Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 52 of 93
Found at i:6631768 original size:11 final size:11
Alignment explanation
Indices: 6631749--6631788 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
6631739 AATCCCATAA
6631749 GAGATTTGTTT
1 GAGATTTGTTT
* *
6631760 GAAATTTGTTA
1 GAGATTTGTTT
6631771 GAGATTTGTTT
1 GAGATTTGTTT
6631782 GAGATTT
1 GAGATTT
6631789 TTCAGATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:6631902 original size:52 final size:52
Alignment explanation
Indices: 6631815--6631971 Score: 228
Period size: 52 Copynumber: 3.0 Consensus size: 52
6631805 TGGACAAGAA
* *
6631815 GACTTGCAAAAGAAGAATTCTAAGA-GAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
*
6631867 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
* * *
6631919 GACTTACAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAAT-GGACAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGG-CAAGTTT
6631971 G
1 G
6631972 TATGGCTATA
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 89 0.93
53 5 0.05
ACGTcount: A:0.39, C:0.09, G:0.26, T:0.25
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:6634862 original size:17 final size:17
Alignment explanation
Indices: 6634842--6634874 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6634832 TTACGATAAC
*
6634842 AATTATTTTTTATTTGG
1 AATTACTTTTTATTTGG
6634859 AATTACTTTTTATTTG
1 AATTACTTTTTATTTG
6634875 TAATAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.03, G:0.09, T:0.64
Consensus pattern (17 bp):
AATTACTTTTTATTTGG
Found at i:6635375 original size:17 final size:17
Alignment explanation
Indices: 6635355--6635389 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6635345 TATTTTTAGG
*
6635355 TTTAAAATTATTTTTTA
1 TTTAAAATAATTTTTTA
*
6635372 TTTATAATAATTTTTTA
1 TTTAAAATAATTTTTTA
6635389 T
1 T
6635390 GTTATCAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTAAAATAATTTTTTA
Found at i:6635409 original size:21 final size:20
Alignment explanation
Indices: 6635379--6635418 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
6635369 TTATTTATAA
* *
6635379 TAATTTTTTATGTTATCAATT
1 TAATTATTTACGTTA-CAATT
6635400 TAATTATTTACGTTACAAT
1 TAATTATTTACGTTACAAT
6635419 AAAATCTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
TAATTATTTACGTTACAATT
Found at i:6635580 original size:18 final size:19
Alignment explanation
Indices: 6635544--6635584 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6635534 TACTTTCATC
* *
6635544 TTTTTACTTTAACACTTAT
1 TTTTTAATTTAACAATTAT
6635563 TTTTTAATTTAA-AATTAT
1 TTTTTAATTTAACAATTAT
6635581 TTTT
1 TTTT
6635585 ATTTATAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTTAATTTAACAATTAT
Found at i:6636838 original size:9 final size:10
Alignment explanation
Indices: 6636824--6636898 Score: 86
Period size: 9 Copynumber: 7.6 Consensus size: 10
6636814 AATTATATTT
6636824 TAATAAAT-A
1 TAATAAATAA
6636833 TAATAAATAA
1 TAATAAATAA
6636843 TAACAATAAATAA
1 T---AATAAATAA
*
6636856 TTATAAATAA
1 TAATAAATAA
6636866 TAAT-AATAA
1 TAATAAATAA
6636875 TAAT-AATAA
1 TAATAAATAA
6636884 TAAT-AATAA
1 TAATAAATAA
6636893 TAATAA
1 TAATAA
6636899 TTTGTATTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
9 35 0.59
10 14 0.24
13 10 0.17
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (10 bp):
TAATAAATAA
Found at i:6636844 original size:3 final size:3
Alignment explanation
Indices: 6636832--6636899 Score: 91
Period size: 3 Copynumber: 21.7 Consensus size: 3
6636822 TTTAATAAAT
* *
6636832 ATA ATAA ATA ATA ACA ATAA ATA ATT ATAA ATA ATA ATA ATA ATA ATA
1 ATA AT-A ATA ATA ATA AT-A ATA ATA AT-A ATA ATA ATA ATA ATA ATA
6636880 ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
6636900 TTGTATTTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
3 50 0.86
4 8 0.14
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6637169 original size:18 final size:16
Alignment explanation
Indices: 6637127--6637162 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
6637117 ATGTCATTTT
6637127 TTATTAATTTTATATA
1 TTATTAATTTTATATA
6637143 TTATTAATTTTATA-A
1 TTATTAATTTTATATA
6637158 TTATT
1 TTATT
6637163 TTTAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTAATTTTATATA
Found at i:6637536 original size:17 final size:17
Alignment explanation
Indices: 6637514--6637550 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
6637504 ACAATTATTT
*
6637514 AAAATAATTTAATTATA
1 AAAATAATCTAATTATA
6637531 AAAATAATCTAATTATA
1 AAAATAATCTAATTATA
6637548 AAA
1 AAA
6637551 TTAAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATAATCTAATTATA
Found at i:6638168 original size:22 final size:24
Alignment explanation
Indices: 6638120--6638174 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 24
6638110 ATAAATAAGT
6638120 TTTATATTAATTAATAAATTTATAA
1 TTTATATTAA-TAATAAATTTATAA
6638145 TTTATATTAA-AA-AAATTT-TAAA
1 TTTATATTAATAATAAATTTAT-AA
6638167 TTTA-ATTA
1 TTTATATTA
6638175 TTATATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.17
22 12 0.41
23 2 0.07
25 10 0.34
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTATATTAATAATAAATTTATAA
Found at i:6639367 original size:9 final size:9
Alignment explanation
Indices: 6639353--6639385 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
6639343 TATTTTAATT
6639353 TATAATAAA
1 TATAATAAA
6639362 TATAATAAA
1 TATAATAAA
*
6639371 TATAA-ACA
1 TATAATAAA
6639379 TATAATA
1 TATAATA
6639386 CTCTATACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (9 bp):
TATAATAAA
Found at i:6640870 original size:8 final size:8
Alignment explanation
Indices: 6640857--6640881 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6640847 AAACACCCTT
6640857 CACTGTCC
1 CACTGTCC
6640865 CACTGTCC
1 CACTGTCC
6640873 CACTGTCC
1 CACTGTCC
6640881 C
1 C
6640882 GGAGACCCCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.12, T:0.24
Consensus pattern (8 bp):
CACTGTCC
Found at i:6644213 original size:3 final size:3
Alignment explanation
Indices: 6644205--6644243 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
6644195 TAAAAGTATG
*
6644205 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6644244 TATTATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6645662 original size:36 final size:36
Alignment explanation
Indices: 6645621--6645703 Score: 114
Period size: 36 Copynumber: 2.3 Consensus size: 36
6645611 AAGAAGGCTT
*
6645621 TTCTAACCAAAAGCTATAAGATTTTAAA-AAAGACCC
1 TTCTAACCAAAAGCTATAAGACTTTAAAGAAAG-CCC
* * *
6645657 TTCTAACGAGAAGCTATAAGACTTTAAAGAAAGCTC
1 TTCTAACCAAAAGCTATAAGACTTTAAAGAAAGCCC
6645693 TTCTAACCAAA
1 TTCTAACCAAA
6645704 GGTTATGAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
36 36 0.90
37 4 0.10
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.25
Consensus pattern (36 bp):
TTCTAACCAAAAGCTATAAGACTTTAAAGAAAGCCC
Found at i:6645817 original size:3 final size:3
Alignment explanation
Indices: 6645805--6645882 Score: 147
Period size: 3 Copynumber: 26.0 Consensus size: 3
6645795 AATTTTGTTG
*
6645805 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6645853 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6645883 CTAGTACAAC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6645911 original size:4 final size:4
Alignment explanation
Indices: 6645902--6645930 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
6645892 CTACTACTAC
6645902 TAAT TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT TAAT T
6645931 CTACCAAAAC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:6646914 original size:19 final size:21
Alignment explanation
Indices: 6646890--6646932 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
6646880 TTTATGTTGA
*
6646890 TTTTTATGTTATT-TT-TTAT
1 TTTTTATGATATTATTGTTAT
6646909 TTTTTATGATATTATTGTTAT
1 TTTTTATGATATTATTGTTAT
6646930 TTT
1 TTT
6646933 ATATTATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
20 2 0.10
21 7 0.33
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (21 bp):
TTTTTATGATATTATTGTTAT
Found at i:6646940 original size:19 final size:18
Alignment explanation
Indices: 6646891--6646941 Score: 50
Period size: 21 Copynumber: 2.7 Consensus size: 18
6646881 TTATGTTGAT
*
6646891 TTTTATGTTATT-TTTTA
1 TTTTATATTATTATTTTA
*
6646908 TTTTTTATGATATTATTGTTA
1 TTTTATAT--TATTATT-TTA
6646929 TTTTATATTATTA
1 TTTTATATTATTA
6646942 CTAGTAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 6 0.22
19 9 0.33
20 2 0.07
21 10 0.37
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTTATATTATTATTTTA
Found at i:6647653 original size:322 final size:323
Alignment explanation
Indices: 6647046--6647643 Score: 914
Period size: 322 Copynumber: 1.8 Consensus size: 323
6647036 AATACTAACT
* * *
6647046 ATTTAAGGAAAATAAAATTTTATTGCTAGTAAAAAGGTTATTTAAATTTCACCAAAGTGTTAGGA
1 ATTTAAGGAAAATAAAATTTTATTACAAGCAAAAAGGTTATTTAAATTTCACCAAAGTGTTAGGA
*
6647111 TAATTTAAAATATAATTTTTGCTAAAAAATAATATTAAAAAAAAGATAAATAAAATAAAAAAGAA
66 TAATTTAAAATATAATTTTTGCTAAAAAATAAAATTAAAAAAAAGATAAATAAAAT--AAAAGAA
* * * *
6647176 ATGATAAACTGTTTAAATGAATCTTTTAAATATAATTTTAGAGAAAACTGAAAGAATTTGATTTT
129 ATGATAAACTATTTAAATGAATCTTTTAAATAAAATTTTAGAAAAAACTAAAAGAATTTGATTTT
* * * * *
6647241 CTTTAATTATAGCAAGTAAAAATATTTTTTTGGATTTTACCATAGAGTTAGAATAATCCAGAATT
194 ATTTAATTATAGCAAGTAAAAATAATCTTTTGGATTTCACCATAGAGTTAGAATAATCCAAAATT
6647306 ATTTTTACTAGAATAAAAGTTTATTTAAACAATATAAAAATAATAATTGATATTTTGAATAAATA
259 ATTTTTACTAGAATAAAAGTTTATTTAAACAATATAAAAATAATAATTGATATTTTGAATAAATA
* *
6647371 ATTTAAGGAAAATAAAATTTTATTACAAGCAAAAAGGTTATTTAAATTTCATCAAAGTGTTGGGA
1 ATTTAAGGAAAATAAAATTTTATTACAAGCAAAAAGGTTATTTAAATTTCACCAAAGTGTTAGGA
* * *
6647436 TAATTTAAAATATATTTTTTGCTAAAAAAATAAAATTTTAAAAATAG-TAAATAAAAT-AAA-AA
66 TAATTTAAAATATAATTTTTGCT-AAAAAATAAAA-TTAAAAAAAAGATAAATAAAATAAAAGAA
* *
6647498 ATGATAAATTATTTAAATGAATCTTTTAAATAAAATTTTAGAAAAAACTAAAAGAATTTGGTTTT
129 ATGATAAACTATTTAAATGAATCTTTTAAATAAAATTTTAGAAAAAACTAAAAGAATTTGATTTT
* * * *
6647563 ATTTAATTATTGCGAGTAAAAATAATCTTTTGGATTTCACCATAGAGTTGGAATAATCTAAAATT
194 ATTTAATTATAGCAAGTAAAAATAATCTTTTGGATTTCACCATAGAGTTAGAATAATCCAAAATT
*
6647628 ATTTTTTCTAGAATAA
259 ATTTTTACTAGAATAA
6647644 TGATTTATTT
Statistics
Matches: 246, Mismatches: 25, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
322 132 0.54
323 3 0.01
325 82 0.33
326 20 0.08
327 9 0.04
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.37
Consensus pattern (323 bp):
ATTTAAGGAAAATAAAATTTTATTACAAGCAAAAAGGTTATTTAAATTTCACCAAAGTGTTAGGA
TAATTTAAAATATAATTTTTGCTAAAAAATAAAATTAAAAAAAAGATAAATAAAATAAAAGAAAT
GATAAACTATTTAAATGAATCTTTTAAATAAAATTTTAGAAAAAACTAAAAGAATTTGATTTTAT
TTAATTATAGCAAGTAAAAATAATCTTTTGGATTTCACCATAGAGTTAGAATAATCCAAAATTAT
TTTTACTAGAATAAAAGTTTATTTAAACAATATAAAAATAATAATTGATATTTTGAATAAATA
Found at i:6649406 original size:21 final size:18
Alignment explanation
Indices: 6649375--6649414 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
6649365 TTTCAATTCA
6649375 AAAATAAAAAATATATATAT
1 AAAATAAAAAAT-TA-ATAT
6649395 AAAATAAAAAAATTAATAT
1 AAAAT-AAAAAATTAATAT
6649414 A
1 A
6649415 GATTTTGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 7 0.37
21 7 0.37
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAATAAAAAATTAATAT
Found at i:6655074 original size:159 final size:159
Alignment explanation
Indices: 6654779--6655074 Score: 342
Period size: 159 Copynumber: 1.9 Consensus size: 159
6654769 AGGGTTGTGT
** * * * *
6654779 ATTATGATTGTTGATGAAGTAAATAGTTTAGTAATTAAAAGCCTAAACATTGTAAAAAATTCAGT
1 ATTATGATCATTGATAAAATAAATAGTATAGTAATGAAAAGCCTAAACATTGTAAAAAATTCAGT
* * * * * * *
6654844 ATTGAACTAAATAGTATTTTATGCGTATTGAGATGCAATAATTGTGTGAAAGGTGAAAACTATTA
66 ATTGAACTAAATAATATTTTATACGTATTAAAATACAATAATTGTATGAAAAGTGAAAACTATTA
**
6654909 TTTATTTTGCTTTGTTATTTTGATTCTGC
131 CGTATTTTGCTTTGTTATTTTGATTCTGC
* * * ** *
6654938 ATTATGATCATTGATAAAATAAATAGTATAGTGATGAAAAGCCTATATATTGTAGGAAATTTAGT
1 ATTATGATCATTGATAAAATAAATAGTATAGTAATGAAAAGCCTAAACATTGTAAAAAATTCAGT
* * * *
6655003 ATTGAACTACATAATGTTTTATATGTATTAAAATACAATAACTT-TATGAAAAGTGAAAACTTTT
66 ATTGAACTAAATAATATTTTATACGTATTAAAATACAATAA-TTGTATGAAAAGTGAAAACTATT
*
6655067 GCGTATTT
130 ACGTATTT
6655075 AATAATCAAA
Statistics
Matches: 110, Mismatches: 26, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
159 108 0.98
160 2 0.02
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.40
Consensus pattern (159 bp):
ATTATGATCATTGATAAAATAAATAGTATAGTAATGAAAAGCCTAAACATTGTAAAAAATTCAGT
ATTGAACTAAATAATATTTTATACGTATTAAAATACAATAATTGTATGAAAAGTGAAAACTATTA
CGTATTTTGCTTTGTTATTTTGATTCTGC
Found at i:6656250 original size:18 final size:18
Alignment explanation
Indices: 6656227--6656261 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6656217 CATTAATAAA
6656227 GTAAACAAAAAAAAGAAG
1 GTAAACAAAAAAAAGAAG
*
6656245 GTAAACAAACAAAAGAA
1 GTAAACAAAAAAAAGAA
6656262 ACAAAATAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.09, G:0.14, T:0.06
Consensus pattern (18 bp):
GTAAACAAAAAAAAGAAG
Found at i:6657271 original size:18 final size:18
Alignment explanation
Indices: 6657238--6657272 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6657228 TTATTTTATT
*
6657238 AATATTTATGTATGTTAA
1 AATATTTATATATGTTAA
*
6657256 AATATTTATATTTGTTA
1 AATATTTATATATGTTA
6657273 GATTAAATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (18 bp):
AATATTTATATATGTTAA
Found at i:6657741 original size:205 final size:205
Alignment explanation
Indices: 6657369--6657742 Score: 520
Period size: 205 Copynumber: 1.8 Consensus size: 205
6657359 AATAATACTA
* * *
6657369 AAGTAATAAAAAATGAAAGAAAATAAAATTTTTATCCGACGATGAGATTCAAAGGTATTCCGAGT
1 AAGTAATAAAAAATGAAAGAAAATAAAATTTTAATCCAACGATGAGATTCAAAAGTATTCCGAGT
* ** * * *
6657434 AGTGATGCCTGCGAAATCTCTAGGTGAGAAGATTTTTTTTAAAATACTACCAGCGTATTGGAGTA
66 AGAGATGCCTAAGAAATCTCTAGGTAAGAAGATTTTTTGTAAAATACTACCAGCGTATTGGAATA
* *
6657499 TTTATAAAAAATTTTCAATACAGTAAAAATTTTTTTTTAATAATAAATAAAAATTGGTTAATAAA
131 TTTATAAAAAATCTTCAATACAATAAAAATTTTTTTTTAATAATAAATAAAAATTGGTTAATAAA
6657564 TTAAAAATAT
196 TTAAAAATAT
* *
6657574 AAGTAATAAAAATATG-AAGAAAA-GAAA-TTTAATCCAATGATGAGATTCTAAAAGTATTCCGA
1 AAGTAATAAAAA-ATGAAAGAAAATAAAATTTTAATCCAACGATGAGATTC-AAAAGTATTCCGA
* *
6657636 GTAGAGATGCTTTAAGAAATCTCTAGGTAAGAAGATTTTTTGTAAAATATTACCAGCGTATTGGA
64 GTAGAGATGC-CTAAGAAATCTCTAGGTAAGAAGATTTTTTGTAAAATACTACCAGCGTATTGGA
* * * *
6657701 ATATTTATAGAAAATCTTCAATATAATTAAATTCTTTTTTTT
128 ATATTTATAAAAAATCTTCAATACAATAAAAAT-TTTTTTTT
6657743 CTTCAAAATT
Statistics
Matches: 146, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
203 18 0.12
204 24 0.16
205 93 0.64
206 11 0.08
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.34
Consensus pattern (205 bp):
AAGTAATAAAAAATGAAAGAAAATAAAATTTTAATCCAACGATGAGATTCAAAAGTATTCCGAGT
AGAGATGCCTAAGAAATCTCTAGGTAAGAAGATTTTTTGTAAAATACTACCAGCGTATTGGAATA
TTTATAAAAAATCTTCAATACAATAAAAATTTTTTTTTAATAATAAATAAAAATTGGTTAATAAA
TTAAAAATAT
Found at i:6658170 original size:194 final size:193
Alignment explanation
Indices: 6657841--6658223 Score: 608
Period size: 194 Copynumber: 2.0 Consensus size: 193
6657831 GCATGGCATG
* * * * *
6657841 CATGACATAATTTCTTATGAAAAGTAAATTTAGACCTCCGAGGATGAGATTCTAAGGTATTCCGA
1 CATGACAT-ATTTCTTATGAAAAATAAATTAAGACCTCCAAAGATGAGATTCTAAAGTATTCCGA
* *
6657906 GAAGCGATGCCTAAGAAATCTTTAGGTGAGAAAAAGTTCTTCTAATGTTACCAACGTACTGGAAC
65 GAAGAGATGCCTAAGAAATCTCTAGGTGAGAAAAAGTTCTTCTAATGTTACCAACGTACTGGAAC
6657971 ATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTCTCTCGAGAATAATTTTTTTTTAA
130 ATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTCTCTCGAGAATAATTTTTTTTTAA
6658035 CATGACAT-TTTCTTATGAAAAATAAATTCAAG-CCTCCAAAGATGAGATTCTAAAAGTATTCCG
1 CATGACATATTTCTTATGAAAAATAAATT-AAGACCTCCAAAGATGAGATTCT-AAAGTATTCCG
* * * *
6658098 AGTAGAGATGCTTTAAGAAATCTCTAGGTGAGAAAGAGTTCTTTTAATGTTACCAACGTACTGGA
64 AGAAGAGATGC-CTAAGAAATCTCTAGGTGAGAAAAAGTTCTTCTAATGTTACCAACGTACTGGA
*
6658163 ACATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTTTCTCGAGAATAATTTTTT
128 ACATTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTCTCTCGAGAATAATTTTTT
6658224 AATAAATAAA
Statistics
Matches: 174, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
192 36 0.21
193 21 0.12
194 117 0.67
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (193 bp):
CATGACATATTTCTTATGAAAAATAAATTAAGACCTCCAAAGATGAGATTCTAAAGTATTCCGAG
AAGAGATGCCTAAGAAATCTCTAGGTGAGAAAAAGTTCTTCTAATGTTACCAACGTACTGGAACA
TTTTAAGAATTATTTCAATAAAAAGGTTTTAATTTATTTCTCTCGAGAATAATTTTTTTTTAA
Found at i:6658722 original size:15 final size:16
Alignment explanation
Indices: 6658702--6658736 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6658692 AAAAAAGTCA
6658702 AAAACAAA-CAAAAAC
1 AAAACAAATCAAAAAC
*
6658717 AAAACAAATCAAAAAT
1 AAAACAAATCAAAAAC
6658733 AAAA
1 AAAA
6658737 AGCAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.80, C:0.14, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAACAAATCAAAAAC
Found at i:6659369 original size:19 final size:19
Alignment explanation
Indices: 6659342--6659380 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
6659332 ATTTGCATTA
6659342 TTTTAAAAAAAAAAAATTT
1 TTTTAAAAAAAAAAAATTT
* *
6659361 TTTTCAAAAATAAAAATTT
1 TTTTAAAAAAAAAAAATTT
6659380 T
1 T
6659381 GACACATGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
TTTTAAAAAAAAAAAATTT
Found at i:6661915 original size:19 final size:19
Alignment explanation
Indices: 6661893--6661929 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6661883 AAAATTAAAA
6661893 AAAAAAACAAAAAAACAAT
1 AAAAAAACAAAAAAACAAT
* *
6661912 AAAAGAAGAAAAAAACAA
1 AAAAAAACAAAAAAACAA
6661930 AAGGGATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.84, C:0.08, G:0.05, T:0.03
Consensus pattern (19 bp):
AAAAAAACAAAAAAACAAT
Found at i:6663666 original size:41 final size:41
Alignment explanation
Indices: 6663618--6663695 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
6663608 AGAACCGTTC
*
6663618 TCAATCAAGATTTCAAAGCTTCTGTTTAAAAGGAACCAATT
1 TCAATCAAGATTTCAAAGCCTCTGTTTAAAAGGAACCAATT
* *
6663659 TCAATCAAGATTTCAAAGCCTCTGTTTAGAGGGAACC
1 TCAATCAAGATTTCAAAGCCTCTGTTTAAAAGGAACC
6663696 TTTTTCAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.29
Consensus pattern (41 bp):
TCAATCAAGATTTCAAAGCCTCTGTTTAAAAGGAACCAATT
Found at i:6663702 original size:41 final size:41
Alignment explanation
Indices: 6663609--6663703 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
6663599 TATTTCAGAA
* * *
6663609 GAACCGTTCTCAATCAAGATTTCAAAGCTTCTGTTTAAAAG
1 GAACCATTTTCAATCAAGATTTCAAAGCCTCTGTTTAAAAG
* * *
6663650 GAACCAATTTCAATCAAGATTTCAAAGCCTCTGTTTAGAGG
1 GAACCATTTTCAATCAAGATTTCAAAGCCTCTGTTTAAAAG
*
6663691 GAACCTTTTTCAA
1 GAACCATTTTCAA
6663704 AAAAAAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (41 bp):
GAACCATTTTCAATCAAGATTTCAAAGCCTCTGTTTAAAAG
Found at i:6664076 original size:23 final size:23
Alignment explanation
Indices: 6664050--6664110 Score: 88
Period size: 22 Copynumber: 2.7 Consensus size: 23
6664040 TTATTCCAAT
6664050 TGATTCTGTAAGACCTCAGGGTA
1 TGATTCTGTAAGACCTCAGGGTA
* * *
6664073 TGATT-TCTAAGACATCCGGGTA
1 TGATTCTGTAAGACCTCAGGGTA
6664095 TGATTCTGTAAGACCT
1 TGATTCTGTAAGACCT
6664111 TCGGGGATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 19 0.59
23 13 0.41
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (23 bp):
TGATTCTGTAAGACCTCAGGGTA
Found at i:6664102 original size:45 final size:45
Alignment explanation
Indices: 6664050--6664137 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
6664040 TTATTCCAAT
*
6664050 TGATTCTGTAAGACC-TCAGGGTATGATTTCTAAGACATCCGGGTA
1 TGATTCTGTAAGACCTTC-GGGGATGATTTCTAAGACATCCGGGTA
* *
6664095 TGATTCTGTAAGACCTTCGGGGATGATTTCTGAGACCTCCGGG
1 TGATTCTGTAAGACCTTCGGGGATGATTTCTAAGACATCCGGG
6664138 CATAAATTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
45 37 0.95
46 2 0.05
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (45 bp):
TGATTCTGTAAGACCTTCGGGGATGATTTCTAAGACATCCGGGTA
Found at i:6664115 original size:23 final size:23
Alignment explanation
Indices: 6664050--6664122 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 23
6664040 TTATTCCAAT
6664050 TGATTCTGTAAGACC-TCAGGGTA
1 TGATTCTGTAAGACCTTC-GGGTA
* * *
6664073 TGATT-TCTAAGACATCCGGGTA
1 TGATTCTGTAAGACCTTCGGGTA
*
6664095 TGATTCTGTAAGACCTTCGGGGA
1 TGATTCTGTAAGACCTTCGGGTA
6664118 TGATT
1 TGATT
6664123 TCTGAGACCT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
22 17 0.41
23 24 0.59
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (23 bp):
TGATTCTGTAAGACCTTCGGGTA
Found at i:6664137 original size:22 final size:22
Alignment explanation
Indices: 6664060--6664137 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
6664050 TGATTCTGTA
* *
6664060 AGACCTCAGGGTATGATTTCTA
1 AGACCTCCGGGTATGATTTCTG
*
6664082 AGACATCCGGGTATGA-TTCTG
1 AGACCTCCGGGTATGATTTCTG
* *
6664103 TAAGACCTTCGGGGATGATTTCTG
1 --AGACCTCCGGGTATGATTTCTG
6664127 AGACCTCCGGG
1 AGACCTCCGGG
6664138 CATAAATTTG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 4 0.09
22 24 0.52
23 13 0.28
24 5 0.11
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (22 bp):
AGACCTCCGGGTATGATTTCTG
Found at i:6664391 original size:23 final size:23
Alignment explanation
Indices: 6664361--6664428 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
6664351 TATTTTAATC
6664361 GATTCTGTAAGATCTCCGGGCAT
1 GATTCTGTAAGATCTCCGGGCAT
6664384 GATTCTGTAAGATCTCCGGGCAT
1 GATTCTGTAAGATCTCCGGGCAT
* *
6664407 GATT-TCTAAGACCTCCGGGCAT
1 GATTCTGTAAGATCTCCGGGCAT
6664429 AAAATCGATT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
22 16 0.37
23 27 0.63
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (23 bp):
GATTCTGTAAGATCTCCGGGCAT
Found at i:6664572 original size:49 final size:49
Alignment explanation
Indices: 6664495--6664996 Score: 613
Period size: 49 Copynumber: 10.3 Consensus size: 49
6664485 AAATTTGAAA
* * *
6664495 AAGATGAAAATTTTAAAGTTGTGAAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATGAGATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC
*
6664544 AAGATGAGATTTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCC
1 AAGATGAGATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC
*
6664593 -AGATGAGA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCC
1 AAGATGAGATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC
* * *
6664640 AAGATGAGATTTTTAAAGTTGTGGAGCCTCTGTTGAGAAGAGCTTTTTC
1 AAGATGAGATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC
* * * *
6664689 TAGATGAGATTTTTAAAGTTGCGGAGCCTCTGCTAAGAGGAGCTTTTCT
1 AAGATGAGATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC
* * *
6664738 AAGATGAGATTTTTAAAGTTATGGAGCCTCTGTTGAGAGGAGCTTTTTC
1 AAGATGAGATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC
* * * *
6664787 -ATATGAGA-TTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTC
1 AAGATGAGATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC
* * * * *
6664834 AAGA-AAGAATTTTAAAGTTGTGAAGCCTCTGTTGAGAGGAGCTTTTTC
1 AAGATGAGATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC
* * * * *
6664882 AAGAAGAAATTTTTTTAAGTTTTTGAGCCTCTGCTAAGAGCAAGGGAGCTTTTCC
1 AAGATGAGA-TTTTTAAAGTTGTGGAGCCTCTGCT--GAG--A-GGAGCTTTTCC
* * *
6664937 AAGATGAGA-ATTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGTTTTTTC
1 AAGATGAGATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC
6664985 -AGATGAGATTTT
1 AAGATGAGATTTT
6664997 CAGATGAGAT
Statistics
Matches: 392, Mismatches: 49, Indels: 25
0.84 0.11 0.05
Matches are distributed among these distances:
47 85 0.22
48 77 0.20
49 167 0.43
50 19 0.05
51 3 0.01
52 3 0.01
53 20 0.05
54 1 0.00
55 17 0.04
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (49 bp):
AAGATGAGATTTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTCC
Found at i:6664799 original size:145 final size:146
Alignment explanation
Indices: 6664495--6664996 Score: 638
Period size: 145 Copynumber: 3.4 Consensus size: 146
6664485 AAATTTGAAA
* * *
6664495 AAGATGAAAATTTTAAAGTTGTGAAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGATTTTTAA
1 AAGATG-AGATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGATTTTTAA
* *
6664560 AGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTC-CAGATGAGA-TTTTAAAGTTGTTGAGCCTCTG
65 AGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCTAAGATGAGATTTTTAAAGTTATTGAGCCTCTG
*
6664623 CTGAGAGGAGCTTTTCC
130 TTGAGAGGAGCTTTTCC
* * *
6664640 AAGATGAGATTTTTAAAGTTGTGGAGCCTCTGTTGAGAAGAGCTTTTTCTAGATGAGATTTTTAA
1 AAGATGAGA-TTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGATTTTTAA
* * * *
6664705 AGTTGCGGAGCCTCTGCTAAGAGGAGCTTTTCTAAGATGAGATTTTTAAAGTTATGGAGCCTCTG
65 AGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCTAAGATGAGATTTTTAAAGTTATTGAGCCTCTG
*
6664770 TTGAGAGGAGCTTTTTC
130 TTGAGAGGAGCTTTTCC
* * * * *
6664787 -ATATGAGATTTTAAAGTTGTTGAGCCTCTGTTGAGAGGAGCTTTTTCAAGA-AAGAATTTTAAA
1 AAGATGAGATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGATTTTTAAA
* * * * *
6664850 GTTGTGAAGCCTCTGTTGAGAGGAGCTTTT-TCAAGAAGAAATTTTTTTAAGTTTTTGAGCCTCT
66 GTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCT-AAGATGAGA-TTTTTAAAGTTATTGAGCCTCT
*
6664914 GCTAAGAGCAAGGGAGCTTTTCC
129 G-T-TGAG--A-GGAGCTTTTCC
* *
6664937 AAGATGAGAATTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGTTTTTTC-AGATGAGATTTT
1 AAGATGAGATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGATTTT
6664997 CAGATGAGAT
Statistics
Matches: 307, Mismatches: 38, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
143 1 0.00
144 45 0.15
145 145 0.47
146 16 0.05
147 38 0.12
149 1 0.00
150 13 0.04
151 48 0.16
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (146 bp):
AAGATGAGATTTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGATTTTTAAA
GTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCTAAGATGAGATTTTTAAAGTTATTGAGCCTCTGT
TGAGAGGAGCTTTTCC
Found at i:6664912 original size:194 final size:194
Alignment explanation
Indices: 6664495--6664996 Score: 711
Period size: 194 Copynumber: 2.6 Consensus size: 194
6664485 AAATTTGAAA
* * * * *
6664495 AAGATGAAAATTTTAAAGTTGTGAAGCCTCTGCTGAGAGGAGCTTTTCCAAGATGAGATTTTTAA
1 AAGAAGAAATTTTTAAAGTTGCGGAGCCTCTGCTAAGAGGAGCTTTTCCAAGATGAGATTTTTAA
*
6664560 AGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTCCAGATGAGATTTTAAAGTTGTTGAGCCTCTGCT
66 AGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAGATGAGATTTTAAAGTTGTTGAGCCTCTGCT
* * *
6664625 GAGAGGAGCTTTTCCAAGATGAGATTTTTAAAGTTGTGGAGCCTCTGTTGAGAAGAGCTTTTTC
131 GAGAGGAGCTTTTCCAAGATAAGAATTTTAAAGTTGTGAAGCCTCTGTTGAGAAGAGCTTTTTC
* * * *
6664689 TAGATGAGATTTTTAAAGTTGCGGAGCCTCTGCTAAGAGGAGCTTTTCTAAGATGAGATTTTTAA
1 AAGAAGAAATTTTTAAAGTTGCGGAGCCTCTGCTAAGAGGAGCTTTTCCAAGATGAGATTTTTAA
* * *
6664754 AGTTATGGAGCCTCTGTTGAGAGGAGCTTTTTCATATGAGATTTTAAAGTTGTTGAGCCTCTGTT
66 AGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAGATGAGATTTTAAAGTTGTTGAGCCTCTGCT
* *
6664819 GAGAGGAGCTTTTTCAAGA-AAGAATTTTAAAGTTGTGAAGCCTCTGTTGAGAGGAGCTTTTTC
131 GAGAGGAGCTTTTCCAAGATAAGAATTTTAAAGTTGTGAAGCCTCTGTTGAGAAGAGCTTTTTC
* ***
6664882 AAGAAGAAATTTTTTTAAGTTTTTGAGCCTCTGCTAAGAGCAAGGGAGCTTTTCCAAGATGAGA-
1 AAGAAGAAA-TTTTTAAAGTTGCGGAGCCTCTGCT-A-AG--A-GGAGCTTTTCCAAGATGAGAT
* * *
6664946 ATTTAAAGTTGTGGAGCCTCTGCTGAGAGGAGTTTTTTCAGATGAGATTTT
60 TTTTAAAGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAGATGAGATTTT
6664997 CAGATGAGAT
Statistics
Matches: 273, Mismatches: 29, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
193 46 0.17
194 158 0.58
195 1 0.00
196 2 0.01
198 47 0.17
199 19 0.07
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (194 bp):
AAGAAGAAATTTTTAAAGTTGCGGAGCCTCTGCTAAGAGGAGCTTTTCCAAGATGAGATTTTTAA
AGTTGTGGAGCCTCTGTTGAGAGGAGCTTTTTCAGATGAGATTTTAAAGTTGTTGAGCCTCTGCT
GAGAGGAGCTTTTCCAAGATAAGAATTTTAAAGTTGTGAAGCCTCTGTTGAGAAGAGCTTTTTC
Found at i:6664998 original size:13 final size:13
Alignment explanation
Indices: 6664980--6665009 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
6664970 GAGAGGAGTT
6664980 TTTTCAGATGAGA
1 TTTTCAGATGAGA
6664993 TTTTCAGATGAGA
1 TTTTCAGATGAGA
6665006 TTTT
1 TTTT
6665010 AAAGTTGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (13 bp):
TTTTCAGATGAGA
Found at i:6666731 original size:12 final size:12
Alignment explanation
Indices: 6666710--6666739 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6666700 TAATTAAAAT
*
6666710 TAAAAAAATTAA
1 TAAAATAATTAA
6666722 TAAAATAATTAA
1 TAAAATAATTAA
6666734 TAAAAT
1 TAAAAT
6666740 TTTTTGAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
TAAAATAATTAA
Found at i:6669414 original size:12 final size:12
Alignment explanation
Indices: 6669399--6669438 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
6669389 TAAAAAGTTG
*
6669399 TATAAATAAATA
1 TATAAATATATA
6669411 TATAAATATATA
1 TATAAATATATA
*
6669423 TATATATATATA
1 TATAAATATATA
6669435 TATA
1 TATA
6669439 CACACTTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TATAAATATATA
Found at i:6669417 original size:8 final size:8
Alignment explanation
Indices: 6669404--6669438 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
6669394 AGTTGTATAA
6669404 ATAAATAT
1 ATAAATAT
6669412 ATAAATAT
1 ATAAATAT
*
6669420 ATATATAT
1 ATAAATAT
*
6669428 ATATATAT
1 ATAAATAT
6669436 ATA
1 ATA
6669439 CACACTTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATAAATAT
Found at i:6669421 original size:2 final size:2
Alignment explanation
Indices: 6669408--6669438 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6669398 GTATAAATAA
*
6669408 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6669439 CACACTTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:6673442 original size:24 final size:24
Alignment explanation
Indices: 6673406--6673451 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
6673396 GAAAATGATA
*
6673406 TGTTTATTCATTATATTTTTAAAT
1 TGTTTATTCATTATAATTTTAAAT
* *
6673430 TGTTTTTTTATTATAATTTTAA
1 TGTTTATTCATTATAATTTTAA
6673452 GTATAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.65
Consensus pattern (24 bp):
TGTTTATTCATTATAATTTTAAAT
Found at i:6677364 original size:20 final size:20
Alignment explanation
Indices: 6677286--6677382 Score: 74
Period size: 20 Copynumber: 4.8 Consensus size: 20
6677276 TATAAACAAG
* *
6677286 TATTATATTAATTAATTAATT
1 TATTAT-TTAAATATTTAATT
*
6677307 TATAATTTAAATA-TTATATT
1 TATTATTTAAATATTTA-ATT
* *
6677327 AAATTTTTTAAA-ATTTTAA-T
1 -TATTATTTAAATA-TTTAATT
6677347 TATTATATTAAATATTTAATT
1 TATTAT-TTAAATATTTAATT
*
6677368 TATAATTTAAATATT
1 TATTATTTAAATATT
6677383 ATATTAAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 15
0.73 0.10 0.18
Matches are distributed among these distances:
19 7 0.11
20 30 0.49
21 21 0.34
22 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTATTTAAATATTTAATT
Found at i:6677390 original size:32 final size:32
Alignment explanation
Indices: 6677286--6677391 Score: 139
Period size: 32 Copynumber: 3.4 Consensus size: 32
6677276 TATAAACAAG
* *
6677286 TATTATATTAATTAATTAATTTATAATTTAAA
1 TATTATATTAAATATTTAATTTATAATTTAAA
* *
6677318 TATTATATT-AA-ATTT--TTTAAAATTTTAAT
1 TATTATATTAAATATTTAATTTATAA-TTTAAA
6677347 TATTATATTAAATATTTAATTTATAATTTAAA
1 TATTATATTAAATATTTAATTTATAATTTAAA
6677379 TATTATATTAAAT
1 TATTATATTAAAT
6677392 TAGCCAGCTG
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
28 6 0.10
29 14 0.22
30 5 0.08
31 5 0.08
32 27 0.43
33 6 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
TATTATATTAAATATTTAATTTATAATTTAAA
Found at i:6678321 original size:25 final size:24
Alignment explanation
Indices: 6678261--6678323 Score: 90
Period size: 24 Copynumber: 2.5 Consensus size: 24
6678251 TATAACTACA
6678261 TAATAATTTTAATAAAAAATAATTT
1 TAAT-ATTTTAATAAAAAATAATTT
* *
6678286 TAATATTTTAATAATAAATATTTT
1 TAATATTTTAATAAAAAATAATTT
6678310 TGAATATTTTAATA
1 T-AATATTTTAATA
6678324 GTTATGGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 19 0.54
25 16 0.46
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TAATATTTTAATAAAAAATAATTT
Found at i:6679487 original size:10 final size:10
Alignment explanation
Indices: 6679472--6679496 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6679462 AAACACAAAC
6679472 TTTTTTTTCT
1 TTTTTTTTCT
6679482 TTTTTTTTCT
1 TTTTTTTTCT
6679492 TTTTT
1 TTTTT
6679497 GTGAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:6679653 original size:36 final size:36
Alignment explanation
Indices: 6679601--6679674 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
6679591 GAAACTTTGA
*
6679601 AAAGAAGGCTTCTCTAACTAAAAGTTATAAGATTTT
1 AAAGAAGGCTTCTCTAACTAAAAGTTATAAGACTTT
* *
6679637 AAAGAAGGC-TCTTCTAACTAGAGGTTATAAGACTTT
1 AAAGAAGGCTTC-TCTAACTAAAAGTTATAAGACTTT
6679673 AA
1 AA
6679675 CAAAAGCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 2 0.06
36 32 0.94
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (36 bp):
AAAGAAGGCTTCTCTAACTAAAAGTTATAAGACTTT
Found at i:6679806 original size:3 final size:3
Alignment explanation
Indices: 6679798--6679835 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6679788 GTTTTGTTTA
6679798 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6679836 CTACTAATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:6681427 original size:19 final size:18
Alignment explanation
Indices: 6681405--6681448 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
6681395 AATTTTTGCT
**
6681405 AAAAAATAAAATTTAATAA
1 AAAAAAT-AAATGAAATAA
*
6681424 AAAAGATAAATGAAATAA
1 AAAAAATAAATGAAATAA
6681442 AAAAAAT
1 AAAAAAT
6681449 GACAAATTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (18 bp):
AAAAAATAAATGAAATAA
Found at i:6681539 original size:338 final size:339
Alignment explanation
Indices: 6681016--6681653 Score: 1013
Period size: 338 Copynumber: 1.9 Consensus size: 339
6681006 TTTAAATTTC
6681016 ATTTAAATTTCACCAAAGTGTTAGGATAATTTAAAATATAATTTTTGCTAAAAAAAATAATATTT
1 ATTTAAATTTCACCAAAGTGTTAGGATAATTTAAAATATAATTTTTGCTAAAAAAAATAATATTT
6681081 GAAAAAAGATAAATAAAATAAAAAAGAAATGAAAATTTGTTTAAATGAATCTTTTAAATATAATT
66 GAAAAAAGATAAATAAAATAAAAAAGAAATGAAAATTTGTTTAAATGAATCTTTTAAATATAATT
* * *
6681146 TTAGAGAAAATTGAAATAATTTTATTTTCTTTAATTATTGCAAGTAAAAATAATTTTTCAGATTT
131 TTAGAAAAAATTGAAAGAATTTGATTTTCTTTAATTATTGCAAGTAAAAATAATTTTTCAGATTT
*
6681211 TACCATAGAGTT-AGAATAATCAAAAATTATTTTTACTAGAATAAAAGTTTATTTAAACAATATA
196 CACCATAGAGTTGA-AATAATCAAAAATTATTTTTACTAGAATAAAAGTTTATTTAAACAATATA
*
6681275 -AAAATAATAATAAATAAGAATAATTGATATTTTGAATAAATAATTTAAGAAAAATAAAATTTTA
260 TAAAATAAT-A-AAATAAGAATAATTGATATCTTGAATAAATAATTTAAGAAAAATAAAATTTTA
6681339 TTGCAAGCAAAAAGGTT
323 TTGCAAGCAAAAAGGTT
*
6681356 ATTTAAATTTCACCAAAGTGTTGGGATAATTTAAAATATAATTTTTGCTAAAAAATAA-AAT-TT
1 ATTTAAATTTCACCAAAGTGTTAGGATAATTTAAAATATAATTTTTGCTAAAAAA-AATAATATT
* *
6681419 AAT-AAAAAAGATAAATGAAAT-AAAAA-AAATGACAAA-TTGTTTAAATGAATCTTTTAAATCT
65 --TGAAAAAAGATAAATAAAATAAAAAAGAAATGA-AAATTTGTTTAAATGAATCTTTTAAATAT
* **
6681480 AATTTTAGAAAAAATTGAAAGAATTTGGTTTTCTTTAATTATTGCAAGTAAAAATAATTTTTTGG
127 AATTTTAGAAAAAATTGAAAGAATTTGATTTTCTTTAATTATTGCAAGTAAAAATAATTTTTCAG
* * *
6681545 ATTTCACCATAGAGTTGAAATAATCTAAAATTATTTTTACTAGAATAAAGGTTTATTTAAATAAT
192 ATTTCACCATAGAGTTGAAATAATCAAAAATTATTTTTACTAGAATAAAAGTTTATTTAAACAAT
* *
6681610 ATATTAAATAATAAAATAATAATAATTGATATCTTGAATAAATA
257 ATATAAAATAATAAAATAAGAATAATTGATATCTTGAATAAATA
6681654 TTTTTTAAAA
Statistics
Matches: 276, Mismatches: 16, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
337 29 0.11
338 152 0.55
339 18 0.07
340 74 0.27
341 3 0.01
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (339 bp):
ATTTAAATTTCACCAAAGTGTTAGGATAATTTAAAATATAATTTTTGCTAAAAAAAATAATATTT
GAAAAAAGATAAATAAAATAAAAAAGAAATGAAAATTTGTTTAAATGAATCTTTTAAATATAATT
TTAGAAAAAATTGAAAGAATTTGATTTTCTTTAATTATTGCAAGTAAAAATAATTTTTCAGATTT
CACCATAGAGTTGAAATAATCAAAAATTATTTTTACTAGAATAAAAGTTTATTTAAACAATATAT
AAAATAATAAAATAAGAATAATTGATATCTTGAATAAATAATTTAAGAAAAATAAAATTTTATTG
CAAGCAAAAAGGTT
Found at i:6683154 original size:27 final size:26
Alignment explanation
Indices: 6683113--6683167 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
6683103 CCAAGCCGAG
* *
6683113 TTGTTTTTGGTATTTTTTTATTTTTT
1 TTGTTTTTGGTATTTATTTATTTATT
*
6683139 TTGTTTTTGTTTATTTATTTATTTATT
1 TTGTTTTTG-GTATTTATTTATTTATT
6683166 TT
1 TT
6683168 ATAAGTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (26 bp):
TTGTTTTTGGTATTTATTTATTTATT
Found at i:6686405 original size:12 final size:12
Alignment explanation
Indices: 6686388--6686424 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
6686378 GTACAAGTTC
*
6686388 ATATATATATAT
1 ATATATATTTAT
6686400 ATATATATTTAT
1 ATATATATTTAT
*
6686412 AAATATATTTAT
1 ATATATATTTAT
6686424 A
1 A
6686425 CTAAATCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
ATATATATTTAT
Found at i:6686994 original size:2 final size:2
Alignment explanation
Indices: 6686987--6687025 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6686977 TGTCAAATGA
6686987 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
6687026 ATATATTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:6691318 original size:14 final size:13
Alignment explanation
Indices: 6691297--6691338 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
6691287 CAAAAATACT
6691297 AAAAAAATAAAGA
1 AAAAAAATAAAGA
* *
6691310 CATAAAAATAAATA
1 -AAAAAAATAAAGA
6691324 AAAAAAATAAA-A
1 AAAAAAATAAAGA
6691336 AAA
1 AAA
6691339 TGGCTCGGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 4 0.16
13 10 0.40
14 11 0.44
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.12
Consensus pattern (13 bp):
AAAAAAATAAAGA
Found at i:6691331 original size:9 final size:9
Alignment explanation
Indices: 6691297--6691338 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
6691287 CAAAAATACT
6691297 AAAAAAAT-
1 AAAAAAATA
* *
6691305 AAAGACATA
1 AAAAAAATA
6691314 AAAATAAATA
1 AAAA-AAATA
6691324 AAAAAAATA
1 AAAAAAATA
6691333 AAAAAA
1 AAAAAA
6691339 TGGCTCGGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
8 6 0.21
9 14 0.50
10 8 0.29
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.12
Consensus pattern (9 bp):
AAAAAAATA
Found at i:6691614 original size:16 final size:18
Alignment explanation
Indices: 6691593--6691632 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
6691583 CAGATCGCCC
6691593 CTTCTT-CC-TTTTCTCT
1 CTTCTTCCCTTTTTCTCT
6691609 CTTCTTCCCTTTTTCTCT
1 CTTCTTCCCTTTTTCTCT
6691627 CATTCT
1 C-TTCT
6691633 CTCTCTAGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.29
17 2 0.10
18 9 0.43
19 4 0.19
ACGTcount: A:0.03, C:0.38, G:0.00, T:0.60
Consensus pattern (18 bp):
CTTCTTCCCTTTTTCTCT
Found at i:6692044 original size:13 final size:13
Alignment explanation
Indices: 6692026--6692069 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
6692016 TATCTCCTAT
6692026 AATAATAATAAAA
1 AATAATAATAAAA
6692039 AATAATTAATTAAAA
1 AATAA-TAA-TAAAA
6692054 TAA-AATAATAAAA
1 -AATAATAATAAAA
6692067 AAT
1 AAT
6692070 TAGGTCAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 2 0.07
13 10 0.37
14 6 0.22
15 7 0.26
16 2 0.07
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AATAATAATAAAA
Found at i:6692070 original size:21 final size:20
Alignment explanation
Indices: 6692032--6692071 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
6692022 CTATAATAAT
**
6692032 AATAAAAAATAATTAATTAA
1 AATAAAAAATAAAAAATTAA
6692052 AATAAAATAATAAAAAATTA
1 AATAAAA-AATAAAAAATTA
6692072 GGTCAATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (20 bp):
AATAAAAAATAAAAAATTAA
Found at i:6693617 original size:67 final size:67
Alignment explanation
Indices: 6693546--6693671 Score: 162
Period size: 67 Copynumber: 1.9 Consensus size: 67
6693536 TTCGTTAGAG
* * *
6693546 TGTTATGATAGTTCTAACTTATTTTACATTAAATGATATTAACTTTACAACTATTCTCATTTTTT
1 TGTTACGATAGTTCTAACATATTTTACATTAAATGATATCAACTTTACAACTATTCTCATTTTTT
6693611 AA
66 AA
* * * * * * *
6693613 TGTTACGATATTTTTAACATATTTTATATTAAATTATATCAATTTTATAATTATTCTCA
1 TGTTACGATAGTTCTAACATATTTTACATTAAATGATATCAACTTTACAACTATTCTCA
6693672 CGTTTTCATG
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
67 49 1.00
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (67 bp):
TGTTACGATAGTTCTAACATATTTTACATTAAATGATATCAACTTTACAACTATTCTCATTTTTT
AA
Found at i:6694796 original size:18 final size:17
Alignment explanation
Indices: 6694756--6694797 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
6694746 AGTTCAATAA
6694756 AAAATTTTATAAAAATT
1 AAAATTTTATAAAAATT
6694773 ATAAATATTT-TAAAAATT
1 A-AAAT-TTTATAAAAATT
6694791 CAAAATT
1 -AAAATT
6694798 CAAACTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 2 0.09
18 16 0.73
19 4 0.18
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATTTTATAAAAATT
Found at i:6694879 original size:26 final size:27
Alignment explanation
Indices: 6694833--6694886 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
6694823 TAATAATTCA
* *
6694833 ATCATAAAATTATAAAATTTAAGATAT
1 ATCATAAAATTACAAAATTTAAAATAT
*
6694860 ATCAT-AAATTACAAATTTTAAAATAT
1 ATCATAAAATTACAAAATTTAAAATAT
6694886 A
1 A
6694887 AAATTCATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 19 0.79
27 5 0.21
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (27 bp):
ATCATAAAATTACAAAATTTAAAATAT
Found at i:6695113 original size:30 final size:30
Alignment explanation
Indices: 6695074--6695131 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
6695064 AATTCTTATG
6695074 TAATAAAAAAGAAATATCTATATATAAAAT
1 TAATAAAAAAGAAATATCTATATATAAAAT
* * *
6695104 TAATGAAAAAGAAATATTTATATTTAAA
1 TAATAAAAAAGAAATATCTATATATAAA
6695132 TGAAAATTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (30 bp):
TAATAAAAAAGAAATATCTATATATAAAAT
Found at i:6695658 original size:17 final size:17
Alignment explanation
Indices: 6695628--6695669 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
6695618 CACAATTATT
*
6695628 TAAAA-TAATTTAATTA
1 TAAAATTAATCTAATTA
6695644 TAAAATTAATCTAATTA
1 TAAAATTAATCTAATTA
6695661 TAAAATTAA
1 TAAAATTAA
6695670 ACTCATCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAAATTAATCTAATTA
Found at i:6695884 original size:20 final size:22
Alignment explanation
Indices: 6695859--6695900 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
6695849 TAACCACTGC
6695859 TTTTTACAATT-TTT-ATTATA
1 TTTTTACAATTGTTTAATTATA
*
6695879 TTTTTATAATTGTTTAATTATA
1 TTTTTACAATTGTTTAATTATA
6695901 ATAAAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 3 0.16
22 6 0.32
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTTACAATTGTTTAATTATA
Found at i:6696275 original size:20 final size:19
Alignment explanation
Indices: 6696256--6696326 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 19
6696246 TAATAAATTA
6696256 ATAATTTAAATATTTTATT
1 ATAATTTAAATATTTTATT
* *
6696275 AAAAATTTTTAAA-ATTTAATT
1 -ATAA--TTTAAATATTTTATT
*
6696296 ATTATATTAAATATTTTATT
1 ATAAT-TTAAATATTTTATT
6696316 ATAATTTAAAT
1 ATAATTTAAAT
6696327 GTATTTATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
18 1 0.02
19 11 0.27
20 16 0.39
21 7 0.17
22 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATAATTTAAATATTTTATT
Found at i:6696298 original size:29 final size:30
Alignment explanation
Indices: 6696253--6696326 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
6696243 AATTAATAAA
*
6696253 TTAATAATTTAAATATTTTATTAAAAATTT
1 TTAATAATTTAAATATTATATTAAAAATTT
* *
6696283 TTAA-AATTTAATTATTATATTAAATATTT
1 TTAATAATTTAAATATTATATTAAAAATTT
*
6696312 TATTATAATTTAAAT
1 T-TAATAATTTAAAT
6696327 GTATTTATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 23 0.62
30 6 0.16
31 8 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
TTAATAATTTAAATATTATATTAAAAATTT
Found at i:6698170 original size:3 final size:3
Alignment explanation
Indices: 6698162--6698187 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6698152 TTTATAATAT
6698162 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
6698188 TTGGATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6699849 original size:17 final size:17
Alignment explanation
Indices: 6699807--6699852 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
6699797 GATTCCATGC
6699807 AATAA-AAAA-AATAAA
1 AATAATAAAATAATAAA
*
6699822 AATGCAT-AAATAATAAA
1 AAT-AATAAAATAATAAA
6699839 AATAATAAAATAAT
1 AATAATAAAATAAT
6699853 TTATTATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 3 0.12
16 6 0.24
17 16 0.64
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (17 bp):
AATAATAAAATAATAAA
Found at i:6703644 original size:52 final size:52
Alignment explanation
Indices: 6703557--6703701 Score: 175
Period size: 52 Copynumber: 2.8 Consensus size: 52
6703547 TATAACCATA
* * * **
6703557 CAAACTTGCCCATTAAGAATCTCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTACAAGT
* * * *
6703609 CAAATTTGCCTATTAAAAATCCCTTTCCTTTTAGAATTCTTCTCTTACAAGT
1 CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTACAAGT
* *
6703661 CAAACTTACCTATTAAGAATCCTCTTT-CTCTTGGAATTCTT
1 CAAACTTGCCTATTAAGAATCC-CTTTCCTCTTAGAATTCTT
6703702 TTTTTGCAAG
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
52 74 0.95
53 4 0.05
ACGTcount: A:0.27, C:0.26, G:0.08, T:0.40
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTACAAGT
Found at i:6703972 original size:2 final size:2
Alignment explanation
Indices: 6703965--6703996 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
6703955 TACTAAAATC
6703965 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6703997 AAGACAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6704453 original size:143 final size:143
Alignment explanation
Indices: 6704278--6704564 Score: 475
Period size: 143 Copynumber: 2.0 Consensus size: 143
6704268 AAAATTATAA
* *
6704278 ATCTATTAACTAATATGATATTTAAAATATTATTTATTCGTCACATATCATCATTTAAAGTTAAT
1 ATCTATTAACTAATATGATACTTAAAATATTATTTATTCGTCACATATCATCATTTAAAGCTAAT
* ** * * *
6704343 CATGTTTAAAATATCACATTGGTTAAAAAATTCATACTTTATGTACTATATTAGAAACTTTTAAA
66 CATGTTAAAAATATCACATTAATTAAAAAATTCATAATTTATATACTACATTAGAAACTTTTAAA
6704408 ATTCAAATATCAT
131 ATTCAAATATCAT
*
6704421 ATCTATTAACTAATATGATACTTCAAATATTATTTATTCGTCACATATCATCATTTAAAGCTAAT
1 ATCTATTAACTAATATGATACTTAAAATATTATTTATTCGTCACATATCATCATTTAAAGCTAAT
*
6704486 CATGTTAAAAATATCGCATTAATTAAAAAATTCATAATTTATATACTACATTAGAAACTTTTAAA
66 CATGTTAAAAATATCACATTAATTAAAAAATTCATAATTTATATACTACATTAGAAACTTTTAAA
*
6704551 GTTCAAATATCAT
131 ATTCAAATATCAT
6704564 A
1 A
6704565 GTAAACATTT
Statistics
Matches: 133, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
143 133 1.00
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.40
Consensus pattern (143 bp):
ATCTATTAACTAATATGATACTTAAAATATTATTTATTCGTCACATATCATCATTTAAAGCTAAT
CATGTTAAAAATATCACATTAATTAAAAAATTCATAATTTATATACTACATTAGAAACTTTTAAA
ATTCAAATATCAT
Found at i:6704949 original size:18 final size:17
Alignment explanation
Indices: 6704910--6704957 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 17
6704900 AATCTAATAA
*
6704910 TAAAAAATAAAAGAAAAT
1 TAAAAAAT-AACGAAAAT
*
6704928 TAAAAAATAACGAACAT
1 TAAAAAATAACGAAAAT
6704945 GTAAAAAAATAAC
1 -T-AAAAAATAAC
6704958 AAATAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 7 0.27
18 9 0.35
19 10 0.38
ACGTcount: A:0.71, C:0.06, G:0.06, T:0.17
Consensus pattern (17 bp):
TAAAAAATAACGAAAAT
Found at i:6708803 original size:19 final size:20
Alignment explanation
Indices: 6708774--6708814 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
6708764 ATGATATATT
6708774 TTTTAATTTTAT-AATATCAA
1 TTTTAATTTTATGAA-ATCAA
6708794 TTTT-ATTTTATGAAATCAA
1 TTTTAATTTTATGAAATCAA
6708813 TT
1 TT
6708815 GAATTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTAATTTTATGAAATCAA
Found at i:6709258 original size:21 final size:20
Alignment explanation
Indices: 6709199--6709260 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
6709189 TACTTTTTAT
6709199 TTATAATAATAATTTTTACA
1 TTATAATAATAATTTTTACA
* *
6709219 TTACCAAT-TTAATTATTTACA
1 TTA-TAATAATAATT-TTTACA
6709240 TTATAATAATATATTTTTACA
1 TTATAATAATA-ATTTTTACA
6709261 CATGTTCTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 11 0.32
21 20 0.59
22 3 0.09
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (20 bp):
TTATAATAATAATTTTTACA
Found at i:6709736 original size:21 final size:20
Alignment explanation
Indices: 6709712--6709751 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
6709702 ATAATAACAA
*
6709712 TAATTTTTTATGTTATCAATT
1 TAATTATTTATGTTA-CAATT
6709733 TAATTATTTATGTTACAAT
1 TAATTATTTATGTTACAAT
6709752 AAAATCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (20 bp):
TAATTATTTATGTTACAATT
Found at i:6709761 original size:21 final size:21
Alignment explanation
Indices: 6709713--6709761 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
6709703 TAATAACAAT
* **
6709713 AATTTTTTATGTTATCAATTT
1 AATTATTTATGTTATCAATAA
6709734 AATTATTTATGTTA-CAATAA
1 AATTATTTATGTTATCAATAA
6709754 AATCTATT
1 AAT-TATT
6709762 ATGCTAGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.53
Consensus pattern (21 bp):
AATTATTTATGTTATCAATAA
Found at i:6711054 original size:21 final size:21
Alignment explanation
Indices: 6711008--6711048 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
6710998 AAATTATTAT
*
6711008 TATTATTTATTAAAATATAAA
1 TATTATTTATCAAAATATAAA
*
6711029 TATTATTTATCAATATATAA
1 TATTATTTATCAAAATATAA
6711049 TAATTAATCC
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:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (21 bp):
TATTATTTATCAAAATATAAA
Found at i:6711651 original size:17 final size:17
Alignment explanation
Indices: 6711629--6711664 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
6711619 TGATTCATAA
6711629 TAATTTAATTATAAAAT
1 TAATTTAATTATAAAAT
6711646 TAATTTAATTATAAAAT
1 TAATTTAATTATAAAAT
6711663 TA
1 TA
6711665 GACTAATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATTTAATTATAAAAT
Found at i:6712328 original size:19 final size:18
Alignment explanation
Indices: 6712293--6712328 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6712283 TATTAAAAAA
*
6712293 TTTTTTAAAATTTTATTT
1 TTTTTTAAAATTCTATTT
6712311 TTTTTTAAAATTACTATT
1 TTTTTTAAAATT-CTATT
6712329 ATTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTTAAAATTCTATTT
Found at i:6714298 original size:18 final size:18
Alignment explanation
Indices: 6714259--6714292 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6714249 AATCTCGTCC
6714259 TATTATATTTTATTATTT
1 TATTATATTTTATTATTT
6714277 TATTAT-TTTTA-TATTT
1 TATTATATTTTATTATTT
6714293 GTTATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTATATTTTATTATTT
Found at i:6714626 original size:3 final size:3
Alignment explanation
Indices: 6714620--6714658 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
6714610 CATCATCATG
6714620 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6714659 GTGCATGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6714783 original size:2 final size:2
Alignment explanation
Indices: 6714776--6714811 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
6714766 AACATCATGA
6714776 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6714812 GGCATCATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6717925 original size:2 final size:2
Alignment explanation
Indices: 6717918--6717949 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
6717908 ACCTATATCT
*
6717918 TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6717950 AGAGATTCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6718199 original size:21 final size:21
Alignment explanation
Indices: 6718166--6718213 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
6718156 AACTTTATTT
* * * *
6718166 TAAATATTTTAAATATTAATG
1 TAAATAATATAAACATTAATA
*
6718187 TAAATAATATAAACATTATTA
1 TAAATAATATAAACATTAATA
6718208 TAAATA
1 TAAATA
6718214 CATAATAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TAAATAATATAAACATTAATA
Found at i:6718251 original size:24 final size:24
Alignment explanation
Indices: 6718216--6718278 Score: 90
Period size: 24 Copynumber: 2.5 Consensus size: 24
6718206 TATAAATACA
6718216 TAATAATTTTAATAATAAATAAATT
1 TAAT-ATTTTAATAATAAATAAATT
**
6718241 TAATATTTTAATAATAAATAGCTT
1 TAATATTTTAATAATAAATAAATT
6718265 TGAATATTTTAATA
1 T-AATATTTTAATA
6718279 GTTATGGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 19 0.54
25 16 0.46
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (24 bp):
TAATATTTTAATAATAAATAAATT
Found at i:6718693 original size:55 final size:56
Alignment explanation
Indices: 6718626--6718740 Score: 196
Period size: 55 Copynumber: 2.1 Consensus size: 56
6718616 AAATATTATT
* * *
6718626 TAAATGGTTAAGTTAAAAGCATTATTTTGATCGAAATACTGATTT-AAAAAAAATC
1 TAAATAGTTAAGTAAAAAGCATTATTTTAATCGAAATACTGATTTAAAAAAAAATC
6718681 TAAATAGTTAAGTAAAAAGCATTATTTTAATCGAAATACTGATTTAAAAAAAAATC
1 TAAATAGTTAAGTAAAAAGCATTATTTTAATCGAAATACTGATTTAAAAAAAAATC
6718737 TAAA
1 TAAA
6718741 CAACAAAAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 42 0.75
56 14 0.25
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (56 bp):
TAAATAGTTAAGTAAAAAGCATTATTTTAATCGAAATACTGATTTAAAAAAAAATC
Found at i:6720336 original size:8 final size:9
Alignment explanation
Indices: 6720295--6720339 Score: 51
Period size: 8 Copynumber: 5.3 Consensus size: 9
6720285 GATTCCATGC
6720295 AATAAAAA-
1 AATAAAAAT
6720303 AATAAAAAT
1 AATAAAAAT
* *
6720312 -GTATAAAT
1 AATAAAAAT
6720320 AATAAAAAT
1 AATAAAAAT
6720329 AAT-AAAAT
1 AATAAAAAT
6720337 AAT
1 AAT
6720340 TTATTATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
8 22 0.71
9 9 0.29
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (9 bp):
AATAAAAAT
Found at i:6720336 original size:17 final size:17
Alignment explanation
Indices: 6720295--6720339 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
6720285 GATTCCATGC
*
6720295 AATAAAAAAATAAAAAT
1 AATAAAATAATAAAAAT
*
6720312 -GTATAAATAATAAAAAT
1 AATA-AAATAATAAAAAT
6720329 AATAAAATAAT
1 AATAAAATAAT
6720340 TTATTATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.09
17 19 0.83
18 2 0.09
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AATAAAATAATAAAAAT
Found at i:6723247 original size:3 final size:3
Alignment explanation
Indices: 6723241--6723320 Score: 124
Period size: 3 Copynumber: 26.7 Consensus size: 3
6723231 TATAATTTTT
* * * *
6723241 TTA TTA TTG TTA TTA TGA TTA TAA TTA TTA TAA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6723289 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6723321 GCTACTACTA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:6724279 original size:15 final size:15
Alignment explanation
Indices: 6724261--6724293 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
6724251 TTTTTAATTT
6724261 TTTATTTTGAT-TTGA
1 TTTATTTT-ATGTTGA
6724276 TTTATTTTATGTTGA
1 TTTATTTTATGTTGA
6724291 TTT
1 TTT
6724294 TTATGTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 2 0.12
15 15 0.88
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (15 bp):
TTTATTTTATGTTGA
Found at i:6724302 original size:17 final size:18
Alignment explanation
Indices: 6724276--6724355 Score: 51
Period size: 18 Copynumber: 4.6 Consensus size: 18
6724266 TTTGATTTGA
*
6724276 TTTATTTTA-TGTTGATT
1 TTTATGTTATTGTTGATT
* *
6724293 TTTATGTTATTTTTTATT
1 TTTATGTTATTGTTGATT
* *
6724311 TTTATGATATTATTG-TT
1 TTTATGTTATTGTTGATT
* *
6724328 ATTATTATTATTGTT--TT
1 TTTA-TGTTATTGTTGATT
*
6724345 TTTATATTATT
1 TTTATGTTATT
6724356 ACTAATAATA
Statistics
Matches: 50, Mismatches: 11, Indels: 5
0.76 0.17 0.08
Matches are distributed among these distances:
16 7 0.14
17 18 0.36
18 25 0.50
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (18 bp):
TTTATGTTATTGTTGATT
Found at i:6724313 original size:18 final size:20
Alignment explanation
Indices: 6724285--6724335 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
6724275 ATTTATTTTA
*
6724285 TGTTGATTTTTATGTTATT-T
1 TGTT-ATTTTTATGATATTAT
6724305 T-TTATTTTTATGATATTAT
1 TGTTATTTTTATGATATTAT
*
6724324 TGTTATTATTAT
1 TGTTATTTTTAT
6724336 TATTGTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 13 0.48
19 4 0.15
20 10 0.37
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.69
Consensus pattern (20 bp):
TGTTATTTTTATGATATTAT
Found at i:6725095 original size:341 final size:334
Alignment explanation
Indices: 6724468--6725145 Score: 988
Period size: 341 Copynumber: 2.0 Consensus size: 334
6724458 AAAAATAACT
*
6724468 ATTTAAGGAAAATAAAATTTTATTGCAAGTAAAAAGGTTATTTAAATTTCACCAAAGTGTTAGGA
1 ATTTAAGGAAAATAAAATTTTATTGCAAGAAAAAAGGTTATTTAAATTTCACCAAAGTGTTAGGA
* * * *
6724533 CAATTTAAAATATAATTTTTGCTAAAAAATGATATTTAAAAGAAGATAATTAAAATAAAAAAGAA
66 CAATTTAAAATATAATTTTTGCTAAAAAATAAAATTTAAAAAAAGATAAATAAAAT---AAAGAA
* *
6724598 ATAATAAATTGCTTAAATGAATCTTTTAAATATAATTTTAGAGAAAACTGAAAGAATTTGATTTT
128 ATAATAAATTGCTTAAATGAATATTTTAAATATAATTTTAGAAAAAACTGAAAGAATTTGATTTT
* * *
6724663 CTTTAATTATTGCAAGTAAAAATAATTTTTCAGATTTTACCATGGAGTTAGAATAATCCAAAATT
193 CTTTAATTATTGCAAATAAAAATAATTTTTCAGATTTCACCATAGAGTTAGAATAATCCAAAATT
*
6724728 TTTTTTACTAGAATAAAAGTTTATTTAAACAATATAAATAATAATAATAATAATAAATAACAATA
258 TTTTTTACTAGAATAAAAGTTTATTTAAACAATAT-AA-AA-AATAACAA-AAT-AAT---AATA
6724793 ATTGATATTTTGAATAAATA
315 ATTGATATTTTGAATAAATA
*
6724813 ATTTAAGGAAAATAAAATTTTATTGCAAGAAAAAATGTTATTTAAATTTCACCAAAGTGTT-GGA
1 ATTTAAGGAAAATAAAATTTTATTGCAAGAAAAAAGGTTATTTAAATTTCACCAAAGTGTTAGG-
*
6724877 ATAATTTAAAATATAATTTTTGCTAAAAAATAAAATTTTAAAAAAAGATAAATAAAAT-AA-AAA
65 ACAATTTAAAATATAATTTTTGCTAAAAAATAAAA-TTTAAAAAAAGATAAATAAAATAAAGAAA
* * * *
6724940 TACTAAGTTGTTTAAATGAATATTTTAAATATAATTTTAGAAAAAACTGAAAGAATTTGGTTTTC
129 TAATAAATTGCTTAAATGAATATTTTAAATATAATTTTAGAAAAAACTGAAAGAATTTGATTTTC
** * * *
6725005 TTTAATTATTGCAAATAAAAATAATTTTTTGGATTTCACCATAGATTTGGAATAATCTAAAATTA
194 TTTAATTATTGCAAATAAAAATAATTTTTCAGATTTCACCATAGAGTTAGAATAATCCAAAATT-
6725070 TTTTTT-CTAGAAT-AAAGATTTATTTAAACAATATAAAAAATAACAAAATAATAATAATTGATA
258 TTTTTTACTAGAATAAAAG-TTTATTTAAACAATATAAAAAATAACAAAATAATAATAATTGATA
6725133 TTTTGAATAAATA
322 TTTTGAATAAATA
6725146 TTTTTTAAAA
Statistics
Matches: 307, Mismatches: 22, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
333 24 0.08
336 3 0.01
337 3 0.01
338 7 0.02
339 2 0.01
340 6 0.02
341 141 0.46
342 8 0.03
344 2 0.01
345 91 0.30
346 20 0.07
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (334 bp):
ATTTAAGGAAAATAAAATTTTATTGCAAGAAAAAAGGTTATTTAAATTTCACCAAAGTGTTAGGA
CAATTTAAAATATAATTTTTGCTAAAAAATAAAATTTAAAAAAAGATAAATAAAATAAAGAAATA
ATAAATTGCTTAAATGAATATTTTAAATATAATTTTAGAAAAAACTGAAAGAATTTGATTTTCTT
TAATTATTGCAAATAAAAATAATTTTTCAGATTTCACCATAGAGTTAGAATAATCCAAAATTTTT
TTTACTAGAATAAAAGTTTATTTAAACAATATAAAAAATAACAAAATAATAATAATTGATATTTT
GAATAAATA
Found at i:6726606 original size:18 final size:20
Alignment explanation
Indices: 6726583--6726624 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
6726573 AAGTTGAGCC
*
6726583 ATTTTTAGTTTT-TTT-TTT
1 ATTTTTAATTTTGTTTATTT
6726601 ATTTTTAATTTTGTTTATTT
1 ATTTTTAATTTTGTTTATTT
6726621 ATTT
1 ATTT
6726625 ATTTATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
19 3 0.14
20 7 0.33
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.79
Consensus pattern (20 bp):
ATTTTTAATTTTGTTTATTT
Found at i:6732155 original size:8 final size:8
Alignment explanation
Indices: 6732139--6732181 Score: 59
Period size: 8 Copynumber: 5.1 Consensus size: 8
6732129 AAAAAAACTT
6732139 ATAAAATAA
1 ATAAAA-AA
*
6732148 ATAAATAA
1 ATAAAAAA
6732156 ATAAACAAA
1 ATAAA-AAA
6732165 ATAAAAAA
1 ATAAAAAA
6732173 ATAAAAAA
1 ATAAAAAA
6732181 A
1 A
6732182 AACCAAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
8 19 0.61
9 12 0.39
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.16
Consensus pattern (8 bp):
ATAAAAAA
Found at i:6732182 original size:17 final size:17
Alignment explanation
Indices: 6732139--6732182 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
6732129 AAAAAAACTT
* *
6732139 ATAAAATAAATAAATAA
1 ATAAAAAAAATAAAAAA
*
6732156 ATAAACAAAATAAAAAA
1 ATAAAAAAAATAAAAAA
6732173 ATAAAAAAAA
1 ATAAAAAAAA
6732183 ACCAAAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (17 bp):
ATAAAAAAAATAAAAAA
Found at i:6733881 original size:19 final size:20
Alignment explanation
Indices: 6733837--6733889 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
6733827 TCATTTAAAC
*
6733837 AATTTATCATTTTTTTTATTT
1 AATTTATCA-TTTTTTTATTA
*
6733858 CATTTATC-TTTTTTTATTA
1 AATTTATCATTTTTTTATTA
6733877 AATTT-T-ATTTTTT
1 AATTTATCATTTTTT
6733890 AGCAAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 7 0.25
19 14 0.50
21 7 0.25
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.72
Consensus pattern (20 bp):
AATTTATCATTTTTTTATTA
Found at i:6734044 original size:338 final size:336
Alignment explanation
Indices: 6733640--6734314 Score: 1054
Period size: 338 Copynumber: 2.0 Consensus size: 336
6733630 TTTTAAAAAA
*
6733640 TATTTATTCAAGATATCAATTATTATTATTTTATTATTTAATATATTATTTAAATAAACCTTTAT
1 TATTTATTCAAAATATCAATTATTATTATTTTATTATTT-ATATATTATTTAAATAAACCTTTAT
* *
6733705 TCTAGTAAAAATAATTTTAGATTATTCCAACTCTATGGTGAAATCCAAAAAATTATTTTTATTTG
65 TCTAGTAAAAATAATTTTAGATTATTCCAACTCTATGGTAAAATCCAAAAAATTATTTTTACTTG
* * * *
6733770 CAATAATTAAAGAAAACCAAATTCTTTCAATTTTTTCTAAAATTATATTTAAAAGATTCATTTAA
130 CAATAATTAAAGAAAACAAAATTATTTCAATTTTCTATAAAATTATATTTAAAAGATTCATTTAA
* *
6733835 AC-AATTTATCA-TT-TTTTTTATTTCATTTATCTTTTTTTATTAA-ATTTTATTTTTTAGCAAA
195 ACAAATTT-TCATTTCTTTTTTATTTCATTTATCTTTTTTTA--AATATTAT-TTTTTTAGAAAA
6733896 AATTATATTTTAAATTATCCCAACACTTTGGTGAAATTTAAATAACCTTTTTGCTTGCAACAAAA
256 AATTATATTTTAAATTATCCCAACACTTTGGTGAAATTTAAATAA-CTTTTTGCTTGCAACAAAA
*
6733961 TTTTATTTTTCTTAAAT
320 TTTTATTTTCCTTAAAT
* * *
6733978 TATTTATTCAAAATATCAATTATTCTTATTTATTATTATTT-TATATTGTTTAAATAAACTTTTA
1 TATTTATTCAAAATATCAATTATTATTA-TT-TTATTATTTATATATTATTTAAATAAACCTTTA
* * **
6734042 TTCTAGTAAAAATAATTTTTGATTATTCTAACTCTATGGTAAAATCTGAAAAATTATTTTTACTT
64 TTCTAGTAAAAATAATTTTAGATTATTCCAACTCTATGGTAAAATCCAAAAAATTATTTTTACTT
*
6734107 GCAATAATTAAAGAAAATAAAATTATTTCAATTTTCTATAAAATTATATTTAAAAGATTCATTTA
129 GCAATAATTAAAGAAAACAAAATTATTTCAATTTTCTATAAAATTATATTTAAAAGATTCATTTA
*
6734172 AACAAATTTTCATTTCTTTTTTATTTTATTTATCTTTTTTTAAATATTATTTTTTTAGAAAAAAT
194 AACAAATTTTCATTTCTTTTTTATTTCATTTATCTTTTTTTAAATATTATTTTTTTAGAAAAAAT
* *
6734237 TATATTTTAAATTATCCTAACACTTTGGTGAAATTTAAATAACTTTTTGCTTGCAATAAAATTTT
259 TATATTTTAAATTATCCCAACACTTTGGTGAAATTTAAATAACTTTTTGCTTGCAACAAAATTTT
6734302 ATTTTCCTTAAAT
324 ATTTTCCTTAAAT
6734315 AGTTATTGTT
Statistics
Matches: 310, Mismatches: 21, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
337 34 0.11
338 229 0.74
339 13 0.04
340 34 0.11
ACGTcount: A:0.37, C:0.09, G:0.04, T:0.49
Consensus pattern (336 bp):
TATTTATTCAAAATATCAATTATTATTATTTTATTATTTATATATTATTTAAATAAACCTTTATT
CTAGTAAAAATAATTTTAGATTATTCCAACTCTATGGTAAAATCCAAAAAATTATTTTTACTTGC
AATAATTAAAGAAAACAAAATTATTTCAATTTTCTATAAAATTATATTTAAAAGATTCATTTAAA
CAAATTTTCATTTCTTTTTTATTTCATTTATCTTTTTTTAAATATTATTTTTTTAGAAAAAATTA
TATTTTAAATTATCCCAACACTTTGGTGAAATTTAAATAACTTTTTGCTTGCAACAAAATTTTAT
TTTCCTTAAAT
Found at i:6734506 original size:20 final size:20
Alignment explanation
Indices: 6734486--6734522 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
6734476 AAATAGCATA
*
6734486 AAAATCAACAT-AAAATAAT
1 AAAATCAAAATCAAAATAAT
6734505 AAAATCAAAATCAAAATA
1 AAAATCAAAATCAAAATA
6734523 GAAAATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (20 bp):
AAAATCAAAATCAAAATAAT
Found at i:6734514 original size:25 final size:24
Alignment explanation
Indices: 6734468--6734532 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 24
6734458 AATATCATAA
** *
6734468 AAAATAAAAAATAGCATAAAAATC
1 AAAATAAAAAATAAAATCAAAATC
*
6734492 AACATAAAATAATAAAATCAAAATC
1 AAAATAAAA-AATAAAATCAAAATC
*
6734517 AAAATAGAAAATAAAA
1 AAAATAAAAAATAAAA
6734533 AGAAAAAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 15 0.44
25 19 0.56
ACGTcount: A:0.72, C:0.08, G:0.03, T:0.17
Consensus pattern (24 bp):
AAAATAAAAAATAAAATCAAAATC
Found at i:6734527 original size:19 final size:19
Alignment explanation
Indices: 6734486--6734538 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
6734476 AAATAGCATA
* *
6734486 AAAATCAACATAAAATAAT
1 AAAATCAAAATAAAATAAG
6734505 AAAATCAAAATCAAAAT-AG
1 AAAATCAAAAT-AAAATAAG
* *
6734524 AAAATAAAAAGAAAA
1 AAAATCAAAATAAAA
6734539 AAAAGGGGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 4 0.14
19 20 0.69
20 5 0.17
ACGTcount: A:0.74, C:0.08, G:0.04, T:0.15
Consensus pattern (19 bp):
AAAATCAAAATAAAATAAG
Found at i:6734914 original size:11 final size:11
Alignment explanation
Indices: 6734897--6734926 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6734887 TTGGCCACCC
6734897 AAAAAATTTTT
1 AAAAAATTTTT
*
6734908 CAAAAATTTTT
1 AAAAAATTTTT
6734919 AAAAAATT
1 AAAAAATT
6734927 CCAAATTGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (11 bp):
AAAAAATTTTT
Found at i:6735507 original size:3 final size:3
Alignment explanation
Indices: 6735501--6735553 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
6735491 TTAGTAGTAG
6735501 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6735549 TAA TA
1 TAA TA
6735554 TAAACAAAAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6735748 original size:36 final size:36
Alignment explanation
Indices: 6735677--6735750 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 36
6735667 AAAACTTTTG
* * *
6735677 TTAAAGTCTTATAGCCTCTAGTTAGAAGAGTCTTCT
1 TTAAAATCTTATAACCTCTAGTTAGAAGAGCCTTCT
* *
6735713 TTAAAATCTTATAACTTTTAGTTAG-AGAAGCCTTCT
1 TTAAAATCTTATAACCTCTAGTTAGAAG-AGCCTTCT
6735749 TT
1 TT
6735751 TCAAAGTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
35 2 0.06
36 30 0.94
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.42
Consensus pattern (36 bp):
TTAAAATCTTATAACCTCTAGTTAGAAGAGCCTTCT
Found at i:6735883 original size:10 final size:9
Alignment explanation
Indices: 6735863--6735887 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6735853 TTTCTTTCAC
6735863 AAAAAAGAA
1 AAAAAAGAA
6735872 AAAAAAGAA
1 AAAAAAGAA
6735881 AAAAAAG
1 AAAAAAG
6735888 TTTGTGTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:6737059 original size:24 final size:24
Alignment explanation
Indices: 6737014--6737076 Score: 90
Period size: 24 Copynumber: 2.5 Consensus size: 24
6737004 ATAACCATAC
6737014 TATTAAAATATTCAAAAATATTTAT
1 TATTAAAATATT-AAAAATATTTAT
* *
6737039 TATTAAAATATTAAAATTATTTGT
1 TATTAAAATATTAAAAATATTTAT
6737063 TATTAAAATTATTA
1 TATTAAAA-TATTA
6737077 TGTAGTTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 18 0.51
25 17 0.49
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
TATTAAAATATTAAAAATATTTAT
Found at i:6738254 original size:29 final size:29
Alignment explanation
Indices: 6738220--6738295 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 29
6738210 TTGAGTTATA
6738220 ATAAAATATTTAATATAATAATTAAAATT
1 ATAAAATATTTAATATAATAATTAAAATT
* * *
6738249 TTAAAAAATTTAATATAAT-ATTTAAATT
1 ATAAAATATTTAATATAATAATTAAAATT
* *
6738277 ATAAATTAATTAAT-TAATA
1 ATAAAATATTTAATATAATA
6738296 TAATACTTGT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
27 4 0.10
28 18 0.46
29 17 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
ATAAAATATTTAATATAATAATTAAAATT
Found at i:6746161 original size:2 final size:2
Alignment explanation
Indices: 6746156--6746180 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6746146 TGTAAGTGTG
6746156 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6746181 TTATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6750939 original size:2 final size:2
Alignment explanation
Indices: 6750927--6750955 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6750917 TGGATGGTGG
6750927 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6750956 CATTTGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6755162 original size:16 final size:17
Alignment explanation
Indices: 6755138--6755170 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
6755128 AATAAATAAA
6755138 TAAACAAAAACAAAAAT
1 TAAACAAAAACAAAAAT
6755155 TAAA-AAAAACAAAAAT
1 TAAACAAAAACAAAAAT
6755171 AGCTCAGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (17 bp):
TAAACAAAAACAAAAAT
Found at i:6757100 original size:323 final size:324
Alignment explanation
Indices: 6756657--6757284 Score: 912
Period size: 323 Copynumber: 1.9 Consensus size: 324
6756647 TATTATTATT
6756657 TTATTTTTTTATATTGTTTAAATAAATCTTTATTCTAGAAAAAATAATTTAGATTATTCCAACTC
1 TTATTTTTTTATATTGTTTAAATAAATCTTTATTCTAGAAAAAATAATTTAGATTATTCCAACTC
* * * *
6756722 TATGGTGAAATCCAAAAGATTATTTTTACTTGCAATAATTAAAGAAAACCAAATTCTTTCAGTTT
66 TATGGTAAAATCCAAAAAAATATTTTTACTTGCAATAACTAAAGAAAACCAAATTCTTTCAGTTT
* *
6756787 TTTCTAAAATTATATTTAAAAGATTCATTTAAATAATTTAACA-TT-TTTTAT-TTTA-TTTA-C
131 TCTCT-AAATTATATTTAAAAGATTCATTTAAACAATTTAACATTTCTTTTATATTTATTTTATC
*
6756847 TATTTTTAAAATTTTAGTTTTTTAGCAAAAATTATATTTCAAAATTATCCCAACAC-TTTGATGA
195 T-TTTTTAAAATATTAGTTTTTTAGC-AAAATTATATTT-AAAATTATCCCAACACTTTTGATGA
* *
6756911 AATTTAAATAACCTTTTTGCTTG-TAATAAAATTTTATTTTCATTAAATTATTTATTCAAAATAT
257 AATTTAAATAACCTTTTTACTTGCCAATAAAATTTTATTTTCATTAAATTATTTATTCAAAATAT
6756975 CAA
322 CAA
* * * *
6756978 TTATTATTTTTATATTTTTTAAATAAA-CTTTTATTCTAGTAAAAATAATTCTGGATTATTCTAA
1 TTATT-TTTTTATATTGTTTAAATAAATC-TTTATTCTAGAAAAAATAATT-TAGATTATTCCAA
* *
6757042 CTCTATGGTAAAATCCAAAAAAATATTTTTACTTGCTATAACTAAAGAAAATCAAATTCTTTCAG
63 CTCTATGGTAAAATCCAAAAAAATATTTTTACTTGCAATAACTAAAGAAAACCAAATTCTTTCAG
* *
6757107 TTTTCTCTAAATTATATTTAAAAGATTCATTTAAACAATTTATCATTTCTTTTTTATTTATTTTA
128 TTTTCTCTAAATTATATTTAAAAGATTCATTTAAACAATTTAACATTTCTTTTATATTTATTTTA
** * * * * *
6757172 TCTTTTTTTTAATATTATTTTTTTGGCAAAATTATATTTTAAATTATCCTAACACTTTTGGTGAA
193 TCTTTTTTAAAATATTAGTTTTTTAGCAAAATTATATTTAAAATTATCCCAACACTTTTGATGAA
*
6757237 ATTTAAATAACCTTTTTACTTGCCAATAAAATTTTATTTTCCTTAAAT
258 ATTTAAATAACCTTTTTACTTGCCAATAAAATTTTATTTTCATTAAAT
6757285 AGTTAGTATT
Statistics
Matches: 272, Mismatches: 25, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
321 6 0.02
322 75 0.28
323 79 0.29
324 19 0.07
325 45 0.17
326 46 0.17
327 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.05, T:0.48
Consensus pattern (324 bp):
TTATTTTTTTATATTGTTTAAATAAATCTTTATTCTAGAAAAAATAATTTAGATTATTCCAACTC
TATGGTAAAATCCAAAAAAATATTTTTACTTGCAATAACTAAAGAAAACCAAATTCTTTCAGTTT
TCTCTAAATTATATTTAAAAGATTCATTTAAACAATTTAACATTTCTTTTATATTTATTTTATCT
TTTTTAAAATATTAGTTTTTTAGCAAAATTATATTTAAAATTATCCCAACACTTTTGATGAAATT
TAAATAACCTTTTTACTTGCCAATAAAATTTTATTTTCATTAAATTATTTATTCAAAATATCAA
Found at i:6757169 original size:22 final size:21
Alignment explanation
Indices: 6757144--6757191 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
6757134 CATTTAAACA
*
6757144 ATTTATCATTTCTTTTTTAT-TT
1 ATTTATC-TTT-TTTTTAATATT
6757166 ATTTTATCTTTTTTTTAATATT
1 A-TTTATCTTTTTTTTAATATT
6757188 ATTT
1 ATTT
6757192 TTTTGGCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 10 0.43
22 7 0.30
23 6 0.26
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (21 bp):
ATTTATCTTTTTTTTAATATT
Found at i:6757189 original size:17 final size:18
Alignment explanation
Indices: 6757154--6757195 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
6757144 ATTTATCATT
* *
6757154 TCTTTTTTATTTATTTTA
1 TCTTTTTTATTAATATTA
6757172 TCTTTTTT-TTAATATTA
1 TCTTTTTTATTAATATTA
6757189 T-TTTTTT
1 TCTTTTTT
6757196 GGCAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 6 0.27
17 8 0.36
18 8 0.36
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (18 bp):
TCTTTTTTATTAATATTA
Found at i:6757193 original size:23 final size:23
Alignment explanation
Indices: 6757145--6757192 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
6757135 ATTTAAACAA
*
6757145 TTTATCATTTCTTTTTTATTTAT
1 TTTATCATTTCTTTTTAATTTAT
6757168 TTTATC-TTT-TTTTTAATATTAT
1 TTTATCATTTCTTTTTAAT-TTAT
6757190 TTT
1 TTT
6757193 TTTGGCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 10 0.43
23 6 0.26
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTATCATTTCTTTTTAATTTAT
Found at i:6757459 original size:20 final size:21
Alignment explanation
Indices: 6757423--6757469 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
6757413 TAAAAAATAA
6757423 AAAATAACATAAAATCAACAT-
1 AAAATAACATAAAATCAA-ATC
*
6757444 AAAATAA-ATCAAATCAAATC
1 AAAATAACATAAAATCAAATC
6757464 AAAATA
1 AAAATA
6757470 GAAAATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 15 0.62
21 7 0.29
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAATAACATAAAATCAAATC
Found at i:6758410 original size:3 final size:3
Alignment explanation
Indices: 6758397--6758492 Score: 102
Period size: 3 Copynumber: 31.0 Consensus size: 3
6758387 TTGGTAGAAT
* * * * * *
6758397 TAA TAA TTAA TAA TTAA TAA TTAG TAG TAG TAA TAG TAC TAG TAA TAA
1 TAA TAA -TAA TAA -TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
6758445 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6758493 CAACAAAATT
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
3 74 0.90
4 8 0.10
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6760061 original size:3 final size:3
Alignment explanation
Indices: 6760055--6760083 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6760045 TATTATTGTT
6760055 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6760084 TATTATTATT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Done.