Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold437
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: 325478
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
File 1 of 3
Found at i:1803 original size:22 final size:23
Alignment explanation
Indices: 1754--1803 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
1744 CAAGATTTAT
1754 ATATATTTCATTTAAATAATAAA
1 ATATATTTCATTTAAATAATAAA
*
1777 A-ATATTT-ATTTAAA-ATTTAAA
1 ATATATTTCATTTAAATA-ATAAA
1798 ATATAT
1 ATATAT
1804 AATTTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 12 0.50
22 10 0.42
23 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
ATATATTTCATTTAAATAATAAA
Found at i:2212 original size:18 final size:18
Alignment explanation
Indices: 2189--2224 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2179 TTATTAACAC
2189 TATCATTATTAATAAAAT
1 TATCATTATTAATAAAAT
*
2207 TATCATTATTAATGAAAT
1 TATCATTATTAATAAAAT
2225 ATAATTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (18 bp):
TATCATTATTAATAAAAT
Found at i:2782 original size:2 final size:2
Alignment explanation
Indices: 2775--2805 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2765 AATTTTACAT
2775 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2806 CTCTCTCTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8061 original size:23 final size:24
Alignment explanation
Indices: 8031--8075 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
8021 AGCAGAAGTA
8031 AACCAT-AAACCAACTATATTTAC
1 AACCATAAAACCAACTATATTTAC
8054 AACCATAAAACCAACTATATTT
1 AACCATAAAACCAACTATATTT
8076 CTTGAACCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (24 bp):
AACCATAAAACCAACTATATTTAC
Found at i:14287 original size:111 final size:112
Alignment explanation
Indices: 14149--14369 Score: 345
Period size: 111 Copynumber: 2.0 Consensus size: 112
14139 AAATATGAAG
* **
14149 AAGCTAAGACTAATATCCAAACAGCAATTTTTACTCGAGGAACCAGACATCAAGAAAAATTCCTA
1 AAGCTAAGACTAATATCCAAACAGCAATTTTTACTCGAGGAACCAAACATCAAGAAAAATAACTA
* * *
14214 GATACATATAGACATTATCATAGTCATACTACAATTAACTGAATTCA
66 GATACAAATAGACATTATCATAATCAAACTACAATTAACTGAATTCA
* *
14261 AAGCT-AGACTAATATCCAAACAGCAATTTTTACTCGAGGAACCAAACATCGAGAAAAATAACTT
1 AAGCTAAGACTAATATCCAAACAGCAATTTTTACTCGAGGAACCAAACATCAAGAAAAATAACTA
* *
14325 GATATAAATAGACGTTATCATAATCAAACTACAATTAACTGAATT
66 GATACAAATAGACATTATCATAATCAAACTACAATTAACTGAATT
14370 TAATACCACC
Statistics
Matches: 99, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
111 94 0.95
112 5 0.05
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.26
Consensus pattern (112 bp):
AAGCTAAGACTAATATCCAAACAGCAATTTTTACTCGAGGAACCAAACATCAAGAAAAATAACTA
GATACAAATAGACATTATCATAATCAAACTACAATTAACTGAATTCA
Found at i:17699 original size:16 final size:15
Alignment explanation
Indices: 17647--17751 Score: 60
Period size: 16 Copynumber: 6.9 Consensus size: 15
17637 TCATAATCAT
*
17647 ATTTTATATTTATTTA
1 ATTTTATA-TTATATA
17663 ATTTAATATATTA-ATA
1 ATTT--TATATTATATA
17679 A-TTTATATTATATAA
1 ATTTTATATTATAT-A
17694 ATTTTA-A--A-ATA
1 ATTTTATATTATATA
* *
17705 TTTTATATATTCATATT
1 ATTT-TATATT-ATATA
*
17722 ATATTTATATTATATT
1 AT-TTTATATTATATA
17738 ATATTTATATTATA
1 AT-TTTATATTATA
17752 ATTTATAACA
Statistics
Matches: 73, Mismatches: 4, Indels: 24
0.72 0.04 0.24
Matches are distributed among these distances:
11 4 0.05
12 4 0.05
13 9 0.12
14 2 0.03
15 5 0.07
16 31 0.42
17 12 0.16
18 6 0.08
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTTATATTATATA
Found at i:17734 original size:5 final size:5
Alignment explanation
Indices: 17710--17751 Score: 57
Period size: 5 Copynumber: 7.8 Consensus size: 5
17700 AAATATTTTA
17710 TATAT TCATAT TATATT TATAT TATAT TATATT TATAT TATA
1 TATAT T-ATAT TATA-T TATAT TATAT TATA-T TATAT TATA
17752 ATTTATAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 19 0.56
6 15 0.44
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:17779 original size:12 final size:12
Alignment explanation
Indices: 17669--17783 Score: 63
Period size: 11 Copynumber: 10.1 Consensus size: 12
17659 TTTAATTTAA
*
17669 TATATTAATAATT
1 TATATTTATAA-T
17682 TATATTATATAA-
1 TATATT-TATAAT
*
17694 -AT-TTTA-AAA
1 TATATTTATAAT
17703 TAT-TTTATATAT
1 TATATTTATA-AT
*
17715 TCATA-TTATATT
1 T-ATATTTATAAT
17727 TATA-TTAT-AT
1 TATATTTATAAT
17737 TATATTTAT-AT
1 TATATTTATAAT
17748 TATAATTTATAA-
1 TAT-ATTTATAAT
*
17760 CATATTT-TAAT
1 TATATTTATAAT
*
17771 TATATTTTTAAT
1 TATATTTATAAT
17783 T
1 T
17784 TCATACTATA
Statistics
Matches: 84, Mismatches: 6, Indels: 25
0.73 0.05 0.22
Matches are distributed among these distances:
8 2 0.02
9 2 0.02
10 16 0.19
11 29 0.35
12 17 0.20
13 14 0.17
14 4 0.05
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (12 bp):
TATATTTATAAT
Found at i:17959 original size:2 final size:2
Alignment explanation
Indices: 17952--17982 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
17942 TAATTGAGCT
17952 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17983 CAAATTAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18182 original size:3 final size:3
Alignment explanation
Indices: 18174--18202 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18164 TTTTCATAAG
18174 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18203 GGCAAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:18367 original size:3 final size:3
Alignment explanation
Indices: 18359--18388 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
18349 TTAATTTTGT
18359 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18389 ATTTTTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:19727 original size:47 final size:47
Alignment explanation
Indices: 19675--19769 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
19665 GTAACTTCAC
19675 TTAATAAATAATCTGTAAATACTACTGATATGTCTTAACTTTGAATT
1 TTAATAAATAATCTGTAAATACTACTGATATGTCTTAACTTTGAATT
*
19722 TTAATAAATAATCTGTAAATACTACTGATATGTTTTAACTTTGAATT
1 TTAATAAATAATCTGTAAATACTACTGATATGTCTTAACTTTGAATT
19769 T
1 T
19770 GGATAACATC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.44
Consensus pattern (47 bp):
TTAATAAATAATCTGTAAATACTACTGATATGTCTTAACTTTGAATT
Found at i:20127 original size:38 final size:38
Alignment explanation
Indices: 20080--20165 Score: 90
Period size: 38 Copynumber: 2.3 Consensus size: 38
20070 TTTTATTACT
20080 AAAT-TTTTAAAT-AATAGTAATT-AATTAATTTAAATAA
1 AAATATTTTAAATCAATAG-AATTAAATT-ATTTAAATAA
* *
20117 AAATATTTT-AATCAATTGAATTAGAATTATTTTAATAA
1 AAATATTTTAAATCAATAGAATTA-AATTATTTAAATAA
*
20155 AAGTATTTTAA
1 AAATATTTTAA
20166 TAGTAATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
37 11 0.27
38 25 0.61
39 5 0.12
ACGTcount: A:0.50, C:0.01, G:0.05, T:0.44
Consensus pattern (38 bp):
AAATATTTTAAATCAATAGAATTAAATTATTTAAATAA
Found at i:20133 original size:24 final size:24
Alignment explanation
Indices: 20100--20152 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
20090 ATAATAGTAA
* *
20100 TTAATTAATTTAAATAAAAATATT
1 TTAATCAATTGAAATAAAAATATT
* * *
20124 TTAATCAATTGAATTAGAATTATT
1 TTAATCAATTGAAATAAAAATATT
20148 TTAAT
1 TTAAT
20153 AAAAGTATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (24 bp):
TTAATCAATTGAAATAAAAATATT
Found at i:20178 original size:15 final size:14
Alignment explanation
Indices: 20141--20185 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
20131 ATTGAATTAG
20141 AATTATTTTAATAA
1 AATTATTTTAATAA
* *
20155 AAGTATTTTAATAGT
1 AATTATTTTAATA-A
20170 AATTATTTTAATAA
1 AATTATTTTAATAA
20184 AA
1 AA
20186 ATAAGTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (14 bp):
AATTATTTTAATAA
Found at i:20199 original size:29 final size:29
Alignment explanation
Indices: 20141--20199 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
20131 ATTGAATTAG
* *
20141 AATTATTTTAATAAAAGTATTTTAATAGT
1 AATTATTTTAATAAAAATAGTTTAATAGT
20170 AATTATTTTAATAAAAATAAGTTTAA-AGT
1 AATTATTTTAATAAAAAT-AGTTTAATAGT
20199 A
1 A
20200 TTTAACATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (29 bp):
AATTATTTTAATAAAAATAGTTTAATAGT
Found at i:21072 original size:4 final size:5
Alignment explanation
Indices: 21052--21084 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
21042 ACATGAGTTT
21052 TTTAA TTTAA TTTAA -TTAA -TTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
21085 ATTATTATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 8 0.30
5 19 0.70
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TTTAA
Found at i:21076 original size:18 final size:18
Alignment explanation
Indices: 21053--21096 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
21043 CATGAGTTTT
21053 TTAATTTAATTT-AATTAA
1 TTAATTTAATTTAAATT-A
21071 TTAATTTAATTTAAATTA
1 TTAATTTAATTTAAATTA
21089 TT-ATTTAA
1 TTAATTTAA
21097 ATAATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.24
18 15 0.60
19 4 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAATTTAATTTAAATTA
Found at i:24841 original size:22 final size:24
Alignment explanation
Indices: 24811--24855 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
24801 AGTTATATTT
*
24811 TTATTTAAAT-TTAAT-TAAAAAA
1 TTATATAAATATTAATATAAAAAA
24833 TTATATAAATATTAATATAAAAA
1 TTATATAAATATTAATATAAAAA
24856 TAATATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
TTATATAAATATTAATATAAAAAA
Found at i:24861 original size:23 final size:22
Alignment explanation
Indices: 24816--24861 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
24806 TATTTTTATT
*
24816 TAAATTTAATTAAAAAATTATA
1 TAAATTTAATTAAAAAATAATA
24838 TAAATATTAA-TATAAAAATAATA
1 TAAAT-TTAATTA-AAAAATAATA
24861 T
1 T
24862 TTTAATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAATTTAATTAAAAAATAATA
Found at i:25633 original size:17 final size:17
Alignment explanation
Indices: 25607--25641 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
25597 AACGATTTAC
25607 TTTAAATTTTAAAATAT
1 TTTAAATTTTAAAATAT
* *
25624 TTTAATTTTTAATATAT
1 TTTAAATTTTAAAATAT
25641 T
1 T
25642 ATTTTTAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTAAATTTTAAAATAT
Found at i:25666 original size:17 final size:17
Alignment explanation
Indices: 25640--25673 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
25630 TTTTAATATA
25640 TTATTTTTAGT-TACTT
1 TTATTTTTAGTCTACTT
25656 TTATATTTTAGTCTACTT
1 TTAT-TTTTAGTCTACTT
25674 GTTACCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 7 0.44
18 5 0.31
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.65
Consensus pattern (17 bp):
TTATTTTTAGTCTACTT
Found at i:26413 original size:10 final size:10
Alignment explanation
Indices: 26400--26442 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
26390 ATTATTAAAT
26400 ATTAATTTAA
1 ATTAATTTAA
26410 ATTAATTTAA
1 ATTAATTTAA
* **
26420 ATAAATAAAA
1 ATTAATTTAA
*
26430 ATTTATTTAA
1 ATTAATTTAA
26440 ATT
1 ATT
26443 TAACTCATAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATTAATTTAA
Found at i:26737 original size:22 final size:19
Alignment explanation
Indices: 26708--26748 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 19
26698 TATTTTATTA
26708 AAATTTAATTATAAAATATAT
1 AAATTTAA-TATAAAA-ATAT
26729 AAATATTAATATAAAAATAT
1 AAAT-TTAATATAAAAATAT
26749 TTTTTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATTTAATATAAAAATAT
Found at i:27049 original size:2 final size:2
Alignment explanation
Indices: 27042--27069 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27032 AGGTGTACTA
27042 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
27070 GAGAAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31385 original size:16 final size:16
Alignment explanation
Indices: 31366--31408 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
31356 ATAATTAAAT
31366 TATAAAATAAAAATAA
1 TATAAAATAAAAATAA
*
31382 TATAAAATAAAATTAA
1 TATAAAATAAAAATAA
*
31398 TATAATATAAA
1 TATAAAATAAA
31409 TATATAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
TATAAAATAAAAATAA
Found at i:31457 original size:32 final size:33
Alignment explanation
Indices: 31389--31473 Score: 120
Period size: 32 Copynumber: 2.6 Consensus size: 33
31379 TAATATAAAA
* *
31389 TAAAATTAATATAATATAAATATATAAATATTT
1 TAAAATTTATATAATATAAATATATAAATATAT
*
31422 TAAAATTTATATAATATAAAT-TATTAATATAT
1 TAAAATTTATATAATATAAATATATAAATATAT
31454 TAAAA-TTATATAAATATAAA
1 TAAAATTTATAT-AATATAAA
31474 AAAATTGCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
31 6 0.12
32 22 0.46
33 20 0.42
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (33 bp):
TAAAATTTATATAATATAAATATATAAATATAT
Found at i:31473 original size:16 final size:16
Alignment explanation
Indices: 31362--31474 Score: 91
Period size: 15 Copynumber: 7.2 Consensus size: 16
31352 AGAAATAATT
31362 AAATTATA-AAATA-A
1 AAATTATATAAATATA
*
31376 AAATAATATAAA-ATA
1 AAATTATATAAATATA
31391 AAATTA-ATATAATAT-
1 AAATTATATA-AATATA
31406 AAA-TATATAAATATTTTA
1 AAATTATATAAATA---TA
31424 AAATT-TATATAATAT-
1 AAATTATATA-AATATA
31439 AAATTAT-TAATATATTA
1 AAATTATATAA-ATA-TA
31456 AAATTATATAAATATA
1 AAATTATATAAATATA
31472 AAA
1 AAA
31475 AAATTGCATA
Statistics
Matches: 81, Mismatches: 2, Indels: 30
0.72 0.02 0.27
Matches are distributed among these distances:
14 18 0.22
15 27 0.33
16 10 0.12
17 11 0.14
18 10 0.12
19 5 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTATATAAATATA
Found at i:31478 original size:51 final size:49
Alignment explanation
Indices: 31381--31479 Score: 119
Period size: 51 Copynumber: 2.0 Consensus size: 49
31371 AATAAAAATA
***
31381 ATATAAAATAAAATTAATATAATATAAATATATAAATATTTTAAAATTT
1 ATATAAAATAAAATTAATATAATATAAATATATAAATATAAAAAAATTT
* *
31430 ATATAATATAAATTATTAATATATTA-AAATTATATAAATATAAAAAAATT
1 ATATAAAATAAA--ATTAATATAATATAAA-TATATAAATATAAAAAAATT
31480 GCATATGATA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
49 11 0.26
50 3 0.07
51 28 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (49 bp):
ATATAAAATAAAATTAATATAATATAAATATATAAATATAAAAAAATTT
Found at i:32288 original size:19 final size:18
Alignment explanation
Indices: 32264--32303 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
32254 GAATTTTTTT
32264 TATTTAAAATAACCCCACA
1 TATTT-AAATAACCCCACA
*
32283 TATTTAATTAACCCCACA
1 TATTTAAATAACCCCACA
32301 TAT
1 TAT
32304 ATATATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (18 bp):
TATTTAAATAACCCCACA
Found at i:32689 original size:40 final size:40
Alignment explanation
Indices: 32629--32705 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
32619 TATATATATA
*
32629 ATGTTTGGTGTCAAAGTAACATTTCTCCATAAATAATGTT
1 ATGTTTGGTGTCAAAATAACATTTCTCCATAAATAATGTT
32669 ATGTTTGGTGTCAAAATAACATTTCTCCATAAATAAT
1 ATGTTTGGTGTCAAAATAACATTTCTCCATAAATAAT
32706 TTTAATCCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (40 bp):
ATGTTTGGTGTCAAAATAACATTTCTCCATAAATAATGTT
Found at i:33615 original size:3 final size:3
Alignment explanation
Indices: 33607--33635 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
33597 GATACACTAA
33607 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
33636 GGGTGAAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:34044 original size:3 final size:3
Alignment explanation
Indices: 34036--34065 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
34026 CTTTATACAT
34036 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
34066 AGATTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:35358 original size:11 final size:12
Alignment explanation
Indices: 35342--35370 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
35332 TATTTTTATT
35342 TTTATTTATA-A
1 TTTATTTATACA
35353 TTTATTTATACA
1 TTTATTTATACA
35365 TTTATT
1 TTTATT
35371 GCTTTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTATTTATACA
Found at i:39514 original size:3 final size:3
Alignment explanation
Indices: 39508--39551 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
39498 CACCACCCAA
*
39508 AAT AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
39552 AATTGATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:42154 original size:2 final size:2
Alignment explanation
Indices: 42149--42183 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
42139 TATGTGCATT
42149 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 T
42184 GTGTGTGTGC
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:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:43705 original size:2 final size:2
Alignment explanation
Indices: 43698--43730 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
43688 TGGAGCTAAG
*
43698 GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
43731 TCAGCAACGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:44018 original size:11 final size:11
Alignment explanation
Indices: 44002--44109 Score: 65
Period size: 11 Copynumber: 10.5 Consensus size: 11
43992 AAATATTTAA
44002 ATATTTATATC
1 ATATTTATATC
44013 ATATTTATAT-
1 ATATTTATATC
44023 -TATTT-TAT-
1 ATATTTATATC
*
44031 AT-TTTA-ATT
1 ATATTTATATC
*
44040 ATTTTTATATC
1 ATATTTATATC
*
44051 ATAATTATATC
1 ATATTTATATC
* *
44062 ATGTAATTATATT
1 A--TATTTATATC
*
44075 ATATTTAATATT
1 ATATTT-ATATC
44087 AT-TTTATAT-
1 ATATTTATATC
44096 AT-TTTATA-C
1 ATATTTATATC
44105 ATATT
1 ATATT
44110 AATTGATATG
Statistics
Matches: 82, Mismatches: 5, Indels: 21
0.76 0.05 0.19
Matches are distributed among these distances:
8 8 0.10
9 18 0.22
10 10 0.12
11 29 0.35
12 7 0.09
13 10 0.12
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (11 bp):
ATATTTATATC
Found at i:44018 original size:19 final size:19
Alignment explanation
Indices: 43994--44053 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
43984 TTAATTTAAA
43994 ATATTTAAATATTTATATC
1 ATATTTAAATATTTATATC
*
44013 ATATTTATATTATTT-TAT-
1 ATATTTA-AATATTTATATC
*
44031 AT-TTTAATTATTTTTATATC
1 ATATTTAA--ATATTTATATC
44051 ATA
1 ATA
44054 ATTATATCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
16 1 0.03
17 4 0.12
18 6 0.19
19 13 0.41
20 8 0.25
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (19 bp):
ATATTTAAATATTTATATC
Found at i:44036 original size:17 final size:17
Alignment explanation
Indices: 44016--44095 Score: 55
Period size: 16 Copynumber: 5.0 Consensus size: 17
44006 TTATATCATA
44016 TTTATATTATTTTATAT
1 TTTATATTATTTTATAT
44033 TTTA-ATTATTTT-TAT
1 TTTATATTATTTTATAT
* * *
44048 ATCATA--ATTATATCA-
1 TTTATATTATTTTAT-AT
* *
44063 TGTA-ATTATATTATAT
1 TTTATATTATTTTATAT
*
44079 TTAATATTATTTTATAT
1 TTTATATTATTTTATAT
44096 ATTTTATACA
Statistics
Matches: 45, Mismatches: 11, Indels: 14
0.64 0.16 0.20
Matches are distributed among these distances:
14 5 0.11
15 8 0.18
16 17 0.38
17 15 0.33
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (17 bp):
TTTATATTATTTTATAT
Found at i:44500 original size:24 final size:24
Alignment explanation
Indices: 44456--44502 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
44446 CTAAATTTTA
* *
44456 ATATCATTTTATCTAAGTAAATAC
1 ATATAATTTTATCTAACTAAATAC
44480 ATATAATTTTAT-TATACTAAATA
1 ATATAATTTTATCTA-ACTAAATA
44503 AACTTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.45
Consensus pattern (24 bp):
ATATAATTTTATCTAACTAAATAC
Found at i:44522 original size:28 final size:27
Alignment explanation
Indices: 44484--44561 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 27
44474 AAATACATAT
*
44484 AATTTTATTATACTAAATAAAC-TTTAA
1 AATTTAATTATACTAAATAAACATTT-A
44511 AATTTAACTTATA-TACAAATAAACATTTA
1 AATTTAA-TTATACT--AAATAAACATTTA
*
44540 ATTTTAATTATAACTAAATAAA
1 AATTTAATTAT-ACTAAATAAA
44562 TTCTTAACAT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
27 7 0.16
28 16 0.37
29 16 0.37
30 4 0.09
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (27 bp):
AATTTAATTATACTAAATAAACATTTA
Found at i:44568 original size:28 final size:28
Alignment explanation
Indices: 44483--44561 Score: 92
Period size: 29 Copynumber: 2.9 Consensus size: 28
44473 TAAATACATA
44483 TAATTTT-ATTAT-ACTAAATAAACTTT
1 TAATTTTAATTATAACTAAATAAACTTT
* * *
44509 AAAATTTAACTTATATAC-AAATAAACATT
1 TAATTTTAA-TTATA-ACTAAATAAACTTT
44538 TAATTTTAATTATAACTAAATAAA
1 TAATTTTAATTATAACTAAATAAA
44562 TTCTTAACAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
26 5 0.12
27 3 0.07
28 16 0.37
29 17 0.40
30 2 0.05
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.42
Consensus pattern (28 bp):
TAATTTTAATTATAACTAAATAAACTTT
Found at i:46427 original size:48 final size:47
Alignment explanation
Indices: 46356--46448 Score: 143
Period size: 48 Copynumber: 2.0 Consensus size: 47
46346 AATCTCTAAT
46356 TTTAAATTTTAATTGATTCATATAATTATTTTTAAAAAATAATATTTA
1 TTTAAATTTTAATTGATTCATATAA-TATTTTTAAAAAATAATATTTA
* *
46404 TTTAAATTTTAATT-ATTTTATATAATATTTTTCAAAAATAATATT
1 TTTAAATTTTAATTGA-TTCATATAATATTTTTAAAAAATAATATT
46449 AAATAATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
47 20 0.48
48 22 0.52
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (47 bp):
TTTAAATTTTAATTGATTCATATAATATTTTTAAAAAATAATATTTA
Found at i:48197 original size:13 final size:14
Alignment explanation
Indices: 48170--48208 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
48160 TTCACTTTTT
48170 TTTATTTTTAAATA
1 TTTATTTTTAAATA
*
48184 TTTATTTTT-GATA
1 TTTATTTTTAAATA
*
48197 TTTATATTTAAA
1 TTTATTTTTAAA
48209 GCATTCGGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (14 bp):
TTTATTTTTAAATA
Found at i:49059 original size:6 final size:6
Alignment explanation
Indices: 49048--49104 Score: 73
Period size: 6 Copynumber: 9.5 Consensus size: 6
49038 TAACCGTTCC
*
49048 TTTTAT TTTTAT TTTATTT ATTTTAT TTTTAT TTTTA- TTTTA- TTTTAT
1 TTTTAT TTTTAT TTT-TAT -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
49096 TTTTAT TTT
1 TTTTAT TTT
49105 GAGAGTAAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
5 10 0.22
6 29 0.63
7 4 0.09
8 3 0.07
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:49062 original size:5 final size:5
Alignment explanation
Indices: 49048--49104 Score: 71
Period size: 5 Copynumber: 10.8 Consensus size: 5
49038 TAACCGTTCC
49048 TTTTA TTTTTA TTTTA -TTTA TTTTA TTTTTA TTTTTA TTTTA TTTTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTTA TTTTA
49095 TTTTTA TTTT
1 -TTTTA TTTT
49105 GAGAGTAAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.08
5 23 0.48
6 21 0.44
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:49064 original size:11 final size:11
Alignment explanation
Indices: 49048--49104 Score: 84
Period size: 11 Copynumber: 5.4 Consensus size: 11
49038 TAACCGTTCC
49048 TTTTATTTTTA
1 TTTTATTTTTA
49059 TTTTA--TTTA
1 TTTTATTTTTA
49068 TTTTATTTTTA
1 TTTTATTTTTA
49079 TTTT-TATTTTA
1 TTTTAT-TTTTA
49090 TTTTATTTTTA
1 TTTTATTTTTA
49101 TTTT
1 TTTT
49105 GAGAGTAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.21
10 1 0.02
11 31 0.74
12 1 0.02
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:49424 original size:26 final size:27
Alignment explanation
Indices: 49372--49424 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
49362 AGTTTTATTG
*
49372 TAAATATTATAATATTTTTATATTTAT
1 TAAATATTATAATATTTTTATAGTTAT
*
49399 TAAATA-TATCATATTTTTCAT-GTTAT
1 TAAATATTATAATATTTTT-ATAGTTAT
49425 ATTTAAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (27 bp):
TAAATATTATAATATTTTTATAGTTAT
Found at i:49431 original size:29 final size:28
Alignment explanation
Indices: 49365--49436 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
49355 TTAAATAAGT
49365 TTTATTGTAAATATTATAATATTTTTATA
1 TTTATT-TAAATATTATAATATTTTTATA
* *
49394 TTTA-TTAAATA-TATCATATTTTTCATG
1 TTTATTTAAATATTATAATATTTTT-ATA
49421 TTATATTTAAA-ATTAT
1 TT-TATTTAAATATTAT
49437 TTTCAACTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 11 0.30
27 10 0.27
28 4 0.11
29 12 0.32
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (28 bp):
TTTATTTAAATATTATAATATTTTTATA
Found at i:49573 original size:16 final size:15
Alignment explanation
Indices: 49539--49593 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
49529 CTAACAGTAG
49539 ATATAATAAT-ATTAA
1 ATATAA-AATAATTAA
49554 ATATAAAATAATTAAA
1 ATATAAAATAATT-AA
* * *
49570 ATATAATATAAATAT
1 ATATAAAATAATTAA
49585 A-ATAAAATA
1 ATATAAAATA
49594 TAAAAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
14 10 0.29
15 11 0.32
16 13 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATATAAAATAATTAA
Found at i:49578 original size:21 final size:21
Alignment explanation
Indices: 49539--49596 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
49529 CTAACAGTAG
*
49539 ATATAATAATAT-TAAATATAA
1 ATATAATAAAATAT-AATATAA
49560 A-ATAATTAAAATATAATATAA
1 ATATAA-TAAAATATAATATAA
49581 ATATAATAAAATATAA
1 ATATAATAAAATATAA
49597 AAAATTACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 4 0.12
21 24 0.73
22 5 0.15
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
ATATAATAAAATATAATATAA
Found at i:49594 original size:16 final size:15
Alignment explanation
Indices: 49539--49597 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
49529 CTAACAGTAG
*
49539 ATATAATAATATTAA
1 ATATAATAAAATTAA
49554 ATATAA-AATAATTAA
1 ATATAATAA-AATTAA
*
49569 A-AT-ATAATA-TAA
1 ATATAATAAAATTAA
49581 ATATAATAAAATATAA
1 ATATAATAAAAT-TAA
49597 A
1 A
49598 AAATTACAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
12 4 0.11
13 4 0.11
14 11 0.31
15 12 0.34
16 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
ATATAATAAAATTAA
Found at i:49919 original size:16 final size:17
Alignment explanation
Indices: 49885--49920 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
49875 ATATTAATAT
49885 AATGTAACAATTAAAAA
1 AATGTAACAATTAAAAA
49902 AATGTAACAATTAAAAA
1 AATGTAACAATTAAAAA
49919 AA
1 AA
49921 CCTTGGGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.22
Consensus pattern (17 bp):
AATGTAACAATTAAAAA
Found at i:50317 original size:21 final size:21
Alignment explanation
Indices: 50291--50331 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50281 CTAGTTCATC
50291 GGTGGCATAGTCACCGGCATT
1 GGTGGCATAGTCACCGGCATT
* *
50312 GGTGGCATCGTCACTGGCAT
1 GGTGGCATAGTCACCGGCAT
50332 CGGCATTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.24, G:0.34, T:0.24
Consensus pattern (21 bp):
GGTGGCATAGTCACCGGCATT
Found at i:52023 original size:19 final size:20
Alignment explanation
Indices: 51973--52028 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
51963 GATATATATT
*
51973 ACATGATTAAAAATTTAATTA
1 ACATGAGTAAAAA-TTAATTA
51994 AC-T-AGTAAAAAATTAATTA
1 ACATGAGT-AAAAATTAATTA
52013 ACATGA-TAAAAATTAA
1 ACATGAGTAAAAATTAA
52029 AAAAATTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 20 0.65
20 8 0.26
21 3 0.10
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (20 bp):
ACATGAGTAAAAATTAATTA
Found at i:58064 original size:24 final size:24
Alignment explanation
Indices: 58037--58085 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
58027 TATAATTATT
58037 AAAATACTGAATTTAATAATATAA
1 AAAATACTGAATTTAATAATATAA
*
58061 AAAATACTTAATTTAATAATATAA
1 AAAATACTGAATTTAATAATATAA
58085 A
1 A
58086 GACTAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (24 bp):
AAAATACTGAATTTAATAATATAA
Found at i:58095 original size:29 final size:25
Alignment explanation
Indices: 58028--58084 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 25
58018 TTTTAAAAAT
*
58028 ATAAT-TATTAAAATACTGAATTTA
1 ATAATATAATAAAATACTGAATTTA
*
58052 ATAATATAA-AAAATACTTAATTTA
1 ATAATATAATAAAATACTGAATTTA
58076 ATAATATAA
1 ATAATATAA
58085 AGACTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 28 0.93
25 2 0.07
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (25 bp):
ATAATATAATAAAATACTGAATTTA
Found at i:58263 original size:2 final size:2
Alignment explanation
Indices: 58258--58282 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
58248 AAAAACATAC
58258 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
58283 GAAAAGGAGT
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:59016 original size:2 final size:2
Alignment explanation
Indices: 59009--59036 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
58999 TTTCTTTTCC
59009 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
59037 TTATTGTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60331 original size:72 final size:72
Alignment explanation
Indices: 60090--60317 Score: 305
Period size: 72 Copynumber: 3.2 Consensus size: 72
60080 TCTCGTGACA
* * * * * *
60090 ACAGAAAGTTGTATCGAAGGTGAAACTGGTGTAATTGAAGCTGACAAAAACGAAGAAGATAGAAT
1 ACAGAAAGTTGTATAGAAGGTGAATCTGGTGTAAGTGAAGCTGACAAAAACAAAGAAGAAAAAAT
60155 TTTAATT
66 TTTAATT
* * ** * *
60162 ACAGAAAGTTGTTTTGAAGGTGAATCCAGTATAAGTGAAGCTGACAAAAACAAAGAAGAAAAAGT
1 ACAGAAAGTTGTATAGAAGGTGAATCTGGTGTAAGTGAAGCTGACAAAAACAAAGAAGAAAAAAT
**
60227 TTTAACC
66 TTTAATT
*
60234 ACAGAAAGTTGTATAGAAGGTGAATCTGGTGTAAGTGGAATC-GACAAAAACAAAGAAGAAAAAA
1 ACAGAAAGTTGTATAGAAGGTGAATCTGGTGTAAGT-GAAGCTGACAAAAACAAAGAAGAAAAAA
60298 TTTTAATT
65 TTTTAATT
60306 ACAGAAAGTTGT
1 ACAGAAAGTTGT
60318 GCAGGAGATG
Statistics
Matches: 133, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
72 129 0.97
73 4 0.03
ACGTcount: A:0.45, C:0.09, G:0.22, T:0.24
Consensus pattern (72 bp):
ACAGAAAGTTGTATAGAAGGTGAATCTGGTGTAAGTGAAGCTGACAAAAACAAAGAAGAAAAAAT
TTTAATT
Found at i:66905 original size:14 final size:14
Alignment explanation
Indices: 66886--66916 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
66876 TATATATATA
66886 TATGTATGCGTATG
1 TATGTATGCGTATG
66900 TATGTATGCGTATG
1 TATGTATGCGTATG
66914 TAT
1 TAT
66917 ATATCTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.45
Consensus pattern (14 bp):
TATGTATGCGTATG
Found at i:68029 original size:2 final size:2
Alignment explanation
Indices: 68022--68060 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
68012 TTCACTCATT
68022 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 T
68061 TTGAAGATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:71564 original size:20 final size:20
Alignment explanation
Indices: 71536--71610 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
71526 TCATACCCTG
71536 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
71556 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * * *
71576 ATGTATTGATATATTCTACA
1 ATGTATCGATACATTTTTCA
71596 ATGTATCGATACATT
1 ATGTATCGATACATT
71611 ATGTCTTTTT
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:71603 original size:40 final size:39
Alignment explanation
Indices: 71536--71613 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
71526 TCATACCCTG
* *
71536 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTACAATATATCGATACAT-TATGA
* * *
71576 ATGTATTGATATATTCTACAATGTATCGATACATTATG
1 ATGTATCGATACATTCTACAATATATCGATACATTATG
71614 TCTTTTTACC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTACAATATATCGATACATTATGA
Found at i:72556 original size:22 final size:22
Alignment explanation
Indices: 72528--72576 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
72518 GACCATACAT
72528 TTTTTTTATTATGTTTCATGCA
1 TTTTTTTATTATGTTTCATGCA
72550 TTTTTTTATTATGTTTCATGCA
1 TTTTTTTATTATGTTTCATGCA
72572 TTTTT
1 TTTTT
72577 AACATGTCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.67
Consensus pattern (22 bp):
TTTTTTTATTATGTTTCATGCA
Found at i:72583 original size:20 final size:21
Alignment explanation
Indices: 72529--72583 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
72519 ACCATACATT
**
72529 TTTTTTATTATGTTTCATGCA
1 TTTTTTAACATGTTTCATGCA
**
72550 TTTTTTTATTATGTTTCATGCA
1 -TTTTTTAACATGTTTCATGCA
72572 -TTTTTAACATGT
1 TTTTTTAACATGT
72584 CCAGCATCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 10 0.32
22 21 0.68
ACGTcount: A:0.20, C:0.09, G:0.09, T:0.62
Consensus pattern (21 bp):
TTTTTTAACATGTTTCATGCA
Found at i:78511 original size:22 final size:21
Alignment explanation
Indices: 78468--78515 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
78458 ATAAATATAT
* *
78468 TTTTAAAAAAATCTTTCACTC
1 TTTTAAAAAAATATTACACTC
*
78489 TTTTAAAAAAATATTACTGCTC
1 TTTTAAAAAAATATTAC-ACTC
78511 TTTTA
1 TTTTA
78516 CCACTGTACC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.38, C:0.15, G:0.02, T:0.46
Consensus pattern (21 bp):
TTTTAAAAAAATATTACACTC
Found at i:79377 original size:20 final size:20
Alignment explanation
Indices: 79334--79377 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
79324 AAAAATTGAA
*
79334 GAGGGATACAAGAGAAGGAT
1 GAGGGATACAAGAGAAGGAG
** *
79354 GAGGGATACTTGAGAGGGAG
1 GAGGGATACAAGAGAAGGAG
79374 GAGG
1 GAGG
79378 AAGCCTCTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.48, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAAGGAG
Found at i:83951 original size:20 final size:20
Alignment explanation
Indices: 83908--83951 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
83898 AAGAATTGAA
*
83908 GAGGGATACAAGAGAAGGAT
1 GAGGGATACAAGAGAAGGAG
** *
83928 GAGGGATACTTGAGAGGGAG
1 GAGGGATACAAGAGAAGGAG
83948 GAGG
1 GAGG
83952 AAGCCTCTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.48, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAAGGAG
Found at i:85094 original size:18 final size:17
Alignment explanation
Indices: 85067--85121 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
85057 TTTATGCATT
*
85067 ATTTTTATATTTATTTA
1 ATTTTTATATTTATATA
85084 ATTTATTATATTTATATA
1 ATTT-TTATATTTATATA
* * *
85102 ATATTTATATGTATAAA
1 ATTTTTATATTTATATA
85119 ATT
1 ATT
85122 ATTGGGATTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 17 0.53
18 15 0.47
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
ATTTTTATATTTATATA
Found at i:85279 original size:9 final size:9
Alignment explanation
Indices: 85265--85299 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
85255 TATTTATTTA
*
85265 TTAATTCTT
1 TTAATTTTT
85274 TTAATTTTT
1 TTAATTTTT
*
85283 TTATTTTTT
1 TTAATTTTT
85292 TTAATTTT
1 TTAATTTT
85300 AATTTAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTAATTTTT
Found at i:85689 original size:12 final size:12
Alignment explanation
Indices: 85674--85705 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
85664 AATTTTTATT
85674 TAAAAATAATTA
1 TAAAAATAATTA
85686 TAAAAAT-A-TA
1 TAAAAATAATTA
85696 TAAAAATAAT
1 TAAAAATAAT
85706 ATTTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.50
11 2 0.11
12 7 0.39
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAAATAATTA
Found at i:86988 original size:18 final size:20
Alignment explanation
Indices: 86946--86988 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
86936 TTTTATTTAA
*
86946 ATTTAATTATAAATATTAAT
1 ATTTAATTATAAATAATAAT
86966 A-TTAA-TATAAA-AATAAT
1 ATTTAATTATAAATAATAAT
86983 ATTTAA
1 ATTTAA
86989 ATATTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 6 0.29
18 10 0.48
19 4 0.19
20 1 0.05
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTAATTATAAATAATAAT
Found at i:88824 original size:6 final size:6
Alignment explanation
Indices: 88813--88947 Score: 81
Period size: 6 Copynumber: 23.0 Consensus size: 6
88803 TAATATAAAA
* * *
88813 AAATTT AAATTT AAATTT TAATTT GAATTT AAATTT AAATAT AAATATT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAAT-TT
* * *
88862 AAATTT -AATGTG AAATATT ATAA-TT AAATTT -AATTT -TA-TT AAATAAAT
1 AAATTT AAAT-TT AAAT-TT A-AATTT AAATTT AAATTT AAATTT AAAT--TT
* *
88910 AAATTT AAA--T AAATTT -ATTTT ATA-TT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
88948 TTAAATATAA
Statistics
Matches: 100, Mismatches: 16, Indels: 26
0.70 0.11 0.18
Matches are distributed among these distances:
4 6 0.06
5 20 0.20
6 57 0.57
7 10 0.10
8 7 0.07
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (6 bp):
AAATTT
Found at i:88945 original size:32 final size:32
Alignment explanation
Indices: 88886--88947 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
88876 ATATTATAAT
88886 TAAATTTAATTTTATTAAATAAATAAATTTAAA
1 TAAATTTAATTTTATTAAAT-AATAAATTTAAA
* *
88919 TAAATTTATTTTATATTAAAT-TTAAATTT
1 TAAATTTAATTT-TATTAAATAATAAATTT
88948 TTAAATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 7 0.27
33 11 0.42
34 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
TAAATTTAATTTTATTAAATAATAAATTTAAA
Found at i:90254 original size:16 final size:17
Alignment explanation
Indices: 90215--90254 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
90205 ATTTGGATAA
90215 AATTTTATGTATAAATTT
1 AATTTT-TGTATAAATTT
90233 -ATTTTTGT-TAAATTT
1 AATTTTTGTATAAATTT
90248 AATTTTT
1 AATTTTT
90255 ATGTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 9 0.43
17 5 0.24
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
AATTTTTGTATAAATTT
Found at i:90256 original size:22 final size:22
Alignment explanation
Indices: 90230--90271 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
90220 TATGTATAAA
*
90230 TTTATTTTTGTTAAAT-TTAATT
1 TTTATGTTT-TTAAATATTAATT
90252 TTTATGTTTTTAAATATTAA
1 TTTATGTTTTTAAATATTAA
90272 ATAAGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (22 bp):
TTTATGTTTTTAAATATTAATT
Found at i:90383 original size:48 final size:48
Alignment explanation
Indices: 90309--90405 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
90299 CCATCTTATA
*
90309 AACAAGTTTACTTTGGAAAGAGCTTTGGTGGATGTTTTTAATTATTTT
1 AACAAGTTTACTTTGGAAAGAACTTTGGTGGATGTTTTTAATTATTTT
* * *
90357 AACAAGTTTGCTTTGGAAGGAACTTTGGTGGATGTTTTTAGTTATTTT
1 AACAAGTTTACTTTGGAAAGAACTTTGGTGGATGTTTTTAATTATTTT
90405 A
1 A
90406 TATTGAATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.45
Consensus pattern (48 bp):
AACAAGTTTACTTTGGAAAGAACTTTGGTGGATGTTTTTAATTATTTT
Found at i:94080 original size:11 final size:12
Alignment explanation
Indices: 94064--94088 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
94054 GAGTTTCAAC
94064 AAAAAAAAATTA
1 AAAAAAAAATTA
94076 AAAAAAAAATTA
1 AAAAAAAAATTA
94088 A
1 A
94089 TGTTATGATC
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAAAAATTA
Found at i:96486 original size:34 final size:33
Alignment explanation
Indices: 96436--96533 Score: 94
Period size: 34 Copynumber: 2.9 Consensus size: 33
96426 AGTTTGGTTG
*
96436 AATTATTATTTAATAATAAAAATAATTTTATTTA
1 AATTTTTA-TTAATAATAAAAATAATTTTATTTA
*
96470 AATTTAATTA-TAATAATATAAAATTA-TTT-TTTA
1 AATTT--TTATTAATAATA-AAAATAATTTTATTTA
*
96503 AATTTTTATTAATTTATAAATAATAATTTTA
1 AATTTTTATTAA-TAATAAA-AATAATTTTA
96534 ACTTTCAAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
31 3 0.06
32 5 0.10
33 17 0.33
34 18 0.35
35 6 0.12
36 3 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
AATTTTTATTAATAATAAAAATAATTTTATTTA
Found at i:96789 original size:25 final size:28
Alignment explanation
Indices: 96731--96795 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 28
96721 TAAGCTCGAC
96731 TTTAAAAT-TTATTTTATTATTTTAAAAA
1 TTTAAAATATTATTTTATTA-TTTAAAAA
96759 TATTAAAATATTATTTTA-TA-TT-AAAA
1 T-TTAAAATATTATTTTATTATTTAAAAA
96785 TTTAAAATATT
1 TTTAAAATATT
96796 TTATAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
25 10 0.29
26 5 0.14
27 2 0.06
28 1 0.03
29 9 0.26
30 8 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TTTAAAATATTATTTTATTATTTAAAAA
Found at i:97282 original size:2 final size:2
Alignment explanation
Indices: 97277--97311 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
97267 AATCATATGT
97277 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 T
97312 TAATGGGAGA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:98056 original size:22 final size:23
Alignment explanation
Indices: 98030--98072 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
98020 TTTTGCACTC
*
98030 AAATATAAAATTTC-AAGATTAT
1 AAATATAAAATATCTAAGATTAT
*
98052 AAATATATAATATCTAAGATT
1 AAATATAAAATATCTAAGATT
98073 TTTTATCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (23 bp):
AAATATAAAATATCTAAGATTAT
Found at i:99188 original size:18 final size:20
Alignment explanation
Indices: 99160--99196 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
99150 GGATTTAAAT
99160 ATAAATATTAGAT-TAAAAA
1 ATAAATATTAGATATAAAAA
99179 ATAAAT-TTAGATATAAAA
1 ATAAATATTAGATATAAAA
99197 TGAGGCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
ATAAATATTAGATATAAAAA
Found at i:101917 original size:91 final size:90
Alignment explanation
Indices: 101762--101941 Score: 288
Period size: 91 Copynumber: 2.0 Consensus size: 90
101752 ATAGAGGGAA
* * * *
101762 CAAAAGGAAGCCAAATCCCTCTAGGTTGCCAAGTTATTGTTATTAAAAAGTGTTTGGAGGTAACC
1 CAAAAAGAAGCCAAACCCCTCTAGGTTGCCAAGTTATTGTTAGTAAAAAGTGTTTCGAGGTAACC
*
101827 TAATCAAAGATTAAAACCAGTTAAAG
66 TAATCAAAGAGTAAAACCA-TTAAAG
* *
101853 CAAAAAGAAGTCAAACCCCTCTAGGTTGCCAAGTTATTGTTGGTAAAAAGTGTTTCGAGGTAACC
1 CAAAAAGAAGCCAAACCCCTCTAGGTTGCCAAGTTATTGTTAGTAAAAAGTGTTTCGAGGTAACC
101918 TAATCAAAGAGTAAAACCATTAAA
66 TAATCAAAGAGTAAAACCATTAAA
101942 ATGTACATTT
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
90 5 0.06
91 77 0.94
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (90 bp):
CAAAAAGAAGCCAAACCCCTCTAGGTTGCCAAGTTATTGTTAGTAAAAAGTGTTTCGAGGTAACC
TAATCAAAGAGTAAAACCATTAAAG
Found at i:106148 original size:108 final size:108
Alignment explanation
Indices: 106036--106235 Score: 258
Period size: 109 Copynumber: 1.9 Consensus size: 108
106026 AGATAATTTA
* * * * * *
106036 AGTTTGGTTATTATGTAA-TTTTTTTAATTGAGTTGATATTACTTAACTCATGACATCAAATTTA
1 AGTTTGGTTATTATATAATTTTTTTTAATTGAATTGATATCACATAACTCATAACATCAAACTTA
*
106100 ATTTAAAATTTTATAATAGTATAAATATAGATATGAATAAATTG
66 ATATAAAATTTTATAAT-GTATAAATATAGATATGAATAAATTG
* * * *
106144 AGTTTGGTTTTTATATAATTTTTTTTGATTGAATTGATATCACATAATTCATAACATTAAACTTA
1 AGTTTGGTTATTATATAATTTTTTTTAATTGAATTGATATCACATAACTCATAACATCAAACTTA
* * *
106209 GTATAAAATTTTATGATGTATAGATAT
66 ATATAAAATTTTATAATGTATAAATAT
106236 CAATTGAAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
108 25 0.32
109 52 0.68
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.47
Consensus pattern (108 bp):
AGTTTGGTTATTATATAATTTTTTTTAATTGAATTGATATCACATAACTCATAACATCAAACTTA
ATATAAAATTTTATAATGTATAAATATAGATATGAATAAATTG
Found at i:106478 original size:19 final size:20
Alignment explanation
Indices: 106440--106479 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
106430 AATATAGAAT
*
106440 ATAATAATTTCATCTTTTAA
1 ATAATAATTTCATATTTTAA
*
106460 ATAATCATTT-ATATTTTAA
1 ATAATAATTTCATATTTTAA
106479 A
1 A
106480 ACAATGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAATAATTTCATATTTTAA
Found at i:107832 original size:22 final size:24
Alignment explanation
Indices: 107800--107846 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
107790 TAATAAATTG
107800 ATTA-TTATTTTA-TTTAAAAAAT
1 ATTATTTATTTTATTTTAAAAAAT
*
107822 ATTATTTTTTTTATTTTAAAAAAT
1 ATTATTTATTTTATTTTAAAAAAT
107846 A
1 A
107847 ACTATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 7 0.32
24 11 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
ATTATTTATTTTATTTTAAAAAAT
Found at i:108025 original size:28 final size:27
Alignment explanation
Indices: 107948--108027 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 27
107938 TTTAAATTTA
* *
107948 ATTTTAAAAAATTAAGAAAAAATTTTATT
1 ATTTTAAAAAA-TAA-ATAAAATTTAATT
* * *
107977 ATTTTTATAAATATATCAAAATTTAATAT
1 ATTTTAAAAAATAAAT-AAAATTTAAT-T
108006 ATTTTAAAAAATAAATAAAATT
1 ATTTTAAAAAATAAATAAAATT
108028 GTTAAATTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
27 1 0.02
28 17 0.41
29 23 0.56
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (27 bp):
ATTTTAAAAAATAAATAAAATTTAATT
Found at i:108302 original size:2 final size:2
Alignment explanation
Indices: 108295--108321 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
108285 GGGCAAGTTA
108295 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 T
108322 GTGTGTAATC
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:111011 original size:2 final size:2
Alignment explanation
Indices: 111004--111035 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
110994 AGAGGACATG
111004 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
111036 GTAAAGGAAG
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:122156 original size:17 final size:17
Alignment explanation
Indices: 122126--122159 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
122116 AGAAGAGGTG
**
122126 GGTTTTTTTTTTTTTTT
1 GGTTTTTTAATTTTTTT
122143 GGTTTTTTAATTTTTTT
1 GGTTTTTTAATTTTTTT
122160 CTGCTTTGGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.00, G:0.12, T:0.82
Consensus pattern (17 bp):
GGTTTTTTAATTTTTTT
Found at i:122424 original size:2 final size:2
Alignment explanation
Indices: 122417--122452 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
122407 TTCCTAGATA
122417 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
122453 CATATAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:122754 original size:2 final size:2
Alignment explanation
Indices: 122747--122774 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
122737 TTGCTTTCAC
122747 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
122775 AGTACATAAA
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:123735 original size:2 final size:2
Alignment explanation
Indices: 123728--123762 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
123718 TTTTGTCTCC
*
123728 AT AT AT AT AT AT AT AT AT AT AT AA AT CAT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
123763 TTTACATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:125571 original size:27 final size:26
Alignment explanation
Indices: 125512--125572 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
125502 ATTATAAAAA
* *
125512 TATAAATATTAATATAAAATAACTTT
1 TATAAATTTTAATATAAAATAACATT
*
125538 TAAAAATTTTCAATAATAAAATAA-ATT
1 TATAAATTTT-AAT-ATAAAATAACATT
125565 TATAAATT
1 TATAAATT
125573 AATTCAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 8 0.28
27 12 0.41
28 9 0.31
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (26 bp):
TATAAATTTTAATATAAAATAACATT
Found at i:126034 original size:115 final size:116
Alignment explanation
Indices: 125911--126134 Score: 285
Period size: 118 Copynumber: 1.9 Consensus size: 116
125901 TAATTAAATT
* *
125911 TAAAAAATT-TAATAAATAATAATATATTAATGATTA-TTTTTAAT-AA-AAAATAATAGTTAAT
1 TAAAAAATTAAAATAAA-AAGAATATATT-ATGATTATTTTTTAATAAATAAAATAATAGTTAAT
*
125972 TAACTTTAAAAAAATTTACATTAATAAATTAAAATATTAATTATTTTTTAAAAA
64 TAACTTTAAAAAAA-TTACATTAACAAATTAAAATATTAATTATTTTTTAAAAA
** * * *
126026 TAAAAAATTAAAATAAAAAGGGTTTATTATTATTATTTTTTAATAAAATTAAAATAATATTTAAT
1 TAAAAAATTAAAATAAAAAGAATATATTATGATTATTTTTTAAT-AAA-TAAAATAATAGTTAAT
* *
126091 TAAGTTTAAAAAAATTATATTAACAAATTAAAATATTAATTATT
64 TAACTTTAAAAAAATTACATTAACAAATTAAAATATTAATTATT
126135 ATGTTTTTAT
Statistics
Matches: 93, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
114 6 0.06
115 24 0.26
116 6 0.06
117 2 0.02
118 28 0.30
119 27 0.29
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (116 bp):
TAAAAAATTAAAATAAAAAGAATATATTATGATTATTTTTTAATAAATAAAATAATAGTTAATTA
ACTTTAAAAAAATTACATTAACAAATTAAAATATTAATTATTTTTTAAAAA
Found at i:126190 original size:28 final size:28
Alignment explanation
Indices: 126128--126183 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
126118 TTAAAATATT
*
126128 AATTATTATGTTTTTATTAAAATAAAAA
1 AATTATTATGTTTTTAATAAAATAAAAA
*
126156 AATTATTAT-TTTTTAATAGAATAAAAA
1 AATTATTATGTTTTTAATAAAATAAAAA
126183 A
1 A
126184 TGATATTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (28 bp):
AATTATTATGTTTTTAATAAAATAAAAA
Found at i:126217 original size:13 final size:13
Alignment explanation
Indices: 126199--126223 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
126189 TTCAATTAAA
126199 TTTAAAAAATTAC
1 TTTAAAAAATTAC
126212 TTTAAAAAATTA
1 TTTAAAAAATTA
126224 AAAATAATAT
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:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
TTTAAAAAATTAC
Found at i:126221 original size:22 final size:21
Alignment explanation
Indices: 126200--126294 Score: 86
Period size: 21 Copynumber: 4.5 Consensus size: 21
126190 TCAATTAAAT
126200 TTAAAAAATTACTTTAAAAAA
1 TTAAAAAATTACTTTAAAAAA
* **
126221 TTAAAAATAATA-TTTAAGGAA
1 TTAAAAA-ATTACTTTAAAAAA
*
126242 TTAAAAAAATTACATTAAAAAA
1 TT-AAAAAATTACTTTAAAAAA
* **
126264 TTAAAAATAATA-TTTAAGGAA
1 TTAAAAA-ATTACTTTAAAAAA
126285 TTAAAAAATT
1 TTAAAAAATT
126295 TATCATTATT
Statistics
Matches: 58, Mismatches: 12, Indels: 9
0.73 0.15 0.11
Matches are distributed among these distances:
20 2 0.03
21 37 0.64
22 19 0.33
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (21 bp):
TTAAAAAATTACTTTAAAAAA
Found at i:126261 original size:43 final size:43
Alignment explanation
Indices: 126197--126302 Score: 176
Period size: 43 Copynumber: 2.4 Consensus size: 43
126187 TATTCAATTA
* *
126197 AATTTAAAAAATTACTTTAAAAAATTAAAAATAATATTTAAGG
1 AATTAAAAAAATTACATTAAAAAATTAAAAATAATATTTAAGG
126240 AATTAAAAAAATTACATTAAAAAATTAAAAATAATATTTAAGG
1 AATTAAAAAAATTACATTAAAAAATTAAAAATAATATTTAAGG
*
126283 AATTAAAAAATTTATCATTA
1 AATTAAAAAAATTA-CATTA
126303 TTCAAATAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
43 54 0.92
44 5 0.08
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (43 bp):
AATTAAAAAAATTACATTAAAAAATTAAAAATAATATTTAAGG
Found at i:126581 original size:21 final size:22
Alignment explanation
Indices: 126555--126596 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
126545 AAATGTTCTC
126555 TAAAAAATATATT-TAA-AAAAT
1 TAAAAAAT-TATTATAATAAAAT
126576 TAAAAAATTATTATAATAAAA
1 TAAAAAATTATTATAATAAAA
126597 AACTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAAAATTATTATAATAAAAT
Found at i:126713 original size:120 final size:122
Alignment explanation
Indices: 126585--126938 Score: 413
Period size: 120 Copynumber: 2.9 Consensus size: 122
126575 TTAAAAAATT
126585 ATTATAATAAAAAACTATTTTTAATTTAAAATTTTTTA-TTTTAAAAAATATAATAATTTATATT
1 ATTATAATAAAAAACTATTTTTAATTTAAAATTTTTTATTTTTAAAAAATATAATAATTTATATT
* *
126649 TTAATTTGTTAATGTAATTTTTTAAATTTAATTAATATTATTTT-ATTTAATTAAAA
66 TTAATTTGTTAATATAATTTTTTAAACTTAATTAATATTATTTTAATTTAATTAAAA
* * * *
126705 ATTATAATAAAAACCT-TTTTT-ATTTTAAATTTTTTATTTTTATAAAAACATAATAATTAATAT
1 ATTATAATAAAAAACTATTTTTAATTTAAAATTTTTTATTTTTA-AAAAATATAATAATTTATAT
* *
126768 TTTAATTTGTTAATATAATTTTTTAAACTTAATCAAATATTATTTTTAATTTTATTAAAA
65 TTTAATTTGTTAATATAATTTTTTAAACTTAAT-TAATATTA-TTTTAATTTAATTAAAA
* * * *
126828 ATAATAATAATAAACCATTTTTAATTTTTATTTAAATTTTTTTATTTTTAAAAAATA-ATTAA--
1 ATTATAATAAAAAACTATTTTTAA--TTTA---AAA-TTTTTTATTTTTAAAAAATATAATAATT
* *
126890 TATA--TTAATTTATTAATAT-ATATTTTTAAAGTTAATTAAATATTATTTT
60 TATATTTTAATTTGTTAATATAAT-TTTTTAAACTTAATT-AATATTATTTT
126939 TATTAAAAAT
Statistics
Matches: 200, Mismatches: 19, Indels: 26
0.82 0.08 0.11
Matches are distributed among these distances:
118 14 0.07
119 10 0.05
120 64 0.32
121 7 0.04
122 4 0.02
123 23 0.12
124 11 0.05
125 35 0.17
127 6 0.03
129 4 0.02
130 9 0.05
131 13 0.06
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (122 bp):
ATTATAATAAAAAACTATTTTTAATTTAAAATTTTTTATTTTTAAAAAATATAATAATTTATATT
TTAATTTGTTAATATAATTTTTTAAACTTAATTAATATTATTTTAATTTAATTAAAA
Found at i:126906 original size:125 final size:118
Alignment explanation
Indices: 126588--126940 Score: 353
Period size: 125 Copynumber: 2.9 Consensus size: 118
126578 AAAAATTATT
* *
126588 ATAATAAAAAAC--TATTTTTAATTTAAAATTTTTTA-TTTTAAAAAATATAATAATTTATATTT
1 ATAATAAAAACCTTTATTTTT-ATTT-AAATTTTTTATTTTTAAAAAATA-ATTAA--TATA--T
* * * *
126650 TAATTTGTTAATGTAATTTTTTAAATTTAATTAATATTA-TTTT-ATTTAATTAAAAATT
59 TAATTTGTTAATATAATTTTTTAAACTTAATAAATATTATTTTTAATTTAATTAAAAATA
* *
126708 ATAATAAAAACCTTT-TTTAT-TTTAAATTTTTTATTTTTATAAAAACATAATAATTAATATTTT
1 ATAATAAAAACCTTTATTTTTATTTAAATTTTTTA-TTTT-T--AAA-A-AATAATTAATATATT
*
126771 AATTTGTTAATATAATTTTTTAAACTTAATCAAATATTATTTTTAATTTTATTAAAAATA
60 AATTTGTTAATATAATTTTTTAAACTTAAT-AAATATTATTTTTAATTTAATTAAAAATA
126831 ATAATAATAAACCATTTTTAATTTTTATTTAAATTTTTTTATTTTTAAAAAATAATTAATATATT
1 ATAATAA-AAACC---TTT-ATTTTTATTTAAA-TTTTTTATTTTTAAAAAATAATTAATATATT
* *
126896 AATTTATTAATAT-ATATTTTTAAAGTTAATTAAATATTATTTTTA
60 AATTTGTTAATATAAT-TTTTTAAACTTAA-TAAATATTATTTTTA
126941 TTAAAAATAA
Statistics
Matches: 198, Mismatches: 13, Indels: 39
0.79 0.05 0.16
Matches are distributed among these distances:
118 10 0.05
119 3 0.02
120 44 0.22
121 12 0.06
122 8 0.04
123 23 0.12
124 12 0.06
125 56 0.28
126 2 0.01
127 6 0.03
129 5 0.03
130 10 0.05
131 7 0.04
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (118 bp):
ATAATAAAAACCTTTATTTTTATTTAAATTTTTTATTTTTAAAAAATAATTAATATATTAATTTG
TTAATATAATTTTTTAAACTTAATAAATATTATTTTTAATTTAATTAAAAATA
Found at i:127006 original size:125 final size:123
Alignment explanation
Indices: 126608--127006 Score: 317
Period size: 125 Copynumber: 3.2 Consensus size: 123
126598 ACTATTTTTA
* * * * * *
126608 ATTTAAAATTTTTTATTTTA-AAAAATATAATAATTTATATTTTAATTTGTTAATGTAATTTTTT
1 ATTT-AAATTTATTAATTTATAAAAA-A-AATAATTAATATATTAATTTATTAATATAATTTTTT
* * * *
126672 AAATTTAAT-TAATATTATTTTATTTAATTAAAAATTATAATAA-AAACC-TTTTT--TA--T
63 AAACTTAATCAAATATTA--TTATTTTATTAAAAATAATAATAATAAACCATTTTTAATATTT
* * * *
126728 -TTTAAATTTTTTATTTTTATAAAAACATAATAATTAATATTTTAATTTGTTAATATAATTTTTT
1 ATTTAAATTTATTA-ATTTATAAAAA-A-AATAATTAATATATTAATTTATTAATATAATTTTTT
*
126792 AAACTTAATCAAATATTATTTTTAATTTTATTAAAAATAATAATAATAAACCATTTTTAATTTTT
63 AAACTTAATCAAATATTA---TT-ATTTTATTAAAAATAATAATAATAAACCATTTTTAATATTT
* * *
126857 ATTTAAATTTTTTTATTT-T-TAAAAAATAATTAATATATTAATTTATTAATAT-ATATTTTTAA
1 ATTTAAATTTATTAATTTATAAAAAAAATAATTAATATATTAATTTATTAATATAAT-TTTTTAA
* * **
126919 AGTTAATTAAATATTA-T-TTTTATTAAAAATAATAATTAATACATTATTATTTATTAA-ATTT
65 ACTTAATCAAATATTATTATTTTATTAAAAATAATAA-TAATA-A--ACCATTT-TTAATATTT
126980 -TTTAAATTTAATTAATTTATAAAAAAA
1 ATTTAAATTT-ATTAATTTATAAAAAAA
127007 TTAAACAATT
Statistics
Matches: 237, Mismatches: 21, Indels: 37
0.80 0.07 0.13
Matches are distributed among these distances:
118 10 0.04
119 26 0.11
120 54 0.23
121 9 0.04
122 13 0.05
123 34 0.14
124 12 0.05
125 57 0.24
126 1 0.00
127 4 0.02
128 1 0.00
129 4 0.02
130 12 0.05
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (123 bp):
ATTTAAATTTATTAATTTATAAAAAAAATAATTAATATATTAATTTATTAATATAATTTTTTAAA
CTTAATCAAATATTATTATTTTATTAAAAATAATAATAATAAACCATTTTTAATATTT
Found at i:127309 original size:93 final size:93
Alignment explanation
Indices: 127146--127377 Score: 339
Period size: 93 Copynumber: 2.5 Consensus size: 93
127136 AACTGCAAGG
* *
127146 ATGAATTATATCTGAGAATCAGATTCTTTTTTATATAAAAAA-AAGAAAGATTGATTGATGGTAA
1 ATGAATTATATATGAGAATCAGATTCTTTTTTATAGAAAAAAGAA-AAAGATTGATTGATGGTAA
*
127210 ATGTCATACTGCAAGGATTAGACTAATGC
65 ACGTCATACTGCAAGGATTAGACTAATGC
* *
127239 ATGAATTATATATGAGAATCGGATTCTTTTTTATAGAAAAAAGAAAAAGACTT-ATTGATTGTAA
1 ATGAATTATATATGAGAATCAGATTCTTTTTTATAGAAAAAAGAAAAAGA-TTGATTGATGGTAA
*
127303 ACGTCATATTGCAAGGATTAGACTAATGC
65 ACGTCATACTGCAAGGATTAGACTAATGC
*
127332 ATGAATTATATATGAGAATTAGA---TTTTTTATAGAAAAAAAGAAAAA
1 ATGAATTATATATGAGAATCAGATTCTTTTTTATAG-AAAAAAGAAAAA
127378 CTGTAAGGAT
Statistics
Matches: 128, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
90 10 0.08
91 12 0.09
93 102 0.80
94 4 0.03
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (93 bp):
ATGAATTATATATGAGAATCAGATTCTTTTTTATAGAAAAAAGAAAAAGATTGATTGATGGTAAA
CGTCATACTGCAAGGATTAGACTAATGC
Found at i:127437 original size:67 final size:66
Alignment explanation
Indices: 127315--127442 Score: 159
Period size: 67 Copynumber: 1.9 Consensus size: 66
127305 GTCATATTGC
* * *
127315 AAGGATTAGACTAATGCATGAATTATATATGAGAATTAGATTTTTTATAGAAAAAAAGAAAAACT
1 AAGGATTAGACTAATGCATGAATTATACATAAGAATCAGATTTTTTATAGAAAAAAA-AAAAACT
127380 GT
65 GT
* * * * *
127382 AAGGATTAGAGTAATGCATGAATTGTACATAAGAATCGGATTTCTTT-TGGTAAAAAAAAAA
1 AAGGATTAGACTAATGCATGAATTATACATAAGAATCAGATTT-TTTATAGAAAAAAAAAAA
127443 GAAAAGTTAG
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
66 4 0.08
67 45 0.87
68 3 0.06
ACGTcount: A:0.46, C:0.05, G:0.18, T:0.30
Consensus pattern (66 bp):
AAGGATTAGACTAATGCATGAATTATACATAAGAATCAGATTTTTTATAGAAAAAAAAAAAACTG
T
Found at i:129497 original size:16 final size:17
Alignment explanation
Indices: 129468--129499 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
129458 ATGTTCGAAA
129468 AAAGTTATTAAAATTTG
1 AAAGTTATTAAAATTTG
129485 AAAGTTA-TAAAATTT
1 AAAGTTATTAAAATTT
129500 ATGATGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (17 bp):
AAAGTTATTAAAATTTG
Found at i:130100 original size:297 final size:297
Alignment explanation
Indices: 129544--130198 Score: 978
Period size: 297 Copynumber: 2.2 Consensus size: 297
129534 TGAGGAAAAC
* * * *
129544 TTTTTCTTGGTCATTTTACAAATAAATG-AAGGCTCATATTTAAGTTGTTACTGAAAAATAAAAT
1 TTTTTCTTGGTCATTTTACAGATAAA-GAAAAGCTCATATTTAAGTCGTTACCGAAAAATAAAAT
* * * *
129608 GTGTCTATTTATAAATCCGAAATAAGTCATTATCGAAAAAAGTAATTTATTGTTGGCTAACATAA
65 GTATCTATCTATAAATCCGAAATAAATCATTATCGAAAAAAGTAATTTATTATTGGCTAACATAA
*
129673 ATTTAAGTTCTATCAATTATAAAAATAATACATATACAATATTAATTAATTTTAATAAAAATAAA
130 ATTTAAGTTCTATCAATTATAAAAATAATACATATACAATATTAACTAATTTTAATAAAAATAAA
*
129738 TTTGTATAATTTATAAATAAATTAAAAATAATTTATAATAAAAAGTAATAATAAATACACAATAT
195 TTTGCATAATTTATAAATAAATTAAAAATAATTTATAATAAAAAGTAATAATAAATACACAATAT
129803 TAATTAATTTTAATAAAAATAATACATGTACAATAAAT
260 TAATTAATTTTAATAAAAATAATACATGTACAATAAAT
* * *
129841 TTTTTCTTGGTCATTTTACAGATAAAGAAAAGTTCGTATTTAAGTCATTACCGAAAAATAAAATG
1 TTTTTCTTGGTCATTTTACAGATAAAGAAAAGCTCATATTTAAGTCGTTACCGAAAAATAAAATG
*
129906 TATAC-ATCTATAAATCCGAAATAAATCGTTATTC-AAAAAAGTAATTTATTATTGGCTAACATA
66 TAT-CTATCTATAAATCCGAAATAAATCATTA-TCGAAAAAAGTAATTTATTATTGGCTAACATA
* *
129969 AATTTAAGTTTTATCAATTATAAAAATAATACATGTACAATATTAACTAATTTTAATAAAAATAA
129 AATTTAAGTTCTATCAATTATAAAAATAATACATATACAATATTAACTAATTTTAATAAAAATAA
* * * * ***
130034 ATTTGCATAATTTATAAATAAATTTAAAATATTTTATAAATAAAAA-TAATATTACATGTGCAAT
194 ATTTGCATAATTTATAAATAAATTAAAAATAATTTAT-AATAAAAAGTAATAATAAATACACAAT
*
130098 ATTAATTAATTTTAATAAAAATAATACATGTATAATAAAT
258 ATTAATTAATTTTAATAAAAATAATACATGTACAATAAAT
* ** *
130138 TTTTTCTTGATCATTTTATGGATAAA-AGAAAGCTCATATTTAAGTCGTTGCCGAAAAATAA
1 TTTTTCTTGGTCATTTTACAGATAAAGA-AAAGCTCATATTTAAGTCGTTACCGAAAAATAA
130199 TACATGTAAA
Statistics
Matches: 322, Mismatches: 31, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
296 2 0.01
297 309 0.96
298 11 0.03
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.38
Consensus pattern (297 bp):
TTTTTCTTGGTCATTTTACAGATAAAGAAAAGCTCATATTTAAGTCGTTACCGAAAAATAAAATG
TATCTATCTATAAATCCGAAATAAATCATTATCGAAAAAAGTAATTTATTATTGGCTAACATAAA
TTTAAGTTCTATCAATTATAAAAATAATACATATACAATATTAACTAATTTTAATAAAAATAAAT
TTGCATAATTTATAAATAAATTAAAAATAATTTATAATAAAAAGTAATAATAAATACACAATATT
AATTAATTTTAATAAAAATAATACATGTACAATAAAT
Found at i:130508 original size:15 final size:15
Alignment explanation
Indices: 130476--130528 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
130466 ACGATTTTTT
130476 AATA-TATTTATAAAA
1 AATATTATTT-TAAAA
*
130491 AAAACTTATTTTAAAA
1 AATA-TTATTTTAAAA
*
130507 AATATTTTTTTAAAA
1 AATATTATTTTAAAA
130522 ATATATT
1 A-ATATT
130529 TACGAAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 14 0.44
16 13 0.41
17 5 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATTATTTTAAAA
Found at i:133714 original size:2 final size:2
Alignment explanation
Indices: 133707--133754 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
133697 CAACATGAAC
133707 TA TA TA TA 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 TA TA TA TA
133749 TA TA TA
1 TA TA TA
133755 CACACACACA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:134556 original size:51 final size:51
Alignment explanation
Indices: 134491--134590 Score: 164
Period size: 51 Copynumber: 2.0 Consensus size: 51
134481 ATGTTTGCAA
* *
134491 GATCGAAAACAAAGATGTGGGTTCAGATCATCAAGATGAAGAAAAATCCGT
1 GATCAAAAACAAAGATGTGAGTTCAGATCATCAAGATGAAGAAAAATCCGT
* *
134542 GATCAAAAACAAAGATGTGAGTTCAGTTCATCAAGATGAAGTAAAATCC
1 GATCAAAAACAAAGATGTGAGTTCAGATCATCAAGATGAAGAAAAATCC
134591 AAGAACAAGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (51 bp):
GATCAAAAACAAAGATGTGAGTTCAGATCATCAAGATGAAGAAAAATCCGT
Found at i:135595 original size:18 final size:18
Alignment explanation
Indices: 135572--135654 Score: 69
Period size: 18 Copynumber: 4.6 Consensus size: 18
135562 AGTTTGATGT
135572 TGCTGTTGAT-CATGTTGC
1 TGCTGTTGATGC-TGTTGC
*
135590 TGCTGTTGCTGCTGTTGC
1 TGCTGTTGATGCTGTTGC
* * *
135608 TGCTGTTGTTGCAGTTGT
1 TGCTGTTGATGCTGTTGC
* * * *
135626 TGCTGCTGAAGCTGCTGA
1 TGCTGTTGATGCTGTTGC
*
135644 TGCAGTTGATG
1 TGCTGTTGATG
135655 GGGCTGGAAC
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
18 50 0.98
19 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.33, T:0.41
Consensus pattern (18 bp):
TGCTGTTGATGCTGTTGC
Found at i:135596 original size:9 final size:9
Alignment explanation
Indices: 135584--135630 Score: 67
Period size: 9 Copynumber: 5.2 Consensus size: 9
135574 CTGTTGATCA
135584 TGTTGCTGC
1 TGTTGCTGC
135593 TGTTGCTGC
1 TGTTGCTGC
135602 TGTTGCTGC
1 TGTTGCTGC
*
135611 TGTTGTTGC
1 TGTTGCTGC
* *
135620 AGTTGTTGC
1 TGTTGCTGC
135629 TG
1 TG
135631 CTGAAGCTGC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.02, C:0.17, G:0.34, T:0.47
Consensus pattern (9 bp):
TGTTGCTGC
Found at i:141035 original size:84 final size:86
Alignment explanation
Indices: 140905--141063 Score: 202
Period size: 84 Copynumber: 1.9 Consensus size: 86
140895 TAAAATATAA
* * *
140905 TTAAGAATATAATTAAATAATTATGTTTTAAACATGTATATATATTAATATGTATTTA-TAA-AT
1 TTAAGAATATAATTAAATAATTATATTATAAACATGTATATATATTAATATATATTTATTAATAT
140968 GTATTAAAAATTTATAATAAAT
66 GT-TTAAAAATTTATAATAAAT
* * *
140990 TTAA-AATATGATTAAATAATTATATTAT-AA-ATGTATAAATTTATTATTATATATTTATTAAT
1 TTAAGAATATAATTAAATAATTATATTATAAACATGTAT--ATATATTAATATATATTTATTAAT
141052 ATGTTTAAAAAT
64 ATGTTTAAAAAT
141064 AAAAATTTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
82 6 0.09
83 2 0.03
84 37 0.58
85 15 0.23
86 4 0.06
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.47
Consensus pattern (86 bp):
TTAAGAATATAATTAAATAATTATATTATAAACATGTATATATATTAATATATATTTATTAATAT
GTTTAAAAATTTATAATAAAT
Found at i:141139 original size:20 final size:20
Alignment explanation
Indices: 141106--141144 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
141096 TAATGTGTTA
*
141106 TAATATGTACATATTTAAAT
1 TAATATGTACATATATAAAT
**
141126 TAATATGTTTATATATAAA
1 TAATATGTACATATATAAA
141145 ATATTATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (20 bp):
TAATATGTACATATATAAAT
Found at i:141851 original size:24 final size:24
Alignment explanation
Indices: 141819--141867 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
141809 TTACAAATAC
* *
141819 ATTATAATTTA-TAGAATATAAATT
1 ATTAAAATTTATTA-AACATAAATT
141843 ATTAAAATTTATTAAACATAAATT
1 ATTAAAATTTATTAAACATAAATT
141867 A
1 A
141868 AATTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
ATTAAAATTTATTAAACATAAATT
Found at i:142395 original size:14 final size:15
Alignment explanation
Indices: 142369--142400 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
142359 ACACAGTTTG
142369 AAAAATAATAAATAA
1 AAAAATAATAAATAA
142384 AAAAATAA-AAATAA
1 AAAAATAATAAATAA
142398 AAA
1 AAA
142401 TAAAATTGAT
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (15 bp):
AAAAATAATAAATAA
Found at i:146051 original size:16 final size:16
Alignment explanation
Indices: 146030--146064 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
146020 GTAGTTTCCC
146030 GCATGGATAGAAAAAT
1 GCATGGATAGAAAAAT
146046 GCATGGATAGAAAAAT
1 GCATGGATAGAAAAAT
146062 GCA
1 GCA
146065 AGAACCGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.09, G:0.26, T:0.17
Consensus pattern (16 bp):
GCATGGATAGAAAAAT
Done.