Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01005503.1 Kokia drynarioides strain JFW-HI SEQ_119567, 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: 294659
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 34 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:752 original size:21 final size:19
Alignment explanation
Indices: 728--772 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
718 CAATAAGGAC
*
728 TTCCTCCTCTCTAACAGTAAG
1 TTCCTCC-CTC-AACAGCAAG
749 TTCCT-CCTCAACAGCAAG
1 TTCCTCCCTCAACAGCAAG
767 TTCCTC
1 TTCCTC
773 TTGACCAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 13 0.59
19 3 0.14
20 1 0.05
21 5 0.23
ACGTcount: A:0.22, C:0.38, G:0.09, T:0.31
Consensus pattern (19 bp):
TTCCTCCCTCAACAGCAAG
Found at i:1699 original size:26 final size:27
Alignment explanation
Indices: 1647--1699 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
1637 ACAGGTCTCT
*
1647 TTTGTCGTCTGTGATATCCTCAATGAA
1 TTTGTCGTCTATGATATCCTCAATGAA
1674 TTTGTCGTCTATGAT-TCCTCAATGAA
1 TTTGTCGTCTATGATATCCTCAATGAA
1700 CTCAGAGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.42
Consensus pattern (27 bp):
TTTGTCGTCTATGATATCCTCAATGAA
Found at i:7892 original size:19 final size:19
Alignment explanation
Indices: 7868--7906 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
7858 TTAACTTATC
7868 CTTCAATTAGCATTTAATG
1 CTTCAATTAGCATTTAATG
7887 CTTCAATTAGCATTTAATG
1 CTTCAATTAGCATTTAATG
7906 C
1 C
7907 ATTTAATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (19 bp):
CTTCAATTAGCATTTAATG
Found at i:17585 original size:30 final size:30
Alignment explanation
Indices: 17510--17643 Score: 121
Period size: 30 Copynumber: 4.4 Consensus size: 30
17500 ATTAAAATTA
* **
17510 ATCACATTAATATTAAATT-AATAAAATATT
1 ATCATATTAATATTAAATTAAATTTAATA-T
* * *
17540 ATCTAGATAAATATTAAATTAAATTTGATAT
1 ATC-ATATTAATATTAAATTAAATTTAATAT
*
17571 ATCATATTAATATTAAATT-AA-TAAATACT
1 ATCATATTAATATTAAATTAAATTTAATA-T
* *
17600 ATCTAGATAAATATTAAATTAAATTTAATAT
1 ATC-ATATTAATATTAAATTAAATTTAATAT
*
17631 TTCATATTAATAT
1 ATCATATTAATAT
17644 CTAGATAAAT
Statistics
Matches: 83, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
28 4 0.05
29 6 0.07
30 39 0.47
31 23 0.28
32 11 0.13
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (30 bp):
ATCATATTAATATTAAATTAAATTTAATAT
Found at i:17613 original size:60 final size:61
Alignment explanation
Indices: 17510--17643 Score: 225
Period size: 60 Copynumber: 2.2 Consensus size: 61
17500 ATTAAAATTA
* * *
17510 ATCACATTAATATTAAATTAATAAAATATTATCTAGATAAATATTAAATTAAATTTGATAT
1 ATCATATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATAT
17571 ATCATATTAATATTAAATTAAT-AAATACTATCTAGATAAATATTAAATTAAATTTAATAT
1 ATCATATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATAT
*
17631 TTCATATTAATAT
1 ATCATATTAATAT
17644 CTAGATAAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
60 48 0.70
61 21 0.30
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (61 bp):
ATCATATTAATATTAAATTAATAAAATACTATCTAGATAAATATTAAATTAAATTTAATAT
Found at i:20934 original size:26 final size:26
Alignment explanation
Indices: 20905--20967 Score: 92
Period size: 25 Copynumber: 2.5 Consensus size: 26
20895 ATAGAGTTTA
* *
20905 GCTCTTACGAGCCCAGACGGAATATC
1 GCTCTTACGAGCCCAAACAGAATATC
*
20931 GCTCTTACGAG-CCAAACAGAATATT
1 GCTCTTACGAGCCCAAACAGAATATC
20956 GCTCTTACGAGC
1 GCTCTTACGAGC
20968 TAGAGTTCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 22 0.67
26 11 0.33
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (26 bp):
GCTCTTACGAGCCCAAACAGAATATC
Found at i:22534 original size:13 final size:13
Alignment explanation
Indices: 22516--22540 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22506 AATAAGACTC
22516 TAAAAATATTTAA
1 TAAAAATATTTAA
22529 TAAAAATATTTA
1 TAAAAATATTTA
22541 CCGTCCTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAAAAATATTTAA
Found at i:24850 original size:22 final size:22
Alignment explanation
Indices: 24810--24854 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
24800 TCATATTATT
24810 TTTTATTTTTTTTAAAATATTTA
1 TTTTATTTTTTTT-AAATATTTA
24833 TTTTATTTTATTTT-AATATTTA
1 TTTTATTTT-TTTTAAATATTTA
24855 ATAATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.38
23 9 0.43
24 4 0.19
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTATTTTTTTTAAATATTTA
Found at i:25194 original size:21 final size:21
Alignment explanation
Indices: 25170--25220 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
25160 ATAATAGCAT
25170 AATCCAAATATAAAATTTAAA
1 AATCCAAATATAAAATTTAAA
* * * *
25191 AATCTAAACATAAAGTTTATA
1 AATCCAAATATAAAATTTAAA
25212 AATCCAAAT
1 AATCCAAAT
25221 TACATAATAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (21 bp):
AATCCAAATATAAAATTTAAA
Found at i:25552 original size:38 final size:38
Alignment explanation
Indices: 25501--25596 Score: 192
Period size: 38 Copynumber: 2.5 Consensus size: 38
25491 TTTCTGTTTT
25501 ATATAGTTCAGGAGAAATATTTTAGATTATTTATATGC
1 ATATAGTTCAGGAGAAATATTTTAGATTATTTATATGC
25539 ATATAGTTCAGGAGAAATATTTTAGATTATTTATATGC
1 ATATAGTTCAGGAGAAATATTTTAGATTATTTATATGC
25577 ATATAGTTCAGGAGAAATAT
1 ATATAGTTCAGGAGAAATAT
25597 CTACAACATT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.39, C:0.05, G:0.17, T:0.40
Consensus pattern (38 bp):
ATATAGTTCAGGAGAAATATTTTAGATTATTTATATGC
Found at i:26605 original size:117 final size:117
Alignment explanation
Indices: 26399--26631 Score: 448
Period size: 117 Copynumber: 2.0 Consensus size: 117
26389 CAATTAACAT
26399 CATTATGGCTCAACTACCTTGCATTCATTGCCGATATCAGTACTATAGTTCCTCTCTTCATTAAG
1 CATTATGGCTCAACTACCTTGCATTCATTGCCGATATCAGTACTATAGTTCCTCTCTTCATTAAG
*
26464 GAATTCTTCCATATAAAGGAAAGTTTTGAAGCTTTAATTTTTTATCTGAGAC
66 GAATTCTTCCATATAAAGGAAAGTTTTGAAGCATTAATTTTTTATCTGAGAC
*
26516 CATTATGGCTCAACTAGCTTGCATTCATTGCCGATATCAGTACTATAGTTCCTCTCTTCATTAAG
1 CATTATGGCTCAACTACCTTGCATTCATTGCCGATATCAGTACTATAGTTCCTCTCTTCATTAAG
26581 GAATTCTTCCATATAAAGGAAAGTTTTGAAGCATTAATTTTTTATCTGAGA
66 GAATTCTTCCATATAAAGGAAAGTTTTGAAGCATTAATTTTTTATCTGAGA
26632 TCTTTGTTTT
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 114 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (117 bp):
CATTATGGCTCAACTACCTTGCATTCATTGCCGATATCAGTACTATAGTTCCTCTCTTCATTAAG
GAATTCTTCCATATAAAGGAAAGTTTTGAAGCATTAATTTTTTATCTGAGAC
Found at i:28207 original size:18 final size:18
Alignment explanation
Indices: 28168--28209 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
28158 GAAATAGTTA
28168 CTTAAAAATGCAATATTT
1 CTTAAAAATGCAATATTT
*
28186 -TTAAAAAT-TAAGTATTT
1 CTTAAAAATGCAA-TATTT
28203 CTTAAAA
1 CTTAAAA
28210 CATGAAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 2 0.10
17 13 0.62
18 6 0.29
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (18 bp):
CTTAAAAATGCAATATTT
Found at i:28771 original size:20 final size:20
Alignment explanation
Indices: 28735--28793 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
28725 ATAAAAAAAA
*
28735 TAAAATATTCT-TTAAAATTT
1 TAAAATATT-TATAAAAATTT
28755 TAAAATATTTATAAAAATTT
1 TAAAATATTTATAAAAATTT
***
28775 CCCAATATTTTATAAAAAT
1 TAAAATA-TTTATAAAAAT
28794 GAAAATCTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.03
20 21 0.64
21 11 0.33
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAAATATTTATAAAAATTT
Found at i:31153 original size:46 final size:46
Alignment explanation
Indices: 31061--31153 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 46
31051 CAGGGCTTAA
* * * *
31061 TATTCTTGTATTCTCGAGTCTGCAACATATGCAGGAGTTTAGAACC
1 TATTCTTGTATTCTCAAGCCTGCAACATATGCAGAAGTTGAGAACC
31107 TATTCTTGTATTCTCAAGCCTGCAACATATGCAGAAGCTTGA-AACC
1 TATTCTTGTATTCTCAAGCCTGCAACATATGCAGAAG-TTGAGAACC
31153 T
1 T
31154 TGAAAAAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 39 0.93
47 3 0.07
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (46 bp):
TATTCTTGTATTCTCAAGCCTGCAACATATGCAGAAGTTGAGAACC
Found at i:33146 original size:21 final size:21
Alignment explanation
Indices: 33120--33207 Score: 104
Period size: 21 Copynumber: 4.2 Consensus size: 21
33110 TAAATATATA
*
33120 TACCTTAACAATCGAGTTACC
1 TACCTTTACAATCGAGTTACC
* * *
33141 TACCTTTACAATTGATTTATC
1 TACCTTTACAATCGAGTTACC
*
33162 TACCTTTACAATCTAGTTACC
1 TACCTTTACAATCGAGTTACC
* * *
33183 TAACTTTACAATCGATTTATC
1 TACCTTTACAATCGAGTTACC
33204 TACC
1 TACC
33208 CAATTTTTAC
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.39
Consensus pattern (21 bp):
TACCTTTACAATCGAGTTACC
Found at i:33180 original size:42 final size:42
Alignment explanation
Indices: 33120--33207 Score: 140
Period size: 42 Copynumber: 2.1 Consensus size: 42
33110 TAAATATATA
* *
33120 TACCTTAACAATCGAGTTACCTACCTTTACAATTGATTTATC
1 TACCTTAACAATCGAGTTACCTAACTTTACAATCGATTTATC
* *
33162 TACCTTTACAATCTAGTTACCTAACTTTACAATCGATTTATC
1 TACCTTAACAATCGAGTTACCTAACTTTACAATCGATTTATC
33204 TACC
1 TACC
33208 CAATTTTTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.39
Consensus pattern (42 bp):
TACCTTAACAATCGAGTTACCTAACTTTACAATCGATTTATC
Found at i:36162 original size:17 final size:18
Alignment explanation
Indices: 36142--36184 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
36132 TATATTTATG
*
36142 AAAAAAATACTTT-TAAA
1 AAAAAAATAATTTGTAAA
36159 AAAATAAATAATTTGTAAA
1 AAAA-AAATAATTTGTAAA
36178 AATAAAA
1 AA-AAAA
36185 GAAATTAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.18
18 8 0.36
19 8 0.36
20 2 0.09
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAAAAATAATTTGTAAA
Found at i:36198 original size:27 final size:26
Alignment explanation
Indices: 36155--36210 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
36145 AAAATACTTT
* *
36155 TAAAAAAATAAATAATTTGTAAAA-A
1 TAAAAAAATAAACAATTTATAAAATA
36180 TAAAAGAAATTAAACAATTTATAAAATA
1 TAAAA-AAA-TAAACAATTTATAAAATA
36208 TAA
1 TAA
36211 TAATGCATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 5 0.19
26 3 0.12
27 14 0.54
28 4 0.15
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (26 bp):
TAAAAAAATAAACAATTTATAAAATA
Found at i:50441 original size:4 final size:4
Alignment explanation
Indices: 50432--50483 Score: 61
Period size: 4 Copynumber: 12.8 Consensus size: 4
50422 AGAAGAAAAG
* *
50432 GAAA GAAA GAAA TAAA TGAGAA G-GA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA -GA-AA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
50481 GAA
1 GAA
50484 GAAGGAGAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 2 0.05
4 35 0.85
5 2 0.05
6 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (4 bp):
GAAA
Found at i:50770 original size:25 final size:24
Alignment explanation
Indices: 50739--50793 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
50729 TTATTATAAG
*
50739 TTATTTGTTTTGTTTAATT-TAATTT
1 TTATTTGGTTTG-TT-ATTATAATTT
*
50764 TTATTTGGTTTGTTATTATTATTT
1 TTATTTGGTTTGTTATTATAATTT
50788 TTATTT
1 TTATTT
50794 AGTAGAGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 3 0.11
24 13 0.48
25 11 0.41
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (24 bp):
TTATTTGGTTTGTTATTATAATTT
Found at i:52468 original size:14 final size:14
Alignment explanation
Indices: 52443--52485 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
52433 GGTTTTAATG
* *
52443 GTTTATGATTTATA
1 GTTTAAGATTTAGA
* *
52457 GTTTAAGGTTTAGG
1 GTTTAAGATTTAGA
52471 GTTTAAGATTTAGA
1 GTTTAAGATTTAGA
52485 G
1 G
52486 GTATAAAACC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.47
Consensus pattern (14 bp):
GTTTAAGATTTAGA
Found at i:55487 original size:16 final size:17
Alignment explanation
Indices: 55446--55487 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
55436 ATCTTTTTAT
* *
55446 TTTTCTCCTTCTCCTGC
1 TTTTCTTCTTCTACTGC
55463 TTTTC-TCTTCTACTG-
1 TTTTCTTCTTCTACTGC
55478 TTTTCTTCTT
1 TTTTCTTCTT
55488 GTTTTCCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 5 0.23
16 12 0.55
17 5 0.23
ACGTcount: A:0.02, C:0.31, G:0.05, T:0.62
Consensus pattern (17 bp):
TTTTCTTCTTCTACTGC
Found at i:56717 original size:41 final size:40
Alignment explanation
Indices: 56672--56751 Score: 101
Period size: 39 Copynumber: 2.0 Consensus size: 40
56662 TCAAAATAAC
56672 ATAAAAAAAAATTTCTATATTTTTTAT-ATTTATAA-ATTTTA
1 ATAAAAAAAAATTT-TA-ATTTTTTATCATTT-TAATATTTTA
* *
56713 ATAAAAATATATTTTAATTTTTTATCATTTTAATATTTT
1 ATAAAAAAAAATTTTAATTTTTTATCATTTTAATATTTT
56752 TTAGAGTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
39 12 0.34
40 11 0.31
41 12 0.34
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (40 bp):
ATAAAAAAAAATTTTAATTTTTTATCATTTTAATATTTTA
Found at i:57345 original size:22 final size:22
Alignment explanation
Indices: 57286--57357 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
57276 TTTATCTTAT
* * *
57286 TTTTTTATATAATTTCTATATC
1 TTTTTTATATAATTTTTAAATA
* * *
57308 TTTTTTTTGTAGTTTTTAAATA
1 TTTTTTATATAATTTTTAAATA
*
57330 TTTTTTCTATAATTTTTATAATA
1 TTTTTTATATAATTTTTA-AATA
*
57353 ATTTT
1 TTTTT
57358 ACTTTTCTTT
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 31 0.79
23 8 0.21
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.67
Consensus pattern (22 bp):
TTTTTTATATAATTTTTAAATA
Found at i:60255 original size:20 final size:20
Alignment explanation
Indices: 60230--60280 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 20
60220 CATAAACAAC
60230 TACATTCACATACCAAATTA
1 TACATTCACATACCAAATTA
*
60250 TACATT-A-AT-CCAATTTA
1 TACATTCACATACCAAATTA
*
60267 TATA-TCACATACCA
1 TACATTCACATACCA
60281 TATGCAAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
16 1 0.04
17 11 0.42
18 4 0.15
19 4 0.15
20 6 0.23
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (20 bp):
TACATTCACATACCAAATTA
Found at i:61611 original size:80 final size:80
Alignment explanation
Indices: 61473--61623 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
61463 ATAATTTTCG
* * * * *
61473 TCAATTCATGGCACTCGGAGCCTAGCAGTTAAATCGCGATATATGAGCCCAACACTAGTTGGAAT
1 TCAATTCATGGCACCCAGAGCCTAGCAGATAAACCACGATATATGAGCCCAACACTAGTTGGAAT
61538 AACCAAAAAAGTCTA
66 AACCAAAAAAGTCTA
* * * *
61553 TCAATTCATGGCACCCAGTGCCTAGTAGATAAACCACGATA-AGTGAGCCCAACTCTAGTTGGAT
1 TCAATTCATGGCACCCAGAGCCTAGCAGATAAACCACGATATA-TGAGCCCAACACTAGTTGGAA
61617 TAACCAA
65 TAACCAA
61624 CAGTTTACGC
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
79 1 0.02
80 60 0.98
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.23
Consensus pattern (80 bp):
TCAATTCATGGCACCCAGAGCCTAGCAGATAAACCACGATATATGAGCCCAACACTAGTTGGAAT
AACCAAAAAAGTCTA
Found at i:63794 original size:25 final size:24
Alignment explanation
Indices: 63745--63798 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
63735 TTGAGTTGCG
**
63745 TCATTCTATTTTGATCAATCTATT
1 TCATTCTATTTTGATCAATAGATT
63769 TCATATCTATATTT-ATCAATAGATT
1 TCAT-TCTAT-TTTGATCAATAGATT
63794 T-ATTC
1 TCATTC
63799 AAGATCTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 2 0.08
24 6 0.23
25 15 0.58
26 3 0.12
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.52
Consensus pattern (24 bp):
TCATTCTATTTTGATCAATAGATT
Found at i:76395 original size:52 final size:52
Alignment explanation
Indices: 76317--76421 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
76307 TTAGGGGCTA
76317 TACAGTTCGGGAGCTAGTCTTAGATGTCTTACTGACGAGTAGTCCCTGTACT
1 TACAGTTCGGGAGCTAGTCTTAGATGTCTTACTGACGAGTAGTCCCTGTACT
76369 TACAGTTCGGGAGCTAGTCTTAGATGTCTTACTGACGAGTAGTCCCTGTACT
1 TACAGTTCGGGAGCTAGTCTTAGATGTCTTACTGACGAGTAGTCCCTGTACT
76421 T
1 T
76422 GAGTCGTTAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (52 bp):
TACAGTTCGGGAGCTAGTCTTAGATGTCTTACTGACGAGTAGTCCCTGTACT
Found at i:76400 original size:29 final size:29
Alignment explanation
Indices: 76317--76400 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 29
76307 TTAGGGGCTA
76317 TACAGTTCGGGAGCTAGTCTTAGATGTCT
1 TACAGTTCGGGAGCTAGTCTTAGATGTCT
* * * *
76346 TACTG-AC--GAG-TAGTCCCT-G-T-ACT
1 TACAGTTCGGGAGCTAGT-CTTAGATGTCT
76369 TACAGTTCGGGAGCTAGTCTTAGATGTCT
1 TACAGTTCGGGAGCTAGTCTTAGATGTCT
76398 TAC
1 TAC
76401 TGACGAGTAG
Statistics
Matches: 39, Mismatches: 8, Indels: 16
0.62 0.13 0.25
Matches are distributed among these distances:
23 6 0.15
24 2 0.05
25 5 0.13
26 10 0.26
27 5 0.13
28 2 0.05
29 9 0.23
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.33
Consensus pattern (29 bp):
TACAGTTCGGGAGCTAGTCTTAGATGTCT
Found at i:76412 original size:25 final size:25
Alignment explanation
Indices: 76331--76412 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
76321 GTTCGGGAGC
76331 TAGTCTTAGATGTCTTACTGACGAG
1 TAGTCTTAGATGTCTTACTGACGAG
* * * *
76356 TAGTCCCT-G-T-ACTTACAGTTCGGGAG
1 TAGT-CTTAGATGTCTTACTG-AC--GAG
76382 CTAGTCTTAGATGTCTTACTGACGAG
1 -TAGTCTTAGATGTCTTACTGACGAG
76408 TAGTC
1 TAGTC
76413 CCTGTACTTG
Statistics
Matches: 41, Mismatches: 8, Indels: 16
0.63 0.12 0.25
Matches are distributed among these distances:
23 6 0.15
24 2 0.05
25 10 0.24
26 10 0.24
27 5 0.12
28 2 0.05
29 6 0.15
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (25 bp):
TAGTCTTAGATGTCTTACTGACGAG
Found at i:76623 original size:43 final size:43
Alignment explanation
Indices: 76512--76799 Score: 366
Period size: 43 Copynumber: 6.7 Consensus size: 43
76502 AAGTCAATTG
*
76512 ATGTATAAATGGAAGACTCATGTCTCGGAATGAGTGTGAGATT
1 ATGTATAAATGGAAGACTCATGTCTCGGAATGAGTGAGAGATT
76555 ATGTATTAAATGGAAGACTCATGTCTCGGAATGAGTGAGAGATT
1 ATGTA-TAAATGGAAGACTCATGTCTCGGAATGAGTGAGAGATT
* ** * *
76599 ATGTGTAAATGGAAGACTTGTGTCTCGGAATGAGCGTGAGATT
1 ATGTATAAATGGAAGACTCATGTCTCGGAATGAGTGAGAGATT
* * *
76642 ATGTATAAAATGGAAGACTCATGTCTCGAAATAAGTGTGAGATT
1 ATGTAT-AAATGGAAGACTCATGTCTCGGAATGAGTGAGAGATT
* * *
76686 ATGTATAAATGGAAGACTCATGTCTTGGGATGAG-CATGAGATT
1 ATGTATAAATGGAAGACTCATGTCTCGGAATGAGTGA-GAGATT
* * *
76729 ATGTATAAATGGAAGACTCATGTCTTGGGATGAG-CATGAGATT
1 ATGTATAAATGGAAGACTCATGTCTCGGAATGAGTGA-GAGATT
* *
76772 ATGTTTAAA-GGAAGACTTATGTCTCGGA
1 ATGTATAAATGGAAGACTCATGTCTCGGA
76800 TAGAGTATAC
Statistics
Matches: 220, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
42 16 0.07
43 125 0.57
44 79 0.36
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.30
Consensus pattern (43 bp):
ATGTATAAATGGAAGACTCATGTCTCGGAATGAGTGAGAGATT
Found at i:76663 original size:87 final size:86
Alignment explanation
Indices: 76512--76799 Score: 400
Period size: 87 Copynumber: 3.3 Consensus size: 86
76502 AAGTCAATTG
*
76512 ATGTATAAATGGAAGACTCATGTCTCGGAATGAGTGTGAGATTATGTATTAAATGGAAGACTCAT
1 ATGTATAAATGGAAGACTCATGTCTCGGAATGAGCGTGAGATTATGTA-TAAATGGAAGACTCAT
76577 GTCTCGGAATGAGTGAGAGATT
65 GTCTCGGAATGAGTGAGAGATT
* **
76599 ATGTGTAAATGGAAGACTTGTGTCTCGGAATGAGCGTGAGATTATGTATAAAATGGAAGACTCAT
1 ATGTATAAATGGAAGACTCATGTCTCGGAATGAGCGTGAGATTATGTAT-AAATGGAAGACTCAT
* * *
76664 GTCTCGAAATAAGTGTGAGATT
65 GTCTCGGAATGAGTGAGAGATT
* * *
76686 ATGTATAAATGGAAGACTCATGTCTTGGGATGAGCATGAGATTATGTATAAATGGAAGACTCATG
1 ATGTATAAATGGAAGACTCATGTCTCGGAATGAGCGTGAGATTATGTATAAATGGAAGACTCATG
* * *
76751 TCTTGGGATGAG-CATGAGATT
66 TCTCGGAATGAGTGA-GAGATT
* *
76772 ATGTTTAAA-GGAAGACTTATGTCTCGGA
1 ATGTATAAATGGAAGACTCATGTCTCGGA
76800 TAGAGTATAC
Statistics
Matches: 176, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
85 16 0.09
86 39 0.22
87 121 0.69
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.30
Consensus pattern (86 bp):
ATGTATAAATGGAAGACTCATGTCTCGGAATGAGCGTGAGATTATGTATAAATGGAAGACTCATG
TCTCGGAATGAGTGAGAGATT
Found at i:76745 original size:130 final size:130
Alignment explanation
Indices: 76512--76797 Score: 416
Period size: 130 Copynumber: 2.2 Consensus size: 130
76502 AAGTCAATTG
* *
76512 ATGTATAAATGGAAGACTCATGTCTCGGAATGAGTGTGAGATTATGTATTAAATGGAAGACTCAT
1 ATGTATAAATGGAAGACTCATGTCTCGAAATAAGTGTGAGATTATGTATTAAATGGAAGACTCAT
* * ** *
76577 GTCTCGGAATGAGTGAGAGATTATGTGTAAATGGAAGACTTGTGTCTCGGAATGAGCGTGAGATT
66 GTCTCGGAATGAGTCAGAGATTATGTATAAATGGAAGACTCATGTCTCGGAATGAGCATGAGATT
76642 ATGTATAAAATGGAAGACTCATGTCTCGAAATAAGTGTGAGATTATGTA-TAAATGGAAGACTCA
1 ATGTAT-AAATGGAAGACTCATGTCTCGAAATAAGTGTGAGATTATGTATTAAATGGAAGACTCA
* * * *
76706 TGTCTTGGGATGAG-CATGAGATTATGTATAAATGGAAGACTCATGTCTTGGGATGAGCATGAGA
65 TGTCTCGGAATGAGTCA-GAGATTATGTATAAATGGAAGACTCATGTCTCGGAATGAGCATGAGA
76770 TT
129 TT
* *
76772 ATGTTTAAA-GGAAGACTTATGTCTCG
1 ATGTATAAATGGAAGACTCATGTCTCG
76798 GATAGAGTAT
Statistics
Matches: 141, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
128 16 0.11
129 4 0.03
130 81 0.57
131 40 0.28
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.30
Consensus pattern (130 bp):
ATGTATAAATGGAAGACTCATGTCTCGAAATAAGTGTGAGATTATGTATTAAATGGAAGACTCAT
GTCTCGGAATGAGTCAGAGATTATGTATAAATGGAAGACTCATGTCTCGGAATGAGCATGAGATT
Found at i:76848 original size:84 final size:86
Alignment explanation
Indices: 76512--76849 Score: 312
Period size: 87 Copynumber: 3.9 Consensus size: 86
76502 AAGTCAATTG
** *
76512 ATGTATAAATGGAAGACTCATGTC-TCGGAATGAGTGTGAGATTATGTATTAAATGGAAGACTCA
1 ATGTATAAATGGAAGACTCATGTCTTCGG-ATGAGCATGAGATTATGTA-TAAAAGGAAGACTCA
* * *
76576 TGTCTCGGAATGAGTGA-GAGATT
64 TGACTCGGGATGAG-CATGAGATT
* ** *
76599 ATGTGTAAATGGAAGACTTGTGTC-TCGGAATGAGCGTGAGATTATGTATAAAATGGAAGACTCA
1 ATGTATAAATGGAAGACTCATGTCTTCGG-ATGAGCATGAGATTATGTATAAAA-GGAAGACTCA
* ** * **
76663 TGTCTCGAAATAAGTGTGAGATT
64 TGACTCGGGATGAGCATGAGATT
* *
76686 ATGTATAAATGGAAGACTCATGTCTTGGGATGAGCATGAGATTATGTATAAATGGAAGACTCATG
1 ATGTATAAATGGAAGACTCATGTCTTCGGATGAGCATGAGATTATGTATAAAAGGAAGACTCATG
* *
76751 TCTTGGGATGAGCATGAGATT
66 ACTCGGGATGAGCATGAGATT
* * * * * *
76772 ATGTTTAAA-GGAAGACTTATGTC-TCGGATAGAGTAT-ACGATTGT-TTTAAAAGGAAGACTTA
1 ATGTATAAATGGAAGACTCATGTCTTCGGAT-GAGCATGA-GATTATGTATAAAAGGAAGACTCA
**
76833 TGACTCGGTTTGAGCAT
64 TGACTCGGGATGAGCAT
76850 AAGGTTAATT
Statistics
Matches: 213, Mismatches: 33, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
84 33 0.15
85 23 0.11
86 39 0.18
87 115 0.54
88 3 0.01
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (86 bp):
ATGTATAAATGGAAGACTCATGTCTTCGGATGAGCATGAGATTATGTATAAAAGGAAGACTCATG
ACTCGGGATGAGCATGAGATT
Found at i:90365 original size:20 final size:20
Alignment explanation
Indices: 90340--90395 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
90330 ATGTTGATTT
90340 ATGCCTTTAATGATTGCTTA
1 ATGCCTTTAATGATTGCTTA
90360 ATGCCTTTAATGATTGCTTA
1 ATGCCTTTAATGATTGCTTA
90380 ATGCCTTTAATGATTG
1 ATGCCTTTAATGATTG
90396 ACATCTGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (20 bp):
ATGCCTTTAATGATTGCTTA
Found at i:91626 original size:16 final size:18
Alignment explanation
Indices: 91600--91634 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
91590 TTAACTTAAA
91600 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
91617 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
91634 T
1 T
91635 CGATTCAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:94900 original size:265 final size:263
Alignment explanation
Indices: 94428--96708 Score: 2449
Period size: 265 Copynumber: 8.7 Consensus size: 263
94418 TTTTGCCCTC
* * *
94428 AAATACGTATATACACCGTATAAAGTATGAGGAATCATTACTCTTCTAGACCAACAACAACTGGT
1 AAATACGTAAATACACCGCATAAAGTATGAGGAATCATTAC-CTTCTAGAGCAACAACAACTGGT
* * *
94493 AAGAAAATATTAGAACAAGATTTGTAATGATCAACATGAAGGCACGTATGTCTTGGACTATAAAA
65 AA-AAAATATTAGAACAAGATTTGTAATGATCAACGTGAAGGCACGTATGTCTCGGACTATAAAT
* * * * **
94558 CAGGCTTGCACAACATTTGGCCTCAAGAAGTTATCAGTACATAATTTCACATGTGTAATTACATT
129 CATGCTTGCACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTTCACATGTATAATTATGTT
* * * * *
94623 TTTCTTCCCTCAAATTTTGATTGAACGTGTGAAAAACAAAAGGAGGCTCCCTCAGTATTATGTTA
194 CTTCTTCCCTCAAATTTTGATTGAACATGTGAAAAACAAAGGGAGGTTCCCTCAATATTATGTTA
* *
94688 AGCGC
259 AGGGA
* * * * * * * * *
94693 AAATACTTAAACACACCGCATAAAGTATAAGGAACCATTACCATTTTGGAGTAACAATAATTGGT
1 AAATACGTAAATACACCGCATAAAGTATGAGGAATCATTACC-TTCTAGAGCAACAACAACTGGT
* *
94758 AAAAATATATTAGAACAAGATTTGTAATGATCAACATGAAGGCACATATGTCTCGGACTATAAAT
65 AAAAA-ATATTAGAACAAGATTTGTAATGATCAACGTGAAGGCACGTATGTCTCGGACTATAAAT
* * *
94823 CATGCTTGCACAACCTTTAGCCTCAAGAAGTTATCAATA-TTAAATTTCACATGTGTAATTATGT
129 CATGCTTGCACAACATTTGGCCTCAAGAAGTTATCAATACTT-AATTTCACATGTATAATTATGT
* * * *
94887 TCTTCTTCCCTCAAATTTCGATTGAACGTGTGAAAAGCAAAGGGAGGTTCCCTCAATATTATGAT
193 TCTTCTTCCCTCAAATTTTGATTGAACATGTGAAAAACAAAGGGAGGTTCCCTCAATATTATGTT
94952 AAGGGA
258 AAGGGA
* * * * * * * *
94958 AAATAAGTAAACACGCTGCATAAAGTATGAGGAATAACTACCCTTCTGGAGCAACAACAATTGGC
1 AAATACGTAAATACACCGCATAAAGTATGAGGAATCATTA-CCTTCTAGAGCAACAACAACTGG-
* * * * *
95023 ACAAAAAATGATTAGAACAAGATTTTGTAATGAACAACTTGAAGGCACGTATGTCTCAGATTATA
64 -TAAAAAAT-ATTAGAACAAGA-TTTGTAATGATCAACGTGAAGGCACGTATGTCTCGGACTATA
* * * * * *
95088 AAGCATGCTTGCATAACATTTGACCTCAAGAAGTTATCAATACTTAATTTGACTTGTGTAATTAT
126 AATCATGCTTGCACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTTCACATGTATAATTAT
** **
95153 GTTCTTCTTCCCTCAAATTTCAATTGAACATGTGAAAAGTAAAGGGAGGTTCCCT-AAGTATTAT
191 GTTCTTCTTCCCTCAAATTTTGATTGAACATGTGAAAAACAAAGGGAGGTTCCCTCAA-TATTAT
* *
95217 ATTAAGGGC
255 GTTAAGGGA
* *
95226 AAATACGTAAATACACCGCATAAAGTGTGAGGAATCATTACCTTACTAGAACAACAACAACTGGT
1 AAATACGTAAATACACCGCATAAAGTATGAGGAATCATTACCTT-CTAGAGCAACAACAACTGGT
* *
95291 AAAAAAATATTAGAACAAGATTTGTAATGATCAATGTGAAGGCACATATGTCTCGGACTATAAAT
65 -AAAAAATATTAGAACAAGATTTGTAATGATCAACGTGAAGGCACGTATGTCTCGGACTATAAAT
* * * **
95356 CATGCTTGCACAACATTTGGCCTTAAGAAGTTATCAATACTTAATTTGACAGGTATAATTACATT
129 CATGCTTGCACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTTCACATGTATAATTATGTT
* *
95421 CTTCTTCTCTCAAATTTT-AGTTGAACATGTG-AAAA-AAAGGGAGGTTCCCTTAATATTATGTT
194 CTTCTTCCCTCAAATTTTGA-TTGAACATGTGAAAAACAAAGGGAGGTTCCCTCAATATTATGTT
95483 AAGGGA
258 AAGGGA
* * * * * *
95489 AAATACATAAATACAACACATAAAGTATTTA-GAACCATTATCCTTCTAGAGCAAGAACAACTGG
1 AAATACGTAAATACACCGCATAAAGTA-TGAGGAATCATTA-CCTTCTAGAGCAACAACAACTGG
* * * * * * * *
95553 T-AAAAAGATTAGAATAAGAGTTGTAATGATCAACATGAAAGAACGTATGTATCGAACTATAAAT
64 TAAAAAATATTAGAACAAGATTTGTAATGATCAACGTGAAGGCACGTATGTCTCGGACTATAAAT
** * * * *
95617 TGTGCTT-CGACAACATTTGACCACAAGAAGTTATTAATACTTAATTTTATCA-GTATAATTATG
129 CATGCTTGC-ACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTTCA-CATGTATAATTATG
* * *
95680 TTCTTCTTCCCTCAAATTTTGATTGAATATGTGAAAAGA-AAAGGGAGGTTCCTTCAGTATTATG
192 TTCTTCTTCCCTCAAATTTTGATTGAACATGTGAAAA-ACAAAGGGAGGTTCCCTCAATATTATG
95744 TTAAGGGA
256 TTAAGGGA
* * * * *
95752 AAATATGTAAATACATCACATAAAGTATGAGGAATCATTACACTTGTAGAGTAACAACAACTGGT
1 AAATACGTAAATACACCGCATAAAGTATGAGGAATCATTAC-CTTCTAGAGCAACAACAACTGGT
* ** *
95817 AAAATATATTAGAACAAGATTTGTAATGATCAACGTGAAGGCACACATGTCTTGGACTATAAATC
65 AAAAAATATTAGAACAAGATTTGTAATGATCAACGTGAAGGCACGTATGTCTCGGACTATAAATC
* * *
95882 ATGCTTGCACAACTTTTGGCCTCAAGAAATTATCAATACTTAATTTCACCTG-AGTAATTATGTT
130 ATGCTTGCACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTTCACATGTA-TAATTATGTT
* * * * * *
95946 CTTCTTTCCTCAAATTTCGATTG-A-ATGTGTAAAAAAAAAGGAAGGTTCCCTTAGTATTATGTT
194 CTTCTTCCCTCAAATTTTGATTGAACATGTG-AAAAACAAAGGGAGGTTCCCTCAATATTATGTT
96009 AAGGGAA
258 AAGGG-A
* ** * * * * * * * *
96016 AAATACGTAAACACATTGCAAAAAGTACGTGAAATCATTACCCTTATGGAGCAAAAACAA-TAG-
1 AAATACGTAAATACACCGCATAAAGTATGAGGAATCATTA-CCTTCTAGAGCAACAACAACTGGT
* * *
96079 AAAAAA-ATTAG-ACAAGATATGTAATGATCAACGTGAAGACACGTATGTCTCAGACTATAAATC
65 AAAAAATATTAGAACAAGATTTGTAATGATCAACGTGAAGGCACGTATGTCTCGGACTATAAATC
* * * *
96142 ATGCTTGTACAATATTTAGCCTCAAGAAGTTATCAATACTTAATTTTTAC-TAGTATAATTATGT
130 ATGCTTGCACAACATTTGGCCTCAAGAAGTTATCAATACTTAA-TTTCACAT-GTATAATTATGT
* * * ** *
96206 TATTCTTCCCTCAAATTTTGGTTGAACGTGTGAAATGCAAAGGGAGGTTCCCTCAATATTGTGTT
193 TCTTCTTCCCTCAAATTTTGATTGAACATGTGAAAAACAAAGGGAGGTTCCCTCAATATTATGTT
*
96271 AAGAGA
258 AAGGGA
*** * * *
96277 AAATATACAAATACACCACATAAAATATGAGGAATCTTTACCCTTC-AGAG---CAACAACTGGT
1 AAATACGTAAATACACCGCATAAAGTATGAGGAATCATTA-CCTTCTAGAGCAACAACAACTGGT
* * * * * * * **
96338 AAAAAAATATTATAATAATG-TTTATTATGATCAATGTGAAGGCACG-CTGTATTAGACTATAAA
65 -AAAAAATATTAGAACAA-GATTTGTAATGATCAACGTGAAGGCACGTATGTCTCGGACTATAAA
* * *
96401 TCATGCTTGCACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTTGATAGGTATAATTATGT
128 TCATGCTTGCACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTTCACATGTATAATTATGT
* * * * * * *
96466 TTTTCTTCCCTCAAATCTTGGTTGAACATGTTAAAAACAATGGGAGGTTCTCTTAATATTATGTT
193 TCTTCTTCCCTCAAATTTTGATTGAACATGTGAAAAACAAAGGGAGGTTCCCTCAATATTATGTT
* *
96531 ATGGGT
258 AAGGGA
* * * *
96537 AAATACGTAAATACACCACATAAAGTATTAGGAATCATTACC-TCTATG-G-AGCAACAACTAGT
1 AAATACGTAAATACACCGCATAAAGTATGAGGAATCATTACCTTCTA-GAGCAACAACAACTGGT
* * * * * * *
96599 AAAAAAGATTAGAATAAGAGTTGTAATGATCAATGTG-AGGCACGCATGTCTTGAACTATAAATC
65 AAAAAATATTAGAACAAGATTTGTAATGATCAACGTGAAGGCACGTATGTCTCGGACTATAAATC
* ** * * *
96663 GTGCTACCATAACATTTGACCTCAAGAAGTTATTAATACTTAATTT
130 ATGCTTGCACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTT
96709 GACTTGTAAC
Statistics
Matches: 1702, Mismatches: 265, Indels: 103
0.82 0.13 0.05
Matches are distributed among these distances:
257 5 0.00
258 4 0.00
259 12 0.01
260 289 0.17
261 274 0.16
262 76 0.04
263 203 0.12
264 186 0.11
265 400 0.24
266 16 0.01
267 30 0.02
268 205 0.12
269 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.30
Consensus pattern (263 bp):
AAATACGTAAATACACCGCATAAAGTATGAGGAATCATTACCTTCTAGAGCAACAACAACTGGTA
AAAAATATTAGAACAAGATTTGTAATGATCAACGTGAAGGCACGTATGTCTCGGACTATAAATCA
TGCTTGCACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTTCACATGTATAATTATGTTCT
TCTTCCCTCAAATTTTGATTGAACATGTGAAAAACAAAGGGAGGTTCCCTCAATATTATGTTAAG
GGA
Found at i:97830 original size:26 final size:26
Alignment explanation
Indices: 97791--97876 Score: 136
Period size: 26 Copynumber: 3.3 Consensus size: 26
97781 AAGCTCAGTT
**
97791 AGTATATAACTCTTACGAGCCAATTC
1 AGTATATCGCTCTTACGAGCCAATTC
*
97817 AGCATATCGCTCTTACGAGCCAATTC
1 AGTATATCGCTCTTACGAGCCAATTC
*
97843 AGTATATCGCTCTTACGATCCAATTC
1 AGTATATCGCTCTTACGAGCCAATTC
97869 AGTATATC
1 AGTATATC
97877 TCCAGCATCT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (26 bp):
AGTATATCGCTCTTACGAGCCAATTC
Found at i:99712 original size:788 final size:785
Alignment explanation
Indices: 98195--99770 Score: 2622
Period size: 788 Copynumber: 2.0 Consensus size: 785
98185 AAAATATGCA
****
98195 AAATAACCATTTTTCACTCAAACTTGTACCATTTGAATACACAAGGGTTCTTTCCCAATCCCTAC
1 AAATAACCATTTTTCACTCAAACTTGTACCAGCCAAATACACAAGGGTTCTTTCCCAATCCCTAC
98260 ATGAAATTATTTCACATCAAGTACATATATTTTTATCATTTTAGCAATTTAGTCCTCAAACCTTA
66 ATGAAATTATTTCACATCAAGTACATATATTTTTATCATTTTAGCAATTTAGTCCTCAAACCTTA
**
98325 AAATCATCAAAAGTCACTTTACAAAATCAACAAATCCAACAACCAAGCTTCCAAAACTAAACTTT
131 AAATCATCAAAAACCACTTTACAAAATCAACAAATCCAACAACCAAGCTTCCAAAACTAAACTTT
* * *
98390 TAAAAACAAGCTCATTCATCAAAGGAAAAATATTTAACATTTGACAGATTCAAAAATTAGTCTTT
196 CAAAAACAAGCTCATTCATCAAAGGAAAAATATTTAACATTTGACAGATTCAAAAATTAGTCCTC
** *
98455 AGGTTAGCTAGATTAAGCTAATACGGACTCAAAAACATAAAAATCACTAAAAAGGGGCGAGATTT
261 AGGTTAGCTAGATTAAGCTAATACACACTCAAAAACATAAAAATCACTAAAAACGGGCGAGATTT
* * *
98520 CAATCACCAAATTGAAGAACCTAGCTTGATCGTATACTCCTTCTTTCTTTTAGGGTTTTAAGTGT
326 CAATCACCAAATCGAAGAACCTAGCTTGATCGTATACTCCTTCATGCTTTTAGGGTTTTAAGTGT
* * *
98585 TTTAGGTTAAAGAAGGTGATGAATATGGCTTATTTTATCTTTAATTTCTACTTTAATTACTTTTA
391 TTTAGGTTAAAGAAGATGATGAATATGGCATATTTTATCTTTAATTTCCACTTTAATTACTTTTA
*
98650 TAATTCATTCACTATTATGCCCTTATTATAAAAAATTCAAATTCAACATTTAATAGCCCTTAACC
456 TAATTCATTCACTATTATACCCTTATTATAAAAAATTCAAATTCAACATTTAATAGCCCTTAACC
* *
98715 ATCCACTCACCATCACTAAGGGCTAATTACAACTCAAGTATCTCTCTTTAACCAACAATTAGCAT
521 ATCCACTCACCATCACTAAGGGCTAATTACAACTCAAGTATCTCTCTTTAACAAAAAATTAGCAT
* *
98780 CTAATGCTTTTAACTAATTGAATTAAACTTTTATACCTTTTACAATTTTATCCTTTTTACTTAAT
586 CTAATGCTTTTAACTAATTGAATTAAACTTTTACACCTTTTACAATTTAATCCTTTTTACTTAAT
98845 TAACCTTCCAAACGATAAAATTTCTTAAACAAAATTCAATGTGACACTACTAACACCATAAATAT
651 TAACCTTCCAAACGATAAAATTTCTTAAACAAAATTCAATGTGACACTACTAACACCATAAATAT
* * *
98910 TAAATAATTAATATTTACAACCCGACTCATCGGAGTTGTGGTCCCGAAATCACTATTTTCGACAC
716 TAAATAATTAATATTTACAACCCAACTCATCAGAGTTGTGATCCCGAAATCACTATTTTCGACAC
*
98975 TACTG
781 CACTG
98980 AAATAACCATTTTTCACTCAAACTTGTACCAGCCAAATACACAAGGGTTCTTTCCCAATCCCTAC
1 AAATAACCATTTTTCACTCAAACTTGTACCAGCCAAATACACAAGGGTTCTTTCCCAATCCCTAC
*
99045 ATGCAATTATTTCACATCAAGTACATATATTTTTATCATTTTAGCAATTTAGTCCTCAAACCTTA
66 ATGAAATTATTTCACATCAAGTACATATATTTTTATCATTTTAGCAATTTAGTCCTCAAACCTTA
*
99110 AAATCATCAAAAAACCACTTTGCAAAATCAACAAATCCAACAACCAAGCTTCCAAAACTTCCATA
131 AAATCATC-AAAAACCACTTTACAAAATCAACAAATCCAACAACCAAGCTTCCAAAA----C-TA
* *
99175 AACTTTCAAAAACAAGCTCATTCATCAATGGAAAAATATTTAACATTTGACAGATTCACAAATTA
190 AACTTTCAAAAACAAGCTCATTCATCAAAGGAAAAATATTTAACATTTGACAGATTCAAAAATTA
*
99240 GTCCTCGGGTTAGCTAGATTAAGCTAATACACACTCAAAAACATAAAAATCACTAAAAACGGGCG
255 GTCCTCAGGTTAGCTAGATTAAGCTAATACACACTCAAAAACATAAAAATCACTAAAAACGGGCG
* *
99305 AGATTTCACTCACCAAATCGAAGAACCTAGCTTGTTCGTA-ACTCCTTCATGCTTTTAGGGTGTT
320 AGATTTCAATCACCAAATCGAAGAACCTAGCTTGATCGTATACTCCTTCATGCTTTTAGGGT-TT
* *
99369 T-AGTGTTTTAGGTTGAAGAAGATGATGAATATGGCATATTTTCTCTTTAATTTCCACTTTAATT
384 TAAGTGTTTTAGGTTAAAGAAGATGATGAATATGGCATATTTTATCTTTAATTTCCACTTTAATT
* **
99433 ACTTTTATAATTCATTTACTATTATACCCTTATTAT-AAAAATTCAAATTCAACATTTAATTTCC
449 ACTTTTATAATTCATTCACTATTATACCCTTATTATAAAAAATTCAAATTCAACATTTAATAGCC
99497 CTTAACCATCCACTCACCATCACTAAGGGCTAATTAC-ACTCAAGTATCTCT-TCTTAACAAAAA
514 CTTAACCATCCACTCACCATCACTAAGGGCTAATTACAACTCAAGTATCTCTCT-TTAACAAAAA
* *
99560 ATTAGCATCTAATTCTTTTAACTAATTGAATTCAACTTTTACACCTTTTACAATTTAATCCTTTT
578 ATTAGCATCTAATGCTTTTAACTAATTGAATTAAACTTTTACACCTTTTACAATTTAATCCTTTT
* *
99625 TACTTAATTAACCTTCCAAACGATAAAATTTCTTAATCAAAATTCAATGTGACACTACTGACACC
643 TACTTAATTAACCTTCCAAACGATAAAATTTCTTAAACAAAATTCAATGTGACACTACTAACACC
* * * *
99690 ATAAATATTAAATAATTAATATTTACGACCCAACTCGTTAGAGTTGTGATCCTGAAATCACTATT
708 ATAAATATTAAATAATTAATATTTACAACCCAACTCATCAGAGTTGTGATCCCGAAATCACTATT
99755 TTCGACACCACTG
773 TTCGACACCACTG
99768 AAA
1 AAA
99771 ATCAGGTTGT
Statistics
Matches: 736, Mismatches: 47, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
785 133 0.18
786 45 0.06
787 1 0.00
788 219 0.30
789 63 0.09
790 112 0.15
791 163 0.22
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.34
Consensus pattern (785 bp):
AAATAACCATTTTTCACTCAAACTTGTACCAGCCAAATACACAAGGGTTCTTTCCCAATCCCTAC
ATGAAATTATTTCACATCAAGTACATATATTTTTATCATTTTAGCAATTTAGTCCTCAAACCTTA
AAATCATCAAAAACCACTTTACAAAATCAACAAATCCAACAACCAAGCTTCCAAAACTAAACTTT
CAAAAACAAGCTCATTCATCAAAGGAAAAATATTTAACATTTGACAGATTCAAAAATTAGTCCTC
AGGTTAGCTAGATTAAGCTAATACACACTCAAAAACATAAAAATCACTAAAAACGGGCGAGATTT
CAATCACCAAATCGAAGAACCTAGCTTGATCGTATACTCCTTCATGCTTTTAGGGTTTTAAGTGT
TTTAGGTTAAAGAAGATGATGAATATGGCATATTTTATCTTTAATTTCCACTTTAATTACTTTTA
TAATTCATTCACTATTATACCCTTATTATAAAAAATTCAAATTCAACATTTAATAGCCCTTAACC
ATCCACTCACCATCACTAAGGGCTAATTACAACTCAAGTATCTCTCTTTAACAAAAAATTAGCAT
CTAATGCTTTTAACTAATTGAATTAAACTTTTACACCTTTTACAATTTAATCCTTTTTACTTAAT
TAACCTTCCAAACGATAAAATTTCTTAAACAAAATTCAATGTGACACTACTAACACCATAAATAT
TAAATAATTAATATTTACAACCCAACTCATCAGAGTTGTGATCCCGAAATCACTATTTTCGACAC
CACTG
Found at i:100280 original size:265 final size:262
Alignment explanation
Indices: 99793--100827 Score: 1019
Period size: 258 Copynumber: 4.0 Consensus size: 262
99783 CATTACTGGT
* * * * * *
99793 AAAAAAAATATTAGAACAAGATTTGT-ATGTATCAATGTGAAGGAACATATGTCT-TGAACTAT-
1 AAAAAAAATATTAGAAAAAGATTTGTAATG-ATAAACGTGAAGGCACGTATGTCTCAG-ACTATA
* * * * * * *
99855 AATCATGGTTTCAAAACATTTGGCCTCAAGAAGTTATCAATACTTTATTTCACCTATGTAATTAT
64 AATCGT-GCTCCACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTTCACATGTGTAATTAT
* ** * *
99920 GTTCTTCTTCCCTCAAATTTCAGTTGAATGTGTGAAAAACAAATGGAGGTTCCCTCAGTATTATG
128 ATTCTTCTT-CCTCAAATTTTGGTTGAACGTGTGAAAAACAAAGGGAGGTTCCCTCAGTATTATG
* * * * *
99985 TTAAGGGAAAATA-TATAA-ACACGTCGTATAAAGTATGA-GCAATCATTACTCTTATGGAGCAA
192 TTAAGGGAAAATACGAAAATACAC--CGCATAAAGTATGATG-AATCATTACCCTTATAGAGCAA
*
100047 TAACAATAGG
254 GAACAAT-GG
** * * * *
100057 TGAAAAAATATTAGAAAAAAATTTATAATGATAAACGTGAAGGCACGTTTGTCTCATACTATAAA
1 AAAAAAAATATTAGAAAAAGATTTGTAATGATAAACGTGAAGGCACGTATGTCTCAGACTATAAA
* * ** * * * *
100122 TCATGCTCACACAATATTTGGCCTCAAGAAGTTAGAAATATTTAATTTCATATGTATAATTACAT
66 TCGTGCTC-CACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTTCACATGTGTAATTATAT
* * * * *
100187 TCTTCTTCCTTTAAATTTTGGTTGAACATGTGAAAAACAAAGGGAGGTTCCTTCAATATTAAGTT
130 TCTTCTTCC-TCAAATTTTGGTTGAACGTGTGAAAAACAAAGGGAGGTTCCCTCAGTATTATGTT
* * * * *
100252 AAAGGAAAATATGAAAATACACCGTATAAAGTATGATGAATCATTGCCCTTTTAGAGCAAGAACA
194 AAGGGAAAATACGAAAATACACCGCATAAAGTATGATGAATCATTACCCTTATAGAGCAAGAACA
100317 ACTGG
259 A-TGG
* * *
100322 CAAAAAAACATTA-AAATAAGA-TTGTAATGA-AGAATGTGAAGGCACGTATGTCTCAGACTATA
1 AAAAAAAATATTAGAAA-AAGATTTGTAATGATA-AACGTGAAGGCACGTATGTCTCAGACTATA
* * * * * *
100384 AATCGTGCTTTCACAACATTTAGCCTCAAGCAGTTATCAATACTTAATTTTACCTGTGTATTTAT
64 AATCGTGC-TCCACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTTCACATGTGTAATTAT
* * * * * *
100449 ATTCTTCTTCGCTCAAA------TTCAACGTGTGAAAAGCAAAGGGAGTTTCCTTTAGCATTATG
128 ATTCTTCTTC-CTCAAATTTTGGTTGAACGTGTGAAAAACAAAGGGAGGTTCCCTCAGTATTATG
* * * * *
100508 TTAAGGGAAAATACGTAAATTCACCGCATAAGGTATAATGAATCATTACCCTTCTAGAGCAAGAA
192 TTAAGGGAAAATACGAAAATACACCGCATAAAGTATGATGAATCATTACCCTTATAGAGCAAGAA
100573 CAATTGG
257 CAA-TGG
* * * * * *
100580 CAAAAAAAATATTAGTATAAGATTTGTGATGATTAACGTGAAGGCATGTATG--TCGGACTATAA
1 -AAAAAAAATATTAGAAAAAGATTTGTAATGATAAACGTGAAGGCACGTATGTCTCAGACTATAA
* * *
100643 ATCGTGCTTCCACAACATTTGGTCTCAAGAAGTTATCAATACTTAATTTCACCTGTGTATTTATA
65 ATCGTGC-TCCACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTTCACATGTGTAATTATA
* *
100708 TTCTTC--GCTCAAATTTTGGTTGAACGTGTGAAAAGCAAAGGGAGGTTCCCTCAGTATTATGTT
129 TTCTTCTTCCTCAAATTTTGGTTGAACGTGTGAAAAACAAAGGGAGGTTCCCTCAGTATTATGTT
* * * * *
100771 AAGGGCAAGTACGTAAATACACCGCATAAAGTATGAGGAATCATTACCCTTTTAGAG
194 AAGGGAAAATACGAAAATACACCGCATAAAGTATGATGAATCATTACCCTTATAGAG
100828 GTAGATATAA
Statistics
Matches: 637, Mismatches: 111, Indels: 49
0.80 0.14 0.06
Matches are distributed among these distances:
255 6 0.01
258 172 0.27
259 15 0.02
260 25 0.04
261 89 0.14
263 1 0.00
264 150 0.24
265 170 0.27
266 5 0.01
267 4 0.01
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (262 bp):
AAAAAAAATATTAGAAAAAGATTTGTAATGATAAACGTGAAGGCACGTATGTCTCAGACTATAAA
TCGTGCTCCACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTTCACATGTGTAATTATATT
CTTCTTCCTCAAATTTTGGTTGAACGTGTGAAAAACAAAGGGAGGTTCCCTCAGTATTATGTTAA
GGGAAAATACGAAAATACACCGCATAAAGTATGATGAATCATTACCCTTATAGAGCAAGAACAAT
GG
Found at i:100583 original size:258 final size:259
Alignment explanation
Indices: 99794--100827 Score: 987
Period size: 265 Copynumber: 3.9 Consensus size: 259
99784 ATTACTGGTA
* * * * * * *
99794 AAAAAAATATTAGAACAAGATTTGT-ATGTATCAATGTGAAGGAACATATGTCT-TGAACTAT-A
1 AAAAAAATATTAAAATAAGATTTGTAATG-A-AAACGTGAAGGCACGTATGTCTCAG-ACTATAA
* * * * *
99856 ATCATGGTTTCAAAACATTTGGCCTCAAGAAGTTATCAATACTTTATTTCACCTATGTAATTATG
63 ATCATGCTTTCACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTTCACCTGTGTAATTATA
* * *
99921 TTCTTCTTCCCTCAAATTTCAGTTGAATGTGTGAAAAACAAATGGAGGTTCCCTCAGTATTATGT
128 TTCTTCTTCGCTCAAATTTC-----AACGTGTGAAAAACAAAGGGAGGTTCCCTCAGTATTATGT
** * ** * * * * *
99986 TAAGGGAAAATATATAAACACGTCGTATAAAGTATGA-GCAATCATTACTCTTATGGAGCAATAA
188 TAAGGGAAAATACGTAAATACACCGCATAAAGTATGATG-AATCATTACCCTTTTAGAGCAAGAA
* *
100050 CAATAGGT
252 CAATTGGC
* * * * *
100058 GAAAAAATATTAGAAA-AAAATTTATAATGATAAACGTGAAGGCACGTTTGTCTCATACTATAAA
1 AAAAAAATATTA-AAATAAGATTTGTAATGA-AAACGTGAAGGCACGTATGTCTCAGACTATAAA
** * ** * ** * *
100122 TCATGCTCACACAATATTTGGCCTCAAGAAGTTAGAAATATTTAATTTCATATGTATAATTACAT
64 TCATGCTTTCACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTTCACCTGTGTAATTATAT
* * * * * *
100187 TCTTCTTC-CTTTAAATTTTGGTTGAACATGTGAAAAACAAAGGGAGGTTCCTTCAATATTAAGT
129 TCTTCTTCGC-TCAAA---T--TTCAACGTGTGAAAAACAAAGGGAGGTTCCCTCAGTATTATGT
* * * * *
100251 TAAAGGAAAATATGAAAATACACCGTATAAAGTATGATGAATCATTGCCCTTTTAGAGCAAGAAC
188 TAAGGGAAAATACGTAAATACACCGCATAAAGTATGATGAATCATTACCCTTTTAGAGCAAGAAC
*
100316 AACTGGC
253 AATTGGC
* *
100323 AAAAAAACATTAAAATAAGA-TTGTAATGAAGAATGTGAAGGCACGTATGTCTCAGACTATAAAT
1 AAAAAAATATTAAAATAAGATTTGTAATGAA-AACGTGAAGGCACGTATGTCTCAGACTATAAAT
* * * * *
100387 CGTGCTTTCACAACATTTAGCCTCAAGCAGTTATCAATACTTAATTTTACCTGTGTATTTATATT
65 CATGCTTTCACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTTCACCTGTGTAATTATATT
* * * * *
100452 CTTCTTCGCTCAAA-TTCAACGTGTGAAAAGCAAAGGGAGTTTCCTTTAGCATTATGTTAAGGGA
130 CTTCTTCGCTCAAATTTCAACGTGTGAAAAACAAAGGGAGGTTCCCTCAGTATTATGTTAAGGGA
* * * *
100516 AAATACGTAAATTCACCGCATAAGGTATAATGAATCATTACCCTTCTAGAGCAAGAACAATTGGC
195 AAATACGTAAATACACCGCATAAAGTATGATGAATCATTACCCTTTTAGAGCAAGAACAATTGGC
** * * * *
100581 AAAAAAAATATTAGTATAAGATTTGTGATGATTAACGTGAAGGCATGTATG--TCGGACTATAAA
1 -AAAAAAATATTAAAATAAGATTTGTAATGA-AAACGTGAAGGCACGTATGTCTCAGACTATAAA
* * *
100644 TCGTGCTTCCACAACATTTGGTCTCAAGAAGTTATCAATACTTAATTTCACCTGTGT-ATT-TA-
64 TCATGCTTTCACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTTCACCTGTGTAATTATAT
* * *
100706 TATTCTTCGCTCAAATTTTGGTTGAACGTGTGAAAAGCAAAGGGAGGTTCCCTCAGTATTATGTT
129 TCTTCTTCGCTCAAA---T--TTCAACGTGTGAAAAACAAAGGGAGGTTCCCTCAGTATTATGTT
* * *
100771 AAGGGCAAGTACGTAAATACACCGCATAAAGTATGAGGAATCATTACCCTTTTAGAG
189 AAGGGAAAATACGTAAATACACCGCATAAAGTATGATGAATCATTACCCTTTTAGAG
100828 GTAGATATAA
Statistics
Matches: 631, Mismatches: 116, Indels: 49
0.79 0.15 0.06
Matches are distributed among these distances:
255 14 0.02
256 2 0.00
257 2 0.00
258 160 0.25
259 17 0.03
260 24 0.04
261 89 0.14
263 1 0.00
264 145 0.23
265 173 0.27
266 1 0.00
268 1 0.00
270 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (259 bp):
AAAAAAATATTAAAATAAGATTTGTAATGAAAACGTGAAGGCACGTATGTCTCAGACTATAAATC
ATGCTTTCACAACATTTGGCCTCAAGAAGTTATCAATACTTAATTTCACCTGTGTAATTATATTC
TTCTTCGCTCAAATTTCAACGTGTGAAAAACAAAGGGAGGTTCCCTCAGTATTATGTTAAGGGAA
AATACGTAAATACACCGCATAAAGTATGATGAATCATTACCCTTTTAGAGCAAGAACAATTGGC
Found at i:101192 original size:32 final size:32
Alignment explanation
Indices: 101151--101227 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 32
101141 TAGCTTGCTG
* *
101151 GATAATGAAATTATTATGTTTTAAGCTTGTTA
1 GATATTGAAATTATTATGTTTTAAGCTTATTA
* * *
101183 GATGTTGAAATTATTATGTTTTAAGTTTATTG
1 GATATTGAAATTATTATGTTTTAAGCTTATTA
101215 GATATTGAAATTA
1 GATATTGAAATTA
101228 CTAACAATGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.48
Consensus pattern (32 bp):
GATATTGAAATTATTATGTTTTAAGCTTATTA
Found at i:102653 original size:14 final size:14
Alignment explanation
Indices: 102632--102667 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
102622 GAAAAGTAAG
102632 TCATTTTCCAGAAAA
1 TCATTTTCCA-AAAA
102647 T-ATTTTCCAAAAA
1 TCATTTTCCAAAAA
102660 TCATTTTC
1 TCATTTTC
102668 AATCAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.42
Consensus pattern (14 bp):
TCATTTTCCAAAAA
Found at i:102758 original size:30 final size:30
Alignment explanation
Indices: 102722--102778 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
102712 GATGTGATGC
*
102722 AAATTTTATCCCGGGATTCTCGAGTTTTAG
1 AAATTTTATCCCAGGATTCTCGAGTTTTAG
* *
102752 AAATTTTATCTCATGATTCTCGAGTTT
1 AAATTTTATCCCAGGATTCTCGAGTTT
102779 CAAAATTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.44
Consensus pattern (30 bp):
AAATTTTATCCCAGGATTCTCGAGTTTTAG
Found at i:109092 original size:23 final size:23
Alignment explanation
Indices: 109050--109094 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
109040 TTTTTTATTT
*
109050 TTTCCTTTAATTTTTTATTTTAA
1 TTTCCTTTAATTTTTGATTTTAA
109073 TTTCCTTCTAA-TTTTGATTTTA
1 TTTCCTT-TAATTTTTGATTTTA
109095 TTTTTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTCCTTTAATTTTTGATTTTAA
Found at i:112591 original size:28 final size:28
Alignment explanation
Indices: 112551--112605 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
112541 GATATCAGAA
112551 TGTTTTCTCAAGTAAACACAAAGCATAT
1 TGTTTTCTCAAGTAAACACAAAGCATAT
112579 TGTTTTCTCAAGTAAACACAAAGCATA
1 TGTTTTCTCAAGTAAACACAAAGCATA
112606 CTTCATCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (28 bp):
TGTTTTCTCAAGTAAACACAAAGCATAT
Found at i:113122 original size:21 final size:21
Alignment explanation
Indices: 113096--113142 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
113086 TAGGATCAAA
*
113096 AAAATTATTT-AATTTTAGTTT
1 AAAATTATTTAAAATTTA-TTT
*
113117 AAAATTCTTTAAAATTTATTT
1 AAAATTATTTAAAATTTATTT
113138 AAAAT
1 AAAAT
113143 CTATAATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (21 bp):
AAAATTATTTAAAATTTATTT
Found at i:120008 original size:21 final size:21
Alignment explanation
Indices: 119983--120024 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
119973 TTTTACTTGA
119983 TTTTGTTGGT-TGTTATTTGTG
1 TTTTGTT-GTATGTTATTTGTG
*
120004 TTTTGTTGTATTTTATTTGTG
1 TTTTGTTGTATGTTATTTGTG
120025 GACCTTCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.07, C:0.00, G:0.24, T:0.69
Consensus pattern (21 bp):
TTTTGTTGTATGTTATTTGTG
Found at i:122820 original size:60 final size:60
Alignment explanation
Indices: 122727--122929 Score: 232
Period size: 60 Copynumber: 3.4 Consensus size: 60
122717 AATGAAAAAT
*
122727 GTCCGATGATTATGTGTCATCGT-GAGTATTAAATGAAATGAATCCTTTATAGATTATAAG
1 GTCCGATGACTATGTGTCATC-TAGAGTATTAAATGAAATGAATCCTTTATAGATTATAAG
* * * * ** *
122787 GTCCGATGATTATGTGTCATCTAGAGAAATAAATGAAATGAATCATTTACGGATTATGAG
1 GTCCGATGACTATGTGTCATCTAGAGTATTAAATGAAATGAATCCTTTATAGATTATAAG
* * *
122847 GTCCGGTGACTATGTGTCATTGTA-AGTATTTAATGAGAAATGAATCCTATTATAGATTA-AAG
1 GTCCGATGACTATGTGTCA-TCTAGAGTATTAAAT--GAAATGAATCCT-TTATAGATTATAAG
*
122909 GTCCGATGACTCTGTGTCATC
1 GTCCGATGACTATGTGTCATC
122930 ATGAGTTACC
Statistics
Matches: 119, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
59 1 0.01
60 76 0.64
61 4 0.03
62 30 0.25
63 8 0.07
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (60 bp):
GTCCGATGACTATGTGTCATCTAGAGTATTAAATGAAATGAATCCTTTATAGATTATAAG
Found at i:127864 original size:19 final size:20
Alignment explanation
Indices: 127842--127879 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
127832 TTACTTAAAA
*
127842 CTTT-ATTTTCAAAATTTTT
1 CTTTCATTTCCAAAATTTTT
127861 CTTTCATTTCCAAAATTTT
1 CTTTCATTTCCAAAATTTT
127880 GCCATTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58
Consensus pattern (20 bp):
CTTTCATTTCCAAAATTTTT
Found at i:128246 original size:4 final size:4
Alignment explanation
Indices: 128237--128314 Score: 113
Period size: 4 Copynumber: 19.5 Consensus size: 4
128227 TTTGATTCAC
128237 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
* * *
128285 ATTT A-TT ATGTG ATTT ATCT ATTT GTTT AT
1 ATTT ATTT AT-TT ATTT ATTT ATTT ATTT AT
128315 CATTTTAGTC
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
3 3 0.05
4 60 0.91
5 3 0.05
ACGTcount: A:0.24, C:0.01, G:0.04, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:133490 original size:49 final size:49
Alignment explanation
Indices: 133455--133944 Score: 366
Period size: 49 Copynumber: 10.0 Consensus size: 49
133445 TCACAATGAT
* *
133455 GAATCTTTTACCCTAGAGATATGGAGGGAAAGATTGAAGCCGCAACGGC
1 GAATCTTATACCCTAGAGATATGGAGGGAAAGATTGAAGCCGCAACGAC
*** *
133504 GAATCTTATATTTTAGAGATAT-GATGGGAAAGATTGAAGTCGCAACGAC
1 GAATCTTATACCCTAGAGATATGGA-GGGAAAGATTGAAGCCGCAACGAC
* * * * * **
133553 AAATCTTGTA-CCTAGAGATATGGAGGAAAAGGTTGAAGCCGTAACGGT
1 GAATCTTATACCCTAGAGATATGGAGGGAAAGATTGAAGCCGCAACGAC
* * * * * * *
133601 AAACCTTATATACCCTAGAGATGTGGAGGGAGAGGTTGAAGCCGCAATGGC
1 GAATC-T-TATACCCTAGAGATATGGAGGGAAAGATTGAAGCCGCAACGAC
* * * * * *** *
133652 GAATCTTATACCTTAGAGATGTGAAGAGAAAGATTAAAGCTATAAAGAC
1 GAATCTTATACCCTAGAGATATGGAGGGAAAGATTGAAGCCGCAACGAC
* * *
133701 GAATCTTATACCCTAGAGATGTGGAGGGAAAGGTTGAAGCCGCAACGGC
1 GAATCTTATACCCTAGAGATATGGAGGGAAAGATTGAAGCCGCAACGAC
* * * *
133750 CAATCTTATACCTTAGA-A-ATGTGATGAGAAATATTGAAGCCGCAAC-AGC
1 GAATCTTATACCCTAGAGATATG-GA-GGGAAAGATTGAAGCCGCAACGA-C
* * * * *
133799 GAATTTTATACCCTAGAGATGTGAAAGGAAA-AGTTGAAGTCGCAAC-AGC
1 GAATCTTATACCCTAGAGATATGGAGGGAAAGA-TTGAAGCCGCAACGA-C
* * * * * * * * *
133848 AAATCTTATACCTTGGAGATGT-GATCGAAAATATTGAAGCAGCAACGGC
1 GAATCTTATACCCTAGAGATATGGA-GGGAAAGATTGAAGCCGCAACGAC
* * *
133897 GAATCTTATACCTTAGAGATGTGGAGGGAAAGATTGAAGCCACAACGA
1 GAATCTTATACCCTAGAGATATGGAGGGAAAGATTGAAGCCGCAACGA
133945 ACCCTAGAGA
Statistics
Matches: 346, Mismatches: 80, Indels: 30
0.76 0.18 0.07
Matches are distributed among these distances:
47 2 0.01
48 38 0.11
49 260 0.75
50 9 0.03
51 37 0.11
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (49 bp):
GAATCTTATACCCTAGAGATATGGAGGGAAAGATTGAAGCCGCAACGAC
Found at i:133853 original size:147 final size:148
Alignment explanation
Indices: 133456--133943 Score: 517
Period size: 147 Copynumber: 3.3 Consensus size: 148
133446 CACAATGATG
* * * **
133456 AATCTTTTACCCTAGAGATATGGAGGGAAAGATTGAAGCCGCAACGGCGAATCTTATATTTTAGA
1 AATCTTATACCTTAGAGATGTGGAGGGAAAGATTGAAGCCGCAACGGCGAATCTTATACCTTAGA
* * * * *
133521 GATATGATGGGAAAGATTGAAGTCGCAAC-GACAAATCTTGTA-CCTAGAGATATGGAGGAAAAG
66 GATGTGAAGGAAAAGATTGAAGTCGCAACAGACAAATCTTATACCCTAGAGATGTGGAGGAAAAG
* *
133584 GTTGAAGCCGTAACGGTA
131 GTTGAAGCCGCAACGGCA
* * * * *
133602 AACCTTATATACCCTAGAGATGTGGAGGGAGAGGTTGAAGCCGCAATGGCGAATCTTATACCTTA
1 AATC-T-TATACCTTAGAGATGTGGAGGGAAAGATTGAAGCCGCAACGGCGAATCTTATACCTTA
* * * * *
133667 GAGATGTGAA-GAGAAAGATTAAAG-C-TATAAAGACGAATCTTATACCCTAGAGATGTGGAGGG
64 GAGATGTGAAGGA-AAAGATTGAAGTCGCA-ACAGACAAATCTTATACCCTAGAGATGTGGAGGA
*
133729 AAAGGTTGAAGCCGCAACGGCC
127 AAAGGTTGAAGCCGCAACGGCA
* * * * * *
133751 AATCTTATACCTTAGAAATGT-GATGAGAAATATTGAAGCCGCAACAGCGAATTTTATACCCTAG
1 AATCTTATACCTTAGAGATGTGGA-GGGAAAGATTGAAGCCGCAACGGCGAATCTTATACCTTAG
* * *
133815 AGATGTGAAAGGAAAAG-TTGAAGTCGCAACAG-CAAATCTTATACCTTGGAGATGT-GATCGAA
65 AGATGTG-AAGGAAAAGATTGAAGTCGCAACAGACAAATCTTATACCCTAGAGATGTGGA-GGAA
** * *
133877 AATATTGAAGCAGCAACGGCG
128 AAGGTTGAAGCCGCAACGGCA
*
133898 AATCTTATACCTTAGAGATGTGGAGGGAAAGATTGAAGCCACAACG
1 AATCTTATACCTTAGAGATGTGGAGGGAAAGATTGAAGCCGCAACG
133944 AACCCTAGAG
Statistics
Matches: 280, Mismatches: 49, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
146 8 0.03
147 139 0.50
148 93 0.33
149 40 0.14
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (148 bp):
AATCTTATACCTTAGAGATGTGGAGGGAAAGATTGAAGCCGCAACGGCGAATCTTATACCTTAGA
GATGTGAAGGAAAAGATTGAAGTCGCAACAGACAAATCTTATACCCTAGAGATGTGGAGGAAAAG
GTTGAAGCCGCAACGGCA
Found at i:134228 original size:42 final size:42
Alignment explanation
Indices: 134168--134505 Score: 331
Period size: 42 Copynumber: 8.0 Consensus size: 42
134158 TACATCACGA
* * *
134168 CATCCAATTTTTTACCCCTAATCTAGAGGGGCAGATTGAAGT
1 CATCCAATCTTTTACCCCTAATCTAGAAGGGCAGATTGAAGC
* * * *
134210 TATCCAATCTTTTACCCCTAATCAAG-AGGGACAAATTGAAAC
1 CATCCAATCTTTTACCCCTAATCTAGAAGGG-CAGATTGAAGC
* * * * * * *
134252 CACCACTCAATCTTTAAACCCCTAATCCAGAAAGGCAAATTGAGGT
1 CA--TC-CAATCTTT-TACCCCTAATCTAGAAGGGCAGATTGAAGC
*
134298 CATCCAATCTTTTACCCTTAATCTAG--GGGACAGATTGAAGC
1 CATCCAATCTTTTACCCCTAATCTAGAAGGG-CAGATTGAAGC
* * *
134339 CATCCAGTCTTTTACCCCTAAGCTAGAGGGGCAGATTGAAGC
1 CATCCAATCTTTTACCCCTAATCTAGAAGGGCAGATTGAAGC
* * * * ** *
134381 CATCTAGTCTTTTAACCCTAATCAAGAAGGATAGATTAAAGC
1 CATCCAATCTTTTACCCCTAATCTAGAAGGGCAGATTGAAGC
* * * * *
134423 CATCCAATCTTTTAGCCCTAATCCAAAAGGGCAGATTAAAGT
1 CATCCAATCTTTTACCCCTAATCTAGAAGGGCAGATTGAAGC
134465 CATCCAATCTTTTACCCCTAATCTAGAAGGGCAGATTGAAG
1 CATCCAATCTTTTACCCCTAATCTAGAAGGGCAGATTGAAG
134506 TTATACACAC
Statistics
Matches: 241, Mismatches: 46, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
40 2 0.01
41 34 0.14
42 159 0.66
43 11 0.05
44 2 0.01
45 8 0.03
46 22 0.09
47 3 0.01
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (42 bp):
CATCCAATCTTTTACCCCTAATCTAGAAGGGCAGATTGAAGC
Found at i:134923 original size:22 final size:23
Alignment explanation
Indices: 134879--134926 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
134869 GTCCGGCTTA
*
134879 AAACAAAACAAACAAAAATAAAT
1 AAACAAAACAAACAAAAACAAAT
**
134902 AAAC-AAACAAACAAACCCAAAT
1 AAACAAAACAAACAAAAACAAAT
134924 AAA
1 AAA
134927 AAATCCTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.75, C:0.19, G:0.00, T:0.06
Consensus pattern (23 bp):
AAACAAAACAAACAAAAACAAAT
Found at i:135364 original size:17 final size:17
Alignment explanation
Indices: 135342--135374 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
135332 TATATATATC
135342 ATTTTATTTTCTATTTT
1 ATTTTATTTTCTATTTT
*
135359 ATTTTATTTTTTATTT
1 ATTTTATTTTCTATTT
135375 CGAAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (17 bp):
ATTTTATTTTCTATTTT
Found at i:136634 original size:4 final size:4
Alignment explanation
Indices: 136625--136663 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
136615 TTTGATTCAC
*
136625 ATTT ATTT ATTT ATTT ACTT ATTT ATTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
136664 ATGTGATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:139064 original size:25 final size:25
Alignment explanation
Indices: 138994--139065 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
138984 GCCTACACAA
*
138994 AATATCGCTCATACAAGCCAAACAG
1 AATATCGCTCATACAAGCCAGACAG
* * *
139019 GATATCGCTCATGCAATCCAGACAG
1 AATATCGCTCATACAAGCCAGACAG
* *
139044 AATATCGTTCATACGAGCCAGA
1 AATATCGCTCATACAAGCCAGA
139066 TATAAATACG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (25 bp):
AATATCGCTCATACAAGCCAGACAG
Found at i:139103 original size:27 final size:27
Alignment explanation
Indices: 139072--139125 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
139062 CAGATATAAA
*
139072 TACGCTCTTACTAGCCAAAATCAGAAT
1 TACGCTCTTACGAGCCAAAATCAGAAT
*
139099 TACGCTCTTACGAGCCAGAATCAGAAT
1 TACGCTCTTACGAGCCAAAATCAGAAT
139126 GCCTTCATCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (27 bp):
TACGCTCTTACGAGCCAAAATCAGAAT
Found at i:139776 original size:24 final size:24
Alignment explanation
Indices: 139746--139794 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
139736 AAATCACTAG
139746 AAACGGGTGAGAAATCACCTACCA
1 AAACGGGTGAGAAATCACCTACCA
139770 AAACGGGTGAGAAATCACCTACCA
1 AAACGGGTGAGAAATCACCTACCA
139794 A
1 A
139795 TCGAAGTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.24, G:0.20, T:0.12
Consensus pattern (24 bp):
AAACGGGTGAGAAATCACCTACCA
Found at i:141998 original size:15 final size:16
Alignment explanation
Indices: 141978--142007 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
141968 CTTCCCTATT
141978 TTCTA-TTTCTTTTAA
1 TTCTATTTTCTTTTAA
141993 TTCTATTTTCTTTTA
1 TTCTATTTTCTTTTA
142008 TCTTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTATTTTCTTTTAA
Found at i:142001 original size:22 final size:22
Alignment explanation
Indices: 141973--142029 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
141963 TTTGACTTCC
*
141973 CTATTTTCTATT-TCTTTTAATT
1 CTATTTTCTTTTATC-TTTAATT
141995 CTATTTTCTTTTATCTTTAA-T
1 CTATTTTCTTTTATCTTTAATT
142016 -TATGTTTCTTTTAT
1 CTAT-TTTCTTTTAT
142030 TTTTCCTCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 3 0.09
21 11 0.34
22 16 0.50
23 2 0.06
ACGTcount: A:0.18, C:0.12, G:0.02, T:0.68
Consensus pattern (22 bp):
CTATTTTCTTTTATCTTTAATT
Found at i:148488 original size:29 final size:29
Alignment explanation
Indices: 148456--148555 Score: 200
Period size: 29 Copynumber: 3.4 Consensus size: 29
148446 TCCACATGAG
148456 CGCTTTTTTGTAAAGAGCGTCCACGTGGA
1 CGCTTTTTTGTAAAGAGCGTCCACGTGGA
148485 CGCTTTTTTGTAAAGAGCGTCCACGTGGA
1 CGCTTTTTTGTAAAGAGCGTCCACGTGGA
148514 CGCTTTTTTGTAAAGAGCGTCCACGTGGA
1 CGCTTTTTTGTAAAGAGCGTCCACGTGGA
148543 CGCTTTTTTGTAA
1 CGCTTTTTTGTAA
148556 CTTCCACGTC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (29 bp):
CGCTTTTTTGTAAAGAGCGTCCACGTGGA
Found at i:150423 original size:29 final size:29
Alignment explanation
Indices: 150344--150424 Score: 108
Period size: 31 Copynumber: 2.7 Consensus size: 29
150334 TATTTTTTGG
* *
150344 TTTAATTTGATACTCAAACTTGACACTTT
1 TTTAATTTGGTACTTAAACTTGACACTTT
*
150373 TACCTAATTTGGTACTTAAACTTGACACTTT
1 T--TTAATTTGGTACTTAAACTTGACACTTT
*
150404 TTTAAGTTGGTACTTAAACTT
1 TTTAATTTGGTACTTAAACTT
150425 TTTCGGGTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
29 19 0.42
31 26 0.58
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (29 bp):
TTTAATTTGGTACTTAAACTTGACACTTT
Found at i:150764 original size:58 final size:58
Alignment explanation
Indices: 150643--150802 Score: 162
Period size: 59 Copynumber: 2.7 Consensus size: 58
150633 AATTGAATTT
* * * * * ** *
150643 AAAAAAAGCTTAGGTACTAAATTATGAAAAATGCCAAGTTTAGGTGTCAAATTGAGTC
1 AAAAAAAGTTTAGGTACCAAATAAAGAAAAATGCCAAGTTCAGGTACCAAATTGAGTA
*
150701 CAAAAAAGTTTAGGTACCAAATAAAGAAATAATGCCAAGTTCAGGTACCAAATT-AGGTA
1 AAAAAAAGTTTAGGTACCAAATAAAGAAA-AATGCCAAGTTCAGGTACCAAATTGA-GTA
* * *
150760 AAAAAAAGTATAAGTACCAAATTTAAA-AAAAATGTCAAGTTCA
1 AAAAAAAGTTTAGGTACCAAA--TAAAGAAAAATGCCAAGTTCA
150803 AATATCTAAT
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
58 25 0.29
59 53 0.62
60 3 0.04
61 4 0.05
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (58 bp):
AAAAAAAGTTTAGGTACCAAATAAAGAAAAATGCCAAGTTCAGGTACCAAATTGAGTA
Found at i:151391 original size:14 final size:13
Alignment explanation
Indices: 151362--151388 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
151352 AAATACAATC
151362 ATTTTTTTAAATA
1 ATTTTTTTAAATA
151375 ATTTTTTTAAATA
1 ATTTTTTTAAATA
151388 A
1 A
151389 ATTATGGTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTTTTAAATA
Found at i:152250 original size:20 final size:19
Alignment explanation
Indices: 152227--152298 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
152217 TAAATTTTCA
152227 AAAAATTATAAAAATATTAT
1 AAAAATTA-AAAAATATTAT
*
152247 AAAAAATAAAAAATCATTA-
1 AAAAATTAAAAAAT-ATTAT
*
152266 AAATCATTAAAAAAT-TTAT
1 AAA-AATTAAAAAATATTAT
*
152285 AAAAGTATAAAAAA
1 AAAAAT-TAAAAAA
152299 ATTTAAATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 4 0.09
19 19 0.44
20 20 0.47
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (19 bp):
AAAAATTAAAAAATATTAT
Found at i:152305 original size:38 final size:39
Alignment explanation
Indices: 152231--152306 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
152221 TTTTCAAAAA
152231 ATTATAAAAATATTATAAAAAATAAAAAATCATTAAAATC
1 ATTATAAAAATATTATAAAAAATAAAAAAT-ATTAAAATC
* *
152271 ATTA-AAAAAT-TTATAAAAGTATAAAAAA-ATTTAAAT
1 ATTATAAAAATATTATAAAA-AATAAAAAATATTAAAAT
152307 ATTTGTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
37 7 0.21
38 8 0.24
39 14 0.42
40 4 0.12
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (39 bp):
ATTATAAAAATATTATAAAAAATAAAAAATATTAAAATC
Found at i:153777 original size:22 final size:22
Alignment explanation
Indices: 153752--153796 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
153742 GTTTAGAAAT
153752 TTAATGA-TAAAAAATATAATTA
1 TTAATGATTAAAAAA-ATAATTA
* *
153774 TTAATTATTAAAAAAATATTTA
1 TTAATGATTAAAAAAATAATTA
153796 T
1 T
153797 ATTTTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAATGATTAAAAAAATAATTA
Found at i:153792 original size:24 final size:25
Alignment explanation
Indices: 153760--153820 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 25
153750 ATTTAATGAT
* *
153760 AAAAAATATA-ATTATTAATTATTA
1 AAAAAATATATATTATTAAATAATA
*
153784 AAAAAATATTTATATTTTTAAATAATA
1 AAAAAATA--TATATTATTAAATAATA
153811 AAAAAATATA
1 AAAAAATATA
153821 GGTAAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 8 0.26
25 2 0.06
26 2 0.06
27 19 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
AAAAAATATATATTATTAAATAATA
Found at i:156078 original size:3 final size:3
Alignment explanation
Indices: 156070--156101 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
156060 GAATAGATTG
156070 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
156102 ATTAACTTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:157154 original size:18 final size:20
Alignment explanation
Indices: 157117--157156 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
157107 GTTCCAAAAT
*
157117 AATTCAAAATAATTTTTAAA
1 AATTCAAAATAATTTATAAA
157137 AATTC-AAAT-ATTTATAAA
1 AATTCAAAATAATTTATAAA
157155 AA
1 AA
157157 ATAAAAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 4 0.21
20 5 0.26
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTCAAAATAATTTATAAA
Found at i:157497 original size:25 final size:25
Alignment explanation
Indices: 157421--157499 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
157411 ATTTAATATT
* *
157421 TAAATTTT-TTGATTTAGTTC-AAA
1 TAAATTTTATTAATTTAATTCGAAA
* **
157444 T-AATTTTATTCAATTTGATTCGATC
1 TAAATTTTATT-AATTTAATTCGAAA
157469 TAAATTTTATTAATTTAATTCGAAA
1 TAAATTTTATTAATTTAATTCGAAA
157494 TAAATT
1 TAAATT
157500 AAAAAAATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
22 6 0.14
23 3 0.07
24 7 0.16
25 19 0.43
26 9 0.20
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (25 bp):
TAAATTTTATTAATTTAATTCGAAA
Found at i:163253 original size:20 final size:21
Alignment explanation
Indices: 163220--163258 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
163210 CAAGCTTCCA
* *
163220 AACATCTTAGAAAATGTTTTG
1 AACATCTTAAAAAAAGTTTTG
163241 AACA-CTTAAAAAAAGTTT
1 AACATCTTAAAAAAAGTTT
163259 GGACAAAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (21 bp):
AACATCTTAAAAAAAGTTTTG
Found at i:163574 original size:21 final size:21
Alignment explanation
Indices: 163548--163588 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
163538 CAAACAATTA
* *
163548 CAAAAAGTATTGATATCTTTT
1 CAAAAAGTATCGATACCTTTT
163569 CAAAAAGTATCGATACCTTT
1 CAAAAAGTATCGATACCTTT
163589 AACAGGTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (21 bp):
CAAAAAGTATCGATACCTTTT
Found at i:166651 original size:17 final size:17
Alignment explanation
Indices: 166626--166666 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
166616 CTTTAACAGG
166626 TGAGCTCGCACACTTGA
1 TGAGCTCGCACACTTGA
* **
166643 TGTGCTCGCAGTCTTGA
1 TGAGCTCGCACACTTGA
166660 TGAGCTC
1 TGAGCTC
166667 ACAGTCTTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.17, C:0.27, G:0.27, T:0.29
Consensus pattern (17 bp):
TGAGCTCGCACACTTGA
Found at i:166671 original size:17 final size:17
Alignment explanation
Indices: 166638--166682 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
166628 AGCTCGCACA
* *
166638 CTTGATGTGCTCGCAGT
1 CTTGATGAGCTCACAGT
166655 CTTGATGAGCTCACAGT
1 CTTGATGAGCTCACAGT
*
166672 CTTGGTGAGCT
1 CTTGATGAGCT
166683 AGCACTCTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (17 bp):
CTTGATGAGCTCACAGT
Found at i:170321 original size:31 final size:30
Alignment explanation
Indices: 170283--170351 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 30
170273 ATTATATGAA
170283 TAGTTATTCAATTA-TGAGAGTGTTTTTATTT
1 TAGTTATTCAATTATTGA-AGTGTTTTTA-TT
* *
170314 TAGTTATTTAATTATTGAAGTTTTTTTATT
1 TAGTTATTCAATTATTGAAGTGTTTTTATT
170344 TAGTTATT
1 TAGTTATT
170352 AAAATTTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 10 0.29
31 22 0.63
32 3 0.09
ACGTcount: A:0.26, C:0.01, G:0.13, T:0.59
Consensus pattern (30 bp):
TAGTTATTCAATTATTGAAGTGTTTTTATT
Found at i:170343 original size:22 final size:22
Alignment explanation
Indices: 170317--170360 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
170307 TTTATTTTAG
* *
170317 TTATTTAATTATTGAAGTTTTT
1 TTATTTAATTATTAAAATTTTT
*
170339 TTATTTAGTTATTAAAATTTTT
1 TTATTTAATTATTAAAATTTTT
170361 GAAATTAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (22 bp):
TTATTTAATTATTAAAATTTTT
Found at i:170363 original size:31 final size:31
Alignment explanation
Indices: 170283--170363 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
170273 ATTATATGAA
* *
170283 TAGTTATTCAATTA-TGAGAGTGTTTTTATTT
1 TAGTTATTAAATTATTGA-AGTTTTTTTATTT
*
170314 TAGTTATTTAATTATTGAAGTTTTTTTA-TT
1 TAGTTATTAAATTATTGAAGTTTTTTTATTT
*
170344 TAGTTATTAAAATTTTTGAA
1 TAGTTATT-AAATTATTGAA
170364 ATTAGATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
30 10 0.23
31 31 0.70
32 3 0.07
ACGTcount: A:0.30, C:0.01, G:0.12, T:0.57
Consensus pattern (31 bp):
TAGTTATTAAATTATTGAAGTTTTTTTATTT
Found at i:176574 original size:21 final size:21
Alignment explanation
Indices: 176550--176592 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
176540 TGAAAAGAAC
176550 TTGTTAGATCAAACATAACTA
1 TTGTTAGATCAAACATAACTA
176571 TTGTTAGATCAAACATAACTA
1 TTGTTAGATCAAACATAACTA
176592 T
1 T
176593 GTAAACTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (21 bp):
TTGTTAGATCAAACATAACTA
Found at i:182592 original size:10 final size:10
Alignment explanation
Indices: 182577--182627 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
182567 ACTTCATGAT
*
182577 ATTTTTATAA
1 ATTTTTTTAA
*
182587 ATTTTTTTAT
1 ATTTTTTTAA
182597 ATTTTTTTAA
1 ATTTTTTTAA
*
182607 ATTTTGTGTAA
1 ATTTT-TTTAA
182618 ATTATTTTTA
1 ATT-TTTTTA
182628 TAAAAGTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
10 22 0.65
11 10 0.29
12 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:183043 original size:23 final size:23
Alignment explanation
Indices: 183017--183061 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
183007 TATAATTTTT
* * *
183017 TTGAATTTTTTGATTTTTTTAAA
1 TTGAAATTTTTGAATATTTTAAA
183040 TTGAAATTTTTGAATATTTTAA
1 TTGAAATTTTTGAATATTTTAA
183062 TTATTTTAAA
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:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (23 bp):
TTGAAATTTTTGAATATTTTAAA
Found at i:184089 original size:13 final size:12
Alignment explanation
Indices: 184052--184095 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
184042 TACAATTTTT
*
184052 TTATTTTACAAA
1 TTATTTTAAAAA
*
184064 TAATTTTAAAAA
1 TTATTTTAAAAA
184076 TTATTTTAAAAAA
1 TTATTTT-AAAAA
184089 TTATTTT
1 TTATTTT
184096 TTAGTATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 16 0.57
13 12 0.43
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (12 bp):
TTATTTTAAAAA
Found at i:185626 original size:142 final size:142
Alignment explanation
Indices: 185370--185653 Score: 487
Period size: 142 Copynumber: 2.0 Consensus size: 142
185360 CATTTGCGCT
*
185370 TTATCTAATAGTTGTACAATTCAAATTGTTGAATCAAATCATTCTCTAAGTAAGGCTTCGCAGAT
1 TTATCTAATAGTTGTACAATTCAAATTGTTGAATCAAATCATTCTCTAAGCAAGGCTTCGCAGAT
185435 GTAAAACTGTTATGTCTTAACCACATTAACAAATATTGTGTGTTATCTCTCCTTATTTTACTCCT
66 GTAAAACTGTTATGTCTTAACCACATTAACAAATATTGTGTGTTATCTCTCCTTATTTTACTCCT
185500 CGCGTTACTTTG
131 CGCGTTACTTTG
* * *
185512 TTATCTAATAGTTGTACAATTCAAATTGTTGAATCAAATCATTCTTTAAGCAAGGTTTCGTAGAT
1 TTATCTAATAGTTGTACAATTCAAATTGTTGAATCAAATCATTCTCTAAGCAAGGCTTCGCAGAT
* * * * *
185577 GTAAAATTGTTGTGTCTTAACCACATTAACAAATATTGTTTGTTATCTCTCCTTATTTTATTTCT
66 GTAAAACTGTTATGTCTTAACCACATTAACAAATATTGTGTGTTATCTCTCCTTATTTTACTCCT
185642 CGCGTTACTTTG
131 CGCGTTACTTTG
185654 CATTTAACTT
Statistics
Matches: 133, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 133 1.00
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.42
Consensus pattern (142 bp):
TTATCTAATAGTTGTACAATTCAAATTGTTGAATCAAATCATTCTCTAAGCAAGGCTTCGCAGAT
GTAAAACTGTTATGTCTTAACCACATTAACAAATATTGTGTGTTATCTCTCCTTATTTTACTCCT
CGCGTTACTTTG
Found at i:193447 original size:49 final size:49
Alignment explanation
Indices: 193356--193481 Score: 135
Period size: 49 Copynumber: 2.6 Consensus size: 49
193346 ATGGAACTTG
* * * *
193356 AACCCGTGATCACATAACCACCGTTAATTAGGTTCTCAAGTTATACTCC
1 AACCCGTGATCACATAACTACAGTCAATTAGGCTCTCAAGTTATACTCC
* ** *
193405 AACCCGTGATCACATAACTACAGTCAATTGGGCTCTTGAGTTATACTCT
1 AACCCGTGATCACATAACTACAGTCAATTAGGCTCTCAAGTTATACTCC
* ** * *
193454 AACCCATGATTGCATAAATACTGTCAAT
1 AACCCGTGATCACATAACTACAGTCAAT
193482 CAAGGGCCCT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 64 1.00
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.29
Consensus pattern (49 bp):
AACCCGTGATCACATAACTACAGTCAATTAGGCTCTCAAGTTATACTCC
Found at i:199823 original size:31 final size:30
Alignment explanation
Indices: 199785--199860 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 30
199775 TATTTGGTTC
*
199785 AATTTGATACTTAAATTTGACATTTTTTCTT
1 AATTTGATACTTAAATTTGACACTTTTT-TT
*
199816 AATTTGATACCTAAATTTGACACTTTTTTT
1 AATTTGATACTTAAATTTGACACTTTTTTT
*
199846 AAGTTGATACTTAAA
1 AATTTGATACTTAAA
199861 CTTTTTGGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 15 0.37
31 26 0.63
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.49
Consensus pattern (30 bp):
AATTTGATACTTAAATTTGACACTTTTTTT
Found at i:203457 original size:88 final size:87
Alignment explanation
Indices: 203364--203611 Score: 330
Period size: 88 Copynumber: 2.9 Consensus size: 87
203354 ATACATTTTA
* * * *
203364 ACATTGTTAGATTTTCAAATTTTTAATGCCTTAAACCTTATTGAAATTTGTTAAATTTGTAATTT
1 ACATTGTTAAATTCTCAAATTTTTAAT-CCTTAAACCTTATTGAAATCTGTTAAATTTATAATTT
203429 TTACTTTTCTTCATACAAACATT
65 TTACTTTTCTTCATACAAACATT
* * *
203452 ACATTGTTAAATTCTCAAATTTTTAATACCTTAAATCTTATTGAAATCTGTTAAATCTACAATTT
1 ACATTGTTAAATTCTCAAATTTTTAAT-CCTTAAACCTTATTGAAATCTGTTAAATTTATAATTT
*
203517 TTACTTTTCTTCATACAAACTTT
65 TTACTTTTCTTCATACAAACATT
* * *
203540 ACATTATTAAATTCTCAAATTTTT--T-C----ACCTTATTGAAATCTGTTAAATTAATAAATTT
1 ACATTGTTAAATTCTCAAATTTTTAATCCTTAAACCTTATTGAAATCTGTTAAATTTATAATTTT
203598 TACTTTTCTTCATA
66 TACTTTTCTTCATA
203612 ATTTTTCTCT
Statistics
Matches: 145, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
80 41 0.28
84 1 0.01
86 1 0.01
88 102 0.70
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.48
Consensus pattern (87 bp):
ACATTGTTAAATTCTCAAATTTTTAATCCTTAAACCTTATTGAAATCTGTTAAATTTATAATTTT
TACTTTTCTTCATACAAACATT
Found at i:204087 original size:18 final size:17
Alignment explanation
Indices: 204061--204094 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
204051 ATTGTAATTG
204061 TTTCACTTTTCAACATAT
1 TTTCACTTTTC-ACATAT
*
204079 TTTCTCTTTTCACATA
1 TTTCACTTTTCACATA
204095 GTTTACATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTCACTTTTCACATAT
Found at i:204232 original size:21 final size:21
Alignment explanation
Indices: 204206--204272 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
204196 TTGAATTTTG
204206 AAATTTTACTTTTCTTCATAC
1 AAATTTTACTTTTCTTCATAC
204227 AAATTTTACTTTTCTTCATAC
1 AAATTTTACTTTTCTTCATAC
204248 AAA--TTA-TTTTCTTCATAC
1 AAATTTTACTTTTCTTCATAC
*
204266 AATTTTT
1 AAATTTT
204273 TTAAACCTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
18 14 0.33
19 3 0.07
20 2 0.05
21 24 0.56
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.54
Consensus pattern (21 bp):
AAATTTTACTTTTCTTCATAC
Found at i:206857 original size:24 final size:24
Alignment explanation
Indices: 206837--206890 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
206827 TTTTAAATTA
206837 AAATTAAATTA-AAAGAATAAAATT
1 AAATTAAATTATAAA-AATAAAATT
* *
206861 AAATTTAATTATAAAAATCAAATT
1 AAATTAAATTATAAAAATAAAATT
*
206885 TAATTA
1 AAATTA
206891 TGTTAAAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATTAAATTATAAAAATAAAATT
Found at i:206877 original size:19 final size:19
Alignment explanation
Indices: 206855--206891 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
206845 TTAAAAGAAT
*
206855 AAAATTAAATTTAATTATA
1 AAAATCAAATTTAATTATA
206874 AAAATCAAATTTAATTAT
1 AAAATCAAATTTAATTAT
206892 GTTAAAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATCAAATTTAATTATA
Found at i:213658 original size:29 final size:29
Alignment explanation
Indices: 213585--213674 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 29
213575 AAAATGTGAA
* *
213585 TTTGGATACTTGGGGGCAAAA-TGGTAAT
1 TTTGGAAACTCGGGGGCAAAAGTGGTAAT
**
213613 TTTGGTCACTCGAGGGG-AAAAGTGGTAAT
1 TTTGGAAACTCG-GGGGCAAAAGTGGTAAT
*
213642 TTTGGGAAAGTCGGGGGTCAAAAGTGG-AAT
1 TTT-GGAAACTCGGGGG-CAAAAGTGGTAAT
213672 TTT
1 TTT
213675 TAGACATCCG
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
28 13 0.25
29 18 0.35
30 12 0.24
31 8 0.16
ACGTcount: A:0.28, C:0.08, G:0.34, T:0.30
Consensus pattern (29 bp):
TTTGGAAACTCGGGGGCAAAAGTGGTAAT
Found at i:213737 original size:30 final size:29
Alignment explanation
Indices: 213701--213885 Score: 101
Period size: 30 Copynumber: 6.2 Consensus size: 29
213691 AAATGGTACG
*
213701 TTTTGGAAGAATCGGGGTAAAAAATGGAAT
1 TTTTGGAAGAATCAGGGT-AAAAATGGAAT
* * *
213731 TTTTGGAAG-TTTAGGGGT-AAAATGGTCATT
1 TTTTGGAAGAATCA-GGGTAAAAATGG--AAT
* * *
213761 TTTTGGAAAAATTAGGGTCAAAAATGAAAT
1 TTTTGGAAGAATCAGGGT-AAAAATGGAAT
* * ** *
213791 TTTAGAAAGTTTAAGGGT-AAAATGGTAAT
1 TTTTGGAAGAATCAGGGTAAAAATGG-AAT
* *
213820 TTTTAGAAAAATCAGGGTTAAAAATGGAA-
1 TTTTGGAAGAATCAGGG-TAAAAATGGAAT
** *
213849 TTTTGGAAAGTTTC-GGAGTAAAAATGTAAT
1 TTTTGG-AAGAATCAGG-GTAAAAATGGAAT
213879 TTTTGGA
1 TTTTGGA
213886 CAGTTTAGGG
Statistics
Matches: 116, Mismatches: 27, Indels: 25
0.69 0.16 0.15
Matches are distributed among these distances:
28 13 0.11
29 32 0.28
30 55 0.47
31 10 0.09
32 6 0.05
ACGTcount: A:0.39, C:0.03, G:0.25, T:0.34
Consensus pattern (29 bp):
TTTTGGAAGAATCAGGGTAAAAATGGAAT
Found at i:213761 original size:29 final size:29
Alignment explanation
Indices: 213686--213777 Score: 78
Period size: 30 Copynumber: 3.1 Consensus size: 29
213676 AGACATCCGA
* *
213686 GGGTAAAATGGTACGTTTTGGAAGAATCG
1 GGGTAAAATGGTACTTTTTGGAAGAATAG
* **
213715 GGGTAAAAAATGG-AATTTTTGGAAGTTTAG
1 GGGT--AAAATGGTACTTTTTGGAAGAATAG
* *
213745 GGGTAAAATGGTCATTTTTTGGAAAAATTAG
1 GGGTAAAATGGT-ACTTTTTGGAAGAA-TAG
213776 GG
1 GG
213778 TCAAAAATGA
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
28 7 0.14
29 4 0.08
30 26 0.53
31 12 0.24
ACGTcount: A:0.34, C:0.03, G:0.32, T:0.32
Consensus pattern (29 bp):
GGGTAAAATGGTACTTTTTGGAAGAATAG
Found at i:213793 original size:60 final size:59
Alignment explanation
Indices: 213686--213885 Score: 224
Period size: 59 Copynumber: 3.4 Consensus size: 59
213676 AGACATCCGA
** * *
213686 GGGTAAAATGGTACGTTTTGGAAGAATCGGGGTAAAAAATGGAATTTTTGGAAGTTTAG
1 GGGTAAAATGGTAATTTTTGGAAAAATCAGGGTAAAAAATGGAATTTTTGGAAGTTTAG
* * * * * * *
213745 GGGTAAAATGGTCATTTTTTGGAAAAATTAGGGTCAAAAATGAAATTTTAGAAAGTTTAA
1 GGGTAAAATGGT-AATTTTTGGAAAAATCAGGGTAAAAAATGGAATTTTTGGAAGTTTAG
* * *
213805 GGGTAAAATGGTAATTTTTAGAAAAATCAGGGTTAAAAATGGAA-TTTTGGAAAGTTTCG
1 GGGTAAAATGGTAATTTTTGGAAAAATCAGGGTAAAAAATGGAATTTTTGG-AAGTTTAG
*
213864 GAGTAAAAAT-GTAATTTTTGGA
1 GGGT-AAAATGGTAATTTTTGGA
213886 CAGTTTAGGG
Statistics
Matches: 117, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
58 4 0.03
59 59 0.50
60 54 0.46
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.33
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTGGAAAAATCAGGGTAAAAAATGGAATTTTTGGAAGTTTAG
Found at i:214959 original size:3 final size:3
Alignment explanation
Indices: 214951--215014 Score: 58
Period size: 3 Copynumber: 21.0 Consensus size: 3
214941 TGACTTCCCT
* *
214951 TTA TTA TTA TTA TTA TTA TTAA CTA TTA TTA TTA ATA TTTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA -TTA TTA TTA
* * *
214997 TTA TAA ATA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA
215015 ATGCTTTTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
2 2 0.04
3 44 0.88
4 4 0.08
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:214979 original size:13 final size:12
Alignment explanation
Indices: 214951--215014 Score: 71
Period size: 12 Copynumber: 5.5 Consensus size: 12
214941 TGACTTCCCT
*
214951 TTATTATTATTA
1 TTATTATTAATA
214963 TTATTATTAACTA
1 TTATTATTAA-TA
214976 TTATTATTAATA
1 TTATTATTAATA
214988 -T-TTATT-ATA
1 TTATTATTAATA
* *
214997 TTATAAATAATA
1 TTATTATTAATA
215009 TTATTA
1 TTATTA
215015 ATGCTTTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
9 3 0.07
10 6 0.14
11 4 0.09
12 19 0.43
13 12 0.27
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTATTAATA
Found at i:214979 original size:16 final size:15
Alignment explanation
Indices: 214958--215014 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
214948 CCTTTATTAT
*
214958 TATTATTATTATTAAC
1 TATTATTATTA-TAAA
**
214974 TATTATTATTAATATT
1 TATTATTATT-ATAAA
214990 TATTA-TATTATAAA
1 TATTATTATTATAAA
*
215004 TAATATTATTA
1 TATTATTATTA
215015 ATGCTTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
14 7 0.21
15 9 0.26
16 17 0.50
17 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTATTATTATAAA
Found at i:215716 original size:6 final size:6
Alignment explanation
Indices: 215700--215741 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
215690 TGGACTTTTT
* * *
215700 ATTTAA TTTTAA ATTTAA ATTCAA A-TTAA ATTTAA ACTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
215742 AGAAAAAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (6 bp):
ATTTAA
Found at i:215773 original size:17 final size:18
Alignment explanation
Indices: 215709--215774 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 18
215699 TATTTAATTT
* *
215709 TAAATTTAAA-TTCAAAT
1 TAAATTTAAACTTAAAAA
215726 TAAATTTAAACTTAAAAGAA
1 TAAATTTAAACTT-AAA-AA
* *
215746 AAAAGTTTAAACTT-AAAC
1 TAAA-TTTAAACTTAAAAA
215764 TAAATTTAAAC
1 TAAATTTAAAC
215775 CCAAAATGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
17 17 0.43
18 6 0.15
19 4 0.10
20 4 0.10
21 9 0.22
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (18 bp):
TAAATTTAAACTTAAAAA
Found at i:216549 original size:49 final size:48
Alignment explanation
Indices: 216487--216757 Score: 240
Period size: 49 Copynumber: 5.5 Consensus size: 48
216477 ACATAAACCC
* * * *
216487 TTCCCTTTGTGTCTTTGCGGTACTGGATCCGCCGTTGCGGCTTAGATCT
1 TTCCC-TTATGTCTTTGAGGTACTGGATTCGCCATTGCGGCTTAGATCT
* * * *
216536 TTCCCTTAATGTCTTTGAGGTAC-GAGGTTCGCCATTGCGACTTAAACCT
1 TTCCCTT-ATGTCTTTGAGGTACTG-GATTCGCCATTGCGGCTTAGATCT
* * *
216585 TTCCCTTATGTCTTTGTGGTACTAGATTCGTCATTGCGGCTTAGATCT
1 TTCCCTTATGTCTTTGAGGTACTGGATTCGCCATTGCGGCTTAGATCT
* * * * *
216633 TTCCCTTCATGTCTTCTGAGGTACTAGG-TTTGCCATTACGACTTAAACCT
1 TTCCCTT-ATGTCTT-TGAGGTACT-GGATTCGCCATTGCGGCTTAGATCT
* * * * *
216683 TTCCCTTGTGTCTTCATTGCGGTACTGGATCCACCGTTGCGGCTTAGATCT
1 TTCCCTTATGTC-T--TTGAGGTACTGGATTCGCCATTGCGGCTTAGATCT
*
216734 TTCCCTTCATGTCTCTGAGGTACT
1 TTCCCTT-ATGTCTTTGAGGTACT
216758 AGGTTCTCCG
Statistics
Matches: 175, Mismatches: 36, Indels: 22
0.75 0.15 0.09
Matches are distributed among these distances:
48 43 0.25
49 62 0.35
50 34 0.19
51 31 0.18
52 5 0.03
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (48 bp):
TTCCCTTATGTCTTTGAGGTACTGGATTCGCCATTGCGGCTTAGATCT
Found at i:216589 original size:98 final size:97
Alignment explanation
Indices: 216475--216796 Score: 446
Period size: 98 Copynumber: 3.3 Consensus size: 97
216465 TTCGCTGTTA
* *
216475 CGACATAAACCCTTCCCTTTGTGTCTTTGCGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCC
1 CGACTTAAACCTTTCCC-TTGTGTCTTTGCGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCC
* *
216540 CTTAATGTCTTTGAGGTACGAGGTTCGCCATTG
65 CTTCATGTCTTTGAGGTACTAGGTTCGCCATTG
* * * * * *
216573 CGACTTAAACCTTTCCCTTATGTCTTTGTGGTACTAGATTCGTCATTGCGGCTTAGATCTTTCCC
1 CGACTTAAACCTTTCCCTTGTGTCTTTGCGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCC
* *
216638 TTCATGTCTTCTGAGGTACTAGGTTTGCCATTA
66 TTCATGTCTT-TGAGGTACTAGGTTCGCCATTG
*
216671 CGACTTAAACCTTTCCCTTGTGTCTTCATTGCGGTACTGGATCCACCGTTGCGGCTTAGATCTTT
1 CGACTTAAACCTTTCCCTTGTGTC-T--TTGCGGTACTGGATCCGCCGTTGCGGCTTAGATCTTT
* * *
216736 CCCTTCATGTCTCTGAGGTACTAGGTTCTCCGTTG
63 CCCTTCATGTCTTTGAGGTACTAGGTTCGCCATTG
*
216771 TGACTTAAACCTTTCCCTTGTGTCTT
1 CGACTTAAACCTTTCCCTTGTGTCTT
216797 AACTGCGGTA
Statistics
Matches: 195, Mismatches: 25, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
97 52 0.27
98 57 0.29
99 2 0.01
100 41 0.21
101 43 0.22
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (97 bp):
CGACTTAAACCTTTCCCTTGTGTCTTTGCGGTACTGGATCCGCCGTTGCGGCTTAGATCTTTCCC
TTCATGTCTTTGAGGTACTAGGTTCGCCATTG
Found at i:216769 original size:49 final size:48
Alignment explanation
Indices: 216534--216795 Score: 224
Period size: 49 Copynumber: 5.3 Consensus size: 48
216524 CGGCTTAGAT
* * *
216534 CTTTCCCTTAATGTCTTTGAGGTACGAGGTTCGCCATTGCGACTTAAAC
1 CTTTCCCTT-ATGTCTCTGAGGTACTAGGTTCTCCATTGCGACTTAAAC
* * * * * *
216583 CTTTCCCTTATGTCTTTGTGGTACTAGATTCGT-CATTGCGGCTTAGAT
1 CTTTCCCTTATGTCTCTGAGGTACTAGGTTC-TCCATTGCGACTTAAAC
*
216631 CTTTCCCTTCATGTCTTCTGAGGTACTAGGTT-TGCCATTACGACTTAAAC
1 CTTTCCCTT-ATGTC-TCTGAGGTACTAGGTTCT-CCATTGCGACTTAAAC
* * * * * * * *
216681 CTTTCCCTTGTGTCTTCATTGCGGTACT-GGATCCACCGTTGCGGCTTAGAT
1 CTTTCCCTTATGTC-TC--TGAGGTACTAGG-TTCTCCATTGCGACTTAAAC
* *
216732 CTTTCCCTTCATGTCTCTGAGGTACTAGGTTCTCCGTTGTGACTTAAAC
1 CTTTCCCTT-ATGTCTCTGAGGTACTAGGTTCTCCATTGCGACTTAAAC
*
216781 CTTTCCCTTGTGTCT
1 CTTTCCCTTATGTCT
216796 TAACTGCGGT
Statistics
Matches: 170, Mismatches: 32, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
48 46 0.27
49 52 0.31
50 37 0.22
51 31 0.18
52 4 0.02
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.39
Consensus pattern (48 bp):
CTTTCCCTTATGTCTCTGAGGTACTAGGTTCTCCATTGCGACTTAAAC
Found at i:220934 original size:19 final size:18
Alignment explanation
Indices: 220907--220945 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
220897 AAAGTAAATT
*
220907 TAAGAATGATTGTATGGTA
1 TAAGAATGAGTGTAT-GTA
*
220926 TAAGTATGAGTGTATGTA
1 TAAGAATGAGTGTATGTA
220944 TA
1 TA
220946 CAAAATTCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (18 bp):
TAAGAATGAGTGTATGTA
Found at i:221427 original size:18 final size:18
Alignment explanation
Indices: 221399--221440 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
221389 AAGTCATGCT
221399 TTTCTCATCTCTTGCTTCC
1 TTTC-CATCTCTTGCTTCC
* *
221418 TTTCCATCTCTTTCTTCT
1 TTTCCATCTCTTGCTTCC
221436 TTTCC
1 TTTCC
221441 TTCACATCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.05, C:0.36, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTCCATCTCTTGCTTCC
Found at i:225245 original size:13 final size:13
Alignment explanation
Indices: 225227--225254 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
225217 CCTGGGCATC
225227 TTGAAACTTGTTT
1 TTGAAACTTGTTT
225240 TTGAAACTTGTTT
1 TTGAAACTTGTTT
225253 TT
1 TT
225255 CCAGTGACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (13 bp):
TTGAAACTTGTTT
Found at i:228372 original size:28 final size:29
Alignment explanation
Indices: 228333--228404 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
228323 ATCGGAGTTA
* *
228333 AAAAT-GTGATTTTGGAT-ACCCG-GGGGT
1 AAAATGGTAATTTTGG-TCACCCGAGGGGG
*
228360 AAAATGGTAATTTTGGTCACTCGAGGGGG
1 AAAATGGTAATTTTGGTCACCCGAGGGGG
*
228389 AAAATGATAATTTTGG
1 AAAATGGTAATTTTGG
228405 GAAAGTCAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 6 0.16
28 13 0.34
29 19 0.50
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (29 bp):
AAAATGGTAATTTTGGTCACCCGAGGGGG
Found at i:228579 original size:117 final size:117
Alignment explanation
Indices: 228449--228694 Score: 309
Period size: 117 Copynumber: 2.1 Consensus size: 117
228439 TCCAAGGGTG
* * * *
228449 AAATGGTACTTTTTGGAAGAATCGAGGTCAAAAATGGAATTTTTAG-AAGTTTACGGGT-AAATG
1 AAAT-GTAATTTTTGGAAAAATCAAGGTCAAAAATGGAA-TTTTAGAAAGTTTAAGGGTAAAATG
* ** * *
228512 GTAATTTTT-GAAAAATTGGGGTCAAAAATGGAATTTTGGAAAGTTCGAGCGTAA
64 ATAATTTTTAGAAAAATTAAGGT-AAAAATGGAATTTTAGAAAGTTCGAGCGCAA
* *
228566 AAAGTGTAATTTTTGGAAAAATCAAGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTAAAATGA
1 AAA-TGTAATTTTTGGAAAAATCAAGGTCAAAAATGGAATTTTAGAAAGTTTAAGGGTAAAATGA
* * *
228631 TATTTTTTAGAAAAATTAAGGTTAAAATGGAATTTTAGAAAGTTCGAGGGCAA
65 TAATTTTTAGAAAAATTAAGGTAAAAATGGAATTTTAGAAAGTTCGAGCGCAA
228684 AAATGTAATTT
1 AAATGTAATTT
228695 CTAAATAGTT
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
116 5 0.05
117 52 0.47
118 43 0.39
119 11 0.10
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.33
Consensus pattern (117 bp):
AAATGTAATTTTTGGAAAAATCAAGGTCAAAAATGGAATTTTAGAAAGTTTAAGGGTAAAATGAT
AATTTTTAGAAAAATTAAGGTAAAAATGGAATTTTAGAAAGTTCGAGCGCAA
Found at i:228607 original size:30 final size:30
Alignment explanation
Indices: 228507--228666 Score: 111
Period size: 30 Copynumber: 5.4 Consensus size: 30
228497 GTTTACGGGT
** *
228507 AAATGGTAATTTTT-GAAAAATTGGGGTCAA
1 AAATGG-AATTTTTGGAAAAATTAAGGTTAA
* *
228537 AAATGGAA-TTTTGG-AAAGTTCGAGCG-TAA
1 AAATGGAATTTTTGGAAAAATT-AAG-GTTAA
* *
228566 AAAGTGTAATTTTTGGAAAAATCAAGGTTAA
1 AAA-TGGAATTTTTGGAAAAATTAAGGTTAA
** *
228597 AAATGGAA-TTTTGGAAAGTTTAAGGGT-A
1 AAATGGAATTTTTGGAAAAATTAAGGTTAA
*
228625 AAAT-GATATTTTTTAGAAAAATTAAGGTT-A
1 AAATGGA-A-TTTTTGGAAAAATTAAGGTTAA
228655 AAATGGAATTTT
1 AAATGGAATTTT
228667 AGAAAGTTCG
Statistics
Matches: 103, Mismatches: 16, Indels: 23
0.73 0.11 0.16
Matches are distributed among these distances:
27 2 0.02
28 15 0.15
29 29 0.28
30 37 0.36
31 16 0.16
32 4 0.04
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.34
Consensus pattern (30 bp):
AAATGGAATTTTTGGAAAAATTAAGGTTAA
Found at i:228687 original size:59 final size:58
Alignment explanation
Indices: 228507--228694 Score: 209
Period size: 59 Copynumber: 3.2 Consensus size: 58
228497 GTTTACGGGT
*** * *
228507 AAATGGTAATTTTT-GAAAAATTGGGGTCAAAAATGGAATTTTGGAAAGTTCGAGCGTAA
1 AAAT-GTAATTTTTAGAAAAATCAAGGTTAAAAATGGAATTTTGGAAAGTTCGAG-GGAA
* ** *
228566 AAAGTGTAATTTTTGGAAAAATCAAGGTTAAAAATGGAATTTTGGAAAGTTTAAGGGTA
1 AAA-TGTAATTTTTAGAAAAATCAAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGAA
* * *
228625 AAATGATATTTTTTAGAAAAATTAAGGTT-AAAATGGAATTTTAGAAAGTTCGAGGGCAA
1 AAATG-TAATTTTTAGAAAAATCAAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGG-AA
228684 AAATGTAATTT
1 AAATGTAATTT
228695 CTAAATAGTT
Statistics
Matches: 109, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
58 31 0.28
59 43 0.39
60 35 0.32
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.32
Consensus pattern (58 bp):
AAATGTAATTTTTAGAAAAATCAAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGAA
Found at i:229761 original size:3 final size:3
Alignment explanation
Indices: 229753--229820 Score: 57
Period size: 3 Copynumber: 22.0 Consensus size: 3
229743 TGACTTCCCT
* *
229753 TTA TTA TTA TTA TTA TTAA CTA TTA TTA TTA ATA TTTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * *
229799 TAA ATA ATA TTA TTAA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA
229821 ATGCCTTTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
2 2 0.04
3 44 0.83
4 7 0.13
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:229778 original size:13 final size:12
Alignment explanation
Indices: 229753--229813 Score: 65
Period size: 12 Copynumber: 5.2 Consensus size: 12
229743 TGACTTCCCT
*
229753 TTATTATTATTA
1 TTATTAATATTA
229765 TTATTAACTATTA
1 TTATTAA-TATTA
229778 TTATTAATA-T-
1 TTATTAATATTA
229788 TTATT-ATATTA
1 TTATTAATATTA
* *
229799 TAAATAATATTA
1 TTATTAATATTA
229811 TTA
1 TTA
229814 ATTATTAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 3 0.07
10 6 0.15
11 4 0.10
12 16 0.39
13 12 0.29
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (12 bp):
TTATTAATATTA
Found at i:229778 original size:16 final size:15
Alignment explanation
Indices: 229757--229813 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
229747 TTCCCTTTAT
*
229757 TATTATTATTATTAAC
1 TATTATTATTA-TAAA
**
229773 TATTATTATTAATATT
1 TATTATTATT-ATAAA
229789 TATTA-TATTATAAA
1 TATTATTATTATAAA
*
229803 TAATATTATTA
1 TATTATTATTA
229814 ATTATTAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
14 7 0.21
15 9 0.26
16 17 0.50
17 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTATTATTATAAA
Found at i:230543 original size:6 final size:6
Alignment explanation
Indices: 230527--230568 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
230517 TGGACTTTTT
* * *
230527 ATTTAA TTTTAA ATTTAA ATTCAA A-TTAA ATTTAA ACTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
230569 AGAAAAAGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (6 bp):
ATTTAA
Found at i:230599 original size:17 final size:18
Alignment explanation
Indices: 230536--230600 Score: 62
Period size: 17 Copynumber: 3.6 Consensus size: 18
230526 TATTTAATTT
* *
230536 TAAATTTAAA-TTCAAAT
1 TAAATTTAAACTTAAAAA
230553 TAAATTTAAACTTAAAAGA
1 TAAATTTAAACTTAAAA-A
* *
230572 AAAAGTTTAAACTT-AAAC
1 TAAA-TTTAAACTTAAAAA
230590 TAAATTTAAAC
1 TAAATTTAAAC
230601 CCAAAATGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 17 0.43
18 8 0.20
19 6 0.15
20 9 0.22
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (18 bp):
TAAATTTAAACTTAAAAA
Found at i:231424 original size:6 final size:6
Alignment explanation
Indices: 231415--231447 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
231405 ATTGAAAGCT
231415 AAAGTG AAAGTG AAAGTG AAAGTG AAAGTG AAA
1 AAAGTG AAAGTG AAAGTG AAAGTG AAAGTG AAA
231448 TTAGAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.30, T:0.15
Consensus pattern (6 bp):
AAAGTG
Found at i:241922 original size:12 final size:12
Alignment explanation
Indices: 241907--241945 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
241897 AGAGAAGGAT
241907 GAAGAAAAAGAA
1 GAAGAAAAAGAA
* *
241919 GAAGGAAAGGAA
1 GAAGAAAAAGAA
*
241931 GAAGAGAAAGAA
1 GAAGAAAAAGAA
241943 GAA
1 GAA
241946 ATAGAACCTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
GAAGAAAAAGAA
Found at i:242388 original size:18 final size:17
Alignment explanation
Indices: 242348--242390 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
242338 AGTTAACTTT
242348 CTTGCATTTTTATTATG
1 CTTGCATTTTTATTATG
*
242365 CCTGCATTTTTAATTAT-
1 CTTGCATTTTT-ATTATG
242382 CGTTGCATT
1 C-TTGCATT
242391 CAATTTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (17 bp):
CTTGCATTTTTATTATG
Found at i:257827 original size:100 final size:100
Alignment explanation
Indices: 257654--257853 Score: 346
Period size: 100 Copynumber: 2.0 Consensus size: 100
257644 TAAAATAATC
257654 AACATAAATTAAAATTTGAAGTAAAATTATAACTAAATTCATAAAAAAAAAAAAAAAATACTTAA
1 AACATAAATTAAAATTTGAAGTAAAATTATAACTAAATTCATAAAAAAAAAAAAAAAATACTTAA
*
257719 TAAGAAGTTTTCGATTTTCGATCCCCCTACTTAAA
66 TAAAAAGTTTTCGATTTTCGATCCCCCTACTTAAA
* * *
257754 AACATAAATTAAAATTTGAAGTAAAATTATAACTAAATTCATAAAATAAGAAAAAAAATACTTAT
1 AACATAAATTAAAATTTGAAGTAAAATTATAACTAAATTCATAAAAAAAAAAAAAAAATACTTAA
* *
257819 TAAAAAGTTTTCGATTTTCGGTGCCCCTACTTAAA
66 TAAAAAGTTTTCGATTTTCGATCCCCCTACTTAAA
257854 TTGAACAATG
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 94 1.00
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.31
Consensus pattern (100 bp):
AACATAAATTAAAATTTGAAGTAAAATTATAACTAAATTCATAAAAAAAAAAAAAAAATACTTAA
TAAAAAGTTTTCGATTTTCGATCCCCCTACTTAAA
Done.