCACTGTAACTTGAAGGAGATAAGATTTGTAACTTGTAGTTTTAATCTGTTCCA-CTACAACTTC
1 CCACTGCAACTTCAAGGAGAT---A--TG--ATTTGTAGCTTTAATCTGTT-CATCTACAACTTC
* * * * * * * **
64377116 AGGGAAAAAAGATTTGCTATCTTCAATTTGCTCCACTGCAACTTCAGGAAGATAAGATTCACTAT
58 AGGGAGATAAGATTTGCTACCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
64377181 CTTCAAT-CTGC
123 CTTCAATCCT-C
* * * * *
64377192 TCTACTGCAACTTCAAGGAGATATGATTTGTAGCTTCAATCTGCTCTTCTGCAACTTCAGGGAGA
1 -CCACTGCAACTTCAAGGAGATATGATTTGTAGCTTTAATCTGTTCATCTACAACTTCAGGGAGA
64377257 TAAGATTTGCTACCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAAT
65 TAAGATTTGCTACCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAAT
64377322 CCATC
130 CC-TC
64377327 CCACTGCAACTT
1 CCACTGCAACTT
64377339 TAGGAGTATG
Statistics
Matches: 235, Mismatches: 39, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
133 1 0.00
134 99 0.42
135 2 0.01
136 3 0.01
138 17 0.07
139 36 0.15
140 12 0.05
141 19 0.08
142 2 0.01
143 2 0.01
144 2 0.01
145 40 0.17
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (133 bp):
CCACTGCAACTTCAAGGAGATATGATTTGTAGCTTTAATCTGTTCATCTACAACTTCAGGGAGAT
AAGATTTGCTACCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCTATCTTCAATC
CTC
Found at i:64377333 original size:179 final size:180
Alignment explanation
Indices: 64377001--64377343 Score: 433
Period size: 179 Copynumber: 1.9 Consensus size: 180
64376991 TTGTAGCTTT
* * * * *
64377001 AATCTGTTCTACTGCAACTTCAGGGAAATAAGATTTGCATCTTCAATCTGTCCACTGTAACTTGA
1 AATCTGCTCTACTGCAACTTCAAGGAAATAAGATTTGCAGCTTCAATCTGTCCACTGCAACTTCA
**
64377066 AGGAGATAAGATTTGTAACTTGTAGTTTTAATCTGTTCCACTACAACTTCAGGGAAAAAAGATTT
66 AGGAGATAAGATTTG--AC-T-TACCTTTAATCTGTTCCACTACAACTTCAGGGAAAAAAGATTT
*
64377131 GCTATCTTCAATTTGCTCCACTGCAACTTCAGGAAGATAAGATTCACTATCTTC
127 GCTATCTTCAATATGCTCCACTGCAACTTCAGGAAGATAAGATTCACTATCTTC
* * * **
64377185 AATCTGCTCTACTGCAACTTCAAGGAGATATGATTTGTAGCTTCAATCTGCTCTTCTGCAACTTC
1 AATCTGCTCTACTGCAACTTCAAGGAAATAAGATTTGCAGCTTCAATCTG-TCCACTGCAACTTC
* * * *
64377250 AGGGAGATAAGATTTG-C-TACCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTGCT
65 AAGGAGATAAGATTTGACTTACCTTTAATCTGTTCCACTACAACTTCAGGGAAAAAAGATTTGCT
*
64377313 ATCTTCAATCCAT-C-CCACTGCAACTTTAGGA
130 ATCTTCAAT--ATGCTCCACTGCAACTTCAGGA
64377344 GTATGAGTAA
Statistics
Matches: 138, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
179 66 0.48
180 1 0.01
181 1 0.01
182 1 0.01
184 44 0.32
185 25 0.18
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (180 bp):
AATCTGCTCTACTGCAACTTCAAGGAAATAAGATTTGCAGCTTCAATCTGTCCACTGCAACTTCA
AGGAGATAAGATTTGACTTACCTTTAATCTGTTCCACTACAACTTCAGGGAAAAAAGATTTGCTA
TCTTCAATATGCTCCACTGCAACTTCAGGAAGATAAGATTCACTATCTTC
Found at i:64384659 original size:3 final size:3
Alignment explanation
Indices: 64384651--64384685 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
64384641 GAATAAATGA
*
64384651 AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
64384686 GGAAGTTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:64386164 original size:13 final size:13
Alignment explanation
Indices: 64386146--64386208 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
64386136 AGTTTTTTAT
64386146 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
64386159 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
64386172 TGATGTAGAAAAG
1 TGCTTTTGAAAAG
* * *
64386185 TACTTTGGAGAA-
1 TGCTTTTGAAAAG
64386197 TGCTTTTGAAAA
1 TGCTTTTGAAAA
64386209 ATTTGGTTTA
Statistics
Matches: 39, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
12 9 0.23
13 30 0.77
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:64389733 original size:49 final size:49
Alignment explanation
Indices: 64389661--64389759 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
64389651 AAACTTACTC
*
64389661 ATATTCTTTGGTCAGATCCTCAAGAAACTCAATTGGATTCAACCACTAA
1 ATATTCTATGGTCAGATCCTCAAGAAACTCAATTGGATTCAACCACTAA
64389710 ATATTCTATGGTCAGATCCTCAAGAAACTCAATTGGATTCAACCACTAA
1 ATATTCTATGGTCAGATCCTCAAGAAACTCAATTGGATTCAACCACTAA
64389759 A
1 A
64389760 AGGATAAGTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.29
Consensus pattern (49 bp):
ATATTCTATGGTCAGATCCTCAAGAAACTCAATTGGATTCAACCACTAA
Found at i:64389986 original size:47 final size:47
Alignment explanation
Indices: 64389880--64389973 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
64389870 CTGGTTCCCA
64389880 AACTGTATAACCACCATTTTTACTCTGCAATCATTTGTAAAATAAAT
1 AACTGTATAACCACCATTTTTACTCTGCAATCATTTGTAAAATAAAT
64389927 AACTGTATAACCACCATTTTTACTCTGCAATCATTTGTAAAATAAAT
1 AACTGTATAACCACCATTTTTACTCTGCAATCATTTGTAAAATAAAT
64389974 TATACTTAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.36
Consensus pattern (47 bp):
AACTGTATAACCACCATTTTTACTCTGCAATCATTTGTAAAATAAAT
Found at i:64393470 original size:6 final size:6
Alignment explanation
Indices: 64393459--64393491 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
64393449 TCAATACATA
64393459 TATATT TATATT TATATT TATATT TATATT TAT
1 TATATT TATATT TATATT TATATT TATATT TAT
64393492 TACCTGATGA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:64394297 original size:34 final size:34
Alignment explanation
Indices: 64394233--64394298 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
64394223 TTTAAAAGAA
* * *
64394233 TAATTAATTTATTTTTAATTTAATATATAAAAAT
1 TAATTAATTTATTTTTAATATAAGAAATAAAAAT
*
64394267 TAATTTATTTATTTTTAA-ATAGAGAAATAAAA
1 TAATTAATTTATTTTTAATATA-AGAAATAAAA
64394299 TTCCTTTGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 2 0.07
34 25 0.93
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (34 bp):
TAATTAATTTATTTTTAATATAAGAAATAAAAAT
Found at i:64394797 original size:14 final size:14
Alignment explanation
Indices: 64394780--64394823 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
64394770 ATTTTTTAAA
64394780 TTAAATTTTAAATC
1 TTAAATTTTAAATC
*
64394794 TTAAATTTTACATC
1 TTAAATTTTAAATC
* *
64394808 TTAAACTCTAAATC
1 TTAAATTTTAAATC
64394822 TT
1 TT
64394824 GAATACTGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAAATTTTAAATC
Found at i:64397628 original size:23 final size:23
Alignment explanation
Indices: 64397602--64397647 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
64397592 TCGAGTTTAG
64397602 GGATTAAATTGAATAAGTTAGAA
1 GGATTAAATTGAATAAGTTAGAA
64397625 GGATTAAATTGAATAAGTTAGAA
1 GGATTAAATTGAATAAGTTAGAA
64397648 AAGTATAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (23 bp):
GGATTAAATTGAATAAGTTAGAA
Found at i:64397806 original size:21 final size:18
Alignment explanation
Indices: 64397768--64397812 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
64397758 GATTTGTTAT
64397768 TAAGTAATAATATTTTAA
1 TAAGTAATAATATTTTAA
*
64397786 TAAGTAATAATATTTTAT
1 TAAGTAATAATATTTTAA
*
64397804 TAATTAATA
1 TAAGTAATA
64397813 TTATAATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (18 bp):
TAAGTAATAATATTTTAA
Found at i:64400890 original size:17 final size:18
Alignment explanation
Indices: 64400858--64400891 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
64400848 AAGTGAATAA
*
64400858 ATTAATATATAATAAAAG
1 ATTAATATAGAATAAAAG
64400876 ATTAA-ATAGAATAAAA
1 ATTAATATAGAATAAAA
64400892 CTTATTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (18 bp):
ATTAATATAGAATAAAAG
Found at i:64404296 original size:46 final size:46
Alignment explanation
Indices: 64404244--64404506 Score: 330
Period size: 46 Copynumber: 5.7 Consensus size: 46
64404234 GCTTTTTGAA
* * * *
64404244 ATGAAATGTGTAAGACCATGGTTGAAAGATACCGTGACAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
64404290 ATGAAATGTGTAAGACAATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
64404336 A-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
64404382 ATAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
64404428 GGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
64404475 AAAAAACGAGTAAGACTATAGTTGAAAGATAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATAC
64404507 TATGTCATCA
Statistics
Matches: 194, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
45 1 0.01
46 150 0.77
47 43 0.22
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:64404404 original size:92 final size:93
Alignment explanation
Indices: 64404247--64404506 Score: 369
Period size: 92 Copynumber: 2.8 Consensus size: 93
64404237 TTTTGAAATG
* * * * *
64404247 AAATGTGTAAGACCATGGTTGAAAGATACCGTGACAACATGATATGAAATGTGTAAGACAATGGT
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATAAAATGAGTAAGACAATGGT
*
64404312 TGAAAGATACCATGGCAACATGA-TAGA
66 TGAAAGATACCATGGCAACATGACGAGA
* * *
64404339 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATAAAATGAATAAGACCATGGT
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATAAAATGAGTAAGACAATGGT
*
64404404 TGAAAGATACCATGGCAACATGACGGGA
66 TGAAAGATACCATGGCAACATGACGAGA
** * * * *
64404432 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAAAAAACGAGTAAGACTATAGT
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATAAAATGAGTAAGACAATGGT
64404497 TGAAAGATAC
66 TGAAAGATAC
64404507 TATGTCATCA
Statistics
Matches: 149, Mismatches: 18, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
92 80 0.54
93 69 0.46
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.20
Consensus pattern (93 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACATAAAATGAGTAAGACAATGGT
TGAAAGATACCATGGCAACATGACGAGA
Found at i:64406596 original size:50 final size:50
Alignment explanation
Indices: 64406519--64406695 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
64406509 CCATGGCAAC
*
64406519 AAGTGATAAGTGATAGTTTCGGCTACACTTATCTGATCAAGAACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGA
* *
64406569 AAGTGATAAGTGATAGC-TCTGGGTACACTTATTTGATCAAGAACAAGTGA
1 AAGTGATAAGTGATAGCTTC-GGCTACACTTATCTGATCAAGAACAAGTGA
* * *
64406619 AAGTGACAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGAA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTG-A
* *
64406670 AAGTGAAAAGTGGTAGCTTCGGCTAC
1 AAGTGATAAGTGATAGCTTCGGCTAC
64406696 CTAATCAGTG
Statistics
Matches: 114, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
49 2 0.02
50 85 0.75
51 27 0.24
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGA
Found at i:64406709 original size:31 final size:31
Alignment explanation
Indices: 64406671--64406788 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
64406661 ACAAATGAAA
* *
64406671 AGTGAAAAGTGGTAGCTTCGGCTACCTAATC
1 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
*
64406702 AGTGAAAAATGGTAGCTTCGGCTACCTGATT
1 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
64406733 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
* *
64406764 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAATGGTAGCTTCGGCTAC
64406789 AAGTGACAAG
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAATGGTAGCTTCGGCTACCTGATC
Found at i:64414860 original size:73 final size:73
Alignment explanation
Indices: 64414739--64414882 Score: 207
Period size: 73 Copynumber: 2.0 Consensus size: 73
64414729 ATACTCTATA
* * *
64414739 AGTTTATATTACAGGGGATTTAGCCTAGACTGGTAATCCCACTATAAGGATGAGGTTCGTGGGAG
1 AGTTTATATTAAAAGGGATTTAGCCTAGACTGGTAATCCCACTATAAGGATGAGGTTCGCGGGAG
64414804 TGTGCTCT
66 TGTGCTCT
* * * * *
64414812 AGTTTATATTAAAAGGGATTTAGCTTGGATTGGTAATCCCGCTGTAAGGATGAGGTTCGCGGGAG
1 AGTTTATATTAAAAGGGATTTAGCCTAGACTGGTAATCCCACTATAAGGATGAGGTTCGCGGGAG
*
64414877 TTTGCT
66 TGTGCT
64414883 TTTTGATATG
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.33
Consensus pattern (73 bp):
AGTTTATATTAAAAGGGATTTAGCCTAGACTGGTAATCCCACTATAAGGATGAGGTTCGCGGGAG
TGTGCTCT
Found at i:64414938 original size:46 final size:46
Alignment explanation
Indices: 64414890--64415063 Score: 222
Period size: 46 Copynumber: 3.8 Consensus size: 46
64414880 GCTTTTTGAT
** * * *
64414890 ATGAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
64414936 ATGAAATGAATAAGACCATGGTTGAAAGATACCATAGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
64414982 GGGAAATGAATAAGACCATGGTTGAAAGAAACCATGGCAGCGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
64415028 ATGAAATGTGTAAGACCATGGTTGAAAAATACCATG
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATG
64415064 ACATCATGTT
Statistics
Matches: 110, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 110 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:64415373 original size:16 final size:17
Alignment explanation
Indices: 64415352--64415384 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
64415342 ATCATGGTGC
64415352 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
64415368 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
64415385 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:64416794 original size:25 final size:23
Alignment explanation
Indices: 64416752--64416804 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
64416742 AACTTTATTT
*
64416752 TTATTATTAATTCTATTATTGCTA
1 TTATTATTAATTCCATTATT-CTA
64416776 CTTATTATT-ATTGCCATTATTCTA
1 -TTATTATTAATT-CCATTATTCTA
64416800 TTATT
1 TTATT
64416805 TCTTATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 6 0.23
25 15 0.58
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.58
Consensus pattern (23 bp):
TTATTATTAATTCCATTATTCTA
Found at i:64421120 original size:18 final size:18
Alignment explanation
Indices: 64421097--64421133 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
64421087 ACGTGATAGA
*
64421097 CAACTCCATGAAATTGAC
1 CAACTCCATAAAATTGAC
64421115 CAACTCCATAAAATTGAC
1 CAACTCCATAAAATTGAC
64421133 C
1 C
64421134 TTTCATTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.30, G:0.08, T:0.22
Consensus pattern (18 bp):
CAACTCCATAAAATTGAC
Found at i:64426840 original size:3 final size:3
Alignment explanation
Indices: 64426767--64426823 Score: 62
Period size: 3 Copynumber: 18.0 Consensus size: 3
64426757 TTCTGACTAC
*
64426767 TAT TAT TAT ATAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
64426815 TAT TAT TAT
1 TAT TAT TAT
64426824 CACCCCTATT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 1 0.02
3 37 0.76
4 11 0.22
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:64426934 original size:12 final size:12
Alignment explanation
Indices: 64426906--64426952 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
64426896 GCTATTACTA
64426906 TTAT-TATATAT
1 TTATGTATATAT
* *
64426917 TAATGTATATTT
1 TTATGTATATAT
64426929 TTATGTATATAT
1 TTATGTATATAT
* *
64426941 ATATTTATATAT
1 TTATGTATATAT
64426953 AGTATTGTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
11 3 0.10
12 26 0.90
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (12 bp):
TTATGTATATAT
Found at i:64430580 original size:22 final size:21
Alignment explanation
Indices: 64430555--64430607 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
64430545 ATGTTGAAAA
*
64430555 TATTTTTAATTAATAACTATTT
1 TATTTTTAATTAATAA-AATTT
*
64430577 TATTTAT-ATATAATAAAATTT
1 TATTTTTAAT-TAATAAAATTT
64430598 TA-TTTTAATT
1 TATTTTTAATT
64430608 TTATAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.15
21 10 0.38
22 12 0.46
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTTTAATTAATAAAATTT
Found at i:64430601 original size:26 final size:27
Alignment explanation
Indices: 64430572--64430624 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
64430562 AATTAATAAC
64430572 TATTTT-A-TTTATATATAATAAAATTT
1 TATTTTAATTTTATA-ATAATAAAATTT
*
64430598 TATTTTAATTTTATAATATTAAAATTT
1 TATTTTAATTTTATAATAATAAAATTT
64430625 ACCCTAACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 6 0.25
27 12 0.50
28 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
TATTTTAATTTTATAATAATAAAATTT
Found at i:64430695 original size:14 final size:15
Alignment explanation
Indices: 64430676--64430708 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
64430666 TTAATAATAT
*
64430676 TATTAATTTTATA-A
1 TATTAATTTGATACA
64430690 TATTAATTTGATACA
1 TATTAATTTGATACA
64430705 TATT
1 TATT
64430709 GTCTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTAATTTGATACA
Found at i:64438054 original size:20 final size:20
Alignment explanation
Indices: 64438029--64438077 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
64438019 AAATATCTTG
64438029 ATTTGATTTGATTCTAATCA
1 ATTTGATTTGATTCTAATCA
* *
64438049 ATTTGATTTGATTTTATTCA
1 ATTTGATTTGATTCTAATCA
*
64438069 AATTGATTT
1 ATTTGATTT
64438078 AAAGGATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (20 bp):
ATTTGATTTGATTCTAATCA
Found at i:64445457 original size:15 final size:15
Alignment explanation
Indices: 64445437--64445468 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
64445427 AATCACCTAA
64445437 TTAGCACATGAATTT
1 TTAGCACATGAATTT
64445452 TTAGCACATGAATTT
1 TTAGCACATGAATTT
64445467 TT
1 TT
64445469 TCCACGTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (15 bp):
TTAGCACATGAATTT
Found at i:64456520 original size:22 final size:22
Alignment explanation
Indices: 64456492--64456535 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
64456482 GAATGCTTAG
64456492 AACAATTTCAGTGCTGATAGGA
1 AACAATTTCAGTGCTGATAGGA
64456514 AACAATTTCAGTGCTGATAGGA
1 AACAATTTCAGTGCTGATAGGA
64456536 TAAAAAGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (22 bp):
AACAATTTCAGTGCTGATAGGA
Found at i:64457228 original size:115 final size:115
Alignment explanation
Indices: 64457026--64457485 Score: 911
Period size: 115 Copynumber: 4.0 Consensus size: 115
64457016 GCGGAGAGAA
64457026 CCATTGCTTCTTGTGATTAGCATTGGAAGCATCCGATCAAGATGGTGGGACAGGCAGCGACGGCT
1 CCATTGCTTCTTGTGATTAGCATTGGAAGCATCCGATCAAGATGGTGGGACAGGCAGCGACGGCT
64457091 CCATTTAGCAAGGTCTATATCTTGACAACAATAAGGACCTGTGATTGCCT
66 CCATTTAGCAAGGTCTATATCTTGACAACAATAAGGACCTGTGATTGCCT
64457141 CCATTGCTTCTTGTGATTAGCATTGGAAGCATCCGATCAAGATGGTGGGACAGGCAGCGACGGCT
1 CCATTGCTTCTTGTGATTAGCATTGGAAGCATCCGATCAAGATGGTGGGACAGGCAGCGACGGCT
64457206 CCATTTAGCAAGGTCTATATCTTGACAACAATAAGGACCTGTGATTGCCT
66 CCATTTAGCAAGGTCTATATCTTGACAACAATAAGGACCTGTGATTGCCT
64457256 CCATTGCTTCTTGTGATTAGCATTGGAAGCATCCGATCAAGATGGTGGGACAGGCAGCGACGGCT
1 CCATTGCTTCTTGTGATTAGCATTGGAAGCATCCGATCAAGATGGTGGGACAGGCAGCGACGGCT
64457321 CCATTTAGCAAGGTCTATATCTTGACAACAATAAGGACCTGTGATTGCCT
66 CCATTTAGCAAGGTCTATATCTTGACAACAATAAGGACCTGTGATTGCCT
64457371 CCATTGCTTCTTGTGATTAGCATTGGAAGCATCCGATCAAGATGGTGGGACAGGCAGCGACGGCT
1 CCATTGCTTCTTGTGATTAGCATTGGAAGCATCCGATCAAGATGGTGGGACAGGCAGCGACGGCT
*
64457436 CCATTTAGCAAGGTCTATATCTTGACAACAATAGGGACCTGTGATTGCCT
66 CCATTTAGCAAGGTCTATATCTTGACAACAATAAGGACCTGTGATTGCCT
64457486 TTCTCCAGGA
Statistics
Matches: 344, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 344 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (115 bp):
CCATTGCTTCTTGTGATTAGCATTGGAAGCATCCGATCAAGATGGTGGGACAGGCAGCGACGGCT
CCATTTAGCAAGGTCTATATCTTGACAACAATAAGGACCTGTGATTGCCT
Found at i:64463962 original size:28 final size:29
Alignment explanation
Indices: 64463913--64463973 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
64463903 AAACGGGATA
64463913 AAAATAAAAAAAAATAAAGAAAGACAA-AT
1 AAAATAAAAAAAAATAAAGAAAGA-AATAT
* *
64463942 AAAATAATAAAAAAT-GAGAAAGAAATAT
1 AAAATAAAAAAAAATAAAGAAAGAAATAT
64463970 AAAA
1 AAAA
64463974 AAATTATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 2 0.07
28 13 0.45
29 14 0.48
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.13
Consensus pattern (29 bp):
AAAATAAAAAAAAATAAAGAAAGAAATAT
Found at i:64466489 original size:23 final size:24
Alignment explanation
Indices: 64466440--64466486 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
64466430 GCATTTATAT
**
64466440 ATGAAAAAAGAATTAAGAAGAGAA
1 ATGAAAAAAGAAGAAAGAAGAGAA
64466464 ATGAAAAAA-AAGAAAGAA-AGAA
1 ATGAAAAAAGAAGAAAGAAGAGAA
64466486 A
1 A
64466487 ATGTCCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 7 0.33
24 9 0.43
ACGTcount: A:0.72, C:0.00, G:0.19, T:0.09
Consensus pattern (24 bp):
ATGAAAAAAGAAGAAAGAAGAGAA
Done.