Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold459
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: 425620
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 4
Found at i:2110 original size:3 final size:3
Alignment explanation
Indices: 2102--2127 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2092 TTTCAGGGTT
2102 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
2128 TAGCCAAATA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5692 original size:20 final size:20
Alignment explanation
Indices: 5669--5711 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
5659 TCTTTATAAA
5669 AATTTTGTAAATTTTATTTT
1 AATTTTGTAAATTTTATTTT
*
5689 AATTTTTTAAATTTTATTTT
1 AATTTTGTAAATTTTATTTT
5709 AAT
1 AAT
5712 ATTTTATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
AATTTTGTAAATTTTATTTT
Found at i:5716 original size:20 final size:20
Alignment explanation
Indices: 5676--5717 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
5666 AAAAATTTTG
*
5676 TAAATTTTATTTTAATTTTT
1 TAAATTTTATTTTAATATTT
5696 TAAATTTTATTTTAATATTT
1 TAAATTTTATTTTAATATTT
5716 TA
1 TA
5718 TAATAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TAAATTTTATTTTAATATTT
Found at i:5790 original size:6 final size:6
Alignment explanation
Indices: 5781--5826 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
5771 TTTAATTAAA
*
5781 ATTTAT ATTTAT ATTTAT ATTT-T ATCTTA- ATTTAT -TTTAT TTTTAT
1 ATTTAT ATTTAT ATTTAT ATTTAT AT-TTAT ATTTAT ATTTAT ATTTAT
5827 TAAAATTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
5 11 0.31
6 25 0.69
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (6 bp):
ATTTAT
Found at i:5833 original size:21 final size:22
Alignment explanation
Indices: 5787--5837 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 22
5777 TAAAATTTAT
*
5787 ATTTATATTTATATTTTATCTTA
1 ATTTAT-TTTATATTTTATCTAA
5810 ATTTATTTTAT-TTTTAT-TAAA
1 ATTTATTTTATATTTTATCT-AA
5831 ATTTATT
1 ATTTATT
5838 ATAATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 14 0.54
22 5 0.19
23 6 0.23
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTATTTTATATTTTATCTAA
Found at i:5853 original size:50 final size:51
Alignment explanation
Indices: 5768--5899 Score: 136
Period size: 50 Copynumber: 2.7 Consensus size: 51
5758 TTTTTAATTA
*
5768 TATTTTAATTAAAATTTATATTTATATTTATATTTTA-TCTT-AATTTATTT
1 TATTTTAATTAAAATTTATATATATATTTATATTTTAGTCTTAAATTTA-TT
* *
5818 TATTTTTATTAAAATTTAT-TATAATAATTTA-ATTTTAGTTTTAAATTTATT
1 TATTTTAATTAAAATTTATATAT-AT-ATTTATATTTTAGTCTTAAATTTATT
* *
5869 TA-TTTAA--AAAATTAATATAAATA-TTATATTT
1 TATTTTAATTAAAATTTATATATATATTTATATTT
5900 AAATTTTAAC
Statistics
Matches: 70, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
46 3 0.04
47 5 0.07
48 10 0.14
49 4 0.06
50 30 0.43
51 12 0.17
52 6 0.09
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (51 bp):
TATTTTAATTAAAATTTATATATATATTTATATTTTAGTCTTAAATTTATT
Found at i:16679 original size:19 final size:20
Alignment explanation
Indices: 16657--16700 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
16647 ATATTAATTT
* *
16657 TTAAATTTTATAA-AAATAA
1 TTAAATTTAATAATAAAAAA
16676 TT-AATTTAATAATAAAAAA
1 TTAAATTTAATAATAAAAAA
16695 TTAAAT
1 TTAAAT
16701 AGTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 9 0.43
19 9 0.43
20 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAATTTAATAATAAAAAA
Found at i:17022 original size:11 final size:11
Alignment explanation
Indices: 17006--17087 Score: 63
Period size: 10 Copynumber: 8.1 Consensus size: 11
16996 ATAATATAAA
17006 ATATAAAATAT
1 ATATAAAATAT
17017 ATAT-AAATA-
1 ATATAAAATAT
17026 ATATAAAA-AT
1 ATATAAAATAT
* *
17036 AAAT-TAA-AT
1 ATATAAAATAT
*
17045 ATAT-AAATAA
1 ATATAAAATAT
*
17055 AT-TAAAATTT
1 ATATAAAATAT
17065 ATATAAAATAT
1 ATATAAAATAT
17076 ATA-AATAATAT
1 ATATAA-AATAT
17087 A
1 A
17088 AATATATTGA
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
9 15 0.26
10 22 0.39
11 20 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATATAAAATAT
Found at i:17029 original size:9 final size:9
Alignment explanation
Indices: 16996--17091 Score: 60
Period size: 9 Copynumber: 10.3 Consensus size: 9
16986 AATCCGAAAC
16996 ATAATAT-A
1 ATAATATAA
17004 A-AATATAAA
1 ATAATAT-AA
17013 ATATATATAA
1 ATA-ATATAA
17023 ATAATATAA
1 ATAATATAA
17032 A-AATAAATTAA
1 ATAAT--A-TAA
17043 AT-ATATAA
1 ATAATATAA
17051 ATAA-ATTAAA
1 ATAATA-T-AA
*
17061 ATTTATATAA
1 A-TAATATAA
17071 A-ATATATAA
1 ATA-ATATAA
17080 ATAATATAA
1 ATAATATAA
17089 ATA
1 ATA
17092 TATTGATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 29
0.70 0.02 0.28
Matches are distributed among these distances:
7 5 0.07
8 10 0.14
9 28 0.39
10 14 0.20
11 13 0.18
12 1 0.01
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
ATAATATAA
Found at i:17047 original size:17 final size:17
Alignment explanation
Indices: 17025--17060 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
17015 ATATATAAAT
17025 AATATAAAAATAAATTA
1 AATATAAAAATAAATTA
*
17042 AATATATAAATAAATTA
1 AATATAAAAATAAATTA
17059 AA
1 AA
17061 ATTTATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AATATAAAAATAAATTA
Found at i:17301 original size:15 final size:14
Alignment explanation
Indices: 17264--17306 Score: 52
Period size: 13 Copynumber: 3.0 Consensus size: 14
17254 ATTTCATAAT
17264 TTATATTTTATTTA
1 TTATATTTTATTTA
17278 -TATATTTTATTTTA
1 TTATATTTTA-TTTA
*
17292 TTATAATTTAATTTA
1 TTAT-ATTTTATTTA
17307 AAAAATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 9 0.36
14 4 0.16
15 7 0.28
16 5 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATATTTTATTTA
Found at i:17361 original size:34 final size:33
Alignment explanation
Indices: 17317--17397 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 33
17307 AAAAATATTT
**
17317 TTTAT-TTATATATATTTTTTAATATATTAATAA
1 TTTATATTATATATATTTTAAAATATA-TAATAA
* * *
17350 TTTATATTATATAAATTTTAAAATATATATTTA
1 TTTATATTATATATATTTTAAAATATATAATAA
17383 TATTATATTATATAT
1 T-TTATATTATATAT
17398 TTTGTATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
33 10 0.25
34 30 0.75
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (33 bp):
TTTATATTATATATATTTTAAAATATATAATAA
Found at i:17391 original size:11 final size:11
Alignment explanation
Indices: 17375--17426 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
17365 TTTTAAAATA
17375 TATATTTATAT
1 TATATTTATAT
17386 TATA-TTATA-
1 TATATTTATAT
*
17395 TAT-TTTGTAT
1 TATATTTATAT
*
17405 TTTATTTATAT
1 TATATTTATAT
17416 TATATTTATAT
1 TATATTTATAT
17427 AAAGATATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 7 0.21
10 7 0.21
11 20 0.59
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (11 bp):
TATATTTATAT
Found at i:17394 original size:18 final size:18
Alignment explanation
Indices: 17262--17426 Score: 65
Period size: 18 Copynumber: 9.7 Consensus size: 18
17252 AAATTTCATA
*
17262 ATTTATATTTTATTTATAT
1 ATTTATATTATA-TTATAT
*
17281 ATTT-TATTTTATTATA-
1 ATTTATATTATATTATAT
** *
17297 ATTTA-ATT-TAAAAAAT
1 ATTTATATTATATTATAT
*
17313 ATTT-T-TTATTTATATAT
1 ATTTATATTATAT-TATAT
* *
17330 ATTTTTTAATATATTA-AT
1 A-TTTATATTATATTATAT
17348 AATTTATATTATA-TA-A-
1 -ATTTATATTATATTATAT
*
17364 ATTT-TA--A-AATATAT
1 ATTTATATTATATTATAT
17378 ATTTATATTATATTATAT
1 ATTTATATTATATTATAT
* *
17396 ATTTTGTATTTTATT-TAT
1 A-TTTATATTATATTATAT
17414 A-TTATATTTATAT
1 ATTTATA-TTATAT
17427 AAAGATATTT
Statistics
Matches: 112, Mismatches: 16, Indels: 38
0.67 0.10 0.23
Matches are distributed among these distances:
11 1 0.01
12 3 0.03
13 1 0.01
14 6 0.05
15 12 0.11
16 16 0.14
17 18 0.16
18 32 0.29
19 19 0.17
20 4 0.04
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (18 bp):
ATTTATATTATATTATAT
Found at i:18568 original size:23 final size:21
Alignment explanation
Indices: 18542--18593 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
18532 AATTTTATAT
*
18542 TAATATTTTTAATTAAATTTAAA
1 TAATATTTTTAAATAAA--TAAA
*
18565 TAAT-TTTTTAAATACATAAA
1 TAATATTTTTAAATAAATAAA
18585 TAATATTTT
1 TAATATTTT
18594 GATCAAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 8 0.31
21 4 0.15
22 10 0.38
23 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TAATATTTTTAAATAAATAAA
Found at i:18683 original size:20 final size:21
Alignment explanation
Indices: 18658--18696 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
18648 TAAATCAAAT
18658 TAAATAAATTA-TTTAATTCA
1 TAAATAAATTATTTTAATTCA
18678 TAAATAAATTATTTTAATT
1 TAAATAAATTATTTTAATT
18697 ACGTGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (21 bp):
TAAATAAATTATTTTAATTCA
Found at i:21158 original size:18 final size:17
Alignment explanation
Indices: 21128--21161 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
21118 ACTTTTGTTA
*
21128 ATTATTTATTTATTATT
1 ATTATTTAATTATTATT
21145 ATTATTTTAATTATTAT
1 ATTA-TTTAATTATTAT
21162 GTTTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTATTTAATTATTATT
Found at i:21902 original size:28 final size:26
Alignment explanation
Indices: 21866--22007 Score: 73
Period size: 28 Copynumber: 5.4 Consensus size: 26
21856 TACTTATTAA
*
21866 ATATGTATTTATATTTATTTTTATATT
1 ATATTTATTTATATTTATTTTT-TATT
* * *
21893 ATATTATATTT-TAATT-TTTTATGTT
1 ATATT-TATTTATATTTATTTTTTATT
*
21918 ATATTTATATAT-TTTAATTTTTTACGTT
1 ATATTTATTTATATTT-ATTTTTTA--TT
*
21946 ATATTTATATAT-TTTAATTTTTT-TT
1 ATATTTATTTATATTT-ATTTTTTATT
** * *
21971 ACGTTATATTTATA-TTATTTAATTAAT
1 ATATT-TATTTATATTTATTT-TTTATT
21998 A-ATTTATTTA
1 ATATTTATTTA
22008 AAACTATAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
24 6 0.07
25 24 0.26
26 21 0.23
27 10 0.11
28 30 0.33
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (26 bp):
ATATTTATTTATATTTATTTTTTATT
Found at i:21922 original size:30 final size:28
Alignment explanation
Indices: 21886--21994 Score: 157
Period size: 28 Copynumber: 3.8 Consensus size: 28
21876 ATATTTATTT
*
21886 TTATATTATATTATATTTTAATTTTTTATG
1 TTATATT-TA-TATATTTTAATTTTTTACG
21916 TTATATTTATATATTTTAATTTTTTACG
1 TTATATTTATATATTTTAATTTTTTACG
21944 TTATATTTATATATTTTAATTTTTTTTACG
1 TTATATTTATATATTTTAA--TTTTTTACG
21974 TTATATTTATAT-TATTTAATT
1 TTATATTTATATAT-TTTAATT
21995 AATAATTTAT
Statistics
Matches: 75, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
28 39 0.52
29 3 0.04
30 33 0.44
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (28 bp):
TTATATTTATATATTTTAATTTTTTACG
Found at i:21932 original size:20 final size:20
Alignment explanation
Indices: 21873--21933 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
21863 TAAATATGTA
21873 TTTATATT-TATTTT--TAT
1 TTTATATTATATTTTAATAT
* *
21890 ATTATATTATATTTTAATTT
1 TTTATATTATATTTTAATAT
*
21910 TTTATGTTATA-TTTATATAT
1 TTTATATTATATTTTA-ATAT
21930 TTTA
1 TTTA
21934 ATTTTTTACG
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 7 0.20
18 6 0.17
19 4 0.11
20 18 0.51
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTATATTATATTTTAATAT
Found at i:22264 original size:6 final size:6
Alignment explanation
Indices: 22253--22317 Score: 50
Period size: 6 Copynumber: 11.3 Consensus size: 6
22243 ATTTTTACAT
* *
22253 ATTATA ATTAT- ATT-TA ATATATA ATTAAA ATTAAA ATT-TA ATT-TA
1 ATTATA ATTATA ATTATA AT-TATA ATTATA ATTATA ATTATA ATTATA
*
22298 ATT-TA TTATATA ATTATA AT
1 ATTATA AT-TATA ATTATA AT
22318 AATATTTAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
4 1 0.02
5 17 0.34
6 25 0.50
7 7 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
ATTATA
Found at i:22275 original size:17 final size:17
Alignment explanation
Indices: 22255--22315 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
22245 TTTTACATAT
22255 TATAATTATATTTAATA
1 TATAATTATATTTAATA
* * *
22272 TATAATTAAAATTAAAA
1 TATAATTATATTTAATA
* *
22289 TTTAATT-TAATTTATTA
1 TATAATTAT-ATTTAATA
22306 TATAATTATA
1 TATAATTATA
22316 ATAATATTTA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
17 32 0.97
18 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATTATATTTAATA
Found at i:22302 original size:34 final size:32
Alignment explanation
Indices: 22264--22335 Score: 90
Period size: 34 Copynumber: 2.2 Consensus size: 32
22254 TTATAATTAT
*
22264 ATTTAATATATAATTAAAATTAAAATTTAATTTA
1 ATTTAATATATAATTAAAA-TAAAATTTAA-TAA
* * *
22298 ATTTATTATATAATTATAATAATATTTAATAA
1 ATTTAATATATAATTAAAATAAAATTTAATAA
22330 ATTTAA
1 ATTTAA
22336 ATTTAAATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
32 7 0.21
33 9 0.27
34 17 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
ATTTAATATATAATTAAAATAAAATTTAATAA
Found at i:22371 original size:17 final size:18
Alignment explanation
Indices: 22341--22392 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
22331 TTTAAATTTA
*
22341 AATTTTAATATTTATAAT-
1 AATTTT-ATTTTTATAATC
* *
22359 ATTTTTATTTTTATACTC
1 AATTTTATTTTTATAATC
*
22377 AATTTTATTTATATAA
1 AATTTTATTTTTATAA
22393 AAAAATTATA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (18 bp):
AATTTTATTTTTATAATC
Found at i:22429 original size:22 final size:25
Alignment explanation
Indices: 22397--22453 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 25
22387 ATATAAAAAA
*
22397 ATTATATTTTT-TAATATATTATT-T
1 ATTATATTTTTAT-ATAAATTATTAT
22421 ATTA-A-TTTTATATAAATTATTAT
1 ATTATATTTTTATATAAATTATTAT
22444 ATTATATTTT
1 ATTATATTTT
22454 ACATCATTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 13 0.46
23 7 0.25
24 5 0.18
25 3 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
ATTATATTTTTATATAAATTATTAT
Found at i:23400 original size:23 final size:24
Alignment explanation
Indices: 23374--23436 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
23364 AAAATTATTT
23374 TATTATTTATTA-TAATATTAAGA
1 TATTATTTATTATTAATATTAAGA
* * *
23397 TATTATTTTAATATTAATATTTATA
1 TATTA-TTTATTATTAATATTAAGA
*
23422 TATT-TTTATAATTAA
1 TATTATTTATTATTAA
23437 ATTTAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
23 14 0.42
24 6 0.18
25 13 0.39
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TATTATTTATTATTAATATTAAGA
Found at i:23440 original size:22 final size:22
Alignment explanation
Indices: 23376--23441 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 22
23366 AATTATTTTA
* * *
23376 TTATTTATTATAATATTAAGA-
1 TTATATATTTTAATATTAATAT
23397 -TAT-TATTTTAATATTAATAT
1 TTATATATTTTAATATTAATAT
*
23417 TTATATATTTTTATAATTAA-AT
1 TTATATATTTTAAT-ATTAATAT
23439 TTA
1 TTA
23442 AATAAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
19 14 0.37
20 3 0.08
21 3 0.08
22 13 0.34
23 5 0.13
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TTATATATTTTAATATTAATAT
Found at i:24268 original size:27 final size:25
Alignment explanation
Indices: 24238--24291 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
24228 TAATATTTAT
24238 ATATT-TTATAATTAAATTTAAATAAAA
1 ATATTATT-TAATTAAA--TAAATAAAA
*
24265 ATATTATTTTATTAAATAAATAAAA
1 ATATTATTTAATTAAATAAATAAAA
24290 AT
1 AT
24292 CCAAGTGACA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 11 0.44
27 12 0.48
28 2 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
ATATTATTTAATTAAATAAATAAAA
Found at i:26901 original size:17 final size:17
Alignment explanation
Indices: 26881--26915 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
26871 TTAACTATAT
26881 TTAATATTTAT-TTTAAA
1 TTAA-ATTTATATTTAAA
26898 TTAAATTTATATTTAAA
1 TTAAATTTATATTTAAA
26915 T
1 T
26916 ACTATAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTATATTTAAA
Found at i:27259 original size:29 final size:30
Alignment explanation
Indices: 27218--27275 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
27208 TCAAATAATT
27218 TTAAACATAAATATAATATA-AAAAATTTA
1 TTAAACATAAATATAATATATAAAAATTTA
*
27247 TTAAA-ATATAATATAATATATAATAATTT
1 TTAAACATA-AATATAATATATAAAAATTT
27276 TAATAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 3 0.12
29 16 0.62
30 7 0.27
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (30 bp):
TTAAACATAAATATAATATATAAAAATTTA
Found at i:29058 original size:38 final size:39
Alignment explanation
Indices: 29014--29092 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 39
29004 TGATGAAATA
29014 TATTTTAAAATATAATT-TAAATAATT-AATAAAAA-ATTT
1 TATTTT-AAATATAATTATAAAT-ATTAAATAAAAATATTT
*
29052 TATTTTAAATTTAATTATAAATATTAAAATAAAAATATTT
1 TATTTTAAATATAATTATAAATATT-AAATAAAAATATTT
29092 T
1 T
29093 GATATTATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
37 12 0.33
38 11 0.31
39 8 0.22
40 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (39 bp):
TATTTTAAATATAATTATAAATATTAAATAAAAATATTT
Found at i:30297 original size:11 final size:10
Alignment explanation
Indices: 30281--30309 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
30271 AGATAGAACT
30281 AAAAAAAATA
1 AAAAAAAATA
30291 AAAAAAAATA
1 AAAAAAAATA
30301 AAAAAAAAT
1 AAAAAAAAT
30310 TGTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:31229 original size:36 final size:36
Alignment explanation
Indices: 31171--31259 Score: 98
Period size: 34 Copynumber: 2.6 Consensus size: 36
31161 TATATTAAAA
31171 ATTATATTA-TTAA-ATTAAAATATATTTTT--TATTT
1 ATTAT-TTATTTAATATTAAAA-ATATTTTTAATATTT
31205 ATTATTTATTTAATATTAAAAATATTTTTAATATTT
1 ATTATTTATTTAATATTAAAAATATTTTTAATATTT
** *
31241 AAAATTAATTTAAT-TTAAA
1 ATTATTTATTTAATATTAAA
31260 TTAATTAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
33 3 0.06
34 17 0.35
35 12 0.25
36 16 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (36 bp):
ATTATTTATTTAATATTAAAAATATTTTTAATATTT
Found at i:31234 original size:18 final size:18
Alignment explanation
Indices: 31162--31245 Score: 59
Period size: 18 Copynumber: 4.6 Consensus size: 18
31152 ATTTAAATTT
31162 ATATTAAAAATTATATTATTA
1 ATATTAAAAA-TAT-TT-TTA
31183 A-ATTAAAATATATTTTT-
1 ATATTAAAA-ATATTTTTA
* **
31200 -TATTTATTAT-TTATTTA
1 ATATTAAAAATATT-TTTA
31217 ATATTAAAAATATTTTTA
1 ATATTAAAAATATTTTTA
*
31235 ATATTTAAAAT
1 ATATTAAAAAT
31246 TAATTTAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
15 2 0.04
16 5 0.10
17 4 0.08
18 23 0.46
19 4 0.08
20 10 0.20
21 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATTAAAAATATTTTTA
Found at i:31252 original size:18 final size:18
Alignment explanation
Indices: 31212--31273 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
31202 TTTATTATTT
*
31212 ATTTAATA-TTAAAAATA
1 ATTTAATATTTAAAATTA
*
31229 TTTTTAATATTTAAAATTA
1 -ATTTAATATTTAAAATTA
*
31248 ATTTAAT-TTAAATTAATTA
1 ATTTAATATTTAA--AATTA
31267 ATTTAAT
1 ATTTAAT
31274 TAATCAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 4 0.11
18 13 0.35
19 20 0.54
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTAATATTTAAAATTA
Found at i:31255 original size:9 final size:9
Alignment explanation
Indices: 31243--31277 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
31233 TAATATTTAA
31243 AATTAATTT
1 AATTAATTT
*
31252 AATTTAAATT
1 AA-TTAATTT
31262 AATTAATTT
1 AATTAATTT
31271 AATTAAT
1 AATTAAT
31278 CAAATTGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
AATTAATTT
Found at i:31665 original size:2 final size:2
Alignment explanation
Indices: 31658--31722 Score: 80
Period size: 2 Copynumber: 33.5 Consensus size: 2
31648 GAGATTTTAT
* * * *
31658 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TT TT TA TT TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31699 TA T- 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
31723 GTAATATGAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
1 2 0.04
2 53 0.96
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (2 bp):
TA
Found at i:31845 original size:19 final size:17
Alignment explanation
Indices: 31818--31852 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
31808 ATTAGTTAAA
31818 TTTTTTTAATTAATTTAT
1 TTTTTTTAATT-ATTTAT
31836 TTTTTCTTAATTATTTA
1 TTTTT-TTAATTATTTA
31853 CATGTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTTAATTATTTAT
Found at i:31918 original size:15 final size:15
Alignment explanation
Indices: 31895--31929 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
31885 GGCTATCCGC
*
31895 TAATATTTTTATTTT
1 TAATATTTTTATATT
*
31910 TAATTTTTTTATATT
1 TAATATTTTTATATT
31925 TAATA
1 TAATA
31930 ATTATTTTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TAATATTTTTATATT
Found at i:32033 original size:2 final size:2
Alignment explanation
Indices: 32026--32052 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32016 AATTCGTTTT
32026 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
32053 GTATTTTCGT
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:32613 original size:15 final size:15
Alignment explanation
Indices: 32593--32622 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32583 TAACATATCT
*
32593 AATTAAGTAAAATAA
1 AATTAAATAAAATAA
32608 AATTAAATAAAATAA
1 AATTAAATAAAATAA
32623 TTATAATAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AATTAAATAAAATAA
Found at i:32804 original size:16 final size:16
Alignment explanation
Indices: 32779--32812 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
32769 TAAAATTGAT
*
32779 TATTTTATAAAATAAA
1 TATTTAATAAAATAAA
*
32795 TATTTAATAAACTAAA
1 TATTTAATAAAATAAA
32811 TA
1 TA
32813 AATATATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TATTTAATAAAATAAA
Found at i:41767 original size:59 final size:59
Alignment explanation
Indices: 41641--41768 Score: 159
Period size: 59 Copynumber: 2.2 Consensus size: 59
41631 TAAGTGATTT
* **
41641 ATAATATTTTATCAATAATTTATTTTTATTCGTAATATTTAAAAATTATATCTATTATTA
1 ATAAT-TTTTATCAATAATTTATTTTTATTCATAATATTTAAAAATTATATCTAACATTA
* * * * *
41701 ATCATTTTTATTAATATTTTATTTTTATTCATAATTTTTAAAAATTATATTTAACA-TA
1 ATAATTTTTATCAATAATTTATTTTTATTCATAATATTTAAAAATTATATCTAACATTA
41759 CATAATTTTT
1 -ATAATTTTT
41769 CAAAAGTTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
58 2 0.03
59 52 0.90
60 4 0.07
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.55
Consensus pattern (59 bp):
ATAATTTTTATCAATAATTTATTTTTATTCATAATATTTAAAAATTATATCTAACATTA
Found at i:43170 original size:21 final size:21
Alignment explanation
Indices: 43145--43190 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
43135 TATTATCCCT
43145 AATTAAATAGTATTAACAATA
1 AATTAAATAGTATTAACAATA
*
43166 AATTAAATAGTATTAGCAATA
1 AATTAAATAGTATTAACAATA
43187 AATT
1 AATT
43191 TTATCTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (21 bp):
AATTAAATAGTATTAACAATA
Found at i:43435 original size:12 final size:12
Alignment explanation
Indices: 43420--43444 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43410 TCAAAATTCC
43420 TCAAAAAAAAAA
1 TCAAAAAAAAAA
43432 TCAAAAAAAAAA
1 TCAAAAAAAAAA
43444 T
1 T
43445 TCACTTACCT
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:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (12 bp):
TCAAAAAAAAAA
Found at i:43843 original size:26 final size:27
Alignment explanation
Indices: 43807--43858 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
43797 CTCATTTGAG
**
43807 TTTTGTGTTGTTCTATTTTTTTTTATT
1 TTTTGTGTTGTTCTATAGTTTTTTATT
*
43834 TTTTGT-TTGTTTTATAGTTTTTTAT
1 TTTTGTGTTGTTCTATAGTTTTTTAT
43859 AAGAAAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.10, C:0.02, G:0.12, T:0.77
Consensus pattern (27 bp):
TTTTGTGTTGTTCTATAGTTTTTTATT
Found at i:44032 original size:20 final size:20
Alignment explanation
Indices: 43995--44034 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
43985 TCTTTTTCCC
** *
43995 CTTTTTTTTTTTCTCTTTTT
1 CTTTTTTTTACTCACTTTTT
44015 CTTTTTTTTACTCACTTTTT
1 CTTTTTTTTACTCACTTTTT
44035 TCTTAATTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (20 bp):
CTTTTTTTTACTCACTTTTT
Found at i:48273 original size:2 final size:2
Alignment explanation
Indices: 48262--48317 Score: 89
Period size: 2 Copynumber: 29.0 Consensus size: 2
48252 CTACTTTATT
*
48262 TA TA TA -A TA TA TA TA TA TA TA TA CA TA T- 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
48302 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
48318 CACACACTTC
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
1 2 0.04
2 48 0.96
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:48512 original size:2 final size:2
Alignment explanation
Indices: 48505--48543 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
48495 TTTTGGTGAA
*
48505 AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48544 ATTATTTGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:49031 original size:18 final size:19
Alignment explanation
Indices: 49010--49048 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
49000 AATTAAATTA
49010 TTATTT-AATCATAAAAAT
1 TTATTTAAATCATAAAAAT
*
49028 TTATTTAAATTATAAAAAT
1 TTATTTAAATCATAAAAAT
49047 TT
1 TT
49049 TAAATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATTTAAATCATAAAAAT
Found at i:49050 original size:20 final size:19
Alignment explanation
Indices: 49004--49050 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
48994 GATTTTAATT
49004 AAATTATTATTTAATCATAA
1 AAATT-TTATTTAATCATAA
*
49024 AAA-TTTATTTAAATTATAA
1 AAATTTTATTT-AATCATAA
49043 AAATTTTA
1 AAATTTTA
49051 AATATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 6 0.25
19 11 0.46
20 7 0.29
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATTTTATTTAATCATAA
Found at i:50657 original size:3 final size:3
Alignment explanation
Indices: 50649--50684 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
50639 TTGACATATG
50649 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
50685 TTGTTAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:53040 original size:13 final size:13
Alignment explanation
Indices: 53019--53061 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
53009 ATTTTTTTGA
*
53019 AATACTCATATTT
1 AATATTCATATTT
53032 AATATTCATATTT
1 AATATTCATATTT
53045 AATA-T-ATATATT
1 AATATTCATAT-TT
53057 AATAT
1 AATAT
53062 GCGATAACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 4 0.15
12 7 0.26
13 16 0.59
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (13 bp):
AATATTCATATTT
Found at i:53150 original size:15 final size:15
Alignment explanation
Indices: 53130--53159 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53120 AATTTCAAAT
*
53130 ATATATATATTTTTA
1 ATATATATATATTTA
53145 ATATATATATATTTA
1 ATATATATATATTTA
53160 TCATTCACGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATATATATATTTA
Found at i:54926 original size:32 final size:32
Alignment explanation
Indices: 54890--54974 Score: 81
Period size: 32 Copynumber: 2.7 Consensus size: 32
54880 TAATATAATC
54890 AAATAAATTTATATTTATATTTAA-AAATTTAA
1 AAATAAATTTATATTTATATTTAACAAATTT-A
*
54922 AAATAAATAATT-TA-TTAAATTTAATCAAATTTA
1 AAATAAAT--TTATATTTATATTTAA-CAAATTTA
*
54955 AAAT-AATTTA-ATTTTTATTT
1 AAATAAATTTATATTTATATTT
54975 TAAATTAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
30 3 0.07
31 6 0.14
32 20 0.45
33 7 0.16
34 8 0.18
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (32 bp):
AAATAAATTTATATTTATATTTAACAAATTTA
Found at i:54930 original size:36 final size:35
Alignment explanation
Indices: 54839--54936 Score: 87
Period size: 36 Copynumber: 2.8 Consensus size: 35
54829 AAATTTTAAC
** ** *
54839 TTAAAAATTTAAATTTAAA-AAATAAATATTTTTA
1 TTAAAAATTTAAAAATAAATAAATTTATATTTATA
54873 TTAAAAA--TAATATAATCAAATAAATTTATATTTATA
1 TTAAAAATTTAA-A-AAT-AAATAAATTTATATTTATA
54909 TTTAAAAATTTAAAAATAAAT-AATTTAT
1 -TTAAAAATTTAAAAATAAATAAATTTAT
54937 TAAATTTAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
32 3 0.06
33 1 0.02
34 8 0.15
35 10 0.19
36 16 0.31
37 10 0.19
38 1 0.02
39 3 0.06
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (35 bp):
TTAAAAATTTAAAAATAAATAAATTTATATTTATA
Found at i:54993 original size:17 final size:17
Alignment explanation
Indices: 54936--54995 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
54926 AAATAATTTA
*
54936 TTAAATTT-AATCAAAT
1 TTAAATTTAAATTAAAT
* * *
54952 TTAAA-ATAATTTAATT
1 TTAAATTTAAATTAAAT
* *
54968 TTTATTTTAAATTAAAT
1 TTAAATTTAAATTAAAT
54985 TTAAATTTAAA
1 TTAAATTTAAA
54996 AATAAACTCA
Statistics
Matches: 31, Mismatches: 11, Indels: 3
0.69 0.24 0.07
Matches are distributed among these distances:
15 1 0.03
16 13 0.42
17 17 0.55
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAATTTAAATTAAAT
Found at i:56289 original size:34 final size:33
Alignment explanation
Indices: 56243--56317 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 33
56233 TAATTCGAAT
56243 AATA-AAAAATTATTTT-ATTTTAAATATATTA-A
1 AATATAAAAATTATTTTAATTTT-AATAT-TTATA
56275 AATATTAAAAATTATTTTAATTTTAATATTTATA
1 AATA-TAAAAATTATTTTAATTTTAATATTTATA
56309 AATATAAAA
1 AATATAAAA
56318 TTTAAATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
32 4 0.10
33 8 0.21
34 22 0.56
35 5 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (33 bp):
AATATAAAAATTATTTTAATTTTAATATTTATA
Found at i:56366 original size:21 final size:20
Alignment explanation
Indices: 56320--56368 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
56310 ATATAAAATT
*
56320 TAAA-TAAA-AATATTTTTA
1 TAAATTAAATAATATTTATA
*
56338 TTAATTAAATAATATTTATA
1 TAAATTAAATAATATTTATA
56358 TCAAATTAAAT
1 T-AAATTAAAT
56369 CATTTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 3 0.12
19 4 0.16
20 10 0.40
21 8 0.32
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAATTAAATAATATTTATA
Found at i:57577 original size:20 final size:19
Alignment explanation
Indices: 57552--57620 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
57542 ATTTTATGAG
57552 TATATATAAAT-TTGATAATT
1 TATATATAAATATT-AT-ATT
*
57572 TATATATTAATATTATATT
1 TATATATAAATATTATATT
*** *
57591 TATATATTTTTATTATAAT
1 TATATATAAATATTATATT
*
57610 TATATTTAAAT
1 TATATATAAAT
57621 TTTGATGTGG
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
19 26 0.65
20 12 0.30
21 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (19 bp):
TATATATAAATATTATATT
Found at i:57593 original size:19 final size:19
Alignment explanation
Indices: 57569--57618 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
57559 AAATTTGATA
57569 ATTTATATATTAATATTAT
1 ATTTATATATTAATATTAT
**
57588 ATTTATATATTTTTATTAT
1 ATTTATATATTAATATTAT
*
57607 AATTATAT-TTAA
1 ATTTATATATTAA
57619 ATTTTGATGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 2 0.08
19 24 0.92
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTATATATTAATATTAT
Found at i:57621 original size:11 final size:14
Alignment explanation
Indices: 57571--57614 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
57561 ATTTGATAAT
57571 TTATATATTA-ATA
1 TTATATATTATATA
57584 TTATAT-TTATATA
1 TTATATATTATATA
*
57597 TT-TTTATTATA-A
1 TTATATATTATATA
57609 TTATAT
1 TTATAT
57615 TTAAATTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 8 0.31
13 18 0.69
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTATATATTATATA
Found at i:57696 original size:22 final size:21
Alignment explanation
Indices: 57671--57730 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 21
57661 TTAAATATTC
*
57671 ATATTATATTTATAATTTTTTT
1 ATATAATATTTA-AATTTTTTT
57693 ATATAATATTTAAATTAATTTTTT
1 ATATAATATTTAAA-T--TTTTTT
*
57717 ATATCATATTTAAA
1 ATATAATATTTAAA
57731 ATTATTAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 2 0.06
22 12 0.36
24 19 0.58
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
ATATAATATTTAAATTTTTTT
Found at i:57897 original size:8 final size:7
Alignment explanation
Indices: 57869--57895 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
57859 CTTTCCTTTA
57869 AAAAAAG
1 AAAAAAG
57876 AAAAAAG
1 AAAAAAG
57883 AAAAAAG
1 AAAAAAG
57890 AAAAAA
1 AAAAAA
57896 AGCCAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:58420 original size:16 final size:16
Alignment explanation
Indices: 58399--58434 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
58389 GAGATCAACT
58399 AATAAAAAAATTAAAA
1 AATAAAAAAATTAAAA
*
58415 AATAAAAAAATTTAAA
1 AATAAAAAAATTAAAA
58431 AATA
1 AATA
58435 TTTTTATAAC
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AATAAAAAAATTAAAA
Found at i:61831 original size:22 final size:20
Alignment explanation
Indices: 61798--61839 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
61788 ATTTTGATTA
61798 ACAATCAAATGCTAAGTAACTT
1 ACAATCAAATGC-AA-TAACTT
61820 ACAA-CAATATGCAATAACTT
1 ACAATCAA-ATGCAATAACTT
61840 TGTCATACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 6 0.32
21 5 0.26
22 8 0.42
ACGTcount: A:0.48, C:0.19, G:0.07, T:0.26
Consensus pattern (20 bp):
ACAATCAAATGCAATAACTT
Found at i:65198 original size:26 final size:28
Alignment explanation
Indices: 65162--65216 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
65152 TCATTTTGGA
* *
65162 TTGAGTTA-TTTTAGATTTTAAA-ATTT
1 TTGAGTCATTTTTAGATTTGAAATATTT
65188 TTGAGTCATTTTTAGATTTGAAATATTT
1 TTGAGTCATTTTTAGATTTGAAATATTT
65216 T
1 T
65217 AGGTTCTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 7 0.28
27 13 0.52
28 5 0.20
ACGTcount: A:0.29, C:0.02, G:0.13, T:0.56
Consensus pattern (28 bp):
TTGAGTCATTTTTAGATTTGAAATATTT
Found at i:66091 original size:16 final size:16
Alignment explanation
Indices: 66072--66132 Score: 86
Period size: 16 Copynumber: 3.8 Consensus size: 16
66062 TTAAGTTCAG
*
66072 ATCATTTCAGGTTCGA
1 ATCATTTCGGGTTCGA
66088 ATCATTTCGGGTTCGA
1 ATCATTTCGGGTTCGA
* * *
66104 GTTATTTCGGGTTCGG
1 ATCATTTCGGGTTCGA
66120 ATCATTTCGGGTT
1 ATCATTTCGGGTT
66133 TTGGGTAAGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.16, C:0.16, G:0.26, T:0.41
Consensus pattern (16 bp):
ATCATTTCGGGTTCGA
Found at i:66356 original size:19 final size:19
Alignment explanation
Indices: 66308--66356 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
66298 TGTTCAAGAA
66308 TAATTTAAAATAATATTTTT
1 TAATTT-AAATAATATTTTT
* **
66328 GAATAAAAATAATATTTTT
1 TAATTTAAATAATATTTTT
66347 TAATTTAAAT
1 TAATTTAAAT
66357 TTAATTATAA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TAATTTAAATAATATTTTT
Found at i:67374 original size:99 final size:98
Alignment explanation
Indices: 67203--67398 Score: 238
Period size: 100 Copynumber: 2.0 Consensus size: 98
67193 AACTTTGAAG
* * *
67203 AAATAATTAAATGCATTGATAGTAAAATTACCTACTTCACAAGTATATTAGTAAAACTAAACATA
1 AAATAATTAAATGCATTAATAATAAAATTACCTACTTCACAAATATATTAGTAAAACTAAACATA
*
67268 CT-TTTTTTAATCACTTTTTTAATTTTCAATTATA
66 CTATTTTTTAAT-A-TTTTTTAATTTTAAATTATA
* ** * *
67302 AAATAATTAAATTCATTAATAATAAAATTATTTGACTAT-ACAAATATGTTAGTAAAA-TGAAAT
1 AAATAATTAAATGCATTAATAATAAAATTACCT-ACT-TCACAAATATATTAGTAAAACT-AAAC
67365 ATA-TATTTTTTAATATTTTTTAATTTTAAATTAT
63 ATACTATTTTTTAATATTTTTTAATTTTAAATTAT
67399 GATTAAATTT
Statistics
Matches: 84, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
98 18 0.21
99 31 0.37
100 34 0.40
101 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.44
Consensus pattern (98 bp):
AAATAATTAAATGCATTAATAATAAAATTACCTACTTCACAAATATATTAGTAAAACTAAACATA
CTATTTTTTAATATTTTTTAATTTTAAATTATA
Found at i:68025 original size:3 final size:3
Alignment explanation
Indices: 68017--68070 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
68007 TTTCTAAACA
* *
68017 ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT AGT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
68065 ATT ATT
1 ATT ATT
68071 TTGCCTCAGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:71196 original size:2 final size:2
Alignment explanation
Indices: 71189--71219 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
71179 ATGCAAATTG
71189 AT AT AT AT AT AT AT AT AT AT AT GAT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
71220 GACCTTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:72122 original size:17 final size:17
Alignment explanation
Indices: 72102--72159 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
72092 CAAACTATTC
72102 AAAATATAAAATAAATT
1 AAAATATAAAATAAATT
* *
72119 AAAATATGACATAAATAT
1 AAAATATAAAATAAAT-T
* *
72137 AACATAAGAAAAT-AATT
1 AAAAT-ATAAAATAAATT
72154 AAAATA
1 AAAATA
72160 CTGCATGAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
16 1 0.03
17 19 0.59
18 8 0.25
19 4 0.12
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAATATAAAATAAATT
Found at i:72156 original size:35 final size:37
Alignment explanation
Indices: 72109--72181 Score: 100
Period size: 35 Copynumber: 2.0 Consensus size: 37
72099 TTCAAAATAT
72109 AAAATAAATTAAAATA-TGACAT-AAATATAACAT-AAG
1 AAAATAAATTAAAATACTG-CATGAAA-ATAACATGAAG
72145 AAAAT-AATTAAAATACTGCATGAAAATAACATGAAG
1 AAAATAAATTAAAATACTGCATGAAAATAACATGAAG
72181 A
1 A
72182 CACTATAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
35 20 0.59
36 14 0.41
ACGTcount: A:0.62, C:0.07, G:0.08, T:0.23
Consensus pattern (37 bp):
AAAATAAATTAAAATACTGCATGAAAATAACATGAAG
Found at i:72546 original size:20 final size:22
Alignment explanation
Indices: 72500--72551 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
72490 ACATGATATA
*
72500 AATATAT-AATTATTAAAATGT
1 AATATATAAATAATTAAAATGT
72521 ACATATATAAATAATT-AAAT-T
1 A-ATATATAAATAATTAAAATGT
72542 AATATATAAA
1 AATATATAAA
72552 ATTTATATAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 9 0.32
21 3 0.11
22 10 0.36
23 6 0.21
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AATATATAAATAATTAAAATGT
Found at i:72630 original size:20 final size:19
Alignment explanation
Indices: 72605--72659 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
72595 CAAACATTAC
*
72605 ATAAAAATAATTAAAACACA
1 ATAAAAATAA-TAAAACAAA
*
72625 ATAAAAATAATAAAATAAA
1 ATAAAAATAATAAAACAAA
72644 ATAAAAATATATAAAA
1 ATAAAAATA-ATAAAA
72660 TATATATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (19 bp):
ATAAAAATAATAAAACAAA
Found at i:72660 original size:20 final size:19
Alignment explanation
Indices: 72605--72661 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 19
72595 CAAACATTAC
* *
72605 ATAAAAATAATTAAAACACA
1 ATAAAAATAA-TAAAATAAA
72625 ATAAAAATAATAAAATAAA
1 ATAAAAATAATAAAATAAA
72644 ATAAAAATATATAAAATA
1 ATAAAAATA-ATAAAATA
72662 TATATATGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.23
Consensus pattern (19 bp):
ATAAAAATAATAAAATAAA
Found at i:73252 original size:21 final size:21
Alignment explanation
Indices: 73228--73271 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
73218 TGATTTTCTG
73228 TTAAT-AATCTAAATATTATTA
1 TTAATAAAT-TAAATATTATTA
*
73249 TTAATAAATTAAATTTTATTA
1 TTAATAAATTAAATATTATTA
73270 TT
1 TT
73272 TTATTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTAATAAATTAAATATTATTA
Found at i:73484 original size:27 final size:27
Alignment explanation
Indices: 73448--73506 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
73438 TTTAAATTAT
*
73448 TATTTGATTAATAAAAAAATTTATTTAA
1 TATTTAATTAATAAAAAAATTT-TTTAA
* *
73476 -ATTTAATTATTAAAATAATTTTTTAA
1 TATTTAATTAATAAAAAAATTTTTTAA
73502 TATTT
1 TATTT
73507 TTTAAACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
TATTTAATTAATAAAAAAATTTTTTAA
Found at i:77738 original size:2 final size:2
Alignment explanation
Indices: 77731--77760 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
77721 CTCTAGTTTC
77731 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
77761 TTATTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:81623 original size:12 final size:11
Alignment explanation
Indices: 81601--81630 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
81591 ATTTTATTGA
81601 TTTTTTCTTTT
1 TTTTTTCTTTT
81612 TTTTTTCTTTT
1 TTTTTTCTTTT
81623 TTTTTTCT
1 TTTTTTCT
81631 ATCCTTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:81840 original size:19 final size:19
Alignment explanation
Indices: 81816--81854 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
81806 AAATTATTAT
*
81816 TTAAAATATT-TTTAAATA
1 TTAAAAAATTATTTAAATA
*
81834 TTAAAAAATTATTTATATA
1 TTAAAAAATTATTTAAATA
81853 TT
1 TT
81855 CTATTATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAAAAATTATTTAAATA
Found at i:82215 original size:15 final size:16
Alignment explanation
Indices: 82183--82214 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
82173 TCAAAATTTA
82183 ATATATAAATTTTTTTT
1 ATATATAAA-TTTTTTT
82200 ATATATAAATTTTTT
1 ATATATAAATTTTTT
82215 AAATTATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATATATAAATTTTTTT
Found at i:84487 original size:56 final size:55
Alignment explanation
Indices: 84376--84483 Score: 157
Period size: 56 Copynumber: 2.0 Consensus size: 55
84366 ATTACATGTG
* *
84376 ATCATTGATTATAAAAATAACGATATTAAAAAGAAATAAGATTTATCCAATTCATA
1 ATCATTGATTATAAAAATAACGATATT-AAAAGAAATAAAATTTATCAAATTCATA
* *
84432 ATCATTGATTATAAAAATAATGATATT-AAA-AAATAAAATTTATTAAATTCAT
1 ATCATTGATTATAAAAATAACGATATTAAAAGAAATAAAATTTATCAAATTCAT
84484 CATATATTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
53 19 0.40
54 3 0.06
56 26 0.54
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (55 bp):
ATCATTGATTATAAAAATAACGATATTAAAAGAAATAAAATTTATCAAATTCATA
Found at i:84691 original size:23 final size:23
Alignment explanation
Indices: 84654--84699 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
84644 AATAAATATA
*
84654 TATTTTTATTTAAT-ATTTAATT
1 TATTTTTATTAAATAATTTAATT
84676 TATTTTTAATTAAATAATTTAATT
1 TATTTTT-ATTAAATAATTTAATT
84700 AAATTGGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.33
23 6 0.29
24 8 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTTTTATTAAATAATTTAATT
Found at i:84946 original size:22 final size:22
Alignment explanation
Indices: 84921--85054 Score: 88
Period size: 22 Copynumber: 6.3 Consensus size: 22
84911 ATTATGATTA
84921 AAATATAATTAAAATATAATAT
1 AAATATAATTAAAATATAATAT
**
84943 AAATATATATTTTAATAT-ATAT
1 AAATATA-ATTAAAATATAATAT
* * *
84965 ATATATAAATTATTAATATATTA-
1 AAATAT-AATTA-AAATATAATAT
* *
84988 AAAT-TAATATATAAA-ATATTTT
1 AAATATAAT-TA-AAATATAATAT
*
85010 AAATATAATTATAATAT-A-AT
1 AAATATAATTAAAATATAATAT
85030 AAATAT--TT-AAATATAATAT
1 AAATATAATTAAAATATAATAT
85049 AAATAT
1 AAATAT
85055 TTAAATAGGT
Statistics
Matches: 90, Mismatches: 12, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
17 5 0.06
18 3 0.03
19 8 0.09
20 7 0.08
21 10 0.11
22 33 0.37
23 22 0.24
24 2 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAATATAATTAAAATATAATAT
Found at i:84966 original size:29 final size:28
Alignment explanation
Indices: 84933--85050 Score: 106
Period size: 27 Copynumber: 4.2 Consensus size: 28
84923 ATATAATTAA
*
84933 AATATAATATAAATATATATTTTAATAT
1 AATATAATATAAATATATATTTAAATAT
84961 -ATATATATATAAATTATTAATATATTAAA-AT
1 AATATA-ATATAAA-TA-T-ATAT-TTAAATAT
*
84992 TA-AT-ATATAAA-ATAT-TTTAAATAT
1 AATATAATATAAATATATATTTAAATAT
*
85016 AATTATAATAT-AATAAATATTTAAATAT
1 AA-TATAATATAAATATATATTTAAATAT
85044 AATATAA
1 AATATAA
85051 ATATTTAAAT
Statistics
Matches: 75, Mismatches: 3, Indels: 25
0.73 0.03 0.24
Matches are distributed among these distances:
23 5 0.07
24 4 0.05
25 2 0.03
26 5 0.07
27 18 0.24
28 18 0.24
29 9 0.12
30 1 0.01
31 8 0.11
32 5 0.07
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
AATATAATATAAATATATATTTAAATAT
Found at i:84985 original size:17 final size:16
Alignment explanation
Indices: 84886--85055 Score: 87
Period size: 14 Copynumber: 10.8 Consensus size: 16
84876 AGATATGAAA
*
84886 ATAT-TAAATATTATT
1 ATATATAAATATTAAT
*
84901 TTATATAAATATT-AT
1 ATATATAAATATTAAT
84916 GAT-TA-AAATA-TAAT
1 -ATATATAAATATTAAT
* *
84930 -TAAAATATAATATAAAT
1 AT-ATATA-AATATTAAT
*
84947 ATATATTTTAATA-TATAT
1 ATATA--TAAATATTA-AT
84965 ATATATAAATTATTAAT
1 ATATATAAA-TATTAAT
84982 ATAT-TAAA-ATTAAT
1 ATATATAAATATTAAT
*
84996 ATATA-AAATATT-TT
1 ATATATAAATATTAAT
* *
85010 AAATATAATTA-TAAT
1 ATATATAAATATTAAT
85025 ATA-ATAAATATTTAAAT
1 ATATATAAATA-TT-AAT
85042 ATAATATAAATATT
1 AT-ATATAAATATT
85056 TAAATAGGTA
Statistics
Matches: 117, Mismatches: 15, Indels: 43
0.67 0.09 0.25
Matches are distributed among these distances:
12 1 0.01
13 1 0.01
14 33 0.28
15 17 0.15
16 21 0.18
17 19 0.16
18 17 0.15
19 8 0.07
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (16 bp):
ATATATAAATATTAAT
Found at i:85053 original size:11 final size:11
Alignment explanation
Indices: 84921--85054 Score: 72
Period size: 11 Copynumber: 12.5 Consensus size: 11
84911 ATTATGATTA
84921 AAATATAAT-T
1 AAATATAATAT
84931 AAAATATAATAT
1 -AAATATAATAT
*
84943 AAATATATATTT
1 AAATATA-ATAT
*
84955 TAATAT-ATAT
1 AAATATAATAT
*
84965 ATATATAAATTAT
1 AAATAT-AA-TAT
* *
84978 TAATATATTA-
1 AAATATAATAT
84988 AAAT-TAATAT
1 AAATATAATAT
* * *
84998 ATAAAATATTTT
1 A-AATATAATAT
85010 AAATATAAT-T
1 AAATATAATAT
85020 ATAATAT-A-AT
1 A-AATATAATAT
85030 AAATAT--T-T
1 AAATATAATAT
85038 AAATATAATAT
1 AAATATAATAT
85049 AAATAT
1 AAATAT
85055 TTAAATAGGT
Statistics
Matches: 94, Mismatches: 15, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
8 7 0.07
9 9 0.10
10 17 0.18
11 38 0.40
12 16 0.17
13 7 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
AAATATAATAT
Found at i:85067 original size:27 final size:28
Alignment explanation
Indices: 85009--85074 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
84999 TAAAATATTT
**
85009 TAAATATAATTATAATATAATAAATATT
1 TAAATATAATTATAATATAATAAATAGG
*
85037 TAAATATAA-TATAA-ATATTTAAATAGG
1 TAAATATAATTATAATATA-ATAAATAGG
*
85064 TAAATTTAATT
1 TAAATATAATT
85075 TTATCTTGCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 3 0.09
27 19 0.59
28 10 0.31
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (28 bp):
TAAATATAATTATAATATAATAAATAGG
Found at i:85795 original size:16 final size:16
Alignment explanation
Indices: 85760--85792 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
85750 TTTATTAGAT
85760 TATTAAGATATTTTTA
1 TATTAAGATATTTTTA
85776 TATT-A-ATATTTTTA
1 TATTAAGATATTTTTA
85790 TAT
1 TAT
85793 ATTTTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 12 0.71
15 1 0.06
16 4 0.24
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TATTAAGATATTTTTA
Found at i:96383 original size:30 final size:30
Alignment explanation
Indices: 96305--96406 Score: 92
Period size: 30 Copynumber: 3.5 Consensus size: 30
96295 TATTGCATCA
*
96305 AAATAAACTATTAAC-TTTAATTTA-AA-T
1 AAATAAACTCTTAACTTTTAATTTATAATT
* *
96332 AAA-AAAGTCTTTAAAC-TTTAATTT-TTATCT
1 AAATAAACTC-TT-AACTTTTAATTTATAAT-T
96362 AAATAAA-TCATTAACTTTTAATTTATAATT
1 AAATAAACTC-TTAACTTTTAATTTATAATT
96392 AAATAAACTCTTAAC
1 AAATAAACTCTTAAC
96407 ATAAGTCAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
26 4 0.07
27 5 0.08
28 12 0.20
29 3 0.05
30 29 0.48
31 8 0.13
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.42
Consensus pattern (30 bp):
AAATAAACTCTTAACTTTTAATTTATAATT
Found at i:96716 original size:15 final size:15
Alignment explanation
Indices: 96689--96733 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
96679 TAAATCTTAA
96689 AAAAATA-TTTTTAT
1 AAAAATATTTTTTAT
**
96703 ATTAATATTTTTTAT
1 AAAAATATTTTTTAT
96718 AAAAATATTATTTTAT
1 AAAAATATT-TTTTAT
96734 TATATAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 5 0.20
15 14 0.56
16 6 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
AAAAATATTTTTTAT
Found at i:96725 original size:21 final size:19
Alignment explanation
Indices: 96708--96743 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
96698 TTTATATTAA
96708 TATTTT-TTATAAAAATAT
1 TATTTTATTATAAAAATAT
*
96726 TATTTTATTATATAAATA
1 TATTTTATTATAAAAATA
96744 ATCGGATCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATTTTATTATAAAAATAT
Found at i:98097 original size:2 final size:2
Alignment explanation
Indices: 98090--98128 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
98080 AGGTAAATTT
98090 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
98129 TGCTATCAAA
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:99107 original size:17 final size:17
Alignment explanation
Indices: 99085--99121 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
99075 AAAATTAAAT
*
99085 ATATATACGTATATTTA
1 ATATATACGTATATTAA
*
99102 ATATATACTTATATTAA
1 ATATATACGTATATTAA
99119 ATA
1 ATA
99122 CTCACGTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (17 bp):
ATATATACGTATATTAA
Found at i:101181 original size:27 final size:27
Alignment explanation
Indices: 101147--101215 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
101137 TCGTAATTCG
101147 TATATTTATATAATTTAT-TATCGTAAT
1 TATATTTATATAATTTATATAT-GTAAT
*
101174 TATATTTA-A-AATATTATATATTTAAT
1 TATATTTATATAAT-TTATATATGTAAT
101200 T-TATATTATATAATTT
1 TATAT-TTATATAATTT
101216 TTAATATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
25 6 0.17
26 13 0.36
27 14 0.39
28 3 0.08
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (27 bp):
TATATTTATATAATTTATATATGTAAT
Found at i:101228 original size:20 final size:21
Alignment explanation
Indices: 101194--101235 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
101184 ATATTATATA
*
101194 TTTAATTTATATTATATAATT
1 TTTAATATATATTATATAATT
*
101215 TTTAATATAT-TTATATTATT
1 TTTAATATATATTATATAATT
101235 T
1 T
101236 ATTTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTAATATATATTATATAATT
Found at i:101229 original size:25 final size:25
Alignment explanation
Indices: 101198--101255 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
101188 TATATATTTA
101198 ATTTATATTATATAATTTTTAATAT
1 ATTTATATTATATAATTTTTAATAT
* * *
101223 ATTTATATTATTTATTTTTTATTAT
1 ATTTATATTATATAATTTTTAATAT
101248 A-TTATATT
1 ATTTATATT
101256 TTAATTATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 7 0.23
25 23 0.77
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (25 bp):
ATTTATATTATATAATTTTTAATAT
Found at i:101262 original size:16 final size:16
Alignment explanation
Indices: 101172--101263 Score: 58
Period size: 16 Copynumber: 6.0 Consensus size: 16
101162 TATTATCGTA
*
101172 ATTATA-TTTAA-AAT
1 ATTATATTTTAATTAT
101186 ATTATATATTTAATTTAT
1 ATTATAT-TTTAA-TTAT
101204 ATTATA---TAATT-T
1 ATTATATTTTAATTAT
101216 -TTAATATATTTATATTAT
1 ATT-ATAT-TTTA-ATTAT
*
101234 -TTAT-TTTTTATTAT
1 ATTATATTTTAATTAT
101248 ATTATATTTTAATTAT
1 ATTATATTTTAATTAT
101264 CTCTTATATC
Statistics
Matches: 62, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
11 2 0.03
12 4 0.06
13 2 0.03
14 14 0.23
15 7 0.11
16 17 0.27
17 5 0.08
18 11 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATATTTTAATTAT
Found at i:101573 original size:24 final size:25
Alignment explanation
Indices: 101527--101592 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 25
101517 TCTAAATACT
* *
101527 ATAAATATAAAAATAAATATAATATA
1 ATAAATTTAAATA-AAATATAATATA
101553 ATAAATTTAAATAAAAT-TAATATA
1 ATAAATTTAAATAAAATATAATATA
*
101577 ATATATTTAATATAAA
1 ATAAATTTAA-ATAAA
101593 TATTTTATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
24 16 0.44
25 9 0.25
26 11 0.31
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
ATAAATTTAAATAAAATATAATATA
Found at i:101592 original size:29 final size:29
Alignment explanation
Indices: 101536--101594 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
101526 TATAAATATA
*
101536 AAAATAAATATAATATAATAAATTTAAAT
1 AAAATAAATATAATATAATAAATATAAAT
* * *
101565 AAAATTAATATAATATATTTAATATAAAT
1 AAAATAAATATAATATAATAAATATAAAT
101594 A
1 A
101595 TTTTATTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAATAAATATAATATAATAAATATAAAT
Found at i:101593 original size:24 final size:24
Alignment explanation
Indices: 101537--101595 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 24
101527 ATAAATATAA
101537 AAATAAATATAATATAATAAATTT
1 AAATAAATATAATATAATAAATTT
*
101561 AAATAAA-ATTAATATAATATATTT
1 AAATAAATA-TAATATAATAAATTT
101585 AATATAAATAT
1 AA-ATAAATAT
101596 TTTATTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
23 1 0.03
24 23 0.74
25 6 0.19
26 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AAATAAATATAATATAATAAATTT
Found at i:101599 original size:14 final size:14
Alignment explanation
Indices: 101546--101597 Score: 60
Period size: 14 Copynumber: 4.1 Consensus size: 14
101536 AAAATAAATA
*
101546 TAATATAATAAATT
1 TAATATAATATATT
101560 TAA-ATAA-A-A-T
1 TAATATAATATATT
101570 TAATATAATATATT
1 TAATATAATATATT
101584 TAATATAA-ATATT
1 TAATATAATATATT
101597 T
1 T
101598 TATTTATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
10 4 0.12
11 5 0.15
12 2 0.06
13 11 0.32
14 12 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TAATATAATATATT
Found at i:101614 original size:17 final size:18
Alignment explanation
Indices: 101580--101616 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
101570 TAATATAATA
101580 TATTTAATATAAATATTT
1 TATTTAATATAAATATTT
101598 TATTT-ATATTAAA-ATTT
1 TATTTAATA-TAAATATTT
101615 TA
1 TA
101617 AATATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTTAATATAAATATTT
Found at i:102395 original size:5 final size:5
Alignment explanation
Indices: 102335--102472 Score: 54
Period size: 5 Copynumber: 27.6 Consensus size: 5
102325 TATGTTTTTT
* * * *
102335 TATTA TAATTA TATATA TTTTA TATT- TATTT TAATTT TATTA AATTA
1 TATTA T-ATTA TAT-TA TATTA TATTA TATTA T-ATTA TATTA TATTA
* * * * * * *
102382 -ATAA T-TTA TATTA TATAAA TTTTA AATTA TATATT TATTA TATCA TAATA
1 TATTA TATTA TATTA TAT-TA TATTA TATTA TAT-TA TATTA TATTA TATTA
* * *
102432 TATTT TAATA -ATTG TATTA TATTA TATT- TA-TA TAATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA T-ATTA TAT
102473 ATAAAATTAT
Statistics
Matches: 97, Mismatches: 24, Indels: 24
0.67 0.17 0.17
Matches are distributed among these distances:
3 1 0.01
4 15 0.15
5 57 0.59
6 24 0.25
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (5 bp):
TATTA
Found at i:102404 original size:38 final size:37
Alignment explanation
Indices: 102332--102473 Score: 91
Period size: 38 Copynumber: 3.8 Consensus size: 37
102322 ATTTATGTTT
* **
102332 TTTTATTATAATTATATATATTTTATATTTATTTTAA
1 TTTTATTATAATTATATATATATTATATAAATTTTAA
*
102369 TTTTATTA-AATTAATAATTTATATTATATAAATTTTAA
1 TTTTATTATAATT-AT-ATATATATTATATAAATTTTAA
* * *
102407 -ATTA-TAT-ATT-TAT-TATATCATAATATATTTTAA
1 TTTTATTATAATTATATATATATTAT-ATAAATTTTAA
102440 TAATTGTATTAT-ATTATATTTATATAATTATATA
1 T--TT-TATTATAATTATA--TATAT-ATTATATA
102474 TAAAATTATT
Statistics
Matches: 82, Mismatches: 9, Indels: 23
0.72 0.08 0.20
Matches are distributed among these distances:
32 7 0.09
33 12 0.15
34 1 0.01
36 10 0.12
37 15 0.18
38 24 0.29
39 2 0.02
41 1 0.01
42 6 0.07
43 4 0.05
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.58
Consensus pattern (37 bp):
TTTTATTATAATTATATATATATTATATAAATTTTAA
Found at i:102405 original size:16 final size:16
Alignment explanation
Indices: 102337--102414 Score: 54
Period size: 16 Copynumber: 4.8 Consensus size: 16
102327 TGTTTTTTTA
*
102337 TTATAATTATATATATT
1 TTAT-ATTATATAAATT
* *
102354 TTATATTTATTTTAATT
1 TTATA-TTATATAAATT
102371 TTATTAAATTA-AT-AA-T
1 TTA-T--ATTATATAAATT
102387 TTATATTATATAAATT
1 TTATATTATATAAATT
*
102403 TTAAATTATATA
1 TTATATTATATA
102415 TTTATTATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
13 4 0.08
14 2 0.04
15 3 0.06
16 17 0.35
17 17 0.35
18 2 0.04
19 3 0.06
20 1 0.02
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TTATATTATATAAATT
Found at i:102423 original size:32 final size:33
Alignment explanation
Indices: 102339--102466 Score: 93
Period size: 32 Copynumber: 3.8 Consensus size: 33
102329 TTTTTTTATT
* * *
102339 ATAATTATATATATTTTATATTTATTTTAATTTTA
1 ATAATTATAT-TATATTATA-TTATATAAATTTTA
* *
102374 TTAAATTA-ATAAT-TTATATTATATAAATTTT-
1 AT-AATTATATTATATTATATTATATAAATTTTA
* * *
102405 A-AATTATATATTTATTATATCATAATATATTTTA
1 ATAATTATAT-TATATTATATTAT-ATAAATTTTA
*
102439 ATAATTGTATTATATTATATTTATATAA
1 ATAATTATATTATATTATA-TTATATAA
102467 TTATATATAA
Statistics
Matches: 72, Mismatches: 13, Indels: 17
0.71 0.13 0.17
Matches are distributed among these distances:
29 5 0.07
30 2 0.03
31 1 0.01
32 19 0.26
33 13 0.18
34 14 0.19
35 13 0.18
36 5 0.07
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (33 bp):
ATAATTATATTATATTATATTATATAAATTTTA
Found at i:105225 original size:16 final size:16
Alignment explanation
Indices: 105204--105237 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
105194 TTCATCGATT
105204 TCTTAATTAATTAATA
1 TCTTAATTAATTAATA
105220 TCTTAATTAATTAATA
1 TCTTAATTAATTAATA
105236 TC
1 TC
105238 GTTTGATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (16 bp):
TCTTAATTAATTAATA
Found at i:105267 original size:21 final size:19
Alignment explanation
Indices: 105243--105282 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
105233 ATATCGTTTG
105243 ATTTATTATATCAATTTAATA
1 ATTTATTATAT-AA-TTAATA
*
105264 ATTTATTTTATAATTAATA
1 ATTTATTATATAATTAATA
105283 TAAAAAGCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 2 0.11
21 10 0.56
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTATTATATAATTAATA
Found at i:105895 original size:13 final size:13
Alignment explanation
Indices: 105877--105905 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
105867 CATTTTATTT
105877 TGAAAAATTTTC-
1 TGAAAAATTTTCA
105889 TGAAAAATTTTCA
1 TGAAAAATTTTCA
105902 TGAA
1 TGAA
105906 TTGAACATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (13 bp):
TGAAAAATTTTCA
Found at i:106860 original size:27 final size:27
Alignment explanation
Indices: 106820--106871 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
106810 AAATTAATTT
* *
106820 AATTTAATATAAATCAATAATTATTAA
1 AATTTAATATAAATAAATAAATATTAA
106847 AATTTAA-ATAAAATAAATAAATATT
1 AATTTAATAT-AAATAAATAAATATT
106872 TTTTAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (27 bp):
AATTTAATATAAATAAATAAATATTAA
Found at i:108452 original size:22 final size:22
Alignment explanation
Indices: 108419--108460 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
108409 AATATGATGC
108419 ATAATATGAATTTAATATAAAA
1 ATAATATGAATTTAATATAAAA
108441 ATAAT-TGAAATTTAATATAA
1 ATAATATG-AATTTAATATAA
108461 TATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (22 bp):
ATAATATGAATTTAATATAAAA
Found at i:108481 original size:14 final size:15
Alignment explanation
Indices: 108460--108559 Score: 82
Period size: 16 Copynumber: 6.5 Consensus size: 15
108450 ATTTAATATA
108460 ATATAAAA-AT-AAT
1 ATATAAAATATAAAT
108473 ATGATAAAATATAAAT
1 AT-ATAAAATATAAAT
108489 ATATAAACATATTAAAAT
1 ATATAAA-ATA-T-AAAT
*
108507 TTATATAAATATATAAT
1 ATATA-AAATATA-AAT
* *
108524 ATTTTAAATAT-AAT
1 ATATAAAATATAAAT
108538 -TATAATAATATAAAT
1 ATATAA-AATATAAAT
108553 ATATAAA
1 ATATAAA
108560 GTATTCAAAT
Statistics
Matches: 70, Mismatches: 6, Indels: 20
0.73 0.06 0.21
Matches are distributed among these distances:
13 5 0.07
14 14 0.20
15 11 0.16
16 20 0.29
17 7 0.10
18 11 0.16
19 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (15 bp):
ATATAAAATATAAAT
Found at i:108491 original size:27 final size:25
Alignment explanation
Indices: 108431--108491 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 25
108421 AATATGAATT
108431 TAATATAAAAATAATTGAAATTTAATA
1 TAATATAAAAATAATTGAAA--TAATA
108458 TAATATAAAAATAATATGATAA-AATA
1 TAATATAAAAATAAT-TGA-AATAATA
108484 TAAATATA
1 T-AATATA
108492 TAAACATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
26 5 0.16
27 21 0.68
28 3 0.10
29 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (25 bp):
TAATATAAAAATAATTGAAATAATA
Found at i:108492 original size:8 final size:8
Alignment explanation
Indices: 108470--108559 Score: 58
Period size: 8 Copynumber: 10.2 Consensus size: 8
108460 ATATAAAAAT
108470 AATATGATA
1 AATAT-ATA
108479 AA-ATATA
1 AATATATA
108486 AATATATA
1 AATATATA
*
108494 AACATATTAA
1 AATATA-T-A
108504 AATTTATATA
1 AA--TATATA
108514 AATATAT-
1 AATATATA
*
108521 AATATTTTA
1 AATA-TATA
108530 AATATAATTA
1 AATAT-A-TA
108540 TAATAATATA
1 -AAT-ATATA
108550 AATATATA
1 AATATATA
108558 AA
1 AA
108560 GTATTCAAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 23
0.71 0.04 0.25
Matches are distributed among these distances:
7 9 0.14
8 27 0.41
9 10 0.15
10 10 0.15
11 5 0.08
12 5 0.08
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (8 bp):
AATATATA
Found at i:108500 original size:26 final size:26
Alignment explanation
Indices: 108432--108522 Score: 62
Period size: 27 Copynumber: 3.3 Consensus size: 26
108422 ATATGAATTT
*
108432 AATATAAAAATAAT-TGAAATTTAATAT-
1 AATATATAAATAATATGAAA---AATATA
*
108459 AATATAAAAATAATATGATAAAATATA
1 AATATATAAATAATATGA-AAAATATA
* *
108486 AATATATAAA-CATATTAAAATTTATATA
1 AATATATAAATAATATGAAAA---ATATA
108514 AATATATAA
1 AATATATAA
108523 TATTTTAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
25 3 0.05
26 10 0.18
27 23 0.42
28 17 0.31
29 2 0.04
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (26 bp):
AATATATAAATAATATGAAAAATATA
Found at i:108529 original size:20 final size:20
Alignment explanation
Indices: 108488--108546 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
108478 AAAATATAAA
*
108488 TATATAAACATATTAA-AATT
1 TATATAAATATA-TAATAATT
*
108508 TATATAAATATATAATATTT
1 TATATAAATATATAATAATT
*
108528 TAAATATAAT-TATAATAAT
1 TATATA-AATATATAATAAT
108547 ATAAATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TATATAAATATATAATAATT
Found at i:108551 original size:20 final size:20
Alignment explanation
Indices: 108518--108555 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
108508 TATATAAATA
* *
108518 TATAATATTTTAAATATAAT
1 TATAATAATATAAATATAAT
108538 TATAATAATATAAATATA
1 TATAATAATATAAATATA
108556 TAAAGTATTC
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TATAATAATATAAATATAAT
Done.