Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 84 of 290
Found at i:25689233 original size:7 final size:7
Alignment explanation
Indices: 25689211--25689247 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
25689201 TCTGTTATGG
25689211 AGTT-TT
1 AGTTATT
25689217 AGTT-TT
1 AGTTATT
25689223 AGTTATT
1 AGTTATT
25689230 AGTTATT
1 AGTTATT
*
25689237 AGTTATC
1 AGTTATT
25689244 AGTT
1 AGTT
25689248 TCAGGTACCT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 10 0.34
7 19 0.66
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (7 bp):
AGTTATT
Found at i:25689279 original size:33 final size:33
Alignment explanation
Indices: 25689181--25689280 Score: 90
Period size: 33 Copynumber: 3.2 Consensus size: 33
25689171 CATTTTAATA
25689181 TTCAGTTTCAGGTACCTAAATCTGTTATGGAGT
1 TTCAGTTTCAGGTACCTAAATCTGTTATGGAGT
* * *
25689214 TTTAGTTTTA-GT---T--AT-TAGTTAT-TAGT
1 TTCAGTTTCAGGTACCTAAATCT-GTTATGGAGT
*
25689240 TATCAGTTTCAGGTACCTAAATCTCTTATGGAGT
1 T-TCAGTTTCAGGTACCTAAATCTGTTATGGAGT
25689274 TTCAGTT
1 TTCAGTT
25689281 ATTAGTTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 20
0.65 0.09 0.26
Matches are distributed among these distances:
26 5 0.10
27 14 0.28
28 2 0.04
29 1 0.02
31 1 0.02
32 2 0.04
33 20 0.40
34 5 0.10
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46
Consensus pattern (33 bp):
TTCAGTTTCAGGTACCTAAATCTGTTATGGAGT
Found at i:25694981 original size:16 final size:16
Alignment explanation
Indices: 25694960--25694998 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
25694950 AAATAAAAAA
25694960 AAATTATACTACAATT
1 AAATTATACTACAATT
* *
25694976 AAATTATATTATAATT
1 AAATTATACTACAATT
25694992 -AATTATA
1 AAATTATA
25694999 AATCTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATTATACTACAATT
Found at i:25696035 original size:18 final size:19
Alignment explanation
Indices: 25695979--25696035 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 19
25695969 ATTATTAGGA
25695979 ATTATAAAAAAATATT-AAT
1 ATTAT-AAAAAATATTAAAT
* **
25695998 TTTAGTAAAAAATAAAAAAT
1 ATTA-TAAAAAATATTAAAT
25696018 ATT-TAAAAAATATTAAAT
1 ATTATAAAAAATATTAAAT
25696036 GGTTGTCCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 13 0.43
19 11 0.37
20 6 0.20
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
ATTATAAAAAATATTAAAT
Found at i:25696127 original size:17 final size:18
Alignment explanation
Indices: 25696105--25696138 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
25696095 TTTAAATAAT
25696105 TTTTAAAT-AATTTTTAC
1 TTTTAAATAAATTTTTAC
25696122 TTTTAAATAAATTTTTA
1 TTTTAAATAAATTTTTA
25696139 TAATTTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTAAATAAATTTTTAC
Found at i:25696136 original size:11 final size:11
Alignment explanation
Indices: 25696094--25696120 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
25696084 TCTAGGCATG
25696094 TTTTAAATAAT
1 TTTTAAATAAT
25696105 TTTTAAATAAT
1 TTTTAAATAAT
25696116 TTTTA
1 TTTTA
25696121 CTTTTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAATAAT
Found at i:25697770 original size:25 final size:25
Alignment explanation
Indices: 25697737--25697792 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
25697727 ACAAATGTGC
25697737 TAATCAAATAGCACTAACGTGATAA
1 TAATCAAATAGCACTAACGTGATAA
* *
25697762 TAATCAAATAGCACTGACGTGCTAA
1 TAATCAAATAGCACTAACGTGATAA
25697787 TAATCA
1 TAATCA
25697793 GAGCACGCGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (25 bp):
TAATCAAATAGCACTAACGTGATAA
Found at i:25698926 original size:5 final size:5
Alignment explanation
Indices: 25698908--25699018 Score: 77
Period size: 5 Copynumber: 22.0 Consensus size: 5
25698898 CTTTTGTTTT
* * * * *
25698908 ATATA TATAAA ATATA ATATA ATATA ATACA ATACA ATATA ATATT ATATT
1 ATATA -ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
* * *
25698959 ATATT ATATT ATAATA ATATA ATA-A CATACTT AT-TA AT-TA A-ATAA
1 ATATA ATATA AT-ATA ATATA ATATA -ATA-TA ATATA ATATA ATAT-A
25699004 ATATA ATATA ATATA
1 ATATA ATATA ATATA
25699019 TATTTTAAAT
Statistics
Matches: 90, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
4 8 0.09
5 70 0.78
6 12 0.13
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:25698981 original size:31 final size:29
Alignment explanation
Indices: 25698918--25699022 Score: 94
Period size: 29 Copynumber: 3.5 Consensus size: 29
25698908 ATATATATAA
25698918 AATATAATATA-ATATAA-TACAATACAATAT
1 AATATAATATATAT-TAATTA-AATA-AATAT
*
25698948 AATATTATATTATATTATATTATAAT-AATAT
1 AATATAATA-TATATTA-ATTA-AATAAATAT
25698979 AATA-ACATACT-TATTAATTAAATAAATAT
1 AATATA-ATA-TATATTAATTAAATAAATAT
25699008 AATATAATATATATT
1 AATATAATATATATT
25699023 TTAAATTAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
28 4 0.06
29 20 0.32
30 14 0.22
31 17 0.27
32 3 0.05
33 5 0.08
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (29 bp):
AATATAATATATATTAATTAAATAAATAT
Found at i:25706104 original size:33 final size:33
Alignment explanation
Indices: 25706026--25706136 Score: 98
Period size: 33 Copynumber: 3.4 Consensus size: 33
25706016 TTAGAAGTTC
* ** *
25706026 ATGGAAAGGGTGATGAT-GAAGGGGTAGAATCTA
1 ATGGAGAGGGTGAT-ATAGAAAAGGTAGAATCTG
* *
25706059 ATGGTGAAGGTGATATAGAAAAGGTAGAATCTG
1 ATGGAGAGGGTGATATAGAAAAGGTAGAATCTG
* * * * * *
25706092 GTGGAGAGGGTGATGTAGGAGAGGTACAAGCTG
1 ATGGAGAGGGTGATATAGAAAAGGTAGAATCTG
25706125 ATGGAGAGGGTG
1 ATGGAGAGGGTG
25706137 TGTCTACTAC
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
32 2 0.03
33 60 0.97
ACGTcount: A:0.33, C:0.04, G:0.42, T:0.21
Consensus pattern (33 bp):
ATGGAGAGGGTGATATAGAAAAGGTAGAATCTG
Found at i:25706396 original size:51 final size:51
Alignment explanation
Indices: 25706248--25706397 Score: 194
Period size: 51 Copynumber: 2.9 Consensus size: 51
25706238 GCTGCTAGTG
* * * * *
25706248 AATATGCTAGTGATTTTGCAACATCAGATGGAGTGGATAATATTGCAGATG
1 AATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTACTGATA
* * *
25706299 AATATGTTGGTGATTTTGCAACATCAGATGGAGTAGATAATGTTACTTATA
1 AATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTACTGATA
* *
25706350 AATATGCTGGTGATTTTACAACATCTA-ATGGACTGGATAATGTTACTG
1 AATATGCTGGTGATTTTGCAACATC-AGATGGAGTGGATAATGTTACTG
25706398 CTGCACGTAG
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
51 84 0.99
52 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (51 bp):
AATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTACTGATA
Found at i:25711375 original size:14 final size:14
Alignment explanation
Indices: 25711353--25711382 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25711343 AAATATTAGG
*
25711353 TAAATTTTTTATTT
1 TAAACTTTTTATTT
25711367 TAAACTTTTTATTT
1 TAAACTTTTTATTT
25711381 TA
1 TA
25711383 TTTTGTCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TAAACTTTTTATTT
Found at i:25713140 original size:23 final size:23
Alignment explanation
Indices: 25713110--25713153 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
25713100 TGGAAAGATT
*
25713110 AAGGATTTCACGATTTGGTTCTA
1 AAGGATTTCACGATTTCGTTCTA
25713133 AAGGATTTCACGATTTCGTTC
1 AAGGATTTCACGATTTCGTTC
25713154 CTAATAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (23 bp):
AAGGATTTCACGATTTCGTTCTA
Found at i:25713507 original size:16 final size:16
Alignment explanation
Indices: 25713486--25713531 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
25713476 GAATGCTAAC
*
25713486 GATTTAGGTATTTCAA
1 GATTTAGGGATTTCAA
*
25713502 GATTTAGGGATTTGAA
1 GATTTAGGGATTTCAA
25713518 GATTGCTAGGGATT
1 GATT--TAGGGATT
25713532 CAATAAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 18 0.69
18 8 0.31
ACGTcount: A:0.28, C:0.04, G:0.28, T:0.39
Consensus pattern (16 bp):
GATTTAGGGATTTCAA
Found at i:25713986 original size:20 final size:20
Alignment explanation
Indices: 25713939--25713977 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
25713929 CGTTGGAGCT
*
25713939 AAAATATCGATACCATATAG
1 AAAATATTGATACCATATAG
25713959 AAAATATTGATACCATATA
1 AAAATATTGATACCATATA
25713978 AAAGGTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (20 bp):
AAAATATTGATACCATATAG
Found at i:25713991 original size:20 final size:20
Alignment explanation
Indices: 25713948--25713992 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
25713938 TAAAATATCG
*
25713948 ATACCATATAGAAAATATTG
1 ATACCATATAGAAAATATTA
*
25713968 ATACCATATA-AAAGGTATTA
1 ATACCATATAGAAA-ATATTA
25713988 ATACC
1 ATACC
25713993 GGACCGATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (20 bp):
ATACCATATAGAAAATATTA
Found at i:25717768 original size:143 final size:143
Alignment explanation
Indices: 25717480--25717751 Score: 345
Period size: 143 Copynumber: 1.9 Consensus size: 143
25717470 GTTAATAATA
* * *
25717480 AAAATTAGGATAGATTATTGATTACTAATTAAGGATAAAAAGTATATGTTAATAATTAAGGAAAT
1 AAAATTAGGATAAATTATTGATTACTAATTAAGGATAAAAAGTATAAGGTAATAATTAAGGAAAT
* * * * *
25717545 ATTTTGGAACTTAAAAAGAATTAACCTAAAACTCAAAGCTTCCTAAAATACTCGTGTTTCTTATT
66 ATTTTAGAACTTAAAAAGAACTAACCCAAAACTCAAAGCTTCCTAAAATACTCATGTTCCTTATT
*
25717610 TTGTATTAGGGAT
131 TTGTATTAAGGAT
* * *
25717623 AAAATTAGGATAAATTATTGATTATTAATTAAGGATAAAACA-TATAAGGTAATAATTAGGGAAG
1 AAAATTAGGATAAATTATTGATTACTAATTAAGGATAAAA-AGTATAAGGTAATAATTAAGGAAA
* * * ** *
25717687 TATTTTAGAAC-T-CAAATAACTAACCCAGAACTCAAAG-TTTTTAAAATGCTCATGTTCCTTAT
65 TATTTTAGAACTTAAAAAGAACTAACCCAAAACTCAAAGCTTCCTAAAATACTCATGTTCCTTAT
25717749 TTT
130 TTT
25717752 AGATATATAA
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
140 23 0.21
141 20 0.18
142 1 0.01
143 66 0.59
144 1 0.01
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.35
Consensus pattern (143 bp):
AAAATTAGGATAAATTATTGATTACTAATTAAGGATAAAAAGTATAAGGTAATAATTAAGGAAAT
ATTTTAGAACTTAAAAAGAACTAACCCAAAACTCAAAGCTTCCTAAAATACTCATGTTCCTTATT
TTGTATTAAGGAT
Found at i:25718008 original size:16 final size:15
Alignment explanation
Indices: 25717979--25718025 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 15
25717969 TTATGCTTTC
25717979 TTTTAAATTTTTTAT
1 TTTTAAATTTTTTAT
25717994 TTTTAAATATTTTTATAAT
1 TTTT-AA-ATTTTT-T-AT
25718013 TTTTAAATTTTTT
1 TTTTAAATTTTTT
25718026 TTGTGCAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.14
16 3 0.11
17 12 0.43
18 3 0.11
19 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTAAATTTTTTAT
Found at i:25718352 original size:14 final size:14
Alignment explanation
Indices: 25718333--25718361 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
25718323 TTTATATTAA
25718333 TAATATATATAATT
1 TAATATATATAATT
25718347 TAATATATATAATT
1 TAATATATATAATT
25718361 T
1 T
25718362 GTTAAGGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATATATATAATT
Found at i:25726126 original size:20 final size:18
Alignment explanation
Indices: 25726101--25726137 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
25726091 ATTGCTAAGT
25726101 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
25726121 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
25726138 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:25729497 original size:46 final size:45
Alignment explanation
Indices: 25729339--25729608 Score: 176
Period size: 46 Copynumber: 5.8 Consensus size: 45
25729329 ACATGAGATT
* * *
25729339 TGTATGCCAGTGTAAGACCATGTATGGGACATGGCATCGGCATTGAGACA
1 TGTA-GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAG--A
* * * * * *
25729389 AG-GGCTAGTGTAAGACATGTTTGGGACATGCATCAGCCAC-AGTA
1 TGTAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG-A
25729433 TG-AGATCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA
1 TGTAG--CCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA
* * * * *
25729479 TGTTAGCCAATGTCAGACATGTCTGGGACATGCGTTGG-CTACGGGA
1 TG-TAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGA
* * * * *
25729525 TGT-GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCACGGT-TACA
1 TGTAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC-C--TCGAGA
* *
25729571 TGT-GTCAGTGTAAGACCTGTCTGGGACATGGCATCGGC
1 TGTAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGC
25729609 ACAGATGGAC
Statistics
Matches: 176, Mismatches: 33, Indels: 25
0.75 0.14 0.11
Matches are distributed among these distances:
44 31 0.18
45 5 0.03
46 104 0.59
47 21 0.12
48 14 0.08
50 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (45 bp):
TGTAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA
Found at i:25732397 original size:20 final size:18
Alignment explanation
Indices: 25732372--25732408 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
25732362 ATTGCTAAGT
25732372 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
25732392 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
25732409 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:25736183 original size:3 final size:3
Alignment explanation
Indices: 25736175--25736218 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
25736165 GAATACTCTC
* * *
25736175 CAT CAT CAT CAT CAT CAT CAT CAT CTT CTT CTT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
25736219 ATTCGGTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.27, C:0.34, G:0.00, T:0.39
Consensus pattern (3 bp):
CAT
Found at i:25736337 original size:45 final size:45
Alignment explanation
Indices: 25736273--25736367 Score: 172
Period size: 45 Copynumber: 2.1 Consensus size: 45
25736263 TTCTTCTTCA
* *
25736273 TCTTCGTTTTCTTCTGCTGGATGTAATGATTCCATCAATGGATAT
1 TCTTCGTTTTCTTCTGCTGGATATAATGATTCCATCAAAGGATAT
25736318 TCTTCGTTTTCTTCTGCTGGATATAATGATTCCATCAAAGGATAT
1 TCTTCGTTTTCTTCTGCTGGATATAATGATTCCATCAAAGGATAT
25736363 TCTTC
1 TCTTC
25736368 ATCATCTTCT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (45 bp):
TCTTCGTTTTCTTCTGCTGGATATAATGATTCCATCAAAGGATAT
Found at i:25736376 original size:45 final size:45
Alignment explanation
Indices: 25736282--25736377 Score: 147
Period size: 45 Copynumber: 2.1 Consensus size: 45
25736272 ATCTTCGTTT
* * * **
25736282 TCTTCTGCTGGATGTAATGATTCCATCAATGGATATTCTTCGTTT
1 TCTTCTGCTGGATATAATGATTCCATCAAAGGATATTCTTCATCA
25736327 TCTTCTGCTGGATATAATGATTCCATCAAAGGATATTCTTCATCA
1 TCTTCTGCTGGATATAATGATTCCATCAAAGGATATTCTTCATCA
25736372 TCTTCT
1 TCTTCT
25736378 TCCCCTGCTG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.43
Consensus pattern (45 bp):
TCTTCTGCTGGATATAATGATTCCATCAAAGGATATTCTTCATCA
Found at i:25739057 original size:15 final size:15
Alignment explanation
Indices: 25739037--25739075 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
25739027 CCTAATTAAG
25739037 ATTAAAAACTAATTA
1 ATTAAAAACTAATTA
* *
25739052 ATTAAAGATTAATTA
1 ATTAAAAACTAATTA
25739067 AGTTAAAAA
1 A-TTAAAAA
25739076 GTTAAACAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (15 bp):
ATTAAAAACTAATTA
Found at i:25744770 original size:47 final size:47
Alignment explanation
Indices: 25744650--25744779 Score: 161
Period size: 47 Copynumber: 2.8 Consensus size: 47
25744640 GTGCGAATAA
* * ** *
25744650 TACCTTGATTTGGCTATGGGCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGAGAGAAGT
* * *
25744697 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGAGAGAAGT
* * *
25744744 TACCTTGATTTGGCTATGAGCAATGGTATAAGTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
25744780 TATCGATTGT
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGAGAGAAGT
Found at i:25750088 original size:59 final size:59
Alignment explanation
Indices: 25749996--25750116 Score: 224
Period size: 59 Copynumber: 2.1 Consensus size: 59
25749986 ATTGATTTAG
25749996 TTTTGAATATTTTTGTACAAATTATTTTTATATTATTTCATTTAATAAAATAGAAGTTC
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTATTTCATTTAATAAAATAGAAGTTC
* *
25750055 TTTTGAATATTTTTGTATAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTC
1 TTTTGAATATTTTTGTACAAATTATTTTTATATTATTTCATTTAATAAAATAGAAGTTC
25750114 TTT
1 TTT
25750117 CGATTTGGAC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (59 bp):
TTTTGAATATTTTTGTACAAATTATTTTTATATTATTTCATTTAATAAAATAGAAGTTC
Found at i:25752883 original size:26 final size:26
Alignment explanation
Indices: 25752847--25752951 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
25752837 TGAAATTCCA
25752847 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
25752873 ATCATGGAACATTTACCT-AA-C-TT
1 ATCATGGAACATTTACCTAAACCATT
* *
25752896 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
25752922 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
25752948 ATCA
1 ATCA
25752952 ATTTGTATCA
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
23 19 0.26
24 2 0.03
25 3 0.04
26 48 0.67
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:25752903 original size:49 final size:49
Alignment explanation
Indices: 25752847--25752942 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
25752837 TGAAATTCCA
25752847 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACTT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACTT
* *
25752896 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAAC
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAAC
25752943 CCATTATCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.33
Consensus pattern (49 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACTT
Found at i:25760055 original size:26 final size:26
Alignment explanation
Indices: 25760024--25760131 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
25760014 ATGAAATTCC
*
25760024 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
25760050 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
25760076 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
25760102 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25760128 ATCA
1 ATCA
25760132 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:25767264 original size:26 final size:26
Alignment explanation
Indices: 25767228--25767335 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
25767218 TGAAATTCCA
*
25767228 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
25767254 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
25767280 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
25767306 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
25767332 ATCA
1 ATCA
25767336 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:25770804 original size:15 final size:15
Alignment explanation
Indices: 25770784--25770813 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
25770774 ATTTCTTGCA
25770784 GTACCTTCCGACACC
1 GTACCTTCCGACACC
25770799 GTACCTTCCGACACC
1 GTACCTTCCGACACC
25770814 TTACATGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.47, G:0.13, T:0.20
Consensus pattern (15 bp):
GTACCTTCCGACACC
Found at i:25773519 original size:3 final size:3
Alignment explanation
Indices: 25773513--25773545 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
25773503 ACACTACTAT
25773513 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25773546 TAGAAATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25776059 original size:13 final size:13
Alignment explanation
Indices: 25776026--25776061 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
25776016 TGTATATAGG
25776026 ATATATAAAA-AA
1 ATATATAAAAGAA
25776038 A-AT-TAAAAGAA
1 ATATATAAAAGAA
25776049 ATATATAAAAGAA
1 ATATATAAAAGAA
25776062 GTGGAGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 5 0.24
11 5 0.24
12 3 0.14
13 8 0.38
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (13 bp):
ATATATAAAAGAA
Found at i:25781424 original size:5 final size:5
Alignment explanation
Indices: 25781416--25781501 Score: 84
Period size: 5 Copynumber: 17.2 Consensus size: 5
25781406 TATTATAACG
* * * *
25781416 TATCA TATCA TATCA TAACA TAACA TATCA TATCA TATCA TAACA TATTA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
* * * *
25781466 TAAT-G TATCA TATCA TATCG TAACA TAACA TATCA T
1 T-ATCA TATCA TATCA TATCA TATCA TATCA TATCA T
25781502 GTCCTACCCC
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
4 2 0.03
5 64 0.94
6 2 0.03
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.36
Consensus pattern (5 bp):
TATCA
Found at i:25781433 original size:20 final size:20
Alignment explanation
Indices: 25781404--25781501 Score: 90
Period size: 20 Copynumber: 4.9 Consensus size: 20
25781394 CATAACAAAA
* *
25781404 CATATTATAACGTATCATAT
1 CATATCATAACATATCATAT
*
25781424 CATATCATAACATAACATAT
1 CATATCATAACATATCATAT
* *
25781444 CATATCATATCATAACATAT
1 CATATCATAACATATCATAT
* * *
25781464 TATAAT-GTATCATATCATAT
1 CAT-ATCATAACATATCATAT
* *
25781484 CGTAACATAACATATCAT
1 CATATCATAACATATCAT
25781502 GTCCTACCCC
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
19 1 0.02
20 61 0.95
21 2 0.03
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (20 bp):
CATATCATAACATATCATAT
Found at i:25781483 original size:30 final size:29
Alignment explanation
Indices: 25781390--25781492 Score: 124
Period size: 30 Copynumber: 3.6 Consensus size: 29
25781380 AAACCAAAGA
* *
25781390 ATATCATAACAAAACATATTATAACGTATC
1 ATATCATATCATAACATATTATAA-GTATC
*
25781420 ATATCATATCATAACATA--A-CA-TATC
1 ATATCATATCATAACATATTATAAGTATC
25781445 ATATCATATCATAACATATTATAATGTATC
1 ATATCATATCATAACATATTATAA-GTATC
*
25781475 ATATCATATCGTAACATA
1 ATATCATATCATAACATA
25781493 ACATATCATG
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
25 22 0.35
27 2 0.03
28 2 0.03
30 37 0.59
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.34
Consensus pattern (29 bp):
ATATCATATCATAACATATTATAAGTATC
Found at i:25781493 original size:25 final size:25
Alignment explanation
Indices: 25781410--25781501 Score: 103
Period size: 25 Copynumber: 3.5 Consensus size: 25
25781400 AAAACATATT
25781410 ATAACGTATCATATCATATCATAAC
1 ATAACGTATCATATCATATCATAAC
*
25781435 ATAACATATCATATCATATCATAAC
1 ATAACGTATCATATCATATCATAAC
* *
25781460 ATATTATAATGTATCATATCATATCGTAAC
1 -----ATAACGTATCATATCATATCATAAC
*
25781490 ATAACATATCAT
1 ATAACGTATCAT
25781502 GTCCTACCCC
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
25 34 0.61
30 22 0.39
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.35
Consensus pattern (25 bp):
ATAACGTATCATATCATATCATAAC
Found at i:25785371 original size:27 final size:27
Alignment explanation
Indices: 25785208--25785373 Score: 138
Period size: 27 Copynumber: 6.1 Consensus size: 27
25785198 CTTCCCCATA
* * *
25785208 TTTATTGTCCTAATAGATTACCCTGTG
1 TTTACTGTCCCAATAGACTACCCTGTG
* * *
25785235 TTTATTGTCCCGATGGACTACTCC-GTG
1 TTTACTGTCCCAATAGACTAC-CCTGTG
** *
25785262 TTTACTGTCCCAGCAGACTACCCGGTG
1 TTTACTGTCCCAATAGACTACCCTGTG
* * *
25785289 TCTACTGTCTCAGTAGACTA-CCTCGTG
1 TTTACTGTCCCAATAGACTACCCT-GTG
* * * *
25785316 TTTATTGCCCCGATAGACTACCCCGTG
1 TTTACTGTCCCAATAGACTACCCTGTG
* *
25785343 TTTACTGTCTCAATAGACTACCCTATG
1 TTTACTGTCCCAATAGACTACCCTGTG
25785370 TTTA
1 TTTA
25785374 TACATTAAAC
Statistics
Matches: 109, Mismatches: 26, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
26 4 0.04
27 101 0.93
28 4 0.04
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (27 bp):
TTTACTGTCCCAATAGACTACCCTGTG
Found at i:25785804 original size:15 final size:15
Alignment explanation
Indices: 25785784--25785829 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
25785774 TCATTCCCAA
25785784 ATCCTAACTTCATAT
1 ATCCTAACTTCATAT
25785799 ATCCT-A--TCA-A-
1 ATCCTAACTTCATAT
25785809 ATCCTAACTTCATAT
1 ATCCTAACTTCATAT
25785824 ATCCTA
1 ATCCTA
25785830 TCAATTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
10 5 0.19
11 2 0.08
12 3 0.12
13 3 0.12
14 2 0.08
15 11 0.42
ACGTcount: A:0.35, C:0.28, G:0.00, T:0.37
Consensus pattern (15 bp):
ATCCTAACTTCATAT
Found at i:25785815 original size:25 final size:25
Alignment explanation
Indices: 25785781--25785833 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
25785771 TTCTCATTCC
25785781 CAAATCCTAACTTCATATATCCTAT
1 CAAATCCTAACTTCATATATCCTAT
25785806 CAAATCCTAACTTCATATATCCTAT
1 CAAATCCTAACTTCATATATCCTAT
25785831 CAA
1 CAA
25785834 TTATTTTCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (25 bp):
CAAATCCTAACTTCATATATCCTAT
Found at i:25788606 original size:21 final size:22
Alignment explanation
Indices: 25788580--25788622 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
25788570 TTGTCTAAGT
*
25788580 AATTTAGGGTTT-ATGGTTTAA
1 AATTTAGGGTTTAAGGGTTTAA
25788601 AATTTAGGGTTTAAGGGTTTAA
1 AATTTAGGGTTTAAGGGTTTAA
25788623 GGTTTATAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (22 bp):
AATTTAGGGTTTAAGGGTTTAA
Found at i:25788708 original size:35 final size:35
Alignment explanation
Indices: 25788668--25788736 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
25788658 TGCATTTAGG
25788668 GATT-GGGATTTAGGGTCTTAAGGTTTGGGTTTAAT
1 GATTGGGGA-TTAGGGTCTTAAGGTTTGGGTTTAAT
* *
25788703 GATTGGGGATTAGGGTCTTGATGTTTGGGTTTAA
1 GATTGGGGATTAGGGTCTTAAGGTTTGGGTTTAA
25788737 GGTTTATTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 27 0.87
36 4 0.13
ACGTcount: A:0.19, C:0.03, G:0.36, T:0.42
Consensus pattern (35 bp):
GATTGGGGATTAGGGTCTTAAGGTTTGGGTTTAAT
Found at i:25788779 original size:8 final size:8
Alignment explanation
Indices: 25788757--25788825 Score: 56
Period size: 8 Copynumber: 9.1 Consensus size: 8
25788747 TTATGATTTA
*
25788757 GGGTTTAG
1 GGGTTAAG
*
25788765 GGTTTAAG
1 GGGTTAAG
25788773 GGGTTAA-
1 GGGTTAAG
*
25788780 -GGTTTAG
1 GGGTTAAG
*
25788787 GGTTTAAG
1 GGGTTAAG
25788795 GGGTTAA-
1 GGGTTAAG
*
25788802 -GGTTTAG
1 GGGTTAAG
*
25788809 GGTTTAAG
1 GGGTTAAG
25788817 GGGTTAAG
1 GGGTTAAG
25788825 G
1 G
25788826 TTTAGGGTTT
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
6 10 0.22
8 36 0.78
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.35
Consensus pattern (8 bp):
GGGTTAAG
Found at i:25788783 original size:15 final size:15
Alignment explanation
Indices: 25788765--25788829 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 15
25788755 TAGGGTTTAG
25788765 GGTTTAAGGGGTTAA
1 GGTTTAAGGGGTTAA
*
25788780 GGTTT-AGGGTTTAA
1 GGTTTAAGGGGTTAA
* * *
25788794 GGGGTTAA-GGTTTAG
1 -GGTTTAAGGGGTTAA
25788809 GGTTTAAGGGGTTAA
1 GGTTTAAGGGGTTAA
25788824 GGTTTA
1 GGTTTA
25788830 GGGTTTAGGG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
14 14 0.34
15 26 0.63
16 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.37
Consensus pattern (15 bp):
GGTTTAAGGGGTTAA
Found at i:25788784 original size:22 final size:22
Alignment explanation
Indices: 25788758--25788836 Score: 158
Period size: 22 Copynumber: 3.6 Consensus size: 22
25788748 TATGATTTAG
25788758 GGTTTAGGGTTTAAGGGGTTAA
1 GGTTTAGGGTTTAAGGGGTTAA
25788780 GGTTTAGGGTTTAAGGGGTTAA
1 GGTTTAGGGTTTAAGGGGTTAA
25788802 GGTTTAGGGTTTAAGGGGTTAA
1 GGTTTAGGGTTTAAGGGGTTAA
25788824 GGTTTAGGGTTTA
1 GGTTTAGGGTTTA
25788837 GGGAAGATCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 57 1.00
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.38
Consensus pattern (22 bp):
GGTTTAGGGTTTAAGGGGTTAA
Found at i:25788837 original size:7 final size:7
Alignment explanation
Indices: 25788725--25788839 Score: 97
Period size: 7 Copynumber: 16.1 Consensus size: 7
25788715 GGGTCTTGAT
25788725 GTTT-GG
1 GTTTAGG
*
25788731 GTTTAAG
1 GTTTAGG
**
25788738 GTTTATT
1 GTTTAGG
*
25788745 GTTTATG
1 GTTTAGG
*
25788752 ATTTAGG
1 GTTTAGG
25788759 GTTTAGG
1 GTTTAGG
25788766 GTTTAAGG
1 GTTT-AGG
* *
25788774 GGTTAAG
1 GTTTAGG
25788781 GTTTAGG
1 GTTTAGG
25788788 GTTTAAGG
1 GTTT-AGG
* *
25788796 GGTTAAG
1 GTTTAGG
25788803 GTTTAGG
1 GTTTAGG
25788810 GTTTAAGG
1 GTTT-AGG
* *
25788818 GGTTAAG
1 GTTTAGG
25788825 GTTTAGG
1 GTTTAGG
25788832 GTTTAGG
1 GTTTAGG
25788839 G
1 G
25788840 AAGATCAAAT
Statistics
Matches: 86, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
6 4 0.05
7 64 0.74
8 18 0.21
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:25789297 original size:114 final size:113
Alignment explanation
Indices: 25789121--25789343 Score: 259
Period size: 114 Copynumber: 2.0 Consensus size: 113
25789111 AATCATTATG
* ** * *
25789121 TTTTAAACAAAACGGCGCCATTTTATTAGATTTCTTAGTGGCGTTTTTGGCACAATGCCGCAATA
1 TTTTAAACAAAACGGCGCCATTTTATTAGATTTCTGAGTGGCGTTTTCAGCAAAACGCCGCAATA
* * *
25789186 GGTTAGGATTTAAAGGCGCTAGGGTAAAAACGCCGCTAAAGGTTATTCT
66 GGTTAGCATTTAAAGACGCTAGGATAAAAACGCCG-TAAAGGTTATTCT
* * * * *
25789235 TTTTAAATCAAAACGGTGTCGTTTTATTGGATTT-TGAGTGGCGTTTTCAGTAAAACGCCGCAAT
1 TTTTAAA-CAAAACGGCGCCATTTTATTAGATTTCTGAGTGGCGTTTTCAGCAAAACGCCGCAAT
* * ** *
25789299 AGGTTTGCCTTTAGTGATGCTAGGATAAAAACGCCGTAAAGGTTA
65 AGGTTAGCATTTAAAGACGCTAGGATAAAAACGCCGTAAAGGTTA
25789344 ATTTATTTTG
Statistics
Matches: 90, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
113 9 0.10
114 59 0.66
115 22 0.24
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (113 bp):
TTTTAAACAAAACGGCGCCATTTTATTAGATTTCTGAGTGGCGTTTTCAGCAAAACGCCGCAATA
GGTTAGCATTTAAAGACGCTAGGATAAAAACGCCGTAAAGGTTATTCT
Found at i:25791705 original size:321 final size:320
Alignment explanation
Indices: 25791120--25792053 Score: 1565
Period size: 321 Copynumber: 2.9 Consensus size: 320
25791110 AGATTCAATC
25791120 TTATTTTTA-TTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTA
1 TTATTTTTATTTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTA
* *
25791184 TACACAATTTTTTAAATTATATAATTTGGATTAGTTTTTTTAAAATATTATTTAATTAAAATAAT
66 TACAC-ATTTTTTAAATTATATAATTTGGATTAATTTATTT-AAATATTATTTAATTAAAATAAT
* * * *
25791249 TTTTTT--ATGTGATTTTTTGCATCATCAAATTTTATTTTTATTTTTTTCCATGAAAAAAAGTTG
129 TTTTTTCCATGTGATTTTTCGCATCGTCAAATTTTATTTTTATTTTTTT-CATGGAACAAAGTTG
25791312 ACATTTCATCTTATACGG-TTTCAACTTTTTATACACAATTTTTTAAATTATATAATTTGGATTA
193 ACATTTCATCTTATACGGTTTTCAACTTTTTATACACAA-TTTTTAAATTATATAATTTGGATTA
25791376 ATTTATTTAAATATTATTTAATTAAAATAATTTTTTTCCATGTGATTTTTCGCATCGTCAAATT
257 ATTTATTTAAATATTATTTAATTAAAATAATTTTTTTCCATGTGATTTTTCGCATCGTCAAATT
*
25791440 TTATTTTTATTATTTTTTTCATGGAACAAAGTTGGCATTTCATCTTATACGGTTTTCAACTTTTT
1 TTATTTTTATT-TTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
* **
25791505 ATACACATTTTTTTAAATTATATAATTTGAATTAATTTATTTAAATATTATTTAATTAGCATAAT
65 ATACACA-TTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAAT
25791570 TTTTTTCCATGTGATTTTTCGCATCGTCAAATTTTA-TTTTA-TTTTTTCATGGAACAAAGTTGA
129 TTTTTTCCATGTGATTTTTCGCATCGTCAAATTTTATTTTTATTTTTTTCATGGAACAAAGTTGA
* * *
25791633 CATTTCATGTTATATGGTTTTTAACTTTTTATACACAATTTTTAAAATTATATAATTTGGATTAA
194 CATTTCATCTTATACGGTTTTCAACTTTTTATACACAATTTTT-AAATTATATAATTTGGATTAA
*
25791698 TTTATTTAAATATTATTTAATTAAAATAATTTTTTTTCATGTGATTTTTCGCATCGTCAAATT
258 TTTATTTAAATATTATTTAATTAAAATAATTTTTTTCCATGTGATTTTTCGCATCGTCAAATT
25791761 TTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
1 TTATTTTTATTTTT-TTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
* *
25791826 ACACACAATTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATT
65 ATACACATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATT
*
25791891 TTTTTCCATGTGATTTTCCGCATCGTCAAATTTTATTTTTATTTTTATTTTCATGGAACAAAGTT
130 TTTTTCCATGTGATTTTTCGCATCGTCAAATTTTATTTTTA--TTT-TTTTCATGGAACAAAGTT
*
25791956 GACATTTCATCTTATACGGTTTTCAACTTTTTACACACAATTTTTAAATTATATAATTTGGATTA
192 GACATTTCATCTTATACGGTTTTCAACTTTTTATACACAATTTTTAAATTATATAATTTGGATTA
25792021 ATTTATTTAAATATTATTTAATTAAAATAATTT
257 ATTTATTTAAATATTATTTAATTAAAATAATTT
25792054 ATTTAAATAT
Statistics
Matches: 576, Mismatches: 25, Indels: 22
0.92 0.04 0.04
Matches are distributed among these distances:
320 134 0.23
321 208 0.36
322 94 0.16
323 26 0.05
324 55 0.10
325 59 0.10
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.51
Consensus pattern (320 bp):
TTATTTTTATTTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTA
TACACATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTT
TTTTCCATGTGATTTTTCGCATCGTCAAATTTTATTTTTATTTTTTTCATGGAACAAAGTTGACA
TTTCATCTTATACGGTTTTCAACTTTTTATACACAATTTTTAAATTATATAATTTGGATTAATTT
ATTTAAATATTATTTAATTAAAATAATTTTTTTCCATGTGATTTTTCGCATCGTCAAATT
Found at i:25791891 original size:162 final size:160
Alignment explanation
Indices: 25791120--25792053 Score: 1556
Period size: 162 Copynumber: 5.8 Consensus size: 160
25791110 AGATTCAATC
25791120 TTATTTTTATTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTAT
1 TTATTTTTATTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTAT
* *
25791185 ACACAATTTTTTAAATTATATAATTTGGATTAGTTTTTTTAAAATATTATTTAATTAAAATAATT
66 ACACAA-TTTTTAAATTATATAATTTGGATTAATTTATTT-AAATATTATTTAATTAAAATAATT
* *
25791250 TTTTT--ATGTGATTTTTTGCATCATCAAATT
129 TTTTTCCATGTGATTTTTCGCATCGTCAAATT
* * *
25791280 TTATTTTTATTTTTTTCCATGAAAAAAAGTTGACATTTCATCTTATACGG-TTTCAACTTTTTAT
1 TTATTTTTATTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTAT
25791344 ACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTT
66 ACACAA-TTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTT
25791409 TTTTCCATGTGATTTTTCGCATCGTCAAATT
130 TTTTCCATGTGATTTTTCGCATCGTCAAATT
*
25791440 TTATTTTTATTATTTTTTTCATGGAACAAAGTTGGCATTTCATCTTATACGGTTTTCAACTTTTT
1 TTATTTTTA-T-TTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
* * **
25791505 ATACACATTTTTTTAAATTATATAATTTGAATTAATTTATTTAAATATTATTTAATTAGCATAAT
64 ATACACA-ATTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAAT
25791570 TTTTTTCCATGTGATTTTTCGCATCGTCAAATT
128 TTTTTTCCATGTGATTTTTCGCATCGTCAAATT
* * *
25791603 TTA-TTTTA--TTTTTTCATGGAACAAAGTTGACATTTCATGTTATATGGTTTTTAACTTTTTAT
1 TTATTTTTATTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTAT
25791665 ACACAATTTTTAAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTT
66 ACACAATTTTT-AAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTT
*
25791730 TTTTTCATGTGATTTTTCGCATCGTCAAATT
130 TTTTCCATGTGATTTTTCGCATCGTCAAATT
25791761 TTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
1 TTATTTTTA-TTTT-TTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
*
25791826 ACACACAATTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATT
64 ATACACAATTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATT
*
25791891 TTTTTCCATGTGATTTTCCGCATCGTCAAATT
129 TTTTTCCATGTGATTTTTCGCATCGTCAAATT
25791923 TTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
1 TTATTTTTA-TTTT-TTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTT
*
25791988 ACACACAATTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATT
64 ATACACAATTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATT
25792053 T
129 T
25792054 ATTTAAATAT
Statistics
Matches: 732, Mismatches: 30, Indels: 22
0.93 0.04 0.03
Matches are distributed among these distances:
157 5 0.01
158 167 0.23
159 57 0.08
160 79 0.11
161 1 0.00
162 256 0.35
163 167 0.23
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.51
Consensus pattern (160 bp):
TTATTTTTATTTTTTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTTTAT
ACACAATTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAATAATTTT
TTTCCATGTGATTTTTCGCATCGTCAAATT
Found at i:25792045 original size:15 final size:15
Alignment explanation
Indices: 25792021--25792075 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
25792011 ATTTGGATTA
*
25792021 ATTTATTTAAATATT
1 ATTTAATTAAATATT
*
25792036 ATTTAATTAAA-ATA
1 ATTTAATTAAATATT
*
25792050 ATTTATTTAAATATT
1 ATTTAATTAAATATT
25792065 ATTTAATTAAA
1 ATTTAATTAAA
25792076 ATAATTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 12 0.35
15 22 0.65
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:25792057 original size:29 final size:29
Alignment explanation
Indices: 25792019--25792082 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
25792009 TAATTTGGAT
25792019 TAATTTATTTAAATATTATTTAATTAAAA
1 TAATTTATTTAAATATTATTTAATTAAAA
25792048 TAATTTATTTAAATATTATTTAATTAAAA
1 TAATTTATTTAAATATTATTTAATTAAAA
25792077 TAATTT
1 TAATTT
25792083 TTTTCCATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TAATTTATTTAAATATTATTTAATTAAAA
Found at i:25792087 original size:191 final size:192
Alignment explanation
Indices: 25791857--25792232 Score: 718
Period size: 191 Copynumber: 2.0 Consensus size: 192
25791847 TAATTTGGAT
25791857 TAATTTATTTAAATATTATTTAATTAAAATAATTTTTTTCCATGTGATTTTCCGCATCGTCAAAT
1 TAATTTATTTAAATATTATTTAATTAAAATAATTTTTTTCCATGTGATTTTCCGCATCGTCAAAT
*
25791922 TTTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGTTTTCAACTTTT
66 TTTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGCTTTCAACTTTT
*
25791987 TACACACAA-TTTTTAAATTATATAATTTGGATTAATTTATTTAAATATTATTTAATTAAAA
131 TACACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATAATATTTAATTAAAA
25792048 TAATTTATTTAAATATTATTTAATTAAAATAATTTTTTTCCATGTGATTTTCCGCATCGTCAAAT
1 TAATTTATTTAAATATTATTTAATTAAAATAATTTTTTTCCATGTGATTTTCCGCATCGTCAAAT
25792113 TTTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGCTTTCAACTTTT
66 TTTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGCTTTCAACTTTT
*
25792178 TATACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATAATATTTA
131 TACACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATAATATTTA
25792233 TCTTAATGTT
Statistics
Matches: 181, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
191 137 0.76
192 44 0.24
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.51
Consensus pattern (192 bp):
TAATTTATTTAAATATTATTTAATTAAAATAATTTTTTTCCATGTGATTTTCCGCATCGTCAAAT
TTTATTTTTATTTTTATTTTCATGGAACAAAGTTGACATTTCATCTTATACGGCTTTCAACTTTT
TACACACAATTTTTTAAATTATATAATTTGGATTAATTTATTTAAATAATATTTAATTAAAA
Found at i:25792284 original size:27 final size:27
Alignment explanation
Indices: 25792247--25792300 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
25792237 AATGTTAAAT
25792247 ATATATATCATATAATAACTTACATAA
1 ATATATATCATATAATAACTTACATAA
*
25792274 ATATATATCATATCATAACTTACATAA
1 ATATATATCATATAATAACTTACATAA
25792301 CTTACAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (27 bp):
ATATATATCATATAATAACTTACATAA
Found at i:25792299 original size:9 final size:9
Alignment explanation
Indices: 25792287--25792322 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
25792277 TATATCATAT
25792287 CATAACTTA
1 CATAACTTA
25792296 CATAACTTA
1 CATAACTTA
*
25792305 CAAAACTTA
1 CATAACTTA
*
25792314 CTTAACTTA
1 CATAACTTA
25792323 TGTAATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:25794360 original size:18 final size:18
Alignment explanation
Indices: 25794339--25794621 Score: 180
Period size: 18 Copynumber: 15.3 Consensus size: 18
25794329 GAACAATTAT
25794339 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAG
* * *
25794357 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAG
* * *
25794375 TTATTCAATAATAATCAG
1 TTATTCAGTAACAGTCAG
25794393 TTATTCAGTATTGATCAATTGATCAG
1 TTATTCAGTA---A-C-A--G-TCAG
* *
25794419 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
*
25794437 TTATTCAGTAA-AATCAG
1 TTATTCAGTAACAGTCAG
* * *
25794454 GTATTCAGTAACAATTAAG
1 TTATTCAGTAAC-AGTCAG
25794473 TTATTCAGTAACAGTCA-
1 TTATTCAGTAACAGTCAG
* *
25794490 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAG
* *
25794509 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAG
* *
25794527 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAG
25794545 TTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAGTC-AG
* * *
25794563 ATATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAG
* * *
25794581 TTA-TCCGATAACAGTTAA
1 TTATTCAG-TAACAGTCAG
* *
25794599 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAGTCAG
25794617 TTATT
1 TTATT
25794622 TTATACCTTT
Statistics
Matches: 204, Mismatches: 43, Indels: 36
0.72 0.15 0.13
Matches are distributed among these distances:
17 19 0.09
18 145 0.71
19 22 0.11
21 2 0.01
22 1 0.00
23 2 0.01
26 13 0.06
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAG
Found at i:25794379 original size:36 final size:36
Alignment explanation
Indices: 25794326--25794621 Score: 206
Period size: 36 Copynumber: 8.0 Consensus size: 36
25794316 TCATTAACAA
* * *
25794326 TCAG-AACAATTATTTATTCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * *
25794361 TCGGTAACAATCAATTATTCAATAATAATCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * *
25794397 TCAGTATTGATCAATTGATCAGTTATCCAGTAACAGTCAATTAT
1 TCAGTA---A-C-A---ATCAATTATTCAGTAACAATCAGTTAT
** *
25794441 TCAGTAA-AATCAGGTATTCAGTAACAATTAAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAA-TCAGTTAT
* *
25794477 TCAGTAACAGTC-ATTCATTCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATT-ATTCAGTAACAATCAGTTAT
** * *
25794513 TCAGTAATGATCAATTATTCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
* * * *
25794549 TCAGTAACAGTCTAA-TATCCAGTAACAGTCAATTA-
1 TCAGTAACAATC-AATTATTCAGTAACAATCAGTTAT
* * * *
25794584 TCCGATAACAGTTAATTATTCAGTAATAATCAGTTAT
1 TCAG-TAACAATCAATTATTCAGTAACAATCAGTTAT
25794621 T
1 T
25794622 TTATACCTTT
Statistics
Matches: 202, Mismatches: 42, Indels: 32
0.73 0.15 0.12
Matches are distributed among these distances:
35 24 0.12
36 126 0.62
37 20 0.10
38 1 0.00
39 1 0.00
40 1 0.00
41 2 0.01
44 27 0.13
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAATCAGTTAT
Found at i:25794475 original size:54 final size:55
Alignment explanation
Indices: 25794339--25794621 Score: 220
Period size: 54 Copynumber: 5.1 Consensus size: 55
25794329 GAACAATTAT
* * * * *
25794339 TTATTCAGTAAC-AGTCAGTTATTCGGTAACAATCAATTATTCAATAATAATCAG
1 TTATTCAGTAACAATTAAGTTATTCAGTAACAGTCAATTATTCAGTAATAATCAG
*
25794393 TTATTCAGTATTGATCAATTGATCAGTTATCCAGTAACAGTCAATTATTCAGTAA-AATCAG
1 TTATTCAGTA---A-CAATT-A--AGTTATTCAGTAACAGTCAATTATTCAGTAATAATCAG
* * *
25794454 GTATTCAGTAACAATTAAGTTATTCAGTAACAGTC-ATTCATTCAGTGACAATCAG
1 TTATTCAGTAACAATTAAGTTATTCAGTAACAGTCAATT-ATTCAGTAATAATCAG
** * * * * * *
25794509 TTATTCAGTAATGATCAA-TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTA-
1 TTATTCAGTAACAATTAAGTTATTCAGTAACAGTCAATTATTCAGTAATAATC-AG
* * * * * *
25794563 ATATCCAGTAACAGTCAA-TTA-TCCGATAACAGTTAATTATTCAGTAATAATCAG
1 TTATTCAGTAACAATTAAGTTATTCAG-TAACAGTCAATTATTCAGTAATAATCAG
25794617 TTATT
1 TTATT
25794622 TTATACCTTT
Statistics
Matches: 183, Mismatches: 32, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
53 7 0.04
54 100 0.55
55 23 0.13
56 1 0.01
57 6 0.03
58 2 0.01
59 2 0.01
61 15 0.08
62 27 0.15
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (55 bp):
TTATTCAGTAACAATTAAGTTATTCAGTAACAGTCAATTATTCAGTAATAATCAG
Found at i:25794782 original size:52 final size:47
Alignment explanation
Indices: 25794732--25794837 Score: 160
Period size: 47 Copynumber: 2.3 Consensus size: 47
25794722 CCGGAACAGT
* * *
25794732 AACAGTAGCA-TAAGGCACATAGAGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTACGGCACACAGAGTACCTCATCGGAACAAATCCGG
* *
25794778 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
1 AACAGTAACAGTACGGCACACAGAGTACCTCATCGGAACAAATCCGG
25794825 AACAGTAACAGTA
1 AACAGTAACAGTA
25794838 ACGGTAACAG
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
46 9 0.17
47 45 0.83
ACGTcount: A:0.42, C:0.24, G:0.20, T:0.15
Consensus pattern (47 bp):
AACAGTAACAGTACGGCACACAGAGTACCTCATCGGAACAAATCCGG
Found at i:25794807 original size:47 final size:47
Alignment explanation
Indices: 25794752--25794847 Score: 167
Period size: 47 Copynumber: 2.0 Consensus size: 47
25794742 TAAGGCACAT
*
25794752 AGAGTACCTCATCGGAACAAATCCGGAACAGTAACAGT-ACGGTACAC
1 AGAGTACCTCATCGGAACAAATCCGAAACAGTAACAGTAACGGTA-AC
25794799 AGAGTACCTCATCGGAACAAATCCGAAACAGTAACAGTAACGGTAAC
1 AGAGTACCTCATCGGAACAAATCCGAAACAGTAACAGTAACGGTAAC
25794846 AG
1 AG
25794848 TAACAATATT
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 41 0.87
48 6 0.13
ACGTcount: A:0.41, C:0.24, G:0.21, T:0.15
Consensus pattern (47 bp):
AGAGTACCTCATCGGAACAAATCCGAAACAGTAACAGTAACGGTAAC
Found at i:25794889 original size:56 final size:56
Alignment explanation
Indices: 25794816--25794928 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 56
25794806 CTCATCGGAA
* *
25794816 CAAATCCGAAACAGTAACAGTAACGGTAACAGTAACAATATTCGACACATAAAGTGC
1 CAAATCCGAAACAGTAACAGTAACAGTAACAGTAACAATAGTCGACACAT-AAGTGC
* * *
25794873 CAAAT-CGTAACAGTAACAGTAACAGTAACAGTAACAGTAGTCGGCACATAAGTGC
1 CAAATCCGAAACAGTAACAGTAACAGTAACAGTAACAATAGTCGACACATAAGTGC
25794928 C
1 C
25794929 TGATCAGTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 7 0.14
56 39 0.76
57 5 0.10
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (56 bp):
CAAATCCGAAACAGTAACAGTAACAGTAACAGTAACAATAGTCGACACATAAGTGC
Found at i:25794890 original size:6 final size:6
Alignment explanation
Indices: 25794879--25794911 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
25794869 GTGCCAAATC
25794879 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTA
25794912 GTCGGCACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:25800689 original size:21 final size:21
Alignment explanation
Indices: 25800660--25800709 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
25800650 CTACAACTTA
*
25800660 AAGCGGAGGCAACAGCGAAG-G
1 AAGCAGAGGCAACAGC-AAGAG
*
25800681 AAGCAGAGGCAGCAGCAAGAG
1 AAGCAGAGGCAACAGCAAGAG
25800702 AAGCAGAG
1 AAGCAGAG
25800710 AAGAGCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.42, C:0.18, G:0.40, T:0.00
Consensus pattern (21 bp):
AAGCAGAGGCAACAGCAAGAG
Found at i:25801305 original size:43 final size:43
Alignment explanation
Indices: 25801225--25801331 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
25801215 AGAAAAAGCA
* * * *
25801225 CCGCTAAAGCTCATG-TCTATAGCGGCGTTTGTGGTAAAAGCG
1 CCGCTAAAGGTCATGTTCTATAGCAGCGTTTATGGTAAAAACG
* * *
25801267 CTGCTAAGGGTCATGTTCTATAGCAGCGTTTATTGTAAAAACG
1 CCGCTAAAGGTCATGTTCTATAGCAGCGTTTATGGTAAAAACG
*
25801310 CCGCTAAATGTCATGTTCTATA
1 CCGCTAAAGGTCATGTTCTATA
25801332 ACAGTATTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 12 0.22
43 42 0.78
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (43 bp):
CCGCTAAAGGTCATGTTCTATAGCAGCGTTTATGGTAAAAACG
Found at i:25805335 original size:26 final size:26
Alignment explanation
Indices: 25805306--25805361 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
25805296 GATAGATTTG
25805306 AGTAAGTAAAATACTAGTTTTGACTA
1 AGTAAGTAAAATACTAGTTTTGACTA
25805332 AGTAAGTAAAATACTAGTTTTGACTA
1 AGTAAGTAAAATACTAGTTTTGACTA
25805358 AGTA
1 AGTA
25805362 TAGAATTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (26 bp):
AGTAAGTAAAATACTAGTTTTGACTA
Found at i:25806790 original size:27 final size:27
Alignment explanation
Indices: 25806755--25806808 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
25806745 AATTATTGCA
25806755 TTCTATTTAATGAAGTTATTATATTTG
1 TTCTATTTAATGAAGTTATTATATTTG
*
25806782 TTCTGTTTAATGAAGTTATTATATTTG
1 TTCTATTTAATGAAGTTATTATATTTG
25806809 AACTTGTACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.04, G:0.13, T:0.56
Consensus pattern (27 bp):
TTCTATTTAATGAAGTTATTATATTTG
Found at i:25810687 original size:21 final size:21
Alignment explanation
Indices: 25810640--25810693 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
25810630 ACAGTCGTAT
*
25810640 GTAGAGTCACACACCCATGTG
1 GTAGAGACACACACCCATGTG
** * *
25810661 AAAGAGGCACACAGCCATGTG
1 GTAGAGACACACACCCATGTG
25810682 GTAGAGACACAC
1 GTAGAGACACAC
25810694 GCCCGTGTAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.35, C:0.26, G:0.26, T:0.13
Consensus pattern (21 bp):
GTAGAGACACACACCCATGTG
Found at i:25811581 original size:18 final size:18
Alignment explanation
Indices: 25811558--25811593 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
25811548 TTAAAATAAG
25811558 AATAAAGTTAAATGAATA
1 AATAAAGTTAAATGAATA
*
25811576 AATAAAGTTAAATTAATA
1 AATAAAGTTAAATGAATA
25811594 CCAAAAAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AATAAAGTTAAATGAATA
Found at i:25821353 original size:28 final size:28
Alignment explanation
Indices: 25821310--25821365 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
25821300 TGACAAAAGA
*
25821310 AAACAAATATTTATGTGTCTAGGGATCC
1 AAACAAATATTCATGTGTCTAGGGATCC
25821338 AAACAAATATTCATGTGTCTAGGGATCC
1 AAACAAATATTCATGTGTCTAGGGATCC
25821366 CAAATGTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (28 bp):
AAACAAATATTCATGTGTCTAGGGATCC
Found at i:25824451 original size:82 final size:83
Alignment explanation
Indices: 25824309--25824471 Score: 267
Period size: 82 Copynumber: 2.0 Consensus size: 83
25824299 AGTAAAGGAA
*
25824309 TAGTTTTACAAAATAGGGGAGGACAGTGGATGAGAAGTAACTTAGAGAAAAAATTCAAACCCACT
1 TAGTTTTACAAAATACGGGAGGACAGTGGATGAGAAGTAACTTAGAGAAAAAATTCAAACCCACT
25824374 TGAAT-CCCCTCTTAGAC
66 TGAATGCCCCTCTTAGAC
* * *
25824391 TAGTTTTACAAAATACGGGAGGATC-GTGGATGAGAAGTAACTTGGAGAAAAATTTTAAACCCAC
1 TAGTTTTACAAAATACGGGAGGA-CAGTGGATGAGAAGTAACTTAGAGAAAAAATTCAAACCCAC
25824455 TTGAATGCCCCTCTTAG
65 TTGAATGCCCCTCTTAG
25824472 GCTTCCTCCA
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
82 64 0.85
83 11 0.15
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (83 bp):
TAGTTTTACAAAATACGGGAGGACAGTGGATGAGAAGTAACTTAGAGAAAAAATTCAAACCCACT
TGAATGCCCCTCTTAGAC
Found at i:25830664 original size:23 final size:23
Alignment explanation
Indices: 25830624--25830740 Score: 103
Period size: 23 Copynumber: 5.0 Consensus size: 23
25830614 CCCGATATAT
*
25830624 GGCTCTTCGTGAGTTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
* *
25830647 GGCTCTTTGTAAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
* * * *
25830670 GTGCTC-GCTTGAACTTCCTGATATA
1 G-GCTCTTCGTGAGCTTCCCG--ATA
* *
25830695 TGGCTATTCG-GAGCTTCCCAATA
1 -GGCTCTTCGTGAGCTTCCCGATA
25830718 GGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATA
25830741 TGGTTCTTTG
Statistics
Matches: 71, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
22 8 0.11
23 44 0.62
24 4 0.06
25 13 0.18
26 2 0.03
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.33
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTCCCGATA
Found at i:25830741 original size:48 final size:48
Alignment explanation
Indices: 25830624--25830741 Score: 109
Period size: 48 Copynumber: 2.5 Consensus size: 48
25830614 CCCGATATAT
* * * *
25830624 GGCTCTTCGTGAGTTTCCCG--ATAGGCTCTTTGTAAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATATAGGCTATTCGTAAGCTTCCCAATA
* * * * *
25830670 GTGCTC-GCTTGAACTTCCTGATATATGGCTATTCG-GAGCTTCCCAATA
1 G-GCTCTTCGTGAGCTTCCCGATATA-GGCTATTCGTAAGCTTCCCAATA
25830718 GGCTCTTCGTGAGCTTCCCGATAT
1 GGCTCTTCGTGAGCTTCCCGATAT
25830742 GGTTCTTTGT
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
46 10 0.19
47 8 0.15
48 29 0.54
49 7 0.13
ACGTcount: A:0.17, C:0.26, G:0.23, T:0.34
Consensus pattern (48 bp):
GGCTCTTCGTGAGCTTCCCGATATAGGCTATTCGTAAGCTTCCCAATA
Found at i:25832366 original size:18 final size:18
Alignment explanation
Indices: 25832339--25832634 Score: 184
Period size: 18 Copynumber: 16.1 Consensus size: 18
25832329 TCATTAACAA
* *
25832339 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
*
25832356 TCAGTAACAATCACTTAT
1 TCAGTAACAATCAGTTAT
* *
25832374 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAGTTAT
* * *
25832392 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAGTTAT
25832410 TCAGTATCGATCAATTGATCAGTTAT
1 TCAGTA---A-C-A---ATCAGTTAT
* * *
25832436 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* *
25832454 TTAGTAA-AATCAGATAT
1 TCAGTAACAATCAGTTAT
* *
25832471 TCAGTAGCAATTAAGTTAT
1 TCAGTAACAA-TCAGTTAT
* *
25832490 TCAGTAACAGTCATTTAT
1 TCAGTAACAATCAGTTAT
*
25832508 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAGTTAT
** *
25832526 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAGTTAT
* *
25832544 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAGTTAT
* *
25832562 TAAGTAACAGTCTA-TTAT
1 TCAGTAACAATC-AGTTAT
* * *
25832580 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* * *
25832598 TCGGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* *
25832616 TCAGTAAGAATTAGTTAT
1 TCAGTAACAATCAGTTAT
25832634 T
1 T
25832635 TTATACATTT
Statistics
Matches: 216, Mismatches: 50, Indels: 25
0.74 0.17 0.09
Matches are distributed among these distances:
17 17 0.08
18 166 0.77
19 15 0.07
21 2 0.01
22 1 0.00
23 2 0.01
26 13 0.06
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:25832632 original size:72 final size:72
Alignment explanation
Indices: 25832432--25832634 Score: 227
Period size: 72 Copynumber: 2.8 Consensus size: 72
25832422 AATTGATCAG
* * *
25832432 TTATCCAGTAACAGTCAATTATTTAGTAAAATCAGA-TATTCAGT-AGCAATTAAGTTATTCAGT
1 TTATCCAGTAACAGTCAATTATTCAGTAAAGTCA-ATTATTCAGTAAG-AATTAAGTTATTAAGT
25832495 AACAGTCAT
64 AACAGTCAT
* * * * * * *
25832504 TTATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAA-TATTCAGTTATTAAGTA
1 TTATCCAGTAACAGTCAATTATTCAGTAAAG-TCAATTATTCAGTAAGAATTAAGTTATTAAGTA
25832568 ACAGTC-T
65 ACAGTCAT
*
25832575 ATTATCCAGTAACAGTCAATTATTCGGTAACAGTCAATTATTCAGTAAGAATT-AGTTATT
1 -TTATCCAGTAACAGTCAATTATTCAGTAA-AGTCAATTATTCAGTAAGAATTAAGTTATT
25832635 TTATACATTT
Statistics
Matches: 108, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
71 1 0.01
72 91 0.84
73 15 0.14
74 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (72 bp):
TTATCCAGTAACAGTCAATTATTCAGTAAAGTCAATTATTCAGTAAGAATTAAGTTATTAAGTAA
CAGTCAT
Found at i:25834637 original size:15 final size:15
Alignment explanation
Indices: 25834617--25834645 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25834607 TTACTTATTT
25834617 ATATAATATAATAAA
1 ATATAATATAATAAA
25834632 ATATAATATAATAA
1 ATATAATATAATAA
25834646 CAATTTCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATATAATATAATAAA
Found at i:25834776 original size:21 final size:22
Alignment explanation
Indices: 25834737--25834789 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
25834727 CATACAATTG
*
25834737 TTAAAATAATATTATAATATCA
1 TTAAAATAATATTACAATATCA
*
25834759 TTAATATAA-ATTACAATAT-A
1 TTAAAATAATATTACAATATCA
*
25834779 ATAAAATAATA
1 TTAAAATAATA
25834790 ATATAGTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 10 0.38
22 8 0.31
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAAATAATATTACAATATCA
Found at i:25842311 original size:42 final size:44
Alignment explanation
Indices: 25842206--25842363 Score: 123
Period size: 43 Copynumber: 3.7 Consensus size: 44
25842196 ATGAGATTTT
* * * *
25842206 GTGTAAGAGCACGTCTGGGAC-GTTGGCATCGACT-TATGATTTAC
1 GTGTAAGACCATGCCTGGGACAG-TGGCATCGA-TATTTGATTTAC
25842250 GTGTAAGACCATGCCTGGGACA-TCGGCATCG-TATTTGATTT-C
1 GTGTAAGACCATGCCTGGGACAGT-GGCATCGATATTTGATTTAC
* ** *
25842292 GTGTAAGACCCTGTTTGGGACAGTGGCATCGATATTTG-GTTAC
1 GTGTAAGACCATGCCTGGGACAGTGGCATCGATATTTGATTTAC
* * * *
25842335 ATATAAGACCAGGTCTGGGAC-GTTGGCAT
1 GTGTAAGACCATGCCTGGGACAG-TGGCAT
25842364 TGTATGAGCT
Statistics
Matches: 94, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
42 31 0.33
43 38 0.40
44 25 0.27
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (44 bp):
GTGTAAGACCATGCCTGGGACAGTGGCATCGATATTTGATTTAC
Found at i:25843598 original size:16 final size:17
Alignment explanation
Indices: 25843567--25843599 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25843557 TTCATAAGCA
*
25843567 TATATCATTCATTTTAT
1 TATATCAATCATTTTAT
25843584 TATATCAAT-ATTTTAT
1 TATATCAATCATTTTAT
25843600 GCACTGTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (17 bp):
TATATCAATCATTTTAT
Found at i:25844003 original size:46 final size:46
Alignment explanation
Indices: 25843936--25844140 Score: 270
Period size: 46 Copynumber: 4.5 Consensus size: 46
25843926 TATTCATTTC
*
25843936 TATCTTTCAACCATGGTCTTATTTATTTCCTGTCATGTTGTCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGTCATGG
* *
25843982 TATCTTTCAACCATGGTCTTATTAATTTCCTGTCATGTT-TCCATGA
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGT-CATGG
* *
25844028 TATCTTACAACCATGGTCTTATTCATTTTCTGTCATGTTG-CTATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGTC-ATGG
* * * * *
25844074 TATCTTTCAACCATGGTCTTATTCATTTCTTATCATATTGCCATAG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGTCATGG
* *
25844120 TATCTTTCAACTATAGTCTTA
1 TATCTTTCAACCATGGTCTTA
25844141 CATATCTGAA
Statistics
Matches: 141, Mismatches: 14, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
45 2 0.01
46 138 0.98
47 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.46
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGTCATGG
Found at i:25844234 original size:45 final size:45
Alignment explanation
Indices: 25844112--25844235 Score: 160
Period size: 45 Copynumber: 2.8 Consensus size: 45
25844102 CTTATCATAT
* * *
25844112 TGCCATAGTATCTTTCAACTATAGTCTTACAT-ATCTGAATTGTGA
1 TGCCATAGTATCTTTCAACTATGGTCTTAC-TCGTCTGAATTGCGA
** * *
25844157 TGCCATAACATCTTTCAGCTATGGACTTACTCGTCTGAATTGCGA
1 TGCCATAGTATCTTTCAACTATGGTCTTACTCGTCTGAATTGCGA
*
25844202 TGGCATAGTATCTTTCAACTATGGTCTTACTCGT
1 TGCCATAGTATCTTTCAACTATGGTCTTACTCGT
25844236 TTCTGGTATG
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 1 0.02
45 65 0.98
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (45 bp):
TGCCATAGTATCTTTCAACTATGGTCTTACTCGTCTGAATTGCGA
Found at i:25847988 original size:20 final size:21
Alignment explanation
Indices: 25847952--25847994 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
25847942 TTTTTTTATC
25847952 TTTTCCTTCTTTATCTT-TTT
1 TTTTCCTTCTTTATCTTCTTT
*
25847972 TTTTCC-TCATTTCTCTTCTTT
1 TTTTCCTTC-TTTATCTTCTTT
25847993 TT
1 TT
25847995 GCCATCCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 13 0.65
21 5 0.25
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTCCTTCTTTATCTTCTTT
Found at i:25854089 original size:165 final size:160
Alignment explanation
Indices: 25853812--25854137 Score: 424
Period size: 165 Copynumber: 2.0 Consensus size: 160
25853802 TCAAGTCAAG
** * * *
25853812 TCAAGCATATGATTGTCAAATCTCAAAATCTAAAATATCTTCATTGCAAAACTCGCATAATTCTT
1 TCAAGCATACAATTGTCAAATCGCAAAATCTAAAATATCTTCATTGCAAAACTCACATAATTCAT
* * *
25853877 ATGTATAATTTTTATAGTCTTAGGAAATAAAGAGATTTGGCCTTTCAAATGAGTAGTGCAGAAAA
66 ATGTATAATTTTTATAATCATAGGAAATAAAGAGAATTGGCCTTTCAAATGAGTAGTGCAGAAAA
*
25853942 TTTACAGATTCAAATTTTG-AAGCGTTGAAA
131 TTTACACATTC-AATTTTGTAAGCGTTGAAA
* * *
25853972 TCAAGCATACAATTTTCAAATCGCAAATTCTAAGAATATTTTTCATTGCAAAAACTCACATAATT
1 TCAAGCATACAATTGTCAAATCGCAAAATCTAA-AATA-TCTTCATTGC-AAAACTCACATAATT
* *
25854037 CATACT-TATAA-TTTTAGTGAAATCATATGAAATAAAGAGAATTGGCCTTTCAAATGATTAGTG
63 CATA-TGTATAATTTTTA-T--AATCATAGGAAATAAAGAGAATTGGCCTTTCAAATGAGTAGTG
*
25854100 CAGAAAATTTACACATTCAATTTTGTAAGTGTTGAAA
124 CAGAAAATTTACACATTCAATTTTGTAAGCGTTGAAA
25854137 T
1 T
25854138 TAAATGAATG
Statistics
Matches: 143, Mismatches: 15, Indels: 11
0.85 0.09 0.07
Matches are distributed among these distances:
160 28 0.20
161 4 0.03
162 14 0.10
163 23 0.16
164 8 0.06
165 66 0.46
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (160 bp):
TCAAGCATACAATTGTCAAATCGCAAAATCTAAAATATCTTCATTGCAAAACTCACATAATTCAT
ATGTATAATTTTTATAATCATAGGAAATAAAGAGAATTGGCCTTTCAAATGAGTAGTGCAGAAAA
TTTACACATTCAATTTTGTAAGCGTTGAAA
Found at i:25870130 original size:28 final size:29
Alignment explanation
Indices: 25870090--25870147 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
25870080 TAAATTAGAA
*
25870090 AAAATAAAAAGACTTAGTTTT-AATTTTT
1 AAAATAAAAAGACTAAGTTTTAAATTTTT
* *
25870118 AAAATATAGAGACTAAGTTTTAAATTTTT
1 AAAATAAAAAGACTAAGTTTTAAATTTTT
25870147 A
1 A
25870148 TATAAATACG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (29 bp):
AAAATAAAAAGACTAAGTTTTAAATTTTT
Found at i:25870226 original size:13 final size:13
Alignment explanation
Indices: 25870208--25870232 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25870198 ACTTTAAGCC
25870208 AAAATATTTATAA
1 AAAATATTTATAA
25870221 AAAATATTTATA
1 AAAATATTTATA
25870233 TTTATCATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATATTTATAA
Found at i:25874963 original size:24 final size:24
Alignment explanation
Indices: 25874930--25874980 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
25874920 TAATAAGTAA
*
25874930 TAATACTTAAAAAATGTAGATTTT
1 TAATACTTAAAAAATGTAGATTAT
* *
25874954 TAATAGTTAAAAGATGTAGATTAT
1 TAATACTTAAAAAATGTAGATTAT
25874978 TAA
1 TAA
25874981 CCTTGGTTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.12, T:0.39
Consensus pattern (24 bp):
TAATACTTAAAAAATGTAGATTAT
Found at i:25878942 original size:21 final size:21
Alignment explanation
Indices: 25878916--25878962 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
25878906 TCTGTTCTGT
*
25878916 TCCGCCTCCCTCGCTGCTGCC
1 TCCGCCTCCCGCGCTGCTGCC
25878937 TCCGCCTCCCGCGCTGCTGCC
1 TCCGCCTCCCGCGCTGCTGCC
25878958 TCCGC
1 TCCGC
25878963 TCTAAGTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.00, C:0.57, G:0.21, T:0.21
Consensus pattern (21 bp):
TCCGCCTCCCGCGCTGCTGCC
Found at i:25884486 original size:9 final size:9
Alignment explanation
Indices: 25884472--25884542 Score: 70
Period size: 9 Copynumber: 7.6 Consensus size: 9
25884462 ATGTATTAGT
25884472 TAAGTTATG
1 TAAGTTATG
25884481 TAAGTTGTTATG
1 TAA---GTTATG
*
25884493 TACGTTATG
1 TAAGTTATG
*
25884502 TGAGTTATG
1 TAAGTTATG
*
25884511 TAAATTATG
1 TAAGTTATG
25884520 TAAGTTATG
1 TAAGTTATG
* *
25884529 TAATTTATT
1 TAAGTTATG
25884538 TAAGT
1 TAAGT
25884543 AATGATCAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
9 42 0.84
12 8 0.16
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:25885146 original size:241 final size:241
Alignment explanation
Indices: 25884723--25885678 Score: 1704
Period size: 241 Copynumber: 4.0 Consensus size: 241
25884713 TTAAGGTTAT
* * *
25884723 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
25884788 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
*
25884853 ACTCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
*
25884918 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACTTGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
25884964 ATAAATATTCAATAGTAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
25885029 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
*
25885094 ACCCGTCAGGTTTCTAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
* *
25885159 AGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTCCATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
25885205 ATAAATATTCAATAGT--A-AA--T-G--AG--C--TTTTCAAGTCTTTTTGAA-TTTTTAAGAT
1 ATAAATATTCAATAGTAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
25885257 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
25885322 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
25885387 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
* * *
25885433 ATAAATATTCAATAATAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTAAAGAT
1 ATAAATATTCAATAGTAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
25885498 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
*
25885563 ACCTGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
*
25885628 GGTCAGTTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
25885674 ATAAA
1 ATAAA
25885679 ATTAATTCAT
Statistics
Matches: 686, Mismatches: 16, Indels: 26
0.94 0.02 0.04
Matches are distributed among these distances:
228 198 0.29
229 18 0.03
230 1 0.00
231 2 0.00
233 3 0.00
234 1 0.00
235 1 0.00
236 3 0.00
238 3 0.00
239 1 0.00
240 18 0.03
241 437 0.64
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.35
Consensus pattern (241 bp):
ATAAATATTCAATAGTAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTTTAAGAT
TCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
Found at i:25885656 original size:469 final size:471
Alignment explanation
Indices: 25884758--25885678 Score: 1738
Period size: 469 Copynumber: 2.0 Consensus size: 471
25884748 CGATAGAACT
25884758 TTTTCCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGAT
1 TTTTCCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGAT
*
25884823 CCATTATATCTTACAGCTCGATATAAGGCAACTCGTCAGGTTTCCAGCCTATATACTTTGAATCT
66 CCATTATATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCT
25884888 TTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAA
131 TTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAA
* *
25884953 GCTACTTGGTAATAAATATTCAATAGTAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAA
196 GCTACATGGTAATAAATATTCAATAATAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAA
*
25885018 TTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTC
261 TTTTTAAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTC
*
25885083 GATATAAGGCAACCCGTCAGGTTTCTAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAG
326 GATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAG
*
25885148 GTTGGAGAGAAAGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTCCATGGTAATAAATAT
391 GTTGGAGAGAAAGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATAT
25885213 TCAATAGTAAATGAGC
456 TCAATAGTAAATGAGC
25885229 TTTT-CAAGTCTTTTTGAA-TTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGAT
1 TTTTCCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGAT
25885292 CCATTATATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCT
66 CCATTATATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCT
25885357 TTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAA
131 TTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAA
*
25885422 GCTACATGGTAATAAATATTCAATAATAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAA
196 GCTACATGGTAATAAATATTCAATAATAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAA
25885487 TTTTTAAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTC
261 TTTTTAAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTC
*
25885552 GATATAAGGCAACCTGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAG
326 GATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAG
* *
25885617 GTTGGAGAGAAGGTCAGTTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
391 GTTGGAGAGAAAGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
25885679 ATTAATTCAT
Statistics
Matches: 440, Mismatches: 10, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
469 422 0.96
470 14 0.03
471 4 0.01
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (471 bp):
TTTTCCAAGTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGAT
CCATTATATCTTACAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCT
TTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAA
GCTACATGGTAATAAATATTCAATAATAAATAAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAA
TTTTTAAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGCTC
GATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAG
GTTGGAGAGAAAGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAATAT
TCAATAGTAAATGAGC
Found at i:25885837 original size:23 final size:23
Alignment explanation
Indices: 25885811--25885860 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
25885801 GTTCAAGTTT
*
25885811 ATTTAAAGGGCTGTAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
25885834 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
25885857 ATTT
1 ATTT
25885861 GATTAATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:25889452 original size:42 final size:40
Alignment explanation
Indices: 25889392--25889481 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 40
25889382 AAATATTTGC
** *
25889392 GGCG-TTTTTATTTAAAACGCCGGTATAGGTCAACTTTTAGT
1 GGCGTTTTTTATTTAAAACGCCACTATAGCTC-A-TTTTAGT
*
25889433 GGCGTTTTTTA-TTACAAACGCCACTATAGCTCATTTTTGT
1 GGCGTTTTTTATTTA-AAACGCCACTATAGCTCATTTTAGT
25889473 GGCGTTTTT
1 GGCGTTTTT
25889482 GAAAAAACGC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
40 15 0.35
41 8 0.19
42 20 0.47
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (40 bp):
GGCGTTTTTTATTTAAAACGCCACTATAGCTCATTTTAGT
Found at i:25889683 original size:21 final size:21
Alignment explanation
Indices: 25889658--25889709 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
25889648 TTCCAAAATT
25889658 AAACTCTAAACCCCAAA-CTCC
1 AAACTCTAAACCCCAAACCT-C
25889679 AAACTCTAAACCCCAAACCTC
1 AAACTCTAAACCCCAAACCTC
*
25889700 AAATTCTAAA
1 AAACTCTAAA
25889710 TCATAAACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.46, C:0.37, G:0.00, T:0.17
Consensus pattern (21 bp):
AAACTCTAAACCCCAAACCTC
Found at i:25889731 original size:28 final size:28
Alignment explanation
Indices: 25889646--25889731 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 28
25889636 TTAAGTTTTT
* *
25889646 AATTCCAAAAT-TAAACTCTAAACCCCA
1 AATTCCAAACTCTAAACCCTAAACCCCA
* * *
25889673 AACTCCAAACTCTAAACCCCAAACCTCA
1 AATTCCAAACTCTAAACCCTAAACCCCA
* *
25889701 AATTCTAAA-TCATAAACCCTAAGCCCCA
1 AATTCCAAACTC-TAAACCCTAAACCCCA
25889729 AAT
1 AAT
25889732 CATAAACCAC
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
27 11 0.23
28 36 0.77
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.20
Consensus pattern (28 bp):
AATTCCAAACTCTAAACCCTAAACCCCA
Found at i:25889749 original size:21 final size:21
Alignment explanation
Indices: 25889707--25889771 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
25889697 CTCAAATTCT
**
25889707 AAATCATAAACCCTAAGCCCC
1 AAATCATAAACCCTAAAACCC
25889728 AAATCATAAACCAC-AAAACCC
1 AAATCATAAACC-CTAAAACCC
* *
25889749 -AATCCACAAACTCT-AAACCC
1 AAAT-CATAAACCCTAAAACCC
25889769 AAA
1 AAA
25889772 AACCCTAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
20 10 0.28
21 25 0.69
22 1 0.03
ACGTcount: A:0.51, C:0.35, G:0.02, T:0.12
Consensus pattern (21 bp):
AAATCATAAACCCTAAAACCC
Found at i:25890009 original size:7 final size:7
Alignment explanation
Indices: 25889996--25890034 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
25889986 CTAAGACCCT
25889996 AACCATA
1 AACCATA
*
25890003 TACCATA
1 AACCATA
*
25890010 AACGATA
1 AACCATA
25890017 AACCATA
1 AACCATA
25890024 AACCATA
1 AACCATA
25890031 AACC
1 AACC
25890035 CCAAACCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.54, C:0.28, G:0.03, T:0.15
Consensus pattern (7 bp):
AACCATA
Found at i:25890040 original size:14 final size:14
Alignment explanation
Indices: 25889996--25890053 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
25889986 CTAAGACCCT
* *
25889996 AACCATATACCATA
1 AACCATAAACCACA
* *
25890010 AACGATAAACCATA
1 AACCATAAACCACA
*
25890024 AACCATAAACCCCA
1 AACCATAAACCACA
* *
25890038 AACCCTAAACTACA
1 AACCATAAACCACA
25890052 AA
1 AA
25890054 TACTAGACCC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.53, C:0.31, G:0.02, T:0.14
Consensus pattern (14 bp):
AACCATAAACCACA
Found at i:25890040 original size:21 final size:21
Alignment explanation
Indices: 25889996--25890047 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
25889986 CTAAGACCCT
* * *
25889996 AACCATATACCATAAACGATA
1 AACCATAAACCATAAACCACA
*
25890017 AACCATAAACCATAAACCCCA
1 AACCATAAACCATAAACCACA
*
25890038 AACCCTAAAC
1 AACCATAAAC
25890048 TACAAATACT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.52, C:0.33, G:0.02, T:0.13
Consensus pattern (21 bp):
AACCATAAACCATAAACCACA
Found at i:25890480 original size:14 final size:13
Alignment explanation
Indices: 25890432--25890495 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 13
25890422 AAACCTCAAG
25890432 CCCTAAATCATAAA
1 CCCTAAATCAT-AA
* *
25890446 ACATAAATCATCAA
1 CCCTAAATCAT-AA
25890460 CCCTAAATCATAA
1 CCCTAAATCATAA
*
25890473 CCCTTAAACCCATAA
1 CCC-TAAA-TCATAA
25890488 CCCCTAAA
1 -CCCTAAA
25890496 CCTATAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
13 5 0.12
14 24 0.59
15 9 0.22
16 3 0.07
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (13 bp):
CCCTAAATCATAA
Found at i:25890488 original size:15 final size:15
Alignment explanation
Indices: 25890468--25890502 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
25890458 AACCCTAAAT
*
25890468 CATAACCCTTAAACC
1 CATAACCCCTAAACC
25890483 CATAACCCCTAAACC
1 CATAACCCCTAAACC
*
25890498 TATAA
1 CATAA
25890503 AAATATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
CATAACCCCTAAACC
Found at i:25890489 original size:28 final size:29
Alignment explanation
Indices: 25890420--25890504 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 29
25890410 CTTCTAAATT
*
25890420 ATAAACC-TCAAGCCCTAAATCATAAAAC
1 ATAAACCATCAACCCCTAAATCATAAAAC
* **
25890448 ATAAATCATCAA-CCCTAAATCATAACCC
1 ATAAACCATCAACCCCTAAATCATAAAAC
* *
25890476 TTAAACCCAT-AACCCCTAAACCTATAAAA
1 ATAAA-CCATCAACCCCTAAATC-ATAAAA
25890505 ATATTAAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
28 26 0.58
29 15 0.33
30 4 0.09
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.20
Consensus pattern (29 bp):
ATAAACCATCAACCCCTAAATCATAAAAC
Found at i:25897434 original size:47 final size:47
Alignment explanation
Indices: 25897327--25897517 Score: 197
Period size: 47 Copynumber: 3.9 Consensus size: 47
25897317 AATGTGATTT
* * * *
25897327 CCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGCTT
1 CCGTATAAGACCATATCTGGGATATGGCATC-G-G---TGTGATATGTGCTA
*
25897379 CCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTA
1 CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
* * *
25897426 CTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTGAT-
1 CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
* * *
25897472 CCGTGTAAGACCAT-TGCTGGGCTATGGCCTCGGTATGTGATATGTG
1 CCGTATAAGACCATAT-CTGGGATATGGCATCGG--TGTGATATGTG
25897518 ACTATGTGCA
Statistics
Matches: 122, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
45 1 0.01
46 26 0.21
47 55 0.45
48 11 0.09
50 1 0.01
51 1 0.01
52 27 0.22
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (47 bp):
CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
Found at i:25897505 original size:93 final size:97
Alignment explanation
Indices: 25897329--25897536 Score: 230
Period size: 93 Copynumber: 2.1 Consensus size: 97
25897319 TGTGATTTCC
* * *
25897329 GTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGCTTCCGTATAAGACCATA
1 GTATAAGACCATAGCTGGGATATGGCATC-GAG--ATGTGATATGTGCATCCGTATAAGACCATA
25897394 TCCGGGATATGGCATCGG-TGTGATATGTG-CTACT
63 TCCGGGATATGGCATCGGATGTGATATGTGACTA-T
* *
25897428 GTATAAGACCATATCTGGGATATGGCATC-AG-TGTGATATGTG-ATCCGTGTAAGACCAT-TGC
1 GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATCCGTATAAGACCATAT-C
* * *
25897489 TGGGCTATGGCCTCGGTATGTGATATGTGACTAT
65 CGGGATATGGCATCGG-ATGTGATATGTGACTAT
**
25897523 GTGCAAGACCATAG
1 GTATAAGACCATAG
25897537 TTTTACTATG
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
92 1 0.01
93 28 0.30
94 11 0.12
95 23 0.24
96 3 0.03
97 2 0.02
99 26 0.28
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (97 bp):
GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATCCGTATAAGACCATATCC
GGGATATGGCATCGGATGTGATATGTGACTAT
Found at i:25900359 original size:10 final size:10
Alignment explanation
Indices: 25900344--25900395 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
25900334 TAAATTTAGG
25900344 ATTTATTTTT
1 ATTTATTTTT
*
25900354 ATTTATCTTT
1 ATTTATTTTT
* *
25900364 AATTATCTTT
1 ATTTATTTTT
*
25900374 ATTTATTTGT
1 ATTTATTTTT
25900384 ATTTATCTTTT
1 ATTTAT-TTTT
25900395 A
1 A
25900396 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:25904085 original size:5 final size:5
Alignment explanation
Indices: 25904077--25904182 Score: 81
Period size: 5 Copynumber: 20.6 Consensus size: 5
25904067 CAACCCAACC
* * * * *
25904077 TTTAT TTTAT TTTAC TTTAC TTAATT TTTAT TATT-T ATTAT TTTAT TTCAT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT T-TTAT TTTAT TTTAT TTTAT
* * *
25904128 TTTAT TAGTATT TTTAT TTTAT TTTAC TTTAT TTTAT TATT-T ATTAT
1 TTTAT T-TTA-T TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT
25904175 TTTAT TTT
1 TTTAT TTT
25904183 TGGATATTAA
Statistics
Matches: 80, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
4 4 0.05
5 63 0.79
6 11 0.14
7 2 0.03
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:25904148 original size:27 final size:30
Alignment explanation
Indices: 25904108--25904181 Score: 100
Period size: 27 Copynumber: 2.6 Consensus size: 30
25904098 TAATTTTTAT
25904108 TATTTATTATTTTATTTCA-TTT-TATTAG
1 TATTTATTATTTTATTTCACTTTATATTAG
* * *
25904136 TATTT-TTATTTTATTTTACTTTATTTTAT
1 TATTTATTATTTTATTTCACTTTATATTAG
25904165 TATTTATTATTTTATTT
1 TATTTATTATTTTATTT
25904182 TTGGATATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
27 12 0.30
28 8 0.20
29 9 0.22
30 11 0.28
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (30 bp):
TATTTATTATTTTATTTCACTTTATATTAG
Found at i:25904207 original size:57 final size:57
Alignment explanation
Indices: 25904082--25904210 Score: 136
Period size: 57 Copynumber: 2.2 Consensus size: 57
25904072 CAACCTTTAT
* * * * **
25904082 TTTATTTTACTTTACTTAATTTTTATTATTTATTATTTTATTTCATTTTATTAGTATT
1 TTTATCTTATTTTACTTAATTTTTATTATTTATTATTTTATTT-ATTATATTAATAAA
* *
25904140 TTTATTTTATTTTACTTTA-TTTTATTATTTATTATTTTATTT-TTGGATATTAATAAA
1 TTTATCTTATTTTACTTAATTTTTATTATTTATTATTTTATTTATT--ATATTAATAAA
*
25904197 TTTCTCTTATTTTA
1 TTTATCTTATTTTA
25904211 TCTAGGTAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
55 2 0.03
57 42 0.69
58 17 0.28
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (57 bp):
TTTATCTTATTTTACTTAATTTTTATTATTTATTATTTTATTTATTATATTAATAAA
Found at i:25906153 original size:10 final size:10
Alignment explanation
Indices: 25906135--25906168 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
25906125 AATTTAGGAT
*
25906135 TTATTTTTAA
1 TTATCTTTAA
25906145 TTATCTTTAA
1 TTATCTTTAA
*
25906155 TTATCTTTAT
1 TTATCTTTAA
25906165 TTAT
1 TTAT
25906169 TTGCATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:25909415 original size:36 final size:36
Alignment explanation
Indices: 25909374--25909447 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
25909364 TGATTTTTAG
25909374 AATTTCAACTAAAAATGGTTGCGACAACCCCAAATT
1 AATTTCAACTAAAAATGGTTGCGACAACCCCAAATT
*
25909410 AATTTCAACTAAAAATGGTTGTGACAACCCCAAATT
1 AATTTCAACTAAAAATGGTTGCGACAACCCCAAATT
25909446 AA
1 AA
25909448 CAAATGATTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (36 bp):
AATTTCAACTAAAAATGGTTGCGACAACCCCAAATT
Found at i:25910700 original size:9 final size:9
Alignment explanation
Indices: 25910682--25910749 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
25910672 TCAACAAAAT
25910682 AATT-TAAA
1 AATTATAAA
25910690 AATTATAAA
1 AATTATAAA
*
25910699 AA-TAGAAA
1 AATTATAAA
*
25910707 ATAATATAAA
1 A-ATTATAAA
*
25910717 AATTCAAAAAA
1 AATT--ATAAA
25910728 AATTATAAA
1 AATTATAAA
* *
25910737 AAGTATAAG
1 AATTATAAA
25910746 AATT
1 AATT
25910750 CAAAAAAGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
8 10 0.21
9 23 0.49
10 6 0.13
11 8 0.17
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (9 bp):
AATTATAAA
Found at i:25911062 original size:44 final size:45
Alignment explanation
Indices: 25910984--25911069 Score: 138
Period size: 44 Copynumber: 1.9 Consensus size: 45
25910974 TATACTTTCT
*
25910984 AAAATTTATCATATAAACTATTTTTATATCATTATTACTTATTAG
1 AAAAGTTATCATATAAACTATTTTTATATCATTATTACTTATTAG
* *
25911029 AAAAGTTATCATGTAAGCTA-TTTTATATCATTATTACTTAT
1 AAAAGTTATCATATAAACTATTTTTATATCATTATTACTTAT
25911070 CAGGCATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 21 0.55
45 17 0.45
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (45 bp):
AAAAGTTATCATATAAACTATTTTTATATCATTATTACTTATTAG
Found at i:25911429 original size:31 final size:31
Alignment explanation
Indices: 25911394--25911474 Score: 117
Period size: 31 Copynumber: 2.6 Consensus size: 31
25911384 TATTTGAGAA
*
25911394 GCTCTTATTTGAACACTTTTAAAAAGATTTG
1 GCTCTTATTTGAACACTTTCAAAAAGATTTG
* *
25911425 GCTCTTATTAGAACACTTTCAAAAAGTTTTG
1 GCTCTTATTTGAACACTTTCAAAAAGATTTG
* *
25911456 GCTCGTATTTGAGCACTTT
1 GCTCTTATTTGAACACTTT
25911475 GAAAGTTTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (31 bp):
GCTCTTATTTGAACACTTTCAAAAAGATTTG
Found at i:25913108 original size:12 final size:12
Alignment explanation
Indices: 25913091--25913136 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
25913081 AACTTTTTAT
25913091 ATTTATTTATTC
1 ATTTATTTATTC
25913103 ATTTATTTATT-
1 ATTTATTTATTC
*
25913114 ATTTCTTTA-TC
1 ATTTATTTATTC
*
25913125 CTTTATTATATT
1 ATTTATT-TATT
25913137 TAAAATTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
10 1 0.04
11 13 0.46
12 13 0.46
13 1 0.04
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (12 bp):
ATTTATTTATTC
Found at i:25913122 original size:23 final size:22
Alignment explanation
Indices: 25913086--25913136 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
25913076 TCATTAACTT
25913086 TTTA-TATTTATTTATTCATTTA
1 TTTATTATTTATTTA-TCATTTA
* *
25913108 TTTATTATTTCTTTATCCTTTA
1 TTTATTATTTATTTATCATTTA
25913130 TTATATT
1 TT-TATT
25913137 TAAAATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTATTATTTATTTATCATTTA
Found at i:25913341 original size:13 final size:14
Alignment explanation
Indices: 25913308--25913352 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
25913298 TGTATTTATT
25913308 TTTATTT-TATCAA
1 TTTATTTATATCAA
*
25913321 TCTA-TTATATC-A
1 TTTATTTATATCAA
25913333 TTTATTTATA-CAA
1 TTTATTTATATCAA
25913346 TTTATTT
1 TTTATTT
25913353 TATTTTATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 7 0.26
13 20 0.74
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTATTTATATCAA
Found at i:25917646 original size:17 final size:17
Alignment explanation
Indices: 25917626--25917659 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25917616 AAATAGATTT
25917626 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
25917643 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
25917660 ACTTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:25918386 original size:18 final size:17
Alignment explanation
Indices: 25918348--25918386 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
25918338 GGTTTGAAAA
25918348 TTTTAATTAATTAAATTT
1 TTTTAATTAA-TAAATTT
25918366 TTTTAATTAA-AAATTT
1 TTTTAATTAATAAATTT
25918382 ATTTT
1 -TTTT
25918387 CATCCCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
18 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAATTAATAAATTT
Found at i:25925586 original size:20 final size:20
Alignment explanation
Indices: 25925540--25925587 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
25925530 TAATTTAAAC
25925540 TAAAAATGTTACTAAATTTA
1 TAAAAATGTTACTAAATTTA
* *
25925560 CATAAAATTTTA-TAAATTCTA
1 TA-AAAATGTTACTAAATT-TA
25925581 TAAAAAT
1 TAAAAAT
25925588 AAATCAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAAAATGTTACTAAATTTA
Found at i:25926269 original size:30 final size:30
Alignment explanation
Indices: 25926235--25926296 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
25926225 TCATGGATAG
25926235 AATTGATAGATTAAGAGCTTACTTAACTAC
1 AATTGATAGATTAAGAGCTTACTTAACTAC
* *
25926265 AATTGATAGATTAAGAGCTTATTTAAGTAC
1 AATTGATAGATTAAGAGCTTACTTAACTAC
25926295 AA
1 AA
25926297 AAATAACAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.34
Consensus pattern (30 bp):
AATTGATAGATTAAGAGCTTACTTAACTAC
Found at i:25928654 original size:29 final size:31
Alignment explanation
Indices: 25928580--25928653 Score: 114
Period size: 30 Copynumber: 2.4 Consensus size: 31
25928570 ATTTTAATTT
25928580 AATAATAATAAAATTATACTTTAATTTTTTAAA
1 AATAATAA-AAAATTATA-TTTAATTTTTTAAA
25928613 AATAATAAAAAATTAT-TTTAATTTTTTAAA
1 AATAATAAAAAATTATATTTAATTTTTTAAA
*
25928643 AATTATAAAAA
1 AATAATAAAAA
25928654 TAATAAATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
30 24 0.60
32 8 0.20
33 8 0.20
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (31 bp):
AATAATAAAAAATTATATTTAATTTTTTAAA
Done.