Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold223
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: 4172444
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 17292 characters in sequence are not A, C, G, or T
File 11 of 26
Found at i:1895827 original size:25 final size:24
Alignment explanation
Indices: 1895779--1895853 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 24
1895769 ATATAAATTA
*
1895779 AATA-TATAAATATATTAA-AATTT
1 AATATTATAAAT-TATTAATATTTT
1895802 ATATATTATAAATTATTAATATTTT
1 A-ATATTATAAATTATTAATATTTT
* *
1895827 AAAATTTATATAAATA-TAATATTTT
1 AATA-TTATA-AATTATTAATATTTT
1895852 AA
1 AA
1895854 ATATATTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
23 1 0.02
24 11 0.25
25 28 0.64
26 4 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
AATATTATAAATTATTAATATTTT
Found at i:1895829 original size:32 final size:33
Alignment explanation
Indices: 1895777--1895860 Score: 100
Period size: 32 Copynumber: 2.5 Consensus size: 33
1895767 AAATATAAAT
1895777 TAAATATATAAATATATTAAAATTTATATATTA
1 TAAATATATAAATATATTAAAATTTATATATTA
* * *
1895810 TAAAT-TATTAATATTTTAAAATTTATATA-AA
1 TAAATATATAAATATATTAAAATTTATATATTA
*
1895841 TATAATATTTTAAATATATT
1 TA-AATA-TATAAATATATT
1895861 TATAATATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
31 3 0.07
32 25 0.60
33 5 0.12
34 9 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (33 bp):
TAAATATATAAATATATTAAAATTTATATATTA
Found at i:1895854 original size:25 final size:26
Alignment explanation
Indices: 1895801--1895870 Score: 83
Period size: 25 Copynumber: 2.7 Consensus size: 26
1895791 TATTAAAATT
1895801 TATATATTATAAATTATTAATATTTTAAA
1 TATAT-TTATAAA-TA-TAATATTTTAAA
1895830 -AT-TTATATAAATATAATATTTTAAA
1 TATATT-TATAAATATAATATTTTAAA
1895855 TATATTTAT-AATATAA
1 TATATTTATAAATATAA
1895871 ACATAATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
25 19 0.50
26 8 0.21
27 9 0.24
28 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TATATTTATAAATATAATATTTTAAA
Found at i:1896081 original size:2 final size:2
Alignment explanation
Indices: 1896076--1896116 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1896066 TCACACACGC
*
1896076 AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1896117 AAATTTTAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1897231 original size:23 final size:23
Alignment explanation
Indices: 1897180--1897237 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
1897170 TTTATATATT
* *
1897180 ATTAAATATATGTATATGATATTA
1 ATTAAATTTAT-TATATGATACTA
1897204 A-TAAATTTATTAT-TGAATACTA
1 ATTAAATTTATTATATG-ATACTA
*
1897226 ATTAAAATTATT
1 ATTAAATTTATT
1897238 TGCTTAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.07
22 9 0.31
23 17 0.59
24 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (23 bp):
ATTAAATTTATTATATGATACTA
Found at i:1900404 original size:13 final size:13
Alignment explanation
Indices: 1900380--1900416 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
1900370 ATTAATTTTA
1900380 AATTAT-TT-TAT
1 AATTATATTATAT
*
1900391 ATTTATATTATAT
1 AATTATATTATAT
1900404 AATTATATTATAT
1 AATTATATTATAT
1900417 TTAAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 5 0.23
12 2 0.09
13 15 0.68
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
AATTATATTATAT
Found at i:1901451 original size:2 final size:2
Alignment explanation
Indices: 1901444--1901471 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1901434 CAAAAAGTAG
1901444 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1901472 GGAAAGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1903189 original size:4 final size:4
Alignment explanation
Indices: 1903180--1903217 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
1903170 AAAAATACTC
* *
1903180 TACA TACA TACA TACA TACA TGCT TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TA
1903218 TATATATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.29
Consensus pattern (4 bp):
TACA
Found at i:1903791 original size:17 final size:17
Alignment explanation
Indices: 1903769--1903801 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1903759 TAGAATTCAA
1903769 ATCTT-AATAAATATTAT
1 ATCTTAAATAAA-ATTAT
1903786 ATCTTAAATAAAATTA
1 ATCTTAAATAAAATTA
1903802 AATGAACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
ATCTTAAATAAAATTAT
Found at i:1904060 original size:2 final size:2
Alignment explanation
Indices: 1904053--1904087 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1904043 ATATGCTCTA
1904053 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1904088 AACAAAGTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1907553 original size:2 final size:2
Alignment explanation
Indices: 1907546--1907579 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1907536 TTCATGGAGC
1907546 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1907580 GAGAGAGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1907584 original size:2 final size:2
Alignment explanation
Indices: 1907579--1907605 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1907569 ATATATATAT
1907579 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1907606 AATCAACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1909545 original size:7 final size:7
Alignment explanation
Indices: 1909533--1909624 Score: 62
Period size: 7 Copynumber: 12.6 Consensus size: 7
1909523 TTTAATATTA
1909533 ATATTTT
1 ATATTTT
1909540 ATATTTT
1 ATATTTT
*
1909547 ATTATTTAA
1 A-TATTT-T
*
1909556 AAATTTT
1 ATATTTT
*
1909563 A-ATATTA
1 ATAT-TTT
1909570 ATATTTT
1 ATATTTT
1909577 ATATTTT
1 ATATTTT
*
1909584 ATTATTTAA
1 A-TATTT-T
*
1909593 AAATTTT
1 ATATTTT
*
1909600 A-ATATTA
1 ATAT-TTT
1909607 ATATTTT
1 ATATTTT
1909614 ATATTTT
1 ATATTTT
1909621 ATAT
1 ATAT
1909625 AAAAATAATT
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
6 4 0.06
7 39 0.58
8 22 0.33
9 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (7 bp):
ATATTTT
Found at i:1909637 original size:37 final size:37
Alignment explanation
Indices: 1909504--1909622 Score: 238
Period size: 37 Copynumber: 3.2 Consensus size: 37
1909494 TTAAAAACAT
1909504 TATTTTATTATTTAAAAATTTTAATATTAATATTTTA
1 TATTTTATTATTTAAAAATTTTAATATTAATATTTTA
1909541 TATTTTATTATTTAAAAATTTTAATATTAATATTTTA
1 TATTTTATTATTTAAAAATTTTAATATTAATATTTTA
1909578 TATTTTATTATTTAAAAATTTTAATATTAATATTTTA
1 TATTTTATTATTTAAAAATTTTAATATTAATATTTTA
1909615 TATTTTAT
1 TATTTTAT
1909623 ATAAAAATAA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 82 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (37 bp):
TATTTTATTATTTAAAAATTTTAATATTAATATTTTA
Found at i:1912607 original size:23 final size:22
Alignment explanation
Indices: 1912580--1912628 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
1912570 GCGTAAAATC
*
1912580 TATTT-ATTATTTTATATTTATAT
1 TATTTAATTA-TTTAT-TTTAGAT
1912603 TATTTTAATTATTTATTTTAGAT
1 TA-TTTAATTATTTATTTTAGAT
1912626 TAT
1 TAT
1912629 ATTTATATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
22 1 0.04
23 10 0.43
24 8 0.35
25 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TATTTAATTATTTATTTTAGAT
Found at i:1912613 original size:9 final size:10
Alignment explanation
Indices: 1912586--1912643 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 10
1912576 AATCTATTTA
*
1912586 TTATTTTATAT
1 TTATATTAT-T
1912597 TTATATTATT
1 TTATATTATT
1912607 TTAATTATTTATT
1 TT-A-TA-TTATT
*
1912620 TTAGATTATAT
1 TTATATTAT-T
1912631 TTATATTATT
1 TTATATTATT
1912641 TTA
1 TTA
1912644 ATTTAATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
10 11 0.28
11 19 0.47
12 3 0.08
13 7 0.17
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATATTATT
Found at i:1912657 original size:16 final size:16
Alignment explanation
Indices: 1912584--1912648 Score: 78
Period size: 16 Copynumber: 4.0 Consensus size: 16
1912574 AAAATCTATT
1912584 TATTATTTTATATTTA
1 TATTATTTTATATTTA
1912600 TATTATTTTAATTATTTA
1 TATTATTTT-A-TATTTA
* **
1912618 TTTTAGATTATATTTA
1 TATTATTTTATATTTA
1912634 TATTATTTTA-ATTTA
1 TATTATTTTATATTTA
1912649 ATTTTATTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
15 5 0.12
16 22 0.54
17 2 0.05
18 12 0.29
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (16 bp):
TATTATTTTATATTTA
Found at i:1914375 original size:29 final size:29
Alignment explanation
Indices: 1914317--1914376 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
1914307 TAAGTATTTT
* *
1914317 AATTTTTATATTATTAAAATTAAAATTAA
1 AATTTTTATATTATTAAAAATAAAAATAA
1914346 AATTTTTATATT-TTAAAAATAATAAATAA
1 AATTTTTATATTATTAAAAATAA-AAATAA
1914375 AA
1 AA
1914377 AAATATTAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
AATTTTTATATTATTAAAAATAAAAATAA
Found at i:1914765 original size:13 final size:13
Alignment explanation
Indices: 1914714--1914788 Score: 55
Period size: 13 Copynumber: 5.5 Consensus size: 13
1914704 TTATAAAATT
1914714 TTTAATTAAATAAA
1 TTTAA-TAAATAAA
*
1914728 TTTATAATTAATAAA
1 -TT-TAATAAATAAA
*
1914743 TTTATTTAAA-AATA
1 TTTA-ATAAATAA-A
1914757 TTTAATAAATAAA
1 TTTAATAAATAAA
*
1914770 TTTAA-AATTAAAA
1 TTTAATAAAT-AAA
1914783 TTTAAT
1 TTTAAT
1914789 CATATAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
12 3 0.06
13 22 0.45
14 12 0.24
15 9 0.18
16 3 0.06
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TTTAATAAATAAA
Found at i:1915876 original size:17 final size:17
Alignment explanation
Indices: 1915847--1915879 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1915837 TTTCTTTCAT
1915847 TTTTCATTTTTTTTTTG
1 TTTTCATTTTTTTTTTG
1915864 TTTTC-TTTCTTTTTTT
1 TTTTCATTT-TTTTTTT
1915880 TTCAGCCCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.03, C:0.09, G:0.03, T:0.85
Consensus pattern (17 bp):
TTTTCATTTTTTTTTTG
Found at i:1917443 original size:21 final size:21
Alignment explanation
Indices: 1917419--1917461 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1917409 TTTTCTTAAG
1917419 TGTATG-AAATGAATTTAAATT
1 TGTATGTAAATG-ATTTAAATT
*
1917440 TGTATGTAAATGTTTTAAATT
1 TGTATGTAAATGATTTAAATT
1917461 T
1 T
1917462 TTATTATGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (21 bp):
TGTATGTAAATGATTTAAATT
Found at i:1917688 original size:16 final size:16
Alignment explanation
Indices: 1917663--1917708 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
1917653 GGATTTAATT
*
1917663 ATTTTCATTTTTTTAC
1 ATTTTAATTTTTTTAC
*
1917679 ATTTTAATTTATTTAC
1 ATTTTAATTTTTTTAC
*
1917695 CTTTTATATTTTTT
1 ATTTTA-ATTTTTT
1917709 GAAAATACTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 19 0.76
17 6 0.24
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTAATTTTTTTAC
Found at i:1921976 original size:24 final size:27
Alignment explanation
Indices: 1921903--1921973 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
1921893 AAACAAGCTT
* *
1921903 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAACACAAA--ATAACCA
1921931 CCATTTTTGACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAATAACCA
1921958 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
1921974 AATGGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAATAACCA
Found at i:1923264 original size:25 final size:21
Alignment explanation
Indices: 1923212--1923263 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
1923202 TTGTAGCGAG
1923212 CATCTTTCTTGCTAGAAGATC
1 CATCTTTCTTGCTAGAAGATC
1923233 CATCTTTCTTGCTAGAAGATC
1 CATCTTTCTTGCTAGAAGATC
*
1923254 CATATTTCTT
1 CATCTTTCTT
1923264 TGCAAATACC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (21 bp):
CATCTTTCTTGCTAGAAGATC
Found at i:1927956 original size:2 final size:2
Alignment explanation
Indices: 1927949--1927998 Score: 75
Period size: 2 Copynumber: 25.0 Consensus size: 2
1927939 GGTTAGAAAC
*
1927949 AT AT AT AT AT AT AT AT AT AT -T CAT TT 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
1927991 AT AT AT AT
1 AT AT AT AT
1927999 TCATTTAGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
1 1 0.02
2 42 0.95
3 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1927985 original size:30 final size:30
Alignment explanation
Indices: 1927949--1928005 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
1927939 GGTTAGAAAC
1927949 ATATATATATATATATATATTCATTTATAT
1 ATATATATATATATATATATTCATTTATAT
1927979 ATATATATATATATATATATTCATTTA
1 ATATATATATATATATATATTCATTTA
1928006 GCACCTGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (30 bp):
ATATATATATATATATATATTCATTTATAT
Found at i:1928187 original size:21 final size:21
Alignment explanation
Indices: 1928149--1928188 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1928139 ATCATAACAG
*
1928149 TAAAATTAATTATTATAATAA
1 TAAAATTAATAATTATAATAA
1928170 TAAAATTAA-AATTAATAAT
1 TAAAATTAATAATT-ATAAT
1928189 GAAATATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAATTAATAATTATAATAA
Found at i:1928319 original size:25 final size:26
Alignment explanation
Indices: 1928265--1928319 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 26
1928255 ATATTATATT
*
1928265 AAAATGTGTATATATAATAAATAATT
1 AAAATGTGTATATATAATAAATAATA
* *
1928291 AAAAT-TGTAT-TGATATTAAATAGTA
1 AAAATGTGTATAT-ATAATAAATAATA
1928316 AAAA
1 AAAA
1928320 ATAAATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 1 0.04
25 19 0.76
26 5 0.20
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (26 bp):
AAAATGTGTATATATAATAAATAATA
Found at i:1928509 original size:16 final size:16
Alignment explanation
Indices: 1928490--1928520 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1928480 AATATAAAAG
1928490 AATTTAAAAGTTAAAT
1 AATTTAAAAGTTAAAT
*
1928506 AATTTAAAATTTAAA
1 AATTTAAAAGTTAAA
1928521 AAAAAATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AATTTAAAAGTTAAAT
Found at i:1930361 original size:345 final size:344
Alignment explanation
Indices: 1929594--1931976 Score: 3665
Period size: 345 Copynumber: 7.0 Consensus size: 344
1929584 AGAACTTTAT
* * * * *
1929594 GATCCTGCGCTGAAATTTGAAATGAAGCTCTGTTCCATGGCGCAGACTGAAGGTATGAATCCAAA
1 GATCCTGAGCAGAAATCTGAAATGAAGCTCCGTTCCATGGCGCAGACTGAAGATATGAATCCAAA
* * * *
1929659 TTGCGAATCATTTCCAACAGCCATGTCATCGCTAGGAGATGGAGGAGGCTATCCTAATGCCAACG
66 TTGGGAATCATTTCCAACAGCCATGTCGTCGCTAGGAGATGGAGAAGGCTATCCTAATGCTAACG
1929724 AGTTGCCACAGCAGTTAAATTCTCTTGATAACTCTGAAAGAGACGTTGAAGATGCAGTTGGGTGT
131 AGTTGCCACAGCAGTTAAATTCTCTTGATAACTCTGAAAGAGACGTTGAAGATGCAGTTGGGTGT
1929789 TTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTC------A-AAT----AAGGGT
196 TTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTCAATGGAAGAATAAAGAAGGGT
* *
1929843 CGTGAGCCAATGCTAAGACCTGTGGAAAAAGCAAAGAGCAAACTTGATCAAGCGGGAACATCAGC
261 CGTGAGCCAATGCTAAGACCAGTGGAAAAAGCAAAGAGCAAACTTGATCAAGCAGGAACATCAGC
1929908 TGAAGCCTGCACTGGAAAG
326 TGAAGCCTGCACTGGAAAG
*
1929927 GATCCTGAGCAGAAATCTGAAATGAAGCTCCGTTCCATGACGCAGACTGAAGATATGAATCCAAA
1 GATCCTGAGCAGAAATCTGAAATGAAGCTCCGTTCCATGGCGCAGACTGAAGATATGAATCCAAA
* *
1929992 TTGGGAATCATTTCCAACAGCCATGTCGTCGCTAGGAGATGGAGAAGGCTCTCCTAACGCTAACG
66 TTGGGAATCATTTCCAACAGCCATGTCGTCGCTAGGAGATGGAGAAGGCTATCCTAATGCTAACG
1930057 AGTTGCCACAGCAGTTAAATTCTCTTGATAACTCTGAAAGAGACGTTGAAGATGCAGTTGGGTGT
131 AGTTGCCACAGCAGTTAAATTCTCTTGATAACTCTGAAAGAGACGTTGAAGATGCAGTTGGGTGT
1930122 TTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTCAAATGGAAGAATAAAGAAGGG
196 TTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTC-AATGGAAGAATAAAGAAGGG
* *
1930187 CCGTGAGCCAATGCTAAGACCAGTGGAAAAATCAAAGAGCAAACTTGATCAAGCAGGAACATCAG
260 TCGTGAGCCAATGCTAAGACCAGTGGAAAAAGCAAAGAGCAAACTTGATCAAGCAGGAACATCAG
*
1930252 ATGAAGCCTGCACTGGAAAG
325 CTGAAGCCTGCACTGGAAAG
* * *
1930272 AATCCTGAGCAGAAATCTGAAATGAAGAC-CGGTTCCATGGCGCAGACTGAAGATATGAATCCTA
1 GATCCTGAGCAGAAATCTGAAATGAAG-CTCCGTTCCATGGCGCAGACTGAAGATATGAATCCAA
* * * *
1930336 ATTGGGAATCATCTCCAATAGCCATGTCGTCGCTAGGACTAGGAGAGGGAGAAGGTTATCCTAAT
65 ATTGGGAATCATTTCCAACAGCCATGTCGT--C---G-CTAGGAGATGGAGAAGGCTATCCTAAT
* *
1930401 GCTAACGAGCTGCCACAGCAGTTAAATTCTCTTGATAACTCTGAAAAAG-CAGTTGAAGATGCAG
124 GCTAACGAGTTGCCACAGCAGTTAAATTCTCTTGATAACTCTGAAAGAGAC-GTTGAAGATGCAG
1930465 TTGGGTGTTTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTCAAATGGAAGAATA
188 TTGGGTGTTTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTC-AATGGAAGAATA
* *
1930530 AAGAAGGGTCGTGAGCCAATACTAAGACCAGCGGAAAAAGCAAAGAGCAAACTTGATCAAGCAGG
252 AAGAAGGGTCGTGAGCCAATGCTAAGACCAGTGGAAAAAGCAAAGAGCAAACTTGATCAAGCAGG
*
1930595 AACATCAGCTGAAGTCTGCACTGGAAAG
317 AACATCAGCTGAAGCCTGCACTGGAAAG
*
1930623 GATCCTGAGCAGAAATCTGAAATGAAGCTCCGTTCCATGACGCAGACTGAAGATATGAATCCAAA
1 GATCCTGAGCAGAAATCTGAAATGAAGCTCCGTTCCATGGCGCAGACTGAAGATATGAATCCAAA
* * * * *
1930688 TTGCGAATCATTTCCAACGGCCATGTCGTCGCAAGGAGATGGAGAAGGATATCCAAATGCTAACG
66 TTGGGAATCATTTCCAACAGCCATGTCGTCGCTAGGAGATGGAGAAGGCTATCCTAATGCTAACG
* * *
1930753 AGTTGCCACAGCAGTTAAATTCTCTTTATAACGCTGAAAGAGACGTTGAAGATGCAGTTGAGTGT
131 AGTTGCCACAGCAGTTAAATTCTCTTGATAACTCTGAAAGAGACGTTGAAGATGCAGTTGGGTGT
*
1930818 TTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTCAAGTGGACGAATAAAGAAGGG
196 TTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTCAA-TGGAAGAATAAAGAAGGG
1930883 TCGTGAGCCAATGCTAAGACCAGTGGAAAAAGCAAAGAGCAAACTTGATCAAGCAGGAACATCAG
260 TCGTGAGCCAATGCTAAGACCAGTGGAAAAAGCAAAGAGCAAACTTGATCAAGCAGGAACATCAG
1930948 CTGAAGCCTGCACTGGAAAG
325 CTGAAGCCTGCACTGGAAAG
* * *
1930968 AATCCTGACCAGAAATCTGAAATGAAG-TCCGGTTCCATGGCGCAGACTGAAGATATGAATCCTA
1 GATCCTGAGCAGAAATCTGAAATGAAGCTCC-GTTCCATGGCGCAGACTGAAGATATGAATCCAA
* * * *
1931032 ATTGGGAATCATCTCCGACAGCCATGTCGTCGCTAGGAGAGGGAGAAGGTTATCCTAATGCTAAC
65 ATTGGGAATCATTTCCAACAGCCATGTCGTCGCTAGGAGATGGAGAAGGCTATCCTAATGCTAAC
* *
1931097 GAATTGCCACAGCAATTAAATTCTCTTGATAACTCTGCAAA-AG-CAGTTGAAGATGCAGTTGGG
130 GAGTTGCCACAGCAGTTAAATTCTCTTGATAACTCTG-AAAGAGAC-GTTGAAGATGCAGTTGGG
* *
1931160 TGTTTTGAACCAGAACCAACCCAAACGGATCGTGCTGGCCTAGCTTCAAATGGAAGAATAAAGAA
193 TGTTTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTC-AATGGAAGAATAAAGAA
*
1931225 GGGTCGTGAGCCAATGCTAAGACCAGTGGAAAAAGCAAAGAGCAAACGTGATCAAGCAGGAACAT
257 GGGTCGTGAGCCAATGCTAAGACCAGTGGAAAAAGCAAAGAGCAAACTTGATCAAGCAGGAACAT
1931290 CAGCTGAAGCCTGCACTGGAAAG
322 CAGCTGAAGCCTGCACTGGAAAG
*
1931313 GATCCTGAGCAGAAATCTGAAATGAAGCTCCGTTCCATGACGCAGACTGAAGATATGAATCCAAA
1 GATCCTGAGCAGAAATCTGAAATGAAGCTCCGTTCCATGGCGCAGACTGAAGATATGAATCCAAA
* **
1931378 TTGTGAATCATTTCCAATGGCCATGTCGTCGCTAGGAGATGGAGAAGGCTATCCTAATGCTAACG
66 TTGGGAATCATTTCCAACAGCCATGTCGTCGCTAGGAGATGGAGAAGGCTATCCTAATGCTAACG
* * **
1931443 AGTTGCCACCGCAGTTAAATTCTCTTTATAACTCTGAAAGAGACGTTGAAGATGCAGTTGACTGT
131 AGTTGCCACAGCAGTTAAATTCTCTTGATAACTCTGAAAGAGACGTTGAAGATGCAGTTGGGTGT
1931508 TTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTC------A-AAT----AAGGGT
196 TTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTCAATGGAAGAATAAAGAAGGGT
* * * * *
1931562 CGTGAGCCAATGCTAAGACCGGCGGAACAACCAAAGAGCAAACTTGATCAAGCAGGAATATCAGC
261 CGTGAGCCAATGCTAAGACCAGTGGAAAAAGCAAAGAGCAAACTTGATCAAGCAGGAACATCAGC
1931627 TGAAGCCTGCACTGGAAAG
326 TGAAGCCTGCACTGGAAAG
* * *
1931646 GATCCTGAGCAGAAATCTGTAATGATGC-CCGGTTCCATGGCGCAGACTGAAGATATGAATCCTA
1 GATCCTGAGCAGAAATCTGAAATGAAGCTCC-GTTCCATGGCGCAGACTGAAGATATGAATCCAA
* * *
1931710 ATTGGGAATCATCTCCAACAGCCATGTCGTCGCTAGGAGAGGGAGAAGGTTATCCTAATGCTAAC
65 ATTGGGAATCATTTCCAACAGCCATGTCGTCGCTAGGAGATGGAGAAGGCTATCCTAATGCTAAC
* * * *
1931775 GAGTTGCCACAGCAGTTAAATTCTCTTGACAACTCTGAAAGAGACGTCGAAGATGCAGTTGAGCG
130 GAGTTGCCACAGCAGTTAAATTCTCTTGATAACTCTGAAAGAGACGTTGAAGATGCAGTTGGGTG
* *
1931840 TTTTGAACCAGACCCAACCCAAATGGATCATGCTGGCCAAGCTTC------A-AAT----AAGGG
195 TTTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTCAATGGAAGAATAAAGAAGGG
1931894 TCGTGAGCCAATGCTAAGACCAGTGGAAAAAGCAAAGAGCAAACTTGATCAAGCAGGAACATCAG
260 TCGTGAGCCAATGCTAAGACCAGTGGAAAAAGCAAAGAGCAAACTTGATCAAGCAGGAACATCAG
1931959 CTGAAGCCTGCACTGGAA
325 CTGAAGCCTGCACTGGAA
1931977 TGAAGCGGAA
Statistics
Matches: 1894, Mismatches: 125, Indels: 62
0.91 0.06 0.03
Matches are distributed among these distances:
332 2 0.00
333 616 0.33
337 3 0.00
338 1 0.00
340 1 0.00
341 3 0.00
344 9 0.00
345 923 0.49
346 12 0.01
347 1 0.00
349 1 0.00
350 3 0.00
351 319 0.17
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (344 bp):
GATCCTGAGCAGAAATCTGAAATGAAGCTCCGTTCCATGGCGCAGACTGAAGATATGAATCCAAA
TTGGGAATCATTTCCAACAGCCATGTCGTCGCTAGGAGATGGAGAAGGCTATCCTAATGCTAACG
AGTTGCCACAGCAGTTAAATTCTCTTGATAACTCTGAAAGAGACGTTGAAGATGCAGTTGGGTGT
TTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTCAATGGAAGAATAAAGAAGGGT
CGTGAGCCAATGCTAAGACCAGTGGAAAAAGCAAAGAGCAAACTTGATCAAGCAGGAACATCAGC
TGAAGCCTGCACTGGAAAG
Found at i:1931009 original size:696 final size:675
Alignment explanation
Indices: 1929595--1931976 Score: 3771
Period size: 696 Copynumber: 3.5 Consensus size: 675
1929585 GAACTTTATG
* * * * * *
1929595 ATCCTGCGCTGAAATTTGAAATGAAGCTCTGTTCCATGGCGCAGACTGAAGGTATGAATCCAAAT
1 ATCCTGAGCAGAAATCTGAAATGAAGC-CGGTTCCATGGCGCAGACTGAAGATATGAATCCTAAT
* * * * * * *
1929660 TGCGAATCATTTCCAACAGCCATGTCATCGCTAGGAGATGGAGGAGGCTATCCTAATGCCAACGA
65 TGGGAATCATCTCCAACAGCCATGTCGTCGCTAGGAGAGGGAGAAGGTTATCCTAATGCTAACGA
*
1929725 GTTGCCACAGCAGTTAAATTCTCTTGATAACTCTGAAAGAGACGTTGAAGATGCAGTTGGGTGTT
130 GTTGCCACAGCAGTTAAATTCTCTTGATAACTCTGAAAAAGACGTTGAAGATGCAGTTGGGTGTT
1929790 TTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTCAAATAAGGGTCGTGAGCCAATG
195 TTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTCAAATAAGGGTCGTGAGCCAATG
* *
1929855 CTAAGACCTGTGGAAAAAGCAAAGAGCAAACTTGATCAAGCGGGAACATCAGCTGAAGCCTGCAC
260 CTAAGACCAGTGGAAAAAGCAAAGAGCAAACTTGATCAAGCAGGAACATCAGCTGAAGCCTGCAC
1929920 TGGAAAGGATCCTGAGCAGAAATCTGAAATGAAGCTCCGTTCCATGACGCAGACTGAAGATATGA
325 TGGAAAGGATCCTGAGCAGAAATCTGAAATGAAGCTCCGTTCCATGACGCAGACTGAAGATATGA
* * * *
1929985 ATCCAAATTGGGAATCATTTCCAACAGCCATGTCGTCGCTAGGAGATGGAGAAGGCTCTCCTAAC
390 ATCCAAATTGCGAATCATTTCCAACGGCCATGTCGTCGCTAGGAGATGGAGAAGGCTATCCTAAT
*
1930050 GCTAACGAGTTGCCACAGCAGTTAAATTCTCTTGATAACTCTGAAAGAGACGTTGAAGATGCAGT
455 GCTAACGAGTTGCCACAGCAGTTAAATTCTCTTTATAACTCTGAAAGAGACGTTGAAGATGCAGT
*
1930115 TGGGTGTTTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTCAAATGGAAGAATAA
520 TGAGTGTTTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTC-AATGG-AGAATAA
* *
1930180 AGAAGGGCCGTGAGCCAATGCTAAGACCAGTGGAAAAATCAAAGAGCAAACTTGATCAAGCAGGA
583 AGAAGGGTCGTGAGCCAATGCTAAGACCAGTGGAAAAACCAAAGAGCAAACTTGATCAAGCAGGA
*
1930245 ACATCAGATGAAGCCTGCACTGGAAAGA
648 ACATCAGCTGAAGCCTGCACTGGAAAGA
1930273 ATCCTGAGCAGAAATCTGAAATGAAGACCGGTTCCATGGCGCAGACTGAAGATATGAATCCTAAT
1 ATCCTGAGCAGAAATCTGAAATGAAG-CCGGTTCCATGGCGCAGACTGAAGATATGAATCCTAAT
*
1930338 TGGGAATCATCTCCAATAGCCATGTCGTCGCTAGGACTAGGAGAGGGAGAAGGTTATCCTAATGC
65 TGGGAATCATCTCCAACAGCCATGTCGT--C---G-CTAGGAGAGGGAGAAGGTTATCCTAATGC
*
1930403 TAACGAGCTGCCACAGCAGTTAAATTCTCTTGATAACTCTGAAAAAG-CAGTTGAAGATGCAGTT
124 TAACGAGTTGCCACAGCAGTTAAATTCTCTTGATAACTCTGAAAAAGAC-GTTGAAGATGCAGTT
1930467 GGGTGTTTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTCAAATGGAAGAATAAA
188 GGGTGTTTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTC-------A-AAT---
* *
1930532 GAAGGGTCGTGAGCCAATACTAAGACCAGCGGAAAAAGCAAAGAGCAAACTTGATCAAGCAGGAA
242 -AAGGGTCGTGAGCCAATGCTAAGACCAGTGGAAAAAGCAAAGAGCAAACTTGATCAAGCAGGAA
*
1930597 CATCAGCTGAAGTCTGCACTGGAAAGGATCCTGAGCAGAAATCTGAAATGAAGCTCCGTTCCATG
306 CATCAGCTGAAGCCTGCACTGGAAAGGATCCTGAGCAGAAATCTGAAATGAAGCTCCGTTCCATG
*
1930662 ACGCAGACTGAAGATATGAATCCAAATTGCGAATCATTTCCAACGGCCATGTCGTCGCAAGGAGA
371 ACGCAGACTGAAGATATGAATCCAAATTGCGAATCATTTCCAACGGCCATGTCGTCGCTAGGAGA
* * *
1930727 TGGAGAAGGATATCCAAATGCTAACGAGTTGCCACAGCAGTTAAATTCTCTTTATAACGCTGAAA
436 TGGAGAAGGCTATCCTAATGCTAACGAGTTGCCACAGCAGTTAAATTCTCTTTATAACTCTGAAA
1930792 GAGACGTTGAAGATGCAGTTGAGTGTTTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAA
501 GAGACGTTGAAGATGCAGTTGAGTGTTTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAA
*
1930857 GCTTCAAGTGGACGAATAAAGAAGGGTCGTGAGCCAATGCTAAGACCAGTGGAAAAAGCAAAGAG
566 GCTTCAA-TGGA-GAATAAAGAAGGGTCGTGAGCCAATGCTAAGACCAGTGGAAAAACCAAAGAG
1930922 CAAACTTGATCAAGCAGGAACATCAGCTGAAGCCTGCACTGGAAAGA
629 CAAACTTGATCAAGCAGGAACATCAGCTGAAGCCTGCACTGGAAAGA
*
1930969 ATCCTGACCAGAAATCTGAAATGAAGTCCGGTTCCATGGCGCAGACTGAAGATATGAATCCTAAT
1 ATCCTGAGCAGAAATCTGAAATGAAG-CCGGTTCCATGGCGCAGACTGAAGATATGAATCCTAAT
*
1931034 TGGGAATCATCTCCGACAGCCATGTCGTCGCTAGGAGAGGGAGAAGGTTATCCTAATGCTAACGA
65 TGGGAATCATCTCCAACAGCCATGTCGTCGCTAGGAGAGGGAGAAGGTTATCCTAATGCTAACGA
* * *
1931099 ATTGCCACAGCAATTAAATTCTCTTGATAACTCTGCAAAAG-CAGTTGAAGATGCAGTTGGGTGT
130 GTTGCCACAGCAGTTAAATTCTCTTGATAACTCTGAAAAAGAC-GTTGAAGATGCAGTTGGGTGT
* *
1931163 TTTGAACCAGAACCAACCCAAACGGATCGTGCTGGCCTAGCTTCAAATGGAAGAATAAAGAAGGG
194 TTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTC-------A-AAT----AAGGG
*
1931228 TCGTGAGCCAATGCTAAGACCAGTGGAAAAAGCAAAGAGCAAACGTGATCAAGCAGGAACATCAG
247 TCGTGAGCCAATGCTAAGACCAGTGGAAAAAGCAAAGAGCAAACTTGATCAAGCAGGAACATCAG
1931293 CTGAAGCCTGCACTGGAAAGGATCCTGAGCAGAAATCTGAAATGAAGCTCCGTTCCATGACGCAG
312 CTGAAGCCTGCACTGGAAAGGATCCTGAGCAGAAATCTGAAATGAAGCTCCGTTCCATGACGCAG
* *
1931358 ACTGAAGATATGAATCCAAATTGTGAATCATTTCCAATGGCCATGTCGTCGCTAGGAGATGGAGA
377 ACTGAAGATATGAATCCAAATTGCGAATCATTTCCAACGGCCATGTCGTCGCTAGGAGATGGAGA
*
1931423 AGGCTATCCTAATGCTAACGAGTTGCCACCGCAGTTAAATTCTCTTTATAACTCTGAAAGAGACG
442 AGGCTATCCTAATGCTAACGAGTTGCCACAGCAGTTAAATTCTCTTTATAACTCTGAAAGAGACG
*
1931488 TTGAAGATGCAGTTGACTGTTTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTC-
507 TTGAAGATGCAGTTGAGTGTTTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTCA
* * *
1931552 ----A-AAT----AAGGGTCGTGAGCCAATGCTAAGACCGGCGGAACAACCAAAGAGCAAACTTG
572 ATGGAGAATAAAGAAGGGTCGTGAGCCAATGCTAAGACCAGTGGAAAAACCAAAGAGCAAACTTG
* *
1931608 ATCAAGCAGGAATATCAGCTGAAGCCTGCACTGGAAAGG
637 ATCAAGCAGGAACATCAGCTGAAGCCTGCACTGGAAAGA
* *
1931647 ATCCTGAGCAGAAATCTGTAATGATGCCCGGTTCCATGGCGCAGACTGAAGATATGAATCCTAAT
1 ATCCTGAGCAGAAATCTGAAATGAAG-CCGGTTCCATGGCGCAGACTGAAGATATGAATCCTAAT
1931712 TGGGAATCATCTCCAACAGCCATGTCGTCGCTAGGAGAGGGAGAAGGTTATCCTAATGCTAACGA
65 TGGGAATCATCTCCAACAGCCATGTCGTCGCTAGGAGAGGGAGAAGGTTATCCTAATGCTAACGA
* * * * *
1931777 GTTGCCACAGCAGTTAAATTCTCTTGACAACTCTGAAAGAGACGTCGAAGATGCAGTTGAGCGTT
130 GTTGCCACAGCAGTTAAATTCTCTTGATAACTCTGAAAAAGACGTTGAAGATGCAGTTGGGTGTT
* *
1931842 TTGAACCAGACCCAACCCAAATGGATCATGCTGGCCAAGCTTCAAATAAGGGTCGTGAGCCAATG
195 TTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTCAAATAAGGGTCGTGAGCCAATG
1931907 CTAAGACCAGTGGAAAAAGCAAAGAGCAAACTTGATCAAGCAGGAACATCAGCTGAAGCCTGCAC
260 CTAAGACCAGTGGAAAAAGCAAAGAGCAAACTTGATCAAGCAGGAACATCAGCTGAAGCCTGCAC
1931972 TGGAA
325 TGGAA
1931977 TGAAGCGGAA
Statistics
Matches: 1601, Mismatches: 80, Indels: 58
0.92 0.05 0.03
Matches are distributed among these distances:
666 87 0.05
670 3 0.00
671 1 0.00
678 385 0.24
679 2 0.00
680 1 0.00
682 3 0.00
683 2 0.00
684 136 0.08
690 470 0.29
691 2 0.00
692 3 0.00
694 1 0.00
695 3 0.00
696 502 0.31
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (675 bp):
ATCCTGAGCAGAAATCTGAAATGAAGCCGGTTCCATGGCGCAGACTGAAGATATGAATCCTAATT
GGGAATCATCTCCAACAGCCATGTCGTCGCTAGGAGAGGGAGAAGGTTATCCTAATGCTAACGAG
TTGCCACAGCAGTTAAATTCTCTTGATAACTCTGAAAAAGACGTTGAAGATGCAGTTGGGTGTTT
TGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTCAAATAAGGGTCGTGAGCCAATGC
TAAGACCAGTGGAAAAAGCAAAGAGCAAACTTGATCAAGCAGGAACATCAGCTGAAGCCTGCACT
GGAAAGGATCCTGAGCAGAAATCTGAAATGAAGCTCCGTTCCATGACGCAGACTGAAGATATGAA
TCCAAATTGCGAATCATTTCCAACGGCCATGTCGTCGCTAGGAGATGGAGAAGGCTATCCTAATG
CTAACGAGTTGCCACAGCAGTTAAATTCTCTTTATAACTCTGAAAGAGACGTTGAAGATGCAGTT
GAGTGTTTTGAACCAGAACCAACCCAAACGGATCATGCTGGCCAAGCTTCAATGGAGAATAAAGA
AGGGTCGTGAGCCAATGCTAAGACCAGTGGAAAAACCAAAGAGCAAACTTGATCAAGCAGGAACA
TCAGCTGAAGCCTGCACTGGAAAGA
Found at i:1934813 original size:20 final size:20
Alignment explanation
Indices: 1934771--1934812 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
1934761 TTATAACATA
*
1934771 TTTAAAAATAAAATATTAAT
1 TTTAAAAATAAAATAATAAT
*
1934791 TTTAAAAA-AATATAATAAT
1 TTTAAAAATAAAATAATAAT
1934810 TTT
1 TTT
1934813 TTAAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TTTAAAAATAAAATAATAAT
Found at i:1937007 original size:2 final size:2
Alignment explanation
Indices: 1937000--1937031 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1936990 AAACCTCCAT
1937000 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1937032 AAACCAAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1937435 original size:14 final size:13
Alignment explanation
Indices: 1937418--1937466 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 13
1937408 TTTTTATTTT
1937418 ATTTTTGTAAATAA
1 ATTTTT-TAAATAA
1937432 ATTTTTTATAA-AA
1 ATTTTTTA-AATAA
1937445 TATTTTTTAAAATAA
1 -ATTTTTT-AAATAA
1937460 ATTTTTT
1 ATTTTTT
1937467 TTACGAATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.13
14 24 0.77
15 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
ATTTTTTAAATAA
Found at i:1937467 original size:16 final size:16
Alignment explanation
Indices: 1937426--1937469 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
1937416 TTATTTTTGT
*
1937426 AAATAAATTTTTTATA
1 AAATAAATTTTTTTTA
1937442 AAAT--A--TTTTTTA
1 AAATAAATTTTTTTTA
1937454 AAATAAATTTTTTTTA
1 AAATAAATTTTTTTTA
1937470 CGAATACGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 8
0.72 0.03 0.25
Matches are distributed among these distances:
12 10 0.43
14 2 0.09
16 11 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AAATAAATTTTTTTTA
Found at i:1938146 original size:25 final size:25
Alignment explanation
Indices: 1938117--1938177 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 25
1938107 CAATATTAAT
1938117 TAATTTTAATAAAAATAAATTTGTA
1 TAATTTTAATAAAAATAAATTTGTA
1938142 TAA-TTT-AT--AAATAAATTTGTA
1 TAATTTTAATAAAAATAAATTTGTA
1938163 TAATTTATAAATAAA
1 TAATTT-T-AATAAA
1938178 TTATAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
21 16 0.53
22 2 0.07
23 3 0.10
24 3 0.10
25 5 0.17
27 1 0.03
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (25 bp):
TAATTTTAATAAAAATAAATTTGTA
Found at i:1938154 original size:21 final size:21
Alignment explanation
Indices: 1938129--1938199 Score: 115
Period size: 21 Copynumber: 3.3 Consensus size: 21
1938119 ATTTTAATAA
1938129 AAATAAATTTGTATAATTTAT
1 AAATAAATTTGTATAATTTAT
1938150 AAATAAATTTGTATAATTTAT
1 AAATAAATTTGTATAATTTAT
**
1938171 AAATAAATTATAAATAATTTAT
1 AAATAAATT-TGTATAATTTAT
1938193 AAATAAA
1 AAATAAA
1938200 AAGTAATAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
21 30 0.64
22 17 0.36
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
AAATAAATTTGTATAATTTAT
Found at i:1938181 original size:11 final size:11
Alignment explanation
Indices: 1938141--1938199 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
1938131 ATAAATTTGT
*
1938141 ATAATTTATAA
1 ATAAATTATAA
**
1938152 ATAAATT-TGT
1 ATAAATTATAA
*
1938162 ATAATTTATAA
1 ATAAATTATAA
1938173 ATAAATTATAA
1 ATAAATTATAA
*
1938184 ATAATTTATAA
1 ATAAATTATAA
1938195 ATAAA
1 ATAAA
1938200 AAGTAATAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
10 7 0.18
11 31 0.82
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
ATAAATTATAA
Found at i:1938209 original size:21 final size:22
Alignment explanation
Indices: 1938129--1938209 Score: 98
Period size: 21 Copynumber: 3.8 Consensus size: 22
1938119 ATTTTAATAA
*
1938129 AAATAAATTTGT-ATAATTTAT
1 AAATAAATTAGTAATAATTTAT
*
1938150 AAATAAATTTGT-ATAATTTAT
1 AAATAAATTAGTAATAATTTAT
1938171 AAATAAATTA-TAAATAATTTAT
1 AAATAAATTAGT-AATAATTTAT
*
1938193 AAATAAA-AAGTAATAAT
1 AAATAAATTAGTAATAAT
1938210 ACATACACAA
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
20 1 0.02
21 37 0.67
22 17 0.31
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (22 bp):
AAATAAATTAGTAATAATTTAT
Found at i:1938387 original size:39 final size:37
Alignment explanation
Indices: 1938326--1938453 Score: 100
Period size: 39 Copynumber: 3.3 Consensus size: 37
1938316 CATCTATCAG
* *
1938326 TCATATCTTTT-GAATTTAAATAAAAATTTTATATATTA
1 TCATATCTTTTAAAATAT-AATAAAAA-TTTATATATTA
* *
1938364 GTCATAT-TTTTAAAATTCTAATAAATAATCTATA-ATTA
1 -TCATATCTTTTAAAA-TATAATAAA-AATTTATATATTA
* * *
1938402 CTAATATCTTTCAAAATATAATAAAAAATTTATGTATTA
1 -TCATATCTTTTAAAATATAAT-AAAAATTTATATATTA
1938441 TCCATATCTTTTA
1 T-CATATCTTTTA
1938454 TATTTTAATT
Statistics
Matches: 71, Mismatches: 11, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
38 25 0.35
39 42 0.59
40 4 0.06
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (37 bp):
TCATATCTTTTAAAATATAATAAAAATTTATATATTA
Found at i:1938928 original size:14 final size:15
Alignment explanation
Indices: 1938909--1938937 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1938899 TATTTTTATA
1938909 AAAATAAAAA-ATTT
1 AAAATAAAAAGATTT
1938923 AAAATAAAAAGATTT
1 AAAATAAAAAGATTT
1938938 TTTATTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
AAAATAAAAAGATTT
Found at i:1938968 original size:121 final size:120
Alignment explanation
Indices: 1938713--1939070 Score: 388
Period size: 121 Copynumber: 2.9 Consensus size: 120
1938703 TATTATTTTT
* *
1938713 AATAAAAAATAAATTTTAATTAATTTTAAAAAAATTTATATTAACAAATTAAAATATTAATTATT
1 AATAAAAAAT-AATTTTAATTAAATTT-AAAAAA--TACATTAACAAATTAAAATATTAATTATT
* *** * *
1938778 -TTTTAGTAGTAAAAAATTTTAAA--TAAACATAAAAAGGGTTTATTATTAT--TTTTTAATAA
62 ATTTT-TTA-T-AAAAATAAAAAATTTAAA-ATAAAAA-GATTTTTTATTATAATTTTTAATAA
* * *
1938837 AATTAAAAATAATGTTTAATTAAGTTTAAAAAATAGATTAACAAATTAAAAT-TTAATTATTATA
1 AATAAAAAATAAT-TTTAATTAAATTTAAAAAATACATTAACAAATTAAAATATTAATTATTAT-
*
1938901 TTTTTATAAAAATAAAAAATTTAAAATAAAAAGATTTTTTATTATAATTTTTAGTAA
64 TTTTTATAAAAATAAAAAATTTAAAATAAAAAGATTTTTTATTATAATTTTTAATAA
*
1938958 AATAAAAAATAATATTTAATTAAATTTAAAAATTTACATTAACAAATTAAAATATTAATTATTAT
1 AATAAAAAATAAT-TTTAATTAAATTTAAAAA-ATACATTAACAAATTAAAATATTAATTATTAT
* * * *
1939023 GTTTT-TAAAAATAAAAATTTTAAATTAAAAAAACTTTTTTATTATAAT
64 TTTTTATAAAAATAAAAAATTTAAAATAAAAAGA-TTTTTTATTATAAT
1939071 AATATTTTTT
Statistics
Matches: 205, Mismatches: 19, Indels: 22
0.83 0.08 0.09
Matches are distributed among these distances:
119 20 0.10
120 17 0.08
121 88 0.43
122 39 0.19
123 20 0.10
124 21 0.10
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (120 bp):
AATAAAAAATAATTTTAATTAAATTTAAAAAATACATTAACAAATTAAAATATTAATTATTATTT
TTTATAAAAATAAAAAATTTAAAATAAAAAGATTTTTTATTATAATTTTTAATAA
Found at i:1939532 original size:21 final size:20
Alignment explanation
Indices: 1939503--1939566 Score: 56
Period size: 22 Copynumber: 3.0 Consensus size: 20
1939493 ACATGAGAAT
* *
1939503 TAATATTTTAATTTATTAATG
1 TAATTTTTTAATTTATTAA-A
*
1939524 TAATTTTTTAAATTAATTAAA
1 TAATTTTTT-AATTTATTAAA
*
1939545 TATTATTTTTAATTTTATTAAA
1 TAAT-TTTTTAA-TTTATTAAA
1939567 AAATAATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 13 0.37
22 22 0.63
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TAATTTTTTAATTTATTAAA
Found at i:1939610 original size:32 final size:30
Alignment explanation
Indices: 1939548--1939632 Score: 80
Period size: 35 Copynumber: 2.6 Consensus size: 30
1939538 AATTAAATAT
*
1939548 TATTTTTAATTTTATTAAAAAATAATAATAATA
1 TATTTTTAA-TTTATTAATAAA-AATAATAA-A
* *
1939581 AACTTTTTTAATAATTATTAATAAAAATAATTAA
1 TA--TTTTTAAT--TTATTAATAAAAATAATAAA
1939615 TATTTTTAATTTATTAAT
1 TATTTTTAATTTATTAAT
1939633 TGTAATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
30 8 0.18
32 8 0.18
33 1 0.02
34 3 0.07
35 14 0.32
36 10 0.23
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (30 bp):
TATTTTTAATTTATTAATAAAAATAATAAA
Found at i:1939860 original size:16 final size:16
Alignment explanation
Indices: 1939841--1939882 Score: 61
Period size: 14 Copynumber: 2.7 Consensus size: 16
1939831 TTTTTTAATA
1939841 TATTTATAAAAAAATT
1 TATTTATAAAAAAATT
1939857 TATTT-T-AAAAAATT
1 TATTTATAAAAAAATT
1939871 TATTTATTAAAA
1 TATTTA-TAAAA
1939883 TAAAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 13 0.57
15 1 0.04
16 6 0.26
17 3 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTATAAAAAAATT
Found at i:1940543 original size:18 final size:20
Alignment explanation
Indices: 1940510--1940548 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
1940500 CTTTTATTAT
*
1940510 TTTTTTAAGTTTAAAT-ATA
1 TTTTTTAAGTTAAAATGATA
1940529 TTTTTTAA-TTAAAATGATA
1 TTTTTTAAGTTAAAATGATA
1940548 T
1 T
1940549 CATTTAGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTTTTAAGTTAAAATGATA
Found at i:1942126 original size:32 final size:32
Alignment explanation
Indices: 1942087--1942195 Score: 100
Period size: 32 Copynumber: 3.3 Consensus size: 32
1942077 TTAAATTAAA
1942087 ATATTTATATACATAATAAATAATTTTAAATT
1 ATATTTATATACATAATAAATAATTTTAAATT
* *
1942119 ATATTTATAGTAAATAATAAAATATATATTAAAATT
1 ATATTTATA-TACATAAT-AAATA-AT-TTTAAATT
*
1942155 ATATTT-TATAC-TAA-ACAGTAATTATTAAAATT
1 ATATTTATATACATAATA-AATAATT-TT-AAATT
1942187 ATA-TTATAT
1 ATATTTATAT
1942196 TAAAAAATTA
Statistics
Matches: 64, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
30 1 0.02
31 6 0.09
32 23 0.36
33 10 0.16
34 7 0.11
35 4 0.06
36 13 0.20
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (32 bp):
ATATTTATATACATAATAAATAATTTTAAATT
Found at i:1942158 original size:36 final size:32
Alignment explanation
Indices: 1942087--1942209 Score: 99
Period size: 32 Copynumber: 3.7 Consensus size: 32
1942077 TTAAATTAAA
* *
1942087 ATATTTATATACATAATAAATAATTTTAAATT
1 ATATTTATATAAATAATAAATAATTTAAAATT
1942119 ATATTTATAGTAAATAATAAAATATATATTAAAATT
1 ATATTTATA-TAAATAAT-AAATA-AT-TTAAAATT
* * *
1942155 ATATTTTATACTAAACAGT-AATTA-TTAAAATT
1 ATA-TTTATA-TAAATAATAAATAATTTAAAATT
* *
1942187 ATA-TTATATTAAAAAATTAATAA
1 ATATTTATA-TAAATAATAAATAA
1942210 AATAAAACTA
Statistics
Matches: 75, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
30 11 0.15
31 4 0.05
32 20 0.27
33 7 0.09
34 6 0.08
35 5 0.07
36 10 0.13
37 12 0.16
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (32 bp):
ATATTTATATAAATAATAAATAATTTAAAATT
Found at i:1942196 original size:16 final size:16
Alignment explanation
Indices: 1942143--1942200 Score: 50
Period size: 18 Copynumber: 3.6 Consensus size: 16
1942133 TAATAAAATA
1942143 TATATTAAAATTATATTT
1 TATATTAAAATTATA--T
* *
1942161 TATACTAAACAGTA-A-
1 TATATTAAA-ATTATAT
1942176 T-TATTAAAATTATAT
1 TATATTAAAATTATAT
1942191 TATATTAAAA
1 TATATTAAAA
1942201 AATTAATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
13 3 0.09
14 7 0.22
15 2 0.06
16 8 0.25
18 9 0.28
19 3 0.09
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (16 bp):
TATATTAAAATTATAT
Found at i:1942354 original size:35 final size:35
Alignment explanation
Indices: 1942270--1942354 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 35
1942260 TATCGTAGTT
* *
1942270 TTTATATAACTATTTATTTTTAATTAATTATATTAA
1 TTTAT-TAACTATATATTTTTAATTAATAATATTAA
* * * *
1942306 TTAATAAAATATATATTTTTAAATTTATAATA-TAA
1 TTTATTAACTATATATTTTT-AATTAATAATATTAA
1942341 TTTATTAACTATAT
1 TTTATTAACTATAT
1942355 TAAATAAAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
35 26 0.67
36 13 0.33
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (35 bp):
TTTATTAACTATATATTTTTAATTAATAATATTAA
Found at i:1942941 original size:20 final size:20
Alignment explanation
Indices: 1942891--1942951 Score: 72
Period size: 19 Copynumber: 3.1 Consensus size: 20
1942881 TTATTTATTT
1942891 TAATTTTAATAATA-AAAAA
1 TAATTTTAATAATATAAAAA
** *
1942910 TAA-AATATTAATATAAAAA
1 TAATTTTAATAATATAAAAA
1942929 TAATTTTAATAATATAATAAA
1 TAATTTTAATAATATAA-AAA
1942950 TA
1 TA
1942952 TAAAATAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 7 0.21
19 11 0.33
20 10 0.30
21 5 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAATTTTAATAATATAAAAA
Found at i:1943600 original size:19 final size:18
Alignment explanation
Indices: 1943576--1943652 Score: 68
Period size: 19 Copynumber: 4.2 Consensus size: 18
1943566 TTAGTATTAA
1943576 ATTTTATATAAATTAAATT
1 ATTTTA-ATAAATTAAATT
**
1943595 ATTTTAATTTTATTAAATT
1 ATTTTAA-TAAATTAAATT
* * *
1943614 ATATGAATAAATT--TTT
1 ATTTTAATAAATTAAATT
1943630 ATTATTAATAAATTAAATT
1 ATT-TTAATAAATTAAATT
1943649 ATTT
1 ATTT
1943653 ATATTAATTT
Statistics
Matches: 44, Mismatches: 10, Indels: 9
0.70 0.16 0.14
Matches are distributed among these distances:
16 4 0.09
17 9 0.20
18 6 0.14
19 25 0.57
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (18 bp):
ATTTTAATAAATTAAATT
Found at i:1943662 original size:35 final size:35
Alignment explanation
Indices: 1943606--1943673 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
1943596 TTTTAATTTT
1943606 ATTAAATTATATGAATAAATTTTTATTAT-TAATAA
1 ATTAAATTATATGAATAAA-TTTTATTATGTAATAA
* *
1943641 ATTAAATTAT-TTATATTAATTTTATTATGTAAT
1 ATTAAATTATATGA-ATAAATTTTATTATGTAAT
1943674 TTAATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 11 0.38
35 18 0.62
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (35 bp):
ATTAAATTATATGAATAAATTTTATTATGTAATAA
Found at i:1944087 original size:23 final size:24
Alignment explanation
Indices: 1944042--1944092 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
1944032 AATTTTAAGA
*
1944042 TAAATTTATTAAATTATTTTTATT
1 TAAATTAATTAAATTATTTTTATT
1944066 TAAATTAATT-AATT-TTTATTATT
1 TAAATTAATTAAATTATTT-TTATT
1944089 TAAA
1 TAAA
1944093 AATTTTAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 3 0.12
23 13 0.52
24 9 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TAAATTAATTAAATTATTTTTATT
Found at i:1944421 original size:18 final size:20
Alignment explanation
Indices: 1944400--1944437 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
1944390 TGATTTGTTT
1944400 TTAA-ATAAAAAT-AATATA
1 TTAATATAAAAATCAATATA
*
1944418 TTAATATCAAAATCAATATA
1 TTAATATAAAAATCAATATA
1944438 ATATTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 7 0.41
20 6 0.35
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAATATAAAAATCAATATA
Found at i:1945022 original size:16 final size:17
Alignment explanation
Indices: 1944975--1945033 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 17
1944965 CTTAATTAAA
**
1944975 AAAATTAAATAT-CCTT
1 AAAATTAAATATATTTT
*
1944991 AAAATTATATATATTTT
1 AAAATTAAATATATTTT
*
1945008 AAATTTAAATA-ATTTT
1 AAAATTAAATATATTTT
**
1945024 TTAATTAAAT
1 AAAATTAAAT
1945034 TGATATCATT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
16 23 0.68
17 11 0.32
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AAAATTAAATATATTTT
Found at i:1945237 original size:20 final size:18
Alignment explanation
Indices: 1945207--1945246 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 18
1945197 TAATTTTGTA
1945207 ATTTTTAAAAATAAAATAT
1 ATTTTTAAAAATAAAA-AT
1945226 ATTTTATAAAAATAAAAAT
1 ATTTT-TAAAAATAAAAAT
1945245 AT
1 AT
1945247 GTAAACATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTTTTAAAAATAAAAAT
Found at i:1949135 original size:30 final size:31
Alignment explanation
Indices: 1949099--1949169 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
1949089 GTTTGAATTT
*
1949099 AATTATAATAATAATAATAATAAAAA-AATA
1 AATTATAATAATAAAAATAATAAAAATAATA
* * *
1949129 AATTATAATGATAAAAATATTAAAAATATTA
1 AATTATAATAATAAAAATAATAAAAATAATA
*
1949160 AATTAAAATA
1 AATTATAATA
1949170 TATGTATATA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
30 23 0.68
31 11 0.32
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (31 bp):
AATTATAATAATAAAAATAATAAAAATAATA
Found at i:1949220 original size:24 final size:24
Alignment explanation
Indices: 1949174--1949242 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 24
1949164 AAAATATATG
*
1949174 TATA-TATAATAAATAATTAAAA-A
1 TATACTATAGTAAATAA-TAAAATA
1949197 TTATAACTATAGTAAATAATAAAATA
1 -TAT-ACTATAGTAAATAATAAAATA
*
1949223 TATATTAT-GTTAAATAATAA
1 TATACTATAG-TAAATAATAA
1949243 CTAAAATTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
23 1 0.03
24 17 0.44
25 9 0.23
26 12 0.31
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (24 bp):
TATACTATAGTAAATAATAAAATA
Found at i:1949265 original size:24 final size:26
Alignment explanation
Indices: 1949210--1949263 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
1949200 TAACTATAGT
1949210 AAATAATAAAATATATATTATGTTAA
1 AAATAATAAAATATATATTATGTTAA
*
1949236 ATAATAACTAAAAT-TATATT-TTTTAA
1 A-AATAA-TAAAATATATATTATGTTAA
1949262 AA
1 AA
1949264 TATTTTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
25 1 0.04
26 7 0.28
27 11 0.44
28 6 0.24
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
AAATAATAAAATATATATTATGTTAA
Found at i:1951253 original size:2 final size:2
Alignment explanation
Indices: 1951246--1951279 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1951236 ATAAGAATAA
*
1951246 AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1951280 TTCAATGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1951798 original size:16 final size:17
Alignment explanation
Indices: 1951774--1951811 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
1951764 AAGAAAAATC
*
1951774 AAAAGAAATGAAAGG-A
1 AAAAAAAATGAAAGGCA
*
1951790 AAAAAAAATTAAAGGCA
1 AAAAAAAATGAAAGGCA
1951807 AAAAA
1 AAAAA
1951812 GCATCATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.74, C:0.03, G:0.16, T:0.08
Consensus pattern (17 bp):
AAAAAAAATGAAAGGCA
Found at i:1952172 original size:12 final size:13
Alignment explanation
Indices: 1952149--1952177 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1952139 TAAATTTTAA
1952149 ATTTATTTTATTT
1 ATTTATTTTATTT
1952162 ATTTA-TTTATTT
1 ATTTATTTTATTT
1952174 ATTT
1 ATTT
1952178 GAGATATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTATTTTATTT
Found at i:1952319 original size:15 final size:15
Alignment explanation
Indices: 1952285--1952316 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
1952275 AAATTTATAA
1952285 TTTATTTACTTTATT
1 TTTATTTACTTTATT
1952300 TTTATTTA-TTTATT
1 TTTATTTACTTTATT
1952314 TTT
1 TTT
1952317 TATATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTATTTACTTTATT
Found at i:1953854 original size:13 final size:13
Alignment explanation
Indices: 1953837--1953867 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1953827 ATTTTTTTTA
1953837 AATATTTATATTT
1 AATATTTATATTT
*
1953850 GATATTTATATTT
1 AATATTTATATTT
1953863 AATAT
1 AATAT
1953868 ATATTCGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:1955915 original size:13 final size:13
Alignment explanation
Indices: 1955899--1955923 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1955889 TTATACACAT
1955899 ATATAAATATCAG
1 ATATAAATATCAG
1955912 ATATAAATATCA
1 ATATAAATATCA
1955924 AATACGGATA
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:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (13 bp):
ATATAAATATCAG
Found at i:1956154 original size:16 final size:16
Alignment explanation
Indices: 1956129--1956161 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1956119 TGTTAAATGA
1956129 TATTTAAAAT-ATTTT
1 TATTTAAAATCATTTT
1956144 TATTATAAAATCATTTT
1 TATT-TAAAATCATTTT
1956161 T
1 T
1956162 GTTCTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 6 0.38
17 6 0.38
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTTAAAATCATTTT
Found at i:1957381 original size:23 final size:21
Alignment explanation
Indices: 1957355--1957421 Score: 53
Period size: 23 Copynumber: 3.0 Consensus size: 21
1957345 AATTAATATT
1957355 ATATATATATATCTATATATTTA
1 ATATA-ATATAT-TATATATTTA
* * * *
1957378 ATATAAAAAAATTTATTTTTTTA
1 ATAT-AATATA-TTATATATTTA
*
1957401 AAATAATATATTATATATTTA
1 ATATAATATATTATATATTTA
1957422 TACTCAATTA
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
21 9 0.27
22 4 0.12
23 18 0.55
24 2 0.06
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (21 bp):
ATATAATATATTATATATTTA
Found at i:1957803 original size:34 final size:34
Alignment explanation
Indices: 1957753--1957821 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
1957743 TTTGCCTGAC
* *
1957753 TTATAATATTTATTAATATACTTTATTTATAATT
1 TTATAATATTTATTAATATACTTTAATTAAAATT
*
1957787 TTATAACTATTT-TTAATATATTTTAATTAAAATT
1 TTATAA-TATTTATTAATATACTTTAATTAAAATT
1957821 T
1 T
1957822 CTTATGTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 26 0.84
35 5 0.16
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (34 bp):
TTATAATATTTATTAATATACTTTAATTAAAATT
Found at i:1958232 original size:569 final size:556
Alignment explanation
Indices: 1956816--1958343 Score: 1870
Period size: 559 Copynumber: 2.7 Consensus size: 556
1956806 TTTACGTATT
* * * * * * * *
1956816 TATAAATACATTTAATTTTTTTAAAAAATAATATATTTAAAAAATTATGCTCAATTATGAATTTA
1 TATAAAAAAATTT-ATTTTTTT--AAAATAATATA-TTATATATTTATACTCAACTATAAATTTA
* * * * * *
1956881 ATGTTAATTATTTTTTAAAAAATTACATATAATAAAATTTTAGAAACCA-TCATTAAAGGAACAA
62 ATGCTAATTA-TTTTTAAAAAAATACAGATAACAAAATTTTAGAAA-AAGTCATCAAAGGAACAA
* * * * *
1956945 ATTAAAAACTAAACAA-AATTAAAAAAAAAAAGAAAAAATTGTTGTGGGCTTATATTACGTCTAT
125 ATTAAAAACCAAACAAGAA-T---GAAAAGAAGAAAGAATTGTTGTGGGCTTATATTGCGTCTAT
* * * * * *
1957009 CCTGT-CTAAAATGGTATAACGTATTTCGTATTGGATAAAA-AATAAAAAATTTATAAGTTTTGA
186 CCT-TCCTAAAATTGTACAACGTATTTAGTATT-GA-AAAATAAT-CAGAACTTATAAGTTTTGA
*
1957072 ATCGATTTAAATTTATAAAGTAAATATTTTTAAAATTTGAGTTTTAAGAGAGACGAGTTGATTTT
247 ATCGATTTAAATTTATAAAGT-AATATTTTTAAAATTTGAGTTTTAAGAGAGGCGAGTTGATTTT
** * * *
1957137 TTATTAAGATTTCTAAAGTTGATTCAAAGTAA-TTT---T-AAAAAATTATCTTTACCTGACTTA
311 TTATTAAGATTTCTGGAGTTGATTTAGAGTAATTTTAGATAAAAAAATT-TCTTTGCCTGACTTA
* * *
1957197 TAAAATTTATTAAAATATTTTTTTCTTAATTTTATAACTATTTTTAATATATTTTAATTAAAATT
375 TAATATTTATTAAAATATTTATTTCATAATTTTATAACTATTTTTAATATATTTTAATTAAAATT
1957262 TCTTATGTTTTATAAGACTTTATCACATATATTTAATTTAGTTTTATAAAAAATTAATATAATAC
440 TCTTATGTTTTATAAGACTTTATCACATATATTTAATTTAGTTTTATAAAAAATTAATATAATAC
*
1957327 TAATATTATATGGATTCCAATTAATATTATATATATATATCTATATATTTAA
505 TAATATTATATGGATCCCAATTAATATTATATATATATATCTATATATTTAA
* *
1957379 TATAAAAAAATTTATTTTTTTAAAATAATATATTATATATTTATACTCAATTATGAATTTAATGC
1 TATAAAAAAATTTATTTTTTTAAAATAATATATTATATATTTATACTCAACTATAAATTTAATGC
** * * *
1957444 TAATTATTGTTTTTAAAAATACAGATAACAAAATTTTAGAAAACGTCATCAAAAGAATAAATTAA
66 TAATTATT-TTTAAAAAAATACAGATAACAAAATTTTAGAAAAAGTCATCAAAGGAACAAATTAA
* * * * * * *
1957509 AAACCAAACAAGAATGAGAAAGAAGAAAGAATTATTGTTGGCCTATATCGCGTCCATCCTACC-C
130 AAACCAAACAAGAATGA-AAAGAAGAAAGAATTGTTGTGGGCTTATATTGCGTCTATCCTTCCTA
* *
1957573 AAATTATACAACGAATTTAGTATTGAAAAAATAATCAGAACTTATAAGTTTTGAATCGATTTAAA
194 AAATTGTACAACGTATTTAGTATTG-AAAAATAATCAGAACTTATAAGTTTTGAATCGATTTAAA
* **
1957638 TTTATAAAGTAACTATTTTTAAAATTTGAGTTTTAAAAGAGGTTAGTTGATTTTTTATTAAGATT
258 TTTATAAAGTAA-TATTTTTAAAATTTGAGTTTTAAGAGAGGCGAGTTGATTTTTTATTAAGATT
*
1957703 TTTGGAGTTGATTTAGAGTAATTTTAGATAAAAAAATTTCTTTGCCTGACTTATAATATTTATTA
322 TCTGGAGTTGATTTAGAGTAATTTTAGATAAAAAAATTTCTTTGCCTGACTTATAATATTTATTA
*
1957768 ATATACTTTATTT-ATAATTTTATAACTATTTTTAATATATTTTAATTAAAATTTCTTATGTTTT
387 AAATA-TTTATTTCATAATTTTATAACTATTTTTAATATATTTTAATTAAAATTTCTTATGTTTT
*
1957832 ATAAGACTTTATCACATGTATTTAATTTAGTTTTAT-AAAAATTAATATAATA-TGAATATTATA
451 ATAAGACTTTATCACATATATTTAATTTAGTTTTATAAAAAATTAATATAATACT-AATATTATA
*
1957895 TGGATCCCAA-TGA-A-TAT-TATATATATCTATATATTTAA
515 TGGATCCCAATTAATATTATATATATATATCTATATATTTAA
*
1957933 TATAAAAAAATTTAATTTTTTTAAAAAGTAATATATTTAAATAATTATTATATATTTATACTCTA
1 TATAAAAAAATTT-A-TTTTTT------TAA-A-A--T-AAT-A-TATTATATATTTATACTCAA
* *
1957998 CTATAAATTTAATGCTGATTATTTTTAAAAAAATAAAGATAACAAAATTTTTA-AAAAAGTCATC
51 CTATAAATTTAATGCTAATTATTTTTAAAAAAATACAGATAACAAAA-TTTTAGAAAAAGTCATC
* *
1958062 AAAGGAACAAATTAAATACCAAACAAGAGTGTAAAAGAAGAAAGAATTGTTGTGGGCTTATATTG
115 AAAGGAACAAATTAAAAACCAAACAAGAATG-AAAAGAAGAAAGAATTGTTGTGGGCTTATATTG
** *
1958127 TATCTATCCTTCCTAAAATTGTACAATGTATTTAGTATTAGAAAAATAATCAGAACTTATAAGTT
179 CGTCTATCCTTCCTAAAATTGTACAACGTATTTAGTATT-GAAAAATAATCAGAACTTATAAGTT
* * * * *
1958192 TTGAATTGATTTAAATTTATAAGGTGAAGATTTTTAAAATTCGAGTTTTAAGAGAGGCGAGTTGG
243 TTGAATCGATTTAAATTTATAAAGT-AATATTTTTAAAATTTGAGTTTTAAGAGAGGCGAGTTGA
* * *
1958257 TTTTTCATTAAGATTTCTGGAGTTGATTTAG-GATAATTTTAGACAAAAAAATTTTCTTTGCTTG
307 TTTTTTATTAAGATTTCTGGAGTTGATTTAGAG-TAATTTTAGATAAAAAAA-TTTCTTTGCCTG
1958321 ACTTATAATATTTATTAAAATAT
370 ACTTATAATATTTATTAAAATAT
1958344 ATTGACGGGG
Statistics
Matches: 837, Mismatches: 91, Indels: 68
0.84 0.09 0.07
Matches are distributed among these distances:
554 36 0.04
555 110 0.13
556 34 0.04
557 38 0.05
558 36 0.04
559 205 0.24
560 27 0.03
562 11 0.01
563 12 0.01
564 1 0.00
566 1 0.00
567 3 0.00
568 97 0.12
569 191 0.23
570 35 0.04
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.41
Consensus pattern (556 bp):
TATAAAAAAATTTATTTTTTTAAAATAATATATTATATATTTATACTCAACTATAAATTTAATGC
TAATTATTTTTAAAAAAATACAGATAACAAAATTTTAGAAAAAGTCATCAAAGGAACAAATTAAA
AACCAAACAAGAATGAAAAGAAGAAAGAATTGTTGTGGGCTTATATTGCGTCTATCCTTCCTAAA
ATTGTACAACGTATTTAGTATTGAAAAATAATCAGAACTTATAAGTTTTGAATCGATTTAAATTT
ATAAAGTAATATTTTTAAAATTTGAGTTTTAAGAGAGGCGAGTTGATTTTTTATTAAGATTTCTG
GAGTTGATTTAGAGTAATTTTAGATAAAAAAATTTCTTTGCCTGACTTATAATATTTATTAAAAT
ATTTATTTCATAATTTTATAACTATTTTTAATATATTTTAATTAAAATTTCTTATGTTTTATAAG
ACTTTATCACATATATTTAATTTAGTTTTATAAAAAATTAATATAATACTAATATTATATGGATC
CCAATTAATATTATATATATATATCTATATATTTAA
Found at i:1960813 original size:10 final size:10
Alignment explanation
Indices: 1960800--1960824 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1960790 ATTTCTTTCA
1960800 TTTTTCTCTT
1 TTTTTCTCTT
1960810 TTTTTCTCTT
1 TTTTTCTCTT
1960820 TTTTT
1 TTTTT
1960825 TTCTCTCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:1961552 original size:165 final size:165
Alignment explanation
Indices: 1961332--1961656 Score: 442
Period size: 166 Copynumber: 2.0 Consensus size: 165
1961322 ATTCTCTTAA
* * *
1961332 AAAAAATTGATGGAATAGAAAACTCGGTTTTTCGAAAAAAGGGAATTTCAAGGAAACAAATTCAA
1 AAAAAATTCATGGAATAGAAAACTCGGTATTTCGAAAAAAGGAAATTTCAAGGAAA-AAATTCAA
* * * * *
1961397 AATTCATGAAAATGAATGAATTTTT-TAAAAATAAATTACTGTGAAATAAATAATAATATTTGAT
65 AATTCATGAAAATGAATGAATTTTTAAAAAAATAAATTAATATGAAATAAACAATAATATATGAT
1961461 GAAATTT-AAAAATCAAAAACCAAGAAAAATCCCTTG
130 G-AATTTAAAAAATCAAAAACCAAGAAAAATCCCTTG
*
1961497 AAAAAATTCAT-GAAGTAGAAAACTCTGTATTTCGCAAAAAA-GAAATTTCAAGGAAAAAATTCA
1 AAAAAATTCATGGAA-TAGAAAACTCGGTATTTCG-AAAAAAGGAAATTTCAAGGAAAAAATTCA
* * * *
1961560 AAATTTATGGAAATGGATGAATTTTTGAAAAAAATGAATTAATATGAAATAAACAATAATATATG
64 AAATTCATGAAAATGAATGAATTTTT-AAAAAAATAAATTAATATGAAATAAACAATAATATATG
* *
1961625 ATGAATTTAAAAAATTAAAAACCTAGAAAAAT
128 ATGAATTTAAAAAATCAAAAACCAAGAAAAAT
1961657 ACACTCAACA
Statistics
Matches: 140, Mismatches: 15, Indels: 9
0.85 0.09 0.05
Matches are distributed among these distances:
164 33 0.24
165 46 0.33
166 61 0.44
ACGTcount: A:0.53, C:0.07, G:0.12, T:0.28
Consensus pattern (165 bp):
AAAAAATTCATGGAATAGAAAACTCGGTATTTCGAAAAAAGGAAATTTCAAGGAAAAAATTCAAA
ATTCATGAAAATGAATGAATTTTTAAAAAAATAAATTAATATGAAATAAACAATAATATATGATG
AATTTAAAAAATCAAAAACCAAGAAAAATCCCTTG
Found at i:1961687 original size:166 final size:165
Alignment explanation
Indices: 1961347--1961695 Score: 420
Period size: 166 Copynumber: 2.1 Consensus size: 165
1961337 ATTGATGGAA
* * *
1961347 TAGAAAACTCGGTTTTTCGAAAAAAGGGAATTTCAAGGAAACAAATTCAAAATTCATGAAAATGA
1 TAGAAAACTCCGTATTTCGAAAAAAGGAAATTTCAAGGAAACAAATTCAAAATTCATGAAAATGA
* * * * *
1961412 ATGAATTTTTTAAAAATAAATTACTGTGAAATAAATAATAATATTTGATGAAATTTAAAAATCAA
66 ATGAATTTTTAAAAAATAAATTAATATGAAATAAACAATAATATATGATGAAATTTAAAAATCAA
* * *
1961477 AAACCAAGAAAAATCCCTTGAAAAAATTCATGAAG
131 AAACCAAGAAAAATCACTTCAAAAAATTCACGAAG
* * *
1961512 TAGAAAACTCTGTATTTCGCAAAAAA-GAAATTTCAAGGAAA-AAATTCAAAATTTATGGAAATG
1 TAGAAAACTCCGTATTTCG-AAAAAAGGAAATTTCAAGGAAACAAATTCAAAATTCATGAAAATG
* *
1961575 GATGAATTTTTGAAAAAAATGAATTAATATGAAATAAACAATAATATATGATG-AATTTAAAAAA
65 AATGAATTTTT--AAAAAATAAATTAATATGAAATAAACAATAATATATGATGAAATTT-AAAAA
* * * * *
1961639 TTAAAAACCTAGAAAAATACAC-TCAACAAATTTACGGAG
127 TCAAAAACCAAGAAAAAT-CACTTCAAAAAATTCACGAAG
1961678 T-GAAAAACTCCGTATTTC
1 TAG-AAAACTCCGTATTTC
1961696 AGTGTATGTT
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
164 30 0.19
165 37 0.24
166 88 0.56
167 2 0.01
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.28
Consensus pattern (165 bp):
TAGAAAACTCCGTATTTCGAAAAAAGGAAATTTCAAGGAAACAAATTCAAAATTCATGAAAATGA
ATGAATTTTTAAAAAATAAATTAATATGAAATAAACAATAATATATGATGAAATTTAAAAATCAA
AAACCAAGAAAAATCACTTCAAAAAATTCACGAAG
Found at i:1963459 original size:2 final size:2
Alignment explanation
Indices: 1963452--1963487 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1963442 TTATCTCAAA
1963452 AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1963488 AGCTTGAAAA
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1963475 original size:19 final size:19
Alignment explanation
Indices: 1963451--1963487 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1963441 TTTATCTCAA
1963451 AATATATATATATATATAT
1 AATATATATATATATATAT
1963470 AATATATATATATATATA
1 AATATATATATATATATA
1963488 AGCTTGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AATATATATATATATATAT
Found at i:1963476 original size:17 final size:17
Alignment explanation
Indices: 1963454--1963488 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1963444 ATCTCAAAAT
1963454 ATATATATATATATATA
1 ATATATATATATATATA
1963471 ATATATATATATATATA
1 ATATATATATATATATA
1963488 A
1 A
1963489 GCTTGAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATATATATATATATA
Found at i:1963549 original size:2 final size:2
Alignment explanation
Indices: 1963542--1963566 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1963532 GCTTTTCTCA
1963542 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1963567 AAAGCTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1963572 original size:81 final size:81
Alignment explanation
Indices: 1963460--1963658 Score: 319
Period size: 81 Copynumber: 2.4 Consensus size: 81
1963450 AAATATATAT
*
1963460 ATATATATATAATATATATATATATATAAGCTTGAAAAG-CTGCATAGCTTTATGAAAAAAAAAA
1 ATATATATAT-ATATATATATATATAAAAGCTTGAAAAGTC-GCATAGCTTTATGAAAAAAAAAA
1963524 GACGCATAGCTTTTCTCA
64 GACGCATAGCTTTTCTCA
* *
1963542 ATATATATATATATATATATATATAAAAGCTTGAAAAGTCGCATAGTTTTATGAAAAAAAAATGA
1 ATATATATATATATATATATATATAAAAGCTTGAAAAGTCGCATAGCTTTATGAAAAAAAAAAGA
*
1963607 CGCATAGCTTTTTTCA
66 CGCATAGCTTTTCTCA
* *
1963623 ATAAATATATATATATATATATATGAAAGCTTGAAA
1 ATATATATATATATATATATATATAAAAGCTTGAAA
1963659 TGGCCTTTTG
Statistics
Matches: 110, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
81 99 0.90
82 11 0.10
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.35
Consensus pattern (81 bp):
ATATATATATATATATATATATATAAAAGCTTGAAAAGTCGCATAGCTTTATGAAAAAAAAAAGA
CGCATAGCTTTTCTCA
Found at i:1964199 original size:18 final size:18
Alignment explanation
Indices: 1964176--1964222 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
1964166 TCTGATTTGT
1964176 ATATTAATATAATTA-ATA
1 ATATTAATAT-ATTATATA
* *
1964194 ATATTATTATATTATATG
1 ATATTAATATATTATATA
1964212 ATATTTAATAT
1 ATA-TTAATAT
1964223 TTGACATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 4 0.17
18 14 0.58
19 6 0.25
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATATTAATATATTATATA
Found at i:1971297 original size:20 final size:19
Alignment explanation
Indices: 1971270--1971358 Score: 72
Period size: 20 Copynumber: 4.5 Consensus size: 19
1971260 TAAATTATTA
1971270 TTTAAATAATAAAAAAAAT
1 TTTAAATAATAAAAAAAAT
*
1971289 TTATAAAT-ATAAAAATATATT
1 TT-TAAATAATAAAAA-A-AAT
** * **
1971310 TTTAAAATTTTAAATATTAT
1 TTT-AAATAATAAAAAAAAT
1971330 TTTAAATAATAAAATAAAAT
1 TTTAAATAATAAAA-AAAAT
1971350 TTTAAATAA
1 TTTAAATAA
1971359 ATTTAAATTT
Statistics
Matches: 53, Mismatches: 11, Indels: 11
0.71 0.15 0.15
Matches are distributed among these distances:
19 17 0.32
20 23 0.43
21 8 0.15
22 5 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTAAATAATAAAAAAAAT
Found at i:1976040 original size:16 final size:17
Alignment explanation
Indices: 1976009--1976042 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1975999 AAATTTTAAT
*
1976009 TTAATTTATTTATATAA
1 TTAATTTATATATATAA
1976026 TTAATTTA-ATATATAA
1 TTAATTTATATATATAA
1976042 T
1 T
1976043 ATTTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAATTTATATATATAA
Found at i:1976053 original size:20 final size:20
Alignment explanation
Indices: 1976028--1976067 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1976018 TTATATAATT
*
1976028 AATTT-AATATATAATATTTA
1 AATTTAAATA-ATAACATTTA
1976048 AATTTAAATAATAACATTTA
1 AATTTAAATAATAACATTTA
1976068 TTTACCCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTTAAATAATAACATTTA
Found at i:1976614 original size:19 final size:21
Alignment explanation
Indices: 1976592--1976631 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1976582 ATTTTTTTTT
1976592 AATTTT-TTTATATTT-TAAA
1 AATTTTATTTATATTTATAAA
*
1976611 AATTTTATTTTTATTTATAAA
1 AATTTTATTTATATTTATAAA
1976632 TATTAGACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTTTATTTATATTTATAAA
Found at i:1978782 original size:2 final size:2
Alignment explanation
Indices: 1978775--1978800 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1978765 TAGCAAAAGC
1978775 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
1978801 TCATTATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1980541 original size:16 final size:17
Alignment explanation
Indices: 1980522--1980563 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
1980512 TCAAATGGAT
1980522 TTTTTTTTCTTTTTT-A
1 TTTTTTTTCTTTTTTAA
**
1980538 TTTTTTTAATTTTTTAA
1 TTTTTTTTCTTTTTTAA
1980555 TTTTTTTTC
1 TTTTTTTTC
1980564 AAAAAGAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTTTCTTTTTTAA
Found at i:1980891 original size:2 final size:2
Alignment explanation
Indices: 1980854--1980882 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1980844 AACTTAAAAT
1980854 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
1980883 CCTTATATAC
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:1985374 original size:22 final size:24
Alignment explanation
Indices: 1985341--1985387 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
1985331 TACGGTAAGG
*
1985341 AGTTTTTGGTAA-CAAAAATTATA
1 AGTTTTTGGTAATAAAAAATTATA
1985364 AGTTTTT-GTAATAAAAAATTATA
1 AGTTTTTGGTAATAAAAAATTATA
1985387 A
1 A
1985388 ATATTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.40
Consensus pattern (24 bp):
AGTTTTTGGTAATAAAAAATTATA
Found at i:1985429 original size:37 final size:33
Alignment explanation
Indices: 1985374--1985456 Score: 114
Period size: 36 Copynumber: 2.4 Consensus size: 33
1985364 AGTTTTTGTA
1985374 ATAA-AAAATTATAAATATTAATTTTTTAAAAAATT
1 ATAATAAAATTA-AAATATTAA-TTTTTAAAAAA-T
1985409 ATAAATTAAAATTAAAATATTAATTTTTAAAAAAT
1 AT-AA-TAAAATTAAAATATTAATTTTTAAAAAAT
1985444 ATAATAAAATTAA
1 ATAATAAAATTAA
1985457 TTTTATTAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
33 9 0.20
34 2 0.04
35 5 0.11
36 13 0.29
37 9 0.20
38 7 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (33 bp):
ATAATAAAATTAAAATATTAATTTTTAAAAAAT
Found at i:1985480 original size:33 final size:33
Alignment explanation
Indices: 1985374--1985481 Score: 94
Period size: 33 Copynumber: 3.2 Consensus size: 33
1985364 AGTTTTTGTA
*
1985374 ATAA-AAAATTATAAATATTAATTTTTTAAAAAATT
1 ATAATAAAATTA-AAATATTAA-TATTT-AAAAATT
* *
1985409 ATAAATTAAAATTAAAATATTAATTTTTAAAAAAT
1 AT-AA-TAAAATTAAAATATTAATATTTAAAAATT
** *
1985444 ATAATAAAATTAATTTTATTAA-ATTTCAAAATT
1 ATAATAAAATTAA-AATATTAATATTTAAAAATT
1985477 ATAAT
1 ATAAT
1985482 TTTTTCTTCT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
33 22 0.35
34 8 0.13
35 10 0.16
36 7 0.11
37 9 0.14
38 7 0.11
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (33 bp):
ATAATAAAATTAAAATATTAATATTTAAAAATT
Found at i:1989028 original size:24 final size:24
Alignment explanation
Indices: 1988996--1989041 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
1988986 AATTTAAAAT
* *
1988996 TATTAGTAAAGATCGTTATGAAAC
1 TATTAGTAAAGAACATTATGAAAC
1989020 TATTAGTAAAGAACATTATGAA
1 TATTAGTAAAGAACATTATGAA
1989042 GTTGCATAAA
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:0.46, C:0.07, G:0.15, T:0.33
Consensus pattern (24 bp):
TATTAGTAAAGAACATTATGAAAC
Found at i:1989253 original size:14 final size:14
Alignment explanation
Indices: 1989236--1989273 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
1989226 AAAAATATAC
1989236 ACTAAACAATATGT
1 ACTAAACAATATGT
1989250 ACTAAACAATATGT
1 ACTAAACAATATGT
*
1989264 TCTAAACAAT
1 ACTAAACAAT
1989274 GATTAGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.50, C:0.16, G:0.05, T:0.29
Consensus pattern (14 bp):
ACTAAACAATATGT
Found at i:1989400 original size:2 final size:2
Alignment explanation
Indices: 1989393--1989424 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1989383 AACCCACCTC
1989393 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1989425 TAAAGAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1992286 original size:2 final size:2
Alignment explanation
Indices: 1992279--1992315 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1992269 ATTTTCCATT
1992279 TC TC TC TC TC TC 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 TC TC TC TC TC TC T
1992316 AGGTTTCGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1992573 original size:20 final size:20
Alignment explanation
Indices: 1992550--1992587 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1992540 TTTAATTTGA
1992550 ATTTCTTAGATTTTTTTTTC
1 ATTTCTTAGATTTTTTTTTC
* *
1992570 ATTTTTTGGATTTTTTTT
1 ATTTCTTAGATTTTTTTT
1992588 ACTGTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.05, G:0.08, T:0.74
Consensus pattern (20 bp):
ATTTCTTAGATTTTTTTTTC
Found at i:1998229 original size:2 final size:2
Alignment explanation
Indices: 1998222--1998262 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1998212 AGTGTTTCTT
1998222 TA TA TA TA TA 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 TA TA TA TA TA T
1998263 TTTTTGGGGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1998987 original size:1 final size:1
Alignment explanation
Indices: 1998981--1999007 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
1998971 ATTTGAGGTC
1998981 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1999008 CTCATTTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:2000303 original size:14 final size:14
Alignment explanation
Indices: 2000286--2000337 Score: 61
Period size: 14 Copynumber: 3.6 Consensus size: 14
2000276 ATATCTAAAA
2000286 TAATATATTAATAT
1 TAATATATTAATAT
2000300 TAATATATTAAT-T
1 TAATATATTAATAT
*
2000313 TGATATTATTAAATAT
1 TAATA-TATT-AATAT
*
2000329 TTATATATT
1 TAATATATT
2000338 TTTATTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
13 5 0.15
14 16 0.48
15 7 0.21
16 5 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (14 bp):
TAATATATTAATAT
Found at i:2000346 original size:15 final size:16
Alignment explanation
Indices: 2000328--2000372 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
2000318 TTATTAAATA
2000328 TTTATATATTT-TTAT
1 TTTATATATTTATTAT
2000343 TTTATAT-TTTAATTAT
1 TTTATATATTT-ATTAT
2000359 TTT-TATATTATATT
1 TTTATATATT-TATT
2000373 TATATCCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 3 0.12
15 10 0.38
16 12 0.46
17 1 0.04
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATATATTTATTAT
Found at i:2000366 original size:30 final size:31
Alignment explanation
Indices: 2000310--2000367 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
2000300 TAATATATTA
2000310 ATTTGATATTATTAAATATTTATATATTTTT
1 ATTTGATATTATTAAATATTTATATATTTTT
* * *
2000341 ATTTTATATT-TTAATTATTTTTATATT
1 ATTTGATATTATTAAATATTTATATATT
2000368 ATATTTATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (31 bp):
ATTTGATATTATTAAATATTTATATATTTTT
Found at i:2000368 original size:11 final size:11
Alignment explanation
Indices: 2000328--2000377 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
2000318 TTATTAAATA
2000328 TTTATA-TATT
1 TTTATATTATT
*
2000338 TTTATTTTATAT
1 TTTATATTAT-T
2000350 TTTA-ATTATT
1 TTTATATTATT
*
2000360 TTTATATTATA
1 TTTATATTATT
2000371 TTTATAT
1 TTTATAT
2000378 CCTATAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 10 0.29
11 19 0.56
12 5 0.15
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTATATTATT
Found at i:2000375 original size:17 final size:17
Alignment explanation
Indices: 2000328--2000375 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
2000318 TTATTAAATA
*
2000328 TTTATA-TATTTTTA-T
1 TTTATATTATATTTATT
* *
2000343 TTTATATTTTAATTATT
1 TTTATATTATATTTATT
2000360 TTTATATTATATTTAT
1 TTTATATTATATTTAT
2000376 ATCCTATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 6 0.23
16 5 0.19
17 15 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATATTATATTTATT
Found at i:2001654 original size:11 final size:11
Alignment explanation
Indices: 2001638--2001689 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
2001628 AAATATAATT
2001638 ATATAAATATA
1 ATATAAATATA
*
2001649 ATATAAATAAA
1 ATATAAATATA
2001660 ATATTTAATATATA
1 ATA--TAA-ATATA
2001674 ATAT-AATATA
1 ATATAAATATA
2001684 AGTATA
1 A-TATA
2001690 TTTTTAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 6 0.18
11 17 0.50
12 1 0.03
13 3 0.09
14 7 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (11 bp):
ATATAAATATA
Found at i:2001720 original size:23 final size:21
Alignment explanation
Indices: 2001693--2001764 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 21
2001683 AAGTATATTT
*
2001693 TTAAATTTTTATAAAATAAATTA
1 TTAAATTATTA-AAAA-AAATTA
2001716 TTAAATTATTAAAAAAAA-TA
1 TTAAATTATTAAAAAAAATTA
2001736 -TAAA-TATATAAATATAAAATATA
1 TTAAATTAT-TAAA-A-AAAAT-TA
2001759 TTAAAT
1 TTAAAT
2001765 ATAGTTATAA
Statistics
Matches: 41, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
18 3 0.07
19 8 0.20
20 3 0.07
21 7 0.17
22 4 0.10
23 12 0.29
24 4 0.10
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAATTATTAAAAAAAATTA
Found at i:2001744 original size:8 final size:8
Alignment explanation
Indices: 2001733--2001796 Score: 67
Period size: 8 Copynumber: 7.4 Consensus size: 8
2001723 ATTAAAAAAA
2001733 ATATAAAT
1 ATATAAAT
2001741 ATATAAAT
1 ATATAAAT
2001749 ATA-AAAT
1 ATATAAAT
2001756 ATATTAAAT
1 ATA-TAAAT
2001765 ATAGTTATAAT
1 ATA--TA-AAT
2001776 ATAATAAAAT
1 AT-AT-AAAT
2001786 ATATAAAT
1 ATATAAAT
2001794 ATA
1 ATA
2001797 ATGTAAAAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
7 7 0.14
8 18 0.36
9 9 0.18
10 9 0.18
11 6 0.12
12 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (8 bp):
ATATAAAT
Found at i:2001767 original size:30 final size:30
Alignment explanation
Indices: 2001731--2001797 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
2001721 TTATTAAAAA
2001731 AAATATAAATATATAA-AT-ATAAAATATATT
1 AAATATAAAT-TATAATATAATAAAATATA-T
*
2001761 AAATAT-AGTTATAATATAATAAAATATAT
1 AAATATAAATTATAATATAATAAAATATAT
2001790 AAATATAA
1 AAATATAA
2001798 TGTAAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 5 0.15
29 11 0.33
30 17 0.52
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (30 bp):
AAATATAAATTATAATATAATAAAATATAT
Found at i:2001778 original size:11 final size:9
Alignment explanation
Indices: 2001709--2001796 Score: 62
Period size: 8 Copynumber: 9.9 Consensus size: 9
2001699 TTTTATAAAA
2001709 TAAAT-TAT
1 TAAATATAT
2001717 TAAAT-TAT
1 TAAATATAT
* *
2001725 TAAAAAAAAT
1 T-AAATATAT
2001735 ATAAATATA-
1 -TAAATATAT
2001744 TAAATATA-
1 TAAATATAT
2001752 -AAATATAT
1 TAAATATAT
2001760 TAAATATAGT
1 TAAATATA-T
*
2001770 TATAATATAA
1 TA-AATATAT
2001780 TAAA-ATAT
1 TAAATATAT
2001788 ATAAATATA
1 -TAAATATA
2001797 ATGTAAAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
7 7 0.11
8 20 0.31
9 16 0.25
10 15 0.23
11 7 0.11
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (9 bp):
TAAATATAT
Found at i:2009997 original size:3 final size:3
Alignment explanation
Indices: 2009991--2010017 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
2009981 GTTGTTGTTG
2009991 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
2010018 AAGTTTTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:2012350 original size:27 final size:29
Alignment explanation
Indices: 2012320--2012380 Score: 72
Period size: 27 Copynumber: 2.1 Consensus size: 29
2012310 ATGATTTTTT
2012320 ATTAATTTTATAAT-TAAAT-TAAATAAA
1 ATTAATTTTATAATATAAATATAAATAAA
* * *
2012347 ATTATTTTTATTATATAAATAATAAATTAA
1 ATTAATTTTATAATATAAAT-ATAAATAAA
2012377 ATTA
1 ATTA
2012381 GACCAAATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 12 0.43
28 5 0.18
30 11 0.39
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
ATTAATTTTATAATATAAATATAAATAAA
Found at i:2013646 original size:20 final size:21
Alignment explanation
Indices: 2013623--2013661 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2013613 AAAAGATAGA
2013623 AAAAAAACA-AAAAATAAAGG
1 AAAAAAACAGAAAAATAAAGG
*
2013643 AAAAAAAGAGAAAAATAAA
1 AAAAAAACAGAAAAATAAA
2013662 ATTTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.82, C:0.03, G:0.10, T:0.05
Consensus pattern (21 bp):
AAAAAAACAGAAAAATAAAGG
Found at i:2013656 original size:21 final size:21
Alignment explanation
Indices: 2013608--2013661 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
2013598 CAACCATCAG
* *
2013608 AGAGAAAAAGATAGAAAAAAA
1 AGAGAAAAATAAAGAAAAAAA
* *
2013629 ACA-AAAAATAAAGGAAAAAA
1 AGAGAAAAATAAAGAAAAAAA
2013649 AGAGAAAAATAAA
1 AGAGAAAAATAAA
2013662 ATTTTTAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.78, C:0.02, G:0.15, T:0.06
Consensus pattern (21 bp):
AGAGAAAAATAAAGAAAAAAA
Found at i:2013890 original size:22 final size:22
Alignment explanation
Indices: 2013840--2013891 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
2013830 ATAAATTTTT
* *
2013840 ACATATTAATATAATAAAATAAT
1 ACAT-TTAAAATAATAAAATAAC
* *
2013863 ATATTTAAAATAATAAATTAAC
1 ACATTTAAAATAATAAAATAAC
2013885 ACATTTA
1 ACATTTA
2013892 TGTATAATTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.37
Consensus pattern (22 bp):
ACATTTAAAATAATAAAATAAC
Found at i:2013957 original size:19 final size:19
Alignment explanation
Indices: 2013933--2013986 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
2013923 CTAATTGTAA
2013933 ATTCAAATAAATAAATTTT
1 ATTCAAATAAATAAATTTT
*
2013952 ATTC-AATAAAATTTAATTTT
1 ATTCAAAT-AAA-TAAATTTT
* *
2013972 ATTAAAATAATTAAA
1 ATTCAAATAAATAAA
2013987 AATATAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
18 3 0.11
19 10 0.36
20 12 0.43
21 3 0.11
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (19 bp):
ATTCAAATAAATAAATTTT
Found at i:2014001 original size:16 final size:17
Alignment explanation
Indices: 2013974--2014007 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
2013964 TTAATTTTAT
2013974 TAAAATAATTAAAAATA
1 TAAAATAATTAAAAATA
2013991 TAAAA-AATTAAAAATA
1 TAAAATAATTAAAAATA
2014007 T
1 T
2014008 CATTAATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATAATTAAAAATA
Found at i:2014056 original size:16 final size:15
Alignment explanation
Indices: 2014020--2014054 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
2014010 TTAATTATTT
*
2014020 TATTTTCAAATAATA
1 TATTTTAAAATAATA
2014035 TA-TTTAAAATAATA
1 TATTTTAAAATAATA
2014049 TATTTT
1 TATTTT
2014055 TACATTAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTTTAAAATAATA
Found at i:2014183 original size:18 final size:21
Alignment explanation
Indices: 2014142--2014184 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2014132 AATTTATTTT
*
2014142 ATAATTATATTTTTATTAATA
1 ATAATTATAATTTTATTAATA
2014163 ATAATTA-AATTTTA-TAA-A
1 ATAATTATAATTTTATTAATA
2014181 ATAA
1 ATAA
2014185 AAATAAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 3 0.14
20 6 0.29
21 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAATTATAATTTTATTAATA
Found at i:2014184 original size:21 final size:21
Alignment explanation
Indices: 2014142--2014180 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
2014132 AATTTATTTT
* *
2014142 ATAATTATATTTTTATTAATA
1 ATAATTAAATTTTTATAAATA
2014163 ATAATTAAA-TTTTATAAA
1 ATAATTAAATTTTTATAAA
2014181 ATAAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAATTAAATTTTTATAAATA
Found at i:2023150 original size:20 final size:20
Alignment explanation
Indices: 2023125--2023165 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
2023115 ATGGATTAGC
2023125 AGTGGTCCTATATAGTTATT
1 AGTGGTCCTATATAGTTATT
*
2023145 AGTGGTCCTCTATAGTTATT
1 AGTGGTCCTATATAGTTATT
2023165 A
1 A
2023166 AAGTCTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (20 bp):
AGTGGTCCTATATAGTTATT
Found at i:2033727 original size:21 final size:21
Alignment explanation
Indices: 2033701--2033802 Score: 75
Period size: 21 Copynumber: 4.9 Consensus size: 21
2033691 TTTTAGTAAA
*
2033701 AAAAATTATTTAAATTAATTT
1 AAAAATTATTTATATTAATTT
*
2033722 AAAAATTTATTT-TATTATTTT
1 AAAAA-TTATTTATATTAATTT
* * *
2033743 AAAATAATATTTATATTTATAT
1 AAAA-ATTATTTATATTAATTT
*
2033765 AAAAA-TATTTTTTATT-ATTT
1 AAAAATTA-TTTATATTAATTT
* * *
2033785 AATAATAATTTAAATTAA
1 AAAAATTATTTATATTAA
2033803 ATCAAATAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
20 15 0.24
21 31 0.49
22 17 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AAAAATTATTTATATTAATTT
Found at i:2033731 original size:22 final size:21
Alignment explanation
Indices: 2033700--2033786 Score: 63
Period size: 22 Copynumber: 4.1 Consensus size: 21
2033690 ATTTTAGTAA
2033700 AAAAAATTATTTAAATTAATTT
1 AAAAAATTATTT-AATTAATTT
* * *
2033722 AAAAATTTATTTTATTATTTT
1 AAAAAATTATTTAATTAATTT
* *
2033743 AAAATAA-TATTTATATTTATAT
1 AAAA-AATTATTTA-ATTAATTT
*
2033765 AAAAATATT-TTTTATT-ATTT
1 AAAAA-ATTATTTAATTAATTT
2033785 AA
1 AA
2033787 TAATAATTTA
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
20 5 0.10
21 20 0.39
22 25 0.49
23 1 0.02
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AAAAAATTATTTAATTAATTT
Found at i:2033741 original size:20 final size:21
Alignment explanation
Indices: 2033699--2033791 Score: 82
Period size: 20 Copynumber: 4.3 Consensus size: 21
2033689 AATTTTAGTA
* *
2033699 AAAAAAATTATTTAAATTAATTT
1 AAAAATATTATTT-TATT-ATTT
2033722 AAAAAT-TTATTTTATTATTT
1 AAAAATATTATTTTATTATTT
* * *
2033742 TAAAATAATATTTATATTTATAT
1 AAAAATATTATTT-TA-TTATTT
2033765 AAAAATATT-TTTTATTATTT
1 AAAAATATTATTTTATTATTT
*
2033785 AATAATA
1 AAAAATA
2033792 ATTTAAATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
20 20 0.34
21 10 0.17
22 11 0.19
23 17 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AAAAATATTATTTTATTATTT
Done.