Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005308.1 Hibiscus syriacus cultivar Beakdansim tig00012013_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: 103080
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:5054 original size:12 final size:12
Alignment explanation
Indices: 5031--5061 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
5021 TTTATTGCGA
5031 AAATTGAAAATTT
1 AAATT-AAAATTT
5044 AAATTAAAATTT
1 AAATTAAAATTT
5056 AAATTA
1 AAATTA
5062 TCCGATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (12 bp):
AAATTAAAATTT
Found at i:5229 original size:8 final size:8
Alignment explanation
Indices: 5219--5260 Score: 57
Period size: 8 Copynumber: 5.0 Consensus size: 8
5209 TAAAAGTTAG
*
5219 TAAAATAG
1 TAAAATAA
5227 TAAAATAA
1 TAAAATAA
5235 TAAAATAA
1 TAAAATAA
5243 TAAAATAAAA
1 TAAAAT--AA
5253 TAAAATAA
1 TAAAATAA
5261 AAGGACCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 23 0.74
10 8 0.26
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (8 bp):
TAAAATAA
Found at i:5251 original size:13 final size:13
Alignment explanation
Indices: 5227--5260 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
5217 AGTAAAATAG
5227 TAAAATAATAAAA
1 TAAAATAATAAAA
5240 TAATAA-AATAAAA
1 TAA-AATAATAAAA
5253 TAAAATAA
1 TAAAATAA
5261 AAGGACCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.11
13 15 0.79
14 2 0.11
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAAATAATAAAA
Found at i:6613 original size:17 final size:18
Alignment explanation
Indices: 6581--6615 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6571 CAGCTGCCCC
6581 TCTTTGCTCTATTGTCGT
1 TCTTTGCTCTATTGTCGT
6599 TCTTTGCTC-ATTGTCGT
1 TCTTTGCTCTATTGTCGT
6616 GTAACGACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.06, C:0.23, G:0.17, T:0.54
Consensus pattern (18 bp):
TCTTTGCTCTATTGTCGT
Found at i:7503 original size:105 final size:105
Alignment explanation
Indices: 7033--7544 Score: 613
Period size: 105 Copynumber: 5.0 Consensus size: 105
7023 GTATTGTTCC
* * * * *
7033 GAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTATTTGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACAA
* *
7098 TCAGTCGCCCCTTCGCTGT-AAGTTGAGCTTGTGTTGTCT
66 TCAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCT
* * * *
7137 CGAGTCTAATATCCTTCGTTGTGAATTTGAAATTGACTCTG-AA-T--GAAA-T-TTTGTTGACA
1 -GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACA
*
7196 ATCA---GCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTT
65 ATCAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTC-T
* * * * * * *
7235 GGGTCCAATATCCTTCG-TGGGAAGTTGAAATTGGCTATGAAATTAGGAAGTTGTTTGTTGACAG
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACAA
*
7299 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTG--T
66 TCAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCT
* * * * *
7337 GAGCCCAATA-CCTTCGCAGTGAAGTTAAAATTGGCTCTGAAACTGGAAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACAA
* * *
7401 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 TCAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCT
*
7441 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACAA
* * *
7506 -CAGCCGTCCCTTCGTTGTAAAGTTGAACTTGTGTTGTCT
66 TCAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCT
7545 TGAATGGCAC
Statistics
Matches: 350, Mismatches: 42, Indels: 31
0.83 0.10 0.07
Matches are distributed among these distances:
96 29 0.08
97 36 0.10
98 2 0.01
99 13 0.04
100 4 0.01
101 11 0.03
102 92 0.26
103 1 0.00
104 50 0.14
105 112 0.32
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGGGAAATTGTTTGTTGACAA
TCAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCT
Found at i:7929 original size:36 final size:36
Alignment explanation
Indices: 7881--7949 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
7871 AAAGTTTATT
* *
7881 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTG
1 TTTCAAGAGAAACTATCTCAAGCGAGACAAAATTTG
*
7917 TTTCAAGGGAAACTATCTCAAGCGAGACAAAAT
1 TTTCAAGAGAAACTATCTCAAGCGAGACAAAAT
7950 CTTCTTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (36 bp):
TTTCAAGAGAAACTATCTCAAGCGAGACAAAATTTG
Found at i:9486 original size:16 final size:15
Alignment explanation
Indices: 9446--9502 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
9436 TTCTTTTTCC
*
9446 TTTTGTTCTTGTTTCTC
1 TTTTGTTC-T-TTTCTT
9463 TTTT-TTCTCTTT-TT
1 TTTTGTTCT-TTTCTT
9477 TTTTGCTTCTTTTCTT
1 TTTTG-TTCTTTTCTT
9493 TTTTGTTCTT
1 TTTTGTTCTT
9503 GATTGGATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 5 0.14
15 12 0.34
16 14 0.40
17 4 0.11
ACGTcount: A:0.00, C:0.16, G:0.07, T:0.77
Consensus pattern (15 bp):
TTTTGTTCTTTTCTT
Found at i:9486 original size:25 final size:25
Alignment explanation
Indices: 9439--9503 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
9429 TTTTGATTTC
*
9439 TTTTTCCTTTTGTTCTTGTTTCTCT
1 TTTTTCCTTTTGTTCTTGCTTCTCT
*
9464 TTTTTCTCTTTT-TTTTTGCTTCT-T
1 TTTTTC-CTTTTGTTCTTGCTTCTCT
*
9488 TTCTT--TTTTGTTCTTG
1 TTTTTCCTTTTGTTCTTG
9504 ATTGGATCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
21 4 0.12
22 5 0.15
24 5 0.15
25 15 0.44
26 5 0.15
ACGTcount: A:0.00, C:0.17, G:0.08, T:0.75
Consensus pattern (25 bp):
TTTTTCCTTTTGTTCTTGCTTCTCT
Found at i:12420 original size:12 final size:12
Alignment explanation
Indices: 12397--12427 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
12387 TTATTTACGA
12397 AAATTGAAAATTT
1 AAATT-AAAATTT
12410 AAATTAAAATTT
1 AAATTAAAATTT
12422 AAATTA
1 AAATTA
12428 TCCGATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (12 bp):
AAATTAAAATTT
Found at i:14272 original size:27 final size:24
Alignment explanation
Indices: 14229--14313 Score: 86
Period size: 23 Copynumber: 3.5 Consensus size: 24
14219 TAAAATGAAG
*
14229 AAAACAAAGATAAAATAGTAAGTAAA
1 AAAACAAAAATAAAATA-TAA-TAAA
14255 AAAACAAATAATAAAATAT-ATAAA
1 AAAACAAA-AATAAAATATAATAAA
* *
14279 AAAAGAAAAAGAAAATA-AATAAA
1 AAAACAAAAATAAAATATAATAAA
*
14302 AAAA-AATAATAA
1 AAAACAAAAATAA
14314 CAAAGTACGA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
22 6 0.12
23 17 0.33
24 11 0.21
25 1 0.02
26 9 0.17
27 8 0.15
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.15
Consensus pattern (24 bp):
AAAACAAAAATAAAATATAATAAA
Found at i:14334 original size:2 final size:2
Alignment explanation
Indices: 14327--14363 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14317 AGTACGAATA
14327 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14364 ATGAATAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14669 original size:2 final size:2
Alignment explanation
Indices: 14622--14650 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14612 CTTCTGTAGA
14622 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14651 ATAGTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14851 original size:2 final size:2
Alignment explanation
Indices: 14844--14872 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14834 GAACATACGC
14844 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14873 CAAAATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14908 original size:12 final size:11
Alignment explanation
Indices: 14880--14926 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
14870 ATACAAAATA
* *
14880 AATAATATAAA
1 AATAATACAAG
14891 AATAATACAAG
1 AATAATACAAG
14902 TAATAATACAAG
1 -AATAATACAAG
*
14914 AATAATAAAAG
1 AATAATACAAG
14925 AA
1 AA
14927 AGAGAAAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
11 21 0.66
12 11 0.34
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.21
Consensus pattern (11 bp):
AATAATACAAG
Found at i:15643 original size:37 final size:37
Alignment explanation
Indices: 15602--15706 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
15592 GTGCTTGTGG
* *
15602 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
* * *
15639 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
*
15676 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAG
15707 GACGAAAAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
Found at i:16278 original size:41 final size:41
Alignment explanation
Indices: 16217--16438 Score: 132
Period size: 41 Copynumber: 5.5 Consensus size: 41
16207 GGTGTATAGC
*
16217 GGCGTTTTTAGAACAAACGCCGCAAAACACTTGAACTTTAAT
1 GGCGTTTTTAGAACAAACGCCGCAAAACAC-TAAACTTTAAT
* * * *
16259 GGCGTTTTT-GGACAAACGCCGCTAAAGACTAAACTTTAGT
1 GGCGTTTTTAGAACAAACGCCGCAAAACACTAAACTTTAAT
* * * * * ** *
16299 GGCG-TTTTA-TACAAACGCCTCTAAAGAATGTACTTTAGT
1 GGCGTTTTTAGAACAAACGCCGCAAAACACTAAACTTTAAT
* * * * * *
16338 GACATTTTTAGAACAAATGCCGCTAAAGACTAGTACTTTAGA-
1 GGCGTTTTTAGAACAAACGCCGCAAAACACTA-AACTTTA-AT
* * * ** *
16380 GGCGTTTTTA-TACAAACGCCGCCAAAGACTGTACTTTAGT
1 GGCGTTTTTAGAACAAACGCCGCAAAACACTAAACTTTAAT
* *
16420 GGCGTGTTTATAA-AAACGC
1 GGCGTTTTTAGAACAAACGC
16439 TGTTATAGAC
Statistics
Matches: 146, Mismatches: 27, Indels: 16
0.77 0.14 0.08
Matches are distributed among these distances:
39 31 0.21
40 40 0.27
41 51 0.35
42 24 0.16
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (41 bp):
GGCGTTTTTAGAACAAACGCCGCAAAACACTAAACTTTAAT
Found at i:16467 original size:121 final size:119
Alignment explanation
Indices: 16220--16588 Score: 339
Period size: 121 Copynumber: 3.0 Consensus size: 119
16210 GTATAGCGGC
* * * * *
16220 GTTTTTAGAACAAACGCCGCAAAACACTTGAACTTTA-ATGGCGTTTTTGGACAAACGCCGCTAA
1 GTTTTTAGAACAAACGCCGCTAAAGACTAGTACTTTAGA-GGCGTTTTTGTACAAACGCCGCTAA
* * *
16284 AGACTAAACTTTAGTGGCGTTTTATACAAACGCCT-CTAAAGAATGTACTTTAGTG
65 AGACTATACTTTAGTGGCGTTTTATAAAAACG-CTGCTATAGAATGTACTTTAGTG
* * * *
16339 ACATTTTTAGAACAAATGCCGCTAAAGACTAGTACTTTAGAGGCGTTTTTATACAAACGCCGCCA
1 --GTTTTTAGAACAAACGCCGCTAAAGACTAGTACTTTAGAGGCGTTTTTGTACAAACGCCGCTA
* * *
16404 AAGACTGTACTTTAGTGGCGTGTTTATAAAAACGCTGTTATAGACTAGTACTTTAGTG
64 AAGACTATACTTTAGTGGCGT-TTTATAAAAACGCTGCTATAGAAT-GTACTTTAGTG
** * * * *
16462 GTTTTTTTTATACAAACGCCGTTAAAGACTCA-TAACTTTAGTGGCATTTTTGTAAAAACGCCGC
1 G-TTTTTAGA-ACAAACGCCGCTAAAGACT-AGT-ACTTTAGAGGCGTTTTTGTACAAACGCCGC
* * * * * * *
16526 TATAGAGTATTGCTTTAGTGGCGTTTTTAGAACAAACGCCGCTATAGAGTCTTACTTTAGTG
62 TAAAGACTA-TACTTTAGTGGCG-TTTTATAA-AAACGCTGCTATAGAAT-GTACTTTAGTG
16588 G
1 G
16589 CGTTTTTTTT
Statistics
Matches: 202, Mismatches: 35, Indels: 17
0.80 0.14 0.07
Matches are distributed among these distances:
121 73 0.36
122 24 0.12
123 29 0.14
124 32 0.16
125 18 0.09
126 26 0.13
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (119 bp):
GTTTTTAGAACAAACGCCGCTAAAGACTAGTACTTTAGAGGCGTTTTTGTACAAACGCCGCTAAA
GACTATACTTTAGTGGCGTTTTATAAAAACGCTGCTATAGAATGTACTTTAGTG
Found at i:16512 original size:42 final size:40
Alignment explanation
Indices: 16217--16609 Score: 324
Period size: 42 Copynumber: 9.6 Consensus size: 40
16207 GGTGTATAGC
* * * *
16217 GGCGTTTTTAGAACAAACGCCGCAAAACACT-TGAACTTTAAT
1 GGCGTTTTTA-TACAAACGCCGCTAAAGACTAT--ACTTTAGT
** *
16259 GGCGTTTTTGGACAAACGCCGCTAAAGACTAAACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTATACTTTAGT
* * *
16299 GGCG-TTTTATACAAACGCCTCTAAAGAATGTACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTATACTTTAGT
* * * * *
16338 GACATTTTTAGAACAAATGCCGCTAAAGACTAGTACTTTAGA
1 GGCGTTTTTA-TACAAACGCCGCTAAAGACTA-TACTTTAGT
* *
16380 GGCGTTTTTATACAAACGCCGCCAAAGACTGTACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTATACTTTAGT
* * * * *
16420 GGCGTGTTTATAAAAACGCTGTTATAGACTAGTACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTA-TACTTTAGT
** *
16461 GGTTTTTTTTATACAAACGCCGTTAAAGACTCATAACTTTAGT
1 GG-CGTTTTTATACAAACGCCGCTAAAGACT-AT-ACTTTAGT
* * * * * *
16504 GGCATTTTTGTAAAAACGCCGCTATAGAGTATTGCTTTAGT
1 GGCGTTTTTATACAAACGCCGCTAAAGACTA-TACTTTAGT
* *
16545 GGCGTTTTTAGAACAAACGCCGCTATAGAGTCT-TACTTTAGT
1 GGCGTTTTTA-TACAAACGCCGCTA-A-AGACTATACTTTAGT
* *
16587 GGCGTTTTTTTTACAGACGCCGC
1 GGCG-TTTTTATACAAACGCCGC
16610 AAATTTAAAA
Statistics
Matches: 279, Mismatches: 59, Indels: 26
0.77 0.16 0.07
Matches are distributed among these distances:
39 31 0.11
40 48 0.17
41 77 0.28
42 104 0.37
43 16 0.06
44 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (40 bp):
GGCGTTTTTATACAAACGCCGCTAAAGACTATACTTTAGT
Found at i:16696 original size:19 final size:18
Alignment explanation
Indices: 16653--16694 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
16643 ACCCTTTTTC
*
16653 ATTTTTCTCACGTCACCT
1 ATTTTTCCCACGTCACCT
*
16671 ATTTTTCCCACTTCACCT
1 ATTTTTCCCACGTCACCT
16689 ATTTTT
1 ATTTTT
16695 TCATTCTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.31, G:0.02, T:0.50
Consensus pattern (18 bp):
ATTTTTCCCACGTCACCT
Found at i:20209 original size:43 final size:42
Alignment explanation
Indices: 19986--20319 Score: 377
Period size: 42 Copynumber: 7.9 Consensus size: 42
19976 TTTTTTAAAA
*
19986 AAAAACACCGCTATAGATCTGA-CTTTTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCC
*
20027 AAAAACGCCGCTATAGATCTGACATTTTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCC
* * * * *
20069 AAAAATGCCGCTATATATCTGACATTTTACGGCGTTTGTTCG
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCC
** * * * * * *
20111 GGAAACACCGCTATATATCTAACATTTTACGGTGTTTGTTCC
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCC
*
20153 AAAAACGCCGCTATAGATCTGACCCTTTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCC
*
20195 AAAAAACGCCGCTATAGGTATC-GACCTTTTGCGGCGTTTGTTAC
1 -AAAAACGCCGCTATA-G-ATCTGACCTTTTGCGGCGTTTGTTCC
* * * * *
20239 AAAAATGTCGCTATAGGTATC-GACCTTTTTCTGCGTTTGTTAC
1 AAAAACGCCGCTATA-G-ATCTGACCTTTTGCGGCGTTTGTTCC
* *
20282 AAAAACGCCGCTATAGATCTTGACCTATTGCGGTGTTT
1 AAAAACGCCGCTATAGATC-TGACCTTTTGCGGCGTTT
20320 TTTATTCTCA
Statistics
Matches: 253, Mismatches: 34, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
41 24 0.09
42 125 0.49
43 80 0.32
44 21 0.08
45 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (42 bp):
AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCC
Found at i:23978 original size:12 final size:13
Alignment explanation
Indices: 23942--23985 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
23932 GCCCCGATTA
*
23942 CCCGATTACCTGC
1 CCCGATTACCCGC
23955 CCCGATTACCCGC
1 CCCGATTACCCGC
*
23968 CCCGA-TACCCGA
1 CCCGATTACCCGC
23980 CCCGAT
1 CCCGAT
23986 AAATATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.18, C:0.50, G:0.16, T:0.16
Consensus pattern (13 bp):
CCCGATTACCCGC
Found at i:24046 original size:24 final size:26
Alignment explanation
Indices: 24019--24075 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
24009 ATATATATAT
*
24019 ATAATATTAATA-A-ATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
24043 ATAA-A-AAATATATATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
24067 ATATATATA
1 ATA-ATATA
24076 TACCTGACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
22 4 0.15
23 2 0.07
24 18 0.67
25 1 0.04
26 1 0.04
27 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAATATAAATATATATTTAATTTAA
Found at i:24061 original size:19 final size:19
Alignment explanation
Indices: 24037--24076 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
24027 AATAAATTTA
24037 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
24056 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
24075 AT
1 AT
24077 ACCTGACCCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:24108 original size:12 final size:12
Alignment explanation
Indices: 24075--24128 Score: 74
Period size: 12 Copynumber: 4.6 Consensus size: 12
24065 AAATATATAT
*
24075 ATACCTGACCCA
1 ATACCCGACCCA
*
24087 ATA-CCAACCCA
1 ATACCCGACCCA
24098 ATACCCGACCCA
1 ATACCCGACCCA
*
24110 ATACCCGGCCCA
1 ATACCCGACCCA
24122 ATACCCG
1 ATACCCG
24129 TTTAAATAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
11 9 0.24
12 28 0.76
ACGTcount: A:0.33, C:0.46, G:0.09, T:0.11
Consensus pattern (12 bp):
ATACCCGACCCA
Found at i:31248 original size:13 final size:13
Alignment explanation
Indices: 31232--31266 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
31222 TTAGTACATA
31232 AAATTTGAATCTT
1 AAATTTGAATCTT
31245 AAATTTGAATCTT
1 AAATTTGAATCTT
31258 AAATTTGAA
1 AAATTTGAA
31267 AACAATAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (13 bp):
AAATTTGAATCTT
Found at i:31391 original size:2 final size:2
Alignment explanation
Indices: 31384--31416 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
31374 CCTACTTCTT
31384 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
31417 ACTAAGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:45510 original size:96 final size:96
Alignment explanation
Indices: 45346--45732 Score: 729
Period size: 96 Copynumber: 4.0 Consensus size: 96
45336 AAGTTCTGCA
*
45346 ATTGAGGTATCCATTTTATTCGGTCAATATTTAGTGAGCATCGAGACATGAAATTGTTATCCTTC
1 ATTGAGGTATCCATTTTATTCGGTCAATATTTAGTGAGCGTCGAGACATGAAATTGTTATCCTTC
45411 ACTGATTCTGCAGATCAGAGGTACTGGCTTG
66 ACTGATTCTGCAGATCAGAGGTACTGGCTTG
45442 ATTGAGGTATCCATTTTATTCGGTCAATATTTAGTGAGCGTCGAGACATGAAATTGTTATCCTTC
1 ATTGAGGTATCCATTTTATTCGGTCAATATTTAGTGAGCGTCGAGACATGAAATTGTTATCCTTC
*
45507 ACTGATTCTGCAGATCAGAGGTACTGGCCTG
66 ACTGATTCTGCAGATCAGAGGTACTGGCTTG
*
45538 ATTGAGGTATCCATTTTATTCAGTCAATATTTAGTGAGCGTCGAGACATGAAATTGTTATCCTTC
1 ATTGAGGTATCCATTTTATTCGGTCAATATTTAGTGAGCGTCGAGACATGAAATTGTTATCCTTC
45603 ACTGATTCTGCAGATCAGAGGTACTGGCTTG
66 ACTGATTCTGCAGATCAGAGGTACTGGCTTG
45634 ATTGAGGTATCCATTTTATTCGGTCAATATTTAGTGAGCGTCGAGACATGAAATTGTTATCCTTC
1 ATTGAGGTATCCATTTTATTCGGTCAATATTTAGTGAGCGTCGAGACATGAAATTGTTATCCTTC
* *
45699 ACTGATTCTGCACATCAGAGATACTGGCTTG
66 ACTGATTCTGCAGATCAGAGGTACTGGCTTG
45730 ATT
1 ATT
45733 CATGGTACCG
Statistics
Matches: 284, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 284 1.00
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (96 bp):
ATTGAGGTATCCATTTTATTCGGTCAATATTTAGTGAGCGTCGAGACATGAAATTGTTATCCTTC
ACTGATTCTGCAGATCAGAGGTACTGGCTTG
Found at i:47774 original size:29 final size:29
Alignment explanation
Indices: 47741--47798 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
47731 TGTCGAACTC
*
47741 AAGTGATTATA-TTAGAATTATTATTCTTT
1 AAGTGATTATAGTGA-AATTATTATTCTTT
*
47770 AAGTGATTTTAGTGAAATTATTATTCTTT
1 AAGTGATTATAGTGAAATTATTATTCTTT
47799 CTCATGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (29 bp):
AAGTGATTATAGTGAAATTATTATTCTTT
Found at i:52017 original size:74 final size:74
Alignment explanation
Indices: 51924--52062 Score: 190
Period size: 74 Copynumber: 1.9 Consensus size: 74
51914 GTCAACAATG
* *** *
51924 TTGTTGACAATTTTCTCATATAACAAGTGACATCAGATTAATTTTTCAATTAGATTCACATTCTT
1 TTGTTGACAATTTTCTCATAAAACAAACAACAGCAGATTAATTTTTCAATTAGATTCACATTCTT
51989 ATAACATGA
66 ATAACATGA
* * *
51998 TTGTTGACAATTATT-TCATAAAACAAACAACAGCAGATTAATTTTTCAGTTAGTTTCACTTTCT
1 TTGTTGACAATT-TTCTCATAAAACAAACAACAGCAGATTAATTTTTCAATTAGATTCACATTCT
52062 T
65 T
52063 CTTACCTGCT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
74 54 0.96
75 2 0.04
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (74 bp):
TTGTTGACAATTTTCTCATAAAACAAACAACAGCAGATTAATTTTTCAATTAGATTCACATTCTT
ATAACATGA
Found at i:56064 original size:19 final size:20
Alignment explanation
Indices: 56019--56064 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
56009 TATCAAATGA
*
56019 AAGAAACAGAAAACAAATATC
1 AAGAAA-AGAAAAAAAATATC
*
56040 AA-AAAAGAAAAAAAAT-TG
1 AAGAAAAGAAAAAAAATATC
56058 AAGAAAA
1 AAGAAAA
56065 ACAAGTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.14
19 14 0.64
20 3 0.14
21 2 0.09
ACGTcount: A:0.74, C:0.07, G:0.11, T:0.09
Consensus pattern (20 bp):
AAGAAAAGAAAAAAAATATC
Found at i:59266 original size:25 final size:26
Alignment explanation
Indices: 59236--59302 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 26
59226 AAAAATTAGG
59236 ATTTTTAATAAATTAATTAAT-TTTTT
1 ATTTTTAATAAATTAA-TAATATTTTT
59262 ATTTTTAATTAAA--AATAATATTTTT
1 ATTTTTAA-TAAATTAATAATATTTTT
* *
59287 ATTATTAAAAAATTAA
1 ATTTTTAATAAATTAA
59303 AAAAAATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
24 7 0.20
25 14 0.40
26 10 0.29
27 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
ATTTTTAATAAATTAATAATATTTTT
Found at i:59373 original size:26 final size:26
Alignment explanation
Indices: 59337--59400 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 26
59327 ATGTATAATC
59337 GAGAAAATTCTAGGCACTTATTTCTA
1 GAGAAAATTCTAGGCACTTATTTCTA
59363 GAGAAAATTCTAGGCACTTATTTCTA
1 GAGAAAATTCTAGGCACTTATTTCTA
*
59389 GCGAAAAGTTCT
1 GAGAAAA-TTCT
59401 TTAGACACTA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 32 0.89
27 4 0.11
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (26 bp):
GAGAAAATTCTAGGCACTTATTTCTA
Found at i:59808 original size:99 final size:99
Alignment explanation
Indices: 59639--61090 Score: 1867
Period size: 99 Copynumber: 14.5 Consensus size: 99
59629 TAAATATTCA
* * * *
59639 CAGGCCAAAATTTGATATTTTCCAAATCTTC-AAAGGAAATTGTATAAAATATTTTGAATAGATA
1 CAGGTCAAAATCTGATACTTT-CAAATCTTCAAAAGG-AATTGTGTAAAATATTTTGAATAGATA
* *
59703 TATTTGTCACTCACAATTTTCTTGAGTAAAGTTTCT
64 TGTTTGTCACTCACGATTTTCTTGAGTAAAGTTTCT
* * * * *
59739 CAAGTCAAAATCTGATACTTTCAAATCTTCAAATGGAACTGTGTAAAATATTTTAAATATATATG
1 CAGGTCAAAATCTGATACTTTCAAATCTTCAAAAGGAATTGTGTAAAATATTTTGAATAGATATG
* *
59804 TTTGTCACTCACGATTTTCTTGAATAAATTTTCT
66 TTTGTCACTCACGATTTTCTTGAGTAAAGTTTCT
* * * * *
59838 CAAGTCAAAATCTGATACTGTAAAATCTTCAAAAGGAATTGTATAAAGTATTTTGAATAGATATG
1 CAGGTCAAAATCTGATACTTTCAAATCTTCAAAAGGAATTGTGTAAAATATTTTGAATAGATATG
* * * *
59903 TTTGTCACTCATGATTTTGTTTTAGTAAGGTTTCT
66 TTTGTCACTCACGATTTT-CTTGAGTAAAGTTTCT
* *
59938 TAGGTCAAAATCTGATACTTTCAAATCTTCAAAAGGAATTGTGTAAAATATTTTGAATCGATATG
1 CAGGTCAAAATCTGATACTTTCAAATCTTCAAAAGGAATTGTGTAAAATATTTTGAATAGATATG
60003 TTTGTCACTCACGATTTTCTTGAGTAAAGTTTCT
66 TTTGTCACTCACGATTTTCTTGAGTAAAGTTTCT
* * * * * *
60037 CAAGCCAAAATATGATTCTTTCAAATCTTCAAAAAGAATTGTATAAAATA-TTTGAATAGATATG
1 CAGGTCAAAATCTGATACTTTCAAATCTTCAAAAGGAATTGTGTAAAATATTTTGAATAGATATG
60101 TTTGTCACTCACGATTTTCTTTTCCCGAGTAAAGTTTCT
66 TTTGTCACTCACGATTTTC--TT---GAGTAAAGTTTCT
* * *
60140 CAGGACAAAATTTGATACTTTCAAATCTTCAAAAGGAATTGTGTAAAATATTTTGAAAAGATATG
1 CAGGTCAAAATCTGATACTTTCAAATCTTCAAAAGGAATTGTGTAAAATATTTTGAATAGATATG
60205 TTTGTCACTCACGATTTTCTTTTCTCGAGTAAAGTTTCT
66 TTTGTCACTCACGATTTTC---T-T-GAGTAAAGTTTCT
*
60244 CAGGTCAAAATATGATACTTTCAAATCTTCAAAAGGAATTGTGTAAAATATTTTGAATAGATATG
1 CAGGTCAAAATCTGATACTTTCAAATCTTCAAAAGGAATTGTGTAAAATATTTTGAATAGATATG
60309 TTTGTCACTCACGATTTTCTTGAGTAAAGTTTCT
66 TTTGTCACTCACGATTTTCTTGAGTAAAGTTTCT
* *
60343 CAGGTCAAAATCTAATGCTTTCAAATCTTCAAAAGGAATTGTGTAAAATATTTTGAATAGATATG
1 CAGGTCAAAATCTGATACTTTCAAATCTTCAAAAGGAATTGTGTAAAATATTTTGAATAGATATG
*
60408 TTTGTCACTCACGATTTTCTTGAGTAAAATTTCT
66 TTTGTCACTCACGATTTTCTTGAGTAAAGTTTCT
* * * *
60442 TAAGTCAAAATTTGATACTTTCAAATCTTCAAAAGAAATTGTGTAAAATATTTTGAATAGATATG
1 CAGGTCAAAATCTGATACTTTCAAATCTTCAAAAGGAATTGTGTAAAATATTTTGAATAGATATG
* * * *
60507 ATTGTCACTCACGGTTTTTTTGAGTAAGGTTTCT
66 TTTGTCACTCACGATTTTCTTGAGTAAAGTTTCT
* * *
60541 CAGGTCAAAATATGATACTTTCAAATC-TCTAAAATGAAATGTGTAAAATATTTTGAAT-GTATA
1 CAGGTCAAAATCTGATACTTTCAAATCTTC-AAAAGGAATTGTGTAAAATATTTTGAATAG-ATA
* * *
60604 TGTTTGTCACTAACAATTTTTTTGAGTAAAGTTTCT
64 TGTTTGTCACTCACGATTTTCTTGAGTAAAGTTTCT
*
60640 CAGGTCAAAATCTGATACTTTCAAATCTTCAAAAAAAAAAAAAGAATTGTGTAAAATATTTTGAA
1 CAGGTCAAAATCTGATACTTTCAAATCTTC--------AAAAGGAATTGTGTAAAATATTTTGAA
* * *
60705 TAGATATGCTTGTCACTCGCAATTTTCTTGAGTAAAGTTTCT
58 TAGATATGTTTGTCACTCACGATTTTCTTGAGTAAAGTTTCT
* * * * * * *
60747 CAAGTCAAAATATGATACTTTCAAATGTTCAAAAGGAATTTTG-ATAAATATTTTGGACATATAT
1 CAGGTCAAAATCTGATACTTTCAAATCTTCAAAAGGAATTGTGTA-AAATATTTTGAATAGATAT
* * *
60811 GTTTGTTACTCACAATTTTCTTGAGTAGAGTTTCT
65 GTTTGTCACTCACGATTTTCTTGAGTAAAGTTTCT
* * ** * *
60846 CAGGTCAAAATCTGATACTTTCAAATCTTTAAAAGGAATTCTGTAAAAGGTATTGAATATATA-G
1 CAGGTCAAAATCTGATACTTTCAAATCTTCAAAAGGAATTGTGTAAAATATTTTGAATAGATATG
*
60910 GTTGTCACTCACGATTTTCTTGAGTAAAGTTTCT
66 TTTGTCACTCACGATTTTCTTGAGTAAAGTTTCT
* * * * * *
60944 CAAGTCAAAATATGACACTTTCAAATATTTAAAAGGAAATGTGTAAAATATTTTGAAT-GTATAT
1 CAGGTCAAAATCTGATACTTTCAAATCTTCAAAAGGAATTGTGTAAAATATTTTGAATAG-ATAT
**
61008 GTTTGTCACTCATAATTTT-TTCGAGTAAAGTTTCT
65 GTTTGTCACTCACGATTTTCTT-GAGTAAAGTTTCT
* * *
61043 CAGGTCAAAATCTGATACTTTCAAATATTTAAAAGGATTTGTGTAAAA
1 CAGGTCAAAATCTGATACTTTCAAATCTTCAAAAGGAATTGTGTAAAA
61091 AGAGATGCAC
Statistics
Matches: 1192, Mismatches: 134, Indels: 53
0.86 0.10 0.04
Matches are distributed among these distances:
98 121 0.10
99 680 0.57
100 113 0.09
101 1 0.00
103 57 0.05
104 127 0.11
105 3 0.00
106 1 0.00
107 88 0.07
108 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (99 bp):
CAGGTCAAAATCTGATACTTTCAAATCTTCAAAAGGAATTGTGTAAAATATTTTGAATAGATATG
TTTGTCACTCACGATTTTCTTGAGTAAAGTTTCT
Found at i:73355 original size:37 final size:36
Alignment explanation
Indices: 73280--73355 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
73270 TTTTTATATT
*
73280 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
73316 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
73353 TTT
1 TTT
73356 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:73544 original size:20 final size:18
Alignment explanation
Indices: 73495--73549 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
73485 CCAGTAATCC
*
73495 TATTCCCTGGTAATCTTT
1 TATTCACTGGTAATCTTT
**
73513 TATTTTCTGGTAATCTTT
1 TATTCACTGGTAATCTTT
73531 TATTCCCACTGGTAATCTT
1 TATT--CACTGGTAATCTT
73550 ACATTCCGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 20 0.65
20 11 0.35
ACGTcount: A:0.18, C:0.20, G:0.11, T:0.51
Consensus pattern (18 bp):
TATTCACTGGTAATCTTT
Found at i:73555 original size:20 final size:20
Alignment explanation
Indices: 73519--73556 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
73509 CTTTTATTTT
**
73519 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
73539 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
73557 GTGAACCAAA
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:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:77321 original size:144 final size:143
Alignment explanation
Indices: 77062--77350 Score: 560
Period size: 144 Copynumber: 2.0 Consensus size: 143
77052 TTATCCAACA
*
77062 TTGGATAGGAATATACCTTTGGAAAGATATTTAAAGGGCATCCTTTCTACTTTATATTGAATGTG
1 TTGGATAGGAATATACCTTTGGAAAGATATTTAAAGGGCACCCTTTCTACTTTATATTGAATGTG
77127 GCTAGATAACTCCTTCGCGCACACGCGCCATCGCCATCTGTTATGGTCATTACGTGTTGTGCCAC
66 GCTAGATAACTCCTTCGCGCACACGCGCCATCGCCATCTGTTATGGTCATTACGTGTTGTGCCAC
77192 TCACATATTATAT
131 TCACATATTATAT
77205 TTGGATAGGAATATACCTTTGGAAAGATATTTAAAGGGACACCCTTTCTACTTTATATTGAATGT
1 TTGGATAGGAATATACCTTTGGAAAGATATTTAAAGGG-CACCCTTTCTACTTTATATTGAATGT
77270 GGCTAGATAACTCCTTCGCGCACACGCGCCATCGCCATCTGTTATGGTCATTACGTGTTGTGCCA
65 GGCTAGATAACTCCTTCGCGCACACGCGCCATCGCCATCTGTTATGGTCATTACGTGTTGTGCCA
77335 CTCACATATTATAT
130 CTCACATATTATAT
77349 TT
1 TT
77351 ATAGACACAT
Statistics
Matches: 144, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
143 38 0.26
144 106 0.74
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (143 bp):
TTGGATAGGAATATACCTTTGGAAAGATATTTAAAGGGCACCCTTTCTACTTTATATTGAATGTG
GCTAGATAACTCCTTCGCGCACACGCGCCATCGCCATCTGTTATGGTCATTACGTGTTGTGCCAC
TCACATATTATAT
Found at i:82422 original size:33 final size:33
Alignment explanation
Indices: 82380--82446 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
82370 TCTAGTACAA
82380 ATGGTGGACACGACCTTATGTGTCATACAGATT
1 ATGGTGGACACGACCTTATGTGTCATACAGATT
*
82413 ATGGTGGACACGACCTTATGTGTCATACGGATT
1 ATGGTGGACACGACCTTATGTGTCATACAGATT
82446 A
1 A
82447 GCACTACGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (33 bp):
ATGGTGGACACGACCTTATGTGTCATACAGATT
Found at i:82620 original size:33 final size:33
Alignment explanation
Indices: 82550--82620 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
82540 AAGTGTATTG
* *
82550 GTAAAATAAGCTTACGAGCTTATGAAACAAATG
1 GTAAGATAAGCTTACGAGCTTATGAAACAAATA
** *
82583 GTAAGATAAGCTTACGAGCTTATGGGATAAATA
1 GTAAGATAAGCTTACGAGCTTATGAAACAAATA
82616 GTAAG
1 GTAAG
82621 TATTTTGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (33 bp):
GTAAGATAAGCTTACGAGCTTATGAAACAAATA
Done.