Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009034.1 Hibiscus syriacus cultivar Beakdansim tig00112441_pilon, 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: 175383
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:2525 original size:44 final size:43
Alignment explanation
Indices: 2457--2611 Score: 158
Period size: 44 Copynumber: 3.5 Consensus size: 43
2447 GGGGAAAGTA
*
2457 AAAAAATAAAAAAAACATAAAAATAATAAATAATAAATCAAAGG
1 AAAAAATAAAAAATA-ATAAAAATAATAAATAATAAATCAAAGG
* *
2501 AAAAAATAAAATAATAATAGAAATAATAGA-AATAAATCAAAGG
1 AAAAAATAAAA-AATAATAAAAATAATAAATAATAAATCAAAGG
*
2544 AAAAAATGAAAAATATAA-AAAAATATTAAATAAATCAAAGGTC-AA-G
1 AAAAAAT-AAAAA-ATAATAAAAATAATAAAT-AAT-AAA--TCAAAGG
2590 AAAAAATAAAATAA-AATAAAAA
1 AAAAAATAAAA-AATAATAAAAA
2612 AGTTAAATTT
Statistics
Matches: 95, Mismatches: 6, Indels: 19
0.79 0.05 0.16
Matches are distributed among these distances:
43 30 0.32
44 33 0.35
45 16 0.17
46 12 0.13
47 2 0.02
48 2 0.02
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.17
Consensus pattern (43 bp):
AAAAAATAAAAAATAATAAAAATAATAAATAATAAATCAAAGG
Found at i:2646 original size:16 final size:17
Alignment explanation
Indices: 2626--2666 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
2616 AAATTTTTAA
2626 AAATAATAAAATAAAA-
1 AAATAATAAAATAAAAG
* *
2642 TAAT-ATGAAATAAAAG
1 AAATAATAAAATAAAAG
2658 AAATAATAA
1 AAATAATAA
2667 TAATTTTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 3
0.73 0.15 0.12
Matches are distributed among these distances:
15 10 0.53
16 6 0.32
17 3 0.16
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (17 bp):
AAATAATAAAATAAAAG
Found at i:2690 original size:23 final size:22
Alignment explanation
Indices: 2602--2689 Score: 68
Period size: 23 Copynumber: 3.6 Consensus size: 22
2592 AAAATAAAAT
*
2602 AAAATAAAAAAGTTAAATTTTTA
1 AAAATAAAAAA-TAAAATTTTTA
* *
2625 AAAATAATAAAATAAAATAATATGA
1 AAAATAA-AAAATAAAAT--TTTTA
*
2650 AATAAAAGAAATAATAATAATTTTTA
1 AA-AATA-AAA-AATAA-AATTTTTA
2676 AAAATAAAAAATAA
1 AAAATAAAAAATAA
2690 TTAAAAATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
23 17 0.33
24 7 0.14
25 8 0.16
26 10 0.20
27 6 0.12
28 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.28
Consensus pattern (22 bp):
AAAATAAAAAATAAAATTTTTA
Found at i:3924 original size:13 final size:14
Alignment explanation
Indices: 3906--3938 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3896 AAAGTGAAAT
3906 AAATAAA-AATGAA
1 AAATAAATAATGAA
*
3919 AAATAAATAATTAA
1 AAATAAATAATGAA
3933 AAATAA
1 AAATAA
3939 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (14 bp):
AAATAAATAATGAA
Found at i:4085 original size:34 final size:34
Alignment explanation
Indices: 3994--4170 Score: 135
Period size: 34 Copynumber: 4.9 Consensus size: 34
3984 AAAATTTCAA
*
3994 AAAACGTTTTCAAAACTTATATATTATATATATTT-
1 AAAATGTTTT-AAAAC-TATATATTATATATATTTC
* * **
4029 -AATTTTTTTAAAAAAAACTATATTATATAT-TTTC
1 AAAATGTTTT-AAAACTA-TATATTATATATATTTC
* *
4063 AAAATGTTTTCAAAACTATATATTATATACATTTTT
1 AAAATGTTTT-AAAACTATATATTATATATA-TTTC
4099 AAAATGTTTTAGAAACTATATTATATATATATATATATTC
1 AAAATGTTTTA-AAAC--TA-TATAT-TATATATAT-TTC
* *
4139 AAAATGTTTTAAAAGTTATATAATATATATAT
1 AAAATGTTTTAAAA-CTATATATTATATATAT
4171 ATATATATAT
Statistics
Matches: 113, Mismatches: 17, Indels: 23
0.74 0.11 0.15
Matches are distributed among these distances:
33 4 0.04
34 33 0.29
35 13 0.12
36 26 0.23
37 4 0.04
38 4 0.04
39 9 0.08
40 20 0.18
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (34 bp):
AAAATGTTTTAAAACTATATATTATATATATTTC
Found at i:4104 original size:36 final size:36
Alignment explanation
Indices: 3994--4290 Score: 123
Period size: 36 Copynumber: 8.0 Consensus size: 36
3984 AAAATTTCAA
* *
3994 AAAACGTTTTCAAAACTTATATATTATAT--ATATTT
1 AAAATGTTTTCAAAAC-TATATATTATATACATTTTT
* * * ** *
4029 -AATTTTTTTAAAAAAAACTATATTATAT--ATTTTC
1 AAAATGTTTTCAAAACTA-TATATTATATACATTTTT
4063 AAAATGTTTTCAAAACTATATATTATATACATTTTT
1 AAAATGTTTTCAAAACTATATATTATATACATTTTT
* *
4099 AAAATGTTTT-AGAAACTATATTATATATATATATATATTC
1 AAAATGTTTTCA-AAACTATA-TAT-TATATACAT-T-TTT
* *
4139 AAAATGTTTT-AAAAGTTATATAATATATATATATATATATAT
1 AAAATGTTTTCAAAA-CTATAT-AT-TATATACAT-T-T-T-T
* * * * *
4181 ATATATATGTTTTCAAAA-TGT-T-TTAGAAACTATAATAT
1 A-A-A-ATGTTTTCAAAACTATATATTATATAC-AT-TTTT
* * *
4219 ATATATATTTTC-AAACTATATATTATATACATTTTC
1 A-AAATGTTTTCAAAACTATATATTATATACATTTTT
* *
4255 AAAATGTTTTAAAAACTATAT-TATATATATATTTTT
1 AAAATGTTTTCAAAACTATATAT-TATATACATTTTT
4291 TCAAAAATCG
Statistics
Matches: 202, Mismatches: 37, Indels: 45
0.71 0.13 0.16
Matches are distributed among these distances:
33 1 0.00
34 34 0.17
35 24 0.12
36 54 0.27
37 6 0.03
38 18 0.09
39 5 0.02
40 38 0.19
41 5 0.02
42 1 0.00
43 2 0.01
44 3 0.01
45 7 0.03
46 4 0.02
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (36 bp):
AAAATGTTTTCAAAACTATATATTATATACATTTTT
Found at i:4166 original size:2 final size:2
Alignment explanation
Indices: 4155--4188 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
4145 TTTTAAAAGT
4155 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4189 GTTTTCAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4196 original size:56 final size:55
Alignment explanation
Indices: 4115--4286 Score: 195
Period size: 56 Copynumber: 3.0 Consensus size: 55
4105 TTTTAGAAAC
* *
4115 TATAT-TATATATATATATATATTCAAAATGTTTTAAAAGTTATATAATATATATA
1 TATATATATATATATATATATTTTCAAAATGTTTTAAAA-CTATATAATATATATA
*
4170 TATATATATATATATATATGTTTTCAAAATGTTTTAGAAACTATA-ATATATATATA
1 TATATATATATATATATATATTTTCAAAATGTTTTA-AAACTATATA-ATATATATA
* * * *
4226 TTTTCAAACTATATATTATATACATTTTCAAAATGTTTTAAAAACTATATTATATATATA
1 -TAT-ATA-TATATA-TATATATATTTTCAAAATGTTTT-AAAACTATATAATATATATA
4286 T
1 T
4287 TTTTTCAAAA
Statistics
Matches: 100, Mismatches: 8, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
55 6 0.06
56 41 0.41
57 5 0.05
58 2 0.02
59 7 0.07
60 38 0.38
61 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (55 bp):
TATATATATATATATATATATTTTCAAAATGTTTTAAAACTATATAATATATATA
Found at i:4234 original size:24 final size:24
Alignment explanation
Indices: 4207--4257 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
4197 AATGTTTTAG
*
4207 AAACTATA-ATATATATATATTTTC
1 AAACTATATAT-TATATACATTTTC
4231 AAACTATATATTATATACATTTTC
1 AAACTATATATTATATACATTTTC
4255 AAA
1 AAA
4258 ATGTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (24 bp):
AAACTATATATTATATACATTTTC
Found at i:4246 original size:60 final size:57
Alignment explanation
Indices: 4120--4289 Score: 195
Period size: 60 Copynumber: 2.9 Consensus size: 57
4110 GAAACTATAT
* * * *
4120 TATATA-TATATATATATTCAAAATGTTTTAAAAGT-T-ATATA-ATATATATATATA
1 TATATATTATATATATTTTCAAAATGTTTTAAAACTATAATATATATATAT-TTTAAA
*
4174 TATATATATATATATGTTTTCAAAATGTTTTAGAAACTATAATATATATATATTTTCAAA
1 TATATAT-TATATATATTTTCAAAATGTTTTA-AAACTATAATATATATATATTTT-AAA
* *
4234 CTATATATTATATACATTTTCAAAATGTTTTAAAAACTATATTATATATATATTTT
1 -TATATATTATATATATTTTCAAAATGTTTT-AAAACTATAATATATATATATTTT
4290 TTCAAAAATC
Statistics
Matches: 99, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
54 6 0.06
56 22 0.22
57 4 0.04
58 1 0.01
59 7 0.07
60 51 0.52
61 8 0.08
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.48
Consensus pattern (57 bp):
TATATATTATATATATTTTCAAAATGTTTTAAAACTATAATATATATATATTTTAAA
Found at i:5063 original size:23 final size:23
Alignment explanation
Indices: 5001--5049 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
4991 TTTCATGTTC
* * *
5001 GTTCGTTTAGCGTTCATGAACAT
1 GTTCGTTTAACATTCGTGAACAT
5024 GTTCGTTTAACATTCGTGAACAT
1 GTTCGTTTAACATTCGTGAACAT
5047 GTT
1 GTT
5050 TTTTAGTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.41
Consensus pattern (23 bp):
GTTCGTTTAACATTCGTGAACAT
Found at i:5186 original size:179 final size:178
Alignment explanation
Indices: 4871--5238 Score: 511
Period size: 179 Copynumber: 2.0 Consensus size: 178
4861 TTTTAATTTG
* * * * * *
4871 TTTTAGTCATTTGTTAGAATGTAAATAAATTTAGTTTGGACGAATAAAGTTGTGATCATGTTTGT
1 TTTTAGTCATTCGTCAGAATGTAAATAAACTTAGCTTGAACGAATAAAGTTGTAATCATGTTTGT
** *
4936 TTTGTTTATCATTAAAAGTATTTATGTTTGGTTGTGTTCGTTTATTTTTAAAAGTTTTCATGTTC
66 TTTGTTTATCATTAAAAGTATCCATGTTTGGTTGTGTTCATTTATTTTTAAAAGTTTTC-TGTTC
* * *
5001 GTTCGTTTAGCGTTCATGAACATGTTCGTTTAACATTCGTGAACATGTT
130 GTTCGTTTAGCATTCACGAACATGTTCGTTTAACATTCGTGAACATATT
* * *
5050 TTTTAGTCATTCGTCGGAATGTACATTAACTTAGCTTGAACGAATAAAGTTGTAATCATGTTTGT
1 TTTTAGTCATTCGTCAGAATGTAAATAAACTTAGCTTGAACGAATAAAGTTGTAATCATGTTTGT
* *
5115 TTTGTTTATCATTGAAAGTATCCATGTTTGGTTTGTGTTCATTTATTTATTTTAAAGGTTTTCGT
66 TTTGTTTATCATTAAAAGTATCCATGTTTGG-TTGTGTTCATTTA--T-TTTTAAAAGTTTTC-T
*
5180 GTTCGTTCGTTTAGCATTCACGAACATGTTCGTTTAACATTTGTGAACATATT
126 GTTCGTTCGTTTAGCATTCACGAACATGTTCGTTTAACATTCGTGAACATATT
5233 TCTTTA
1 T-TTTA
5239 ACATTATATA
Statistics
Matches: 165, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
179 84 0.51
180 12 0.07
182 1 0.01
183 64 0.39
184 4 0.02
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.47
Consensus pattern (178 bp):
TTTTAGTCATTCGTCAGAATGTAAATAAACTTAGCTTGAACGAATAAAGTTGTAATCATGTTTGT
TTTGTTTATCATTAAAAGTATCCATGTTTGGTTGTGTTCATTTATTTTTAAAAGTTTTCTGTTCG
TTCGTTTAGCATTCACGAACATGTTCGTTTAACATTCGTGAACATATT
Found at i:5295 original size:37 final size:35
Alignment explanation
Indices: 5246--5351 Score: 142
Period size: 35 Copynumber: 3.0 Consensus size: 35
5236 TTAACATTAT
*
5246 ATATATATATATATATTTTTTAAAACA-TTTGAAAA
1 ATATATA-ATATATAATTTTTAAAACATTTTGAAAA
*
5281 CTTATATAATATATAATTTTTAAAACATTTTGAAAA
1 -ATATATAATATATAATTTTTAAAACATTTTGAAAA
* * *
5317 ATATATAATATATAGTTTTGAAAACATTTTTAAAA
1 ATATATAATATATAATTTTTAAAACATTTTGAAAA
5352 TATTTTTGAA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
35 49 0.78
36 14 0.22
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (35 bp):
ATATATAATATATAATTTTTAAAACATTTTGAAAA
Found at i:5398 original size:46 final size:47
Alignment explanation
Indices: 5296--5400 Score: 169
Period size: 46 Copynumber: 2.3 Consensus size: 47
5286 ATAATATATA
*
5296 ATTTTTAAAACA-TTTTGAAAAATATATAATATATAGTTTTGAAAAC
1 ATTTTTAAAATATTTTTGAAAAATATATAATATATAGTTTTGAAAAC
* *
5342 ATTTTTAAAATATTTTTGAAAACTATATAATATATAG-TTTGAAAAT
1 ATTTTTAAAATATTTTTGAAAAATATATAATATATAGTTTTGAAAAC
5388 ATTTTTAAAATAT
1 ATTTTTAAAATAT
5401 ATAATATATA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
46 32 0.58
47 23 0.42
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.45
Consensus pattern (47 bp):
ATTTTTAAAATATTTTTGAAAAATATATAATATATAGTTTTGAAAAC
Found at i:5456 original size:15 final size:15
Alignment explanation
Indices: 5436--5478 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
5426 TGAATATATA
5436 TATTATATAGTTT-TT
1 TATTATAT-GTTTATT
5451 TATTAT-T-TTTATT
1 TATTATATGTTTATT
5464 TATTATATGTTTATT
1 TATTATATGTTTATT
5479 AATTTATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.12
13 8 0.32
14 2 0.08
15 12 0.48
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (15 bp):
TATTATATGTTTATT
Found at i:5460 original size:34 final size:34
Alignment explanation
Indices: 5344--5449 Score: 169
Period size: 33 Copynumber: 3.1 Consensus size: 34
5334 TTGAAAACAT
5344 TTTTAAAATATTTTTGAAAACTATATAATATATAG
1 TTTTAAAATATTTTTGAAAA-TATATAATATATAG
*
5379 TTTGAAAATATTTTT-AAAATATATAATATATAG
1 TTTTAAAATATTTTTGAAAATATATAATATATAG
* *
5412 TTTTAAAATATTTTTGAATATATATATTATATAG
1 TTTTAAAATATTTTTGAAAATATATAATATATAG
5446 TTTT
1 TTTT
5450 TTATTATTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
33 28 0.42
34 24 0.36
35 14 0.21
ACGTcount: A:0.43, C:0.01, G:0.06, T:0.50
Consensus pattern (34 bp):
TTTTAAAATATTTTTGAAAATATATAATATATAG
Found at i:5492 original size:28 final size:28
Alignment explanation
Indices: 5436--5492 Score: 64
Period size: 28 Copynumber: 2.0 Consensus size: 28
5426 TGAATATATA
* *
5436 TATTATATAGTTTTTTATTATTTTTATT
1 TATTATATAGTTTTTAATTATTTTCATT
5464 TATTATAT-GTTTATTAATT-TATTTCATT
1 TATTATATAGTTT-TTAATTAT-TTTCATT
5492 T
1 T
5493 TATTTTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (28 bp):
TATTATATAGTTTTTAATTATTTTCATT
Found at i:6766 original size:20 final size:20
Alignment explanation
Indices: 6736--6778 Score: 70
Period size: 19 Copynumber: 2.1 Consensus size: 20
6726 TCTTCTCAAC
6736 TTAACTATTTTTTTGATTTAT
1 TTAACTATTTTTTT-ATTTAT
6757 TTAA-TATTTTTTTATTTAT
1 TTAACTATTTTTTTATTTAT
6776 TTA
1 TTA
6779 TTTTTCCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 9 0.41
20 9 0.41
21 4 0.18
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (20 bp):
TTAACTATTTTTTTATTTAT
Found at i:7346 original size:23 final size:23
Alignment explanation
Indices: 7318--7366 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
7308 TTTCATGTTC
* *
7318 GTTCGTTTAGCGTTCATGAACAT
1 GTTCGTTTAACATTCATGAACAT
*
7341 GTTCGTTTAACATTCGTGAACAT
1 GTTCGTTTAACATTCATGAACAT
7364 GTT
1 GTT
7367 TTTAGTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.41
Consensus pattern (23 bp):
GTTCGTTTAACATTCATGAACAT
Found at i:7379 original size:22 final size:22
Alignment explanation
Indices: 7334--7379 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
7324 TTAGCGTTCA
7334 TGAACATGTTCGTTTAACATTCG
1 TGAACATGTTC-TTTAACATTCG
*
7357 TGAACATGTT-TTTAGTCATTCG
1 TGAACATGTTCTTTA-ACATTCG
7379 T
1 T
7380 CGGAACGTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 7 0.33
23 10 0.48
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.43
Consensus pattern (22 bp):
TGAACATGTTCTTTAACATTCG
Found at i:7528 original size:23 final size:23
Alignment explanation
Indices: 7502--7581 Score: 63
Period size: 23 Copynumber: 3.5 Consensus size: 23
7492 TTCGTGTTCA
*
7502 TCGTTTAGCATTCATGAACATGT
1 TCGTTTAACATTCATGAACATGT
** *
7525 TCGTTTAACATTTGTGAACATAT
1 TCGTTTAACATTCATGAACATGT
* * * **
7548 GCCTTTAACGTT-ATGAACATAA
1 TCGTTTAACATTCATGAACATGT
*
7570 TAGTTTAACATT
1 TCGTTTAACATT
7582 ATGCGACCAA
Statistics
Matches: 44, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 16 0.36
23 28 0.64
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (23 bp):
TCGTTTAACATTCATGAACATGT
Found at i:8713 original size:12 final size:12
Alignment explanation
Indices: 8696--8720 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8686 TTATATTTTA
8696 AAAAATAATATT
1 AAAAATAATATT
8708 AAAAATAATATT
1 AAAAATAATATT
8720 A
1 A
8721 TTATTTATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAAATAATATT
Found at i:21933 original size:15 final size:14
Alignment explanation
Indices: 21908--22093 Score: 53
Period size: 15 Copynumber: 12.6 Consensus size: 14
21898 AAGAAGAAAT
21908 AAAAGAGAAAATGAA
1 AAAAGA-AAAATGAA
**
21923 AAAATGAAAAACAAAA
1 AAAA-GAAAAA-TGAA
*
21939 TAATAATAAAAATGAGA
1 -AA-AAGAAAAATGA-A
*
21956 AGAAGAAAAA-G-A
1 AAAAGAAAAATGAA
*
21968 AAAAGAAGAAAAGAA
1 AAAAGAA-AAATGAA
*
21983 AAATGAGAAAAAAGAA
1 AAA--AGAAAAATGAA
*
21999 AAATGATGGAAAAACGAA
1 AAA--A--GAAAAATGAA
* *
22017 AAGAAAAAAAAAGAA
1 AA-AAGAAAAATGAA
* *
22032 AAAATGGAAAATG-G
1 AAAA-GAAAAATGAA
*
22046 AAGA-AAAAATG-A
1 AAAAGAAAAATGAA
* *
22058 AAGAGAAAAA-CAA
1 AAAAGAAAAATGAA
22071 AAAGAGAAAAATGAA
1 AAA-AGAAAAATGAA
22086 AAAA-AAAA
1 AAAAGAAAA
22094 GAAAAATAAA
Statistics
Matches: 132, Mismatches: 21, Indels: 38
0.69 0.11 0.20
Matches are distributed among these distances:
12 17 0.13
13 15 0.11
14 15 0.11
15 39 0.30
16 19 0.14
17 13 0.10
18 13 0.10
19 1 0.01
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAAGAAAAATGAA
Found at i:22079 original size:20 final size:20
Alignment explanation
Indices: 22062--22099 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22052 AAATGAAAGA
22062 GAAAAACAAAAAGAGAAAAAT
1 GAAAAA-AAAAAGAGAAAAAT
22083 GAAAAAAAAAAGA-AAAA
1 GAAAAAAAAAAGAGAAAA
22100 TAAAATGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (20 bp):
GAAAAAAAAAAGAGAAAAAT
Found at i:22090 original size:18 final size:17
Alignment explanation
Indices: 22015--22104 Score: 58
Period size: 18 Copynumber: 4.9 Consensus size: 17
22005 TGGAAAAACG
22015 AAAAGAAAAA-AAAAGAA
1 AAAAGAAAAATAAAA-AA
* *
22032 AAAATGGAAAATGGAAGAAA
1 AAAA-GAAAAAT--AAAAAA
*
22052 AAATGAAAGAGA-AAAACAA
1 AAAAGAAA-A-ATAAAA-AA
22071 AAAGAGAAAAATGAAAAAA
1 AAA-AGAAAAAT-AAAAAA
22090 AAAAGAAAAATAAAA
1 AAAAGAAAAATAAAA
22105 TGGGGGTTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
17 8 0.14
18 17 0.30
19 14 0.25
20 14 0.25
21 4 0.07
ACGTcount: A:0.78, C:0.01, G:0.16, T:0.06
Consensus pattern (17 bp):
AAAAGAAAAATAAAAAA
Found at i:22099 original size:7 final size:7
Alignment explanation
Indices: 21961--22093 Score: 58
Period size: 7 Copynumber: 17.4 Consensus size: 7
21951 TGAGAAGAAG
21961 AAAAAG-
1 AAAAAGA
21967 AAAAAGA
1 AAAAAGA
21974 AGAAAAGA
1 A-AAAAGA
21982 AAAATGAGA
1 AAAA--AGA
21991 AAAAAGA
1 AAAAAGA
21998 AAAATGATGGA
1 AAAA--A--GA
*
22009 AAAACGA
1 AAAAAGA
*
22016 AAAGAAAA
1 AAA-AAGA
22024 AAAAAGA
1 AAAAAGA
22031 AAAAATGGA
1 AAAAA--GA
22040 AAATGGAAGA
1 AAA---AAGA
22050 AAAAATG-
1 AAAAA-GA
*
22057 AAAGAGA
1 AAAAAGA
22064 AAAACA-A
1 AAAA-AGA
*
22071 AAAGAGA
1 AAAAAGA
*
22078 AAAATGA
1 AAAAAGA
22085 AAAAA-A
1 AAAAAGA
22091 AAA
1 AAA
22094 GAAAAATAAA
Statistics
Matches: 99, Mismatches: 10, Indels: 36
0.68 0.07 0.25
Matches are distributed among these distances:
6 12 0.12
7 47 0.47
8 14 0.14
9 13 0.13
10 5 0.05
11 6 0.06
12 2 0.02
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (7 bp):
AAAAAGA
Found at i:23540 original size:55 final size:55
Alignment explanation
Indices: 23456--23857 Score: 501
Period size: 55 Copynumber: 7.4 Consensus size: 55
23446 AAGCAAAATT
* **
23456 GTTTGTTGAAGA---TT-GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAA
1 GTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCC
* *
23507 GTTCGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCC
1 GTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCC
** *
23562 GTTTCATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCC
1 GTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCC
* * *
23617 GTTTGTTGAAGATTGTTCAAGTTCTATACTCTCTGAATGAATAGAGAGCGGACCC
1 GTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCC
* * * *
23672 GTTT-TATGAAGATTGTTAGAGTTGTATACTCCCTGAACGAATAGGGAGCGGACCC
1 GTTTGT-TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCC
* *
23727 GTTT-TATGAAGATTGTTCGAGTTCTATACTCCCTGAACGAATAGGGAGCGGACCC
1 GTTTGT-TGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCC
* * * ** * *
23782 GTTTATTGAAGATTGTTCGAGTTTTATACTCCCTGACTGAATAGGGAGCAGACAC
1 GTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCC
* **
23837 ATTTGTCAAAGATTGTTCGAG
1 GTTTGTTGAAGATTGTTCGAG
23858 CCTTATACTC
Statistics
Matches: 316, Mismatches: 29, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
51 11 0.03
54 3 0.01
55 301 0.95
56 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (55 bp):
GTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACCC
Found at i:23903 original size:110 final size:107
Alignment explanation
Indices: 23470--23905 Score: 421
Period size: 110 Copynumber: 4.0 Consensus size: 107
23460 GTTGAAGATT
* * * ** * *
23470 GAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACAAGTTCGTTGAAGATTGTTCGAGTTCTATA
1 GAGTTCTATACTCCCTG-ACGAATAGGGAGCGGACCCGTTTG-TAAAGATTGTTCGAGTTCTATA
* *
23535 CTCTCTGAAGGAATAGAGAGCGGACCCGT-TTCATGAAGATTGTTC
64 CTCCCTGAAAGAATAGAGAGCGGACCCGTATTC--GAAGATTGTTC
* * * * *
23580 GAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTGTTGAAGATTGTTCAAGTTCTATA
1 GAGTTCTATACTCCCTG-ACGAATAGGGAGCGGACCCGTTTG-TAAAGATTGTTCGAGTTCTATA
* * * * *
23645 CTCTCTGAATGAATAGAGAGCGGACCCGTTTTATGAAGATTGTTA
64 CTCCCTGAAAGAATAGAGAGCGGACCCGTATT-CGAAGATTGTTC
*
23690 GAGTTGTATACTCCCTGAACGAATAGGGAGCGGACCCGTTT-TATGAAGATTGTTCGAGTTCTAT
1 GAGTTCTATACTCCCTG-ACGAATAGGGAGCGGACCCGTTTGTA--AAGATTGTTCGAGTTCTAT
* *
23754 ACTCCCTGAACGAATAGGGAGCGGACCCGTTTATT-GAAGATTGTTC
63 ACTCCCTGAAAGAATAGAGAGCGGACCCG--TATTCGAAGATTGTTC
* * * * *
23800 GAGTTTTATACTCCCTGACTGAATAGGGAGCAGACACATTTGTCAAAGATTGTTCGAG-CCTTAT
1 GAGTTCTATACTCCCTGAC-GAATAGGGAGCGGACCCGTTTGT-AAAGATTGTTCGAGTTC-TAT
** * *
23864 ACTCCCCAAAAAAATAGACAGCGGACCCGTCATTCGAAGATT
63 ACTCCCTGAAAGAATAGAGAGCGGACCCGT-ATTCGAAGATT
23906 TTTCAAGTCT
Statistics
Matches: 283, Mismatches: 31, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
108 2 0.01
109 6 0.02
110 268 0.95
111 3 0.01
112 4 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (107 bp):
GAGTTCTATACTCCCTGACGAATAGGGAGCGGACCCGTTTGTAAAGATTGTTCGAGTTCTATACT
CCCTGAAAGAATAGAGAGCGGACCCGTATTCGAAGATTGTTC
Found at i:23905 original size:165 final size:162
Alignment explanation
Indices: 23546--23905 Score: 427
Period size: 165 Copynumber: 2.2 Consensus size: 162
23536 TCTCTGAAGG
* *
23546 AATAGAGAGCGGACCCGTTTCATGAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGC
1 AATAGAGAGCGGACCCGTTTC--GAAGATTGTTCGAGTTCTATACTCCCTGAACGAATAGAGAGC
* * * * *
23611 GGACCCGTTTGTTGAAGATTGTTCAAGTTCTATACTCTCTGAATGAATAGAGAGCGGACCCGTTT
64 GGACCCGTTTATTGAAGATTGTTCAAGTTCTATACTCCCTGAATGAATAGAGAGCAGACACATTT
* ** **
23676 TATGAAGATTGTTAGAGTTGTATACTCCCTGAACG
129 TA-GAAGATTGTTAGAGCTGTATACTCCCCAAAAA
* * *
23711 AATAGGGAGCGGACCCGTTTTATGAAGATTGTTCGAGTTCTATACTCCCTGAACGAATAGGGAGC
1 AATAGAGAGCGGACCCG-TTT-CGAAGATTGTTCGAGTTCTATACTCCCTGAACGAATAGAGAGC
* * * *
23776 GGACCCGTTTATTGAAGATTGTTCGAGTTTTATACTCCCTGACTGAATAGGGAGCAGACACATTT
64 GGACCCGTTTATTGAAGATTGTTCAAGTTCTATACTCCCTGAATGAATAGAGAGCAGACACATTT
*
23841 GTCA-AAGATTGTTCGAGCCT-TATACTCCCCAAAAA
129 -T-AGAAGATTGTTAGAG-CTGTATACTCCCCAAAAA
*
23876 AATAGACAGCGGACCCGTCATTCGAAGATT
1 AATAGAGAGCGGACCCGT--TTCGAAGATT
23906 TTTCAAGTCT
Statistics
Matches: 165, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
164 1 0.01
165 156 0.95
166 7 0.04
167 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (162 bp):
AATAGAGAGCGGACCCGTTTCGAAGATTGTTCGAGTTCTATACTCCCTGAACGAATAGAGAGCGG
ACCCGTTTATTGAAGATTGTTCAAGTTCTATACTCCCTGAATGAATAGAGAGCAGACACATTTTA
GAAGATTGTTAGAGCTGTATACTCCCCAAAAA
Found at i:26888 original size:13 final size:13
Alignment explanation
Indices: 26853--26889 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
26843 GTCATAAATC
*
26853 TATGACGCGCATT
1 TATGACGCTCATT
26866 TATGACGCTCATT
1 TATGACGCTCATT
*
26879 TATGATGCTCA
1 TATGACGCTCA
26890 CTGCGCGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (13 bp):
TATGACGCTCATT
Found at i:37697 original size:60 final size:59
Alignment explanation
Indices: 37536--37702 Score: 192
Period size: 60 Copynumber: 2.8 Consensus size: 59
37526 ACTTATTTTC
* *
37536 AATTGGTCCCTAAACTTTTGAATATTTCAATTTAATCCCTAAACTATGACTATCATTCTA
1 AATTGGTCCTTAAACTTTTGAACATTTCAATTTAATCCC-AAACTATGACTATCATTCTA
*** * * * * *
37596 AATCAATCCTCAAAGTGTTGAACATTTCAATTTTATCCCCAAACTATGACTTTCATTCTA
1 AATTGGTCCTTAAACTTTTGAACATTTCAATTTAAT-CCCAAACTATGACTATCATTCTA
*
37656 AATTGGTCCTTAAACTTTTTGAACA-TTCTAATTTCATCCCAAACTAT
1 AATTGGTCCTTAAAC-TTTTGAACATTTC-AATTTAATCCCAAACTAT
37703 ATGTATATAC
Statistics
Matches: 87, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
60 69 0.79
61 18 0.21
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.39
Consensus pattern (59 bp):
AATTGGTCCTTAAACTTTTGAACATTTCAATTTAATCCCAAACTATGACTATCATTCTA
Found at i:38191 original size:2 final size:2
Alignment explanation
Indices: 38178--38212 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
38168 TATCCGATAC
*
38178 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
38213 AGATTAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:43027 original size:21 final size:22
Alignment explanation
Indices: 43010--43054 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
43000 GCGCCACTTA
*
43010 TTTGTCTCAAAGGACCACATAGG
1 TTTGTCCCAAAGGACCACATA-G
*
43033 TTTTTCCCAAAGGACCACATAG
1 TTTGTCCCAAAGGACCACATAG
43055 AACCCTCGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (22 bp):
TTTGTCCCAAAGGACCACATAG
Found at i:47331 original size:6 final size:6
Alignment explanation
Indices: 47322--47518 Score: 52
Period size: 6 Copynumber: 33.0 Consensus size: 6
47312 TTTTTTCTAA
* * * *
47322 TTATAT TTATCAT ATATAT ATATAT ATATA- TTACAT TT-TA- TTA-AT
1 TTATAT TTAT-AT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
* * * * *
47367 TT-TA- TTATAT ATATTT TTATTAT TATACAT GTATAT TTATAT TTCCTAT
1 TTATAT TTATAT TTATAT TTA-TAT T-TATAT TTATAT TTATAT TT-ATAT
* * * * ** *
47416 TT-T-T CTTATAT GTATAT ATAAAT TTA-CT TTGGAT CTTCTAT TTATAT
1 TTATAT -TTATAT TTATAT TTATAT TTATAT TTATAT -TTATAT TTATAT
* * * * * *
47463 TTATTAT TTATCT TATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
1 TTA-TAT TTATAT T-TATAT TTATAT TTATAT TTATAT TTATAT TTATAT
*
47513 ATATAT
1 TTATAT
47519 ATGCTTTTAC
Statistics
Matches: 148, Mismatches: 26, Indels: 34
0.71 0.12 0.16
Matches are distributed among these distances:
4 6 0.04
5 15 0.10
6 95 0.64
7 30 0.20
8 2 0.01
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (6 bp):
TTATAT
Found at i:47540 original size:2 final size:2
Alignment explanation
Indices: 47476--47520 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
47466 TTATTTATCT
47476 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47518 TA T
1 TA T
47521 GCTTTTACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:47546 original size:18 final size:19
Alignment explanation
Indices: 47523--47574 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
47513 ATATATATGC
47523 TTTTACTTTTT-TTATATA
1 TTTTACTTTTTATTATATA
*
47541 TTTTACTTATTTAATTATCTA
1 TTTTACTT-TTT-ATTATATA
47562 TTTT-CTTTTTATT
1 TTTTACTTTTTATT
47575 TTTATTCTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 11 0.37
19 6 0.20
20 3 0.10
21 10 0.33
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTACTTTTTATTATATA
Found at i:47706 original size:18 final size:16
Alignment explanation
Indices: 47683--47734 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
47673 TTTTCTTCAT
*
47683 TTTATTTATTTTATATG
1 TTTATTTATTTT-TATA
*
47700 TTCTATTCATTTTTATA
1 TT-TATTTATTTTTATA
47717 TTTATTTTATTTTT-TA
1 TTTA-TTTATTTTTATA
47733 TT
1 TT
47735 ACTTTCCTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 6 0.20
17 15 0.50
18 9 0.30
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTATTTATTTTTATA
Found at i:47763 original size:23 final size:24
Alignment explanation
Indices: 47718--47769 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
47708 ATTTTTATAT
* *
47718 TTATTTTATTTTTTATTACTTTCC
1 TTATTTCATTTGTTATTACTTTCC
*
47742 TTATTTCATTTGTT-TTACTTTCT
1 TTATTTCATTTGTTATTACTTTCC
47765 TTATT
1 TTATT
47770 ATTTATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.15, C:0.12, G:0.02, T:0.71
Consensus pattern (24 bp):
TTATTTCATTTGTTATTACTTTCC
Found at i:47782 original size:34 final size:33
Alignment explanation
Indices: 47716--47784 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 33
47706 TCATTTTTAT
*
47716 ATTTATTTTATTTTTTATTACTTTCCTTATTTC
1 ATTTATTTTATTTTTTATTACTTTACTTATTTC
* *
47749 ATTTGTTTTACTTTCTTTATTA-TTTATTTATTTC
1 ATTTATTTTA-TTT-TTTATTACTTTACTTATTTC
47783 AT
1 AT
47785 CTCTTCTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 9 0.29
34 15 0.48
35 7 0.23
ACGTcount: A:0.19, C:0.10, G:0.01, T:0.70
Consensus pattern (33 bp):
ATTTATTTTATTTTTTATTACTTTACTTATTTC
Found at i:58591 original size:79 final size:78
Alignment explanation
Indices: 58440--58581 Score: 182
Period size: 79 Copynumber: 1.8 Consensus size: 78
58430 AGTACTTCGC
* ** *
58440 TTAGGATGAAAACCCGAGAGGGCGTCCTAAGTTGAAAAAAAAAGAGAAAAAGGAAAAGGAAAAAA
1 TTAGGATGAAAACCCGAAAGGGCACCCTAAATTG-AAAAAAAAGAGAAAAAGGAAAAGGAAAAAA
*
58505 AACAAAAAAACCGT
65 AAAAAAAAAACCGT
* * *
58519 TTAGGGTGAAAACCCGAAAGTGCACCCTAAATTG-AAAAAAAGAG-AAAAGGAAAA-GATAAAAA
1 TTAGGATGAAAACCCGAAAGGGCACCCTAAATTGAAAAAAAAGAGAAAAAGGAAAAGGAAAAAAA
58581 A
66 A
58582 GAGGAAAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
75 8 0.14
76 10 0.18
77 10 0.18
79 28 0.50
ACGTcount: A:0.56, C:0.11, G:0.22, T:0.11
Consensus pattern (78 bp):
TTAGGATGAAAACCCGAAAGGGCACCCTAAATTGAAAAAAAAGAGAAAAAGGAAAAGGAAAAAAA
AAAAAAAAACCGT
Found at i:59674 original size:106 final size:101
Alignment explanation
Indices: 59471--59876 Score: 438
Period size: 106 Copynumber: 4.0 Consensus size: 101
59461 ATCGTGCACA
*
59471 CAAGACAACACAAGCTCGAA-TTCACAGCGAAGGGGCGGCTGACTGT--CAACTTCCCAATTTCA
1 CAAGACAACACAAGCTC-AACTTCACAGCGAAGGGGCGACTGACTGTCACAACTTCCCAATTTCA
* *
59533 GAGCCAATTTCAACTTCATAACAAAGGATATTGGACT
65 GAGCCAATTTCAACTTCATAGCGAAGGATATTGGACT
*
59570 CAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAACTTCCCAAT
1 CAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGT---C--ACAACTTCCCAAT
* *
59635 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACC
61 TTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACT
*
59676 CAAGACAACACAAGCTCAACTTCAC-GACGAAGGGGCGACTGATTGTCA-AA-TT--C-A-TTCA
1 CAAGACAACACAAGCTCAACTTCACAG-CGAAGGGGCGACTGACTGTCACAACTTCCCAATTTCA
* * * * *
59734 GAGTCAATTTTAACTTCAT-GATGAAGGTTATTAGACT
65 GAGCCAATTTCAACTTCATAG-CGAAGGATATTGGACT
* * * *
59771 CAAGATAGCACAAGCTCAACTTCACAGCGAGGGGGCGACTGACTGTCAACAAACAATTTCCCAGT
1 CAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTC-AC-AAC---TTCCCAAT
* * * *
59836 TCCAGAACCAATTTCAACTTCATGGCGGAGGATATTGGACT
61 TTCAGAGCCAATTTCAACTTCATAGCGAAGGATATTGGACT
59877 AGGAGCAATA
Statistics
Matches: 258, Mismatches: 26, Indels: 39
0.80 0.08 0.12
Matches are distributed among these distances:
94 1 0.00
95 73 0.28
96 3 0.01
97 1 0.00
98 4 0.02
99 45 0.17
100 2 0.01
101 1 0.00
102 2 0.01
103 1 0.00
104 1 0.00
105 1 0.00
106 122 0.47
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (101 bp):
CAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCACAACTTCCCAATTTCAG
AGCCAATTTCAACTTCATAGCGAAGGATATTGGACT
Found at i:59790 original size:201 final size:204
Alignment explanation
Indices: 59471--59875 Score: 559
Period size: 201 Copynumber: 2.0 Consensus size: 204
59461 ATCGTGCACA
* *
59471 CAAGACAACACAAGCTCGAATTCACAGCGAAGGGGCGGCTGACTGTCAACTTCCCAATTTCAGAG
1 CAAGACAACACAAGCTCGAATTCACAGCGAAGGGGCGACTGACTGTCAAATT-CCAATTTCAGAG
*
59536 CCAATTTCAACTTCATAACAAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACAGCGAA
65 CCAATTTCAACTTCATAACAAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACAGCGAA
* * *
59601 GGGGCGGCTGACTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGG
130 GGGGCGACTGACTGTCAACAAACAACTTCCCAATTCCAGAACCAATTTCAACTTCACAGCGAAGG
59666 ATATTGGACC
195 ATATTGGACC
*
59676 CAAGACAACACAAGCTC-AACTTCAC-GACGAAGGGGCGACTGATTGTCAAATT-C-A-TTCAGA
1 CAAGACAACACAAGCTCGAA-TTCACAG-CGAAGGGGCGACTGACTGTCAAATTCCAATTTCAGA
* * * ** * * *
59736 GTCAATTTTAACTTCATGATGAAGGTTATTAGACTCAAGATAGCACAAGCTCAACTTCACAGCGA
64 GCCAATTTCAACTTCATAACAAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACAGCGA
* * * ** *
59801 GGGGGCGACTGACTGTCAACAAACAATTTCCCAGTTCCAGAACCAATTTCAACTTCATGGCGGAG
129 AGGGGCGACTGACTGTCAACAAACAACTTCCCAATTCCAGAACCAATTTCAACTTCACAGCGAAG
59866 GATATTGGAC
194 GATATTGGAC
59876 TAGGAGCAAT
Statistics
Matches: 177, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
201 128 0.72
202 1 0.01
203 1 0.01
204 3 0.02
205 44 0.25
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (204 bp):
CAAGACAACACAAGCTCGAATTCACAGCGAAGGGGCGACTGACTGTCAAATTCCAATTTCAGAGC
CAATTTCAACTTCATAACAAAGGATATTAGACTCAAGACAACACAAGCTCAACTTCACAGCGAAG
GGGCGACTGACTGTCAACAAACAACTTCCCAATTCCAGAACCAATTTCAACTTCACAGCGAAGGA
TATTGGACC
Found at i:61921 original size:23 final size:24
Alignment explanation
Indices: 61876--61927 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
61866 ATTTTTATAT
* *
61876 TTATTTTATTTTTTATTACTTTCC
1 TTATTTCATTTGTTATTACTTTCC
*
61900 TTATTTCATTTGTT-TTACTTTCT
1 TTATTTCATTTGTTATTACTTTCC
61923 TTATT
1 TTATT
61928 ATTTATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.15, C:0.12, G:0.02, T:0.71
Consensus pattern (24 bp):
TTATTTCATTTGTTATTACTTTCC
Found at i:61940 original size:34 final size:33
Alignment explanation
Indices: 61874--61942 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 33
61864 TCATTTTTAT
*
61874 ATTTATTTTATTTTTTATTACTTTCCTTATTTC
1 ATTTATTTTATTTTTTATTACTTTACTTATTTC
* *
61907 ATTTGTTTTACTTTCTTTATTA-TTTATTTATTTC
1 ATTTATTTTA-TTT-TTTATTACTTTACTTATTTC
61941 AT
1 AT
61943 CTCTTCTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 9 0.29
34 15 0.48
35 7 0.23
ACGTcount: A:0.19, C:0.10, G:0.01, T:0.70
Consensus pattern (33 bp):
ATTTATTTTATTTTTTATTACTTTACTTATTTC
Found at i:62580 original size:30 final size:29
Alignment explanation
Indices: 62514--62580 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 29
62504 ATACAAGAAT
62514 GTTATATGATATTGAAGTATGTGAATATA
1 GTTATATGATATTGAAGTATGTGAATATA
*
62543 G-TATATGATA-TGAGATTATGTGACA-ATAA
1 GTTATATGATATTGA-AGTATGTGA-ATAT-A
62572 GTTATATGA
1 GTTATATGA
62581 GGTGAATGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
27 3 0.09
28 19 0.58
29 4 0.12
30 7 0.21
ACGTcount: A:0.39, C:0.01, G:0.21, T:0.39
Consensus pattern (29 bp):
GTTATATGATATTGAAGTATGTGAATATA
Found at i:62985 original size:32 final size:31
Alignment explanation
Indices: 62942--63070 Score: 111
Period size: 31 Copynumber: 4.1 Consensus size: 31
62932 AGAGTCTAGG
62942 GTTTACCTATGTTCTACGGAACATATGAACA
1 GTTTACCTATGTTCTACGGAACATATGAACA
* *
62973 -TAATTACCTATG-TCTTTCAGG-ACATATGGACA
1 GT--TTACCTATGTTC-TAC-GGAACATATGAACA
* * *
63005 GTGTACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTACGGAACATATGAACA
* * * * *
63036 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTATGTTCTACGGAACATATGAACA
63067 GTTT
1 GTTT
63071 CCGAGGTTCT
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
30 3 0.04
31 51 0.64
32 23 0.29
33 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGGAACATATGAACA
Found at i:63069 original size:31 final size:31
Alignment explanation
Indices: 62992--63081 Score: 110
Period size: 31 Copynumber: 2.9 Consensus size: 31
62982 ATGTCTTTCA
* * *
62992 GGACATATGGACAGTGTACCTATGTTCTAAG
1 GGACATATGGACAGTTTACCTAGGTTCTTAG
* *
63023 GAACATATGGACAGTTTACCTAGGTTCTTCG
1 GGACATATGGACAGTTTACCTAGGTTCTTAG
* *
63054 GGACCTATGGACAGTTT-CCGAGGTTCTT
1 GGACATATGGACAGTTTACCTAGGTTCTT
63082 TATGACCTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 10 0.20
31 41 0.80
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (31 bp):
GGACATATGGACAGTTTACCTAGGTTCTTAG
Found at i:65695 original size:132 final size:135
Alignment explanation
Indices: 65450--65719 Score: 503
Period size: 133 Copynumber: 2.0 Consensus size: 135
65440 ATCCAAATAT
65450 GAGCAAAATGCCTCTCAAAATAAAGTCCTAAACCCTAACATAATCTTTCCTTGAAAAAAACGAAA
1 GAGCAAAATGCCTCTCAAAATAAAGTCCTAAACCCTAACATAATCTTTCCTTGAAAAAAACGAAA
65515 GTCTATCTTGAAGTTCATGGGATGAAAGTTTCCTTTAGGATAATGAGAGAGA-GTGATGGCTTAA
66 GTCTATCTTGAAGTTCATGGGATGAAAGTTTCCTTTAGGATAATGAGAGAGATGTGATGGCTTAA
65579 TAAGA
131 TAAGA
65584 GAGC-AAATGCCTCTCAAAATAAAGTCCTAAACCCTAACATAATCTTTCCTTG-AAAAAACGAAA
1 GAGCAAAATGCCTCTCAAAATAAAGTCCTAAACCCTAACATAATCTTTCCTTGAAAAAAACGAAA
65647 GTCTATCTTGAAGTTCATGGGATGAAAGTTTCCTTTAGGATAGA-GAGAGAGATGTGATGGCTTA
66 GTCTATCTTGAAGTTCATGGGATGAAAGTTTCCTTTAGGATA-ATGAGAGAGATGTGATGGCTTA
65711 ATAAGA
130 ATAAGA
65717 GAG
1 GAG
65720 GAGAGAAAAG
Statistics
Matches: 134, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
132 61 0.46
133 69 0.51
134 4 0.03
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (135 bp):
GAGCAAAATGCCTCTCAAAATAAAGTCCTAAACCCTAACATAATCTTTCCTTGAAAAAAACGAAA
GTCTATCTTGAAGTTCATGGGATGAAAGTTTCCTTTAGGATAATGAGAGAGATGTGATGGCTTAA
TAAGA
Found at i:69888 original size:60 final size:60
Alignment explanation
Indices: 69795--69923 Score: 258
Period size: 60 Copynumber: 2.1 Consensus size: 60
69785 CCATATCCTG
69795 GAATGTGAAAACAATATGGATAGCATACGTATGTGAGCCATGACGCATGTTTTTGTGCTC
1 GAATGTGAAAACAATATGGATAGCATACGTATGTGAGCCATGACGCATGTTTTTGTGCTC
69855 GAATGTGAAAACAATATGGATAGCATACGTATGTGAGCCATGACGCATGTTTTTGTGCTC
1 GAATGTGAAAACAATATGGATAGCATACGTATGTGAGCCATGACGCATGTTTTTGTGCTC
69915 GAATGTGAA
1 GAATGTGAA
69924 CACATTTATC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 69 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (60 bp):
GAATGTGAAAACAATATGGATAGCATACGTATGTGAGCCATGACGCATGTTTTTGTGCTC
Found at i:73399 original size:156 final size:156
Alignment explanation
Indices: 73107--73423 Score: 571
Period size: 156 Copynumber: 2.0 Consensus size: 156
73097 CAAGTAGTCT
*
73107 CTGGACCATCATCCGTAAAATCTTTTCGTGAAGCAGTGTACATTGAAGATGTCCTCATACTCTTC
1 CTGGACCATCATCCGTAAAATCTTTTCGTGAAGCAGTGTACATTGAAGATGTCCTCAGACTCTTC
*
73172 CTACTCTGATTCACCCCAGGTGAGACACTTAGTGTTGGGGATTTAAGAATTACAGAAGAATCTCC
66 CTACTCTGATTCACCCCAGGTGAGACACTTAGTGTTGGGGATTTAAGAATTACAGAAGAATCCCC
73237 ACCAGTTGTTTCCTCAGTTAGCTGGC
131 ACCAGTTGTTTCCTCAGTTAGCTGGC
* *
73263 CTGGACCATCATCCGTAAGATCTTTTTGTGAAGCAGTGTACATTGAAGATGTCCTCAGACTCTTC
1 CTGGACCATCATCCGTAAAATCTTTTCGTGAAGCAGTGTACATTGAAGATGTCCTCAGACTCTTC
**
73328 CTACTCTGATTCACCTTAGGTGAGACACTTAGTGTTGGGGATTTAAGAATTACAGAAGAATCCCC
66 CTACTCTGATTCACCCCAGGTGAGACACTTAGTGTTGGGGATTTAAGAATTACAGAAGAATCCCC
*
73393 ATCAGTTGTTTCCTCAGTTAGCTGGC
131 ACCAGTTGTTTCCTCAGTTAGCTGGC
73419 CTGGA
1 CTGGA
73424 TTCTCTTTGA
Statistics
Matches: 154, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
156 154 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (156 bp):
CTGGACCATCATCCGTAAAATCTTTTCGTGAAGCAGTGTACATTGAAGATGTCCTCAGACTCTTC
CTACTCTGATTCACCCCAGGTGAGACACTTAGTGTTGGGGATTTAAGAATTACAGAAGAATCCCC
ACCAGTTGTTTCCTCAGTTAGCTGGC
Found at i:77494 original size:61 final size:60
Alignment explanation
Indices: 77386--77504 Score: 159
Period size: 61 Copynumber: 2.0 Consensus size: 60
77376 TAAAGTACAT
* * * *
77386 AAATGATCCCCCAACTATAAGATATTATTTTATTGAGTCTCTCTACTATTAAATGTTATA
1 AAATGATCCCCCAACTATAAGATATGATTTTATTGAGTCTATCTACTACTAAAAGTTATA
* *
77446 AAATGATCCCCTAACTATAAGGAGT-TGCTTTTATTGAGTCTATCTACTACTAAAAGTTA
1 AAATGATCCCCCAACTATAA-GA-TATGATTTTATTGAGTCTATCTACTACTAAAAGTTA
77505 AGAAGTTACG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
60 19 0.37
61 31 0.61
62 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (60 bp):
AAATGATCCCCCAACTATAAGATATGATTTTATTGAGTCTATCTACTACTAAAAGTTATA
Found at i:78474 original size:2 final size:2
Alignment explanation
Indices: 78469--78515 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
78459 TTTCATATGT
78469 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78511 TA TA T
1 TA TA T
78516 CATACAAATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:79558 original size:3 final size:3
Alignment explanation
Indices: 79552--79643 Score: 139
Period size: 3 Copynumber: 30.7 Consensus size: 3
79542 TTTTTATCCA
* ** *
79552 TAT TAT TAT TAT TAA TAT TAT TAT TAT CCT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
79600 TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
79644 AATATATTAA
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:81788 original size:18 final size:17
Alignment explanation
Indices: 81765--81815 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
81755 TTCTTTTCAA
81765 ATTTTTTATTTATTTAT
1 ATTTTTTATTTATTTAT
*
81782 -TATTTTTATAATATTTAT
1 AT-TTTTTAT-TTATTTAT
*
81800 ATGTTTTATTTTATTT
1 ATTTTTTA-TTTATTT
81816 GCAAGTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
16 1 0.04
17 7 0.26
18 17 0.63
19 2 0.07
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (17 bp):
ATTTTTTATTTATTTAT
Found at i:81841 original size:12 final size:15
Alignment explanation
Indices: 81806--81842 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
81796 TTATATGTTT
81806 TATTTTATTTGCAAG
1 TATTTTATTTGCAAG
81821 TATTTTATTT-CAA-
1 TATTTTATTTGCAAG
81834 TA-TTTATTT
1 TATTTTATTT
81843 TTATGTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 2 0.09
14 3 0.14
15 10 0.45
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (15 bp):
TATTTTATTTGCAAG
Found at i:92434 original size:10 final size:9
Alignment explanation
Indices: 92419--92483 Score: 62
Period size: 9 Copynumber: 7.2 Consensus size: 9
92409 ATGCTTGAAG
92419 AGAAAAAAGA
1 AGAAAAAA-A
92429 AGAAAAAAA
1 AGAAAAAAA
*
92438 A-AAGAAAA
1 AGAAAAAAA
* *
92446 TGAAAAAGA
1 AGAAAAAAA
92455 AGAAAAAAAA
1 AG-AAAAAAA
92465 AGAAAAAAA
1 AGAAAAAAA
*
92474 A-AAGAAAA
1 AGAAAAAAA
92482 AG
1 AG
92484 GGGATCAAGG
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
8 13 0.29
9 16 0.36
10 16 0.36
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:92437 original size:11 final size:11
Alignment explanation
Indices: 92415--92482 Score: 66
Period size: 11 Copynumber: 5.8 Consensus size: 11
92405 TATTATGCTT
92415 GAAGAGAAAAAA
1 GAAGA-AAAAAA
92427 GAAGAAAAAAA
1 GAAGAAAAAAA
*
92438 AAAGAAAATGAAAAA
1 GAAG--AA--AAAAA
92453 GAAGAAAAAAA
1 GAAGAAAAAAA
92464 -AAGAAAAAAA
1 GAAGAAAAAAA
*
92474 AAAGAAAAA
1 GAAGAAAAA
92483 GGGGATCAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
10 10 0.20
11 22 0.45
12 5 0.10
13 4 0.08
15 8 0.16
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.01
Consensus pattern (11 bp):
GAAGAAAAAAA
Found at i:92451 original size:26 final size:24
Alignment explanation
Indices: 92421--92479 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 24
92411 GCTTGAAGAG
92421 AAAAAAGAAGAAAAAAAAAAGAAAA
1 AAAAAAGAAG-AAAAAAAAAGAAAA
*
92446 TGAAAAAGAAGAAAAAAAAAGAAAA
1 -AAAAAAGAAGAAAAAAAAAGAAAA
92471 AAAAAAGAA
1 AAAAAAGAA
92480 AAAGGGGATC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 8 0.26
25 14 0.45
26 9 0.29
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.02
Consensus pattern (24 bp):
AAAAAAGAAGAAAAAAAAAGAAAA
Found at i:93292 original size:3 final size:3
Alignment explanation
Indices: 93286--93392 Score: 160
Period size: 3 Copynumber: 35.7 Consensus size: 3
93276 TTTTTATCCA
* ** *
93286 TAT TAT TAT TAT TAA TAT TAT TAT TAT CCT TAT TAT TAT TAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
93334 TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
93382 TAT TAT TAT TA
1 TAT TAT TAT TA
93393 AATATATTAA
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 92 1.00
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:94854 original size:27 final size:25
Alignment explanation
Indices: 94800--94854 Score: 58
Period size: 26 Copynumber: 2.1 Consensus size: 25
94790 GTATGTTTAT
* *
94800 TATATAAATAAATATTTTTTTCATA
1 TATATAAATAAATATATTTTTCAAA
94825 TATATATAATAAATAGTAATTTTT-AAA
1 TATATA-AATAAATA-T-ATTTTTCAAA
94852 TAT
1 TAT
94855 TTATTTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 6 0.24
26 8 0.32
27 6 0.24
28 5 0.20
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (25 bp):
TATATAAATAAATATATTTTTCAAA
Found at i:96001 original size:25 final size:27
Alignment explanation
Indices: 95967--96020 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
95957 TATTATAAAT
*
95967 AAGTACCT-AAAGTA-CTTTTTGGTCA
1 AAGTACCTAAAAGTATCTTTTTAGTCA
* *
95992 AAGTATCTAAAATTATCTTTTTAGTCA
1 AAGTACCTAAAAGTATCTTTTTAGTCA
96019 AA
1 AA
96021 ATAAGTACCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.29
26 5 0.21
27 12 0.50
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (27 bp):
AAGTACCTAAAAGTATCTTTTTAGTCA
Found at i:96174 original size:29 final size:28
Alignment explanation
Indices: 96120--96178 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
96110 GAAAAAATTG
*
96120 AATAATTTAGGTACCTGTTTCAACCACAA
1 AATAATTTAGGTACCTATTTCAACCA-AA
* **
96149 AATACTTTAGGTACCTATTTTGACCAAA
1 AATAATTTAGGTACCTATTTCAACCAAA
96177 AA
1 AA
96179 GATTAGGTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (28 bp):
AATAATTTAGGTACCTATTTCAACCAAA
Found at i:96196 original size:26 final size:26
Alignment explanation
Indices: 96155--96204 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
96145 ACAAAATACT
* *
96155 TTAGGTACCTATTTTGACCAAAAAGA
1 TTAGGTACCTACTTTGACAAAAAAGA
*
96181 TTAGGTACTTACTTTGACAAAAAA
1 TTAGGTACCTACTTTGACAAAAAA
96205 AAATACTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (26 bp):
TTAGGTACCTACTTTGACAAAAAAGA
Found at i:101274 original size:137 final size:137
Alignment explanation
Indices: 101101--101384 Score: 543
Period size: 137 Copynumber: 2.1 Consensus size: 137
101091 CAGAGGGCTG
101101 GTTC-AAAGAAGAATAAAAGGATAAAGGATGATAAACAGATTGGCCTGACTGAGGATAGCTCTTC
1 GTTCAAAAGAAGAATAAAAGGATAAAGGATGATAAACAGATTGGCCTGACTGAGGATAGCTCTTC
101165 CAGATCGTGTGTAAGGCAGAGAAATGTAGTAAATCAAGATGGAATCAGTTCAGAGTTAATTATGG
66 CAGATCGTGTGTAAGGCAGAGAAATGTAGTAAATCAAGATGGAATCAGTTCAGAGTTAATTATGG
*
101230 AAGGTTA
131 AAGGTCA
101237 GTTCAAAAGAAGAATAAAAGGATAAAGGATGATAAACAGATTGGCCTGACTGAGGATAGCTCTTC
1 GTTCAAAAGAAGAATAAAAGGATAAAGGATGATAAACAGATTGGCCTGACTGAGGATAGCTCTTC
*
101302 CAGATCGTGTGTAAGGCAGAGAAATGTAGTGAATCAAGATGGAATCAGTTCAGAGTTAATTATGG
66 CAGATCGTGTGTAAGGCAGAGAAATGTAGTAAATCAAGATGGAATCAGTTCAGAGTTAATTATGG
101367 AAGGTCA
131 AAGGTCA
101374 GTTCAAAAGAA
1 GTTCAAAAGAA
101385 AGGAGATTTT
Statistics
Matches: 145, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
136 4 0.03
137 141 0.97
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (137 bp):
GTTCAAAAGAAGAATAAAAGGATAAAGGATGATAAACAGATTGGCCTGACTGAGGATAGCTCTTC
CAGATCGTGTGTAAGGCAGAGAAATGTAGTAAATCAAGATGGAATCAGTTCAGAGTTAATTATGG
AAGGTCA
Found at i:121857 original size:24 final size:23
Alignment explanation
Indices: 121803--121863 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
121793 ATGACCTGGT
*
121803 TTCTGTTCTGACTTCTGATATGGA
1 TTCTGTTCTGA-TTCTGATATGAA
* *
121827 TTTTGTTCTGATATCTGATTTGAA
1 TTCTGTTCTGAT-TCTGATATGAA
*
121851 TTCTGTTTTGATT
1 TTCTGTTCTGATT
121864 GGAGGAAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 2 0.06
24 29 0.94
ACGTcount: A:0.16, C:0.11, G:0.18, T:0.54
Consensus pattern (23 bp):
TTCTGTTCTGATTCTGATATGAA
Found at i:122027 original size:15 final size:15
Alignment explanation
Indices: 122007--122036 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
121997 AAACTGTATC
122007 TTTTTACTGGTTTTA
1 TTTTTACTGGTTTTA
122022 TTTTTACTGGTTTTA
1 TTTTTACTGGTTTTA
122037 CGGGAACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.13, T:0.67
Consensus pattern (15 bp):
TTTTTACTGGTTTTA
Found at i:134873 original size:20 final size:20
Alignment explanation
Indices: 134848--134887 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
134838 TTTTGGTGCA
134848 GAGGGAATCGATCCCCCCTT
1 GAGGGAATCGATCCCCCCTT
*
134868 GAGGGAATCGATTCCCCCTT
1 GAGGGAATCGATCCCCCCTT
134888 TGAAGGGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.33, G:0.25, T:0.23
Consensus pattern (20 bp):
GAGGGAATCGATCCCCCCTT
Found at i:134885 original size:21 final size:22
Alignment explanation
Indices: 134850--134931 Score: 89
Period size: 21 Copynumber: 3.8 Consensus size: 22
134840 TTGGTGCAGA
134850 GGGAATCGA-TCCCCCCTTGA-
1 GGGAATCGATTCCCCCCTTGAG
*
134870 GGGAATCGATTCCCCCTTTGAAG
1 GGGAATCGATTCCCCCCTTG-AG
* **
134893 GGGAACCGATTCCCCCC-ACAG
1 GGGAATCGATTCCCCCCTTGAG
*
134914 GGGAATCGATACCCCCCT
1 GGGAATCGATTCCCCCCT
134932 GGGGTTCTGG
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
20 9 0.18
21 26 0.51
22 1 0.02
23 15 0.29
ACGTcount: A:0.22, C:0.35, G:0.24, T:0.18
Consensus pattern (22 bp):
GGGAATCGATTCCCCCCTTGAG
Found at i:138713 original size:17 final size:16
Alignment explanation
Indices: 138667--138713 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
138657 TTATAAACCT
138667 ATTATTTATTTTGT-AA
1 ATTATTTATTTT-TAAA
138683 ATTATTT-TTGTTTAATA
1 ATTATTTATT-TTTAA-A
138700 ATTATTTATTTTTA
1 ATTATTTATTTTTA
138714 TCTTATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.11
16 10 0.37
17 12 0.44
18 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (16 bp):
ATTATTTATTTTTAAA
Found at i:139078 original size:3 final size:3
Alignment explanation
Indices: 139070--139106 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
139060 TGTAAATTTA
139070 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
139107 ATATGATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:140036 original size:13 final size:14
Alignment explanation
Indices: 140008--140041 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
139998 AATAAAAGAC
140008 TTAATAAAATTAATT
1 TTAA-AAAATTAATT
140023 TTAAAAAATT-ATT
1 TTAAAAAATTAATT
140036 TTAAAA
1 TTAAAA
140042 TAAGTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.47
14 6 0.32
15 4 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TTAAAAAATTAATT
Found at i:141388 original size:33 final size:34
Alignment explanation
Indices: 141351--141415 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
141341 TGGTAAATTA
*
141351 ACTTCAACGGTAA-CACAAGTTCAGAACCATTTT
1 ACTTCAACGGCAATCACAAGTTCAGAACCATTTT
* * *
141384 ACTTCAACTGCAATCACAAGTTTATAACCATT
1 ACTTCAACGGCAATCACAAGTTCAGAACCATT
141416 GCAGTCAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 11 0.41
34 16 0.59
ACGTcount: A:0.37, C:0.25, G:0.09, T:0.29
Consensus pattern (34 bp):
ACTTCAACGGCAATCACAAGTTCAGAACCATTTT
Found at i:148490 original size:3 final size:3
Alignment explanation
Indices: 148484--148551 Score: 99
Period size: 3 Copynumber: 24.0 Consensus size: 3
148474 TAGTATTATT
148484 TAA TAA TAA T-A TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
148530 -AA TAA TAA T-A TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
148552 AACAGAATGG
Statistics
Matches: 60, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
2 8 0.13
3 52 0.87
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:148500 original size:11 final size:11
Alignment explanation
Indices: 148484--148550 Score: 91
Period size: 11 Copynumber: 6.0 Consensus size: 11
148474 TAGTATTATT
148484 TAATAATAATA
1 TAATAATAATA
148495 TAATAATAATA
1 TAATAATAATA
148506 -ATATAATAATAA
1 TA-ATAATAAT-A
148518 TAATAATAATA
1 TAATAATAATA
*
148529 AAATAATAATA
1 TAATAATAATA
*
148540 TGATAATAATA
1 TAATAATAATA
148551 AAACAGAATG
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
10 1 0.02
11 39 0.78
12 9 0.18
13 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (11 bp):
TAATAATAATA
Found at i:148501 original size:14 final size:14
Alignment explanation
Indices: 148484--148551 Score: 100
Period size: 14 Copynumber: 4.6 Consensus size: 14
148474 TAGTATTATT
148484 TAATAATAATATAA
1 TAATAATAATATAA
148498 TAATAATAATATAA
1 TAATAATAATATAA
148512 TAATAATAATAATAA
1 TAATAATAAT-ATAA
*
148527 TAAAATAATAATATGA
1 T--AATAATAATATAA
148543 TAATAATAA
1 TAATAATAA
148552 AACAGAATGG
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
14 32 0.64
15 5 0.10
16 4 0.08
17 9 0.18
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (14 bp):
TAATAATAATATAA
Found at i:148948 original size:110 final size:114
Alignment explanation
Indices: 148694--148976 Score: 394
Period size: 110 Copynumber: 2.5 Consensus size: 114
148684 GTCGAATAAG
* * * * * *
148694 TTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAATTCCTTCTGGAAATGTTGATGCTGCTC
1 TTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCTTCTAGAAATGTTGATGCTGATC
** *
148759 TATCTCCTTTTGCGATATAGTCGAATGAATAAGTTCTTCAGATTATGAAC
66 TATCTCCTTAAGCGATAAAG-CGAATGAATAAGTTCTTCAGATTATGAAC
* *
148809 TTCTTCTTCCTCTTCAGATAAGTTCTTCTTATTACGAACTCCTTCTAGAAATGTTGATGTTGATC
1 TTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCTTCTAGAAATGTTGATGCTGATC
*
148874 TATCTCCTTAAGC-A-AAAG-G-TTGAATAAGTTCTTCAGATTATGAAC
66 TATCTCCTTAAGCGATAAAGCGAATGAATAAGTTCTTCAGATTATGAAC
* * *
148919 TTCTTCTTCCTGTTCAAATGAGTTATTCTTATTACGAACTCCTTCTAGAAATGTTGAT
1 TTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCTTCTAGAAATGTTGAT
148977 CCATCGAGTA
Statistics
Matches: 152, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
110 79 0.52
111 1 0.01
113 3 0.02
114 1 0.01
115 68 0.45
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (114 bp):
TTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCCTTCTAGAAATGTTGATGCTGATC
TATCTCCTTAAGCGATAAAGCGAATGAATAAGTTCTTCAGATTATGAAC
Found at i:149674 original size:20 final size:20
Alignment explanation
Indices: 149649--149702 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
149639 TTTACACTTA
149649 GGGAACCGATTCCCTATGAG
1 GGGAACCGATTCCCTATGAG
*
149669 GGGAACCAATTCCCTATGAG
1 GGGAACCGATTCCCTATGAG
*
149689 GGGTACCGATTCCC
1 GGGAACCGATTCCC
149703 CCCACGCTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.24, C:0.28, G:0.28, T:0.20
Consensus pattern (20 bp):
GGGAACCGATTCCCTATGAG
Found at i:157044 original size:42 final size:42
Alignment explanation
Indices: 156985--157094 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
156975 AAGGTCTTAT
* *
156985 CATCTTGCTCGAAAGGCTTACAGATGACCCGAAGGATTTA-A
1 CATCATGCTCGAAAGGCTTACAGATGACCCGAAGGATCTACA
* * *
157026 GCATCATTCTTGAAAGGCTTACAGATGACCTGAAGGATCTACA
1 -CATCATGCTCGAAAGGCTTACAGATGACCCGAAGGATCTACA
* *
157069 CATCATGCTCAAAAGACTTACAGATG
1 CATCATGCTCGAAAGGCTTACAGATG
157095 GCCAAAATGA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 57 0.98
43 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.25
Consensus pattern (42 bp):
CATCATGCTCGAAAGGCTTACAGATGACCCGAAGGATCTACA
Found at i:157298 original size:303 final size:309
Alignment explanation
Indices: 156731--157371 Score: 918
Period size: 303 Copynumber: 2.1 Consensus size: 309
156721 TTAACTCAAC
* * * ** *
156731 ACTTACAGATGACCTGAAAGATTTAAACATCATGCTCGAAAGACTTATCGATGACCCGAAGGATT
1 ACTTACAGATGACCTGAAGGATTTACACATCATGCTCAAAAGACTTATCGATGACCAAAAGGACT
* *
156796 TACAAATAAAAAAACCCTTAAAAATTAAGTTTAGTTTCTTAGTTGTCAAGGAACCCCTTAAAAGC
66 TACAAATAAAAAAACCCTT-AAAA-TAAGCTTAGTTTCTTAGTTGTCAAGAAACCCCTTAAAAGC
* * *
156861 CTTAGCTTCCTTTAACAACTCTTTTGAGATAATTAAAAAACCCCTTAAAATTAGGCTTAGTTTTT
129 CTTAGCTTCATTTAACAACTCTTTTGAGATAATTAAAAAACCCCTTAAAATGAGGCTTAGATTTT
*
156926 TAAAATCTTATTCGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGTCTTATCATCTT
194 TAAAATCTTATTCGAAAACATCCTGCCCAAAGGTCTTATGGATGGCCCGAAGGTCTTATCATCTT
* * * *
156991 GCTCGAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATTCTTGAAAG
259 GCTCGAAAGACTTACAGATGACCAGAAGGATTTAAGCATCATGCTTAAAAG
* * * *
157042 GCTTACAGATGACCTGAAGGATCTACACATCATGCTCAAAAGACTTA-CAGATGGCCAAAATGAC
1 ACTTACAGATGACCTGAAGGATTTACACATCATGCTCAAAAGACTTATC-GATGACCAAAAGGAC
* * ** * *
157106 TTACAAATCAAGAAACCC-T-CGA-AAGCTTAGTTTCTTAGTTGTCGAGAAACCCCTTAAAAGGC
65 TTACAAATAAAAAAACCCTTAAAATAAGCTTAGTTTCTTAGTTGTCAAGAAACCCCTTAAAAGCC
* *
157168 TTAGCTTCATTTAATAACTCTTTTGAGATAATTAAGAAACCCC-TAAAA-GAGGCTTA-ATTTTT
130 TTAGCTTCATTTAACAACTCTTTTGAGATAATTAAAAAACCCCTTAAAATGAGGCTTAGATTTTT
* *
157230 AAAATCTTATTTGAAAGCATCCTGCCCAAAGGTCTTATGGATGGCCCGAAGGTCTTATCATCTTG
195 AAAATCTTATTCGAAAACATCCTGCCCAAAGGTCTTATGGATGGCCCGAAGGTCTTATCATCTTG
157295 CTCGAAAGACTTACAGATGACCAGAAGGATTTAAGCATCATGCTTAAAAG
260 CTCGAAAGACTTACAGATGACCAGAAGGATTTAAGCATCATGCTTAAAAG
* *
157345 ACTTACTGATGACCTGGAGGATTTACA
1 ACTTACAGATGACCTGAAGGATTTACA
157372 AATTCAGGAA
Statistics
Matches: 295, Mismatches: 34, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
303 136 0.46
304 7 0.02
305 5 0.02
306 76 0.26
308 1 0.00
310 2 0.01
311 68 0.23
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (309 bp):
ACTTACAGATGACCTGAAGGATTTACACATCATGCTCAAAAGACTTATCGATGACCAAAAGGACT
TACAAATAAAAAAACCCTTAAAATAAGCTTAGTTTCTTAGTTGTCAAGAAACCCCTTAAAAGCCT
TAGCTTCATTTAACAACTCTTTTGAGATAATTAAAAAACCCCTTAAAATGAGGCTTAGATTTTTA
AAATCTTATTCGAAAACATCCTGCCCAAAGGTCTTATGGATGGCCCGAAGGTCTTATCATCTTGC
TCGAAAGACTTACAGATGACCAGAAGGATTTAAGCATCATGCTTAAAAG
Found at i:158059 original size:22 final size:22
Alignment explanation
Indices: 158031--158085 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
158021 AATAAAGCTT
*
158031 TCATCTTTTAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
158053 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
158075 TCATCTTTGAA
1 TCATCTTTGAA
158086 GAATGTAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:165239 original size:22 final size:22
Alignment explanation
Indices: 165197--165247 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
165187 AATCAATCAA
*
165197 ATAT-AAATATTAATATAAAAGG
1 ATATAAAATAATAATATAAAA-G
*
165219 ATATAAAATAATAA-ATGAAAG
1 ATATAAAATAATAATATAAAAG
*
165240 AAATAAAA
1 ATATAAAA
165248 AGAACTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 8 0.32
22 9 0.36
23 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (22 bp):
ATATAAAATAATAATATAAAAG
Found at i:166073 original size:11 final size:11
Alignment explanation
Indices: 166057--166086 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
166047 GACTAAAATG
166057 AAATAATAATT
1 AAATAATAATT
166068 AAATAATAATT
1 AAATAATAATT
166079 AAATAATA
1 AAATAATA
166087 TTTTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATT
Found at i:170643 original size:20 final size:20
Alignment explanation
Indices: 170614--170651 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
170604 CAGAACCCCA
*
170614 GGGGGTATCGATTCCCCTGT
1 GGGGGAATCGATTCCCCTGT
*
170634 GGGGGAATCGGTTCCCCT
1 GGGGGAATCGATTCCCCT
170652 TCAAAGGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.26, G:0.37, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCCTGT
Found at i:170680 original size:20 final size:21
Alignment explanation
Indices: 170634--170694 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
170624 ATTCCCCTGT
170634 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
170657 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
170677 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
170695 TGCACCAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Done.