Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008138.1 Hibiscus syriacus cultivar Beakdansim tig00110694_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: 3838456
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 18
Found at i:867185 original size:10 final size:10
Alignment explanation
Indices: 867170--867195 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
867160 TGTTGTCACG
867170 CGGGTATGGA
1 CGGGTATGGA
867180 CGGGTATGGA
1 CGGGTATGGA
867190 CGGGTA
1 CGGGTA
867196 CAAGCCGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.50, T:0.19
Consensus pattern (10 bp):
CGGGTATGGA
Found at i:870016 original size:51 final size:51
Alignment explanation
Indices: 869921--870032 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 51
869911 ATTAATGAAT
* *
869921 AAAATAATAATAAACTAAAGATAATGTTTGAATTATATCCTAATTCCTAAG
1 AAAATAATAATAAACTAAAAATAATATTTGAATTATATCCTAATTCCTAAG
* * * *
869972 AAAATAATAATAAACTAAAAATAATATTTTAATTCA-ATCTTAATTCTTAAT
1 AAAATAATAATAAACTAAAAATAATATTTGAATT-ATATCCTAATTCCTAAG
870023 AAAATAATAA
1 AAAATAATAA
870033 ATTTAATTCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 53 0.98
52 1 0.02
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (51 bp):
AAAATAATAATAAACTAAAAATAATATTTGAATTATATCCTAATTCCTAAG
Found at i:870798 original size:26 final size:26
Alignment explanation
Indices: 870729--870799 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
870719 AATCGTCCTA
*
870729 AAAATTCATATTAATG-TT-AAAAAAT
1 AAAATT-AAATTAATGATTAAAAAAAT
**
870754 AAAATTAAATTAAAAATTAAAAAAAT
1 AAAATTAAATTAATGATTAAAAAAAT
870780 AAATATTAAA-TAATGATTAA
1 AAA-ATTAAATTAATGATTAA
870800 TATTGAAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
24 6 0.16
25 8 0.21
26 18 0.47
27 6 0.16
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (26 bp):
AAAATTAAATTAATGATTAAAAAAAT
Found at i:871750 original size:21 final size:21
Alignment explanation
Indices: 871724--871767 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
871714 ACAAAAACCG
* *
871724 AATAAAAAAATTAATAATAAT
1 AATAAAAAAATAAATAAAAAT
*
871745 AATAAAATAATAAATAAAAAT
1 AATAAAAAAATAAATAAAAAT
871766 AA
1 AA
871768 ATAATATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (21 bp):
AATAAAAAAATAAATAAAAAT
Found at i:871760 original size:18 final size:18
Alignment explanation
Indices: 871724--871773 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
871714 ACAAAAACCG
*
871724 AATAAAAAAATTAAT-AAT
1 AATAATAAAA-TAATAAAT
871742 AATAATAAAATAATAAAT
1 AATAATAAAATAATAAAT
*
871760 AAAAAT-AAATAATA
1 AATAATAAAATAATA
871774 TTATATTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 12 0.41
18 17 0.59
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AATAATAAAATAATAAAT
Found at i:871790 original size:17 final size:17
Alignment explanation
Indices: 871770--871814 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
871760 AAAAATAAAT
*
871770 AATATTATATTTTCAAA
1 AATAATATATTTTCAAA
*
871787 AATAATATGTTTTCAAA
1 AATAATATATTTTCAAA
*
871804 AATTATATATT
1 AATAATATATT
871815 ATATATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (17 bp):
AATAATATATTTTCAAA
Found at i:871950 original size:37 final size:36
Alignment explanation
Indices: 871859--872077 Score: 192
Period size: 37 Copynumber: 5.9 Consensus size: 36
871849 TATATATATG
* * *
871859 TTTTCAAAACTATACTA-TATGTGTTTTTAAAAATCGT
1 TTTTAAAAACTATA-TATTATATGTTTTCAAAAAT-GT
*
871896 TTTTAAAACTATATATATATTATATGTTTTCAAAAATGT
1 TTTTAAAA--A-CTATATATTATATGTTTTCAAAAATGT
* * * *
871935 GTTTTCAAAAGTATATAATATATGTTTTCAAAAAAGT
1 -TTTTAAAAACTATATATTATATGTTTTCAAAAATGT
* * * *
871972 ATTTTCAAAAC--CATATTATATATTTTCAAAAATCGA
1 -TTTTAAAAACTATATATTATATGTTTTCAAAAAT-GT
* * *
872008 TTTTAAAAACTATATATTATATGCTTTAAAAAACGT
1 TTTTAAAAACTATATATTATATGTTTTCAAAAATGT
*
872044 TTTCTAAAAACTATATATTATATGTTTTTAAAAA
1 TTT-TAAAAACTATATATTATATGTTTTCAAAAA
872078 AAAATATTTT
Statistics
Matches: 149, Mismatches: 24, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
35 27 0.18
36 5 0.03
37 85 0.57
38 1 0.01
39 5 0.03
40 26 0.17
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (36 bp):
TTTTAAAAACTATATATTATATGTTTTCAAAAATGT
Found at i:872054 original size:72 final size:73
Alignment explanation
Indices: 871912--872077 Score: 187
Period size: 72 Copynumber: 2.3 Consensus size: 73
871902 AACTATATAT
* * * *
871912 ATATTATATGTTTTCAAAAATGTGTTTTCAAAAGTATATAATATATGTTTTCAAAAAAGTATTTT
1 ATATTATATGTTTTCAAAAATGTATTTTAAAAACTATATAATATATGCTTTCAAAAAAGTATTTT
*
871977 CAAAAC-C
66 AAAAACAC
* *
871984 ATATTATATATTTTCAAAAATCG-ATTTTAAAAACTATATATTATATGCTTT-AAAAAACGT-TT
1 ATATTATATGTTTTCAAAAAT-GTATTTTAAAAACTATATAATATATGCTTTCAAAAAA-GTATT
*
872046 TCTAAAAACTAT
64 T-TAAAAAC-AC
*
872058 ATATTATATGTTTTTAAAAA
1 ATATTATATGTTTTCAAAAA
872078 AAAATATTTT
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
71 9 0.11
72 51 0.65
73 1 0.01
74 18 0.23
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (73 bp):
ATATTATATGTTTTCAAAAATGTATTTTAAAAACTATATAATATATGCTTTCAAAAAAGTATTTT
AAAAACAC
Found at i:876905 original size:21 final size:21
Alignment explanation
Indices: 876868--876907 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
876858 ACTATCCGAT
**
876868 ATGAACAATACTGTGAACAGA
1 ATGAACAATACCATGAACAGA
876889 ATGAACAATACCATGAACA
1 ATGAACAATACCATGAACA
876908 ATACCGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.17
Consensus pattern (21 bp):
ATGAACAATACCATGAACAGA
Found at i:877567 original size:22 final size:21
Alignment explanation
Indices: 877539--877587 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
877529 GGCATATGAA
*
877539 TTTTGTCCCAAAGGACCTCTG
1 TTTTGTCCCAAAGGACCTATG
*
877560 TATTTGTCCCGAAGGACCTATG
1 T-TTTGTCCCAAAGGACCTATG
877582 TTTTGT
1 TTTTGT
877588 ATTTGTCCCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.39
Consensus pattern (21 bp):
TTTTGTCCCAAAGGACCTATG
Found at i:878808 original size:3 final size:3
Alignment explanation
Indices: 878800--878833 Score: 50
Period size: 3 Copynumber: 10.7 Consensus size: 3
878790 AAGAGGAGAG
878800 GAA GAA GAA GGAA GAA GAA GGAA GAA GAA GAA GA
1 GAA GAA GAA -GAA GAA GAA -GAA GAA GAA GAA GA
878834 GAGTTTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 23 0.79
4 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:878813 original size:10 final size:10
Alignment explanation
Indices: 878798--878833 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
878788 AAAAGAGGAG
878798 AGGAAGAAGA
1 AGGAAGAAGA
878808 AGGAAGAAGA
1 AGGAAGAAGA
878818 AGGAAGAAGA
1 AGGAAGAAGA
878828 A-GAAGA
1 AGGAAGA
878834 GAGTTTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 5 0.19
10 21 0.81
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (10 bp):
AGGAAGAAGA
Found at i:878818 original size:13 final size:12
Alignment explanation
Indices: 878800--878833 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
878790 AAGAGGAGAG
878800 GAAGAAGAAGGAA
1 GAAGAAGAA-GAA
878813 GAAGAAGGAAGAA
1 GAAGAA-GAAGAA
878826 GAAGAAGA
1 GAAGAAGA
878834 GAGTTTACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 15 0.75
14 3 0.15
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAGAA
Found at i:879371 original size:57 final size:57
Alignment explanation
Indices: 879279--879397 Score: 195
Period size: 57 Copynumber: 2.1 Consensus size: 57
879269 GACATCAGTT
* *
879279 TAAA-AGGGAAAGCCCCGATCTTCTTCAAGAATGAGACCAACTAATCAATATGGGTG
1 TAAATAGGGAAAGCCACGATCTTCTTCAAGAATGAGACCAACTAATCAACATGGGTG
* *
879335 TAAATAGGGAAAGCCACTATCTTCTTCAAGGATGAGACCAACTAATCAACATGGGTG
1 TAAATAGGGAAAGCCACGATCTTCTTCAAGAATGAGACCAACTAATCAACATGGGTG
879392 TAAATA
1 TAAATA
879398 AACAGAGCTT
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
56 4 0.07
57 54 0.93
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.23
Consensus pattern (57 bp):
TAAATAGGGAAAGCCACGATCTTCTTCAAGAATGAGACCAACTAATCAACATGGGTG
Found at i:879611 original size:11 final size:12
Alignment explanation
Indices: 879595--879623 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
879585 GTTCACAAAC
879595 ATGTTCGTTTA-
1 ATGTTCGTTTAT
879606 ATGTTCGTTTAT
1 ATGTTCGTTTAT
879618 ATGTTC
1 ATGTTC
879624 AATTTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.17, C:0.10, G:0.17, T:0.55
Consensus pattern (12 bp):
ATGTTCGTTTAT
Found at i:889402 original size:2 final size:2
Alignment explanation
Indices: 889395--889419 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
889385 CAAAAACTAC
889395 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 A
889420 CTCCTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:889585 original size:24 final size:23
Alignment explanation
Indices: 889550--889623 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 23
889540 CTTTTCATAA
889550 AATTTG-CACCGAAGTGCCACGTA-
1 AATTTGTC-CCGAAG-GCCACGTAG
**
889573 AATTTTGTCCCGAAAGGCCGTGTAG
1 AA-TTTGTCCCG-AAGGCCACGTAG
*
889598 AATTTGTCCCGAAGGACCGCGTAG
1 AATTTGTCCCGAAGG-CCACGTAG
889622 AA
1 AA
889624 CCCTCAACTC
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
23 6 0.14
24 31 0.72
25 6 0.14
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (23 bp):
AATTTGTCCCGAAGGCCACGTAG
Found at i:889760 original size:30 final size:30
Alignment explanation
Indices: 889724--889784 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
889714 AAGTGTCTTT
*
889724 TATTCACGTAGAACACATTTACATATATCA
1 TATTCACATAGAACACATTTACATATATCA
* * *
889754 TATTCACATAGAACATATTTACTTATTTCA
1 TATTCACATAGAACACATTTACATATATCA
889784 T
1 T
889785 GTACTCATAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.39
Consensus pattern (30 bp):
TATTCACATAGAACACATTTACATATATCA
Found at i:889770 original size:15 final size:15
Alignment explanation
Indices: 889724--889772 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
889714 AAGTGTCTTT
*
889724 TATTCACGTAGAACA
1 TATTCACATAGAACA
* * * *
889739 CATTTACATATATCA
1 TATTCACATAGAACA
889754 TATTCACATAGAACA
1 TATTCACATAGAACA
889769 TATT
1 TATT
889773 TACTTATTTC
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (15 bp):
TATTCACATAGAACA
Found at i:894565 original size:33 final size:29
Alignment explanation
Indices: 894500--894584 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 29
894490 ATATTAACAT
*
894500 ATATAGTTTTTGAAAACATTATATATATA
1 ATATAGTTTTTGAAAACATTTTATATATA
894529 ATATAGTTTTTGAAAACATTTTGAACGTATATA
1 ATATAGTTTTTGAAAACATTTT--A--TATATA
* *
894562 ATATATGGTTTTGAAAGCATTTT
1 ATATA-GTTTTTGAAAACATTTT
894585 TCGAATATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
29 21 0.44
31 1 0.02
33 11 0.23
34 15 0.31
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.45
Consensus pattern (29 bp):
ATATAGTTTTTGAAAACATTTTATATATA
Found at i:894594 original size:34 final size:31
Alignment explanation
Indices: 894500--894595 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 31
894490 ATATTAACAT
* *
894500 ATATAGTTTTTGAAAACATTAT--ATATATA
1 ATATAGGTTTTGAAAACATTTTGAATATATA
*
894529 ATATAGTTTTTGAAAACATTTTGAACGTATATA
1 ATATAGGTTTTGAAAACATTTTGAA--TATATA
*
894562 ATATATGGTTTTGAAAGCATTTTTCGAATATATA
1 ATATA-GGTTTTGAAAACA-TTTT-GAATATATA
894596 TAATATTATT
Statistics
Matches: 57, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
29 21 0.37
31 1 0.02
33 11 0.19
34 17 0.30
35 4 0.07
36 3 0.05
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (31 bp):
ATATAGGTTTTGAAAACATTTTGAATATATA
Found at i:894651 original size:22 final size:22
Alignment explanation
Indices: 894624--894665 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
894614 ATAATGTCAT
*
894624 TTTATTGATTTATTTATTTTCA
1 TTTATTGATTTATTCATTTTCA
*
894646 TTTATTTATTTATTCATTTT
1 TTTATTGATTTATTCATTTT
894666 GTTATTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTATTGATTTATTCATTTTCA
Found at i:894654 original size:18 final size:17
Alignment explanation
Indices: 894622--894659 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
894612 ATATAATGTC
894622 ATTTTATTGATTTATTT
1 ATTTTATTGATTTATTT
*
894639 ATTTTCATTTATTTATTT
1 ATTTT-ATTGATTTATTT
894657 ATT
1 ATT
894660 CATTTTGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (17 bp):
ATTTTATTGATTTATTT
Found at i:894672 original size:16 final size:16
Alignment explanation
Indices: 894624--894664 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 16
894614 ATAATGTCAT
*
894624 TTTATTGATTTATTTA
1 TTTATTCATTTATTTA
894640 -TT-TTCATTTATTTA
1 TTTATTCATTTATTTA
894654 TTTATTCATTT
1 TTTATTCATTT
894665 TGTTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 11 0.50
15 4 0.18
16 7 0.32
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (16 bp):
TTTATTCATTTATTTA
Found at i:895789 original size:18 final size:18
Alignment explanation
Indices: 895763--895801 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
895753 CTTTAGATTT
*
895763 TTTATTTATTTTCTTTTA
1 TTTAATTATTTTCTTTTA
895781 TTTAATTATTTTCTTTTA
1 TTTAATTATTTTCTTTTA
895799 TTT
1 TTT
895802 TAAAAACAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTAATTATTTTCTTTTA
Found at i:895890 original size:20 final size:20
Alignment explanation
Indices: 895837--895893 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
895827 TTATCTTTAC
895837 TATTATTA-TTTA--TTATT
1 TATTATTATTTTATTTTATT
**
895854 TATTA-TATTTCCCTTTTATT
1 TATTATTATTT-TATTTTATT
895874 TATTATTATTTTATTTTATT
1 TATTATTATTTTATTTTATT
895894 ATATATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
16 2 0.06
17 7 0.23
20 17 0.55
21 5 0.16
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
TATTATTATTTTATTTTATT
Found at i:895891 original size:16 final size:16
Alignment explanation
Indices: 895867--895901 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
895857 TATATTTCCC
895867 TTTTATTTATTAT-TA
1 TTTTATTTATTATATA
895882 TTTTATTTTATTATATA
1 TTTTA-TTTATTATATA
895899 TTT
1 TTT
895902 AACTTTACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 8 0.44
17 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTATTTATTATATA
Found at i:895900 original size:27 final size:28
Alignment explanation
Indices: 895827--895902 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 28
895817 GAAACTTTTT
*
895827 TTATCTTTACTATTATTATTTATTATTTA
1 TTATATTT-CTATTATTATTTATTATTTA
**
895856 TTATATTTCCCTT-TTATTTATTA-TTA
1 TTATATTTCTATTATTATTTATTATTTA
*
895882 TTTTATTT-TATTATATATTTA
1 TTATATTTCTATTAT-TATTTA
895903 ACTTTACCTG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 2 0.05
26 11 0.28
27 16 0.41
28 3 0.08
29 7 0.18
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (28 bp):
TTATATTTCTATTATTATTTATTATTTA
Found at i:896291 original size:5 final size:5
Alignment explanation
Indices: 896281--896370 Score: 60
Period size: 5 Copynumber: 17.4 Consensus size: 5
896271 TTCTTTTTTA
* *
896281 TATTT TATTT TGTTT TATTTT TATTT TCCCACTT T--TT TATTT TATTT
1 TATTT TATTT TATTT TA-TTT TATTT T---ATTT TATTT TATTT TATTT
* * *
896328 TGTTT TATTT TATTT TCTCACT T-TTT TATTT TATTT TATTT TA
1 TATTT TATTT TATTT TAT--TT TATTT TATTT TATTT TATTT TA
896371 ACACTTTTTT
Statistics
Matches: 68, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
3 3 0.04
4 2 0.03
5 51 0.75
6 6 0.09
7 2 0.03
8 4 0.06
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.74
Consensus pattern (5 bp):
TATTT
Found at i:896350 original size:36 final size:37
Alignment explanation
Indices: 896275--896370 Score: 158
Period size: 36 Copynumber: 2.6 Consensus size: 37
896265 TAACACTTCT
896275 TTTTTATATTTTATTTTGTTTTATTTTTATTTTCCCAC
1 TTTTT-TATTTTATTTTGTTTTATTTTTATTTTCCCAC
*
896313 TTTTTTATTTTATTTTGTTTTA-TTTTATTTTCTCAC
1 TTTTTTATTTTATTTTGTTTTATTTTTATTTTCCCAC
*
896349 TTTTTTATTTTATTTTATTTTA
1 TTTTTTATTTTATTTTGTTTTA
896371 ACACTTTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
36 34 0.61
37 17 0.30
38 5 0.09
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (37 bp):
TTTTTTATTTTATTTTGTTTTATTTTTATTTTCCCAC
Found at i:896375 original size:26 final size:26
Alignment explanation
Indices: 896325--896385 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
896315 TTTTATTTTA
* **
896325 TTTTGTTTTATTTTATTTTCTCACTT
1 TTTTATTTTATTTTATTTTAACACTT
896351 TTTTATTTTATTTTATTTTAACACTT
1 TTTTATTTTATTTTATTTTAACACTT
896377 TTTTATTTT
1 TTTTATTTT
896386 TCTTCTCTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.74
Consensus pattern (26 bp):
TTTTATTTTATTTTATTTTAACACTT
Found at i:904819 original size:16 final size:16
Alignment explanation
Indices: 904798--904828 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
904788 TTCCTATAGT
904798 TTTGATGCGCAATTCG
1 TTTGATGCGCAATTCG
904814 TTTGATGCGCAATTC
1 TTTGATGCGCAATTC
904829 TTTCCTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (16 bp):
TTTGATGCGCAATTCG
Found at i:904882 original size:24 final size:24
Alignment explanation
Indices: 904855--904900 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
904845 TAAATTTTAA
904855 CACTTCTTTTTTTT-TTTATTTTCC
1 CACTT-TTTTTTTTATTTATTTTCC
904879 CACTTTTTTTTTTATTTATTTT
1 CACTTTTTTTTTTATTTATTTT
904901 ATTTTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (24 bp):
CACTTTTTTTTTTATTTATTTTCC
Found at i:904901 original size:5 final size:5
Alignment explanation
Indices: 904883--904915 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
904873 TTTTCCCACT
*
904883 TTTTT TTTTA -TTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
904916 CTCTTTTATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTTA
Found at i:905901 original size:187 final size:186
Alignment explanation
Indices: 905558--905933 Score: 711
Period size: 187 Copynumber: 2.0 Consensus size: 186
905548 AATTGAATTT
905558 ATCCTGAATTCTCCTAAAGACTTATACACTATTCATCTTTACTTTGTAACCTAAACATTTAACTA
1 ATCCTGAATTCTCCTAAAGACTTATACACTATTCATCTTTACTTTGTAACCTAAACATTTAACTA
905623 TCACTTTCTATTCTGAAATCAATTTTAAATCCAACATTCTCAACTTCTCCCTTGCATTCGGATGT
66 TCACTTTCTATTCTGAAATCAATTTTAAATCCAACATTCTCAACTTCTCCCTTGCATTCGGATGT
905688 TCCTGAACTTCATATCCTATTTCACTTTGAGAGCCCTCGTAGTCTGACATCTATTA
131 TCCTGAACTTCATATCCTATTTCACTTTGAGAGCCCTCGTAGTCTGACATCTATTA
905744 ATCCTGAATTCTCCTAAAGACTTATACACTATTCATCTTTACTTTTGTAACCTAAAACATTTAAC
1 ATCCTGAATTCTCCTAAAGACTTATACACTATTCATCTTTAC-TTTGTAACCT-AAACATTTAAC
905809 TATCACTTTCTATTCTGAAATCAATTTTAAATCCAACATTTCTCAACTTC-CCCTT-CATTCGGA
64 TATCACTTTCTATTCTGAAATCAATTTTAAATCCAACA-TTCTCAACTTCTCCCTTGCATTCGGA
905872 TGTTCCTGAACTTCATATCCTATTTCACTTTGAGAGCCCTCGTAGTCTGACATCTATTA
128 TGTTCCTGAACTTCATATCCTATTTCACTTTGAGAGCCCTCGTAGTCTGACATCTATTA
905931 ATC
1 ATC
905934 TAATCACTTA
Statistics
Matches: 187, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
186 42 0.22
187 80 0.43
188 54 0.29
189 11 0.06
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (186 bp):
ATCCTGAATTCTCCTAAAGACTTATACACTATTCATCTTTACTTTGTAACCTAAACATTTAACTA
TCACTTTCTATTCTGAAATCAATTTTAAATCCAACATTCTCAACTTCTCCCTTGCATTCGGATGT
TCCTGAACTTCATATCCTATTTCACTTTGAGAGCCCTCGTAGTCTGACATCTATTA
Found at i:906761 original size:24 final size:23
Alignment explanation
Indices: 906742--906799 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
906732 CACCGAAGTG
*
906742 CCACGTAGATTTTGTCCCGAAAGA
1 CCACGTAGAATTTGTCCCG-AAGA
*
906766 CCATGTAGAATTTGTCCCGAAGGA
1 CCACGTAGAATTTGTCCCGAA-GA
*
906790 CCGCGTAGAA
1 CCACGTAGAA
906800 CCCTCGACTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.22
Consensus pattern (23 bp):
CCACGTAGAATTTGTCCCGAAGA
Found at i:906936 original size:30 final size:30
Alignment explanation
Indices: 906900--906962 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
906890 AAGTGTCTTT
*
906900 TATTCACGTAGAACACATTTACATATATCA
1 TATTCACATAGAACACATTTACATATATCA
* * *
906930 TATTCACATAGAACATATTTACTTATTTCA
1 TATTCACATAGAACACATTTACATATATCA
906960 TAT
1 TAT
906963 ACTCATACAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (30 bp):
TATTCACATAGAACACATTTACATATATCA
Found at i:906946 original size:15 final size:15
Alignment explanation
Indices: 906900--906948 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
906890 AAGTGTCTTT
*
906900 TATTCACGTAGAACA
1 TATTCACATAGAACA
* * * *
906915 CATTTACATATATCA
1 TATTCACATAGAACA
906930 TATTCACATAGAACA
1 TATTCACATAGAACA
906945 TATT
1 TATT
906949 TACTTATTTC
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (15 bp):
TATTCACATAGAACA
Found at i:907516 original size:22 final size:22
Alignment explanation
Indices: 907481--907522 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
907471 AGTATCGGTA
*
907481 CTCTTCTACTGTACTGATACTT
1 CTCTTCTACTGTACCGATACTT
907503 CTCTTCTA-TCGTACCGATAC
1 CTCTTCTACT-GTACCGATAC
907523 CCACTTCGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.19, C:0.31, G:0.10, T:0.40
Consensus pattern (22 bp):
CTCTTCTACTGTACCGATACTT
Found at i:915633 original size:6 final size:6
Alignment explanation
Indices: 915622--917805 Score: 3426
Period size: 6 Copynumber: 383.5 Consensus size: 6
915612 TTATTGACTA
915622 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
915670 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
915718 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
915766 AAACAT AAACAT AAACAT AAACAT AAACAT -AACAT -AACAT -AACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
915811 -AACAT -AACAT -AAC-- AAACA- AAACAT AAAC-- AAACAT AAACA-
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
915850 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAAC-- AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
915896 -AACAT AAACAT -AACAT AAACAT AAACAT AAACAT AAACAT -AACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
915941 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT -AACAT -AACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
915987 AAACAT AAACAT -AACAT AAACAT AAACAT AAACAT AAACAT -AA-AT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916032 AAACAT AAACAT AAAC-- AAACAT AAACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916078 -AACAT AAACAT AAACAT AAACAT -AACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916124 -AACAT AAACAT -AACAT AAACAT AAACAT -AAC-T AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916168 AAACA- AAACAT AAACAT -AACAT AAACAT AAACAT AAACAT -AACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916213 AAACAT AAACAT AAACAT -AACAT AAACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916260 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916308 AAACAT AAACAT AAAC-- AAACAT AAACAT AAACAT -AACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916353 AAACAT AAACAT AAAC-- -AACAT AAACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916398 AAACAT AAACAT -AACAT AAACAT AAACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916445 AAACAT AAACAT AAACA- AAACAT AAACAT AAACAT -AAC-- AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
*
916489 AAACAT AAACAT AAACCT AAACAT AAACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916537 AAACAT AAACAT AAACAT AAACAT -AACAT AAACAT -AA-AT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916582 AAAC-- AAACAT AAACAT AAACAT AAACAT AAACAT -AACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916627 AAACAT -AACAT AAAC-T AAACAT -AACAT AAACAT -AACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916671 AAACAT AAACAT AAACAT AAACAT AAAC-- AAACAT AAACAT AAACA-
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916716 AAACAT AAACAT AACAACAT AAACAT AAACAT AAACAT -AACAT AAACAT
1 AAACAT AAACAT -A-AACAT AAACAT AAACAT AAACAT AAACAT AAACAT
*
916765 AAACAT AAACAT AAACAT AAACAT AAACAAC ATAACAT AAAC-- AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAAC-AT A-AACAT AAACAT AAACAT
916813 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916861 AAACAT AAACAT AAA-AT AAACAT AAACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916908 -AAC-- AAACAT AAACAT AAACAT --ACAT -AACAT AAA-AT -AACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916948 AAACAT AAACAT AAACAT AAACAT -AACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
916995 AAACAT AAACAT AAACAT -AACAT AAAC-T AAACAT -AACAT -AACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
917039 AAACAT AAACAT AAACAT AAACA- AAACAT AAACAT AAACAT AAAC--
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
917084 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT --A-AT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
917129 AAACAT --ACAT AAACAT AAACAT AAACAT AAACAT -AACAT -AACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
917173 -AACAT -AACAT AAACAT AAACAT AAACAT -AACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
917218 -AACAT AAACAT AAACAT -AACAT AAACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
917264 -AACAT AAACAT -AACAT AAACAT AAACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
*
917310 AAACAT AAACAT -AACAA ACAACAT -AACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT A-AACAT AAACAT AAACAT AAACAT AAACAT
917357 AAACAT -AACAT AAACAT AAACAT -AACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
917403 AAAC-T AAACAT AAACAT -AACAT AAACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
917449 -AACAT AAACAT AAAC-- AAACAT AAACAT AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
917494 -AACAT AAACAT -AACAT -AACAT AAACAT AAAC-- AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
917537 AAACAT AAACAT -AACAT AAACAT -AAC-- AAACAT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
917581 AAACAT AAACAT AAACAT AAA-ACT AAACAT AAACAT -AACAT AAACAT
1 AAACAT AAACAT AAACAT AAACA-T AAACAT AAACAT AAACAT AAACAT
917628 -AACAT AAACAT AAACAT AAACA- AAACAT -AA-AT AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
917672 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT -AAC-- AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
917717 AAACAT AAACAT AAACAT -AACAT AAACAT AAACAT -AACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT
917763 AAACAT AAAC-- AAACAT AAACAT AAACAT AAACAT AAACAT AAA
1 AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAACAT AAA
917806 TAGAGAAAAT
Statistics
Matches: 2056, Mismatches: 6, Indels: 232
0.90 0.00 0.10
Matches are distributed among these distances:
3 5 0.00
4 77 0.04
5 362 0.18
6 1593 0.77
7 11 0.01
8 8 0.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.16
Consensus pattern (6 bp):
AAACAT
Found at i:918026 original size:19 final size:19
Alignment explanation
Indices: 918002--918042 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
917992 AATTCGCAAC
918002 ACTGAATTTCAAATTCACA
1 ACTGAATTTCAAATTCACA
*
918021 ACTGAATTTCAAATTCGCA
1 ACTGAATTTCAAATTCACA
918040 ACT
1 ACT
918043 CGAACTCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (19 bp):
ACTGAATTTCAAATTCACA
Found at i:918132 original size:20 final size:19
Alignment explanation
Indices: 918110--918222 Score: 93
Period size: 20 Copynumber: 5.7 Consensus size: 19
918100 AACAAAAAAG
918110 TCAAATTCGCAACGCGTTT
1 TCAAATTCGCAACGCGTTT
* *
918129 GTCAAATTCGCAACACTGAATT
1 -TCAAATTCGCAACGC-G-TTT
* **
918151 TCAAATTCCCAACTG-AATT
1 TCAAATTCGCAAC-GCGTTT
*
918170 TCAAATTCGCAACTCGATTT
1 TCAAATTCGCAACGCG-TTT
*
918190 TCAAATTCGCAACTCGGTTT
1 TCAAATTCGCAACGC-GTTT
*
918210 TCGAATTCGCAAC
1 TCAAATTCGCAAC
918223 ACAAATTTAA
Statistics
Matches: 77, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
19 15 0.19
20 46 0.60
21 14 0.18
22 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (19 bp):
TCAAATTCGCAACGCGTTT
Found at i:918143 original size:141 final size:141
Alignment explanation
Indices: 917889--918186 Score: 533
Period size: 141 Copynumber: 2.1 Consensus size: 141
917879 AAATAACCAA
* ** *
917889 CAAATTCGCAACGCGAACTCCAATTTCGCAACTTAGTTTCCAAATTTGTAACGTGAATTTAGAAA
1 CAAATTCGCAACTCGAACTCCAATTTCGCAACCCAGTTTCCAAATTTGTAACGCGAATTTAGAAA
917954 ATCGCAACAAAAAAGTCAAATTCGCAACGCGTTTGCCAAATTCGCAACACTGAATTTCAAATTCA
66 ATCGCAACAAAAAAGTCAAATTCGCAACGCGTTTGCCAAATTCGCAACACTGAATTTCAAATTCA
918019 CAACTGAATTT
131 CAACTGAATTT
*
918030 CAAATTCGCAACTCGAACTCTAATTTCGCAACCCAGTTTCCAAATTTGTAACGCGAATTTAGAAA
1 CAAATTCGCAACTCGAACTCCAATTTCGCAACCCAGTTTCCAAATTTGTAACGCGAATTTAGAAA
* *
918095 ATCGCAACAAAAAAGTCAAATTCGCAACGCGTTTGTCAAATTCGCAACACTGAATTTCAAATTCC
66 ATCGCAACAAAAAAGTCAAATTCGCAACGCGTTTGCCAAATTCGCAACACTGAATTTCAAATTCA
918160 CAACTGAATTT
131 CAACTGAATTT
918171 CAAATTCGCAACTCGA
1 CAAATTCGCAACTCGA
918187 TTTTCAAATT
Statistics
Matches: 150, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
141 150 1.00
ACGTcount: A:0.37, C:0.24, G:0.12, T:0.27
Consensus pattern (141 bp):
CAAATTCGCAACTCGAACTCCAATTTCGCAACCCAGTTTCCAAATTTGTAACGCGAATTTAGAAA
ATCGCAACAAAAAAGTCAAATTCGCAACGCGTTTGCCAAATTCGCAACACTGAATTTCAAATTCA
CAACTGAATTT
Found at i:918167 original size:19 final size:19
Alignment explanation
Indices: 918130--918222 Score: 105
Period size: 20 Copynumber: 4.7 Consensus size: 19
918120 AACGCGTTTG
918130 TCAAATTCGCAACACTGAATT
1 TCAAATTCGC-A-ACTGAATT
*
918151 TCAAATTCCCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
918170 TCAAATTCGCAACTCGATTT
1 TCAAATTCGCAACT-GAATT
**
918190 TCAAATTCGCAACTCGGTTT
1 TCAAATTCGCAACT-GAATT
*
918210 TCGAATTCGCAAC
1 TCAAATTCGCAAC
918223 ACAAATTTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
19 21 0.32
20 36 0.55
21 9 0.14
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.31
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:918174 original size:40 final size:40
Alignment explanation
Indices: 917969--918230 Score: 133
Period size: 40 Copynumber: 6.5 Consensus size: 40
917959 AACAAAAAAG
* * *
917969 TCAAATTCGCAACGCG--TTTGCCAAATTCGCAACACTGAATT
1 TCAAATTCGCAACACGAATTT--CAAATTCCCAACTC-GAATT
* * * *
918010 TCAAATTCACAAC-TGAATTTCAAATTCGCAACTCGAA-C
1 TCAAATTCGCAACACGAATTTCAAATTCCCAACTCGAATT
* * * *** *
918048 TCTAATTTCGCAAC-CCAGTTTCCAAATTTGTAACGCGAATT
1 TC-AAATTCGCAACACGAATTT-CAAATTCCCAACTCGAATT
* * ** ** * * *
918089 TAGAAAATCGCAACAAAAAAGTCAAATTCGCAACGCG-TTT
1 T-CAAATTCGCAACACGAATTTCAAATTCCCAACTCGAATT
918129 GTCAAATTCGCAACACTGAATTTCAAATTCCCAACT-GAATT
1 -TCAAATTCGCAACAC-GAATTTCAAATTCCCAACTCGAATT
* * * **
918170 TCAAATTCGCAACTCGATTTTCAAATTCGCAACTCGGTTT
1 TCAAATTCGCAACACGAATTTCAAATTCCCAACTCGAATT
* *
918210 TCGAATTCGCAACACAAATTT
1 TCAAATTCGCAACACGAATTT
918231 AATTTCGCAA
Statistics
Matches: 168, Mismatches: 42, Indels: 23
0.72 0.18 0.10
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 76 0.45
41 52 0.31
42 5 0.03
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (40 bp):
TCAAATTCGCAACACGAATTTCAAATTCCCAACTCGAATT
Found at i:918230 original size:141 final size:141
Alignment explanation
Indices: 917889--918231 Score: 463
Period size: 141 Copynumber: 2.4 Consensus size: 141
917879 AAATAACCAA
* * * ** * * ***
917889 CAAATTCGCAACGCGAACTCCAATTTCGCAACTTAGTTTCCAAATTTGTAACGTGAATTTAGAAA
1 CAAATTCGCAACTCGAACTCTAAATTCGCAACCCAGTTTCCAAATTCGCAACACAAATTTAGAAA
917954 ATCGCAACAAAAAAGTCAAATTCGCAACGCGTTTGCCAAATTCGCAACACTGAATTTCAAATTCA
66 ATCGCAACAAAAAAGTCAAATTCGCAACGCGTTTGCCAAATTCGCAACACTGAATTTCAAATTCA
918019 CAACTGAATTT
131 CAACTGAATTT
* * * * *
918030 CAAATTCGCAACTCGAACTCTAATTTCGCAACCCAGTTTCCAAATTTGTAACGCGAATTTAGAAA
1 CAAATTCGCAACTCGAACTCTAAATTCGCAACCCAGTTTCCAAATTCGCAACACAAATTTAGAAA
* *
918095 ATCGCAACAAAAAAGTCAAATTCGCAACGCGTTTGTCAAATTCGCAACACTGAATTTCAAATTCC
66 ATCGCAACAAAAAAGTCAAATTCGCAACGCGTTTGCCAAATTCGCAACACTGAATTTCAAATTCA
918160 CAACTGAATTT
131 CAACTGAATTT
* * * * * *
918171 CAAATTCGCAACTCG-ATTTTCAAATTCGCAACTCGGTTTTCGAATTCGCAACACAAATTTA
1 CAAATTCGCAACTCGAACTCT-AAATTCGCAACCCAGTTTCCAAATTCGCAACACAAATTTA
918232 ATTTCGCAAC
Statistics
Matches: 183, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
140 3 0.02
141 180 0.98
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (141 bp):
CAAATTCGCAACTCGAACTCTAAATTCGCAACCCAGTTTCCAAATTCGCAACACAAATTTAGAAA
ATCGCAACAAAAAAGTCAAATTCGCAACGCGTTTGCCAAATTCGCAACACTGAATTTCAAATTCA
CAACTGAATTT
Found at i:919209 original size:24 final size:24
Alignment explanation
Indices: 919177--919230 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
919167 GTATTCGAAA
*
919177 TTTGATCTTGGTCCATACCCAGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
919201 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
919225 TTTGAT
1 TTTGAT
919231 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:921017 original size:12 final size:12
Alignment explanation
Indices: 921000--921040 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
920990 AGCAAAAGGA
*
921000 AATCAAAATCGC
1 AATCAAAATCAC
*
921012 AATCAAAATCAA
1 AATCAAAATCAC
*
921024 AATCAAAATCCC
1 AATCAAAATCAC
921036 AATCA
1 AATCA
921041 CAACCGGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.56, C:0.24, G:0.02, T:0.17
Consensus pattern (12 bp):
AATCAAAATCAC
Found at i:921021 original size:6 final size:6
Alignment explanation
Indices: 920999--921033 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
920989 AAGCAAAAGG
* *
920999 AAATCA AAATCG CAATCA AAATCA AAATCA AAATC
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATC
921034 CCAATCACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:921468 original size:37 final size:36
Alignment explanation
Indices: 921418--921521 Score: 109
Period size: 37 Copynumber: 3.1 Consensus size: 36
921408 CAAATCAACT
921418 TTTACAAATCAATTAATCAAGCAAAAAATAATTCTTA
1 TTTACAAATCAATTAA-CAAGCAAAAAATAATTCTTA
* *
921455 TTTACAGATCAATT-A-AA-C--AAATTAA--C-T-
1 TTTACAAATCAATTAACAAGCAAAAAATAATTCTTA
921482 TTTACAAATCAATTAAACAAGCAAAAAATAATTCTTA
1 TTTACAAATCAATT-AACAAGCAAAAAATAATTCTTA
921519 TTT
1 TTT
921522 CCTCATCAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 20
0.69 0.05 0.26
Matches are distributed among these distances:
27 13 0.25
28 1 0.02
29 2 0.04
30 2 0.04
31 7 0.13
33 7 0.13
34 2 0.04
35 1 0.02
36 2 0.04
37 16 0.30
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.34
Consensus pattern (36 bp):
TTTACAAATCAATTAACAAGCAAAAAATAATTCTTA
Found at i:921486 original size:64 final size:64
Alignment explanation
Indices: 921406--921563 Score: 253
Period size: 64 Copynumber: 2.5 Consensus size: 64
921396 TTGAATAAAC
* *
921406 AACAAATCAACTTTTACAAATCAATTAATCAAGCAAAAAATAATTCTTATTTACAGATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
* * *
921470 AACAAATTAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTCCTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
*
921534 AACAAATCAACTTTTACAAATGAATATAAA
1 AACAAATCAACTTTTACAAATCAAT-TAAA
921564 ATTCAATTAA
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
64 82 0.95
65 4 0.05
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.31
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAATAATTCTTATTTACACATCAATTA
Found at i:922962 original size:21 final size:21
Alignment explanation
Indices: 922936--923054 Score: 125
Period size: 21 Copynumber: 5.7 Consensus size: 21
922926 GTGAATCGGG
* * * *
922936 CTCTTGAACGGTGGGAGAGAC
1 CTCTTGAACGATGAGAGGGGC
* *
922957 CTCTTGAACGATGACAGGGGG
1 CTCTTGAACGATGAGAGGGGC
*
922978 CTCTTGAAC-AGTGGGAGGGGC
1 CTCTTGAACGA-TGAGAGGGGC
*
922999 CTCTTGAACGATGAGAGGGCC
1 CTCTTGAACGATGAGAGGGGC
*
923020 CTCTTGAACGAT-AGGAGGCGC
1 CTCTTGAACGATGA-GAGGGGC
923041 CTCTTGAACGATGA
1 CTCTTGAACGATGA
923055 CATGTGCACG
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
20 2 0.02
21 77 0.95
22 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.35, T:0.20
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGC
Found at i:922992 original size:42 final size:40
Alignment explanation
Indices: 922933--923056 Score: 149
Period size: 42 Copynumber: 3.0 Consensus size: 40
922923 CATGTGAATC
*
922933 GGGCTCTTGAACGGTGGGAGAGACCTCTTGAACGATGACAGG
1 GGGCTCTTGAAC-GTGGGAG-GGCCTCTTGAACGATGACAGG
*
922975 GGGCTCTTGAACAGTGGGAGGGGCCTCTTGAACGATGAGAGG
1 GGGCTCTTGAAC-GTGGGA-GGGCCTCTTGAACGATGACAGG
** *
923017 GCCCTCTTGAACGATAGGAGGCGCCTCTTGAACGATGACA
1 GGGCTCTTGAACG-TGGGAGG-GCCTCTTGAACGATGACA
923057 TGTGCACGAC
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 3 0.04
42 68 0.94
43 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.36, T:0.19
Consensus pattern (40 bp):
GGGCTCTTGAACGTGGGAGGGCCTCTTGAACGATGACAGG
Found at i:923110 original size:4 final size:4
Alignment explanation
Indices: 923089--923126 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
923079 AAGCCACTAA
* *
923089 AAAT AAAT TAAT ACAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
923127 TGCCGAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:925077 original size:20 final size:20
Alignment explanation
Indices: 925054--925135 Score: 137
Period size: 20 Copynumber: 4.1 Consensus size: 20
925044 AAACTTAAAT
925054 TCGCAATGCGAAAATGAAAA
1 TCGCAATGCGAAAATGAAAA
*
925074 TCGCAATTCGAAAATGAAAA
1 TCGCAATGCGAAAATGAAAA
925094 TCGCAATGCGAAAATGAAAA
1 TCGCAATGCGAAAATGAAAA
* *
925114 TCGCAACGCGAACATGAAAA
1 TCGCAATGCGAAAATGAAAA
925134 TC
1 TC
925136 ACAACACGAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.48, C:0.18, G:0.18, T:0.16
Consensus pattern (20 bp):
TCGCAATGCGAAAATGAAAA
Found at i:925140 original size:20 final size:20
Alignment explanation
Indices: 925054--925146 Score: 123
Period size: 20 Copynumber: 4.7 Consensus size: 20
925044 AAACTTAAAT
*
925054 TCGCAATGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
**
925074 TCGCAATTCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
925094 TCGCAATGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
*
925114 TCGCAACGCGAACATGAAAA
1 TCGCAACGCGAAAATGAAAA
* *
925134 TCACAACACGAAA
1 TCGCAACGCGAAA
925147 CTAAATTCGC
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.49, C:0.19, G:0.17, T:0.14
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:925420 original size:20 final size:20
Alignment explanation
Indices: 925384--925429 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
925374 TATCATCAAT
* *
925384 ATAAGAAAAATATAATAATA
1 ATAAGAAAAATAAAATAAAA
925404 ATAA-AAAAATAAAAATAAAA
1 ATAAGAAAAAT-AAAATAAAA
925424 ATAAGA
1 ATAAGA
925430 GATTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 6 0.27
20 15 0.68
21 1 0.05
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (20 bp):
ATAAGAAAAATAAAATAAAA
Found at i:925544 original size:22 final size:22
Alignment explanation
Indices: 925517--925563 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
925507 GAGATAGACA
*
925517 GATTTCGTCGGAGATGGGGACG
1 GATTTCGTCGAAGATGGGGACG
925539 GATTTCGTCGAAGATGGGGACG
1 GATTTCGTCGAAGATGGGGACG
925561 GAT
1 GAT
925564 GTTGCCGGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (22 bp):
GATTTCGTCGAAGATGGGGACG
Found at i:925711 original size:20 final size:20
Alignment explanation
Indices: 925686--925744 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
925676 ATAAACGTGC
925686 TTTGACTTCTGTGTTGCGAA
1 TTTGACTTCTGTGTTGCGAA
925706 TTTGACTTCTGTGTTGCGAA
1 TTTGACTTCTGTGTTGCGAA
*
925726 TTTGACTTCTTTGTTGCGA
1 TTTGACTTCTGTGTTGCGA
925745 TTTTCTAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.14, C:0.15, G:0.24, T:0.47
Consensus pattern (20 bp):
TTTGACTTCTGTGTTGCGAA
Found at i:925776 original size:20 final size:20
Alignment explanation
Indices: 925738--925887 Score: 147
Period size: 20 Copynumber: 7.3 Consensus size: 20
925728 TGACTTCTTT
*
925738 GTTGCGATTTTCTAAATTCGC
1 GTTGCGATTTAC-AAATTCGC
*
925759 GTTGCGATTTACAAATTCAC
1 GTTGCGATTTACAAATTCGC
925779 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
*
925799 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACAAATTCGC
** *
925819 GTTGCGAATTTGGAAAATCGC
1 GTTGCG-ATTTACAAATTCGC
** * *
925840 AATGCGAATTTAGAAAATCGC
1 GTTGCG-ATTTACAAATTCGC
** * *
925861 AATGCGATTCACATATTCGC
1 GTTGCGATTTACAAATTCGC
925881 GTTGCGA
1 GTTGCGA
925888 ATTTGGAAAC
Statistics
Matches: 111, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
20 66 0.59
21 45 0.41
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:925904 original size:20 final size:20
Alignment explanation
Indices: 925815--925932 Score: 78
Period size: 20 Copynumber: 5.8 Consensus size: 20
925805 ATTTACATAT
925815 TCGCGTTGCGAATTTGGAAAA
1 TCGCGTTGCGAATTTGG-AAA
** *
925836 TCGCAATGCGAATTTAGAAAA
1 TCGCGTTGCGAATTT-GGAAA
** *** *
925857 TCGCAATGCG-ATTCACATAT
1 TCGCGTTGCGAATTTGGA-AA
925877 TCGCGTTGCGAATTTGGAAA
1 TCGCGTTGCGAATTTGGAAA
* * *
925897 -CTGTGTTGCGAAATTGGAGA
1 TC-GCGTTGCGAATTTGGAAA
925917 TCGCGTTGCGAATTTG
1 TCGCGTTGCGAATTTG
925933 TTGGTCATTT
Statistics
Matches: 74, Mismatches: 18, Indels: 11
0.72 0.17 0.11
Matches are distributed among these distances:
19 2 0.03
20 40 0.54
21 31 0.42
22 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGGAAA
Found at i:926981 original size:3 final size:3
Alignment explanation
Indices: 926958--927033 Score: 70
Period size: 3 Copynumber: 26.3 Consensus size: 3
926948 CATTTTGTTT
* ** *
926958 TTA TTA CTA TTA TTA AAA TTA TTA TTA TTA TTA ATA -TA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
*
927003 TTA -TA TTA -TA TTA TTA TTA -AA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
927034 AAACATGCCA
Statistics
Matches: 59, Mismatches: 9, Indels: 10
0.76 0.12 0.13
Matches are distributed among these distances:
2 7 0.12
3 49 0.83
4 3 0.05
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:926981 original size:18 final size:17
Alignment explanation
Indices: 926958--927033 Score: 88
Period size: 16 Copynumber: 4.6 Consensus size: 17
926948 CATTTTGTTT
*
926958 TTATTACTATTATTAAAA
1 TTATTATTATTATT-AAA
926976 TTATTATTATTATT-AA
1 TTATTATTATTATTAAA
*
926992 -TA-TATATATTATTATA
1 TTATTAT-TATTATTAAA
927008 TTA-TATTATTATTAAA
1 TTATTATTATTATTAAA
927024 TTATTATTAT
1 TTATTATTAT
927034 AAACATGCCA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
14 3 0.06
15 9 0.18
16 15 0.29
17 11 0.22
18 13 0.25
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATTATTATTATTAAA
Found at i:938369 original size:22 final size:22
Alignment explanation
Indices: 938344--938420 Score: 127
Period size: 22 Copynumber: 3.5 Consensus size: 22
938334 ATCTACACTC
* *
938344 TTCAAAGATGATATATTATCTT
1 TTCAAAGATGATAGATTCTCTT
938366 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
938388 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
938410 TTCAAAGATGA
1 TTCAAAGATGA
938421 AAGCTTTATT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:939232 original size:165 final size:165
Alignment explanation
Indices: 938919--939245 Score: 530
Period size: 165 Copynumber: 2.0 Consensus size: 165
938909 CACAAGAATG
*
938919 AGCATTATCTTGAGATTGGGTCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
1 AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
** *
938984 CGATTTCCATAGTTTCACATTTTATCTTTTCAAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
66 CGATTTCCATAGTTTCACATTCAATCTATTCAAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
* * * *
939049 TTCTTAGTTTTTTTACTTAGTAAACTATTTCCAAC
131 TCCATAGTTATCTTACTTAGTAAACTATTTCCAAC
*
939084 AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTTGAAAAATAATGAGAAAA
1 AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
* * *
939149 CGATTTTCATAGTTTCTCATTCAATCTATTCTGAAAATGAAATTGTTGAAAAGTAAGAAAACGAT
66 CGATTTCCATAGTTTCACATTCAATCTATTC-AAAAATGAAATTGTTGAAAAGTAAGAAAACGAT
939214 TTCCATAG-TATCTTACTTAGTAAACTATTTCC
130 TTCCATAGTTATCTTACTTAGTAAACTATTTCC
939246 CACATCCATA
Statistics
Matches: 149, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
165 111 0.74
166 38 0.26
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.36
Consensus pattern (165 bp):
AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
CGATTTCCATAGTTTCACATTCAATCTATTCAAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
TCCATAGTTATCTTACTTAGTAAACTATTTCCAAC
Found at i:939412 original size:72 final size:72
Alignment explanation
Indices: 939288--940060 Score: 1365
Period size: 72 Copynumber: 10.8 Consensus size: 72
939278 TCAAATAAAA
939288 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
939353 ACAGAAC
66 ACAGAAC
* * *
939360 TTTATCTCACTTGATATTGTTTTTCTTAAAACAAATTTGTCTCTCTTAAGACAGTTTCACTCGAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
939425 ACAGAAC
66 ACAGAAC
* *
939432 --T-T-TCACTTGAGATTGTTTTTATTAAAACAAATTTGTCTCGCTTAAGACAGTTTCACTCGAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
939493 ACAGAAC
66 ACAGAAC
* *
939500 TTTATCTCACTTGAGATTGTTTTGCTTAAAACAAATTTGTCTCGCTTAAGACAGTTTCACTCGAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
939565 ACAGAAC
66 ACAGAAC
*
939572 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAATTTTGTCTCGCTTGAGACAGTTTCACTCGAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
939637 ACAGAAC
66 ACAGAAC
939644 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
939709 ACAGAAC
66 ACAGAAC
* *
939716 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCCCTTAAGACAGTTTCACTCGAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
939781 ACAGAAC
66 ACAGAAC
*
939788 TTTATCTCACTTGAGATTGTTTTTGTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
939853 ACAGAAC
66 ACAGAAC
*
939860 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTAAGACAGTTTCACTCGAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
939925 ACAGAAC
66 ACAGAAC
* *
939932 TTTATCTCACTTGATATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGATAGTTTCACTCGAA
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
*
939997 ACACAAC
66 ACAGAAC
*
940004 TTTATCTCACTTGAGATTGTTTTTCTTAAAAAAAATTTTGTCTCGCTTGAGACAGTT
1 TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA-TTTGTCTCGCTTGAGACAGTT
940061 ATTTCGAGTT
Statistics
Matches: 670, Mismatches: 26, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
68 63 0.09
69 1 0.00
70 2 0.00
71 1 0.00
72 583 0.87
73 20 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.39
Consensus pattern (72 bp):
TTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTCGAA
ACAGAAC
Found at i:940495 original size:3 final size:3
Alignment explanation
Indices: 940487--940549 Score: 71
Period size: 3 Copynumber: 22.0 Consensus size: 3
940477 TTCCATTTTG
*
940487 TTA TTA TTA TTA TTA TTA ATA TTA -TA TATA TTA TTA -TA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
*
940530 TTA TTA TTA -AA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
940550 CAAACAGGCC
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
2 7 0.14
3 41 0.80
4 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:940523 original size:24 final size:25
Alignment explanation
Indices: 940488--940549 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 25
940478 TCCATTTTGT
*
940488 TATTATTATTATTATTAATATTATATA
1 TATTATTATTATTA-TATTATTAT-TA
940515 TATTATTA-TATTATATTATTATTA
1 TATTATTATTATTATATTATTATTA
*
940539 AATTATTATTA
1 TATTATTATTA
940550 CAAACAGGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 9 0.28
25 10 0.31
26 5 0.16
27 8 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTATTATTATTATATTATTATTA
Found at i:957279 original size:16 final size:15
Alignment explanation
Indices: 957249--957284 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
957239 CAAATACACC
*
957249 AAATTAGTAATTAGT
1 AAATTAATAATTAGT
957264 AAATTAATAGATTAGT
1 AAATTAATA-ATTAGT
957280 AAATT
1 AAATT
957285 GGTGGTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (15 bp):
AAATTAATAATTAGT
Found at i:964557 original size:21 final size:21
Alignment explanation
Indices: 964531--964576 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
964521 CAATTAAGTA
*
964531 ATATCTCGAAATCGAATCTTT
1 ATATCTCGAAATCGAATATTT
*
964552 ATATCTCGAATTCGAATATTT
1 ATATCTCGAAATCGAATATTT
964573 ATAT
1 ATAT
964577 ATATGTAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (21 bp):
ATATCTCGAAATCGAATATTT
Found at i:969550 original size:2 final size:2
Alignment explanation
Indices: 969543--969570 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
969533 TTTAAGGTGC
969543 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
969571 TAACAACACA
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:969949 original size:20 final size:20
Alignment explanation
Indices: 969924--969974 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
969914 AAGCATGGAA
*
969924 TATCGATACCATGTTA-AGGG
1 TATCGATACCA-ATTATAGGG
*
969944 TATCGATACTCAATTATATGG
1 TATCGATAC-CAATTATAGGG
969965 TATCGATACC
1 TATCGATACC
969975 CTTGGTCAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (20 bp):
TATCGATACCAATTATAGGG
Found at i:974140 original size:19 final size:19
Alignment explanation
Indices: 974083--974140 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
974073 TAATAATGTG
* *
974083 CTTTTGTCTGTTAGGTTAA
1 CTTTTGTATGTTAGGTTTA
*
974102 CTTTTTGTA--TT--GTATA
1 C-TTTTGTATGTTAGGTTTA
974118 CTTTTGTATGTTAGGTTTA
1 CTTTTGTATGTTAGGTTTA
974137 CTTT
1 CTTT
974141 ACTGATTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
15 7 0.23
16 4 0.13
17 2 0.07
18 2 0.07
19 9 0.30
20 6 0.20
ACGTcount: A:0.16, C:0.09, G:0.17, T:0.59
Consensus pattern (19 bp):
CTTTTGTATGTTAGGTTTA
Found at i:974365 original size:16 final size:16
Alignment explanation
Indices: 974344--974381 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
974334 TTTGTATTAT
974344 AATATGCGTTTATAAA
1 AATATGCGTTTATAAA
974360 AATATGCGTTTATAAA
1 AATATGCGTTTATAAA
974376 AATATG
1 AATATG
974382 TATTAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.13, T:0.37
Consensus pattern (16 bp):
AATATGCGTTTATAAA
Found at i:974456 original size:15 final size:16
Alignment explanation
Indices: 974438--974476 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 16
974428 TAGATTGATA
974438 TGATTTAGGGTTTA-T
1 TGATTTAGGGTTTACT
974453 TGATTTAGGGTTTACT
1 TGATTTAGGGTTTACT
974469 TGTATTTA
1 TG-ATTTA
974477 AATATTATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 14 0.64
16 3 0.14
17 5 0.23
ACGTcount: A:0.21, C:0.03, G:0.23, T:0.54
Consensus pattern (16 bp):
TGATTTAGGGTTTACT
Found at i:975486 original size:93 final size:96
Alignment explanation
Indices: 975323--975549 Score: 277
Period size: 93 Copynumber: 2.4 Consensus size: 96
975313 GATTCAATCA
* * * * * *
975323 GTATCGATACC-GAGGA-GGTAGTATCGATACCATGATAAGGGGTATCGATACCAAGCAATATCG
1 GTATCGATACCATAGTATGGTAGTATCAATACCATGGTAAGGGGTATCAATACCAAGCAACATCG
*
975386 AATCTAATTTTGGTATCGATACCGG-AAGGG
66 AACCTAATTTTGGTATCGATACCGGAAAGGG
* *
975416 GTATC-ATACCATAGTATGGTAGCATCAATACCATGGTAA-GGGTATCAATACC-AGATAACATC
1 GTATCGATACCATAGTATGGTAGTATCAATACCATGGTAAGGGGTATCAATACCAAG-CAACATC
975478 GAACCTAATTTTGGTATCGATACCGGATAAGGG
65 GAACCTAATTTTGGTATCGATACCGGA-AAGGG
* * * *
975511 GTATCGTTACCATAGTATAGAAGTATCAATACCAGGGTA
1 GTATCGATACCATAGTATGGTAGTATCAATACCATGGTA
975550 GTAGTATCGT
Statistics
Matches: 114, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
92 7 0.06
93 50 0.44
94 19 0.17
95 10 0.09
96 28 0.25
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (96 bp):
GTATCGATACCATAGTATGGTAGTATCAATACCATGGTAAGGGGTATCAATACCAAGCAACATCG
AACCTAATTTTGGTATCGATACCGGAAAGGG
Found at i:975957 original size:55 final size:55
Alignment explanation
Indices: 975873--976249 Score: 603
Period size: 55 Copynumber: 6.9 Consensus size: 55
975863 TGTGTACTAT
975873 AGGCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTAC
1 AGGCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTAC
** *
975928 AGGCACTTCGTGTGCATATTCATAGAATTCATCATGAGTTAATGAATCACCGTAC
1 AGGCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTAC
975983 AGGCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTAC
1 AGGCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTAC
* *
976038 AGGCACTTCGTGTGCATATTCATGGAATTCATCATGAGTTGATGAATCACCTTAC
1 AGGCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTAC
* * *
976093 AAGCACTTCGTGTGCATATTCACGGAATTTATCATGATTTGATGAATCACCGTAC
1 AGGCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTAC
* *
976148 AGGCACTTCGTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCACCGTAT
1 AGGCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTAC
** * * *
976203 AAACACCTT-GTGTGCAAATCCACGGATTTCATCATGAGTTGATGAAT
1 AGGCA-CTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAAT
976250 TTTTGTATGG
Statistics
Matches: 297, Mismatches: 24, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
55 294 0.99
56 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (55 bp):
AGGCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTAC
Found at i:982584 original size:94 final size:95
Alignment explanation
Indices: 982391--982588 Score: 267
Period size: 94 Copynumber: 2.1 Consensus size: 95
982381 TGATTCAATT
* *
982391 AGTATCGATACCATGATAAGGGTTATCGATACCAAGCAATATCGAATCTAATTTTGGTATCGATA
1 AGTATCGATACCATGATAAGGGTTATCGATACCAAGCAACATCGAACCTAATTTTGGTATCGATA
* * * *
982456 CCTGAAGAGGTATCGGTACCATAGTATGGT
66 CCGGAAGAGGTATCAGTACCATAGTATAGA
* *
982486 AGTATCGATACCATGGTAAGGG-TATCGATACC-AGACAACATCGAACCTAATTTTGGTATTGAT
1 AGTATCGATACCATGATAAGGGTTATCGATACCAAG-CAACATCGAACCTAATTTTGGTATCGAT
* *
982549 ACCGGATGGGGGTATCAGTACCATAG-ATAGA
65 ACCGGA-AGAGGTATCAGTACCATAGTATAGA
982580 AGTATCGAT
1 AGTATCGAT
982589 GATACCAGGA
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
93 2 0.02
94 52 0.57
95 37 0.41
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (95 bp):
AGTATCGATACCATGATAAGGGTTATCGATACCAAGCAACATCGAACCTAATTTTGGTATCGATA
CCGGAAGAGGTATCAGTACCATAGTATAGA
Found at i:982672 original size:29 final size:29
Alignment explanation
Indices: 982625--982690 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
982615 ATGGAGCCAA
982625 AATGTTAAAATAGACTGATATTGGTATAG
1 AATGTTAAAATAGACTGATATTGGTATAG
**
982654 AATGTTAAAATAGGTTGATATTGGTATAG
1 AATGTTAAAATAGACTGATATTGGTATAG
*
982683 AAAGTTAA
1 AATGTTAA
982691 TGATGCGTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.42, C:0.02, G:0.21, T:0.35
Consensus pattern (29 bp):
AATGTTAAAATAGACTGATATTGGTATAG
Found at i:983057 original size:55 final size:55
Alignment explanation
Indices: 982971--983347 Score: 495
Period size: 55 Copynumber: 6.9 Consensus size: 55
982961 TGTGTTCTAT
* *
982971 AGGCACTTCGTGTGCATATTCATGGAATTCATCATGAGTTGATGAATTACCGTAC
1 AGGCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTAC
* * ** *
983026 AAGCACTTCGTGTGTATATTCATAGAATTCATCATGAGTTGATGAATCACCGTAT
1 AGGCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTAC
* * *
983081 TGGCACTTCGTGTGCATATTCACAGAATTCATCATGAGTTGATGAATCAACGTAC
1 AGGCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTAC
* * *
983136 AGGCACTTCGTGTGCATATTCACGGAATTTATCATGAGTTGATGGATCATCGTAC
1 AGGCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTAC
* *
983191 AAGCACTTCGTGTACATATTCACGGAATTCATCATGAGTTGATGAATCACCGTAC
1 AGGCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTAC
* * * *
983246 ATGAACTTCATGTGCATATTCACGGAATTCAACATGAGTTGATGAATCACCGTAC
1 AGGCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTAC
* * * * * * * *
983301 GGGCACCTT-GTGTGTAAATCCATGGATTTTATCATAAGTTGATGAAT
1 AGGCA-CTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAAT
983348 TTCTATATAG
Statistics
Matches: 283, Mismatches: 38, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
55 280 0.99
56 3 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (55 bp):
AGGCACTTCGTGTGCATATTCACGGAATTCATCATGAGTTGATGAATCACCGTAC
Found at i:984550 original size:21 final size:21
Alignment explanation
Indices: 984524--984573 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
984514 CAAGATGAAC
*
984524 AAGTAGAGGAT-AAGCAAGTTG
1 AAGTAGAAGATGAA-CAAGTTG
984545 AAGTAGAAGATGAACAAGTTG
1 AAGTAGAAGATGAACAAGTTG
*
984566 AAGAAGAA
1 AAGTAGAA
984574 TAAGATGTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.50, C:0.04, G:0.30, T:0.16
Consensus pattern (21 bp):
AAGTAGAAGATGAACAAGTTG
Found at i:984863 original size:3 final size:3
Alignment explanation
Indices: 984857--984900 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
984847 GTTTATTTTT
** *
984857 TTA TTA TTA AAA TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
984901 TAAATAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:984880 original size:18 final size:18
Alignment explanation
Indices: 984857--984905 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
984847 GTTTATTTTT
984857 TTATTATTAAAATTATTA
1 TTATTATTAAAATTATTA
*
984875 TTATTATTATAATTATTA
1 TTATTATTAAAATTATTA
*
984893 TTATTATTTAAAT
1 TTATTATTAAAAT
984906 AAATATTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATTATTAAAATTATTA
Found at i:986467 original size:3 final size:3
Alignment explanation
Indices: 986459--986494 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
986449 ATTTATTTAT
*
986459 TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
986495 CAAATATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:986688 original size:23 final size:22
Alignment explanation
Indices: 986658--986716 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 22
986648 CATTTTCTGA
986658 TATTTTTAAATAAATAAATAT-TT
1 TATTTTT-AATAAAT-AATATCTT
*
986681 TATTTTT-ATAAATTATATCTT
1 TATTTTTAATAAATAATATCTT
986702 TATTTTTAGATAAAT
1 TATTTTTA-ATAAAT
986717 GTTTTATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 4 0.12
21 15 0.47
23 13 0.41
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
TATTTTTAATAAATAATATCTT
Found at i:987167 original size:12 final size:12
Alignment explanation
Indices: 987146--987180 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
987136 GGCGACTCCC
987146 AAAA-CATTTTA
1 AAAATCATTTTA
987157 AAAATCATTTTA
1 AAAATCATTTTA
987169 AAAATCATTTTA
1 AAAATCATTTTA
987181 TCCACATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAATCATTTTA
Found at i:989616 original size:22 final size:22
Alignment explanation
Indices: 989562--989650 Score: 144
Period size: 22 Copynumber: 4.1 Consensus size: 22
989552 TACATCTACA
*
989562 CTCTTCAAAGATGATAGATTCT
1 CTCTCCAAAGATGATAGATTCT
*
989584 ATCT-CAAAGATGATAGATTCT
1 CTCTCCAAAGATGATAGATTCT
989605 CTCTCCAAAGATGATAGATTCT
1 CTCTCCAAAGATGATAGATTCT
*
989627 CTCTCCAAAGATGATAAATTCT
1 CTCTCCAAAGATGATAGATTCT
989649 CT
1 CT
989651 TTTTCAAATA
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
21 20 0.32
22 43 0.68
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (22 bp):
CTCTCCAAAGATGATAGATTCT
Found at i:990490 original size:92 final size:92
Alignment explanation
Indices: 990327--991399 Score: 1592
Period size: 92 Copynumber: 11.7 Consensus size: 92
990317 CTATTTCCTA
* * *
990327 CATCTGTAAGTCCTTTAGTGCATGATATTTTC-AAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
* *
990391 GCATGATGTTTTCAAAAACCTTTGGGT
66 GCTTGATGTTTTCAAAAACCTTCGGGT
* *
990418 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
*
990483 GCTTGATGTTTTCAAAAACTTTCGGGT
66 GCTTGATGTTTTCAAAAACCTTCGGGT
* * * *
990510 CATCTGTAAGCCCTTCAGTGCTTAATGTTTTC-AAAACCTTTGGGTCATCTGTAAGTCCTTTAGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
*
990574 TCTTGATGTTTTTCAAAAACCTTCGGGT
66 GCTTGATG-TTTTCAAAAACCTTCGGGT
* * *
990602 CATTTGTAAGTCCTTCAGTGCTTGATGTTTTC-AAAACCTTCGGGTTATCTGTAAGTCATTCAGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
990666 GCTTGATGTTTATCAAAAACCTTCGGGT
66 GCTTGATGTTT-TCAAAAACCTTCGGGT
* *
990694 CA--TATAAGTCCTTCAGTGCTTGATGTTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAA
1 CATCTGTAAGTCCTTCAGTGCTTGATG-TTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAG
990757 TGCTTGATGTTTTTCAAAAACCTTCGGGT
65 TGCTTGATG-TTTTCAAAAACCTTCGGGT
*
990786 CATCTATAAGTCCTTCAGTGCTTGATGTTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAG
1 CATCTGTAAGTCCTTCAGTGCTTGATG-TTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAG
*
990851 TTCTTGATGTTTTTCAAAAACCTTCGGGT
65 TGCTTGATG-TTTTCAAAAACCTTCGGGT
*
990880 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAG
1 CATCTGTAAGTCCTTCAGTGCTTGATG-TTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAG
**
990945 TGCTTGATGTTTTC-AAAACCTTTAGGT
65 TGCTTGATGTTTTCAAAAACCTTCGGGT
* *
990972 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTTCAAAAACCTTCGGGTCATCTGTAAGTCTTTCAG
1 CATCTGTAAGTCCTTCAGTGCTTGATG-TTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAG
*
991037 TGCTTGATGTTTTTAAAAACCTTCGGGT
65 TGCTTGATGTTTTCAAAAACCTTCGGGT
*
991065 CATCTATAAGTCCTTCAGTGCTTGATGTTTTCAAAAA-CTTCGGGTCATCTGTAAGTCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
*
991129 GCTTGATGTTTTTCAAAAACCTTTGGGT
66 GCTTGATG-TTTTCAAAAACCTTCGGGT
* * * *
991157 TATCTGTAAGCCCTTCAGTGTTTGATGTTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAG
1 CATCTGTAAGTCCTTCAGTGCTTGATG-TTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAG
* *
991222 TGTTTGATGTTTTC-AAAACCTTCAGGT
65 TGCTTGATGTTTTCAAAAACCTTCGGGT
* * **
991249 CATCTATAAGTCCTTCAGTGCTTGATGCTTTCAAAAACCTTCGGGTCATCTGTAACCCCTTCAGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
*
991314 GTTTGATGTTTTCAAAAACCTTC-GGT
66 GCTTGATGTTTTCAAAAACCTTCGGGT
* ** *
991340 CATATGTAAGTCCTTCAGTGCACGATGTTTTC-AAAACCTTCGGGTCATTTGTAAG-CCTTC
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTC
991400 CGAGCAAGAT
Statistics
Matches: 904, Mismatches: 65, Indels: 28
0.91 0.07 0.03
Matches are distributed among these distances:
89 5 0.01
90 43 0.05
91 187 0.21
92 418 0.46
93 59 0.07
94 192 0.21
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (92 bp):
CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGTCCTTCAGT
GCTTGATGTTTTCAAAAACCTTCGGGT
Found at i:990610 original size:47 final size:46
Alignment explanation
Indices: 990327--991399 Score: 1592
Period size: 47 Copynumber: 23.3 Consensus size: 46
990317 CTATTTCCTA
* * *
990327 CATCTGTAAGTCCTTTAGTGCATGATATTTTC-AAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
* *
990372 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTTGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
*
990418 CATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
* *
990464 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACTTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
* * *
990510 CATCTGTAAGCCCTTCAGTGCTTAATGTTTTC-AAAACCTTTGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
* *
990555 CATCTGTAAGTCCTTTAGTTCTTGATGTTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATG-TTTTCAAAAACCTTCGGGT
*
990602 CATTTGTAAGTCCTTCAGTGCTTGATGTTTTC-AAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
* *
990647 TATCTGTAAGTCATTCAGTGCTTGATGTTTATCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTT-TCAAAAACCTTCGGGT
*
990694 CA--TATAAGTCCTTCAGTGCTTGATGTTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATG-TTTTCAAAAACCTTCGGGT
*
990739 CATCTGTAAGTCCTTCAATGCTTGATGTTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATG-TTTTCAAAAACCTTCGGGT
*
990786 CATCTATAAGTCCTTCAGTGCTTGATGTTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATG-TTTTCAAAAACCTTCGGGT
*
990833 CATCTGTAAGTCCTTCAGTTCTTGATGTTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATG-TTTTCAAAAACCTTCGGGT
990880 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATG-TTTTCAAAAACCTTCGGGT
* **
990927 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTC-AAAACCTTTAGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
*
990972 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATG-TTTTCAAAAACCTTCGGGT
* *
991019 CATCTGTAAGTCTTTCAGTGCTTGATGTTTTTAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
*
991065 CATCTATAAGTCCTTCAGTGCTTGATGTTTTCAAAAA-CTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
*
991110 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTTCAAAAACCTTTGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATG-TTTTCAAAAACCTTCGGGT
* * *
991157 TATCTGTAAGCCCTTCAGTGTTTGATGTTTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATG-TTTTCAAAAACCTTCGGGT
* * *
991204 CATCTGTAAGCCCTTCAGTGTTTGATGTTTTC-AAAACCTTCAGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
* *
991249 CATCTATAAGTCCTTCAGTGCTTGATGCTTTCAAAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
** *
991295 CATCTGTAACCCCTTCAGTGTTTGATGTTTTCAAAAACCTTC-GGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
* **
991340 CATATGTAAGTCCTTCAGTGCACGATGTTTTC-AAAACCTTCGGGT
1 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
*
991385 CATTTGTAAG-CCTTC
1 CATCTGTAAGTCCTTC
991400 CGAGCAAGAT
Statistics
Matches: 947, Mismatches: 67, Indels: 29
0.91 0.06 0.03
Matches are distributed among these distances:
44 14 0.01
45 296 0.31
46 272 0.29
47 365 0.39
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (46 bp):
CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAAACCTTCGGGT
Found at i:991594 original size:3 final size:3
Alignment explanation
Indices: 991588--991649 Score: 79
Period size: 3 Copynumber: 20.7 Consensus size: 3
991578 TTCATTTTTT
** * * *
991588 TTA TTA TTA AAA TTA TTA TTA TTA TTA CTA TAA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
991636 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
991650 TAAATAAATA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:996294 original size:18 final size:18
Alignment explanation
Indices: 996273--996320 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
996263 CGACCTGATT
* *
996273 CGACCCACCTTCCTGACC
1 CGACCCACCTGCCTAACC
* *
996291 CGACCCTCATGCCTAACC
1 CGACCCACCTGCCTAACC
996309 CGACCCGACCTG
1 CGACCC-ACCTG
996321 ATCTGAACCG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.19, C:0.52, G:0.15, T:0.15
Consensus pattern (18 bp):
CGACCCACCTGCCTAACC
Found at i:1014747 original size:22 final size:23
Alignment explanation
Indices: 1014701--1014750 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
1014691 CGATTCCCCT
1014701 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTCAAA
1014724 GGGGGAATCGGTTCCCCTTC-AA
1 GGGGGAATCGGTTCCCCTTCAAA
1014746 GGGGG
1 GGGGG
1014751 TGTCGATTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.18, C:0.24, G:0.38, T:0.20
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCCTTCAAA
Found at i:1014760 original size:22 final size:23
Alignment explanation
Indices: 1014701--1014761 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
1014691 CGATTCCCCT
*
1014701 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGATTCCCCTTCAAA
*
1014724 GGGGGAATCGGTTCCCCTTC-AA
1 GGGGGAATCGATTCCCCTTCAAA
**
1014746 GGGGGTGTCGATTCCC
1 GGGGGAATCGATTCCC
1014762 TCTGCCCTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 15 0.43
23 20 0.57
ACGTcount: A:0.16, C:0.26, G:0.34, T:0.23
Consensus pattern (23 bp):
GGGGGAATCGATTCCCCTTCAAA
Found at i:1024749 original size:41 final size:40
Alignment explanation
Indices: 1024703--1024861 Score: 210
Period size: 42 Copynumber: 3.9 Consensus size: 40
1024693 GAGCCTAGGA
*
1024703 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGG
1 AAACTGTAAGGCTTACCTTTGCACACAGCAAAGG-ACCTGG
* *
1024744 AAACTGTAAGGATTACCTTTGCACACAGCAAATGTACCTGAG
1 AAACTGTAAGGCTTACCTTTGCACACAGCAAA-GGACCTG-G
*
1024786 AAACTGTAAGGCTTACCTTTGCACACAGTAAACGGACCTGGG
1 AAACTGTAAGGCTTACCTTTGCACACAGCAAA-GGACCT-GG
* * *
1024828 AAACTATAAGGCTTTCCTTTGCACATAGCAAAGG
1 AAACTGTAAGGCTTACCTTTGCACACAGCAAAGG
1024862 GACTTGAGAA
Statistics
Matches: 104, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
41 37 0.36
42 66 0.63
43 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (40 bp):
AAACTGTAAGGCTTACCTTTGCACACAGCAAAGGACCTGG
Found at i:1025849 original size:29 final size:29
Alignment explanation
Indices: 1025807--1025891 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
1025797 TATCACCCTT
**
1025807 TTTTAAAAATATTTACGAATTTAACACCC
1 TTTTAAAAATATTTACGAAACTAACACCC
* * *
1025836 TTTTAAAATTATTTATGAAACTAGCACCC
1 TTTTAAAAATATTTACGAAACTAACACCC
* *
1025865 TTTTAAAAATAATTACAAAACTAACAC
1 TTTTAAAAATATTTACGAAACTAACAC
1025892 ACGGTCAACA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.35
Consensus pattern (29 bp):
TTTTAAAAATATTTACGAAACTAACACCC
Found at i:1032091 original size:42 final size:42
Alignment explanation
Indices: 1031949--1032152 Score: 250
Period size: 42 Copynumber: 4.8 Consensus size: 42
1031939 CAGTACACCA
* * * *
1031949 GTAAGGCTTAACCTGTGCACAAAGCAGA-GGAGCCTAGGAAAACT
1 GTAAGGCTT-ACCTTTGCACACAGCAAAGGGA-CCT-GGGAAACT
* * *
1031993 GTAAGGCTTACCCTTGCACATAGCAAAGGAACCT-GGAAACT
1 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACT
*
1032034 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAATCT
1 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACT
* *
1032076 GTAAGGCTTACCTTTGTACACAGCAAAGGGACCTGGGAAAAT
1 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACT
* * *
1032118 GTAAGGCTTACCTTTGCAGACAACAAAGAGACCTG
1 GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTG
1032153 AGAATAGTTC
Statistics
Matches: 141, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
41 37 0.26
42 76 0.54
43 17 0.12
44 11 0.08
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (42 bp):
GTAAGGCTTACCTTTGCACACAGCAAAGGGACCTGGGAAACT
Found at i:1033136 original size:29 final size:29
Alignment explanation
Indices: 1033088--1033180 Score: 152
Period size: 29 Copynumber: 3.2 Consensus size: 29
1033078 ACACAATTAT
*
1033088 CACCCTTTTTAAAAATATTTACCAAACTAA
1 CACCC-TTTTAAAAATATTTACAAAACTAA
1033118 CACCCTTTTAAAAATATTTACAAAACTAA
1 CACCCTTTTAAAAATATTTACAAAACTAA
1033147 CACCCTTTTAAAAAT-TATTACAAAACTAA
1 CACCCTTTTAAAAATAT-TTACAAAACTAA
1033176 CACCC
1 CACCC
1033181 AGTCAACGGT
Statistics
Matches: 61, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
28 1 0.02
29 55 0.90
30 5 0.08
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (29 bp):
CACCCTTTTAAAAATATTTACAAAACTAA
Found at i:1034109 original size:95 final size:95
Alignment explanation
Indices: 1033987--1034177 Score: 355
Period size: 95 Copynumber: 2.0 Consensus size: 95
1033977 CCTTCGGGAC
1033987 AAATTCACATGCCCCTAGTGGAACCTTATAAGAGCTGTGGTGACAACATATGTGCACAACCTCTA
1 AAATTCACATGCCCCTAGTGGAACCTTATAAGAGCTGTGGTGACAACATATGTGCACAACCTCTA
*
1034052 TGTACTCACATATCTTTAGTTCTCACATGT
66 TGTACTCACATATCTTTAGTTATCACATGT
* *
1034082 AAATTCACATGCCCCTAGTGGGACCTTATACGAGCTGTGGTGACAACATATGTGCACAACCTCTA
1 AAATTCACATGCCCCTAGTGGAACCTTATAAGAGCTGTGGTGACAACATATGTGCACAACCTCTA
1034147 TGTACTCACATATCTTTAGTTATCACATGT
66 TGTACTCACATATCTTTAGTTATCACATGT
1034177 A
1 A
1034178 TACATGGGCT
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (95 bp):
AAATTCACATGCCCCTAGTGGAACCTTATAAGAGCTGTGGTGACAACATATGTGCACAACCTCTA
TGTACTCACATATCTTTAGTTATCACATGT
Found at i:1035185 original size:18 final size:19
Alignment explanation
Indices: 1035139--1035203 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 19
1035129 TACACCAACG
**
1035139 ACCTCAACAA-ACTCAGTG
1 ACCTCAACAACACTCAGCA
*
1035157 ACCTCGACAACA-TCAGCA
1 ACCTCAACAACACTCAGCA
*
1035175 ACCTCAACAAC-CTTAGCA
1 ACCTCAACAACACTCAGCA
* *
1035193 TCCACAACAAC
1 ACCTCAACAAC
1035204 CACACCGGTC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 37 0.97
19 1 0.03
ACGTcount: A:0.40, C:0.38, G:0.08, T:0.14
Consensus pattern (19 bp):
ACCTCAACAACACTCAGCA
Found at i:1035932 original size:40 final size:40
Alignment explanation
Indices: 1035876--1035967 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
1035866 ACACAAAAAT
* * *
1035876 CATATACAAAAACCTTCACCAATTACTAT-CCATCATTACC
1 CATATACAAAAACCTTCAACAATTACT-TCCCACCATTAAC
* * *
1035916 CATACACAAAATCCTTCAACGATTACTTCCCACCATTAAC
1 CATATACAAAAACCTTCAACAATTACTTCCCACCATTAAC
1035956 CATATACAAAAA
1 CATATACAAAAA
1035968 ATTACTACCC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 1 0.02
40 42 0.98
ACGTcount: A:0.42, C:0.32, G:0.01, T:0.25
Consensus pattern (40 bp):
CATATACAAAAACCTTCAACAATTACTTCCCACCATTAAC
Found at i:1036827 original size:29 final size:28
Alignment explanation
Indices: 1036766--1036827 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
1036756 AGATCAATTG
** *
1036766 TTTTCTTTTGTTTAAATTTTTCTCTTCT
1 TTTTCTTTTGTTTAAATTTTTCTAATCA
1036794 TTTTCTTTTGTTTTGAAATTTTTC-AATCA
1 TTTTCTTTTG-TTT-AAATTTTTCTAATCA
1036823 TTTTC
1 TTTTC
1036828 GAGATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 10 0.34
29 10 0.34
30 9 0.31
ACGTcount: A:0.15, C:0.13, G:0.05, T:0.68
Consensus pattern (28 bp):
TTTTCTTTTGTTTAAATTTTTCTAATCA
Found at i:1038172 original size:26 final size:26
Alignment explanation
Indices: 1038141--1038201 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
1038131 GGTAACCTTT
1038141 TAAAATTTTAGAAAGAGACAAACTTA
1 TAAAATTTTAGAAAGAGACAAACTTA
1038167 TAAAATTTTAGAAAGAGACAAACTTA
1 TAAAATTTTAGAAAGAGACAAACTTA
1038193 TAAAATTTT
1 TAAAATTTT
1038202 TGGGGGGCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (26 bp):
TAAAATTTTAGAAAGAGACAAACTTA
Found at i:1041033 original size:32 final size:32
Alignment explanation
Indices: 1040983--1041056 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
1040973 ATTAGAATAG
* **
1040983 TAAAAAAATAAATATTAAATATTATTTAAAA-
1 TAAAAAATTAAATATTAAATATTAAGTAAAAT
*
1041014 TAAAAAATTAAAGTTTTAAATATTAAGTAAAAT
1 TAAAAAATTAAA-TATTAAATATTAAGTAAAAT
*
1041047 TAGAAAATTA
1 TAAAAAATTA
1041057 TAAAGCATCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 11 0.31
32 16 0.44
33 9 0.25
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (32 bp):
TAAAAAATTAAATATTAAATATTAAGTAAAAT
Found at i:1043479 original size:20 final size:21
Alignment explanation
Indices: 1043449--1043487 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1043439 AAAGTATCCG
*
1043449 AAATAATTTGATAATTAAATA
1 AAATAATTTGAAAATTAAATA
1043470 AAAT-ATTTGAAAATTAAA
1 AAATAATTTGAAAATTAAA
1043488 GACAGCATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (21 bp):
AAATAATTTGAAAATTAAATA
Found at i:1044414 original size:17 final size:17
Alignment explanation
Indices: 1044392--1044436 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
1044382 TAGGGGTGTG
1044392 TATTATCGGATATCGAA
1 TATTATCGGATATCGAA
* *
1044409 TATTATCCGAT-CCGAA
1 TATTATCGGATATCGAA
1044425 -ATT-TCGGATATC
1 TATTATCGGATATC
1044437 CAAAAATTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
14 5 0.22
15 4 0.17
16 4 0.17
17 10 0.43
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (17 bp):
TATTATCGGATATCGAA
Found at i:1044527 original size:21 final size:21
Alignment explanation
Indices: 1044485--1044538 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
1044475 ATCCGAAAAA
*
1044485 ATCGGATATCCGAAATTTCGG
1 ATCGGATATCCGAAATTCCGG
*
1044506 ATCGGATATCTG-AATATCCGG
1 ATCGGATATCCGAAAT-TCCGG
*
1044527 ATCCGA-ATCCGA
1 ATCGGATATCCGA
1044539 TTTTAGTCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (21 bp):
ATCGGATATCCGAAATTCCGG
Found at i:1062259 original size:233 final size:233
Alignment explanation
Indices: 1061735--1062666 Score: 1075
Period size: 233 Copynumber: 4.1 Consensus size: 233
1061725 TCCAAAATTG
* *
1061735 GTAAGTCCTTCGAACATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGAT
1 GTAAGTCATTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGAT
* * * *
1061800 AAGTCCTTC-GGCCATCCATAAGA-CTTACGGGCAGGATATTTTCACATG-TTTTCCAAAATGTG
66 AAGTCCTTCAAGCCATCCATAAGACCTT-CGGGCAGGATGTTTTCACATGTTTTTCGAAAA-ATG
*
1061862 AGAAATG-TTTCTCATTTACAA-CTGAAAATTGAAATTTTTG--AA--AAGAAAAGTTTATTACC
129 AGAAA-GATTTCTCATTTA-AATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACC
* ** * * *
1061921 TAGGAAACTATTTCTGAAAGTGGTAAATCCTTCGGGCCATCA
192 TAGTAAACTATTTCCAAAATTGGTAAGTCCTTCAGGCCATCA
* * * *
1061963 ATAAGT-ATTTTGAGCATGATACTTAAATCCTTCAGGTCATCTGTAAGTCTTTCGAGCAAGATGA
1 GTAAGTCA-TTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGA
* *
1062027 AAAGTCCTTCAAGCCATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTTTTTCGAAAAATGA
65 TAAGTCCTTCAAGCCATCCATAAGACCTTCGGGCAGGATGTTTTCACATGTTTTTCGAAAAATGA
* * *
1062092 GAAAGGTTTCTCATTTAAATCTGAAAATAGAAAATTTTGAAAAGTAAGAAAAGTTTCTTACCTAG
130 GAAAGATTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAG
* *
1062157 TAAACTATTTCCAAAATTGGCAAGTCCTTCACGCCATCA
195 TAAACTATTTCCAAAATTGGTAAGTCCTTCAGGCCATCA
* * * **
1062196 GTAAGTCATTCGAGCATGATGCTTAAATCTTTCGGGTCATCTATAAGTCTTTCAAAAAAGATGAT
1 GTAAGTCATTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGAT
* ** * * * * *
1062261 AAGTCATTCGGGTCATCCATAACACATTCGGGCAGGATGTTTTCACATGTTTTTCAAAAAATAAG
66 AAGTCCTTCAAGCCATCCATAAGACCTTCGGGCAGGATGTTTTCACATGTTTTTCGAAAAATGAG
* * *
1062326 AAAGATTTCTCATTTAAATCTGAAATTTGAAATTTTTGAAAATTAAGAAAAGTTTCTTACTTAGT
131 AAAGATTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGT
1062391 AAACTA-TTCCAAAATTGGTAAGTCCTTCAGGCCATC-
196 AAACTATTTCCAAAATTGGTAAGTCCTTCAGGCCATCA
** * *
1062427 GTAAGTTTTTCAAGCATAATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATG--
1 GTAAGTCATTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGAT
* * * *
1062490 -A-----T-AAG-------T----CCTTCGGGTAGGGTTTTTTCACATGTCTCTT-GAAAAATGA
66 AAGTCCTTCAAGCCATCCATAAGACCTTCGGGCAGGATGTTTTCACATGT-TTTTCGAAAAATGA
* *
1062536 CAAAGATTTCTCATTTAAATATGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAG
130 GAAAGATTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAG
* * *
1062601 TAAACTATTTCCAAAATCGGTAAGTCCTTCGGGTCATCA
195 TAAACTATTTCCAAAATTGGTAAGTCCTTCAGGCCATCA
* * *
1062640 GTTAGTCTTTCGAGTATGATGCTTAAA
1 GTAAGTCATTCGAGCATGATGCTTAAA
1062667 CTGTAACACC
Statistics
Matches: 609, Mismatches: 81, Indels: 43
0.83 0.11 0.06
Matches are distributed among these distances:
211 96 0.16
212 30 0.05
213 22 0.04
215 1 0.00
222 1 0.00
223 1 0.00
228 70 0.11
229 67 0.11
230 12 0.02
231 56 0.09
232 28 0.05
233 224 0.37
234 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (233 bp):
GTAAGTCATTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGAT
AAGTCCTTCAAGCCATCCATAAGACCTTCGGGCAGGATGTTTTCACATGTTTTTCGAAAAATGAG
AAAGATTTCTCATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGT
AAACTATTTCCAAAATTGGTAAGTCCTTCAGGCCATCA
Found at i:1062499 original size:41 final size:41
Alignment explanation
Indices: 1062409--1062504 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 41
1062399 CCAAAATTGG
* * * *
1062409 TAAGTCCTTCAGGCCATCGTAAGTTTTTCAAGCATAATGCT
1 TAAGTCCTTCGGGTCATCGTAAGTCTTTCAAGCATAATGCA
* *
1062450 TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCA-AGATG-A
1 TAAGTCCTTCGGGTCATC-GTAAGTCTTTCAAGCATA-ATGCA
1062491 TAAGTCCTTCGGGT
1 TAAGTCCTTCGGGT
1062505 AGGGTTTTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
41 29 0.63
42 17 0.37
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (41 bp):
TAAGTCCTTCGGGTCATCGTAAGTCTTTCAAGCATAATGCA
Found at i:1063423 original size:23 final size:23
Alignment explanation
Indices: 1063397--1063453 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
1063387 TTCGTATAAA
1063397 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
1063420 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
1063443 TGCTCCGAAGT
1 TGCACCGAAGT
1063454 TCCATATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.19
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:1064734 original size:16 final size:17
Alignment explanation
Indices: 1064715--1064749 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1064705 AAAACATATC
*
1064715 AATACATA-TAATCATG
1 AATACATACAAATCATG
1064731 AATACATACAAATCATG
1 AATACATACAAATCATG
1064748 AA
1 AA
1064750 ATTCACATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.26
Consensus pattern (17 bp):
AATACATACAAATCATG
Found at i:1065183 original size:64 final size:64
Alignment explanation
Indices: 1065095--1065256 Score: 173
Period size: 64 Copynumber: 2.5 Consensus size: 64
1065085 CCCTTAACAT
* * * * *
1065095 GTGCATCGATGCACTACCCATGCATCGATACACAAAGCACCTTCGATGTTT-TAATCTTAAGGGG
1 GTGCATCGATGCACTTCCTATGCATCGATACACAAAGCACATTCGATATTTCCAATCTTAA-GGG
* * * ** * * *
1065159 GTGTATCGATGCACTTCCTATGCATCGATGCACTAATTACATTCGATATTTCCATTTTTAATGG
1 GTGCATCGATGCACTTCCTATGCATCGATACACAAAGCACATTCGATATTTCCAATCTTAAGGG
* *
1065223 GTGCATCGATGCACTTCTTGTGCATCGATACACA
1 GTGCATCGATGCACTTCCTATGCATCGATACACA
1065257 CTGAAAAATT
Statistics
Matches: 79, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
64 73 0.92
65 6 0.08
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCACTTCCTATGCATCGATACACAAAGCACATTCGATATTTCCAATCTTAAGGG
Found at i:1066714 original size:135 final size:132
Alignment explanation
Indices: 1066440--1066886 Score: 475
Period size: 137 Copynumber: 3.3 Consensus size: 132
1066430 AAAATCGAAT
* * * * * * *
1066440 TCGATTCAATCTTCCTTGGAGAAAAATTGAATGAATTAATGTCCCCATATTTGATATTTCCTTAA
1 TCGATTCAATCTTCCTTGAAGAACAATGGAATGAATCAACGTCCCCATATATGAT-TTTCCCTAA
* * * * * *
1066505 GAAAAAA-GGAGCAGATCCCTCTTTTTCCAGATTTGATA-TCCCTTGAGTAATAGTGGAACAAGT
65 AAAAAAAGGGAACAAATCCCT-ATTTTCAAGATTTGATATTCCC-TAAGTAATAGTGGAACAAGT
* *
1066568 TTTCC
128 CTACC
*
1066573 TCGATTCAATCTTACTTGAAGAACAATGGAATGAATCAACGTCCCCATATATGATTTTCCCTAAA
1 TCGATTCAATCTTCCTTGAAGAACAATGGAATGAATCAACGTCCCCATATATGATTTTCCCTAAA
*
1066638 AAAACAAGTGGAACAAATCTCTATCTTTCAAGATTTGATATTCCCTAAGTAATAGTGGAACAAGT
66 AAAA-AAG-GGAACAAATCCCTAT-TTTCAAGATTTGATATTCCCTAAGTAATAGTGGAACAAGT
1066703 CTACC
128 CTACC
* * * * * *
1066708 TTGATTCAATCTTCCCTGACGAAACAGTGGAATGAATCAACATCCCCTTAGATATGATTTTCCCT
1 TCGATTCAATCTTCCTTGAAG-AACAATGGAATGAATCAACGTCCCC--ATATATGATTTTCCCT
* * ** * * * * * * *
1066773 CAAGATGAAGCGAAACATATCCCTTATTTTCAAGATTTGGTCTTCCCTAAGTAACAATGGAAGAA
63 AAAAAAAAAG-GGAACAAATCCC-TATTTTCAAGATTTGATATTCCCTAAGTAATAGTGGAACAA
1066838 GTCTACC
126 GTCTACC
1066845 TCGATTCAATCTTCCTTGAAGAACAATGGAATGAATCAACGT
1 TCGATTCAATCTTCCTTGAAGAACAATGGAATGAATCAACGT
1066887 TTCTCGATCT
Statistics
Matches: 263, Mismatches: 42, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
132 12 0.05
133 50 0.19
134 1 0.00
135 63 0.24
136 46 0.17
137 70 0.27
138 21 0.08
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (132 bp):
TCGATTCAATCTTCCTTGAAGAACAATGGAATGAATCAACGTCCCCATATATGATTTTCCCTAAA
AAAAAAGGGAACAAATCCCTATTTTCAAGATTTGATATTCCCTAAGTAATAGTGGAACAAGTCTA
CC
Found at i:1067071 original size:3 final size:3
Alignment explanation
Indices: 1067055--1067123 Score: 59
Period size: 3 Copynumber: 22.7 Consensus size: 3
1067045 TTTGTCTAGG
* * * *
1067055 TTA TTA TT- TATA TTA TTA TTA CTA CTA CTA TTA TTA TTA TTG TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
1067100 ATA TTTA TTA TTG TTA TTA TTA TT
1 TTA -TTA TTA TTA TTA TTA TTA TT
1067124 TAATATATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
2 1 0.02
3 51 0.93
4 3 0.05
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:1067109 original size:16 final size:16
Alignment explanation
Indices: 1067088--1067120 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1067078 ACTACTATTA
1067088 TTATTATTGTTAATAT
1 TTATTATTGTTAATAT
*
1067104 TTATTATTGTTATTAT
1 TTATTATTGTTAATAT
1067120 T
1 T
1067121 ATTTAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (16 bp):
TTATTATTGTTAATAT
Found at i:1067109 original size:19 final size:19
Alignment explanation
Indices: 1067055--1067125 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 19
1067045 TTTGTCTAGG
*
1067055 TTATTATTTATA-TTATTA
1 TTATTATTAATATTTATTA
* * *
1067073 TTACTACTACTA-TTATTA
1 TTATTATTAATATTTATTA
*
1067091 TTATTGTTAATATTTATTA
1 TTATTATTAATATTTATTA
* *
1067110 TTGTTATTATTATTTA
1 TTATTATTAATATTTA
1067126 ATATATACAT
Statistics
Matches: 41, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
18 22 0.54
19 19 0.46
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (19 bp):
TTATTATTAATATTTATTA
Found at i:1069641 original size:17 final size:17
Alignment explanation
Indices: 1069619--1069652 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1069609 GCCCAACTAC
1069619 TCATCTAACAAACAACT
1 TCATCTAACAAACAACT
1069636 TCATCTAACAAACAACT
1 TCATCTAACAAACAACT
1069653 AAGGTAAACT
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:0.47, C:0.29, G:0.00, T:0.24
Consensus pattern (17 bp):
TCATCTAACAAACAACT
Found at i:1077421 original size:3 final size:3
Alignment explanation
Indices: 1077413--1077443 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1077403 ATATCATTTC
*
1077413 ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1077444 GCATGATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:1077621 original size:14 final size:16
Alignment explanation
Indices: 1077591--1077626 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
1077581 TATGACAACT
1077591 ATATATATATATACAC
1 ATATATATATATACAC
1077607 ATAT-TATATAT-CAC
1 ATATATATATATACAC
1077621 ATATAT
1 ATATAT
1077627 CACTTCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.37
15 8 0.42
16 4 0.21
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATATATATATACAC
Found at i:1085520 original size:4 final size:4
Alignment explanation
Indices: 1085511--1085536 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1085501 TCTGAATATA
1085511 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
1085537 TTATTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:1085557 original size:23 final size:23
Alignment explanation
Indices: 1085531--1085584 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
1085521 ATTTATTTAT
1085531 TTATTTTTATTAAAATTTTAAAA
1 TTATTTTTATTAAAATTTTAAAA
* * * *
1085554 TTATAATTTATTTAATTTTTATAA
1 TTAT-TTTTATTAAAATTTTAAAA
1085578 TATATTT
1 T-TATTT
1085585 ACATATCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 4 0.17
24 17 0.71
25 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATTTTTATTAAAATTTTAAAA
Done.