Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 17 of 190
Found at i:2337706 original size:13 final size:13
Alignment explanation
Indices: 2337675--2337715 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
2337665 AATCTATTTA
2337675 AATATATTAAAAT
1 AATATATTAAAAT
**
2337688 TTTATATTAAAAT
1 AATATATTAAAAT
*
2337701 AATATATAAAAAT
1 AATATATTAAAAT
2337714 AA
1 AA
2337716 AAAATTAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AATATATTAAAAT
Found at i:2337720 original size:33 final size:32
Alignment explanation
Indices: 2337641--2337721 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 32
2337631 TTTTTTAAAA
* *
2337641 ATAAAAAT-AATAATTTTATATCAAAATCTAT
1 ATAAAAATAAAAAATTTTATATCAAAATATAT
* * * *
2337672 TTAAATATATTAAAATTTTATATTAAAATAATAT
1 ATAAAAATA-AAAAATTTTATATCAAAAT-ATAT
2337706 ATAAAAATAAAAAATT
1 ATAAAAATAAAAAATT
2337722 AAATTTAAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
31 6 0.16
33 22 0.58
34 10 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (32 bp):
ATAAAAATAAAAAATTTTATATCAAAATATAT
Found at i:2340991 original size:15 final size:15
Alignment explanation
Indices: 2340971--2341002 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2340961 TTGATGATCA
*
2340971 AATTTTAATATTTAT
1 AATTTTAATATTAAT
2340986 AATTTTAATATTAAT
1 AATTTTAATATTAAT
2341001 AA
1 AA
2341003 CTTACTATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AATTTTAATATTAAT
Found at i:2343971 original size:16 final size:15
Alignment explanation
Indices: 2343950--2343980 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
2343940 TAATTATTCA
2343950 TTTTTTATAAATAATT
1 TTTTTTATAAA-AATT
2343966 TTTTTTATAAAAATT
1 TTTTTTATAAAAATT
2343981 CATTGGAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTTTTATAAAAATT
Found at i:2344033 original size:21 final size:22
Alignment explanation
Indices: 2343996--2344042 Score: 53
Period size: 21 Copynumber: 2.1 Consensus size: 22
2343986 GAATGGACCA
*
2343996 TAAAAATAATTATAATA-ATAT
1 TAAAAATAAATATAATAGATAT
2344017 TAAAAATATAATA-AATATGATAT
1 TAAAAATA-AATATAATA-GATAT
2344040 TAA
1 TAA
2344043 TTTCAGTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 12 0.55
22 3 0.14
23 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
TAAAAATAAATATAATAGATAT
Found at i:2351467 original size:6 final size:6
Alignment explanation
Indices: 2351437--2351480 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
2351427 GGTTAATAAG
*
2351437 TAAAAGA TAAAAA AATAAAA T-AAAA TAAAAA TAAAAA TAAAAA T
1 TAAAA-A TAAAAA TA-AAAA TAAAAA TAAAAA TAAAAA TAAAAA T
2351481 TGTAATCTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
5 5 0.15
6 19 0.58
7 9 0.27
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:2367741 original size:18 final size:18
Alignment explanation
Indices: 2367718--2367765 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
2367708 TACCTCTAAC
2367718 TTTTTTTTTTCCTTCAAT
1 TTTTTTTTTTCCTTCAAT
*** * *
2367736 TTTTTTCACTCTTTCACT
1 TTTTTTTTTTCCTTCAAT
2367754 TTTTTTTTTTCC
1 TTTTTTTTTTCC
2367766 CAACTTCCAA
Statistics
Matches: 21, Mismatches: 9, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTTTTTTCCTTCAAT
Found at i:2389808 original size:22 final size:21
Alignment explanation
Indices: 2389767--2389811 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
2389757 AATTTAAATT
2389767 TTTAATAAAAGTTATATATAA
1 TTTAATAAAAGTTATATATAA
*
2389788 TTTAATAAAA-TTAAATATATA
1 TTTAATAAAAGTTATATATA-A
2389809 TTT
1 TTT
2389812 TATATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TTTAATAAAAGTTATATATAA
Found at i:2389813 original size:22 final size:21
Alignment explanation
Indices: 2389766--2389813 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
2389756 TAATTTAAAT
2389766 TTTTAATAAAAGTTATATATA
1 TTTTAATAAAAGTTATATATA
*
2389787 ATTTAATAAAA-TTAAATATATA
1 TTTTAATAAAAGTT--ATATATA
2389809 TTTTA
1 TTTTA
2389814 TATTTATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 2 0.09
21 10 0.43
22 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TTTTAATAAAAGTTATATATA
Found at i:2389838 original size:31 final size:31
Alignment explanation
Indices: 2389803--2389907 Score: 88
Period size: 31 Copynumber: 3.3 Consensus size: 31
2389793 TAAAATTAAA
*
2389803 TATATATTTTATATTTATAATATAT-AATTTT
1 TATATATTTTATA-TTATAATATATAAATTAT
*** *
2389834 TATATAAAATATAATATAAATATATAAATTAT
1 TATATATTTTATATTAT-AATATATAAATTAT
*
2389866 TA-ATATTTTATATTATAAAAAATATAAATTAAT
1 TATATATTTTATATTAT--AATATATAAATT-AT
2389899 TATACTATT
1 TATA-TATT
2389908 ATTTTTTAGA
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
30 3 0.05
31 27 0.47
32 19 0.33
33 4 0.07
34 1 0.02
35 4 0.07
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.50
Consensus pattern (31 bp):
TATATATTTTATATTATAATATATAAATTAT
Found at i:2389844 original size:20 final size:20
Alignment explanation
Indices: 2389800--2389891 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 20
2389790 TAATAAAATT
*
2389800 AAATATATATTTTATATTTA
1 AAATATATATTTTATATATA
*
2389820 TAATATATAATTTT-TATATA
1 AAATATAT-ATTTTATATATA
**
2389840 AAATATA-ATATAAATATATA
1 AAATATATAT-TTTATATATA
*
2389860 AATTATTAATATTTTATATTATA
1 AAATA-T-ATATTTTATA-TATA
*
2389883 AAAAATATA
1 AAATATATA
2389892 AATTAATTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 13
0.71 0.13 0.17
Matches are distributed among these distances:
18 2 0.04
19 1 0.02
20 28 0.51
21 9 0.16
22 6 0.11
23 9 0.16
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AAATATATATTTTATATATA
Found at i:2390841 original size:2 final size:2
Alignment explanation
Indices: 2390834--2390858 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2390824 TGTCTTGTAT
2390834 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
2390859 GCAACTATAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2391859 original size:19 final size:18
Alignment explanation
Indices: 2391835--2391870 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2391825 ATGTTTGTAA
2391835 TTTTTTACAATTTGTGGAT
1 TTTTTTAC-ATTTGTGGAT
*
2391854 TTTTTTTCATTTGTGGA
1 TTTTTTACATTTGTGGA
2391871 CGTAAATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.17, C:0.06, G:0.17, T:0.61
Consensus pattern (18 bp):
TTTTTTACATTTGTGGAT
Found at i:2392441 original size:11 final size:11
Alignment explanation
Indices: 2392425--2392455 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2392415 AATCTCATAA
2392425 GAGATTTGTTT
1 GAGATTTGTTT
*
2392436 GAGATTTTTTT
1 GAGATTTGTTT
2392447 GAGATTTGT
1 GAGATTTGT
2392456 CAGATATTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:2392568 original size:52 final size:50
Alignment explanation
Indices: 2392480--2392636 Score: 190
Period size: 52 Copynumber: 3.0 Consensus size: 50
2392470 TGGATAAGAA
*
2392480 GACTTGCGAA-AGAAGAATTTCAAAAGAAAGGAGATTCTTAATAGGTAAGTTT
1 GACTTGC-AAGAGAAGAATTT-AAAAGAAAGG-GATTCTTAATAGGCAAGTTT
2392532 GACTTGCAAGAGAAGAATTATAAAAGGAAAGGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATT-TAAAA-GAAAGGGATTCTTAATAGGCAAGTTT
* * * * *
2392584 GACTTACAGGAGAAAAATTCTAAGAAGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATT-TAA-AAGAAAGGGATTCTTAATAGGCAAGTTT
2392636 G
1 G
2392637 TATGGTTATA
Statistics
Matches: 94, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
51 2 0.02
52 83 0.88
53 9 0.10
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.25
Consensus pattern (50 bp):
GACTTGCAAGAGAAGAATTTAAAAGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:2394867 original size:39 final size:38
Alignment explanation
Indices: 2394801--2394912 Score: 122
Period size: 39 Copynumber: 2.9 Consensus size: 38
2394791 TTATATAGGA
*
2394801 ATTATAATTTTATATT-TATATTATATAAAATATTATA-
1 ATTATAA-TTCATATTATATATTATATAAAATATTATAT
* *
2394838 ATTCATGTATTCATATTATATTTTATATAAAA-ATTATAT
1 ATT-AT-AATTCATATTATATATTATATAAAATATTATAT
*
2394877 ATTATAATTCATATTAATATAAATATATAAAATATT
1 ATTATAATTCATATT-ATAT-ATTATATAAAATATT
2394913 TTTTTATTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
37 12 0.19
38 21 0.34
39 26 0.42
40 3 0.05
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (38 bp):
ATTATAATTCATATTATATATTATATAAAATATTATAT
Found at i:2394991 original size:24 final size:29
Alignment explanation
Indices: 2394958--2395018 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 29
2394948 AAAATTTTAA
*
2394958 ATCATGTTA-TTTT-TAT-ATATT-TTAT
1 ATCATATTATTTTTGTATCATATTATTAT
2394983 -TCATATTATTTTTGTATCATATTATTAT
1 ATCATATTATTTTTGTATCATATTATTAT
2395011 ATCATATT
1 ATCATATT
2395019 TAAAATTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
24 7 0.23
25 4 0.13
26 3 0.10
27 5 0.17
28 4 0.13
29 7 0.23
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.61
Consensus pattern (29 bp):
ATCATATTATTTTTGTATCATATTATTAT
Found at i:2395029 original size:28 final size:29
Alignment explanation
Indices: 2394997--2395053 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
2394987 ATTATTTTTG
*
2394997 TATCATATTATTATATCA-TA-TTTAAAAT
1 TATCAAATTATTATAT-ATTATTTTAAAAT
*
2395025 TATCAAATTTTTATATATTATTTTAAAAT
1 TATCAAATTATTATATATTATTTTAAAAT
2395054 AAATCCAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 1 0.04
28 16 0.64
29 8 0.32
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (29 bp):
TATCAAATTATTATATATTATTTTAAAAT
Found at i:2411843 original size:8 final size:8
Alignment explanation
Indices: 2411823--2411863 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
2411813 TATTATTTTT
2411823 TAAA-ATA
1 TAAATATA
*
2411830 TAAATATT
1 TAAATATA
2411838 TAAATATA
1 TAAATATA
*
2411846 TAATTATA
1 TAAATATA
2411854 TAAATATA
1 TAAATATA
2411862 TA
1 TA
2411864 TAAATAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 4 0.14
8 25 0.86
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TAAATATA
Found at i:2411869 original size:26 final size:24
Alignment explanation
Indices: 2411827--2411878 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
2411817 ATTTTTTAAA
* *
2411827 ATATAAATATTTAAATATATAATT
1 ATATAAATATTTAAATAAAAAATT
2411851 ATATAAATATATATAAATAAAAAATT
1 ATATAAATAT-T-TAAATAAAAAATT
2411877 AT
1 AT
2411879 TTTTATATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 10 0.42
25 1 0.04
26 13 0.54
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATATAAATATTTAAATAAAAAATT
Found at i:2417029 original size:28 final size:26
Alignment explanation
Indices: 2416981--2417033 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
2416971 TCATCTCTGC
*
2416981 TATTATTTTTTTGTCACATTTTATTG
1 TATTATTTTTTGGTCACATTTTATTG
*
2417007 TATTATTTTTTAAGGTCATATTTTATT
1 TATTATTTTTT--GGTCACATTTTATT
2417034 ACAATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 11 0.48
28 12 0.52
ACGTcount: A:0.23, C:0.06, G:0.08, T:0.64
Consensus pattern (26 bp):
TATTATTTTTTGGTCACATTTTATTG
Found at i:2426231 original size:27 final size:28
Alignment explanation
Indices: 2426181--2426238 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
2426171 TTTTTTTTAT
*
2426181 TTTTTATTTTTATTTCTTATAAAATA-A
1 TTTTTATTTTTATTTCTTAAAAAATATA
*
2426208 TTTTTATTTTT-TGTTTTTAAAAAATATA
1 TTTTTATTTTTAT-TTCTTAAAAAATATA
2426236 TTT
1 TTT
2426239 AGTAAACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 1 0.04
27 22 0.81
28 4 0.15
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (28 bp):
TTTTTATTTTTATTTCTTAAAAAATATA
Found at i:2427166 original size:32 final size:32
Alignment explanation
Indices: 2427102--2427167 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
2427092 AATTTGTTAA
* *
2427102 TTTATGTATTTATATCATATAAAATATTAAAT
1 TTTATATATTTATATCATATAAAATATAAAAT
***
2427134 TTTATATATTTATATCATATTTTATATAAAAT
1 TTTATATATTTATATCATATAAAATATAAAAT
2427166 TT
1 TT
2427168 ACATATTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.55
Consensus pattern (32 bp):
TTTATATATTTATATCATATAAAATATAAAAT
Found at i:2427528 original size:29 final size:29
Alignment explanation
Indices: 2427486--2427544 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
2427476 ATTCCTTGTG
2427486 TTACCTTTTGCTTATTCTTAAACTACCTT
1 TTACCTTTTGCTTATTCTTAAACTACCTT
2427515 TTACCTTTTGCTTATTCTTAAACTACCTT
1 TTACCTTTTGCTTATTCTTAAACTACCTT
2427544 T
1 T
2427545 AACATCAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.24, G:0.03, T:0.53
Consensus pattern (29 bp):
TTACCTTTTGCTTATTCTTAAACTACCTT
Found at i:2427918 original size:15 final size:16
Alignment explanation
Indices: 2427888--2427942 Score: 66
Period size: 15 Copynumber: 3.7 Consensus size: 16
2427878 ATTATTAAAA
2427888 ATTTTA-ATTATA-TT
1 ATTTTATATTATATTT
2427902 ATTTTTATATT-T-TTT
1 A-TTTTATATTATATTT
2427917 A-TTTATATTATATTT
1 ATTTTATATTATATTT
2427932 ATTTTATATTA
1 ATTTTATATTA
2427943 CGTATCAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
13 8 0.23
14 2 0.06
15 13 0.37
16 12 0.34
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTATATTATATTT
Found at i:2431989 original size:47 final size:49
Alignment explanation
Indices: 2431918--2432010 Score: 145
Period size: 47 Copynumber: 1.9 Consensus size: 49
2431908 TTCAGATACA
*
2431918 TTTCTTATATGAAAAGCTGCAACAAAC-TATATA-GGGCAAGCACTCAG
1 TTTCTTATATGAAAAGCTGCAACAAACATATACATGGGCAAGCACTCAG
**
2431965 TTTCTTATATGAAAAGCTTTAACAAACATATACATGGGCAAGCACT
1 TTTCTTATATGAAAAGCTGCAACAAACATATACATGGGCAAGCACT
2432011 ACTAGTTACC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 25 0.61
48 5 0.12
49 11 0.27
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (49 bp):
TTTCTTATATGAAAAGCTGCAACAAACATATACATGGGCAAGCACTCAG
Found at i:2434002 original size:23 final size:21
Alignment explanation
Indices: 2433960--2434017 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 21
2433950 TAATAATTTT
*
2433960 ATATCAAATTTTATTTAAAT-
1 ATATAAAATTTTATTTAAATA
2433980 ATATTAAAATTTTATATTAAAATA
1 ATA-TAAAATTTTAT-TT-AAATA
2434004 ATATAAATATTTTA
1 ATATAAA-ATTTTA
2434018 AAACTGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 3 0.09
21 10 0.31
22 2 0.06
23 8 0.25
24 9 0.28
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATATAAAATTTTATTTAAATA
Found at i:2435311 original size:21 final size:21
Alignment explanation
Indices: 2435286--2435336 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
2435276 AGAAATATAT
*
2435286 ATTTTATTTTTTTAATAAATA
1 ATTTTATTTGTTTAATAAATA
* *
2435307 ATTTTAGTTGTTTATTAAATA
1 ATTTTATTTGTTTAATAAATA
*
2435328 ATTGTATTT
1 ATTTTATTT
2435337 AAAAATTACA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (21 bp):
ATTTTATTTGTTTAATAAATA
Found at i:2435870 original size:12 final size:12
Alignment explanation
Indices: 2435853--2435878 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2435843 TATATAAAAA
2435853 TAATTTTTTAAT
1 TAATTTTTTAAT
2435865 TAATTTTTTAAT
1 TAATTTTTTAAT
2435877 TA
1 TA
2435879 TATATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TAATTTTTTAAT
Found at i:2436580 original size:31 final size:32
Alignment explanation
Indices: 2436545--2436606 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
2436535 GATTTAAGTG
2436545 TAATTTTGAAAA-AAATAAATTTGTATATATA
1 TAATTTTGAAAAGAAATAAATTTGTATATATA
* *
2436576 TAATTTTGAAAAGAAATTAATTTTTATATAT
1 TAATTTTGAAAAGAAATAAATTTGTATATAT
2436607 TTATATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 12 0.43
32 16 0.57
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (32 bp):
TAATTTTGAAAAGAAATAAATTTGTATATATA
Found at i:2448298 original size:26 final size:24
Alignment explanation
Indices: 2448252--2448345 Score: 82
Period size: 26 Copynumber: 3.8 Consensus size: 24
2448242 TTGACATAAC
* *
2448252 TATT-AAAGTATTAAAAATTATTTA
1 TATTAAAAATATT-AAAATTATTAA
2448276 TAATTAAAATATATTAAAATTATTAA
1 T-ATTAAAA-ATATTAAAATTATTAA
* *
2448302 TATTAAAAAAATTAAAATTTAATAA
1 TATTAAAAATATTAAAA-TTATTAA
* *
2448327 TAATAATTAATATTAAAAT
1 TATTAA-AAATATTAAAAT
2448346 GTTATATTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
24 9 0.16
25 22 0.38
26 23 0.40
27 4 0.07
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (24 bp):
TATTAAAAATATTAAAATTATTAA
Found at i:2448340 original size:35 final size:34
Alignment explanation
Indices: 2448277--2448344 Score: 100
Period size: 35 Copynumber: 2.0 Consensus size: 34
2448267 AATTATTTAT
* *
2448277 AATTAAAATATATTAAAATTATTAATATTAAAAA
1 AATTAAAATATAATAAAATAATTAATATTAAAAA
*
2448311 AATTAAAATTTAATAATAATAATTAATATTAAAA
1 AATTAAAATATAATAA-AATAATTAATATTAAAA
2448345 TGTTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 14 0.47
35 16 0.53
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (34 bp):
AATTAAAATATAATAAAATAATTAATATTAAAAA
Found at i:2448824 original size:30 final size:28
Alignment explanation
Indices: 2448790--2448848 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 28
2448780 TGAAATATTA
* *
2448790 AAAATATTTATATTTAATAATATACAAAAT
1 AAAATATTTAAAATTAA-AATAT-CAAAAT
2448820 AAAATATTTAAAATTAAAATATCAAAAT
1 AAAATATTTAAAATTAAAATATCAAAAT
2448848 A
1 A
2448849 CTTTTAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 7 0.26
29 5 0.19
30 15 0.56
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (28 bp):
AAAATATTTAAAATTAAAATATCAAAAT
Found at i:2452941 original size:78 final size:78
Alignment explanation
Indices: 2452812--2452966 Score: 283
Period size: 78 Copynumber: 2.0 Consensus size: 78
2452802 ATAATTGCAA
2452812 ATTCTTTTTTGTTAAAAATGAATAACAAGAAGCTACAATCAGAGTAGAATAGACAAATTCATTGC
1 ATTCTTTTTTGTTAAAAATGAATAACAAGAAGCTACAATCAGAGTAGAATAGACAAATTCATTGC
2452877 TTGTAACTTGTGG
66 TTGTAACTTGTGG
* * *
2452890 ATTCTTTTTTGTTAAAAATGAATAACAAGAAGCTACAATTAGAGTCGAATAGACAATTTCATTGC
1 ATTCTTTTTTGTTAAAAATGAATAACAAGAAGCTACAATCAGAGTAGAATAGACAAATTCATTGC
2452955 TTGTAACTTGTG
66 TTGTAACTTGTG
2452967 AATTTTCATT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (78 bp):
ATTCTTTTTTGTTAAAAATGAATAACAAGAAGCTACAATCAGAGTAGAATAGACAAATTCATTGC
TTGTAACTTGTGG
Found at i:2453804 original size:22 final size:22
Alignment explanation
Indices: 2453779--2453820 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2453769 TTGTCTATCC
* *
2453779 TAATTTTAGGGATACAAATACT
1 TAATTCTAGAGATACAAATACT
2453801 TAATTCTAGAGATACAAATA
1 TAATTCTAGAGATACAAATA
2453821 TAAATATACA
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:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (22 bp):
TAATTCTAGAGATACAAATACT
Found at i:2457620 original size:22 final size:22
Alignment explanation
Indices: 2457595--2457642 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
2457585 ATACTTTTAC
2457595 ATTTTACATTTT-TTTATTTATT
1 ATTTTA-ATTTTATTTATTTATT
*
2457617 A-TTTAATTTTAGTTTATTTTTT
1 ATTTTAATTTTA-TTTATTTATT
2457639 ATTT
1 ATTT
2457643 CTTACTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 5 0.23
21 4 0.18
22 11 0.50
23 2 0.09
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (22 bp):
ATTTTAATTTTATTTATTTATT
Found at i:2457632 original size:18 final size:17
Alignment explanation
Indices: 2457606--2457639 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2457596 TTTTACATTT
2457606 TTTTATTTATTATTTAA
1 TTTTATTTATTATTTAA
*
2457623 TTTTAGTTTATTTTTTA
1 TTTTA-TTTATTATTTA
2457640 TTTCTTACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTATTTATTATTTAA
Found at i:2458087 original size:15 final size:15
Alignment explanation
Indices: 2458067--2458101 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
2458057 TAATTTGTTT
*
2458067 TTAAACAAAAAATAA
1 TTAAACAAAAAAAAA
2458082 TTAAACAAAAAAAAA
1 TTAAACAAAAAAAAA
2458097 TTAAA
1 TTAAA
2458102 ATTAACATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.20
Consensus pattern (15 bp):
TTAAACAAAAAAAAA
Found at i:2458360 original size:21 final size:21
Alignment explanation
Indices: 2458336--2458386 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
2458326 TTCACTTAAA
2458336 ATTAAATATTA-TTATTCATAT
1 ATTAAATATTATTTATT-ATAT
* *
2458357 ATT-ATTATTTATTTATTTTAT
1 ATTAAATA-TTATTTATTATAT
2458378 ATTAAATAT
1 ATTAAATAT
2458387 ATAAAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
20 3 0.12
21 13 0.54
22 8 0.33
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTAAATATTATTTATTATAT
Found at i:2458961 original size:11 final size:11
Alignment explanation
Indices: 2458945--2458979 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
2458935 GATTCATGAA
*
2458945 TAAAATTTGTT
1 TAAAATTTATT
2458956 TAAAATTTATT
1 TAAAATTTATT
*
2458967 TAAAACTTATT
1 TAAAATTTATT
2458978 TA
1 TA
2458980 TTTAAAGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (11 bp):
TAAAATTTATT
Found at i:2459532 original size:19 final size:18
Alignment explanation
Indices: 2459483--2459533 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
2459473 AATTTACGAG
2459483 ATTA-AATTTATAAATTTT
1 ATTATAATTTA-AAATTTT
*
2459501 ATTATATTCTTAAAATTTT
1 ATTATAAT-TTAAAATTTT
2459520 ATTAATAATTTAAA
1 ATT-ATAATTTAAA
2459534 TTATATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 4 0.14
19 17 0.61
20 7 0.25
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTATAATTTAAAATTTT
Found at i:2470130 original size:25 final size:25
Alignment explanation
Indices: 2470102--2470158 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
2470092 TTTATATATA
2470102 ATTATTATTAAAATTTTTAAATTAT
1 ATTATTATTAAAATTTTTAAATTAT
* * ** *
2470127 ATTATTTTTTACCTTTTTATATTAT
1 ATTATTATTAAAATTTTTAAATTAT
2470152 ATT-TTAT
1 ATTATTAT
2470159 ATTATATTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (25 bp):
ATTATTATTAAAATTTTTAAATTAT
Found at i:2470158 original size:12 final size:12
Alignment explanation
Indices: 2470141--2470188 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
2470131 TTTTTTACCT
2470141 TTTTATATTATA
1 TTTTATATTATA
2470153 TTTTATATTATA
1 TTTTATATTATA
* *
2470165 TTATTGTATTGTA
1 TT-TTATATTATA
*
2470178 TTTTAAATTAT
1 TTTTATATTAT
2470189 TAGATTTAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 20 0.67
13 10 0.33
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (12 bp):
TTTTATATTATA
Found at i:2470169 original size:20 final size:20
Alignment explanation
Indices: 2470146--2470195 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
2470136 TACCTTTTTA
*
2470146 TATTATATTTTATATTATAT
1 TATTATATTTTATATTAAAT
* * *
2470166 TATTGTATTGTATTTTAAAT
1 TATTATATTTTATATTAAAT
*
2470186 TATTAGATTT
1 TATTATATTT
2470196 AGTCGAAGAG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (20 bp):
TATTATATTTTATATTAAAT
Found at i:2471680 original size:15 final size:15
Alignment explanation
Indices: 2471658--2471693 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
2471648 TTAATGAAAA
2471658 TAAAATAATTTAATT
1 TAAAATAATTTAATT
*
2471673 TTAAATAATTTAATT
1 TAAAATAATTTAATT
2471688 TAAAAT
1 TAAAAT
2471694 TAACTGATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAAATAATTTAATT
Found at i:2478941 original size:15 final size:14
Alignment explanation
Indices: 2478913--2478946 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
2478903 ATTACGTAAA
*
2478913 ATATTTAAATTTAT
1 ATATTTAAAATTAT
2478927 ATATTCTAAAATTAT
1 ATATT-TAAAATTAT
2478942 ATATT
1 ATATT
2478947 ATAATTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
ATATTTAAAATTAT
Found at i:2478965 original size:29 final size:30
Alignment explanation
Indices: 2478933--2479004 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
2478923 TTATATATTC
* *
2478933 TAAAATTATATATTATAATTGTATTAATA-
1 TAAAATTATATATTATAATTGTAATAAAAT
* * * *
2478962 TAAAAATATAAAATATAATTTTAATAAAAT
1 TAAAATTATATATTATAATTGTAATAAAAT
2478992 TAAAATTATATAT
1 TAAAATTATATAT
2479005 AATTGCTATT
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
29 23 0.70
30 10 0.30
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (30 bp):
TAAAATTATATATTATAATTGTAATAAAAT
Found at i:2484535 original size:34 final size:34
Alignment explanation
Indices: 2484495--2484561 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
2484485 TACTCCTCTT
** *
2484495 AAAGTTTTTGGATTTGCATTTCTGGAAGCTTTTA
1 AAAGTTTCCGGATTTGCATTTCCGGAAGCTTTTA
*
2484529 AAAGTTTCCGGATTTGCATTTCCGGAGGCTTTT
1 AAAGTTTCCGGATTTGCATTTCCGGAAGCTTTT
2484562 CGGGTTTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.21, C:0.13, G:0.22, T:0.43
Consensus pattern (34 bp):
AAAGTTTCCGGATTTGCATTTCCGGAAGCTTTTA
Found at i:2486481 original size:20 final size:20
Alignment explanation
Indices: 2486431--2486481 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
2486421 TATTTATGTA
2486431 ATAT-AAAATATTAATATTT
1 ATATAAAAATATTAATATTT
***
2486450 ATATATTTATATT-ATATTTT
1 ATATAAAAATATTAATA-TTT
2486470 ATATAAAAATAT
1 ATATAAAAATAT
2486482 AAAATATATA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATAAAAATATTAATATTT
Found at i:2486492 original size:39 final size:38
Alignment explanation
Indices: 2486431--2486505 Score: 89
Period size: 39 Copynumber: 1.9 Consensus size: 38
2486421 TATTTATGTA
* *
2486431 ATATAAAATATTAATATTTATATATTTATATTATATTTT
1 ATATAAAATATTAAAATATATATATTTA-ATTATATTTT
* *
2486470 ATATAAAA-ATATAAAATATATATTTTTAATTTTATT
1 ATATAAAATAT-TAAAATATATATATTTAATTATATT
2486506 AAACTCATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
38 9 0.29
39 22 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (38 bp):
ATATAAAATATTAAAATATATATATTTAATTATATTTT
Found at i:2489572 original size:30 final size:30
Alignment explanation
Indices: 2489538--2489594 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
2489528 AAAAATTTAC
2489538 AAATTTA-ATTAATTACA-TTAATTTATATAA
1 AAATTTATATTAA-TA-ATTTAATTTATATAA
2489568 AAATTTATATTAATAATTTAATTTATA
1 AAATTTATATTAATAATTTAATTTATA
2489595 AAATATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
29 1 0.04
30 19 0.76
31 5 0.20
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (30 bp):
AAATTTATATTAATAATTTAATTTATATAA
Found at i:2489585 original size:38 final size:37
Alignment explanation
Indices: 2489518--2489619 Score: 88
Period size: 37 Copynumber: 2.8 Consensus size: 37
2489508 ATTCAATTTT
*
2489518 ATAATTTA-ATAAAAATTTACA--AATTTAA-TTAATTAC
1 ATAATTTATATAAAAATTTATATTAA--TAATTTAATT-C
*
2489554 ATTAATTTATATAAAAATTTATATTAATAATTTAATTT
1 A-TAATTTATATAAAAATTTATATTAATAATTTAATTC
**
2489592 ATAAAATATA-AAAAATTTATATATAATA
1 ATAATTTATATAAAAATTTATAT-TAATA
2489620 CATAAAATAA
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
36 13 0.23
37 19 0.34
38 16 0.29
39 6 0.11
40 2 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (37 bp):
ATAATTTATATAAAAATTTATATTAATAATTTAATTC
Found at i:2489633 original size:37 final size:37
Alignment explanation
Indices: 2489561--2489633 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
2489551 TACATTAATT
* * *
2489561 TATATAAAAATTTATATTAATAATTTAATTTATAAAA
1 TATATAAAAATTTATATTAATAATTAAAATAATAAAA
2489598 TATA-AAAAATTTATATATAATACA-TAAAATAATAAA
1 TATATAAAAATTTATAT-TAATA-ATTAAAATAATAAA
2489634 TTATTTACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
36 12 0.39
37 18 0.58
38 1 0.03
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (37 bp):
TATATAAAAATTTATATTAATAATTAAAATAATAAAA
Found at i:2490036 original size:11 final size:11
Alignment explanation
Indices: 2489985--2490062 Score: 52
Period size: 11 Copynumber: 7.1 Consensus size: 11
2489975 TGAAATTATA
*
2489985 ATATTTAATTT
1 ATATTAAATTT
* *
2489996 AAATTAAATTG
1 ATATTAAATTT
**
2490007 AT-TTTTATTT
1 ATATTAAATTT
*
2490017 -TATTTAATTT
1 ATATTAAATTT
*
2490027 AGATTAAATTT
1 ATATTAAATTT
*
2490038 GATTATTAAATGT
1 -A-TATTAAATTT
2490051 ATATTAAATTT
1 ATATTAAATTT
2490062 A
1 A
2490063 AATTTTATAA
Statistics
Matches: 50, Mismatches: 13, Indels: 8
0.70 0.18 0.11
Matches are distributed among these distances:
9 1 0.02
10 12 0.24
11 27 0.54
12 2 0.04
13 8 0.16
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (11 bp):
ATATTAAATTT
Found at i:2490217 original size:20 final size:20
Alignment explanation
Indices: 2490176--2490211 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2490166 TAATTATATT
2490176 AAAATAATATATAAAAATTA
1 AAAATAATATATAAAAATTA
2490196 AAAATAAT-T-TAAAAAT
1 AAAATAATATATAAAAAT
2490212 AATAAACTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.44
19 1 0.06
20 8 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATAATATATAAAAATTA
Found at i:2499256 original size:17 final size:18
Alignment explanation
Indices: 2499233--2499272 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
2499223 TTTAAAATTC
*
2499233 GATATGATA-ACAAAATA
1 GATATGATATAAAAAATA
*
2499250 TATATGATATAAAAAATA
1 GATATGATATAAAAAATA
2499268 GATAT
1 GATAT
2499273 AAAAATAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (18 bp):
GATATGATATAAAAAATA
Found at i:2499396 original size:31 final size:30
Alignment explanation
Indices: 2499307--2499405 Score: 79
Period size: 31 Copynumber: 3.5 Consensus size: 30
2499297 AATAATAATT
*
2499307 ATATATAA-ATTTA-AT-AAAATAAAA-AA
1 ATATATAATTTTTATATAAAAATAAAATAA
* *
2499333 A-AT-T-ATTTTTATATCAATAT-AAATAA
1 ATATATAATTTTTATATAAAAATAAAATAA
2499359 TGATATATAATTTTTATATAAAAAATAAAATAA
1 --ATATATAATTTTTATAT-AAAAATAAAATAA
*
2499392 ATATATAAATTTTA
1 ATATATAATTTTTA
2499406 ATATTTTACA
Statistics
Matches: 57, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
23 1 0.02
24 5 0.09
25 7 0.12
26 7 0.12
28 1 0.02
29 2 0.04
30 1 0.02
31 23 0.40
32 4 0.07
33 6 0.11
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (30 bp):
ATATATAATTTTTATATAAAAATAAAATAA
Found at i:2502452 original size:14 final size:15
Alignment explanation
Indices: 2502425--2502459 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
2502415 TGACAATATG
2502425 AAATAAAAATAATAA
1 AAATAAAAATAATAA
2502440 AAATAAAAA-AATAA
1 AAATAAAAATAATAA
2502454 AAATAA
1 AAATAA
2502460 TATAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAATAAAAATAATAA
Found at i:2502569 original size:23 final size:23
Alignment explanation
Indices: 2502530--2502574 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
2502520 TTTATATACA
*
2502530 ATATAATATAAATATAATAATTT
1 ATATAATATAAATATAAAAATTT
2502553 ATATAATAT-AATAATAAAAATT
1 ATATAATATAAAT-ATAAAAATT
2502575 ATCAGATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
ATATAATATAAATATAAAAATTT
Found at i:2502708 original size:24 final size:22
Alignment explanation
Indices: 2502675--2502718 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
2502665 TTGGGCTTGA
*
2502675 AATTTTATTTTTATTGTTAAATTT
1 AATTTAATTTTT-TT-TTAAATTT
2502699 AATTTAATTTTTTTTTAAAT
1 AATTTAATTTTTTTTTAAAT
2502719 ATATTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 2 0.11
24 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
AATTTAATTTTTTTTTAAATTT
Found at i:2503620 original size:20 final size:19
Alignment explanation
Indices: 2503575--2503624 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
2503565 CAAATATTAT
* * *
2503575 TTTTAATTTTTTTTGAAAT
1 TTTTAATTTTTTATAAAAA
2503594 TTGTTAATTTTTTAATAAAAA
1 TT-TTAATTTTTT-ATAAAAA
2503615 TTTTAATTTT
1 TTTTAATTTT
2503625 ATGATGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 2 0.08
20 18 0.69
21 6 0.23
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (19 bp):
TTTTAATTTTTTATAAAAA
Found at i:2504073 original size:21 final size:21
Alignment explanation
Indices: 2504049--2504088 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2504039 AATTTAAAAT
*
2504049 TTTAAAAAAATTATAAATAAA
1 TTTAAAAAAATTAAAAATAAA
*
2504070 TTTAATAAAATTAAAAATA
1 TTTAAAAAAATTAAAAATA
2504089 TATATTTTTT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
TTTAAAAAAATTAAAAATAAA
Found at i:2504307 original size:24 final size:24
Alignment explanation
Indices: 2504261--2504307 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
2504251 TATAACATTT
* * **
2504261 GATTTAGATTAATTTTATTTATTC
1 GATTCAGATTAAATTTAAATATTC
2504285 GATTCAGATTAAATTTAAATATT
1 GATTCAGATTAAATTTAAATATT
2504308 AAATATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (24 bp):
GATTCAGATTAAATTTAAATATTC
Found at i:2504335 original size:11 final size:11
Alignment explanation
Indices: 2504292--2504335 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
2504282 TTCGATTCAG
2504292 ATTAAATTTAAAT
1 ATTAAATTT--AT
*
2504305 ATTAAATATAT
1 ATTAAATTTAT
*
2504316 ATTAGATTTAT
1 ATTAAATTTAT
2504327 ATTAAATTT
1 ATTAAATTT
2504336 TAAATTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.70
13 8 0.30
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (11 bp):
ATTAAATTTAT
Found at i:2504551 original size:26 final size:27
Alignment explanation
Indices: 2504522--2504572 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
2504512 AATTAAATTG
*
2504522 ATAAATATCAATTCAAATT-GAATCAT
1 ATAAAAATCAATTCAAATTCGAATCAT
* *
2504548 ATAAAAATTAATTTAAATTCGAATC
1 ATAAAAATCAATTCAAATTCGAATC
2504573 GAAATTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (27 bp):
ATAAAAATCAATTCAAATTCGAATCAT
Found at i:2512325 original size:15 final size:15
Alignment explanation
Indices: 2512305--2512333 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2512295 TGACAATATG
2512305 AAATAAAAATAATAA
1 AAATAAAAATAATAA
2512320 AAATAAAAATAATA
1 AAATAAAAATAATA
2512334 TGATTTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAAAATAATAA
Found at i:2512368 original size:20 final size:19
Alignment explanation
Indices: 2512339--2512379 Score: 73
Period size: 20 Copynumber: 2.1 Consensus size: 19
2512329 TAATATGATT
2512339 TAAAATTTTTAAAAAATTA
1 TAAAATTTTTAAAAAATTA
2512358 TAAATATTTTTAAAAAATTA
1 TAAA-ATTTTTAAAAAATTA
2512378 TA
1 TA
2512380 TTTTATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAATTTTTAAAAAATTA
Found at i:2512468 original size:23 final size:23
Alignment explanation
Indices: 2512429--2512473 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2512419 TTTATATAAA
* *
2512429 ATATAATATAAATATAATAATTT
1 ATATAATACAAATATAAAAATTT
2512452 ATATAATAC-AATAATAAAAATT
1 ATATAATACAAAT-ATAAAAATT
2512474 ATCAGATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATATAATACAAATATAAAAATTT
Found at i:2514196 original size:24 final size:24
Alignment explanation
Indices: 2514168--2514213 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2514158 AAAATTATAA
* *
2514168 TATTTGATTTAGATTAATTTTATT
1 TATTTGATTCAGATTAAATTTATT
2514192 TATTTGATTCAGATTAAATTTA
1 TATTTGATTCAGATTAAATTTA
2514214 AATGTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.57
Consensus pattern (24 bp):
TATTTGATTCAGATTAAATTTATT
Found at i:2514396 original size:13 final size:13
Alignment explanation
Indices: 2514365--2514405 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
2514355 AAACTATTTA
2514365 AATATATTAAAAT
1 AATATATTAAAAT
**
2514378 TTTATATTAAAAT
1 AATATATTAAAAT
*
2514391 AATATATAAAAAT
1 AATATATTAAAAT
2514404 AA
1 AA
2514406 ATGAATTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AATATATTAAAAT
Found at i:2517890 original size:275 final size:276
Alignment explanation
Indices: 2517392--2517939 Score: 891
Period size: 275 Copynumber: 2.0 Consensus size: 276
2517382 GAGTTTTGAA
* *
2517392 TCTTTAAATTTTCTACTCTTTTAACCATAGATTTGTCTGGTTTCATCTTTTTCTTCTAAAAAAAT
1 TCTTTAAATTTTCCACTCTTTTAACCATAGATTTATCTGGTTTCATCTTTTTCTTCTAAAAAAAT
* * *
2517457 TGCTGACCAAAACTGTTCACTTGTATCTGTTTACAGTATCTTTTTTCTATCAGAGGGAATCTTTA
66 TGCTGACCAAAACTGTTCACTTGCATCTGTTTACAGTATCTTTTTTCTATAAGAAGGAATCTTTA
* * **
2517522 AAGTTAAAAGTGACTTTGCTTTTATCTTCAAGGTATGTACTGCATTTATCTATTTTTGAGATTAC
131 AAGTTAAAAGTGACTTTACTTTTATCTTCAAGGTATGTACTGCATTTATCTATTTTTGAAACCAC
* * *
2517587 GTGGATGGTTTTTTCTTGAGCATTTGTCTGAGAAAATGAGTTAATTGGGCAAGACCTGAGAGAAA
196 GTGGATGGTTCTTTCTTGAGCATTTGTCTGAGAAAATGAGTTAACTGGACAAGACCTGAGAGAAA
*
2517652 TTCACTCATATAAAAT
261 TTCACTAATATAAAAT
* * *
2517668 TCTTTGAATTTTCCACTCTTTTAACCGTAGATTTATCTGGTTTCATCTTTTTCTTCTAAAAGAAT
1 TCTTTAAATTTTCCACTCTTTTAACCATAGATTTATCTGGTTTCATCTTTTTCTTCTAAAAAAAT
*
2517733 TGTTGACCAAAACTGTTCACTTGCATCTGTTTACAGTAT-TTTTTTCTATAAGAAGGAATCTTTA
66 TGCTGACCAAAACTGTTCACTTGCATCTGTTTACAGTATCTTTTTTCTATAAGAAGGAATCTTTA
* * *
2517797 AAGTTGAAAGTGACTTTACTTTTATTTTTAAGGTATGTACTGCATTTATCTATTTTTGAAACCAC
131 AAGTTAAAAGTGACTTTACTTTTATCTTCAAGGTATGTACTGCATTTATCTATTTTTGAAACCAC
* *
2517862 GTGGATGGTTCTTTCTTGAGCTTTTGTCTGAGAAAATGAGTTAACTGGACAAGATCTGAGAGAAA
196 GTGGATGGTTCTTTCTTGAGCATTTGTCTGAGAAAATGAGTTAACTGGACAAGACCTGAGAGAAA
2517927 TTCACTAATATAA
261 TTCACTAATATAA
2517940 TTTACTATAC
Statistics
Matches: 250, Mismatches: 22, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
275 153 0.61
276 97 0.39
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (276 bp):
TCTTTAAATTTTCCACTCTTTTAACCATAGATTTATCTGGTTTCATCTTTTTCTTCTAAAAAAAT
TGCTGACCAAAACTGTTCACTTGCATCTGTTTACAGTATCTTTTTTCTATAAGAAGGAATCTTTA
AAGTTAAAAGTGACTTTACTTTTATCTTCAAGGTATGTACTGCATTTATCTATTTTTGAAACCAC
GTGGATGGTTCTTTCTTGAGCATTTGTCTGAGAAAATGAGTTAACTGGACAAGACCTGAGAGAAA
TTCACTAATATAAAAT
Found at i:2521525 original size:12 final size:12
Alignment explanation
Indices: 2521510--2521534 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2521500 ATGGTAAAAG
2521510 TTGGGTGAAATC
1 TTGGGTGAAATC
2521522 TTGGGTGAAATC
1 TTGGGTGAAATC
2521534 T
1 T
2521535 GGTTTTTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.32, T:0.36
Consensus pattern (12 bp):
TTGGGTGAAATC
Found at i:2531332 original size:58 final size:56
Alignment explanation
Indices: 2531261--2531672 Score: 339
Period size: 58 Copynumber: 7.1 Consensus size: 56
2531251 TTGTATAAAA
* * * * *
2531261 AAAATTAATACTTTTAACTTTTTCTTAAAATATTTTTTTGAAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTTCTAAAAATATTTTTTTGAAAAC-TT-ATTTCAAAG
* * *
2531319 AAAATTGATACTTTCAATTTTTTCCCAAAAATA-TTTTTTG-AAACTTTTAATTTCGAAG
1 AAAATTGATACTTTCAACTTTTT-CTAAAAATATTTTTTTGAAAAC--TT-ATTTCAAAG
* * *
2531377 AAAATTGATATTTTCAACTTTTTCTCAAAAACTCA--CTTTTGAAAACTTGTTTCTAAAG
1 AAAATTGATACTTTCAACTTTTTCT-AAAAA-T-ATTTTTTTGAAAACTTATTTC-AAAG
* * * * **
2531435 AAAATTGATCCTTTCAACTTTTCCTCAAAAATCTATTTTTGAAAACTTATTTTTAAG
1 AAAATTGATACTTTCAACTTTTTCT-AAAAATATTTTTTTGAAAACTTATTTCAAAG
* * *
2531492 AAGAATTGATACTTTCAACTTTTTTCTAAAAATATTTTTTTTAGAAAGCTTATTTTCTAGG
1 AA-AATTGATACTTTCAAC-TTTTTCTAAAAATA-TTTTTTT-GAAAACTTA-TTTCAAAG
* * * * *
2531553 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTAAAAAA
1 AAAATTGATACTTTCAACTTTTTCT-AAAAATATTTTTTTGAAAACTTATTT-CAAAG
* * * * *
2531611 AAAATTGATATTTTTAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTC-AAG
1 AAAATTGATACTTTCAACTTTTTCT-AAAAATATTTTTTTGAAAACTTA-TTTCAAAG
2531668 AAAAT
1 AAAAT
2531673 ATTTTTTAGA
Statistics
Matches: 300, Mismatches: 37, Indels: 35
0.81 0.10 0.09
Matches are distributed among these distances:
57 25 0.08
58 191 0.64
59 40 0.13
60 36 0.12
61 8 0.03
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTTCTAAAAATATTTTTTTGAAAACTTATTTCAAAG
Found at i:2531613 original size:30 final size:30
Alignment explanation
Indices: 2531579--2531703 Score: 100
Period size: 30 Copynumber: 4.2 Consensus size: 30
2531569 ACTTTTCCTC
*
2531579 AAAAATATTTTTTAGAAAGCTTATTTAAAAA
1 AAAAATATTTTTTAGAAAGCTTATTT-ACAA
* **
2531610 AAAAATTGATATTTTT---AA-C-T-TTTCCTC
1 AAAAA-T-AT-TTTTTAGAAAGCTTATTTACAA
*
2531637 AAAAATATTTTTTAGAAAGCTTATTTTCAA
1 AAAAATATTTTTTAGAAAGCTTATTTACAA
* *
2531667 GAAAATATTTTTTAGAAAGCTTATTTTCAA
1 AAAAATATTTTTTAGAAAGCTTATTTACAA
2531697 GAAAAAT
1 -AAAAAT
2531704 TGATACTTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
24 5 0.07
25 2 0.03
26 1 0.01
27 7 0.09
28 4 0.05
29 2 0.03
30 34 0.45
31 12 0.16
32 1 0.01
33 2 0.03
34 5 0.07
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (30 bp):
AAAAATATTTTTTAGAAAGCTTATTTACAA
Found at i:2531617 original size:176 final size:170
Alignment explanation
Indices: 2531257--2531672 Score: 462
Period size: 176 Copynumber: 2.4 Consensus size: 170
2531247 GCTTTTGTAT
* * * * *
2531257 AAAAAAAATTAATACTTTTAACTTTTTCTTAAAATATTTTTTTGAAAACTTTAATTTCGAGGAAA
1 AAAAAAAATTGATACTTTTAACTTTTCCTCAAAA-ATTTTTTTGAAAAC-TTATTTTC-AAGAAA
2531322 ATTGATACTTTCAATTTTTTCCCAAAAATATTTTTTGAAACTTTTAATTTCGAAGAAAATTGATA
63 ATTGATACTTTCAATTTTTTCCCAAAAATATTTTTTGAAAC-TTTAATTTCGAAGAAAATTGATA
* * * **
2531387 TTTTCAACTTTTTCTCAAAAACTCACTTTTGAAAACTTGTTTCT
127 CTTTCAACTTTTCCTCAAAAACTCACTTTTGAAAACTTATTTAA
* * * *
2531431 AAAGAAAATTGATCCTTTCAACTTTTCCTCAAAAATCTATTTTTGAAAACTTATTTTTAAGAAGA
1 AAAAAAAATTGATACTTTTAACTTTTCCTCAAAAAT-T-TTTTTGAAAACTTATTTTCAAGAA-A
* * * *
2531496 ATTGATACTTTCAACTTTTTT-CTAAAAATATTTTTTTTAGAAAGC-TTATTTTCTAGGAAAATT
63 ATTGATACTTTCAA-TTTTTTCCCAAAAATA--TTTTTT-GAAA-CTTTAATTTCGAAGAAAATT
* *
2531559 GATACTTTCAACTTTTCCTCAAAAA-T-ATTTTTTAGAAAGCTTATTTAA
123 GATACTTTCAACTTTTCCTCAAAAACTCA-CTTTT-GAAAACTTATTTAA
* *
2531607 AAAAAAAATTGATATTTTTAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGAAAA
1 AAAAAAAATTGATACTTTTAACTTTTCCTCAAAAAT-TTTTTT-GAAAACTTATTTTCAAGAAAA
2531672 T
64 T
2531673 ATTTTTTAGA
Statistics
Matches: 204, Mismatches: 27, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
173 6 0.03
174 59 0.29
175 30 0.15
176 104 0.51
177 4 0.02
178 1 0.00
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.44
Consensus pattern (170 bp):
AAAAAAAATTGATACTTTTAACTTTTCCTCAAAAATTTTTTTGAAAACTTATTTTCAAGAAAATT
GATACTTTCAATTTTTTCCCAAAAATATTTTTTGAAACTTTAATTTCGAAGAAAATTGATACTTT
CAACTTTTCCTCAAAAACTCACTTTTGAAAACTTATTTAA
Found at i:2531661 original size:16 final size:16
Alignment explanation
Indices: 2531642--2531693 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
2531632 TCCTCAAAAA
2531642 TATTTTTTAGAAAGCT
1 TATTTTTTAGAAAGCT
** *
2531658 TATTTTCAAGAAA--A
1 TATTTTTTAGAAAGCT
2531672 TATTTTTTAGAAAGCT
1 TATTTTTTAGAAAGCT
2531688 TATTTT
1 TATTTT
2531694 CAAGAAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 11 0.39
16 17 0.61
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.50
Consensus pattern (16 bp):
TATTTTTTAGAAAGCT
Found at i:2531672 original size:88 final size:88
Alignment explanation
Indices: 2531580--2531759 Score: 288
Period size: 88 Copynumber: 2.0 Consensus size: 88
2531570 CTTTTCCTCA
* * *
2531580 AAAATATTTTTTAGAAAGCTTATTTAAAAAAAAAATTGATATTTTTAACTTTTCCTCAAAAATAT
1 AAAATATTTTTTAGAAAGCTTATTTAAAAAAAAAATTGATACTTTTAACTTTTCATCAAAAATAC
*
2531645 TTTTTAGAAAGCTTATTTTCAAG
66 TTTTTAGAAAGCTTATTTTAAAG
** * *
2531668 AAAATATTTTTTAGAAAGCTTATTTTCAAGAAAAATTGATACTTTTAACTTTTCATCAAAAATCC
1 AAAATATTTTTTAGAAAGCTTATTTAAAAAAAAAATTGATACTTTTAACTTTTCATCAAAAATAC
2531733 TTTTTAGAAAGCTTATTTTAAAG
66 TTTTTAGAAAGCTTATTTTAAAG
2531756 AAAA
1 AAAA
2531760 ATTGATACTT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 84 1.00
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (88 bp):
AAAATATTTTTTAGAAAGCTTATTTAAAAAAAAAATTGATACTTTTAACTTTTCATCAAAAATAC
TTTTTAGAAAGCTTATTTTAAAG
Found at i:2531699 original size:16 final size:16
Alignment explanation
Indices: 2531650--2531700 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
2531640 AATATTTTTT
2531650 AGAAAGCTTATTTTCA
1 AGAAAGCTTATTTTCA
* **
2531666 AGAAA--ATATTTTTT
1 AGAAAGCTTATTTTCA
2531680 AGAAAGCTTATTTTCA
1 AGAAAGCTTATTTTCA
2531696 AGAAA
1 AGAAA
2531701 AATTGATACT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 11 0.41
16 16 0.59
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (16 bp):
AGAAAGCTTATTTTCA
Found at i:2531703 original size:146 final size:146
Alignment explanation
Indices: 2531528--2531795 Score: 446
Period size: 146 Copynumber: 1.8 Consensus size: 146
2531518 TAAAAATATT
* * * *
2531528 TTTTTTAGAAAGCTTATTTTCTAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTA
1 TTTTTTAGAAAGCTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCATCAAAAATACTTTTTA
* *
2531593 GAAAGCTTATTTAAAAAAAAAATTGATATTTTTAACTTTTCCTCAAAAATATTTTTTAGAAAGCT
66 GAAAGCTTATTTAAAAAAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCT
2531658 TATTTTCAAGAAAATA
131 TATTTTCAAGAAAATA
* *
2531674 TTTTTTAGAAAGCTTATTTTCAAGAAAAATTGATACTTTTAACTTTTCATCAAAAATCCTTTTTA
1 TTTTTTAGAAAGCTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCATCAAAAATACTTTTTA
* *
2531739 GAAAGCTTATTTTAAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
66 GAAAGCTTATTTAAAAAAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
2531796 TGAATTTTAT
Statistics
Matches: 112, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
146 112 1.00
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (146 bp):
TTTTTTAGAAAGCTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCATCAAAAATACTTTTTA
GAAAGCTTATTTAAAAAAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCT
TATTTTCAAGAAAATA
Found at i:2531795 original size:58 final size:58
Alignment explanation
Indices: 2531668--2531795 Score: 211
Period size: 58 Copynumber: 2.2 Consensus size: 58
2531658 TATTTTCAAG
* *
2531668 AAAATATTTTTTAGAAAGCTTATTTTCAAGAAAAATTGATACTTTTAACTTTTCATCA
1 AAAATATTTTTTAGAAAGCTTATTTTAAAGAAAAATTGATACTTTCAACTTTTCATCA
** *
2531726 AAAATCCTTTTTAGAAAGCTTATTTTAAAGAAAAATTGATACTTTCAACTTTTCCTCA
1 AAAATATTTTTTAGAAAGCTTATTTTAAAGAAAAATTGATACTTTCAACTTTTCATCA
2531784 AAAATATTTTTT
1 AAAATATTTTTT
2531796 TGAATTTTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (58 bp):
AAAATATTTTTTAGAAAGCTTATTTTAAAGAAAAATTGATACTTTCAACTTTTCATCA
Found at i:2531820 original size:5 final size:5
Alignment explanation
Indices: 2531812--2531930 Score: 81
Period size: 5 Copynumber: 23.8 Consensus size: 5
2531802 TTATTTAAAG
2531812 AAAAT AAAAT --AAT AAAAT AAAAT AAAATT AAAGA- AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T AAA-AT AAAAT AAAAT AAAAT
* * * **
2531861 AAGAAT AAAA- AAAAT TAAAC AAATCT AATCT AATAAT AATAAT AATAAT
1 AA-AAT AAAAT AAAAT AAAAT AAA-AT AAAAT AA-AAT AA-AAT AA-AAT
2531910 AAAAT -AAAT -AAAT -AAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAA
2531931 CGAAAAAAAA
Statistics
Matches: 96, Mismatches: 8, Indels: 20
0.77 0.06 0.16
Matches are distributed among these distances:
3 3 0.03
4 17 0.18
5 49 0.51
6 26 0.27
7 1 0.01
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:2531849 original size:16 final size:16
Alignment explanation
Indices: 2531806--2531870 Score: 62
Period size: 16 Copynumber: 4.0 Consensus size: 16
2531796 TGAATTTTAT
2531806 TTAAAG-AAAATAAAA
1 TTAAAGAAAAATAAAA
2531821 TAATAAA-ATAAAATAAAA
1 T--TAAAGA-AAAATAAAA
2531839 TTAAAGAAAAATAAAA
1 TTAAAGAAAAATAAAA
* * *
2531855 TAAAATAAGAATAAAA
1 TTAAAGAAAAATAAAA
2531871 AAAATTAAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
15 1 0.02
16 26 0.62
17 5 0.12
18 10 0.24
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (16 bp):
TTAAAGAAAAATAAAA
Found at i:2531879 original size:26 final size:26
Alignment explanation
Indices: 2531822--2531875 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 26
2531812 AAAATAAAAT
2531822 AATAAAATAAAATAAAATTAAAGAAA
1 AATAAAATAAAATAAAATTAAAGAAA
2531848 AATAAAATAAAATAAGAA-TAAA-AAA
1 AATAAAATAAAATAA-AATTAAAGAAA
2531873 AAT
1 AAT
2531876 TAAACAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 6 0.22
26 19 0.70
27 2 0.07
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.19
Consensus pattern (26 bp):
AATAAAATAAAATAAAATTAAAGAAA
Found at i:2532737 original size:16 final size:17
Alignment explanation
Indices: 2532716--2532775 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
2532706 CAAATATATT
2532716 AATAGATAACA-AAAA-A
1 AATAGATAA-ATAAAAGA
2532732 AATAGATAAATAAAAGA
1 AATAGATAAATAAAAGA
*
2532749 AATAGATAAATAATAATA
1 AATAGATAAATAA-AAGA
2532767 AATA-ATAAA
1 AATAGATAAA
2532776 ATTAGATAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
15 1 0.03
16 13 0.32
17 19 0.47
18 7 0.17
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.20
Consensus pattern (17 bp):
AATAGATAAATAAAAGA
Found at i:2532768 original size:27 final size:27
Alignment explanation
Indices: 2532732--2532858 Score: 97
Period size: 27 Copynumber: 4.7 Consensus size: 27
2532722 TAACAAAAAA
2532732 AATAGATAAATAA-AAGAAATAGATAAAT
1 AATA-ATAAATAATAA-AAATAGATAAAT
*
2532760 AATAATAAATAATAAAATTAGATAAAT
1 AATAATAAATAATAAAAATAGATAAAT
*
2532787 AATAA-AAAT-AT--TAATAGATAAAAT
1 AATAATAAATAATAAAAATAGAT-AAAT
* * *
2532811 AAAAATAAA-AAGTAAAAATATATATATT
1 AATAATAAATAA-TAAAAATAGATA-AAT
*
2532839 AAATAATGAA-AATAAAAATA
1 -AATAATAAATAATAAAAATA
2532859 AAAGCCCATT
Statistics
Matches: 81, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
23 6 0.07
24 8 0.10
25 6 0.07
26 5 0.06
27 25 0.31
28 22 0.27
29 9 0.11
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (27 bp):
AATAATAAATAATAAAAATAGATAAAT
Found at i:2532790 original size:20 final size:19
Alignment explanation
Indices: 2532767--2532814 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
2532757 AATAATAATA
2532767 AATAATAAAATTAGATAAAT
1 AATAATAAAATTA-ATAAAT
*
2532787 AATAA-AAATATTAATAGAT
1 AATAATAAA-ATTAATAAAT
2532806 AA-AATAAAA
1 AATAATAAAA
2532815 ATAAAAAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 3 0.12
19 13 0.52
20 9 0.36
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (19 bp):
AATAATAAAATTAATAAAT
Found at i:2533058 original size:1 final size:1
Alignment explanation
Indices: 2533052--2533105 Score: 54
Period size: 1 Copynumber: 54.0 Consensus size: 1
2533042 AACTTGACAC
* * * * * *
2533052 TTTTTTTATTTTTGTTTTTTCTTTTTTTTGTTTTGTTTTGTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2533106 GTTAAAATTT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.02, C:0.02, G:0.07, T:0.89
Consensus pattern (1 bp):
T
Found at i:2533077 original size:21 final size:21
Alignment explanation
Indices: 2533051--2533108 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
2533041 CAACTTGACA
2533051 CTTTTTTTATTTTTGTTTT-TT
1 CTTTTTTT-TTTTTGTTTTGTT
2533072 CTTTTTTTTGTTTTGTTTTGTT
1 CTTTTTTTT-TTTTGTTTTGTT
2533094 -TTTTTTTTTTTTGTT
1 CTTTTTTTTTTTTGTT
2533109 AAAATTTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.23
21 25 0.71
22 2 0.06
ACGTcount: A:0.02, C:0.03, G:0.09, T:0.86
Consensus pattern (21 bp):
CTTTTTTTTTTTTGTTTTGTT
Found at i:2533116 original size:26 final size:26
Alignment explanation
Indices: 2533061--2533117 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
2533051 CTTTTTTTAT
***
2533061 TTTTGTTTTTTCTTTTTTTTGTTTTG
1 TTTTGTTTTTTCTTTTTTTTGTTAAA
2533087 TTTTGTTTTTT-TTTTTTTTGTTAAAA
1 TTTTGTTTTTTCTTTTTTTTGTT-AAA
2533113 TTTTG
1 TTTTG
2533118 ATCAAAGCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 11 0.41
26 16 0.59
ACGTcount: A:0.07, C:0.02, G:0.11, T:0.81
Consensus pattern (26 bp):
TTTTGTTTTTTCTTTTTTTTGTTAAA
Found at i:2533349 original size:41 final size:41
Alignment explanation
Indices: 2533124--2533714 Score: 478
Period size: 42 Copynumber: 14.1 Consensus size: 41
2533114 TTTGATCAAA
* * **
2533124 GCTCCTCTAAGCAGAGGCTTAACAACTTTGAGAAACATAAACAAA
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGA-AAA-AT-AA-ATG
* **
2533169 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAACAAA
1 GCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAAT-AA-ATG
* * * ** *
2533213 GCTCCTCTAATCAAAGGTTTAATGATTTTGAAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTG-AAAAATAAATG
* *
2533255 GCTCTTCTAATCAAAGGCTCAA-AGACTTTGGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACA-ACTTT-GAAAAATAAATG
* * *
2533297 GCTCATTTAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAATG
* **
2533338 GCTTCTCTAATCAGAGGCTCAATGACTTTGAAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTG-AAAAATAAATG
* *
2533380 ACTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAATG
*
2533421 GCTCCTCTAATCAGAGACTCAACAACTTTGGAAATAACTAAA--
1 GCTCCTCTAATCAGAGGCTCAACAACTTT-GAAA-AA-TAAATG
* *
2533463 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATA
1 GCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAATAAATG
* * * *
2533505 GCT-CTCCTAATCAGAGGCTTAAC--TTTTGAAAAGTAAATT
1 GCTCCT-CTAATCAGAGGCTCAACAACTTTGAAAAATAAATG
* * * * * *
2533544 GCTCCTATAAAT-AGAGACACCACAACTTTGAAAAGTAAATT
1 GCTCCTCT-AATCAGAGGCTCAACAACTTTGAAAAATAAATG
* * * ** * *
2533585 GTTCCTCTAAACAGAGGCACCTCAACTTTTGAAAAGTAAATT
1 GCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAATAAATG
* * * *
2533627 GCTCCTCTAAAT-AGAGACACCACAACTTTGAAAAATAAATT
1 GCTCCTCT-AATCAGAGGCTCAACAACTTTGAAAAATAAATG
* * * * * *
2533668 GCTCCTCTAAACAAAGGCACCACGACTTTGAAAAGTAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAATG
2533709 GCTCCT
1 GCTCCT
2533715 TGACAATCAT
Statistics
Matches: 464, Mismatches: 61, Indels: 46
0.81 0.11 0.08
Matches are distributed among these distances:
39 24 0.05
40 13 0.03
41 162 0.35
42 180 0.39
43 14 0.03
44 40 0.09
45 26 0.06
46 5 0.01
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (41 bp):
GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAATG
Found at i:2533358 original size:83 final size:83
Alignment explanation
Indices: 2533124--2533714 Score: 443
Period size: 83 Copynumber: 7.1 Consensus size: 83
2533114 TTTGATCAAA
* * ** *
2533124 GCTCCTCTAAGCAGAGGCTTAACAACTTTGAGAAACATAAACAAAGCTCCTCTAATCAGAGGCTC
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGA-AAA-AT-AA-ATGGCTTCTCTAATCAGAGGCTC
* * **
2533189 AACGACTTTTGAAAAATAAACAAA
62 AAAGACTTTGGAAAAAT-AA-ATG
* * * ** * *
2533213 GCTCCTCTAATCAAAGGTTTAATGATTTTGAAAAAATAAATGGC-TCTTCTAATCAAAGGCTCAA
1 GCTCCTCTAATCAGAGGCTCAACAACTTTG-AAAAATAAATGGCTTC-TCTAATCAGAGGCTCAA
2533277 AGACTTTGGAAAAATAAATG
64 AGACTTTGGAAAAATAAATG
* * * *
2533297 GCTCATTTAATCAGAGGCTCAACAACTTTGAAAAGTAAATGGCTTCTCTAATCAGAGGCTCAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAATGGCTTCTCTAATCAGAGGCTCAAAG
*
2533362 ACTTTGAAAAAATAAATG
66 ACTTTGGAAAAATAAATG
* * * *
2533380 ACTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATGGCTCCTCTAATCAGAGACTCAACA
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAATGGCTTCTCTAATCAGAGGCTCAA-A
2533445 -ACTTTGGAAATAACTAAA--
65 GACTTTGGAAA-AA-TAAATG
* * *
2533463 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAATAGC-TCTCCTAATCAGAGGCT--T
1 GCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAATAAATGGCTTCT-CTAATCAGAGGCTCAA
* * *
2533525 A-ACTTTTGAAAAGTAAATT
64 AGACTTTGGAAAAATAAATG
* * * * * * * * *
2533544 GCTCCTATAAAT-AGAGACACCACAACTTTGAAAAGTAAATTG-TTCCTCTAAACAGAGGCACCT
1 GCTCCTCT-AATCAGAGGCTCAACAACTTTGAAAAATAAATGGCTT-CTCTAATCAGAGGC-TCA
* * * *
2533607 CA-ACTTTTGAAAAGTAAATT
63 AAGACTTTGGAAAAATAAATG
* * * * * * * * * *
2533627 GCTCCTCTAAAT-AGAGACACCACAACTTTGAAAAATAAATTGCTCCTCTAAACAAAGGCACCAC
1 GCTCCTCT-AATCAGAGGCTCAACAACTTTGAAAAATAAATGGCTTCTCTAATCAGAGGCTCAAA
*
2533691 GACTTT-GAAAAGTAAATG
65 GACTTTGGAAAAATAAATG
2533709 GCTCCT
1 GCTCCT
2533715 TGACAATCAT
Statistics
Matches: 423, Mismatches: 61, Indels: 43
0.80 0.12 0.08
Matches are distributed among these distances:
79 4 0.01
80 27 0.06
81 29 0.07
82 21 0.05
83 216 0.51
84 55 0.13
85 7 0.02
86 32 0.08
87 2 0.00
88 2 0.00
89 27 0.06
90 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (83 bp):
GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAATGGCTTCTCTAATCAGAGGCTCAAAG
ACTTTGGAAAAATAAATG
Found at i:2533362 original size:125 final size:122
Alignment explanation
Indices: 2533169--2533602 Score: 446
Period size: 125 Copynumber: 3.5 Consensus size: 122
2533159 CATAAACAAA
* * * * * * * *
2533169 GCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAATAAACAAAGCTCCTCTAATCAAAGGTTTA
1 GCTCCTTTAATCAGAGACTCAACAAC-TTTGAAAAGT--A-AATGCTCCTCTAATCAGAGGCTCA
* *
2533234 ATGATTTTGAAAAAATAAATGGCTCTTCTAATCAAAGGCTCAAAGACTTTGGAAAAATAAATG
62 ATGATTTTGAAAAAATAAATGGCTCTTCTAATCAGAGGCTCAAA-ACTTT-GAAAAGTAAATG
* * *
2533297 GCTCATTTAATCAGAGGCTCAACAACTTTGAAAAGTAAATGGCTTCTCTAATCAGAGGCTCAATG
1 GCTCCTTTAATCAGAGACTCAACAACTTTGAAAAGTAAAT-GCTCCTCTAATCAGAGGCTCAATG
* * *
2533362 ACTTTGAAAAAATAAATGACTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
65 ATTTTGAAAAAATAAATGGCTCTTCTAATCAGAGGCTCAA-AACTTTGAAAAGTAAATG
* *
2533421 GCTCCTCTAATCAGAGACTCAACAACTTTGGAAATAACTAAA-GCTCCTCTAATCAGAGGCTCAA
1 GCTCCTTTAATCAGAGACTCAACAACTTT-G-AA-AAGTAAATGCTCCTCTAATCAGAGGCTCAA
* * * * *
2533485 CGACTTTTG-AAAAATAAATAGCTCTCCTAATCAGAGGCT--TAACTTTTGAAAAGTAAATT
63 TGA-TTTTGAAAAAATAAATGGCTCTTCTAATCAGAGGCTCAAAAC-TTTGAAAAGTAAATG
* * * * *
2533544 GCTCCTATAAAT-AGAGACACCACAACTTTGAAAAGTAAATTGTTCCTCTAAACAGAGGC
1 GCTCCT-TTAATCAGAGACTCAACAACTTTGAAAAGTAAA-TGCTCCTCTAATCAGAGGC
2533603 ACCTCAACTT
Statistics
Matches: 262, Mismatches: 34, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
120 6 0.02
121 2 0.01
122 20 0.08
123 35 0.13
124 42 0.16
125 112 0.43
126 7 0.03
127 15 0.06
128 23 0.09
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (122 bp):
GCTCCTTTAATCAGAGACTCAACAACTTTGAAAAGTAAATGCTCCTCTAATCAGAGGCTCAATGA
TTTTGAAAAAATAAATGGCTCTTCTAATCAGAGGCTCAAAACTTTGAAAAGTAAATG
Found at i:2535430 original size:21 final size:20
Alignment explanation
Indices: 2535381--2535433 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
2535371 TTTCAATTTG
2535381 ATTTTTTTTTCATTTTTTCA
1 ATTTTTTTTTCATTTTTTCA
2535401 ATTTTTTTTTCTATTTTTTC-
1 ATTTTTTTTTC-ATTTTTTCA
*
2535421 TTTTTTTTTTCAT
1 ATTTTTTTTTCAT
2535434 CATCTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 2 0.06
20 21 0.68
21 8 0.26
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.79
Consensus pattern (20 bp):
ATTTTTTTTTCATTTTTTCA
Found at i:2535450 original size:14 final size:14
Alignment explanation
Indices: 2535422--2535454 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
2535412 TATTTTTTCT
2535422 TTTTTTTTTCATCA
1 TTTTTTTTTCATCA
2535436 TCTTTTTTTTC-TCA
1 T-TTTTTTTTCATCA
2535450 TTTTT
1 TTTTT
2535455 CATCTATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 5 0.28
15 9 0.50
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTTTTTCATCA
Found at i:2539480 original size:58 final size:57
Alignment explanation
Indices: 2539410--2539739 Score: 394
Period size: 58 Copynumber: 5.7 Consensus size: 57
2539400 TTTATACAGA
* * *
2539410 AAAAATTGATACTTTCAACTTTTTCTCAAAATAT-TTTTTTGAAAACTTTAATTTCGAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAA-ATCTTTTTTGAAAAC-TTATTTTCAAG
* * *
2539468 AAAAATTAATACTTTCAACTTTTCCTCAAAAACTCATTTTTGAAAACTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAA-TCTTTTTTGAAAACTTATTTTCAAG
** ** *
2539526 AAAAATTGATACTTTCAACTTTTTTTCAAAAACTCACTTTTGAAAACTT-GTTTCTAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAA-TCTTTTTTGAAAACTTATTTTC-AAG
*
2539584 AAAAATTGATACTTTCAACTTTTCCTCAAAAATCTATTTTTGAAAACTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATCT-TTTTTGAAAACTTATTTTCAAG
* * * ** * *
2539642 GAGAATTGATACTTTCAATTTTTTTTCAAAAATATTTTTTAGAAAGCTTATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTT-GAAAACTTATTTTCAAG
* *
2539700 AAAAATTAATACTTTCAACTTTTCCTCAAAAATCCTTTTT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTT
2539740 AGAATTTTAT
Statistics
Matches: 232, Mismatches: 34, Indels: 12
0.83 0.12 0.04
Matches are distributed among these distances:
57 11 0.05
58 207 0.89
59 14 0.06
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (57 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTGAAAACTTATTTTCAAG
Found at i:2539546 original size:116 final size:114
Alignment explanation
Indices: 2539410--2539739 Score: 466
Period size: 116 Copynumber: 2.9 Consensus size: 114
2539400 TTTATACAGA
* *
2539410 AAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTTGAAAACTTTAATTTCGAGAAAAATT
1 AAAAATTGATACTTTCAACTTTTTTTCAAAATATTTTTTTGAAAAC-TTAATTTCAAGAAAAATT
2539475 AATACTTTCAACTTTTCCTCAAAAACTCATTTTTGAAAACTTATTTTTAAG
65 AATACTTTCAACTTTTCCTCAAAAA-TCATTTTTGAAAACTTATTTTTAAG
** *
2539526 AAAAATTGATACTTTCAACTTTTTTTCAAAA-ACTCACTTTTGAAAACTT-GTTTCTAAGAAAAA
1 AAAAATTGATACTTTCAACTTTTTTTCAAAATA-T-TTTTTTGAAAACTTAATTTC-AAGAAAAA
*
2539589 TTGATACTTTCAACTTTTCCTCAAAAATCTATTTTTGAAAACTTATTTTTAAG
63 TTAATACTTTCAACTTTTCCTCAAAAATC-ATTTTTGAAAACTTATTTTTAAG
* * * * * *
2539642 GAGAATTGATACTTTCAATTTTTTTTCAAAAATATTTTTTAGAAAGCTTATTTTCAAGAAAAATT
1 AAAAATTGATACTTTCAACTTTTTTTC-AAAATATTTTTTTGAAAACTTAATTTCAAGAAAAATT
*
2539707 AATACTTTCAACTTTTCCTCAAAAATCCTTTTT
65 AATACTTTCAACTTTTCCTCAAAAATCATTTTT
2539740 AGAATTTTAT
Statistics
Matches: 191, Mismatches: 16, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
115 12 0.06
116 159 0.83
117 19 0.10
118 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (114 bp):
AAAAATTGATACTTTCAACTTTTTTTCAAAATATTTTTTTGAAAACTTAATTTCAAGAAAAATTA
ATACTTTCAACTTTTCCTCAAAAATCATTTTTGAAAACTTATTTTTAAG
Found at i:2539550 original size:28 final size:28
Alignment explanation
Indices: 2539518--2539606 Score: 67
Period size: 28 Copynumber: 3.1 Consensus size: 28
2539508 TGAAAACTTA
2539518 TTTTTAAGAAAAATTGATACTTTCAACT
1 TTTTTAAGAAAAATTGATACTTTCAACT
** * * *
2539546 TTTTT-TCAAAAACT--CACTTTTGAAAACT
1 TTTTTAAGAAAAATTGATAC-TTT--CAACT
2539574 TGTTTCTAAGAAAAATTGATACTTTCAACT
1 T-TTT-TAAGAAAAATTGATACTTTCAACT
2539604 TTT
1 TTT
2539607 CCTCAAAAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 15
0.63 0.15 0.22
Matches are distributed among these distances:
25 2 0.05
26 3 0.07
27 6 0.14
28 10 0.23
29 5 0.12
30 6 0.14
31 6 0.14
32 3 0.07
33 2 0.05
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (28 bp):
TTTTTAAGAAAAATTGATACTTTCAACT
Found at i:2539703 original size:174 final size:172
Alignment explanation
Indices: 2539410--2539738 Score: 441
Period size: 174 Copynumber: 1.9 Consensus size: 172
2539400 TTTATACAGA
* *
2539410 AAAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTTGAAAACTTTAATTTCGAGAAAAATT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTGAAAACTTTAATTTCAAGAAAAATT
* *
2539475 AATACTTTCAACTTTTCCTCAAAAACTCATTTTTGAAAACTTATTTTTAAGAAAAATTGATACTT
66 AATACTTTCAACTTTTCCTCAAAAACTCATTTTTGAAAACTTATTTTCAAGAAAAATTAATACTT
**
2539540 TCAACTTTTTTTCAAAAACTCACTTTTGAAAACTTGTTTCTAAG
131 TCAACTTTTCCTCAAAAA-TC-CTTTTGAAAACTTGTTTCTAAG
* * * *
2539584 AAAAATTGATACTTTCAACTTTTCCTCAAAA-ATCTATTTTTGAAAAC-TTATTTTTAAGGAGAA
1 AAAAATTGATACTTTCAACTTTTCCTCAAAATAT-T-TTTTTGAAAACTTTAATTTCAAGAAAAA
* * ** *
2539647 TTGATACTTTCAATTTTTTTTCAAAAA-T-ATTTTTTAGAAAGCTTATTTTCAAGAAAAATTAAT
64 TTAATACTTTCAACTTTTCCTCAAAAACTCA-TTTTT-GAAAACTTATTTTCAAGAAAAATTAAT
2539710 ACTTTCAACTTTTCCTCAAAAATCCTTTT
127 ACTTTCAACTTTTCCTCAAAAATCCTTTT
2539739 TAGAATTTTA
Statistics
Matches: 136, Mismatches: 15, Indels: 10
0.84 0.09 0.06
Matches are distributed among these distances:
172 6 0.04
173 10 0.07
174 109 0.80
175 11 0.08
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (172 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTGAAAACTTTAATTTCAAGAAAAATT
AATACTTTCAACTTTTCCTCAAAAACTCATTTTTGAAAACTTATTTTCAAGAAAAATTAATACTT
TCAACTTTTCCTCAAAAATCCTTTTGAAAACTTGTTTCTAAG
Found at i:2539768 original size:14 final size:13
Alignment explanation
Indices: 2539751--2539892 Score: 51
Period size: 13 Copynumber: 10.6 Consensus size: 13
2539741 GAATTTTATT
2539751 TAAAGAAAATAAAA
1 TAAA-AAAATAAAA
*
2539765 TAAAATAATAAAA
1 TAAAAAAATAAAA
* *
2539778 -ATAAAGAA-AAAT
1 TA-AAAAAATAAAA
2539790 TAAAAAAATAAGAA
1 TAAAAAAATAA-AA
*
2539804 T--AAGAATAAAA
1 TAAAAAAATAAAA
*
2539815 TAATAATAATAAATA
1 TAA-AAAAATAAA-A
* **
2539830 TTAAACAAATCTAA
1 -TAAAAAAATAAAA
** *
2539844 TCTAATAATAATAA
1 TAAAAAAATAA-AA
2539858 TAATAATAAAT-AAA
1 TAA-AA-AAATAAAA
*
2539872 TAAATAAATAAAA
1 TAAAAAAATAAAA
*
2539885 CAAAAAAA
1 TAAAAAAA
2539893 ACATGAAAAC
Statistics
Matches: 92, Mismatches: 23, Indels: 27
0.65 0.16 0.19
Matches are distributed among these distances:
11 3 0.03
12 20 0.22
13 31 0.34
14 23 0.25
15 9 0.10
16 6 0.07
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:2539787 original size:18 final size:18
Alignment explanation
Indices: 2539756--2539814 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 18
2539746 TTATTTAAAG
*
2539756 AAAATAAAATAAAATAATA
1 AAAAT-AAAGAAAATAATA
2539775 AAAATAAAGAAAAATTAA-A
1 AAAATAAAG-AAAA-TAATA
*
2539794 AAAAT-AAGAATAAGAATA
1 AAAATAAAGAA-AATAATA
2539812 AAA
1 AAA
2539815 TAATAATAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
17 4 0.12
18 12 0.35
19 15 0.44
20 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (18 bp):
AAAATAAAGAAAATAATA
Found at i:2539793 original size:11 final size:9
Alignment explanation
Indices: 2539751--2539814 Score: 56
Period size: 9 Copynumber: 6.6 Consensus size: 9
2539741 GAATTTTATT
*
2539751 TAAAGAAAA
1 TAAAAAAAA
2539760 TAAAATAAAA
1 TAAAA-AAAA
*
2539770 TAATAAAAA
1 TAAAAAAAA
2539779 TAAAGAAAAA
1 TAAA-AAAAA
*
2539789 TTAAAAAAA
1 TAAAAAAAA
2539798 TAAGAATAAGAA
1 TAA-AA-AA-AA
2539810 TAAAA
1 TAAAA
2539815 TAATAATAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
9 18 0.40
10 18 0.40
11 4 0.09
12 5 0.11
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:2540762 original size:17 final size:17
Alignment explanation
Indices: 2540742--2540837 Score: 83
Period size: 17 Copynumber: 5.6 Consensus size: 17
2540732 ATAACAAAAA
*
2540742 AAAATAATTAGATAAAT
1 AAAATAAATAGATAAAT
*
2540759 AAAAGAAATAGATAAAT
1 AAAATAAATAGATAAAT
2540776 AATAATAAATA-ATAAA-
1 AA-AATAAATAGATAAAT
2540792 AGCAAATAAATA-ATAAA-
1 A--AAATAAATAGATAAAT
* *
2540809 AATATTAATAGATAAAAT
1 AAAATAAATAGAT-AAAT
2540827 AAAAATAAATA
1 -AAAATAAATA
2540838 TATATTAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
15 7 0.11
16 3 0.05
17 39 0.60
18 8 0.12
19 8 0.12
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.24
Consensus pattern (17 bp):
AAAATAAATAGATAAAT
Found at i:2540789 original size:21 final size:19
Alignment explanation
Indices: 2540726--2540789 Score: 60
Period size: 21 Copynumber: 3.3 Consensus size: 19
2540716 ATAAATATAT
*
2540726 TAATAGATAACAAAAAAAAA
1 TAATAGATAA-ATAAAAAAA
*
2540746 TAATTAGATAAAT-AAAAGA
1 TAA-TAGATAAATAAAAAAA
2540765 -AATAGATAAATAATAATAAA
1 TAATAGATAAATAA-AA-AAA
2540785 TAATA
1 TAATA
2540790 AAAGCAAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
17 9 0.25
18 3 0.08
19 7 0.19
20 6 0.17
21 11 0.31
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (19 bp):
TAATAGATAAATAAAAAAA
Found at i:2540792 original size:30 final size:29
Alignment explanation
Indices: 2540756--2540865 Score: 91
Period size: 30 Copynumber: 3.6 Consensus size: 29
2540746 TAATTAGATA
2540756 AATAAAAGAAATAGATAAATAATAATAAAT
1 AATAAAAGAAATA-ATAAATAATAATAAAT
*
2540786 AATAAAAGCAAATAA-ATAATAAAAATATTAAT
1 AATAAAAG-AAATAATA-AATAATAATA--AAT
* *
2540818 AGATAAAATAAA-AATAAATATATATTAAAT
1 A-ATAAAAGAAATAATAAATA-ATAATAAAT
*
2540848 AATGAAAATAAA-AATAAA
1 AAT-AAAAGAAATAATAAA
2540866 AGCCAATTGA
Statistics
Matches: 68, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
29 3 0.04
30 36 0.53
31 11 0.16
32 12 0.18
33 6 0.09
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.25
Consensus pattern (29 bp):
AATAAAAGAAATAATAAATAATAATAAAT
Found at i:2540800 original size:27 final size:26
Alignment explanation
Indices: 2540743--2540837 Score: 77
Period size: 27 Copynumber: 3.6 Consensus size: 26
2540733 TAACAAAAAA
* * *
2540743 AAATAATTAGATAAATAAAAGAAATAGAT
1 AAATAA-TA-ATAAATAATA-AAAGAAAT
2540772 AAATAATAATAAATAATAAAAGCAAAT
1 AAATAATAATAAATAATAAAAG-AAAT
* * *
2540799 AAATAATAA-AAATATTAATAGATA-
1 AAATAATAATAAATAATAAAAGAAAT
*
2540823 AAATAAAAATAAATA
1 AAATAATAATAAATA
2540838 TATATTAAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
24 8 0.14
25 7 0.12
26 13 0.23
27 21 0.37
28 2 0.04
29 6 0.11
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.24
Consensus pattern (26 bp):
AAATAATAATAAATAATAAAAGAAAT
Found at i:2543039 original size:31 final size:32
Alignment explanation
Indices: 2542976--2543055 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 32
2542966 CATTGTTTTG
*
2542976 TATAAAGAA-AAAATAAAT-G--TTATTATAT
1 TATAAAAAATAAAATAAATGGACTTATTATAT
**
2543004 TATAAGTAATAAAATAAATGGACTTATT-TAT
1 TATAAAAAATAAAATAAATGGACTTATTATAT
2543035 TATAAAAAATAAAATAAATGG
1 TATAAAAAATAAAATAAATGG
2543056 GTTTTACCTA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
28 7 0.16
29 9 0.20
30 1 0.02
31 22 0.50
32 5 0.11
ACGTcount: A:0.56, C:0.01, G:0.09, T:0.34
Consensus pattern (32 bp):
TATAAAAAATAAAATAAATGGACTTATTATAT
Found at i:2543185 original size:18 final size:19
Alignment explanation
Indices: 2543145--2543188 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
2543135 TAAGCTCGAT
*
2543145 TTTATTT-TTTGATCAAGC
1 TTTATTTATTTGATCAAAC
*
2543163 TTTATTTATTTGTTCAAAC
1 TTTATTTATTTGATCAAAC
2543182 -TTATTTA
1 TTTATTTA
2543189 ATGATCTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.25, C:0.09, G:0.07, T:0.59
Consensus pattern (19 bp):
TTTATTTATTTGATCAAAC
Found at i:2546694 original size:25 final size:26
Alignment explanation
Indices: 2546677--2546726 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
2546667 TATTTTTAAT
*
2546677 TATTTATTTTA-TTTATATTTATATA
1 TATTTATTTAATTTTATATTTATATA
2546702 TATTTATTTAATTTTATATTTATAT
1 TATTTATTTAATTTTATATTTATAT
2546727 TTAAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (26 bp):
TATTTATTTAATTTTATATTTATATA
Found at i:2546697 original size:6 final size:6
Alignment explanation
Indices: 2546681--2546729 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
2546671 TTTAATTATT
*
2546681 TATTT- TATTTA TATTTA TA--TA TATTTA T-TTAA T-TTTA TATTTA
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA
2546724 TATTTA
1 TATTTA
2546730 AAAAATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
4 4 0.11
5 13 0.34
6 21 0.55
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATTTA
Found at i:2546709 original size:20 final size:17
Alignment explanation
Indices: 2546671--2546730 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 17
2546661 GTATAATATT
2546671 TTTAATTATT-TATTTTA
1 TTTAATT-TTATATTTTA
2546688 TTTATATTTATATATATTTA
1 TTTA-ATTT-TATAT-TTTA
2546708 TTTAATTTTATATTTATA
1 TTTAATTTTATATTT-TA
2546726 TTTAA
1 TTTAA
2546731 AAAATAATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
17 7 0.18
18 16 0.42
19 7 0.18
20 8 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTAATTTTATATTTTA
Found at i:2546754 original size:19 final size:21
Alignment explanation
Indices: 2546720--2546765 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
2546710 TAATTTTATA
2546720 TTTATATTTAAAAAATAATAT
1 TTTATATTTAAAAAATAATAT
*
2546741 TTTATA-TT-AAAAATATTAT
1 TTTATATTTAAAAAATAATAT
2546760 TTTATA
1 TTTATA
2546766 AATTTCGGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 2 0.08
21 6 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTATATTTAAAAAATAATAT
Found at i:2547673 original size:13 final size:13
Alignment explanation
Indices: 2547652--2547686 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
2547642 CATTTGTATG
*
2547652 TTAATATATTTTA
1 TTAAAATATTTTA
2547665 TTAAAATATTTTA
1 TTAAAATATTTTA
*
2547678 TAAAAATAT
1 TTAAAATAT
2547687 ATTTGAAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TTAAAATATTTTA
Found at i:2561993 original size:44 final size:44
Alignment explanation
Indices: 2561926--2562009 Score: 159
Period size: 44 Copynumber: 1.9 Consensus size: 44
2561916 TTCAAAGAAA
2561926 GAAGCTTTTCAGCTTAAACACAATAAAAAATGAAGTATTACTGT
1 GAAGCTTTTCAGCTTAAACACAATAAAAAATGAAGTATTACTGT
*
2561970 GAAGCTTTTCAGCTTAAAGACAATAAAAAATGAAGTATTA
1 GAAGCTTTTCAGCTTAAACACAATAAAAAATGAAGTATTA
2562010 TTGTTGAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (44 bp):
GAAGCTTTTCAGCTTAAACACAATAAAAAATGAAGTATTACTGT
Found at i:2562567 original size:8 final size:8
Alignment explanation
Indices: 2562556--2562580 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2562546 GTTTTTTTTT
2562556 TTTTTCTC
1 TTTTTCTC
2562564 TTTTTCTC
1 TTTTTCTC
2562572 TTTTTCTC
1 TTTTTCTC
2562580 T
1 T
2562581 GTTCAGTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTCTC
Found at i:2564036 original size:2 final size:2
Alignment explanation
Indices: 2564029--2564057 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2564019 TGGAGTATCT
2564029 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 T
2564058 CAAATGAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2565933 original size:217 final size:216
Alignment explanation
Indices: 2565557--2565988 Score: 749
Period size: 217 Copynumber: 2.0 Consensus size: 216
2565547 ACTTCCTTGC
*
2565557 ACACCTCCCTTATTTTTCACACCTACTACTACTATTTTTCTCATTTATAGTACTATTTTTGTCAA
1 ACACCTCCCTTATTTTTCACACCTACTACTACTATTTTTCTCATTTATAGTACTATTTTTATCAA
*
2565622 AATTTCAATTTTATAAATTAAATAATTTAGTTGGAAATTTTTAAAATGATTAATACTCTTTAAAT
66 AATTTCAATTTTATAAATTAAATAATTTAGTTGGAAAATTTTAAAATGATTAATACTCTTTAAAT
*
2565687 TTAATGTTAACCTATTCTTTTTGAATTATCTTGAAATTATGTTCACCTTTTTTTTATCACTAACT
131 TTAATGTTAACCTATTATTTTTGAATTATCTTGAAATTATGTTCACC-TTTTTTTATCACTAACT
2565752 TTTATTTTTACATGTTATATTA
195 TTTATTTTTACATGTTATATTA
*
2565774 ACACCTCCCTTATTTTTCACACCTACTACTACTATTTTTCTCATTTATAGTAGTATTTTTTATCA
1 ACACCTCCCTTATTTTTCACACCTACTACTACTATTTTTCTCATTTATAGTACTA-TTTTTATCA
* * * *
2565839 AATTTTCAATTTTATAAATTAAATAATTTAGTTGGAAAATTTT-AGATGATTAATATTCTTTAAG
65 AAATTTCAATTTTATAAATTAAATAATTTAGTTGGAAAATTTTAAAATGATTAATACTCTTTAAA
*
2565903 TTTAATGTTAACCTATTATTTTTTAATTATCTTGAAATTATGTTCACCTTTTTTTATCACTAACT
130 TTTAATGTTAACCTATTATTTTTGAATTATCTTGAAATTATGTTCACCTTTTTTTATCACTAACT
*
2565968 TTTATTTTTACATGTTTTATT
195 TTTATTTTTACATGTTATATT
2565989 TATTTTTAAT
Statistics
Matches: 204, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
216 37 0.18
217 118 0.58
218 49 0.24
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.51
Consensus pattern (216 bp):
ACACCTCCCTTATTTTTCACACCTACTACTACTATTTTTCTCATTTATAGTACTATTTTTATCAA
AATTTCAATTTTATAAATTAAATAATTTAGTTGGAAAATTTTAAAATGATTAATACTCTTTAAAT
TTAATGTTAACCTATTATTTTTGAATTATCTTGAAATTATGTTCACCTTTTTTTATCACTAACTT
TTATTTTTACATGTTATATTA
Found at i:2581218 original size:44 final size:44
Alignment explanation
Indices: 2581151--2581234 Score: 159
Period size: 44 Copynumber: 1.9 Consensus size: 44
2581141 TTCAAAGAAA
2581151 GAAGCTTTTCAGCTTAAACACAATAAAAAATGAAGTATTACTGT
1 GAAGCTTTTCAGCTTAAACACAATAAAAAATGAAGTATTACTGT
*
2581195 GAAGCTTTTCAGCTTAAAGACAATAAAAAATGAAGTATTA
1 GAAGCTTTTCAGCTTAAACACAATAAAAAATGAAGTATTA
2581235 TTGTTGAATA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (44 bp):
GAAGCTTTTCAGCTTAAACACAATAAAAAATGAAGTATTACTGT
Found at i:2581796 original size:8 final size:8
Alignment explanation
Indices: 2581785--2581809 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2581775 GTTTTTTTTT
2581785 TTTTTCTC
1 TTTTTCTC
2581793 TTTTTCTC
1 TTTTTCTC
2581801 TTTTTCTC
1 TTTTTCTC
2581809 T
1 T
2581810 GTTCAGTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTCTC
Found at i:2585159 original size:219 final size:217
Alignment explanation
Indices: 2584780--2585214 Score: 737
Period size: 219 Copynumber: 2.0 Consensus size: 217
2584770 ACTTCCTTGC
*
2584780 ACACCTCCCTTATTTTTCACACCTACTACTACTATTTTTCTCATTTATAGTACTATTTTTTGTCA
1 ACACCTCCCTTATTTTTCACACCTACTACTACTATTTTTCTCATTTATAGTACTATTTTTTATCA
*
2584845 AAATTTCAATTTTATAAATTAAATAATTTAGTTGGAAATTTTTAAAATGATTAATACTCTTTAAA
66 AAATTTCAATTTTATAAATTAAATAATTTAGTTGGAAAATTTTAAAATGATTAATACTCTTTAAA
*
2584910 TTTAATGTTAACCTATTCTTTTTGAATTATCTTGAAATTATGTTCACCTTTTTTTTTATCACTAA
131 TTTAATGTTAACCTATTATTTTTGAATTATCTTGAAATTATGTTCACC--TTTTTTTATCACTAA
2584975 CTTTTATTTTTACATGTTATATTA
194 CTTTTATTTTTACATGTTATATTA
* *
2584999 ACACCTCCCTTATTTTTCACACCTACTACTACTATTTTTTTCATTTATAGTAGTATTTTTTAATC
1 ACACCTCCCTTATTTTTCACACCTACTACTACTATTTTTCTCATTTATAGTACTATTTTTT-ATC
* * *
2585064 AAATTTTCAATTTTATAAATTAAATAATTTAGTTGGAAAATTTT-AGATGATTAATATTCTTTAA
65 AAAATTTCAATTTTATAAATTAAATAATTTAGTTGGAAAATTTTAAAATGATTAATACTCTTTAA
* *
2585128 GTTTAATGTTAACCTATTATTTTTTAATTATCTTGAAATTATGTTCACCTTTTTTTATCACTAAC
130 ATTTAATGTTAACCTATTATTTTTGAATTATCTTGAAATTATGTTCACCTTTTTTTATCACTAAC
*
2585193 TTTTATTTTTACATGTTTTATT
195 TTTTATTTTTACATGTTATATT
2585215 TATTTTTAAT
Statistics
Matches: 204, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
217 37 0.18
219 123 0.60
220 44 0.22
ACGTcount: A:0.30, C:0.13, G:0.05, T:0.51
Consensus pattern (217 bp):
ACACCTCCCTTATTTTTCACACCTACTACTACTATTTTTCTCATTTATAGTACTATTTTTTATCA
AAATTTCAATTTTATAAATTAAATAATTTAGTTGGAAAATTTTAAAATGATTAATACTCTTTAAA
TTTAATGTTAACCTATTATTTTTGAATTATCTTGAAATTATGTTCACCTTTTTTTATCACTAACT
TTTATTTTTACATGTTATATTA
Found at i:2586302 original size:5 final size:5
Alignment explanation
Indices: 2586287--2586326 Score: 64
Period size: 5 Copynumber: 8.0 Consensus size: 5
2586277 ATATATTACG
2586287 ATATGA ATATA ATATA A-ATA ATATA ATATA ATATA ATATA
1 ATAT-A ATATA ATATA ATATA ATATA ATATA ATATA ATATA
2586327 TAATTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.12
5 25 0.76
6 4 0.12
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (5 bp):
ATATA
Done.