Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007700.1 Hibiscus syriacus cultivar Beakdansim tig00109911_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 140046
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:1643 original size:16 final size:17
Alignment explanation
Indices: 1622--1657 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
1612 TTTTTTATCG
1622 TTATTTTATTATT-ATA
1 TTATTTTATTATTAATA
1638 TTATTTTATTATTAATA
1 TTATTTTATTATTAATA
1655 TTA
1 TTA
1658 CATTTTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTTTATTATTAATA
Found at i:2039 original size:25 final size:25
Alignment explanation
Indices: 2011--2060 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
2001 CCATTAAATA
2011 GTCCTAAATCCCTAAATATTCGGCT
1 GTCCTAAATCCCTAAATATTCGGCT
2036 GTCCTAAATCCCTAAATATTCGGCT
1 GTCCTAAATCCCTAAATATTCGGCT
2061 TTTGGTACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (25 bp):
GTCCTAAATCCCTAAATATTCGGCT
Found at i:8550 original size:13 final size:15
Alignment explanation
Indices: 8528--8560 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
8518 AAATCAAAGC
8528 AAAAGTCAAAGAA-A
1 AAAAGTCAAAGAACA
8542 AAAAG-CAAAGAACA
1 AAAAGTCAAAGAACA
8556 AAAAG
1 AAAAG
8561 AGGACAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.73, C:0.09, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAAGTCAAAGAACA
Found at i:9543 original size:2 final size:2
Alignment explanation
Indices: 9536--9619 Score: 168
Period size: 2 Copynumber: 42.0 Consensus size: 2
9526 GAATTCAAAA
9536 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9578 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9620 CTGAAGCTCA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 82 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9808 original size:4 final size:4
Alignment explanation
Indices: 9799--9856 Score: 107
Period size: 4 Copynumber: 14.5 Consensus size: 4
9789 AGAAAAGTAT
*
9799 ATAC ATAC ATAC ACAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
9847 ATAC ATAC AT
1 ATAC ATAC AT
9857 CCATGATACA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:10508 original size:105 final size:102
Alignment explanation
Indices: 10321--10559 Score: 304
Period size: 105 Copynumber: 2.3 Consensus size: 102
10311 TGAGAATTTT
** *
10321 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTTGAATTTGATTCACT
*
10386 TAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 TAAAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * *
10426 AAAACAAATTTTGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTTGAATTTGTTTCACA
1 AAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTTGAATTTGATTCAC-
* *
10491 TT-AAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
65 TTAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
* *
10528 AAAACAAACTTTGTCTCGCTTGAGACAATTTC
1 AAAACAAATTTTGTCTCGCTTGAGACATTTTC
10560 TCTAAAAACA
Statistics
Matches: 119, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
101 2 0.02
102 29 0.24
103 4 0.03
104 4 0.03
105 78 0.66
106 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (102 bp):
AAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTTGAATTTGATTCACT
TAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:10550 original size:36 final size:36
Alignment explanation
Indices: 10505--10589 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
10495 ACAAAGTTGA
**
10505 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
10541 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
*
10577 TCTCATTTGAGAC
1 TCTCACTTGAGAC
10590 TATATCTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
35 7 0.17
36 35 0.83
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:10621 original size:34 final size:36
Alignment explanation
Indices: 10523--10624 Score: 95
Period size: 36 Copynumber: 2.9 Consensus size: 36
10513 GAGATCGTTT
* *
10523 TCTC-AAAAACAAACTTT-GTCTCGCTTGAGACAATT
1 TCTCTAAAAACAAA-TTTCATCTCGCTTGAGACAATA
** ** *
10558 TCTCTAAAAACAAATTTTGTCTCATTTGAGACTATA
1 TCTCTAAAAACAAATTTCATCTCGCTTGAGACAATA
*
10594 TCT-T-AAAGCAAATTTCATCTCGCTTGAGACA
1 TCTCTAAAAACAAATTTCATCTCGCTTGAGACA
10625 TCATTTTCTC
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
34 21 0.38
35 8 0.15
36 26 0.47
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (36 bp):
TCTCTAAAAACAAATTTCATCTCGCTTGAGACAATA
Found at i:10964 original size:29 final size:29
Alignment explanation
Indices: 10932--11049 Score: 111
Period size: 29 Copynumber: 4.2 Consensus size: 29
10922 ACAGTTTCTC
10932 TTGAAAAAAAATCTTTGAGTTTATTCCTT
1 TTGAAAAAAAATCTTTGAGTTTATTCCTT
* * *
10961 TTGAATAAAAATCTTGGAGTTTGTTCCTT
1 TTGAAAAAAAATCTTTGAGTTTATTCCTT
* * *
10990 TTGAATAAATATCTTTGAGTCGT-TT-CTT
1 TTGAAAAAAAATCTTTGAGT-TTATTCCTT
* **
11018 TTG---AAAAATCTTTGAGTCTATTTATT
1 TTGAAAAAAAATCTTTGAGTTTATTCCTT
11044 TTGAAA
1 TTGAAA
11050 CAAAGTTTTG
Statistics
Matches: 74, Mismatches: 9, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
24 1 0.01
25 15 0.20
26 5 0.07
28 6 0.08
29 46 0.62
30 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.47
Consensus pattern (29 bp):
TTGAAAAAAAATCTTTGAGTTTATTCCTT
Found at i:11032 original size:25 final size:25
Alignment explanation
Indices: 10967--11049 Score: 76
Period size: 26 Copynumber: 3.1 Consensus size: 25
10957 CCTTTTGAAT
* * *
10967 AAAAATCTTGGAGTTTGTTCCTTTTG
1 AAAAATCTTTGAG-TCGTTTCTTTTG
10993 AATAAATATCTTTGAGTCGTTTCTTTTG
1 -A-AAA-ATCTTTGAGTCGTTTCTTTTG
* *
11021 AAAAATCTTTGAGTCTATTTATTTTG
1 AAAAATCTTTGAGTC-GTTTCTTTTG
11047 AAA
1 AAA
11050 CAAAGTTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
25 11 0.23
26 14 0.29
27 2 0.04
28 13 0.27
29 8 0.17
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (25 bp):
AAAAATCTTTGAGTCGTTTCTTTTG
Found at i:11166 original size:27 final size:28
Alignment explanation
Indices: 11135--11199 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
11125 AATTTTGTGA
*
11135 AAAAAAATCTTTGAGATTGTTTCTTTTG
1 AAAAAAATCTTTGAGATTGTTTCTTTGG
*
11163 AAAAAAATCTTTGAGTTTGTTTCTTTGG
1 AAAAAAATCTTTGAGATTGTTTCTTTGG
11191 AAACAAAAT
1 AAA-AAAAT
11200 TTTTTCTCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
28 29 0.85
29 5 0.15
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.42
Consensus pattern (28 bp):
AAAAAAATCTTTGAGATTGTTTCTTTGG
Found at i:11231 original size:37 final size:36
Alignment explanation
Indices: 11181--11302 Score: 121
Period size: 37 Copynumber: 3.5 Consensus size: 36
11171 CTTTGAGTTT
*
11181 GTTTCTTTGGAAACAAAATTTTTTCTCTCTTAAGATA
1 GTTTCTTTTGAAACAAAA-TTTTTCTCTCTTAAGATA
* * * *
11218 GTTTCTTTTGAAACAAAA-----ATCT-TTGAGTTT
1 GTTTCTTTTGAAACAAAATTTTTCTCTCTTAAGATA
*
11248 GTTTCTTTTGAAACAGAATTTTGTCTCTCTTAAGATA
1 GTTTCTTTTGAAACAAAATTTT-TCTCTCTTAAGATA
*
11285 ATTTCTTTTGAAACAAAA
1 GTTTCTTTTGAAACAAAA
11303 ATCTTTGAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
30 22 0.33
31 3 0.05
36 3 0.05
37 38 0.58
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.45
Consensus pattern (36 bp):
GTTTCTTTTGAAACAAAATTTTTCTCTCTTAAGATA
Found at i:11244 original size:67 final size:67
Alignment explanation
Indices: 11148--11362 Score: 269
Period size: 67 Copynumber: 3.3 Consensus size: 67
11138 AAAATCTTTG
* *
11148 AGATTGTTTCTTTTG-AA-AAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTTTCTCTCT
1 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCT
11211 TA
66 TA
* *
11213 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTTGAAACAGAATTTTGTCTCTCT
1 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCT
11278 TA
66 TA
* * * * *
11280 AGATAATTTCTTTTGAAACAAAAATCTTTGAATATGTTTCTCTT--AAA-ATGAATTTTGTATCT
1 AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCT-TTGGAAACA-AAATTTTGTCTCT
*
11342 CTTG
64 CTTA
**
11346 AGACCGTTTCTTTTGAA
1 AGATAGTTTCTTTTGAA
11363 GTAAATCTTT
Statistics
Matches: 134, Mismatches: 12, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
65 15 0.11
66 34 0.25
67 83 0.62
68 2 0.01
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.47
Consensus pattern (67 bp):
AGATAGTTTCTTTTGAAACAAAAATCTTTGAGTTTGTTTCTTTGGAAACAAAATTTTGTCTCTCT
TA
Found at i:11645 original size:63 final size:62
Alignment explanation
Indices: 11543--11666 Score: 185
Period size: 63 Copynumber: 2.0 Consensus size: 62
11533 GATGAGATCC
* *
11543 ATCTTTGAGTCTGTTTCTTTTGAAACAAAATTTTATCTCTTAAAGACAATTTCTTTTGAAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTC-TAAAGACAACTTCTTTTGAAAAA
* * **
11606 ATCTTTGAGTTTGTTTCCTTTGAAACAAAATTTTGTCTCTCGAGACAACTTCTTTTGAAAA
1 ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAA
11667 TACCCACCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
62 19 0.35
63 36 0.65
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (62 bp):
ATCTTTGAGTCTGTTTCCTTTGAAACAAAATTTTATCTCTAAAGACAACTTCTTTTGAAAAA
Found at i:12358 original size:28 final size:28
Alignment explanation
Indices: 12308--12361 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
12298 TCAAAATCCA
* *
12308 ATCTTTGAGTTTGTTTCTATTGAAACAC
1 ATCTTTGAGTTGGTTCCTATTGAAACAC
12336 ATCTTTGAGTTGGTCTCCT-TTGAAAC
1 ATCTTTGAGTTGGT-TCCTATTGAAAC
12362 CATTATCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (28 bp):
ATCTTTGAGTTGGTTCCTATTGAAACAC
Found at i:12599 original size:113 final size:113
Alignment explanation
Indices: 12401--12619 Score: 438
Period size: 113 Copynumber: 1.9 Consensus size: 113
12391 GTCACGTAGG
12401 AACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGAC
1 AACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGAC
12466 CAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAAAC
66 CAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAAAC
12514 AACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGAC
1 AACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGAC
12579 CAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATA
66 CAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATA
12620 GCCAGCCGTC
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 106 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (113 bp):
AACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGAC
CAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAAAC
Found at i:12681 original size:46 final size:45
Alignment explanation
Indices: 12516--12779 Score: 195
Period size: 40 Copynumber: 6.2 Consensus size: 45
12506 AACCAAACAA
* *
12516 CCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAG
1 CCGTGTCATCACC-TTAGATGGCCAGAACTCTTCATCACGTAGGAG
* *
12562 CCGTGTCATTC-CC--CGA---CCAGATCTCTTCATCACGTAGGAG
1 CCGTGTCA-TCACCTTAGATGGCCAGAACTCTTCATCACGTAGGAG
* * * * *
12602 CCGTGTCA--ACCATAGATAGCCAG-CCGTCCTCATCACGTAGGAA
1 CCGTGTCATCACCTTAGATGGCCAGAAC-TCTTCATCACGTAGGAG
* *
12645 CCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAG
1 CCGTGTCATCACC-TTAGATGGCCAGAACTCTTCATCACGTAGGAG
* *
12691 CCGTGTCATTC-CC--CGA---CCAGATCTCTTCATCACGTAGGAG
1 CCGTGTCA-TCACCTTAGATGGCCAGAACTCTTCATCACGTAGGAG
* ** *
12731 CCGTGTCA--ACCATAGATAACCA-AACTCTTCATCACGTATGAG
1 CCGTGTCATCACCTTAGATGGCCAGAACTCTTCATCACGTAGGAG
*
12773 CAGTGTC
1 CCGTGTC
12780 GTCCCCAACA
Statistics
Matches: 176, Mismatches: 23, Indels: 42
0.73 0.10 0.17
Matches are distributed among these distances:
38 4 0.02
40 64 0.36
42 25 0.14
43 33 0.19
45 3 0.02
46 42 0.24
47 5 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (45 bp):
CCGTGTCATCACCTTAGATGGCCAGAACTCTTCATCACGTAGGAG
Found at i:12744 original size:129 final size:129
Alignment explanation
Indices: 12514--12748 Score: 470
Period size: 129 Copynumber: 1.8 Consensus size: 129
12504 ATAACCAAAC
12514 AACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGAC
1 AACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGAC
12579 CAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAGCCAGCCGTCCTCATCACGTAGG
66 CAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAGCCAGCCGTCCTCATCACGTAGG
12643 AACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGAC
1 AACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGAC
12708 CAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATA
66 CAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATA
12749 ACCAAACTCT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 106 1.00
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (129 bp):
AACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATTCCCCGAC
CAGATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAGCCAGCCGTCCTCATCACGTAGG
Found at i:12947 original size:3 final size:3
Alignment explanation
Indices: 12934--12982 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
12924 TTTTTTATCG
** *
12934 TTA TT- TTA TTA TTA TTA TTA TTA TTA TCG TTA TT- TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
12980 TTA
1 TTA
12983 CATTTTACAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:13372 original size:25 final size:25
Alignment explanation
Indices: 13344--13393 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
13334 CATTAAAATA
13344 GTCCTAAATCCCTAAATATTCGGCT
1 GTCCTAAATCCCTAAATATTCGGCT
13369 GTCCTAAATCCCTAAATATTCGGCT
1 GTCCTAAATCCCTAAATATTCGGCT
13394 TTTGGTACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.32
Consensus pattern (25 bp):
GTCCTAAATCCCTAAATATTCGGCT
Found at i:16560 original size:34 final size:34
Alignment explanation
Indices: 16517--16583 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
16507 CAAACACATG
*
16517 AGATACTAATGCTATTGTAAATACGTAAAAGGTC
1 AGATACTAATGCTATTGAAAATACGTAAAAGGTC
*
16551 AGATACTAATGTTATTGAAAATACGTAAAAGGT
1 AGATACTAATGCTATTGAAAATACGTAAAAGGT
16584 AATGCTTGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.43, C:0.09, G:0.18, T:0.30
Consensus pattern (34 bp):
AGATACTAATGCTATTGAAAATACGTAAAAGGTC
Found at i:19868 original size:5 final size:5
Alignment explanation
Indices: 19858--19886 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
19848 TTCTACTGGT
19858 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
19887 AGAGAGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:20166 original size:21 final size:21
Alignment explanation
Indices: 20140--20186 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
20130 GGTTCGCAAC
20140 GCGAACTTCGACTATCACAAT
1 GCGAACTTCGACTATCACAAT
* *
20161 GCGAACTTGGACTATCGCAAT
1 GCGAACTTCGACTATCACAAT
20182 GCGAA
1 GCGAA
20187 TATGTAAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (21 bp):
GCGAACTTCGACTATCACAAT
Found at i:20220 original size:21 final size:21
Alignment explanation
Indices: 20147--20231 Score: 79
Period size: 21 Copynumber: 4.1 Consensus size: 21
20137 AACGCGAACT
* *
20147 TCGACTATCACAATGCGA-ACT
1 TCGACTATCGCAATGCGATA-G
*
20168 TGGACTATCGCAATGCGAATA-
1 TCGACTATCGCAATGCG-ATAG
*
20189 T-GTA-AATCGCAATGCGATAG
1 TCG-ACTATCGCAATGCGATAG
20209 TCGACTATCGCAATGCGATAG
1 TCGACTATCGCAATGCGATAG
20230 TC
1 TC
20232 CAAGTTCGCA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
19 3 0.06
20 14 0.26
21 35 0.65
22 1 0.02
23 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (21 bp):
TCGACTATCGCAATGCGATAG
Found at i:20240 original size:21 final size:21
Alignment explanation
Indices: 20216--20297 Score: 137
Period size: 21 Copynumber: 3.9 Consensus size: 21
20206 TAGTCGACTA
*
20216 TCGCAATGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
*
20237 TCGCATTGCGATAGTCTAAGT
1 TCGCATTGCGATAGTCCAAGT
*
20258 TCGCATTGCGATAATCCAAGT
1 TCGCATTGCGATAGTCCAAGT
20279 TCGCATTGCGATAGTCCAA
1 TCGCATTGCGATAGTCCAA
20298 AATCGCAACG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:20303 original size:21 final size:21
Alignment explanation
Indices: 20194--20304 Score: 123
Period size: 21 Copynumber: 5.3 Consensus size: 21
20184 GAATATGTAA
* * **
20194 ATCGCAATGCGATAGTCGACT
1 ATCGCATTGCGATAGTCCAAG
*
20215 ATCGCAATGCGATAGTCCAAG
1 ATCGCATTGCGATAGTCCAAG
* *
20236 TTCGCATTGCGATAGTCTAAG
1 ATCGCATTGCGATAGTCCAAG
* *
20257 TTCGCATTGCGATAATCCAAG
1 ATCGCATTGCGATAGTCCAAG
* *
20278 TTCGCATTGCGATAGTCCAAA
1 ATCGCATTGCGATAGTCCAAG
20299 ATCGCA
1 ATCGCA
20305 ACGACTGGTT
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (21 bp):
ATCGCATTGCGATAGTCCAAG
Found at i:20304 original size:42 final size:42
Alignment explanation
Indices: 20195--20305 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
20185 AATATGTAAA
* * ** *
20195 TCGCAATGCGATAGTCGACTATCGCAATGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAAATCGCAATGCGATAATCCAAGT
* ** *
20237 TCGCATTGCGATAGTCTAAGTTCGCATTGCGATAATCCAAGT
1 TCGCATTGCGATAGTCCAAAATCGCAATGCGATAATCCAAGT
20279 TCGCATTGCGATAGTCCAAAATCGCAA
1 TCGCATTGCGATAGTCCAAAATCGCAA
20306 CGACTGGTTG
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (42 bp):
TCGCATTGCGATAGTCCAAAATCGCAATGCGATAATCCAAGT
Found at i:21027 original size:19 final size:19
Alignment explanation
Indices: 21003--21039 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
20993 TGCGATTTTG
21003 GACTATCGCAACGAACTTC
1 GACTATCGCAACGAACTTC
21022 GACTATCGCAACGAACTT
1 GACTATCGCAACGAACTT
21040 GGAATAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
GACTATCGCAACGAACTTC
Found at i:30967 original size:20 final size:21
Alignment explanation
Indices: 30925--30968 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
30915 TCATTTAAAA
*
30925 TTTTAAAAATGGTAATAATTT
1 TTTTAAAAATGGTAATAAGTT
*
30946 TTTTAAAAAT-GTATTAAGTT
1 TTTTAAAAATGGTAATAAGTT
30966 TTT
1 TTT
30969 CATAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (21 bp):
TTTTAAAAATGGTAATAAGTT
Found at i:34935 original size:2 final size:2
Alignment explanation
Indices: 34928--34967 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
34918 CGTAAAATTA
34928 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34968 TAATAAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36354 original size:15 final size:15
Alignment explanation
Indices: 36309--36358 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
36299 TTTTGTTTAA
36309 TTAAAATAATATTATT
1 TTAAAATAATATT-TT
* *
36325 CTCAAAATTAT-TTTT
1 -TTAAAATAATATTTT
36340 TTAAAATAATATTTT
1 TTAAAATAATATTTT
36355 TTAA
1 TTAA
36359 TAAAAACCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 8 0.29
15 10 0.36
16 2 0.07
17 8 0.29
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAAAATAATATTTT
Found at i:43009 original size:60 final size:61
Alignment explanation
Indices: 42911--43027 Score: 182
Period size: 60 Copynumber: 1.9 Consensus size: 61
42901 AGCGTAATTA
*
42911 AAAAGCCTAATTACCGATATAGGTAATCGTTGTTACTTAAGGAAATTTAGATAATCGCATG
1 AAAAGCCTAATTACCGATATAGGTAATAGTTGTTACTTAAGGAAATTTAGATAATCGCATG
* * * *
42972 AAAA-CCTAATTACCGATGTAGGTAATATTTGTTACTTAGGGAAATTTAGGTAATCG
1 AAAAGCCTAATTACCGATATAGGTAATAGTTGTTACTTAAGGAAATTTAGATAATCG
43028 TTGTTCGGAG
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
60 47 0.92
61 4 0.08
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (61 bp):
AAAAGCCTAATTACCGATATAGGTAATAGTTGTTACTTAAGGAAATTTAGATAATCGCATG
Found at i:48735 original size:39 final size:39
Alignment explanation
Indices: 48668--48753 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 39
48658 TTTAACTCTC
* *
48668 CAACATGAGTGTCATTATTATTTAATTCACATGTGCCTT
1 CAACATGAGTGGCATTATTATTTAATTCACATGCGCCTT
* * **
48707 CAACATGAGTGGCATTCTTCA-TTGATTCATGTGCGCCTT
1 CAACATGAGTGGCATTATT-ATTTAATTCACATGCGCCTT
*
48746 CAATATGA
1 CAACATGA
48754 ATGGGATTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 38 0.97
40 1 0.03
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.37
Consensus pattern (39 bp):
CAACATGAGTGGCATTATTATTTAATTCACATGCGCCTT
Found at i:48922 original size:105 final size:105
Alignment explanation
Indices: 48740--48949 Score: 348
Period size: 105 Copynumber: 2.0 Consensus size: 105
48730 GATTCATGTG
48740 CGCCTTCAATATGAATGGGATTTAACTCATGTGTGCCCCCCAATTCATGTGCGCCATCATGATTT
1 CGCCTTCAATATGAATGGGATTTAACTCATGTGTGCCCCCCAATTCATGTGCGCCATCATGATTT
* *
48805 CCATGTGCGCTTGTTGAATTTTCAAAACGGGTGGGCACCA
66 CCATGTGCGCTTGTTGAAGTGTCAAAACGGGTGGGCACCA
* ** * *
48845 CGCCTTCAATATGAGTGGGATTTAACTCATGTGTGGTCCTCAATTCATGTGCGCCATCATGGTTT
1 CGCCTTCAATATGAATGGGATTTAACTCATGTGTGCCCCCCAATTCATGTGCGCCATCATGATTT
*
48910 CCATGTGTGCTTGTTGAAGTGTCAAAACGGGTGGGCACCA
66 CCATGTGCGCTTGTTGAAGTGTCAAAACGGGTGGGCACCA
48950 TGCCAGGAGG
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
105 97 1.00
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.31
Consensus pattern (105 bp):
CGCCTTCAATATGAATGGGATTTAACTCATGTGTGCCCCCCAATTCATGTGCGCCATCATGATTT
CCATGTGCGCTTGTTGAAGTGTCAAAACGGGTGGGCACCA
Found at i:49184 original size:30 final size:30
Alignment explanation
Indices: 49143--49209 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
49133 ATACAATTGT
*
49143 CGCACCACGAGAGT-TCCCTTGGACCCCATG
1 CGCACCACGAGAATCT-CCTTGGACCCCATG
* *
49173 CGCATCACGAGAATCTCCTTGGAGCCCATG
1 CGCACCACGAGAATCTCCTTGGACCCCATG
49203 CGCACCA
1 CGCACCA
49210 TTGTTTATTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.22, C:0.39, G:0.22, T:0.16
Consensus pattern (30 bp):
CGCACCACGAGAATCTCCTTGGACCCCATG
Found at i:60679 original size:24 final size:24
Alignment explanation
Indices: 60606--60682 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 24
60596 CACCCTTTAA
*
60606 GCCATATATGCACAGATATTCTGT
1 GCCATATATGCACAGAAATTCTGT
*** **
60630 GCC--ATATGCATCCTCAATT-TAA
1 GCCATATATGCA-CAGAAATTCTGT
60652 GCCATATATGCACAGAAATTCTGT
1 GCCATATATGCACAGAAATTCTGT
60676 GCCATAT
1 GCCATAT
60683 GCATCATCAC
Statistics
Matches: 38, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
22 11 0.29
23 9 0.24
24 18 0.47
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (24 bp):
GCCATATATGCACAGAAATTCTGT
Found at i:60685 original size:22 final size:22
Alignment explanation
Indices: 60611--60685 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
60601 TTTAAGCCAT
*
60611 ATATGCACAGATATTCTGTGCC
1 ATATGCACAGAAATTCTGTGCC
*** **
60633 ATATGCATCCTCAATT-TAAGCC
1 ATATGCA-CAGAAATTCTGTGCC
60655 ATATATGCACAGAAATTCTGTGCC
1 --ATATGCACAGAAATTCTGTGCC
60679 ATATGCA
1 ATATGCA
60686 TCATCACATA
Statistics
Matches: 38, Mismatches: 11, Indels: 8
0.67 0.19 0.14
Matches are distributed among these distances:
22 18 0.47
23 9 0.24
24 11 0.29
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (22 bp):
ATATGCACAGAAATTCTGTGCC
Found at i:79030 original size:20 final size:20
Alignment explanation
Indices: 79005--79097 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
78995 TTTTCCCAAT
79005 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
79025 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
79045 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
79066 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
79087 TCGCAATGCGA
1 TCGCAATGCGA
79098 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:79047 original size:41 final size:41
Alignment explanation
Indices: 79002--79097 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
78992 CGATTTTCCC
79002 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
79043 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
79084 AAATCGCAATGCGA
1 AATTCGCAATGCGA
79098 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:79051 original size:21 final size:20
Alignment explanation
Indices: 79005--79097 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
78995 TTTTCCCAAT
*
79005 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
79025 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
79045 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
79066 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
79087 TCGCAATGCGA
1 TCGCAATGCGA
79098 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:79111 original size:20 final size:20
Alignment explanation
Indices: 79086--79179 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
79076 AATTGGGAAA
*
79086 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
79106 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
79127 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
79147 TTCGCAACACGATACTGACT
1 ATCGCAACGCGATACTGACT
*
79167 TTCGCAACGCGAT
1 ATCGCAACGCGAT
79180 TTACTTAGCG
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 44 0.76
21 14 0.24
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:79160 original size:41 final size:41
Alignment explanation
Indices: 79083--79160 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
79073 GCGAATTGGG
* * **
79083 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
* *
79124 AAAATCGCAACGAGATACTTACTTTCGCAACACGATA
1 AAAATCGCAACGAGATACTGACTATCGCAACACGATA
79161 CTGACTTTCG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.22
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACACGATAATAA
Found at i:79740 original size:19 final size:19
Alignment explanation
Indices: 79697--79761 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
79687 CGAGAATGAG
* *
79697 AATCGCAACGCGGAAATGAC
1 AATCGCAACGC-GAAATAAA
*
79717 TATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATAAA
**
79736 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAATAAA
79755 AATCGCA
1 AATCGCA
79762 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 29 0.74
20 10 0.26
ACGTcount: A:0.45, C:0.26, G:0.18, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATAAA
Found at i:79779 original size:19 final size:19
Alignment explanation
Indices: 79757--79960 Score: 212
Period size: 19 Copynumber: 11.1 Consensus size: 19
79747 GAAACCAAAA
*
79757 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
79776 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
79795 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
79814 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
79833 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
79853 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
79869 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
79886 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
79900 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
79919 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
79939 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
79959 TC
1 TC
79961 AACCAAAAGA
Statistics
Matches: 157, Mismatches: 15, Indels: 26
0.79 0.08 0.13
Matches are distributed among these distances:
14 20 0.13
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 79 0.50
20 49 0.31
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:79876 original size:58 final size:57
Alignment explanation
Indices: 79757--79960 Score: 185
Period size: 58 Copynumber: 3.7 Consensus size: 57
79747 GAAACCAAAA
* * * *
79757 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTAATTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTGTCATG
79814 TCGCGTTGCGATTTTAATTTCGCGGTTGCGATTTTCATTTCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTAATTTCGC-GTTGCGATTTTCATTTCGCGTTGCGATTGTCATG
* ** * * * *
79869 T-G-GTCGCGATAGTCATTTCGCGTTGCGA--TTC---TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTAATTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTGTCATG
* * *
79919 TCCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATTTC
1 T-CGCGTTGCGATTTTAATT-TCGCGTTGCGATTTTCATTTC
79961 AACCAAAAGA
Statistics
Matches: 121, Mismatches: 13, Indels: 24
0.77 0.08 0.15
Matches are distributed among these distances:
47 14 0.12
50 4 0.03
52 8 0.07
53 27 0.22
54 11 0.09
55 1 0.01
56 3 0.02
57 21 0.17
58 30 0.25
59 2 0.02
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (57 bp):
TCGCGTTGCGATTTTAATTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTGTCATG
Found at i:79885 original size:33 final size:33
Alignment explanation
Indices: 79848--79935 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
79838 GTTGCGATTT
* *
79848 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
79881 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
79914 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
79936 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:79937 original size:20 final size:20
Alignment explanation
Indices: 79903--79960 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
79893 GCGATTCTCT
**
79903 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
79923 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
79943 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
79961 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:82322 original size:14 final size:15
Alignment explanation
Indices: 82302--82374 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 15
82292 TGAAAATCGC
82302 ATTGCGATTTTCTCG
1 ATTGCGATTTTCTCG
82317 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC---TCG
*
82334 CATTGCGATTTCATTTCG
1 -ATTGCGATTT--TCTCG
82352 CATTGCGATTTTCTCG
1 -ATTGCGATTTTCTCG
82368 -TTGCGAT
1 ATTGCGAT
82375 AGCCATTTCG
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
14 18 0.37
16 4 0.08
17 3 0.06
18 14 0.29
19 9 0.18
21 1 0.02
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (15 bp):
ATTGCGATTTTCTCG
Found at i:82339 original size:19 final size:19
Alignment explanation
Indices: 82298--82364 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
82288 GAAATGAAAA
82298 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
82314 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
82331 TCGCATTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
82349 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
82365 TCGTTGCGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.24
16 3 0.07
17 3 0.07
18 18 0.40
19 10 0.22
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:82500 original size:14 final size:14
Alignment explanation
Indices: 82481--82517 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
82471 CATCAATTAA
82481 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
82495 ACAAATCATCTTTT
1 ACAAATCAACATTT
82509 ACAAATCAA
1 ACAAATCAA
82518 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:82956 original size:14 final size:15
Alignment explanation
Indices: 82936--83008 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 15
82926 TGAAAATCGC
82936 ATTGCGATTTTCTCG
1 ATTGCGATTTTCTCG
82951 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC---TCG
*
82968 CATTGCGATTTCATTTCG
1 -ATTGCGATTT--TCTCG
82986 CATTGCGATTTTCTCG
1 -ATTGCGATTTTCTCG
83002 -TTGCGAT
1 ATTGCGAT
83009 AGCTATTTCG
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
14 18 0.37
16 4 0.08
17 3 0.06
18 14 0.29
19 9 0.18
21 1 0.02
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (15 bp):
ATTGCGATTTTCTCG
Found at i:82973 original size:19 final size:19
Alignment explanation
Indices: 82932--82998 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
82922 GAAATGAAAA
82932 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
82948 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
82965 TCGCATTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
82983 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
82999 TCGTTGCGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.24
16 3 0.07
17 3 0.07
18 18 0.40
19 10 0.22
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:83134 original size:14 final size:14
Alignment explanation
Indices: 83115--83151 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
83105 CATCAATTAA
83115 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
83129 ACAAATCATCTTTT
1 ACAAATCAACATTT
83143 ACAAATCAA
1 ACAAATCAA
83152 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:83553 original size:633 final size:633
Alignment explanation
Indices: 82060--84030 Score: 3838
Period size: 633 Copynumber: 3.1 Consensus size: 633
82050 TTTAACAATT
*
82060 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAAACAAAAGGAGTATATATGTTAACAAAA
1 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
82125 CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
66 CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
82190 GAGTTTGAACATTGCTATGATCTGTTCAGTTGTCATCACTTAATTCATTTGACTATCGCAACGCG
131 GAGTTTGAACATTGCTATGATCTGTTCAGTTGTCATCACTTAATTCATTTGACTATCGCAACGCG
*
82255 AAAATGGTTATCGCAACGAGAATATCGCAACTCGAAATGAAAATCGCATTGCGATTTTCTCGTTG
196 AAAATGGTTATCGCAACGAGAATATCGCAACGCGAAATGAAAATCGCATTGCGATTTTCTCGTTG
82320 CGATTTTCATTTCGCATTGCGATTTCATTTCGCATTGCGATTTTCTCGTTGCGATAGCCATTTCG
261 CGATTTTCATTTCGCATTGCGATTTCATTTCGCATTGCGATTTTCTCGTTGCGATAGCCATTTCG
82385 CGTTGCGATAGTCTGTTTTGCCTTCAACATAAAGCAGATTGAAAATCAACAAATCAACTATTACA
326 CGTTGCGATAGTCTGTTTTGCCTTCAACATAAAGCAGATTGAAAATCAACAAATCAACTATTACA
82450 TTTCAACACAAATTATGTACACATCAATTAAACAAATCAACATTTACAAATCATCTTTTACAAAT
391 TTTCAACACAAATTATGTACACATCAATTAAACAAATCAACATTTACAAATCATCTTTTACAAAT
*
82515 CAATTAAACAATCAAAAAATAACAATAATTCTTATTTCTTCATCAATTATTGAATCAAGAATCAA
456 CAATTAAACAATCAAAAAA-AATAATAATTCTTATTTCTTCATCAATTATTGAATCAAGAATCAA
82580 CAACTTTGTGACCCCGTACATCCATTTCACGCAGCTCACTTAAGGATTAACCTGCAGAAACCAAA
520 CAACTTTGTGACCCCGTACATCCATTTCACGCAGCTCACTTAAGGATTAACCTGCAGAAACCAAA
82645 CATTTGCTCAAACAAGACTTCCTACACATCTAAAACCTACAAACAGCAA
585 CATTTGCTCAAACAAGACTTCCTACACATCTAAAACCTACAAACAGCAA
82694 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
1 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
82759 CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
66 CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
82824 GAGTTTGAACATTGCTATGATCTGTTCAGTTGTCATCACTTAATTCATTTGACTATCGCAACGCG
131 GAGTTTGAACATTGCTATGATCTGTTCAGTTGTCATCACTTAATTCATTTGACTATCGCAACGCG
82889 AAAATGGTTATCGCAACGAGAATATCGCAACGCGAAATGAAAATCGCATTGCGATTTTCTCGTTG
196 AAAATGGTTATCGCAACGAGAATATCGCAACGCGAAATGAAAATCGCATTGCGATTTTCTCGTTG
*
82954 CGATTTTCATTTCGCATTGCGATTTCATTTCGCATTGCGATTTTCTCGTTGCGATAGCTATTTCG
261 CGATTTTCATTTCGCATTGCGATTTCATTTCGCATTGCGATTTTCTCGTTGCGATAGCCATTTCG
83019 CGTTGCGATAGTCTGTTTTGCCTTCAACATAAAGCAGATTGAAAATCAACAAATCAACTATTACA
326 CGTTGCGATAGTCTGTTTTGCCTTCAACATAAAGCAGATTGAAAATCAACAAATCAACTATTACA
83084 TTTCAACACAAATTATGTACACATCAATTAAACAAATCAACATTTACAAATCATCTTTTACAAAT
391 TTTCAACACAAATTATGTACACATCAATTAAACAAATCAACATTTACAAATCATCTTTTACAAAT
83149 CAATTAAACAATCAAAAAAAATAATAATTCTTATTTCTTCATCAATTATTGAATCAAGAATCAAC
456 CAATTAAACAATCAAAAAAAATAATAATTCTTATTTCTTCATCAATTATTGAATCAAGAATCAAC
*
83214 AACTTTGTGACCCCGTACATCCATTTCACGCAGCTCACTTAAGGATTAACCTTCAGAAACCAAAC
521 AACTTTGTGACCCCGTACATCCATTTCACGCAGCTCACTTAAGGATTAACCTGCAGAAACCAAAC
83279 ATTTGCTCAAACAAGACTTCCTACACATCTAAAACCTACAAACAGCAA
586 ATTTGCTCAAACAAGACTTCCTACACATCTAAAACCTACAAACAGCAA
*
83327 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATTTGTTAACAAAA
1 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
83392 CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
66 CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
83457 GAGTTTGAACATTGCTATGATCTGTTCAGTTGTCATCACTTAATTCATTTGACTATCGCAACGCG
131 GAGTTTGAACATTGCTATGATCTGTTCAGTTGTCATCACTTAATTCATTTGACTATCGCAACGCG
83522 AAAATGGTTATCGCAACGAGAATATCGCAACGCGAAATGAAAATCGCATTGCGATTTTCTCGTTG
196 AAAATGGTTATCGCAACGAGAATATCGCAACGCGAAATGAAAATCGCATTGCGATTTTCTCGTTG
83587 CGATTTTCATTTCGCATTGCGATTTCATTTCGCATTGCGATTTTCTCGTTGCGATAGCCATTTCG
261 CGATTTTCATTTCGCATTGCGATTTCATTTCGCATTGCGATTTTCTCGTTGCGATAGCCATTTCG
*
83652 CGTTGCGATAGTATGTTTTGCCTTCAACATAAAGCAGATTGAAAATCAACAAATCAACTATTACA
326 CGTTGCGATAGTCTGTTTTGCCTTCAACATAAAGCAGATTGAAAATCAACAAATCAACTATTACA
*
83717 TTTTAACACAAATTATGTACACATCAATTAAACAAATCAACATTTACAAATCATCTTTTACAAAT
391 TTTCAACACAAATTATGTACACATCAATTAAACAAATCAACATTTACAAATCATCTTTTACAAAT
83782 CAATTAAACAATC--AAAAAATAATAATTCTTATTTCTTCATCAATTATTGAATCAAGAATCAAC
456 CAATTAAACAATCAAAAAAAATAATAATTCTTATTTCTTCATCAATTATTGAATCAAGAATCAAC
83845 AACTTTGTGACCCCGTACATCCATTTCACGCAGCTCACTTAAGGATTAACCTGCAGAAACCAAAC
521 AACTTTGTGACCCCGTACATCCATTTCACGCAGCTCACTTAAGGATTAACCTGCAGAAACCAAAC
*
83910 ATTTGCTCAAACAAGACTTCCTACACATCTAAAACCTACAAACAACAA
586 ATTTGCTCAAACAAGACTTCCTACACATCTAAAACCTACAAACAGCAA
83958 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
1 ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
84023 CTTGCATT
66 CTTGCATT
84031 TGACTTACCA
Statistics
Matches: 1325, Mismatches: 12, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
631 233 0.18
633 621 0.47
634 471 0.36
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (633 bp):
ATTATTGAATTCTAGGTACTTAACCAAACATTTTCAAACCAAAAGGAGTATATATGTTAACAAAA
CTTGCATTATGTGTATTTTATGTGTGCACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTT
GAGTTTGAACATTGCTATGATCTGTTCAGTTGTCATCACTTAATTCATTTGACTATCGCAACGCG
AAAATGGTTATCGCAACGAGAATATCGCAACGCGAAATGAAAATCGCATTGCGATTTTCTCGTTG
CGATTTTCATTTCGCATTGCGATTTCATTTCGCATTGCGATTTTCTCGTTGCGATAGCCATTTCG
CGTTGCGATAGTCTGTTTTGCCTTCAACATAAAGCAGATTGAAAATCAACAAATCAACTATTACA
TTTCAACACAAATTATGTACACATCAATTAAACAAATCAACATTTACAAATCATCTTTTACAAAT
CAATTAAACAATCAAAAAAAATAATAATTCTTATTTCTTCATCAATTATTGAATCAAGAATCAAC
AACTTTGTGACCCCGTACATCCATTTCACGCAGCTCACTTAAGGATTAACCTGCAGAAACCAAAC
ATTTGCTCAAACAAGACTTCCTACACATCTAAAACCTACAAACAGCAA
Found at i:83589 original size:14 final size:15
Alignment explanation
Indices: 83569--83641 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 15
83559 TGAAAATCGC
83569 ATTGCGATTTTCTCG
1 ATTGCGATTTTCTCG
83584 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC---TCG
*
83601 CATTGCGATTTCATTTCG
1 -ATTGCGATTT--TCTCG
83619 CATTGCGATTTTCTCG
1 -ATTGCGATTTTCTCG
83635 -TTGCGAT
1 ATTGCGAT
83642 AGCCATTTCG
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
14 18 0.37
16 4 0.08
17 3 0.06
18 14 0.29
19 9 0.18
21 1 0.02
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (15 bp):
ATTGCGATTTTCTCG
Found at i:83606 original size:19 final size:19
Alignment explanation
Indices: 83565--83631 Score: 92
Period size: 18 Copynumber: 3.8 Consensus size: 19
83555 GAAATGAAAA
83565 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
83581 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
83598 TCGCATTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
83616 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
83632 TCGTTGCGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.24
16 3 0.07
17 3 0.07
18 18 0.40
19 10 0.22
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:83767 original size:14 final size:14
Alignment explanation
Indices: 83748--83784 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
83738 CATCAATTAA
83748 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
83762 ACAAATCATCTTTT
1 ACAAATCAACATTT
83776 ACAAATCAA
1 ACAAATCAA
83785 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:85721 original size:14 final size:14
Alignment explanation
Indices: 85702--85759 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
85692 ATGCGAAATG
85702 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
85716 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
85732 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
85748 AAAATCGCAACG
1 AAAATCGCAACG
85760 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:85744 original size:32 final size:33
Alignment explanation
Indices: 85686--85776 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
85676 GGAAATGGCT
*
85686 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
85719 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
85751 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
85777 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:85770 original size:19 final size:19
Alignment explanation
Indices: 85628--85781 Score: 114
Period size: 19 Copynumber: 8.6 Consensus size: 19
85618 TAGTTTACTT
* *
85628 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
85648 TCGCAACGCGAAATGACTA
1 TCGCAACGCGAAATGAAAA
***
85667 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
85687 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
85706 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
85720 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
85738 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
85752 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
85771 TCGCAATGCGA
1 TCGCAACGCGA
85782 TTTGTGTTTC
Statistics
Matches: 108, Mismatches: 14, Indels: 25
0.73 0.10 0.17
Matches are distributed among these distances:
14 20 0.19
15 1 0.01
16 6 0.06
17 2 0.02
18 11 0.10
19 39 0.36
20 29 0.27
ACGTcount: A:0.43, C:0.24, G:0.20, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:85812 original size:14 final size:14
Alignment explanation
Indices: 85793--85882 Score: 81
Period size: 14 Copynumber: 5.9 Consensus size: 14
85783 TTGTGTTTCG
85793 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
85807 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
85823 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
*
85839 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
85855 CGCGTTGCGCTTTTGT
1 --CGTTGCGATTTTGT
85871 CGTTGCGATTTT
1 CGTTGCGATTTT
85883 CATTTCGCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
14 33 0.53
16 8 0.13
18 21 0.34
ACGTcount: A:0.08, C:0.19, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:85827 original size:32 final size:32
Alignment explanation
Indices: 85788--85898 Score: 195
Period size: 32 Copynumber: 3.4 Consensus size: 32
85778 GCGATTTGTG
85788 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
85820 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
*
85852 TTTCGCGTTGCGCTTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
*
85885 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
85899 AGCCATTTCC
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 58 0.77
33 17 0.23
ACGTcount: A:0.09, C:0.20, G:0.24, T:0.47
Consensus pattern (32 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
Found at i:85917 original size:20 final size:19
Alignment explanation
Indices: 85883--85937 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
85873 TTGCGATTTT
*
85883 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
85902 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
85922 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
85938 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:86436 original size:18 final size:18
Alignment explanation
Indices: 86410--86454 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
86400 GTCGATCAGA
*
86410 TGATGGCTCTAGGTGAGG
1 TGATGGCTCTAGGCGAGG
* *
86428 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTAGGCGAGG
86446 TGATGGCTC
1 TGATGGCTC
86455 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTAGGCGAGG
Found at i:88367 original size:20 final size:20
Alignment explanation
Indices: 88261--88375 Score: 79
Period size: 20 Copynumber: 5.7 Consensus size: 20
88251 CGCTTTGAAA
*
88261 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
88282 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
** * *
88302 ATCGTGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
88322 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
88343 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
88363 ATCGCATTGCGAT
1 ATCGCATTGCGAT
88376 TTTCCCAATT
Statistics
Matches: 74, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
19 2 0.03
20 48 0.65
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:88394 original size:41 final size:41
Alignment explanation
Indices: 88364--88459 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
88354 ATAGTCAGTA
* * *
88364 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
* *
88405 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
88446 TCGCATTGCGAATT
1 TCGCATTGCGAATT
88460 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:88408 original size:20 final size:20
Alignment explanation
Indices: 88364--88456 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
88354 ATAGTCAGTA
* **
88364 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
88385 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
88405 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
88426 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
88446 TCGCATTGCGA
1 TCGCATTGCGA
88457 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:90541 original size:20 final size:20
Alignment explanation
Indices: 90516--90560 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
90506 AAAAACTCAA
90516 ATCTCGAGTCTCATCGTGTC
1 ATCTCGAGTCTCATCGTGTC
*
90536 ATCTCGAGTTTCATCGTGTC
1 ATCTCGAGTCTCATCGTGTC
90556 ATCTC
1 ATCTC
90561 ATAAGGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.18, T:0.38
Consensus pattern (20 bp):
ATCTCGAGTCTCATCGTGTC
Found at i:91179 original size:20 final size:21
Alignment explanation
Indices: 91149--91187 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
91139 ATTACAGGTA
91149 CAAATATGACAAAACCGGTCC
1 CAAATATGACAAAACCGGTCC
91170 CAAA-ATGACAAAACCGGT
1 CAAATATGACAAAACCGGT
91188 AAAAAGCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.46, C:0.26, G:0.15, T:0.13
Consensus pattern (21 bp):
CAAATATGACAAAACCGGTCC
Found at i:91359 original size:21 final size:22
Alignment explanation
Indices: 91328--91368 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
91318 ATATAACAGG
* *
91328 TAAAAATATGATAACACCGGTC
1 TAAAAATATGACAAAACCGGTC
91350 TAAAAA-ATGACAAAACCGG
1 TAAAAATATGACAAAACCGG
91369 AAAAAGTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.17
Consensus pattern (22 bp):
TAAAAATATGACAAAACCGGTC
Found at i:91405 original size:181 final size:181
Alignment explanation
Indices: 91135--91772 Score: 893
Period size: 181 Copynumber: 3.5 Consensus size: 181
91125 CGCTCCATAG
* * * * * * *
91135 CAATATTACAGGTACAAATATGACAAAACCGGTCCCAAAATGACAAAACCGGTAAAAAGCTATCA
1 CAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACAAAACCGG-AAAAAGTTACCG
* *
91200 TATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAA
65 GATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAA
* * * * * *
91265 GTTATAGCGCCTATAAAGTATCGATACTTTA-AAAAAAATATCGATCCACAA
130 GTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATATATCGATCCAAAA
* *
91316 CAATATAACAGGTAAAAATATGATAACACCGGTCTAAAAAATGACAAAACCGGAAAAAGTTACCG
1 CAATATAACAGGTAAAAATATGATAAAACCGGTCT-CAAAATGACAAAACCGGAAAAAGTTACCG
*
91381 GATATATTGAAAGTGTCGATAATTTAATATTAGTATCGACACTTTCTGAATTTAAAAGAGAAGAA
65 GATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAA
* ** *
91446 GTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATTTATCGATCCTTAC
130 GTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATATATCGATCCAAAA
* *
91498 CAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAATGACAAAACCGGAAAAAATTACCGG
1 CAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACAAAACCGGAAAAAGTTACCGG
* * * *
91563 ATATGTTAAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTTAATTTAAAAGAGAGGAAG
66 ATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAG
* * *
91628 TTATCGCGCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCAAAA
131 TTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATATATCGATCCAAAA
* * *
91679 CAATATAACATGTAAAAATATGATAAAACCGGTCTCAAAATGACAAAACC-GATAAATAGATACT
1 CAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACAAAACCGGA-AAA-AGTTACC
* * *
91743 GGATATGTTGAAAGTGTTGATACTTTAATA
64 GGATATATTGAAAGTGTCGATAATTTAATA
91773 AGTACGCGCA
Statistics
Matches: 409, Mismatches: 44, Indels: 7
0.89 0.10 0.02
Matches are distributed among these distances:
180 2 0.00
181 313 0.77
182 94 0.23
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (181 bp):
CAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACAAAACCGGAAAAAGTTACCGG
ATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAG
TTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATATATCGATCCAAAA
Found at i:92191 original size:19 final size:18
Alignment explanation
Indices: 92160--92204 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
92150 TAGTTAATAT
*
92160 TTATAAGTAAAAATGATA
1 TTATAGGTAAAAATGATA
92178 TTATAGGTAGAAAATGATA
1 TTATAGGTA-AAAATGATA
*
92197 TTTTAGGT
1 TTATAGGT
92205 TGTATAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (18 bp):
TTATAGGTAAAAATGATA
Found at i:92485 original size:18 final size:18
Alignment explanation
Indices: 92450--92488 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
92440 TTGAAATGAT
92450 AATTGGATTAAAACTTTA
1 AATTGGATTAAAACTTTA
*
92468 AATT-GATTACAAATTTTA
1 AATTGGATTA-AAACTTTA
92486 AAT
1 AAT
92489 GTTGACAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (18 bp):
AATTGGATTAAAACTTTA
Found at i:93223 original size:22 final size:22
Alignment explanation
Indices: 93173--93228 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
93163 AATGTTTTTG
*
93173 TTTTTTTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAG-A
93196 TATTTATTATATAAAATGATA-A
1 T-TTTATTATATAAAATGATAGA
93218 CTTTTATTATA
1 -TTTTATTATA
93229 AATGCAGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 10 0.33
23 2 0.07
24 18 0.60
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (22 bp):
TTTTATTATATAAAATGATAGA
Found at i:93911 original size:18 final size:18
Alignment explanation
Indices: 93888--93926 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
93878 GAAAAAATTT
*
93888 GAAGAAGAGAAGATGGAG
1 GAAGAAGAAAAGATGGAG
*
93906 GAAGAAGAAAAGATTGAG
1 GAAGAAGAAAAGATGGAG
93924 GAA
1 GAA
93927 ATGAGGAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.38, T:0.08
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:95623 original size:199 final size:199
Alignment explanation
Indices: 95277--95888 Score: 969
Period size: 199 Copynumber: 3.1 Consensus size: 199
95267 CTCGATCAAA
* * *
95277 ATCGAAAACCATAATTATAATGTAATAGGTAAATTATTC-ATGTAAACGGTCTAAATATACCGGT
1 ATCGAAAACCATAATTATAATGTAATAGGTAAATTA-ACAATATAACCGGTCTAAATATACCGGT
95341 TTTTGAGAAAACAAGTGTACAAAAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCC
65 TTTTGAGAAAACAAGTGTACAAAAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCC
* * *
95406 ATAATGTATTTAAAAAACAAGTGCCCTAAAAAGTTTCGATACATTTGTAACAAGTGTCGATCCCA
130 AGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTTTCGATACATTTGTAACAAGTTTCGATCCCA
95471 AAAAC
195 AAAAC
* *
95476 ATCGAAAACCATAATTATAATGTAACAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTT
1 ATCGAAAACCATAATTATAATGTAATAGGTAAATTAACAATATAACCGGTCTAAATATACCGGTT
* *
95541 TTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAACAAGTGTCGATACTTTTTGTCCA
66 TTTGAGAAAACAAGTGTACAAAAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCA
95606 GAATGTATTTCAAAAACAAGTGCCCTAAAAAGTATT-GATACATTTGTAACAAGTTTCGATCCCA
131 GAATGTATTTCAAAAACAAGTGCCCTAAAAAGT-TTCGATACATTTGTAACAAGTTTCGATCCCA
95670 AAAAC
195 AAAAC
* * **
95675 ATCGAAAACCATAATTATAATGTAATAGGTAAATTAACAATATAACCAGTCTAAATGTACTAGTT
1 ATCGAAAACCATAATTATAATGTAATAGGTAAATTAACAATATAACCGGTCTAAATATACCGGTT
* * *
95740 TTTGAGAAAACAGGTGTACAAACAGTATCGACACAAATGGAACAAGTGTCGATACTTTTTGTCCA
66 TTTGAGAAAACAAGTGTACAAAAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCA
* * * * *
95805 GAATGTATTTCAGAACCAAGTGCAC-AACAAAGTTTCGATACATTTATAACAATTTTCGATCCCA
131 GAATGTATTTCAAAAACAAGTGCCCTAA-AAAGTTTCGATACATTTGTAACAAGTTTCGATCCCA
95869 AAAAC
195 AAAAC
*
95874 ATCGAAAAACATAAT
1 ATCGAAAACCATAAT
95889 AATTATAACC
Statistics
Matches: 384, Mismatches: 25, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
198 5 0.01
199 377 0.98
200 2 0.01
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (199 bp):
ATCGAAAACCATAATTATAATGTAATAGGTAAATTAACAATATAACCGGTCTAAATATACCGGTT
TTTGAGAAAACAAGTGTACAAAAAGTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCA
GAATGTATTTCAAAAACAAGTGCCCTAAAAAGTTTCGATACATTTGTAACAAGTTTCGATCCCAA
AAAC
Found at i:98778 original size:20 final size:20
Alignment explanation
Indices: 98749--98797 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
98739 CCATAACAAT
98749 AAAACAGGTCAAAAAATGAC
1 AAAACAGGTCAAAAAATGAC
* * *
98769 AAAACCGGTCTATAAATGAC
1 AAAACAGGTCAAAAAATGAC
98789 AAAACAGGT
1 AAAACAGGT
98798 AAAGCGCTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.16, G:0.16, T:0.14
Consensus pattern (20 bp):
AAAACAGGTCAAAAAATGAC
Found at i:99876 original size:940 final size:941
Alignment explanation
Indices: 98043--100863 Score: 5128
Period size: 940 Copynumber: 3.0 Consensus size: 941
98033 CATCAACATT
**
98043 ATGTACTTCATGGCATTCATCAGTTGGCTTAACATTGTCTGCATCAGTATGATCCATGGCAAAAA
1 ATGTACTTCATGGCATTCATTGGTTGGCTTAACATTGTCTGCATCAGTATGATCCATGG-AAAAA
98108 A-TTTGTTGTGCAATTTCAGTGGTCCCAACAGGAGTTGATGGAGATGTAAGTAGTAAAGGTTCAT
65 ATTTTGTTGTGCAATTTCAGTGGTCCCAACAGGAGTTGATGGAGATGTAAGTAGTAAA-GTTCAT
* *
98172 TGAACAACATGTTTTCAGTGGTGCTTTCAATAGGATGTAGTATTGGTAGTGGTAGTTGGAGGGTG
129 TGAACAACATGTTTTCAGTGGTGCTTTCAATAGGATGTGGTATTGGTAGTGGTAGTTAGAGGGTG
*
98237 GATACAACATTAAATTTGCAGGACATATTCAGGTATGTTCAATAACTACAACATTCAATAACTTT
194 GGTACAACATTAAATTTGCAGGACATATTCAGGTATGTTCAATAACTACAACATTCAATAACTTT
98302 AAAGTAATAGGTAAATTTACAATGTAGGTGGTAAAAATATACTTTTTTAATGACAAAATTAGTAA
259 AAAGTAATAGGTAAATTTACAATGTAGGTGGTAAAAATATACTTTTTTAATGACAAAATTAGTAA
* * * *
98367 ACACAATGATTTTTTTCGATACATATATAAGAATATGTGTCGATACATTTTCAAAAATTATCGA-
324 ACACAAAGATTTGTTTCGATACATATGTAAGAATATGTGTCGATACATTTTCAAAAAGTATCGAC
*
98431 CTCAAAAACATCGAAACAAATAATTATAATGTAATATTTAAATTAACAATGTAACCAGTATACAT
389 CCCAAAAACATCGAAACAAATAATTATAATGTAATATTTAAATTAACAATGTAACCAGTATACAT
* * * * *
98496 ATACCGGTTAATTATAAAATAGGTCAACATAAAGTATCGACACTTTTTAAGTATGTGTCGATACA
454 ATACTGGTTAATTATAAAACATGTCAACATAAAGTATCGACACTTTTTAAGTTTGTGTCGATACT
* *
98561 TTTTTACAAAAGAAAGCACAAACAGGTTCACGCATAAAGTGTCAATACATTTAAAATTGTATCGA
519 TTTTTCCAAAAGAAAGCACAAACAGGTTCACGCATAAAGTGTCGATACATTTAAAATTGTATCGA
98626 TCACAAAAACATCGAAACCGATAATTATAATGTAATAGGTCAATTTACAATGTAACCGGTTTAAA
584 TCACAAAAACATCGAAACCGATAATTATAATGTAATAGGTCAATTTACAATGTAACCGGTTTAAA
*
98691 TTTACCGGATATGTTGATAGTTTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAG
649 TTTACCGGATATGTTGATAGTTTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAT
* *
98756 GTCAAAAAATGACAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCAGATATGTTGAT
714 GTCAAAAAATGATAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGAT
98821 AGTGTCGATACTTTATTATAGGTATCGACACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCT
779 AGTGTCGATACTTTATTATAGGTATCGACACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCT
98886 AATAAAATGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGCC
844 AATAAAATGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGCC
98951 AAAACCGGTCTCGAAATGACAAAACCGGTAAAA
909 AAAACCGGTCTCGAAATGACAAAACCGGTAAAA
*
98984 ATGTATTTCATGGCATTCATTGGTTGGCTTAACATTGTCTGCATCAGTATGATCCATGGAAAAAA
1 ATGTACTTCATGGCATTCATTGGTTGGCTTAACATTGTCTGCATCAGTATGATCCATGGAAAAAA
* *
99049 TTTTGTTGTGCAATTTCAATGGTCCCAACAGGAGTTGATGGAGATGTAAATAGTAAAGTTCATTG
66 TTTTGTTGTGCAATTTCAGTGGTCCCAACAGGAGTTGATGGAGATGTAAGTAGTAAAGTTCATTG
99114 AACAACATGTTTTCAGTGGTGCTTTCAATAGGATGTGGTATTGGTAGTGGTAGTTAGAGGGTGGG
131 AACAACATGTTTTCAGTGGTGCTTTCAATAGGATGTGGTATTGGTAGTGGTAGTTAGAGGGTGGG
*
99179 TACAACATTAAATTTGCAGGACATATTCATGTATGTTCAATAACTACAACATTCAATAACTTTAA
196 TACAACATTAAATTTGCAGGACATATTCAGGTATGTTCAATAACTACAACATTCAATAACTTTAA
99244 AGTAATAGGTAAATTTACAATGTAGGTGGTAAAAATATACTTTTTTAATGACAAAATTAGTAAAC
261 AGTAATAGGTAAATTTACAATGTAGGTGGTAAAAATATACTTTTTTAATGACAAAATTAGTAAAC
99309 ACAAAGATTTGTTTCGATACATATGTAAGAATATGTGTCGATACATTTTCAAAAAGTATCGACCC
326 ACAAAGATTTGTTTCGATACATATGTAAGAATATGTGTCGATACATTTTCAAAAAGTATCGACCC
*
99374 CAAAAACATCGAAACAAATAATTATAATGTAATATTTAAATTAACAATATAACCAGTATACATAT
391 CAAAAACATCGAAACAAATAATTATAATGTAATATTTAAATTAACAATGTAACCAGTATACATAT
99439 ACTGGTTAATTATAAAACATGTCAACATAAAGTATCGACACTTTTTAAGTTTGTGTCGATACTTT
456 ACTGGTTAATTATAAAACATGTCAACATAAAGTATCGACACTTTTTAAGTTTGTGTCGATACTTT
* *
99504 TTTCCAAAAGAAAGCACAAACAGGTTCACTCATAAAGTGTCGATACATTTAAAATTGTATTGATC
521 TTTCCAAAAGAAAGCACAAACAGGTTCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATC
*
99569 ACAAAAATATCGAAACCGATAATTATAATGTAATAGGTCAATTTACAATGTAACCGGTTTAAATT
586 ACAAAAACATCGAAACCGATAATTATAATGTAATAGGTCAATTTACAATGTAACCGGTTTAAATT
*
99634 TACCGGATATATTGATAGTTTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACATGT
651 TACCGGATATGTTGATAGTTTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACATGT
99699 CAAAAAATGATAAAA-CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAG
716 CAAAAAATGATAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAG
*
99763 TGTCTATACTTTATTATAGGTATCGACACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCTAA
781 TGTCGATACTTTATTATAGGTATCGACACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCTAA
*
99828 TAAAGTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGCCAA
846 TAAAATGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGCCAA
99893 AACCGGTCTCGAAATGACAAAACCGGTAAAA
911 AACCGGTCTCGAAATGACAAAACCGGTAAAA
* *
99924 ATGTACTTCATGACATTCATTGGTTGGCTTAACATTGTCTGCATCAGTATGATCCATGGCAAAAA
1 ATGTACTTCATGGCATTCATTGGTTGGCTTAACATTGTCTGCATCAGTATGATCCATGGAAAAAA
99989 TTTTGTTGTGCAATTTCAGTGGTCCCAACAGGAGTTGATGGAGATGTAAGTAGTAAAGTTCATTG
66 TTTTGTTGTGCAATTTCAGTGGTCCCAACAGGAGTTGATGGAGATGTAAGTAGTAAAGTTCATTG
*
100054 AACAACATGTTTTCAGTTGTGCTTTCAATAGGATGTGGTATTGGTAGTGGTAGTTAGAGGGTGGG
131 AACAACATGTTTTCAGTGGTGCTTTCAATAGGATGTGGTATTGGTAGTGGTAGTTAGAGGGTGGG
100119 TACAACATTAAATTTGCAGGACATATTCAGGTATGTTCAATAACTACAACATTCAATAACTTTAA
196 TACAACATTAAATTTGCAGGACATATTCAGGTATGTTCAATAACTACAACATTCAATAACTTTAA
100184 AGTAATAGGTAAATTTACAATGTAGGTGGTAAAAATATAC-TTTTTAATGACAAAATTAGTAAAC
261 AGTAATAGGTAAATTTACAATGTAGGTGGTAAAAATATACTTTTTTAATGACAAAATTAGTAAAC
*
100248 GCAAAGATTTGTTTCGATACATATGTAAGAATATGTGTCGATACATTTTCAAAAAGTATCGACCC
326 ACAAAGATTTGTTTCGATACATATGTAAGAATATGTGTCGATACATTTTCAAAAAGTATCGACCC
* *
100313 CAAAAACATCGAAACAAATAATTCTAATGTAATATTTTAATTAACAATGTAACCAGTATACATAT
391 CAAAAACATCGAAACAAATAATTATAATGTAATATTTAAATTAACAATGTAACCAGTATACATAT
*
100378 ACTGGTTAATTATAAAAACATGTCAACATAAAGTATCGACACTTTTTAAGTTTGTGTCGATATTT
456 ACTGGTTAATTAT-AAAACATGTCAACATAAAGTATCGACACTTTTTAAGTTTGTGTCGATACTT
*
100443 TTTTCCAAAAGAAAGCACAAACTGGTTCACGCATAAAGTGTCGATACATTTAAAATTGTATCGAT
520 TTTTCCAAAAGAAAGCACAAACAGGTTCACGCATAAAGTGTCGATACATTTAAAATTGTATCGAT
* *
100508 CACAAAAACATCGAAACCGATAATTATAATGTAATAGGTCAATTTACAATTTAATCGGTTTAAAT
585 CACAAAAACATCGAAACCGATAATTATAATGTAATAGGTCAATTTACAATGTAACCGGTTTAAAT
*
100573 TTACCGGATATGTTGATAGTTTCGCTACTTTATAAAAATGTATCGATCCATAACAATAAAACATG
650 TTACCGGATATGTTGATAGTTTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACATG
*
100638 TCAAAAAATGATAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTATCGGATATGTTGATA
715 TCAAAAAATGATAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATA
* *
100703 GCGTCGATACTTTATTATAGGTATCGATACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCTA
780 GTGTCGATACTTTATTATAGGTATCGACACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCTA
* * * *
100768 ATAAAATGTCGATACTTTATAAAAATGTATAGATCCATAATAATATAACAGGTAAAAATATGACA
845 ATAAAATGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGCCA
* *
100833 AAATCAGTCTCGAAATGACAAAACCGGTAAA
910 AAACCGGTCTCGAAATGACAAAACCGGTAAA
100864 GAGTTGTCGG
Statistics
Matches: 1814, Mismatches: 62, Indels: 8
0.96 0.03 0.00
Matches are distributed among these distances:
939 163 0.09
940 1016 0.56
941 635 0.35
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.31
Consensus pattern (941 bp):
ATGTACTTCATGGCATTCATTGGTTGGCTTAACATTGTCTGCATCAGTATGATCCATGGAAAAAA
TTTTGTTGTGCAATTTCAGTGGTCCCAACAGGAGTTGATGGAGATGTAAGTAGTAAAGTTCATTG
AACAACATGTTTTCAGTGGTGCTTTCAATAGGATGTGGTATTGGTAGTGGTAGTTAGAGGGTGGG
TACAACATTAAATTTGCAGGACATATTCAGGTATGTTCAATAACTACAACATTCAATAACTTTAA
AGTAATAGGTAAATTTACAATGTAGGTGGTAAAAATATACTTTTTTAATGACAAAATTAGTAAAC
ACAAAGATTTGTTTCGATACATATGTAAGAATATGTGTCGATACATTTTCAAAAAGTATCGACCC
CAAAAACATCGAAACAAATAATTATAATGTAATATTTAAATTAACAATGTAACCAGTATACATAT
ACTGGTTAATTATAAAACATGTCAACATAAAGTATCGACACTTTTTAAGTTTGTGTCGATACTTT
TTTCCAAAAGAAAGCACAAACAGGTTCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATC
ACAAAAACATCGAAACCGATAATTATAATGTAATAGGTCAATTTACAATGTAACCGGTTTAAATT
TACCGGATATGTTGATAGTTTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACATGT
CAAAAAATGATAAAACCGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAG
TGTCGATACTTTATTATAGGTATCGACACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCTAA
TAAAATGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGCCAA
AACCGGTCTCGAAATGACAAAACCGGTAAAA
Found at i:100911 original size:182 final size:181
Alignment explanation
Indices: 100598--101043 Score: 660
Period size: 182 Copynumber: 2.4 Consensus size: 181
100588 ATAGTTTCGC
* * * * *
100598 TACTTTATAAAAATGTATCGATCCATAACAATAAAACATGTCAAAAA-ATGATAAAACCGGTCTA
1 TACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAATATGACAAAATC-GTCTC
* * * *
100662 TAAATGACAAAACAGGTAAAGCGCTATCGGATATGTTGATAGCGTCGATACTTTATTATAGGTAT
64 GAAATGACAAAACCGGTAAAGAGCTATCGGATATGTTGATAGCGTCGATACTTTATTATAAGTAT
* * * * *
100727 CGATACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCTAATAAAATGTCGA
129 CGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAATGTCGA
* *
100780 TACTTTATAAAAATGTATAGATCCATAATAATATAACAGGTAAAAATATGACAAAATCAGTCTCG
1 TACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATC-GTCTCG
* * *
100845 AAATGACAAAACCGGTAAAGAGTTGTCGGATATGTTGATAGTGTCGATACTTTATTATAAGTATC
65 AAATGACAAAACCGGTAAAGAGCTATCGGATATGTTGATAGCGTCGATACTTTATTATAAGTATC
*
100910 GACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTGTCGA
130 GACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAATGTCGA
100962 TACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGATCTCG
1 TACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCG-TCTCG
*
101027 AAATGACAAAAACGGTA
65 AAATGACAAAACCGGTA
101044 GTAAAAAAGT
Statistics
Matches: 238, Mismatches: 24, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
181 6 0.03
182 232 0.97
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (181 bp):
TACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAATCGTCTCGA
AATGACAAAACCGGTAAAGAGCTATCGGATATGTTGATAGCGTCGATACTTTATTATAAGTATCG
ACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAATGTCGA
Found at i:101692 original size:23 final size:23
Alignment explanation
Indices: 101663--101710 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
101653 AAATAGATCA
* *
101663 ATATAAGTGCTACCTATTATATT
1 ATATAAGCGCTACCTAATATATT
101686 ATATAAGCGCTACCTAATATATT
1 ATATAAGCGCTACCTAATATATT
101709 AT
1 AT
101711 TGTACTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATATATT
Found at i:102361 original size:27 final size:29
Alignment explanation
Indices: 102307--102361 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
102297 CTCTCTTATG
*
102307 TTATTAATTTTCACATCAACTGTTACATTA
1 TTATTAATTTTCAAATCAACTG-TACATTA
*
102337 TTATT-ATTTTCAAATTAACTG-ACAT
1 TTATTAATTTTCAAATCAACTGTACAT
102362 ACCATTTACC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
29 14 0.61
30 5 0.22
ACGTcount: A:0.35, C:0.15, G:0.04, T:0.47
Consensus pattern (29 bp):
TTATTAATTTTCAAATCAACTGTACATTA
Found at i:108632 original size:20 final size:20
Alignment explanation
Indices: 108607--108693 Score: 138
Period size: 20 Copynumber: 4.3 Consensus size: 20
108597 AGGTAAAAGG
* *
108607 TCTGCAATCTGCGGACCACA
1 TCTGCAGTCTGCGGACCAAA
*
108627 TCTGCAGTCTGCGGACCACA
1 TCTGCAGTCTGCGGACCAAA
108647 TCTGCAGTCTGCGGACCAAA
1 TCTGCAGTCTGCGGACCAAA
*
108667 TTTGCAGTCTGCGGACCAAA
1 TCTGCAGTCTGCGGACCAAA
108687 TCTGCAG
1 TCTGCAG
108694 ACATCTGCAG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.22
Consensus pattern (20 bp):
TCTGCAGTCTGCGGACCAAA
Found at i:109284 original size:20 final size:20
Alignment explanation
Indices: 109261--109324 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 20
109251 AACTTAAATC
109261 AAAATAATTAAAATAA-ATAT
1 AAAATAATT-AAATAATATAT
*
109281 AAAAT--TTTAATAATATAT
1 AAAATAATTAAATAATATAT
*
109299 AAAATAATT-TAT-ATGATAT
1 AAAATAATTAAATAAT-ATAT
109318 AAAATAA
1 AAAATAA
109325 ATTTAAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 5 0.13
18 13 0.34
19 13 0.34
20 7 0.18
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAATAATTAAATAATATAT
Found at i:109346 original size:12 final size:12
Alignment explanation
Indices: 109331--109435 Score: 83
Period size: 12 Copynumber: 8.7 Consensus size: 12
109321 ATAAATTTAA
109331 AAAATTAATATT
1 AAAATTAATATT
109343 AAAATTAATATCT
1 AAAATTAATAT-T
*
109356 ATAATATAATATT
1 AAAAT-TAATATT
109369 AAAAATTAATATT
1 -AAAATTAATATT
* *
109382 -TAATTTAT-TT
1 AAAATTAATATT
*
109392 AAAAAATAATATT
1 -AAAATTAATATT
*
109405 AAAATTAA-AAT
1 AAAATTAATATT
*
109416 CAAATATAATA-T
1 AAAAT-TAATATT
109428 AAAATTAA
1 AAAATTAA
109436 ATATAAAACG
Statistics
Matches: 74, Mismatches: 11, Indels: 17
0.73 0.11 0.17
Matches are distributed among these distances:
10 2 0.03
11 15 0.20
12 31 0.42
13 16 0.22
14 10 0.14
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (12 bp):
AAAATTAATATT
Found at i:109346 original size:14 final size:14
Alignment explanation
Indices: 109318--109408 Score: 58
Period size: 13 Copynumber: 7.1 Consensus size: 14
109308 TATATGATAT
*
109318 AAAATAAAT-TTAA
1 AAAATTAATATTAA
109331 AAAATTAATATT--
1 AAAATTAATATTAA
*
109343 AAAATTAATATCTAT
1 AAAATTAATAT-TAA
*
109358 AATA-TAATATT-A
1 AAAATTAATATTAA
109370 AAAATTAATATT--
1 AAAATTAATATTAA
* *
109382 -TAATTTAT-TTAA
1 AAAATTAATATTAA
109394 AAAA-TAATATTAA
1 AAAATTAATATTAA
109407 AA
1 AA
109409 TTAAAATCAA
Statistics
Matches: 61, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
10 2 0.03
11 6 0.10
12 17 0.28
13 25 0.41
14 8 0.13
15 3 0.05
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (14 bp):
AAAATTAATATTAA
Found at i:109380 original size:27 final size:24
Alignment explanation
Indices: 109333--109404 Score: 85
Period size: 23 Copynumber: 3.0 Consensus size: 24
109323 AAATTTAAAA
109333 AATTAATATT-AAAATTAATATCTAT
1 AATTAATATTAAAAATTAATAT-T-T
109358 AATATAATATTAAAAATTAATATTT
1 AAT-TAATATTAAAAATTAATATTT
* *
109383 AATTTAT-TTAAAAAATAATATT
1 AATTAATATTAAAAATTAATATT
109405 AAAATTAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
23 14 0.33
24 3 0.07
25 7 0.16
26 8 0.19
27 11 0.26
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (24 bp):
AATTAATATTAAAAATTAATATTT
Found at i:115088 original size:13 final size:13
Alignment explanation
Indices: 115070--115095 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
115060 CGAGCCATTC
115070 ATTATCGAGGATT
1 ATTATCGAGGATT
115083 ATTATCGAGGATT
1 ATTATCGAGGATT
115096 GACGAATGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (13 bp):
ATTATCGAGGATT
Found at i:118220 original size:20 final size:20
Alignment explanation
Indices: 118195--118264 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
118185 GCGAAGTTCG
118195 CGTTGCGATTCATTCCAAAT
1 CGTTGCGATTCATTCCAAAT
*
118215 CGTTGCGA-T-AGT-CAAAGTT
1 CGTTGCGATTCATTCCAAA--T
118234 CGCGTTGCGATTCATTCCAAAT
1 --CGTTGCGATTCATTCCAAAT
118256 CGTTGCGAT
1 CGTTGCGAT
118265 AGGCGAAGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 14
0.72 0.04 0.25
Matches are distributed among these distances:
17 4 0.10
18 2 0.05
19 2 0.05
20 17 0.41
21 8 0.20
22 2 0.05
23 2 0.05
24 4 0.10
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (20 bp):
CGTTGCGATTCATTCCAAAT
Found at i:118235 original size:41 final size:41
Alignment explanation
Indices: 118135--118390 Score: 377
Period size: 41 Copynumber: 6.1 Consensus size: 41
118125 ATTTGCAACA
***
118135 CGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTTGCAACG
1 CGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAA--T-CGTTG
118179 CGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTTG
1 CGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTTG
* *
118220 CGATAGTCAAAGTTCGCGTTGCGATTCATTCCAAATCGTTG
1 CGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTTG
* *
118261 CGATAGGCGAAGTTCGCATTGCGATTCATTCCAATTCGTTG
1 CGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTTG
* * *
118302 CAACAGGCGAAGTTCGCGTTGCGATTCATTCCAATTCGTTG
1 CGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTTG
*
118343 CGACAGGCGAAGTTCGCGTTGCGATTCATTCCAAATTCGTTG
1 CGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTTG
118385 CGATAG
1 CGATAG
118391 TCCAAATATT
Statistics
Matches: 196, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
41 149 0.76
42 12 0.06
44 35 0.18
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (41 bp):
CGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTTG
Found at i:118364 original size:21 final size:21
Alignment explanation
Indices: 118297--118366 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
118287 CATTCCAATT
*
118297 CGTTGCAACAGGCGAAGTTCG
1 CGTTGCGACAGGCGAAGTTCG
** *
118318 CGTTGCGATTCATTCCAA-TT--
1 CGTTGCGA--CAGGCGAAGTTCG
118338 CGTTGCGACAGGCGAAGTTCG
1 CGTTGCGACAGGCGAAGTTCG
118359 CGTTGCGA
1 CGTTGCGA
118367 TTCATTCCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
18 5 0.14
19 2 0.05
20 8 0.22
21 15 0.41
22 2 0.05
23 5 0.14
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (21 bp):
CGTTGCGACAGGCGAAGTTCG
Found at i:119349 original size:41 final size:41
Alignment explanation
Indices: 119284--119526 Score: 396
Period size: 41 Copynumber: 5.9 Consensus size: 41
119274 ATTTGGACTA
* *
119284 TCGCAACGAATTTGGAATGAATCGCAACGCGAACTTCGCCTA
1 TCGCAACGAA-TTGGAATGAATCGCAATGCGAACTTCGCCTG
** * *
119326 TTTCAATGAATTGGAATGAATCGCAATTCGAACTTCGCCTG
1 TCGCAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTG
*
119367 TCGCAACAAATTGGAATGAATCGCAATGCGAACTTCGCCTG
1 TCGCAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTG
119408 TCGCAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTG
1 TCGCAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTG
*
119449 TCGCAACGAATTGGAATGAATCACAATGCGAACTTCGCCTG
1 TCGCAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTG
*
119490 TCGCAACGAATTGGAATGAATCGCAACGCGAACTTCG
1 TCGCAACGAATTGGAATGAATCGCAATGCGAACTTCG
119527 ACTATCGCGT
Statistics
Matches: 186, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
41 179 0.96
42 7 0.04
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (41 bp):
TCGCAACGAATTGGAATGAATCGCAATGCGAACTTCGCCTG
Found at i:121829 original size:43 final size:42
Alignment explanation
Indices: 121781--121928 Score: 122
Period size: 43 Copynumber: 3.5 Consensus size: 42
121771 TTGGAGCTCC
* *
121781 CATTTTTTCATCTTTATAATTAGGTTTTTAAT-TTTTTAAATCT
1 CATTTTTT-ATCTTTATAATTAGG-TCTTAATATTATTAAATCT
* * * *
121824 TATTTTTTATATTTATAATGGAGGTCTTAATATTATTCAATCT
1 CATTTTTTATCTTTATAAT-TAGGTCTTAATATTATTAAATCT
* * * *
121867 CACTTTTTATCTTTATAATTGAAGTCTCTAAT-TTTTTCAATC-
1 CATTTTTTATCTTTATAATT-AGGTCT-TAATATTATTAAATCT
* *
121909 CCTTTTTTACCTTTATAATT
1 CATTTTTTATCTTTATAATT
121929 GAGGCCCCTA
Statistics
Matches: 86, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 33 0.38
43 49 0.57
44 4 0.05
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.56
Consensus pattern (42 bp):
CATTTTTTATCTTTATAATTAGGTCTTAATATTATTAAATCT
Found at i:122068 original size:129 final size:128
Alignment explanation
Indices: 121859--122195 Score: 373
Period size: 129 Copynumber: 2.6 Consensus size: 128
121849 CTTAATATTA
* * * * * ** *
121859 TTCAATCTCACTTTTTATCTTTAT-AATTGAAGTCTCTAA-TTTTTTCAATC-CCTTTTTTACCT
1 TTCAATCTCACTTTCTAACTTT-TCAATTGAGGCCCCTAAGTTTTTTCAATCTCAATTTCTACCT
**
121921 TTATAATTGAGGCCCCTAATTTTGTAATCTCAC-TTTT-AACTTTATAATTGAGGCTTTTAAGTT
65 TTATAATTGAGGCCCCTAATTTT-TAAT-TCACTTTTTCAACTTTATAATTGAGGCCCTTAAGTT
121984 T
128 T
*
121985 TTCCAATCTCACTTTCTACCTTTTCAATTGAGGCCCCTAAGTTTTTTCAATCTCAATTTCTACCT
1 TT-CAATCTCACTTTCTAACTTTTCAATTGAGGCCCCTAAGTTTTTTCAATCTCAATTTCTACCT
* * *
122050 TTATAATTGAGGGCCCTAATTTTTTATTCACTTTTTTCAACTTTATAATTGAGGCCCTTGAGTTT
65 TTATAATTGAGGCCCCTAATTTTTAATTCAC-TTTTTCAACTTTATAATTGAGGCCCTTAAGTTT
* * * * * *
122115 TTTAATCTCACTTTC-AAATTTTCTAATTGAGGGCCCTAAGTTTTTTCGATCTCAA-TTATACAT
1 TTCAATCTCACTTTCTAACTTTTC-AATTGAGGCCCCTAAGTTTTTTCAATCTCAATTTCTACCT
* *
122178 TTACAATTTAGGCCCCTA
65 TTATAATTGAGGCCCCTA
122196 TTTGTTTCAA
Statistics
Matches: 180, Mismatches: 23, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
126 3 0.02
127 34 0.19
128 41 0.23
129 76 0.42
130 26 0.14
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.46
Consensus pattern (128 bp):
TTCAATCTCACTTTCTAACTTTTCAATTGAGGCCCCTAAGTTTTTTCAATCTCAATTTCTACCTT
TATAATTGAGGCCCCTAATTTTTAATTCACTTTTTCAACTTTATAATTGAGGCCCTTAAGTTT
Found at i:122195 original size:43 final size:41
Alignment explanation
Indices: 121914--122195 Score: 156
Period size: 44 Copynumber: 6.6 Consensus size: 41
121904 CAATCCCTTT
* * * *
121914 TTTACCTTTATAATTGAGGCCCCTAA-TTTTGTAATCTCACT
1 TTTACATTTACAATTGAGGCCCCTAAGTTTTTTAATCTCA-A
* *** * *
121955 TTTA-ACTTTATAATTGAGGCTTTTAAGTTTTTCCAATCTCACT
1 TTTACA-TTTACAATTGAGGCCCCTAAGTTTTT-TAATCTCA-A
* *
121998 TTCTACCTTTTCAATTGAGGCCCCTAAGTTTTTTCAATCTCAA
1 TT-TACATTTACAATTGAGGCCCCTAAGTTTTTT-AATCTCAA
* * * * * **
122041 TTTCTACCTTTATAATTGAGGGCCCTAA-TTTTTTATTCACTT
1 -TT-TACATTTACAATTGAGGCCCCTAAGTTTTTTAATCTCAA
* * * * *
122083 TTTTCAACTTTATAATTGAGGCCCTTGAGTTTTTTAATCTCAC
1 TTTAC-A-TTTACAATTGAGGCCCCTAAGTTTTTTAATCTCAA
* * * *
122126 TTTCAAATTTTCTAATTGAGGGCCCTAAGTTTTTTCGATCTCAA
1 TTT-ACATTTAC-AATTGAGGCCCCTAAGTTTTTT-AATCTCAA
*
122170 TTATACATTTACAATTTAGGCCCCTA
1 TT-TACATTTACAATTGAGGCCCCTA
122196 TTTGTTTCAA
Statistics
Matches: 184, Mismatches: 43, Indels: 26
0.73 0.17 0.10
Matches are distributed among these distances:
40 2 0.01
41 23 0.12
42 28 0.15
43 62 0.34
44 68 0.37
45 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.45
Consensus pattern (41 bp):
TTTACATTTACAATTGAGGCCCCTAAGTTTTTTAATCTCAA
Found at i:122206 original size:171 final size:171
Alignment explanation
Indices: 121859--122245 Score: 444
Period size: 171 Copynumber: 2.3 Consensus size: 171
121849 CTTAATATTA
* * * * * * *
121859 TTCAATCTCACTTTTTATCTTTATAATTGAAGTCTCTAATTTTTTCAATCCCTTTTTTACCTTTA
1 TTCAATCTCAATTTCTACCTTTATAATTGAAGGCCCTAATTTTTTCAATCACTTTTTTAACTTTA
* **
121924 TAATTGAGGCCCCTAATTTTGTAATCTCACTTTTAACTTTATAATTGAGGCTTTTAAGTTTTTCC
66 TAATTGAGGCCCCTAATTTTGTAATCTCACTTTAAACTTTATAATTGAGGCTCCTAAGTTTTTCC
* * * *
121989 AATCTCACTTTCTACCTTTTCAATTGAGGCCCCTAAGTTTT
131 AATCTCACATTATACATTTACAATTGAGGCCCCTAAGTTTT
* *
122030 TTCAATCTCAATTTCTACCTTTATAATTGAGGGCCCTAATTTTTT-ATTCACTTTTTTCAACTTT
1 TTCAATCTCAATTTCTACCTTTATAATTGAAGGCCCTAATTTTTTCAATCACTTTTTT-AACTTT
* * * * *
122094 ATAATTGAGGCCCTTGAGTTTTTTAATCTCACTTTCAAATTTTCTAATTGAGGGC-CCTAAGTTT
65 ATAATTGAGGCCCCT-AATTTTGTAATCTCACTTT-AAACTTTATAATTGA-GGCTCCTAAGTTT
* * *
122158 TTTCGATCTCA-ATTATACATTTACAATTTAGGCCCCT-A-TTTGT
127 TTCCAATCTCACATTATACATTTACAATTGAGGCCCCTAAGTTT-T
* *
122201 TTCAATCTCGATTTCTGCCTTTATAATT-AAGGCCTCTAATTTTTT
1 TTCAATCTCAATTTCTACCTTTATAATTGAAGGCC-CTAATTTTTT
122246 TTTACAATTT
Statistics
Matches: 183, Mismatches: 27, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
170 18 0.10
171 96 0.52
172 38 0.21
173 28 0.15
174 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.47
Consensus pattern (171 bp):
TTCAATCTCAATTTCTACCTTTATAATTGAAGGCCCTAATTTTTTCAATCACTTTTTTAACTTTA
TAATTGAGGCCCCTAATTTTGTAATCTCACTTTAAACTTTATAATTGAGGCTCCTAAGTTTTTCC
AATCTCACATTATACATTTACAATTGAGGCCCCTAAGTTTT
Found at i:122223 original size:129 final size:129
Alignment explanation
Indices: 121894--122234 Score: 324
Period size: 129 Copynumber: 2.7 Consensus size: 129
121884 ATTGAAGTCT
** * * * *
121894 CTAA-TTTTTTCAATC-CCTTTTTTACCTTTATAATTGAGGCCCCTAATTTTGTAATCTCACTTT
1 CTAAGTTTTTTCAATCTCAATTTATACATTTACAATTGAGGCCCCTAATTTT-TTAT-TCACTTT
* ** **
121957 -T-AACTTTATAATTGAGGCTTTTAAGTTTTTCCAATCTCACTTTCTACCTTTTCAATTGAGGCC
64 CTGCACTTTATAATTGAGGCCCTTAAGTTTTTCCAATCTCACTTTCTAAATTTTCAATTGAGGCC
122020 C
129 C
* * * * *
122021 CTAAGTTTTTTCAATCTCAATTTCTACCTTTATAATTGAGGGCCCTAATTTTTTATTCACTTTTT
1 CTAAGTTTTTTCAATCTCAATTTATACATTTACAATTGAGGCCCCTAATTTTTTATTCACTTTCT
* * * *
122086 TCAACTTTATAATTGAGGCCCTTGAGTTTTT-TAATCTCACTTTC-AAATTTTCTAATTGAGGGC
66 GC-ACTTTATAATTGAGGCCCTTAAGTTTTTCCAATCTCACTTTCTAAATTTTC-AATTGAGGCC
122149 C
129 C
* *
122150 CTAAGTTTTTTCGATCTCAA-TTATACATTTACAATTTAGGCCCCT-ATTTGTTTCAATCTCGA-
1 CTAAGTTTTTTCAATCTCAATTTATACATTTACAATTGAGGCCCCTAATTT-TTT--AT-TC-AC
*
122212 TTTCTGC-CTTTATAATTAAGGCC
61 TTTCTGCACTTTATAATTGAGGCC
122235 TCTAATTTTT
Statistics
Matches: 181, Mismatches: 22, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
127 15 0.08
128 44 0.24
129 87 0.48
130 27 0.15
131 7 0.04
132 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.46
Consensus pattern (129 bp):
CTAAGTTTTTTCAATCTCAATTTATACATTTACAATTGAGGCCCCTAATTTTTTATTCACTTTCT
GCACTTTATAATTGAGGCCCTTAAGTTTTTCCAATCTCACTTTCTAAATTTTCAATTGAGGCCC
Found at i:129585 original size:2 final size:2
Alignment explanation
Indices: 129578--129614 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
129568 TCTAACGTGG
*
129578 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
129615 TTAAATTCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Done.