Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008719.1 Hibiscus syriacus cultivar Beakdansim tig00111774_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: 4817204
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 18
Found at i:6249 original size:14 final size:14
Alignment explanation
Indices: 6230--6256 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6220 CCTACATCAA
6230 TTTCCATCACCATC
1 TTTCCATCACCATC
6244 TTTCCATCACCAT
1 TTTCCATCACCAT
6257 AGTCCATCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.37
Consensus pattern (14 bp):
TTTCCATCACCATC
Found at i:11536 original size:27 final size:21
Alignment explanation
Indices: 11482--11525 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
11472 TCGTAAACCA
11482 TTTCATAACCACAACCAAGTC
1 TTTCATAACCACAACCAAGTC
11503 TTTCATAACCACAACCAAGTC
1 TTTCATAACCACAACCAAGTC
11524 TT
1 TT
11526 CCGCTACCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.32, G:0.05, T:0.27
Consensus pattern (21 bp):
TTTCATAACCACAACCAAGTC
Found at i:14123 original size:13 final size:12
Alignment explanation
Indices: 14104--14189 Score: 67
Period size: 11 Copynumber: 7.2 Consensus size: 12
14094 TTATTGGCGT
14104 GATATGGTGATG
1 GATATGGTGATG
14116 GAATATGGTGAT-
1 G-ATATGGTGATG
*
14128 GATATAGGCG-T-
1 GATAT-GGTGATG
14139 GATAATGGTGATG
1 GAT-ATGGTGATG
14152 GACTATGGTGAT-
1 GA-TATGGTGATG
14164 GATATAGGTG-T-
1 GATAT-GGTGATG
14175 GATAATGGTGATG
1 GAT-ATGGTGATG
14188 GA
1 GA
14190 CAGATTGTAT
Statistics
Matches: 62, Mismatches: 2, Indels: 19
0.75 0.02 0.23
Matches are distributed among these distances:
11 22 0.35
12 17 0.27
13 22 0.35
14 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.37, T:0.31
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:14159 original size:36 final size:36
Alignment explanation
Indices: 14089--14190 Score: 161
Period size: 36 Copynumber: 2.9 Consensus size: 36
14079 AATGGAAGAA
* * *
14089 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
14124 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
*
14160 TGATGATATAGGTGTGATAATGGTGATGGAC
1 TGATGATATAGGCGTGATAATGGTGATGGAC
14191 AGATTGTATC
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
35 16 0.26
36 46 0.74
ACGTcount: A:0.26, C:0.04, G:0.36, T:0.33
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGACTATGG
Found at i:14576 original size:19 final size:20
Alignment explanation
Indices: 14529--14579 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
14519 GAAACCCCTT
**
14529 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
14549 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
14568 TGAAGATACATG
1 TGAAAATACATG
14580 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:16358 original size:24 final size:24
Alignment explanation
Indices: 16322--16377 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
16312 AACTCTTGTC
** *
16322 ACTTCAAGTGACGTT-TCTCTTGGA
1 ACTTCAAACGACGTTATCT-TTGAA
16346 ACTTCAAACGACGTTATCTTTGAA
1 ACTTCAAACGACGTTATCTTTGAA
*
16370 ACATCAAA
1 ACTTCAAA
16378 AGATATGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 24 0.89
25 3 0.11
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (24 bp):
ACTTCAAACGACGTTATCTTTGAA
Found at i:17492 original size:16 final size:17
Alignment explanation
Indices: 17453--17485 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
17443 ATGGTAATGA
17453 AATAAGAGAAGATGAAAG
1 AATAA-AGAAGATGAAAG
17471 AATAAAGAA-ATGAAA
1 AATAAAGAAGATGAAA
17486 TGATAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (17 bp):
AATAAAGAAGATGAAAG
Found at i:20020 original size:33 final size:33
Alignment explanation
Indices: 19978--20046 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
19968 GTTGATGAAT
*
19978 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
20011 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
20044 GAA
1 GAA
20047 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:20051 original size:13 final size:12
Alignment explanation
Indices: 20032--20117 Score: 58
Period size: 13 Copynumber: 7.2 Consensus size: 12
20022 TTATTGGCGT
20032 GATATGGTGATG
1 GATATGGTGATG
20044 GAATATGGTGAT-
1 G-ATATGGTGATG
*
20056 GATATAGGCG-T-
1 GATAT-GGTGATG
20067 GATAATGGTGATG
1 GAT-ATGGTGATG
20080 GACTATGGTGAT-
1 GA-TATGGTGATG
*
20092 GATATAGGCG-T-
1 GATAT-GGTGATG
20103 GATAATGGTGATG
1 GAT-ATGGTGATG
20116 GA
1 GA
20118 CAGATTGTAT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 21 0.35
12 16 0.27
13 22 0.37
14 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.37, T:0.30
Consensus pattern (12 bp):
GATATGGTGATG
Found at i:20087 original size:36 final size:36
Alignment explanation
Indices: 20017--20118 Score: 170
Period size: 36 Copynumber: 2.9 Consensus size: 36
20007 AATGGAAGGA
* * *
20017 TGATGTTATTGGCGTGAT-ATGGTGATGGAATATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
20052 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
1 TGATGATATAGGCGTGATAATGGTGATGGACTATGG
20088 TGATGATATAGGCGTGATAATGGTGATGGAC
1 TGATGATATAGGCGTGATAATGGTGATGGAC
20119 AGATTGTATC
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 16 0.25
36 47 0.75
ACGTcount: A:0.26, C:0.05, G:0.36, T:0.32
Consensus pattern (36 bp):
TGATGATATAGGCGTGATAATGGTGATGGACTATGG
Found at i:20504 original size:19 final size:20
Alignment explanation
Indices: 20457--20507 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
20447 GAAACCCCTT
**
20457 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
20477 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
20496 TGAAGATACATG
1 TGAAAATACATG
20508 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:28641 original size:19 final size:20
Alignment explanation
Indices: 28600--28650 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
28590 GAAACCCCTT
*
28600 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
28620 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
28639 TGAAGATACATG
1 TGAAAATACATG
28651 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:32860 original size:19 final size:20
Alignment explanation
Indices: 32819--32869 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
32809 TGAAACCCTT
*
32819 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
32839 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
32858 TGAAGATACATG
1 TGAAAATACATG
32870 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:37040 original size:8 final size:8
Alignment explanation
Indices: 37027--37087 Score: 58
Period size: 8 Copynumber: 8.0 Consensus size: 8
37017 TATTTTTTTT
37027 CAAAAAAA
1 CAAAAAAA
37035 CAAAAAAA
1 CAAAAAAA
37043 C-AAAAAA
1 CAAAAAAA
*
37050 CAAAAAAGG
1 CAAAAAA-A
37059 C--AAAAA
1 CAAAAAAA
**
37065 -AAAAAGG
1 CAAAAAAA
37072 CAAAAAAA
1 CAAAAAAA
37080 CAAAAAAA
1 CAAAAAAA
37088 GAGCCAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
7 14 0.33
8 27 0.64
9 1 0.02
ACGTcount: A:0.82, C:0.11, G:0.07, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:37047 original size:6 final size:7
Alignment explanation
Indices: 37029--37086 Score: 55
Period size: 7 Copynumber: 7.9 Consensus size: 7
37019 TTTTTTTTCA
37029 AAAAAAC
1 AAAAAAC
37036 AAAAAAAC
1 -AAAAAAC
37044 AAAAAAC
1 AAAAAAC
37051 AAAAAAGGC
1 AAAAAA--C
37060 AAAAAA-
1 AAAAAAC
**
37066 AAAAGGC
1 AAAAAAC
37073 AAAAAAAC
1 -AAAAAAC
37081 AAAAAA
1 AAAAAA
37087 AGAGCCAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
6 4 0.10
7 19 0.45
8 12 0.29
9 7 0.17
ACGTcount: A:0.83, C:0.10, G:0.07, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:37070 original size:13 final size:13
Alignment explanation
Indices: 37046--37079 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
37036 AAAAAAACAA
37046 AAAACAAAAAAGGC
1 AAAA-AAAAAAGGC
37060 AAAAAAAAAAGGC
1 AAAAAAAAAAGGC
37073 AAAAAAA
1 AAAAAAA
37080 CAAAAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.79, C:0.09, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAGGC
Found at i:37105 original size:20 final size:20
Alignment explanation
Indices: 37061--37098 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
37051 AAAAAAGGCA
*
37061 AAAAAAAAAGGCAAAAAAAC
1 AAAAAAAAAGCCAAAAAAAC
*
37081 AAAAAAAGAGCCAAAAAA
1 AAAAAAAAAGCCAAAAAA
37099 GCCAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.79, C:0.11, G:0.11, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGCCAAAAAAAC
Found at i:48667 original size:16 final size:16
Alignment explanation
Indices: 48646--48688 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
48636 AGAGATGTCT
*
48646 AGTGGAGACAAAACTA
1 AGTGGAGACAAAACCA
*
48662 AGTGGAGACAAAGCCA
1 AGTGGAGACAAAACCA
48678 AGTGGAGACAA
1 AGTGGAGACAA
48689 GCAATATTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.47, C:0.14, G:0.30, T:0.09
Consensus pattern (16 bp):
AGTGGAGACAAAACCA
Found at i:50232 original size:19 final size:20
Alignment explanation
Indices: 50191--50241 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
50181 GAAACCCCTT
*
50191 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
50211 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
50230 TGAAGATACATG
1 TGAAAATACATG
50242 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:53691 original size:19 final size:20
Alignment explanation
Indices: 53650--53697 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
53640 TTGGTTTGCT
* *
53650 TTCTTTT-TGAATTTTTTTT
1 TTCTTTTCTGAATTTTTCTC
53669 TTCTTTTCTG-ATTTTTCTC
1 TTCTTTTCTGAATTTTTCTC
53688 TTCTTCTTCT
1 TTCTT-TTCT
53698 TTTTGTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.06, C:0.17, G:0.04, T:0.73
Consensus pattern (20 bp):
TTCTTTTCTGAATTTTTCTC
Found at i:53698 original size:25 final size:24
Alignment explanation
Indices: 53650--53716 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 24
53640 TTGGTTTGCT
*
53650 TTCTTTTTGAATTTTT-TTT-TTC
1 TTCTTTTTGTATTTTTCTTTCTTC
*
53672 -T-TTTCTG-ATTTTTCTCTTCTTC
1 TTCTTTTTGTATTTTTCT-TTCTTC
*
53694 TTCTTTTTGTCTTTTTCTTTCTT
1 TTCTTTTTGTATTTTTCTTTCTT
53717 TTTGCACTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
19 6 0.17
20 6 0.17
21 3 0.08
22 3 0.08
23 1 0.03
24 10 0.28
25 7 0.19
ACGTcount: A:0.04, C:0.16, G:0.04, T:0.75
Consensus pattern (24 bp):
TTCTTTTTGTATTTTTCTTTCTTC
Found at i:53701 original size:18 final size:18
Alignment explanation
Indices: 53680--53720 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
53670 TCTTTTCTGA
* *
53680 TTTTTCTCTTCTTC-TTC
1 TTTTTGTCTTTTTCTTTC
53697 TTTTTGTCTTTTTCTTTC
1 TTTTTGTCTTTTTCTTTC
53715 TTTTTG
1 TTTTTG
53721 CACTCCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.00, C:0.20, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTTTGTCTTTTTCTTTC
Found at i:54479 original size:19 final size:20
Alignment explanation
Indices: 54438--54488 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
54428 GAAACCCCTT
*
54438 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
54458 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
54477 TGAAGATACATG
1 TGAAAATACATG
54489 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:59543 original size:14 final size:14
Alignment explanation
Indices: 59511--59552 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
59501 ATGGGCGTGA
**
59511 ATGGTGATGG-AGG
1 ATGGTGATGGAAAT
59524 ATGGTGATGGAAAT
1 ATGGTGATGGAAAT
59538 ATGGTGATGGAAAT
1 ATGGTGATGGAAAT
59552 A
1 A
59553 GTATCTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.33, C:0.00, G:0.40, T:0.26
Consensus pattern (14 bp):
ATGGTGATGGAAAT
Found at i:59865 original size:16 final size:16
Alignment explanation
Indices: 59846--59890 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
59836 GAAAATAAGG
*
59846 ATTGAAATAAATGGAA
1 ATTGAAAGAAATGGAA
59862 ATTGATAAGAAAT-GAA
1 ATTGA-AAGAAATGGAA
*
59878 ATAGAAAGAAATG
1 ATTGAAAGAAATG
59891 ATATCAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 7 0.28
16 12 0.48
17 6 0.24
ACGTcount: A:0.58, C:0.00, G:0.20, T:0.22
Consensus pattern (16 bp):
ATTGAAAGAAATGGAA
Found at i:60073 original size:35 final size:35
Alignment explanation
Indices: 60024--60139 Score: 171
Period size: 35 Copynumber: 3.3 Consensus size: 35
60014 TGGTAAGGGA
*
60024 ATGGTGATGATATAGGCGTGAAATGGTGATAGG-AT
1 ATGGTGATGATATAGGCGTGAAATGGTGAT-GGAAG
* *
60059 ATGGTGATGGTATAGGCGTGCAATGGTGATGGAAG
1 ATGGTGATGATATAGGCGTGAAATGGTGATGGAAG
*
60094 ATGGTGATGTTATAGGCGTGAAAATGGTGATGGAAG
1 ATGGTGATGATATAGGCGTG-AAATGGTGATGGAAG
60130 ATGGTGATGA
1 ATGGTGATGA
60140 ACATATAGTA
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
34 2 0.03
35 48 0.66
36 23 0.32
ACGTcount: A:0.29, C:0.03, G:0.40, T:0.28
Consensus pattern (35 bp):
ATGGTGATGATATAGGCGTGAAATGGTGATGGAAG
Found at i:60099 original size:13 final size:13
Alignment explanation
Indices: 60081--60138 Score: 50
Period size: 13 Copynumber: 4.7 Consensus size: 13
60071 TAGGCGTGCA
60081 ATGGTGATGGAAG
1 ATGGTGATGGAAG
** *
60094 ATGGTGATGTTAT
1 ATGGTGATGGAAG
* *
60107 A-GGCG-T-GAAA
1 ATGGTGATGGAAG
60117 ATGGTGATGGAAG
1 ATGGTGATGGAAG
60130 ATGGTGATG
1 ATGGTGATG
60139 AACATATAGT
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
10 2 0.06
11 4 0.12
12 4 0.12
13 23 0.70
ACGTcount: A:0.29, C:0.02, G:0.41, T:0.28
Consensus pattern (13 bp):
ATGGTGATGGAAG
Found at i:62216 original size:13 final size:13
Alignment explanation
Indices: 62198--62222 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62188 TATTGGCGTG
62198 ATATGGTGATGAA
1 ATATGGTGATGAA
62211 ATATGGTGATGA
1 ATATGGTGATGA
62223 TATAGGCGTG
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:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (13 bp):
ATATGGTGATGAA
Found at i:62634 original size:19 final size:20
Alignment explanation
Indices: 62587--62637 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
62577 GAAACCCTTT
**
62587 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
62607 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
62626 TGAAGATACATG
1 TGAAAATACATG
62638 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:65230 original size:19 final size:20
Alignment explanation
Indices: 65173--65222 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
65163 ATAATGGGTT
*
65173 TAAGAAATGAATAAT-AAT-A
1 TAAGTAATGAA-AATAAATAA
65192 TAAGTAATGAAAATAAATAA
1 TAAGTAATGAAAATAAATAA
65212 TAAG-AATGAAA
1 TAAGTAATGAAA
65223 TGAAATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 3 0.11
19 20 0.71
20 5 0.18
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (20 bp):
TAAGTAATGAAAATAAATAA
Found at i:70482 original size:19 final size:20
Alignment explanation
Indices: 70460--70523 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 20
70450 TTTGAACTTC
70460 TCTTTTTCTT-TTCTTT-TCT
1 TCTTTTTCTTATT-TTTCTCT
70479 TC-TTTTCTTATTTTTCTCT
1 TCTTTTTCTTATTTTTCTCT
* *
70498 TC-TTTTCTGATTTTTGTCT
1 TCTTTTTCTTATTTTTCTCT
70517 TCTTTTT
1 TCTTTTT
70524 GCACTCCAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 10 0.25
19 26 0.65
20 4 0.10
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (20 bp):
TCTTTTTCTTATTTTTCTCT
Found at i:75168 original size:33 final size:33
Alignment explanation
Indices: 75126--75194 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
75116 GTTGATGATT
*
75126 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
75159 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
75192 GAA
1 GAA
75195 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:75617 original size:19 final size:20
Alignment explanation
Indices: 75570--75620 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
75560 GAAACCCCTT
**
75570 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
75590 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
75609 TGAAGATACATG
1 TGAAAATACATG
75621 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:76811 original size:25 final size:22
Alignment explanation
Indices: 76782--76827 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
76772 TTTTTAACCC
76782 AATCTTAATTCCTAATAAAATAATA
1 AATC-TAA-TCCTAA-AAAATAATA
*
76807 AATCTAATCCTAAAAGATAAT
1 AATCTAATCCTAAAAAATAAT
76828 GCATCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 3 0.15
25 4 0.20
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (22 bp):
AATCTAATCCTAAAAAATAATA
Found at i:77972 original size:22 final size:22
Alignment explanation
Indices: 77947--77988 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
77937 CAATTCATTT
77947 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
77969 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
77989 CCAGCACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:79013 original size:19 final size:20
Alignment explanation
Indices: 78989--79028 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
78979 TATCCCATCC
78989 TTATTTCATTTCATT-CTTA
1 TTATTTCATTTCATTACTTA
*
79008 TTATTTCTTTTCATTACTTA
1 TTATTTCATTTCATTACTTA
79028 T
1 T
79029 ATTATTATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:79314 original size:29 final size:29
Alignment explanation
Indices: 79282--79346 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 29
79272 ATTGGAGTGC
*
79282 AAAAAGAA-AGAAAAAGAAAAAAAGAAGAG
1 AAAAAGAACA-AAAAAGAAAAAAAGAAAAG
*
79311 AAAAA-AATCAAAAAAGAAGAAAAGAAAAG
1 AAAAAGAA-CAAAAAAGAAAAAAAGAAAAG
79340 AAAAAGA
1 AAAAAGA
79347 GAAGTTCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 2 0.06
29 27 0.87
30 2 0.06
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.02
Consensus pattern (29 bp):
AAAAAGAACAAAAAAGAAAAAAAGAAAAG
Found at i:79316 original size:21 final size:20
Alignment explanation
Indices: 79285--79350 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 20
79275 GGAGTGCAAA
79285 AAGAAAGAAAAAGAAAAAAAG
1 AAGAAA-AAAAAGAAAAAAAG
**
79306 AAGAGAAAAAAATCAAAAAAG
1 AAGA-AAAAAAAGAAAAAAAG
*
79327 AAGAAAAGAAAAGAAAAAGAG
1 AAGAAAA-AAAAGAAAAAAAG
79348 AAG
1 AAG
79351 TTCAAAAAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
20 3 0.08
21 33 0.87
22 2 0.05
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.02
Consensus pattern (20 bp):
AAGAAAAAAAAGAAAAAAAG
Found at i:84586 original size:19 final size:20
Alignment explanation
Indices: 84562--84601 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
84552 TATCCCATCC
84562 TTATTTCATTTCATT-CTTA
1 TTATTTCATTTCATTACTTA
*
84581 TTATTTCTTTTCATTACTTA
1 TTATTTCATTTCATTACTTA
84601 T
1 T
84602 ATTATTATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:89399 original size:15 final size:15
Alignment explanation
Indices: 89379--89408 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
89369 GTGCTTCAAC
*
89379 TTCTTTTTTTTTCTT
1 TTCTTTGTTTTTCTT
89394 TTCTTTGTTTTTCTT
1 TTCTTTGTTTTTCTT
89409 GTTTTTGAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.83
Consensus pattern (15 bp):
TTCTTTGTTTTTCTT
Found at i:89456 original size:24 final size:23
Alignment explanation
Indices: 89411--89458 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
89401 TTTTTCTTGT
* *
89411 TTTTGAGTGCTGGATTTTTTTTC
1 TTTTGAGTGCTGCATTTGTTTTC
*
89434 TTTTGAGTGCTTCACTTTGTTTTC
1 TTTTGAGTGCTGCA-TTTGTTTTC
89458 T
1 T
89459 GATTTTTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.08, C:0.12, G:0.19, T:0.60
Consensus pattern (23 bp):
TTTTGAGTGCTGCATTTGTTTTC
Found at i:90757 original size:19 final size:20
Alignment explanation
Indices: 90729--90768 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
90719 GGATAACAAT
90729 ATAAGTAATGAAAAGAAATA
1 ATAAGTAATGAAAAGAAATA
*
90749 ATAAG-AATGAAATGAAATA
1 ATAAGTAATGAAAAGAAATA
90768 A
1 A
90769 AGAAAGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (20 bp):
ATAAGTAATGAAAAGAAATA
Found at i:91221 original size:19 final size:21
Alignment explanation
Indices: 91178--91229 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
91168 GAAACCCCTT
91178 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
*
91199 TGAAAATACATTA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
91218 TGAAGATACATG
1 TGAAAATACATG
91230 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 4 0.14
21 12 0.43
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.37
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:97051 original size:21 final size:21
Alignment explanation
Indices: 97021--97079 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
97011 TTGAATTTCA
97021 TTTCTTTTCTTCTTTTATGAT-TT
1 TTTC-TTTCTTCTTTT-TG-TCTT
97044 TTTC-TTCTTCTTTTTGTCTT
1 TTTCTTTCTTCTTTTTGTCTT
97064 TTTCTTTCTT-TTTTTG
1 TTTCTTTCTTCTTTTTG
97080 CACTCCAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
19 1 0.03
20 14 0.41
21 15 0.44
23 4 0.12
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.76
Consensus pattern (21 bp):
TTTCTTTCTTCTTTTTGTCTT
Found at i:97074 original size:18 final size:18
Alignment explanation
Indices: 97025--97076 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
97015 ATTTCATTTC
97025 TTTTC-TTCTTTTATGATT
1 TTTTCTTTCTTTT-TGATT
97043 TTTTCTTCTTCTTTTTG-TCT
1 TTTTC-T-TTCTTTTTGAT-T
97063 TTTTCTTTCTTTTT
1 TTTTCTTTCTTTTT
97077 TTGCACTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
18 13 0.43
19 2 0.07
20 8 0.27
21 7 0.23
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.77
Consensus pattern (18 bp):
TTTTCTTTCTTTTTGATT
Found at i:97839 original size:19 final size:21
Alignment explanation
Indices: 97796--97847 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
97786 GAAACCCCTT
97796 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
97817 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
97836 TGAAGATACATG
1 TGAAAATACATG
97848 CTATTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:103252 original size:19 final size:21
Alignment explanation
Indices: 103228--103270 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
103218 CGGCCAAGAG
103228 CATGTATCTTCA-TT-AAAAT
1 CATGTATCTTCATTTAAAAAT
*
103247 CATGTATTTTCATTTAAAAAT
1 CATGTATCTTCATTTAAAAAT
103268 CAT
1 CAT
103271 ATATTTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 2 0.10
21 8 0.38
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (21 bp):
CATGTATCTTCATTTAAAAAT
Found at i:103268 original size:21 final size:19
Alignment explanation
Indices: 103228--103277 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 19
103218 CGGCCAAGAG
*
103228 CATGTATCTTCATTAAAAT
1 CATGTATTTTCATTAAAAT
103247 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCA-TT-AAAAT
*
103268 CATATATTTT
1 CATGTATTTT
103278 GAAAGGGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 11 0.41
20 2 0.07
21 14 0.52
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.48
Consensus pattern (19 bp):
CATGTATTTTCATTAAAAT
Found at i:104017 original size:13 final size:13
Alignment explanation
Indices: 103983--104030 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
103973 ATTGGAGTGC
*
103983 AAAAAGAAGAGAA
1 AAAAAGAAAAGAA
*
103996 AAATCAGAAAAGAA
1 AAA-AAGAAAAGAA
104010 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
*
104023 AAAGAGAA
1 AAAAAGAA
104031 GTTCAAAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.02
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:108671 original size:20 final size:19
Alignment explanation
Indices: 108648--108691 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
108638 AAATTTTGGC
108648 TTTTTTTT--ATTTTTTGT
1 TTTTTTTTGCATTTTTTGT
*
108665 TTTTTTTTGCCTTTTTTGT
1 TTTTTTTTGCATTTTTTGT
108684 TTTTTTTT
1 TTTTTTTT
108692 TGAAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.33
19 16 0.67
ACGTcount: A:0.02, C:0.05, G:0.07, T:0.86
Consensus pattern (19 bp):
TTTTTTTTGCATTTTTTGT
Found at i:108884 original size:17 final size:17
Alignment explanation
Indices: 108862--108896 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
108852 CCCAAATCTG
108862 ATACCAATTGATAGGGA
1 ATACCAATTGATAGGGA
108879 ATACCAATTGATAGGGA
1 ATACCAATTGATAGGGA
108896 A
1 A
108897 GCGGTGGCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (17 bp):
ATACCAATTGATAGGGA
Found at i:111249 original size:64 final size:64
Alignment explanation
Indices: 111155--111331 Score: 214
Period size: 64 Copynumber: 2.8 Consensus size: 64
111145 TAAATTAAAG
** *
111155 ACATCGAATGCAATTC-GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGA-
1 ACATCGAATGCAA-TCGGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAACAATAAT-AC
111218 A
64 A
* *
111219 ACATCGAATGCAATCGGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATACT
1 ACATCGAATGCAATCGGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAACAATAATACA
* ** * * * *
111283 ACATCGAATACCTTTGATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 ACATCGAATGCAATCGGTGCATCGATGCATAAGTAGTGCATCGATGCAT
111332 ACTGTCATTA
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
63 3 0.03
64 95 0.97
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (64 bp):
ACATCGAATGCAATCGGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAACAATAATACA
Found at i:111657 original size:12 final size:12
Alignment explanation
Indices: 111640--111686 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
111630 ATATATGTTC
*
111640 ATGTGATATGCT
1 ATGTGATATGAT
111652 ATGTGATATGAT
1 ATGTGATATGAT
*
111664 ATGTGATATGAC
1 ATGTGATATGAT
*
111676 CTGTGATATGA
1 ATGTGATATGA
111687 GAATATGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:111744 original size:29 final size:29
Alignment explanation
Indices: 111702--111775 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
111692 TGATATGAAG
111702 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
111731 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
111760 TGACATGAG-TACATGA
1 TGACATGAGCTACATGA
111776 ACATATGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:111878 original size:15 final size:15
Alignment explanation
Indices: 111860--111952 Score: 168
Period size: 15 Copynumber: 6.2 Consensus size: 15
111850 GAGGGTATAA
111860 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
111875 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
*
111890 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGATG
111905 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
*
111920 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGATG
111935 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
111950 TAG
1 TAG
111953 GAGTCTTACG
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 74 1.00
ACGTcount: A:0.14, C:0.22, G:0.33, T:0.31
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:118271 original size:64 final size:64
Alignment explanation
Indices: 118177--118353 Score: 214
Period size: 64 Copynumber: 2.8 Consensus size: 64
118167 TAAATTAAAG
** *
118177 ACATCGAATGCAATTC-GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAGTGA-
1 ACATCGAATGCAA-TCGGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAACAATAAT-AC
118240 A
64 A
* *
118241 ACATCGAATGCAATCGGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATACT
1 ACATCGAATGCAATCGGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAACAATAATACA
* ** * * * *
118305 ACATCGAATACCTTTGATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 ACATCGAATGCAATCGGTGCATCGATGCATAAGTAGTGCATCGATGCAT
118354 ACTGTCATTA
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
63 3 0.03
64 95 0.97
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (64 bp):
ACATCGAATGCAATCGGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAACAATAATACA
Found at i:118679 original size:12 final size:12
Alignment explanation
Indices: 118662--118708 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
118652 ATATATGTTC
*
118662 ATGTGATATGCT
1 ATGTGATATGAT
118674 ATGTGATATGAT
1 ATGTGATATGAT
*
118686 ATGTGATATGAC
1 ATGTGATATGAT
*
118698 CTGTGATATGA
1 ATGTGATATGA
118709 GAATATGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:118871 original size:15 final size:15
Alignment explanation
Indices: 118853--118930 Score: 138
Period size: 15 Copynumber: 5.2 Consensus size: 15
118843 GAGGGTATAA
118853 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
*
118868 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGATG
118883 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
*
118898 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGATG
118913 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
118928 TAG
1 TAG
118931 GAGTCCTACG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 59 1.00
ACGTcount: A:0.14, C:0.22, G:0.33, T:0.31
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:118889 original size:30 final size:30
Alignment explanation
Indices: 118853--118930 Score: 156
Period size: 30 Copynumber: 2.6 Consensus size: 30
118843 GAGGGTATAA
118853 TAGTCCTTCGGGATGTAGTCCTTCGGGACG
1 TAGTCCTTCGGGATGTAGTCCTTCGGGACG
118883 TAGTCCTTCGGGATGTAGTCCTTCGGGACG
1 TAGTCCTTCGGGATGTAGTCCTTCGGGACG
118913 TAGTCCTTCGGGATGTAG
1 TAGTCCTTCGGGATGTAG
118931 GAGTCCTACG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.14, C:0.22, G:0.33, T:0.31
Consensus pattern (30 bp):
TAGTCCTTCGGGATGTAGTCCTTCGGGACG
Found at i:122689 original size:21 final size:19
Alignment explanation
Indices: 122649--122700 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 19
122639 CGGCCAAGAG
*
122649 CATGTATCTTCATTAAAAT
1 CATGTATTTTCATTAAAAT
122668 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCA-TT-AAAAT
*
122689 CATATATTTTCA
1 CATGTATTTTCA
122701 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 11 0.38
20 2 0.07
21 16 0.55
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (19 bp):
CATGTATTTTCATTAAAAT
Found at i:124654 original size:18 final size:20
Alignment explanation
Indices: 124617--124662 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
124607 GAAAAAAGAA
*
124617 AAGATAAAAGAAAAGGAAATG
1 AAGAT-AAAGAAAAGAAAATG
124638 AA-ATAAAGAAAA-AAAATG
1 AAGATAAAGAAAAGAAAATG
124656 AAGATAA
1 AAGATAA
124663 CTTACAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 7 0.30
19 12 0.52
20 2 0.09
21 2 0.09
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.11
Consensus pattern (20 bp):
AAGATAAAGAAAAGAAAATG
Found at i:128544 original size:5 final size:5
Alignment explanation
Indices: 128530--128559 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
128520 GTGCTTCAAC
128530 TTTC- TTTCT TTTCT TTTCT TTTCT TTTCT T
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT T
128560 CTTTTTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:128579 original size:27 final size:28
Alignment explanation
Indices: 128549--128613 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
128539 TTTCTTTTCT
* *
128549 TTTCTTTTCTTCTTTTTGAATGC-TGAA
1 TTTCTTTTCTTCTTTTGGAATGCTTCAA
*
128576 TTTC-TTTCTTTCTTTTGGAGTGCTTCAA
1 TTTCTTTTC-TTCTTTTGGAATGCTTCAA
128604 TTTCTTTTCT
1 TTTCTTTTCT
128614 GATTTTCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 4 0.12
27 16 0.50
28 8 0.25
29 4 0.12
ACGTcount: A:0.11, C:0.17, G:0.11, T:0.62
Consensus pattern (28 bp):
TTTCTTTTCTTCTTTTGGAATGCTTCAA
Found at i:128982 original size:33 final size:33
Alignment explanation
Indices: 128940--129008 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
128930 GTTGATAAAT
*
128940 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
128973 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
129006 GAA
1 GAA
129009 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:129431 original size:19 final size:20
Alignment explanation
Indices: 129384--129434 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
129374 GAAATCCCTT
**
129384 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
129404 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
129423 TGAAGATACATG
1 TGAAAATACATG
129435 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:132493 original size:6 final size:6
Alignment explanation
Indices: 132482--132523 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
132472 CTTGCTTCAC
* *
132482 TTTTCT TTTTCT TTTGCT TTTGC- TTTTCT TTTT-T TTTTCT TT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TT
132524 CTTGTTGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 9 0.28
6 23 0.72
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (6 bp):
TTTTCT
Found at i:132502 original size:11 final size:11
Alignment explanation
Indices: 132481--132523 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
132471 ACTTGCTTCA
132481 CTTTTCTTTTT
1 CTTTTCTTTTT
*
132492 CTTTTGCTTTTG
1 CTTTT-CTTTTT
132504 CTTTTCTTTTT
1 CTTTTCTTTTT
*
132515 TTTTTCTTT
1 CTTTTCTTT
132524 CTTGTTGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 18 0.64
12 10 0.36
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (11 bp):
CTTTTCTTTTT
Found at i:132511 original size:23 final size:22
Alignment explanation
Indices: 132481--132541 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 22
132471 ACTTGCTTCA
132481 CTTTTCTTTTTCTTTTGCTTTTG
1 CTTTTCTTTTT-TTTTGCTTTTG
*
132504 CTTTTCTTTTTTTTTTC-TTT-
1 CTTTTCTTTTTTTTTGCTTTTG
132524 CTTGTTGCTTTTTTTTTG
1 CTT-TT-CTTTTTTTTTG
132542 TTGTTGTAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 3 0.09
21 5 0.15
22 15 0.44
23 11 0.32
ACGTcount: A:0.00, C:0.15, G:0.08, T:0.77
Consensus pattern (22 bp):
CTTTTCTTTTTTTTTGCTTTTG
Found at i:132545 original size:17 final size:18
Alignment explanation
Indices: 132514--132547 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
132504 CTTTTCTTTT
132514 TTTTTTCTTTCTTGTTGC
1 TTTTTTCTTTCTTGTTGC
*
132532 TTTTTT-TTTGTTGTTG
1 TTTTTTCTTTCTTGTTG
132548 TAGCACTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.00, C:0.09, G:0.15, T:0.76
Consensus pattern (18 bp):
TTTTTTCTTTCTTGTTGC
Found at i:132928 original size:33 final size:33
Alignment explanation
Indices: 132886--132954 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
132876 GTTGATAAAT
*
132886 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
132919 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
132952 GAA
1 GAA
132955 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:133377 original size:19 final size:20
Alignment explanation
Indices: 133330--133380 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
133320 GAAATCCCTT
**
133330 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
133350 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
133369 TGAAGATACATG
1 TGAAAATACATG
133381 CTCTTGGCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:136417 original size:17 final size:18
Alignment explanation
Indices: 136386--136421 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
136376 TGTAGGAGTC
136386 TTTTCTTTTGCTTTTTGT
1 TTTTCTTTTGCTTTTTGT
*
136404 TTTTCTTTT-TTTTTTGT
1 TTTTCTTTTGCTTTTTGT
136421 T
1 T
136422 ACTTTTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.83
Consensus pattern (18 bp):
TTTTCTTTTGCTTTTTGT
Found at i:136842 original size:35 final size:35
Alignment explanation
Indices: 136797--136869 Score: 121
Period size: 35 Copynumber: 2.1 Consensus size: 35
136787 TGGTAAGGGA
136797 ATGGTGATGATATAGGCGTGAAATGGTGATAGG-AG
1 ATGGTGATGATATAGGCGTGAAATGGTGAT-GGAAG
*
136832 ATGGTGATGATATAGGCGTGCAATGGTGATGGAAG
1 ATGGTGATGATATAGGCGTGAAATGGTGATGGAAG
136867 ATG
1 ATG
136870 CGATGTAAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 2 0.06
35 34 0.94
ACGTcount: A:0.30, C:0.04, G:0.40, T:0.26
Consensus pattern (35 bp):
ATGGTGATGATATAGGCGTGAAATGGTGATGGAAG
Found at i:137061 original size:19 final size:20
Alignment explanation
Indices: 137033--137072 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
137023 GGATAATAAT
137033 ATAAGTAATGAAAAGAAATA
1 ATAAGTAATGAAAAGAAATA
137053 ATAAG-AATGAAAAGAAATA
1 ATAAGTAATGAAAAGAAATA
137072 A
1 A
137073 GGATGGGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.17
Consensus pattern (20 bp):
ATAAGTAATGAAAAGAAATA
Found at i:139906 original size:18 final size:17
Alignment explanation
Indices: 139883--139947 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 17
139873 AATTGGAGTG
139883 CAAAAAGAAAGAAAAAGA
1 CAAAAAGAAAGAAAAA-A
139901 CAAAAAGAAGAAGAAAAAA
1 CAAAAAG-A-AAGAAAAAA
* **
139920 -GAAAAGAAAGAAGAATT
1 CAAAAAGAAAGAA-AAAA
139937 CAAAAAGAAAG
1 CAAAAAGAAAG
139948 CAAAGCCAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 5 0.13
17 3 0.08
18 21 0.54
19 2 0.05
20 8 0.21
ACGTcount: A:0.74, C:0.05, G:0.18, T:0.03
Consensus pattern (17 bp):
CAAAAAGAAAGAAAAAA
Found at i:139907 original size:14 final size:13
Alignment explanation
Indices: 139890--139934 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
139880 GTGCAAAAAG
139890 AAAGAAAAAGACAA
1 AAAGAAAAAGA-AA
*
139904 AAAGAAGAAGAAA
1 AAAGAAAAAGAAA
139917 AAAG-AAAAGAAA
1 AAAGAAAAAGAAA
*
139929 GAAGAA
1 AAAGAA
139935 TTCAAAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 10 0.37
13 7 0.26
14 10 0.37
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:139929 original size:22 final size:21
Alignment explanation
Indices: 139894--139934 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
139884 AAAAAGAAAG
*
139894 AAAAAGACAAAAAGAAGAAGA
1 AAAAAGAAAAAAAGAAGAAGA
139915 AAAAAGAAAAGAAAGAAGAA
1 AAAAAGAAAA-AAAGAAGAA
139935 TTCAAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (21 bp):
AAAAAGAAAAAAAGAAGAAGA
Found at i:139947 original size:22 final size:21
Alignment explanation
Indices: 139894--139952 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
139884 AAAAAGAAAG
139894 AAAAAGACAA-AAAGAAGAAGA
1 AAAAAGA-AAGAAAGAAGAAGA
**
139915 AAAAAGAAAAGAAAGAAGAATTC
1 AAAAAG-AAAGAAAGAAGAA-GA
139938 AAAAAGAAAGCAAAG
1 AAAAAGAAAG-AAAG
139953 CCAAGGAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 8 0.25
22 14 0.44
23 10 0.31
ACGTcount: A:0.73, C:0.05, G:0.19, T:0.03
Consensus pattern (21 bp):
AAAAAGAAAGAAAGAAGAAGA
Found at i:147408 original size:5 final size:5
Alignment explanation
Indices: 147400--147483 Score: 70
Period size: 5 Copynumber: 16.8 Consensus size: 5
147390 GAACTTCACT
*
147400 TTTTC TTTTC TTTTC TTTTC --TTC TTTTC TTCTT- TTCTTC TTTTC TGATTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TT-TTC TT-TTC TTTTC T--TTTC
*
147451 TTTTC TCTTC TTTT- TTTTC TTTT- TCTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC T-TTTC TTTT
147484 TGCACTCCAA
Statistics
Matches: 66, Mismatches: 4, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
3 3 0.05
4 5 0.08
5 49 0.74
6 5 0.08
7 4 0.06
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:147425 original size:8 final size:8
Alignment explanation
Indices: 147402--147483 Score: 71
Period size: 8 Copynumber: 9.9 Consensus size: 8
147392 ACTTCACTTT
147402 TTCTTTTC
1 TTCTTTTC
147410 TTTTCTTTTC
1 --TTCTTTTC
147420 TTCTTTTC
1 TTCTTTTC
147428 TTCTTTTC
1 TTCTTTTC
147436 TTCTTTTC
1 TTCTTTTC
*
147444 TGAT-TTTTT
1 T--TCTTTTC
*
147453 TTCTCTTC
1 TTCTTTTC
147461 TT-TTTT-
1 TTCTTTTC
147467 TTCTTTTTC
1 TTC-TTTTC
147476 TTTCTTTT
1 -TTCTTTT
147484 TGCACTCCAA
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
6 2 0.03
7 4 0.07
8 34 0.56
9 9 0.15
10 12 0.20
ACGTcount: A:0.01, C:0.20, G:0.01, T:0.78
Consensus pattern (8 bp):
TTCTTTTC
Found at i:147456 original size:41 final size:42
Alignment explanation
Indices: 147405--147483 Score: 110
Period size: 41 Copynumber: 1.9 Consensus size: 42
147395 TCACTTTTTC
*
147405 TTTTCTTTTCTTTTCTTCTTTTCTTC-TTTTC-TTCTTTTCTGA
1 TTTTCTTTTCTCTTCTT-TTTT-TTCTTTTTCTTTCTTTTCTGA
147447 TTTT-TTTTCTCTTCTTTTTTTTCTTTTTCTTTCTTTT
1 TTTTCTTTTCTCTTCTTTTTTTTCTTTTTCTTTCTTTT
147484 TGCACTCCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
39 3 0.09
40 9 0.26
41 18 0.53
42 4 0.12
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.78
Consensus pattern (42 bp):
TTTTCTTTTCTCTTCTTTTTTTTCTTTTTCTTTCTTTTCTGA
Found at i:147767 original size:19 final size:20
Alignment explanation
Indices: 147739--147778 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
147729 GGATAATAAT
147739 ATAAGTAATGAAAAGAAATA
1 ATAAGTAATGAAAAGAAATA
*
147759 ATAAG-AATGAAATGAAATA
1 ATAAGTAATGAAAAGAAATA
147778 A
1 A
147779 GGATGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (20 bp):
ATAAGTAATGAAAAGAAATA
Found at i:152010 original size:19 final size:18
Alignment explanation
Indices: 151986--152034 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
151976 TTCGGCCAAG
**
151986 CATGTATCTTCATTTAAAT
1 CATGTAT-TTCATCAAAAT
152005 CATGTATTTTCATCAAAAT
1 CATGTA-TTTCATCAAAAT
152024 CATGTATTTCA
1 CATGTATTTCA
152035 AGGGGGCCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 5 0.19
19 21 0.78
20 1 0.04
ACGTcount: A:0.33, C:0.16, G:0.06, T:0.45
Consensus pattern (18 bp):
CATGTATTTCATCAAAAT
Found at i:152417 original size:33 final size:33
Alignment explanation
Indices: 152373--152446 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
152363 CATCACCATA
*
152373 TTCCATCACCATATCAT-GCCAATAACATCATCC
1 TTCCATCACCATATCATCACCAATAA-ATCATCC
* * *
152406 TTCCATTACCATTTCATCACCATTAAATCATCC
1 TTCCATCACCATATCATCACCAATAAATCATCC
*
152439 TTCAATCA
1 TTCCATCA
152447 TCAACAAGGC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 28 0.82
34 6 0.18
ACGTcount: A:0.32, C:0.34, G:0.01, T:0.32
Consensus pattern (33 bp):
TTCCATCACCATATCATCACCAATAAATCATCC
Found at i:152648 original size:16 final size:16
Alignment explanation
Indices: 152629--152661 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
152619 CTTCTTTTTG
152629 TGCAGATTACTTTCAA
1 TGCAGATTACTTTCAA
152645 TGCAGATTACTTTCAA
1 TGCAGATTACTTTCAA
152661 T
1 T
152662 CCAAGGTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (16 bp):
TGCAGATTACTTTCAA
Found at i:153109 original size:24 final size:21
Alignment explanation
Indices: 153074--153116 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
153064 GGCTCATTCT
*
153074 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
153097 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
153117 ATCTTGTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:154648 original size:13 final size:13
Alignment explanation
Indices: 154630--154668 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 13
154620 AGGTTAGGGT
154630 AGAAAGGAATAGA
1 AGAAAGGAATAGA
154643 AGAAAGGAAAGGTAGA
1 AGAAAGG-AA--TAGA
154659 AGAAAGGAAT
1 AGAAAGGAAT
154669 TAAGGTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.35
14 2 0.09
15 2 0.09
16 11 0.48
ACGTcount: A:0.59, C:0.00, G:0.33, T:0.08
Consensus pattern (13 bp):
AGAAAGGAATAGA
Found at i:155201 original size:26 final size:26
Alignment explanation
Indices: 155130--155204 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 26
155120 TGGCTGCAAC
* *
155130 AAAGATAAGAAAAGGAAGATG-ATTAAT
1 AAAGATAAG-AAATGAA-ATGAAATAAT
*
155157 AAAG-GAAG-AAT-AAATGAAATAAT
1 AAAGATAAGAAATGAAATGAAATAAT
155180 AAAGATAAGAAATGAAATGAAATAA
1 AAAGATAAGAAATGAAATGAAATAA
155205 AGAAGGGATA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
22 3 0.08
23 11 0.28
24 5 0.12
25 3 0.08
26 14 0.35
27 4 0.10
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (26 bp):
AAAGATAAGAAATGAAATGAAATAAT
Found at i:155273 original size:17 final size:18
Alignment explanation
Indices: 155242--155275 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
155232 GATGGTCTTG
*
155242 ATGGATGATGTTGATGAA
1 ATGGATGATGGTGATGAA
155260 ATGGA-GATGGTGATGA
1 ATGGATGATGGTGATGA
155276 TGTTGTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.00, G:0.38, T:0.29
Consensus pattern (18 bp):
ATGGATGATGGTGATGAA
Found at i:155660 original size:19 final size:20
Alignment explanation
Indices: 155611--155651 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
155601 GAAATCCCTT
155611 TGAAAATACATGATTTTTAA
1 TGAAAATACATGATTTTTAA
155631 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
155650 TG
1 TG
155652 CATATACATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.39
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:156553 original size:35 final size:35
Alignment explanation
Indices: 156508--156587 Score: 126
Period size: 35 Copynumber: 2.3 Consensus size: 35
156498 TGGTAAGGGA
*
156508 ATGGTGATGATATAGGCGTGAAATGGTGATAGG-AG
1 ATGGTGATGATATAGGCCTGAAATGGTGAT-GGAAG
*
156543 ATGGTGATGATATAGGCCTGCAATGGTGATGGAAG
1 ATGGTGATGATATAGGCCTGAAATGGTGATGGAAG
156578 ATGGTGATGA
1 ATGGTGATGA
156588 ACATATAGTA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
34 2 0.05
35 40 0.95
ACGTcount: A:0.30, C:0.05, G:0.39, T:0.26
Consensus pattern (35 bp):
ATGGTGATGATATAGGCCTGAAATGGTGATGGAAG
Found at i:161162 original size:35 final size:35
Alignment explanation
Indices: 161117--161227 Score: 170
Period size: 35 Copynumber: 3.1 Consensus size: 35
161107 TGGTAAGGGA
*
161117 ATGGTGATGATATAGGTGTGAAATGGTGATAGG-AG
1 ATGGTGATGATATAGGCGTGAAATGGTGAT-GGAAG
*
161152 ATGGTGATGATATAGGCGTGCAATGGTGATGGAAG
1 ATGGTGATGATATAGGCGTGAAATGGTGATGGAAG
*
161187 ATGGTGATGCTATAGGCGTGAAAATGGTGATGGAAG
1 ATGGTGATGATATAGGCGTG-AAATGGTGATGGAAG
161223 ATGGT
1 ATGGT
161228 AGCAAGGACC
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
34 2 0.03
35 49 0.70
36 19 0.27
ACGTcount: A:0.30, C:0.04, G:0.40, T:0.27
Consensus pattern (35 bp):
ATGGTGATGATATAGGCGTGAAATGGTGATGGAAG
Found at i:164945 original size:15 final size:15
Alignment explanation
Indices: 164934--164962 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
164924 ACTCAAAAAG
164934 AAGAAAAGCAAAGAA
1 AAGAAAAGCAAAGAA
164949 AAGAAAAG-AAAGAA
1 AAGAAAAGCAAAGAA
164963 GTTGAAGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGAAAAGCAAAGAA
Found at i:168273 original size:13 final size:13
Alignment explanation
Indices: 168255--168285 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
168245 TCATTCCATG
168255 CACAAGGCTGCAC
1 CACAAGGCTGCAC
168268 CACAAGGCTGCAC
1 CACAAGGCTGCAC
168281 CACAA
1 CACAA
168286 AGCTCCCTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.39, G:0.19, T:0.06
Consensus pattern (13 bp):
CACAAGGCTGCAC
Found at i:176739 original size:36 final size:36
Alignment explanation
Indices: 176698--176767 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
176688 ATTTATAAGT
* *
176698 TGGTGATAATATGGGCGTGATAATGGTGATGGACTA
1 TGGTGATAATATAGGCGTGATAATGATGATGGACTA
*
176734 TGGTGATGATATAGGCGTGATAATGATGATGGAC
1 TGGTGATAATATAGGCGTGATAATGATGATGGAC
176768 AGATTGTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.29, C:0.06, G:0.36, T:0.30
Consensus pattern (36 bp):
TGGTGATAATATAGGCGTGATAATGATGATGGACTA
Found at i:185169 original size:20 final size:21
Alignment explanation
Indices: 185132--185170 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
185122 GATGGTCTTG
*
185132 ATGAAGGATGTTGATGATGAA
1 ATGAAGGATGGTGATGATGAA
*
185153 ATGAA-GATGGTGGTGATG
1 ATGAAGGATGGTGATGATG
185171 TTGTATCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.33, C:0.00, G:0.38, T:0.28
Consensus pattern (21 bp):
ATGAAGGATGGTGATGATGAA
Found at i:185545 original size:19 final size:20
Alignment explanation
Indices: 185504--185554 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
185494 AATAGAACTT
*
185504 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
185524 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
185543 TGAAGATACATG
1 TGAAAATACATG
185555 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:195975 original size:36 final size:36
Alignment explanation
Indices: 195934--196003 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
195924 ATTTATAAGT
* *
195934 TGGTGATAATATGGGCGTGATAATGGTGATGGACTA
1 TGGTGATAATATAGGCGTGATAATGATGATGGACTA
*
195970 TGGTGATGATATAGGCGTGATAATGATGATGGAC
1 TGGTGATAATATAGGCGTGATAATGATGATGGAC
196004 AGATTGTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.29, C:0.06, G:0.36, T:0.30
Consensus pattern (36 bp):
TGGTGATAATATAGGCGTGATAATGATGATGGACTA
Found at i:196600 original size:23 final size:24
Alignment explanation
Indices: 196557--196605 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
196547 AAAGGTTAAG
*
196557 AAAGATGATAAGGTAATGAAAAGA
1 AAAGATGATAAGATAATGAAAAGA
*
196581 AAAGATGA-AAGAATAA-GAAATGA
1 AAAGATGATAAG-ATAATGAAAAGA
196604 AA
1 AA
196606 TAGTAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.14
Consensus pattern (24 bp):
AAAGATGATAAGATAATGAAAAGA
Found at i:197274 original size:36 final size:36
Alignment explanation
Indices: 197234--197303 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
197224 ATTTATAAGT
* * *
197234 TGGTGATTATATGGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGATGATGGACTA
197270 TGGTGATGATATAGGCGTGATAATGATGATGGAC
1 TGGTGATGATATAGGCGTGATAATGATGATGGAC
197304 AGATTGTATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.27, C:0.06, G:0.36, T:0.31
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGATGATGGACTA
Found at i:199671 original size:14 final size:14
Alignment explanation
Indices: 199654--199684 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
199644 AGGATTCAAC
199654 CATGAAGATTTATT
1 CATGAAGATTTATT
199668 CATGAAGATTTATT
1 CATGAAGATTTATT
199682 CAT
1 CAT
199685 TTAATTCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (14 bp):
CATGAAGATTTATT
Found at i:200094 original size:21 final size:20
Alignment explanation
Indices: 200069--200110 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
200059 ATGGATAATT
200069 AAGAAAGGAAATAGAAATGAA
1 AAGAAAGGAAATAGAAA-GAA
**
200090 AAGAATTGAAATAGAAAGAA
1 AAGAAAGGAAATAGAAAGAA
200110 A
1 A
200111 TGTTATCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (20 bp):
AAGAAAGGAAATAGAAAGAA
Found at i:200277 original size:35 final size:35
Alignment explanation
Indices: 200238--200327 Score: 117
Period size: 35 Copynumber: 2.5 Consensus size: 35
200228 ATTGGTGGCT
*
200238 ATATAGGTGTGAAATGGTGATAGAAGATGGTAATG
1 ATATAGGCGTGAAATGGTGATAGAAGATGGTAATG
* * * *
200273 ATATAGGCGTGCAATGGTAATGGAAGATGGTGATG
1 ATATAGGCGTGAAATGGTGATAGAAGATGGTAATG
*
200308 TTATAGGCGTGAAAATGGTG
1 ATATAGGCGTG-AAATGGTG
200328 TGAAAGATGG
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
35 40 0.87
36 6 0.13
ACGTcount: A:0.33, C:0.03, G:0.36, T:0.28
Consensus pattern (35 bp):
ATATAGGCGTGAAATGGTGATAGAAGATGGTAATG
Found at i:200335 original size:35 final size:34
Alignment explanation
Indices: 200239--200348 Score: 116
Period size: 35 Copynumber: 3.2 Consensus size: 34
200229 TTGGTGGCTA
* * *
200239 TATAGGTGTGAAATGGTGAT-AGAAGATGGTAATGA
1 TATAGGCGTGAAATGGTG-TGA-AAGATGGTGATGT
* * *
200274 TATAGGCGTGCAATGGTAATGGAAGATGGTGATGT
1 TATAGGCGTGAAATGGT-GTGAAAGATGGTGATGT
200309 TATAGGCGTGAAAATGGTGTGAAAGATGGTGATGT
1 TATAGGCGTG-AAATGGTGTGAAAGATGGTGATGT
200344 T-TAGG
1 TATAGG
200349 TAGTATCTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
34 4 0.06
35 53 0.84
36 6 0.10
ACGTcount: A:0.32, C:0.03, G:0.36, T:0.29
Consensus pattern (34 bp):
TATAGGCGTGAAATGGTGTGAAAGATGGTGATGT
Found at i:204849 original size:13 final size:13
Alignment explanation
Indices: 204827--204856 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
204817 ACTAAACACC
204827 TTTC-ACATACCT
1 TTTCAACATACCT
204839 TTTCAACATACCT
1 TTTCAACATACCT
204852 TTTCA
1 TTTCA
204857 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:212900 original size:19 final size:20
Alignment explanation
Indices: 212872--212911 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
212862 GAATAATAAT
212872 ATAAGTAATGAAAAGAAATA
1 ATAAGTAATGAAAAGAAATA
*
212892 ATAAG-AATGAAATGAAATA
1 ATAAGTAATGAAAAGAAATA
212911 A
1 A
212912 GGATGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (20 bp):
ATAAGTAATGAAAAGAAATA
Found at i:221327 original size:13 final size:13
Alignment explanation
Indices: 221309--221334 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
221299 TTAGAGTTAA
221309 AACATGTTTAGTT
1 AACATGTTTAGTT
221322 AACATGTTTAGTT
1 AACATGTTTAGTT
221335 TATTATTATT
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:0.15, T:0.46
Consensus pattern (13 bp):
AACATGTTTAGTT
Found at i:221466 original size:22 final size:22
Alignment explanation
Indices: 221441--221482 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
221431 CAATTCATTT
221441 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
221463 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
221483 CCAGCACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:225370 original size:11 final size:13
Alignment explanation
Indices: 225338--225367 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
225328 TGGCCAAAGA
225338 TGAAAAGGTATGT
1 TGAAAAGGTATGT
225351 TGAAAAGGTATG-
1 TGAAAAGGTATGT
225363 TGAAA
1 TGAAA
225368 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:227275 original size:15 final size:15
Alignment explanation
Indices: 227264--227292 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
227254 ACTCAAAAAG
227264 AAGAAAAGCAAAGAA
1 AAGAAAAGCAAAGAA
227279 AAGAAAAG-AAAGAA
1 AAGAAAAGCAAAGAA
227293 GTTGAAGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGAAAAGCAAAGAA
Found at i:231306 original size:14 final size:13
Alignment explanation
Indices: 231289--231338 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
231279 GTGCAAAAAG
231289 AAAGAAAAAGACAA
1 AAAGAAAAAGA-AA
*
231303 AAAGAAGAAGAAA
1 AAAGAAAAAGAAA
231316 AGAAG-AAAAG--A
1 A-AAGAAAAAGAAA
231327 AAAGAAAAAGAA
1 AAAGAAAAAGAA
231339 TTCAAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
13 7 0.23
14 13 0.43
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:231335 original size:19 final size:18
Alignment explanation
Indices: 231283--231338 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
231273 ATTGGAGTGC
231283 AAAAAG-AAAGAAAAAGA
1 AAAAAGAAAAGAAAAAGA
231300 CAAAAAGAAGAAG-AAAAGA
1 -AAAAAGAA-AAGAAAAAGA
231319 AGAAAAGAAAAGAAAAAGA
1 A-AAAAGAAAAGAAAAAGA
231338 A
1 A
231339 TTCAAAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 10 0.29
19 21 0.62
20 3 0.09
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAAGA
Found at i:231336 original size:11 final size:11
Alignment explanation
Indices: 231283--231338 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 11
231273 ATTGGAGTGC
231283 AAAAAG-AAAG
1 AAAAAGAAAAG
231293 AAAAAGACAAAAAG
1 AAAAAG---AAAAG
*
231307 AAGAAGAAAAG
1 AAAAAGAAAAG
231318 AAGAAAAGAAAAG
1 -A-AAAAGAAAAG
231331 AAAAAGAA
1 AAAAAGAA
231339 TTCAAAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 6 0.16
11 12 0.32
12 2 0.05
13 9 0.24
14 9 0.24
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:241618 original size:12 final size:13
Alignment explanation
Indices: 241591--241619 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
241581 AGATTAGAAT
241591 AAAAAAAAACATA
1 AAAAAAAAACATA
241604 AAAAAAAAACA-A
1 AAAAAAAAACATA
241616 AAAA
1 AAAA
241620 GCCAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.90, C:0.07, G:0.00, T:0.03
Consensus pattern (13 bp):
AAAAAAAAACATA
Found at i:261440 original size:7 final size:8
Alignment explanation
Indices: 261421--261449 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
261411 AAAAAGTCAT
261421 AAAAATTG
1 AAAAATTG
261429 AAAAATTG
1 AAAAATTG
261437 AAAAATTG
1 AAAAATTG
261445 AAAAA
1 AAAAA
261450 GAAGGAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (8 bp):
AAAAATTG
Found at i:275676 original size:37 final size:35
Alignment explanation
Indices: 275580--275692 Score: 154
Period size: 35 Copynumber: 3.2 Consensus size: 35
275570 TTGGTGGTTA
* * *
275580 TATAGGCGTGAAATGGTGATAGAAGATGGTGATGA
1 TATAGGCATGAAATGGTGATGGAAGATGGTGATGT
* * *
275615 TATAGGCGTGCAATGGTGATGGAAGATGGTGAAGT
1 TATAGGCATGAAATGGTGATGGAAGATGGTGATGT
275650 TATAGGCATGAAAAATGGTGATGGAAGATGGTGATGT
1 TATAGGCATG--AAATGGTGATGGAAGATGGTGATGT
275687 TATAGG
1 TATAGG
275693 TAGTATCTTA
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 40 0.58
37 29 0.42
ACGTcount: A:0.33, C:0.04, G:0.37, T:0.27
Consensus pattern (35 bp):
TATAGGCATGAAATGGTGATGGAAGATGGTGATGT
Found at i:278139 original size:17 final size:17
Alignment explanation
Indices: 278117--278164 Score: 87
Period size: 17 Copynumber: 2.8 Consensus size: 17
278107 AGTAGGCTGC
278117 CATGTGCATCATTCAAA
1 CATGTGCATCATTCAAA
278134 CATGTGCATCATTCAAA
1 CATGTGCATCATTCAAA
278151 CATGTGCACTCATT
1 CATGTGCA-TCATT
278165 TGACATCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 25 0.83
18 5 0.17
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (17 bp):
CATGTGCATCATTCAAA
Found at i:279006 original size:23 final size:22
Alignment explanation
Indices: 278970--279025 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
278960 GAAAAAATAG
* * *
278970 GAAAAACAAAGTGAAGCATCAA
1 GAAAAAAAAAGTGAAACAACAA
278992 GAAAAAAAAACGTGAAACAACAA
1 GAAAAAAAAA-GTGAAACAACAA
*
279015 CAAAAAGAAAA
1 GAAAAA-AAAA
279026 ATACAAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 9 0.32
23 15 0.54
24 4 0.14
ACGTcount: A:0.68, C:0.12, G:0.14, T:0.05
Consensus pattern (22 bp):
GAAAAAAAAAGTGAAACAACAA
Found at i:279075 original size:109 final size:112
Alignment explanation
Indices: 278883--279111 Score: 351
Period size: 117 Copynumber: 2.0 Consensus size: 112
278873 GGAAGAAATC
278883 AACGTGAAACAACAACAAAAAGAAAAATACAAAAAGAATTGCAAGTGAAGTGCAAAGTCAAAGAA
1 AACGTGAAACAACAACAAAAAGAAAAATACAAAAAGAATTGCAAGTGAAGTGCAAAGTCAAAGAA
278948 ATCAAGAAATCAGAAAAAAT-AGGAAAAACAAAGTGAAGCA-TCAAGAA-AAAAA
66 ATC----AA-CAGAAAAAATCA-G-AAAACAAAGTGAAGCACTCAA-AAGAAAAA
279000 AACGTGAAACAACAACAAAAAGAAAAATACAAAAAGAATTGCAAGTGAAGTGCAAAGTCAAAGAA
1 AACGTGAAACAACAACAAAAAGAAAAATACAAAAAGAATTGCAAGTGAAGTGCAAAGTCAAAGAA
279065 ATC-A-AGAAAAAATCAGAAAACAAAGTGAAGCACTCAAAAGAAAAA
66 ATCAACAGAAAAAATCAGAAAACAAAGTGAAGCACTCAAAAGAAAAA
279110 AA
1 AA
279112 TCCAGCACTT
Statistics
Matches: 109, Mismatches: 0, Indels: 13
0.89 0.00 0.11
Matches are distributed among these distances:
109 18 0.17
110 21 0.19
111 1 0.01
112 1 0.01
117 68 0.62
ACGTcount: A:0.62, C:0.12, G:0.16, T:0.10
Consensus pattern (112 bp):
AACGTGAAACAACAACAAAAAGAAAAATACAAAAAGAATTGCAAGTGAAGTGCAAAGTCAAAGAA
ATCAACAGAAAAAATCAGAAAACAAAGTGAAGCACTCAAAAGAAAAA
Found at i:280601 original size:26 final size:26
Alignment explanation
Indices: 280572--280626 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
280562 AGTTGAACAT
280572 GCTGTTATGAAGCTCATAAGGATTCG
1 GCTGTTATGAAGCTCATAAGGATTCG
280598 GCTGTTATGAAGCTCATAAGGATTCG
1 GCTGTTATGAAGCTCATAAGGATTCG
280624 GCT
1 GCT
280627 AGGAAGCTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (26 bp):
GCTGTTATGAAGCTCATAAGGATTCG
Done.