Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 34 of 187
Found at i:10812655 original size:20 final size:18
Alignment explanation
Indices: 10812637--10812702 Score: 80
Period size: 20 Copynumber: 3.6 Consensus size: 18
10812627 TTCGGTAATT
10812637 TTCGGGTAATTCGGGTAA
1 TTCGGGTAATTCGGGTAA
* *
10812655 TTTTAGGGTAATTCGGTTAA
1 --TTCGGGTAATTCGGGTAA
*
10812675 TTCGGTTAA-TCGGGTAA
1 TTCGGGTAATTCGGGTAA
10812692 TTCGGGTAATT
1 TTCGGGTAATT
10812703 TTTAACCAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
17 15 0.38
18 8 0.21
20 16 0.41
ACGTcount: A:0.23, C:0.09, G:0.29, T:0.39
Consensus pattern (18 bp):
TTCGGGTAATTCGGGTAA
Found at i:10812692 original size:17 final size:17
Alignment explanation
Indices: 10812637--10812701 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 17
10812627 TTCGGTAATT
10812637 TTCGGGTAATTCGGGTAA
1 TTCGGGTAA-TCGGGTAA
* *
10812655 TTTTAGGGTAATTCGGTTAA
1 --TTCGGGTAA-TCGGGTAA
*
10812675 TTCGGTTAATCGGGTAA
1 TTCGGGTAATCGGGTAA
10812692 TTCGGGTAAT
1 TTCGGGTAAT
10812702 TTTTAACCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
17 16 0.41
18 7 0.18
20 16 0.41
ACGTcount: A:0.23, C:0.09, G:0.29, T:0.38
Consensus pattern (17 bp):
TTCGGGTAATCGGGTAA
Found at i:10818308 original size:6 final size:6
Alignment explanation
Indices: 10818282--10818358 Score: 59
Period size: 6 Copynumber: 12.5 Consensus size: 6
10818272 ATTTTATTTG
* * * * *
10818282 TTTTAT TTTTA- ATTTAA TTTTATT TTTTAT GTTTAT GTTTAT TTCTAT
1 TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT
10818330 TTTTAGT TGTTT-T GTTTTAT TTTTAT TTT
1 TTTTA-T T-TTTAT -TTTTAT TTTTAT TTT
10818359 CTTGTACTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
5 4 0.07
6 42 0.72
7 9 0.16
8 3 0.05
ACGTcount: A:0.17, C:0.01, G:0.06, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:10818689 original size:17 final size:17
Alignment explanation
Indices: 10818667--10818700 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10818657 CCATTAGAAT
10818667 GAATTTTTGTCGATTTG
1 GAATTTTTGTCGATTTG
10818684 GAATTTTTGTCGATTTG
1 GAATTTTTGTCGATTTG
10818701 TTTTAGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.24, T:0.53
Consensus pattern (17 bp):
GAATTTTTGTCGATTTG
Found at i:10822591 original size:20 final size:20
Alignment explanation
Indices: 10822568--10822618 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
10822558 TATGGGTTTT
*
10822568 CGTTCAGCCTTACGAGCTTC
1 CGTTCAGCCTTACAAGCTTC
10822588 CGTTCAGCCTTACAAGCTTC
1 CGTTCAGCCTTACAAGCTTC
*
10822608 CGTTCAACCTT
1 CGTTCAGCCTT
10822619 TATGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.18, C:0.35, G:0.16, T:0.31
Consensus pattern (20 bp):
CGTTCAGCCTTACAAGCTTC
Found at i:10822668 original size:61 final size:61
Alignment explanation
Indices: 10822541--10822660 Score: 143
Period size: 61 Copynumber: 2.0 Consensus size: 61
10822531 AGCTCTTTTG
* *
10822541 AGCTTCAGTTTAACCCTTATGGGTTTTCGTTCAGCCTTACGAGCTTCCGTTCAGCCTTACA
1 AGCTTCAGTTCAACCCTTATGGGTTTTCGTTCAGCCTTACGAGCTTCCGTGCAGCCTTACA
* * * * * *
10822602 AGCTTCCGTTCAACCTTTATGGG-TTTCTGTTTAGCACTTATGTGCTTCTGTGCAGCCTT
1 AGCTTCAGTTCAACCCTTATGGGTTTTC-GTTCAGC-CTTACGAGCTTCCGTGCAGCCTT
10822661 CGGGCTTCTG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
60 4 0.08
61 26 0.53
62 19 0.39
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (61 bp):
AGCTTCAGTTCAACCCTTATGGGTTTTCGTTCAGCCTTACGAGCTTCCGTGCAGCCTTACA
Found at i:10823684 original size:15 final size:15
Alignment explanation
Indices: 10823664--10823714 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
10823654 TCAACCGTGT
10823664 GTGACACACGGCCAG
1 GTGACACACGGCCAG
*
10823679 GTG--ACACGGCCTTG
1 GTGACACACGGCC-AG
10823693 TGTGACACACGGCCAG
1 -GTGACACACGGCCAG
10823709 GTGACA
1 GTGACA
10823715 TGGCCGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 8 0.27
14 1 0.03
15 12 0.40
16 1 0.03
17 8 0.27
ACGTcount: A:0.24, C:0.29, G:0.33, T:0.14
Consensus pattern (15 bp):
GTGACACACGGCCAG
Found at i:10823695 original size:30 final size:30
Alignment explanation
Indices: 10823658--10823725 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
10823648 CGTGTCTCAA
10823658 CCGTGTGTGACACACGGCCAGGTGACACGG
1 CCGTGTGTGACACACGGCCAGGTGACACGG
* *
10823688 CCTTGTGTGACACACGGCCAGGTGACATGG
1 CCGTGTGTGACACACGGCCAGGTGACACGG
10823718 CCGTGTGT
1 CCGTGTGT
10823726 CCCCTGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.18, C:0.28, G:0.35, T:0.19
Consensus pattern (30 bp):
CCGTGTGTGACACACGGCCAGGTGACACGG
Found at i:10834256 original size:15 final size:15
Alignment explanation
Indices: 10834217--10834257 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 15
10834207 AATCACTTAA
10834217 AAATTCATAAATATAT
1 AAATT-ATAAATATAT
*
10834233 -ATTTA-AAATATAT
1 AAATTATAAATATAT
10834246 AAATTATAAATA
1 AAATTATAAATA
10834258 ATTCATAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
13 8 0.38
14 5 0.24
15 8 0.38
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATTATAAATATAT
Found at i:10834277 original size:28 final size:28
Alignment explanation
Indices: 10834241--10834309 Score: 72
Period size: 26 Copynumber: 2.6 Consensus size: 28
10834231 ATATTTAAAA
* * * *
10834241 TATATAAATTATAAATAATTCATAGTA-
1 TATAAAAAATATAAATAATTCACAATAT
10834268 TATAAAAAATA-AAA-AATTCACAATAT
1 TATAAAAAATATAAATAATTCACAATAT
*
10834294 TCTAAAAAATATAAAT
1 TATAAAAAATATAAAT
10834310 CTAGAAACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
25 9 0.26
26 13 0.38
27 12 0.35
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.33
Consensus pattern (28 bp):
TATAAAAAATATAAATAATTCACAATAT
Found at i:10834983 original size:31 final size:31
Alignment explanation
Indices: 10834925--10834983 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
10834915 TAAAATATAA
*
10834925 TTTTATAATGTATTAATTTATTATTTTTATC
1 TTTTATAATGTATTAATATATTATTTTTATC
* *
10834956 TTTTTTAATG-ATTAAATATATTCTTTTT
1 TTTTATAATGTATT-AATATATTATTTTT
10834984 TATTTTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 21 0.88
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (31 bp):
TTTTATAATGTATTAATATATTATTTTTATC
Found at i:10836259 original size:5 final size:5
Alignment explanation
Indices: 10836251--10836276 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
10836241 GTAAACTAAA
10836251 CGCAC CGCAC CGCAC CGCAC CGCAC C
1 CGCAC CGCAC CGCAC CGCAC CGCAC C
10836277 CAATCGCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.62, G:0.19, T:0.00
Consensus pattern (5 bp):
CGCAC
Found at i:10837576 original size:31 final size:31
Alignment explanation
Indices: 10837541--10837606 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
10837531 TAAGATGGTG
* *
10837541 ACTGAACTATTTAAAAAAATTTATTTAAGTT
1 ACTGAACTATTCAAAAAAATTTATTTAAGTC
***
10837572 ACTGAACTATTCAAAAGTTTTTATTTAAGTC
1 ACTGAACTATTCAAAAAAATTTATTTAAGTC
10837603 ACTG
1 ACTG
10837607 GGCCGTTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (31 bp):
ACTGAACTATTCAAAAAAATTTATTTAAGTC
Found at i:10843895 original size:2 final size:2
Alignment explanation
Indices: 10843888--10843919 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10843878 TAGTTTATTT
10843888 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10843920 CAGTCAGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10846503 original size:21 final size:21
Alignment explanation
Indices: 10846478--10846521 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
10846468 GGATTGAAAG
10846478 GAACATGCAGGATGGTGTCGA
1 GAACATGCAGGATGGTGTCGA
10846499 GAACATGCAGGATGGTGTCGA
1 GAACATGCAGGATGGTGTCGA
10846520 GA
1 GA
10846522 TCCGTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.14, G:0.39, T:0.18
Consensus pattern (21 bp):
GAACATGCAGGATGGTGTCGA
Found at i:10849817 original size:1 final size:1
Alignment explanation
Indices: 10849811--10849837 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
10849801 CCACACACAC
10849811 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
10849838 GCCTTCCCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10858026 original size:20 final size:19
Alignment explanation
Indices: 10857982--10858026 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
10857972 ACAAATAAAT
* *
10857982 AAAAAGAAAAAGGAAATAG
1 AAAAAGAAAAAAGAAACAG
10858001 AAAAAGAAAGAAAGAAACAG
1 AAAAAGAAA-AAAGAAACAG
*
10858021 AGAAAG
1 AAAAAG
10858027 GCAAACCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.02
Consensus pattern (19 bp):
AAAAAGAAAAAAGAAACAG
Found at i:10865006 original size:20 final size:19
Alignment explanation
Indices: 10864962--10865006 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
10864952 ACAAATAAAT
*
10864962 AAAAAGAAAAAAGAAATAG
1 AAAAAGAAAAAAGAAACAG
10864981 AAAAAGAAAGAAAGAAACAG
1 AAAAAGAAA-AAAGAAACAG
*
10865001 AGAAAG
1 AAAAAG
10865007 GCAAACCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (19 bp):
AAAAAGAAAAAAGAAACAG
Found at i:10865956 original size:41 final size:40
Alignment explanation
Indices: 10865909--10866021 Score: 115
Period size: 37 Copynumber: 2.9 Consensus size: 40
10865899 TTCGACTTCG
*
10865909 AGTCGATGAGACATTGGGTGTCAAATTATTACTTCGGATAT
1 AGTCGATGAGACACTGGGTGTCAAATTATTACTTCGG-TAT
* * * *
10865950 ATTCGATGAGGCACTGGGTG-CCAA-T-TTACTTCGGTTT
1 AGTCGATGAGACACTGGGTGTCAAATTATTACTTCGGTAT
* * * *
10865987 AGCCGAAGAGACACTGGGTGTCAATTTACTACTTC
1 AGTCGATGAGACACTGGGTGTCAAATTATTACTTC
10866022 AAATTATCCA
Statistics
Matches: 57, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
37 18 0.32
38 11 0.19
39 2 0.04
40 9 0.16
41 17 0.30
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (40 bp):
AGTCGATGAGACACTGGGTGTCAAATTATTACTTCGGTAT
Found at i:10869913 original size:23 final size:23
Alignment explanation
Indices: 10869887--10869962 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
10869877 ATAAGTGCCA
10869887 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
10869910 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
10869933 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
10869956 CACTGAT
1 CACTGAT
10869963 CAATAACACT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:10877313 original size:23 final size:23
Alignment explanation
Indices: 10877287--10877339 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
10877277 ATAAGTGCCA
10877287 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
10877310 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
10877333 CACTGAT
1 CACTGAT
10877340 CAATAACACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:10881661 original size:17 final size:17
Alignment explanation
Indices: 10881639--10881673 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10881629 CCGTTACCAT
10881639 TTAATC-AAATTATAAAA
1 TTAATCAAAATT-TAAAA
10881656 TTAATCAAAATTTAAAA
1 TTAATCAAAATTTAAAA
10881673 T
1 T
10881674 AAAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (17 bp):
TTAATCAAAATTTAAAA
Found at i:10900270 original size:28 final size:28
Alignment explanation
Indices: 10900230--10900354 Score: 160
Period size: 28 Copynumber: 4.4 Consensus size: 28
10900220 TGACTTTCGA
* *
10900230 CACTAAGTGTGCGAATTTAATTGTGAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
10900258 CACTAAGTGTGCGAGTTTAATTTGTAAAG
1 CACTAAGTGTGCGAGTTTAA-TTGTAAAG
* * *
10900287 CACTAAGTGTGTGAGTATAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * **
10900315 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
10900343 CACTAAGTGTGC
1 CACTAAGTGTGC
10900355 AAACTTATTA
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 59 0.70
29 25 0.30
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.32
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:10900316 original size:57 final size:56
Alignment explanation
Indices: 10900230--10900354 Score: 162
Period size: 57 Copynumber: 2.2 Consensus size: 56
10900220 TGACTTTCGA
* * *
10900230 CACTAAGTGTGCGAATTTAATTGTGAAGCACTAAGTGTGCGAGTTTAATT-TGTAAAG
1 CACTAAGTGTGCGAATATAATGGTAAAGCACTAAGTGTGCGAGTTTAATTAT-T-AAG
* * * *
10900287 CACTAAGTGTGTGAGTATAATGGTAAAGCACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAATATAATGGTAAAGCACTAAGTGTGCGAGTTTAATTATTAAG
10900343 CACTAAGTGTGC
1 CACTAAGTGTGC
10900355 AAACTTATTA
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
56 13 0.22
57 45 0.76
58 1 0.02
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.32
Consensus pattern (56 bp):
CACTAAGTGTGCGAATATAATGGTAAAGCACTAAGTGTGCGAGTTTAATTATTAAG
Found at i:10913705 original size:24 final size:24
Alignment explanation
Indices: 10913674--10913740 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
10913664 TAAATCGGTA
10913674 AAATTTTTCTATCGATATTTTCAT
1 AAATTTTTCTATCGATATTTTCAT
*
10913698 AAATTTTTCCATCGATATTTTCAT
1 AAATTTTTCTATCGATATTTTCAT
* *
10913722 ACGATTTTCCTATC-ATATT
1 A-AATTTTTCTATCGATATT
10913741 AATATTCATG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 29 0.76
25 9 0.24
ACGTcount: A:0.28, C:0.16, G:0.04, T:0.51
Consensus pattern (24 bp):
AAATTTTTCTATCGATATTTTCAT
Found at i:10915755 original size:19 final size:18
Alignment explanation
Indices: 10915715--10915758 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10915705 CATTTGAACA
**
10915715 AAAATTAAAGTTTAATAC
1 AAAATTAAAAATTAATAC
*
10915733 AAAATTAAAAATTATATAT
1 AAAATTAAAAATTA-ATAC
10915752 AAAATTA
1 AAAATTA
10915759 CATTACACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAATTAAAAATTAATAC
Found at i:10918655 original size:11 final size:11
Alignment explanation
Indices: 10918581--10918654 Score: 59
Period size: 11 Copynumber: 6.7 Consensus size: 11
10918571 AAATAAATGA
10918581 AAGAAAAAGA-
1 AAGAAAAAGAG
10918591 ATAG-AAAA-AG
1 A-AGAAAAAGAG
10918601 AAGAACAAAGTAG
1 AAGAA-AAAG-AG
*
10918614 AACGAAATAGAG
1 AA-GAAAAAGAG
10918626 AAGAAAAAGAG
1 AAGAAAAAGAG
10918637 AAAGAAAAAG-G
1 -AAGAAAAAGAG
10918648 -AGAAAAA
1 AAGAAAAA
10918655 ATTAGGGTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
9 10 0.19
10 7 0.13
11 14 0.26
12 13 0.24
13 7 0.13
14 3 0.06
ACGTcount: A:0.70, C:0.03, G:0.23, T:0.04
Consensus pattern (11 bp):
AAGAAAAAGAG
Found at i:10926589 original size:16 final size:16
Alignment explanation
Indices: 10926558--10926594 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
10926548 ATGTGAAGAA
10926558 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
10926574 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
10926590 TATTA
1 TATTA
10926595 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:10928875 original size:34 final size:35
Alignment explanation
Indices: 10928803--10928876 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
10928793 TATTTTTATT
* *
10928803 TTTA-TTTTTAATTTTAAAATACTTTTAAAATATT
1 TTTATTTTTTAATTTTAAAATAATTTTAAAATATG
* **
10928837 TTTATTTTTTATTTTTAAAATAATTTTTTAA-ATG
1 TTTATTTTTTAATTTTAAAATAATTTTAAAATATG
10928871 TTTATT
1 TTTATT
10928877 AAAAAAATGG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 12 0.35
35 22 0.65
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (35 bp):
TTTATTTTTTAATTTTAAAATAATTTTAAAATATG
Found at i:10929549 original size:21 final size:22
Alignment explanation
Indices: 10929519--10929560 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
10929509 CACTTCACAA
*
10929519 TCATAAGTCATACATCATCATC
1 TCATAAGTCAAACATCATCATC
10929541 TCAT-AGTCAAACATCATCAT
1 TCATAAGTCAAACATCATCAT
10929561 AAAGTCCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.38, C:0.26, G:0.05, T:0.31
Consensus pattern (22 bp):
TCATAAGTCAAACATCATCATC
Found at i:10932575 original size:25 final size:27
Alignment explanation
Indices: 10932547--10932605 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 27
10932537 GTATATGAAT
*
10932547 TGAAATCAA-CTATTGGAA-TGAGAT-G
1 TGAAAT-AATCTAATGGAATTGAGATAG
10932572 TGAAA-AATCTAATGGAATTGAGATAG
1 TGAAATAATCTAATGGAATTGAGATAG
10932598 TGAAATAA
1 TGAAATAA
10932606 GGTATGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 2 0.07
24 8 0.28
25 11 0.38
26 6 0.21
27 2 0.07
ACGTcount: A:0.46, C:0.05, G:0.22, T:0.27
Consensus pattern (27 bp):
TGAAATAATCTAATGGAATTGAGATAG
Found at i:10935212 original size:48 final size:42
Alignment explanation
Indices: 10935054--10935208 Score: 201
Period size: 42 Copynumber: 3.7 Consensus size: 42
10935044 AATGCCATAT
* * *
10935054 CCCAGATATGGTCTTACATGCTATCAT-ATATCGATGCCAATAG-
1 CCCAGACATGGTCTTACACG-AATC-TCATATCGATGCCAAT-GC
*
10935097 -CCAG-CTATGGTCTTACACGAATCTCATATCGATGCCAATGT
1 CCCAGAC-ATGGTCTTACACGAATCTCATATCGATGCCAATGC
10935138 CCCAGACATGGTCTTACACGAATCTCATATCGATGCCAATGC
1 CCCAGACATGGTCTTACACGAATCTCATATCGATGCCAATGC
10935180 CCCAGACATGGTCTTACACGTAATCTCAT
1 CCCAGACATGGTCTTACACG-AATCTCAT
10935209 CTCAGTATCC
Statistics
Matches: 102, Mismatches: 4, Indels: 12
0.86 0.03 0.10
Matches are distributed among these distances:
40 2 0.02
41 17 0.17
42 74 0.73
43 9 0.09
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (42 bp):
CCCAGACATGGTCTTACACGAATCTCATATCGATGCCAATGC
Found at i:10941763 original size:21 final size:21
Alignment explanation
Indices: 10941722--10941824 Score: 59
Period size: 21 Copynumber: 4.9 Consensus size: 21
10941712 TTCAACTATA
* *
10941722 ATTAAACTTAAT-TACTTTAAT
1 ATTAAA-TTAATATAATATAAT
10941743 ATTAAATTAATATAATATAAT
1 ATTAAATTAATATAATATAAT
* * * *
10941764 ATT-TATCAAGATATATATTAT
1 ATTAAATTAATATA-ATATAAT
**
10941785 ATTAAATTTAATATTAA-ATCTT
1 ATTAAA-TTAATA-TAATATAAT
* *
10941807 ATTAAAATAATAGAATAT
1 ATTAAATTAATATAATAT
10941825 TTATCTACAA
Statistics
Matches: 63, Mismatches: 13, Indels: 12
0.72 0.15 0.14
Matches are distributed among these distances:
20 14 0.22
21 32 0.51
22 10 0.16
23 5 0.08
24 2 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTAAATTAATATAATATAAT
Found at i:10941827 original size:59 final size:61
Alignment explanation
Indices: 10941748--10941863 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 61
10941738 TTAATATTAA
* * * * *
10941748 ATTAATATAATATAATATTTA-T-CAAGATATATATTATATTAAATTTAATATTAAATCTT
1 ATTAAAATAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCTT
10941807 ATTAAAATAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 ATTAAAATAATAGAATATTTA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
10941864 GATAATAACC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 19 0.39
61 1 0.02
62 29 0.59
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (61 bp):
ATTAAAATAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCTT
Found at i:10941860 original size:62 final size:59
Alignment explanation
Indices: 10941748--10941946 Score: 161
Period size: 62 Copynumber: 3.2 Consensus size: 59
10941738 TTAATATTAA
* * * * *
10941748 ATTAATATAATATAATATTTATCAAGATATATATTATATTAAATTTAATATTAAATCTT
1 ATTAAAATAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCTT
10941807 ATTAAAATAATAGAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAAGATAATAA
1 ATTAAAATAATAGAATATTTA--T-CAAGATAAACATTAAATTAAATTTAATATT---A-AAT--
10941872 CCTTAAT
57 -C-T--T
* * * * * *
10941879 ATTAAATTAATAAAATA-CTATTAAGATAAGCATTAAATTTAATTTAATATTAAA-C-T
1 ATTAAAATAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCTT
10941935 ATTAAAATAATA
1 ATTAAAATAATA
10941947 TTATTTTTGT
Statistics
Matches: 115, Mismatches: 12, Indels: 29
0.74 0.08 0.19
Matches are distributed among these distances:
56 12 0.10
59 19 0.17
60 1 0.01
61 1 0.01
62 27 0.23
64 2 0.02
65 2 0.02
66 3 0.03
68 27 0.23
69 2 0.02
70 1 0.01
71 2 0.02
72 16 0.14
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (59 bp):
ATTAAAATAATAGAATATTTATCAAGATAAACATTAAATTAAATTTAATATTAAATCTT
Found at i:10944047 original size:27 final size:27
Alignment explanation
Indices: 10944016--10944068 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
10944006 GCAAGCATAT
10944016 AGAGTACGCCACAAAGGA-AATTCTTTC
1 AGAGTACGCCACAAA-GACAATTCTTTC
10944043 AGAGTACGCCACAAAGACAATTCTTT
1 AGAGTACGCCACAAAGACAATTCTTT
10944069 GCTGTCGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (27 bp):
AGAGTACGCCACAAAGACAATTCTTTC
Found at i:10944877 original size:29 final size:29
Alignment explanation
Indices: 10944832--10944888 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
10944822 TAAATTGTTA
**
10944832 GGTGATCATTTTGTAACTTTTCATAATTT
1 GGTGATCATTTAATAACTTTTCATAATTT
10944861 GGTGATCATTTAATAACTTTTCATAATT
1 GGTGATCATTTAATAACTTTTCATAATT
10944889 AAGTCACTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.28, C:0.11, G:0.12, T:0.49
Consensus pattern (29 bp):
GGTGATCATTTAATAACTTTTCATAATTT
Found at i:10945973 original size:30 final size:30
Alignment explanation
Indices: 10945937--10945995 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
10945927 AAAAATTCTC
*
10945937 AAATTTCTCCCTAAATTTCTTAAAGCTCTT
1 AAATTTCTCCCTAAATTTCTCAAAGCTCTT
* *
10945967 AAATTTCTTCTTAAATTTCTCAAAGCTCT
1 AAATTTCTCCCTAAATTTCTCAAAGCTCT
10945996 CTTTAATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (30 bp):
AAATTTCTCCCTAAATTTCTCAAAGCTCTT
Found at i:10952034 original size:43 final size:42
Alignment explanation
Indices: 10951953--10952109 Score: 174
Period size: 43 Copynumber: 3.7 Consensus size: 42
10951943 TACAACGTCA
* * *
10951953 ACGTCCCAGACGTGGTCTTACATG-TAATCACAAATCGATGCC
1 ACGTCCCAGACGTGGTCTTACACGAAAAT-ACAAGTCGATGCC
*
10951995 ACTGTCCCAGACAG-GGTCTTACACTAAAATACAAGTCGATGCC
1 AC-GTCCCAGAC-GTGGTCTTACACGAAAATACAAGTCGATGCC
* * * *
10952038 AACGTCCTAGACGTGGTATTACACGAAAATACAAGTTGATGTCA
1 -ACGTCCCAGACGTGGTCTTACACGAAAATACAAGTCGATG-CC
*
10952082 ACGTCCCAAACGTGGTCTTACACGAAAA
1 ACGTCCCAGACGTGGTCTTACACGAAAA
10952110 CACTTATCAG
Statistics
Matches: 97, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
42 3 0.03
43 87 0.90
44 7 0.07
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.22
Consensus pattern (42 bp):
ACGTCCCAGACGTGGTCTTACACGAAAATACAAGTCGATGCC
Found at i:10953923 original size:11 final size:11
Alignment explanation
Indices: 10953907--10953931 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10953897 CATTTAATAA
10953907 ATTATTTTTAT
1 ATTATTTTTAT
10953918 ATTATTTTTAT
1 ATTATTTTTAT
10953929 ATT
1 ATT
10953932 GTAAAAAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
ATTATTTTTAT
Found at i:10957153 original size:186 final size:186
Alignment explanation
Indices: 10956839--10957191 Score: 539
Period size: 186 Copynumber: 1.9 Consensus size: 186
10956829 CCAAACATGA
* *
10956839 ACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGCATCCT
1 ACTACTGTAGAAAAAGAGAGTCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTACATCCT
* * * * *
10956904 GCTTGAAACGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGGAACTA
66 GCTTGAAACATTTTTGACACTATTTCTTCAGAAACGTATTCTCAAAATTAGTTTTTAAGGAACTA
*
10956969 CTGTAGAAAAAGAACGTCCACGT-GTGAGATTTTTTCATCAATTTGTTCAGAAGATG
131 CTATAGAAAAAGAACGTCCACGTAG-GAGATTTTTTCATCAATTTGTTCAGAAGATG
* *
10957025 ACTACTGTAGAAAAAGAGAGTCTACGTGGGAGCTTTTTTCA-TCAATTTTGCTGACAGTACATCC
1 ACTACTGTAGAAAAAGAGAGTCCACGTGGGAGCTTTTTTCAGT-AATTTTACTGACAGTACATCC
* * *
10957089 TGCTTGAAGCATTTTTGACACTATTTCTTTAGAACCGTATTCTCAAAATTAGTTTTTAAGGAACT
65 TGCTTGAAACATTTTTGACACTATTTCTTCAGAAACGTATTCTCAAAATTAGTTTTTAAGGAACT
* *
10957154 ACTATAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCA
130 ACTATAGAAAAAGAACGTCCACGTAGGAGATTTTTTCA
10957192 GTAATTTTGC
Statistics
Matches: 150, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
185 1 0.01
186 148 0.99
187 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (186 bp):
ACTACTGTAGAAAAAGAGAGTCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTACATCCT
GCTTGAAACATTTTTGACACTATTTCTTCAGAAACGTATTCTCAAAATTAGTTTTTAAGGAACTA
CTATAGAAAAAGAACGTCCACGTAGGAGATTTTTTCATCAATTTGTTCAGAAGATG
Found at i:10957250 original size:126 final size:126
Alignment explanation
Indices: 10957025--10957291 Score: 356
Period size: 126 Copynumber: 2.1 Consensus size: 126
10957015 TCAGAAGATG
* * *
10957025 ACTACTGTAGAAAAAGAGAGTCTACGTGGGAGCTTTTTTCATCAATTTTGCTGACAGTACATCCT
1 ACTACTGTAGAAAAAGAGAGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTAACAGTACATCCT
* * * *
10957090 GCTTGAAGCATTTTTGACACTATTTCTTTAGAACCGTATTCTCAAAATTAGTTTTTAAGGA
66 GCTTGAAGCATTTTGGACACAATTTATTAAGAACCGTATTCTCAAAATTAGTTTTTAAGGA
* * * *
10957151 ACTACTATAGAAAAAGAGCGTCCACGTAGGAGCTTTTTTCAGT-AATTTTGCTAATAGTGCATCC
1 ACTACTGTAGAAAAAGAGAGTCCACGTAGGAGCTTTTTTCA-TCAATTTTGCTAACAGTACATCC
* ** * * *
10957215 TGCTTGATGGGTTTTGGACACAATTTATTAAGAACCGTCTTCTCAAAATTATTTTTTTAGGA
65 TGCTTGAAGCATTTTGGACACAATTTATTAAGAACCGTATTCTCAAAATTAGTTTTTAAGGA
*
10957277 ACTACTGTAAAAAAA
1 ACTACTGTAGAAAAA
10957292 AAAACCAAAA
Statistics
Matches: 121, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
126 120 0.99
127 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (126 bp):
ACTACTGTAGAAAAAGAGAGTCCACGTAGGAGCTTTTTTCATCAATTTTGCTAACAGTACATCCT
GCTTGAAGCATTTTGGACACAATTTATTAAGAACCGTATTCTCAAAATTAGTTTTTAAGGA
Found at i:10959919 original size:22 final size:22
Alignment explanation
Indices: 10959894--10959956 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
10959884 TGGTCATAAT
10959894 TAATTAAATAGTTAGTGAATTC
1 TAATTAAATAGTTAGTGAATTC
10959916 TAA-TATAAT-G---GTG-A-T-
1 TAATTA-AATAGTTAGTGAATTC
10959931 TAATTAAATAGTTAGTGAATTC
1 TAATTAAATAGTTAGTGAATTC
10959953 TAAT
1 TAAT
10959957 CTAATGGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 18
0.64 0.00 0.36
Matches are distributed among these distances:
15 6 0.19
16 4 0.12
17 1 0.03
18 3 0.09
19 3 0.09
20 1 0.03
21 4 0.12
22 10 0.31
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.41
Consensus pattern (22 bp):
TAATTAAATAGTTAGTGAATTC
Found at i:10959942 original size:37 final size:37
Alignment explanation
Indices: 10959892--10959963 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
10959882 GCTGGTCATA
10959892 ATTAATTAAATAGTTAGTGAATTCTAATATAATGGTG
1 ATTAATTAAATAGTTAGTGAATTCTAATATAATGGTG
*
10959929 ATTAATTAAATAGTTAGTGAATTCTAATCTAATGG
1 ATTAATTAAATAGTTAGTGAATTCTAATATAATGG
10959964 AAAAAATAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.40
Consensus pattern (37 bp):
ATTAATTAAATAGTTAGTGAATTCTAATATAATGGTG
Found at i:10961492 original size:27 final size:28
Alignment explanation
Indices: 10961427--10961494 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 28
10961417 GAAATTTTAG
*
10961427 ATTGTTGGATTTTGATATATGTCTTGAA
1 ATTGTTGGATATTGATATATGTCTTGAA
* * * *
10961455 TTTTTTAGATATTGAT-TATGT-TTTAA
1 ATTGTTGGATATTGATATATGTCTTGAA
10961481 CATTGTTGGATATT
1 -ATTGTTGGATATT
10961495 AAATTGATTA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
26 4 0.13
27 15 0.48
28 12 0.39
ACGTcount: A:0.25, C:0.03, G:0.18, T:0.54
Consensus pattern (28 bp):
ATTGTTGGATATTGATATATGTCTTGAA
Found at i:10962889 original size:14 final size:14
Alignment explanation
Indices: 10962870--10962914 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
10962860 AAAAGTAAAA
*
10962870 CATTTTCCAGAAAT
1 CATTTTACAGAAAT
* *
10962884 CATTTTACGGAAAA
1 CATTTTACAGAAAT
10962898 CATTTTACAGCAAAT
1 CATTTTACAG-AAAT
10962913 CA
1 CA
10962915 AACAGACCCT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (14 bp):
CATTTTACAGAAAT
Found at i:10962897 original size:34 final size:35
Alignment explanation
Indices: 10962832--10962897 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 35
10962822 AGATTCAATC
*
10962832 AAACATTTTCCAGTAAGTCATTTTACAGAAAAGTA
1 AAACATTTTCCAGTAAATCATTTTACAGAAAAGTA
*
10962867 AAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAACATTTTCCAGTAAATCATTTTACAGAAAA
10962898 CATTTTACAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (35 bp):
AAACATTTTCCAGTAAATCATTTTACAGAAAAGTA
Found at i:10962976 original size:33 final size:32
Alignment explanation
Indices: 10962927--10963032 Score: 137
Period size: 33 Copynumber: 3.3 Consensus size: 32
10962917 CAGACCCTTA
*
10962927 TTTTAAAAAGAACTAAACCCAAATTTAATTAAT
1 TTTTTAAAA-AACTAAACCCAAATTTAATTAAT
10962960 TTTCTTAAAAAACTAAACCCAAATTTAATTAAT
1 TTT-TTAAAAAACTAAACCCAAATTTAATTAAT
**
10962993 TTATTTAAAACTCTAAA--CAAATTTAATTAA-
1 TT-TTTAAAAAACTAAACCCAAATTTAATTAAT
10963023 TTTTTAAAAA
1 TTTTTAAAAA
10963033 GAACACTAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
29 7 0.10
30 2 0.03
31 13 0.19
33 39 0.58
34 6 0.09
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.38
Consensus pattern (32 bp):
TTTTTAAAAAACTAAACCCAAATTTAATTAAT
Found at i:10963950 original size:17 final size:20
Alignment explanation
Indices: 10963927--10963970 Score: 65
Period size: 18 Copynumber: 2.3 Consensus size: 20
10963917 AAAATTATTT
*
10963927 TTAAAAAAATTT-TAAAA-A
1 TTAAAAAAGTTTATAAAATA
10963945 TTAAAAAAGTTTATAAAATA
1 TTAAAAAAGTTTATAAAATA
10963965 TTAAAA
1 TTAAAA
10963971 TTACAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.48
19 5 0.22
20 7 0.30
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
TTAAAAAAGTTTATAAAATA
Found at i:10968897 original size:26 final size:25
Alignment explanation
Indices: 10968854--10968922 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 25
10968844 TATAATAAAT
*
10968854 AAAAGAAACAAAAAGAAATAGAAAGA
1 AAAAGAAA-GAAAAGAAATAGAAAGA
* * **
10968880 AACAGAATAGAAACGAAATAGGGAGA
1 AAAAGAA-AGAAAAGAAATAGAAAGA
10968906 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
10968923 AAAGGAAAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
25 9 0.26
26 25 0.71
27 1 0.03
ACGTcount: A:0.71, C:0.04, G:0.20, T:0.04
Consensus pattern (25 bp):
AAAAGAAAGAAAAGAAATAGAAAGA
Found at i:10968916 original size:10 final size:10
Alignment explanation
Indices: 10968854--10968945 Score: 51
Period size: 10 Copynumber: 8.8 Consensus size: 10
10968844 TATAATAAAT
*
10968854 AAAAGAAACA
1 AAAAGAAAGA
*
10968864 AAAAGAAATA
1 AAAAGAAAGA
* *
10968874 GAAAGAAACA
1 AAAAGAAAGA
*
10968884 GAATAGAAACGA
1 -AAAAGAAA-GA
* **
10968896 AATAGGGAGA
1 AAAAGAAAGA
10968906 AAAAGAAAG-
1 AAAAGAAAGA
*
10968915 AAAAGAAAAA
1 AAAAGAAAGA
10968925 AGGAAAGAAAGA
1 A--AAAGAAAGA
10968937 AAGAAGAAA
1 AA-AAGAAA
10968946 TTAGGGTTTT
Statistics
Matches: 63, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
9 8 0.13
10 27 0.43
11 18 0.29
12 10 0.16
ACGTcount: A:0.72, C:0.03, G:0.22, T:0.03
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:10968924 original size:16 final size:15
Alignment explanation
Indices: 10968905--10968945 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
10968895 AAATAGGGAG
10968905 AAAAAGAAAGAAAAGA
1 AAAAAGAAAG-AAAGA
10968921 AAAAAGGAAAGAAAGA
1 AAAAA-GAAAGAAAGA
*
10968937 AAGAAGAAA
1 AAAAAGAAA
10968946 TTAGGGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 14 0.61
17 5 0.22
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAGAAAGA
Found at i:10968931 original size:12 final size:13
Alignment explanation
Indices: 10968907--10968941 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
10968897 ATAGGGAGAA
10968907 AAAGAAAGAAAAG
1 AAAGAAAGAAAAG
*
10968920 AAA-AAAGGAAAG
1 AAAGAAAGAAAAG
10968932 AAAGAAAGAA
1 AAAGAAAGAA
10968942 GAAATTAGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAG
Found at i:10969661 original size:11 final size:11
Alignment explanation
Indices: 10969645--10969669 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10969635 TGAATTGGTA
10969645 TATATATTGAT
1 TATATATTGAT
10969656 TATATATTGAT
1 TATATATTGAT
10969667 TAT
1 TAT
10969670 TTGAATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (11 bp):
TATATATTGAT
Found at i:10971142 original size:44 final size:45
Alignment explanation
Indices: 10971093--10971179 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 45
10971083 GGTGTTACAC
* *
10971093 GTAAGACCATGGATGAAAGATGTCATGGTAGAAAGGTA-AATGGT
1 GTAAGACCATGGATGAAAGACGTCATGGCAGAAAGGTATAATGGT
*
10971137 GTAAGACCATGGATGAAAGACGTCATGGCAGTAAGGTATAATG
1 GTAAGACCATGGATGAAAGACGTCATGGCAGAAAGGTATAATG
10971180 AATAAGGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 35 0.90
45 4 0.10
ACGTcount: A:0.38, C:0.09, G:0.31, T:0.22
Consensus pattern (45 bp):
GTAAGACCATGGATGAAAGACGTCATGGCAGAAAGGTATAATGGT
Found at i:10971750 original size:29 final size:28
Alignment explanation
Indices: 10971696--10971760 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
10971686 GTAGGCAACT
10971696 TTTTTTTTTGCGCTTTTTTGC-TTTTTG
1 TTTTTTTTTGCGCTTTTTTGCTTTTTTG
10971723 CTTTTTTTTTGCGCTTTTTTGCTTTTTTTG
1 -TTTTTTTTTGCGCTTTTTTGC-TTTTTTG
10971753 TTTTTTTT
1 TTTTTTTT
10971761 AAAGAATAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
28 21 0.60
29 8 0.23
30 6 0.17
ACGTcount: A:0.00, C:0.11, G:0.12, T:0.77
Consensus pattern (28 bp):
TTTTTTTTTGCGCTTTTTTGCTTTTTTG
Found at i:10971760 original size:28 final size:28
Alignment explanation
Indices: 10971696--10971749 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
10971686 GTAGGCAACT
10971696 TTTTTTTTTGCGCTTTTTTGCTTTTTGC
1 TTTTTTTTTGCGCTTTTTTGCTTTTTGC
10971724 TTTTTTTTTGCGCTTTTTTGCTTTTT
1 TTTTTTTTTGCGCTTTTTTGCTTTTT
10971750 TTGTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.00, C:0.13, G:0.13, T:0.74
Consensus pattern (28 bp):
TTTTTTTTTGCGCTTTTTTGCTTTTTGC
Found at i:10972402 original size:31 final size:31
Alignment explanation
Indices: 10972309--10972404 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
10972299 GGCAAATTAC
*
10972309 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
10972340 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
10972372 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
10972403 AA
1 AA
10972405 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:10973797 original size:29 final size:29
Alignment explanation
Indices: 10973755--10973815 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
10973745 ATTCAATTAT
10973755 TAATTTTTTTCTATAGAGACTAAAATGCA
1 TAATTTTTTTCTATAGAGACTAAAATGCA
10973784 TAATTTTTTTCTATAGAGACTAAAATGCA
1 TAATTTTTTTCTATAGAGACTAAAATGCA
10973813 TAA
1 TAA
10973816 ATTGTAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (29 bp):
TAATTTTTTTCTATAGAGACTAAAATGCA
Found at i:10979802 original size:17 final size:18
Alignment explanation
Indices: 10979782--10979820 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
10979772 GTTTATATAA
* *
10979782 GAAATTTTTTTA-CTGTT
1 GAAATCTTTTTAGCGGTT
10979799 GAAATCTTTTTAGCGGTT
1 GAAATCTTTTTAGCGGTT
10979817 GAAA
1 GAAA
10979821 AAGCTACCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.46
Consensus pattern (18 bp):
GAAATCTTTTTAGCGGTT
Found at i:10983895 original size:33 final size:33
Alignment explanation
Indices: 10983854--10983922 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
10983844 TGTTAACGGT
10983854 TAAATTTATTAAGTTTTTGCCATTCCTAAAATC
1 TAAATTTATTAAGTTTTTGCCATTCCTAAAATC
*
10983887 TAAATTTATTAAGTTTTTGCTATTCCTAAAATC
1 TAAATTTATTAAGTTTTTGCCATTCCTAAAATC
10983920 TAA
1 TAA
10983923 TGTGACAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (33 bp):
TAAATTTATTAAGTTTTTGCCATTCCTAAAATC
Found at i:10995649 original size:28 final size:29
Alignment explanation
Indices: 10995582--10995650 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
10995572 CGGTTGTTTT
* * *
10995582 TTGCTATTTTGTTATATATAAATTGTTGAA
1 TTGCTAATTT-TTATATATAAAATGTTAAA
*
10995612 TTGTTAATTTTTAT-TATAAAATGTTAAA
1 TTGCTAATTTTTATATATAAAATGTTAAA
*
10995640 TTGCTGATTTT
1 TTGCTAATTTT
10995651 CAGGTGAGCG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 21 0.64
29 4 0.12
30 8 0.24
ACGTcount: A:0.30, C:0.03, G:0.12, T:0.55
Consensus pattern (29 bp):
TTGCTAATTTTTATATATAAAATGTTAAA
Found at i:10996254 original size:20 final size:21
Alignment explanation
Indices: 10996231--10996272 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
10996221 CTGCTATTTT
* *
10996231 TACTGTTTTGTTGTTGT-TTC
1 TACTATTTTATTGTTGTGTTC
10996251 TACTATTTTATTGTTGTGTTC
1 TACTATTTTATTGTTGTGTTC
10996272 T
1 T
10996273 GTTATCATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.10, C:0.10, G:0.17, T:0.64
Consensus pattern (21 bp):
TACTATTTTATTGTTGTGTTC
Found at i:10996963 original size:31 final size:31
Alignment explanation
Indices: 10996928--10996993 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
10996918 CAAAATGATC
* * *
10996928 ATTGAATTATTTAAAAATTTTCATTTAAGTT
1 ATTGAACTATTCAAAAATTTTAATTTAAGTT
10996959 ATTGAACTATTCAAAAATTTTAATTTAAGTT
1 ATTGAACTATTCAAAAATTTTAATTTAAGTT
10996990 ATTG
1 ATTG
10996994 GAATGTTAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (31 bp):
ATTGAACTATTCAAAAATTTTAATTTAAGTT
Found at i:10999221 original size:2 final size:2
Alignment explanation
Indices: 10999216--10999270 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
10999206 TATATATATA
*
10999216 TG TG TG TG TG TG TG TG CG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
10999258 TG TG TG TG TG TG T
1 TG TG TG TG TG TG T
10999271 TTAATCATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.02, G:0.49, T:0.49
Consensus pattern (2 bp):
TG
Found at i:11014909 original size:18 final size:17
Alignment explanation
Indices: 11014867--11014899 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11014857 AACCAGATAC
11014867 TATTTA-AT-TATTTTT
1 TATTTATATATATTTTT
11014882 TATTTATATATATTTTT
1 TATTTATATATATTTTT
11014899 T
1 T
11014900 GTTTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 2 0.12
17 8 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTTATATATATTTTT
Found at i:11015437 original size:21 final size:21
Alignment explanation
Indices: 11015413--11015464 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
11015403 TAAGTTCTGT
*
11015413 GGATATTTAGGGGTGATTTGG
1 GGATATTTAGGAGTGATTTGG
*
11015434 GGATAATTTA-GAGTGATTTTG
1 GGAT-ATTTAGGAGTGATTTGG
*
11015455 GGCTATTTAG
1 GGATATTTAG
11015465 AGGACGACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 5 0.19
21 16 0.62
22 5 0.19
ACGTcount: A:0.23, C:0.02, G:0.35, T:0.40
Consensus pattern (21 bp):
GGATATTTAGGAGTGATTTGG
Found at i:11015700 original size:22 final size:22
Alignment explanation
Indices: 11015674--11015715 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
11015664 TTCGATCACC
*
11015674 CACAAATAGTTTTTAAATGACA
1 CACAAATAGTTTCTAAATGACA
11015696 CACAAATAGTTTCTAAATGA
1 CACAAATAGTTTCTAAATGA
11015716 TTGTAGGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (22 bp):
CACAAATAGTTTCTAAATGACA
Found at i:11022825 original size:19 final size:20
Alignment explanation
Indices: 11022801--11022840 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11022791 AACCATATAC
11022801 TATTTA-ATTATTTTTTTGT
1 TATTTATATTATTTTTTTGT
* *
11022820 TATTTATCTTTTTTTTTTGT
1 TATTTATATTATTTTTTTGT
11022840 T
1 T
11022841 TTTTTGTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.78
Consensus pattern (20 bp):
TATTTATATTATTTTTTTGT
Found at i:11023346 original size:23 final size:23
Alignment explanation
Indices: 11023317--11023378 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
11023307 GCCCGGCTTG
*
11023317 TTTTTAATTAAAATTAAAATTAT
1 TTTTTAATTAAAATTAAAATTAA
*
11023340 TTTTTAAATAAAATTAAAATTAA
1 TTTTTAATTAAAATTAAAATTAA
*
11023363 TTATT-ATTAAAATTAA
1 TTTTTAATTAAAATTAA
11023379 TTGTTAGTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 10 0.29
23 25 0.71
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTTTAATTAAAATTAAAATTAA
Found at i:11023371 original size:16 final size:16
Alignment explanation
Indices: 11023352--11023393 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
11023342 TTTAAATAAA
11023352 ATTAAAATTAATTATT
1 ATTAAAATTAATTATT
*
11023368 ATTAAAATTAATTGTT
1 ATTAAAATTAATTATT
*
11023384 AGTAAAATTA
1 ATTAAAATTA
11023394 TCAAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (16 bp):
ATTAAAATTAATTATT
Found at i:11023472 original size:59 final size:59
Alignment explanation
Indices: 11023404--11023549 Score: 258
Period size: 59 Copynumber: 2.5 Consensus size: 59
11023394 TCAAATTATT
* *
11023404 AATTGTTAATTGTATTAATTGT-TGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTAT-TAATAAAATCTAACATTTGATTAGTAAACTTATCA
11023463 AATTATTAATTGTATTAATTGTATTAATAAAATCTAACATTTGATTAGTAAACTTATCA
1 AATTATTAATTGTATTAATTGTATTAATAAAATCTAACATTTGATTAGTAAACTTATCA
11023522 AATTATTAATTGTATTAATTGTATTAAT
1 AATTATTAATTGTATTAATTGTATTAAT
11023550 TGTTGTAACA
Statistics
Matches: 84, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
59 83 0.99
60 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTATTAATAAAATCTAACATTTGATTAGTAAACTTATCA
Found at i:11023478 original size:9 final size:9
Alignment explanation
Indices: 11023466--11023490 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11023456 TTTATCAAAT
11023466 TATTAATTG
1 TATTAATTG
11023475 TATTAATTG
1 TATTAATTG
11023484 TATTAAT
1 TATTAAT
11023491 AAAATCTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (9 bp):
TATTAATTG
Found at i:11023525 original size:68 final size:68
Alignment explanation
Indices: 11023457--11023582 Score: 202
Period size: 68 Copynumber: 1.9 Consensus size: 68
11023447 ATTAGTAAAT
*
11023457 TTATCAAAT-TATTAATTGTATTAATTGTAT-TAATAAAATCTAACATTTGATTAGTAAACTTAT
1 TTATCAAATGTATTAATTGTATTAATTGT-TGTAACAAAATCTAACATTTGATTAGTAAACTTAT
11023520 CAAA
65 CAAA
* *
11023524 TTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 TTATCAAATGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
11023583 ACAAACTTGA
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
67 8 0.15
68 46 0.85
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.44
Consensus pattern (68 bp):
TTATCAAATGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAACTTATC
AAA
Found at i:11023539 original size:9 final size:9
Alignment explanation
Indices: 11023525--11023552 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
11023515 CTTATCAAAT
11023525 TATTAATTG
1 TATTAATTG
11023534 TATTAATTG
1 TATTAATTG
11023543 TATTAATTG
1 TATTAATTG
11023552 T
1 T
11023553 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:11031873 original size:13 final size:13
Alignment explanation
Indices: 11031855--11031912 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 13
11031845 AACCCAAATT
11031855 TTATTTTTATTTA
1 TTATTTTTATTTA
*
11031868 TTATTTTTCTTTA
1 TTATTTTTATTTA
11031881 CTTTATTTATTACTTTA
1 --TTATTT-TTA-TTTA
*
11031898 TT-TTATTATTTA
1 TTATTTTTATTTA
11031910 TTA
1 TTA
11031913 CTTATTTGGA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
12 6 0.16
13 15 0.41
14 2 0.05
15 8 0.22
16 2 0.05
17 4 0.11
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTTTTATTTA
Found at i:11031885 original size:22 final size:21
Alignment explanation
Indices: 11031860--11031919 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
11031850 AAATTTTATT
*
11031860 TTTATTTATTA-TTTTTCTTTA
1 TTTATTTATTACTTTAT-TTTA
11031881 CTTTATTTATTACTTTATTTTA
1 -TTTATTTATTACTTTATTTTA
11031903 -TTATTTATTAC-TTATTT
1 TTTATTTATTACTTTATTT
11031920 GGATATTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 6 0.17
20 11 0.31
22 15 0.42
23 4 0.11
ACGTcount: A:0.22, C:0.07, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTATTTATTACTTTATTTTA
Found at i:11031893 original size:12 final size:11
Alignment explanation
Indices: 11031854--11031911 Score: 59
Period size: 12 Copynumber: 5.2 Consensus size: 11
11031844 CAACCCAAAT
11031854 TTTATT-TTTA
1 TTTATTATTTA
11031864 TTTATTATTT-
1 TTTATTATTTA
11031874 TTCT-TTACTTTA
1 TT-TATTA-TTTA
11031886 TTTATTACTTTA
1 TTTATTA-TTTA
11031898 TTTTATTATTTA
1 -TTTATTATTTA
11031910 TT
1 TT
11031912 ACTTATTTGG
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
10 11 0.26
11 10 0.24
12 14 0.33
13 7 0.17
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:11031899 original size:8 final size:7
Alignment explanation
Indices: 11031855--11031918 Score: 55
Period size: 7 Copynumber: 9.3 Consensus size: 7
11031845 AACCCAAATT
11031855 TTATTT-
1 TTATTTA
11031861 TTATTTA
1 TTATTTA
11031868 TTATTT-
1 TTATTTA
*
11031874 TTCTTTA
1 TTATTTA
11031881 CTTTATTTA
1 --TTATTTA
11031890 TTACTTTA
1 TTA-TTTA
11031898 -T-TTTA
1 TTATTTA
11031903 TTATTTA
1 TTATTTA
*
11031910 TTACTTA
1 TTATTTA
11031917 TT
1 TT
11031919 TGGATATTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
5 4 0.08
6 12 0.25
7 22 0.46
8 4 0.08
9 6 0.12
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATTTA
Found at i:11032842 original size:16 final size:14
Alignment explanation
Indices: 11032818--11032857 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
11032808 CCTAAAGCAT
*
11032818 AAAAAAAAAAGAGA
1 AAAAAAAAAAAAGA
*
11032832 AAAAAACAAAAAGA
1 AAAAAAAAAAAAGA
*
11032846 AAAAGAAAAAAA
1 AAAAAAAAAAAA
11032858 TTTTGGGACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.88, C:0.03, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAGA
Found at i:11032852 original size:20 final size:21
Alignment explanation
Indices: 11032818--11032857 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
11032808 CCTAAAGCAT
11032818 AAAAAAAAAAGAGAAAAAAAC
1 AAAAAAAAAAGAGAAAAAAAC
*
11032839 AAAAAGAAAA-AGAAAAAAA
1 AAAAAAAAAAGAGAAAAAAA
11032858 TTTTGGGACT
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:0.88, C:0.03, G:0.10, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAGAGAAAAAAAC
Found at i:11038419 original size:26 final size:26
Alignment explanation
Indices: 11038389--11038440 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
11038379 AGAATACTTG
11038389 AACCTCAACTTTTGCTGGACTTGTGT
1 AACCTCAACTTTTGCTGGACTTGTGT
11038415 AACCTCAACTTTTGCTGGACTTGTGT
1 AACCTCAACTTTTGCTGGACTTGTGT
11038441 GCACTTGCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (26 bp):
AACCTCAACTTTTGCTGGACTTGTGT
Found at i:11040588 original size:27 final size:28
Alignment explanation
Indices: 11040534--11040588 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
11040524 ACACTTTCAA
* *
11040534 TTTTGACATGGATTAAATTTCCCTATTT
1 TTTTGACAGGGATTAAATTTCCCAATTT
* *
11040562 TTTTGA-AGGGATTAATTTTCTCAATTT
1 TTTTGACAGGGATTAAATTTCCCAATTT
11040589 CAGTCGATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.51
Consensus pattern (28 bp):
TTTTGACAGGGATTAAATTTCCCAATTT
Found at i:11060938 original size:2 final size:2
Alignment explanation
Indices: 11060931--11060973 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
11060921 NNNNACTACT
11060931 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11060973 T
1 T
11060974 TTTCTTCTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11061883 original size:31 final size:31
Alignment explanation
Indices: 11061848--11061912 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
11061838 AACGGCCTAA
11061848 TGACTTAAAT-AAAAAGT-TTCAAATAGTTCAG
1 TGACTTAAATGAAAAA-TCTT-AAATAGTTCAG
*
11061879 TGACTTAAATGAAAAATCTTGAATAGTTCAG
1 TGACTTAAATGAAAAATCTTAAATAGTTCAG
11061910 TGA
1 TGA
11061913 TCATTTTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 24 0.77
32 7 0.23
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.32
Consensus pattern (31 bp):
TGACTTAAATGAAAAATCTTAAATAGTTCAG
Found at i:11064877 original size:16 final size:16
Alignment explanation
Indices: 11064856--11064907 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
11064846 TTTGGTTCGC
11064856 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
11064872 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
11064888 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
11064904 TGTA
1 TGTA
11064908 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:11066515 original size:13 final size:13
Alignment explanation
Indices: 11066497--11066526 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
11066487 CAATCAGCTA
11066497 AATTCAGAAAAAC
1 AATTCAGAAAAAC
11066510 AATTCAGAAAAAC
1 AATTCAGAAAAAC
11066523 AATT
1 AATT
11066527 ACATGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:11068694 original size:8 final size:8
Alignment explanation
Indices: 11068657--11068697 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
11068647 ATCTGAGTGA
11068657 AAATGAAT
1 AAATGAAT
*
11068665 AGAATGGAT
1 A-AATGAAT
*
11068674 AAATAAAT
1 AAATGAAT
11068682 AAATGAAT
1 AAATGAAT
11068690 AAATGAAT
1 AAATGAAT
11068698 CAAGCAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (8 bp):
AAATGAAT
Found at i:11069103 original size:4 final size:4
Alignment explanation
Indices: 11069096--11069134 Score: 60
Period size: 4 Copynumber: 9.5 Consensus size: 4
11069086 GAAAAGAAAG
*
11069096 AATA AATA AATA AATA AATA AATA AATA ATAAA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA A-ATA AATA AA
11069135 AATGAAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 29 0.91
5 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:11069252 original size:2 final size:2
Alignment explanation
Indices: 11069208--11069241 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11069198 TCTAAAGTTA
11069208 AT AT AT 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 AT AT AT
11069242 GCGTATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11069272 original size:3 final size:3
Alignment explanation
Indices: 11069264--11069305 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
11069254 AAGAAATTAA
*
11069264 AAT AAT AAT AAT AAT AAT AAT -AC AAT -AT AAT -AT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11069306 GAGAAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 5 0.15
3 29 0.85
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11069295 original size:10 final size:11
Alignment explanation
Indices: 11069264--11069305 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
11069254 AAGAAATTAA
*
11069264 AATAATAATAAT
1 AATAATAAT-AC
11069276 AATAATAATAC
1 AATAATAATAC
*
11069287 AAT-ATAATAT
1 AATAATAATAC
11069297 AATAATAAT
1 AATAATAAT
11069306 GAGAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 9 0.33
11 9 0.33
12 9 0.33
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
AATAATAATAC
Found at i:11069300 original size:30 final size:28
Alignment explanation
Indices: 11069257--11069321 Score: 78
Period size: 30 Copynumber: 2.3 Consensus size: 28
11069247 TATATACAAG
* *
11069257 AAAT-TAAAATAATAATAATAATAATAAT
1 AAATATAATATAATAATAATAAGAA-AAT
*
11069285 ACAATATAATATAATAATAATGAGAAAAT
1 A-AATATAATATAATAATAATAAGAAAAT
11069314 AAATATAA
1 AAATATAA
11069322 AAAGAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 8 0.25
29 7 0.22
30 17 0.53
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (28 bp):
AAATATAATATAATAATAATAAGAAAAT
Found at i:11070007 original size:5 final size:6
Alignment explanation
Indices: 11069990--11070014 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11069980 GAAAACAGTG
11069990 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
11070015 GGAAAGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:11070852 original size:44 final size:44
Alignment explanation
Indices: 11070804--11070986 Score: 110
Period size: 44 Copynumber: 4.2 Consensus size: 44
11070794 TAACTTCAAA
*
11070804 GAGATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGG
1 GAGATAAGATCATTTATTTCAATCCGCTCCACTGTAATCTCAGG
* * * * * * *
11070848 GAGATAGGATTA-CTAGCTTCGATCTGCTCCGCTGTAATCTCAGG
1 GAGATAAGATCATTTA-TTTCAATCCGCTCCACTGTAATCTCAGG
* * * ** *
11070892 GAGATAAGA-CCTGGTA---CGATCTACTCTACTGTAA-CTTCAGAG
1 GAGATAAGATCAT-TTATTTCAATCCGCTCCACTGTAATC-TCAG-G
* ** * *
11070934 G-GATAAGATCCTTGGTTTTAATCCGCTCCACTGTAATATCAGG
1 GAGATAAGATCATTTATTTCAATCCGCTCCACTGTAATCTCAGG
11070977 GAGATAAGAT
1 GAGATAAGAT
11070987 TACTAGCTTC
Statistics
Matches: 104, Mismatches: 24, Indels: 22
0.69 0.16 0.15
Matches are distributed among these distances:
40 1 0.01
41 26 0.25
42 5 0.05
43 4 0.04
44 66 0.63
45 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.30
Consensus pattern (44 bp):
GAGATAAGATCATTTATTTCAATCCGCTCCACTGTAATCTCAGG
Found at i:11070925 original size:129 final size:129
Alignment explanation
Indices: 11070741--11071008 Score: 401
Period size: 129 Copynumber: 2.1 Consensus size: 129
11070731 AATCCCTCGG
* * * **
11070741 TCTGTTCCACTGTAATCTCAGAGAGATAAGACCTGATGCGATCTACTCTGTTGTAACTTCAAAGA
1 TCTGCTCCGCTGTAATCTCAGAGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAAAGA
* * * *
11070806 GATAAGATCATTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGA
66 GATAAGATCATTGATTTTAATCCGCTCCACTGTAATATCAGGGAGATAAGATTACTAGCTTCAA
* * * *
11070870 TCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGGTACGATCTACTCTACTGTAACTTCAGAGG
1 TCTGCTCCGCTGTAATCTCAGAGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAAAGA
* *
11070935 GATAAGATCCTTGGTTTTAATCCGCTCCACTGTAATATCAGGGAGATAAGATTACTAGCTTCAA
66 GATAAGATCATTGATTTTAATCCGCTCCACTGTAATATCAGGGAGATAAGATTACTAGCTTCAA
11070999 TCTGCTCCGC
1 TCTGCTCCGC
11071009 NNNNNNNNNN
Statistics
Matches: 124, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
129 124 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (129 bp):
TCTGCTCCGCTGTAATCTCAGAGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAAAGA
GATAAGATCATTGATTTTAATCCGCTCCACTGTAATATCAGGGAGATAAGATTACTAGCTTCAA
Found at i:11071006 original size:44 final size:43
Alignment explanation
Indices: 11070824--11071006 Score: 149
Period size: 44 Copynumber: 4.2 Consensus size: 43
11070814 CATTTATTTT
* *
11070824 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TACTAGCTTC
* * * * *
11070868 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGA-CCT-GGTAC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATACTAGCTTC
* * * * * * *
11070909 GATCTACTCTACTGTAA-CTTCAGAGG-GATAAGATCCTTGGTTTT
1 AATCTGCTCCACTGTAATC-TCAG-GGAGATAAGATAC-TAGCTTC
* *
11070953 AATCCGCTCCACTGTAATATCAGGGAGATAAGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TACTAGCTTC
11070997 AATCTGCTCC
1 AATCTGCTCC
11071007 GCNNNNNNNN
Statistics
Matches: 108, Mismatches: 23, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
40 1 0.01
41 28 0.26
42 6 0.06
43 3 0.03
44 68 0.63
45 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATACTAGCTTC
Found at i:11071793 original size:129 final size:129
Alignment explanation
Indices: 11071619--11071900 Score: 458
Period size: 129 Copynumber: 2.2 Consensus size: 129
11071609 TGTTCCACTA
* * *** *
11071619 TAATCTCAGGGAAATAAGACCTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCATT
1 TAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTATAACTTCAGAGAGATAAGATCATT
**
11071684 GGTTTTAATCCACTCCACTGTAATCTC-AGGAAGATAGGATTACTAACTTCAATCTGCTCCGCTG
66 CATTTTAATCCACTCCACTGTAATCTCAAGG-AGATAGGATTACTAACTTCAATCTGCTCCGCTG
*
11071748 TAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTT
1 TAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTATAACTTCAGAGAGATAAGATCATT
*
11071813 CATTTTAATCCACTCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTG
66 CATTTTAATCCACTCCACTGTAATCTCAAGGAGATAGGATTACTAACTTCAATCTGCTCCGCTG
11071877 TAATCTCAGGGAGATAAGATCTGA
1 TAATCTCAGGGAGATAAGATCTGA
11071901 AATTCTCCGG
Statistics
Matches: 142, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
129 139 0.98
130 3 0.02
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (129 bp):
TAATCTCAGGGAGATAAGATCTGACACGATCTACTCTACTATAACTTCAGAGAGATAAGATCATT
CATTTTAATCCACTCCACTGTAATCTCAAGGAGATAGGATTACTAACTTCAATCTGCTCCGCTG
Found at i:11071926 original size:175 final size:175
Alignment explanation
Indices: 11071696--11072247 Score: 787
Period size: 175 Copynumber: 3.2 Consensus size: 175
11071686 TTTTAATCCA
* * * * * * *
11071696 CTCCACTGTAATCTCAGGAAGATAGGAT-T-ACTAA-CTTCAATCTGCTCCGCTGTAATCTCAGG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAC-AATCTCCAGTCTGTTCCACTGTAATCTCAGG
* * * * * *
11071758 GAGATAAGATCTGACACGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTCATTTTAATC
65 GAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCATTCATTTTAATC
11071823 CACTCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTG
130 CACTCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTG
*
11071869 CTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTCTCC-GGCTTGTTCCACTGTAATCTCAG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTGACAA-TCTCCAGTC-TGTTCCACTGTAATCTCAG
**
11071932 GGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCATTGGTTTTAAT
64 GGAAATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCATTCATTTTAAT
* * * *
11071997 CCGCTCCACTGTAATCTCAGGGAGATAGGATTACCAGCTTCAATCTA
129 CCACTCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTG
* *
11072044 CTCCGCTGTAATCTCAGGGAGATAAGATCTGACAATCTTCAGTCTGTTCCACTGTAATCTCAGGT
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTGACAATCTCCAGTCTGTTCCACTGTAATCTCAGGG
11072109 AAATAAGACCTGACGCGATCTACTCTGCTGT--CTTCAGAGAGATAAGATCATTCATTTTAATCC
66 AAATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCATTCATTTTAATCC
* *
11072172 ACTCCACTGTAATCT-TAGAGAGATAGGATTACTAACTTCAATCTG
131 ACTCCACTGTAATCTCAAG-GAGATAGGATTACTAGCTTCAATCTG
*
11072217 CTCCGCTGTAATCTTAGGGAGATAAGATCTG
1 CTCCGCTGTAATCTCAGGGAGATAAGATCTG
11072248 GCACGATCTA
Statistics
Matches: 339, Mismatches: 32, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
172 1 0.00
173 124 0.37
174 2 0.01
175 208 0.61
176 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (175 bp):
CTCCGCTGTAATCTCAGGGAGATAAGATCTGACAATCTCCAGTCTGTTCCACTGTAATCTCAGGG
AAATAAGACCTGACGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCATTCATTTTAATCC
ACTCCACTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTG
Found at i:11072072 original size:304 final size:304
Alignment explanation
Indices: 11071523--11072077 Score: 977
Period size: 304 Copynumber: 1.8 Consensus size: 304
11071513 NNNNNNNNNN
*
11071523 CCACTGTAATATCAGGGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
1 CCACTGTAATATCAAGGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
* **
11071588 AAGATCTGAAATTCTTCGGTCTGTTCCACTATAATCTCAGGGAAATAAGACCTGGTGCGATCTAC
66 AAGATCTGAAATTCTCCGGTCTGTTCCACTATAATCTCAGGGAAATAAGACCTGACGCGATCTAC
11071653 TCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCCACTCCACTGTAATCTCAGGAAGA
131 TCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCCACTCCACTGTAATCTCAGGAAGA
* *
11071718 TAGGATTACTAACTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACACGATCTACT
196 TAGGATTACCAACTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGACACGATCTACT
11071783 CTACTATAACTTCAGAGAGATAAGATCCTTCATTTTAATCCACT
261 CTACTATAACTTCAGAGAGATAAGATCCTTCATTTTAATCCACT
* *
11071827 CCACTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
1 CCACTGTAATATCAAGGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
*
11071892 AAGATCTGAAATTCTCCGG-CTTGTTCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTA
66 AAGATCTGAAATTCTCCGGTC-TGTTCCACTATAATCTCAGGGAAATAAGACCTGACGCGATCTA
* * *
11071956 CTCTGCTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCTCAGGGAG
130 CTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCCACTCCACTGTAATCTCAGGAAG
*
11072021 ATAGGATTACCAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGACA
195 ATAGGATTACCAACTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGACA
11072078 ATCTTCAGTC
Statistics
Matches: 237, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
303 1 0.00
304 236 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (304 bp):
CCACTGTAATATCAAGGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
AAGATCTGAAATTCTCCGGTCTGTTCCACTATAATCTCAGGGAAATAAGACCTGACGCGATCTAC
TCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCCACTCCACTGTAATCTCAGGAAGA
TAGGATTACCAACTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGACACGATCTACT
CTACTATAACTTCAGAGAGATAAGATCCTTCATTTTAATCCACT
Found at i:11072151 original size:129 final size:128
Alignment explanation
Indices: 11072034--11072364 Score: 301
Period size: 129 Copynumber: 2.6 Consensus size: 128
11072024 GGATTACCAG
* * * * *
11072034 CTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAC-AATCTTCAGTCTGTTCCACTG
1 CTTCAATCCACTCCACTGTAATCTCAGAGAGATAAGAT-T-ACTAA-CTTCAATCTGCTCCACTG
* * * *
11072098 TAATCTCAGGTAAATAAGACCTGACGCGATCTACTCTGCTGT-CTTCAGAGAGATAAGATCATTC
63 TAATCTCAGGGAAATAAGACCTGACACGATCTACTCTACTGTACTTCAGAGAGATAAGATCATCC
11072162 A
128 A
* * * * *
11072163 TTTTAATCCACTCCACTGTAATCTTAGAGAGATAGGATTACTAACTTCAATCTGCTCCGCTGTAA
1 CTTCAATCCACTCCACTGTAATCTCAGAGAGATAAGATTACTAACTTCAATCTGCTCCACTGTAA
* * * * * **
11072228 TCTTAGGGAGATAAGATCTGGCACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTA
66 TCTCAGGGAAATAAGACCTGACACGATCTACTCTACTGT-ACTTCAGAGAGATAAGATCATCCA
* * * * * * ** ** *
11072292 TTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATATGA-TAGTGTCTTTGATCTGCTCCATTGTA
1 CTTCAATCCACTCCACTGTAATC-TCAGAGAGATAAGATTACTAACTTCAATCTGCTCCACTGTA
11072355 ATCTCAGGGA
65 ATCTCAGGGA
11072365 GGAAAAATCT
Statistics
Matches: 167, Mismatches: 31, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
127 52 0.31
128 32 0.19
129 83 0.50
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (128 bp):
CTTCAATCCACTCCACTGTAATCTCAGAGAGATAAGATTACTAACTTCAATCTGCTCCACTGTAA
TCTCAGGGAAATAAGACCTGACACGATCTACTCTACTGTACTTCAGAGAGATAAGATCATCCA
Found at i:11072184 original size:304 final size:304
Alignment explanation
Indices: 11071523--11072325 Score: 898
Period size: 304 Copynumber: 2.6 Consensus size: 304
11071513 NNNNNNNNNN
* * * **
11071523 CCACTGTAATATCAGGGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
1 CCACTGTAATCTCAAGGAGATAAGATCACTAGCTTCAATCCACTCCGCTGTAATCTCAGGGAGAT
* * *
11071588 AAGATCTGAAATTCTTCGG-TCTGTTCCACTATAATCTCAGGGAAATAAGACCTGGTGCGATCTA
66 AAGATCTGAAATTCTCCGGCT-TGTTCCACTGTAATCTCAGGGAAATAAGACCTGGCGCGATCTA
* *
11071652 CTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCCACTCCACTGTAATCTCAGGAAG
130 CTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCTCAGGGAG
* * *
11071717 ATAGGATTACTAACTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGACACGATCTAC
195 ATAGGATTACCAACTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGACACCATCTAC
* * ***
11071782 TCTACTATAACTTCAGAGAGATAAGATCCTTCATTTTAATCCACT
260 TCCACTATAACTTCAGAGAAATAAGATCCTTCATCGCAATCCACT
* * **
11071827 CCACTGTAATCTCAAGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
1 CCACTGTAATCTCAAGGAGATAAGATCACTAGCTTCAATCCACTCCGCTGTAATCTCAGGGAGAT
*
11071892 AAGATCTGAAATTCTCCGGCTTGTTCCACTGTAATCTCAGGGAAATAAGACCTGACGCGATCTAC
66 AAGATCTGAAATTCTCCGGCTTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGCGCGATCTAC
*
11071957 TCTGCTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCTCAGGGAGA
131 TCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCTCAGGGAGA
*
11072022 TAGGATTACCAGCTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGACAATCTTCAGT
196 TAGGATTACCAACTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGAC-A-C--CA-T
** * * * *
11072087 CTGTTCCACTGTAA-TCTCAG-GTAAATAAGA-CC-TGA-CGCGATCTACT
256 CTACTCCACTATAACT-TCAGAG-AAATAAGATCCTTCATCGCAATCCACT
** * * * * * * *
11072133 CTGCTGT-CT-TC-AGAGAGATAAGATCATTCA-TTTTAATCCACTCCACTGTAATCTTAGAGAG
1 CCACTGTAATCTCAAG-GAGATAAGATCACT-AGCTTCAATCCACTCCGCTGTAATCTCAGGGAG
* * *** * * * * * *
11072194 ATAGGAT-T-ACTAACT-TCAATC-TGCTCCGCTGTAATCTTAGGGAGATAAGATCTGGCACGAT
64 ATAAGATCTGA--AATTCTCCGGCTTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGCGCGAT
* **
11072255 CTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAA-CTTCAG
127 CTACTCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATC-TCAG
11072319 GGAGATA
191 GGAGATA
11072326 TGATAGTGTC
Statistics
Matches: 432, Mismatches: 54, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
301 1 0.00
302 99 0.23
303 6 0.01
304 281 0.65
305 4 0.01
306 12 0.03
307 2 0.00
308 5 0.01
309 22 0.05
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (304 bp):
CCACTGTAATCTCAAGGAGATAAGATCACTAGCTTCAATCCACTCCGCTGTAATCTCAGGGAGAT
AAGATCTGAAATTCTCCGGCTTGTTCCACTGTAATCTCAGGGAAATAAGACCTGGCGCGATCTAC
TCTACTGTAACTTCAGAGAGATAAGATCATTGGTTTTAATCCGCTCCACTGTAATCTCAGGGAGA
TAGGATTACCAACTTCAATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGACACCATCTACT
CCACTATAACTTCAGAGAAATAAGATCCTTCATCGCAATCCACT
Found at i:11072317 original size:44 final size:45
Alignment explanation
Indices: 11072139--11072325 Score: 138
Period size: 44 Copynumber: 4.3 Consensus size: 45
11072129 TACTCTGCTG
* *
11072139 TCTTCAGAGAGATAAGATCATTCATTTTAATCCACTCCACTGTAA
1 TCTTCAGAGAGATAAGATCTTTCATTTCAATCCACTCCACTGTAA
* * * * ** *
11072184 TCTT-AGAGAGATAGGAT-TACTAACTTCAATCTGCTCCGCTGTAA
1 TCTTCAGAGAGATAAGATCT-TTCATTTCAATCCACTCCACTGTAA
* ** * * *
11072228 TCTT-AGGGAGATAAGATCTGGCA---CGATCTACTCTACTGTAA
1 TCTTCAGAGAGATAAGATCTTTCATTTCAATCCACTCCACTGTAA
* * *
11072269 -CTTCAGAGAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAA
1 TCTTCAGAGAGATAAGATCTTTCATTTCAATCCACTCCACTGTAA
*
11072313 -CTTCAGGGAGATA
1 TCTTCAGAGAGATA
11072326 TGATAGTGTC
Statistics
Matches: 108, Mismatches: 28, Indels: 13
0.72 0.19 0.09
Matches are distributed among these distances:
40 3 0.03
41 29 0.27
44 71 0.66
45 5 0.05
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (45 bp):
TCTTCAGAGAGATAAGATCTTTCATTTCAATCCACTCCACTGTAA
Found at i:11072434 original size:88 final size:88
Alignment explanation
Indices: 11072331--11072570 Score: 281
Period size: 88 Copynumber: 2.7 Consensus size: 88
11072321 AGATATGATA
* * * * *
11072331 GTGTCTTTGATCTGCTCCATTGT-AATCTCAGGGAGGAAAAATCTTTTGTCTTCAACCAGCTCCA
1 GTGTCCTTGACCTGCTTCACTGTCAAT-TCAGGGAGGAAAGATCTTTTGTCTTCAACCAGCTCCA
*
11072395 TCACAACCGGGAGAGGCAAGGTTC
65 TCACAACCGGGAAAGGCAAGGTTC
* * * * *
11072419 GTGTCCTTGACCTGCTTCGCTGTCAATGT-AGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTA
1 GTGTCCTTGACCTGCTTCACTGTCAAT-TCAGGGAGGAAAGATCTTTTGTCTTCAACCAGCTCCA
*
11072483 TCACAACCGGGAAAGGCAAGGTTT
65 TCACAACCGGGAAAGGCAAGGTTC
* * *
11072507 GTGT-CTTCGACCTGCTTCACTGTCAATGCA-GGAAGACAAGATCTTTTGTCTTTAACCAGCTCC
1 GTGTCCTT-GACCTGCTTCACTGTCAATTCAGGGAGGA-AAGATCTTTTGTCTTCAACCAGCTCC
11072570 A
64 A
11072571 CTGCAACCAA
Statistics
Matches: 127, Mismatches: 21, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
87 6 0.05
88 117 0.92
89 4 0.03
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.29
Consensus pattern (88 bp):
GTGTCCTTGACCTGCTTCACTGTCAATTCAGGGAGGAAAGATCTTTTGTCTTCAACCAGCTCCAT
CACAACCGGGAAAGGCAAGGTTC
Found at i:11072764 original size:86 final size:87
Alignment explanation
Indices: 11072430--11073070 Score: 805
Period size: 87 Copynumber: 7.4 Consensus size: 87
11072420 TGTCCTTGAC
* * * * * * **
11072430 CTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTA-TCACAACC-GG
1 CTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTTAACCAGCTCCACT-GCAACCAAT
* *
11072493 GAAAGGCAAGGTTTGTGTCTTCGAC
65 G-AAGGCAAGGTTT-TGTTTTCGAT
* * *
11072518 CTGCTTCACTGTCAATGCAGGAAGACAAGATCTTTTGTCTTTAACCAGCTCCACTGCAACCAATG
1 CTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTTAACCAGCTCCACTGCAACCAATG
*
11072583 AAGGCAAGACTTTT-TTTTCGAT
66 AAGGCAAG-GTTTTGTTTTCGAT
* * *
11072605 CTGCTTCGTTATTAATGCAGGAAGGCAAGATCTTTTGTCTTTAACCAGCTCCACTGAAACCAATG
1 CTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTTAACCAGCTCCACTGCAACCAATG
11072670 AAGGCAAGGTTTTGTTTTCGAT
66 AAGGCAAGGTTTTGTTTTCGAT
* ** *
11072692 CTGCTTCGCTGTTAACGCAGGAAGGC-AGATCTGCT-TCTTTAACCCAGCTCCACTGCAACTAAT
1 CTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTTAA-CCAGCTCCACTGCAACCAAT
*
11072755 GAAGGCAAGGCTTTG-TTTCGAT
65 GAAGGCAAGGTTTTGTTTTCGAT
* *
11072777 CTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTTAACCAACTCCACTGCAACCAATG
1 CTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTTAACCAGCTCCACTGCAACCAATG
*
11072842 AAGGCAAGGCTTTGTTTTCGAT
66 AAGGCAAGGTTTTGTTTTCGAT
* **
11072864 CTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAACCAATG
1 CTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTTAACCAGCTCCACTGCAACCAATG
*
11072928 AAGGCAAGGCTTTGTTTTCGAT
66 AAGGCAAGGTTTTGTTTTCGAT
* * * *
11072950 CTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCA-TCACAACCGA-
1 CTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTTAACCAGCTCCACT-GCAACCAAT
* * *
11073013 GAGAGACAAGGTTTGTGTCTTCAAT
65 GA-AGGCAAGGTTT-TGTTTTCGAT
* *
11073038 CTGCTTCACTGTCAATGCAGGAAGGCAAGATCT
1 CTGCTTCGCTGTTAATGCAGGAAGGCAAGATCT
11073071 GCAACTTCAT
Statistics
Matches: 489, Mismatches: 52, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
85 38 0.08
86 167 0.34
87 180 0.37
88 99 0.20
89 5 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (87 bp):
CTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTTAACCAGCTCCACTGCAACCAATG
AAGGCAAGGTTTTGTTTTCGAT
Found at i:11072804 original size:172 final size:173
Alignment explanation
Indices: 11072430--11073072 Score: 879
Period size: 172 Copynumber: 3.7 Consensus size: 173
11072420 TGTCCTTGAC
* * * * * **
11072430 CTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTATCACAACC-GGG
1 CTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCAATG
* * * **
11072494 AAAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAGACAAGATCTTTTGTCTT
66 -AAGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCT-TCTT
* *
11072559 TAACCAGCTCCACTGCAACCAATGAAGGCAAGACTTTTTTTTCGAT
129 TAACCAGCTCCACTGCAACCAATGAAGGCAAGGC-TTTGTTTCGAT
* * *
11072605 CTGCTTCGTTATTAATGCAGGAAGGCAAGATCTTTTGTCTTTAACCAGCTCCACTGA-AACCAAT
1 CTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCA-TCACAACCAAT
* * *
11072669 GAAGGCAAGGTTT-TGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC-AGATCTGCTTCTTT
65 GAAGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTTCTTT
*
11072732 AACCCAGCTCCACTGCAACTAATGAAGGCAAGGCTTTGTTTCGAT
130 AA-CCAGCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTCGAT
* * *
11072777 CTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTTAACCAACTCCA-CTGCAACCAAT
1 CTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATC-ACAACCAAT
* *
11072841 GAAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTT
65 GAAGGCAAGG-TTTGTGTCTTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTTCTT
11072904 TAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGAT
129 TAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTTG-TTTCGAT
*
11072950 CTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGA-G
1 CTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCAATG
* * *
11073014 AGAGACAAGGTTTGTGTCTTCAATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGC
66 A-AGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGC
11073073 AACTTCATTG
Statistics
Matches: 420, Mismatches: 35, Indels: 27
0.87 0.07 0.06
Matches are distributed among these distances:
172 158 0.38
173 128 0.30
174 69 0.16
175 62 0.15
176 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (173 bp):
CTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCAATG
AAGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAACGCAGGAAGGCAAGATCTGCTTCTTTA
ACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTCGAT
Found at i:11074195 original size:21 final size:21
Alignment explanation
Indices: 11074169--11074215 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
11074159 GGTATAGCAG
11074169 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
11074190 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
11074211 GATCA
1 GATCA
11074216 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:11074336 original size:21 final size:19
Alignment explanation
Indices: 11074300--11074347 Score: 64
Period size: 17 Copynumber: 2.6 Consensus size: 19
11074290 AGCCTCTCCA
*
11074300 TTTTTACTTTTTCATT--T
1 TTTTTATTTTTTCATTCAT
*
11074317 TTTTCATTTTTTCATTCAT
1 TTTTTATTTTTTCATTCAT
11074336 TTTTTATTTTTT
1 TTTTTATTTTTT
11074348 TTGTTTGACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 14 0.54
19 12 0.46
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTATTTTTTCATTCAT
Found at i:11074349 original size:9 final size:9
Alignment explanation
Indices: 11074307--11074348 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
11074297 CCATTTTTAC
11074307 TTTTTCATT
1 TTTTTCATT
11074316 TTTTTCA-T
1 TTTTTCATT
11074324 TTTTTCATT
1 TTTTTCATT
*
11074333 CATTTTTTATT
1 --TTTTTCATT
11074344 TTTTT
1 TTTTT
11074349 TGTTTGACTC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
8 8 0.28
9 13 0.45
11 8 0.28
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTCATT
Found at i:11074349 original size:21 final size:21
Alignment explanation
Indices: 11074310--11074347 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 21
11074300 TTTTTACTTT
11074310 TTCATTTTTTTCATTTTTTCA
1 TTCATTTTTTTCATTTTTTCA
11074331 TTCA-TTTTTT-ATTTTTT
1 TTCATTTTTTTCATTTTTT
11074348 TTGTTTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (21 bp):
TTCATTTTTTTCATTTTTTCA
Found at i:11075195 original size:20 final size:21
Alignment explanation
Indices: 11075170--11075246 Score: 92
Period size: 20 Copynumber: 3.9 Consensus size: 21
11075160 TTTCTCCTAT
*
11075170 TTTTGACTTTGATTTTTTT-A
1 TTTTGATTTTGATTTTTTTGA
11075190 TTTTGATTTTTGATTTTTTTGA
1 TTTTGA-TTTTGATTTTTTTGA
*
11075212 TTTT-TTTTTGATTTTTTTGA
1 TTTTGATTTTGATTTTTTTGA
11075232 TTTT--TTTT-ATTTTTT
1 TTTTGATTTTGATTTTTT
11075247 GAAATTTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.13
19 4 0.08
20 25 0.47
21 12 0.23
22 5 0.09
ACGTcount: A:0.12, C:0.01, G:0.09, T:0.78
Consensus pattern (21 bp):
TTTTGATTTTGATTTTTTTGA
Found at i:11075198 original size:27 final size:26
Alignment explanation
Indices: 11075168--11075244 Score: 70
Period size: 27 Copynumber: 3.0 Consensus size: 26
11075158 TTTTTCTCCT
11075168 ATTTTTGACTTTGATTT-TTTTATTTTG
1 ATTTTTGA-TTT-ATTTATTTTATTTTG
* *
11075195 ATTTTTGATTTTTTTGATTTTTTTTTG
1 ATTTTTGATTTATTT-ATTTTATTTTG
* *
11075222 ATTTTT--TTGATTTTTTTTATTTT
1 ATTTTTGATTTATTTATTTTATTTT
11075245 TTGAAATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
24 8 0.19
25 8 0.19
26 3 0.07
27 23 0.55
ACGTcount: A:0.13, C:0.01, G:0.09, T:0.77
Consensus pattern (26 bp):
ATTTTTGATTTATTTATTTTATTTTG
Found at i:11075210 original size:9 final size:9
Alignment explanation
Indices: 11075196--11075246 Score: 75
Period size: 9 Copynumber: 5.4 Consensus size: 9
11075186 TTTATTTTGA
11075196 TTTTTGATT
1 TTTTTGATT
11075205 TTTTTGATTTT
1 TTTTTGA--TT
11075216 TTTTTGATT
1 TTTTTGATT
11075225 TTTTTGATT
1 TTTTTGATT
*
11075234 TTTTTTATT
1 TTTTTGATT
11075243 TTTT
1 TTTT
11075247 GAAATTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
9 30 0.77
11 9 0.23
ACGTcount: A:0.10, C:0.00, G:0.08, T:0.82
Consensus pattern (9 bp):
TTTTTGATT
Found at i:11075216 original size:29 final size:29
Alignment explanation
Indices: 11075177--11075246 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
11075167 TATTTTTGAC
11075177 TTTGATTTTTTTATTTTGA-TTTTTGATTTT
1 TTTGA-TTTTTT-TTTTGATTTTTTGATTTT
11075207 TTTGA-TTTTTTTTTGATTTTTTTGATTTT
1 TTTGATTTTTTTTTTGA-TTTTTTGATTTT
*
11075236 TTTTATTTTTT
1 TTTGATTTTTT
11075247 GAAATTTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
27 6 0.17
28 5 0.14
29 15 0.42
30 10 0.28
ACGTcount: A:0.11, C:0.00, G:0.09, T:0.80
Consensus pattern (29 bp):
TTTGATTTTTTTTTTGATTTTTTGATTTT
Found at i:11075237 original size:21 final size:21
Alignment explanation
Indices: 11075177--11075239 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
11075167 TATTTTTGAC
*
11075177 TTTGATTTTTTT-ATTTTGATT
1 TTTGATTTTTTTGATTTT-TTT
11075198 TTTGATTTTTTTGA-TTTTTT
1 TTTGATTTTTTTGATTTTTTT
11075218 TTTGATTTTTTTGATTTTTTT
1 TTTGATTTTTTTGATTTTTTT
11075239 T
1 T
11075240 ATTTTTTGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
20 16 0.41
21 22 0.56
22 1 0.03
ACGTcount: A:0.11, C:0.00, G:0.10, T:0.79
Consensus pattern (21 bp):
TTTGATTTTTTTGATTTTTTT
Found at i:11075260 original size:29 final size:29
Alignment explanation
Indices: 11075196--11075257 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
11075186 TTTATTTTGA
***
11075196 TTTTTGATTTTTTTGATTTTTTTTTGATT
1 TTTTTGATTTTTTTGATTTTTTTGAAATT
*
11075225 TTTTTGATTTTTTTTA-TTTTTTGAAATT
1 TTTTTGATTTTTTTGATTTTTTTGAAATT
11075253 TTTTT
1 TTTTT
11075258 TGAGTCTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (29 bp):
TTTTTGATTTTTTTGATTTTTTTGAAATT
Found at i:11077882 original size:19 final size:17
Alignment explanation
Indices: 11077860--11077902 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 17
11077850 GTGAAATTTG
11077860 ATGCATGCAATGAAATGCA
1 ATGCATGC-ATGAAATG-A
11077879 ATGCAGATGCATGAAATGA
1 ATGC--ATGCATGAAATGA
11077898 ATGCA
1 ATGCA
11077903 AAAAAGAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.05
19 9 0.41
20 8 0.36
21 4 0.18
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (17 bp):
ATGCATGCATGAAATGA
Found at i:11079855 original size:8 final size:8
Alignment explanation
Indices: 11079818--11079858 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
11079808 ATCTGAGTGA
11079818 AAATGAAT
1 AAATGAAT
*
11079826 AGAATGGAT
1 A-AATGAAT
*
11079835 AAATAAAT
1 AAATGAAT
11079843 AAATGAAT
1 AAATGAAT
11079851 AAATGAAT
1 AAATGAAT
11079859 CAAGCAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (8 bp):
AAATGAAT
Found at i:11080399 original size:3 final size:3
Alignment explanation
Indices: 11080391--11080438 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
11080381 AAGTAATTAA
*
11080391 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AC AAT -AT AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11080436 AAT
1 AAT
11080439 GAGAAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 5 0.12
3 35 0.88
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11080412 original size:18 final size:17
Alignment explanation
Indices: 11080391--11080438 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
11080381 AAGTAATTAA
11080391 AATAATAATAATAATAAT
1 AATAATAATAATAAT-AT
*
11080409 AATAATAAT-ACAATAT
1 AATAATAATAATAATAT
11080425 AAT-ATAATAATAAT
1 AATAATAATAATAAT
11080439 GAGAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 5 0.19
16 9 0.33
17 4 0.15
18 9 0.33
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAATAATAATAATAT
Done.