Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009357.1 Hibiscus syriacus cultivar Beakdansim tig00113174_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: 85318
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:7321 original size:6 final size:6
Alignment explanation
Indices: 7304--7341 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
7294 GATTAATTTT
7304 TAATTA -AATTA TAATTA TAATTA TAATTA -AATTGA TAA
1 TAATTA TAATTA TAATTA TAATTA TAATTA TAATT-A TAA
7342 AAAAAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 9 0.31
6 18 0.62
7 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (6 bp):
TAATTA
Found at i:13977 original size:205 final size:205
Alignment explanation
Indices: 13581--13985 Score: 462
Period size: 205 Copynumber: 2.0 Consensus size: 205
13571 TTCTTAATTA
* * *
13581 ACGTAGAAATGATATATTTTCTATTTTATTTAATTATCATGTCAGTTCATAAAATCACTAACAGT
1 ACGTAGAAATGATATATTTTCTATTTTATCTAATTATCATGTCAGCTCAGAAAATCACTAACAGT
* ** *
13646 TTAACGATAGTTAATATGTGATGATTATATCTTAATTAAGTAAAAATAAAAATGATCATATATAT
66 CTAACGATAGTTAATATGTGATGACCATATCTTAATTAAATAAAAATAAAAATGATCATATATAT
* * * * * *
13711 TTTGTCTTTTGAAATCAATGAAGATATTGAACAAAACATAAACATAAATGATTAATCATGTAGTT
131 TTTGTCTTTTGAAATCAATGAAGAAAATAAACAAAACACAAACATAAATAATCAATCATGTAGTT
13776 AATCTAATCT
196 AATCTAATCT
* * * * * * ** *
13786 ACGTAGAAATGATGTATTTTTTTATTTTATCTAATTATCGTTTTTAGCTCAGCAAATCGTTAATA
1 ACGTAGAAATGATATA-TTTTCTATTTTATCTAATTATC-ATGTCAGCTCAGAAAATCACTAACA
* * *
13851 GTCTAACGATGGTTAATCTGTGATGACCATAGT-TTAATTAAATACAAAT-AAAATGA-C-TATA
64 GTCTAACGATAGTTAATATGTGATGACCATA-TCTTAATTAAATAAAAATAAAAATGATCATATA
* * *
13912 TTATATTT-T-TTTTGAAATCAGTTAAGAAAAATAAACAAAACACAGACATAAATAATCAATCAT
128 -TAT-TTTGTCTTTTGAAATCAATGAAG-AAAATAAACAAAACACAAACATAAATAATCAATCAT
13975 GTAGTTAATCT
190 GTAGTTAATCT
13986 CTTAATTTAA
Statistics
Matches: 166, Mismatches: 28, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
204 19 0.11
205 60 0.36
206 30 0.18
207 56 0.34
208 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (205 bp):
ACGTAGAAATGATATATTTTCTATTTTATCTAATTATCATGTCAGCTCAGAAAATCACTAACAGT
CTAACGATAGTTAATATGTGATGACCATATCTTAATTAAATAAAAATAAAAATGATCATATATAT
TTTGTCTTTTGAAATCAATGAAGAAAATAAACAAAACACAAACATAAATAATCAATCATGTAGTT
AATCTAATCT
Found at i:14632 original size:36 final size:37
Alignment explanation
Indices: 14563--14645 Score: 114
Period size: 37 Copynumber: 2.2 Consensus size: 37
14553 CCCATTATCA
* * *
14563 TTTTTCAACAAACATCTACCAAACTTTGAAAAACTAT
1 TTTTTAAAGAAACATCTACCAAACTTTGAAAAACCAT
*
14600 TTTTTAAAGAAACATTTACCAAACTTTG-AAAACCAT
1 TTTTTAAAGAAACATCTACCAAACTTTGAAAAACCAT
14636 TTTTTCAAAG
1 TTTTT-AAAG
14646 TTGGTTGCCA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 12 0.29
37 29 0.71
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.35
Consensus pattern (37 bp):
TTTTTAAAGAAACATCTACCAAACTTTGAAAAACCAT
Found at i:19148 original size:36 final size:36
Alignment explanation
Indices: 19076--19156 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 36
19066 TTATCCCATT
*
19076 ATCATTTTTCAACAAACATCTACCAAATTTTGAAAA
1 ATCATTTTTCAACAAACATCTACCAAACTTTGAAAA
* *
19112 A-CTATTTTTCAAAGAAACATTTACCAAACTTT-AAAA
1 ATC-ATTTTTC-AACAAACATCTACCAAACTTTGAAAA
19148 ATCATTTTT
1 ATCATTTTT
19157 TTAAAGTTGG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
35 1 0.03
36 19 0.49
37 19 0.49
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.37
Consensus pattern (36 bp):
ATCATTTTTCAACAAACATCTACCAAACTTTGAAAA
Found at i:19157 original size:37 final size:38
Alignment explanation
Indices: 19076--19162 Score: 94
Period size: 37 Copynumber: 2.4 Consensus size: 38
19066 TTATCCCATT
* *
19076 ATCA-TTTTTC-AACAAACATCTACCAAATTTTGAAAA
1 ATCATTTTTTCAAAGAAACATCTACCAAACTTTGAAAA
*
19112 A-C-TATTTTTCAAAGAAACATTTACCAAACTTT-AAAA
1 ATCAT-TTTTTCAAAGAAACATCTACCAAACTTTGAAAA
*
19148 ATCATTTTTTTAAAG
1 ATCATTTTTTCAAAG
19163 TTGGTTATCA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
35 1 0.02
36 12 0.29
37 28 0.67
38 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.37
Consensus pattern (38 bp):
ATCATTTTTTCAAAGAAACATCTACCAAACTTTGAAAA
Found at i:24403 original size:44 final size:44
Alignment explanation
Indices: 24340--24430 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
24330 TTGATAGAAA
24340 ATTATTTCAATAAATAAATTTAAATTAAAAATCTCCAATAATGT
1 ATTATTTCAATAAATAAATTTAAATTAAAAATCTCCAATAATGT
* *
24384 ATTATTTTACTAAATAAATTTAAATTAAAAATCTCCAATAATGT
1 ATTATTTCAATAAATAAATTTAAATTAAAAATCTCCAATAATGT
24428 ATT
1 ATT
24431 GACATGTGTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (44 bp):
ATTATTTCAATAAATAAATTTAAATTAAAAATCTCCAATAATGT
Found at i:32727 original size:24 final size:25
Alignment explanation
Indices: 32700--32747 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
32690 TAAAAAATTA
* *
32700 ATTAAAAT-TAAATTCTAATTTTTT
1 ATTAAAATAAAAATTATAATTTTTT
*
32724 ATTAAACTAAAAATTATAATTTTT
1 ATTAAAATAAAAATTATAATTTTT
32748 GAATTATGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (25 bp):
ATTAAAATAAAAATTATAATTTTTT
Found at i:42031 original size:3 final size:3
Alignment explanation
Indices: 42023--42051 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
42013 GAAATAAATA
42023 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
42052 ATACTGGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:44107 original size:24 final size:24
Alignment explanation
Indices: 44074--44120 Score: 87
Period size: 23 Copynumber: 2.0 Consensus size: 24
44064 CTTTGTTAGA
44074 AAAGTCAAAAAG-GGGGCTAAGGG
1 AAAGTCAAAAAGAGGGGCTAAGGG
44097 AAAGTCAAAAAGAGGGGCTAAGGG
1 AAAGTCAAAAAGAGGGGCTAAGGG
44121 GGGCATCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.45, C:0.09, G:0.38, T:0.09
Consensus pattern (24 bp):
AAAGTCAAAAAGAGGGGCTAAGGG
Found at i:47372 original size:18 final size:18
Alignment explanation
Indices: 47349--47385 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
47339 GTTGTGCAAT
47349 GAGAATAGAAAAAATGTA
1 GAGAATAGAAAAAATGTA
47367 GAGAATAGAAAAAATGTA
1 GAGAATAGAAAAAATGTA
47385 G
1 G
47386 CATTATATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.16
Consensus pattern (18 bp):
GAGAATAGAAAAAATGTA
Found at i:48200 original size:20 final size:20
Alignment explanation
Indices: 48177--48228 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
48167 AACGCGATCC
48177 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
48197 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
48217 CCAAAATCGCAA
1 CCAGAATCGCAA
48229 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:48309 original size:20 final size:20
Alignment explanation
Indices: 48284--48477 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
48274 GATTTTCCAT
* *
48284 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
48304 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
48324 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
48344 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
48364 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
48384 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
48404 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
48424 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
48445 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
48465 AATCGCAACGCGA
1 AATCGCAACGCGA
48478 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:48329 original size:40 final size:39
Alignment explanation
Indices: 48280--48477 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
48270 TTGCGATTTT
* ** *
48280 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
48318 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
48359 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
48399 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
48438 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
48478 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:48367 original size:60 final size:60
Alignment explanation
Indices: 48284--48476 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
48274 GATTTTCCAT
* ** * *
48284 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
48344 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
48404 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
48465 AATCGCAACGCG
1 AATCGCAACGCG
48477 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:48897 original size:33 final size:33
Alignment explanation
Indices: 48858--48928 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
48848 TTCACTTAGA
*
48858 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
48891 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
48924 TTTCA
1 TTTCA
48929 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:49085 original size:19 final size:19
Alignment explanation
Indices: 49061--49105 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
49051 GCAACGAGAG
* **
49061 AATCGCAACGCGAAATGAA
1 AATCGCAACGAGAAACCAA
49080 AATCGCAACGAGAAACCAA
1 AATCGCAACGAGAAACCAA
49099 AATCGCA
1 AATCGCA
49106 TTGCGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.49, C:0.24, G:0.18, T:0.09
Consensus pattern (19 bp):
AATCGCAACGAGAAACCAA
Found at i:49123 original size:19 final size:19
Alignment explanation
Indices: 49101--49198 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
49091 GAAACCAAAA
*
49101 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
49120 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
49134 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
49153 TCGCGTTGC-A-ATTC---
1 TCGCGTTGCGATTTTCATT
* * *
49167 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
49186 TCGCGTTGCGATT
1 TCGCGTTGCGATT
49199 CTCTCGTTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 18 0.30
15 1 0.02
16 5 0.08
17 6 0.10
18 1 0.02
19 30 0.49
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:49142 original size:14 final size:14
Alignment explanation
Indices: 49123--49212 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
49113 TTTCATTTCG
49123 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
49137 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
49156 CGTTGCAATTCTCT
1 CGTTGCGATTCTCT
49170 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
49187 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
49203 CGTTGCGATT
1 CGTTGCGATT
49213 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 27 0.44
15 1 0.02
16 8 0.13
17 8 0.13
18 1 0.02
19 17 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:49148 original size:33 final size:33
Alignment explanation
Indices: 49106--49220 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
49096 CAAAATCGCA
49106 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
49139 TTGCGATTTTCATTTCGCGTTGCAATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
49172 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
49205 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
49221 AACCAAAAGA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.10, C:0.24, G:0.20, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:51156 original size:185 final size:185
Alignment explanation
Indices: 50913--51383 Score: 908
Period size: 185 Copynumber: 2.6 Consensus size: 185
50903 TAGATTGCTT
*
50913 AGTAAATTTATTCGGTTGCTGCC-ATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
50977 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
51042 GTATATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTATATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
51097 AGTAAATTTGTTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
51162 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
51227 GTGTATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTATATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
51282 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
51347 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTT
51384 ATCCATTCAA
Statistics
Matches: 282, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
184 22 0.08
185 260 0.92
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (185 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTATATTCTTTAACACTGTGAAATATATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:51217 original size:93 final size:93
Alignment explanation
Indices: 50913--51383 Score: 894
Period size: 92 Copynumber: 5.1 Consensus size: 93
50903 TAGATTGCTT
*
50913 AGTAAATTTATTCGGTTGCTGCC-ATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
50977 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
51005 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTATATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
51069 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
51097 AGTAAATTTGTTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
51162 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
51190 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
51254 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
51282 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
51347 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
51375 AGTAAATTT
1 AGTAAATTT
51384 ATCCATTCAA
Statistics
Matches: 371, Mismatches: 5, Indels: 5
0.97 0.01 0.01
Matches are distributed among these distances:
92 204 0.55
93 167 0.45
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:51467 original size:19 final size:19
Alignment explanation
Indices: 51427--51555 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
51417 TAGTTTACTT
* *
51427 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
51447 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
51466 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
51485 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
51499 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
51518 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
51532 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
51551 TCGCA
1 TCGCA
51556 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:51506 original size:33 final size:32
Alignment explanation
Indices: 51463--51555 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
51453 CGCGAAACCA
**
51463 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
51495 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
51528 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
51556 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:51553 original size:52 final size:52
Alignment explanation
Indices: 51427--51555 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
51417 TAGTTTACTT
**
51427 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
51479 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
51532 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
51556 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:51573 original size:19 final size:19
Alignment explanation
Indices: 51551--51685 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
51541 GAAACCAAAA
*
51551 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
51570 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
51586 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
51603 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
51619 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
51636 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
51655 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
51675 TCGTGTTGCGA
1 TCGCGTTGCGA
51686 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:51592 original size:14 final size:14
Alignment explanation
Indices: 51573--51629 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
51563 TTTCATTTCG
51573 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
51587 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
51604 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
51620 CGTTGCGATT
1 CGTTGCGATT
51630 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:51598 original size:33 final size:33
Alignment explanation
Indices: 51556--51648 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
51546 CAAAATCGCA
*
51556 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
51589 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
51622 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
51649 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:53616 original size:14 final size:13
Alignment explanation
Indices: 53582--53618 Score: 58
Period size: 12 Copynumber: 2.8 Consensus size: 13
53572 TTGATTGTTT
53582 AATTGATTTGTAA
1 AATTGATTTGTAA
53595 AA-TGATTTGTAA
1 AATTGATTTGTAA
53607 AAGTTGATTTGT
1 AA-TTGATTTGT
53619 GTAATTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.55
13 2 0.09
14 8 0.36
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (13 bp):
AATTGATTTGTAA
Found at i:53741 original size:19 final size:19
Alignment explanation
Indices: 53725--53826 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
53715 AAAAATGACT
53725 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
53744 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
53763 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
53777 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
53796 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
53816 ATCGCAATGCG
1 ATCGCAATGCG
53827 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:53879 original size:19 final size:19
Alignment explanation
Indices: 53855--54147 Score: 383
Period size: 19 Copynumber: 16.4 Consensus size: 19
53845 GATTATCTCG
53855 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
53874 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
53893 TTGCGA--TTC-TATCG--
1 TTGCGATTTTCATTTCGCA
53907 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
53926 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
53945 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
53964 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
53983 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
54002 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
54021 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
54035 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
54054 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
54073 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
54087 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
54107 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
54121 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
54140 TTGCGATT
1 TTGCGATT
54148 GTATTTTCCG
Statistics
Matches: 243, Mismatches: 10, Indels: 42
0.82 0.03 0.14
Matches are distributed among these distances:
14 29 0.12
16 23 0.09
17 19 0.08
18 3 0.01
19 157 0.65
20 12 0.05
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:53895 original size:52 final size:52
Alignment explanation
Indices: 53833--54147 Score: 315
Period size: 52 Copynumber: 5.9 Consensus size: 52
53823 TGCGTTTATA
53833 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
53885 ATTTCGCATTGCGATTCTATCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
53937 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
* *
53994 ATTTCGCATTGCGATTTTAATTTCGCATTGCGA--TTC-TGTCG--TTGCGATTTTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
* * * * *
54046 ATTTCGCATTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
* * *
54098 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATTTCGCGTTGCGATT
1 ATTT-CGCATTGCGATTATC-TCGTTGCGATTTTCATTTCGCATTGCGATT
54148 GTATTTTCCG
Statistics
Matches: 230, Mismatches: 16, Indels: 33
0.82 0.06 0.12
Matches are distributed among these distances:
45 4 0.02
46 1 0.00
47 4 0.02
48 1 0.00
49 1 0.00
50 4 0.02
52 104 0.45
53 24 0.10
54 11 0.05
55 13 0.06
56 1 0.00
57 62 0.27
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:56443 original size:12 final size:12
Alignment explanation
Indices: 56426--56450 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56416 TCTTCGGGGA
56426 CTTTTTCTTCTT
1 CTTTTTCTTCTT
56438 CTTTTTCTTCTT
1 CTTTTTCTTCTT
56450 C
1 C
56451 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:56657 original size:24 final size:24
Alignment explanation
Indices: 56623--56669 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
56613 TCTGAAACTC
56623 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
56647 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
56670 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:57370 original size:20 final size:20
Alignment explanation
Indices: 57342--57709 Score: 442
Period size: 20 Copynumber: 18.4 Consensus size: 20
57332 AAATTTAAGT
* * * *
57342 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
57362 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
57382 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
57402 GTTGCGATTTAC-GATTA-TC
1 GTTGCGATTTACGGA-TACGC
57421 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
57441 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
57461 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
57481 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
57501 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
57521 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
57541 GTTGC-AGTTTACGGATACGC
1 GTTGCGA-TTTACGGATACGC
57561 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
57581 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
57601 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
57621 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
57641 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
57661 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
57681 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
57701 GTTGCGATT
1 GTTGCGATT
57710 ATGGAAAATC
Statistics
Matches: 308, Mismatches: 29, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
19 22 0.07
20 281 0.91
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:63623 original size:18 final size:18
Alignment explanation
Indices: 63600--63675 Score: 89
Period size: 18 Copynumber: 3.9 Consensus size: 18
63590 CCGTGTAGAA
63600 ATGTCCCGAAGGACCACT
1 ATGTCCCGAAGGACCACT
63618 ATGTCCCGAAGGACCAAATCACAT
1 ATGTCCCGAAGGA-C----CAC-T
*
63642 ATGTCCCGAAGGACCATT
1 ATGTCCCGAAGGACCACT
63660 ATGTCCCGAAGGACCA
1 ATGTCCCGAAGGACCA
63676 AATATCAGAT
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
18 30 0.59
19 3 0.06
23 4 0.08
24 14 0.27
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACT
Found at i:63817 original size:23 final size:23
Alignment explanation
Indices: 63785--63828 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
63775 ATTACATATA
*
63785 TGTCCTGAAGGACCACGTAGAAT
1 TGTCCCGAAGGACCACGTAGAAT
*
63808 TGTCCCGAAGGACCGCGTAGA
1 TGTCCCGAAGGACCACGTAGA
63829 CCCTCTACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.25, G:0.30, T:0.18
Consensus pattern (23 bp):
TGTCCCGAAGGACCACGTAGAAT
Found at i:67261 original size:20 final size:21
Alignment explanation
Indices: 67209--67264 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
67199 TACTGGAAGG
*
67209 GGGTATCGGTACCATAGTATA
1 GGGTATCGATACCATAGTATA
* * *
67230 GTAGTATTGATACCATGGTA-A
1 G-GGTATCGATACCATAGTATA
67251 GGGTATCGATACCA
1 GGGTATCGATACCA
67265 GGCCACATCG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 11 0.39
21 3 0.11
22 14 0.50
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (21 bp):
GGGTATCGATACCATAGTATA
Found at i:67302 original size:95 final size:94
Alignment explanation
Indices: 67137--67356 Score: 334
Period size: 95 Copynumber: 2.3 Consensus size: 94
67127 TGATTCAATC
*
67137 AGTATCGATACCATGGTAAGGGTATCGATATCAGGCAACATCGAACCTAAAATTGGTATCGATAC
1 AGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGAACCTAAAATTGGTATCGATAC
* *
67202 TGGAAGGGGGTATCGGTACCATAGTATAGT
66 TGGAAGGGGATATCGATACCATAGTA-AGT
* * *
67232 AGTATTGATACCATGGTAAGGGTATCGATACCAGGCCACATCGAATCTAAAATTGGTATCGATAA
1 AGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGAACCTAAAATTGGTATCGAT-A
*
67297 C-GGAAGGGGATATCGATACCATAGTAGGT
65 CTGGAAGGGGATATCGATACCATAGTAAGT
* *
67326 AGTATCGATACCATGGTAGGGGTGTCGATAC
1 AGTATCGATACCATGGTAAGGGTATCGATAC
67357 TTAAGAGCCA
Statistics
Matches: 114, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
94 30 0.26
95 82 0.72
96 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (94 bp):
AGTATCGATACCATGGTAAGGGTATCGATACCAGGCAACATCGAACCTAAAATTGGTATCGATAC
TGGAAGGGGATATCGATACCATAGTAAGT
Found at i:67903 original size:57 final size:58
Alignment explanation
Indices: 67686--68018 Score: 537
Period size: 58 Copynumber: 5.8 Consensus size: 58
67676 ATGGCACTAA
*
67686 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTC
1 GTGTGC-AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
* **
67745 GTGTGCAAAAATGTTAAGAAATTCATACTAAGTATATGAATTTTTGTATTGGGCACTTC
1 GTGTGC-AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
67804 GTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
1 GTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
* *
67862 GTATGCAAAA-GTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTTC
1 GTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
* *
67919 GTGTGCAAAA-GTTAA-TAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
* *
67975 GTGTGCAAATTGTTAAGACATTCATACTAAGTGTATGAATTTCC
1 GTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCC
68019 ATATGGGAAA
Statistics
Matches: 258, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
56 47 0.18
57 65 0.25
58 83 0.32
59 63 0.24
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (58 bp):
GTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTC
Found at i:67991 original size:171 final size:175
Alignment explanation
Indices: 67693--68018 Score: 543
Period size: 171 Copynumber: 1.9 Consensus size: 175
67683 TAAGTGTGCA
* *
67693 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTCGTGTGCAAAAATG
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTTCGTGTGCAAAAATG
**
67758 TTAAGAAATTCATACTAAGTATATGAATTTTTGTATTGGGCACTTCGTGTGCAAAATGTTAAGAA
66 TTAAGAAATTCATACTAAGTATATGAATTTCCGTATTGGGCACTTCGTGTGCAAAATGTTAAGAA
67823 ATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTATGC
131 ATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTATGC
67868 AAAA-GTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTTCGTGTGC-AAAA-G
1 AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTTCGTGTGCAAAAATG
* * * * *
67930 TTAA-TAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAAATTGTTAAGAC
66 TTAAGAAATTCATACTAAGTATATGAATTTCCGTATTGGGCACTTCGTGTGCAAAATGTTAAGAA
67994 ATTCATACTAAGTGTATGAATTTCC
131 ATTCATACTAAGTGTATGAATTTCC
68019 ATATGGGAAA
Statistics
Matches: 142, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
171 78 0.55
172 5 0.04
173 4 0.03
174 51 0.36
175 4 0.03
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (175 bp):
AAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTTCGTGTGCAAAAATG
TTAAGAAATTCATACTAAGTATATGAATTTCCGTATTGGGCACTTCGTGTGCAAAATGTTAAGAA
ATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTCGTATGC
Found at i:73606 original size:17 final size:18
Alignment explanation
Indices: 73578--73611 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
73568 AATAATAACA
73578 TATATAATTTTTAAATTT
1 TATATAATTTTTAAATTT
73596 TATAT-ATTTTTAAATT
1 TATATAATTTTTAAATT
73612 GTTAGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATAATTTTTAAATTT
Found at i:74475 original size:15 final size:16
Alignment explanation
Indices: 74457--74494 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
74447 ATAAATTTAT
74457 AAATATATTA-AAGTA
1 AAATATATTATAAGTA
*
74472 AAATATATTATTAGTA
1 AAATATATTATAAGTA
74488 AAA-ATAT
1 AAATATAT
74495 AAAAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (16 bp):
AAATATATTATAAGTA
Found at i:79301 original size:30 final size:30
Alignment explanation
Indices: 79267--79324 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
79257 TAAACTTAAA
* *
79267 AGTTTTGCAATACTGAGATTTAAAAATTTT
1 AGTTTTACAATACTGAAATTTAAAAATTTT
*
79297 AGTTTTACAATACTGAAATTTAATAATT
1 AGTTTTACAATACTGAAATTTAAAAATT
79325 CATACAATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (30 bp):
AGTTTTACAATACTGAAATTTAAAAATTTT
Found at i:79523 original size:30 final size:31
Alignment explanation
Indices: 79445--79591 Score: 117
Period size: 30 Copynumber: 4.6 Consensus size: 31
79435 TCAATCTATA
* *
79445 TTTTAAAA-AAATCAATCCATACTAATAACT
1 TTTTAAAATAAATCAATCTATACTAATAAAT
79475 TATTTAAAAT--ATCAATCTATACTAATAAAT
1 T-TTTAAAATAAATCAATCTATACTAATAAAT
*
79505 TTTTAAAATAAATC-ATCTATATTTAAATAACTCAAT
1 TTTTAAAATAAATCAATCTATA-CT-AAT-A---AAT
*
79541 TCATATTAAAATAAATCAATC--CACTAATAAAT
1 T--T-TTAAAATAAATCAATCTATACTAATAAAT
79573 TATTTAAAATAAATCAATC
1 T-TTTAAAATAAATCAATC
79592 CATTTTAAAA
Statistics
Matches: 98, Mismatches: 5, Indels: 28
0.75 0.04 0.21
Matches are distributed among these distances:
29 8 0.08
30 43 0.44
31 13 0.13
32 7 0.07
33 1 0.01
35 1 0.01
36 7 0.07
37 1 0.01
38 2 0.02
39 12 0.12
40 3 0.03
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (31 bp):
TTTTAAAATAAATCAATCTATACTAATAAAT
Found at i:79559 original size:20 final size:21
Alignment explanation
Indices: 79507--79560 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
79497 TAATAAATTT
79507 TTAAAATAAATC-A-TCTATA
1 TTAAAATAAATCAATTCTATA
* *
79526 TTTAAATAACTCAATTC-ATA
1 TTAAAATAAATCAATTCTATA
79546 TTAAAATAAATCAAT
1 TTAAAATAAATCAAT
79561 CCACTAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 10 0.34
20 17 0.59
21 2 0.07
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (21 bp):
TTAAAATAAATCAATTCTATA
Found at i:79583 original size:50 final size:51
Alignment explanation
Indices: 79524--79777 Score: 203
Period size: 50 Copynumber: 4.8 Consensus size: 51
79514 AAATCATCTA
*
79524 TATTT-AAATAACTCAATTCATATTAAAATAAATCAATCC-ACTAATAAAT
1 TATTTAAAATAAATCAATTCATATTAAAATAAATCAATCCAACTAATAAAT
* *
79573 TATTTAAAATAAATCAATCCATTTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTAAAATAAATCAATTCATATTAAAATAAATCAATCCA-ACTAATAAAT
* * ** *
79625 TATTTAAAATAAATCAATTTATACAACTACAATAATAAATCAATCCATA-TTTTAAAA
1 TATTTAAAATAAATCAATTCAT---A-T-TAA-AATAAATCAATCCA-ACTAATAAAT
** * ** * *
79682 TAAAT-CAATCCATACAAATAATTATTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTAAAATAAAT-CAATTCA-TA-TTAAAATAAATCAATCCA-ACTAATAAAT
*
79736 TATTTAAAATAAATCAATCCATATTTTAAAA-AAATCAATCCA
1 TATTTAAAATAAATCAATTCATA--TTAAAATAAATCAATCCA
79778 TATTTTAAAT
Statistics
Matches: 161, Mismatches: 30, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
49 5 0.03
50 31 0.19
52 30 0.19
53 29 0.18
54 21 0.13
55 7 0.04
56 6 0.04
57 15 0.09
58 17 0.11
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (51 bp):
TATTTAAAATAAATCAATTCATATTAAAATAAATCAATCCAACTAATAAAT
Found at i:79600 original size:20 final size:20
Alignment explanation
Indices: 79575--79614 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
79565 TAATAAATTA
79575 TTTAAAATAAATCAATCCAT
1 TTTAAAATAAATCAATCCAT
79595 TTTAAAATAAATCAATCCAT
1 TTTAAAATAAATCAATCCAT
79615 ACTAATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (20 bp):
TTTAAAATAAATCAATCCAT
Found at i:79633 original size:32 final size:32
Alignment explanation
Indices: 79595--79758 Score: 157
Period size: 32 Copynumber: 5.7 Consensus size: 32
79585 ATCAATCCAT
79595 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
** *
79627 TTTAAAATAAATCAATTTATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
79657 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
79675 TTTAAAATAAATCAATCCATACAAAT-AATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
79706 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
79738 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
79759 TTTTAAAAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 32
0.74 0.05 0.22
Matches are distributed among these distances:
20 1 0.01
22 14 0.13
23 1 0.01
24 2 0.02
26 13 0.12
28 1 0.01
30 1 0.01
31 27 0.25
32 49 0.45
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:79700 original size:18 final size:18
Alignment explanation
Indices: 79679--79735 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
79669 CCATATTTTA
79679 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
* *
79697 AAAT-AAT-TAT--TTA-
1 AAATAAATCAATCCATAC
79710 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
*
79728 TAATAAAT
1 AAATAAAT
79736 TATTTAAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 10
0.66 0.11 0.23
Matches are distributed among these distances:
13 4 0.14
14 5 0.17
15 2 0.07
16 2 0.07
17 5 0.17
18 11 0.38
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATAAATCAATCCATAC
Found at i:79720 original size:111 final size:104
Alignment explanation
Indices: 79595--79830 Score: 330
Period size: 111 Copynumber: 2.2 Consensus size: 104
79585 ATCAATCCAT
**
79595 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTTATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT---ACTACAA-AA
79660 TAAATCAATCCATATTTTAAAATAAATCAATCCATACAAAT-AATTA
62 -AAATCAATCCATATTTT-AAATAAATCAAT--ATACAAATAAATTA
* **
79706 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAAAAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTACAAAAAAAT
*
79771 CAATCCATATTTTAAATAAATCAATATACTAATAAATTA
66 CAATCCATATTTTAAATAAATCAATATACAAATAAATTA
*
79810 TTTAAACTAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
79831 TTTTAAAATA
Statistics
Matches: 117, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
103 7 0.06
104 25 0.21
105 12 0.10
106 17 0.15
107 2 0.02
108 4 0.03
111 50 0.43
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (104 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACTACAAAAAAAT
CAATCCATATTTTAAATAAATCAATATACAAATAAATTA
Found at i:79770 original size:21 final size:21
Alignment explanation
Indices: 79738--79795 Score: 98
Period size: 21 Copynumber: 2.7 Consensus size: 21
79728 TAATAAATTA
79738 TTTAAAATAAATCAATCCATAT
1 TTTAAAA-AAATCAATCCATAT
79760 TTTAAAAAAATCAATCCATAT
1 TTTAAAAAAATCAATCCATAT
*
79781 TTTAAATAAATCAAT
1 TTTAAAAAAATCAAT
79796 ATACTAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 28 0.80
22 7 0.20
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (21 bp):
TTTAAAAAAATCAATCCATAT
Found at i:79803 original size:72 final size:74
Alignment explanation
Indices: 79704--79852 Score: 257
Period size: 72 Copynumber: 2.0 Consensus size: 74
79694 TACAAATAAT
79704 TATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAA-A
1 TATTTAAAATAAATCAAT-CATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATA
79768 AATCAATCCA
65 AATCAATCCA
* *
79778 TATTTTAAATAAATCAAT-ATACTAATAAATTATTTAAACTAAATCAATCCATATTTTAAAATAA
1 TATTTAAAATAAATCAATCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
79842 ATCAATCCA
66 ATCAATCCA
79851 TA
1 TA
79853 CTAATAAATT
Statistics
Matches: 72, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
72 42 0.58
73 13 0.18
74 17 0.24
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.36
Consensus pattern (74 bp):
TATTTAAAATAAATCAATCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAA
ATCAATCCA
Found at i:79856 original size:126 final size:125
Alignment explanation
Indices: 79706--80039 Score: 452
Period size: 126 Copynumber: 2.7 Consensus size: 125
79696 CAAATAATTA
79706 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATTTTAAAAAAAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-CATATTTTAAAAAAAT
*
79771 CAATCCATATTTTAAATAAATCAAT-ATACTAATAAATTATTTAAACTAAATCAATCCATAT
65 CAATCCATATTTTAAATAAATCAATCATACTAAT-AATTATTTAAAATAAATCAATCCATAT
***
79832 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATTCATACAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAA-TCATA-TTTTA-AA-AA
*
79897 TAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAATTATTTAAAATAAATCAATCTAT
62 -AATCAATCCATATTTT-AAATAAATCAAT-CATACTAATAATTATTTAAAATAAATCAATCCAT
79962 AT
124 AT
* *
79964 TTTAAAAT-AATCAATTCATACTAATAAATTA-TTAAAAT--A--AAT--TATTTTAAATAAATC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCATATTTTAAAAAAATC
80021 AATCCATATTTTATAATAA
66 AATCCATATTTTA-AATAA
80040 TTTATTTTAA
Statistics
Matches: 189, Mismatches: 10, Indels: 25
0.84 0.04 0.11
Matches are distributed among these distances:
118 1 0.01
119 21 0.11
120 1 0.01
121 2 0.01
122 2 0.01
123 2 0.01
125 1 0.01
126 53 0.28
127 3 0.02
128 3 0.02
129 2 0.01
130 23 0.12
131 34 0.18
132 33 0.17
133 8 0.04
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (125 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCATATTTTAAAAAAATC
AATCCATATTTTAAATAAATCAATCATACTAATAATTATTTAAAATAAATCAATCCATAT
Found at i:79861 original size:22 final size:21
Alignment explanation
Indices: 79812--79861 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
79802 ATAAATTATT
**
79812 TAAACTAAATCAATCCATATTT
1 TAAA-TAAATCAATCCATATAA
79834 TAAAATAAATCAATCCATACTAA
1 T-AAATAAATCAATCCATA-TAA
79857 TAAAT
1 TAAAT
79862 TATTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAATAAATCAATCCATATAA
Found at i:80004 original size:13 final size:14
Alignment explanation
Indices: 79986--80101 Score: 72
Period size: 15 Copynumber: 7.5 Consensus size: 14
79976 AATTCATACT
79986 AATAAATTA-TTAA
1 AATAAATTATTTAA
79999 AATAAATTATTTTAAATA
1 AATAAATTA-TTT--A-A
* *
80017 AATCAATCCATATTTTAT
1 AATAAAT---TAT-TTAA
*
80035 AATAATTTATTTTAA
1 AATAAATTA-TTTAA
* *
80050 AGTAAATTATTTTAT
1 AATAAATTA-TTTAA
80065 AATAAATTATTGTAA
1 AATAAATTATT-TAA
80080 AATAAATTATTTTAA
1 AATAAATTA-TTTAA
80095 AATAAAT
1 AATAAAT
80102 AACCTTATTA
Statistics
Matches: 81, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
13 9 0.11
14 2 0.02
15 48 0.59
16 3 0.04
17 1 0.01
18 12 0.15
19 1 0.01
20 1 0.01
21 4 0.05
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.45
Consensus pattern (14 bp):
AATAAATTATTTAA
Found at i:80047 original size:15 final size:15
Alignment explanation
Indices: 80027--80101 Score: 105
Period size: 15 Copynumber: 5.0 Consensus size: 15
80017 AATCAATCCA
* *
80027 TATTTTATAATAATT
1 TATTTTAAAATAAAT
*
80042 TATTTTAAAGTAAAT
1 TATTTTAAAATAAAT
*
80057 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
*
80072 TATTGTAAAATAAAT
1 TATTTTAAAATAAAT
80087 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
80102 AACCTTATTA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 52 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (15 bp):
TATTTTAAAATAAAT
Found at i:80069 original size:66 final size:65
Alignment explanation
Indices: 79933--80086 Score: 179
Period size: 66 Copynumber: 2.3 Consensus size: 65
79923 CAATCCATAC
*
79933 TAAT-AATTATTTAAAATAAATCAATCTATATTTTAAAATAATCAATTCATACTAATAAATTATT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAATCAATTCATAC-AATAAATTATT
79997 A
65 A
* * * ** *
79998 AAATAAATTATTTTAAATAAATCAATCCATATTTTATAATAATTTATT-TTA-AAGTAAATTATT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAATCAATTCATACAA-TAAATTA--
80061 TTA
63 TTA
80064 TAATAAATTATTGTAAAATAAAT
1 TAATAAATTATT-TAAAATAAAT
80087 TATTTTAAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
63 2 0.03
64 7 0.09
65 5 0.07
66 52 0.69
67 9 0.12
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (65 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAATCAATTCATACAATAAATTATTA
Found at i:81041 original size:24 final size:26
Alignment explanation
Indices: 80994--81042 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
80984 GATTTATTAT
80994 AATACGTAAACGTTCAGTTTTTTCAA
1 AATACGTAAACGTTCAGTTTTTTCAA
*
81020 AATACTTAAA-GTT-AGTTTTTTCA
1 AATACGTAAACGTTCAGTTTTTTCA
81043 TTTTGATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.45
25 3 0.14
26 9 0.41
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (26 bp):
AATACGTAAACGTTCAGTTTTTTCAA
Found at i:81760 original size:20 final size:19
Alignment explanation
Indices: 81720--81761 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
81710 CAGTAAAAAA
*
81720 TTACTAAAAATATTATTTT
1 TTACTAAAAATATTATATT
*
81739 TTACTTAAAATATTAATATT
1 TTACTAAAAATATT-ATATT
81759 TTA
1 TTA
81762 ACATTTCCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (19 bp):
TTACTAAAAATATTATATT
Found at i:81886 original size:21 final size:21
Alignment explanation
Indices: 81860--81900 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
81850 CGTAAAGCTC
81860 AATAATAATATTTTAGGTAAA
1 AATAATAATATTTTAGGTAAA
81881 AATAATAATATTTTAGGTAA
1 AATAATAATATTTTAGGTAA
81901 TTTTTTACCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (21 bp):
AATAATAATATTTTAGGTAAA
Found at i:82942 original size:31 final size:31
Alignment explanation
Indices: 82902--82987 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
82892 AAATTATGTA
*
82902 TTTAGTACCTAAACTATTAGTTTTAGTCTAT
1 TTTAGTACCTAAACTATTAGTTTTAGTCTAC
*
82933 TTTAATACCTAAACTATTAGTTTTAGTCTAC
1 TTTAGTACCTAAACTATTAGTTTTAGTCTAC
*
82964 TTTAGTACTTAAACT-TTCAGTTTT
1 TTTAGTACCTAAACTATT-AGTTTT
82988 CTTAAACCAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 2 0.04
31 48 0.96
ACGTcount: A:0.29, C:0.14, G:0.08, T:0.49
Consensus pattern (31 bp):
TTTAGTACCTAAACTATTAGTTTTAGTCTAC
Found at i:85250 original size:19 final size:20
Alignment explanation
Indices: 85226--85275 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
85216 CCTATAGGGA
85226 GTATCGATACTCAACCC-TG
1 GTATCGATACTCAACCCTTG
*
85245 GTATCGATACTCGACCCTTG
1 GTATCGATACTCAACCCTTG
85265 GTATCGATACT
1 GTATCGATACT
85276 TCCATGAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (20 bp):
GTATCGATACTCAACCCTTG
Done.