Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold43
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: 2559314
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 13088 characters in sequence are not A, C, G, or T
File 15 of 19
Found at i:1741770 original size:13 final size:14
Alignment explanation
Indices: 1741752--1741823 Score: 59
Period size: 13 Copynumber: 5.5 Consensus size: 14
1741742 ATTAATTTTA
1741752 ATATATTA-ATAAT
1 ATATATTATATAAT
1741765 ATATATTATATAA-
1 ATATATTATATAAT
1741778 AT-T-TTATA-AAT
1 ATATATTATATAAT
**
1741789 ATAT-TTATATTTT
1 ATATATTATATAAT
1741802 ATTATATTTATATAAT
1 A-TATA-TTATATAAT
1741818 -TATATT
1 ATATATT
1741824 TCATATCAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
10 2 0.04
11 7 0.15
12 7 0.15
13 14 0.29
14 11 0.23
16 7 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATATTATATAAT
Found at i:1741822 original size:30 final size:30
Alignment explanation
Indices: 1741682--1741829 Score: 87
Period size: 30 Copynumber: 4.8 Consensus size: 30
1741672 ATATAATACA
*
1741682 TATATTTATAT-ATTAGATTTATATTTT-T
1 TATATTTATATAATTATATTTATATTTTAT
*
1741710 TATA-ATATTATAATT-TATTTAAAATATTTTA-
1 TATATTTA-TATAATTATATTT---ATATTTTAT
* *
1741741 TATTAATTT-TAATATATTA-ATAATATATATTAT
1 TA-T-ATTTAT-ATA-ATTATAT-TTATATTTTAT
* *
1741774 ATAAATTT-TATAAATATATTTATATTTTAT
1 -TATATTTATATAATTATATTTATATTTTAT
1741804 TATATTTATATAATTATATTTCATAT
1 TATATTTATATAATTATATTT-ATAT
1741830 CAAGATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 33
0.67 0.08 0.24
Matches are distributed among these distances:
27 2 0.02
28 11 0.12
29 9 0.10
30 24 0.26
31 18 0.20
32 14 0.15
33 4 0.04
34 8 0.09
35 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (30 bp):
TATATTTATATAATTATATTTATATTTTAT
Found at i:1742022 original size:14 final size:14
Alignment explanation
Indices: 1741989--1742030 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
1741979 AAAATTATTG
1741989 TATTATTATTTAAAA
1 TATTA-TATTTAAAA
*
1742004 T-TTATATTTAATA
1 TATTATATTTAAAA
*
1742017 TATTATTTTTAAAA
1 TATTATATTTAAAA
1742031 AATTTAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 9 0.39
14 13 0.57
15 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTATATTTAAAA
Found at i:1742864 original size:11 final size:10
Alignment explanation
Indices: 1742844--1742869 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1742834 ATTTAAATTT
1742844 ATTTTTAAAA
1 ATTTTTAAAA
1742854 ATTTTTAAAA
1 ATTTTTAAAA
1742864 ATTTTT
1 ATTTTT
1742870 GTTTAATGGC
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTTTAAAA
Found at i:1744590 original size:6 final size:6
Alignment explanation
Indices: 1744582--1744615 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
1744572 CTGTTCTTGA
*
1744582 TGATGA TGATGC TGATGC TGATGC TGATGC TGAT
1 TGATGC TGATGC TGATGC TGATGC TGATGC TGAT
1744616 AAGAATAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.21, C:0.12, G:0.32, T:0.35
Consensus pattern (6 bp):
TGATGC
Found at i:1745914 original size:33 final size:34
Alignment explanation
Indices: 1745826--1745922 Score: 114
Period size: 32 Copynumber: 2.9 Consensus size: 34
1745816 TGTTTTATTT
*
1745826 ATTTTTAAGTATAATAATTATATTTA-A-TATA-AA
1 ATTTTTAA-TATATTAA-TATATTTATATTATATAA
1745859 ATTTTTAATATATTAATA-ATTTATATTATATAA
1 ATTTTTAATATATTAATATATTTATATTATATAA
* *
1745892 A-TTTTGATATATTCATATATTTATATTATAT
1 ATTTTTAATATATTAATATATTTATATTATAT
1745923 TTTATTTTAT
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
30 5 0.09
31 3 0.05
32 25 0.44
33 24 0.42
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (34 bp):
ATTTTTAATATATTAATATATTTATATTATATAA
Found at i:1745933 original size:17 final size:18
Alignment explanation
Indices: 1745911--1745948 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
1745901 TATTCATATA
*
1745911 TTTATATTATATTTT-AT
1 TTTATATCATATTTTAAT
1745928 TTTATATCATATTTTAAT
1 TTTATATCATATTTTAAT
1745946 TTT
1 TTT
1745949 TTTTTGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTATATCATATTTTAAT
Found at i:1746958 original size:38 final size:39
Alignment explanation
Indices: 1746878--1746958 Score: 96
Period size: 38 Copynumber: 2.1 Consensus size: 39
1746868 TTTTAAAATA
* *
1746878 TTTATATATTAATATCATATCATATTTTAATTATTTATT
1 TTTATATATTAATATCATATCATATTTAAATTATTTAAT
*
1746917 TTTATTATATTCATAT-A-ATCATATTTAATATTA-TTAAT
1 TTTA-TATATTAATATCATATCATATTTAA-ATTATTTAAT
1746955 TTTA
1 TTTA
1746959 ATTGAATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
38 18 0.49
39 9 0.24
40 10 0.27
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (39 bp):
TTTATATATTAATATCATATCATATTTAAATTATTTAAT
Found at i:1747113 original size:15 final size:18
Alignment explanation
Indices: 1747078--1747114 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1747068 AGTTTAAGAA
1747078 TAAAAATATTATAAATAT
1 TAAAAATATTATAAATAT
1747096 TAAAAAT-TTA-AAAT-T
1 TAAAAATATTATAAATAT
1747111 TAAA
1 TAAA
1747115 TTTATTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 4 0.21
17 3 0.16
18 7 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAAATATTATAAATAT
Found at i:1752876 original size:22 final size:22
Alignment explanation
Indices: 1752832--1752872 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
1752822 ATATTTTATT
1752832 TAAATTTAATTATAAAAATATA
1 TAAATTTAATTATAAAAATATA
1752854 TAAATATTAA-TA-AAAAATA
1 TAAAT-TTAATTATAAAAATA
1752873 ATATTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATTTAATTATAAAAATATA
Found at i:1757667 original size:17 final size:16
Alignment explanation
Indices: 1757627--1757669 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
1757617 AATTTTATAT
1757627 AATATAAA-TTATTAA
1 AATATAAATTTATTAA
*
1757642 ATTATTAAATTTATGTAA
1 AATA-TAAATTTAT-TAA
1757660 AATATAAATT
1 AATATAAATT
1757670 AAAAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.13
16 4 0.17
17 10 0.43
18 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
AATATAAATTTATTAA
Found at i:1757682 original size:32 final size:31
Alignment explanation
Indices: 1757613--1757682 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 31
1757603 AAATATATAT
* ** *
1757613 TTTAAATTTTATATAATATAAATTATTAAAT
1 TTTAAATTTTATAAAATATAAATTAAAAAAA
*
1757644 TATTAAATTTATGTAAAATATAAATTAAAAAAA
1 T-TTAAATTT-TATAAAATATAAATTAAAAAAA
1757677 TTTAAA
1 TTTAAA
1757683 ATATGATTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
31 1 0.03
32 13 0.41
33 18 0.56
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (31 bp):
TTTAAATTTTATAAAATATAAATTAAAAAAA
Found at i:1757813 original size:13 final size:14
Alignment explanation
Indices: 1757787--1757818 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
1757777 TTTGATTTAA
1757787 TTATATTATATTAT
1 TTATATTATATTAT
1757801 TTATATT-TATTAT
1 TTATATTATATTAT
1757814 TTATA
1 TTATA
1757819 ATTAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATATTATATTAT
Found at i:1758165 original size:21 final size:21
Alignment explanation
Indices: 1758121--1758177 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 21
1758111 CACTTTTTTA
*
1758121 TTTTAAAAAAATTAATAATTT
1 TTTTAAAAAAATTAATAATGT
*
1758142 TTTTAAAAAAATT-ATCACTGT
1 TTTTAAAAAAATTAAT-AATGT
1758163 TTTTATTAAAAAATT
1 TTTTA--AAAAAATT
1758178 TATTTATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 2 0.06
21 21 0.68
23 8 0.26
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (21 bp):
TTTTAAAAAAATTAATAATGT
Found at i:1758166 original size:24 final size:24
Alignment explanation
Indices: 1758106--1758180 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
1758096 TTTAAATTTT
*
1758106 TTATGCACTTTTTTATTTTAAAAAAA
1 TTAT-CACTATTTT-TTTTAAAAAAA
*
1758132 TTA--A-TAATTTTTTTAAAAAAA
1 TTATCACTATTTTTTTTAAAAAAA
* * *
1758153 TTATCACTGTTTTTATTAAAAAAT
1 TTATCACTATTTTTTTTAAAAAAA
1758177 TTAT
1 TTAT
1758181 TTATACACAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
21 14 0.35
22 4 0.10
23 2 0.05
24 17 0.43
26 3 0.08
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (24 bp):
TTATCACTATTTTTTTTAAAAAAA
Found at i:1762960 original size:5 final size:5
Alignment explanation
Indices: 1762942--1762982 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
1762932 AAATATCTTA
*
1762942 AATAT AATTAT AATAT AATGT AATAT -ATA- AATAT AATAT AA
1 AATAT AA-TAT AATAT AATAT AATAT AATAT AATAT AATAT AA
1762983 AATATATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
4 6 0.19
5 20 0.65
6 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (5 bp):
AATAT
Found at i:1762976 original size:18 final size:18
Alignment explanation
Indices: 1762953--1762988 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1762943 ATATAATTAT
* *
1762953 AATATAATGTAATATATA
1 AATATAATATAAAATATA
1762971 AATATAATATAAAATATA
1 AATATAATATAAAATATA
1762989 TTATTAAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
AATATAATATAAAATATA
Found at i:1763533 original size:18 final size:19
Alignment explanation
Indices: 1763495--1763533 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1763485 TAGAATATAA
**
1763495 ATATATTTAAAATTTTTAT
1 ATATATTTAAAATGGTTAT
1763514 ATATATTTAAAA-GGTTAT
1 ATATATTTAAAATGGTTAT
1763532 AT
1 AT
1763534 TTTTATACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
ATATATTTAAAATGGTTAT
Found at i:1764147 original size:20 final size:20
Alignment explanation
Indices: 1764122--1764160 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1764112 TCATTTTTAC
1764122 ATAATTATGTTCGACTATAT
1 ATAATTATGTTCGACTATAT
*
1764142 ATAATTATGTTGGACTATA
1 ATAATTATGTTCGACTATA
1764161 CGTTAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (20 bp):
ATAATTATGTTCGACTATAT
Found at i:1765323 original size:2 final size:2
Alignment explanation
Indices: 1765318--1765347 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1765308 CTCTCTCAAA
1765318 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1765348 TGTAGCTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1766351 original size:2 final size:2
Alignment explanation
Indices: 1766346--1766394 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
1766336 AAAAAATAAA
*
1766346 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1766388 AG AG AG A
1 AG AG AG A
1766395 AACATTGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1771354 original size:24 final size:24
Alignment explanation
Indices: 1771308--1771361 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
1771298 TAAAAATAAA
* * *
1771308 TTTTAATTATTTAATTATAAATTT
1 TTTTAATAATTAAAATATAAATTT
*
1771332 TTTTAATAATTAAAATATTAATTT
1 TTTTAATAATTAAAATATAAATTT
1771356 TTTTAA
1 TTTTAA
1771362 CATTTTTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTTAATAATTAAAATATAAATTT
Found at i:1771761 original size:18 final size:18
Alignment explanation
Indices: 1771738--1771777 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1771728 AGATTATTTT
*
1771738 TAAAATAAAGTATAA-ATA
1 TAAAATAAAAT-TAAGATA
1771756 TAAAATAAAATTAAGATA
1 TAAAATAAAATTAAGATA
1771774 TAAA
1 TAAA
1771778 TCTAATTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (18 bp):
TAAAATAAAATTAAGATA
Found at i:1773141 original size:15 final size:15
Alignment explanation
Indices: 1773121--1773162 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
1773111 TATTAAATAC
1773121 AAAAAATATAACATA
1 AAAAAATATAACATA
*
1773136 AAAAAATATAATATA
1 AAAAAATATAACATA
1773151 AAAATAATATAA
1 AAAA-AATATAA
1773163 ATATATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAAATATAACATA
Found at i:1773159 original size:11 final size:12
Alignment explanation
Indices: 1773138--1773170 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
1773128 ATAACATAAA
1773138 AAAATATAATAT
1 AAAATATAATAT
1773150 AAAA-ATAATAT
1 AAAATATAATAT
1773161 AAATATATAA
1 AAA-ATATAA
1773171 ATATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.53
12 5 0.26
13 4 0.21
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AAAATATAATAT
Found at i:1773180 original size:17 final size:17
Alignment explanation
Indices: 1773107--1773173 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 17
1773097 GAATTTCTTG
*
1773107 ATAATATTAAATA-CAAA
1 ATAATA-TAAATATAAAA
*
1773124 A-AATAT-AACATAAAA
1 ATAATATAAATATAAAA
1773139 A-AATAT-AATATAAAA
1 ATAATATAAATATAAAA
*
1773154 ATAATATAAATATATAA
1 ATAATATAAATATAAAA
1773171 ATA
1 ATA
1773174 TTTTAAAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
14 3 0.07
15 19 0.44
16 9 0.21
17 12 0.28
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
ATAATATAAATATAAAA
Found at i:1773574 original size:16 final size:15
Alignment explanation
Indices: 1773530--1773610 Score: 51
Period size: 16 Copynumber: 5.2 Consensus size: 15
1773520 AAAATTTAAT
1773530 TATTAAATAT-ATAA
1 TATTAAATATAATAA
*
1773544 T-TTTAATAATAAATAA
1 TATTAAAT-AT-AATAA
1773560 GTATTAAATATAATAAA
1 -TATTAAATATAAT-AA
* *
1773577 TATTTAATAAAATATA
1 TATTAAATATAATA-A
*
1773593 TATTTAAT-TAAATAA
1 TATTAAATAT-AATAA
1773608 TAT
1 TAT
1773611 AATTTTTAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 5 0.09
14 3 0.06
15 5 0.09
16 31 0.57
17 5 0.09
18 5 0.09
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (15 bp):
TATTAAATATAATAA
Found at i:1773587 original size:20 final size:19
Alignment explanation
Indices: 1773548--1773621 Score: 64
Period size: 20 Copynumber: 3.9 Consensus size: 19
1773538 ATATAATTTT
** *
1773548 AATAATAAATAAGTATTAA
1 AATAATAAATATTTAATAA
1773567 ATATAATAAATATTTAATAA
1 A-ATAATAAATATTTAATAA
*
1773587 AAT-AT--ATATTTAATTA
1 AATAATAAATATTTAATAA
*
1773603 AATAATATAATTTTTAATA
1 AATAATA-AATATTTAATA
1773622 TTATTTAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
16 13 0.30
17 2 0.05
18 2 0.05
19 3 0.07
20 24 0.55
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (19 bp):
AATAATAAATATTTAATAA
Found at i:1773619 original size:16 final size:16
Alignment explanation
Indices: 1773526--1773619 Score: 50
Period size: 16 Copynumber: 5.6 Consensus size: 16
1773516 TAAAAAAATT
*
1773526 TAATTATTAAAT-ATA
1 TAATTTTTAAATAATA
*
1773541 TAATTTTAATAATAA-A
1 TAATTTTTA-AATAATA
* *
1773557 TAAGTATTAAAT-ATAA
1 TAATTTTTAAATAAT-A
* *
1773573 TAAATATTTAATAAAATA
1 T-AATTTTTAA-ATAATA
1773591 TATATTTAATTAAATAATA
1 TA-ATTT--TTAAATAATA
1773610 TAATTTTTAA
1 TAATTTTTAA
1773620 TATTATTTAA
Statistics
Matches: 58, Mismatches: 11, Indels: 19
0.66 0.12 0.22
Matches are distributed among these distances:
14 1 0.02
15 10 0.17
16 16 0.28
17 8 0.14
18 10 0.17
19 9 0.16
20 4 0.07
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (16 bp):
TAATTTTTAAATAATA
Found at i:1773643 original size:26 final size:30
Alignment explanation
Indices: 1773587--1773645 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 30
1773577 TATTTAATAA
*
1773587 AATATATATTTAATTAAATAATATAATTTTT
1 AATATATATTTAATTAAAT-ATATAAATTTT
1773618 AATAT-TATTTAA-TAAAT-TA-AAATTTT
1 AATATATATTTAATTAAATATATAAATTTT
1773644 AA
1 AA
1773646 ATTTAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 8 0.30
27 2 0.07
29 5 0.19
30 7 0.26
31 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
AATATATATTTAATTAAATATATAAATTTT
Found at i:1773919 original size:36 final size:35
Alignment explanation
Indices: 1773874--1773944 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 35
1773864 AACATATAAA
1773874 ATAATATT-AAATATAATTATATAAAT-ATTATATAT
1 ATAATATTAAAATATAA-TAT-TAAATAATTATATAT
1773909 ATAATAATTAAAATATAATATTAAATAATTATATAT
1 ATAAT-ATTAAAATATAATATTAAATAATTATATAT
1773945 TTTAAAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
35 10 0.30
36 15 0.45
37 8 0.24
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (35 bp):
ATAATATTAAAATATAATATTAAATAATTATATAT
Found at i:1773929 original size:21 final size:23
Alignment explanation
Indices: 1773896--1773939 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
1773886 ATAATTATAT
1773896 AAATATTATATA-TATAATAATTA
1 AAATATTATATATTA-AATAATTA
1773919 AAATA-TA-ATATTAAATAATTA
1 AAATATTATATATTAAATAATTA
1773940 TATATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 11 0.55
22 4 0.20
23 5 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AAATATTATATATTAAATAATTA
Found at i:1773967 original size:39 final size:36
Alignment explanation
Indices: 1773882--1774004 Score: 107
Period size: 36 Copynumber: 3.4 Consensus size: 36
1773872 AAATAATATT
*
1773882 AAATATAATTATATAAAT-ATTATATA-TATAATAATTA
1 AAATATAA-TAT-TAAATAATTATATATTTTAA-AATTA
1773919 AAATATAATATTAAATAATTATATATTTTAAAATTTA
1 AAATATAATATTAAATAATTATATATTTTAAAA-TTA
*
1773956 TATAATATAATA-TAAATAA--AAATATTTTAAACA-T-
1 -A-AATATAATATTAAATAATTATATATTTTAAA-ATTA
*
1773990 AATTATAATATTAAA
1 AAATATAATATTAAA
1774005 AAAATAGAAA
Statistics
Matches: 76, Mismatches: 3, Indels: 18
0.78 0.03 0.19
Matches are distributed among these distances:
32 8 0.11
33 5 0.07
35 6 0.08
36 24 0.32
37 16 0.21
38 8 0.11
39 9 0.12
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (36 bp):
AAATATAATATTAAATAATTATATATTTTAAAATTA
Found at i:1781319 original size:20 final size:19
Alignment explanation
Indices: 1781296--1781363 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 19
1781286 TAAAAAAATT
1781296 TATTTTATTATTTAAAATAA
1 TATTTTATTATTT-AAATAA
* **
1781316 TATTATATTAATTTTTATAA
1 TATTTTATT-ATTTAAATAA
1781336 TTAATTTTATTATTTAAATAA
1 -T-ATTTTATTATTTAAATAA
*
1781357 TAATTTA
1 TATTTTA
1781364 AATTATAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
19 5 0.13
20 13 0.34
21 13 0.34
22 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTTATTATTTAAATAA
Found at i:1781373 original size:15 final size:14
Alignment explanation
Indices: 1781353--1781392 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
1781343 TATTATTTAA
1781353 ATAATAATTTAAATT
1 ATAATAATTT-AATT
1781368 ATAATAAATTTAATT
1 ATAAT-AATTTAATT
*
1781383 ATAAAAATTT
1 ATAATAATTT
1781393 TTATACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 5 0.22
15 13 0.57
16 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAATAATTTAATT
Found at i:1781677 original size:13 final size:13
Alignment explanation
Indices: 1781661--1781694 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
1781651 TCAATATTTT
*
1781661 ATATTTATAATTA
1 ATATATATAATTA
1781674 ATATATATAATTA
1 ATATATATAATTA
1781687 A-ATATATA
1 ATATATATA
1781695 TTTATATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATATATAATTA
Found at i:1782954 original size:14 final size:13
Alignment explanation
Indices: 1782930--1782968 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
1782920 ATTAAAAAAG
1782930 TATATA-TATATA
1 TATATATTATATA
*
1782942 TATATATTAATATT
1 TATATATT-ATATA
1782956 TATATATTATATA
1 TATATATTATATA
1782969 ATTAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 6 0.26
13 5 0.22
14 12 0.52
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATTATATA
Found at i:1783359 original size:28 final size:28
Alignment explanation
Indices: 1783303--1783361 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
1783293 AGAATATTAA
**
1783303 AAAAATATTTTTATAATTAAATTTAAAT
1 AAAAATATTTTTATAATTAAATAAAAAT
1783331 AAAAATATTATTT-T-ATTAAATAAATAAT
1 AAAAATATT-TTTATAATTAAATAAA-AAT
1783359 AAA
1 AAA
1783362 TTAAATTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.30
28 16 0.59
29 3 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
AAAAATATTTTTATAATTAAATAAAAAT
Found at i:1783389 original size:29 final size:31
Alignment explanation
Indices: 1783333--1783416 Score: 100
Period size: 30 Copynumber: 2.7 Consensus size: 31
1783323 ATTTAAATAA
* *
1783333 AAATATTATTTTATTAAATAAATAATAAATT
1 AAATATAATTTAATTAAATAAATAATAAATT
* *
1783364 AAAT-TGATTTAATTAAA-AAATTATAAATT
1 AAATATAATTTAATTAAATAAATAATAAATT
*
1783393 AAATATAATTTAAATAGAATAAAT
1 AAATATAATTTAATTA-AATAAAT
1783417 TACCCATACT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 15 0.33
30 20 0.44
31 6 0.13
32 4 0.09
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (31 bp):
AAATATAATTTAATTAAATAAATAATAAATT
Found at i:1783765 original size:27 final size:27
Alignment explanation
Indices: 1783727--1783824 Score: 71
Period size: 26 Copynumber: 3.7 Consensus size: 27
1783717 TTAATATATT
*
1783727 AATAATTA-ATATTATATGTATTTTAA
1 AATATTTATATATTATATGTATTTTAA
*
1783753 AATATTTATATATTTATATATGTATATT-A
1 AATATTTATATA--T-TATATGTATTTTAA
* *
1783782 TATTTTTATA-ATT-TAT-TATATTTAA
1 AATATTTATATATTATATGTAT-TTTAA
* *
1783807 ATTATTTTTATATTATAT
1 AATATTTATATATTATAT
1783825 TTATATGATA
Statistics
Matches: 55, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
23 3 0.05
24 5 0.09
25 8 0.15
26 11 0.20
27 6 0.11
28 1 0.02
29 10 0.18
30 11 0.20
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
AATATTTATATATTATATGTATTTTAA
Found at i:1783767 original size:8 final size:8
Alignment explanation
Indices: 1783754--1783824 Score: 54
Period size: 8 Copynumber: 8.2 Consensus size: 8
1783744 GTATTTTAAA
1783754 ATATTTAT
1 ATATTTAT
1783762 ATATTTAT
1 ATATTTAT
1783770 ATATGTATATT
1 ATAT-T-TA-T
*
1783781 ATATTTTT
1 ATATTTAT
1783789 ATAATTTATT
1 AT-ATTTA-T
*
1783799 ATATTTAA
1 ATATTTAT
*
1783807 ATTATTTTT
1 A-TATTTAT
1783816 ATA-TTAT
1 ATATTTAT
1783823 AT
1 AT
1783825 TTATATGATA
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
7 5 0.10
8 18 0.35
9 17 0.33
10 6 0.12
11 5 0.10
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (8 bp):
ATATTTAT
Found at i:1783784 original size:21 final size:18
Alignment explanation
Indices: 1783758--1783802 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
1783748 TTTAAAATAT
1783758 TTATATATTTATATATGTATA
1 TTATATATTTATA-AT-T-TA
*
1783779 TTATATTTTTATAATTTA
1 TTATATATTTATAATTTA
1783797 TTATAT
1 TTATAT
1783803 TTAAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 8 0.35
19 1 0.04
20 2 0.09
21 12 0.52
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTATATATTTATAATTTA
Found at i:1783825 original size:27 final size:26
Alignment explanation
Indices: 1783735--1783830 Score: 79
Period size: 27 Copynumber: 3.5 Consensus size: 26
1783725 TTAATAATTA
* *
1783735 ATATTATATGTAT-TTTAAAATATTTAT
1 ATATT-TAT-TATATTTAAATTATTTTT
* *
1783762 ATATTTA-TATATGTATATTATATTTTT
1 ATATTTATTATATTTA-AAT-TATTTTT
1783789 ATAATTTATTATATTTAAATTATTTTT
1 AT-ATTTATTATATTTAAATTATTTTT
1783816 ATATTATATTTATAT
1 ATATT-TA-TTATAT
1783831 GATATAATGA
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
24 3 0.05
25 3 0.05
26 6 0.11
27 24 0.43
28 13 0.23
29 7 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
ATATTTATTATATTTAAATTATTTTT
Found at i:1783828 original size:11 final size:11
Alignment explanation
Indices: 1783754--1783835 Score: 62
Period size: 11 Copynumber: 7.4 Consensus size: 11
1783744 GTATTTTAAA
1783754 ATATTTATA-T
1 ATATTTATATT
1783764 AT-TTATATATGT
1 ATATT-TATAT-T
*
1783776 ATATTATATTTTT
1 ATATT-TA-TATT
*
1783789 ATAATT-TATT
1 ATATTTATATT
*
1783799 ATATTTAAATT
1 ATATTTATATT
*
1783810 ATTTTTATATT
1 ATATTTATATT
*
1783821 ATATTTATATG
1 ATATTTATATT
1783832 ATAT
1 ATAT
1783836 AATGAAGAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
9 2 0.04
10 14 0.25
11 25 0.44
12 4 0.07
13 10 0.18
14 2 0.04
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
ATATTTATATT
Found at i:1784297 original size:17 final size:17
Alignment explanation
Indices: 1784277--1784310 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1784267 TATGTATTTA
* *
1784277 TTTTATTTATTTTAATT
1 TTTTATGTATTGTAATT
1784294 TTTTATGTATTGTAATT
1 TTTTATGTATTGTAATT
1784311 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTTATGTATTGTAATT
Found at i:1784344 original size:27 final size:27
Alignment explanation
Indices: 1784314--1784391 Score: 84
Period size: 32 Copynumber: 2.7 Consensus size: 27
1784304 TGTAATTATA
*
1784314 TTTAAAATATTATATATTTATATAAAT
1 TTTAATATATTATATATTTATATAAAT
*
1784341 TTTAATATGTTAATAATTTATATTATATAAAT
1 TTTAATATATT-AT-A--TAT-TTATATAAAT
1784373 TTTAATATATTTATATATT
1 TTTAATATA-TTATATATT
1784392 ATTTTTATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
27 9 0.21
28 3 0.07
29 4 0.10
31 4 0.10
32 20 0.48
33 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (27 bp):
TTTAATATATTATATATTTATATAAAT
Found at i:1784368 original size:54 final size:53
Alignment explanation
Indices: 1784308--1784424 Score: 129
Period size: 52 Copynumber: 2.3 Consensus size: 53
1784298 ATGTATTGTA
* *
1784308 ATTATATTTAAAATATT-ATATATTTATATA-AATTTTAATATGT-T-AATAAT
1 ATTATATTTAAAATATTAATATATTTATATATAATTTTTATAT-TATAAATTAT
* *
1784358 -TTATATTATATAAATTTTAATATATTTATATATTATTTTTATATTATAAATTAT
1 ATTATATT-TA-AAATATTAATATATTTATATATAATTTTTATATTATAAATTAT
1784412 ATT-TATTTAAAAT
1 ATTATATTTAAAAT
1784425 TATCCAATTA
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
49 7 0.12
50 2 0.04
51 6 0.11
52 18 0.32
53 12 0.21
54 9 0.16
55 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.56
Consensus pattern (53 bp):
ATTATATTTAAAATATTAATATATTTATATATAATTTTTATATTATAAATTAT
Found at i:1784404 original size:18 final size:18
Alignment explanation
Indices: 1784357--1784417 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
1784347 ATGTTAATAA
*
1784357 TTTATATTATATA-AATT
1 TTTATATTATATATTATT
1784374 TTAATATATTTATATATTATT
1 TT--TATA-TTATATATTATT
* *
1784395 TTTATATTATAAATTATA
1 TTTATATTATATATTATT
1784413 TTTAT
1 TTTAT
1784418 TTAAAATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 2 0.05
18 15 0.41
19 8 0.22
20 7 0.19
21 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATATTATATATTATT
Found at i:1784903 original size:10 final size:10
Alignment explanation
Indices: 1784888--1784954 Score: 92
Period size: 10 Copynumber: 7.3 Consensus size: 10
1784878 ATTCACTCAA
1784888 TATTTATATG
1 TATTTATATG
1784898 TATTTATA--
1 TATTTATATG
1784906 TATTTATATG
1 TATTTATATG
1784916 TATTTATA--
1 TATTTATATG
1784924 TATTTATA--
1 TATTTATATG
1784932 TATTTATATG
1 TATTTATATG
1784942 TATTTATATG
1 TATTTATATG
1784952 TAT
1 TAT
1784955 AAATAAAATT
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
8 24 0.45
10 29 0.55
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (10 bp):
TATTTATATG
Found at i:1784910 original size:18 final size:18
Alignment explanation
Indices: 1784887--1784954 Score: 104
Period size: 18 Copynumber: 3.8 Consensus size: 18
1784877 AATTCACTCA
1784887 ATATTTATATGTATTTAT
1 ATATTTATATGTATTTAT
1784905 ATATTTATATGTATTTAT
1 ATATTTATATGTATTTAT
1784923 ATATTTATA--TATTTAT
1 ATATTTATATGTATTTAT
1784939 ATGTATTTATATGTAT
1 A--TATTTATATGTAT
1784955 AAATAAAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.17
18 35 0.76
20 3 0.07
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
ATATTTATATGTATTTAT
Found at i:1784932 original size:26 final size:26
Alignment explanation
Indices: 1784888--1784950 Score: 108
Period size: 26 Copynumber: 2.3 Consensus size: 26
1784878 ATTCACTCAA
1784888 TATTTATATGTATTTATATATTTATATG
1 TATTTATA--TATTTATATATTTATATG
1784916 TATTTATATATTTATATATTTATATG
1 TATTTATATATTTATATATTTATATG
1784942 TATTTATAT
1 TATTTATAT
1784951 GTATAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
26 27 0.77
28 8 0.23
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (26 bp):
TATTTATATATTTATATATTTATATG
Found at i:1784981 original size:18 final size:19
Alignment explanation
Indices: 1784887--1784984 Score: 103
Period size: 18 Copynumber: 5.2 Consensus size: 19
1784877 AATTCACTCA
1784887 ATATTTATATGTATT-TAT
1 ATATTTATATGTATTATAT
1784905 ATATTTATATGTATT-TAT
1 ATATTTATATGTATTATAT
*
1784923 ATATTTATATAT-TTATAT
1 ATATTTATATGTATTATAT
* * *
1784941 GTATTTATATGTATAAATAAA
1 ATATTTATATGTAT-TAT-AT
*
1784962 ATTATTTATATGTATTAAAT
1 A-TATTTATATGTATTATAT
1784982 ATA
1 ATA
1784985 ACTCCAAGAT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
17 2 0.03
18 42 0.64
19 3 0.05
20 4 0.06
21 2 0.03
22 13 0.20
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
ATATTTATATGTATTATAT
Found at i:1786285 original size:3 final size:3
Alignment explanation
Indices: 1786277--1786315 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
1786267 TTACCATGTA
1786277 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1786316 TTCTTCTTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:1787118 original size:30 final size:30
Alignment explanation
Indices: 1787012--1787126 Score: 75
Period size: 30 Copynumber: 4.0 Consensus size: 30
1787002 GCATAGATTT
* *
1787012 TATAA-TTAGTATATTT-TTATTTATATTT-
1 TATAATTTAATATATTTATAATTTAT-TTTA
* *
1787040 TA-AATATAATTATATTTAAAATATT-TTTTA
1 TATAATTTAA-TATATTTATAAT-TTATTTTA
* * *
1787070 TATATTTTAATTTGTTTATAATTTATTTTA
1 TATAATTTAATATATTTATAATTTATTTTA
1787100 TATAAATTT-ATATATTTAT-A-TTATTTT
1 TAT-AATTTAATATATTTATAATTTATTTT
1787127 TTTATTTTAT
Statistics
Matches: 67, Mismatches: 12, Indels: 16
0.71 0.13 0.17
Matches are distributed among these distances:
27 2 0.03
28 11 0.16
29 13 0.19
30 30 0.45
31 11 0.16
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (30 bp):
TATAATTTAATATATTTATAATTTATTTTA
Found at i:1787135 original size:18 final size:18
Alignment explanation
Indices: 1787091--1787138 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
1787081 TTGTTTATAA
1787091 TTTATTTTATA-TAAATT
1 TTTATTTTATATTAAATT
* **
1787108 TATATATTTATATTATTTT
1 TTTAT-TTTATATTAAATT
1787127 TTTATTTTATAT
1 TTTATTTTATAT
1787139 GCATCGTGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 4 0.16
18 13 0.52
19 8 0.32
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTATTTTATATTAAATT
Found at i:1787301 original size:25 final size:23
Alignment explanation
Indices: 1787263--1787309 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1787253 TTTAAATACT
1787263 TTATAAATTTTTATTGATAATTTTA
1 TTATAAATTTTTA-T-ATAATTTTA
1787288 TTAT-AATTTATTATATAATTTT
1 TTATAAATTT-TTATATAATTTT
1787310 TATTTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 8 0.38
24 6 0.29
25 7 0.33
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TTATAAATTTTTATATAATTTTA
Found at i:1787304 original size:12 final size:11
Alignment explanation
Indices: 1787262--1787312 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
1787252 ATTTAAATAC
1787262 TTTATA-AATT
1 TTTATATAATT
1787272 TTTATTGATAA-T
1 TTTA-T-ATAATT
1787284 TTTATTATAATT
1 TTTA-TATAATT
1787296 TATTATATAATT
1 T-TTATATAATT
1787308 TTTAT
1 TTTAT
1787313 TTTTATTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
10 4 0.11
11 9 0.25
12 18 0.50
13 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
TTTATATAATT
Found at i:1787684 original size:13 final size:13
Alignment explanation
Indices: 1787666--1787706 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
1787656 TTTTATTTTT
*
1787666 TTAAATATTTATG
1 TTAAATATTTATA
1787679 TTAAATATTTATA
1 TTAAATATTTATA
*
1787692 TTTAATATTATATA
1 TTAAATATT-TATA
1787706 T
1 T
1787707 ATTTAGATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 20 0.80
14 5 0.20
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (13 bp):
TTAAATATTTATA
Found at i:1791837 original size:3 final size:3
Alignment explanation
Indices: 1791829--1791859 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1791819 TGCTGACATG
1791829 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1791860 AGGCCTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:1792546 original size:12 final size:12
Alignment explanation
Indices: 1792498--1792553 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
1792488 CGTAAATAAA
1792498 TATTATATTATAT
1 TATTATA-TATAT
1792511 TATTATATA-AT
1 TATTATATATAT
*
1792522 T-TTTTATAT-T
1 TATTATATATAT
*
1792532 TATTAAATATAT
1 TATTATATATAT
*
1792544 TATTTTATAT
1 TATTATATAT
1792554 TTTCGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 8 0.23
11 9 0.26
12 11 0.31
13 7 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATATATAT
Found at i:1792549 original size:23 final size:23
Alignment explanation
Indices: 1792497--1792555 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 23
1792487 TCGTAAATAA
* *
1792497 ATATTATATTATA-TTATTATAT
1 ATATTATTTTATATTTATTAAAT
1792519 A-ATT-TTTTATATTTATTAAAT
1 ATATTATTTTATATTTATTAAAT
1792540 ATATTATTTTATATTT
1 ATATTATTTTATATTT
1792556 TCGTGACATG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 6 0.19
21 12 0.38
22 4 0.12
23 10 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
ATATTATTTTATATTTATTAAAT
Found at i:1792979 original size:32 final size:32
Alignment explanation
Indices: 1792933--1792996 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
1792923 ATATAAATAT
*
1792933 AGCTTATATAAAATTTAAAATTATTATGTGTA
1 AGCTTATATAAAATTTAAAAATATTATGTGTA
* * *
1792965 AGCTTATGTGAAATTTAAAAATGTTATGTGTA
1 AGCTTATATAAAATTTAAAAATATTATGTGTA
1792997 TGTATTGAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.42
Consensus pattern (32 bp):
AGCTTATATAAAATTTAAAAATATTATGTGTA
Found at i:1793981 original size:7 final size:7
Alignment explanation
Indices: 1793969--1794040 Score: 66
Period size: 7 Copynumber: 11.1 Consensus size: 7
1793959 ATTAATTTAA
1793969 TTAAATT
1 TTAAATT
1793976 TTAAATT
1 TTAAATT
1793983 TT--ATT
1 TTAAATT
*
1793988 TTATATT
1 TTAAATT
*
1793995 TTAAAGT
1 TTAAATT
1794002 TTAAA--
1 TTAAATT
* *
1794007 -AAAATA
1 TTAAATT
1794013 TTAAATT
1 TTAAATT
1794020 TTAAATT
1 TTAAATT
1794027 TTAAA-T
1 TTAAATT
1794033 TTAAATT
1 TTAAATT
1794040 T
1 T
1794041 ATTGAGTGTC
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
4 3 0.06
5 5 0.09
6 6 0.11
7 40 0.74
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (7 bp):
TTAAATT
Found at i:1795508 original size:17 final size:17
Alignment explanation
Indices: 1795476--1795507 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1795466 GATTTTAATT
1795476 TCATATCTATTTTTTTA
1 TCATATCTATTTTTTTA
1795493 TCATATCT-TTTTTTT
1 TCATATCTATTTTTTT
1795508 TTTTGATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.69
Consensus pattern (17 bp):
TCATATCTATTTTTTTA
Found at i:1798607 original size:15 final size:16
Alignment explanation
Indices: 1798589--1798623 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
1798579 ATAAATTTAA
1798589 ATTTTA-AATATTATT
1 ATTTTATAATATTATT
1798604 A-TTTATAATATTATT
1 ATTTTATAATATTATT
1798619 ATTTT
1 ATTTT
1798624 TATTTATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.22
15 11 0.61
16 3 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTTATAATATTATT
Found at i:1800833 original size:18 final size:18
Alignment explanation
Indices: 1800807--1800854 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
1800797 ACGGCTATAA
*
1800807 TCATCGTGTTTGGTGTCT
1 TCATTGTGTTTGGTGTCT
1800825 TCATTGTGTTTGGTGTCT
1 TCATTGTGTTTGGTGTCT
*
1800843 TCTTTGATGTTT
1 TCATTG-TGTTT
1800855 TGGGGTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.06, C:0.12, G:0.25, T:0.56
Consensus pattern (18 bp):
TCATTGTGTTTGGTGTCT
Found at i:1801108 original size:27 final size:28
Alignment explanation
Indices: 1801043--1801116 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 28
1801033 TAATAGATGA
*
1801043 TATAAATATATAAATATATTTTAAATTT
1 TATAAATATATAAATATATCTTAAATTT
* *
1801071 TATAAAAATATATA-ATATCTTAAATTT
1 TATAAATATATAAATATATCTTAAATTT
* * *
1801098 TATTACTATATAAAAATAT
1 TATAAATATATAAATATAT
1801117 AATACAAACA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAAATATATAAATATATCTTAAATTT
Found at i:1801683 original size:2 final size:2
Alignment explanation
Indices: 1801676--1801706 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1801666 GTAAAACATT
1801676 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1801707 GTCTGTACGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1801934 original size:33 final size:35
Alignment explanation
Indices: 1801896--1801976 Score: 100
Period size: 33 Copynumber: 2.5 Consensus size: 35
1801886 GATATATTCA
*
1801896 AATATAATTAATAAAATTAAT-TTA-ATTTATTTT
1 AATATAATTAATAAAATTAATGTTATATTTATATT
* *
1801929 AATATATTTAAT--AATTTATGTTATATTTATATT
1 AATATAATTAATAAAATTAATGTTATATTTATATT
1801962 -ATATAATTAATAAAA
1 AATATAATTAATAAAA
1801977 AATAAACGAC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
31 6 0.15
32 13 0.32
33 19 0.47
34 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (35 bp):
AATATAATTAATAAAATTAATGTTATATTTATATT
Found at i:1805472 original size:17 final size:19
Alignment explanation
Indices: 1805452--1805493 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
1805442 TTTAATTATA
*
1805452 TTATTTAA-A-TATTATTT
1 TTATTTAATATTAATATTT
1805469 TTATATTAATATTAATATTT
1 TTAT-TTAATATTAATATTT
1805489 TTATT
1 TTATT
1805494 AATTAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.19
18 4 0.19
19 2 0.10
20 11 0.52
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTTAATATTAATATTT
Found at i:1805508 original size:23 final size:23
Alignment explanation
Indices: 1805447--1805508 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
1805437 TTTTATTTAA
1805447 TTATATT-ATTTAAATATTATTT
1 TTATATTAATTTAAATATTATTT
1805469 TTATATTAATATT-AATATT-TTT
1 TTATATTAAT-TTAAATATTATTT
1805491 ATTA-ATTAAATTTAAATA
1 -TTATATT-AATTTAAATA
1805509 AAAAAATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
22 15 0.43
23 18 0.51
24 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTATATTAATTTAAATATTATTT
Found at i:1805542 original size:17 final size:17
Alignment explanation
Indices: 1805500--1805543 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
1805490 TATTAATTAA
*
1805500 ATTTAAATAAAAAAATT
1 ATTTAAATTAAAAAATT
* *
1805517 ATTT-TATTAAATAATT
1 ATTTAAATTAAAAAATT
1805533 ATTTAAATTAA
1 ATTTAAATTAA
1805544 TTTAATATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAAATTAAAAAATT
Found at i:1806650 original size:13 final size:13
Alignment explanation
Indices: 1806634--1806665 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1806624 ATTTTTTTTA
1806634 AATATTTATATTT
1 AATATTTATATTT
*
1806647 AATATTTTTATTT
1 AATATTTATATTT
1806660 AATATT
1 AATATT
1806666 AAAATATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:1807000 original size:19 final size:22
Alignment explanation
Indices: 1806975--1807023 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
1806965 GTGAATATTG
1806975 AATATTT-AAA-TTTTAAAAAT
1 AATATTTAAAATTTTTAAAAAT
1806995 -ATATTTAAAATTTTTTAAAAAT
1 AATATTTAAAA-TTTTTAAAAAT
1807017 AATATTT
1 AATATTT
1807024 TTATATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.24
20 3 0.12
22 10 0.40
23 6 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATATTTAAAATTTTTAAAAAT
Found at i:1807866 original size:13 final size:13
Alignment explanation
Indices: 1807848--1807872 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1807838 AATTATTAAC
1807848 TATATTTAATATA
1 TATATTTAATATA
1807861 TATATTTAATAT
1 TATATTTAATAT
1807873 TAAATATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATATTTAATATA
Found at i:1808683 original size:12 final size:12
Alignment explanation
Indices: 1808650--1808684 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1808640 AAAAATAATT
1808650 TTATTTAAAAAA
1 TTATTTAAAAAA
**
1808662 TTATAAAAAAAA
1 TTATTTAAAAAA
1808674 TTATTTAAAAA
1 TTATTTAAAAA
1808685 TAATTAATCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TTATTTAAAAAA
Found at i:1808780 original size:30 final size:29
Alignment explanation
Indices: 1808720--1808775 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
1808710 TTAAATAATT
* *
1808720 TTTTAATTATATTTAAATTTAAATTATATA
1 TTTTAAATAAATTTAAA-TTAAATTATATA
1808750 TTTTAAATAAATTTAAA-TAAA-TATAT
1 TTTTAAATAAATTTAAATTAAATTATAT
1808776 TATATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.21
28 4 0.17
30 15 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
TTTTAAATAAATTTAAATTAAATTATATA
Found at i:1808781 original size:2 final size:2
Alignment explanation
Indices: 1808770--1808810 Score: 52
Period size: 2 Copynumber: 21.5 Consensus size: 2
1808760 ATTTAAATAA
1808770 AT AT AT -T AT AT AT AT -T A- AT AT CAT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
1808810 A
1 A
1808811 AATCCGATCC
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
1 3 0.09
2 30 0.86
3 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1808807 original size:17 final size:16
Alignment explanation
Indices: 1808770--1808810 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
1808760 ATTTAAATAA
*
1808770 ATATATTATATATATT
1 ATATATCATATATATT
1808786 A-ATATCATATATA-T
1 ATATATCATATATATT
1808800 ATATAT-ATATA
1 ATATATCATATA
1808811 AATCCGATCC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 7 0.30
15 15 0.65
16 1 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATATCATATATATT
Found at i:1814169 original size:20 final size:20
Alignment explanation
Indices: 1814132--1814170 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1814122 TAAAAAAAAT
*
1814132 TATATTTTATAATTTATATA
1 TATATTTTATAATATATATA
1814152 TATATATTTA-AATATATAT
1 TATAT-TTTATAATATATAT
1814171 CAAATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATATTTTATAATATATATA
Found at i:1818236 original size:23 final size:21
Alignment explanation
Indices: 1818210--1818255 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
1818200 ATATTTAAAT
*
1818210 TCAATTTAAAAAAATTAAATTTA
1 TCAAATTAAAAAAA-T-AATTTA
*
1818233 TCAAATTAAATAAATAATTTA
1 TCAAATTAAAAAAATAATTTA
1818254 TC
1 TC
1818256 GGTCCAGACG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 1 0.05
23 12 0.57
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (21 bp):
TCAAATTAAAAAAATAATTTA
Found at i:1819361 original size:17 final size:16
Alignment explanation
Indices: 1819339--1819375 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
1819329 TAATAATTTA
1819339 TATATTTACATTATAAT
1 TATATTTACATTAT-AT
*
1819356 TATATTTATATTATAT
1 TATATTTACATTATAT
1819372 TATA
1 TATA
1819376 ATTATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATTTACATTATAT
Found at i:1819368 original size:11 final size:11
Alignment explanation
Indices: 1819339--1819409 Score: 60
Period size: 11 Copynumber: 6.6 Consensus size: 11
1819329 TAATAATTTA
*
1819339 TATATTTACAT
1 TATATTTATAT
*
1819350 TATAATTATAT
1 TATATTTATAT
1819361 T-TATATTATAT
1 TATAT-TTATAT
*
1819372 TATAATTATATT
1 TATATTTATA-T
*
1819384 TAAATTT-T-T
1 TATATTTATAT
1819393 TATATTTATAT
1 TATATTTATAT
1819404 TA-ATTT
1 TATATTT
1819410 TAATAAATTA
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
9 7 0.15
10 7 0.15
11 26 0.54
12 8 0.17
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (11 bp):
TATATTTATAT
Found at i:1819400 original size:6 final size:6
Alignment explanation
Indices: 1819339--1819474 Score: 56
Period size: 6 Copynumber: 23.2 Consensus size: 6
1819329 TAATAATTTA
* * *
1819339 TATATT TACA-T TATAAT TATATT TATA-T TATA-T TATAAT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
* * *
1819384 TA-AAT T-T-TT TATATT TATATT AAT-TT TAATAAATT AATAATT TATA-T
1 TATATT TATATT TATATT TATATT TATATT T-AT--ATT TAT-ATT TATATT
* * * * *
1819431 TATATA TAT-TT TAAAATA TATATT TATAAT CATATT TAATATT T
1 TATATT TATATT T-ATATT TATATT TATATT TATATT T-ATATT T
1819475 TGGAGGAAGT
Statistics
Matches: 97, Mismatches: 20, Indels: 25
0.68 0.14 0.18
Matches are distributed among these distances:
4 2 0.02
5 27 0.28
6 50 0.52
7 14 0.14
8 2 0.02
9 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (6 bp):
TATATT
Found at i:1820126 original size:40 final size:35
Alignment explanation
Indices: 1820050--1820124 Score: 96
Period size: 39 Copynumber: 2.0 Consensus size: 35
1820040 TGAGCTTACC
**
1820050 TATTTAAATTATTATTTATATAATAAAAAATATTT
1 TATTTAAATTATTATAAATATAATAAAAAATATTT
1820085 TATTTAAATTTAATTATAAATATTAATATAAAAATATTT
1 TATTTAAA-TT-ATTATAAATA-TAATA-AAAAATATTT
1820124 T
1 T
1820125 TAAATTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 8 0.24
36 2 0.06
37 8 0.24
38 5 0.15
39 11 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (35 bp):
TATTTAAATTATTATAAATATAATAAAAAATATTT
Found at i:1821260 original size:16 final size:16
Alignment explanation
Indices: 1821235--1821268 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1821225 TGATTCAGAT
1821235 TAATTATTATTTAAAA
1 TAATTATTATTTAAAA
*
1821251 TAATTTTTATTTAAAA
1 TAATTATTATTTAAAA
1821267 TA
1 TA
1821269 TCATTACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TAATTATTATTTAAAA
Found at i:1822668 original size:35 final size:36
Alignment explanation
Indices: 1822591--1822680 Score: 164
Period size: 36 Copynumber: 2.5 Consensus size: 36
1822581 TAATAACTTT
*
1822591 AATTCCATATAGCCAAAATTTATTTCACTTAAAAAA
1 AATTCCAAATAGCCAAAATTTATTTCACTTAAAAAA
1822627 AATTCCAAATAGCCAAAATTTATTTCACTT-AAAAA
1 AATTCCAAATAGCCAAAATTTATTTCACTTAAAAAA
1822662 AATTCCAAATAGCCAAAAT
1 AATTCCAAATAGCCAAAAT
1822681 ATAGTAATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 24 0.45
36 29 0.55
ACGTcount: A:0.49, C:0.18, G:0.03, T:0.30
Consensus pattern (36 bp):
AATTCCAAATAGCCAAAATTTATTTCACTTAAAAAA
Found at i:1822696 original size:35 final size:35
Alignment explanation
Indices: 1822591--1822683 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 35
1822581 TAATAACTTT
* * * *
1822591 AATTCCATATAGCCAAAATTTATTTCACTTAAAAAA
1 AATTCCAAATAGCCAAAATATATATCAC-AAAAAAA
* * **
1822627 AATTCCAAATAGCCAAAATTTATTTCACTTAAAAA
1 AATTCCAAATAGCCAAAATATATATCACAAAAAAA
1822662 AATTCCAAATAGCCAAAATATA
1 AATTCCAAATAGCCAAAATATA
1822684 GTAATAAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 27 0.50
36 27 0.50
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.30
Consensus pattern (35 bp):
AATTCCAAATAGCCAAAATATATATCACAAAAAAA
Found at i:1823040 original size:22 final size:21
Alignment explanation
Indices: 1822999--1823040 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1822989 TATTTTTATT
1822999 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAATATA
1823020 TAAATATT-ATTATAAAA-ATA
1 TAAAT-TTAATTATAAAATATA
1823040 T
1 T
1823041 TTTTAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 14 0.70
22 2 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATA
Found at i:1824578 original size:25 final size:23
Alignment explanation
Indices: 1824549--1824625 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
1824539 AATTAGTATG
1824549 TAAATATAAAAATAATATAATTTAT
1 TAAATATAAAAATAATATAA--TAT
*
1824574 TAAATATATTAAAAT-ATTTAATAT
1 TAAATATA--AAAATAATATAATAT
** **
1824598 TAAATATAATTATAATATGTTAT
1 TAAATATAAAAATAATATAATAT
1824621 TAAAT
1 TAAAT
1824626 TTATAATATT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 3 0.07
23 11 0.26
24 11 0.26
25 8 0.19
26 5 0.12
27 5 0.12
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (23 bp):
TAAATATAAAAATAATATAATAT
Found at i:1824599 original size:15 final size:18
Alignment explanation
Indices: 1824579--1824615 Score: 53
Period size: 15 Copynumber: 2.2 Consensus size: 18
1824569 TTTATTAAAT
1824579 ATATTAAA-AT-ATT-TA
1 ATATTAAATATAATTATA
1824594 ATATTAAATATAATTATA
1 ATATTAAATATAATTATA
1824612 ATAT
1 ATAT
1824616 GTTATTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
16 2 0.11
17 3 0.16
18 6 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATTAAATATAATTATA
Found at i:1825234 original size:16 final size:15
Alignment explanation
Indices: 1825213--1825253 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 15
1825203 TATTTAATAT
*
1825213 ATTTAATTTTTTTTAA
1 ATTTAATTATTTTT-A
1825229 ATTTAAATTATTTTTA
1 ATTT-AATTATTTTTA
1825245 ATTTAATTA
1 ATTTAATTA
1825254 AAATTTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 5 0.22
16 9 0.39
17 9 0.39
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTTAATTATTTTTA
Found at i:1825641 original size:18 final size:18
Alignment explanation
Indices: 1825604--1825642 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1825594 AAAAATATTT
* *
1825604 AATTTAAACTCGAATTTA
1 AATTTAAACTCAAATATA
*
1825622 AATTTAAATTCAAATATA
1 AATTTAAACTCAAATATA
1825640 AAT
1 AAT
1825643 AATTAAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (18 bp):
AATTTAAACTCAAATATA
Found at i:1825947 original size:14 final size:14
Alignment explanation
Indices: 1825928--1825975 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 14
1825918 AAACTCAAAT
1825928 TTAAATATAAATAA
1 TTAAATATAAATAA
*
1825942 TTAAATTTAAAATAA
1 TTAAATAT-AAATAA
1825957 --AAATATAAA-AA
1 TTAAATATAAATAA
1825968 TTAAATAT
1 TTAAATAT
1825976 TTTATTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
11 2 0.07
12 3 0.10
13 11 0.38
14 7 0.24
15 6 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TTAAATATAAATAA
Found at i:1825949 original size:20 final size:21
Alignment explanation
Indices: 1825924--1825975 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1825914 AATCAAACTC
1825924 AAATTTAAATATAAATAAT-T-
1 AAATTTAAATATAAA-AATATA
1825944 AAATTTAAA-ATAAAAATATA
1 AAATTTAAATATAAAAATATA
*
1825964 AAAATTAAATAT
1 AAATTTAAATAT
1825976 TTTATTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 3 0.11
19 6 0.21
20 17 0.61
21 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATTTAAATATAAAAATATA
Found at i:1826321 original size:26 final size:26
Alignment explanation
Indices: 1826269--1826325 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
1826259 CATTCGAAAG
1826269 TAAATTTAAATTTAAATATAAATAAT
1 TAAATTTAAATTTAAATATAAATAAT
*
1826295 TAAATTTAAAATTTTAATATAAA-AAT
1 TAAATTT-AAATTTAAATATAAATAAT
1826321 TAAAT
1 TAAAT
1826326 ATATTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
TAAATTTAAATTTAAATATAAATAAT
Found at i:1826326 original size:13 final size:13
Alignment explanation
Indices: 1826280--1826328 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
1826270 AAATTTAAAT
1826280 TTAAATATAAATAA
1 TTAAATATAAA-AA
* *
1826294 TTAAATTTAAAAT
1 TTAAATATAAAAA
*
1826307 TTTAATATAAAAA
1 TTAAATATAAAAA
1826320 TTAAATATA
1 TTAAATATA
1826329 TTTTTATTGA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
13 19 0.66
14 10 0.34
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAAATATAAAAA
Found at i:1826714 original size:25 final size:24
Alignment explanation
Indices: 1826686--1826752 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 24
1826676 CGTATTTATA
*
1826686 ATATTATATCTATATATAGTAAAAT
1 ATATTATATTTATATATA-TAAAAT
*
1826711 ATATTAATAATTTATATTATATAAATT
1 ATATT-AT-ATTTATA-TATATAAAAT
*
1826738 TTATTATATTTATAT
1 ATATTATATTTATAT
1826753 TATTTTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
24 1 0.03
25 12 0.33
26 4 0.11
27 15 0.42
28 4 0.11
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (24 bp):
ATATTATATTTATATATATAAAAT
Found at i:1826742 original size:14 final size:15
Alignment explanation
Indices: 1826710--1826746 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
1826700 TATAGTAAAA
1826710 TATATTA-AT-AATT
1 TATATTATATAAATT
1826723 TATATTATATAAATT
1 TATATTATATAAATT
1826738 T-TATTATAT
1 TATATTATAT
1826747 TTATATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.32
14 10 0.45
15 5 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATATTATATAAATT
Found at i:1826753 original size:11 final size:11
Alignment explanation
Indices: 1826710--1826775 Score: 51
Period size: 11 Copynumber: 5.5 Consensus size: 11
1826700 TATAGTAAAA
1826710 TATATTAATAATT
1 TATATT-AT-ATT
1826723 TATATTATATAAAT
1 TATATTATAT---T
*
1826737 TTTATTATATT
1 TATATTATATT
*
1826748 TATATTATTTT
1 TATATTATATT
* *
1826759 TATTTTATAGT
1 TATATTATATT
1826770 TATATT
1 TATATT
1826776 TAATTATTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
11 25 0.58
12 2 0.05
13 6 0.14
14 10 0.23
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATATTATATT
Found at i:1826754 original size:25 final size:26
Alignment explanation
Indices: 1826686--1826755 Score: 81
Period size: 25 Copynumber: 2.7 Consensus size: 26
1826676 CGTATTTATA
*
1826686 ATATTATATCTATA-TATAGTAAAAT
1 ATATTATATTTATATTATAGTAAAAT
*
1826711 ATATTAATAATTTATATTATA-TAAATT
1 ATATT-AT-ATTTATATTATAGTAAAAT
*
1826738 TTATTATATTTATATTAT
1 ATATTATATTTATATTAT
1826756 TTTTATTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
25 16 0.41
26 4 0.10
27 15 0.38
28 4 0.10
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (26 bp):
ATATTATATTTATATTATAGTAAAAT
Found at i:1826795 original size:28 final size:28
Alignment explanation
Indices: 1826741--1826795 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
1826731 ATAAATTTTA
**
1826741 TTATATTTATATTATTTTTATTTTATAG
1 TTATATTTATATTATTTTTATACTATAG
1826769 TTATATTTA-ATTATTTTTTATACTATA
1 TTATATTTATATTA-TTTTTATACTATA
1826796 AAATTATATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (28 bp):
TTATATTTATATTATTTTTATACTATAG
Found at i:1827020 original size:13 final size:13
Alignment explanation
Indices: 1827002--1827054 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
1826992 ATTAATTTTA
1827002 AATATTTATAATT
1 AATATTTATAATT
1827015 AATATTT-TAA-T
1 AATATTTATAATT
*
1827026 AA-ATTAATAATT
1 AATATTTATAATT
1827038 -ATATTTAGTAATAT
1 AATATTTA-TAAT-T
1827052 AAT
1 AAT
1827055 TATATTCACT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
10 3 0.09
11 7 0.22
12 8 0.25
13 11 0.34
14 1 0.03
15 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (13 bp):
AATATTTATAATT
Found at i:1827024 original size:22 final size:22
Alignment explanation
Indices: 1826991--1827043 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
1826981 GTAAAATCAA
* *
1826991 AATTA-ATTTTAA-ATATTTAT
1 AATTATATTTTAATAAATTAAT
1827011 AATTAATATTTTAATAAATTAAT
1 AATT-ATATTTTAATAAATTAAT
1827034 AATTATATTT
1 AATTATATTT
1827044 AGTAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 4 0.14
21 1 0.04
22 13 0.46
23 10 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTATATTTTAATAAATTAAT
Found at i:1827150 original size:35 final size:35
Alignment explanation
Indices: 1827111--1827177 Score: 82
Period size: 35 Copynumber: 1.9 Consensus size: 35
1827101 TCATATTGAT
* * *
1827111 TAAAAATA-TTATTATTTTTAATATATATTTAATGA
1 TAAAAA-ACTTATTATATTTAATAAATAATTAATGA
*
1827146 TAAAAAACTTTTTATATTTAATAAATAATTAA
1 TAAAAAACTTATTATATTTAATAAATAATTAA
1827178 ATATTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 1 0.04
35 26 0.96
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (35 bp):
TAAAAAACTTATTATATTTAATAAATAATTAATGA
Found at i:1827636 original size:9 final size:9
Alignment explanation
Indices: 1827598--1827648 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
1827588 AATGATGAAA
1827598 TATT-TATT
1 TATTATATT
*
1827606 AATTATATT
1 TATTATATT
*
1827615 TAATATATTT
1 TATTATA-TT
1827625 TATTATATT
1 TATTATATT
1827634 TATTAT-TAT
1 TATTATAT-T
1827643 TATTAT
1 TATTAT
1827649 TATTAAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 4 0.11
9 24 0.67
10 8 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TATTATATT
Found at i:1827639 original size:3 final size:3
Alignment explanation
Indices: 1827620--1827735 Score: 119
Period size: 3 Copynumber: 38.3 Consensus size: 3
1827610 ATATTTAATA
* *
1827620 TAT T-T TAT TA- TATT TAT TAT TAT TAT TAT TAT TAAA TAT ATAT TTT
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T-AT TAT -TAT TAT
* * * * * *
1827666 TAT AAT AAT AAT AAT AAT AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1827714 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
1827736 GTGCATGCAC
Statistics
Matches: 102, Mismatches: 6, Indels: 10
0.86 0.05 0.08
Matches are distributed among these distances:
2 4 0.04
3 91 0.89
4 7 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:1828414 original size:19 final size:19
Alignment explanation
Indices: 1828390--1828426 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1828380 TCACTAAATT
*
1828390 TTTTATTTATTAGATTTTA
1 TTTTATGTATTAGATTTTA
*
1828409 TTTTATGTATTTGATTTT
1 TTTTATGTATTAGATTTT
1828427 GTTGGTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (19 bp):
TTTTATGTATTAGATTTTA
Found at i:1829849 original size:13 final size:13
Alignment explanation
Indices: 1829831--1829860 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1829821 ATCTTAATAG
*
1829831 TTTATTTTTAAAT
1 TTTATTTTTAAAA
1829844 TTTATTTTTAAAA
1 TTTATTTTTAAAA
1829857 TTTA
1 TTTA
1829861 AATTTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTATTTTTAAAA
Found at i:1830541 original size:51 final size:52
Alignment explanation
Indices: 1830459--1830568 Score: 132
Period size: 51 Copynumber: 2.1 Consensus size: 52
1830449 ATTTTTGATT
*
1830459 AATTTTAATTAGTTCATGTAATCATAATT-AAATGACATTCAACAAGTACAA
1 AATTTTAATTAATTCATGTAATCATAATTAAAATGACATTCAACAAGTACAA
* ** * * *
1830510 AATTTTAATTAATTTATGTAATCATTCTTAAAAAATGATATTTAATAAGTACAA
1 AATTTTAATTAATTCATGTAATCATAATT--AAAATGACATTCAACAAGTACAA
1830564 AATTT
1 AATTT
1830569 AAATATTAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
51 25 0.51
54 24 0.49
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.40
Consensus pattern (52 bp):
AATTTTAATTAATTCATGTAATCATAATTAAAATGACATTCAACAAGTACAA
Found at i:1831294 original size:50 final size:50
Alignment explanation
Indices: 1831211--1831465 Score: 332
Period size: 50 Copynumber: 5.1 Consensus size: 50
1831201 AGTTGCTTAG
* * * * * *
1831211 AGTCAACAATTATGACTACCTCTCTCTACTGTCAAAGGTTGGTGAAAAAT
1 AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
* * ** * *
1831261 AGTCAGCAATTATGATCACCTCTCTTAATTGTC-AAGGTTGGAGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
* * * **
1831310 CGTTAACAATTACGGCCACCTCTCTCGATTGTCAAAGACTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
1831360 AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
* *
1831410 AGTCAACAATTACGGCCACCTCTCTCGATTGTCAAAAGTTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
1831460 AGTCAA
1 AGTCAA
1831466 TAATGACAAC
Statistics
Matches: 178, Mismatches: 26, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
49 39 0.22
50 139 0.78
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (50 bp):
AGTCAACAATTACGGCCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
Found at i:1831445 original size:100 final size:99
Alignment explanation
Indices: 1831211--1831465 Score: 341
Period size: 99 Copynumber: 2.6 Consensus size: 99
1831201 AGTTGCTTAG
* * * * * * * * *
1831211 AGTCAACAATTATGACTACCTCTCTCTACTGTCAAAGGTTGGTGAAAAATAGTCAGCAATTATGA
1 AGTCAACAATTACGGCCACCTCTCTCGATTGTCAAAGATTGGTGAAGAATAGTCAACAATTACGA
* *
1831276 TCACCTCTCTTAATTGTCAAGGTTGGAGAAGAAT
66 CCACCTCTCTCAATTGTCAAGGTTGGAGAAGAAT
* * * *
1831310 CGTTAACAATTACGGCCACCTCTCTCGATTGTCAAAGACTGGTGAAGAATAGTCAACAATTACGG
1 AGTCAACAATTACGGCCACCTCTCTCGATTGTCAAAGATTGGTGAAGAATAGTCAACAATTACGA
*
1831375 CCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
66 CCACCTCTCTCAATTGTC-AAGGTTGGAGAAGAAT
1831410 AGTCAACAATTACGGCCACCTCTCTCGATTGTCAAA-AGTTGGTGAAGAATAGTCAA
1 AGTCAACAATTACGGCCACCTCTCTCGATTGTCAAAGA-TTGGTGAAGAATAGTCAA
1831466 TAATGACAAC
Statistics
Matches: 135, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
99 69 0.51
100 66 0.49
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (99 bp):
AGTCAACAATTACGGCCACCTCTCTCGATTGTCAAAGATTGGTGAAGAATAGTCAACAATTACGA
CCACCTCTCTCAATTGTCAAGGTTGGAGAAGAAT
Found at i:1835757 original size:50 final size:50
Alignment explanation
Indices: 1835698--1835998 Score: 304
Period size: 50 Copynumber: 6.1 Consensus size: 50
1835688 TTGTTTAGAG
* ** * *
1835698 TCAACAATTATGGTCATTTCTCTCTATTGTTAAAGGTTAGTGAAGAATAA
1 TCAATAATTATGGTCACCTCTCTCGATTGTCAAAGGTTAGTGAAGAATAA
* * * ** * * *
1835748 TCGATAATTATGGCCAACTCTCTTAATTATCAAAGGTTGGTGAAGAATTA
1 TCAATAATTATGGTCACCTCTCTCGATTGTCAAAGGTTAGTGAAGAATAA
* * *
1835798 TTAACAATTATGGTCACCTCTCTCGATTGTCAAAGGTTAGTGAAGAATAG
1 TCAATAATTATGGTCACCTCTCTCGATTGTCAAAGGTTAGTGAAGAATAA
* * *
1835848 TTAATAATTACGGTCACCTCTCTCGATTGTCAAAGGTTAGTGAAGAATAG
1 TCAATAATTATGGTCACCTCTCTCGATTGTCAAAGGTTAGTGAAGAATAA
* * * *
1835898 TCAATAATTACGGTCA-C-CTCTCGATTGTCAAAAGTTGGTGAAGAATAG
1 TCAATAATTATGGTCACCTCTCTCGATTGTCAAAGGTTAGTGAAGAATAA
* * * * * *
1835946 TTAACAATTATAGTTACCTCTCTTGATTGT-AAAGGTT-GATGAAAAATAA
1 TCAATAATTATGGTCACCTCTCTCGATTGTCAAAGGTTAG-TGAAGAATAA
1835995 TCAA
1 TCAA
1835999 CAATGACAAT
Statistics
Matches: 211, Mismatches: 37, Indels: 7
0.83 0.15 0.03
Matches are distributed among these distances:
48 41 0.19
49 19 0.09
50 151 0.72
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (50 bp):
TCAATAATTATGGTCACCTCTCTCGATTGTCAAAGGTTAGTGAAGAATAA
Found at i:1835881 original size:100 final size:99
Alignment explanation
Indices: 1835698--1836002 Score: 346
Period size: 100 Copynumber: 3.1 Consensus size: 99
1835688 TTGTTTAGAG
* * * * ** *
1835698 TCAACAATTATGGTCATTTCTCTCTATTGTTAAAGGTTAGTGAAGAATAATCGATAATTATGGCC
1 TCAACAATTATGGTCA-CTCTCTCGATTGTCAAAGGTTAGTGAAGAATAGTTAATAATTATGGTC
* * *
1835763 AACTCTCTTAATTATCAAAGGTTGGTGAAGAATTA
65 ACCTCTCTTGATTGTCAAAGGTTGGTGAAGAATTA
* *
1835798 TTAACAATTATGGTCACCTCTCTCGATTGTCAAAGGTTAGTGAAGAATAGTTAATAATTACGGTC
1 TCAACAATTATGGTCA-CTCTCTCGATTGTCAAAGGTTAGTGAAGAATAGTTAATAATTATGGTC
* *
1835863 ACCTCTCTCGATTGTCAAAGGTTAGTGAAGAA-TA
65 ACCTCTCTTGATTGTCAAAGGTTGGTGAAGAATTA
* * * * * * *
1835897 GTCAATAATTACGGTCAC-CTCTCGATTGTCAAAAGTTGGTGAAGAATAGTTAACAATTATAGTT
1 -TCAACAATTATGGTCACTCTCTCGATTGTCAAAGGTTAGTGAAGAATAGTTAATAATTATGGTC
* * *
1835961 ACCTCTCTTGATTGT-AAAGGTTGATGAAAAATAA
65 ACCTCTCTTGATTGTCAAAGGTTGGTGAAGAATTA
1835995 TCAACAAT
1 TCAACAAT
1836003 GACAATACTT
Statistics
Matches: 173, Mismatches: 30, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
97 20 0.12
98 55 0.32
99 3 0.02
100 95 0.55
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.33
Consensus pattern (99 bp):
TCAACAATTATGGTCACTCTCTCGATTGTCAAAGGTTAGTGAAGAATAGTTAATAATTATGGTCA
CCTCTCTTGATTGTCAAAGGTTGGTGAAGAATTA
Found at i:1837949 original size:9 final size:9
Alignment explanation
Indices: 1837937--1837966 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
1837927 TATGAATCAT
1837937 ATAAAAATA
1 ATAAAAATA
1837946 ATAAAAATA
1 ATAAAAATA
1837955 TATAAAAATA
1 -ATAAAAATA
1837965 AT
1 AT
1837967 TTATTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
ATAAAAATA
Found at i:1837959 original size:10 final size:10
Alignment explanation
Indices: 1837935--1837964 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1837925 AATATGAATC
1837935 ATATAAAAAT
1 ATATAAAAAT
1837945 A-ATAAAAAT
1 ATATAAAAAT
1837954 ATATAAAAAT
1 ATATAAAAAT
1837964 A
1 A
1837965 ATTTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
ATATAAAAAT
Found at i:1839470 original size:9 final size:9
Alignment explanation
Indices: 1839456--1839515 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
1839446 ATATAATTTT
1839456 ATTTTAAAA
1 ATTTTAAAA
1839465 ATTTTAAAA
1 ATTTTAAAA
*
1839474 TATGTTTAAAT
1 -AT-TTTAAAA
*
1839485 ATATT--AA
1 ATTTTAAAA
1839492 ATTTTAATAA
1 ATTTTAA-AA
*
1839502 ATTTTTAAA
1 ATTTTAAAA
1839511 ATTTT
1 ATTTT
1839516 TTAGCTTCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
7 5 0.12
9 18 0.44
10 12 0.29
11 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:1841458 original size:25 final size:25
Alignment explanation
Indices: 1841412--1841462 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
1841402 AATATATCAA
*
1841412 AAATTTATAATATTTTAAATATTTT
1 AAATTTATAATATATTAAATATTTT
*
1841437 AAATTTATATATATATT-CATATTTT
1 AAATTTATA-ATATATTAAATATTTT
1841462 A
1 A
1841463 TATTCACTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (25 bp):
AAATTTATAATATATTAAATATTTT
Found at i:1842591 original size:2 final size:2
Alignment explanation
Indices: 1842584--1842619 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1842574 ATTGATCGGA
1842584 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1842620 GTTAGTCAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1846176 original size:2 final size:2
Alignment explanation
Indices: 1846169--1846206 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1846159 GAACAAATAG
1846169 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1846207 GTGAATGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Done.