Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold77
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: 1374688
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.34
Warning! 47366 characters in sequence are not A, C, G, or T
File 1 of 9
Found at i:1162 original size:17 final size:17
Alignment explanation
Indices: 1130--1161 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
1120 ATGATGTTGT
1130 ATATACTATTATATATA
1 ATATACTATTATATATA
1147 ATAT-CTA-TATATATA
1 ATATACTATTATATATA
1162 TCTGTTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.53
16 3 0.20
17 4 0.27
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATACTATTATATATA
Found at i:5179 original size:14 final size:14
Alignment explanation
Indices: 5150--5214 Score: 57
Period size: 14 Copynumber: 4.7 Consensus size: 14
5140 AATACAACAT
*
5150 AAAATAT-AATAAA
1 AAAATATAAATATA
5163 AAAATATAAATATA
1 AAAATATAAATATA
5177 AAAATAT--AT-TA
1 AAAATATAAATATA
*
5188 AAATTAATATAATATAA
1 AAAAT-ATA-AATAT-A
5205 AAAATATAAA
1 AAAATATAAA
5215 AATTATTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
11 6 0.14
12 4 0.10
13 7 0.17
14 12 0.29
15 4 0.10
16 4 0.10
17 5 0.12
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAATATAAATATA
Found at i:5183 original size:27 final size:26
Alignment explanation
Indices: 5150--5216 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 26
5140 AATACAACAT
5150 AAAATATAATAAAAAAATATAAATATA
1 AAAATATAATAAAAAAATAT-AATATA
* *
5177 AAAATATATTAAAATTAATATAATATA
1 AAAATATAATAAAA-AAATATAATATA
5204 AAAA-AT-ATAAAAA
1 AAAATATAATAAAAA
5217 TTATTAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 5 0.14
26 2 0.06
27 23 0.66
28 5 0.14
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (26 bp):
AAAATATAATAAAAAAATATAATATA
Found at i:5225 original size:16 final size:17
Alignment explanation
Indices: 5158--5225 Score: 61
Period size: 16 Copynumber: 4.0 Consensus size: 17
5148 ATAAAATATA
*
5158 ATAAAAAAATA-TAAAT
1 ATAAAAATATATTAAAT
5174 ATAAAAATATATTAAA-
1 ATAAAAATATATTAAAT
**
5190 ATTAATATAATATAAAAAAT
1 A-TAA-A-AATATATTAAAT
5210 ATAAAAAT-TATTAAAT
1 ATAAAAATATATTAAAT
5226 TTATAGCATT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
16 17 0.40
17 10 0.24
18 2 0.05
19 12 0.29
20 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAATATATTAAAT
Found at i:5431 original size:27 final size:28
Alignment explanation
Indices: 5401--5466 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
5391 GATTATTTAA
*
5401 ATATAATTTAATTTTT-AATTTTTAAAT
1 ATATAATTTAATTTTTAAAATTTTAAAT
*
5428 ATATAA-ATAATTTTTAAAATTTTAAAT
1 ATATAATTTAATTTTTAAAATTTTAAAT
*
5455 ATTTAATATTAA
1 ATATAAT-TTAA
5467 ATATATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 8 0.25
27 21 0.66
29 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
ATATAATTTAATTTTTAAAATTTTAAAT
Found at i:5855 original size:24 final size:23
Alignment explanation
Indices: 5825--5887 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
5815 AGTTATTTAT
5825 TTTATTTTTTAAAATTTTAAAAA
1 TTTATTTTTTAAAATTTTAAAAA
*
5848 TATTATTTTTTAATAA-TTTAATAA
1 T-TTATTTTTTAA-AATTTTAAAAA
*
5872 TTT-TTTATTAAAATTT
1 TTTATTTTTTAAAATTT
5888 AAAGTTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
21 2 0.06
22 9 0.26
23 3 0.09
24 19 0.54
25 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTATTTTTTAAAATTTTAAAAA
Found at i:6301 original size:13 final size:15
Alignment explanation
Indices: 6269--6306 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
6259 TCATATTTTT
6269 ATTATTTTTAATATA
1 ATTATTTTTAATATA
6284 ATTATTTTTAA-A-A
1 ATTATTTTTAATATA
6297 ATTATATTTT
1 ATTAT-TTTT
6307 TTTTGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.27
14 5 0.23
15 11 0.50
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTATTTTTAATATA
Found at i:6377 original size:29 final size:29
Alignment explanation
Indices: 6345--6411 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
6335 TTTTAAATAA
*
6345 ATTTTAATT-TATTCATATA-TTTATTTTAT
1 ATTTTAATTGTA--CATATATTTTATTTCAT
6374 A-TTTATATTGTACATATATTTTATTTCAT
1 ATTTTA-ATTGTACATATATTTTATTTCAT
6403 ATTTTAATT
1 ATTTTAATT
6412 AATTTTTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
28 10 0.30
29 17 0.52
30 6 0.18
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (29 bp):
ATTTTAATTGTACATATATTTTATTTCAT
Found at i:7608 original size:25 final size:24
Alignment explanation
Indices: 7551--7668 Score: 72
Period size: 24 Copynumber: 4.9 Consensus size: 24
7541 AATTTAATAA
7551 TTTATATATTTTGATATAT-TTATAT
1 TTTATATATTTT-ATATATATTAT-T
* *
7576 ATT-CATATTTTATATATATTATT
1 TTTATATATTTTATATATATTATT
*
7599 TTTATGATATTATT-TAAATATTATAT
1 TTTAT-ATATT-TTATATATATTAT-T
*
7625 TTTA-ATTATTTT-T-TATATTATA
1 TTTATA-TATTTTATATATATTATT
7647 TTT-T-TATTTTATAATTATATTA
1 TTTATATATTTTAT-A-TATATTA
7669 GGTTTAATAT
Statistics
Matches: 75, Mismatches: 7, Indels: 23
0.71 0.07 0.22
Matches are distributed among these distances:
20 6 0.08
21 1 0.01
22 3 0.04
23 16 0.21
24 22 0.29
25 20 0.27
26 7 0.09
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTATATATTTTATATATATTATT
Found at i:7632 original size:11 final size:12
Alignment explanation
Indices: 7565--7668 Score: 70
Period size: 14 Copynumber: 8.2 Consensus size: 12
7555 TATATTTTGA
7565 TATATTTATATAT
1 TATATTT-TATAT
7578 TCATATTTTATAT
1 T-ATATTTTATAT
7591 ATATTATTTT-TAT
1 -TA-TATTTTATAT
*
7604 GATATTATTTAAATAT
1 --TA-TATTT-TATAT
7620 TATATTTTA-AT
1 TATATTTTATAT
*
7631 TATTTTTTATAT
1 TATATTTTATAT
7643 TATATTTT-TAT
1 TATATTTTATAT
* *
7654 TTTATAATTATAT
1 TATAT-TTTATAT
7667 TA
1 TA
7669 GGTTTAATAT
Statistics
Matches: 75, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
11 17 0.23
12 12 0.16
13 19 0.25
14 24 0.32
16 3 0.04
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (12 bp):
TATATTTTATAT
Found at i:7649 original size:36 final size:40
Alignment explanation
Indices: 7564--7649 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 40
7554 ATATATTTTG
*
7564 ATATATTTATATATTCATATTTTATATATATTATTTTTAT
1 ATATATTTAAATATTCATATTTTATATATATTATTTTTAT
7604 GATATTATTTAAATATT-ATATTTTA-AT-TA-T-TTTTTAT
1 -ATA-TATTTAAATATTCATATTTTATATATATTATTTTTAT
7641 ATTATATTT
1 A-TATATTT
7650 TTATTTTATA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
36 6 0.14
37 9 0.21
38 1 0.02
39 2 0.05
40 2 0.05
41 11 0.26
42 11 0.26
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.63
Consensus pattern (40 bp):
ATATATTTAAATATTCATATTTTATATATATTATTTTTAT
Found at i:9938 original size:30 final size:30
Alignment explanation
Indices: 9885--9941 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
9875 AGTTAAGTTA
9885 GATAAAATAAACAAAATTAATCAAAATCAG
1 GATAAAATAAACAAAATTAATCAAAATCAG
* * * *
9915 GATAAATTAAATAGAATTGATCAAAAT
1 GATAAAATAAACAAAATTAATCAAAAT
9942 AAAAAAAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.60, C:0.07, G:0.09, T:0.25
Consensus pattern (30 bp):
GATAAAATAAACAAAATTAATCAAAATCAG
Found at i:13593 original size:20 final size:20
Alignment explanation
Indices: 13555--13594 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
13545 TAATTCTTTC
13555 ATTTTTTAACTAAAATAATAT
1 ATTTTTTAAC-AAAATAATAT
13576 ATTTTTTAA-AAAATTAATA
1 ATTTTTTAACAAAA-TAATA
13595 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTTTTAACAAAATAATAT
Found at i:13893 original size:3 final size:3
Alignment explanation
Indices: 13885--13913 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13875 ATTTTGATAT
13885 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13914 TATGGTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14289 original size:27 final size:28
Alignment explanation
Indices: 14248--14303 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
14238 AAATCTAAAT
14248 TATTATAAAAGAAATAAT-TAAATTTAA
1 TATTATAAAAGAAATAATATAAATTTAA
* * * *
14275 TATTATAGAATAAATTATATCAATTTAA
1 TATTATAAAAGAAATAATATAAATTTAA
14303 T
1 T
14304 TGATGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (28 bp):
TATTATAAAAGAAATAATATAAATTTAA
Found at i:14497 original size:23 final size:21
Alignment explanation
Indices: 14456--14498 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14446 CAGTTTATTT
*
14456 TAAAAAAATACTAATTTTTAC
1 TAAAAAAATACTAAATTTTAC
14477 TAAAAAAACTACTTAAATTTTA
1 TAAAAAAA-TAC-TAAATTTTA
14499 TACGGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 3 0.16
23 8 0.42
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAAAAATACTAAATTTTAC
Found at i:15253 original size:19 final size:19
Alignment explanation
Indices: 15229--15267 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
15219 TATTATTTTT
*
15229 TAAAAATTTTAAAAATATA
1 TAAAAATATTAAAAATATA
*
15248 TAAAAATATTAAATATATA
1 TAAAAATATTAAAAATATA
15267 T
1 T
15268 TAAATAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAAATATTAAAAATATA
Found at i:15277 original size:19 final size:17
Alignment explanation
Indices: 15210--15280 Score: 54
Period size: 19 Copynumber: 4.0 Consensus size: 17
15200 ATTTAAATAA
*
15210 ATATAAAAATATT-ATT
1 ATATAAAAATATTAAAT
* * *
15226 TTTTAAAAATTTTAAAAAT
1 ATATAAAAATATT--AAAT
15245 ATATAAAAATATTAAAT
1 ATATAAAAATATTAAAT
*
15262 ATATATTAAATAATTAAAT
1 ATATA-AAAAT-ATTAAAT
15281 CTAAAGCAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
16 10 0.24
17 9 0.21
18 4 0.10
19 19 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATATAAAAATATTAAAT
Found at i:16559 original size:18 final size:17
Alignment explanation
Indices: 16528--16566 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
16518 ATTCGAGTTG
16528 AATTAATTTAAATTTTTA
1 AATTAATTTAAA-TTTTA
* *
16546 AATTATTTTTAATTTTA
1 AATTAATTTAAATTTTA
16563 AATT
1 AATT
16567 CTGATTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AATTAATTTAAATTTTA
Found at i:16713 original size:22 final size:22
Alignment explanation
Indices: 16665--16713 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
16655 ATTTAAATCA
**
16665 ATTAAATTTAATATTTGAGTTT
1 ATTAAATTTAATATTTGACATT
*
16687 ATTAAATTTAATAATTTTACATT
1 ATTAAATTTAAT-ATTTGACATT
16710 -TTAA
1 ATTAA
16714 GCTTAATTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (22 bp):
ATTAAATTTAATATTTGACATT
Found at i:16841 original size:24 final size:23
Alignment explanation
Indices: 16790--16844 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
16780 TTTGATTGAT
16790 TTTAAATT--ATTAATTTTTTTA
1 TTTAAATTAAATTAATTTTTTTA
*
16811 -TTGAATTAAATTAATTTTTTTAA
1 TTTAAATTAAATTAATTTTTTT-A
16834 TTTAAATTAAA
1 TTTAAATTAAA
16845 ATTGATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 6 0.21
22 12 0.43
23 1 0.04
24 9 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTAAATTAAATTAATTTTTTTA
Found at i:19256 original size:15 final size:16
Alignment explanation
Indices: 19238--19283 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
19228 ACATATTAAT
19238 AATTTTTATAATA-TA
1 AATTTTTATAATATTA
*
19253 AATTTTAAT-ATATTA
1 AATTTTTATAATATTA
*
19268 ATATTTTTATATTATT
1 A-ATTTTTATAATATT
19284 TTTTATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 3 0.12
15 11 0.44
16 7 0.28
17 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTTTTATAATATTA
Found at i:19280 original size:14 final size:14
Alignment explanation
Indices: 19230--19299 Score: 67
Period size: 12 Copynumber: 4.9 Consensus size: 14
19220 ATAAATTAAC
19230 ATATTAATAATTTTT
1 ATATTAAT-ATTTTT
19245 ATAATATAA-ATTTTAAT
1 AT-AT-TAATATTTT--T
19262 ATATTAATATTTTT
1 ATATTAATATTTTT
19276 ATATT-AT-TTTTT
1 ATATTAATATTTTT
19288 ATATT-ATATTTT
1 ATATTAATATTTT
19300 ACATCATGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 14
0.78 0.00 0.22
Matches are distributed among these distances:
12 12 0.24
13 6 0.12
14 6 0.12
15 10 0.20
16 9 0.18
17 6 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATATTAATATTTTT
Found at i:19283 original size:17 final size:16
Alignment explanation
Indices: 19230--19279 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
19220 ATAAATTAAC
19230 ATATTAATAATTTTTAT
1 ATATTAAT-ATTTTTAT
*
19247 A-ATATAA-ATTTTAAT
1 ATAT-TAATATTTTTAT
19262 ATATTAATATTTTTAT
1 ATATTAATATTTTTAT
19278 AT
1 AT
19280 TATTTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 11 0.39
16 13 0.46
17 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATTAATATTTTTAT
Found at i:19297 original size:31 final size:32
Alignment explanation
Indices: 19218--19278 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
19208 TTATGTATTT
*
19218 ATATAAA--TTAACATATTAATAATTTTTATA
1 ATATAAATTTTAATATATTAATAATTTTTATA
19248 ATATAAATTTTAATATATTAAT-ATTTTTATA
1 ATATAAATTTTAATATATTAATAATTTTTATA
19279 TTATTTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 7 0.25
31 9 0.32
32 12 0.43
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (32 bp):
ATATAAATTTTAATATATTAATAATTTTTATA
Found at i:19311 original size:24 final size:24
Alignment explanation
Indices: 19261--19322 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
19251 TAAATTTTAA
* * *
19261 TATATTAATATTTTTATATTATTTTT
1 TATATT-ATA-TTTTACATCATGTTT
19287 TATATTATATTTTACATCATGTTT
1 TATATTATATTTTACATCATGTTT
* *
19311 TATTTTTTATTT
1 TATATTATATTT
19323 CGTATTCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 22 0.71
25 3 0.10
26 6 0.19
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (24 bp):
TATATTATATTTTACATCATGTTT
Found at i:22309 original size:15 final size:16
Alignment explanation
Indices: 22264--22310 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
22254 TCGAATTTTA
*
22264 AAATAAATATTAGATAT
1 AAATATATATTA-ATAT
*
22281 AAATATATTTTTAATAT
1 AAATATA-TATTAATAT
22298 AAATATA-ATTAAT
1 AAATATATATTAAT
22311 TTTTTTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 5 0.19
17 17 0.65
18 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
AAATATATATTAATAT
Found at i:23126 original size:17 final size:17
Alignment explanation
Indices: 23070--23149 Score: 67
Period size: 17 Copynumber: 4.8 Consensus size: 17
23060 TACGATTATA
23070 AAATATAAATATAATAT-
1 AAATA-AAATATAATATG
*
23087 AAA-AAAATTAAAATATG
1 AAATAAAA-TATAATATG
* *
23104 ACATAAAATATAAGATG
1 AAATAAAATATAATATG
*
23121 AAATAAAAAATAATAT-
1 AAATAAAATATAATATG
* *
23137 AAACATAATATAA
1 AAATAAAATATAA
23150 ATACAAAAAT
Statistics
Matches: 50, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
15 3 0.06
16 18 0.36
17 25 0.50
18 4 0.08
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.26
Consensus pattern (17 bp):
AAATAAAATATAATATG
Found at i:23303 original size:3 final size:3
Alignment explanation
Indices: 23295--23323 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
23285 TTAGATGAAT
23295 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
23324 GTTCTTGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23499 original size:21 final size:20
Alignment explanation
Indices: 23475--23514 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
23465 ATTTGGAACA
*
23475 TAAGTATATTTGATATTTTAT
1 TAAGTATATTTAAT-TTTTAT
23496 TAAGTATATTTAATTTTTA
1 TAAGTATATTTAATTTTTA
23515 AATTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
TAAGTATATTTAATTTTTAT
Found at i:23539 original size:16 final size:15
Alignment explanation
Indices: 23520--23560 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
23510 TTTTAAATTT
23520 TTATATATTT-AAAA
1 TTATATATTTAAAAA
23534 TGT-TATATTTAAAAA
1 T-TATATATTTAAAAA
23549 TTA-ATATTTAAA
1 TTATATATTTAAA
23561 TACATATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TTATATATTTAAAAA
Found at i:24007 original size:2 final size:2
Alignment explanation
Indices: 24002--24028 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23992 AAATATATTT
24002 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
24029 GAAATAAGCG
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:24095 original size:46 final size:46
Alignment explanation
Indices: 24045--24132 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 46
24035 AGCGATGCTA
* * *
24045 AATATAGCTATGCACTTGATGGGTATATTAAATACTTTAAAAGTTT
1 AATATAACTATACACTTGATGAGTATATTAAATACTTTAAAAGTTT
* * * *
24091 AATATAATTATATATTTGATGAGTATATTAAATATTTTAAAA
1 AATATAACTATACACTTGATGAGTATATTAAATACTTTAAAA
24133 TTTTTTTTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 35 1.00
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (46 bp):
AATATAACTATACACTTGATGAGTATATTAAATACTTTAAAAGTTT
Found at i:24494 original size:24 final size:23
Alignment explanation
Indices: 24467--24541 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 23
24457 AAGTCTTAAA
*
24467 ATTTTTATTTAGTTTATTATT-TTT
1 ATTTTT-TTTAGTTAATT-TTATTT
24491 ATTTGTTTTTAGTTAATTTTATTT
1 ATTT-TTTTTAGTTAATTTTATTT
*
24515 ATTTTTTTTATGATTAA-ATTATTT
1 ATTTTTTTTA-G-TTAATTTTATTT
24539 ATT
1 ATT
24542 AATTTTATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
23 8 0.18
24 31 0.69
25 6 0.13
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (23 bp):
ATTTTTTTTAGTTAATTTTATTT
Found at i:24501 original size:10 final size:10
Alignment explanation
Indices: 24467--24525 Score: 61
Period size: 10 Copynumber: 6.2 Consensus size: 10
24457 AAGTCTTAAA
24467 ATTTTTATTT
1 ATTTTTATTT
*
24477 A-GTTTA-TT
1 ATTTTTATTT
24485 ATTTTTATTT
1 ATTTTTATTT
* *
24495 GTTTTTAGTT
1 ATTTTTATTT
*
24505 AATTTTATTT
1 ATTTTTATTT
24515 ATTTTT-TTT
1 ATTTTTATTT
24524 AT
1 AT
24526 GATTAAATTA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
8 3 0.08
9 13 0.33
10 23 0.59
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (10 bp):
ATTTTTATTT
Found at i:27148 original size:16 final size:15
Alignment explanation
Indices: 27123--27152 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
27113 TTTTATTAGG
27123 TTTAATCATTTTAAA
1 TTTAATCATTTTAAA
27138 TTTAGATCATTTTAA
1 TTTA-ATCATTTTAA
27153 GTTAATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (15 bp):
TTTAATCATTTTAAA
Found at i:32217 original size:2 final size:2
Alignment explanation
Indices: 32210--32245 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
32200 CCTAAATCCC
32210 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
32246 TTCACTTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33576 original size:17 final size:17
Alignment explanation
Indices: 33535--33576 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
33525 AATAATTATC
33535 ATATATTTTATTTTTAA
1 ATATATTTTATTTTTAA
33552 AT-TAATTTTATTTTTAA
1 ATAT-ATTTTATTTTTAA
33569 ATATATTT
1 ATATATTT
33577 CAGAAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATATTTTATTTTTAA
Found at i:33880 original size:419 final size:421
Alignment explanation
Indices: 33315--34105 Score: 1179
Period size: 419 Copynumber: 1.9 Consensus size: 421
33305 TAAATTTAAT
*
33315 TATAAATATTAATATAAAAATAATTTTTTAATATTATTTTAAATAATAATATAAACTTTTTAATC
1 TATAAATATTAATATAAAAATAATTTTTTAATATTATTTTAAATAATAATATAAACTTTCTAATC
** * * *
33380 AACCTGAAATAAACTTTAATAATAAAAATAAAAATTTAACTAAAATTTGATCTATAAATAAATTT
66 AACCCCAAACAAACTTTAATAATAAAAATAAAAATTTAACTAAAATTTAATCCATAAATAAATTT
* * *
33445 AATAACATTTATTTTCTTCCATTTTACTTTATATTTTGAGTTTATTTTTATGCATTATC-TAA-T
131 AATAACATTTATTTTCTTCCATTTCACTTTATATTTTGAGTTAATTTTTATACATTATCATAATT
* *
33508 -T-TTATAAATGAAATTAAAATAA-TTATCATATATTTTA-TTTTTAAATTAATTTTAT-TTTTA
196 ATGTTACAAATAAAATTAAAA-AATTTATCATATATTTTATTTTTTAAATTAATTTTATATTTTA
* * *
33568 AATATATTTCAGAAATTTATATCAATAAAATTTAAAAATATCATTTATGATAAATAAAATAATTT
260 AATATATTTCAAAAATTTATATCAATAAAATTTAAAAATAT--TAT-TGAT-AAT-AAATAACTT
*
33633 TCATTAATATTTTTACC-AAAACACTTA-TTTTTTACCAAAATAAAAATCCCAAAGTACCAATCC
320 CCATTAATATTTTTACCTAAAA-ACTTATTTTTTTACCAAAATAAAAATCCCAAAGTACCAATCC
33696 TAACAAATGAGCAATTCACCCTTATTAATATAAAAATA
384 TAACAAATGAGCAATTCACCCTTATTAATATAAAAATA
33734 TATAAATATTAATATAAAAAT-ATTTTTTAATATTATTTTAAATAATAATATAAACTTTCTAATC
1 TATAAATATTAATATAAAAATAATTTTTTAATATTATTTTAAATAATAATATAAACTTTCTAATC
* **
33798 AACCCCAAACAAACTTTAATACTAAAAATAAAAAATTTAACTAAAATTTAATCCATAAATTGATT
66 AACCCCAAACAAACTTTAATAATAAAAAT-AAAAATTTAACTAAAATTTAATCCATAAATAAATT
33863 TAATAACATTTATTTTCTTCCATTTCACTTTATATTTTGAGTTAATTTTTATACATTATCAATGA
130 TAATAACATTTATTTTCTTCCATTTCACTTTATATTTTGAGTTAATTTTTATACATTATC----A
*
33928 TAACTTTAATGTTACAAATAAAATTAAAAAATTTATCATATATTTTATTTTTTAAATTAATTTTT
191 TAA--TT-ATGTTACAAATAAAATTAAAAAATTTATCATATATTTTATTTTTTAAATTAATTTTA
*
33993 TATTTTAAATATATTTCAAAAATTTATATCAATAAAATTTAAAAATATTATTGATGATAAATAAC
253 TATTTTAAATATATTTCAAAAATTTATATCAATAAAATTTAAAAATATTATTGATAATAAATAAC
*
34058 TTCCATTGATATTTTTACCTAAAAACTTATTTTTTTTACCAAAATAAA
318 TTCCATTAATATTTTTACCTAAAAACTTA-TTTTTTTACCAAAATAAA
34106 TCAGACATCA
Statistics
Matches: 333, Mismatches: 21, Indels: 26
0.88 0.06 0.07
Matches are distributed among these distances:
418 67 0.20
419 109 0.33
424 3 0.01
427 29 0.09
428 6 0.02
429 24 0.07
430 33 0.10
431 17 0.05
432 45 0.14
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (421 bp):
TATAAATATTAATATAAAAATAATTTTTTAATATTATTTTAAATAATAATATAAACTTTCTAATC
AACCCCAAACAAACTTTAATAATAAAAATAAAAATTTAACTAAAATTTAATCCATAAATAAATTT
AATAACATTTATTTTCTTCCATTTCACTTTATATTTTGAGTTAATTTTTATACATTATCATAATT
ATGTTACAAATAAAATTAAAAAATTTATCATATATTTTATTTTTTAAATTAATTTTATATTTTAA
ATATATTTCAAAAATTTATATCAATAAAATTTAAAAATATTATTGATAATAAATAACTTCCATTA
ATATTTTTACCTAAAAACTTATTTTTTTACCAAAATAAAAATCCCAAAGTACCAATCCTAACAAA
TGAGCAATTCACCCTTATTAATATAAAAATA
Found at i:34008 original size:18 final size:18
Alignment explanation
Indices: 33965--34008 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
33955 AAAATTTATC
33965 ATATATTTTATTTTTTAA
1 ATATATTTTATTTTTTAA
33983 AT-TAATTTT-TTATTTTAA
1 ATAT-ATTTTATT-TTTTAA
34001 ATATATTT
1 ATATATTT
34009 CAAAAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.13
18 19 0.83
19 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATATATTTTATTTTTTAA
Found at i:37501 original size:21 final size:22
Alignment explanation
Indices: 37460--37501 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
37450 ATTTTTATAT
*
37460 TCGTATTATATTCATATATTTTA
1 TCGTATTATAATCA-ATATTTTA
37483 TCGTATTATAATC-ATATTT
1 TCGTATTATAATCAATATTT
37502 AAAATGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
23 12 0.67
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.55
Consensus pattern (22 bp):
TCGTATTATAATCAATATTTTA
Found at i:37585 original size:25 final size:25
Alignment explanation
Indices: 37556--37608 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
37546 TATTATATAG
*
37556 ATTTTGAAATA-TATATTCGTGTCGT
1 ATTTT-AAATATTATATTCGTGTCAT
* *
37581 ATTTTAATTATTTTATTCGTGTCAT
1 ATTTTAAATATTATATTCGTGTCAT
37606 ATT
1 ATT
37609 CTTATAATCG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (25 bp):
ATTTTAAATATTATATTCGTGTCAT
Found at i:37743 original size:112 final size:112
Alignment explanation
Indices: 37401--37748 Score: 274
Period size: 112 Copynumber: 3.1 Consensus size: 112
37391 AATCCATATT
* *
37401 ATTTATATAATTCATACTTAAAATGAGTTTATATTTGATTCACTTTAGGATTTTTATATTCGTAT
1 ATTTATATAATTCATACTTAAAATGAGTTTATATTTGATTCAATTTAGGATTTATATATTCGTAT
* * * *
37466 TATATTCATATATTTTATCGTATTATAATCATATTTAAAATGTTTTAC
66 TATATTTATATATTTTATCG-ATTGTAATTATATTTAAACTGTTTTAC
* ** * * **
37514 ATTTATATAAATTTTGATA-TGT-TTATGA-TTCATA-TT-ATAT-AGATTT-TGAAATATATAT
1 ATTTATAT-AA--TTCATACT-TAAAATGAGTTTATATTTGAT-TCA-ATTTAGGATTTATATAT
* * * * *
37572 TCGTGTCGTAT-TTTA-ATTATTTTATTCG--TGTCA-TAT-TCTTATAATCGTGTCTAAT
60 TCGTAT--TATATTTATA-TATTTTA-TCGATTGTAATTATAT-TTA-AA-C-TGTTTTAC
*
37627 ATTTATATAATTCATACTTAAAATGAGTTTATATTTGATTCAATTTAGGATTTGTATATTCGT-T
1 ATTTATATAATTCATACTTAAAATGAGTTTATATTTGATTCAATTTAGGATTTATATATTCGTAT
*
37691 TATATTTATATATTTTGTCAGATTGTAATTATATTTAAACTGTTTTAC
66 TATATTTATATATTTTATC-GATTGTAATTATATTTAAACTGTTTTAC
37739 ATTTATATAA
1 ATTTATATAA
37749 ATTTTGATAC
Statistics
Matches: 176, Mismatches: 31, Indels: 57
0.67 0.12 0.22
Matches are distributed among these distances:
109 1 0.01
110 11 0.06
111 15 0.09
112 50 0.28
113 47 0.27
114 34 0.19
115 11 0.06
116 7 0.04
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.52
Consensus pattern (112 bp):
ATTTATATAATTCATACTTAAAATGAGTTTATATTTGATTCAATTTAGGATTTATATATTCGTAT
TATATTTATATATTTTATCGATTGTAATTATATTTAAACTGTTTTAC
Found at i:37822 original size:225 final size:226
Alignment explanation
Indices: 37400--37850 Score: 701
Period size: 225 Copynumber: 2.0 Consensus size: 226
37390 TAATCCATAT
* *
37400 TATTTATATAATTCATACTTAAAATGAGTTTATATTTGATTCACTTTAGGATTTTTATATTCGTA
1 TATTTATATAATTCATACTTAAAATGAGTTTATATTTGATTCAATTTAGGATTTGTATATTCGTA
37465 TTATATTCATATATTTTATCGTATTATAATCATATTTAAAATGTTTTACATTTATATAAATTTTG
66 TTATATTCATATATTTTATCGTATTATAATCATATTTAAAATGTTTTACATTTATATAAATTTTG
* * * * * * *
37530 ATATGTTTATGATTCATATTATATAGATTTTGAAATATATATTCGTGTCGTATTTTAATTATTTT
131 ATACGTTTACGATACATATTATACAGATTTTGAAATAGATATTCATGTCGTATTGTAATTATTTT
37595 ATTCGTGTCATA-TTCTTATAATCGTGTCTAA
196 ATTCGTGTCATATTTC-TATAATCGTGTCTAA
37626 TATTTATATAATTCATACTTAAAATGAGTTTATATTTGATTCAATTTAGGATTTGTATATTCGT-
1 TATTTATATAATTCATACTTAAAATGAGTTTATATTTGATTCAATTTAGGATTTGTATATTCGTA
* * * * *
37690 TTATATTTATATATTTTGTCAG-ATTGTAATTATATTTAAACTGTTTTACATTTATATAAATTTT
66 TTATATTCATATATTTTATC-GTATTATAATCATATTTAAAATGTTTTACATTTATATAAATTTT
* * *
37754 GATACGTTTACGATACATATTATACAGATTTTGAGATAGATATTCATGTCGTGTTGTAATTCTTT
130 GATACGTTTACGATACATATTATACAGATTTTGAAATAGATATTCATGTCGTATTGTAATTATTT
*
37819 TATTCGTGTCATATTTCTATAATTGTGTCTAA
195 TATTCGTGTCATATTTCTATAATCGTGTCTAA
37851 CATTGCCAGT
Statistics
Matches: 205, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
225 139 0.68
226 66 0.32
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (226 bp):
TATTTATATAATTCATACTTAAAATGAGTTTATATTTGATTCAATTTAGGATTTGTATATTCGTA
TTATATTCATATATTTTATCGTATTATAATCATATTTAAAATGTTTTACATTTATATAAATTTTG
ATACGTTTACGATACATATTATACAGATTTTGAAATAGATATTCATGTCGTATTGTAATTATTTT
ATTCGTGTCATATTTCTATAATCGTGTCTAA
Found at i:40138 original size:23 final size:23
Alignment explanation
Indices: 40116--40160 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
40106 ATTAAAATAT
*
40116 TAATTTT-ATATTAATATTTATA
1 TAATTTTAAAATTAATATTTATA
* *
40138 TATTTTTAAAATTATTATTTATA
1 TAATTTTAAAATTAATATTTATA
40161 ATATCATGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TAATTTTAAAATTAATATTTATA
Found at i:46347 original size:28 final size:25
Alignment explanation
Indices: 46289--46347 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 25
46279 AATTTAATTG
*
46289 ATATATTTAATTTAATTAAAATAAA
1 ATATTTTTAATTTAATTAAAATAAA
46314 ATTATTTTTAATTAATAATTAAAATAATA
1 A-TATTTTTAATT--TAATTAAAATAA-A
46343 ATATT
1 ATATT
46348 ATAATTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 1 0.03
26 10 0.34
28 16 0.55
29 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATTTTTAATTTAATTAAAATAAA
Found at i:47993 original size:2 final size:2
Alignment explanation
Indices: 47986--48010 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
47976 GAAAGATTGG
47986 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
48011 GAAAAAGGAT
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:49852 original size:5 final size:5
Alignment explanation
Indices: 49842--49870 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
49832 AAAGAATACT
49842 AGAAA AGAAA AGAAA AGAAA AGAAA AGAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAA
49871 GAACCTAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:52910 original size:13 final size:13
Alignment explanation
Indices: 52892--52921 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
52882 TAATGAGATA
*
52892 ATTTTTCTTTTTT
1 ATTTTTATTTTTT
52905 ATTTTTATTTTTT
1 ATTTTTATTTTTT
52918 ATTT
1 ATTT
52922 AAAAAATTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (13 bp):
ATTTTTATTTTTT
Found at i:56436 original size:53 final size:53
Alignment explanation
Indices: 56379--56515 Score: 159
Period size: 53 Copynumber: 2.6 Consensus size: 53
56369 TGATATTTTA
* * * *
56379 ATAAATTAATTTTTAGATTTAACGATTTAATTATATTTGTCATATGTAAATTT
1 ATAAATTAATTATTAGATTTAACAATTTAATTATAATTATCATATGTAAATTT
* * * *
56432 ATAAATTGATTATTAGATTTAATAATTTAATTATAATTATTATATGTCAATTT
1 ATAAATTAATTATTAGATTTAACAATTTAATTATAATTATCATATGTAAATTT
* *
56485 ATAAATTGATTATT-GAATTTAATAATCTTAA
1 ATAAATTAATTATTAG-ATTTAACAAT-TTAA
56516 CAAACCGATA
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
52 1 0.01
53 69 0.93
54 4 0.05
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.50
Consensus pattern (53 bp):
ATAAATTAATTATTAGATTTAACAATTTAATTATAATTATCATATGTAAATTT
Found at i:57330 original size:19 final size:19
Alignment explanation
Indices: 57286--57331 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
57276 TTCTCGTATT
*
57286 TATAATTTTAATATATTTA
1 TATAATTATAATATATTTA
*
57305 -ATAAATTATATTATATTTA
1 TAT-AATTATAATATATTTA
57324 TATAATTA
1 TATAATTA
57332 ATACGAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.09
19 19 0.83
20 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TATAATTATAATATATTTA
Found at i:57465 original size:12 final size:14
Alignment explanation
Indices: 57455--57492 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
57445 TTGATAATTT
57455 TAAATATAATTATA
1 TAAATATAATTATA
57469 TAAATATAATATATA
1 TAAATATAAT-TATA
57484 TAAA-ATAAT
1 TAAATATAAT
57493 AAAAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TAAATATAATTATA
Found at i:57474 original size:14 final size:15
Alignment explanation
Indices: 57455--57521 Score: 68
Period size: 15 Copynumber: 4.5 Consensus size: 15
57445 TTGATAATTT
57455 TAAATATAAT-TATA
1 TAAATATAATATATA
57469 TAAATATAATATATA
1 TAAATATAATATATA
* *
57484 TAAA-ATAATAAAAA
1 TAAATATAATATATA
57498 TTAAA-ATAATATGATA
1 -TAAATATAATAT-ATA
*
57514 AAAATATA
1 TAAATATA
57522 TATTTAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
14 18 0.41
15 21 0.48
16 5 0.11
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (15 bp):
TAAATATAATATATA
Found at i:58016 original size:10 final size:10
Alignment explanation
Indices: 57980--58054 Score: 64
Period size: 10 Copynumber: 7.3 Consensus size: 10
57970 AAATCGATTT
*
57980 ATTTAAATTA
1 ATTTTAATTA
*
57990 GATTTTAAATAA
1 -ATTTT-AATTA
*
58002 ATTTTTATTA
1 ATTTTAATTA
58012 ATTTTAATTA
1 ATTTTAATTA
58022 A-TTTAATTTA
1 ATTTTAA-TTA
*
58032 ATTTAAATTA
1 ATTTTAATTA
58042 ATATTTAA-TA
1 AT-TTTAATTA
58052 ATT
1 ATT
58055 AAAAATATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
9 6 0.11
10 26 0.49
11 17 0.32
12 4 0.08
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (10 bp):
ATTTTAATTA
Found at i:58647 original size:23 final size:23
Alignment explanation
Indices: 58621--58667 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
58611 TTGTGTATTC
*
58621 GTGTCTTGTTCATA-TTATTTTTT
1 GTGTCATGTT-ATATTTATTTTTT
58644 GTGTCATGTTATATTTTATTTTTT
1 GTGTCATGTTATA-TTTATTTTTT
58668 TTGTATATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 3 0.14
23 9 0.43
24 9 0.43
ACGTcount: A:0.15, C:0.06, G:0.13, T:0.66
Consensus pattern (23 bp):
GTGTCATGTTATATTTATTTTTT
Found at i:58681 original size:24 final size:24
Alignment explanation
Indices: 58635--58682 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
58625 CTTGTTCATA
*
58635 TTATTTTTTGTGTCATGTTATATT
1 TTATTTTTTGTGTCATATTATATT
*
58659 TTATTTTTTTTGT-ATATTAATATT
1 TTATTTTTTGTGTCATATT-ATATT
58683 GTATAATCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.69
Consensus pattern (24 bp):
TTATTTTTTGTGTCATATTATATT
Found at i:59642 original size:2 final size:2
Alignment explanation
Indices: 59637--59666 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
59627 TTTTTTTCTT
*
59637 TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
59667 AACCACGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:60431 original size:24 final size:21
Alignment explanation
Indices: 60404--60456 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 21
60394 AAAATAATTT
*
60404 TAATTTTAATTTATTTTATTATTA
1 TAATTTT-ATTTAATTT-TTA-TA
60428 TAATTTGTATTTAATTTTTATA
1 TAATTT-TATTTAATTTTTATA
60450 TAATTTT
1 TAATTTT
60457 TTAATTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 1 0.04
22 8 0.30
23 3 0.11
24 14 0.52
25 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TAATTTTATTTAATTTTTATA
Found at i:63269 original size:2 final size:2
Alignment explanation
Indices: 63262--63289 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
63252 AACCCAAGGA
63262 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
63290 TGCCGTTGTT
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:67231 original size:28 final size:28
Alignment explanation
Indices: 67166--67237 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 28
67156 TAATTTATTT
*
67166 AATAAATTTATAAATATTTTTTAAAATA
1 AATAAATTTATAAATATTTTTAAAAATA
*
67194 ATTAATATTT-T-AATATTTTTAAATAATAA
1 AATAA-ATTTATAAATATTTTTAAA-AAT-A
67223 AATAAATTTATAAAT
1 AATAAATTTATAAAT
67238 TAATGTAGAC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
27 11 0.31
28 12 0.33
29 10 0.28
30 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
AATAAATTTATAAATATTTTTAAAAATA
Found at i:71481 original size:25 final size:24
Alignment explanation
Indices: 71453--71511 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
71443 TTTCATTTTT
*
71453 ATTTTTATTTAAA-ATTTGTGAAATA
1 ATTTTTATTTAAATA-TAGT-AAATA
*
71478 ATTTTTAATTAAATATAGTAAATA
1 ATTTTTATTTAAATATAGTAAATA
71502 ATTTTGTATT
1 ATTTT-TATT
71512 ATACAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.34
25 18 0.62
26 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.53
Consensus pattern (24 bp):
ATTTTTATTTAAATATAGTAAATA
Found at i:71491 original size:24 final size:25
Alignment explanation
Indices: 71453--71506 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
71443 TTTCATTTTT
* *
71453 ATTTTTATTTAAAAT-TTGTGAAATA
1 ATTTTTAATTAAAATATAGT-AAATA
71478 ATTTTTAATT-AAATATAGTAAATA
1 ATTTTTAATTAAAATATAGTAAATA
71502 ATTTT
1 ATTTT
71507 GTATTATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 14 0.54
25 12 0.46
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.52
Consensus pattern (25 bp):
ATTTTTAATTAAAATATAGTAAATA
Found at i:72434 original size:18 final size:19
Alignment explanation
Indices: 72391--72426 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
72381 TTCTTTAATT
*
72391 ATTAATTTAATTTTTTTAC
1 ATTAATTTAATTATTTTAC
72410 ATTAATTT-ATTATTTTA
1 ATTAATTTAATTATTTTA
72427 ATTGAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTAATTTAATTATTTTAC
Found at i:72583 original size:10 final size:11
Alignment explanation
Indices: 72565--72610 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 11
72555 TATTACATAG
72565 ATATA-AAAAT
1 ATATATAAAAT
72575 ATAT-TAAAAT
1 ATATATAAAAT
*
72585 TTATATAAAA-
1 ATATATAAAAT
*
72595 AAATATAAAAT
1 ATATATAAAAT
72606 ATATA
1 ATATA
72611 AATTTAAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
10 20 0.69
11 9 0.31
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATATATAAAAT
Found at i:72592 original size:22 final size:21
Alignment explanation
Indices: 72565--72610 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
72555 TATTACATAG
* *
72565 ATATAAAAATATATTAAAATTT
1 ATATAAAAAAATA-TAAAATAT
72587 ATATAAAAAAATATAAAATAT
1 ATATAAAAAAATATAAAATAT
72608 ATA
1 ATA
72611 AATTTAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
ATATAAAAAAATATAAAATAT
Found at i:73185 original size:24 final size:23
Alignment explanation
Indices: 73152--73202 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
73142 TAATGATCTG
*
73152 ATTTTTTTATTATTTTAATTAATT
1 ATTTTATTATTATTTTAATT-ATT
*
73176 ATTTTATTATTTTTTTAATTATT
1 ATTTTATTATTATTTTAATTATT
73199 ATTT
1 ATTT
73203 ATAAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (23 bp):
ATTTTATTATTATTTTAATTATT
Found at i:75570 original size:2 final size:2
Alignment explanation
Indices: 75563--75591 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
75553 GCTTTTATCC
75563 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
75592 GTATGTATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:77569 original size:3 final size:3
Alignment explanation
Indices: 77555--77613 Score: 93
Period size: 3 Copynumber: 19.7 Consensus size: 3
77545 CAACTGCTAC
*
77555 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
77604 TAT T-T TAT TA
1 TAT TAT TAT TA
77614 GATATTAGTA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
2 2 0.04
3 47 0.90
4 3 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:80423 original size:19 final size:20
Alignment explanation
Indices: 80395--80433 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
80385 TAATTAAATT
*
80395 TTAAAAAAATTA-TATTTTA
1 TTAAAAAAATAATTATTTTA
*
80414 TTAAATAAATAATTATTTTA
1 TTAAAAAAATAATTATTTTA
80434 ATCAGATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAAAAAAATAATTATTTTA
Found at i:80744 original size:3 final size:3
Alignment explanation
Indices: 80736--80777 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
80726 CATTATTTAT
80736 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
80778 TGCATAAATC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:80897 original size:5 final size:5
Alignment explanation
Indices: 80889--80920 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
80879 AGCTTGTTGC
*
80889 ATAAT ATAAT ATAAC ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT
80921 TATTTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:82312 original size:6 final size:6
Alignment explanation
Indices: 82301--82326 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
82291 AGAGAGAAGA
82301 GAAAAT GAAAAT GAAAAT GAAAAT GA
1 GAAAAT GAAAAT GAAAAT GAAAAT GA
82327 GGAAAGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.15
Consensus pattern (6 bp):
GAAAAT
Found at i:82484 original size:51 final size:51
Alignment explanation
Indices: 82393--82489 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 51
82383 CGGATAAATC
* * *
82393 AAATTGAAAACTAATGAAATATCTAGTCTGATGAGTATATAAAAAATGGTT
1 AAATTAAAAACTAATGAAATATCTAGCCTGATGAGCATATAAAAAATGGTT
* * * *
82444 AAATTAAAAACTGATGACATGTCTAGCCT-AGTGAGCATATAGAAAA
1 AAATTAAAAACTAATGAAATATCTAGCCTGA-TGAGCATATAAAAAA
82490 GGGTAATAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 1 0.03
51 37 0.97
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.28
Consensus pattern (51 bp):
AAATTAAAAACTAATGAAATATCTAGCCTGATGAGCATATAAAAAATGGTT
Found at i:82845 original size:2 final size:2
Alignment explanation
Indices: 82838--82870 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
82828 TTTCTTTCTT
82838 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 T
82871 TCTTCCTACC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:85008 original size:3 final size:3
Alignment explanation
Indices: 85000--85032 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
84990 GGTTTCATGC
85000 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
85033 GCAGCTTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:86160 original size:17 final size:17
Alignment explanation
Indices: 86128--86162 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
86118 TTCATCGGAT
* *
86128 ATTTAAATTTATTAAAA
1 ATTTAAATTCAATAAAA
86145 ATTTAAATTCAATAAAA
1 ATTTAAATTCAATAAAA
86162 A
1 A
86163 ACTAACAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTCAATAAAA
Found at i:86529 original size:3 final size:3
Alignment explanation
Indices: 86521--86552 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
86511 TTGAATATCT
86521 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
86553 TAATTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:87455 original size:88 final size:88
Alignment explanation
Indices: 87293--87559 Score: 371
Period size: 88 Copynumber: 3.0 Consensus size: 88
87283 AATAAATATG
* * * * *
87293 ATTATATCTGAGAATCAGATTTTTTATA-AAAAAAAGAAAAGTTGATTGATTATAAATGTTACAC
1 ATTATATCTGAGAATCAGATTTTTTTTATGAAAAAA-AAAAGTTGATTGATTGTAAATGTCAGAC
* *
87357 TGT-AAAGATTAGACCAATGCATGA
65 T-TCAAGGATTAGACTAATGCATGA
*
87381 ATTATATCTGAGAATTAGATTTTTTTTATGAAAAAAAAAAGTTGATTGATTGTAAATGTCAGACT
1 ATTATATCTGAGAATCAGATTTTTTTTATGAAAAAAAAAAGTTGATTGATTGTAAATGTCAGACT
*
87446 TCAAGGATTAGACTTATGCATGA
66 TCAAGGATTAGACTAATGCATGA
*
87469 ATTATATCTGAGAATC-TA-TTTTTTTATGGAAAAAAAAAAGTTGATTGATTGTAAATGTCAGAC
1 ATTATATCTGAGAATCAGATTTTTTTTAT-GAAAAAAAAAAGTTGATTGATTGTAAATGTCAGAC
**
87532 GGCAAGGATTAGACTAATGCATGA
65 TTCAAGGATTAGACTAATGCATGA
87556 ATTA
1 ATTA
87560 GACTAATGCA
Statistics
Matches: 162, Mismatches: 14, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
86 9 0.06
87 62 0.38
88 85 0.52
89 6 0.04
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (88 bp):
ATTATATCTGAGAATCAGATTTTTTTTATGAAAAAAAAAAGTTGATTGATTGTAAATGTCAGACT
TCAAGGATTAGACTAATGCATGA
Found at i:87561 original size:17 final size:17
Alignment explanation
Indices: 87539--87576 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
87529 GACGGCAAGG
87539 ATTAGACTAATGCATGA
1 ATTAGACTAATGCATGA
87556 ATTAGACTAATGCATGA
1 ATTAGACTAATGCATGA
87573 ATTA
1 ATTA
87577 TATCTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (17 bp):
ATTAGACTAATGCATGA
Found at i:87642 original size:103 final size:103
Alignment explanation
Indices: 87452--87662 Score: 309
Period size: 103 Copynumber: 2.0 Consensus size: 103
87442 GACTTCAAGG
* * * *
87452 ATTAGACTTATGCATGAATTATATCTGAGAATCTATTTTTTTATGGAAAAAAAAAAGTTGATTGA
1 ATTAGACTAATGCATGAATTATATCTAAAAATCAATTTTTTTAT-GAAAAAAAAAAGTTGATTGA
87517 TTGTAAATGTCAGACGGCAAGGATTAGACTAATGCATGA
65 TTGTAAATGTCAGACGGCAAGGATTAGACTAATGCATGA
*
87556 ATTAGACTAATGCATGAATTATATCTAAAAATCGAATTTTTTTTAT-AGAAAAAAAA-TTGATTG
1 ATTAGACTAATGCATGAATTATATCTAAAAATC-AA-TTTTTTTATGAAAAAAAAAAGTTGATTG
* * *
87619 ATTGTAAATGTCAGACTGTAAGGATTAGATTAATGCATGA
64 ATTGTAAATGTCAGACGGCAAGGATTAGACTAATGCATGA
87659 ATTA
1 ATTA
87663 TATCCGAGAA
Statistics
Matches: 97, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
103 48 0.49
104 39 0.40
105 1 0.01
106 9 0.09
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (103 bp):
ATTAGACTAATGCATGAATTATATCTAAAAATCAATTTTTTTATGAAAAAAAAAAGTTGATTGAT
TGTAAATGTCAGACGGCAAGGATTAGACTAATGCATGA
Found at i:87653 original size:86 final size:85
Alignment explanation
Indices: 87556--87790 Score: 276
Period size: 94 Copynumber: 2.7 Consensus size: 85
87546 TAATGCATGA
* * *
87556 ATTAGACTAATGCATGAATTATATCTAAAAATC-GAATTTTTTTTATAGAAAAAAAATTGATTGA
1 ATTAGACTAATGCATGAATTATATCTGAGAATCAG-ATTTTTTTTA-AGAAAAAAAATTAATTGA
*
87620 TTGTAAATGTCAGACTGTAAGG
64 TTGTAAATGTCAGACTGCAAGG
* * *
87642 ATTAGATTAATGCATGAATTATATCCGAGAATCAGATTCTTTTTCAAAGAAAAAAAAAGAAAAGT
1 ATTAGACTAATGCATGAATTATATCTGAGAATCAGATT-TTTTT-TAAG-----AAAA-AAAA-T
*
87707 TAATTGATTGTAAATGTGAGACTGCAAGG
57 TAATTGATTGTAAATGTCAGACTGCAAGG
*
87736 ATTAGACAAATGCATGAATTATATCTGAGAATCAGATTTTTTTTAA-AAAAAAAAT
1 ATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTTTTTTAAGAAAAAAAAT
87791 ACTACAAGGA
Statistics
Matches: 127, Mismatches: 12, Indels: 22
0.79 0.07 0.14
Matches are distributed among these distances:
84 1 0.01
85 4 0.03
86 36 0.28
87 8 0.06
88 1 0.01
92 6 0.05
93 9 0.07
94 62 0.49
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (85 bp):
ATTAGACTAATGCATGAATTATATCTGAGAATCAGATTTTTTTTAAGAAAAAAAATTAATTGATT
GTAAATGTCAGACTGCAAGG
Found at i:87697 original size:190 final size:194
Alignment explanation
Indices: 87364--87756 Score: 530
Period size: 190 Copynumber: 2.0 Consensus size: 194
87354 CACTGTAAAG
* * *
87364 ATTAGACCAATGCATGAATTATATCTGAGAATTAGATTTTTTTTATGAAAAAAAAAAGTTGATTG
1 ATTAGACCAATGCATGAATTATATCTAAAAATGAGATTTTTTTTATGAAAAAAAAAAGTTGATTG
* * *
87429 ATTGTAAATGTCAGACTTCAAGGATTAGACTTATGCATGAATTATATCTGAGAATCTATTTTTTT
66 ATTGTAAATGTCAGACTTCAAGGATTAGACTTATGCATGAATTATATCCGAGAATCGATTCTTTT
* * *
87494 ATG-GAAAAAA-AAAAGTTGATTGATTGTAAATGTCAGACGGCAAGGATTAGACTAATGCATGA
131 ATGCAAAAAAAGAAAAGTTAATTGATTGTAAATGTCAGACGGCAAGGATTAGACAAATGCATGA
* *
87556 ATTAGACTAATGCATGAATTATATCTAAAAATCGA-ATTTTTTTTAT-AGAAAAAAAA-TTGATT
1 ATTAGACCAATGCATGAATTATATCTAAAAAT-GAGATTTTTTTTATGAAAAAAAAAAGTTGATT
87618 GATTGTAAATGTCAGACTGT-AAGGATTAGA-TTAATGCATGAATTATATCCGAGAATCAGATTC
65 GATTGTAAATGTCAGACT-TCAAGGATTAGACTT-ATGCATGAATTATATCCGAGAATC-GATTC
* * * *
87681 TTTTTCAAAGAAAAAAAAAGAAAAGTTAATTGATTGTAAATGTGAGACTGCAAGGATTAGACAAA
127 -TTTT--ATG-CAAAAAAAGAAAAGTTAATTGATTGTAAATGTCAGACGGCAAGGATTAGACAAA
87746 TGCATGA
188 TGCATGA
87753 ATTA
1 ATTA
87757 TATCTGAGAA
Statistics
Matches: 177, Mismatches: 14, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
189 2 0.01
190 57 0.32
191 13 0.07
192 44 0.25
193 1 0.01
194 2 0.01
196 6 0.03
197 52 0.29
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.33
Consensus pattern (194 bp):
ATTAGACCAATGCATGAATTATATCTAAAAATGAGATTTTTTTTATGAAAAAAAAAAGTTGATTG
ATTGTAAATGTCAGACTTCAAGGATTAGACTTATGCATGAATTATATCCGAGAATCGATTCTTTT
ATGCAAAAAAAGAAAAGTTAATTGATTGTAAATGTCAGACGGCAAGGATTAGACAAATGCATGA
Found at i:87748 original size:94 final size:92
Alignment explanation
Indices: 87615--87789 Score: 278
Period size: 94 Copynumber: 1.9 Consensus size: 92
87605 AAAAAAATTG
* **
87615 ATTGATTGTAAATGTCAGACTGTAAGGATTAGATTAATGCATGAATTATATCCGAGAATCAGATT
1 ATTGATTGTAAATGTCAGACTGCAAGGATTAGACAAATGCATGAATTATATCCGAGAATCAGATT
87680 CTTTTTCAAAGAAAAAAAAAGAAAAGTTA
66 -TTTTTCAAA-AAAAAAAAAGAAAAGTTA
* *
87709 ATTGATTGTAAATGTGAGACTGCAAGGATTAGACAAATGCATGAATTATATCTGAGAATCAGATT
1 ATTGATTGTAAATGTCAGACTGCAAGGATTAGACAAATGCATGAATTATATCCGAGAATCAGATT
*
87774 TTTTTTAAAAAAAAAA
66 TTTTTCAAAAAAAAAA
87790 TACTACAAGG
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 7 0.09
93 8 0.11
94 60 0.80
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.31
Consensus pattern (92 bp):
ATTGATTGTAAATGTCAGACTGCAAGGATTAGACAAATGCATGAATTATATCCGAGAATCAGATT
TTTTTCAAAAAAAAAAAAGAAAAGTTA
Found at i:87941 original size:152 final size:155
Alignment explanation
Indices: 87638--87931 Score: 328
Period size: 152 Copynumber: 1.9 Consensus size: 155
87628 GTCAGACTGT
*
87638 AAGGATTAGATTAATGCATGAATTATATCCGAGAATCAGATTCTTTTTCAAAGAAAAAAAAAGAA
1 AAGGATTAGACTAATGCATGAATTATATCCGAGAATCAGATTCTTTTT---AGAAAAAAAAAGAA
* * * * * * * *
87703 AAGTTAATTGATTGTAAATGTGAGACTGCAAGGATTAGACAAATGCATGAATTATATCTGAGAAT
63 AAGCTAATTGATTATAAATATCAGACTGCAAAGATTAGACAAATGAATAAATTATATCTAAGAAT
* **
87768 CAGATTTTTTTTAAAAAAAAAATACTAC
128 CAAATTCCTTTTAAAAAAAAAATACTAC
* ***
87796 AAGGATTAGACTAATGCATGAATTGTA-CCTGAGAATCAGATTCTTTTT-G-GTCAAAAA-AAAA
1 AAGGATTAGACTAATGCATGAATTATATCC-GAGAATCAGATTCTTTTTAGAAAAAAAAAGAAAA
* * * *
87857 GCTGATTGATTATAAATATCATACTGCAAATATTAGA-ATAATGAATAAATTATATTTAAGAATC
65 GCTAATTGATTATAAATATCAGACTGCAAAGATTAGACA-AATGAATAAATTATATCTAAGAATC
87921 AAATTCCTTTT
129 AAATTCCTTTT
87932 GATAGAAAAA
Statistics
Matches: 114, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
151 1 0.01
152 62 0.54
153 5 0.04
154 1 0.01
157 2 0.02
158 43 0.38
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32
Consensus pattern (155 bp):
AAGGATTAGACTAATGCATGAATTATATCCGAGAATCAGATTCTTTTTAGAAAAAAAAAGAAAAG
CTAATTGATTATAAATATCAGACTGCAAAGATTAGACAAATGAATAAATTATATCTAAGAATCAA
ATTCCTTTTAAAAAAAAAATACTAC
Found at i:88523 original size:3 final size:3
Alignment explanation
Indices: 88515--88555 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
88505 TTAAATATCT
88515 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
88556 TTAATTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:89654 original size:91 final size:90
Alignment explanation
Indices: 89306--89784 Score: 632
Period size: 91 Copynumber: 5.3 Consensus size: 90
89296 AATAAATATG
* * * *
89306 ATTATATTTGAGAATCAGA-TTTTTTTAT---AAAAA-AAAA-TTGATTGATTATAAATATCAAA
1 ATTATATCTGAGAATCAGATTTTTTTTATGAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGA
* * *
89365 CTGTAAAGATTAAACTAATGCATGA
66 CTGCAAGGATTAGACTAATGCATGA
89390 ATTATATCTGAGAATCAGATTCTTTTTTATGGAAAAAAAGAAAAGTTGATTGATTGTAAATGTCA
1 ATTATATCTGAGAATCAGATT-TTTTTTAT-GAAAAAAAGAAAAGTTGATTGATTGTAAATGTCA
* *
89455 GACTTCAAGGATTAAACTAATGCATGA
64 GACTGCAAGGATTAGACTAATGCATGA
* *
89482 ATTATATCTGAGAATTAGA-TTTTTTTATGGAAAAAAAAAAGAAAAATTGATTGATTGTAAATGT
1 ATTATATCTGAGAATCAGATTTTTTTTAT-G---AAAAAAAGAAAAGTTGATTGATTGTAAATGT
* *
89546 CAGACGGTAAGGATTAGACTAATGCATGA
62 CAGACTGCAAGGATTAGACTAATGCATGA
* *
89575 ATTATATCTGAGAATCAGATTCTTTTTTATGAAAAAAAGAAAAGTTGATTAATTATAAATGTCAG
1 ATTATATCTGAGAATCAGATT-TTTTTTATGAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAG
*
89640 ACTGCAAGGATTAGATTAATGCATGA
65 ACTGCAAGGATTAGACTAATGCATGA
* *
89666 ATTATATCTGAGAATCAAATTCTTTTTCAT-AGAAAAAAGAAAAGTTGATTGATTGTAAATGTCA
1 ATTATATCTGAGAATCAGATT-TTTTTTATGA-AAAAAAGAAAAGTTGATTGATTGTAAATGTCA
* *
89730 GACTACAAGGATTAGACTAATGCATTA
64 GACTGCAAGGATTAGACTAATGCATGA
*
89757 ATTATATCTGATAATCAGATTTTTTTTA
1 ATTATATCTGAGAATCAGATTTTTTTTA
89785 AAAAAATACT
Statistics
Matches: 351, Mismatches: 30, Indels: 22
0.87 0.07 0.05
Matches are distributed among these distances:
84 18 0.05
85 1 0.00
86 8 0.02
90 22 0.06
91 160 0.46
92 59 0.17
93 73 0.21
94 2 0.01
95 8 0.02
ACGTcount: A:0.42, C:0.08, G:0.15, T:0.35
Consensus pattern (90 bp):
ATTATATCTGAGAATCAGATTTTTTTTATGAAAAAAAGAAAAGTTGATTGATTGTAAATGTCAGA
CTGCAAGGATTAGACTAATGCATGA
Found at i:89926 original size:149 final size:151
Alignment explanation
Indices: 89644--89926 Score: 390
Period size: 149 Copynumber: 1.9 Consensus size: 151
89634 TGTCAGACTG
* * *
89644 CAAGGATTAGATTAATGCATGAATTATATCTGAGAATCAAATTCTTTTTCATAGAAAAAAGAAAA
1 CAAGGATTAGACTAATGCATGAATTATACCTGAGAATCAAATTCCTTTTCATA-AAAAAAGAAAA
* * * * * *
89709 GTTGATTGATTGTAAATGTCAGACTACAAGGATTAGACTAATGCATTAATTATATCTGATAATCA
65 GTTGATTGATTATAAATATCAGACTACAAAGATTAGAATAATGCATAAATTATATCTGAGAATCA
89774 GATTTTTTTTAAAAAAATACTA
130 GATTTTTTTTAAAAAAATACTA
* * *
89796 CAAGGATTAGACTAATGCATGAATTGTACCTGAGAATCAGATTCCTTTTGAT-AAAAAA-AAAAG
1 CAAGGATTAGACTAATGCATGAATTATACCTGAGAATCAAATTCCTTTTCATAAAAAAAGAAAAG
* * * * *
89859 TTGATTGATTATAAGTATCATACTGCAAAGATTAGAATAATGCATAAATTATATTTGAGAATGAG
66 TTGATTGATTATAAATATCAGACTACAAAGATTAGAATAATGCATAAATTATATCTGAGAATCAG
89924 ATT
131 ATT
89927 CATTTTGATA
Statistics
Matches: 114, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
149 62 0.54
150 6 0.05
152 46 0.40
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (151 bp):
CAAGGATTAGACTAATGCATGAATTATACCTGAGAATCAAATTCCTTTTCATAAAAAAAGAAAAG
TTGATTGATTATAAATATCAGACTACAAAGATTAGAATAATGCATAAATTATATCTGAGAATCAG
ATTTTTTTTAAAAAAATACTA
Found at i:89942 original size:88 final size:90
Alignment explanation
Indices: 89790--89969 Score: 220
Period size: 88 Copynumber: 2.0 Consensus size: 90
89780 TTTTAAAAAA
* * * * *
89790 ATACTACAAGGATTAGACTAATGCATGAATTGTACCTGAGAATCAGATTCCTTTTGAT-AAAAAA
1 ATACTACAAAGATTAGAATAATGCATAAATTATACCTGAGAATCAGATTCATTTTGATAAAAAAA
*
89854 -AAAAGTTGATTGATTATAAGTATC
66 CAAAAGTTGATTGATTATAAATATC
* ** * *
89878 ATACTGCAAAGATTAGAATAATGCATAAATTATATTTGAGAATGAGATTCATTTTGATAGAAAAA
1 ATACTACAAAGATTAGAATAATGCATAAATTATACCTGAGAATCAGATTCATTTTGATAAAAAAA
*
89943 CTGAAAAGTTGATTGATTGTAAATATC
66 C--AAAAGTTGATTGATTATAAATATC
89970 GCAGTTGAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
88 49 0.64
89 5 0.07
92 22 0.29
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (90 bp):
ATACTACAAAGATTAGAATAATGCATAAATTATACCTGAGAATCAGATTCATTTTGATAAAAAAA
CAAAAGTTGATTGATTATAAATATC
Found at i:96368 original size:18 final size:18
Alignment explanation
Indices: 96328--96370 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
96318 ATTAATATTT
*
96328 ATAATTAAATTTAAATAA
1 ATAAATAAATTTAAATAA
* *
96346 A-AAATAAATTTTATTAA
1 ATAAATAAATTTAAATAA
96363 ATAAATAA
1 ATAAATAA
96371 TAATTCGAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAAATAAATTTAAATAA
Found at i:97136 original size:17 final size:17
Alignment explanation
Indices: 97114--97148 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
97104 ACTCTCTCGT
97114 TGGGAGTATCTTTGAAC
1 TGGGAGTATCTTTGAAC
97131 TGGGAGTATCTTTGAAC
1 TGGGAGTATCTTTGAAC
97148 T
1 T
97149 TAACAGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.11, G:0.29, T:0.37
Consensus pattern (17 bp):
TGGGAGTATCTTTGAAC
Found at i:97208 original size:2 final size:2
Alignment explanation
Indices: 97203--97241 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
97193 TGTATTTGTG
* * *
97203 TA TA TA TA TA CA TA TA CA TA TA CA 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
97242 TACTTAAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:97223 original size:12 final size:12
Alignment explanation
Indices: 97203--97241 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
97193 TGTATTTGTG
97203 TATATATATACA
1 TATATATATACA
*
97215 TATACATATACA
1 TATATATATACA
*
97227 TATATATATATA
1 TATATATATACA
97239 TAT
1 TAT
97242 TACTTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATATATACA
Found at i:98951 original size:20 final size:20
Alignment explanation
Indices: 98922--98962 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
98912 AATTGAAAAG
98922 AATTTAAATATCAAATAAAT
1 AATTTAAATATCAAATAAAT
* *
98942 AATTTTAATATTAAATAAAT
1 AATTTAAATATCAAATAAAT
98962 A
1 A
98963 TTAAATAGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTTAAATATCAAATAAAT
Found at i:102761 original size:31 final size:30
Alignment explanation
Indices: 102726--102814 Score: 78
Period size: 30 Copynumber: 3.0 Consensus size: 30
102716 ACTTTTTTTA
102726 AAAAATTTATTTTATTATTTAAAATAATATT
1 AAAAATTTATTTTATTATTTAAAATAATA-T
* *
102757 AAAAA-TTATTTT-TATAATTAAATTTAA-AT
1 AAAAATTTATTTTAT-TATTTAAA-ATAATAT
* *
102786 AAAAATTAATTTTTATCATTT-AAATAATA
1 AAAAATTTA-TTTTATTATTTAAAATAATA
102815 ATTTAAATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
29 10 0.22
30 20 0.43
31 15 0.33
32 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (30 bp):
AAAAATTTATTTTATTATTTAAAATAATAT
Found at i:102768 original size:30 final size:29
Alignment explanation
Indices: 102726--102852 Score: 79
Period size: 31 Copynumber: 4.4 Consensus size: 29
102716 ACTTTTTTTA
102726 AAAAATTTATTTTATTATTTAAAATAATATT
1 AAAAA-TTATTTTATTATTTAAAATAATA-T
* *
102757 AAAAATTATTTT-TATAATTAAATTTAA-AT
1 AAAAATTATTTTAT-TATTTAAA-ATAATAT
*
102786 AAAAATTAATTTTTATCATTT-AAATAATAAT
1 AAAAATT-A-TTTTATTATTTAAAATAAT-AT
** * *
102817 TTAAATTAATTTA--ATTTAAATTAA-A-
1 AAAAATTATTTTATTATTTAAAATAATAT
102842 AAAAATTATTT
1 AAAAATTATTT
102853 AAATTCAATT
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
25 8 0.11
26 1 0.01
27 4 0.05
28 5 0.07
29 16 0.21
30 19 0.25
31 22 0.29
32 1 0.01
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (29 bp):
AAAAATTATTTTATTATTTAAAATAATAT
Found at i:102823 original size:60 final size:56
Alignment explanation
Indices: 102725--102849 Score: 137
Period size: 60 Copynumber: 2.2 Consensus size: 56
102715 AACTTTTTTT
* * *
102725 AAAAAATTTATTTTATTATTTAAAATAATATTAAAAATTATTTTTATAATTAAATTTAA
1 AAAAAATTAATTTTATCATTTAAAATAATATTAAAAATTA-ATTTA-AATTAAA-TTAA
* *
102784 ATAAAAATTAATTTTTATCATTT-AAATAATAATT-TAAATTAATTTAATTTAAATTAA
1 A-AAAAATTAA-TTTTATCATTTAAAATAAT-ATTAAAAATTAATTTAAATTAAATTAA
102841 AAAAAATTA
1 AAAAAATTA
102850 TTTAAATTCA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
56 8 0.14
57 5 0.09
58 6 0.10
59 5 0.09
60 21 0.36
61 13 0.22
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (56 bp):
AAAAAATTAATTTTATCATTTAAAATAATATTAAAAATTAATTTAAATTAAATTAA
Found at i:103145 original size:17 final size:16
Alignment explanation
Indices: 103125--103166 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 16
103115 TATTTAATTT
103125 TATTTATAAAATATAAA
1 TATTTATAAAA-ATAAA
103142 TATTAATATAAAAATAAA
1 TATT--TATAAAAATAAA
103160 T-TTTATA
1 TATTTATA
103167 TTTTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.17
17 6 0.26
18 6 0.26
19 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTTATAAAAATAAA
Found at i:103452 original size:16 final size:16
Alignment explanation
Indices: 103371--103467 Score: 63
Period size: 16 Copynumber: 6.1 Consensus size: 16
103361 ATTTTTTTAC
103371 TTAAATTTAAATTAAT
1 TTAAATTTAAATTAAT
* * *
103387 TCAAATTCAAATGAAT
1 TTAAATTTAAATTAAT
* *
103403 TAAAATTTAAA-TAGT
1 TTAAATTTAAATTAAT
** ** *
103418 AAAAATAAAAAAATAAT
1 TTAAAT-TTAAATTAAT
103435 TTAAATTTAAATTAAT
1 TTAAATTTAAATTAAT
*
103451 TT-AGTTTAAAATTAAT
1 TTAAATTT-AAATTAAT
103467 T
1 T
103468 ATTTATATTT
Statistics
Matches: 61, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
15 11 0.18
16 43 0.70
17 7 0.11
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (16 bp):
TTAAATTTAAATTAAT
Found at i:103478 original size:20 final size:20
Alignment explanation
Indices: 103431--103484 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
103421 AATAAAAAAA
*
103431 TAATTTAAATTTAAATTAATT
1 TAATTTAAAATT-AATTAATT
*
103452 TAGTTTAAAATTAATT-ATT
1 TAATTTAAAATTAATTAATT
103471 TATATTTAAAATTA
1 TA-ATTTAAAATTA
103485 TTCAAATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.17
20 14 0.48
21 10 0.34
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TAATTTAAAATTAATTAATT
Found at i:103857 original size:3 final size:3
Alignment explanation
Indices: 103849--103875 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
103839 TAAAGCTTAA
103849 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
103876 TTTTTCTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:104232 original size:21 final size:21
Alignment explanation
Indices: 104194--104237 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
104184 AATATTATTA
*
104194 ATTTTATATTAATATTTATAT
1 ATTTTATATTAATATTTAAAT
*
104215 ATTTTATAATTAA-GTTTAAAT
1 ATTTTAT-ATTAATATTTAAAT
104236 AT
1 AT
104238 AAAATATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTTATATTAATATTTAAAT
Found at i:104246 original size:36 final size:34
Alignment explanation
Indices: 104204--104283 Score: 94
Period size: 32 Copynumber: 2.4 Consensus size: 34
104194 ATTTTATATT
*
104204 AATATTTATATATTTTATAATTAAGTTTAAA-TATAA
1 AATATTTATATA-TTTA-AATTAA-TTCAAATTATAA
104240 AATATTT-T-TATTTAAATTAATTCAAATTATAA
1 AATATTTATATATTTAAATTAATTCAAATTATAA
*
104272 AAAATTTATATA
1 AATATTTATATA
104284 AAATCCTCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
31 5 0.13
32 17 0.44
33 5 0.13
34 4 0.10
35 1 0.03
36 7 0.18
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (34 bp):
AATATTTATATATTTAAATTAATTCAAATTATAA
Found at i:105617 original size:28 final size:28
Alignment explanation
Indices: 105559--105620 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 28
105549 TTAAGAATGA
*
105559 TTTATATTTTTTATTTAAATTAATTTAAT
1 TTTA-ATTTTTTATTTAAATGAATTTAAT
*
105588 TTTAATTTTTTA-TTAAATAGAATATTATT
1 TTTAATTTTTTATTTAAAT-GAAT-TTAAT
105617 TTTA
1 TTTA
105621 TTTAAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 6 0.21
28 11 0.38
29 12 0.41
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTAATTTTTTATTTAAATGAATTTAAT
Found at i:105623 original size:28 final size:28
Alignment explanation
Indices: 105558--105623 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
105548 GTTAAGAATG
* *
105558 ATTTATATTTTTTATTTAAATTAATTTA
1 ATTTTTATTTTTTATTTAAATGAATTTA
*
105586 ATTTTAATTTTTTA-TTAAATAGAATATT-
1 ATTTTTATTTTTTATTTAAAT-GAAT-TTA
105614 ATTTTTATTT
1 ATTTTTATTT
105624 AAATTTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 6 0.19
28 24 0.75
29 2 0.06
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (28 bp):
ATTTTTATTTTTTATTTAAATGAATTTA
Found at i:105665 original size:21 final size:21
Alignment explanation
Indices: 105618--105665 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
105608 AATATTATTT
105618 TTATTTAAATTTAATTATAAA
1 TTATTTAAATTTAATTATAAA
**
105639 AAATTTAAATATTAATTA-AAA
1 TTATTTAAAT-TTAATTATAAA
105660 TTATTT
1 TTATTT
105666 TTAATATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTATTTAAATTTAATTATAAA
Found at i:113470 original size:20 final size:20
Alignment explanation
Indices: 113445--113490 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
113435 AAGAATTGAA
*
113445 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAG
* **
113465 GAGGGATGCTTGAGAGGGAG
1 GAGGGATACAAGAGAGGGAG
113485 GAGGGA
1 GAGGGA
113491 GCCTCTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.52, T:0.11
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAG
Found at i:114962 original size:21 final size:21
Alignment explanation
Indices: 114920--114963 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
114910 TTTTGAATCG
**
114920 ATTTTATGATAAATAATGTAT
1 ATTTTATGATAAATAAAATAT
114941 ATTTATAT-ATAAATAAAATAT
1 ATTT-TATGATAAATAAAATAT
114962 AT
1 AT
114964 AAATTATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (21 bp):
ATTTTATGATAAATAAAATAT
Found at i:116864 original size:16 final size:16
Alignment explanation
Indices: 116845--116878 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
116835 TTAAATTTAA
116845 AAAAAAATCAAAATTT
1 AAAAAAATCAAAATTT
**
116861 AAAATCATCAAAATTT
1 AAAAAAATCAAAATTT
116877 AA
1 AA
116879 TTACAGGTCT
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:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAAATCAAAATTT
Found at i:121040 original size:18 final size:18
Alignment explanation
Indices: 121019--121055 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
121009 ACGTTTGATA
121019 TATATATTTTAA-AATTTT
1 TATATA-TTTAATAATTTT
121037 TATATATTTAATAATTTT
1 TATATATTTAATAATTTT
121055 T
1 T
121056 GTTATTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATATTTAATAATTTT
Found at i:121318 original size:21 final size:21
Alignment explanation
Indices: 121292--121335 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
121282 AATTTTAATT
121292 TAAA-ATTAATTATAAAAATATA
1 TAAATATTAA-TAT-AAAATATA
121314 TAAATATTAATATAAAATATA
1 TAAATATTAATATAAAATATA
121335 T
1 T
121336 TTTAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.43
22 7 0.33
23 5 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAATATTAATATAAAATATA
Found at i:121342 original size:23 final size:23
Alignment explanation
Indices: 121290--121344 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
121280 AAAATTTTAA
*
121290 TTTAAAATTAATTATAAAAATAT
1 TTTAATATTAATTATAAAAATAT
* *
121313 ATAAATATTAA-TATAAAATATAT
1 TTTAATATTAATTATAAAA-ATAT
121336 TTTAATATT
1 TTTAATATT
121345 TTTAAATAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 7 0.27
23 19 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTAATATTAATTATAAAAATAT
Found at i:122164 original size:19 final size:19
Alignment explanation
Indices: 122127--122164 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
122117 AATTTAAATA
*
122127 ATATAAATTATTAAAATTT
1 ATATAAATTATAAAAATTT
122146 ATAT-AATTATAAAATATTT
1 ATATAAATTATAAAA-ATTT
122165 TAAATATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATATAAATTATAAAAATTT
Found at i:123262 original size:17 final size:15
Alignment explanation
Indices: 123233--123280 Score: 62
Period size: 17 Copynumber: 3.1 Consensus size: 15
123223 TATTTGTTTG
123233 ATTTTTG-ATATTAT
1 ATTTTTGTATATTAT
123247 ATTTTATAGTATATTAT
1 ATTTT-T-GTATATTAT
*
123264 ATTTTTTTATATTAT
1 ATTTTTGTATATTAT
123279 AT
1 AT
123281 AATTATACCG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 5 0.17
15 11 0.37
16 2 0.07
17 12 0.40
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (15 bp):
ATTTTTGTATATTAT
Found at i:123276 original size:15 final size:15
Alignment explanation
Indices: 123234--123280 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
123224 ATTTGTTTGA
*
123234 TTTTTGATATTATAT
1 TTTTTTATATTATAT
*
123249 TTTATAGTATATTATAT
1 TTT-T-TTATATTATAT
123266 TTTTTTATATTATAT
1 TTTTTTATATTATAT
123281 AATTATACCG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 13 0.48
16 2 0.07
17 12 0.44
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (15 bp):
TTTTTTATATTATAT
Found at i:127743 original size:2 final size:2
Alignment explanation
Indices: 127736--127764 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
127726 AACTGATAAC
127736 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 A
127765 CACGAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:128045 original size:17 final size:19
Alignment explanation
Indices: 128015--128051 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
128005 ATTATATAAA
128015 TTTTAAAATATA-TTTATT
1 TTTTAAAATATATTTTATT
128033 TTTTAAAAT-TATTTTATT
1 TTTTAAAATATATTTTATT
128051 T
1 T
128052 ATCTTACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTAAAATATATTTTATT
Found at i:128893 original size:21 final size:22
Alignment explanation
Indices: 128851--128916 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 22
128841 TTATTTTTAT
* **
128851 ATTAATATTTATATATTTAATA
1 ATTAATATTTAAATATAAAATA
128873 ATTAA-ATTTAAATATAAAAT-
1 ATTAATATTTAAATATAAAATA
*
128893 A-T-AT-TTTAATTATAAAAT-
1 ATTAATATTTAAATATAAAATA
128911 ATTAAT
1 ATTAAT
128917 TTGGATCAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 15 0.41
19 2 0.05
20 3 0.08
21 12 0.32
22 5 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTAATATTTAAATATAAAATA
Found at i:134416 original size:20 final size:20
Alignment explanation
Indices: 134387--134450 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
134377 TTTTAAAATT
*
134387 AAATTTTTTAATAATTTAAA
1 AAATTATTTAATAATTTAAA
* * **
134407 AAATTATTTATTATTTTATT
1 AAATTATTTAATAATTTAAA
*
134427 AAATATATTTATAAAATTTAAA
1 AAAT-TATTTA-ATAATTTAAA
134449 AA
1 AA
134451 CGTTATTAGG
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
20 19 0.59
21 6 0.19
22 7 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATTATTTAATAATTTAAA
Found at i:135789 original size:17 final size:16
Alignment explanation
Indices: 135747--135790 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
135737 TTTAAAAATT
135747 ATATATATTTATATTA
1 ATATATATTTATATTA
135763 ATCATATATTTATATTTA
1 AT-ATATATTTATA-TTA
*
135781 ATATTTATTT
1 ATATATATTT
135791 TTTAATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 2 0.08
17 18 0.72
18 5 0.20
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATATATTTATATTA
Found at i:136000 original size:21 final size:21
Alignment explanation
Indices: 135964--136009 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
135954 TTTGATCGGT
*
135964 TTAATTTATTTAAATTAAAAA
1 TTAATTTAATTAAATTAAAAA
* * *
135985 TTAATTTAATTGAATTTAATA
1 TTAATTTAATTAAATTAAAAA
136006 TTAA
1 TTAA
136010 AATTGATTGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TTAATTTAATTAAATTAAAAA
Done.