Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167981.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_239, whole genome shotgun sequence
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: 44689
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
File 1 of 2
Found at i:1326 original size:15 final size:14
Alignment explanation
Indices: 1294--1356 Score: 51
Period size: 15 Copynumber: 4.6 Consensus size: 14
1284 TTTAAAATTT
*
1294 ATTAATAATTTATA
1 ATTAATTATTTATA
*
1308 ATTATTTATTTATTA
1 ATTAATTATTTA-TA
*
1323 ATTAATTATATAT-
1 ATTAATTATTTATA
* *
1336 AGTAAGTA-TTATA
1 ATTAATTATTTATA
1349 A-TAATTAT
1 ATTAATTAT
1357 ATTTATTAGC
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
12 8 0.21
13 7 0.18
14 11 0.29
15 12 0.32
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (14 bp):
ATTAATTATTTATA
Found at i:1450 original size:25 final size:26
Alignment explanation
Indices: 1415--1465 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
1405 ATAATAATAT
1415 AATAATAAATTAATT-ATTATTAATTA
1 AATAATAAATTAATTGA-TATTAATTA
1441 AATAAT-AATTAATTGATATTAATTA
1 AATAATAAATTAATTGATATTAATTA
1466 TCTCAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
AATAATAAATTAATTGATATTAATTA
Found at i:1453 original size:15 final size:14
Alignment explanation
Indices: 1413--1465 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
1403 TTATAATAAT
*
1413 ATAATAATAAATTA
1 ATAATAATTAATTA
* *
1427 ATTATTATTAATTAA
1 ATAATAATTAATT-A
*
1442 ATAATAATTAATTG
1 ATAATAATTAATTA
*
1456 ATATTAATTA
1 ATAATAATTA
1466 TCTCAAATAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
14 19 0.61
15 12 0.39
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
ATAATAATTAATTA
Found at i:2722 original size:72 final size:72
Alignment explanation
Indices: 2476--2710 Score: 339
Period size: 72 Copynumber: 3.3 Consensus size: 72
2466 TCGATCACCC
**
2476 ACTT-AACCAATCGATCCCCGACATAAAGGGATTGATCAGTTAGGCATTTTCAAAGGGAAAATTG
1 ACTTGAACCAATCGATCCCTTACATAAAGGGATTGATCAGTTAGGCATTTTCAAAGGGAAAATTG
2540 GCTTAAA
66 GCTTAAA
*
2547 ACTTGAACCAATCGATCCCTTACATAAAGAGATTGATCAGTTAGGCATTTTCAAAGGGGAAAATT
1 ACTTGAACCAATCGATCCCTTACATAAAGGGATTGATCAGTTAGGCATTTTCAAA-GGGAAAATT
2612 GGCTTAAA
65 GGCTTAAA
* * * *
2620 ACTTAAACCAATCGATCCTTTACATAAAGGGATAGATC-GATTAGGCTTTTTCAAAGGGAAAATT
1 ACTTGAACCAATCGATCCCTTACATAAAGGGATTGATCAG-TTAGGCATTTTCAAAGGGAAAATT
*
2684 AGCTTAAA
65 GGCTTAAA
* * *
2692 ACATGTACCAATCAATCCC
1 ACTTGAACCAATCGATCCC
2711 ATCAAGCAAG
Statistics
Matches: 147, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
71 4 0.03
72 78 0.53
73 65 0.44
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (72 bp):
ACTTGAACCAATCGATCCCTTACATAAAGGGATTGATCAGTTAGGCATTTTCAAAGGGAAAATTG
GCTTAAA
Found at i:3744 original size:13 final size:13
Alignment explanation
Indices: 3716--3749 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
3706 TAAATATTCG
3716 TATTATGAATTAAA
1 TATTAT-AATTAAA
*
3730 TATTATAATTTAA
1 TATTATAATTAAA
3743 TATTATA
1 TATTATA
3750 TTCATTTAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
TATTATAATTAAA
Found at i:4354 original size:180 final size:180
Alignment explanation
Indices: 3988--4381 Score: 384
Period size: 180 Copynumber: 2.2 Consensus size: 180
3978 TATTAATTCA
* * * * *
3988 AAATATTATTAAATTAGTGTTATTTTAATCCAAATAAATTTGTACGAACAAAACAATTGTTTTAC
1 AAATATTATTAAATTAGTATTATTTTATTCCAAATAAAATAGTACGAACAAAACAATTGTTTGAC
* ** *
4053 ATTAAAAGAAAAGTTCATAACGATTTGAAATAAATAATCATTCATAGAGTCTTAACTATTTGAAC
66 ATTAAAAGAAAAGTTCATAACGATTTGAAATAAATAATCATTCAAAGAGTCAAAACTATTTGAAA
** * * ****
4118 TGGTTCTACAATTAGATTTATTTTTTAATTTTCTTGGTTATTAAGTTTCG
131 TGGTTCTACAAACAGATTTATTTTTTAAATCTCTTACAGATTAAGTTTCG
* * *
4168 AAATATTATTAAATTAGTATTATTTTATTCTAAATAAAATAGTATGAACAGAACCAATTGTTTGA
1 AAATATTATTAAATTAGTATTATTTTATTCCAAATAAAATAGTACGAACA-AAACAATTGTTTGA
* * * * *
4233 TGA-TAAAATAAAAGGTT-ATAATGATTTGAAATAAATAAT-ATTGAAATAGTCAAAACTATTTG
65 -CATTAAAAGAAAA-GTTCATAACGATTTGAAATAAATAATCATTCAAAGAGTCAAAACTATTTG
** * * **
4295 AAATGGTT-TGGGAAACAGATTT-TCTTTTTAAATCTCTTACAGATTTATTTTTT
128 AAATGGTTCT-ACAAACAGATTTAT-TTTTTAAATCTCTTACAGATTAAGTTTCG
* ** * *
4348 AAATATTAATAAAAAAATATTATTTTATTTCAAA
1 AAATATTATTAAATTAGTATTATTTTATTCCAAA
4382 CAAACTTATA
Statistics
Matches: 172, Mismatches: 37, Indels: 10
0.79 0.17 0.05
Matches are distributed among these distances:
179 2 0.01
180 124 0.72
181 42 0.24
182 4 0.02
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (180 bp):
AAATATTATTAAATTAGTATTATTTTATTCCAAATAAAATAGTACGAACAAAACAATTGTTTGAC
ATTAAAAGAAAAGTTCATAACGATTTGAAATAAATAATCATTCAAAGAGTCAAAACTATTTGAAA
TGGTTCTACAAACAGATTTATTTTTTAAATCTCTTACAGATTAAGTTTCG
Found at i:5145 original size:181 final size:181
Alignment explanation
Indices: 4793--5133 Score: 450
Period size: 181 Copynumber: 1.9 Consensus size: 181
4783 ATTTTTGAAA
*
4793 TATTAATAAATTAATATTATTTTATTTCGAACAAACTTATATGAACAAAAACATTTGTTTTACGA
1 TATTAATAAATTAATATTATTTTATTTCGAACAAACTTATATGAACAAAAACAATTGTTTTACGA
* * * * *
4858 CAACACAAAAGTTCATAATGATTTGAAATAGATAATTATTCATATAGCCTTAACTATTTGAATTG
66 CAAAACAAAAGTTCATAATGATTGGAAATAGATAATTATTCAAATAGCCATAACTATTTGAACTG
* * *
4923 GTTTGGTAAACAAATTTATTTTTTAAATCTATCAGTTATTAAATTTCATAG
131 ATTCGATAAACAAATTTATTTTTTAAATCTATCAGTTATTAAATTTCATAG
* * * * * * * * * *
4974 TATTACTATATTAGTATTATTTTATTTCGAATAAGCTTGTATGAAGATAAATAATTGTTTTATGA
1 TATTAATAAATTAATATTATTTTATTTCGAACAAACTTATATGAACAAAAACAATTGTTTTACGA
* * * *
5039 CAAAACAAAAGGTT-ATAATGATTGGGAATATATAATTGTTCAAATAGTCATAACTATTTGAACT
66 CAAAACAAAA-GTTCATAATGATTGGAAATAGATAATTATTCAAATAGCCATAACTATTTGAACT
*
5103 GATTCGATAAACAGATTTATTTTTTAAATCT
130 GATTCGATAAACAAATTTATTTTTTAAATCT
5134 CCTATTTATT
Statistics
Matches: 135, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
181 132 0.98
182 3 0.02
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.41
Consensus pattern (181 bp):
TATTAATAAATTAATATTATTTTATTTCGAACAAACTTATATGAACAAAAACAATTGTTTTACGA
CAAAACAAAAGTTCATAATGATTGGAAATAGATAATTATTCAAATAGCCATAACTATTTGAACTG
ATTCGATAAACAAATTTATTTTTTAAATCTATCAGTTATTAAATTTCATAG
Found at i:6170 original size:18 final size:18
Alignment explanation
Indices: 6143--6188 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
6133 ACAATTTTTT
*
6143 AATAATTAATTATTATAA
1 AATAACTAATTATTATAA
*
6161 AATAACTAATTCTTATAA
1 AATAACTAATTATTATAA
*
6179 AGTAACTAAT
1 AATAACTAAT
6189 ATCTAATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (18 bp):
AATAACTAATTATTATAA
Found at i:6410 original size:13 final size:13
Alignment explanation
Indices: 6392--6435 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
6382 CCAACCACTG
6392 AATTAATAATATT
1 AATTAATAATATT
6405 AATTAATAATATT
1 AATTAATAATATT
* *
6418 -A-TAGTATTATT
1 AATTAATAATATT
6429 AATTAAT
1 AATTAAT
6436 TAAATTAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 8 0.31
12 2 0.08
13 16 0.62
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (13 bp):
AATTAATAATATT
Found at i:6932 original size:9 final size:9
Alignment explanation
Indices: 6920--6959 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
6910 TATATATTTT
6920 AATAATTAA
1 AATAATTAA
6929 AATAATTAA
1 AATAATTAA
*
6938 AATAATTAT
1 AATAATTAA
*
6947 AACAATTTAA
1 AATAA-TTAA
6957 AAT
1 AAT
6960 TCATTCAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 21 0.81
10 5 0.19
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
AATAATTAA
Found at i:12075 original size:22 final size:21
Alignment explanation
Indices: 12046--12094 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
12036 ACTGTTTTTA
12046 ATAA-TAAATAGATAATAATCT
1 ATAACTAAATAGATAATAAT-T
***
12067 ATAACTAAATCTTTAATAATT
1 ATAACTAAATAGATAATAATT
12088 ATAACTA
1 ATAACTA
12095 TTACACTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (21 bp):
ATAACTAAATAGATAATAATT
Found at i:12221 original size:13 final size:13
Alignment explanation
Indices: 12173--12231 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
12163 TATATTATAG
*
12173 TATTAAATATAAT
1 TATTAAAAATAAT
*
12186 TAGTAAAAAT-A-
1 TATTAAAAATAAT
*
12197 TATTTAATAATAAT
1 TA-TTAAAAATAAT
*
12211 TATTAAAAATATT
1 TATTAAAAATAAT
12224 TAATTAAA
1 T-ATTAAA
12232 TAAAATTTAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
11 2 0.06
12 7 0.19
13 19 0.53
14 8 0.22
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (13 bp):
TATTAAAAATAAT
Found at i:12234 original size:25 final size:25
Alignment explanation
Indices: 12173--12222 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
12163 TATATTATAG
*
12173 TATTAAAT-ATAATTAGTAAAAATA
1 TATTTAATAATAATTAGTAAAAATA
*
12197 TATTTAATAATAATTATTAAAAATA
1 TATTTAATAATAATTAGTAAAAATA
12222 T
1 T
12223 TTAATTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
TATTTAATAATAATTAGTAAAAATA
Found at i:13343 original size:31 final size:37
Alignment explanation
Indices: 13256--13375 Score: 108
Period size: 36 Copynumber: 3.2 Consensus size: 37
13246 ATTTGAATAA
*
13256 TATAAATTAATT-T-ATAATAAGTTAATAATTTATTAATAT
1 TATAATTTAATTATAATAATAA-TTAATAA--TATT-ATAT
* * *
13295 AATAAATAAATTA-AATTAATATATT-A-AATATTATAT
1 TATAATTTAATTATAA-TAATA-ATTAATAATATTATAT
13331 TATAATTTAATTATAATAATAATTAATAATATTATAT
1 TATAATTTAATTATAATAATAATTAATAATATTATAT
13368 TAT-ATTTA
1 TATAATTTA
13376 TATGAATACT
Statistics
Matches: 69, Mismatches: 5, Indels: 17
0.76 0.05 0.19
Matches are distributed among these distances:
35 3 0.04
36 25 0.36
37 19 0.28
39 12 0.17
40 2 0.03
41 7 0.10
42 1 0.01
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (37 bp):
TATAATTTAATTATAATAATAATTAATAATATTATAT
Found at i:13345 original size:16 final size:15
Alignment explanation
Indices: 13304--13366 Score: 55
Period size: 16 Copynumber: 4.4 Consensus size: 15
13294 TAATAAATAA
13304 ATTA-AATTAA-TAT
1 ATTATAATTAATTAT
13317 ATTA-AA-T-ATTAT
1 ATTATAATTAATTAT
13329 ATTATAATTTAATTAT
1 ATTATAA-TTAATTAT
* *
13345 AATAATAATTAATAAT
1 -ATTATAATTAATTAT
13361 ATTATA
1 ATTATA
13367 TTATATTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
11 1 0.02
12 8 0.20
13 8 0.20
15 6 0.15
16 12 0.29
17 6 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAATTAT
Found at i:13377 original size:32 final size:31
Alignment explanation
Indices: 13327--13393 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 31
13317 ATTAAATATT
*
13327 ATATTATAATTTAATTATAAT-AATAATTAATA
1 ATATTATAATTTAATTAT-ATGAAT-ACTAATA
*
13359 ATATTAT-ATTATATTTATATGAATACTAATA
1 ATATTATAATT-TAATTATATGAATACTAATA
13390 ATAT
1 ATAT
13394 CTTATAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 15 0.48
32 16 0.52
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (31 bp):
ATATTATAATTTAATTATATGAATACTAATA
Found at i:13587 original size:18 final size:19
Alignment explanation
Indices: 13564--13599 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13554 ATTAATACTA
*
13564 TTAA-TTATTAGTACAAGC
1 TTAATTTATTAGAACAAGC
13582 TTAATTTATTAGAACAAG
1 TTAATTTATTAGAACAAG
13600 TCAATTAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.39
Consensus pattern (19 bp):
TTAATTTATTAGAACAAGC
Found at i:13605 original size:18 final size:19
Alignment explanation
Indices: 13568--13605 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
13558 ATACTATTAA
* *
13568 TTATTAGTACAAGCTTAAT
1 TTATTAGAACAAGCTCAAT
13587 TTATTAGAACAAG-TCAAT
1 TTATTAGAACAAGCTCAAT
13605 T
1 T
13606 AACTATTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (19 bp):
TTATTAGAACAAGCTCAAT
Found at i:13607 original size:22 final size:19
Alignment explanation
Indices: 13563--13613 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
13553 AATTAATACT
*
13563 ATTAATTATTAGTACAAGC
1 ATTAATTATTAGAACAAGC
13582 -TTAATTTATTAGAACAAGTC
1 ATTAA-TTATTAGAACAAG-C
*
13602 AATTAACTATTA
1 -ATTAATTATTA
13614 AGTATATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
18 4 0.15
19 12 0.46
20 1 0.04
21 5 0.19
22 4 0.15
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.39
Consensus pattern (19 bp):
ATTAATTATTAGAACAAGC
Found at i:13778 original size:18 final size:18
Alignment explanation
Indices: 13690--13792 Score: 65
Period size: 18 Copynumber: 5.8 Consensus size: 18
13680 TATCGTATTA
*
13690 ATTATTTTAATATT-TAT
1 ATTATTATAATATTATAT
*
13707 AATTATTATAATATTCAATAAA
1 -ATTATTATAATATT--AT-AT
*
13729 ATTA-AATAATATTATA-
1 ATTATTATAATATTATAT
*
13745 ATTATTAT-A-GTT-TAT
1 ATTATTATAATATTATAT
13760 ATTATTATAATATTATAT
1 ATTATTATAATATTATAT
* *
13778 ACTACTATAACTATT
1 ATTATTATAA-TATT
13793 TTATTAAATT
Statistics
Matches: 67, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
14 2 0.03
15 10 0.15
16 6 0.09
17 5 0.07
18 26 0.39
19 4 0.06
20 8 0.12
21 5 0.07
22 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (18 bp):
ATTATTATAATATTATAT
Found at i:14175 original size:22 final size:22
Alignment explanation
Indices: 14142--14209 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
14132 TACAATTAAA
* *
14142 TTATAAAT-ATAATTTTATTAT
1 TTATTAATAATAATATTATTAT
14163 TTATTAATAATAA-ATTACTTAT
1 TTATTAATAATAATATTA-TTAT
*
14185 TTATTTGATCAATAATATTATTAT
1 TTA-TTAAT-AATAATATTATTAT
14209 T
1 T
14210 GATACTTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 10 0.26
22 11 0.28
23 4 0.10
24 10 0.26
25 4 0.10
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (22 bp):
TTATTAATAATAATATTATTAT
Found at i:14298 original size:11 final size:10
Alignment explanation
Indices: 14259--14301 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
14249 CTTAATTAGG
14259 TTATAATTATA
1 TTATAATTA-A
* *
14270 ATATATTTAA
1 TTATAATTAA
14280 TTATAATTAA
1 TTATAATTAA
14290 TTAATAATTAA
1 TT-ATAATTAA
14301 T
1 T
14302 AACTATTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 11 0.41
11 16 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
TTATAATTAA
Found at i:14300 original size:21 final size:21
Alignment explanation
Indices: 14233--14301 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
14223 ATATTGTATT
* *
14233 TTAATAATTATTATAACT-TAA
1 TTAATTATAATTATAA-TATAA
* *
14254 TTAGGTTATAATTATAATATAT
1 TTA-ATTATAATTATAATATAA
*
14276 TTAATTATAATTA-ATTAATAA
1 TTAATTATAATTATAAT-ATAA
14297 TTAAT
1 TTAAT
14302 AACTATTAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
20 2 0.05
21 21 0.55
22 15 0.39
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (21 bp):
TTAATTATAATTATAATATAA
Found at i:14533 original size:26 final size:26
Alignment explanation
Indices: 14471--14542 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
14461 ATAATTTAAT
14471 TATTATATTTAA-ATTAA--AATCAA
1 TATTATATTTAATATTAATTAATCAA
14494 TATTCATAAGTTTAATATTAATTAAT-AA
1 TATT-AT-A-TTTAATATTAATTAATCAA
*
14522 TATTGATATTTAATATCAATT
1 TATT-ATATTTAATATTAATT
14543 GTAATAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
23 4 0.10
24 2 0.05
25 1 0.02
26 17 0.41
27 6 0.15
28 8 0.20
29 3 0.07
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (26 bp):
TATTATATTTAATATTAATTAATCAA
Found at i:14871 original size:13 final size:14
Alignment explanation
Indices: 14841--14873 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
14831 GTAATATTAT
14841 TAATATTATCTAATA
1 TAAT-TTATCTAATA
14856 TAATTTATCT-ATA
1 TAATTTATCTAATA
14869 TAATT
1 TAATT
14874 ATAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 6 0.33
15 4 0.22
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATTTATCTAATA
Found at i:14911 original size:27 final size:27
Alignment explanation
Indices: 14881--14932 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
14871 ATTATAAATA
14881 AATAAATTATTAAT-AATAATTAATATG
1 AATAAATTA-TAATCAATAATTAATATG
* *
14908 AATAGATTATAATCATTAATTAATA
1 AATAAATTATAATCAATAATTAATA
14933 AATTTCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (27 bp):
AATAAATTATAATCAATAATTAATATG
Found at i:15843 original size:44 final size:40
Alignment explanation
Indices: 15747--15843 Score: 106
Period size: 44 Copynumber: 2.3 Consensus size: 40
15737 TTGAATAAGG
* *
15747 ATTTTAATAAATATTTAATTAGATTATATTAATTTATTTT
1 ATTTTAATAAATATATAATTAGATTATATTAATTGATTTT
*
15787 ATTTTATTTAAATCATGAATAATTAGGATTA-ATTAATTGATTATT
1 ATTTTA-ATAAAT-AT--ATAATTA-GATTATATTAATTGATT-TT
15832 ATTTTAATAAAT
1 ATTTTAATAAAT
15844 TAGCTAATTA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
40 6 0.13
41 5 0.11
42 2 0.04
44 21 0.45
45 13 0.28
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (40 bp):
ATTTTAATAAATATATAATTAGATTATATTAATTGATTTT
Found at i:16584 original size:33 final size:31
Alignment explanation
Indices: 16547--16614 Score: 75
Period size: 33 Copynumber: 2.1 Consensus size: 31
16537 TAGATAGTCA
* *
16547 TAAT-ATTAAGATTATTATAACTTATTTAATTAC
1 TAATAATTAA-ATAATTAT-ACTAATTT-ATTAC
*
16580 TAATAATTAAATAATTATACTAATTTATTTC
1 TAATAATTAAATAATTATACTAATTTATTAC
16611 TAAT
1 TAAT
16615 CAAATTAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 8 0.26
32 7 0.23
33 11 0.35
34 5 0.16
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (31 bp):
TAATAATTAAATAATTATACTAATTTATTAC
Found at i:16917 original size:14 final size:14
Alignment explanation
Indices: 16872--16917 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
16862 GCAATAATGA
16872 TAATATTTAATAAT
1 TAATATTTAATAAT
* *
16886 TCATATTAAATTAAT
1 TAATATTTAA-TAAT
*
16901 TAATATTTAAGAAT
1 TAATATTTAATAAT
16915 TAA
1 TAA
16918 ATATAGATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (14 bp):
TAATATTTAATAAT
Found at i:17464 original size:22 final size:21
Alignment explanation
Indices: 17435--17483 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
17425 ACTATTTTTA
17435 ATAA-TAAATAGATAATAATCT
1 ATAACTAAATAGATAATAAT-T
***
17456 ATAACTAAATCTTTAATAATT
1 ATAACTAAATAGATAATAATT
17477 ATAACTA
1 ATAACTA
17484 TTACACTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (21 bp):
ATAACTAAATAGATAATAATT
Found at i:17599 original size:25 final size:24
Alignment explanation
Indices: 17564--17610 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
17554 TATTATAGTA
17564 TTAATATAATTAGTAAAAATATAT
1 TTAATATAATTAGTAAAAATATAT
*
17588 TTAATAATAATTATTAAAAATAT
1 TTAAT-ATAATTAGTAAAAATAT
17611 TTAATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TTAATATAATTAGTAAAAATATAT
Found at i:18549 original size:31 final size:29
Alignment explanation
Indices: 18489--18549 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 29
18479 AAAACTATAA
18489 TAGATAATTTTCAATAATTTAATATTAAT
1 TAGATAATTTTCAATAATTTAATATTAAT
*
18518 TAGATAATTGTTCAATAAGTTTATTATTAAT
1 TAGATAATT-TTCAATAA-TTTAATATTAAT
18549 T
1 T
18550 TATTAAATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 9 0.31
30 8 0.28
31 12 0.41
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (29 bp):
TAGATAATTTTCAATAATTTAATATTAAT
Found at i:18741 original size:17 final size:16
Alignment explanation
Indices: 18698--18743 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
18688 AATAAATATT
18698 TTAATTTAT-ATATAA
1 TTAATTTATAATATAA
18713 TT-ATTTGAATAATATAAA
1 TTAATTT--ATAATAT-AA
18731 TTAATTTATAATA
1 TTAATTTATAATA
18744 AGTTAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 4 0.15
15 2 0.08
16 2 0.08
17 10 0.38
18 4 0.15
19 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
TTAATTTATAATATAA
Found at i:18853 original size:32 final size:35
Alignment explanation
Indices: 18725--18855 Score: 89
Period size: 35 Copynumber: 3.8 Consensus size: 35
18715 ATTTGAATAA
* *
18725 TATAAATTAATTTATAATAAGTTAATAATTTATTA-AT
1 TATAATTTAA-TTATAATAA-CTAATAA-TTATTATAT
* * *
18762 ATATAATAATTAAAT-TAATATCT--TAAATATTATAT
1 -TATAAT--TTAATTATAATAACTAATAATTATTATAT
*
18797 TATAATTTAATTATAATAATTAATAATTATTATAT
1 TATAATTTAATTATAATAACTAATAATTATTATAT
18832 TAT-ATTT-A-TATGAAT-ACTAATAAT
1 TATAATTTAATTAT-AATAACTAATAAT
18856 ATCTTATAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
32 16 0.21
33 10 0.13
34 15 0.20
35 19 0.25
37 1 0.01
38 10 0.13
39 1 0.01
40 4 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (35 bp):
TATAATTTAATTATAATAACTAATAATTATTATAT
Found at i:19208 original size:18 final size:17
Alignment explanation
Indices: 19098--19273 Score: 108
Period size: 18 Copynumber: 9.6 Consensus size: 17
19088 TATATAATTT
19098 ATATTGATAATTATTATTAA
1 ATATT-ATAATTATTA-T-A
* *
19118 ATATATGATAATCAATATA
1 ATAT-T-ATAATTATTATA
*
19137 ATATCATATTAATTATTTTA
1 ATAT--TA-TAATTATTATA
19157 ATATTTATAATTATTATA
1 ATA-TTATAATTATTATA
*
19175 ATATTCAATAA-AATTAATA
1 ATATT--ATAATTATT-ATA
19194 ATATTATAATTATTATA
1 ATATTATAATTATTATA
*
19211 GT-TTAT-ATTATTATA
1 ATATTATAATTATTATA
* *
19226 ATATTAT-ACTACTATA
1 ATATTATAATTATTATA
*
19242 CTATTTTATTAATTATTACTA
1 --ATATTA-TAATTATTA-TA
19263 ATATTATAATT
1 ATATTATAATT
19274 GTTTGTTATT
Statistics
Matches: 126, Mismatches: 16, Indels: 30
0.73 0.09 0.17
Matches are distributed among these distances:
15 10 0.08
16 15 0.12
17 10 0.08
18 29 0.23
19 26 0.21
20 23 0.18
21 13 0.10
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (17 bp):
ATATTATAATTATTATA
Found at i:19241 original size:24 final size:24
Alignment explanation
Indices: 19195--19246 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
19185 AAATTAATAA
* * *
19195 TATTATAATTATTATAGTTTATAT
1 TATTATAATTATTATACTCTATAC
19219 TATTATAA-TATTATACTACTATAC
1 TATTATAATTATTATACT-CTATAC
19243 TATT
1 TATT
19247 TTATTAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (24 bp):
TATTATAATTATTATACTCTATAC
Found at i:19283 original size:16 final size:16
Alignment explanation
Indices: 19264--19299 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
19254 TTATTACTAA
* *
19264 TATTATAATTGTTTGT
1 TATTATAATTCTTTAT
19280 TATTATAATTCTTTAT
1 TATTATAATTCTTTAT
19296 TATT
1 TATT
19300 GAAATAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.64
Consensus pattern (16 bp):
TATTATAATTCTTTAT
Found at i:19817 original size:14 final size:14
Alignment explanation
Indices: 19708--19813 Score: 51
Period size: 14 Copynumber: 7.2 Consensus size: 14
19698 TGTATTTTAA
*
19708 TAATTATTATAACT
1 TAATTATTATAATT
19722 TAATTAGGTTATAATTAT
1 TAATTA--TTATAA-T-T
19740 TAATATATT-TAATT
1 TAAT-TATTATAATT
19754 ATAATTAATTATTAA--
1 -TAATT-ATTA-TAATT
* *
19769 TAACTATTAATAAAT
1 TAATTATT-ATAATT
*
19784 T-ACTATTTATAATT
1 TAATTA-TTATAATT
19798 TAATTATTAT-ATT
1 TAATTATTATAATT
19811 TAA
1 TAA
19814 ATTAAAATCA
Statistics
Matches: 74, Mismatches: 4, Indels: 29
0.69 0.04 0.27
Matches are distributed among these distances:
13 12 0.16
14 27 0.36
15 14 0.19
16 9 0.12
17 5 0.07
18 5 0.07
19 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (14 bp):
TAATTATTATAATT
Found at i:20328 original size:21 final size:19
Alignment explanation
Indices: 20280--20328 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
20270 ATATTCACAA
*
20280 TATAAT-TTTAATCCATAT
1 TATAATATTTAATCAATAT
20298 TATAATTATTTAATGCAATAT
1 TATAA-TATTTAAT-CAATAT
20319 TATTAATATT
1 TA-TAATATT
20329 ATCTAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.19
19 1 0.04
20 6 0.23
21 11 0.42
22 3 0.12
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (19 bp):
TATAATATTTAATCAATAT
Found at i:21447 original size:17 final size:18
Alignment explanation
Indices: 21422--21471 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
21412 TATAATTATT
* *
21422 AATAAATTTAACTATTTC
1 AATAAATTTAAATATTTA
21440 AA-AAATTTAAATATTTA
1 AATAAATTTAAATATTTA
21457 AATAAATTTTAAATA
1 AATAAA-TTTAAATA
21472 ATTATACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 15 0.54
18 5 0.18
19 8 0.29
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAAATTTAAATATTTA
Found at i:22320 original size:10 final size:10
Alignment explanation
Indices: 22294--22328 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
22284 TTATGATTTT
22294 TTAATAATTA
1 TTAATAATTA
22304 TT-A-AATTA
1 TTAATAATTA
22312 TTAATAATTA
1 TTAATAATTA
22322 TTAATAA
1 TTAATAA
22329 ATAATTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 7 0.30
9 2 0.09
10 14 0.61
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TTAATAATTA
Found at i:22756 original size:16 final size:17
Alignment explanation
Indices: 22734--22780 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
22724 GAGTAATTCA
22734 AATATT-ATATATTAATT
1 AATATTAATA-ATTAATT
22751 -ATATTAATAATTAATT
1 AATATTAATAATTAATT
*
22767 AATATTAATTATTA
1 AATATTAATAATTA
22781 TAAATATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATATTAATAATTAATT
Found at i:22792 original size:54 final size:56
Alignment explanation
Indices: 22733--22868 Score: 138
Period size: 60 Copynumber: 2.4 Consensus size: 56
22723 AGAGTAATTC
22733 AAATATTATATATTAATTATATTAA-TAATTAAT-TAATATT-AATTATTATAAATA
1 AAATATTATATATTAATTATATTAACTAATTAATATAAT-TTAAATTATTATAAATA
* * * *
22787 TAATATTATAATGTTAGTTACTATATAACTAATTAATATAATTTCAAATTGTTATAAATA
1 AAATATTAT-ATATTAATTA-TAT-TAACTAATTAATATAATTT-AAATTATTATAAATA
*
22847 AAATA-TATA-ATATAATTCTATT
1 AAATATTATATAT-TAATTATATT
22869 TGAAATAGTT
Statistics
Matches: 66, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
54 8 0.12
55 8 0.12
56 4 0.06
57 7 0.11
58 15 0.23
59 7 0.11
60 17 0.26
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (56 bp):
AAATATTATATATTAATTATATTAACTAATTAATATAATTTAAATTATTATAAATA
Found at i:22798 original size:29 final size:28
Alignment explanation
Indices: 22733--22863 Score: 85
Period size: 29 Copynumber: 4.7 Consensus size: 28
22723 AGAGTAATTC
* *
22733 AAATATTAT-ATATTAATTA-TATTAAT
1 AAATAATATAATATTAATTATTATAAAT
*
22759 AATTAAT-TAATATTAATTATTATAAAT
1 AAATAATATAATATTAATTATTATAAAT
* * * *
22786 ATAATATTATAATGTTAGTTACTATATAACT
1 A-AATAATATAATATTAATTA-T-TATAAAT
* *
22817 AATTAATATAAT-TTCAAATTGTTATAAAT
1 AAATAATATAATATT--AATTATTATAAAT
22846 AAA-ATATATAATA-TAATT
1 AAATA-ATATAATATTAATT
22864 CTATTTGAAA
Statistics
Matches: 81, Mismatches: 14, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
25 1 0.01
26 15 0.19
27 11 0.14
28 5 0.06
29 28 0.35
30 11 0.14
31 10 0.12
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (28 bp):
AAATAATATAATATTAATTATTATAAAT
Found at i:24000 original size:22 final size:21
Alignment explanation
Indices: 23971--24013 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
23961 ATATAATTGA
23971 TATTATTATT-TGTAATTATTT
1 TATTATTATTAT-TAATTATTT
23992 TATTAATTATTATTAATTATTT
1 TATT-ATTATTATTAATTATTT
24014 AGTGTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
22 15 0.75
23 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TATTATTATTATTAATTATTT
Found at i:24488 original size:27 final size:27
Alignment explanation
Indices: 24436--24497 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
24426 AATAGTTAAT
*
24436 TATATATTAGTTTAATAATAATATATGAA
1 TATA-ATTAGTTTAATAACAATATAT-AA
*
24465 -ATAATTAGTTT-ATAACATTAATATAA
1 TATAATTAGTTTAATAACAAT-ATATAA
24491 TATAATT
1 TATAATT
24498 TAATAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
26 8 0.28
27 18 0.62
28 3 0.10
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (27 bp):
TATAATTAGTTTAATAACAATATATAA
Found at i:24957 original size:17 final size:17
Alignment explanation
Indices: 24917--24974 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
24907 ATATTTGTAG
24917 TAATTATAATTATTAAT-
1 TAATTATAATTA-TAATA
*
24934 TACTTATAATTATAATA
1 TAATTATAATTATAATA
24951 TAATTAT-ATTAATAATA
1 TAATTATAATT-ATAATA
*
24968 TTATTAT
1 TAATTAT
24975 TAGATAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 7 0.19
17 29 0.81
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATTATAATTATAATA
Found at i:24965 original size:23 final size:23
Alignment explanation
Indices: 24917--24987 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
24907 ATATTTGTAG
*
24917 TAATTATAATTATTAATTACTTA
1 TAATTATAATTATTAATTAATTA
*
24940 TAATTATAATATAATTATATTAATAA
1 TAATTATAAT-T-ATTA-ATTAATTA
* *
24966 T-ATTATTATTAGATAATTAATT
1 TAATTATAATTA-TTAATTAATT
24988 TTTAAATTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
23 17 0.44
24 4 0.10
25 11 0.28
26 7 0.18
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (23 bp):
TAATTATAATTATTAATTAATTA
Found at i:25159 original size:24 final size:22
Alignment explanation
Indices: 25132--25185 Score: 54
Period size: 24 Copynumber: 2.4 Consensus size: 22
25122 ATATTGTTTC
*
25132 ATATTATTGATAAATTATCTATAT
1 ATATTATTGATAAATTA--TATAA
* * *
25156 ATATTCTTTATATATTATATAA
1 ATATTATTGATAAATTATATAA
25178 ATATTATT
1 ATATTATT
25186 TATATGACAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 11 0.44
24 14 0.56
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (22 bp):
ATATTATTGATAAATTATATAA
Found at i:25167 original size:11 final size:11
Alignment explanation
Indices: 25105--25190 Score: 57
Period size: 11 Copynumber: 7.5 Consensus size: 11
25095 TACAATAATA
25105 TTATAT-TTAT
1 TTATATATTAT
* *
25115 TAATATAATAT
1 TTATATATTAT
*
25126 TGTTTCATATTAT
1 T-TAT-ATATTAT
* *
25139 TGATAAATTAT
1 TTATATATTAT
*
25150 CTATATATATTCT
1 -T-TATATATTAT
25163 TTATATATTAT
1 TTATATATTAT
* *
25174 ATAAATATTAT
1 TTATATATTAT
25185 TTATAT
1 TTATAT
25191 GACAAATCAT
Statistics
Matches: 55, Mismatches: 16, Indels: 9
0.69 0.20 0.11
Matches are distributed among these distances:
10 5 0.09
11 32 0.58
12 4 0.07
13 14 0.25
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.56
Consensus pattern (11 bp):
TTATATATTAT
Found at i:25550 original size:23 final size:23
Alignment explanation
Indices: 25524--25579 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
25514 TTAGTCAATA
*
25524 ATTAAAATATTA-ATTAATTATAT
1 ATTAAAATATCATATTAATTA-AT
* * *
25547 ATTATAATAACATTTTAATTAAT
1 ATTAAAATATCATATTAATTAAT
25570 ATTAAAATAT
1 ATTAAAATAT
25580 GACTAATATT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
23 19 0.73
24 7 0.27
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTAAAATATCATATTAATTAAT
Found at i:25747 original size:33 final size:37
Alignment explanation
Indices: 25702--25791 Score: 102
Period size: 37 Copynumber: 2.5 Consensus size: 37
25692 TTAAATTTAA
25702 AATT-TTAATTTAT-G-TTAAA-TTAATAAATAATAT
1 AATTATTAATTTATAGATTAAATTTAATAAATAATAT
* *
25735 -ATTATTAATTTATAGTATTAAATTTAATAAATTATTT
1 AATTATTAATTTATAG-ATTAAATTTAATAAATAATAT
25772 AATTATT-ATTTAATAGATTA
1 AATTATTAATTT-ATAGATTA
25792 TATATTATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
32 3 0.06
33 9 0.19
34 1 0.02
36 5 0.10
37 20 0.42
38 10 0.21
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (37 bp):
AATTATTAATTTATAGATTAAATTTAATAAATAATAT
Found at i:25782 original size:23 final size:22
Alignment explanation
Indices: 25756--25803 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
25746 ATAGTATTAA
*
25756 ATTTAATAAATTATTTAATTATT
1 ATTTAATAAATTATAT-ATTATT
*
25779 ATTTAATAGATTATATATTATT
1 ATTTAATAAATTATATATTATT
25801 ATT
1 ATT
25804 GTTCATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTAATAAATTATATATTATT
Found at i:26438 original size:6 final size:6
Alignment explanation
Indices: 26427--26474 Score: 64
Period size: 6 Copynumber: 8.0 Consensus size: 6
26417 AATTGATAAT
26427 ATATTA ATATTA ATATTTAA ATATTA ATA-TA A-ATTA ATATTA ATATTA
1 ATATTA ATATTA ATA-TT-A ATATTA ATATTA ATATTA ATATTA ATATTA
26475 TTAATTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
4 1 0.03
5 6 0.16
6 23 0.61
7 4 0.11
8 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:26451 original size:36 final size:33
Alignment explanation
Indices: 26415--26522 Score: 89
Period size: 35 Copynumber: 3.1 Consensus size: 33
26405 ATTATGATAT
26415 TTAATTGATAATATATTAATATTAATATTTAAATA
1 TTAATT-ATAATATATTAATATT-ATATTTAAATA
26450 TTAA-TATAAATTAATATTAATATTATTAATTT-AA-A
1 TTAATTAT-AA-T-ATATTAATATTA-T-ATTTAAATA
*
26485 TTAATTTATAATAAATTATATATT-TATTTAATATA
1 TTAA-TTATAATATATTA-ATATTATATTTAA-ATA
26520 TTA
1 TTA
26523 TACAAATTAA
Statistics
Matches: 61, Mismatches: 1, Indels: 22
0.73 0.01 0.26
Matches are distributed among these distances:
32 4 0.07
33 4 0.07
34 9 0.15
35 21 0.34
36 16 0.26
37 7 0.11
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (33 bp):
TTAATTATAATATATTAATATTATATTTAAATA
Found at i:26452 original size:20 final size:20
Alignment explanation
Indices: 26427--26485 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
26417 AATTGATAAT
26427 ATATTAATATTAATATTTAA
1 ATATTAATATTAATATTTAA
26447 ATATTAATA-TAA-A-TT-A
1 ATATTAATATTAATATTTAA
*
26463 ATATTAATATTATTAATTTAA
1 ATATTAATATTAAT-ATTTAA
26484 AT
1 AT
26486 TAATTTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
16 10 0.30
17 4 0.12
18 1 0.03
19 4 0.12
20 11 0.33
21 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATATTAATATTTAA
Found at i:26467 original size:16 final size:14
Alignment explanation
Indices: 26423--26483 Score: 72
Period size: 14 Copynumber: 4.2 Consensus size: 14
26413 ATTTAATTGA
26423 TAATATATTAATAT
1 TAATATATTAATAT
26437 TAATAT-TTAAATAT
1 TAATATATT-AATAT
26451 TAATATAAATTAATAT
1 TAATAT--ATTAATAT
26467 TAATATTATTAAT-T
1 TAATA-TATTAATAT
26481 TAA
1 TAA
26484 ATTAATTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
13 2 0.05
14 21 0.50
15 6 0.14
16 10 0.24
17 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATATATTAATAT
Found at i:26484 original size:25 final size:24
Alignment explanation
Indices: 26430--26489 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 24
26420 TGATAATATA
26430 TTAATATTAATATTTAAATATTAAT
1 TTAA-ATTAATATTTAAATATTAAT
*
26455 ATAAATTAATA-TTAATATTATTAAT
1 TTAAATTAATATTTAA-A-TATTAAT
26480 TTAAATTAAT
1 TTAAATTAAT
26490 TTATAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 4 0.13
24 8 0.26
25 19 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TTAAATTAATATTTAAATATTAAT
Found at i:27769 original size:12 final size:12
Alignment explanation
Indices: 27747--27776 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
27737 ATTATTAACA
27747 ATATT-TAATAT
1 ATATTATAATAT
27758 ATATTATAATAT
1 ATATTATAATAT
27770 ATATTAT
1 ATATTAT
27777 TACTATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATTATAATAT
Found at i:27809 original size:26 final size:27
Alignment explanation
Indices: 27780--27834 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
27770 ATATTATTAC
* *
27780 TATTTTATTTA-TAATATTTAATAAAT
1 TATTTTATTAATTAATAATTAATAAAT
27806 TA-TTTATTAATTAATAATTAATAAAT
1 TATTTTATTAATTAATAATTAATAAAT
27832 TAT
1 TAT
27835 ATAATAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TATTTTATTAATTAATAATTAATAAAT
Found at i:28086 original size:21 final size:21
Alignment explanation
Indices: 28062--28108 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
28052 AACTTATTTG
28062 TTATTATTAATAATTTAATAA
1 TTATTATTAATAATTTAATAA
* * * *
28083 TTATTTTTAGTTATTTGATAA
1 TTATTATTAATAATTTAATAA
28104 TTATT
1 TTATT
28109 CAAATATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
TTATTATTAATAATTTAATAA
Found at i:28391 original size:20 final size:20
Alignment explanation
Indices: 28366--28445 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
28356 AATTATTCAT
** *
28366 ATTATAATTTATATTATTAC
1 ATTATAATAAATATAATTAC
*
28386 ATTATAATAAATATAATTAT
1 ATTATAATAAATATAATTAC
* *
28406 ATTATAACTAATTATAA-TAT
1 ATTATAA-TAAATATAATTAC
28426 ATT-TAATATAAATATAATTA
1 ATTAT-A-ATAAATATAATTA
28446 ATATTAATAT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
19 1 0.02
20 38 0.76
21 11 0.22
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTATAATAAATATAATTAC
Found at i:28406 original size:15 final size:15
Alignment explanation
Indices: 28386--28486 Score: 50
Period size: 15 Copynumber: 6.7 Consensus size: 15
28376 ATATTATTAC
28386 ATTATAATA-AATATA
1 ATTATAATATAA-ATA
* *
28401 ATTATATTATAACTA
1 ATTATAATATAAATA
**
28416 ATTATAATATATTTA
1 ATTATAATATAAATA
*
28431 A-TATAAATATAATTA
1 ATTAT-AATATAAATA
*
28446 A-TATTAATATTTAATTA
1 ATTA-TAATA--TAAATA
*
28463 TTTATTAAT-TAAATA
1 ATTA-TAATATAAATA
28478 A-TATAATAT
1 ATTATAATAT
28487 TATATAAATA
Statistics
Matches: 70, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
13 4 0.06
14 6 0.09
15 44 0.63
16 3 0.04
17 6 0.09
18 7 0.10
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATATAAATA
Found at i:28422 original size:30 final size:29
Alignment explanation
Indices: 28368--28424 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 29
28358 TTATTCATAT
*
28368 TATAATTTATATTATTACATTATAATAAA
1 TATAATTTATATTATAACATTATAATAAA
28397 TATAA-TTATATTATAACTAATTATAATA
1 TATAATTTATATTATAAC--ATTATAATA
28425 TATTTAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 11 0.44
29 5 0.20
30 9 0.36
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (29 bp):
TATAATTTATATTATAACATTATAATAAA
Found at i:28442 original size:30 final size:30
Alignment explanation
Indices: 28386--28463 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 30
28376 ATATTATTAC
* * *
28386 ATTATAATAAATATAATTATATTATAACTA
1 ATTATAATATATTTAATTATAATATAACTA
*
28416 ATTATAATATATTTAA-TATAAATATAATTA
1 ATTATAATATATTTAATTAT-AATATAACTA
*
28446 A-TATTA-ATATTTAATTAT
1 ATTATAATATATTTAATTAT
28464 TTATTAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 8 0.20
29 10 0.24
30 23 0.56
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (30 bp):
ATTATAATATATTTAATTATAATATAACTA
Found at i:28488 original size:15 final size:15
Alignment explanation
Indices: 28429--28511 Score: 53
Period size: 15 Copynumber: 5.5 Consensus size: 15
28419 ATAATATATT
*
28429 TAATATAA-ATATAAT
1 TAATATAATAT-TAAA
*
28444 TAATATTAATATTTAA
1 TAATA-TAATATTAAA
* * *
28460 TTATTTATTAATTAAA
1 TAATATAAT-ATTAAA
*
28476 TAATATAATATTATA
1 TAATATAATATTAAA
* *
28491 TAA-ATATTATTAGA
1 TAATATAATATTAAA
28505 TAATATA
1 TAATATA
28512 TTTTAATATT
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
14 12 0.23
15 19 0.37
16 19 0.37
17 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (15 bp):
TAATATAATATTAAA
Found at i:28513 original size:57 final size:59
Alignment explanation
Indices: 28418--28549 Score: 154
Period size: 57 Copynumber: 2.3 Consensus size: 59
28408 TATAACTAAT
*
28418 TATAATAT-AT-TTAATATAAATATAATTAATATTAATA-TTTAATTATTTA-TTAATTA-A
1 TATAATATAATATT-ATATAAATATAATTAATAATAATATTTTAA-TA-TTACTTAATTATA
*
28475 -ATAATATAATATTATATAAATATTATTAGATAAT-ATATTTTAATATTACTTAATTATA
1 TATAATATAATATTATATAAATATAATTA-ATAATAATATTTTAATATTACTTAATTATA
28533 TATAATATAA-ATTATAT
1 TATAATATAATATTATAT
28550 TTATAATATA
Statistics
Matches: 66, Mismatches: 2, Indels: 13
0.81 0.02 0.16
Matches are distributed among these distances:
56 10 0.15
57 28 0.42
58 19 0.29
59 9 0.14
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (59 bp):
TATAATATAATATTATATAAATATAATTAATAATAATATTTTAATATTACTTAATTATA
Found at i:28538 original size:20 final size:20
Alignment explanation
Indices: 28485--28540 Score: 53
Period size: 23 Copynumber: 2.7 Consensus size: 20
28475 ATAATATAAT
28485 ATTATATA-AATATTATTAG
1 ATTATATATAATATTATTAG
*
28504 ATAATATATTTTAATATTACTTA-
1 AT--TATA-TATAATATTA-TTAG
28527 ATTATATATAATAT
1 ATTATATATAATAT
28541 AAATTATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
19 2 0.07
20 7 0.23
21 8 0.27
22 1 0.03
23 9 0.30
24 3 0.10
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTATATATAATATTATTAG
Found at i:28556 original size:18 final size:18
Alignment explanation
Indices: 28392--28582 Score: 83
Period size: 18 Copynumber: 10.7 Consensus size: 18
28382 TTACATTATA
28392 ATAA-ATATAAT-TATATT
1 ATAATATATAATATAT-TT
28409 ATAACTAATTATAATATA-TT
1 ATAA-T-A-TATAATATATTT
28429 -TAATATA-AATATAATTAAT
1 ATAATATATAATAT-ATT--T
*
28448 ATTAATATTTAAT-TATTT
1 A-TAATATATAATATATTT
*
28466 ATTAAT-TA-AATA-ATATA
1 A-TAATATATAATATAT-TT
*
28483 ATATTATATAA-ATA-TT
1 ATAATATATAATATATTT
*
28499 AT--TAGATAATATATTT
1 ATAATATATAATATATTT
*
28515 -TAATATTACTTAAT-TATAT
1 ATAATA-TA--TAATATATTT
28534 ATAATATA-AATTATATTT
1 ATAATATATAA-TATATTT
28552 ATAATATATAATATATTT
1 ATAATATATAATATATTT
28570 AT-ATATATTAATA
1 ATAATATA-TAATA
28583 ATTATTATTT
Statistics
Matches: 136, Mismatches: 9, Indels: 57
0.67 0.04 0.28
Matches are distributed among these distances:
14 6 0.04
15 9 0.07
16 18 0.13
17 20 0.15
18 38 0.28
19 12 0.09
20 15 0.11
21 13 0.10
22 5 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (18 bp):
ATAATATATAATATATTT
Found at i:28578 original size:57 final size:56
Alignment explanation
Indices: 28364--28587 Score: 157
Period size: 50 Copynumber: 4.2 Consensus size: 56
28354 CAAATTATTC
* * *
28364 ATATTA-TAATT-TATATTAT-TACATTATA-ATA-AATATA-ATTATA-TTATA-
1 ATATTATTAATTATATATAATATAAATTATATATATAATATATAATATATTTATAT
* *
28412 ACTAATTA-TAA-TATATTTAATATAAA-TATA-AT-TAATAT-TAATAT-TTAAT-T
1 A-T-ATTATTAATTATATATAATATAAATTATATATATAATATATAATATATTTATAT
* *
28462 AT-TTATTAATTA-A-ATAATATAATATTATATAAATATTATTAGATAATATATTT-TA-
1 ATATTATTAATTATATATAATATAA-ATTATAT--ATA-TAATATATAATATATTTATAT
*
28517 ATATTACTTAATTATATATAATATAAATTATATTTATAATATATAATATATTTATAT
1 ATATTA-TTAATTATATATAATATAAATTATATATATAATATATAATATATTTATAT
*
28574 ATATTAATAATTAT
1 ATATTATTAATTAT
28588 TATTTAAGCT
Statistics
Matches: 137, Mismatches: 13, Indels: 44
0.71 0.07 0.23
Matches are distributed among these distances:
47 11 0.08
48 6 0.04
49 9 0.07
50 32 0.23
51 3 0.02
52 2 0.01
54 4 0.03
55 24 0.18
56 16 0.12
57 13 0.09
58 8 0.06
59 9 0.07
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (56 bp):
ATATTATTAATTATATATAATATAAATTATATATATAATATATAATATATTTATAT
Found at i:28586 original size:40 final size:40
Alignment explanation
Indices: 28478--28593 Score: 107
Period size: 40 Copynumber: 2.9 Consensus size: 40
28468 TAATTAAATA
* *
28478 ATATAATATTATATAAATATTATTAGATAA-TATATTT-TAAT
1 ATATAATA-TATTTATATA-TATTA-ATAATTATATTTATAAT
* * *
28519 AT-TACT-TAATTATATATAAT-ATAAATTATATTTATAAT
1 ATATAATATATTTATATATATTAAT-AATTATATTTATAAT
28557 ATATAATATATTTATATATATTAATAATTATTATTTA
1 ATATAATATATTTATATATATTAATAATTA-TATTTA
28594 AGCTAACTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
35 2 0.03
36 2 0.03
37 10 0.17
38 13 0.22
39 3 0.05
40 20 0.33
41 10 0.17
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (40 bp):
ATATAATATATTTATATATATTAATAATTATATTTATAAT
Found at i:28588 original size:20 final size:19
Alignment explanation
Indices: 28498--28588 Score: 73
Period size: 20 Copynumber: 4.7 Consensus size: 19
28488 ATATAAATAT
28498 TATTAGATAATATATTT-TAA
1 TATTA-ATAAT-TATTTATAA
* *
28518 TATTACTTAATTATATATAA
1 TATTA-ATAATTATTTATAA
* *
28538 TATAAATTA-TATTTATAA
1 TATTAATAATTATTTATAA
28556 TA-T-ATAATATATTTATATA
1 TATTAATAAT-TATTTATA-A
28575 TATTAATAATTATT
1 TATTAATAATTATT
28589 ATTTAAGCTA
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
16 3 0.05
18 18 0.32
19 9 0.16
20 21 0.38
21 5 0.09
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (19 bp):
TATTAATAATTATTTATAA
Found at i:28961 original size:23 final size:23
Alignment explanation
Indices: 28914--28958 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
28904 TAATTAAGTC
* *
28914 AATTTATAATTTGTATTATTATT
1 AATTTATAATTTATATAATTATT
28937 AATTTAT-ATTTATATAATTATT
1 AATTTATAATTTATATAATTATT
28959 TAAATAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
AATTTATAATTTATATAATTATT
Found at i:29031 original size:17 final size:17
Alignment explanation
Indices: 28989--29047 Score: 54
Period size: 17 Copynumber: 3.6 Consensus size: 17
28979 TTAATATATT
28989 ATAATT-ATAACAT-TAC
1 ATAATTAATAA-ATATAC
*
29005 A-AATTAATAATTATAC
1 ATAATTAATAAATATAC
*
29021 ATAATTTATAAATATA-
1 ATAATTAATAAATATAC
29037 ATAAATTAATA
1 AT-AATTAATA
29048 TTATTTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
15 5 0.14
16 11 0.31
17 19 0.54
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAATTAATAAATATAC
Found at i:29357 original size:28 final size:30
Alignment explanation
Indices: 29317--29372 Score: 73
Period size: 28 Copynumber: 1.9 Consensus size: 30
29307 TAACTAATTG
29317 AAATTATATTATT-TAATTA-TAATATATT
1 AAATTATATTATTATAATTATTAATATATT
*
29345 AAATTA-ATGTATTATATTTATTAATATA
1 AAATTATAT-TATTATAATTATTAATATA
29373 CAATTAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 2 0.08
28 10 0.42
29 5 0.21
30 7 0.29
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (30 bp):
AAATTATATTATTATAATTATTAATATATT
Found at i:29857 original size:27 final size:28
Alignment explanation
Indices: 29822--29883 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
29812 TTTCAACAAT
29822 TATTA-ATTAATCAAATAGTA-AAATA-A
1 TATTATATTAATCAAATA-TATAAATATA
*
29848 TATTATATTATTCAAATATATAAATATA
1 TATTATATTAATCAAATATATAAATATA
*
29876 TATGATAT
1 TATTATAT
29884 ATTATTTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 7 0.23
27 16 0.52
28 8 0.26
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (28 bp):
TATTATATTAATCAAATATATAAATATA
Found at i:30361 original size:18 final size:19
Alignment explanation
Indices: 30311--30364 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
30301 TAAATATTAA
30311 ATAATT-ATATTAAT-TAT
1 ATAATTAATATTAATATAT
30328 ATAACTTAA-ATATAATAT-T
1 ATAA-TTAATAT-TAATATAT
30347 ATAATTAATATTAATATA
1 ATAATTAATATTAATATA
30365 GTTAAAATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
17 4 0.13
18 14 0.45
19 12 0.39
20 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAATTAATATTAATATAT
Found at i:30506 original size:35 final size:36
Alignment explanation
Indices: 30467--30564 Score: 102
Period size: 35 Copynumber: 2.8 Consensus size: 36
30457 TATATTATCC
30467 TATATAATTATATAATATATTTATTATTT-A-TTATT
1 TATATAATTATATAATATATTTATTATTTAAGTTA-T
30502 TATATAA-TAT-TAATA-ACTATTATATATTTAAGTTAT
1 TATATAATTATATAATATA-T-TTAT-TATTTAAGTTAT
30538 T-TATAATTATTATAAT-TATTTATTATT
1 TATATAATTA-TATAATATATTTATTATT
30565 ATTTTAGTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 18
0.75 0.00 0.25
Matches are distributed among these distances:
32 1 0.02
33 6 0.11
34 7 0.13
35 21 0.39
36 9 0.17
37 5 0.09
38 5 0.09
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (36 bp):
TATATAATTATATAATATATTTATTATTTAAGTTAT
Found at i:30929 original size:19 final size:20
Alignment explanation
Indices: 30907--30946 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
30897 CAATATTAAA
30907 ATAGTCA-TAAT-TAATTATT
1 ATAGTCATTAATAT-ATTATT
30926 ATAGTCATTAATATATTATT
1 ATAGTCATTAATATATTATT
30946 A
1 A
30947 ATTTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 11 0.58
21 1 0.05
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (20 bp):
ATAGTCATTAATATATTATT
Found at i:31151 original size:20 final size:20
Alignment explanation
Indices: 31128--31166 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31118 TATTATAATA
*
31128 TAATATAATATTAAATATAT
1 TAATAAAATATTAAATATAT
*
31148 TAATAAAATATTAATTATA
1 TAATAAAATATTAAATATA
31167 ATTTATCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAATAAAATATTAAATATAT
Found at i:31272 original size:22 final size:20
Alignment explanation
Indices: 31246--31318 Score: 83
Period size: 22 Copynumber: 3.5 Consensus size: 20
31236 ACTATAAAGT
31246 ATAATAAATATTATAATATTA
1 ATAAT-AATATTATAATATTA
*
31267 ATTAATAATAATTATAATCTTTA
1 A-TAATAAT-ATTATAAT-ATTA
* *
31290 AAAATAATATTATAATAATA
1 ATAATAATATTATAATATTA
31310 ATAATAATA
1 ATAATAATA
31319 ATAGTTTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 10 0.23
21 12 0.27
22 18 0.41
23 4 0.09
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAATAATATTATAATATTA
Found at i:31446 original size:9 final size:10
Alignment explanation
Indices: 31432--31471 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
31422 TAACTTTTAA
31432 ATAAT-TATT
1 ATAATATATT
31441 ATAAT-TATT
1 ATAATATATT
31450 ATAAATATATT
1 AT-AATATATT
31461 -TAATATATT
1 ATAATATATT
31470 AT
1 AT
31472 TTGATAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 19 0.68
10 5 0.18
11 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
ATAATATATT
Found at i:31520 original size:39 final size:40
Alignment explanation
Indices: 31440--31521 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 40
31430 AAATAATTAT
* * *
31440 TATAATTATTATAAATATATTTAATATATTATTTGATAAA
1 TATAATTATTATAAATATATTTAATATATTATATAAAAAA
* *
31480 TATAATTA-TATAATTATATTTATTAATATTA-ATAAAAAA
1 TATAATTATTATAAATATATTTAAT-ATATTATATAAAAAA
31519 TAT
1 TAT
31522 TAATGGTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 22 0.61
40 14 0.39
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (40 bp):
TATAATTATTATAAATATATTTAATATATTATATAAAAAA
Found at i:31571 original size:14 final size:14
Alignment explanation
Indices: 31535--31600 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 14
31525 TGGTAATTTA
31535 TTATAATTAATTAAT
1 TTATAATT-ATTAAT
31550 TATAATAATTATTAAT
1 T-T-ATAATTATTAAT
*
31566 TTATAATTA-TAAA
1 TTATAATTATTAAT
31579 TTA-AATT-TT-AT
1 TTATAATTATTAAT
31590 TTAATAATTAT
1 TT-ATAATTAT
31601 ATATTAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
11 3 0.07
12 6 0.14
13 10 0.23
14 8 0.19
15 2 0.05
16 8 0.19
17 6 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATAATTATTAAT
Found at i:31948 original size:18 final size:19
Alignment explanation
Indices: 31922--31971 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
31912 TTTGTTACTG
*
31922 TAAATTTATATAAATA-AT
1 TAAAATTATATAAATATAT
*
31940 TAAAATTAT-TAATTATAT
1 TAAAATTATATAAATATAT
*
31958 TAATATTA-ATAAAT
1 TAAAATTATATAAAT
31972 TTTATAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAAAATTATATAAATATAT
Found at i:32963 original size:12 final size:12
Alignment explanation
Indices: 32884--32964 Score: 60
Period size: 12 Copynumber: 6.6 Consensus size: 12
32874 TATCATTAAT
32884 TATTAATTAATTA
1 TATTAA-TAATTA
* *
32897 TAATATTAATTGA
1 TATTAATAATT-A
*
32910 TATAAAT-A-TA
1 TATTAATAATTA
*
32920 TTATTAAAATATTA
1 -TATTAATA-ATTA
32934 TCATT-ATAATTA
1 T-ATTAATAATTA
32946 TATTAATAATTA
1 TATTAATAATTA
32958 TATTAAT
1 TATTAAT
32965 TTGATAATAT
Statistics
Matches: 53, Mismatches: 8, Indels: 15
0.70 0.11 0.20
Matches are distributed among these distances:
10 1 0.02
11 9 0.17
12 25 0.47
13 13 0.25
14 5 0.09
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (12 bp):
TATTAATAATTA
Found at i:33151 original size:29 final size:26
Alignment explanation
Indices: 33092--33157 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 26
33082 ATAATAGAAT
33092 TTATAATTATTATAAATTTTAAATAA
1 TTATAATTATTATAAATTTTAAATAA
* * *
33118 ATATAATTATATATTAATTATTTAATTAA
1 TTATAATTAT-TA-TAAAT-TTTAAATAA
33147 TTATAA-TATTA
1 TTATAATTATTA
33158 ACTGATATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
26 9 0.27
27 4 0.12
28 7 0.21
29 13 0.39
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TTATAATTATTATAAATTTTAAATAA
Found at i:33494 original size:28 final size:28
Alignment explanation
Indices: 33452--33505 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
33442 TTATAAAATT
33452 AATAATTATTATATA-TTATTTATATATA
1 AATAATTATTATATATTTA-TTATATATA
* *
33480 AATAATTTTTGTATATTTATTATATA
1 AATAATTATTATATATTTATTATATA
33506 AATTACATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (28 bp):
AATAATTATTATATATTTATTATATATA
Found at i:33649 original size:24 final size:24
Alignment explanation
Indices: 33621--33668 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
33611 AATATATTAT
*
33621 TAAATAATAATTATTTACAATATA
1 TAAATAATAATTATATACAATATA
* *
33645 TAAATATTAATTATATATAATATA
1 TAAATAATAATTATATACAATATA
33669 GTTTATAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
TAAATAATAATTATATACAATATA
Found at i:33681 original size:13 final size:14
Alignment explanation
Indices: 33641--33687 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
33631 TTATTTACAA
33641 TATATAAATATTAAT
1 TATATAAATA-TAAT
*
33656 TATATATAATATAGT
1 TATATA-AATATAAT
33671 T-TATAAATATAA-
1 TATATAAATATAAT
33683 TATAT
1 TATAT
33688 GTTTAAACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 1 0.04
13 9 0.32
14 4 0.14
15 10 0.36
16 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
TATATAAATATAAT
Found at i:33891 original size:20 final size:20
Alignment explanation
Indices: 33868--33918 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
33858 AATAATACTT
*
33868 ATTAATTAATAATTATTAAA
1 ATTAATTAATAATAATTAAA
*
33888 ATT-ATAAATAAATAATTAAA
1 ATTAATTAAT-AATAATTAAA
*
33908 ATTATTTAATA
1 ATTAATTAATA
33919 TTAACTTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 5 0.20
20 16 0.64
21 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATTAATTAATAATAATTAAA
Found at i:34098 original size:20 final size:19
Alignment explanation
Indices: 34059--34104 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
34049 TAATTAATTT
34059 ATTATAATTAAAGATAATA
1 ATTATAATTAAAGATAATA
34078 ATTATAATTACAA-ATTAATA
1 ATTATAATTA-AAGA-TAATA
34098 ATTATAA
1 ATTATAA
34105 CCTAATTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
ATTATAATTAAAGATAATA
Found at i:34977 original size:15 final size:13
Alignment explanation
Indices: 34939--34991 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
34929 ATATATTAGA
34939 TAATTATTATAAC
1 TAATTATTATAAC
*
34952 TAATATATTATAATT
1 TAAT-TATTATAA-C
*
34967 TAATTACTTATACC
1 TAATTA-TTATAAC
*
34981 AAATTATTATA
1 TAATTATTATA
34992 TGTAACTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 9 0.27
14 15 0.45
15 9 0.27
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (13 bp):
TAATTATTATAAC
Found at i:35092 original size:29 final size:26
Alignment explanation
Indices: 35031--35096 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 26
35021 TAATACATGC
*
35031 ATATTAATTATTAATATTTAATAATTT
1 ATATTAA-TATTAATATATAATAATTT
*
35058 GT-TTAATATTAATATATAATTAATATTT
1 ATATTAATATTAATATATAA-T-A-ATTT
35086 ATATTAATATT
1 ATATTAATATT
35097 TATCTAATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 12 0.38
26 5 0.16
27 2 0.06
28 5 0.16
29 8 0.25
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (26 bp):
ATATTAATATTAATATATAATAATTT
Found at i:35093 original size:12 final size:12
Alignment explanation
Indices: 35063--35099 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
35053 AATTTGTTTA
*
35063 ATATTAATATAT
1 ATATTAATATTT
35075 A-ATTAATATTT
1 ATATTAATATTT
35086 ATATTAATATTT
1 ATATTAATATTT
35098 AT
1 AT
35100 CTAATAGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
ATATTAATATTT
Found at i:35093 original size:23 final size:22
Alignment explanation
Indices: 35063--35176 Score: 74
Period size: 23 Copynumber: 4.9 Consensus size: 22
35053 AATTTGTTTA
35063 ATATTAATATATAATTAATATTT
1 ATATTAATATATAATTAATA-TT
*
35086 ATATTAATAT-TTATCTAATAGCTT
1 ATATTAATATATAAT-TAATA--TT
35110 A-ATT-ATATTATAATTAATTAATT
1 ATATTAATA-TATAATTAA-T-ATT
*
35133 ATAATTAAATATAATAATTAATAGT
1 AT-ATT-AATAT-ATAATTAATATT
*
35158 ATAATTAATAAAT-ATTAAT
1 AT-ATTAATATATAATTAAT
35177 TTTTTAATAT
Statistics
Matches: 75, Mismatches: 5, Indels: 23
0.73 0.05 0.22
Matches are distributed among these distances:
22 12 0.16
23 27 0.36
24 11 0.15
25 12 0.16
26 2 0.03
27 11 0.15
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
ATATTAATATATAATTAATATT
Found at i:35130 original size:19 final size:19
Alignment explanation
Indices: 35108--35166 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
35098 ATCTAATAGC
35108 TTAATTATATTATAATTAA
1 TTAATTATATTATAATTAA
35127 TTAATTATAATTA-AATATAA
1 TTAATTAT-ATTATAAT-TAA
*
35147 -TAATTAATAGTATAATTAA
1 TTAATT-ATATTATAATTAA
35166 T
1 T
35167 AAATATTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
19 22 0.65
20 12 0.35
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
TTAATTATATTATAATTAA
Found at i:39392 original size:43 final size:41
Alignment explanation
Indices: 39319--39401 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 41
39309 TCAAGGAGCT
** *
39319 TTTATTTTTTAAAGTTGTTGTGCCTCTGTTTAGATGAGCCA
1 TTTATTTTTTAAAGTTGTTAAGCCTCTGTTTAGAAGAGCCA
39360 TTTATTTTTCTCAAAGTTGTTAAGCC-CTTGTTTAGAAGAGCC
1 TTTATTTTT-T-AAAGTTGTTAAGCCTC-TGTTTAGAAGAGCC
39402 TTGTTTACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 9 0.25
42 2 0.06
43 25 0.69
ACGTcount: A:0.22, C:0.14, G:0.18, T:0.46
Consensus pattern (41 bp):
TTTATTTTTTAAAGTTGTTAAGCCTCTGTTTAGAAGAGCCA
Found at i:39613 original size:36 final size:36
Alignment explanation
Indices: 39544--39618 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 36
39534 CACCCTAATT
* * **
39544 GGTTTGAGCCCAAGCCCATTGGGCCTGGTTCAATAG
1 GGTTTGAGCCCAAGCCCATCGAGCCTGCCTCAATAG
* * *
39580 GGTTTGAGCCTAAGCCCATCGAGCTTGCCTCAATGG
1 GGTTTGAGCCCAAGCCCATCGAGCCTGCCTCAATAG
39616 GGT
1 GGT
39619 CCAGTAGTCA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (36 bp):
GGTTTGAGCCCAAGCCCATCGAGCCTGCCTCAATAG
Found at i:39679 original size:12 final size:12
Alignment explanation
Indices: 39657--39704 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
39647 TTTTATGGGC
39657 TTTATTTTTTTAT
1 TTTA-TTTTTTAT
39670 TTTATTTTTTAT
1 TTTATTTTTTAT
*
39682 TCTTA-CTTTTATT
1 T-TTATTTTTTA-T
39695 TTTATTTTTT
1 TTTATTTTTT
39705 TCATTTTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 17 0.57
13 13 0.43
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTATTTTTTAT
Found at i:40071 original size:35 final size:33
Alignment explanation
Indices: 40031--40099 Score: 86
Period size: 32 Copynumber: 2.0 Consensus size: 33
40021 ATATTGTATT
* *
40031 TAATTAATTTGAACTTGTATTAATATTAATAA-AAA
1 TAATTAA-TT-AACTTAT-TTAATAGTAATAATAAA
40066 TAATTAATTAACTTATTTAATAGTAATAATAAA
1 TAATTAATTAACTTATTTAATAGTAATAATAAA
40099 T
1 T
40100 TAATAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 12 0.39
33 10 0.32
34 2 0.06
35 7 0.23
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (33 bp):
TAATTAATTAACTTATTTAATAGTAATAATAAA
Found at i:40600 original size:23 final size:23
Alignment explanation
Indices: 40569--40621 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
40559 ATCATTTGCT
40569 TTATCATAA-TAAATAATT-TATTAA
1 TTAT-ATAATTAAAT-ATTATA-TAA
40593 TTATATAATTAAATATTATATAA
1 TTATATAATTAAATATTATATAA
40616 TTATAT
1 TTATAT
40622 TTTATTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
TTATATAATTAAATATTATATAA
Found at i:40601 original size:8 final size:8
Alignment explanation
Indices: 40581--40658 Score: 51
Period size: 8 Copynumber: 10.0 Consensus size: 8
40571 ATCATAATAA
40581 ATAATT-T
1 ATAATTAT
40588 ATTAATTAT
1 A-TAATTAT
*
40597 ATAATTAA
1 ATAATTAT
40605 AT-ATTAT
1 ATAATTAT
40612 ATAATTAT
1 ATAATTAT
*
40620 AT-TTTAT
1 ATAATTAT
40627 -TAA-TAT
1 ATAATTAT
*
40633 ATTAAATAT
1 A-TAATTAT
40642 AATAATT-T
1 -ATAATTAT
40650 AATAATTAT
1 -ATAATTAT
40659 TAGTAACTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
6 4 0.07
7 11 0.19
8 31 0.54
9 10 0.18
10 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
ATAATTAT
Found at i:40610 original size:15 final size:15
Alignment explanation
Indices: 40592--40658 Score: 57
Period size: 15 Copynumber: 4.3 Consensus size: 15
40582 TAATTTATTA
40592 ATTATATAATTAAAT
1 ATTATATAATTAAAT
*
40607 ATTATATAATTATAT
1 ATTATATAATTAAAT
*
40622 TTTATTAATATATTAAAT
1 ATTA-T-ATA-ATTAAAT
*
40640 A-TA-ATAATTTAAT
1 ATTATATAATTAAAT
40653 AATTAT
1 -ATTAT
40659 TAGTAACTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
13 6 0.15
14 4 0.10
15 19 0.46
16 1 0.02
17 5 0.12
18 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTATATAATTAAAT
Found at i:40684 original size:13 final size:13
Alignment explanation
Indices: 40588--40684 Score: 71
Period size: 13 Copynumber: 7.6 Consensus size: 13
40578 TAAATAATTT
40588 ATTAATTA-TATA
1 ATTAATTATTATA
*
40600 ATTAAATATTAT-
1 ATTAATTATTATA
* *
40612 A-TAATTATATTTT
1 ATTAATTAT-TATA
40625 ATTAATATATTA-A
1 ATTAAT-TATTATA
*
40638 ATATAATAATT-TA
1 AT-TAATTATTATA
40651 A-TAATTATTAGTA
1 ATTAATTATTA-TA
*
40664 ACTAATTATTATA
1 ATTAATTATTATA
40677 ATTAATTA
1 ATTAATTA
40685 GGTAGTATTA
Statistics
Matches: 67, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
11 13 0.19
12 10 0.15
13 23 0.34
14 18 0.27
15 3 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (13 bp):
ATTAATTATTATA
Found at i:40773 original size:15 final size:14
Alignment explanation
Indices: 40742--40788 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
40732 ATTAAATAAA
40742 AATTAAAAA-TT-T
1 AATTAAAAATTTAT
40754 AATTATAAAATTTAT
1 AATTA-AAAATTTAT
40769 AATTAAATAATTTA-
1 AATTAAA-AATTTAT
40783 AATTAA
1 AATTAA
40789 TTATTATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 5 0.16
13 4 0.13
14 10 0.32
15 12 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTAAAAATTTAT
Found at i:40957 original size:19 final size:20
Alignment explanation
Indices: 40933--40974 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
40923 ATTAATAATG
*
40933 ATATTATTATTAATATTA-A
1 ATATTATTACTAATATTATA
40952 ATATTATTACTAATATTATA
1 ATATTATTACTAATATTATA
40972 ATA
1 ATA
40975 ATTTTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATTATTACTAATATTATA
Found at i:41210 original size:6 final size:6
Alignment explanation
Indices: 41193--41229 Score: 65
Period size: 6 Copynumber: 6.0 Consensus size: 6
41183 ATTTAATATG
41193 TAATTAA TAATTA TAATTA TAATTA TAATTA TAATTA
1 TAATT-A TAATTA TAATTA TAATTA TAATTA TAATTA
41230 AATAAGTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
TAATTA
Found at i:41222 original size:18 final size:19
Alignment explanation
Indices: 41193--41241 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
41183 ATTTAATATG
41193 TAATTAATAATTATAATTA
1 TAATTAATAATTATAATTA
41212 TAATT-ATAATTATAATTA
1 TAATTAATAATTATAATTA
41230 -AA-TAAGTAATTA
1 TAATTAA-TAATTA
41242 ATTACACATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 1 0.04
17 3 0.11
18 19 0.68
19 5 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TAATTAATAATTATAATTA
Found at i:41709 original size:24 final size:24
Alignment explanation
Indices: 41663--41709 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
41653 ACTATTTCAA
*
41663 TTATTATATAATTAATAATAACTC
1 TTATTATATAATAAATAATAACTC
*
41687 TTATTATTTTAATAAATAA-AACT
1 TTATTA-TATAATAAATAATAACT
41710 AAATTATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (24 bp):
TTATTATATAATAAATAATAACTC
Found at i:41826 original size:18 final size:17
Alignment explanation
Indices: 41780--41829 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 17
41770 AATTGTAAAA
41780 TAATTATAAATATTTATT
1 TAATT-TAAATATTTATT
*
41798 TATTTTAAATATGTTATTT
1 TAATTTAAATAT-TTA-TT
41817 TAATTTAATATAT
1 TAATTTAA-ATAT
41830 ATACAAGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 9 0.33
20 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TAATTTAAATATTTATT
Found at i:42368 original size:22 final size:22
Alignment explanation
Indices: 42343--42388 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
42333 ATATCTCGAT
* *
42343 TATTATTAATAATTATTATATA
1 TATTACTAATAATTAATATATA
42365 TATTACTAATAATTAATATATA
1 TATTACTAATAATTAATATATA
42387 TA
1 TA
42389 AGTTAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTACTAATAATTAATATATA
Found at i:42640 original size:30 final size:31
Alignment explanation
Indices: 42598--42657 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
42588 ATTGCTTGGA
42598 TAAATTTAAATAAATAATTTAGT-AATTTAT
1 TAAATTTAAATAAATAATTTAGTAAATTTAT
* *
42628 TAAAGTTT-AATAAGTAATTTATTAAATTTA
1 TAAA-TTTAAATAAATAATTTAGTAAATTTA
42658 ATTGTTATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (31 bp):
TAAATTTAAATAAATAATTTAGTAAATTTAT
Found at i:42659 original size:21 final size:22
Alignment explanation
Indices: 42618--42659 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
42608 TAAATAATTT
42618 AGTAATTTATTAAAGTTTAATA
1 AGTAATTTATTAAAGTTTAATA
42640 AGTAATTTATTAAA-TTTAAT
1 AGTAATTTATTAAAGTTTAAT
42660 TGTTATCAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (22 bp):
AGTAATTTATTAAAGTTTAATA
Found at i:43048 original size:15 final size:15
Alignment explanation
Indices: 43028--43066 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
43018 ATTTTGTTAT
*
43028 TATTTAAATTAATAA
1 TATTTAAATAAATAA
*
43043 TATTTAAATAAATAT
1 TATTTAAATAAATAA
43058 TATATTAAA
1 TAT-TTAAA
43067 AACTTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TATTTAAATAAATAA
Found at i:43157 original size:21 final size:20
Alignment explanation
Indices: 43131--43173 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
43121 AATATCAAGT
43131 ATAAATAATA-ATAATAATATA
1 ATAAATAATATA-AATAA-ATA
*
43152 ATAAATTATATAAATAAATA
1 ATAAATAATATAAATAAATA
43172 AT
1 AT
43174 TATAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 14 0.70
22 1 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAAATAATATAAATAAATA
Found at i:43180 original size:22 final size:21
Alignment explanation
Indices: 43143--43183 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
43133 AAATAATAAT
43143 AATAATATAATAAATTATATA
1 AATAATATAATAAATTATATA
43164 AATAA-ATAATTATAATTATA
1 AATAATATAA-TA-AATTATA
43184 ATTATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 7 0.39
22 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AATAATATAATAAATTATATA
Found at i:43215 original size:20 final size:19
Alignment explanation
Indices: 43176--43216 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
43166 TAAATAATTA
43176 TAATTATAATTATTTAATC
1 TAATTATAATTATTTAATC
43195 TAATTATTAATTTATTT-ATC
1 TAATTA-TAA-TTATTTAATC
43215 TA
1 TA
43217 TTTAATAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 8 0.40
21 6 0.30
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
TAATTATAATTATTTAATC
Found at i:43276 original size:25 final size:21
Alignment explanation
Indices: 43257--43300 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
43247 ATATTACTAC
43257 TTTATAAAATAATATTTATTAA
1 TTTAT-AAATAATATTTATTAA
*
43279 TTTATTAATAATATTTATTAA
1 TTTATAAATAATATTTATTAA
43300 T
1 T
43301 ATTAATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTATAAATAATATTTATTAA
Found at i:43288 original size:21 final size:19
Alignment explanation
Indices: 43264--43313 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 19
43254 TACTTTATAA
43264 AATAATATTTATTAATTTATT
1 AATAATATTTATTAA--TATT
43285 AATAATATTTATTAATATT
1 AATAATATTTATTAATATT
*
43304 AATTATATTT
1 AATAATATTT
43314 TATTTGTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 13 0.46
21 15 0.54
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AATAATATTTATTAATATT
Done.