Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1559
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: 258979
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
File 1 of 3
Found at i:10291 original size:21 final size:21
Alignment explanation
Indices: 10266--10307 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10256 TATATTCTTA
10266 TTGTTTTTAATATTACTCAAG
1 TTGTTTTTAATATTACTCAAG
*
10287 TTGTTTTTAGTATTACTCAAG
1 TTGTTTTTAATATTACTCAAG
10308 GTAAATTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.52
Consensus pattern (21 bp):
TTGTTTTTAATATTACTCAAG
Found at i:11477 original size:2 final size:2
Alignment explanation
Indices: 11472--11505 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11462 ACACACACAC
11472 AT 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 AT
11506 TAAAAAAAAT
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):
AT
Found at i:12169 original size:7 final size:7
Alignment explanation
Indices: 12131--12170 Score: 50
Period size: 6 Copynumber: 6.1 Consensus size: 7
12121 TATAAATTTA
12131 ATAATAT
1 ATAATAT
12138 ATAA-AT
1 ATAATAT
12144 ATAA-AT
1 ATAATAT
12150 ATAA-AT
1 ATAATAT
12156 ATAATAT
1 ATAATAT
*
12163 ATTATAT
1 ATAATAT
12170 A
1 A
12171 ATTAAAAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 18 0.58
7 13 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
ATAATAT
Found at i:12172 original size:12 final size:13
Alignment explanation
Indices: 12131--12164 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
12121 TATAAATTTA
12131 ATAATATATAAAT
1 ATAATATATAAAT
12144 ATAA-ATATAAAT
1 ATAATATATAAAT
12156 ATAATATAT
1 ATAATATAT
12165 TATATAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATATATAAAT
Found at i:12253 original size:17 final size:17
Alignment explanation
Indices: 12227--12275 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
12217 TTCAAGATTC
12227 AATT-ATTTTTAAATAA
1 AATTAATTTTTAAATAA
* * *
12243 AATTAATTTTTTACTTA
1 AATTAATTTTTAAATAA
12260 AATTAATTTATTAAAT
1 AATTAATTT-TTAAAT
12276 TTAATATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 4 0.15
17 18 0.69
18 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTAATTTTTAAATAA
Found at i:12606 original size:6 final size:6
Alignment explanation
Indices: 12592--12627 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
12582 CTGAATCCCC
*
12592 CCATAG CCATTG CCATAG CCATAG CCATAG CCATAG
1 CCATAG CCATAG CCATAG CCATAG CCATAG CCATAG
12628 GGGCTATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (6 bp):
CCATAG
Found at i:12896 original size:15 final size:14
Alignment explanation
Indices: 12868--12907 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
12858 TAATTAAAAA
12868 TTTTAA-AAAA-TT
1 TTTTAATAAAATTT
12880 TTTTAATAAAATTT
1 TTTTAATAAAATTT
*
12894 TTTTAATTAAATTT
1 TTTTAATAAAATTT
12908 AAATAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 6 0.24
13 4 0.16
14 15 0.60
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTAATAAAATTT
Found at i:12939 original size:27 final size:26
Alignment explanation
Indices: 12883--12940 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
12873 AAAAATTTTT
12883 TAAT-AAAATTTTTTTAATTAAATTTA
1 TAATAAAAATTTTTTTAATT-AATTTA
12909 -AATAAAAATATTTTTTAATT-ATTTAA
1 TAATAAAAAT-TTTTTTAATTAATTT-A
12935 TAATAA
1 TAATAA
12941 TTTAAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
25 7 0.25
26 6 0.21
27 15 0.54
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TAATAAAAATTTTTTTAATTAATTTA
Found at i:13196 original size:21 final size:22
Alignment explanation
Indices: 13160--13201 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13150 TATTTTATTT
13160 AATTTTAAAATATATTTAAAAA
1 AATTTTAAAATATATTTAAAAA
*
13182 AATTTTAATAT-TATTTAAAA
1 AATTTTAAAATATATTTAAAA
13202 TAATGATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTTTAAAATATATTTAAAAA
Found at i:14776 original size:2 final size:2
Alignment explanation
Indices: 14769--14795 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14759 AACCATAAAG
14769 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 A
14796 ATAATTTATC
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16569 original size:20 final size:20
Alignment explanation
Indices: 16558--16603 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
16548 AAATATTATA
16558 AATTT-ATATAAAATTTAAT
1 AATTTAATATAAAATTTAAT
*
16577 AATTTAATATAAATTTTAAT
1 AATTTAATATAAAATTTAAT
16597 ATATTTA
1 A-ATTTA
16604 GATTTGAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 5 0.21
20 14 0.58
21 5 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTTAATATAAAATTTAAT
Found at i:17168 original size:2 final size:2
Alignment explanation
Indices: 17161--17186 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17151 ATCTCACATG
17161 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
17187 CACATTAAAA
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):
TA
Found at i:17666 original size:2 final size:2
Alignment explanation
Indices: 17659--17685 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17649 TCTTGTTAGT
17659 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 T
17686 CTGTTTCTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20141 original size:21 final size:21
Alignment explanation
Indices: 20117--20156 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
20107 TTATTAAAAA
**
20117 AATAAATTTTTTCATTCAACC
1 AATAAATCATTTCATTCAACC
*
20138 AATACATCATTTCATTCAA
1 AATAAATCATTTCATTCAA
20157 ATATACATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (21 bp):
AATAAATCATTTCATTCAACC
Found at i:21013 original size:31 final size:30
Alignment explanation
Indices: 20949--21013 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 30
20939 AATTAGATAA
*
20949 TATTAAATATTAATTTTTAATATTTAAAAT
1 TATTAAATATTAATTTTTAATATGTAAAAT
20979 TATTAAATAATTTAATTTTTTAA-ATGT-AAAT
1 TATTAAAT-A-TTAA-TTTTTAATATGTAAAAT
21010 TATT
1 TATT
21014 TTAAATTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
30 8 0.26
31 9 0.29
32 7 0.23
33 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (30 bp):
TATTAAATATTAATTTTTAATATGTAAAAT
Found at i:21303 original size:18 final size:18
Alignment explanation
Indices: 21247--21307 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
21237 TGATACATTA
21247 ATAT-ATATATATTTATATTT
1 ATATAATAT-TATTT-TA-TT
* **
21267 ATATAATATTAATAAATT
1 ATATAATATTATTTTATT
21285 ATATAATATTATTTTATT
1 ATATAATATTATTTTATT
21303 A-ATAA
1 ATATAA
21308 AATACATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
17 4 0.12
18 18 0.53
19 1 0.03
20 7 0.21
21 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATAATATTATTTTATT
Found at i:22214 original size:14 final size:14
Alignment explanation
Indices: 22195--22238 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
22185 TTTTAAAAAA
22195 TTAAATATATTTAT
1 TTAAATATATTTAT
22209 TTAAATATGTATTTAT
1 TTAAATA--TATTTAT
* *
22225 ATATATATATTTAT
1 TTAAATATATTTAT
22239 CTTTAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 14 0.54
16 12 0.46
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TTAAATATATTTAT
Found at i:23880 original size:2 final size:2
Alignment explanation
Indices: 23873--23915 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
23863 CCCTTTTAAA
*
23873 AT AT AT AT AT AT AT AT AT AT AT AT AT GT 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
23915 A
1 A
23916 GTATTTGCAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:24837 original size:2 final size:2
Alignment explanation
Indices: 24824--24855 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
24814 CCCTTTTTAT
*
24824 TA TA TA TG 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
24856 AGGAGGGTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25317 original size:13 final size:13
Alignment explanation
Indices: 25299--25323 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25289 TATGATGTTA
25299 ATTATGAAATTTT
1 ATTATGAAATTTT
25312 ATTATGAAATTT
1 ATTATGAAATTT
25324 GATTCAAAAG
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:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
ATTATGAAATTTT
Found at i:27275 original size:2 final size:2
Alignment explanation
Indices: 27268--27292 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27258 ATTTCAATCA
27268 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
27293 CCCTATTGGT
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:28804 original size:26 final size:28
Alignment explanation
Indices: 28775--28842 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 28
28765 TAAAATATAA
28775 TATAAATATATAAATATTTTAA-A-ATT
1 TATAAATATATAAATATTTTAATATATT
* *
28801 TATATAATATA-AATTTTTTTAATATATT
1 TATA-AATATATAAATATTTTAATATATT
28829 TAT-AATATAATAAA
1 TATAAATAT-ATAAA
28843 ATATATAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
26 18 0.53
27 8 0.24
28 8 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
TATAAATATATAAATATTTTAATATATT
Found at i:31412 original size:2 final size:2
Alignment explanation
Indices: 31407--31507 Score: 132
Period size: 2 Copynumber: 49.0 Consensus size: 2
31397 ATACACACAA
31407 AT AT AT AT AT 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 AT AT AT AT AT
* * *
31449 AT AT AT AT AT AT CAGT TT TT AT AT AT -T AGT GAA AT AT AT AT AT
1 AT AT AT AT AT AT -A-T AT AT AT AT AT AT A-T -AT AT AT AT AT AT
31492 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
31508 GTCAGTGAAA
Statistics
Matches: 90, Mismatches: 4, Indels: 10
0.87 0.04 0.10
Matches are distributed among these distances:
1 1 0.01
2 85 0.94
3 2 0.02
4 2 0.02
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33617 original size:25 final size:25
Alignment explanation
Indices: 33552--33645 Score: 75
Period size: 25 Copynumber: 3.6 Consensus size: 25
33542 TTTAATTATT
*
33552 AAATTAATAAATT-TAAAATAAATTTA
1 AAATTAA-AAATTATAAAAT-AATATA
*
33578 AATATTATGATAAATTATAAAA-ATATATT
1 AA-ATTA--A-AAATTATAAAATA-ATATA
* *
33607 AATTTAAAAATAATAAAATAATATA
1 AAATTAAAAATTATAAAATAATATA
33632 AAATTAAAAATTAT
1 AAATTAAAAATTAT
33646 TAATTAAATT
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
25 26 0.47
26 4 0.07
27 4 0.07
28 4 0.07
29 12 0.22
30 5 0.09
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (25 bp):
AAATTAAAAATTATAAAATAATATA
Found at i:33692 original size:24 final size:23
Alignment explanation
Indices: 33652--33712 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 23
33642 TTATTAATTA
*
33652 AATTTATAATTTAAATAAAATAT
1 AATTTATAATATAAATAAAATAT
* *
33675 AATTATATAATATGAATATAATA-
1 AATT-TATAATATAAATAAAATAT
**
33698 AAAGTATAATATAAA
1 AATTTATAATATAAA
33713 AATAAACAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
22 10 0.32
23 6 0.19
24 15 0.48
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (23 bp):
AATTTATAATATAAATAAAATAT
Found at i:33717 original size:11 final size:11
Alignment explanation
Indices: 33656--33717 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
33646 TAATTAAATT
*
33656 TATAATTTAAA
1 TATAATATAAA
*
33667 TAAAATATAATTA
1 TATAATATAA--A
*
33680 TATAATATGAA
1 TATAATATAAA
33691 TATAATA-AAA
1 TATAATATAAA
33701 GTATAATATAAA
1 -TATAATATAAA
*
33713 AATAA
1 TATAA
33718 ACAGAATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
10 2 0.05
11 27 0.66
12 3 0.07
13 9 0.22
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
TATAATATAAA
Found at i:37642 original size:16 final size:16
Alignment explanation
Indices: 37621--37652 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
37611 GAACATAATC
37621 ATATTCATATTTGAGT
1 ATATTCATATTTGAGT
37637 ATATTCATATTTGAGT
1 ATATTCATATTTGAGT
37653 GTGTCAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (16 bp):
ATATTCATATTTGAGT
Found at i:38386 original size:16 final size:16
Alignment explanation
Indices: 38373--38440 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
38363 ATTAAAATTA
38373 TATAAATATAAAATAT
1 TATAAATATAAAATAT
* *
38389 TTTAAATAT-AACTAT
1 TATAAATATAAAATAT
*
38404 AATATAATA-AAATATAT
1 TATA-AATATAAA-ATAT
38421 TAT-AATAT-AAATA-
1 TATAAATATAAAATAT
38434 TATAAAT
1 TATAAAT
38441 TATTAATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
13 3 0.07
14 6 0.15
15 13 0.32
16 14 0.34
17 5 0.12
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (16 bp):
TATAAATATAAAATAT
Found at i:38411 original size:5 final size:5
Alignment explanation
Indices: 38393--38438 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
38383 AAATATTTTA
* *
38393 AATAT AACTAT AATAT AATAA AATAT ATTAT AATAT AA-AT -ATAT AA
1 AATAT AA-TAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AA
38439 ATTATTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
3 1 0.03
4 4 0.12
5 24 0.71
6 5 0.15
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:38414 original size:20 final size:20
Alignment explanation
Indices: 38392--38430 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38382 AAAATATTTT
38392 AAATATAACTATAATATAATA
1 AAATAT-ACTATAATATAATA
*
38413 AAATATATTATAATATAA
1 AAATATACTATAATATAA
38431 ATATATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATATACTATAATATAATA
Found at i:38442 original size:20 final size:20
Alignment explanation
Indices: 38401--38443 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
38391 TAAATATAAC
*
38401 TATAATATAATAAAATATAT
1 TATAATATAATAAAATAAAT
*
38421 TATAATATAA-ATATATAAAT
1 TATAATATAATA-AAATAAAT
38441 TAT
1 TAT
38444 TAATTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TATAATATAATAAAATAAAT
Found at i:39563 original size:16 final size:17
Alignment explanation
Indices: 39532--39567 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
39522 AATTGGCTTG
39532 ATAAAATTAAAAAAATT
1 ATAAAATTAAAAAAATT
*
39549 ATAAAA-TATAAAAATT
1 ATAAAATTAAAAAAATT
39565 ATA
1 ATA
39568 TATATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAAATTAAAAAAATT
Found at i:40432 original size:15 final size:15
Alignment explanation
Indices: 40398--40434 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
40388 TATAAAAAAT
40398 AAATATATAATATTA
1 AAATATATAATATTA
*
40413 TAATATA-AATATTA
1 AAATATATAATATTA
40427 AAA-ATATA
1 AAATATATA
40435 TCATCTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
13 3 0.16
14 10 0.53
15 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATATATAATATTA
Found at i:41540 original size:15 final size:15
Alignment explanation
Indices: 41520--41558 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
41510 GTGTAAGTTG
*
41520 ATTTTAAGTTAAATT
1 ATTTTAAATTAAATT
41535 ATTTTAAATTAAATT
1 ATTTTAAATTAAATT
41550 A-TTTAAATT
1 ATTTTAAATT
41559 TTAAAATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
ATTTTAAATTAAATT
Found at i:41601 original size:16 final size:16
Alignment explanation
Indices: 41577--41628 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
41567 TTTGAATTAT
* *
41577 TTTTGAATTTAAATCG
1 TTTTAAATTTAAATCA
* *
41593 TTTTAAATTTGAGTCA
1 TTTTAAATTTAAATCA
41609 TTTTAAA-TTATAATCA
1 TTTTAAATTTA-AATCA
41625 TTTT
1 TTTT
41629 GAGTTTGGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
15 2 0.07
16 27 0.93
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.54
Consensus pattern (16 bp):
TTTTAAATTTAAATCA
Found at i:42834 original size:32 final size:32
Alignment explanation
Indices: 42798--42872 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
42788 TAAAAGAATA
* *
42798 ATATAAATATAGTAAAAAATGTATTAAAATTT
1 ATATAAATATAATAAAAAATATATTAAAATTT
* **
42830 ATAT-AATATTAATTATTAATATATTAAAATTT
1 ATATAAATA-TAATAAAAAATATATTAAAATTT
42862 ATATAAATATA
1 ATATAAATATA
42873 TAATACTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 4 0.11
32 28 0.78
33 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.43
Consensus pattern (32 bp):
ATATAAATATAATAAAAAATATATTAAAATTT
Found at i:42841 original size:17 final size:17
Alignment explanation
Indices: 42819--42867 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
42809 GTAAAAAATG
42819 TATTAAAATTTATATAA
1 TATTAAAATTTATATAA
*
42836 TATT-AATTATTA-AT-A
1 TATTAAAAT-TTATATAA
42851 TATTAAAATTTATATAA
1 TATTAAAATTTATATAA
42868 ATATATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
15 8 0.31
16 10 0.38
17 8 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATTAAAATTTATATAA
Found at i:42882 original size:20 final size:20
Alignment explanation
Indices: 42829--42882 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
42819 TATTAAAATT
* *
42829 TATATAATATTAATTATTAA
1 TATATAATATTTATTATAAA
*
42849 TATATTAAAATTTA-TATAAA
1 TATA-TAATATTTATTATAAA
42869 TATATAATACTTTA
1 TATATAATA-TTTA
42883 AATATAGTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.14
20 17 0.61
21 7 0.25
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TATATAATATTTATTATAAA
Found at i:43806 original size:22 final size:21
Alignment explanation
Indices: 43780--43835 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 21
43770 GACGTCAATA
43780 TTTTATTATATTTAAATAATTT
1 TTTTATTATATTT-AATAATTT
*
43802 TTTTA--ATA-TTATTAATTT
1 TTTTATTATATTTAATAATTT
43820 TTTTATT-TATTATAAT
1 TTTTATTATATT-TAAT
43836 TTAAAAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
18 12 0.43
19 4 0.14
20 4 0.14
21 3 0.11
22 5 0.18
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTATTATATTTAATAATTT
Found at i:43819 original size:18 final size:18
Alignment explanation
Indices: 43795--43837 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
43785 TTATATTTAA
43795 ATAATTTTTTTA-ATATT
1 ATAATTTTTTTATATATT
*
43812 ATTAATTTTTTTATTTATT
1 A-TAATTTTTTTATATATT
43831 ATAATTT
1 ATAATTT
43838 AAAAAATGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 17 0.74
19 5 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATAATTTTTTTATATATT
Found at i:44150 original size:2 final size:2
Alignment explanation
Indices: 44145--44177 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
44135 AAAAAAAATC
44145 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 A
44178 GAATTCACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44274 original size:17 final size:16
Alignment explanation
Indices: 44231--44275 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
44221 TTTTATAATT
*
44231 TTTATATAATAT-ATA
1 TTTATTTAATATGATA
44246 TTTATTTAATATGATA
1 TTTATTTAATATGATA
*
44262 TTATATTTTATATG
1 TT-TATTTAATATG
44276 TTGTTTGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 11 0.42
16 5 0.19
17 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (16 bp):
TTTATTTAATATGATA
Found at i:47012 original size:17 final size:17
Alignment explanation
Indices: 46990--47039 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
46980 ATTAAAAAAT
46990 ATATTAAAATTTATATA
1 ATATTAAAATTTATATA
47007 ATATT--AA-TTAT-TA
1 ATATTAAAATTTATATA
47020 ATATATCAAAATTTATATA
1 ATAT-T-AAAATTTATATA
47039 A
1 A
47040 ATATATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
13 6 0.22
14 5 0.19
15 2 0.07
17 7 0.26
18 4 0.15
19 3 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATTAAAATTTATATA
Found at i:47054 original size:20 final size:20
Alignment explanation
Indices: 47001--47069 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
46991 TATTAAAATT
47001 TATATAATATTAATTAT-T-AA
1 TATATAATATT--TTATATAAA
*
47021 TATATCAA-AATTTATATAAA
1 TATAT-AATATTTTATATAAA
*
47041 TATATAATATTTTAAATATAA
1 TATATAATATTTTATATA-AA
47062 T-TATAATA
1 TATATAATA
47070 CGTAAATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
18 4 0.10
19 3 0.07
20 29 0.71
21 5 0.12
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (20 bp):
TATATAATATTTTATATAAA
Found at i:48350 original size:2 final size:2
Alignment explanation
Indices: 48345--48379 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
48335 AAAAAATTAT
48345 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
48380 CCAAACAGAG
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:48499 original size:29 final size:28
Alignment explanation
Indices: 48449--48505 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
48439 TTTTATACGA
* *
48449 TTTATATTTATTTAATTTAATATTATAT
1 TTTATATTTATTTAATTAAATAGTATAT
48477 TTTATATATTATTT-ATATAAATAGTATAT
1 TTTATAT-TTATTTAAT-TAAATAGTATAT
48506 CTCAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (28 bp):
TTTATATTTATTTAATTAAATAGTATAT
Found at i:56360 original size:24 final size:24
Alignment explanation
Indices: 56328--56374 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
56318 GACCTTAATC
*
56328 TTTATTCTTTTATTTTAAGAAAAT
1 TTTATTCTTTTATTTTAAAAAAAT
56352 TTTATTCTTTTATTTTAAAAAAA
1 TTTATTCTTTTATTTTAAAAAAA
56375 ATCGATACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTATTCTTTTATTTTAAAAAAAT
Found at i:56385 original size:24 final size:24
Alignment explanation
Indices: 56334--56387 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
56324 AATCTTTATT
* * ** *
56334 CTTTTATTTTAAGAAAATTTTATT
1 CTTTTATTTTAAAAAAAATCGATA
56358 CTTTTATTTTAAAAAAAATCGATA
1 CTTTTATTTTAAAAAAAATCGATA
56382 CTTTTA
1 CTTTTA
56388 GTAGAAGATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (24 bp):
CTTTTATTTTAAAAAAAATCGATA
Found at i:57124 original size:19 final size:20
Alignment explanation
Indices: 57087--57124 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
57077 ATGATCTTTT
* *
57087 AAAAATCTTTTAAATATATA
1 AAAAATCTTTAAAAAATATA
57107 AAAAAT-TTTAAAAAATAT
1 AAAAATCTTTAAAAAATAT
57125 CATACTTATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAATCTTTAAAAAATATA
Found at i:60985 original size:60 final size:59
Alignment explanation
Indices: 60890--61007 Score: 182
Period size: 60 Copynumber: 2.0 Consensus size: 59
60880 ATTACCATGC
** *
60890 TACTAATTGTTGACAAAAGTATGCGTTTTTGCTTCACATTTTCTTGAAATTCCCAACTA
1 TACTAATTGTTGACAAAAGTATGCGTTCATACTTCACATTTTCTTGAAATTCCCAACTA
* *
60949 TACTAATTTTATGACAAAAGTATGGGTTCATACTTCACATTTTCTTGAAATTCCCAACT
1 TACTAATTGT-TGACAAAAGTATGCGTTCATACTTCACATTTTCTTGAAATTCCCAACT
61008 TTCAATAGCC
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
59 9 0.17
60 44 0.83
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.40
Consensus pattern (59 bp):
TACTAATTGTTGACAAAAGTATGCGTTCATACTTCACATTTTCTTGAAATTCCCAACTA
Found at i:61755 original size:20 final size:22
Alignment explanation
Indices: 61718--61766 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 22
61708 TTTTAATATA
61718 TTATAATAATATAATTATTTAAT
1 TTATAATAATAT-ATTATTTAAT
*
61741 TTATAA-AATAT-TTATTTTAT
1 TTATAATAATATATTATTTAAT
61761 TT-TAAT
1 TTATAAT
61767 TTTTAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
22 5 0.21
23 6 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATAATAATATATTATTTAAT
Found at i:61831 original size:25 final size:24
Alignment explanation
Indices: 61708--61847 Score: 84
Period size: 25 Copynumber: 5.2 Consensus size: 24
61698 TATTTTATTT
*
61708 TTTTAATATATTATAATAATATAATTA
1 TTTTAAT-T-TTAAAATAA-ATAATTA
** *
61735 -TTTAATTTATAAAATATTTATTTTA
1 TTTTAATTT-TAAAATAAATA-ATTA
61760 TTTTAATTTTTAAAAATTTTAAATAATTA
1 TTTTAA-TTTT-AAAA---TAAATAATTA
**
61789 TTTTATATTTTTTAATAAATAATTA
1 TTTTA-ATTTTAAAATAAATAATTA
61814 TTTTAATTTTAAACATAATATAAAATTA
1 TTTTAATTTTAAA-ATAA-AT--AATTA
61842 TTTTAA
1 TTTTAA
61848 AATTTTATTT
Statistics
Matches: 89, Mismatches: 11, Indels: 25
0.71 0.09 0.20
Matches are distributed among these distances:
24 9 0.10
25 29 0.33
26 14 0.16
27 7 0.08
28 13 0.15
29 12 0.13
30 5 0.06
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTAATTTTAAAATAAATAATTA
Found at i:61899 original size:21 final size:21
Alignment explanation
Indices: 61848--61905 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
61838 ATTATTTTAA
61848 AATTTTATTTTATT-T-TTAT
1 AATTTTATTTTATTCTATTAT
**
61867 AA-AATA-TTTATTCTATTAT
1 AATTTTATTTTATTCTATTAT
*
61886 AATTTTATTTTATTCCATTA
1 AATTTTATTTTATTCTATTA
61906 AACTAAGCGT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 6 0.20
18 3 0.10
19 8 0.27
20 2 0.07
21 11 0.37
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTTTATTTTATTCTATTAT
Found at i:62200 original size:17 final size:17
Alignment explanation
Indices: 62178--62212 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
62168 TTTATATTTA
62178 ATTTAATTTAAT-TTATT
1 ATTTAA-TTAATATTATT
62195 ATTTAATTAATATTATT
1 ATTTAATTAATATTATT
62212 A
1 A
62213 ATTATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTAATTAATATTATT
Found at i:62204 original size:21 final size:22
Alignment explanation
Indices: 62166--62218 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
62156 AAAATAAAAA
62166 TATTTA-TATTTAATTTAAT-T
1 TATTTATTATTTAATTTAATAT
62186 TAATTTATTATTTAA-TTAATAT
1 T-ATTTATTATTTAATTTAATAT
*
62208 TATTAATTATT
1 TATTTATTATT
62219 ATTAAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.03
21 19 0.66
22 9 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTATTATTTAATTTAATAT
Found at i:62215 original size:13 final size:14
Alignment explanation
Indices: 62183--62222 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
62173 ATTTAATTTA
62183 ATTTAATT--TATT
1 ATTTAATTAATATT
62195 ATTTAATTAATATT
1 ATTTAATTAATATT
*
62209 A-TTAATTATTATT
1 ATTTAATTAATATT
62222 A
1 A
62223 AAATATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
ATTTAATTAATATT
Found at i:62227 original size:21 final size:24
Alignment explanation
Indices: 62185--62228 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
62175 TTAATTTAAT
62185 TTAATTTATTATTTAATTAATATTA
1 TTAATTTATTATTTAA-TAATATTA
62210 TTAA-TTATTA-TTAA-AATAT
1 TTAATTTATTATTTAATAATAT
62229 ATAATAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.26
23 4 0.21
24 6 0.32
25 4 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTAATTTATTATTTAATAATATTA
Found at i:62259 original size:17 final size:18
Alignment explanation
Indices: 62234--62276 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
62224 AATATATAAT
*
62234 AATATTTAAATAAA-ATA
1 AATAATTAAATAAATATA
*
62251 AATAATTAAATAAATCTA
1 AATAATTAAATAAATATA
62269 AATAATTA
1 AATAATTA
62277 TTTACTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AATAATTAAATAAATATA
Found at i:63711 original size:11 final size:10
Alignment explanation
Indices: 63673--63782 Score: 62
Period size: 10 Copynumber: 10.2 Consensus size: 10
63663 TATAGAGCAT
63673 AATATAATATAA
1 AATAT-ATAT-A
*
63685 AATTATAATATG
1 AA-TAT-ATATA
63697 AATATGATATA
1 AATAT-ATATA
63708 AATATAT-TAA
1 AATATATAT-A
*
63718 AATTTATATA
1 AATATATATA
* *
63728 ATATAAATTATT
1 A-ATATA-TATA
*
63740 AATTTATATA
1 AATATATATA
63750 AA-ATTATATA
1 AATA-TATATA
*
63760 AAAATATATA
1 AATATATATA
63770 AATATGATATA
1 AATAT-ATATA
63781 AA
1 AA
63783 AAATTATATA
Statistics
Matches: 78, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
9 1 0.01
10 34 0.44
11 27 0.35
12 8 0.10
13 8 0.10
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (10 bp):
AATATATATA
Found at i:63746 original size:22 final size:22
Alignment explanation
Indices: 63674--63750 Score: 75
Period size: 24 Copynumber: 3.3 Consensus size: 22
63664 ATAGAGCATA
*
63674 ATATAATATAAAATTA-TAATATGA
1 ATATAATAT-AAATTATTAAT-T-T
*
63698 ATATGATATAAATATATTAAAATTT
1 ATATAATATAAAT-TATT--AATTT
63723 ATATAATATAAATTATTAATTT
1 ATATAATATAAATTATTAATTT
63745 ATATAA
1 ATATAA
63751 AATTATATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
22 11 0.24
23 4 0.09
24 14 0.30
25 13 0.28
26 1 0.02
27 3 0.07
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.43
Consensus pattern (22 bp):
ATATAATATAAATTATTAATTT
Found at i:63790 original size:10 final size:11
Alignment explanation
Indices: 63743--63797 Score: 60
Period size: 10 Copynumber: 5.0 Consensus size: 11
63733 AATTATTAAT
63743 TTATAT-AAAA
1 TTATATAAAAA
63753 TTATATAAAAA
1 TTATATAAAAA
*
63764 -TATATAAATA
1 TTATATAAAAA
*
63774 TGATATAAAAAA
1 TTATAT-AAAAA
63786 TTATATATAAAA
1 TTATATA-AAAA
63798 ATAAACTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
10 15 0.41
11 9 0.24
12 13 0.35
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (11 bp):
TTATATAAAAA
Found at i:63790 original size:21 final size:20
Alignment explanation
Indices: 63744--63784 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
63734 ATTATTAATT
*
63744 TATATAAAATTATATAAAAA
1 TATATAAAATGATATAAAAA
63764 TATATAAATATGATATAAAAA
1 TATATAAA-ATGATATAAAAA
63785 ATTATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
TATATAAAATGATATAAAAA
Found at i:64358 original size:20 final size:20
Alignment explanation
Indices: 64325--64373 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
64315 ATAAAAATAA
* *
64325 AAATAAAATTAAATATGTTT
1 AAATATAATAAAATATGTTT
*
64345 AAATATAATAAAATATTTTT
1 AAATATAATAAAATATGTTT
*
64365 TAATATAAT
1 AAATATAAT
64374 TATATTTATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
AAATATAATAAAATATGTTT
Found at i:64474 original size:16 final size:17
Alignment explanation
Indices: 64453--64488 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
64443 AATTATATCG
64453 ATTTTTT-AAAGTTTAA
1 ATTTTTTAAAAGTTTAA
*
64469 ATTTTTTAAAATTTTAA
1 ATTTTTTAAAAGTTTAA
64486 ATT
1 ATT
64489 ACTTATTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
ATTTTTTAAAAGTTTAA
Found at i:65305 original size:42 final size:43
Alignment explanation
Indices: 65258--65339 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 43
65248 CAATACTGAG
* *
65258 TTGAACTCGTATTTTGTCT-GTAAATTATTTTAATAGATTGAT
1 TTGAACTCGTATTTTATCTCGCAAATTATTTTAATAGATTGAT
*
65300 TTGAACTCGTATTTTATCTCGCATATTATTTTAATAGATT
1 TTGAACTCGTATTTTATCTCGCAAATTATTTTAATAGATT
65340 AGTATCGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 18 0.50
43 18 0.50
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (43 bp):
TTGAACTCGTATTTTATCTCGCAAATTATTTTAATAGATTGAT
Found at i:65550 original size:28 final size:27
Alignment explanation
Indices: 65491--65550 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
65481 AATTATAAAT
*
65491 ATTAATATAAAATAAATTTTAATATTT
1 ATTAATATAAAATAAATTTTAATATTA
*
65518 TTTAATAATAAAATAAATTTTTAA-ATTA
1 ATTAAT-ATAAAATAAA-TTTTAATATTA
65546 ATTAA
1 ATTAA
65551 AGCTTGACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 5 0.18
28 17 0.61
29 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
ATTAATATAAAATAAATTTTAATATTA
Found at i:67158 original size:19 final size:20
Alignment explanation
Indices: 67109--67158 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 20
67099 ATTTATAAGT
*
67109 TAAATATTTAAATTTATCAAT
1 TAAA-ATTTAAATTTATCAAA
67130 TACAAA--TAAATTT-TCAAA
1 TA-AAATTTAAATTTATCAAA
67148 TAAAATTTAAA
1 TAAAATTTAAA
67159 ATATAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
17 3 0.12
18 6 0.24
19 11 0.44
21 3 0.12
22 2 0.08
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAAATTTAAATTTATCAAA
Found at i:68372 original size:24 final size:24
Alignment explanation
Indices: 68345--68413 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
68335 ATTATATTTA
68345 TTATGATTATAAATATAATAAAT-T
1 TTAT-ATTATAAATATAATAAATAT
* * *
68369 TTATACTATTAATTATGATAAATAT
1 TTATATTA-TAAATATAATAAATAT
68394 TTA-ATTATAAATATTAATAA
1 TTATATTATAAATA-TAATAA
68414 TAAAAAAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
23 8 0.22
24 24 0.67
25 4 0.11
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (24 bp):
TTATATTATAAATATAATAAATAT
Found at i:68887 original size:104 final size:104
Alignment explanation
Indices: 68707--68917 Score: 377
Period size: 104 Copynumber: 2.0 Consensus size: 104
68697 ACCTTTTTTT
*
68707 TTTCTTTCTTGTCTGCAAAAATGGCTTCCTTGGTCATTGATGATCAGGAAGATGAGTACCGTTCT
1 TTTCTTTCTTGTCTGCAAAAATGGCTTCCTCGGTCATTGATGATCAGGAAGATGAGTACCGTTCT
*
68772 TACTTACATGGAGAGGGTGAAAAGAACACCAAGTGTAAG
66 TACTTACATGGAGAGGGTGAAAAGAACACCAAGTGGAAG
* * *
68811 TTTCTTTCTTTTCTGCAAAAATGGCTTCCTCGGTCGTTGATGTTCAGGAAGATGAGTACCGTTCT
1 TTTCTTTCTTGTCTGCAAAAATGGCTTCCTCGGTCATTGATGATCAGGAAGATGAGTACCGTTCT
68876 TACTTACATGGAGAGGGTGAAAAGAACACCAAGTGGAAG
66 TACTTACATGGAGAGGGTGAAAAGAACACCAAGTGGAAG
68915 TTT
1 TTT
68918 GGTGCTCCCC
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
104 102 1.00
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (104 bp):
TTTCTTTCTTGTCTGCAAAAATGGCTTCCTCGGTCATTGATGATCAGGAAGATGAGTACCGTTCT
TACTTACATGGAGAGGGTGAAAAGAACACCAAGTGGAAG
Found at i:69666 original size:22 final size:22
Alignment explanation
Indices: 69641--69705 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
69631 TAGCAAATAT
*
69641 TTAATTTTCGCGGGAAAATCAG
1 TTAATTTTCTCGGGAAAATCAG
69663 TTAATTTTCTCGGGAAAATCAG
1 TTAATTTTCTCGGGAAAATCAG
*
69685 TTAATTTTCTCGGGAATATCA
1 TTAATTTTCTCGGGAAAATCA
69706 CAAACAACCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (22 bp):
TTAATTTTCTCGGGAAAATCAG
Found at i:73188 original size:6 final size:6
Alignment explanation
Indices: 73177--73222 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
73167 CATTACGCAC
* * * *
73177 ATACAT ATACAT ATACGT ATACAC ATACAC ATACAC ATACAT ATAC
1 ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATACAT ATAC
73223 GTGTGCGTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (6 bp):
ATACAT
Found at i:73197 original size:12 final size:12
Alignment explanation
Indices: 73174--73222 Score: 71
Period size: 12 Copynumber: 4.1 Consensus size: 12
73164 ATACATTACG
73174 CACATACATATA
1 CACATACATATA
* *
73186 CATATACGTATA
1 CACATACATATA
*
73198 CACATACACATA
1 CACATACATATA
73210 CACATACATATA
1 CACATACATATA
73222 C
1 C
73223 GTGTGCGTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (12 bp):
CACATACATATA
Found at i:73231 original size:6 final size:6
Alignment explanation
Indices: 73222--73262 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
73212 CATACATATA
73222 CGTGTG CGTGTG CGTGTG CGTGTG CGTGTG CGTGTG CGTGT
1 CGTGTG CGTGTG CGTGTG CGTGTG CGTGTG CGTGTG CGTGT
73263 ATTATGTGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.00, C:0.17, G:0.49, T:0.34
Consensus pattern (6 bp):
CGTGTG
Found at i:74543 original size:59 final size:59
Alignment explanation
Indices: 74448--74617 Score: 252
Period size: 59 Copynumber: 2.9 Consensus size: 59
74438 CAAAAGATAA
*
74448 GGGAGTTCTTCATTGCCATAAGGCATAATTATAAGCATAGAAATTGCAATTAATAAGTG
1 GGGAGTTCTTCATTGCCATAAGGCATAATTATAAGCATAGAAATTGCAATTAATAAGCG
*
74507 GGGAGTTCTTCATTGCCATAAGGCATAATTAGAAGCATAGAAATTGCAATTAATAAGCG
1 GGGAGTTCTTCATTGCCATAAGGCATAATTATAAGCATAGAAATTGCAATTAATAAGCG
* ** * * * *
74566 GGGAGTACTTCAGGGCCTTAAGGCATCATTATAAACGTAG-AATTGCAATTAA
1 GGGAGTTCTTCATTGCCATAAGGCATAATTATAAGCATAGAAATTGCAATTAA
74618 CCAAAAAGAA
Statistics
Matches: 101, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
58 12 0.12
59 89 0.88
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (59 bp):
GGGAGTTCTTCATTGCCATAAGGCATAATTATAAGCATAGAAATTGCAATTAATAAGCG
Found at i:77079 original size:2 final size:2
Alignment explanation
Indices: 77072--77104 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
77062 GGTTATATTC
77072 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 A
77105 ATAATTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:85857 original size:3 final size:3
Alignment explanation
Indices: 85849--85873 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
85839 TTAAGTCACC
85849 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
85874 GGTCTGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:87615 original size:22 final size:22
Alignment explanation
Indices: 87587--87629 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
87577 GATGTAAGTG
87587 CCAGATATGAGTTTATATCAAT
1 CCAGATATGAGTTTATATCAAT
87609 CCAGATATGAGTTTATATCAA
1 CCAGATATGAGTTTATATCAA
87630 CCGTATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (22 bp):
CCAGATATGAGTTTATATCAAT
Found at i:87730 original size:84 final size:84
Alignment explanation
Indices: 87610--87843 Score: 459
Period size: 84 Copynumber: 2.8 Consensus size: 84
87600 TATATCAATC
87610 CAGATATGAGTTTATATCAACCGTATGTTTTATTTTTTTAAAAATTTTTTTATGTATTTAGAAAG
1 CAGATATGAGTTTATATCAACCGTATGTTTTATTTTTTTAAAAATTTTTTTATGTATTTAGAAAG
87675 TTGAACTTGATGTAAGTGT
66 TTGAACTTGATGTAAGTGT
87694 CAGATATGAGTTTATATCAACCGTATGTTTTATTTTTTTAAAAATTTTTTTATGTATTTAGAAAG
1 CAGATATGAGTTTATATCAACCGTATGTTTTATTTTTTTAAAAATTTTTTTATGTATTTAGAAAG
87759 TTGAACTTGATGTAAGTGT
66 TTGAACTTGATGTAAGTGT
*
87778 CAGATATGAGTTTATATCAACCGTATATTTTATTTTTTTAAAAATTTTTTTATGTATTTAGAAAG
1 CAGATATGAGTTTATATCAACCGTATGTTTTATTTTTTTAAAAATTTTTTTATGTATTTAGAAAG
87843 T
66 T
87844 ACATGAATGG
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 149 1.00
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (84 bp):
CAGATATGAGTTTATATCAACCGTATGTTTTATTTTTTTAAAAATTTTTTTATGTATTTAGAAAG
TTGAACTTGATGTAAGTGT
Found at i:94972 original size:24 final size:24
Alignment explanation
Indices: 94944--94990 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
94934 TGAAAAAAAA
*
94944 AATTATAACAAGAAAGTAAATGTC
1 AATTATAACAAAAAAGTAAATGTC
*
94968 AATTATAACAAAAAAGTATATGT
1 AATTATAACAAAAAAGTAAATGT
94991 AGAAATAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.55, C:0.06, G:0.11, T:0.28
Consensus pattern (24 bp):
AATTATAACAAAAAAGTAAATGTC
Found at i:95411 original size:19 final size:20
Alignment explanation
Indices: 95387--95425 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
95377 TTCTTAAAAT
95387 GAAAAAAAAA-TCAAATTAA
1 GAAAAAAAAAGTCAAATTAA
*
95406 GAAAAAAAAAGTTAAATTAA
1 GAAAAAAAAAGTCAAATTAA
95426 ATAAGATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.18
Consensus pattern (20 bp):
GAAAAAAAAAGTCAAATTAA
Found at i:95413 original size:20 final size:20
Alignment explanation
Indices: 95388--95425 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
95378 TCTTAAAATG
95388 AAAAAAAAATCAAATTAAGA
1 AAAAAAAAATCAAATTAAGA
* *
95408 AAAAAAAAGTTAAATTAA
1 AAAAAAAAATCAAATTAA
95426 ATAAGATGAT
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:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (20 bp):
AAAAAAAAATCAAATTAAGA
Found at i:95765 original size:3 final size:3
Alignment explanation
Indices: 95757--95822 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
95747 AAACTTATAA
95757 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
95805 ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT
95823 TTGCAACACA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:96438 original size:26 final size:26
Alignment explanation
Indices: 96409--96465 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
96399 TTTTTACATG
96409 AAAAAACTATC-CA-TTTTTTATTTGAA
1 AAAAAACT-TCACACTTTTTTA-TTGAA
*
96435 AAAAAACTTCATACTTTTTTATTGAA
1 AAAAAACTTCACACTTTTTTATTGAA
96461 AAAAA
1 AAAAA
96466 TTTGTACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 2 0.07
26 19 0.68
27 7 0.25
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.39
Consensus pattern (26 bp):
AAAAAACTTCACACTTTTTTATTGAA
Found at i:96473 original size:24 final size:25
Alignment explanation
Indices: 96422--96488 Score: 82
Period size: 24 Copynumber: 2.6 Consensus size: 25
96412 AAACTATCCA
96422 TTTTTTATTTGAAAAAAAACTTCATAC
1 TTTTTTA-TTG-AAAAAAACTTCATAC
**
96449 TTTTTTATTGAAAAAAA-TTTGTAC
1 TTTTTTATTGAAAAAAACTTCATAC
*
96473 TTTTTTATTTAAAAAA
1 TTTTTTATTGAAAAAA
96489 TTATTAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 20 0.54
25 7 0.19
26 3 0.08
27 7 0.19
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.49
Consensus pattern (25 bp):
TTTTTTATTGAAAAAAACTTCATAC
Found at i:96502 original size:26 final size:24
Alignment explanation
Indices: 96422--96502 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 24
96412 AAACTATCCA
*
96422 TTTTTTATTTGAAAAAAAACTTCATAC
1 TTTTTTATTT--AAAAAAA-TTAATAC
* **
96449 TTTTTTATTGAAAAAAATTTGTAC
1 TTTTTTATTTAAAAAAATTAATAC
96473 TTTTTTATTTAAAAAATTATTAATA-
1 TTTTTTATTTAAAAAA--ATTAATAC
96498 TTTTT
1 TTTTT
96503 AAATTATAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
24 20 0.43
25 12 0.26
26 5 0.11
27 9 0.20
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (24 bp):
TTTTTTATTTAAAAAAATTAATAC
Found at i:98684 original size:21 final size:20
Alignment explanation
Indices: 98658--98701 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
98648 ATGATAAATT
*
98658 TTTTAAAATTTTTTGGTTTAA
1 TTTT-AAATTTTTTAGTTTAA
* *
98679 TTTTAATTTTTTTAGTTTTA
1 TTTTAAATTTTTTAGTTTAA
98699 TTT
1 TTT
98702 AATAGCTTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (20 bp):
TTTTAAATTTTTTAGTTTAA
Found at i:99224 original size:18 final size:18
Alignment explanation
Indices: 99201--99248 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
99191 GTAAATAATT
*
99201 AATAAAATTATGTGTTTA
1 AATAAAATTATATGTTTA
* *
99219 AATAAATAATATATTTTTA
1 AATAAA-ATTATATGTTTA
99238 ATATAAAATTA
1 A-ATAAAATTA
99249 ATACATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 6 0.25
19 13 0.54
20 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (18 bp):
AATAAAATTATATGTTTA
Found at i:101096 original size:22 final size:22
Alignment explanation
Indices: 101057--101099 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
101047 ATTCGATATT
* * *
101057 TATATTTAATAATTTATTTAAA
1 TATATATAAAAATATATTTAAA
101079 TATATATAAAAATATATTTAA
1 TATATATAAAAATATATTTAA
101100 TATTTTCAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TATATATAAAAATATATTTAAA
Found at i:101855 original size:8 final size:8
Alignment explanation
Indices: 101842--101876 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
101832 ATGCTTGGTC
101842 ATACATAT
1 ATACATAT
101850 ATACATAT
1 ATACATAT
*
101858 ATATATAT
1 ATACATAT
*
101866 ATATATAT
1 ATACATAT
101874 ATA
1 ATA
101877 ATGTCACAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (8 bp):
ATACATAT
Found at i:101859 original size:2 final size:2
Alignment explanation
Indices: 101846--101876 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
101836 TTGGTCATAC
*
101846 AT AT AT AC 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 A
101877 ATGTCACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:101920 original size:13 final size:14
Alignment explanation
Indices: 101889--101919 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
101879 GTCACAATTT
101889 TTTTAAAAAATAAA
1 TTTTAAAAAATAAA
101903 TTTTAAAAAATAAA
1 TTTTAAAAAATAAA
101917 TTT
1 TTT
101920 ATTTGATATT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTTAAAAAATAAA
Found at i:106078 original size:3 final size:3
Alignment explanation
Indices: 106070--106095 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
106060 TAATTTATAT
106070 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
106096 TATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:106100 original size:3 final size:3
Alignment explanation
Indices: 106094--106133 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
106084 AATAATAATA
106094 ATT ATT ATT ATT ATT A-T ATAT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT A
106134 AGGAGAGAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:106804 original size:15 final size:15
Alignment explanation
Indices: 106786--106815 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
106776 AAAATAACCA
106786 TTTAATATATAATTT
1 TTTAATATATAATTT
106801 TTTAATATATAATTT
1 TTTAATATATAATTT
106816 AAATATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTAATATATAATTT
Found at i:109552 original size:23 final size:22
Alignment explanation
Indices: 109526--109597 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 22
109516 AATTCATAGA
109526 TTTATATTCTATTTATATTATTT
1 TTTATATT-TATTTATATTATTT
109549 TTTATATTTTAATTTATA-TATTTAT
1 TTTATA-TTT-ATTTATATTA-TT-T
109574 TTTATATTTATATTA-ATT-TTT
1 TTTATATTTAT-TTATATTATTT
109595 TTT
1 TTT
109598 CAAAATTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
21 4 0.09
22 2 0.05
23 12 0.28
24 18 0.42
25 7 0.16
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTATATTTATTTATATTATTT
Found at i:109564 original size:12 final size:11
Alignment explanation
Indices: 109525--109587 Score: 63
Period size: 12 Copynumber: 5.3 Consensus size: 11
109515 CAATTCATAG
*
109525 ATTTATATTCT
1 ATTTATATTTT
109536 ATTTATATTATT
1 ATTTATATT-TT
*
109548 TTTTATATTTT
1 ATTTATATTTT
109559 AATTTATATATTT
1 -ATTTATAT-TTT
109572 ATTTTATATTTAT
1 A-TTTATATTT-T
109585 ATT
1 ATT
109588 AATTTTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
11 11 0.25
12 21 0.48
13 12 0.27
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTTATATTTT
Found at i:109595 original size:19 final size:19
Alignment explanation
Indices: 109535--109595 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 19
109525 ATTTATATTC
109535 TATTTATATT-ATTTTTTA
1 TATTTATATTAATTTTTTA
*
109553 TATTTTAATTTATATATTTATTTTA
1 TA-TTT-A--TAT-TAATT-TTTTA
109578 TATTTATATTAATTTTTT
1 TATTTATATTAATTTTTT
109596 TTCAAAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 13
0.69 0.04 0.27
Matches are distributed among these distances:
18 2 0.06
19 7 0.21
20 5 0.15
21 3 0.09
22 3 0.09
23 2 0.06
24 5 0.15
25 7 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TATTTATATTAATTTTTTA
Found at i:109977 original size:8 final size:8
Alignment explanation
Indices: 109964--110020 Score: 59
Period size: 8 Copynumber: 7.5 Consensus size: 8
109954 ATATTTGTAT
109964 TATATTTA
1 TATATTTA
109972 TATATTTA
1 TATATTTA
109980 TATATATTA
1 TATAT-TTA
109989 TA-A-TTA
1 TATATTTA
*
109995 TAT-TTAA
1 TATATTTA
*
110002 AAT-TTTA
1 TATATTTA
110009 TATATTTA
1 TATATTTA
110017 TATA
1 TATA
110021 AATTTTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
6 5 0.12
7 9 0.22
8 22 0.54
9 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TATATTTA
Found at i:110047 original size:20 final size:21
Alignment explanation
Indices: 109999--110048 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
109989 TAATTATATT
* *
109999 TAAAATTT-TATATATTTATA
1 TAAAATTTAAATATATTTAAA
*
110019 TAAATTTTAAATATA-TTAAA
1 TAAAATTTAAATATATTTAAA
110039 TAAAATTTAA
1 TAAAATTTAA
110049 TACATATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TAAAATTTAAATATATTTAAA
Found at i:110092 original size:24 final size:24
Alignment explanation
Indices: 110065--110140 Score: 82
Period size: 24 Copynumber: 3.0 Consensus size: 24
110055 TATATTTATA
110065 TAATATTTATATTATATTAAATTT
1 TAATATTTATATTATATTAAATTT
110089 TAATTATTTTTATATTATATTAATATTT
1 TAA-TA--TTTATATTATATTAA-ATTT
* *
110117 T-ATACTTATATTACATTTAAATTT
1 TAATATTTATATTATA-TTAAATTT
110141 AACAAATTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
24 16 0.36
25 6 0.13
26 2 0.04
27 16 0.36
28 5 0.11
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (24 bp):
TAATATTTATATTATATTAAATTT
Found at i:110103 original size:46 final size:45
Alignment explanation
Indices: 109949--110136 Score: 127
Period size: 46 Copynumber: 4.1 Consensus size: 45
109939 AATTGAAAAA
* * * *
109949 TTAATATATTTGTATTATATTTATATATTTATATATATTATAATTATAT
1 TTAAT-TATTTTTA-TATATTTATATA-ATATTTATATTAT-ATTAAAT
* *
109998 TTAA--AATTTTATATATTTATATAA-ATTT-TAAATATATTAAAT
1 TTAATTATTTTTATATATTTATATAATATTTAT-ATTATATTAAAT
** ***
110040 AAAATTTAATACATATATATTTATATAATATTTATATTATATTAAATT
1 TTAA-TT-ATTTTTATATATTTATATAATATTTATATTATATTAAA-T
* *
110088 TTAATTATTTTTATAT-TATAT-TAATATTTTATACTTATATTACAT
1 TTAATTATTTTTATATATTTATATAATA-TTTATA-TTATATTAAAT
110133 TTAA
1 TTAA
110137 ATTTAACAAA
Statistics
Matches: 109, Mismatches: 20, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
42 9 0.08
43 7 0.06
44 5 0.05
45 27 0.25
46 37 0.34
47 16 0.15
48 4 0.04
49 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.55
Consensus pattern (45 bp):
TTAATTATTTTTATATATTTATATAATATTTATATTATATTAAAT
Found at i:110115 original size:19 final size:20
Alignment explanation
Indices: 110088--110129 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
110078 ATATTAAATT
110088 TTAATTATTTTTATA-TTATA
1 TTAATTA-TTTTATACTTATA
110108 TTAA-TATTTTATACTTATA
1 TTAATTATTTTATACTTATA
110127 TTA
1 TTA
110130 CATTTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.33
19 10 0.48
20 4 0.19
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTAATTATTTTATACTTATA
Found at i:110407 original size:9 final size:9
Alignment explanation
Indices: 110390--110425 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
110380 AGTACTAAAT
110390 ATATATTAA
1 ATATATTAA
*
110399 ATGTATTAA
1 ATATATTAA
110408 ATATATTTAA
1 ATATA-TTAA
110418 ATATATTA
1 ATATATTA
110426 TATTTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (9 bp):
ATATATTAA
Found at i:110419 original size:10 final size:10
Alignment explanation
Indices: 110385--110424 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
110375 ATATGAGTAC
110385 TAAATATATAT
1 TAAATATAT-T
*
110396 TAAATGTA-T
1 TAAATATATT
110405 TAAATATATT
1 TAAATATATT
110415 TAAATATATT
1 TAAATATATT
110425 ATATTTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 8 0.31
10 11 0.42
11 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (10 bp):
TAAATATATT
Found at i:110471 original size:31 final size:31
Alignment explanation
Indices: 110414--110476 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
110404 TTAAATATAT
* * *
110414 TTAAATATATTATATTTTATTTATATTTTTA
1 TTAAATATAGTATATTTTATTCATATTATTA
110445 TTAAATATAGTATA-TTTATATCATATTATTA
1 TTAAATATAGTATATTTTAT-TCATATTATTA
110476 T
1 T
110477 CTCATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 5 0.18
31 23 0.82
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (31 bp):
TTAAATATAGTATATTTTATTCATATTATTA
Found at i:110686 original size:16 final size:17
Alignment explanation
Indices: 110665--110698 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
110655 AAAGTTAGAA
*
110665 TAAAAA-ATTTTTTATT
1 TAAAAATATTTTTAATT
110681 TAAAAATATTTTTAATT
1 TAAAAATATTTTTAATT
110698 T
1 T
110699 GGGTGTAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAAAAATATTTTTAATT
Found at i:116258 original size:2 final size:2
Alignment explanation
Indices: 116251--116275 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
116241 TGAAATATTG
116251 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 T
116276 GAACAAAGGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:117983 original size:16 final size:16
Alignment explanation
Indices: 117964--118003 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
117954 CGAGTTTAAA
117964 TCATTTCAGATTCAGG
1 TCATTTCAGATTCAGG
* *
117980 TCATTTCAGTTTCGGG
1 TCATTTCAGATTCAGG
117996 TCATTTCA
1 TCATTTCA
118004 AATTTGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.42
Consensus pattern (16 bp):
TCATTTCAGATTCAGG
Found at i:118035 original size:16 final size:16
Alignment explanation
Indices: 118006--118041 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
117996 TCATTTCAAA
*
118006 TTTGGGTTGTTTCGGT
1 TTTGGGTTGTTTCGGG
118022 TTTGGGTTGTTTCGGG
1 TTTGGGTTGTTTCGGG
118038 TTTG
1 TTTG
118042 AATCAATCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.06, G:0.39, T:0.56
Consensus pattern (16 bp):
TTTGGGTTGTTTCGGG
Found at i:121461 original size:38 final size:38
Alignment explanation
Indices: 121408--121483 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
121398 TCAAATCAAA
*
121408 AATGTTGAAAGACATAATCTTAAGTTATTGTCATTAAT
1 AATGTTGAAAGACATAAACTTAAGTTATTGTCATTAAT
121446 AATGTTG-AAGCACATAAACTTAAGTTATTGTCATTAAT
1 AATGTTGAAAG-ACATAAACTTAAGTTATTGTCATTAAT
121484 TTCATTCTCC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 3 0.08
38 33 0.92
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (38 bp):
AATGTTGAAAGACATAAACTTAAGTTATTGTCATTAAT
Found at i:122877 original size:2 final size:2
Alignment explanation
Indices: 122870--122897 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
122860 GGTTTAAAAG
122870 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
122898 GTCTATGTAT
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:126976 original size:2 final size:2
Alignment explanation
Indices: 126964--127008 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
126954 AATAAAATGC
*
126964 TA TA CA 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
127006 TA T
1 TA T
127009 GCTTGGTGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:131247 original size:68 final size:66
Alignment explanation
Indices: 131134--131354 Score: 239
Period size: 68 Copynumber: 3.3 Consensus size: 66
131124 AAGTGGGAGA
* * *
131134 ATTGTTGATTAAATGGTGATTTGATAGTTTACCATTATT-ATTTAAATGGGTGATTTGGTGGTTT
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGA-TTAAATGGGTGATTTGGTGG-TT
131198 GTC
64 GTC
* * * ** *
131201 ATTGTTGACTAAATGAGAGATTTGGTAGCTTACCATTGTTGATTAAATGAGAAATTTGGTAGCTT
1 ATTGTTGATTAAATG-GTGATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGT-GGTT
**
131266 ACC
64 GTC
* * *
131269 ATTATTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAAT-GGTAGATTTGGTAGGT
1 ATTGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGT-GATTTGGT-GGT
131333 TGTC
63 TGTC
131337 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
131355 GTTTTTACCA
Statistics
Matches: 126, Mismatches: 23, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
67 19 0.15
68 104 0.83
69 3 0.02
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.42
Consensus pattern (66 bp):
ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTGT
C
Found at i:131281 original size:102 final size:101
Alignment explanation
Indices: 131134--131352 Score: 307
Period size: 102 Copynumber: 2.2 Consensus size: 101
131124 AAGTGGGAGA
** * * *
131134 ATTGTTGATTAAATGGTGATTTGATAGTTTACCATTATTATTTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGAAATTTGATAGCTTACCATTATTATTTAAATGGGTGATTTGGTGGCTTA
*
131199 TCATTGTTGACTAAATGAG-AGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATG-GTAGATTTGGTAGCTTACC
*
131235 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGA-TTAAATGGGTGATTTGGTGGCT
1 ATTGTTGATTAAATG-GAAATTTGATAGCTTACCATTATT-ATTTAAATGGGTGATTTGGTGGCT
* **
131299 TACCATTGTTGACTAAATGGTAGATTTGGTAGGTTGTC
64 TACCATTGTTGACTAAATGGTAGATTTGGTAGCTTACC
131337 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
131353 TGGTTTTTAC
Statistics
Matches: 105, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
101 17 0.16
102 87 0.83
103 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.42
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAAATTTGATAGCTTACCATTATTATTTAAATGGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGTAGATTTGGTAGCTTACC
Found at i:131353 original size:34 final size:33
Alignment explanation
Indices: 131134--131354 Score: 214
Period size: 34 Copynumber: 6.5 Consensus size: 33
131124 AAGTGGGAGA
* *
131134 ATTGTTGATTAAATGGTGATTTGATAGTTTACC
1 ATTGTTGATTAAATGGTGATTTGGTAGGTTACC
* **
131167 ATTATT-ATTTAAATGGGTGATTTGGT-GGTTTGTC
1 ATTGTTGA-TTAAAT-GGTGATTTGGTAGG-TTACC
* * *
131201 ATTGTTGACTAAATGAGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATG-GTGATTTGGTAGGTTACC
** *
131235 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATG-GTGATTTGGTAGGTTACC
*
131269 ATTATTGATTAAATGGGTGATTTGGT-GGCTTACC
1 ATTGTTGATTAAAT-GGTGATTTGGTAGG-TTACC
* **
131303 ATTGTTGACTAAATGGTAGATTTGGTAGGTTGTC
1 ATTGTTGATTAAATGGT-GATTTGGTAGGTTACC
131337 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
131355 GTTTTTACCA
Statistics
Matches: 156, Mismatches: 22, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
32 1 0.01
33 18 0.12
34 132 0.85
35 5 0.03
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.42
Consensus pattern (33 bp):
ATTGTTGATTAAATGGTGATTTGGTAGGTTACC
Found at i:132718 original size:34 final size:34
Alignment explanation
Indices: 132638--132862 Score: 258
Period size: 34 Copynumber: 6.7 Consensus size: 34
132628 AAGTGGGAGA
* * *
132638 ATTGTTGATTAAAT-GGTGATTTGATAGTTTATC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * * * *
132671 ATTATTGATTAAATGGGTGATTTGGTGGTTTGCT
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
132705 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* **
132739 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
132773 ATTATTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
132807 ATTGTTGACTAAAT-GGTAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGT-GATTTGGTAGCTTACC
132841 ATTGTTGATTAAAT-GGTGATTT
1 ATTGTTGATTAAATGGGTGATTT
132863 TTACCAAACC
Statistics
Matches: 163, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
33 21 0.13
34 142 0.87
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.42
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
Found at i:132786 original size:102 final size:101
Alignment explanation
Indices: 132638--132856 Score: 330
Period size: 102 Copynumber: 2.2 Consensus size: 101
132628 AAGTGGGAGA
** * * * *
132638 ATTGTTGATTAAATGGTGATTTGATAGTTTATCATTATTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGAAATTTGATAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
*
132703 CTATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
*
132739 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
1 ATTGTTGATTAAATG-GAAATTTGATAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
* * *
132804 ACCATTGTTGACTAAATGGTAGATTTGGTAGGTTGCC
65 ACCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
132841 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
132857 TGATTTTTAC
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 16 0.15
102 90 0.85
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.42
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAAATTTGATAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
Found at i:137314 original size:34 final size:34
Alignment explanation
Indices: 137257--137475 Score: 280
Period size: 34 Copynumber: 6.5 Consensus size: 34
137247 AAGTGGAAGA
*
137257 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
137290 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
137324 ATTGTTGACTAAATGAGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* **
137358 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
137392 ATTATTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
137426 ATTGTTGACTAAAT-GGTAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGT-GATTTGGTAGCTTACC
137460 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
137476 TGGTTTTTAC
Statistics
Matches: 162, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
33 17 0.10
34 144 0.89
35 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
Found at i:137400 original size:102 final size:101
Alignment explanation
Indices: 137257--137475 Score: 341
Period size: 102 Copynumber: 2.2 Consensus size: 101
137247 AAGTGGAAGA
** * * * *
137257 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
137322 CCATTGTTGACTAAATGAG-AGATTTGGTAGCTTACC
66 CCATTGTTGACTAAATG-GTAGATTTGGTAGCTTACC
137358 ATTGTTGATTAAATGAGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
1 ATTGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTT
* *
137423 ACCATTGTTGACTAAATGGTAGATTTGGTAGGTTGCC
65 ACCATTGTTGACTAAATGGTAGATTTGGTAGCTTACC
137460 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
137476 TGGTTTTTAC
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
101 17 0.16
102 91 0.84
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGTAGATTTGGTAGCTTACC
Found at i:138653 original size:23 final size:24
Alignment explanation
Indices: 138627--138679 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
138617 TGAGCAGTCT
138627 AATTATTAAA-TAAATTTATTTA-A
1 AATTATTAAACTAAATTT-TTTATA
* *
138650 AATTTTTAAACTTAATTTTTTATA
1 AATTATTAAACTAAATTTTTTATA
138674 AATTAT
1 AATTAT
138680 ATCTGAAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTATTAAACTAAATTTTTTATA
Done.