Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001558.1 Hibiscus syriacus cultivar Beakdansim tig00003080_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: 129621
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:9631 original size:30 final size:30
Alignment explanation
Indices: 9601--9700 Score: 146
Period size: 30 Copynumber: 3.3 Consensus size: 30
9591 CCTGATTCTG
* *
9601 CATGAGATAAACTCCACGTTCTGACATCTG
1 CATGGGATAAACTCCACGTTCTGACATCTA
9631 CATGGGATAAACTCCACGTTCTGACATCTA
1 CATGGGATAAACTCCACGTTCTGACATCTA
* ** *
9661 CATGGGATAAAATCCTTGTTCTGATATCTA
1 CATGGGATAAACTCCACGTTCTGACATCTA
9691 CATGGGATAA
1 CATGGGATAA
9701 CTGACATCTG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (30 bp):
CATGGGATAAACTCCACGTTCTGACATCTA
Found at i:10652 original size:16 final size:16
Alignment explanation
Indices: 10601--10652 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
10591 CTCGAACCAA
10601 CCGATCTGAGATTAAC
1 CCGATCTGAGATTAAC
* *
10617 CCGACCCG-GACTTCAA-
1 CCGATCTGAGA-TT-AAC
10633 CCGATCTGAGATTAAC
1 CCGATCTGAGATTAAC
10649 CCGA
1 CCGA
10653 CCCGAACTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
15 4 0.14
16 20 0.71
17 4 0.14
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (16 bp):
CCGATCTGAGATTAAC
Found at i:16156 original size:75 final size:75
Alignment explanation
Indices: 16050--16255 Score: 220
Period size: 75 Copynumber: 2.7 Consensus size: 75
16040 GTTGTACAAG
* ** * *
16050 GGGGGAATCGGTACC-CCCTTGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACA
1 GGGGGAATCGGTTCCTCCAATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCAGAACA
** *
16114 AAACTGTTTA
66 AAACCATTCA
* * * * *
16124 GGGGGAAATTGGTTCCTCCAAT-GGGGGAATCGGTTCCCTCCGAGCATTCTAGAAATCTCAGAGC
1 GGGGG-AATCGGTTCCTCCAATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCAGAAC
*
16188 CAAACCATTCA
65 AAAACCATTCA
* *
16199 GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCA-ATCTGGAATT
1 GGGGGAATCGGTTCCTCCAAT-GGGGGGAATCGGTTCCCTCCGAGCATA-CTGGAATT
16256 TTTGGCTTTG
Statistics
Matches: 107, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
74 19 0.18
75 56 0.52
76 32 0.30
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (75 bp):
GGGGGAATCGGTTCCTCCAATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCAGAACA
AAACCATTCA
Found at i:16882 original size:17 final size:17
Alignment explanation
Indices: 16860--16903 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
16850 TTCATAAATC
16860 CAAAATCCAACAATCCA
1 CAAAATCCAACAATCCA
**
16877 CAAAATAAAACAATCCA
1 CAAAATCCAACAATCCA
16894 -AAATATCCAA
1 CAAA-ATCCAA
16904 AATGTTGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCCAACAATCCA
Found at i:18748 original size:21 final size:21
Alignment explanation
Indices: 18722--18803 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
18712 CAGAACCCCA
* *
18722 GGGGGGTATCGATTCCCTTGT
1 GGGGGGAATCGATTCCCTTAT
* *
18743 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGATT-CCCTT-AT
* * *
18766 AGGGGGAATCGGTTCCCTCAT
1 GGGGGGAATCGATTCCCTTAT
18787 GGGGGG-ATCGATTCCCT
1 GGGGGGAATCGATTCCCT
18804 CTGCACAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 10 0.20
21 18 0.36
22 9 0.18
23 13 0.26
ACGTcount: A:0.15, C:0.23, G:0.37, T:0.26
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCTTAT
Found at i:24641 original size:74 final size:74
Alignment explanation
Indices: 24558--24751 Score: 246
Period size: 74 Copynumber: 2.6 Consensus size: 74
24548 GTTGTACAAG
* * * *
24558 GGGGGAATCGGTACCCCCCTTGGGGGGATCGGTTCCCTCCGAGCA-TACTGGAATTCTCGGAACA
1 GGGGGAATCGGTTCCCCCATTGGGGGAATCGGTTCCCTCCGAGCATTA-TGGAAATCTCGGAACA
** *
24622 AAACTGTTTA
65 AAACCATTCA
* * * *
24632 GGGGGAATCGGTTCCTCCAATGGGGGAATCGGTTCCCTCCGAGCATTATGGAAATCTCGGAGCCA
1 GGGGGAATCGGTTCCCCCATTGGGGGAATCGGTTCCCTCCGAGCATTATGGAAATCTCGGAACAA
24697 AACCATTCA
66 AACCATTCA
* *
24706 GGGGGAATCGGTTCCTCCTATTGGGGGAATCGGTTCCCTCTGAGCA
1 GGGGGAATCGGTTCC-CCCATTGGGGGAATCGGTTCCCTCCGAGCA
24752 ATCTAGAATT
Statistics
Matches: 103, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
74 75 0.73
75 28 0.27
ACGTcount: A:0.21, C:0.25, G:0.30, T:0.23
Consensus pattern (74 bp):
GGGGGAATCGGTTCCCCCATTGGGGGAATCGGTTCCCTCCGAGCATTATGGAAATCTCGGAACAA
AACCATTCA
Found at i:32541 original size:32 final size:32
Alignment explanation
Indices: 32500--32569 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
32490 GTTGTTCACA
* * *
32500 TCATCTTCAATCTCTTACATAACACACTCATT
1 TCATCTTCAATATCTTACACAACAAACTCATT
*
32532 TCATCTTCAATATCTTACACAACAAACTCCTT
1 TCATCTTCAATATCTTACACAACAAACTCATT
32564 TCATCT
1 TCATCT
32570 AACGAAAAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (32 bp):
TCATCTTCAATATCTTACACAACAAACTCATT
Found at i:34413 original size:26 final size:26
Alignment explanation
Indices: 34377--34431 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
34367 TTATGCTTCA
34377 TTAATGTTTTTTCAATAACATTTAAT
1 TTAATGTTTTTTCAATAACATTTAAT
34403 TTAATGTTTTTTCAATAACATTTAAT
1 TTAATGTTTTTTCAATAACATTTAAT
34429 TTA
1 TTA
34432 CTACTTTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.55
Consensus pattern (26 bp):
TTAATGTTTTTTCAATAACATTTAAT
Found at i:34439 original size:26 final size:26
Alignment explanation
Indices: 34384--34439 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
34374 TCATTAATGT
**
34384 TTTTTCAATAACATTTAATTTAATGT
1 TTTTTCAATAACATTTAATTTAATAC
*
34410 TTTTTCAATAACATTTAATTTACTAC
1 TTTTTCAATAACATTTAATTTAATAC
34436 TTTT
1 TTTT
34440 AGGGTATGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.11, G:0.02, T:0.55
Consensus pattern (26 bp):
TTTTTCAATAACATTTAATTTAATAC
Found at i:35595 original size:20 final size:21
Alignment explanation
Indices: 35566--35621 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
35556 TGGAAAATAC
35566 TAGT-AGTATCGATACTA-CA
1 TAGTGAGTATCGATACTACCA
*
35585 TAGTGAGTATCAATACTACCA
1 TAGTGAGTATCGATACTACCA
35606 -AGTGAGTATCGATACT
1 TAGTGAGTATCGATACT
35622 TCTTTTACCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 4 0.12
20 27 0.82
21 2 0.06
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (21 bp):
TAGTGAGTATCGATACTACCA
Found at i:44417 original size:17 final size:17
Alignment explanation
Indices: 44395--44433 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
44385 TAATAAACTA
*
44395 ATGATAATTAAATTATT
1 ATGATAATTAAATTAAT
44412 ATGATAATTAAATTAAT
1 ATGATAATTAAATTAAT
44429 ATGAT
1 ATGAT
44434 TAGTTTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (17 bp):
ATGATAATTAAATTAAT
Found at i:45196 original size:23 final size:23
Alignment explanation
Indices: 45165--45218 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
45155 GCAATAACAA
45165 CAAGCATCGTTA-CATCGATTCAG
1 CAAGCATCG-TAGCATCGATTCAG
*
45188 TAAGCATCGTAGCATCGATTCAG
1 CAAGCATCGTAGCATCGATTCAG
45211 CAAGCATC
1 CAAGCATC
45219 CTGCATTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 2 0.07
23 26 0.93
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (23 bp):
CAAGCATCGTAGCATCGATTCAG
Found at i:45346 original size:20 final size:20
Alignment explanation
Indices: 45323--45364 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
45313 TATCAAGTAG
* *
45323 AAGCAAGCAATATCAAACAT
1 AAGCAAACAATATAAAACAT
45343 AAGCAAACAATATAAAACAT
1 AAGCAAACAATATAAAACAT
45363 AA
1 AA
45365 TAAAACATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.62, C:0.17, G:0.07, T:0.14
Consensus pattern (20 bp):
AAGCAAACAATATAAAACAT
Found at i:45370 original size:20 final size:20
Alignment explanation
Indices: 45330--45371 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
45320 TAGAAGCAAG
* *
45330 CAATATCAAACATAAGCAAA
1 CAATATAAAACATAAGAAAA
*
45350 CAATATAAAACATAATAAAA
1 CAATATAAAACATAAGAAAA
45370 CA
1 CA
45372 TAATCAAGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.64, C:0.17, G:0.02, T:0.17
Consensus pattern (20 bp):
CAATATAAAACATAAGAAAA
Found at i:48133 original size:31 final size:31
Alignment explanation
Indices: 47716--48130 Score: 535
Period size: 31 Copynumber: 13.4 Consensus size: 31
47706 ACATTATAGA
* * * *
47716 AATAAACTAGTATATCATTTACATCAATATC
1 AATAAACCAGTACATCATTTACATCAACAAC
* * *
47747 AATAAACCAATATATCATTTACATCAACATC
1 AATAAACCAGTACATCATTTACATCAACAAC
* * *
47778 AATAAACCAATATATCATTTACATCAACATC
1 AATAAACCAGTACATCATTTACATCAACAAC
* * **
47809 AATAAACCAATACATTATTTACATCAACAGT
1 AATAAACCAGTACATCATTTACATCAACAAC
*
47840 AATAAACCAGTACATCATTTACATCAAAAAC
1 AATAAACCAGTACATCATTTACATCAACAAC
*
47871 AATAAACCAATACATCATTTACATCAACAAC
1 AATAAACCAGTACATCATTTACATCAACAAC
* *
47902 AATAAACCAGTATATCATTTACATCAATAGA-
1 AATAAACCAGTACATCATTTACATCAACA-AC
*
47933 AATAAACCAGCACATCATTTACATCAACAAC
1 AATAAACCAGTACATCATTTACATCAACAAC
47964 AATAAACCAGTACATCATTTACATCAACAAC
1 AATAAACCAGTACATCATTTACATCAACAAC
* * * **
47995 AATAAACTAGCACACCATTTACATCAACGGC
1 AATAAACCAGTACATCATTTACATCAACAAC
*
48026 AATAAACCAGTACATCATTTACATCAACATC
1 AATAAACCAGTACATCATTTACATCAACAAC
* *
48057 AATAAACCAGTATATCATTTATATCAACAAC
1 AATAAACCAGTACATCATTTACATCAACAAC
* * * *
48088 AATAAACCAGTATATCATTTGCATCAATAGC
1 AATAAACCAGTACATCATTTACATCAACAAC
48119 AATAAACCAGTA
1 AATAAACCAGTA
48131 TATAAATATA
Statistics
Matches: 344, Mismatches: 38, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
30 1 0.00
31 342 0.99
32 1 0.00
ACGTcount: A:0.48, C:0.22, G:0.04, T:0.26
Consensus pattern (31 bp):
AATAAACCAGTACATCATTTACATCAACAAC
Found at i:48141 original size:2 final size:2
Alignment explanation
Indices: 48129--48163 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
48119 AATAAACCAG
* *
48129 TA TA TA AA TA TA TA TA TA AA 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
48164 CAACCATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:48144 original size:12 final size:12
Alignment explanation
Indices: 48129--48163 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
48119 AATAAACCAG
48129 TATATAAATATA
1 TATATAAATATA
48141 TATATAAATATA
1 TATATAAATATA
*
48153 TATATATATAT
1 TATATAAATAT
48164 CAACCATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TATATAAATATA
Found at i:48394 original size:6 final size:6
Alignment explanation
Indices: 48385--48584 Score: 95
Period size: 6 Copynumber: 33.7 Consensus size: 6
48375 TTTTGGTTCA
* * * *
48385 GGTTTG GGTTCG GGTTCG GGTTTG GGTTCG GGTTT- GGTTTG GGTTTAA
1 GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTT-G
* * * * * * * *
48433 GGTTTA GG-TTC AGTTTG GGTTTG AGTTTA GGTTTG GG-TTC AGTTAG
1 GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG
* * * * * * * *
48479 AGTTAG GGTCTG GGTTAG GGTTT- -ATTTG GGTTTG AGTTTA GGTTTA
1 GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG
* * *** * *
48525 GGTTTG GGTTTA AGTAAA GATTAG GGTTTG GGTTTAG GGTTTG GGTTTG
1 GGTTTG GGTTTG GGTTTG GGTTTG GGTTTG GGTTT-G GGTTTG GGTTTG
48574 GGTTTAG GGTT
1 GGTTT-G GGTT
48585 AAGGTTAAGG
Statistics
Matches: 147, Mismatches: 39, Indels: 15
0.73 0.19 0.07
Matches are distributed among these distances:
4 3 0.02
5 11 0.07
6 117 0.80
7 16 0.11
ACGTcount: A:0.12, C:0.03, G:0.41, T:0.45
Consensus pattern (6 bp):
GGTTTG
Found at i:48394 original size:12 final size:12
Alignment explanation
Indices: 48374--48453 Score: 56
Period size: 12 Copynumber: 6.8 Consensus size: 12
48364 GTTTCGAATA
*
48374 GTTTTGGTTCAG
1 GTTTGGGTTCAG
*
48386 GTTTGGGTTCGG
1 GTTTGGGTTCAG
* **
48398 GTTCGGGTTTGG
1 GTTTGGGTTCAG
* *
48410 GTTCGGGTT-TG
1 GTTTGGGTTCAG
*
48421 GTTTGGGTTTAAG
1 GTTTGGG-TTCAG
*
48434 GTTTAGGTTCA-
1 GTTTGGGTTCAG
48445 GTTTGGGTT
1 GTTTGGGTT
48454 TGAGTTTAGG
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
11 15 0.27
12 34 0.61
13 7 0.12
ACGTcount: A:0.06, C:0.06, G:0.41, T:0.46
Consensus pattern (12 bp):
GTTTGGGTTCAG
Found at i:48406 original size:18 final size:18
Alignment explanation
Indices: 48379--48429 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
48369 GAATAGTTTT
48379 GGTTCAGGTTTGGGTTCG
1 GGTTCAGGTTTGGGTTCG
*
48397 GGTTCGGGTTTGGGTTCG
1 GGTTCAGGTTTGGGTTCG
*
48415 GGTT-TGGTTTGGGTT
1 GGTTCAGGTTTGGGTT
48430 TAAGGTTTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 10 0.32
18 21 0.68
ACGTcount: A:0.02, C:0.08, G:0.47, T:0.43
Consensus pattern (18 bp):
GGTTCAGGTTTGGGTTCG
Found at i:48529 original size:12 final size:12
Alignment explanation
Indices: 48514--48605 Score: 53
Period size: 13 Copynumber: 7.6 Consensus size: 12
48504 TTGGGTTTGA
48514 GTTTAGGTTTAG
1 GTTTAGGTTTAG
* *
48526 GTTTGGGTTTAA
1 GTTTAGGTTTAG
* * *
48538 G-TAAAGATTAGG
1 GTTTAGGTTTA-G
*
48550 GTTTGGGTTTAGG
1 GTTTAGGTTTA-G
* *
48563 GTTTGGGTTTGG
1 GTTTAGGTTTAG
*
48575 GTTTAGGGTTAAG
1 GTTTA-GGTTTAG
*
48588 GTTAAGG-TTAG
1 GTTTAGGTTTAG
48599 GTTTAGG
1 GTTTAGG
48606 AAGATGAATA
Statistics
Matches: 59, Mismatches: 18, Indels: 7
0.70 0.21 0.08
Matches are distributed among these distances:
11 14 0.24
12 19 0.32
13 26 0.44
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.42
Consensus pattern (12 bp):
GTTTAGGTTTAG
Found at i:48563 original size:13 final size:13
Alignment explanation
Indices: 48545--48584 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
48535 TAAGTAAAGA
48545 TTAGGGTTTGGGT
1 TTAGGGTTTGGGT
48558 TTAGGGTTTGGGT
1 TTAGGGTTTGGGT
48571 TT-GGGTTTAGGGT
1 TTAGGGTTT-GGGT
48584 T
1 T
48585 AAGGTTAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 6 0.23
13 20 0.77
ACGTcount: A:0.07, C:0.00, G:0.45, T:0.47
Consensus pattern (13 bp):
TTAGGGTTTGGGT
Found at i:48590 original size:19 final size:19
Alignment explanation
Indices: 48549--48590 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
48539 TAAAGATTAG
**
48549 GGTTTGGGTTTAGGGTTTG
1 GGTTTGGGTTTAGGGTTAA
48568 GGTTTGGGTTTAGGGTTAA
1 GGTTTGGGTTTAGGGTTAA
48587 GGTT
1 GGTT
48591 AAGGTTAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.45, T:0.45
Consensus pattern (19 bp):
GGTTTGGGTTTAGGGTTAA
Found at i:48604 original size:6 final size:6
Alignment explanation
Indices: 48415--48605 Score: 55
Period size: 6 Copynumber: 32.3 Consensus size: 6
48405 TTTGGGTTCG
* * *
48415 GGTTT- GGTTTG GGTTTAA GGTTTA GGTTCA -GTTTG GGTTT- GAGTTTA
1 GGTTTA GGTTTA GGTTT-A GGTTTA GGTTTA GGTTTA GGTTTA G-GTTTA
* * * * *
48462 GGTTTG GGTTCA -G-TTA GAG-TTA GGGTCT- GGGTTA GGGTTTA --TTTG
1 GGTTTA GGTTTA GGTTTA G-GTTTA -GGTTTA GGTTTA -GGTTTA GGTTTA
* * * * * *
48507 GGTTT- GAGTTTA GGTTTA GGTTTG GGTTTA AG-TAA AGATTA GGGTTTG
1 GGTTTA G-GTTTA GGTTTA GGTTTA GGTTTA GGTTTA GGTTTA -GGTTTA
* * * *
48555 GGTTTA GGGTTTG GGTTTG GGTTTA GGGTTAA GGTTAA GG-TTA GGTTTA
1 GGTTTA -GGTTTA GGTTTA GGTTTA -GGTTTA GGTTTA GGTTTA GGTTTA
48604 GG
1 GG
48606 AAGATGAATA
Statistics
Matches: 140, Mismatches: 26, Indels: 39
0.68 0.13 0.19
Matches are distributed among these distances:
4 5 0.04
5 22 0.16
6 86 0.61
7 27 0.19
ACGTcount: A:0.16, C:0.02, G:0.39, T:0.44
Consensus pattern (6 bp):
GGTTTA
Found at i:49145 original size:27 final size:28
Alignment explanation
Indices: 49115--49169 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
49105 TTAGAGAGAG
*
49115 AGAGCAAAATAATG-AAATGAGAAAAAT
1 AGAGCAAAATAATGAAAATGAAAAAAAT
* **
49142 AGAGGAAAATGTTGAAAATGAAAAAAAT
1 AGAGCAAAATAATGAAAATGAAAAAAAT
49170 GCCTTTTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.62, C:0.02, G:0.20, T:0.16
Consensus pattern (28 bp):
AGAGCAAAATAATGAAAATGAAAAAAAT
Found at i:49346 original size:62 final size:61
Alignment explanation
Indices: 49263--49400 Score: 174
Period size: 62 Copynumber: 2.2 Consensus size: 61
49253 TCCTAGTTTT
*
49263 AAATTTATTCAATTTAGTCCAAATTTAATGATGTA-A-TATATTAATTTAAGCTGCATATTTCA
1 AAATTTATTCAATTTAGTCCAAATTT-ATGAT-TACAGTATATTAACTTAAGCTGCATATTT-A
* * *
49325 AATATTT-TTCAATTTAGTCCAAATTTATTATTACAGTTTATTAACTTAAGCTTCATATTTA
1 AA-ATTTATTCAATTTAGTCCAAATTTATGATTACAGTATATTAACTTAAGCTGCATATTTA
*
49386 AAATTTGTTCAATTT
1 AAATTTATTCAATTT
49401 GATCCTTATA
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
60 6 0.09
61 16 0.24
62 42 0.62
63 4 0.06
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (61 bp):
AAATTTATTCAATTTAGTCCAAATTTATGATTACAGTATATTAACTTAAGCTGCATATTTA
Found at i:49517 original size:18 final size:18
Alignment explanation
Indices: 49494--49818 Score: 130
Period size: 18 Copynumber: 18.2 Consensus size: 18
49484 AACTTTTCAA
49494 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
*
49512 TATATAGTTTATATATAG
1 TATATAGTTTATATATAC
* *
49530 TA-AT-G--AACTATATAA
1 TATATAGTTTA-TATATAC
*
49545 TATATAGTTTGTATATAC
1 TATATAGTTTATATATAC
* * *
49563 CATATACTATATAGGTTATA-
1 TATATAGTTTATA---TATAC
* ** *
49583 TATACTAATGCACTATATAA
1 TATA-TAGTTTA-TATATAC
49603 TATATAGTTTGTTATACAATATAC
1 TATATAG--T-TTAT---ATATAC
* *
49627 TATATAGGTTAAATATAC
1 TATATAGTTTATATATAC
* *
49645 TA-AT-G--AACTATATAA
1 TATATAGTTTA-TATATAC
*
49660 TATATTGTTTATATATAC
1 TATATAGTTTATATATAC
**
49678 TA-ATGAAATTATATA-A-
1 TATAT-AGTTTATATATAC
*
49694 TGTATAGTTTATATATAC
1 TATATAGTTTATATATAC
*
49712 CATATAGTTTATATATAC
1 TATATAGTTTATATATAC
***
49730 TA-ATAAACTATATA-A-
1 TATATAGTTTATATATAC
*
49745 TGTATAGTTATATATATAC
1 TATATAGTT-TATATATAC
*
49764 CATATAGTTTATATATAC
1 TATATAGTTTATATATAC
* *
49782 TA-AT-G--AACTATATAT
1 TATATAGTTTA-TATATAC
49797 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
49815 TATA
1 TATA
49819 GTATAAATTA
Statistics
Matches: 224, Mismatches: 48, Indels: 70
0.65 0.14 0.20
Matches are distributed among these distances:
14 3 0.01
15 24 0.11
16 22 0.10
17 30 0.13
18 95 0.42
19 15 0.07
20 7 0.03
21 13 0.06
22 3 0.01
24 12 0.05
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:49549 original size:33 final size:33
Alignment explanation
Indices: 49505--49816 Score: 187
Period size: 33 Copynumber: 9.8 Consensus size: 33
49495 ATATAGTTTA
* *
49505 TATATACTATATAGTTTATATATAGTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
*
49538 TATATAATATATAGTTTGTATATAC-------C
1 TATATAATATATAGTTTATATATACTAATGAAC
* * *
49564 -ATATACTATATAGGTTATATATACTAATGCAC
1 TATATAATATATAGTTTATATATACTAATGAAC
*
49596 TATATAATATATAGTTTGT-TATAC------A-
1 TATATAATATATAGTTTATATATACTAATGAAC
* * *
49621 -ATATACTATATAGGTTAAATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
* *
49653 TATATAATATATTGTTTATATATACTAATGAAAT
1 TATATAATATATAGTTTATATATACTAATG-AAC
* **
49687 TATATAATGTATAGTTTATATATACCATATAGTTTA-
1 TATATAATATATAGTTTATATATA-C-TA-A-TGAAC
* * * * * * *
49723 TATATACTAATAAACTATATAATGTA-TAGTTATA-
1 TATATAAT-ATATAGTTTAT-ATATACTAATGA-AC
**
49757 TATATACCATATAGTTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATGAAC
*
49790 TATATATTATATAGTTTATATATACTA
1 TATATAATATATAGTTTATATATACTA
49817 TAGTATAAAT
Statistics
Matches: 213, Mismatches: 39, Indels: 54
0.70 0.13 0.18
Matches are distributed among these distances:
24 14 0.07
25 26 0.12
26 2 0.01
31 1 0.00
32 11 0.05
33 101 0.47
34 32 0.15
35 3 0.01
36 9 0.04
37 9 0.04
38 5 0.02
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.43
Consensus pattern (33 bp):
TATATAATATATAGTTTATATATACTAATGAAC
Found at i:49644 original size:57 final size:58
Alignment explanation
Indices: 49506--49677 Score: 274
Period size: 58 Copynumber: 3.0 Consensus size: 58
49496 TATAGTTTAT
* * *
49506 ATATACTATATAGTTTATATATAGTAATGAACTATATAATATATAGTTTGTATATACC
1 ATATACTATATAGGTTATATATACTAATGAACTATATAATATATAGTTTGTATATACA
*
49564 ATATACTATATAGGTTATATATACTAATGCACTATATAATATATAGTTTGT-TATACA
1 ATATACTATATAGGTTATATATACTAATGAACTATATAATATATAGTTTGTATATACA
* * *
49621 ATATACTATATAGGTTAAATATACTAATGAACTATATAATATATTGTTTATATATAC
1 ATATACTATATAGGTTATATATACTAATGAACTATATAATATATAGTTTGTATATAC
49678 TAATGAAATT
Statistics
Matches: 105, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
57 52 0.50
58 53 0.50
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (58 bp):
ATATACTATATAGGTTATATATACTAATGAACTATATAATATATAGTTTGTATATACA
Found at i:49722 original size:52 final size:52
Alignment explanation
Indices: 49661--49814 Score: 249
Period size: 52 Copynumber: 3.0 Consensus size: 52
49651 ACTATATAAT
* *
49661 ATATTGTTTATATATACTAATGAAATTATATAATGTATAGTTTATATATACC
1 ATATAGTTTATATATACTAATGAAACTATATAATGTATAGTTTATATATACC
49713 ATATAGTTTATATATACTAAT-AAACTATATAATGTATAGTTATATATATACC
1 ATATAGTTTATATATACTAATGAAACTATATAATGTATAGTT-TATATATACC
* *
49765 ATATAGTTTATATATACTAATG-AACTATATATTATATAGTTTATATATAC
1 ATATAGTTTATATATACTAATGAAACTATATAATGTATAGTTTATATATAC
49815 TATAGTATAA
Statistics
Matches: 96, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
51 28 0.29
52 68 0.71
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (52 bp):
ATATAGTTTATATATACTAATGAAACTATATAATGTATAGTTTATATATACC
Found at i:49726 original size:34 final size:34
Alignment explanation
Indices: 49621--49713 Score: 107
Period size: 34 Copynumber: 2.8 Consensus size: 34
49611 TTGTTATACA
* * * * *
49621 ATATACTATATAGGTTAAATATACTAATG-AACT
1 ATATAATATATAGTTTATATATACCAATGAAATT
* *
49654 ATATAATATATTGTTTATATATACTAATGAAATT
1 ATATAATATATAGTTTATATATACCAATGAAATT
*
49688 ATATAATGTATAGTTTATATATACCA
1 ATATAATATATAGTTTATATATACCA
49714 TATAGTTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 25 0.49
34 26 0.51
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (34 bp):
ATATAATATATAGTTTATATATACCAATGAAATT
Found at i:49760 original size:19 final size:20
Alignment explanation
Indices: 49738--49786 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
49728 ACTAATAAAC
49738 TATATAATGTATAG-TTATA
1 TATATAATGTATAGTTTATA
***
49757 TATATACCATATAGTTTATA
1 TATATAATGTATAGTTTATA
49777 TATACTAATG
1 TATA-TAATG
49787 AACTATATAT
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
19 11 0.50
20 9 0.41
21 2 0.09
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (20 bp):
TATATAATGTATAGTTTATA
Found at i:49795 original size:2 final size:2
Alignment explanation
Indices: 49790--50204 Score: 99
Period size: 2 Copynumber: 199.0 Consensus size: 2
49780 ACTAATGAAC
* *
49790 TA TA TA T- TA TA TA GTT TA TA TA TA CTA TA GTA TA AA T- TA T-
1 TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA -TA TA TA TA TA TA
* * * *
49830 TT TA TA TA GTA TA TA AA TA TCA -A CTA TA GTA TA TA GTT TA TA TG
1 TA TA TA TA -TA TA TA TA TA T-A TA -TA TA -TA TA TA -TA TA TA TA
* * *
49874 T- TCA TA TG TA T- TA TA T- TA TA TA GTA TA TA TG TA AA TA TA TA
1 TA T-A TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
*
49915 TA TA TA TA GTA TA TA TA TA TA TA TA TA TA TA GTA TA TA AA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * * * *
49959 AA CTA TA -A TG TG TA GTA TA TA AA TA TA AA CTA TA T- TT TA TA
1 TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * *
50000 -A TA TA GTA TA TC TA TA TA AA TA GTT TA TA TA GT- TCA CTA -A TA
1 TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA -TA T-A -TA TA TA
* * * ** * *
50042 AA CTA TA TA TA TA TA TA AA CTA TT TA TA TA GG TCA TA TG TA AA
1 TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA T-A TA TA TA TA
* * * *
50085 CTA TA TA GTT TA TA TG TA AA CTA TA GT- TA GTA TA TA AA CTA TA
1 -TA TA TA -TA TA TA TA TA TA -TA TA -TA TA -TA TA TA TA -TA TA
* * * *
50128 TA GTT TA TA TG TA AA CTA TA GT- TCA TA TA TA AA TA TCA -A T- TA
1 TA -TA TA TA TA TA TA -TA TA -TA T-A TA TA TA TA TA T-A TA TA TA
50170 TA -A 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
50205 GTTCATATGT
Statistics
Matches: 299, Mismatches: 63, Indels: 102
0.64 0.14 0.22
Matches are distributed among these distances:
1 17 0.06
2 238 0.80
3 43 0.14
4 1 0.00
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (2 bp):
TA
Found at i:49863 original size:27 final size:25
Alignment explanation
Indices: 49832--49993 Score: 98
Period size: 27 Copynumber: 6.0 Consensus size: 25
49822 TAAATTATTT
49832 TATATAGTATATAAATATCAACTATA
1 TATATAGTATATAAATAT-AACTATA
** * *
49858 GTATATAGTTTATATGTTCATATGTATTATA
1 -TATATAG--TATA--TAAATAT-AACTATA
49889 TTATATAGTATATATGTAA-ATATA-TATA
1 -TATATAGTATATA---AATATA-ACTATA
*
49917 TATATAGTATATATATAT-A-TATA
1 TATATAGTATATAAATATAACTATA
49940 TATATAGTATATAAATATAAACTATAA
1 TATATAGTATATAAATAT-AACTAT-A
* *
49967 TGTGTAGTATATAAATATAAACTATA
1 TATATAGTATATAAATAT-AACTATA
49993 T
1 T
49994 TTTATAATAT
Statistics
Matches: 109, Mismatches: 13, Indels: 27
0.73 0.09 0.18
Matches are distributed among these distances:
23 22 0.20
24 1 0.01
25 3 0.03
26 5 0.05
27 45 0.41
28 4 0.04
29 11 0.10
30 1 0.01
31 17 0.16
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (25 bp):
TATATAGTATATAAATATAACTATA
Found at i:49903 original size:23 final size:24
Alignment explanation
Indices: 49877--49952 Score: 102
Period size: 23 Copynumber: 3.1 Consensus size: 24
49867 TTATATGTTC
49877 ATATGTATTATAT-TATATAGTAT
1 ATATGTATTATATATATATAGTAT
49900 ATATGTAAATATATATATATATAGTAT
1 ATATGT--AT-TATATATATATAGTAT
*
49927 ATATATA-TATATATATATAGTAT
1 ATATGTATTATATATATATAGTAT
49950 ATA
1 ATA
49953 AATATAAACT
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
23 25 0.52
25 3 0.06
26 5 0.10
27 15 0.31
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.47
Consensus pattern (24 bp):
ATATGTATTATATATATATAGTAT
Found at i:49932 original size:38 final size:37
Alignment explanation
Indices: 49885--50328 Score: 112
Period size: 41 Copynumber: 11.3 Consensus size: 37
49875 TCATATGTAT
* * *
49885 TATAT-TATATAGTATATATGTA-AATATATATATATA
1 TATATATATATA-TATATATATATAGTATATATATAAA
49921 TAGTATATATATATATATATATATAGTATATAAATATAAA
1 TA-TATATATATATATATATATATAGTATAT--ATATAAA
* * * * * *
49961 CTATAATGTGTAGTATATAAATATAAACTATATTTTATAATA
1 -TAT-ATATATA-TATATATATATATAGTATA-TATATAA-A
* *
50003 TAGTATATCTATATAAATAGTTTATATAGT-TCACTA-ATAAA
1 TA-TATA--TATATATATA-TATATATAGTAT-A-TATATAAA
* * *
50044 CTATATATATATATAAACTATTTATATAGGTCATATGTA-AAC
1 -TATATATATATAT--A-TATATATATA-GT-ATATATATAAA
* *
50086 TATATAGT-T-TATATGTAAACTATAGT-TAGTATATAAA
1 TATATA-TATATATATATATA-TATAGTATA-TATATAAA
* *
50123 CTATATAGT-T-TATATGTAAACTATAGT-TCATATATAAA
1 -TATATA-TATATATATATATA-TATAGTAT-ATATATAAA
*
50161 TATCA-AT-TATA-ATATATATATA-TATATATATATA
1 TAT-ATATATATATATATATATATAGTATATATATAAA
* *
50195 TATATATATAGTTCATATGTAAACTATAGT-TCATATATATAA
1 TATATATATA--T-ATATATATA-TATAGTAT-ATATATA-AA
* * * *
50237 TATATAAATATAAACTATAGTTTATA-TAAATAGTATAAAA
1 TATATATATATATA-TATA-TATATAGTATATA-TAT-AAA
* * *
50277 TATAGTATATAAATATAAATTATAGTATGTAGTTTATATAAA
1 TATA-TATATATATATATA-TATA-TA-GTA-TATATATAAA
*
50319 TATAAATATA
1 TATATATATA
50329 AACCCTAAAC
Statistics
Matches: 309, Mismatches: 47, Indels: 99
0.68 0.10 0.22
Matches are distributed among these distances:
33 1 0.00
34 14 0.05
35 9 0.03
36 12 0.04
37 26 0.08
38 54 0.17
39 18 0.06
40 38 0.12
41 60 0.19
42 55 0.18
43 19 0.06
44 3 0.01
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.43
Consensus pattern (37 bp):
TATATATATATATATATATATATAGTATATATATAAA
Found at i:49957 original size:23 final size:24
Alignment explanation
Indices: 49885--49985 Score: 100
Period size: 23 Copynumber: 4.2 Consensus size: 24
49875 TCATATGTAT
* *
49885 TATATTATATAGTATA-TATGTAAA
1 TATACTATATA-TATAGTATATAAA
*
49909 TATA-TATATATATAGTATATATA
1 TATACTATATATATAGTATATAAA
49932 TATA-TATATATATAGTATATAAA
1 TATACTATATATATAGTATATAAA
* *
49955 TATAAACTATAATGTGTAGTATATAAA
1 TAT--ACTAT-ATATATAGTATATAAA
49982 TATA
1 TATA
49986 AACTATATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
22 4 0.06
23 37 0.55
24 4 0.06
25 2 0.03
26 3 0.04
27 17 0.25
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.44
Consensus pattern (24 bp):
TATACTATATATATAGTATATAAA
Found at i:50068 original size:41 final size:41
Alignment explanation
Indices: 50006--50091 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 41
49996 TATAATATAG
* *
50006 TATATCTATATAAATAGTTTATATAGTTCACTA-ATAAACTA
1 TATATATATATAAATAGTTTATATAGGTCA-TATATAAACTA
*
50047 TATATATATATAAACTA-TTTATATAGGTCATATGTAAACTA
1 TATATATATATAAA-TAGTTTATATAGGTCATATATAAACTA
50088 TATA
1 TATA
50092 GTTTATATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
40 2 0.05
41 36 0.90
42 2 0.05
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (41 bp):
TATATATATATAAATAGTTTATATAGGTCATATATAAACTA
Found at i:50222 original size:20 final size:20
Alignment explanation
Indices: 50025--50242 Score: 121
Period size: 18 Copynumber: 11.3 Consensus size: 20
50015 ATAAATAGTT
50025 TATATAGTTCACTA-ATAAAC
1 TATATAGTTCA-TATATAAAC
50045 TATATA--T-ATATATAAAC
1 TATATAGTTCATATATAAAC
* *
50062 TATTTATATAGGTCATATGTAAAC
1 ----TATATAGTTCATATATAAAC
* *
50086 TATATAGTTTATATGTAAAC
1 TATATAGTTCATATATAAAC
50106 --TATAGTT-AGTATATAAAC
1 TATATAGTTCA-TATATAAAC
* *
50124 TATATAGTTTATATGTAAAC
1 TATATAGTTCATATATAAAC
50144 --TATAGTTCATATATAAA-
1 TATATAGTTCATATATAAAC
* * *
50161 TATCA-ATTATAATATATATA-
1 TAT-ATAGT-TCATATATAAAC
*
50181 TATATA-TAT-ATATATATA-
1 TATATAGT-TCATATATAAAC
*
50199 TATATAGTTCATATGTAAAC
1 TATATAGTTCATATATAAAC
50219 --TATAGTTCATATATATAA-
1 TATATAGTTCATATATA-AAC
50237 TATATA
1 TATATA
50243 AATATAAACT
Statistics
Matches: 162, Mismatches: 13, Indels: 46
0.73 0.06 0.21
Matches are distributed among these distances:
16 2 0.01
17 8 0.05
18 61 0.38
19 17 0.10
20 57 0.35
21 7 0.04
23 1 0.01
24 9 0.06
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (20 bp):
TATATAGTTCATATATAAAC
Found at i:50240 original size:18 final size:17
Alignment explanation
Indices: 50087--50268 Score: 83
Period size: 18 Copynumber: 10.2 Consensus size: 17
50077 TATGTAAACT
* *
50087 ATATAGTTTATATGTAA
1 ATATAGTTCATATATAA
50104 ACTATAGTT-AGTATATAAA
1 A-TATAGTTCA-TATAT-AA
* *
50123 CTATATAGTTTATATGTAA
1 --ATATAGTTCATATATAA
50142 ACTATAGTTCATATATAA
1 A-TATAGTTCATATATAA
*
50160 ATATCAATT-ATAATATATA
1 ATAT-AGTTCAT-ATATA-A
*
50179 TATATA-TATATATATATATA
1 -ATATAGT-T-CATATATA-A
*
50199 TATATAGTTCATATGTAA
1 -ATATAGTTCATATATAA
50217 ACTATAGTTCATATATATA
1 A-TATAGTTCATATATA-A
*
50236 ATATA--T-AAATATAA
1 ATATAGTTCATATATAA
50250 ACTATAGTT--TATATAA
1 A-TATAGTTCATATATAA
50266 ATA
1 ATA
50269 GTATAAAATA
Statistics
Matches: 135, Mismatches: 10, Indels: 42
0.72 0.05 0.22
Matches are distributed among these distances:
14 2 0.01
15 12 0.09
16 8 0.06
17 10 0.07
18 54 0.40
19 15 0.11
20 29 0.21
21 5 0.04
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (17 bp):
ATATAGTTCATATATAA
Found at i:50255 original size:22 final size:22
Alignment explanation
Indices: 50230--50408 Score: 66
Period size: 22 Copynumber: 7.9 Consensus size: 22
50220 ATAGTTCATA
50230 TATATAATATATAAATATAAAC
1 TATATAATATATAAATATAAAC
*
50252 TATAGT-TTATATAAATAGTATAA-
1 TATA-TAATATATAAATA-TA-AAC
* * *
50275 AATATAGTATATAAATATAAAT
1 TATATAATATATAAATATAAAC
* **
50297 TATAGT-ATGTAGTTTATATAAA-
1 TATA-TAATATA-TAAATATAAAC
***
50319 TATA-AATATA-AACCCTAAACC
1 TATATAATATATAAATATAAA-C
50340 ATATATATATTATATATATATATAAAC
1 -TATATA-A-TATATA-A-ATATAAAC
* * *
50367 TATATAGTTTAT-ATTAATAAAC
1 TATATAATATATAAAT-ATAAAC
*
50389 TATATAATTTATACAATATA
1 TATATAATATATA-AATATA
50409 TATTATTTAT
Statistics
Matches: 115, Mismatches: 22, Indels: 39
0.65 0.12 0.22
Matches are distributed among these distances:
19 4 0.03
21 7 0.06
22 49 0.43
23 29 0.25
24 9 0.08
25 4 0.03
26 7 0.06
27 2 0.02
28 4 0.03
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (22 bp):
TATATAATATATAAATATAAAC
Found at i:50263 original size:29 final size:27
Alignment explanation
Indices: 50230--50330 Score: 104
Period size: 29 Copynumber: 3.7 Consensus size: 27
50220 ATAGTTCATA
50230 TATATAATATATAAATATAAACTATAGTT
1 TATATAA-ATATAAATATAAA-TATAGTT
50259 TATATAAATAGT--ATA-AAATATAG--
1 TATATAAATA-TAAATATAAATATAGTT
* *
50282 TATATAAATATAAATTATAGTATGTAGTT
1 TATATAAATATAAA-TATA-AATATAGTT
50311 TATATAAATATAAATATAAA
1 TATATAAATATAAATATAAA
50331 CCCTAAACCA
Statistics
Matches: 61, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
22 1 0.02
23 10 0.16
24 1 0.02
25 7 0.11
26 4 0.07
27 9 0.15
28 7 0.11
29 22 0.36
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.40
Consensus pattern (27 bp):
TATATAAATATAAATATAAATATAGTT
Found at i:50289 original size:23 final size:24
Alignment explanation
Indices: 50245--50291 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
50235 AATATATAAA
*
50245 TATAAACTATAGTTTATATAAATAG
1 TATAAAATATAG-TTATATAAATAG
50270 TATAAAATATAG-TATATAAATA
1 TATAAAATATAGTTATATAAATA
50292 TAAATTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
25 11 0.52
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.38
Consensus pattern (24 bp):
TATAAAATATAGTTATATAAATAG
Found at i:50301 original size:20 final size:20
Alignment explanation
Indices: 50231--50304 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 20
50221 TAGTTCATAT
*
50231 ATATAATATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
50251 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATAT-AA-A-TATAAA
50276 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
50296 TTATAGTAT
1 ATATAGTAT
50305 GTAGTTTATA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
20 18 0.40
21 1 0.02
22 7 0.16
23 7 0.16
24 1 0.02
25 11 0.24
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.39
Consensus pattern (20 bp):
ATATAGTATATAAATATAAA
Found at i:50998 original size:216 final size:215
Alignment explanation
Indices: 50622--51325 Score: 1194
Period size: 216 Copynumber: 3.3 Consensus size: 215
50612 TGATCCCTTT
*
50622 TGTGTTGTTTAATTTATTTTAATTTTTAATTT-TAATTTCATATTTGTTCAATTTAGTCCTCCAA
1 TGTGTTGTTTAATTTATTTAAATTTTT-ATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAA
* * * *
50686 ATTTTATTTGCATATAAAATTGGCCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAG
65 ATTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAA
* *
50751 CTTTTTAAATGAGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCAAAATTTTAAATTATT
130 CTTTTTAAATG-GTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATT
50816 TCGATTTGATCCCTCATCAATG
194 TCGATTTGATCCCTCATCAATG
* *
50838 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCATTTTAGTGCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
50903 TTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAAC
66 TTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAAC
*
50968 TTTTTAAATAGGTATAATTTAGTTCTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTT
131 TTTTTAAAT-GGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTT
51033 CGATTTGATCCCTCATCAATG
195 CGATTTGATCCCTCATCAATG
* *
51054 TGTGTTTTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
* * * * *
51119 TTTTATTTGCATCTGAAATTGATCTATACTTATTACTTAATTCTATTTTTTAATTGACTCATAAC
66 TTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAAC
51184 TTTTTAAATGGATATAATTTAGTACTTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATT
131 TTTTTAAATGG-TATAATTTAGTAC-TTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATT
*
51249 TTGATTTGATCCCTCATCAATG
194 TCGATTTGATCCCTCATCAATG
51271 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
1 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
51326 ATTCTTAAAT
Statistics
Matches: 461, Mismatches: 23, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
215 6 0.01
216 341 0.74
217 114 0.25
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.52
Consensus pattern (215 bp):
TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAA
TTTTATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCCCATAAC
TTTTTAAATGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTC
GATTTGATCCCTCATCAATG
Found at i:54965 original size:15 final size:14
Alignment explanation
Indices: 54945--54975 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
54935 TTGGATCTCA
54945 AAAATTTTAAATTAT
1 AAAATTTTAAA-TAT
54960 AAAATTTTAAATAT
1 AAAATTTTAAATAT
54974 AA
1 AA
54976 TTACTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATTTTAAATAT
Found at i:55133 original size:2 final size:2
Alignment explanation
Indices: 55126--55151 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
55116 ATGGTGAATT
55126 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
55152 ATTGATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:57341 original size:18 final size:19
Alignment explanation
Indices: 57299--57343 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
57289 AATTTTGTTC
57299 TAAAAATGGTTATCTTTTG
1 TAAAAATGGTTATCTTTTG
57318 TAAAAATGGTTATCTTTTG
1 TAAAAATGGTTATCTTTTG
*
57337 GAAAAAT
1 TAAAAAT
57344 CAAAATAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (19 bp):
TAAAAATGGTTATCTTTTG
Found at i:63049 original size:71 final size:71
Alignment explanation
Indices: 62911--63049 Score: 197
Period size: 71 Copynumber: 2.0 Consensus size: 71
62901 TTTGATGCAC
* * * * * * * *
62911 GTAAAATTTTGTTTCTTACTCCTAGACTCTTGAGTATTCAAGTTAGGCTAGTGTATTGTCTTGAG
1 GTAAAATTTCGATTCTTACCCCTAGACTCTTGAGTATTCAAGGTAAGCTAGTATATTGTCCTAAG
62976 ATGTAT
66 ATGTAT
*
62982 GTAAAATTTCGATTCTTACCCCTAGACTCTTGAGTATTCAAGGTAAGCTAGTATATTTTCCTAAG
1 GTAAAATTTCGATTCTTACCCCTAGACTCTTGAGTATTCAAGGTAAGCTAGTATATTGTCCTAAG
63047 ATG
66 ATG
63050 CACATGAGAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 59 1.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (71 bp):
GTAAAATTTCGATTCTTACCCCTAGACTCTTGAGTATTCAAGGTAAGCTAGTATATTGTCCTAAG
ATGTAT
Found at i:65859 original size:23 final size:23
Alignment explanation
Indices: 65822--65866 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
65812 CTAGTTAACG
* * *
65822 GATGATGTGGCAGCTGACGTGGC
1 GATGATATGGAAGCTAACGTGGC
65845 GATGATATGGAAGCTAACGTGG
1 GATGATATGGAAGCTAACGTGG
65867 AGCCCAGTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.24, C:0.13, G:0.40, T:0.22
Consensus pattern (23 bp):
GATGATATGGAAGCTAACGTGGC
Found at i:65894 original size:23 final size:23
Alignment explanation
Indices: 65868--65913 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
65858 CTAACGTGGA
* *
65868 GCCCAGTCAACAGCTTCTAGAAG
1 GCCCAATCAAAAGCTTCTAGAAG
*
65891 GCCCAATCAAAAGCTTCTTGAAG
1 GCCCAATCAAAAGCTTCTAGAAG
65914 ATCAAATCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (23 bp):
GCCCAATCAAAAGCTTCTAGAAG
Found at i:67337 original size:22 final size:22
Alignment explanation
Indices: 67275--67337 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 22
67265 CATCTCTATT
67275 TATAATAGAAAACCCTGGTACA
1 TATAATAGAAAACCCTGGTACA
* * **
67297 TA-ATTACAAAA---T-AAACA
1 TATAATAGAAAACCCTGGTACA
67314 TATAATAGAAAACCCTGGTACA
1 TATAATAGAAAACCCTGGTACA
67336 TA
1 TA
67338 ATTACGTCCT
Statistics
Matches: 28, Mismatches: 8, Indels: 10
0.61 0.17 0.22
Matches are distributed among these distances:
17 5 0.18
18 8 0.29
21 8 0.29
22 7 0.25
ACGTcount: A:0.51, C:0.16, G:0.10, T:0.24
Consensus pattern (22 bp):
TATAATAGAAAACCCTGGTACA
Found at i:67499 original size:34 final size:32
Alignment explanation
Indices: 67455--67612 Score: 105
Period size: 34 Copynumber: 4.8 Consensus size: 32
67445 AATCCAACCA
*
67455 AATATCTTTTAATATTCAAATTTAAACATATAAT
1 AATATATTTTAATATTCAAATTTAAA-ATAT-AT
* *
67489 AATATATTTTAAT-TTGAAATATTTAAAAGATA-
1 AATATATTTTAATATT-CAA-ATTTAAAATATAT
* * *
67521 AATACATCTTTAACTATTCAAACTT-AAATAGAT
1 AATATAT-TTTAA-TATTCAAATTTAAAATATAT
*
67554 -A-ATATTTTAAT-TTGAAATATTCAAAAATATAT
1 AATATATTTTAATATTCAAAT-TT--AAAATATAT
*
67586 AATCATA-TTTAATATTCAAAGTTAAAA
1 AAT-ATATTTTAATATTCAAATTTAAAA
67613 ATGATAACAA
Statistics
Matches: 96, Mismatches: 14, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
28 5 0.05
29 3 0.03
30 5 0.05
31 3 0.03
32 23 0.24
33 12 0.12
34 28 0.29
35 17 0.18
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (32 bp):
AATATATTTTAATATTCAAATTTAAAATATAT
Found at i:67602 original size:63 final size:63
Alignment explanation
Indices: 67492--67611 Score: 172
Period size: 63 Copynumber: 1.9 Consensus size: 63
67482 ATATAATAAT
* *
67492 ATATTTTAATTTGAAATATTTAAAAGATAAATACATCTTTAACTATTCAAACTTAAATAGATA
1 ATATTTTAATTTGAAATATTAAAAAGATAAATACATATTTAACTATTCAAACTTAAATAGATA
* *
67555 ATATTTTAATTTGAAATATTCAAAAATATATAAT-CATATTTAA-TATTCAAAGTTAAA
1 ATATTTTAATTTGAAATATT-AAAAAGATA-AATACATATTTAACTATTCAAACTTAAA
67612 AATGATAACA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
63 33 0.65
64 15 0.29
65 3 0.06
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (63 bp):
ATATTTTAATTTGAAATATTAAAAAGATAAATACATATTTAACTATTCAAACTTAAATAGATA
Found at i:68609 original size:24 final size:25
Alignment explanation
Indices: 68509--68610 Score: 77
Period size: 24 Copynumber: 4.2 Consensus size: 25
68499 ACCCAAAGAT
* *
68509 ACTAATACAAGAGAGC-ACAAATGC
1 ACTAATACTAGAGTGCAACAAATGC
* * * *
68533 ATTATTACTGGAGTGCAAC-AAGGC
1 ACTAATACTAGAGTGCAACAAATGC
* *
68557 ACTAA-AATAAGAGTGCAACAAATGA
1 ACTAATACT-AGAGTGCAACAAATGC
* *
68582 ACTAATACTGGAGTGC-ACGAATGC
1 ACTAATACTAGAGTGCAACAAATGC
68606 ACTAA
1 ACTAA
68611 ACATAATTGA
Statistics
Matches: 58, Mismatches: 16, Indels: 8
0.71 0.20 0.10
Matches are distributed among these distances:
23 2 0.03
24 38 0.66
25 16 0.28
26 2 0.03
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.19
Consensus pattern (25 bp):
ACTAATACTAGAGTGCAACAAATGC
Found at i:76566 original size:20 final size:20
Alignment explanation
Indices: 76537--76592 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
76527 ATACTCATGG
*
76537 GAGTACCGATACTGAGGGT-A
1 GAGTATCGATACTGA-GGTAA
*
76557 GAGTATCGATACTCTAGGTAA
1 GAGTATCGATACT-GAGGTAA
*
76578 GGGTATCGATACTGA
1 GAGTATCGATACTGA
76593 ATTAGACTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.25
Consensus pattern (20 bp):
GAGTATCGATACTGAGGTAA
Found at i:76731 original size:21 final size:20
Alignment explanation
Indices: 76668--76734 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
76658 AGACACTTTT
*
76668 AGTATCGATAC-CAAGGGTG
1 AGTATCGATACTCAAGGGTC
* *
76687 GGTATCAATACTCAAGGGTC
1 AGTATCGATACTCAAGGGTC
* *
76707 AGTATCGATACTGAGGGGCTC
1 AGTATCGATACTCAAGGG-TC
76728 AGTATCG
1 AGTATCG
76735 GTATCAGCTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.23
20 21 0.54
21 9 0.23
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (20 bp):
AGTATCGATACTCAAGGGTC
Found at i:85080 original size:17 final size:17
Alignment explanation
Indices: 85058--85096 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
85048 TATAAATTAT
85058 TCAACTCACAAAAGTGA
1 TCAACTCACAAAAGTGA
85075 TCAACTCACAAAAGTGA
1 TCAACTCACAAAAGTGA
85092 TCAAC
1 TCAAC
85097 ATTATCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.26, G:0.10, T:0.18
Consensus pattern (17 bp):
TCAACTCACAAAAGTGA
Found at i:86476 original size:2 final size:2
Alignment explanation
Indices: 86471--86498 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
86461 ACTCATCCAT
86471 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
86499 AACAAATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:89753 original size:21 final size:21
Alignment explanation
Indices: 89728--89852 Score: 60
Period size: 21 Copynumber: 5.8 Consensus size: 21
89718 GTAATTTGCA
89728 CCGAAGTGCCACATAATTGTC
1 CCGAAGTGCCACATAATTGTC
* *
89749 CCGAA-TGACTACATAGGTT-TGC
1 CCGAAGTG-CCACATA-ATTGT-C
*
89771 ACCGAAGTGCCACATAGGTT-TGC
1 -CCGAAGTGCCACATA-ATTGT-C
* * *
89794 ACAGAAGTGCCAAATATTTGTC
1 -CCGAAGTGCCACATAATTGTC
*
89816 CCGAAG-GACTACATAATTGTC
1 CCGAAGTG-CCACATAATTGTC
* * *
89837 CTGAAATACCACATAA
1 CCGAAGTGCCACATAA
89853 AACCCTCGAC
Statistics
Matches: 82, Mismatches: 14, Indels: 16
0.73 0.12 0.14
Matches are distributed among these distances:
20 3 0.04
21 38 0.46
22 6 0.07
23 33 0.40
24 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (21 bp):
CCGAAGTGCCACATAATTGTC
Found at i:89776 original size:23 final size:23
Alignment explanation
Indices: 89722--89805 Score: 95
Period size: 23 Copynumber: 3.7 Consensus size: 23
89712 CAACTCGTAA
89722 TTTGCACCGAAGTGCCACATA--
1 TTTGCACCGAAGTGCCACATAGG
* *
89743 ATTGTC-CCGAA-TGACTACATAGG
1 TTTG-CACCGAAGTG-CCACATAGG
89766 TTTGCACCGAAGTGCCACATAGG
1 TTTGCACCGAAGTGCCACATAGG
*
89789 TTTGCACAGAAGTGCCA
1 TTTGCACCGAAGTGCCA
89806 AATATTTGTC
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
20 2 0.04
21 14 0.27
22 2 0.04
23 32 0.62
24 2 0.04
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (23 bp):
TTTGCACCGAAGTGCCACATAGG
Found at i:96576 original size:21 final size:23
Alignment explanation
Indices: 96478--96577 Score: 72
Period size: 23 Copynumber: 4.6 Consensus size: 23
96468 CATCTCGTAA
96478 TTTG-CACCGAAGTGCCACATA-
1 TTTGTCACCGAAGTGCCACATAG
*
96499 ATTGTC-CCGAAG-GACCACATAGG
1 TTTGTCACCGAAGTG-CCACATA-G
* *
96522 TTTG-CACCAAAGTGCCACACAGG
1 TTTGTCACCGAAGTGCCACATA-G
* *
96545 TTT-ACATCGAAGTGCCACATA-
1 TTTGTCACCGAAGTGCCACATAG
96566 TTTGTC-CCGAAG
1 TTTGTCACCGAAG
96578 GACTACGTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
20 1 0.02
21 24 0.39
22 3 0.05
23 33 0.53
24 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (23 bp):
TTTGTCACCGAAGTGCCACATAG
Found at i:98946 original size:95 final size:95
Alignment explanation
Indices: 98783--99464 Score: 827
Period size: 95 Copynumber: 7.2 Consensus size: 95
98773 AGGGAGAATA
* ** * * *
98783 AGTTCGTAATGAGAAGAACTTGTTCAACCTTTGCTCGATTCACGGTATTTTGAATCAGTGATGCC
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTTGCTCGATTCACGACATTTCGAATCAATGACGCC
98848 TCACTTGAGGGATTAACATTTCCAATGGAG
66 TCACTTGAGGGATTAACATTTCCAATGGAG
* * * * * *
98878 AGTTCATAATAAGAAGAACATGGTCAACCTTTTCTCGATTCATGACATTTCGAATCAATGATGCC
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTTGCTCGATTCACGACATTTCGAATCAATGACGCC
* *
98943 TCACTTGAGGGATTAACATTTTCAATTGAG
66 TCACTTGAGGGATTAACATTTCCAATGGAG
* * * * ** *
98973 AGTTCAGAATGAGAAGAACTTGTTTAACCTTTGCTCGATTCAAGACATTTTGAATCAGCGATGCC
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTTGCTCGATTCACGACATTTCGAATCAATGACGCC
* *
99038 TCACTTGAGGGATTAACATTTCCAGTGAAG
66 TCACTTGAGGGATTAACATTTCCAATGGAG
* * * * ** *
99068 AATTCATAATGAGAAGAACTTGTTCAACCTTTGATCAATTCATGACATTTCGAATCAGCGACACC
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTTGCTCGATTCACGACATTTCGAATCAATGACGCC
* *
99133 TTACTTGAGGGATTAACATTTCCAATTGAG
66 TCACTTGAGGGATTAACATTTCCAATGGAG
* * * * *
99163 AGTTCATAAT--G-AGAACGTT-TTCAACCTTTGATCAATTCACAACATTTTGAATCAACGACGC
1 AGTTCATAATGAGAAGAAC-TTGTTCAACCTTTGCTCGATTCACGACATTTCGAATCAATGACGC
*
99224 CTCATTTGAGGGATTAACATTTCCAATGGAG
65 CTCACTTGAGGGATTAACATTTCCAATGGAG
* * * * * *
99255 AGTTCATAATAAGAATAACATGTTCAACCTTTGCTCGATTCATGGCTTTTCGAATCAATGACGCC
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTTGCTCGATTCACGACATTTCGAATCAATGACGCC
*
99320 TCACTTGAGGGATTAACATTTCCAATGGAT
66 TCACTTGAGGGATTAACATTTCCAATGGAG
* * *
99350 AGTTTATAATGAGAAGAACTTGTTCAACCTTTGCTCGATTCACAACATTTCGAATCAGCT-ACGC
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTTGCTCGATTCACGACATTTCGAATCA-ATGACGC
* * *
99414 CTCACTTAAGGGATTAGCATTT-CAAGTAGAG
65 CTCACTTGAGGGATTAACATTTCCAA-TGGAG
*
99445 AGCTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
99465 CGCATCTTGA
Statistics
Matches: 505, Mismatches: 75, Indels: 14
0.85 0.13 0.02
Matches are distributed among these distances:
92 80 0.16
93 3 0.01
94 5 0.01
95 416 0.82
96 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (95 bp):
AGTTCATAATGAGAAGAACTTGTTCAACCTTTGCTCGATTCACGACATTTCGAATCAATGACGCC
TCACTTGAGGGATTAACATTTCCAATGGAG
Found at i:99669 original size:24 final size:24
Alignment explanation
Indices: 99637--99683 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
99627 AACTAGGCCT
* *
99637 AAACTAAACCCTATTTTAACACCC
1 AAACCAAACCCTATTATAACACCC
99661 AAACCAAACCCTATTATAACACC
1 AAACCAAACCCTATTATAACACC
99684 AAGCCAGGCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (24 bp):
AAACCAAACCCTATTATAACACCC
Found at i:104697 original size:3 final size:3
Alignment explanation
Indices: 104691--104758 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
104681 TTTATTTTTT
* * * *
104691 TAA TAA TAC TAA TATA TATA TAA TAA TTA TAA TAA TAA TAA TTA TGA
1 TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
104738 TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
104759 AATGGGTAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 48 0.87
4 7 0.13
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:105243 original size:114 final size:113
Alignment explanation
Indices: 104996--105583 Score: 840
Period size: 114 Copynumber: 5.2 Consensus size: 113
104986 TTAAATAAGC
*
104996 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT-G
1 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTAG
* * * * * *
105060 TAAAGGTTGATCCATCAAGTGATGAATTTGAACAAAAGGTTAAACAAGT
66 -AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
*
105109 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTA
1 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAAC-TTTATCTA
105174 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
65 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
* * * ** * *
105223 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCGAACTGG
1 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTAG
*
105288 AAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
66 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
*
105336 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTA
1 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAAC-TTTATCTA
* *
105401 GAAAATCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTAAACAAAT
65 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
* * * * ** * *
105450 TCTTCTCATTATGAACTTCTGCTTCCTTCTTCAGATGAGTTCTTTTCATTATGAACTCGAACTGG
1 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTAG
* * *
105515 AAAAGCTGATCCATCAAATGA-GGATTTAAGCAAAA-GTTGAACAAGT
66 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
*
105561 TCTTCTTATTATGAACTTTCTTC
1 TCTTCTCATTATGAAC-TTCTTC
105584 AGATGAGTTC
Statistics
Matches: 428, Mismatches: 43, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
111 24 0.06
112 18 0.04
113 183 0.43
114 202 0.47
115 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTATCTAG
AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
Found at i:105307 original size:227 final size:227
Alignment explanation
Indices: 104996--105759 Score: 1119
Period size: 227 Copynumber: 3.4 Consensus size: 227
104986 TTAAATAAGC
* * **** *
104996 TCTTCTCATTATGAACTTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGT
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
* * * *
105061 AAAGGTTGATCCATCAAGTGATGAATTTGAACAAAAGGTTAAACAAGTTCTTCTCATTATGAACT
66 AAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACT
105126 TCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTAGAAAAGCTGATCCATCA
131 TCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTAGAAAAGCTGATCCATCA
105191 AGTGATGGATTTGAGCAAAAGGTTGAACAAAT
196 AGTGATGGATTTGAGCAAAAGGTTGAACAAAT
*
105223 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCGAACTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
* * *
105288 AAAAGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACT
66 AAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACT
*
105353 TCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTAGAAAATCTGATCCATCA
131 TCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTAGAAAAGCTGATCCATCA
*
105418 AGTGATGGATTTGAGCAAAAGGTTAAACAAAT
196 AGTGATGGATTTGAGCAAAAGGTTGAACAAAT
* *
105450 TCTTCTCATTATGAACTTCTGCTTCCTTCTTCAGATGAGTTCTTTTCATTATGAACTCGAACTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
* *
105515 AAAAGCTGATCCATCAAATGA-GGATTT-AAGCAAAA-GTTGAACAAGTTCTTCTTATTATGAA-
66 AAAAGCTGATCCATCAAGTGATGGATTTGAA-CAAAAGGTTGAACAAGTTCTTCTCATTATGAAC
* ** * *
105576 -----C-TT-T-CTTCAGATGAGTTCTT-TCATTATGAAC-TCTACCTGGCAAAGCTGATCCATT
130 TTCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTAGAAAAGCTGATCCA-T
*
105631 GAA-TGATGGATTTGAGCAAAAGGTTGAACAAAT
194 CAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
* *
105664 TCTTCTTATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
*
105729 AAAAGCTGATCCATTGAA-TGATGGATTTGAA
66 AAAAGCTGATCCA-TCAAGTGATGGATTTGAA
105760 TTTTTGCTAA
Statistics
Matches: 496, Mismatches: 36, Indels: 21
0.90 0.07 0.04
Matches are distributed among these distances:
214 122 0.25
215 23 0.05
216 18 0.04
217 1 0.00
218 2 0.00
219 1 0.00
225 25 0.05
226 11 0.02
227 293 0.59
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (227 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
AAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACT
TCTTCTTTCTCCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTAGAAAAGCTGATCCATCA
AGTGATGGATTTGAGCAAAAGGTTGAACAAAT
Found at i:105644 original size:214 final size:217
Alignment explanation
Indices: 105364--105756 Score: 623
Period size: 214 Copynumber: 1.8 Consensus size: 217
105354 CTTCTTTCTC
* ** *
105364 CTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTAGAAAATCTGATCCATCAAGTGATGGATT
1 CTTCAGATGAGTTCTTCTCATTATGAACTTCTACCTAGAAAAGCTGATCCATCAAGTGATGGATT
105429 TGAGCAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTGCTTCCTTCTTCAGATGAGTTCTT
66 TGAGCAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTGCTTCCTTCTTCAGATGAGTTCTT
*
105494 TTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGA-GGATTTAAGCAAAAGTTGAACA
131 CTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAGTTGAACA
105558 AGTTCTTCTTATTATGAACTTT
196 AGTTCTTCTTATTATGAACTTT
* * *
105580 CTTCAGATGAGTTCTT-TCATTATGAAC-TCTACCTGGCAAAGCTGATCCATTGAA-TGATGGAT
1 CTTCAGATGAGTTCTTCTCATTATGAACTTCTACCTAGAAAAGCTGATCCA-TCAAGTGATGGAT
* * * *
105642 TTGAGCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCT
65 TTGAGCAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTGCTTCCTTCTTCAGATGAGTTCT
**
105707 TCTCATTATGAACTCGAACTGGAAAAGCTGATCCATTGAATGATGGATTT
130 TCTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGATGGATTT
105757 GAATTTTTGC
Statistics
Matches: 161, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
214 125 0.78
215 20 0.12
216 16 0.10
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (217 bp):
CTTCAGATGAGTTCTTCTCATTATGAACTTCTACCTAGAAAAGCTGATCCATCAAGTGATGGATT
TGAGCAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTGCTTCCTTCTTCAGATGAGTTCTT
CTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAGTTGAACA
AGTTCTTCTTATTATGAACTTT
Found at i:105652 original size:102 final size:103
Alignment explanation
Indices: 105476--105756 Score: 359
Period size: 113 Copynumber: 2.6 Consensus size: 103
105466 TTCTGCTTCC
105476 TTCTTCAGATGAGTTCTTTTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGAGGATT
1 TTCTTCAGATGAGTTCTTTTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGAGGATT
*
105541 TAAGCAAAA-GTTGAACAAGTTCTTCTTATTATGAACT
66 TAAGCAAAAGGTTGAACAAATTCTTCTTATTATGAACT
* * * **
105578 TTCTTCAGATGAGTTC-TTTCATTATGAACTCTACCTGGCAAAGCTGATCCATTGAATGATGGAT
1 TTCTTCAGATGAGTTCTTTTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGA-GGAT
*
105642 TTGAGCAAAAGGTTGAACAAATTCTTCTTATTATGAACTTTTTCTT
65 TTAAGCAAAAGGTTGAACAAATTCTTCTTATTATGAA------C-T
* **
105688 CCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAAAGCTGATCCATTGAATGATGG
1 --TTCTTCAGATGAGTTCTTTTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGA-GG
105753 ATTT
63 ATTT
105757 GAATTTTTGC
Statistics
Matches: 156, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
101 38 0.24
102 29 0.19
103 25 0.16
109 1 0.01
110 1 0.01
112 16 0.10
113 46 0.29
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (103 bp):
TTCTTCAGATGAGTTCTTTTCATTATGAACTCGAACTGGAAAAGCTGATCCATCAAATGAGGATT
TAAGCAAAAGGTTGAACAAATTCTTCTTATTATGAACT
Found at i:106587 original size:92 final size:92
Alignment explanation
Indices: 106483--106719 Score: 438
Period size: 92 Copynumber: 2.6 Consensus size: 92
106473 GGTTTTATAT
*
106483 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
*
106548 TTCAATAACTGGTTTTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
* *
106575 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGGTGCTATGAGCATATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
106640 TTCAATAACTGGTTCTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
106667 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
106720 GGCATTTGTT
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 139 1.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.25
Consensus pattern (92 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAA
TTCAATAACTGGTTCTGTGGTTCATAC
Found at i:108075 original size:8 final size:8
Alignment explanation
Indices: 108062--108112 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
108052 CCTTGACCCC
108062 CTTTTTTT
1 CTTTTTTT
108070 CTTTTTTT
1 CTTTTTTT
108078 CTTTTTTT
1 CTTTTTTT
108086 -TCTTTTTT
1 CT-TTTTTT
*
108094 -TTCTTTT
1 CTTTTTTT
*
108101 CTTTTTCT
1 CTTTTTTT
108109 CTTT
1 CTTT
108113 AAGCATAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
7 6 0.16
8 32 0.84
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
CTTTTTTT
Found at i:108075 original size:9 final size:9
Alignment explanation
Indices: 108063--108105 Score: 70
Period size: 9 Copynumber: 4.8 Consensus size: 9
108053 CTTGACCCCC
108063 TTTTTTTC-
1 TTTTTTTCT
108071 TTTTTTTCT
1 TTTTTTTCT
108080 TTTTTTTCT
1 TTTTTTTCT
108089 TTTTTTTCT
1 TTTTTTTCT
108098 TTTCTTTT
1 TTT-TTTT
108106 TCTCTTTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 8 0.24
9 21 0.64
10 4 0.12
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:115396 original size:15 final size:15
Alignment explanation
Indices: 115373--115404 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
115363 TGAAATGAAT
115373 AATGAATGTATGTAA
1 AATGAATGTATGTAA
*
115388 AATGCATGTATGTAA
1 AATGAATGTATGTAA
115403 AA
1 AA
115405 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (15 bp):
AATGAATGTATGTAA
Found at i:118175 original size:9 final size:9
Alignment explanation
Indices: 118161--118185 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
118151 TAAACATGCT
118161 TTTAAATAA
1 TTTAAATAA
118170 TTTAAATAA
1 TTTAAATAA
118179 TTTAAAT
1 TTTAAAT
118186 TCACATGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTTAAATAA
Found at i:119420 original size:12 final size:13
Alignment explanation
Indices: 119396--119437 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
119386 CCTTTTCTTC
119396 AATATTGAAAATA
1 AATATTGAAAATA
119409 AATATT-AAAATA
1 AATATTGAAAATA
*
119421 ATTTATTGAAAA-A
1 A-ATATTGAAAATA
119434 AATA
1 AATA
119438 AATAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 9 0.36
13 12 0.48
14 4 0.16
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (13 bp):
AATATTGAAAATA
Found at i:120821 original size:3 final size:3
Alignment explanation
Indices: 120813--120843 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
120803 CCTGTTTGTA
120813 ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
120844 TTTTAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:120835 original size:13 final size:13
Alignment explanation
Indices: 120813--120844 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
120803 CCTGTTTGTA
120813 ATTA-TTATTATT
1 ATTATTTATTATT
120825 ATTATTTATTATT
1 ATTATTTATTATT
120838 ATTATTT
1 ATTATTT
120845 TTTAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTATTTATTATT
Found at i:120835 original size:16 final size:16
Alignment explanation
Indices: 120814--120848 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
120804 CTGTTTGTAA
120814 TTATTATTATTATTAT
1 TTATTATTATTATTAT
*
120830 TTATTATTATTATTTT
1 TTATTATTATTATTAT
120846 TTA
1 TTA
120849 ATAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTATTATTATTAT
Found at i:120853 original size:3 final size:3
Alignment explanation
Indices: 120847--120922 Score: 73
Period size: 3 Copynumber: 25.0 Consensus size: 3
120837 TATTATTTTT
* *
120847 TAA TAA TAA TAA T-A TATA TATA TAA TAA TTA TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
120893 TTA TTA TGA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
120923 AATGGGTAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
2 2 0.03
3 55 0.86
4 7 0.11
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:122021 original size:21 final size:21
Alignment explanation
Indices: 121982--122022 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
121972 CGGTAAAAAT
* * *
121982 TACCTAAGACATTATTATTTC
1 TACCTAAAACATCAATATTTC
122003 TACCTAAAACATCAATATTT
1 TACCTAAAACATCAATATTT
122023 TTTAATATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (21 bp):
TACCTAAAACATCAATATTTC
Found at i:126164 original size:15 final size:14
Alignment explanation
Indices: 126128--126166 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
126118 TAAACACATA
126128 ATTTTAAATTTTTT
1 ATTTTAAATTTTTT
126142 ATTTTAAATATTTTT
1 ATTTTAAAT-TTTTT
126157 -TTTATAAATT
1 ATTT-TAAATT
126167 ATCAGAGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTAAATTTTTT
Done.