Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 38 of 43
Found at i:8189072 original size:23 final size:23
Alignment explanation
Indices: 8189044--8189091 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
8189034 TTTAACCTTA
*
8189044 TAGTATCGATATTGCTCTTCCAG
1 TAGTATCGATATTACTCTTCCAG
*
8189067 TAGTATCGATATTATTCTTCCAG
1 TAGTATCGATATTACTCTTCCAG
8189090 TA
1 TA
8189092 CTGATACCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.42
Consensus pattern (23 bp):
TAGTATCGATATTACTCTTCCAG
Found at i:8197732 original size:3 final size:3
Alignment explanation
Indices: 8197724--8197774 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
8197714 TAAAAATGTA
*
8197724 AAT AAT AAT ATT AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8197771 AAT A
1 AAT A
8197775 TTTTTTAAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8200324 original size:26 final size:22
Alignment explanation
Indices: 8200271--8200327 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
8200261 TGTTTAGACG
8200271 ATATCAATCAAGTTTGACTGAC
1 ATATCAATCAAGTTTGACTGAC
8200293 ATATCAATCAAGTTTGACTGAC
1 ATATCAATCAAGTTTGACTGAC
8200315 ATATCAATCAAGT
1 ATATCAATCAAGT
8200328 ACCTTCCCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.32
Consensus pattern (22 bp):
ATATCAATCAAGTTTGACTGAC
Found at i:8209452 original size:18 final size:18
Alignment explanation
Indices: 8209429--8209469 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
8209419 TGCTAGAATA
8209429 GTATCGATACCAAAGTGG
1 GTATCGATACCAAAGTGG
* *
8209447 GTATCGGTACCGAAGTGG
1 GTATCGATACCAAAGTGG
8209465 GTATC
1 GTATC
8209470 TGTATCATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (18 bp):
GTATCGATACCAAAGTGG
Found at i:8210100 original size:48 final size:48
Alignment explanation
Indices: 8210043--8210143 Score: 150
Period size: 48 Copynumber: 2.1 Consensus size: 48
8210033 ACATACTTTG
*
8210043 TGTATGATGGTTATC-GATCGATTTTGTTTAATGCATAAGTTACATTTT
1 TGTATGATGGTTA-CAGATCGATTTTGTTTAATCCATAAGTTACATTTT
* *
8210091 TGTATGATGGTTACAGATTGATTTTGTTTAATCCATATGTTACATTTT
1 TGTATGATGGTTACAGATCGATTTTGTTTAATCCATAAGTTACATTTT
*
8210139 CGTAT
1 TGTAT
8210144 TAGTACTATG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 1 0.02
48 47 0.98
ACGTcount: A:0.25, C:0.09, G:0.18, T:0.49
Consensus pattern (48 bp):
TGTATGATGGTTACAGATCGATTTTGTTTAATCCATAAGTTACATTTT
Found at i:8210222 original size:53 final size:53
Alignment explanation
Indices: 8210159--8210274 Score: 135
Period size: 53 Copynumber: 2.2 Consensus size: 53
8210149 CTATGTGTAC
* ** *
8210159 TTTCGGCACTATTTGTACACCCATGGTATT-AATAATGAATTTATGGATGACCA
1 TTTCGGCACTATATGTACACCCATGAAATTCAA-AATGAATTTATGGATCACCA
* * * *
8210212 TTTCGGCACTATATGTGCATCCATGAAATTCAAAATGAGTTTGTGGATCACCA
1 TTTCGGCACTATATGTACACCCATGAAATTCAAAATGAATTTATGGATCACCA
*
8210265 TTTTGGCACT
1 TTTCGGCACT
8210275 TAGGTGAAAC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 51 0.96
54 2 0.04
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (53 bp):
TTTCGGCACTATATGTACACCCATGAAATTCAAAATGAATTTATGGATCACCA
Found at i:8217228 original size:47 final size:48
Alignment explanation
Indices: 8217177--8217267 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
8217167 GTGTATGACA
*
8217177 GTTATCAATCAATTTT-TTTAATGCATA-AGTTGTATTTTCGTATGATG
1 GTTATCAATCAATTTTGTTTAATGCATATA-TTGCATTTTCGTATGATG
* *
8217224 GTTATCGATCGATTTTGTTTAATGCATATATTGCATTTTCGTAT
1 GTTATCAATCAATTTTGTTTAATGCATATATTGCATTTTCGTAT
8217268 CAATACTATG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
47 14 0.36
48 24 0.62
49 1 0.03
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.49
Consensus pattern (48 bp):
GTTATCAATCAATTTTGTTTAATGCATATATTGCATTTTCGTATGATG
Found at i:8217377 original size:53 final size:53
Alignment explanation
Indices: 8217296--8217398 Score: 152
Period size: 53 Copynumber: 1.9 Consensus size: 53
8217286 CAGCAGTATG
* *
8217296 TGTGCACCCATGGTATTCATAATGAGTTTATGAATGACCATTTCGGCACTATA
1 TGTGCACCCATGGAATTCATAATAAGTTTATGAATGACCATTTCGGCACTATA
* * * *
8217349 TGTGCATCCATGGAATTCATAATAAGTTTTTGGATTACCATTTCGGCACT
1 TGTGCACCCATGGAATTCATAATAAGTTTATGAATGACCATTTCGGCACT
8217399 TAGGTGAAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (53 bp):
TGTGCACCCATGGAATTCATAATAAGTTTATGAATGACCATTTCGGCACTATA
Found at i:8217601 original size:12 final size:12
Alignment explanation
Indices: 8217584--8217608 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8217574 ATTTAATTCA
8217584 TATTTTGATAGT
1 TATTTTGATAGT
8217596 TATTTTGATAGT
1 TATTTTGATAGT
8217608 T
1 T
8217609 TATGATATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (12 bp):
TATTTTGATAGT
Found at i:8219554 original size:22 final size:23
Alignment explanation
Indices: 8219529--8219579 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
8219519 TAAGTGCATA
*
8219529 ATAAAAT-CTATTAGTAA-ATTTC
1 ATAAAATACT-TTAGAAAGATTTC
*
8219551 ATAAAATAGTTTAGAAAGATTTC
1 ATAAAATACTTTAGAAAGATTTC
8219574 ATAAAA
1 ATAAAA
8219580 GTGACAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (23 bp):
ATAAAATACTTTAGAAAGATTTC
Found at i:8222582 original size:16 final size:15
Alignment explanation
Indices: 8222554--8222589 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
8222544 TTTCTTTCAA
*
8222554 AAAAATAATTAAAAT
1 AAAAATAAATAAAAT
8222569 AAAAATAAAATAAAAT
1 AAAAAT-AAATAAAAT
8222585 AAAAA
1 AAAAA
8222590 ATTGGGGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAAATAAATAAAAT
Found at i:8223349 original size:32 final size:32
Alignment explanation
Indices: 8223310--8223523 Score: 241
Period size: 32 Copynumber: 6.7 Consensus size: 32
8223300 GATACACTGA
* *
8223310 TGTGCATTATCTGAATGTGACA-TAGATATTAT
1 TGTGCATTATCTGAATGTGACACTA-ACACTAT
* *
8223342 TGTGCATTATTTGAATGTGACACTAATACTAT
1 TGTGCATTATCTGAATGTGACACTAACACTAT
* *
8223374 TGTGCATTATCTAAATGTGACACTAACATTAT
1 TGTGCATTATCTGAATGTGACACTAACACTAT
* * **
8223406 TGTGCATTATCTAAATGTGAAACTAACACTGC
1 TGTGCATTATCTGAATGTGACACTAACACTAT
* * * *
8223438 TATGCAATATCTGAATGTGACACTAACACCAC
1 TGTGCATTATCTGAATGTGACACTAACACTAT
* * * *
8223470 TATGCATTATCTGAATATGACACTGACATTAT
1 TGTGCATTATCTGAATGTGACACTAACACTAT
*
8223502 TGTGCATTATCTAAATGTGACA
1 TGTGCATTATCTGAATGTGACA
8223524 TGCTGCTAGT
Statistics
Matches: 156, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
32 154 0.99
33 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36
Consensus pattern (32 bp):
TGTGCATTATCTGAATGTGACACTAACACTAT
Found at i:8223423 original size:96 final size:95
Alignment explanation
Indices: 8223310--8223524 Score: 268
Period size: 96 Copynumber: 2.2 Consensus size: 95
8223300 GATACACTGA
* * * * * * * * * *
8223310 TGTGCATTATCTGAATGTGACATAGATATTATTGTGCATTATTTGAATGTGACACTAATACTATT
1 TGTGCATTATCTAAATGTGACATA-ACACTACTATGCAATATCTGAATGTGACACTAACACCACT
* *
8223375 GTGCATTATCTAAATGTGACACTAACATTAT
65 ATGCATTATCTAAATATGACACTAACATTAT
* *
8223406 TGTGCATTATCTAAATGTGAAACTAACACTGCTATGCAATATCTGAATGTGACACTAACACCACT
1 TGTGCATTATCTAAATGTGACA-TAACACTACTATGCAATATCTGAATGTGACACTAACACCACT
* *
8223471 ATGCATTATCTGAATATGACACTGACATTAT
65 ATGCATTATCTAAATATGACACTAACATTAT
8223502 TGTGCATTATCTAAATGTGACAT
1 TGTGCATTATCTAAATGTGACAT
8223525 GCTGCTAGTA
Statistics
Matches: 101, Mismatches: 17, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
95 1 0.01
96 98 0.97
97 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (95 bp):
TGTGCATTATCTAAATGTGACATAACACTACTATGCAATATCTGAATGTGACACTAACACCACTA
TGCATTATCTAAATATGACACTAACATTAT
Found at i:8224588 original size:21 final size:22
Alignment explanation
Indices: 8224555--8224626 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
8224545 AAGAAACCTC
* * *
8224555 CTAGTATTGGTACTATTATTT-
1 CTAGTACTAGTACTACTATTTA
*
8224576 CTAGTACTAGTACTGCTATTTA
1 CTAGTACTAGTACTACTATTTA
* * * *
8224598 CTAGTACCAATATTACCATTTA
1 CTAGTACTAGTACTACTATTTA
8224620 CTAGTAC
1 CTAGTAC
8224627 CACTATTATC
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
21 17 0.41
22 24 0.59
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (22 bp):
CTAGTACTAGTACTACTATTTA
Found at i:8224618 original size:22 final size:22
Alignment explanation
Indices: 8224593--8224640 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
8224583 TAGTACTGCT
8224593 ATTTACTAGTACCAATATTACC
1 ATTTACTAGTACCAATATTACC
* *
8224615 ATTTACTAGTACCACTATTATC
1 ATTTACTAGTACCAATATTACC
8224637 ATTT
1 ATTT
8224641 TCAAATACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (22 bp):
ATTTACTAGTACCAATATTACC
Found at i:8227967 original size:3 final size:3
Alignment explanation
Indices: 8227961--8227996 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
8227951 TTTACTCATT
* *
8227961 TTA TTA TAA TTA TTA TTA TTA TAA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8227997 AAAAATAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:8227981 original size:15 final size:15
Alignment explanation
Indices: 8227961--8227996 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
8227951 TTTACTCATT
8227961 TTATTATAATTATTA
1 TTATTATAATTATTA
8227976 TTATTATAATTATTA
1 TTATTATAATTATTA
8227991 TTATTA
1 TTATTA
8227997 AAAAATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATTATAATTATTA
Found at i:8229293 original size:22 final size:20
Alignment explanation
Indices: 8229275--8229337 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
8229265 AATATTTTCA
8229275 TATAGTTTTAATTATATTTT
1 TATAGTTTTAATTATATTTT
* *
8229295 TATTGTTTTAATTTTACTTGTT
1 TATAGTTTTAATTATA-TT-TT
8229317 TATA-TATTTAA--ATATTTT
1 TATAGT-TTTAATTATATTTT
8229335 TAT
1 TAT
8229338 TATTATTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
18 5 0.14
19 2 0.06
20 16 0.44
21 3 0.08
22 10 0.28
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (20 bp):
TATAGTTTTAATTATATTTT
Found at i:8230101 original size:17 final size:19
Alignment explanation
Indices: 8230081--8230120 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
8230071 CTTTTCAATT
*
8230081 TTTTTATA-TATTTAT-TA
1 TTTTTATAGTATGTATATA
8230098 TTTTTATAGTATGTATATA
1 TTTTTATAGTATGTATATA
8230117 TTTT
1 TTTT
8230121 CCTATTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 6 0.30
19 6 0.30
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTTTATAGTATGTATATA
Found at i:8233440 original size:15 final size:15
Alignment explanation
Indices: 8233420--8233451 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8233410 ATCAATACCT
8233420 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
8233435 TTTTGCATACATTCA
1 TTTTGCATACATGCA
8233450 TT
1 TT
8233452 ATTCATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:8240606 original size:7 final size:7
Alignment explanation
Indices: 8240591--8240680 Score: 102
Period size: 7 Copynumber: 13.6 Consensus size: 7
8240581 CTTGAAGAAA
8240591 AAAAAAG
1 AAAAAAG
*
8240598 AAGAAAG
1 AAAAAAG
*
8240605 -AAAAGG
1 AAAAAAG
*
8240611 AGAAAAG
1 AAAAAAG
8240618 AAAAAAG
1 AAAAAAG
8240625 -AAAAAG
1 AAAAAAG
8240631 AAAAAGAG
1 AAAAA-AG
8240639 AAAAAAG
1 AAAAAAG
8240646 ---AAAG
1 AAAAAAG
8240650 AAAAAAG
1 AAAAAAG
8240657 AAAAAAG
1 AAAAAAG
8240664 AAAAAAG
1 AAAAAAG
8240671 AAAAAA-
1 AAAAAAG
8240677 AAAA
1 AAAA
8240681 GGGGGGGTTA
Statistics
Matches: 71, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.06
6 14 0.20
7 46 0.65
8 7 0.10
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:8240618 original size:20 final size:19
Alignment explanation
Indices: 8240588--8240680 Score: 102
Period size: 20 Copynumber: 4.8 Consensus size: 19
8240578 ATGCTTGAAG
*
8240588 AAAA-AAAAAGAAGAAAGA
1 AAAAGAAAAAGAAAAAAGA
*
8240606 AAAGGAGAAAAGAAAAAAGA
1 AAAAGA-AAAAGAAAAAAGA
8240626 AAAAGAAAAAGAGAAAAA-A
1 AAAAGAAAAAGA-AAAAAGA
*
8240645 GAAAGAAAAAAGAAAAAAGAA
1 AAAAG-AAAAAGAAAAAAG-A
8240666 AAAAGAAAAA-AAAAA
1 AAAAGAAAAAGAAAAA
8240681 GGGGGGGTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
18 3 0.05
19 22 0.34
20 34 0.53
21 5 0.08
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAGAAAAAAGA
Found at i:8240630 original size:26 final size:26
Alignment explanation
Indices: 8240591--8240680 Score: 112
Period size: 26 Copynumber: 3.4 Consensus size: 26
8240581 CTTGAAGAAA
*
8240591 AAAAAAGAAGAAAGAAAAGGAGAAAAG
1 AAAAAAGAA-AAAGAAAAAGAGAAAAG
8240618 AAAAAAGAAAAAGAAAAAGAGAAAA-
1 AAAAAAGAAAAAGAAAAAGAGAAAAG
* *
8240643 AAGAAAGAAAAAAGAAAAAAGAAAAAAG
1 AAAAAAG-AAAAAG-AAAAAGAGAAAAG
8240671 AAAAAA-AAAA
1 AAAAAAGAAAA
8240681 GGGGGGGTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
25 6 0.11
26 25 0.45
27 20 0.36
28 5 0.09
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (26 bp):
AAAAAAGAAAAAGAAAAAGAGAAAAG
Found at i:8240650 original size:32 final size:32
Alignment explanation
Indices: 8240588--8240681 Score: 113
Period size: 32 Copynumber: 2.9 Consensus size: 32
8240578 ATGCTTGAAG
**
8240588 AAAA-AAAAAGAAGAAAGA-AAAGGAGAAAAGAA
1 AAAAGAAAAAGAA-AAAGAGAAAAAAG-AAAGAA
8240620 AAAAGAAAAAGAAAAAGAGAAAAAAGAAAGAA
1 AAAAGAAAAAGAAAAAGAGAAAAAAGAAAGAA
*
8240652 AAAAGAAAAAAGAAAAA-AGAAAAAAAAAAG
1 AAAAG-AAAAAGAAAAAGAGAAAAAAGAAAG
8240682 GGGGGGTTAA
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (32 bp):
AAAAGAAAAAGAAAAAGAGAAAAAAGAAAGAA
Found at i:8240670 original size:25 final size:25
Alignment explanation
Indices: 8240585--8240681 Score: 117
Period size: 25 Copynumber: 3.8 Consensus size: 25
8240575 ATTATGCTTG
*
8240585 AAGAAAAAA-AAAGAAGAAAGAAAA
1 AAGAAAAAAGAAAGAAAAAAGAAAA
* *
8240609 GGAGAAAAGAAAAAAG-AAAAAGAAAA
1 -AAGAAAA-AAGAAAGAAAAAAGAAAA
8240635 AGAGAAAAAAGAAAGAAAAAAGAAAA
1 A-AGAAAAAAGAAAGAAAAAAGAAAA
*
8240661 AAGAAAAAAGAAAAAAAAAAG
1 AAGAAAAAAGAAAGAAAAAAG
8240682 GGGGGGTTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
25 31 0.49
26 28 0.44
27 4 0.06
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (25 bp):
AAGAAAAAAGAAAGAAAAAAGAAAA
Found at i:8240680 original size:13 final size:13
Alignment explanation
Indices: 8240585--8240680 Score: 88
Period size: 13 Copynumber: 7.0 Consensus size: 13
8240575 ATTATGCTTG
*
8240585 AAGAAAAAAAAAG
1 AAGAAAAAAAAAA
8240598 AAGAAAGAAAAGGAGAA
1 AAGAAA-AAAA--A-AA
*
8240615 AAGAAAAAAGAAA
1 AAGAAAAAAAAAA
8240628 AAGAAAAAGAGAAAA
1 AAGAAAAA-A-AAAA
*
8240643 AAG--AAAGAAAA
1 AAGAAAAAAAAAA
8240654 AAGAAAAAAGAAAA
1 AAGAAAAAA-AAAA
8240668 AAGAAAAAAAAAA
1 AAGAAAAAAAAAA
8240681 GGGGGGGTTA
Statistics
Matches: 69, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
11 7 0.10
13 26 0.38
14 19 0.28
15 6 0.09
16 4 0.06
17 7 0.10
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAAAA
Found at i:8242098 original size:92 final size:92
Alignment explanation
Indices: 8241941--8242291 Score: 585
Period size: 92 Copynumber: 3.8 Consensus size: 92
8241931 AGAAGACCCA
*
8241941 ATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
8242006 CATTGAATTTGGAAGATAAATGTGCTC
66 CATTGAATTTGGAAGATAAATGTGCTC
8242033 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
8242098 CATTGAATTTGGAAGATAAATGTGCTC
66 CATTGAATTTGGAAGATAAATGTGCTC
* * *
8242125 ATAGTATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAGT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
* ** *
8242190 TATTGAATTTGGAAGAGGAATGTGCTA
66 CATTGAATTTGGAAGATAAATGTGCTC
* ** *
8242217 ATAGCATCTTCTGGAAGTGTTCTTTGAATTATCTGATCTGGTTCAGTAGGAACCACAGAACCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
8242282 CATTGGAATT
66 CATT-GAATT
8242292 AAAAGATGAA
Statistics
Matches: 242, Mismatches: 16, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
92 237 0.98
93 5 0.02
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (92 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAACCAAT
CATTGAATTTGGAAGATAAATGTGCTC
Found at i:8243192 original size:24 final size:23
Alignment explanation
Indices: 8243149--8243193 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
8243139 GTTCATAATG
*
8243149 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
8243172 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
8243194 AATTTGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:8243203 original size:113 final size:113
Alignment explanation
Indices: 8242983--8243532 Score: 852
Period size: 113 Copynumber: 4.8 Consensus size: 113
8242973 TAGCAAAGAT
* * * *
8242983 TCAAATCTATCATTTGATGGATTAGCATTTTCCAATTCGAGTTCATAATGAGAAGAATTCATCAT
1 TCAAATCCATCACTTGATGGATCAGC-TTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATC--
*
8243048 TTGAAGAAGGAAGAAGAAATTTATAATGAGAAGAATTTGTTTAACCTTTTGC
63 -TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
*
8243100 TCAAATCCATCACATGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
*
8243165 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGT
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
8243213 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
8243278 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
8243326 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
* * * *
8243391 AGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGT
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
* * * **** *
8243439 TCAAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTT-ATCTG
1 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAA-TTCATCTG
* *
8243503 AAG-AGGAAGAAGAAGTTCACAATGAGAAGA
65 AAGAAGGAAGAAGAAATTCATAATGAGAAGA
8243533 GCCTGTTCAA
Statistics
Matches: 409, Mismatches: 23, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
112 25 0.06
113 325 0.79
114 2 0.00
116 35 0.09
117 22 0.05
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (113 bp):
TCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGA
AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
Found at i:8243305 original size:24 final size:23
Alignment explanation
Indices: 8243262--8243306 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
8243252 GTTCATAATG
*
8243262 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
8243285 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
8243307 AATTTGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:8243412 original size:226 final size:226
Alignment explanation
Indices: 8242982--8243665 Score: 879
Period size: 226 Copynumber: 3.0 Consensus size: 226
8242972 TTAGCAAAGA
* * * *
8242982 TTCAAATCTATCATTTGATGGATTAGCATTTTCCAATTCGAGTTCATAATGAGAAGAATTCATCA
1 TTCAAATCCATCACTTGATGGATCAGC-TTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATC-
*
8243047 TTTGAAGAAGGAAGAAGAAATTTATAATGAGAAGAATTTGTTTAACCTTTTGCTCAAATCCATCA
64 --TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTCAAATCCATCA
8243112 CATGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAG
127 CATGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAG
*
8243177 AAATTCATAATGAGAAGAATTTGTTTAACCTTTTG
192 AAATTCATAATGAGAAGAACTTGTTTAACCTTTTG
8243212 TTCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTG
1 TTCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTG
*
8243277 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTCAAATCCATCACTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTCAAATCCATCACATG
* *
8243342 ATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGAAGAATGAAGAAGAAGT
131 ATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAAT
8243407 TCATAATGAGAAGAACTTGTTTAACCTTTTG
196 TCATAATGAGAAGAACTTGTTTAACCTTTTG
* * * **** *
8243438 TTCAAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTT-ATCT
1 TTCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAA-TTCATCT
* * *** * * * **
8243502 GAAG-AGGAAGAAGAAGTTCACAATGAGAAGAGCCTGTTCAACCTTTTACAT-AATTTTATCACA
65 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC-TCAAATCCATCACA
* * * **** * * *
8243565 TATATGTTAGCATCAACCTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAG
129 T-GATG---G-ATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAG
* * * *
8243630 AAGAAGTTCATAATGAGAAGAGCTTATTCAACCTTT
189 AAGAAATTCATAATGAGAAGAACTTGTTTAACCTTT
8243666 GGAATGACTC
Statistics
Matches: 405, Mismatches: 42, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
225 47 0.12
226 219 0.54
227 2 0.00
229 36 0.09
230 101 0.25
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (226 bp):
TTCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTG
AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTCAAATCCATCACATG
ATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAAT
TCATAATGAGAAGAACTTGTTTAACCTTTTG
Found at i:8243619 original size:117 final size:111
Alignment explanation
Indices: 8243022--8243666 Score: 587
Period size: 113 Copynumber: 5.6 Consensus size: 111
8243012 TTCCAATTCG
* * * **
8243022 AGTTCATAATGAGAAGAATTCATCATTTGAAGAAGGAAGAAGAAATTTATAATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAA--C-TCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTG
* * * * * ****
8243087 TTTAACCTTTTGCT-CAAATCCATCACATGATGGATCAGCTTTTCCAGTTCG
62 TTCAACC-TTTG-TACAAATTCATCACTTGATGGATCAACATTTCCAGAGAA
* * ** *
8243138 AGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
* * * * ****
8243203 AACCTTTTGTTCAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCG
65 AACC-TTTGTACAAATTCATCACTTGATGGATCAACATTTCCAGAGAA
* * ** *
8243251 AGTTCATAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
* * * ****
8243316 AACCTTTTGCT-CAAATCCATCACTTGATGGATCAGCTTTTCCAGTTCG
65 AACC-TTTG-TACAAATTCATCACTTGATGGATCAACATTTCCAGAGAA
* * * *
8243364 AGTTCATAATGAGAAGAATTCATCTGAAGAATGAAGAAGAAGTTCATAATGAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
*
8243429 AACCTTTTGTTCAAATTCATCACTTGATGGATCAACATTTCCAGAGAA
65 AACC-TTTGTACAAATTCATCACTTGATGGATCAACATTTCCAGAGAA
* * * *
8243477 AGTTCATAATAAGAAGAACTTATCTGAAGAGGAAGAAGAAGTTCACAATGAGAAGAGCCTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
* *
8243542 ACCTTT-TACATAATTTTATCACATAT-ATGTTAGCATCAACCTTTCCAGAGAA
66 ACCTTTGTACA-AA-TTCATCAC-T-TGATG---G-ATCAACATTTCCAGAGAA
* * *
8243594 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTC
1 AGTTCATAATGAGAAGAACTCATCTG-AAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
8243659 AACCTTTG
65 AACCTTTG
8243667 GAATGACTCT
Statistics
Matches: 484, Mismatches: 32, Indels: 23
0.90 0.06 0.04
Matches are distributed among these distances:
110 3 0.01
111 5 0.01
112 43 0.09
113 331 0.68
114 2 0.00
116 19 0.04
117 41 0.08
118 40 0.08
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (111 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
ACCTTTGTACAAATTCATCACTTGATGGATCAACATTTCCAGAGAA
Found at i:8243699 original size:118 final size:118
Alignment explanation
Indices: 8243364--8243755 Score: 315
Period size: 118 Copynumber: 3.3 Consensus size: 118
8243354 TTCCAGTTCG
* * * * *
8243364 AGTTCATAATGAGAAGAA-TTCATCTGAAGAATG-AAGAAGAAGTTCATAATGAGAAGAACTTGT
1 AGTTCATAATGAGAAGAACTT-ATCTGAA-AAAGAAAGAAGAAGTTCACAATGAGAAGAGCCTAT
* * * * * *
8243427 TTAACCTTTTGTTCA-AATTC-ATCAC---T-TGAT-GGATCAACATTTCCAGAGAA
64 TCAACC-TTTG-ACATAACTCTATCACAGATAGGATAGCATCAACCTTTCCAGAGAA
* * * *
8243477 AGTTCATAATAAGAAGAACTTATCTG-AAGAGGAAGAAGAAGTTCACAATGAGAAGAGCCTGTTC
1 AGTTCATAATGAGAAGAACTTATCTGAAAAAGAAAGAAGAAGTTCACAATGAGAAGAGCCTATTC
* * * * * *
8243541 AACCTTTTACATAATTTTATCACATATATGTTAGCATCAACCTTTCCAGAGAA
66 AACCTTTGACATAACTCTATCACAGATAGGATAGCATCAACCTTTCCAGAGAA
* * *
8243594 AGTTCATAATGAGAAGAACTCATCTGAAAAAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTC
1 AGTTCATAATGAGAAGAACTTATCTGAAAAAGAAAGAAGAAGTTCACAATGAGAAGAGCCTATTC
* * ** *
8243659 AACCTTTGGA-ATGACTCTATCACAGA-AGGAAATAG-GTCAACATCATCCCCAGCGGAA
66 AACCTTT-GACATAACTCTATCACAGATAGG--ATAGCATCAAC--C-TTTCCAG-AGAA
8243716 AGTTCATAATGAGAAGAACTTATCTGAAGAAAGAGAAGAA
1 AGTTCATAATGAGAAGAACTTATCTGAA-AAAGA-AAGAA
8243756 TTTATTCAAC
Statistics
Matches: 228, Mismatches: 32, Indels: 27
0.79 0.11 0.09
Matches are distributed among these distances:
110 2 0.01
111 9 0.04
112 38 0.17
113 22 0.10
114 2 0.01
115 1 0.00
116 3 0.01
117 44 0.19
118 57 0.25
119 4 0.02
120 1 0.00
121 5 0.02
122 30 0.13
123 5 0.02
124 5 0.02
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (118 bp):
AGTTCATAATGAGAAGAACTTATCTGAAAAAGAAAGAAGAAGTTCACAATGAGAAGAGCCTATTC
AACCTTTGACATAACTCTATCACAGATAGGATAGCATCAACCTTTCCAGAGAA
Found at i:8243899 original size:3 final size:3
Alignment explanation
Indices: 8243893--8243952 Score: 111
Period size: 3 Copynumber: 20.0 Consensus size: 3
8243883 TTTACTCATT
*
8243893 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8243941 TTA TTA TTA TTA
1 TTA TTA TTA TTA
8243953 AAAAATAATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:8245247 original size:22 final size:20
Alignment explanation
Indices: 8245229--8245291 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
8245219 AATATTTTCA
8245229 TATAGTTTTAATTATATTTT
1 TATAGTTTTAATTATATTTT
* *
8245249 TATTGTTTTAATTTTACTTGTT
1 TATAGTTTTAATTATA-TT-TT
8245271 TATA-TATTTAA--ATATTTT
1 TATAGT-TTTAATTATATTTT
8245289 TAT
1 TAT
8245292 TATTATTATG
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
18 5 0.14
19 2 0.06
20 16 0.44
21 3 0.08
22 10 0.28
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (20 bp):
TATAGTTTTAATTATATTTT
Found at i:8246259 original size:22 final size:23
Alignment explanation
Indices: 8246204--8246259 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 23
8246194 AATATTTTTA
*
8246204 ATATATATACTTTTAATAAAATT
1 ATATATATAATTTTAATAAAATT
*
8246227 -TATATATAATTTTTATAAAATT
1 ATATATATAATTTTAATAAAATT
8246249 ATATATA-AATT
1 ATATATATAATT
8246260 GGTAGAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 24 0.80
23 6 0.20
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATATATATAATTTTAATAAAATT
Found at i:8250496 original size:31 final size:31
Alignment explanation
Indices: 8250325--8250487 Score: 157
Period size: 31 Copynumber: 5.2 Consensus size: 31
8250315 ATGAATGATG
* * * *
8250325 TAATTTATTTATAAAAATACAATAATATTTAA
1 TAATTTAATTATTAAAATACATTAA-AATTAA
* * * ** * *
8250357 T-TTTTAAGATATTAAAATAAAACAAAAATGA
1 TAATTTAA-TTATTAAAATACATTAAAATTAA
*
8250388 TAATTTAATTATTAAAATACACTAAAATTAA
1 TAATTTAATTATTAAAATACATTAAAATTAA
* *
8250419 TAATTTAATTATAAAAATACATTAAAACTAA
1 TAATTTAATTATTAAAATACATTAAAATTAA
*
8250450 TAATTTAATTATTAAAATATATTAAAATTAA
1 TAATTTAATTATTAAAATACATTAAAATTAA
*
8250481 TAGTTTA
1 TAATTTA
8250488 GAGATTAAAT
Statistics
Matches: 106, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
31 87 0.82
32 19 0.18
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (31 bp):
TAATTTAATTATTAAAATACATTAAAATTAA
Found at i:8256119 original size:27 final size:27
Alignment explanation
Indices: 8256088--8256171 Score: 141
Period size: 27 Copynumber: 3.1 Consensus size: 27
8256078 TCTATTTACA
*
8256088 AAATCATATCTCTATAGGAATGGCAAC
1 AAATCATATCTCTATAGGAATGGTAAC
* *
8256115 AAATCATATATCTATAGGAATTGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
8256142 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
8256169 AAA
1 AAA
8256172 CCATCTCTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:8259902 original size:27 final size:27
Alignment explanation
Indices: 8259871--8259965 Score: 167
Period size: 27 Copynumber: 3.6 Consensus size: 27
8259861 TCTATTTACA
*
8259871 AAATCATATCTCTATAGGAATGGGAAC
1 AAATCATATCTCTATAGGAATGGTAAC
8259898 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
8259925 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
8259952 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
8259966 ATTCCTACAC
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
25 9 0.13
27 58 0.87
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:8261755 original size:36 final size:36
Alignment explanation
Indices: 8261708--8261782 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
8261698 AGGATTCTTT
8261708 TTCTTTTTTCCTTTTGATTTAATTTAATAGTTCCAC
1 TTCTTTTTTCCTTTTGATTTAATTTAATAGTTCCAC
8261744 TTCTTTTTTCCTTTTGATTTAATTTAATAGTTCCAC
1 TTCTTTTTTCCTTTTGATTTAATTTAATAGTTCCAC
8261780 TTC
1 TTC
8261783 AAAATTGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.19, C:0.17, G:0.05, T:0.59
Consensus pattern (36 bp):
TTCTTTTTTCCTTTTGATTTAATTTAATAGTTCCAC
Found at i:8265598 original size:15 final size:15
Alignment explanation
Indices: 8265578--8265607 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8265568 GCAATTCCAA
8265578 GATTGAAGACTATTT
1 GATTGAAGACTATTT
*
8265593 GATTGAGGACTATTT
1 GATTGAAGACTATTT
8265608 TTTCCTCTGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (15 bp):
GATTGAAGACTATTT
Found at i:8272092 original size:20 final size:20
Alignment explanation
Indices: 8272067--8272111 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
8272057 TTATCTGGAA
* *
8272067 AAAAATTCGGTCTGGGGTTT
1 AAAAATCCGGTCTGAGGTTT
*
8272087 AAAAATCCGGTTTGAGGTTT
1 AAAAATCCGGTCTGAGGTTT
8272107 AAAAA
1 AAAAA
8272112 ATTGGATGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.31
Consensus pattern (20 bp):
AAAAATCCGGTCTGAGGTTT
Found at i:8272999 original size:20 final size:20
Alignment explanation
Indices: 8272974--8273018 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
8272964 GTCATCTAAT
*
8272974 TTTTTAAACTTCAGACCGGA
1 TTTTTAAACCTCAGACCGGA
*
8272994 TTTTTAAACCTCATACCGGA
1 TTTTTAAACCTCAGACCGGA
8273014 TTTTT
1 TTTTT
8273019 TTTCCGGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (20 bp):
TTTTTAAACCTCAGACCGGA
Found at i:8273341 original size:17 final size:17
Alignment explanation
Indices: 8273316--8273348 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8273306 CACGTTAATT
*
8273316 ATAATGGTACTTAAAAA
1 ATAACGGTACTTAAAAA
8273333 ATAACGGTACTTAAAA
1 ATAACGGTACTTAAAA
8273349 TTTTTTTAGC
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:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (17 bp):
ATAACGGTACTTAAAAA
Found at i:8276269 original size:22 final size:23
Alignment explanation
Indices: 8276235--8276280 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
8276225 AATGAAAAAA
8276235 TATATTATAAATT-ACTAAATAT
1 TATATTATAAATTAACTAAATAT
*
8276257 TATATT-TAGAATTAATTAAATAT
1 TATATTATA-AATTAACTAAATAT
8276280 T
1 T
8276281 TTTTAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 10 0.48
23 9 0.43
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TATATTATAAATTAACTAAATAT
Found at i:8276618 original size:50 final size:51
Alignment explanation
Indices: 8276559--8276673 Score: 178
Period size: 50 Copynumber: 2.3 Consensus size: 51
8276549 AGTATAGAGG
* * *
8276559 AAACTCGTCACGTCTACATGATAAATTTGTCCAAATAGTA-TTTTTTATTT
1 AAACTCGTCACATCTACATAATAAATTTGTCCAAATAATATTTTTTTATTT
*
8276609 AAACTCGTCACATCTATATAATAAATTTGTCCAAATAATATTTTTTTATTT
1 AAACTCGTCACATCTACATAATAAATTTGTCCAAATAATATTTTTTTATTT
*
8276660 AAACTCATCACATC
1 AAACTCGTCACATC
8276674 GATATAATGA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
50 36 0.61
51 23 0.39
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.41
Consensus pattern (51 bp):
AAACTCGTCACATCTACATAATAAATTTGTCCAAATAATATTTTTTTATTT
Found at i:8276679 original size:51 final size:50
Alignment explanation
Indices: 8276579--8276681 Score: 170
Period size: 51 Copynumber: 2.0 Consensus size: 50
8276569 CGTCTACATG
* * *
8276579 ATAAATTTGTCCAAATAGTATTTTTTATTTAAACTCGTCACATCTATATA
1 ATAAATTTGTCCAAATAATATTTTTTATTTAAACTCATCACATCGATATA
8276629 ATAAATTTGTCCAAATAATATTTTTTTATTTAAACTCATCACATCGATATA
1 ATAAATTTGTCCAAATAATA-TTTTTTATTTAAACTCATCACATCGATATA
8276680 AT
1 AT
8276682 GAGTTCCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 19 0.39
51 30 0.61
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.44
Consensus pattern (50 bp):
ATAAATTTGTCCAAATAATATTTTTTATTTAAACTCATCACATCGATATA
Found at i:8282021 original size:37 final size:34
Alignment explanation
Indices: 8281969--8282059 Score: 128
Period size: 37 Copynumber: 2.6 Consensus size: 34
8281959 CTCGAAGGTC
*
8281969 TTTTGTGTTTCAAGAGAAACATTTTCAAAGGGGTTTT
1 TTTTGTGTTTCAAGAGAAACAATTTCAAA--GG-TTT
*
8282006 TTTTTTGTTTCAAGAGAAACAATTTCAAAGGTTT
1 TTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTT
*
8282040 TTTTGTGTATCAAGAGAAAC
1 TTTTGTGTTTCAAGAGAAAC
8282060 TGTCTCAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
34 21 0.42
35 2 0.04
37 27 0.54
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.42
Consensus pattern (34 bp):
TTTTGTGTTTCAAGAGAAACAATTTCAAAGGTTT
Found at i:8282193 original size:36 final size:36
Alignment explanation
Indices: 8282145--8282223 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
8282135 ATTCAAAGAT
* *
8282145 TTTGTTTCAAGGGAAACTGTCTTAAGAGAGACAAAA
1 TTTGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAA
8282181 TTTGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAA
8282217 TTTGTTT
1 TTTGTTT
8282224 CAAGAGAGAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.32
Consensus pattern (36 bp):
TTTGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:8282228 original size:21 final size:21
Alignment explanation
Indices: 8282202--8282251 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
8282192 GGAAACTGTC
8282202 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
8282223 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
8282244 TCAAGAGA
1 TCAAGAGA
8282252 AACTGTGTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.26
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:8282256 original size:57 final size:57
Alignment explanation
Indices: 8282168--8282357 Score: 211
Period size: 57 Copynumber: 3.2 Consensus size: 57
8282158 AAACTGTCTT
*
8282168 AAGAGAGACAAAATTTGTTTAAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTC
1 AAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTC
* * *
8282225 AAGAGAGACAAAATTTGTTTCAAGAGAAACTGTGTCAAGAGAGACGAAATTTGTTT-
1 AAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTC
* * * *
8282281 AATGTAAAACATGTTCAAAGATTTTGTTTCAAGGGAAACTATCTCTAGAGAGACAAAATTTGTTT
1 AA-G----AGA-G-ACAAA-A-TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTT
8282346 C
57 C
*
8282347 AAGAGAAACAA
1 AAGAGAGACAA
8282358 GGGAGACAAA
Statistics
Matches: 109, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
56 2 0.02
57 53 0.49
59 3 0.03
61 4 0.04
62 1 0.01
63 4 0.04
64 1 0.01
65 39 0.36
66 2 0.02
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (57 bp):
AAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTC
Found at i:8282263 original size:36 final size:36
Alignment explanation
Indices: 8282223--8282651 Score: 298
Period size: 36 Copynumber: 12.6 Consensus size: 36
8282213 AAAATTTGTT
*
8282223 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTG
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
*
8282259 TCAAGAGAGACGAAATTTGTTT-AATGTA-AAACATGT-
1 TCAAGAGAGACAAAATTTGTTTCAA-G-AGAAAC-TGTC
* * *
8282295 TC-A-A-AG----ATTTTGTTTCAAGGGAAACTATC
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
*
8282324 TCTAGAGAGACAAAATTTGTTTCAAGAGAAA-----
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
* *
8282355 -CAAGGGAGACAAAATTTGTTT-AATGTA-AAACATAT-
1 TCAAGAGAGACAAAATTTGTTTCAA-G-AGAAAC-TGTC
*
8282390 TCAA-AGA-TC-----TTGTTTCAAGAGAAACTGTC
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
* *
8282419 TCAAGAGAGACAAAATTTGTTTCAAGGGAAATTGTC
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
* * * *
8282455 TCAAGAGAGACAAAACTTAGTTCCAAAAGAAATTGTC
1 TCAAGAGAGACAAAA-TTTGTTTCAAGAGAAACTGTC
* *
8282492 TCAAGGGAGACAAAATTTGTTTCAAG-GAAAACATAT-
1 TCAAGAGAGACAAAATTTGTTTCAAGAG-AAAC-TGTC
* * *
8282528 TC-A-A-AG----ATTTTATTTCAAGGGAAACTGTC
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
* *
8282557 TCAAGAGAGACAAAATTTGTTTAAAGGGAAACTGTC
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
* * *
8282593 TTAAGCGAGACAAAATTTGTTTCAAGAGAAACTATC
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
8282629 TCAAGAGAGACAAAACTTTGTTT
1 TCAAGAGAGACAAAA-TTTGTTT
8282652 TGATTAAATT
Statistics
Matches: 311, Mismatches: 38, Indels: 87
0.71 0.09 0.20
Matches are distributed among these distances:
28 7 0.02
29 49 0.16
30 33 0.11
31 4 0.01
32 4 0.01
33 4 0.01
34 2 0.01
35 7 0.02
36 157 0.50
37 44 0.14
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (36 bp):
TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTC
Found at i:8282266 original size:158 final size:152
Alignment explanation
Indices: 8282064--8282445 Score: 464
Period size: 158 Copynumber: 2.4 Consensus size: 152
8282054 AGAAACTGTC
* * *
8282064 TCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGA
1 TCAAGAGAGACAAAA-TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGA
* *
8282129 AAACATATTCAAAGATTTTGTTTCAAGGGAAACTGTCT-TAAGAGAGACAAAATTTGTTTAAAGG
65 AAACATATTCAAAGATTTTGTTTCAAGGGAAACTATCTCT-AGAGAGACAAAATTTGTTTAAAGA
8282193 GAAACTGTCTCAAGAGAGACAAAATTTGTT
129 GAAA------CAAGAGAGACAAAATTTGTT
* *
8282223 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTGTCAAGAGAGACGAAATTTGTTT-AATGTA
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAA-GGA
* *
8282287 AAACATGTTCAAAGATTTTGTTTCAAGGGAAACTATCTCTAGAGAGACAAAATTTGTTTCAAGAG
65 AAACATATTCAAAGATTTTGTTTCAAGGGAAACTATCTCTAGAGAGACAAAATTTGTTTAAAGAG
*
8282352 AAACAAGGGAGACAAAATTTGTT
130 AAACAAGAGAGACAAAATTTGTT
* * *
8282375 T-AATGTAAAACATATTCAAAGATCTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGT
1 TCAA-G----AGAGA--CAAA-AT-TTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTTGT
8282439 TTCAAGG
57 TTCAAGG
8282446 GAAATTGTCT
Statistics
Matches: 196, Mismatches: 15, Indels: 23
0.84 0.06 0.10
Matches are distributed among these distances:
151 2 0.01
152 21 0.11
156 3 0.02
157 2 0.01
158 107 0.55
159 18 0.09
160 41 0.21
161 2 0.01
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (152 bp):
TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTTGTTTCAAGGAA
AACATATTCAAAGATTTTGTTTCAAGGGAAACTATCTCTAGAGAGACAAAATTTGTTTAAAGAGA
AACAAGAGAGACAAAATTTGTT
Found at i:8282395 original size:95 final size:96
Alignment explanation
Indices: 8282223--8282450 Score: 332
Period size: 95 Copynumber: 2.3 Consensus size: 96
8282213 AAAATTTGTT
*
8282223 TCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTGTCAAGAGAGACGAAATTTGTTTAATGTAA
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAA-----TCAAGAGAGACAAAATTTGTTTAATGTAA
* * *
8282288 AACATGTTCAAAGATTTTGTTTCAAGGGAAACTATC
61 AACATATTCAAAGATCTTGTTTCAAGAGAAACTATC
* *
8282324 TCTAGAGAGACAAAATTTGTTTCAAGAGAAA-CAAGGGAGACAAAATTTGTTTAATGTAAAACAT
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAATCAAGAGAGACAAAATTTGTTTAATGTAAAACAT
*
8282388 ATTCAAAGATCTTGTTTCAAGAGAAACTGTC
66 ATTCAAAGATCTTGTTTCAAGAGAAACTATC
*
8282419 TCAAGAGAGACAAAATTTGTTTCAAGGGAAAT
1 TCAAGAGAGACAAAATTTGTTTCAAGAGAAAT
8282451 TGTCTCAAGA
Statistics
Matches: 117, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
95 87 0.74
101 30 0.26
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (96 bp):
TCAAGAGAGACAAAATTTGTTTCAAGAGAAATCAAGAGAGACAAAATTTGTTTAATGTAAAACAT
ATTCAAAGATCTTGTTTCAAGAGAAACTATC
Found at i:8282439 original size:65 final size:65
Alignment explanation
Indices: 8282355--8282651 Score: 231
Period size: 65 Copynumber: 4.3 Consensus size: 65
8282345 TCAAGAGAAA
* *
8282355 CAAGGGAGACAAAATTTGTTT-AATGTAAAACATATTCAAAGATCTTGTTTCAAGAGAAACTGTC
1 CAAGAGAGACAAAATTTGTTTCAA-GGAAAACATATTCAAAGATCTTGTTTCAAGAGAAACTGTC
8282419 T
65 T
* * * * * *
8282420 CAAGAGAGACAAAATTTGTTTCAAGGGAAA-TTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAG
1 CAAGAGAGACAAAATTTGTTTCAAGGAAAACATAT-TC-A-A-AG----ATCTT-GTTTCAAGAG
*
8282484 AAATTGTCT
57 AAACTGTCT
* * * *
8282493 CAAGGGAGACAAAATTTGTTTCAAGGAAAACATATTCAAAGATTTTATTTCAAGGGAAACTGTCT
1 CAAGAGAGACAAAATTTGTTTCAAGGAAAACATATTCAAAGATCTTGTTTCAAGAGAAACTGTCT
* * * * *
8282558 CAAGAGAGACAAAATTTGTTTAAAGGGAAACTGTCTTAAGCGAGACAAAAT-TTGTTTCAAGAGA
1 CAAGAGAGACAAAATTTGTTTCAAGGAAAAC-ATATT---C---A-AAGATCTTGTTTCAAGAGA
*
8282622 AACTATCT
58 AACTGTCT
8282630 CAAGAGAGACAAAACTTTGTTT
1 CAAGAGAGACAAAA-TTTGTTT
8282652 TGATTAAATT
Statistics
Matches: 183, Mismatches: 29, Indels: 32
0.75 0.12 0.13
Matches are distributed among these distances:
64 2 0.01
65 68 0.37
66 9 0.05
67 1 0.01
68 2 0.01
69 1 0.01
70 2 0.01
71 1 0.01
72 38 0.21
73 57 0.31
74 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (65 bp):
CAAGAGAGACAAAATTTGTTTCAAGGAAAACATATTCAAAGATCTTGTTTCAAGAGAAACTGTCT
Found at i:8282496 original size:37 final size:36
Alignment explanation
Indices: 8282409--8282508 Score: 137
Period size: 37 Copynumber: 2.8 Consensus size: 36
8282399 TTGTTTCAAG
* * * *
8282409 AGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAG
1 AGAAATTGTCTCAAGAGAGACAAAATTAGTTCCAAA
*
8282445 GGAAATTGTCTCAAGAGAGACAAAACTTAGTTCCAAA
1 AGAAATTGTCTCAAGAGAGACAAAA-TTAGTTCCAAA
*
8282482 AGAAATTGTCTCAAGGGAGACAAAATT
1 AGAAATTGTCTCAAGAGAGACAAAATT
8282509 TGTTTCAAGG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
36 25 0.45
37 31 0.55
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (36 bp):
AGAAATTGTCTCAAGAGAGACAAAATTAGTTCCAAA
Found at i:8282525 original size:138 final size:135
Alignment explanation
Indices: 8282303--8282651 Score: 474
Period size: 138 Copynumber: 2.6 Consensus size: 135
8282293 GTTCAAAGAT
* *
8282303 TTTGTTTCAAGGGAAACTATCTCTAGAGAGACAAAATTTGTTTCAAGAGAAA----CAAGGGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATTCTCAAGGGAGA
* *
8282364 CAAAATTTGTTTAATGTAAAACATATTCAAAGATCTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
66 CAAAATTTGTTTAATGGAAAACATATTCAAAGATCTTATTTCAAGAGAAACTGTCTCAAGAGAGA
8282429 CAAAA
131 CAAAA
* * * *
8282434 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAATTGTCTCAAGGG
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGAGAAA-T-TCTCAAGGG
* *
8282499 AGACAAAATTTGTTTCAA-GGAAAACATATTCAAAGATTTTATTTCAAGGGAAACTGTCTCAAGA
63 AGACAAAATTTGTTT-AATGGAAAACATATTCAAAGATCTTATTTCAAGAGAAACTGTCTCAAGA
8282563 GAGACAAAA
127 GAGACAAAA
* * * *
8282572 TTTGTTTAAAGGGAAACTGTCTTAAGCGAGACAAAATTTGTTTCAAGAGAAACTATCTCAAGAGA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAA-T-TCTCAAGGGA
8282637 GACAAAACTTTGTTT
64 GACAAAA-TTTGTTT
8282652 TGATTAAATT
Statistics
Matches: 189, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
131 33 0.17
132 13 0.07
137 30 0.16
138 111 0.59
139 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (135 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATTCTCAAGGGAGA
CAAAATTTGTTTAATGGAAAACATATTCAAAGATCTTATTTCAAGAGAAACTGTCTCAAGAGAGA
CAAAA
Found at i:8282566 original size:102 final size:102
Alignment explanation
Indices: 8282438--8282623 Score: 277
Period size: 101 Copynumber: 1.8 Consensus size: 102
8282428 ACAAAATTTG
* * *
8282438 TTTCAAGGGAAATTGTCTCAAGAGAGACAAAACTTAGTTCCAAA-AGAAATTGTCTCAAGGGAGA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTAGTT-CAAAGAGAAACTGTCTCAAGCGAGA
8282502 CAAAATTTGTTTCAAG-GAAAACATATTCAAAGATTTTA
64 CAAAATTTGTTTCAAGAGAAAACATATTCAAAGATTTTA
* * * *
8282540 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGGGAAACTGTCTTAAGCGAGACA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTAGTTCAAAGAGAAACTGTCTCAAGCGAGACA
8282605 AAATTTGTTTCAAGAGAAA
66 AAATTTGTTTCAAGAGAAA
8282624 CTATCTCAAG
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
100 3 0.04
101 37 0.49
102 35 0.47
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.27
Consensus pattern (102 bp):
TTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTAGTTCAAAGAGAAACTGTCTCAAGCGAGACA
AAATTTGTTTCAAGAGAAAACATATTCAAAGATTTTA
Found at i:8284653 original size:18 final size:20
Alignment explanation
Indices: 8284632--8284672 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
8284622 TCACTTTTCC
*
8284632 TTTATTTT-TGTTT-CTTTT
1 TTTATTTTCTCTTTGCTTTT
8284650 TTTATTTTCTCTTTGCTTTT
1 TTTATTTTCTCTTTGCTTTT
8284670 TTT
1 TTT
8284673 CTTTGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 4 0.20
20 8 0.40
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.80
Consensus pattern (20 bp):
TTTATTTTCTCTTTGCTTTT
Found at i:8284658 original size:13 final size:12
Alignment explanation
Indices: 8284626--8284698 Score: 56
Period size: 13 Copynumber: 5.4 Consensus size: 12
8284616 TTTTTTTCAC
*
8284626 TTTTCCTTTATTT
1 TTTTTCTTT-TTT
8284639 TTGTTTCTTTTTT
1 TT-TTTCTTTTTT
8284652 TATTTTCTCTTTGCTT
1 T-TTTTCT-TTT--TT
8284668 TTTTTCTTTGTTT
1 TTTTTCTTT-TTT
*
8284681 TTTTTATTTTTT
1 TTTTTCTTTTTT
8284693 TCTTTT
1 T-TTTT
8284699 TGTTCTGATT
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
12 4 0.08
13 25 0.49
14 12 0.24
15 7 0.14
16 3 0.06
ACGTcount: A:0.04, C:0.11, G:0.04, T:0.81
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:8284658 original size:28 final size:28
Alignment explanation
Indices: 8284616--8284685 Score: 72
Period size: 28 Copynumber: 2.4 Consensus size: 28
8284606 CGTCTTGTAT
*
8284616 TTTTTTTCACTTTTC-CTTTATTTTTGTTTC
1 TTTTTTT-A-TTTTCTCTTTACTTTT-TTTC
*
8284646 TTTTTTTATTTTCTCTTTGCTTTTTTTC
1 TTTTTTTATTTTCTCTTTACTTTTTTTC
8284674 TTTGTTTT-TTTT
1 TTT-TTTTATTTT
8284686 ATTTTTTTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
28 16 0.44
29 13 0.36
30 7 0.19
ACGTcount: A:0.04, C:0.13, G:0.04, T:0.79
Consensus pattern (28 bp):
TTTTTTTATTTTCTCTTTACTTTTTTTC
Found at i:8287703 original size:12 final size:13
Alignment explanation
Indices: 8287686--8287714 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
8287676 TTAATTGCGA
8287686 AAAATTAAAA-TT
1 AAAATTAAAATTT
8287698 AAAATTAAAATTT
1 AAAATTAAAATTT
8287711 AAAA
1 AAAA
8287715 ATTCGATTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:8287793 original size:14 final size:15
Alignment explanation
Indices: 8287770--8287818 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
8287760 AAAAGCCAAG
*
8287770 AATATTAAAAAATAT
1 AATATGAAAAAATAT
8287785 -ATATGAAAAAA-AT
1 AATATGAAAAAATAT
*
8287798 AATAGGAAAAAATATT
1 AATATGAAAAAATA-T
8287814 AATAT
1 AATAT
8287819 AATAATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 2 0.07
14 20 0.71
15 1 0.04
16 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
AATATGAAAAAATAT
Found at i:8289552 original size:3 final size:3
Alignment explanation
Indices: 8289525--8289580 Score: 55
Period size: 3 Copynumber: 19.3 Consensus size: 3
8289515 GGGCCTACAA
* * *
8289525 AAT AAT TAT AAT -AT AAAT TAT AAT AAT AAT ACT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8289569 AAT AAT -AT AAT A
1 AAT AAT AAT AAT A
8289581 TTTTTTGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 6 0.14
3 35 0.81
4 2 0.05
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:8289566 original size:14 final size:14
Alignment explanation
Indices: 8289525--8289580 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
8289515 GGGCCTACAA
8289525 AATAATTATAAT-AT
1 AATAA-TATAATAAT
*
8289539 AAATTATAATAATAAT
1 -AATAAT-ATAATAAT
*
8289555 ACTAATATAATAAT
1 AATAATATAATAAT
8289569 AATAATATAATA
1 AATAATATAATA
8289581 TTTTTTGTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 20 0.57
15 13 0.37
16 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (14 bp):
AATAATATAATAAT
Found at i:8291262 original size:7 final size:7
Alignment explanation
Indices: 8291250--8291281 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
8291240 AGCCTATGGT
8291250 TAAACCC
1 TAAACCC
8291257 TAAACCC
1 TAAACCC
*
8291264 TAAACTC
1 TAAACCC
8291271 TAAACCC
1 TAAACCC
8291278 TAAA
1 TAAA
8291282 TCTTAAACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCC
Found at i:8291288 original size:14 final size:14
Alignment explanation
Indices: 8291250--8291290 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
8291240 AGCCTATGGT
*
8291250 TAAACCCTAAACCC
1 TAAACTCTAAACCC
8291264 TAAACTCTAAACCC
1 TAAACTCTAAACCC
8291278 TAAA-TCTTAAACC
1 TAAACTC-TAAACC
8291291 TTATATGAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 2 0.08
14 23 0.92
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACTCTAAACCC
Found at i:8292132 original size:559 final size:562
Alignment explanation
Indices: 8290727--8292141 Score: 2108
Period size: 559 Copynumber: 2.5 Consensus size: 562
8290717 CCCTAAGCCC
8290727 TAAACCTTGA-ATGAACAAAATTAAATCGAATGTAATCTAGACACAAACTAAATTGATCTGAAAT
1 TAAACCTT-ATATGAACAAAATTAAATCGAATGTAATCTAGACACAAACTAAATTGATCTGAAAT
8290791 GATCCAACTTAAATCTAATACGAATGATCCGTTTGTCACCCCTACTTCTACTTAAACCTAAAATC
65 GATCCAACTTAAATCTAATACGAATGATCCGTTTGTCACCCCTACTTCTACTTAAACCTAAAATC
*
8290856 ATTTTATAACATATACTCTTAATAAATAAAGAAAATAATTATACGTAGAAGTAGGGGTGACAAAC
130 ATTTTATAACATATACTCTTAATAAATAAAGAAAATAATTATAAGTAGAAGTAGGGGTGACAAAC
8290921 GGATCATTC-----G----AA--T---CATTTCAGATCAATTTAGTTTGTGTCTAGATTACATTC
195 GGATCATTCGATTAGATTTAAGTTGGACATTTCAGATCAATTTAGTTTGTGTCTAGATTACATTC
*
8290972 GATTTAATTTTGTTTATATAGGGTTTAGGGTTTAAGGTTAAGTCAATATTACATCAGTTAATTTT
260 GATTTAATTTTGTTTATATAGGGTTTAGGGTTTAGGGTTAAGTCAATATTACATCAGTTAATTTT
* * *
8291037 TTGTTCGGGTCAATATGAATCGGTTAATTTTTTAAGGGTTGAAAACTTTCAACAATTAAGTGGGT
325 TTGTTCGAGTCAATACGAATAGGTTAATTTTTTAAGGGTTGAAAACTTTCAACAATTAAGTGGGT
*
8291102 CACTACTCGGTAGCCTATGGGTAAAATATAATGTATTAGCAGATTTGGTGATATCGACATTTCAG
390 CACTACTCGGTAGCCTATGGGTAAAATATAACGTATTAGCAGATTTGGTGATATCGACATTTCAG
8291167 TAATTCTGTGTTTCTTCGTGTTTATTTTTTTATATCTATATAAAATATAACGTGCTAATAGTTAT
455 TAATTCTGTGTTTCTTCGTGTTTATTTTTTTATATCTATATAAAATATAACGTGCTAATAGTTAT
*
8291232 ACTTTAAAAGCCTATGGTTAAACCCTAAACCCTAAACTCTAAACCCTAAATCT
520 ACTTTAAAAGCCTATGGTT--A---TAAACCCTAAA--CT--A-CCTAAATCA
*
8291285 TAAACCTTATATGAACAAAATTAAATCGAATGTAATCTAGACACAAACTAAGTTGATCTGAAATG
1 TAAACCTTATATGAACAAAATTAAATCGAATGTAATCTAGACACAAACTAAATTGATCTGAAATG
* *
8291350 TTCCAACTTAAATCTAATACGAATCATCCGTTTGTCACCCCTACTTCTACTTAAACCTAAAATCA
66 ATCCAACTTAAATCTAATACGAATGATCCGTTTGTCACCCCTACTTCTACTTAAACCTAAAATCA
* *
8291415 TTTTATAACATATACTCTTAATAAATAAAGAAAATAATTATAAGTATAAGTAGGGGTGACAAACA
131 TTTTATAACATATACTCTTAATAAATAAAGAAAATAATTATAAGTAGAAGTAGGGGTGACAAACG
8291480 GATCATTCGAATTAGATTTAAGTTGGATCATTTCAGATCAATTTAGTTTGTGTCTAGATTACATT
196 GATCATTCG-ATTAGATTTAAGTTGGA-CATTTCAGATCAATTTAGTTTGTGTCTAGATTACATT
* * * * *
8291545 CGATTTAGTTTTGTTCATATAGGGTTTAGGATTTAGGGTTAAGTCAATATTAGATCGGTTAATTT
259 CGATTTAATTTTGTTTATATAGGGTTTAGGGTTTAGGGTTAAGTCAATATTACATCAGTTAATTT
*
8291610 TTTGTTCGAGTCAATACGAATAGGTTAATTTTTTAAGGGTTGAAAACTTTCAGCAATTAAGTGGG
324 TTTGTTCGAGTCAATACGAATAGGTTAATTTTTTAAGGGTTGAAAACTTTCAACAATTAAGTGGG
*
8291675 TCACTACTCGGTAGCCTATGGGTAAAGTATAACGTATTAGCAGATTTGGTGATATCGACATTTCA
389 TCACTACTCGGTAGCCTATGGGTAAAATATAACGTATTAGCAGATTTGGTGATATCGACATTTCA
*
8291740 GTAATTCTGTGTTTCTTCGTGTTTA-TTTTTTATATCTATATAAAATATAACGTGTTAATAGTTA
454 GTAATTCTGTGTTTCTTCGTGTTTATTTTTTTATATCTATATAAAATATAACGTGCTAATAGTTA
8291804 TACTTTAAAAGCCTATGG-T-TAAACCCTAAA-T-CCTAAATCA
519 TACTTTAAAAGCCTATGGTTATAAACCCTAAACTACCTAAATCA
8291844 TAAACCTTATATGAACAAAATTAAATCGAATGTAATCTAGACACAAACTAAATTGATCTGAAATG
1 TAAACCTTATATGAACAAAATTAAATCGAATGTAATCTAGACACAAACTAAATTGATCTGAAATG
* * * ***
8291909 ATCCAACTTAAATCTAATTCGAATGATCCGTTTGTCACCCCTACTTCTACGTATAA-TTATTTTC
66 ATCCAACTTAAATCTAATACGAATGATCCGTTTGTCACCCCTACTTCTACTTA-AACCTAAAATC
* * * * **** * **
8291973 TTTATTTATTAAGAGTATA-TGTT-AT-AA-AATGCTTTTAGGTT-TAAGTAGAAGTAGGGGCAA
130 -AT-TTTA-TAACA-TATACTCTTAATAAATAAAGAAAATA-ATTATAAGTAGAAGTAGGGGTGA
*
8292033 CAAACGGATCATTCGTATTAGATTTAAGTTGGAACATTTCAGATCAATTTAGTTTGTGTCTATAT
190 CAAACGGATCATTCG-ATTAGATTTAAGTTGG-ACATTTCAGATCAATTTAGTTTGTGTCTAGAT
*
8292098 TACATTCGATTTAATTTTGTTTATATATGGTTTAGGGTTTAGGG
253 TACATTCGATTTAATTTTGTTTATATAGGGTTTAGGGTTTAGGG
8292142 ATCGGGCCAA
Statistics
Matches: 785, Mismatches: 48, Indels: 47
0.89 0.05 0.05
Matches are distributed among these distances:
557 1 0.00
558 195 0.25
559 246 0.31
560 8 0.01
561 6 0.01
562 7 0.01
563 5 0.01
564 1 0.00
566 11 0.01
568 2 0.00
570 1 0.00
572 1 0.00
573 56 0.07
574 245 0.31
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (562 bp):
TAAACCTTATATGAACAAAATTAAATCGAATGTAATCTAGACACAAACTAAATTGATCTGAAATG
ATCCAACTTAAATCTAATACGAATGATCCGTTTGTCACCCCTACTTCTACTTAAACCTAAAATCA
TTTTATAACATATACTCTTAATAAATAAAGAAAATAATTATAAGTAGAAGTAGGGGTGACAAACG
GATCATTCGATTAGATTTAAGTTGGACATTTCAGATCAATTTAGTTTGTGTCTAGATTACATTCG
ATTTAATTTTGTTTATATAGGGTTTAGGGTTTAGGGTTAAGTCAATATTACATCAGTTAATTTTT
TGTTCGAGTCAATACGAATAGGTTAATTTTTTAAGGGTTGAAAACTTTCAACAATTAAGTGGGTC
ACTACTCGGTAGCCTATGGGTAAAATATAACGTATTAGCAGATTTGGTGATATCGACATTTCAGT
AATTCTGTGTTTCTTCGTGTTTATTTTTTTATATCTATATAAAATATAACGTGCTAATAGTTATA
CTTTAAAAGCCTATGGTTATAAACCCTAAACTACCTAAATCA
Found at i:8297617 original size:15 final size:15
Alignment explanation
Indices: 8297599--8297642 Score: 88
Period size: 15 Copynumber: 2.9 Consensus size: 15
8297589 TTCATTTCAA
8297599 AATTTTATAAAATAC
1 AATTTTATAAAATAC
8297614 AATTTTATAAAATAC
1 AATTTTATAAAATAC
8297629 AATTTTATAAAATA
1 AATTTTATAAAATA
8297643 ACTTAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (15 bp):
AATTTTATAAAATAC
Found at i:8297815 original size:34 final size:34
Alignment explanation
Indices: 8297776--8297845 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
8297766 ACATCCAAAC
8297776 AATGTAATTGATTTTCTGGAATTGGTTTTCCAGA
1 AATGTAATTGATTTTCTGGAATTGGTTTTCCAGA
* *
8297810 AATGTAATTGGTTTTCTGGAATTGGTTTTGCAGA
1 AATGTAATTGATTTTCTGGAATTGGTTTTCCAGA
8297844 AA
1 AA
8297846 ACCAATTACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (34 bp):
AATGTAATTGATTTTCTGGAATTGGTTTTCCAGA
Found at i:8299961 original size:2 final size:2
Alignment explanation
Indices: 8299954--8299986 Score: 50
Period size: 2 Copynumber: 16.5 Consensus size: 2
8299944 ATGGATTGCT
8299954 TA TA TA TA -A TA TGA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA T
8299987 TTAGTATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.03
2 26 0.90
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8300047 original size:2 final size:2
Alignment explanation
Indices: 8300040--8300076 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8300030 TCAATCTACA
8300040 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8300077 ATTTACGACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8300275 original size:72 final size:72
Alignment explanation
Indices: 8300158--8300371 Score: 340
Period size: 72 Copynumber: 3.0 Consensus size: 72
8300148 AATGTAAGTC
* *
8300158 ATGCGTGTCATAAATTTATGACACACAAATGTGTGTCATCTTCATTTATGACGGGAGCTTCAATG
1 ATGCGCGTCATAAATTTATGACACACAATTGTGTGTCATCTTCATTTATGACGGGAGCTTCAATG
8300223 ACGCGCA
66 ACGCGCA
8300230 ATGCGCGTCATAAATTTATGACACACAATTGTGTGTCATCTTCATTTATGACGGGAGCTTCAATG
1 ATGCGCGTCATAAATTTATGACACACAATTGTGTGTCATCTTCATTTATGACGGGAGCTTCAATG
*
8300295 ATGCGCA
66 ACGCGCA
* * **
8300302 ATGCGCATCATAAATTTATGACACACAATTGCGTGTCATCTGAGATTTATGACGGTG-GCTTCAA
1 ATGCGCGTCATAAATTTATGACACACAATTGTGTGTCATCT-TCATTTATGACGG-GAGCTTCAA
8300366 TGACGC
64 TGACGC
8300372 ACATTTGTGT
Statistics
Matches: 132, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
72 108 0.82
73 23 0.17
74 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (72 bp):
ATGCGCGTCATAAATTTATGACACACAATTGTGTGTCATCTTCATTTATGACGGGAGCTTCAATG
ACGCGCA
Found at i:8306830 original size:22 final size:22
Alignment explanation
Indices: 8306802--8306845 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
8306792 TTGCATACAA
8306802 GCAGTTAA-CCTTAACAGCTTGT
1 GCAGTTAATCC-TAACAGCTTGT
8306824 GCAGTTAATCCTAACAGCTTGT
1 GCAGTTAATCCTAACAGCTTGT
8306846 AAATAACTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (22 bp):
GCAGTTAATCCTAACAGCTTGT
Found at i:8313788 original size:3 final size:3
Alignment explanation
Indices: 8313780--8313824 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
8313770 TATATTTATT
*
8313780 TAA TAA TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8313825 GTAAGAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8314108 original size:76 final size:76
Alignment explanation
Indices: 8313982--8314744 Score: 1431
Period size: 76 Copynumber: 10.0 Consensus size: 76
8313972 GGTCTTATGA
*
8313982 ATGACCCTG-AGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 ATGACCC-GAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
* *
8314046 TAGGGCTTACAG
65 AAGGACTTACAG
*
8314058 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
*
8314123 AGGGCTTACAG
66 AGGACTTACAG
*
8314134 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
8314199 AGGACTTACAG
66 AGGACTTACAG
8314210 ATGA-CCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
8314274 AGGACTTACAG
66 AGGACTTACAG
*
8314285 ATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
8314350 AGGACTTACAG
66 AGGACTTACAG
8314361 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
8314426 AGGACTTACAG
66 AGGACTTACAG
8314437 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTG
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTG
8314502 AAGGACTTACAG
65 AAGGACTTACAG
8314514 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
8314579 AGGACTTACAG
66 AGGACTTACAG
8314590 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
8314655 AGGACTTACAG
66 AGGACTTACAG
8314666 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
8314731 AGGACTTACAG
66 AGGACTTACAG
8314742 ATG
1 ATG
8314745 TGAGAAATAG
Statistics
Matches: 678, Mismatches: 6, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
75 75 0.11
76 527 0.78
77 76 0.11
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (76 bp):
ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
AGGACTTACAG
Found at i:8314579 original size:229 final size:228
Alignment explanation
Indices: 8313982--8314744 Score: 1440
Period size: 229 Copynumber: 3.3 Consensus size: 228
8313972 GGTCTTATGA
*
8313982 ATGACCCTG-AGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 ATGACCC-GAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
* *
8314046 TAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAC
65 AAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAC
* *
8314111 ATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGC
130 ATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGC
8314176 TTTTTGGAAACATCATGCACTGAAGGACTTACAG
195 TTTTTGGAAACATCATGCACTGAAGGACTTACAG
8314210 ATGA-CCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
8314274 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
66 AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
8314339 TCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCT
131 TCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCT
8314404 TTTTGGAAACATCATGCACTGAAGGACTTACAG
196 TTTTGGAAACATCATGCACTGAAGGACTTACAG
8314437 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTG
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGC-TTTTTGGAAACATCATGCACTG
*
8314502 AAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAC
65 AAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAAC
8314567 ATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGC
130 ATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGC
8314632 TTTTTGGAAACATCATGCACTGAAGGACTTACAG
195 TTTTTGGAAACATCATGCACTGAAGGACTTACAG
8314666 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
1 ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
8314731 AGGACTTACAGATG
66 AGGACTTACAGATG
8314745 TGAGAAATAG
Statistics
Matches: 526, Mismatches: 6, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
226 1 0.00
227 220 0.42
228 78 0.15
229 227 0.43
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (228 bp):
ATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGA
AGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACA
TCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCT
TTTTGGAAACATCATGCACTGAAGGACTTACAG
Found at i:8315895 original size:54 final size:54
Alignment explanation
Indices: 8315806--8316015 Score: 348
Period size: 54 Copynumber: 3.9 Consensus size: 54
8315796 ATAATCACTG
* * *
8315806 GTTCGTAAAACATTTGACAATACATTCATCTTTTCCTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGCTCAGAT
* * * * *
8315860 GTTCATAAAACATTTGACCACACATTCATCCTTTCCTGTGGTTTCTGTTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGCTCAGAT
8315914 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGCTCAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGCTCAGAT
8315968 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGC
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGC
8316016 CAAGATTTCT
Statistics
Matches: 145, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 145 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTACTGTGGCTTCTGCTCAGAT
Found at i:8319805 original size:18 final size:18
Alignment explanation
Indices: 8319782--8319818 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
8319772 TCAATTTTCC
*
8319782 TTTTTTTTCTTTTTTCTT
1 TTTTTTTTCTTCTTTCTT
8319800 TTTTTTTTCTTCTTTCTT
1 TTTTTTTTCTTCTTTCTT
8319818 T
1 T
8319819 GCTGGATGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTTTTCTTCTTTCTT
Found at i:8326602 original size:3 final size:3
Alignment explanation
Indices: 8326594--8326634 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
8326584 TATATTTATT
*
8326594 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8326635 GTAAGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:8329710 original size:2 final size:2
Alignment explanation
Indices: 8329703--8329770 Score: 102
Period size: 2 Copynumber: 34.5 Consensus size: 2
8329693 TACAAAAGTA
* * *
8329703 AT AT AT AT AT AT AT AT AT AA AG A- AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8329744 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
8329771 AAATAAGATA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (2 bp):
AT
Found at i:8330132 original size:2 final size:2
Alignment explanation
Indices: 8330125--8330152 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8330115 TAAATAAATA
8330125 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8330153 TAAGATATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8330192 original size:18 final size:19
Alignment explanation
Indices: 8330165--8330235 Score: 67
Period size: 18 Copynumber: 3.7 Consensus size: 19
8330155 AGATATAGGA
8330165 ATAA-AAATAATAGTAAAT
1 ATAATAAATAATAGTAAAT
8330183 A-AATAAATAAATATAGTAAAT
1 ATAATAAAT--A-ATAGTAAAT
* *
8330204 ATAGTAAATAA-ATTAAAT
1 ATAATAAATAATAGTAAAT
8330222 ATATATAAATAATA
1 ATA-ATAAATAATA
8330236 ATACTAGATA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
17 2 0.05
18 14 0.33
19 8 0.19
20 3 0.07
21 10 0.23
22 6 0.14
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (19 bp):
ATAATAAATAATAGTAAAT
Found at i:8330204 original size:9 final size:9
Alignment explanation
Indices: 8330190--8330224 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
8330180 AATAAATAAA
8330190 TAAATATAG
1 TAAATATAG
8330199 TAAATATAG
1 TAAATATAG
* *
8330208 TAAATAAAT
1 TAAATATAG
8330217 TAAATATA
1 TAAATATA
8330225 TATAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (9 bp):
TAAATATAG
Found at i:8330247 original size:41 final size:40
Alignment explanation
Indices: 8330169--8330248 Score: 92
Period size: 41 Copynumber: 2.0 Consensus size: 40
8330159 ATAGGAATAA
*
8330169 AAATAATAGTAAATAAATAAATAAATATAGTAAATATAGT
1 AAATAATAGTAAATAAATAAATAAATATACTAAATATAGT
* *
8330209 AAATAA-ATTAAATATATATAAAT-AATAATACTAGATATAG
1 AAATAATAGTAAATA-A-ATAAATAAAT-ATACTAAATATAG
8330249 ATATACATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
39 7 0.21
40 10 0.29
41 17 0.50
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.31
Consensus pattern (40 bp):
AAATAATAGTAAATAAATAAATAAATATACTAAATATAGT
Found at i:8332054 original size:66 final size:68
Alignment explanation
Indices: 8331929--8332059 Score: 162
Period size: 66 Copynumber: 2.0 Consensus size: 68
8331919 AATTAGTTTC
* * * *
8331929 AAGGGAAACAATCTCAAAGATATTTGTTGTTTCATGAAAAATGATCTCAAGGTAAACAAATTTTT
1 AAGGGAAAAAATCTCAAAGATATTTGTTGTTTCAAGAAAAATGATCTCAAGGGAAACAAAATTTT
8331994 TTT
66 TTT
* *
8331997 AAGGGAAATAAAT-TCAAAGAT-TTTG-TGTTTCAAGAGAAACTG-TCTCAAGGGAGACAAAATT
1 AAGGGAAA-AAATCTCAAAGATATTTGTTGTTTCAAGA-AAAATGATCTCAAGGGAAACAAAATT
8332058 TT
64 TT
8332060 CAAGAGAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
66 27 0.49
67 9 0.16
68 16 0.29
69 3 0.05
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (68 bp):
AAGGGAAAAAATCTCAAAGATATTTGTTGTTTCAAGAAAAATGATCTCAAGGGAAACAAAATTTT
TTT
Found at i:8332066 original size:33 final size:33
Alignment explanation
Indices: 8332024--8332091 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
8332014 AGATTTTGTG
*
8332024 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
* * *
8332057 TTTCAAGAGAAATTGTCTCGAGAGAGACAGAAT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
8332090 TT
1 TT
8332092 GTTTAAAGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (33 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAAT
Found at i:8334320 original size:95 final size:95
Alignment explanation
Indices: 8334147--8334328 Score: 287
Period size: 95 Copynumber: 1.9 Consensus size: 95
8334137 ATATGTAAAT
* *
8334147 ACCTTTATCAGGTTAGCTAAATCTTATCCATAAAGCCAGGGCGTTTAGCCAATTGCCTTAGAGGG
1 ACCTTTATCAGGTTAGCTAAATATTATCCATAAAGCCAGGGCGTTTAACCAATTGCCTTAGAGGG
* *
8334212 ACAGCTCAGGCTTTATTGTATAGTATAATC
66 ACAACTCAAGCTTTATTGTATAGTATAATC
*
8334242 ACCTTTATCAGGTTAGCTGAATATTATCCATAAAGCC-GAGGCGTTTAACCAATTG-CTCTAGAG
1 ACCTTTATCAGGTTAGCTAAATATTATCCATAAAGCCAG-GGCGTTTAACCAATTGCCT-TAGAG
8334305 GGACAACTCAAGCTTTATTGTATA
64 GGACAACTCAAGCTTTATTGTATA
8334329 TAAATAATAT
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
94 3 0.04
95 77 0.96
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (95 bp):
ACCTTTATCAGGTTAGCTAAATATTATCCATAAAGCCAGGGCGTTTAACCAATTGCCTTAGAGGG
ACAACTCAAGCTTTATTGTATAGTATAATC
Found at i:8338598 original size:29 final size:28
Alignment explanation
Indices: 8338541--8338598 Score: 64
Period size: 29 Copynumber: 2.0 Consensus size: 28
8338531 AATAGCTAAG
*
8338541 AAAAATAATAAGGATATAAAATATTATGT
1 AAAAATAATAA-GATATAAAATATAATGT
*
8338570 AAAAATAAATAA-ATATATAAGTATAATGT
1 AAAAAT-AATAAGATATA-AAATATAATGT
8338599 GAGGAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 5 0.20
29 15 0.60
30 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (28 bp):
AAAAATAATAAGATATAAAATATAATGT
Found at i:8338839 original size:4 final size:4
Alignment explanation
Indices: 8338830--8338942 Score: 59
Period size: 4 Copynumber: 26.5 Consensus size: 4
8338820 AACAAAATAC
* * * * * *
8338830 AAAT AAAT AAAT AATAT ATAT ATAT ATAT ATATT AAGAT ATAG AAAT -AA-
1 AAAT AAAT AAAT AA-AT AAAT AAAT AAAT A-AAT AA-AT AAAT AAAT AAAT
* *
8338879 AAAT AATAGT AAAT AAAT AAAT AAAT AACT AAAT ATAGT AAAT AAATT
1 AAAT AA-A-T AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAA-T
8338927 AAAT ATATAT AAAT AA
1 AAAT A-A-AT AAAT AA
8338943 TAATACTAGT
Statistics
Matches: 86, Mismatches: 12, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
3 4 0.05
4 58 0.67
5 18 0.21
6 6 0.07
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (4 bp):
AAAT
Found at i:8338939 original size:44 final size:44
Alignment explanation
Indices: 8338830--8338942 Score: 115
Period size: 44 Copynumber: 2.5 Consensus size: 44
8338820 AACAAAATAC
* * * *
8338830 AAATAAATAAATA-ATATATATATATATATATATTAAGATATAG
1 AAATAAATAAATATATATAAATAAATAAATATACTAAGATATAG
* *
8338873 AAATAAAAATAATAGTAAATAAATAAATAAATA-ACTAA-ATATAG
1 AAATAAATA-AATA-TATATAAATAAATAAATATACTAAGATATAG
8338917 TAAATAAATTAAATATATATAAATAA
1 -AAATAAA-TAAATATATATAAATAA
8338943 TAATACTAGT
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
43 8 0.14
44 20 0.35
45 15 0.26
46 14 0.25
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (44 bp):
AAATAAATAAATATATATAAATAAATAAATATACTAAGATATAG
Found at i:8339981 original size:22 final size:22
Alignment explanation
Indices: 8339956--8340022 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
8339946 AGACGTACGA
8339956 CCACACAACTCGGAGAGAACGG
1 CCACACAACTCGGAGAGAACGG
8339978 CCACACAACTCGGAGAGAACGG
1 CCACACAACTCGGAGAGAACGG
8340000 CCACACAACTCGGAGAGAACGG
1 CCACACAACTCGGAGAGAACGG
8340022 C
1 C
8340023 GTGAGGCGTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.36, C:0.33, G:0.27, T:0.04
Consensus pattern (22 bp):
CCACACAACTCGGAGAGAACGG
Found at i:8343939 original size:2 final size:2
Alignment explanation
Indices: 8343932--8343966 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
8343922 CCCTGTTAGT
8343932 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8343967 ATGAATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8345672 original size:31 final size:29
Alignment explanation
Indices: 8345637--8345735 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 29
8345627 CGACCCATTA
8345637 TTATTGTTATTTTAATTTAAAAATATATATT
1 TTATT-TTATTTTAA-TTAAAAATATATATT
* *
8345668 TTATTCTAATTTTTAATTAAAAATATGT-TT
1 TTATT-TTA-TTTTAATTAAAAATATATATT
* *
8345698 TAATTTTATTTTAACCTAAAAATATATTATT
1 TTATTTTATTTTAA-TTAAAAATATA-TATT
8345729 CTTATTT
1 -TTATTT
8345736 AATTGAATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
28 6 0.11
29 11 0.20
30 7 0.13
31 20 0.36
32 11 0.20
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (29 bp):
TTATTTTATTTTAATTAAAAATATATATT
Found at i:8345775 original size:18 final size:19
Alignment explanation
Indices: 8345751--8345796 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
8345741 AATATATATT
8345751 TATATATATTAATTTAATA
1 TATATATATTAATTTAATA
**
8345770 -ATATATATTTCTTTAATA
1 TATATATATTAATTTAATA
8345788 TATATATAT
1 TATATATAT
8345797 ATATTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TATATATATTAATTTAATA
Found at i:8348231 original size:17 final size:19
Alignment explanation
Indices: 8348199--8348235 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
8348189 AAATGAGTAG
8348199 TTTATTATATTACTTTTTA
1 TTTATTATATTACTTTTTA
8348218 TTTATT-TA-TACTTTTTA
1 TTTATTATATTACTTTTTA
8348235 T
1 T
8348236 GGAAGCAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 2 0.11
19 6 0.33
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTATTATATTACTTTTTA
Found at i:8352697 original size:131 final size:130
Alignment explanation
Indices: 8352284--8352747 Score: 641
Period size: 131 Copynumber: 3.6 Consensus size: 130
8352274 TCCTCGTTTC
* * *
8352284 GTAATAAATGACTGCTTTAAAGTATGAGATG-CTATTTATTCTCAATTGGAAATAATAAGATATT
1 GTAATAAATGACTGCTTTAAGGTATGAGAGGTC-ATTTATTCTCAATTGGAAATAATTAGATATT
* * * * * * *
8352348 -GCGTTTTTCTCTCGAGTCAATATTGATTTTTAAGACAGAATAATGATATCTCTTCATTTCAATT
65 ATC-ATTTTCACTCGAATCAATATTGAATTTTAAGAGA-AATAGTGATATCTCTTCATTTCAATT
8352412 GGA
128 GGA
* * * *
8352415 GTAATAAATGACTGCTTTAAGGTGTAAGAGGTCATTTATTCTCGATTGGAAATCATTAGATATTA
1 GTAATAAATGACTGCTTTAAGGTATGAGAGGTCATTTATTCTCAATTGGAAATAATTAGATATTA
*
8352480 TC-GTTTCACTCGAATCAATATTGAATTTTAAGACGAAATAGTGATATCTCTTCATTTCAATTGG
66 TCATTTTCACTCGAATCAATATTGAATTTTAAGA-GAAATAGTGATATCTCTTCATTTCAATTGG
8352544 A
130 A
* * *
8352545 GTAATAAATGACTGCTTTAAGGCATGAGAGGTCATTTATTCTCGATTGGAAATCATTAGATATTA
1 GTAATAAATGACTGCTTTAAGGTATGAGAGGTCATTTATTCTCAATTGGAAATAATTAGATATTA
8352610 TCATTTTCACTCGAATCAATATTGAATTTTAAGATGAAATAGTGATATCTCTTCATTTCAATT-G
66 TCATTTTCACTCGAATCAATATTGAATTTTAAGA-GAAATAGTGATATCTCTTCATTTCAATTGG
8352674 A
130 A
* *
8352675 GGTAATAAATGATTG-TTATAAGGTATGAAAGGTCATTTATTCTCAATTGGAAATAATTAGATAT
1 -GTAATAAATGACTGCTT-TAAGGTATGAGAGGTCATTTATTCTCAATTGGAAATAATTAGATAT
*
8352739 GATCATTTT
64 TATCATTTT
8352748 ATCTTTTAAA
Statistics
Matches: 302, Mismatches: 25, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
130 123 0.41
131 177 0.59
132 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (130 bp):
GTAATAAATGACTGCTTTAAGGTATGAGAGGTCATTTATTCTCAATTGGAAATAATTAGATATTA
TCATTTTCACTCGAATCAATATTGAATTTTAAGAGAAATAGTGATATCTCTTCATTTCAATTGGA
Found at i:8356786 original size:82 final size:82
Alignment explanation
Indices: 8356623--8356775 Score: 243
Period size: 82 Copynumber: 1.9 Consensus size: 82
8356613 GGGATGTACC
* * * *
8356623 GATACACTCTGGTATGTAATGATACACCCCCAACTTTGAGTGTAATTTGGGAACTGATACATTCC
1 GATACACTCTGGTATGTAACGATACACCCCCAACTTCGAGTGTAATTTGGGAACCGATACACTCC
8356688 TGATGTATCGATACACT
66 TGATGTATCGATACACT
* **
8356705 GATACACTCTGGTATGTACCGATACACCCCTTACTTCGAGTGTAATTTGGGAACCGATACACTCC
1 GATACACTCTGGTATGTAACGATACACCCCCAACTTCGAGTGTAATTTGGGAACCGATACACTCC
8356770 TGATGT
66 TGATGT
8356776 CCTGATACAC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (82 bp):
GATACACTCTGGTATGTAACGATACACCCCCAACTTCGAGTGTAATTTGGGAACCGATACACTCC
TGATGTATCGATACACT
Found at i:8364992 original size:23 final size:23
Alignment explanation
Indices: 8364966--8365009 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
8364956 ACAGAGAATT
* * *
8364966 TGTCCTGAAGGGCCACGTAGAAA
1 TGTCCAGAAGGACCACATAGAAA
8364989 TGTCCAGAAGGACCACATAGA
1 TGTCCAGAAGGACCACATAGA
8365010 CCAAATGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.23, G:0.27, T:0.16
Consensus pattern (23 bp):
TGTCCAGAAGGACCACATAGAAA
Found at i:8369334 original size:21 final size:21
Alignment explanation
Indices: 8369308--8369351 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
8369298 TGTCCAGAAA
*
8369308 GACCACATATATATCCCGAAG
1 GACCACATAGATATCCCGAAG
*
8369329 GACCACATAGATGTCCCGAAG
1 GACCACATAGATATCCCGAAG
8369350 GA
1 GA
8369352 ACATTCCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.16
Consensus pattern (21 bp):
GACCACATAGATATCCCGAAG
Found at i:8370440 original size:29 final size:29
Alignment explanation
Indices: 8370390--8370600 Score: 180
Period size: 29 Copynumber: 7.3 Consensus size: 29
8370380 ACCCGACCCA
8370390 GTGACATTTTGGGAATTATTTTGAAAAAG
1 GTGACATTTTGGGAATTATTTTGAAAAAG
* * * *
8370419 GTGGCATTTTAGAAATTCTTTTGAAAAAG
1 GTGACATTTTGGGAATTATTTTGAAAAAG
*
8370448 GTGACATTTTGGGAATTATTTTGAAAAAT
1 GTGACATTTTGGGAATTATTTTGAAAAAG
* * * *
8370477 GTAACATTTT-GG--TTTTTTTTAAAAAA
1 GTGACATTTTGGGAATTATTTTGAAAAAG
* * * *
8370503 GTGACATTCTGGTAATTATTTTTAAAACG
1 GTGACATTTTGGGAATTATTTTGAAAAAG
* * *
8370532 ATGACATTTTGGAAATTA-TTTG-TAAAG
1 GTGACATTTTGGGAATTATTTTGAAAAAG
* * *
8370559 CAGTGATATTTTGGTAATTATTTTTAATAAAG
1 --GTGACATTTTGGGAATTATTTTGAA-AAAG
*
8370591 GTGATATTTT
1 GTGACATTTT
8370601 TTTAATTTTT
Statistics
Matches: 144, Mismatches: 30, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
26 19 0.13
27 4 0.03
28 5 0.03
29 99 0.69
30 13 0.09
32 4 0.03
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.43
Consensus pattern (29 bp):
GTGACATTTTGGGAATTATTTTGAAAAAG
Found at i:8377969 original size:47 final size:45
Alignment explanation
Indices: 8377900--8378025 Score: 166
Period size: 47 Copynumber: 2.8 Consensus size: 45
8377890 TATAAAATCT
*
8377900 CTTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
8377945 TTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATA
1 CTTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* *
8377992 CTTGCCA-TTATT-CATAAGCTTGTAAGCTTATTTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTT
8378026 CATACTTACC
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
43 21 0.29
44 3 0.04
45 9 0.12
46 2 0.03
47 37 0.51
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:8388066 original size:20 final size:21
Alignment explanation
Indices: 8388041--8388080 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
8388031 AGTATGTCTA
*
8388041 GGGGGTATC-ATTTCCCCCTG
1 GGGGGTATCGATTCCCCCCTG
8388061 GGGGGTATCGATTCCCCCCT
1 GGGGGTATCGATTCCCCCCT
8388081 AAAGGAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.10, C:0.33, G:0.30, T:0.28
Consensus pattern (21 bp):
GGGGGTATCGATTCCCCCCTG
Found at i:8394943 original size:21 final size:20
Alignment explanation
Indices: 8394902--8394940 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
8394892 CAGTATGTCC
8394902 AGGGGGTATCGATTCCCCCT
1 AGGGGGTATCGATTCCCCCT
8394922 AGGGGGTATCGATTCCCCC
1 AGGGGGTATCGATTCCCCC
8394941 CTAAAGGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (20 bp):
AGGGGGTATCGATTCCCCCT
Found at i:8401321 original size:136 final size:134
Alignment explanation
Indices: 8400894--8401334 Score: 470
Period size: 134 Copynumber: 3.2 Consensus size: 134
8400884 CGATCCATTA
* * * * * * *
8400894 TTCCCTTAAGAACAGTGGAATGAATTAACATTTGCATATCTGATTTTCCCTCAAGTAGTAGCGAA
1 TTCCC-TAAGAACAGTGGAATGAATCAACATTTCCATATATGATTTTCCCTTAAGAAGTAGTGGA
* * * * * ** *
8400959 ACATATCCCTCTTTGTTTTCCAGATTTTATCTTCCTTGAGGAACAATGGAACAAGAGTGCCTCGA
65 ACAAATCCCT-TTT-TTTTCCAGATTTGATCTTCCTTGAGCAGCAGTGGAACAAGTCTACCTCGA
8401024 TTCAATC
128 TTCAATC
* * *
8401031 TTCCCTAAGGAACAATGGAATGAATTAACATTTCCATATATGATTTTCCCTTAAGAAGTAGTAGA
1 TTCCCTAA-GAACAGTGGAATGAATCAACATTTCCATATATGATTTTCCCTTAAGAAGTAGTGGA
* * * ** * *
8401096 ATAAATCCC-TCTTTTTCCAAATTTGATCTTCCCCGAGTAGCAGTGGAACAAGTCTTCCTCGATT
65 ACAAATCCCTTTTTTTTCCAGATTTGATCTTCCTTGAGCAGCAGTGGAACAAGTCTACCTCGATT
* *
8401160 TAATT
130 CAATC
* * * *
8401165 TTCCCTAGAGAAAAGTGGAATGAATCAACATTTTCAAATATGATTTTCCCTTAAGAAGTTGTGGA
1 TTCCCTA-AGAACAGTGGAATGAATCAACATTTCCATATATGATTTTCCCTTAAGAAGTAGTGGA
** * *
8401230 ACAAATCCCTTTTTCTTTCCAGATTTGATCTTCCTTGAGCAGTTGTGGAACAATTCTACATCGAT
65 ACAAATCCCTTTTT-TTTCCAGATTTGATCTTCCTTGAGCAGCAGTGGAACAAGTCTACCTCGAT
8401295 TCAATC
129 TCAATC
* * *
8401301 TTCCCTGAAGAATAGTGGAATAAATCAACGTTTC
1 TTCCCT-AAGAACAGTGGAATGAATCAACATTTC
8401335 TCGATCTGAT
Statistics
Matches: 252, Mismatches: 47, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
134 109 0.43
135 6 0.02
136 76 0.30
137 61 0.24
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (134 bp):
TTCCCTAAGAACAGTGGAATGAATCAACATTTCCATATATGATTTTCCCTTAAGAAGTAGTGGAA
CAAATCCCTTTTTTTTCCAGATTTGATCTTCCTTGAGCAGCAGTGGAACAAGTCTACCTCGATTC
AATC
Found at i:8403031 original size:20 final size:20
Alignment explanation
Indices: 8403006--8403043 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8402996 CATTTTATTT
8403006 TGTTTTAATTT-TTTATATGA
1 TGTTTT-ATTTGTTTATATGA
8403026 TGTTTTATTTGTTTATAT
1 TGTTTTATTTGTTTATAT
8403044 TTTAGCACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (20 bp):
TGTTTTATTTGTTTATATGA
Found at i:8403786 original size:131 final size:129
Alignment explanation
Indices: 8403573--8403878 Score: 346
Period size: 131 Copynumber: 2.3 Consensus size: 129
8403563 TTGTTTTGGT
* *
8403573 TGGAGTAATAAATGACTGCTTTAAGAAATGAGAGGTCATTTATTCTCGATTGGAAATAATCAGAT
1 TGGAGTAATAAATG-TTGCTTTAAGGAATGAGAGGTCATTTATTCTCGATTGGAAATAATCAGAT
* * * * *
8403638 ATTACCATTTTCTCTCG-ATAGAATATT-AATTTTTAAGACGAAATATTGATATCTCTTCATTTC
65 AATACCATTTTCACTCGAAT-CAATATTGAA-TTTTAAGACAAAATAGTGATATCTCTTCATTTC
8403701 AA
128 AA
* * * * **
8403703 CTGGAATAATAAATGTTAGCTTTAAGGCATGAGAGGTCATTTATTCTTGATTGGAAATCATTGGA
1 -TGGAGTAATAAATGTT-GCTTTAAGGAATGAGAGGTCATTTATTCTCGATTGGAAATAATCAGA
* * * *
8403768 TAATATCGTTTTCACTCGAATCAATATTGAATTTTAAGACAAAATAGTGATATTTGTTCATTTCA
64 TAATACCATTTTCACTCGAATCAATATTGAATTTTAAGACAAAATAGTGATATCTCTTCATTTCA
8403833 A
129 A
* * * *
8403834 TTGAGGTAATAAATGTCTGTTTTAAGGTATGAAAGGTCATTTATT
1 TGGA-GTAATAAATGT-TGCTTTAAGGAATGAGAGGTCATTTATT
8403879 ATTTCTTTAT
Statistics
Matches: 148, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
130 4 0.03
131 139 0.94
132 5 0.03
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (129 bp):
TGGAGTAATAAATGTTGCTTTAAGGAATGAGAGGTCATTTATTCTCGATTGGAAATAATCAGATA
ATACCATTTTCACTCGAATCAATATTGAATTTTAAGACAAAATAGTGATATCTCTTCATTTCAA
Found at i:8405155 original size:58 final size:58
Alignment explanation
Indices: 8405060--8405169 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 58
8405050 AGACTTCATG
* * *
8405060 GTAAAAGAATTATTATTATTAATTGAAGTTGCAGGTTTAAGCGCCATAAATGTCAAGA
1 GTAAAAGAATTATTATTATCAATTGAAGATGCAGGTTTAAGCACCATAAATGTCAAGA
* * *
8405118 GTAAGAGAATTGTTGTTATCAATTGAAGAT-CAAGGTTTAAGCACCATAAATG
1 GTAAAAGAATTATTATTATCAATTGAAGATGC-AGGTTTAAGCACCATAAATG
8405170 CCAATAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 1 0.02
58 44 0.98
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.32
Consensus pattern (58 bp):
GTAAAAGAATTATTATTATCAATTGAAGATGCAGGTTTAAGCACCATAAATGTCAAGA
Found at i:8405394 original size:117 final size:116
Alignment explanation
Indices: 8405188--8405405 Score: 375
Period size: 117 Copynumber: 1.9 Consensus size: 116
8405178 TTGATCTTTC
* *
8405188 AATATCTAAATGTTGAGAGTTATATTTGAACATATACTATCTTGTACTTACCCCAGATTAATAAA
1 AATATCTAAAGGTTGAGAGTTATATTTGAACATATACTATCTTGTACTTACCCCAGATTAACAAA
8405253 AAAATATTTTTTATAAAATAAATAAATTGAATTTAAATCACTGTGAGCTTAA
66 AAAATATTTTTTATAAAATAAATAAATT-AATTTAAATCACTGTGAGCTTAA
* *
8405305 AATATCTAAAGGTTGAGAGTTATCTTTGAACATATACTATCTTGTACTTACCTCAGATTAAC-AA
1 AATATCTAAAGGTTGAGAGTTATATTTGAACATATACTATCTTGTACTTACCCCAGATTAACAAA
8405369 AAAATATTTTTTTATAAAATAAATAAATTAATTTAAA
66 AAAATA-TTTTTTATAAAATAAATAAATTAATTTAAA
8405406 ACACAAATCA
Statistics
Matches: 96, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
116 16 0.17
117 80 0.83
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (116 bp):
AATATCTAAAGGTTGAGAGTTATATTTGAACATATACTATCTTGTACTTACCCCAGATTAACAAA
AAAATATTTTTTATAAAATAAATAAATTAATTTAAATCACTGTGAGCTTAA
Found at i:8405461 original size:15 final size:15
Alignment explanation
Indices: 8405423--8405471 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
8405413 TCAATCTATG
*
8405423 TATTATATTGTATTG
1 TATTATATTGTATTA
* * *
8405438 CATTGTATTGTATCA
1 TATTATATTGTATTA
*
8405453 TATTATATTATATTA
1 TATTATATTGTATTA
8405468 TATT
1 TATT
8405472 TGTTGAGTTA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.31, C:0.04, G:0.08, T:0.57
Consensus pattern (15 bp):
TATTATATTGTATTA
Found at i:8406926 original size:17 final size:17
Alignment explanation
Indices: 8406873--8406938 Score: 59
Period size: 16 Copynumber: 4.1 Consensus size: 17
8406863 TAAATATAAG
*
8406873 TTCAAAC-ATCCATAAA
1 TTCAAACAATCCACAAA
*
8406889 TTCAAACAAAT--TCAAA
1 TTCAAAC-AATCCACAAA
*
8406905 GTCAAACAATCCACAAA
1 TTCAAACAATCCACAAA
*
8406922 TTCAAACATTCCA-AAA
1 TTCAAACAATCCACAAA
8406938 T
1 T
8406939 ATCCAAAATG
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
15 3 0.08
16 20 0.50
17 15 0.38
18 2 0.05
ACGTcount: A:0.52, C:0.24, G:0.02, T:0.23
Consensus pattern (17 bp):
TTCAAACAATCCACAAA
Found at i:8407224 original size:18 final size:18
Alignment explanation
Indices: 8407203--8407241 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
8407193 GCATTTGATA
* *
8407203 CTCTGGATGAGGTTGTTC
1 CTCTGGAGGAGCTTGTTC
*
8407221 CTCTGGAGGTGCTTGTTC
1 CTCTGGAGGAGCTTGTTC
8407239 CTC
1 CTC
8407242 ATGCTGCTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.23, G:0.31, T:0.38
Consensus pattern (18 bp):
CTCTGGAGGAGCTTGTTC
Found at i:8408854 original size:21 final size:22
Alignment explanation
Indices: 8408836--8408897 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
8408826 ATTTCCCTAC
*
8408836 AGGGGGAATTGGTTCCCCTTCAA
1 AGGGGGAATCGGTTCCCC-TCAA
**
8408859 AGGGGGAATCGGTTCCCCTTTA
1 AGGGGGAATCGGTTCCCCTCAA
* *
8408881 AGGGGGTATCGATTCCC
1 AGGGGGAATCGGTTCCC
8408898 TCTGCACCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 17 0.50
23 17 0.50
ACGTcount: A:0.19, C:0.23, G:0.32, T:0.26
Consensus pattern (22 bp):
AGGGGGAATCGGTTCCCCTCAA
Found at i:8408883 original size:22 final size:23
Alignment explanation
Indices: 8408836--8408897 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
8408826 ATTTCCCTAC
*
8408836 AGGGGGAATTGGTTCCCCTTCAA
1 AGGGGGAATCGGTTCCCCTTCAA
*
8408859 AGGGGGAATCGGTTCCCCTT-TA
1 AGGGGGAATCGGTTCCCCTTCAA
* *
8408881 AGGGGGTATCGATTCCC
1 AGGGGGAATCGGTTCCC
8408898 TCTGCACCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 16 0.46
23 19 0.54
ACGTcount: A:0.19, C:0.23, G:0.32, T:0.26
Consensus pattern (23 bp):
AGGGGGAATCGGTTCCCCTTCAA
Found at i:8408898 original size:21 final size:22
Alignment explanation
Indices: 8408815--8408897 Score: 71
Period size: 23 Copynumber: 3.8 Consensus size: 22
8408805 ATAGAACCCC
* *
8408815 AGGGGGTATCGATTTCCC--TA
1 AGGGGGAATCGATTCCCCTTTA
* * *
8408835 CAGGGGGAATTGGTTCCCCTTCAA
1 -AGGGGGAATCGATTCCCCTT-TA
*
8408859 AGGGGGAATCGGTTCCCCTTTA
1 AGGGGGAATCGATTCCCCTTTA
*
8408881 AGGGGGTATCGATTCCC
1 AGGGGGAATCGATTCCC
8408898 TCTGCACCAA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
21 14 0.28
22 16 0.32
23 19 0.38
24 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.31, T:0.27
Consensus pattern (22 bp):
AGGGGGAATCGATTCCCCTTTA
Found at i:8412751 original size:22 final size:21
Alignment explanation
Indices: 8412709--8412748 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8412699 GAGTTTATTT
*
8412709 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
8412730 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
8412749 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:8415925 original size:3 final size:3
Alignment explanation
Indices: 8415914--8415947 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
8415904 TTTTATTATA
8415914 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AA- AAT A
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
8415948 TTATATTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8417445 original size:14 final size:14
Alignment explanation
Indices: 8417428--8417479 Score: 95
Period size: 14 Copynumber: 3.7 Consensus size: 14
8417418 AAATTTTTTC
8417428 CCTTTAATTTCATT
1 CCTTTAATTTCATT
8417442 CCTTTAATTTCATT
1 CCTTTAATTTCATT
8417456 CCTTTAATTTCATT
1 CCTTTAATTTCATT
*
8417470 TCTTTAATTT
1 CCTTTAATTT
8417480 TTTGTCTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.21, C:0.19, G:0.00, T:0.60
Consensus pattern (14 bp):
CCTTTAATTTCATT
Found at i:8417493 original size:28 final size:27
Alignment explanation
Indices: 8417419--8417482 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 27
8417409 TCCACATTTA
8417419 AATTTTTTCCCTTTAATTTCATTCCTTT
1 AATTTTTT-CCTTTAATTTCATTCCTTT
* *
8417447 AATTTCATTCCTTTAATTTCATTTCTTT
1 AATTT-TTTCCTTTAATTTCATTCCTTT
8417475 AATTTTTT
1 AATTTTTT
8417483 GTCTTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 2 0.06
28 28 0.88
29 2 0.06
ACGTcount: A:0.20, C:0.17, G:0.00, T:0.62
Consensus pattern (27 bp):
AATTTTTTCCTTTAATTTCATTCCTTT
Found at i:8420149 original size:139 final size:138
Alignment explanation
Indices: 8419892--8420206 Score: 424
Period size: 139 Copynumber: 2.3 Consensus size: 138
8419882 TATTTTTGAA
* * * *
8419892 AGAAGAAG-TTGATAATGTGAAGAACTTGTTAAACCTTATCTTGATTCATAAATATAGGGTTGAA
1 AGAAGAAGTTTG-TAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATAAATATAGGGTTGAA
* *
8419956 TCAGCAACACCTTCCTCGAGGGATAAACATTTCCAGTGAAGAGTTCATATTGAGAAAAACTCGT-
65 TCAGCAACACCTTCCTCGAGGGATAAACATTTCCAGTGAAGAGTTCATAATGAGAAAAACTCATA
8420020 CTGATAAGGG
130 C-GATAAGGG
8420030 AGAAGAAGTTTGTAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATAACATAT-GGAGTTGA
1 AGAAGAAGTTTGTAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATAA-ATATAGG-GTTGA
* * * * *
8420094 ATCATCAACACC-TCACTTGAGGGATCAATATTTCCAGTGGAA-AGTTCATAATGAGAAGAACTC
64 ATCAGCAACACCTTC-CTCGAGGGATAAACATTTCCAGT-GAAGAGTTCATAATGAGAAAAACTC
8420157 ATACGATAAGGG
127 ATACGATAAGGG
**
8420169 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTA
1 AGAAGAAGTTTGTAATGAGAAGAACTTGTTCAACCTTA
8420207 ACTTGTTTCC
Statistics
Matches: 158, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
138 47 0.30
139 107 0.68
140 4 0.03
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (138 bp):
AGAAGAAGTTTGTAATGAGAAGAACTTGTTCAACCTTAGCTCGATTCATAAATATAGGGTTGAAT
CAGCAACACCTTCCTCGAGGGATAAACATTTCCAGTGAAGAGTTCATAATGAGAAAAACTCATAC
GATAAGGG
Done.