Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 95 of 145
Found at i:31721341 original size:30 final size:30
Alignment explanation
Indices: 31721284--31721438 Score: 165
Period size: 30 Copynumber: 5.2 Consensus size: 30
31721274 AATTTTTTTT
*
31721284 CATTTTGACCCC-AAATCTTT-TCTAAAATTA
1 CATTTTAACCCCTAAA-CTTTCTC-AAAATTA
*
31721314 CCTTTTAACCCCTAAACTTTCTCAAAATTA
1 CATTTTAACCCCTAAACTTTCTCAAAATTA
* * *
31721344 CATTTTAACCCTTGAACTTT-TCTAAATTA
1 CATTTTAACCCCTAAACTTTCTCAAAATTA
*
31721373 CATTTTGACCCCTAAACTTTCTCAAAATTA
1 CATTTTAACCCCTAAACTTTCTCAAAATTA
* * * *
31721403 TATTTTGA-CCCTGACATTTTCTCAAAATTA
1 CATTTTAACCCCT-AAACTTTCTCAAAATTA
31721433 CATTTT
1 CATTTT
31721439 GGCCCCAGAA
Statistics
Matches: 107, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
29 29 0.27
30 73 0.68
31 5 0.05
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
CATTTTAACCCCTAAACTTTCTCAAAATTA
Found at i:31721388 original size:59 final size:58
Alignment explanation
Indices: 31721300--31721444 Score: 202
Period size: 59 Copynumber: 2.4 Consensus size: 58
31721290 GACCCCAAAT
* *
31721300 CTTTTCTAAAATTACCTTTTAACCCCTAAACTTTCTCAAAATTACATTTTAACCCTTGAA
1 CTTTTCTAAAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTTAACCC-TG-A
* *
31721360 CTTTTCT-AAATTACATTTTGACCCCTAAACTTTCTCAAAATTATATTTTGACCCTGA
1 CTTTTCTAAAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTTAACCCTGA
*
31721417 CATTTTCTCAAAATTACATTTTGGCCCC
1 C-TTTTCT-AAAATTACATTTTGACCCC
31721445 AGAAATTTTA
Statistics
Matches: 77, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
57 2 0.03
58 8 0.10
59 43 0.56
60 24 0.31
ACGTcount: A:0.30, C:0.25, G:0.04, T:0.41
Consensus pattern (58 bp):
CTTTTCTAAAATTACATTTTGACCCCTAAACTTTCTCAAAATTACATTTTAACCCTGA
Found at i:31721951 original size:4 final size:4
Alignment explanation
Indices: 31721942--31722009 Score: 69
Period size: 4 Copynumber: 18.5 Consensus size: 4
31721932 ATCGGGGAGG
*
31721942 AAGA AAGA AAGG AAGA AAGA AA-A AAG- AAGA AA-A AGAGA AAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA A-AGA AAGA AAGA
31721988 AA-A AAG- AAG- AAG- AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
31722010 AAGGAAAAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
3 20 0.36
4 34 0.61
5 2 0.04
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:31721973 original size:10 final size:10
Alignment explanation
Indices: 31721958--31722008 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
31721948 GAAAGGAAGA
31721958 AAGAAAAAAG
1 AAGAAAAAAG
31721968 AAG-AAAAAG
1 AAGAAAAAAG
31721977 -AGAAAGAAAG
1 AAGAAA-AAAG
31721987 AA-AAAAGAAG
1 AAGAAAA-AAG
*
31721997 AAGAAGAAAG
1 AAGAAAAAAG
31722007 AA
1 AA
31722009 AAAGGAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
8 2 0.06
9 9 0.26
10 20 0.57
11 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAG
Found at i:31721983 original size:26 final size:26
Alignment explanation
Indices: 31721941--31722003 Score: 92
Period size: 26 Copynumber: 2.4 Consensus size: 26
31721931 GATCGGGGAG
*
31721941 GAAGAAAGAA-AGGAAGAAAGAAAAAA
1 GAAGAAA-AAGAGAAAGAAAGAAAAAA
31721967 GAAGAAAAAGAGAAAGAAAGAAAAAA
1 GAAGAAAAAGAGAAAGAAAGAAAAAA
*
31721993 GAAGAAGAAGA
1 GAAGAAAAAGA
31722004 AAGAAAAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 2 0.06
26 32 0.94
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (26 bp):
GAAGAAAAAGAGAAAGAAAGAAAAAA
Found at i:31722012 original size:26 final size:26
Alignment explanation
Indices: 31721941--31722027 Score: 86
Period size: 26 Copynumber: 3.2 Consensus size: 26
31721931 GATCGGGGAG
31721941 GAAGAAAGAAAGGAAGAAAGAAAAAAGAA
1 GAAG-AAGAAA-GAA-AAAGAAAAAAGAA
* *
31721970 GAAAAAGAGAA-AGAAAGAAAAAAGAA
1 GAAGAAGA-AAGAAAAAGAAAAAAGAA
* *
31721996 GAAGAAGAAAGAAAAAGGAAAAATAA
1 GAAGAAGAAAGAAAAAGAAAAAAGAA
*
31722022 AAAGAA
1 GAAGAA
31722028 AAAAATAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.04
26 37 0.76
27 1 0.02
28 4 0.08
29 5 0.10
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (26 bp):
GAAGAAGAAAGAAAAAGAAAAAAGAA
Found at i:31722023 original size:13 final size:14
Alignment explanation
Indices: 31721962--31722038 Score: 59
Period size: 14 Copynumber: 5.4 Consensus size: 14
31721952 GGAAGAAAGA
*
31721962 AAAAAGAAGAAAAAG
1 AAAAAGAA-AAAAAT
*
31721977 AGAAAGAAAGAAAA-
1 AAAAAGAAA-AAAAT
* *
31721991 AAGAAGAAGAAGAAAG
1 AAAAAGAA-AA-AAAT
*
31722007 AAAAAG-GAAAAAT
1 AAAAAGAAAAAAAT
31722020 AAAAAGAAAAAAAT
1 AAAAAGAAAAAAAT
31722034 AAAAA
1 AAAAA
31722039 TTTTTCAACA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
13 9 0.18
14 21 0.42
15 15 0.30
16 5 0.10
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (14 bp):
AAAAAGAAAAAAAT
Found at i:31722039 original size:6 final size:6
Alignment explanation
Indices: 31721954--31722030 Score: 66
Period size: 6 Copynumber: 12.3 Consensus size: 6
31721944 GAAAGAAAGG
* * * *
31721954 AAGAAA GAAAAAA GAAGAAA AAGAGA AAGAAA GA-AAA AAGAAG AAGAAGA
1 AAGAAA -AAGAAA -AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAA-A
*
31722004 AAGAAA AAGGAAA AATAAA AAGAAA AA
1 AAGAAA AA-GAAA AAGAAA AAGAAA AA
31722031 AATAAAAATT
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
5 4 0.07
6 31 0.54
7 22 0.39
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (6 bp):
AAGAAA
Found at i:31722312 original size:13 final size:13
Alignment explanation
Indices: 31722294--31722339 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
31722284 GAAGCAGGCC
*
31722294 AGAAAAAAAAAGA
1 AGAAAAAAAGAGA
*
31722307 AGAAAAAAAGGGA
1 AGAAAAAAAGAGA
31722320 AGAAAAAAAGAGA
1 AGAAAAAAAGAGA
31722333 A-AAAAAA
1 AGAAAAAA
31722340 GGTTCAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 6 0.20
13 24 0.80
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAGAGA
Found at i:31722338 original size:10 final size:11
Alignment explanation
Indices: 31722294--31722338 Score: 58
Period size: 10 Copynumber: 4.1 Consensus size: 11
31722284 GAAGCAGGCC
31722294 AGAA-AAAAAA
1 AGAAGAAAAAA
31722304 AGAAGAAAAAA
1 AGAAGAAAAAA
31722315 AGGGAAGAAAAAA
1 A--GAAGAAAAAA
31722328 AG-AGAAAAAA
1 AGAAGAAAAAA
31722338 A
1 A
31722339 AGGTTCAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 13 0.41
11 8 0.25
13 11 0.34
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AGAAGAAAAAA
Found at i:31722524 original size:17 final size:17
Alignment explanation
Indices: 31722486--31722528 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
31722476 GTATTTATAT
31722486 TTTTAATTTTAAATCTA
1 TTTTAATTTTAAATCTA
* * *
31722503 ATTTAATTTTAATTTTA
1 TTTTAATTTTAAATCTA
31722520 TTTT-ATTTT
1 TTTTAATTTT
31722529 GAATACTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTAATTTTAAATCTA
Found at i:31722660 original size:19 final size:19
Alignment explanation
Indices: 31722638--31722681 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
31722628 ACGCCCTTTT
*
31722638 AAAAATTGAAAATATTCAAA
1 AAAAATTCAAAAT-TTCAAA
*
31722658 AAAAATCTCATAATTTCAAA
1 AAAAAT-TCAAAATTTCAAA
31722678 AAAA
1 AAAA
31722682 TTTCTATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAAATTCAAAATTTCAAA
Found at i:31722720 original size:21 final size:21
Alignment explanation
Indices: 31722694--31722733 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
31722684 TCTATCTTTC
31722694 AAATTTTT-TCGTGTCTTCAGG
1 AAATTTTTCTCGTGT-TTCAGG
31722715 AAATTTTTCTCGTGTTTCA
1 AAATTTTTCTCGTGTTTCA
31722734 AAAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (21 bp):
AAATTTTTCTCGTGTTTCAGG
Found at i:31722740 original size:22 final size:21
Alignment explanation
Indices: 31722694--31722738 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
31722684 TCTATCTTTC
**
31722694 AAATTTTTTCGTGTCTTCAGG
1 AAATTTTTTCGTGTCTTCAAA
31722715 AAATTTTTCTCGTGT-TTCAAA
1 AAATTTTT-TCGTGTCTTCAAA
31722736 AAA
1 AAA
31722739 ATATTCATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.44
Consensus pattern (21 bp):
AAATTTTTTCGTGTCTTCAAA
Found at i:31722950 original size:35 final size:34
Alignment explanation
Indices: 31722885--31723279 Score: 221
Period size: 35 Copynumber: 11.2 Consensus size: 34
31722875 AAAATTTTCC
*
31722885 CGTG-TTTCAAAAATTTTCGTGTTTTAAAAAATTCT
1 CGTGTTTTCAAAAA-TTTCGTG-TTTCAAAAATTCT
*
31722920 CGTGTTTTCAAAAATTTCAGTGTTTCAAAAATTCC
1 CGTGTTTTCAAAAATTTC-GTGTTTCAAAAATTCT
* * *
31722955 CATGTTTT-AAAAATTTATGTGTTTTCAAAAATTTT
1 CGTGTTTTCAAAAATTT-CGTG-TTTCAAAAATTCT
* * * *
31722990 CGTATTTTCAAAAAAAAATTT-GTGTTTTAAAAATCCA
1 CGTGTTTTC----AAAAATTTCGTGTTTCAAAAATTCT
* *
31723027 CGTGTTTTTAAAAATTTTGGTGTTTCAAAAA-TCTT
1 CGTGTTTTCAAAAA-TTTCGTGTTTCAAAAATTC-T
* * * *
31723062 CGTGTTTTCAAAAATTCCGGTGATTC-AAATTTTT
1 CGTGTTTTCAAAAATTTC-GTGTTTCAAAAATTCT
* *
31723096 CGTGTTTTCTAAAAATTTTTGTGCTTCAAAAAATT-T
1 CGTGTTTTC-AAAAA-TTTCGTGTTTC-AAAAATTCT
* ** *
31723132 CGT-TTTTCACAAATTTTCGTGTTTTCAATGACTCT
1 CGTGTTTTCA-AAAATTTCGTG-TTTCAAAAATTCT
* * * * ***
31723167 AGTG-TTTCACAAATTGTCACGTTTTTTTAAAAAAAAT
1 CGTGTTTTCAAAAATT-T--CG-TGTTTCAAAAATTCT
* * *
31723204 TGTGTTTTGAAAAATTCTCGTGTTTCAAAAATTGT
1 CGTGTTTTCAAAAATT-TCGTGTTTCAAAAATTCT
* * *
31723239 CGTGTTTTAAAAAAATTTCGTGTTTCTAAAATTTT
1 CGTGTTTT-CAAAAATTTCGTGTTTCAAAAATTCT
31723274 CGTGTT
1 CGTGTT
31723280 CGAAAATTTT
Statistics
Matches: 276, Mismatches: 56, Indels: 56
0.71 0.14 0.14
Matches are distributed among these distances:
33 5 0.02
34 45 0.16
35 144 0.52
36 27 0.10
37 33 0.12
38 14 0.05
40 8 0.03
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (34 bp):
CGTGTTTTCAAAAATTTCGTGTTTCAAAAATTCT
Found at i:31723053 original size:72 final size:73
Alignment explanation
Indices: 31722881--31723075 Score: 194
Period size: 72 Copynumber: 2.7 Consensus size: 73
31722871 TAAAAAAATT
* * * *
31722881 TTCCCGTGTTTCAAAAATTT-TCGTGTTTTAAAAAAT-TCTCGTGTTTTC----AAAAATTTCAG
1 TTCCCATGTTTTAAAAATTTAT-GTGTTTTCAAAAATCT-TCGTATTTTCAAAAAAAAATTT-AG
31722940 TGTTTCAAAAA
63 TGTTTCAAAAA
*
31722951 TTCCCATGTTTTAAAAATTTATGTGTTTTCAAAAATTTTCGTATTTTCAAAAAAAAATTT-GTGT
1 TTCCCATGTTTTAAAAATTTATGTGTTTTCAAAAATCTTCGTATTTTCAAAAAAAAATTTAGTGT
*
31723015 TTTAAAAA
66 TTCAAAAA
* *
31723023 -TCCACGTGTTTTTAAAAATTT-TG-GTGTTTCAAAAATCTTCGTGTTTTCAAAAA
1 TTCC-CATG-TTTTAAAAATTTATGTGT-TTTCAAAAATCTTCGTATTTTCAAAAA
31723076 TTCCGGTGAT
Statistics
Matches: 108, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
70 40 0.37
71 7 0.06
72 41 0.38
73 12 0.11
74 8 0.07
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (73 bp):
TTCCCATGTTTTAAAAATTTATGTGTTTTCAAAAATCTTCGTATTTTCAAAAAAAAATTTAGTGT
TTCAAAAA
Found at i:31723158 original size:18 final size:18
Alignment explanation
Indices: 31722874--31723279 Score: 252
Period size: 17 Copynumber: 22.8 Consensus size: 18
31722864 GTTTGTGTAA
31722874 AAAAATTTTCCCGTG-TTTC
1 AAAAATTTT--CGTGTTTTC
*
31722893 AAAAATTTTCGTGTTTTA
1 AAAAATTTTCGTGTTTTC
*
31722911 AAAAATTCTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
31722929 AAAAA-TTTCAGTG-TTTC
1 AAAAATTTTC-GTGTTTTC
** *
31722946 AAAAATTCCCATGTTTT-
1 AAAAATTTTCGTGTTTTC
31722963 AAAAATTTAT-GTGTTTTC
1 AAAAATTT-TCGTGTTTTC
*
31722981 AAAAATTTTCGTATTTTC
1 AAAAATTTTCGTGTTTTC
*
31722999 AAAAAAAAATTT-GTGTTTT-
1 ---AAAAATTTTCGTGTTTTC
*** *
31723018 AAAAATCCACGTGTTTTT
1 AAAAATTTTCGTGTTTTC
*
31723036 AAAAATTTTGGTG-TTTC
1 AAAAATTTTCGTGTTTTC
*
31723053 AAAAATCTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
31723071 AAAAA-TTCCG-GTGATTC
1 AAAAATTTTCGTGT-TTTC
*
31723088 -AAATTTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
31723105 TAAAAATTTTTGTG-CTTC
1 -AAAAATTTTCGTGTTTTC
*
31723123 AAAAAATTTCGT-TTTTC
1 AAAAATTTTCGTGTTTTC
*
31723140 ACAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
** * * *
31723158 AATGACTCTAGTG-TTTC
1 AAAAATTTTCGTGTTTTC
* * * *
31723175 ACAAATTGTCACGTTTTTTTA
1 AAAAATT-T-TCG-TGTTTTC
** *
31723196 AAAAAAATT-GTGTTTTG
1 AAAAATTTTCGTGTTTTC
*
31723213 AAAAATTCTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
* *
31723230 AAAAATTGTCGTGTTTTA
1 AAAAATTTTCGTGTTTTC
*
31723248 AAAAAATTTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
*
31723265 TAAAATTTTCGTGTT
1 AAAAATTTTCGTGTT
31723280 CGAAAATTTT
Statistics
Matches: 290, Mismatches: 70, Indels: 55
0.70 0.17 0.13
Matches are distributed among these distances:
16 10 0.03
17 136 0.47
18 101 0.35
19 20 0.07
20 8 0.03
21 15 0.05
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:31723209 original size:55 final size:53
Alignment explanation
Indices: 31723094--31723263 Score: 130
Period size: 55 Copynumber: 3.2 Consensus size: 53
31723084 ATTCAAATTT
* * * * * * **
31723094 TTCGTGTTTTCTAAAAATTTTTGTGCTTCAAAAAATT-TCGT-TTTTCACAAATT
1 TTCGTGTTTTC-AAAAACTCTAGTGTTTC-AAAAATTGTCGTGTTTTAAAAAAAA
** * *
31723147 TTCGTGTTTTCAATGACTCTAGTGTTTCACAAATTGTCACGTTTTTTTAAAAAAAA
1 TTCGTGTTTTCAAAAACTCTAGTGTTTCAAAAATTGT--CG-TGTTTTAAAAAAAA
* * * *
31723203 TT-GTGTTTTGAAAAATTCTCGTGTTTCAAAAATTGTCGTGTTTTAAAAAAAT
1 TTCGTGTTTTCAAAAACTCTAGTGTTTCAAAAATTGTCGTGTTTTAAAAAAAA
31723255 TTCGTGTTT
1 TTCGTGTTT
31723264 CTAAAATTTT
Statistics
Matches: 92, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
51 6 0.07
52 26 0.28
53 19 0.21
54 2 0.02
55 29 0.32
56 10 0.11
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (53 bp):
TTCGTGTTTTCAAAAACTCTAGTGTTTCAAAAATTGTCGTGTTTTAAAAAAAA
Found at i:31723285 original size:16 final size:17
Alignment explanation
Indices: 31723214--31723289 Score: 73
Period size: 17 Copynumber: 4.5 Consensus size: 17
31723204 TGTGTTTTGA
* *
31723214 AAAATTCTCGTGTTTCA
1 AAAATTTTCGTGTTTCG
* **
31723231 AAAATTGTCGTGTTTTAA
1 AAAATTTTCGTG-TTTCG
* *
31723249 AAAAATTTCGTGTTTCT
1 AAAATTTTCGTGTTTCG
31723266 AAAATTTTCGTG-TTCG
1 AAAATTTTCGTGTTTCG
31723282 AAAATTTT
1 AAAATTTT
31723290 GTTTTTAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
16 11 0.22
17 25 0.50
18 14 0.28
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.45
Consensus pattern (17 bp):
AAAATTTTCGTGTTTCG
Found at i:31724092 original size:24 final size:26
Alignment explanation
Indices: 31724041--31724092 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
31724031 AGTTATGTCT
*
31724041 TCAAACACAAACATATATTTATATAC
1 TCAAACACAAACATATACTTATATAC
31724067 TCAAAC-C-AACATTATACTTATA-AC
1 TCAAACACAAACA-TATACTTATATAC
31724091 TC
1 TC
31724093 CATTTACAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 8 0.33
25 10 0.42
26 6 0.25
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (26 bp):
TCAAACACAAACATATACTTATATAC
Found at i:31725779 original size:15 final size:15
Alignment explanation
Indices: 31725759--31725796 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
31725749 CCTTTTTCTC
31725759 CTCTTTTCTTTCTTT
1 CTCTTTTCTTTCTTT
31725774 CTCTTTTCTTTCTTT
1 CTCTTTTCTTTCTTT
31725789 -TCTTTTCT
1 CTCTTTTCT
31725797 ATTTAATCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 8 0.35
15 15 0.65
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (15 bp):
CTCTTTTCTTTCTTT
Found at i:31725783 original size:5 final size:5
Alignment explanation
Indices: 31725760--31725796 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
31725750 CTTTTTCTCC
31725760 TCTTT TC-TT TCTTT CTCTTT TC-TT TCTTT TCTTT TCT
1 TCTTT TCTTT TCTTT -TCTTT TCTTT TCTTT TCTTT TCT
31725797 ATTTAATCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 8 0.28
5 16 0.55
6 5 0.17
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (5 bp):
TCTTT
Found at i:31726840 original size:43 final size:43
Alignment explanation
Indices: 31726779--31726871 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
31726769 AGTATCAGGG
* * *
31726779 GACACATGGCCGTGTCACCTAG-CTGTGTGTCACACACGGCTGA
1 GACACACGGCCATGTCACCT-GCCCGTGTGTCACACACGGCTGA
*
31726822 GACACACGGCCATGTCACCTGCCCGTGTGTCACACACGGCTGG
1 GACACACGGCCATGTCACCTGCCCGTGTGTCACACACGGCTGA
31726865 GACACAC
1 GACACAC
31726872 ACCTGTGTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 1 0.02
43 44 0.98
ACGTcount: A:0.22, C:0.34, G:0.27, T:0.17
Consensus pattern (43 bp):
GACACACGGCCATGTCACCTGCCCGTGTGTCACACACGGCTGA
Found at i:31728295 original size:210 final size:211
Alignment explanation
Indices: 31727924--31728343 Score: 824
Period size: 210 Copynumber: 2.0 Consensus size: 211
31727914 AACACATGCC
31727924 GAAAACTCAACCATCGGTAGGATGTACGAGACCAGCACCTAAAATGCGGTAACCCTTAATGACAT
1 GAAAACTCAACCATCGGTAGGATGTACGAGACCAGCACCTAAAATGCGGTAACCCTTAATGACAT
31727989 GTCATTTGTATCCTATATATTCCTAAGGTTCAACCGGGATTCAAACATCGTTGAAACTTCGTCGA
66 GTCATTTGTATCCTATATATTCCTAAGGTTCAACCGGGATTCAAACATCGTTGAAACTTCGTCGA
31728054 ATATTTTCGTAGATTTGTATCATCACAAATATAATAATAAATCATTTAAAACACATATAATTTAA
131 ATATTTTCGTAGATTTGTATCATCACAAATATAATAATAAATCATTTAAAACACATATAATTTAA
31728119 TACTTATTAAACATAG
196 TACTTATTAAACATAG
*
31728135 GAAACCTC-ACCATCGGTAGGATGTACGAGACCAGCACCTAAAATGCGGTAACCCTTAATGACAT
1 GAAAACTCAACCATCGGTAGGATGTACGAGACCAGCACCTAAAATGCGGTAACCCTTAATGACAT
31728199 GTCATTTGTATCCTATATATTCCTAAGGTTCAACCGGGATTCAAACATCGTTGAAACTTCGTCGA
66 GTCATTTGTATCCTATATATTCCTAAGGTTCAACCGGGATTCAAACATCGTTGAAACTTCGTCGA
31728264 ATATTTTCGTAGATTTGTATCATCACAAATATAATAATAAATCATTTAAAACACATATAATTTAA
131 ATATTTTCGTAGATTTGTATCATCACAAATATAATAATAAATCATTTAAAACACATATAATTTAA
31728329 TACTTATTAAACATA
196 TACTTATTAAACATA
31728344 CGAACTTACC
Statistics
Matches: 208, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
210 201 0.97
211 7 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (211 bp):
GAAAACTCAACCATCGGTAGGATGTACGAGACCAGCACCTAAAATGCGGTAACCCTTAATGACAT
GTCATTTGTATCCTATATATTCCTAAGGTTCAACCGGGATTCAAACATCGTTGAAACTTCGTCGA
ATATTTTCGTAGATTTGTATCATCACAAATATAATAATAAATCATTTAAAACACATATAATTTAA
TACTTATTAAACATAG
Found at i:31729610 original size:17 final size:17
Alignment explanation
Indices: 31729577--31729610 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31729567 TATACATGCT
*
31729577 TAACAAAACTTTGAGGC
1 TAACAAAAATTTGAGGC
*
31729594 TAACAAAAATTTTAGGC
1 TAACAAAAATTTGAGGC
31729611 AAATATAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (17 bp):
TAACAAAAATTTGAGGC
Found at i:31737707 original size:11 final size:11
Alignment explanation
Indices: 31737680--31737741 Score: 72
Period size: 11 Copynumber: 5.6 Consensus size: 11
31737670 AACTAATCCT
31737680 CTCTCAAATTTC
1 CTCTC-AATTTC
*
31737692 CTCTCAATTTT
1 CTCTCAATTTC
*
31737703 TTCTCAATTTC
1 CTCTCAATTTC
*
31737714 CTCTCAATTTG
1 CTCTCAATTTC
*
31737725 CTCTCAAATTC
1 CTCTCAATTTC
31737736 CT-TCAA
1 CTCTCAA
31737742 AATTTCTCTC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
10 4 0.09
11 34 0.79
12 5 0.12
ACGTcount: A:0.23, C:0.31, G:0.02, T:0.45
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:31737750 original size:22 final size:22
Alignment explanation
Indices: 31737679--31737755 Score: 86
Period size: 22 Copynumber: 3.5 Consensus size: 22
31737669 CAACTAATCC
*
31737679 TCTCTCAAATTTCCTCTCAATTT
1 TCTCTCAAA-TTCCTCTCAAATT
* *
31737702 TTTCTCAATTTCCTCTC-AATT
1 TCTCTCAAATTCCTCTCAAATT
31737723 TGCTCTCAAATTCCT-TCAAAATT
1 T-CTCTCAAATTCCTCTC-AAATT
31737746 TCTCTCAAAT
1 TCTCTCAAAT
31737756 CCATATTTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 6 0.13
22 28 0.61
23 12 0.26
ACGTcount: A:0.25, C:0.29, G:0.01, T:0.45
Consensus pattern (22 bp):
TCTCTCAAATTCCTCTCAAATT
Found at i:31737755 original size:11 final size:11
Alignment explanation
Indices: 31737679--31737755 Score: 70
Period size: 11 Copynumber: 6.9 Consensus size: 11
31737669 CAACTAATCC
31737679 TCTCTCAAATT
1 TCTCTCAAATT
*
31737690 TCCTCTCAATTT
1 T-CTCTCAAATT
*
31737702 TTTCTC-AATT
1 TCTCTCAAATT
31737712 TCCTCTC-AATT
1 T-CTCTCAAATT
31737723 TGCTCTCAAATT
1 T-CTCTCAAATT
*
31737735 CCT-TCAAAATT
1 TCTCTC-AAATT
31737746 TCTCTCAAAT
1 TCTCTCAAAT
31737756 CCATATTTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
10 6 0.11
11 32 0.59
12 16 0.30
ACGTcount: A:0.25, C:0.29, G:0.01, T:0.45
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:31737779 original size:51 final size:51
Alignment explanation
Indices: 31737717--31737814 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
31737707 CAATTTCCTC
31737717 TCAATTTGCTCTCAAATTCCT-TCAAAATTTCTCTCAAATCCATATTTATTT
1 TCAATTTGCTCTCAAATTCCTCT-AAAATTTCTCTCAAATCCATATTTATTT
* * * * *
31737768 TCAATTTGCTCTCAAGTTCCTCTTATATTTCTCTTAAATCCCTATTT
1 TCAATTTGCTCTCAAATTCCTCTAAAATTTCTCTCAAATCCATATTT
31737815 TTAAATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 40 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.03, T:0.47
Consensus pattern (51 bp):
TCAATTTGCTCTCAAATTCCTCTAAAATTTCTCTCAAATCCATATTTATTT
Found at i:31738969 original size:7 final size:7
Alignment explanation
Indices: 31738957--31738988 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
31738947 AGTCGATTGA
31738957 TATTTAG
1 TATTTAG
31738964 TATTTAG
1 TATTTAG
31738971 TATTTAG
1 TATTTAG
31738978 TATTTAG
1 TATTTAG
31738985 TATT
1 TATT
31738989 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:31739635 original size:18 final size:18
Alignment explanation
Indices: 31739608--31739647 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
31739598 CAGGTGCGTT
* *
31739608 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
31739626 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
31739644 TCCT
1 TCCT
31739648 TTTTCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:31740262 original size:49 final size:47
Alignment explanation
Indices: 31740191--31740457 Score: 219
Period size: 43 Copynumber: 5.8 Consensus size: 47
31740181 TTTAATTGAC
* *
31740191 AAACCTTAAACTCTTAACCTAAAAACCCTAACCCTAACCCTTAACTTA
1 AAACCCTAAACCCTTAACCT-AAAACCCTAACCCTAACCCTTAACTTA
31740239 AAACCACTAAACCCTTAACCT-AAA----AACCCTAACCCTTAACTTA
1 AAACC-CTAAACCCTTAACCTAAAACCCTAACCCTAACCCTTAACTTA
*
31740282 AAACCCCTAACCCCTTAACCT-AAA----AACCCTAACCCTTAACTTTA
1 AAA-CCCTAAACCCTTAACCTAAAACCCTAACCCTAACCCTTAAC-TTA
*
31740326 AAA-CCTAAACCCTTAACCTAAAAACCCTAATCCTAAACCCTTAACCTTA
1 AAACCCTAAACCCTTAACCT-AAAACCCTAACCCT-AACCCTTAA-CTTA
** * *
31740375 AAACCCT-AACGATTAACATTAAAACCCTAA-CC--A--CTTAACCTAA
1 AAACCCTAAACCCTTAAC-CTAAAACCCTAACCCTAACCCTTAA-CTTA
*
31740418 AAACCCT-AACCCTTAACTTTAAAACCCTAAACCCTTAACC
1 AAACCCTAAACCCTTAAC-CTAAAACCCT-AACCC-TAACC
31740458 TAAAAAACTC
Statistics
Matches: 187, Mismatches: 12, Indels: 38
0.79 0.05 0.16
Matches are distributed among these distances:
42 15 0.08
43 89 0.48
44 13 0.07
45 3 0.02
47 3 0.02
48 13 0.07
49 46 0.25
50 5 0.03
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.22
Consensus pattern (47 bp):
AAACCCTAAACCCTTAACCTAAAACCCTAACCCTAACCCTTAACTTA
Found at i:31740273 original size:43 final size:42
Alignment explanation
Indices: 31740220--31740901 Score: 591
Period size: 43 Copynumber: 16.1 Consensus size: 42
31740210 TAAAAACCCT
*
31740220 AACCCTAACCCTTAACTTAAAACCACTAAACCCTTAACCTAAA
1 AACCCTAACCCTTAACTTAAAACC-CTAAACCCTTAACTTAAA
* *
31740263 AACCCTAACCCTTAACTTAAAACCCCTAACCCCTTAACCTAAA
1 AACCCTAACCCTTAACTTAAAA-CCCTAAACCCTTAACTTAAA
*
31740306 AACCCTAACCCTTAACTTTAAAA-CCTAAACCCTTAACCTAAA
1 AACCCTAACCCTTAAC-TTAAAACCCTAAACCCTTAACTTAAA
**
31740348 AACCCTAATCCTAAACCCTTAACCTTAAAACCCT-AACGATTAACATT-AA
1 AA--C----CCT-AACCCTTAA-CTTAAAACCCTAAACCCTTAAC-TTAAA
* *
31740397 AACCCTAACCACTTAACCTAAAAACCCT-AACCCTTAACTTTAA
1 AACCCTAACC-CTTAA-CTTAAAACCCTAAACCCTTAACTTAAA
* * ** *
31740440 AACCCTAAACCCTTAACCTAAAAAACTCTAAACTTTTAAATTAAA
1 AACCCT-AACCCTTAA-CT-TAAAACCCTAAACCCTTAACTTAAA
* * *** *
31740485 AACACTAACCCTTAAATTAAAAACCCTAAA-TAGTAACTTTAA
1 AACCCTAACCCTTAACTT-AAAACCCTAAACCCTTAACTTAAA
*
31740527 AACCCTTAACTCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
1 AACCC-TAACCCTTAACTT-AAAACCCTAAACCCTTAACTTAAA
* ** *
31740571 AACCCTAACCCTAAACACAAAACCCT-AA-GC----C-TAAA
1 AACCCTAACCCTTAACTTAAAACCCTAAACCCTTAACTTAAA
* * * *
31740606 AACCCTAACCCTTAACCTAAAAACCTTAAA-CCTTAAATTTAA
1 AACCCTAACCCTTAA-CTTAAAACCCTAAACCCTTAACTTAAA
*
31740648 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTAAAC--ACAA
1 AACCCT-AACCCTTAACTT-AAAACCCTAAACCCTTAACTTA-AA
* *
31740690 AACCCTAAGCC-T-A---AAAACCCT-AACCCTTAACCTAAA
1 AACCCTAACCCTTAACTTAAAACCCTAAACCCTTAACTTAAA
* * *
31740726 AACCTTAAACCTTAAATTTAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAACCCTT-AACTTAAAACCCTAAACCCTTAACTTAAA
* *
31740769 AACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAACCTAAA
1 AACCCTAACCCTTAACTT-AAAACCCTAAACCCTTAACTTAAA
* * *
31740812 AACCCTAACCCTTAACCTGAAAAACCTAAA-CCTTAACTTTAA
1 AACCCTAACCCTTAA-CTTAAAACCCTAAACCCTTAACTTAAA
31740854 AACCCTAGACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
1 AACCCTA-ACCCTTAACTT-AAAACCCTAAACCCTTAACTTAAA
31740898 AACC
1 AACC
31740902 TTGAGGTTTT
Statistics
Matches: 532, Mismatches: 62, Indels: 89
0.78 0.09 0.13
Matches are distributed among these distances:
35 35 0.07
36 20 0.04
37 5 0.01
39 2 0.00
40 2 0.00
41 6 0.01
42 98 0.18
43 253 0.48
44 59 0.11
45 16 0.03
47 1 0.00
48 3 0.01
49 27 0.05
50 5 0.01
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.23
Consensus pattern (42 bp):
AACCCTAACCCTTAACTTAAAACCCTAAACCCTTAACTTAAA
Found at i:31740345 original size:13 final size:13
Alignment explanation
Indices: 31740327--31740372 Score: 58
Period size: 13 Copynumber: 3.4 Consensus size: 13
31740317 TTAACTTTAA
31740327 AACCTAAACCCTT
1 AACCTAAACCCTT
31740340 AACCTAAAAACCC-T
1 AACCT--AAACCCTT
31740354 AATCCTAAACCCTT
1 AA-CCTAAACCCTT
31740368 AACCT
1 AACCT
31740373 TAAAACCCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 14 0.48
14 6 0.21
15 9 0.31
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (13 bp):
AACCTAAACCCTT
Found at i:31740360 original size:28 final size:28
Alignment explanation
Indices: 31740329--31740383 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
31740319 AACTTTAAAA
31740329 CCTAAACCCTTAACCTAAAAACCCTAAT
1 CCTAAACCCTTAACCTAAAAACCCTAAT
*
31740357 CCTAAACCCTTAACCTTAAAACCCTAA
1 CCTAAACCCTTAACCTAAAAACCCTAA
31740384 CGATTAACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.22
Consensus pattern (28 bp):
CCTAAACCCTTAACCTAAAAACCCTAAT
Found at i:31740384 original size:14 final size:15
Alignment explanation
Indices: 31740332--31740381 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
31740322 TTTAAAACCT
*
31740332 AAACCCTTAACCTAA
1 AAACCCTTAACCTTA
31740347 AAACCC-TAATCC-T-
1 AAACCCTTAA-CCTTA
31740360 AAACCCTTAACCTTA
1 AAACCCTTAACCTTA
31740375 AAACCCT
1 AAACCCT
31740382 AACGATTAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
13 8 0.27
14 7 0.23
15 15 0.50
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.22
Consensus pattern (15 bp):
AAACCCTTAACCTTA
Found at i:31740594 original size:35 final size:36
Alignment explanation
Indices: 31740555--31740634 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 36
31740545 TAAAAACCCT
*
31740555 AAACCCTTAA-CTTAAAAACCCTAACCCTAAACAC-A
1 AAACCCTTAAGCCTAAAAACCCTAACCCTAAAC-CTA
*
31740590 AAACCC-TAAGCCTAAAAACCCTAACCCTTAACCTA
1 AAACCCTTAAGCCTAAAAACCCTAACCCTAAACCTA
*
31740625 AAAACCTTAA
1 AAACCCTTAA
31740635 ACCTTAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
34 4 0.10
35 32 0.82
36 3 0.08
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.17
Consensus pattern (36 bp):
AAACCCTTAAGCCTAAAAACCCTAACCCTAAACCTA
Found at i:31740655 original size:99 final size:99
Alignment explanation
Indices: 31740524--31740888 Score: 538
Period size: 99 Copynumber: 3.6 Consensus size: 99
31740514 ATAGTAACTT
* * *
31740524 TAAAACCCTT-AACTCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTAAACA
1 TAAAAACCTTAAAC-CTTAAATTTAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTAAACA
31740588 CAAAACCCTAAGCCTAAAAACCCTAACCCTTAACC
65 CAAAACCCTAAGCCTAAAAACCCTAACCCTTAACC
31740623 TAAAAACCTTAAACCTTAAATTTAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTAAACAC
1 TAAAAACCTTAAACCTTAAATTTAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTAAACAC
31740688 AAAACCCTAAGCCTAAAAACCCTAACCCTTAACC
66 AAAACCCTAAGCCTAAAAACCCTAACCCTTAACC
*
31740722 TAAAAACCTTAAACCTTAAATTTAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAATT
1 TAAAAACCTTAAACCTTAAATTTAAAACCCTAAACCCTTAACTTAAAAACCCTAACCC-TAAA-C
*
31740787 A-AAAACCCTAAACCCTTAACCTAAAAACCCTAACCCTTAACC
64 ACAAAACCCT--A-----AGCCTAAAAACCCTAACCCTTAACC
* *
31740829 TGAAAAACC-TAAACCTTAACTTTAAAACCCTAGACCCTTAACTTAAAAACCCTAAACCCT
1 T-AAAAACCTTAAACCTTAAATTTAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCCT
31740889 TAACTTAAAA
Statistics
Matches: 247, Mismatches: 7, Indels: 16
0.91 0.03 0.06
Matches are distributed among these distances:
99 150 0.61
100 15 0.06
101 1 0.00
102 1 0.00
107 68 0.28
108 12 0.05
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.22
Consensus pattern (99 bp):
TAAAAACCTTAAACCTTAAATTTAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTAAACAC
AAAACCCTAAGCCTAAAAACCCTAACCCTTAACC
Found at i:31740694 original size:35 final size:36
Alignment explanation
Indices: 31740654--31740733 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 36
31740644 TTAAAACCCT
*
31740654 AAACCCTTAA-CTTAAAAACCCTAACCCTAAACAC-A
1 AAACCCTTAAGCCTAAAAACCCTAACCCTAAAC-CTA
*
31740689 AAACCC-TAAGCCTAAAAACCCTAACCCTTAACCTA
1 AAACCCTTAAGCCTAAAAACCCTAACCCTAAACCTA
*
31740724 AAAACCTTAA
1 AAACCCTTAA
31740734 ACCTTAAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
34 4 0.10
35 32 0.82
36 3 0.08
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.17
Consensus pattern (36 bp):
AAACCCTTAAGCCTAAAAACCCTAACCCTAAACCTA
Found at i:31740899 original size:22 final size:22
Alignment explanation
Indices: 31740220--31740901 Score: 580
Period size: 21 Copynumber: 32.2 Consensus size: 22
31740210 TAAAAACCCT
31740220 AACCCT-AACCCTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
*
31740240 AACCACTAAACCCTTAACCTAAA
1 AACC-CTAAACCCTTAACTTAAA
31740263 AACCCT-AACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* * *
31740284 ACCCCTAACCCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAA
*
31740306 AACCCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
*
31740327 AA-CCTAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAA
31740348 AACCCTAATCCTAAACCCTTAACCTT-AA
1 AA--C----CCTAAACCCTTAA-CTTAAA
**
31740376 AACCCT-AACGATTAACATT-AA
1 AACCCTAAACCCTTAAC-TTAAA
*
31740397 AACCCT-AACCACTTAACCTAAA
1 AACCCTAAACC-CTTAACTTAAA
*
31740419 AACCCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
*
31740440 AACCCTAAACCCTTAACCTAAAA
1 AACCCTAAACCCTTAA-CTTAAA
* ** *
31740463 AACTCTAAACTTTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
31740485 AACACT-AACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*** *
31740506 AACCCTAAA-TAGTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
* *
31740527 AACCCTTAACTCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
31740549 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
31740571 AACCCT-AACCCTAAAC--ACAA
1 AACCCTAAACCCTTAACTTA-AA
*
31740591 AACCCT-AA-GC----C-TAAA
1 AACCCTAAACCCTTAACTTAAA
* *
31740606 AACCCTAAC-CCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAA
* * *
31740627 AACCTTAAA-CCTTAAATTTAA
1 AACCCTAAACCCTTAACTTAAA
31740648 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
31740670 AACCCT-AACCCTAAAC--ACAA
1 AACCCTAAACCCTTAACTTA-AA
*
31740690 AACCCT-AA-GC----C-TAAA
1 AACCCTAAACCCTTAACTTAAA
* *
31740705 AACCCTAAC-CCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAA
* * *
31740726 AACCTTAAA-CCTTAAATTTAA
1 AACCCTAAACCCTTAACTTAAA
31740747 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
31740769 AACCCT-AACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*
31740790 AACCCTAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAA
*
31740812 AACCCT-AACCCTTAACCTGAAA
1 AACCCTAAACCCTTAA-CTTAAA
*
31740834 AA-CCTAAA-CCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
*
31740854 AACCCTAGACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
31740876 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
31740898 AACC
1 AACC
31740902 TTGAGGTTTT
Statistics
Matches: 544, Mismatches: 75, Indels: 84
0.77 0.11 0.12
Matches are distributed among these distances:
15 18 0.03
16 6 0.01
19 4 0.01
20 36 0.07
21 236 0.43
22 201 0.37
23 23 0.04
26 1 0.00
28 17 0.03
29 2 0.00
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.23
Consensus pattern (22 bp):
AACCCTAAACCCTTAACTTAAA
Found at i:31740902 original size:64 final size:64
Alignment explanation
Indices: 31740220--31740901 Score: 610
Period size: 64 Copynumber: 10.7 Consensus size: 64
31740210 TAAAAACCCT
*
31740220 AACCCTAACCCTTAACTT-AAAACCACTAAACCCTTAACCTAAAAACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACC-CTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * * *
31740284 ACCCCTAACCCCTTAACCTAAAAACCCT-AACCCTTAACTTTAAAA-CCTAAACCCTTAACCTAA
1 AACCCTAA-CCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
31740347 A
64 A
**
31740348 AACCCTAATCCTAAACCCTTAACCTT-AAAACCCT-AACGATTAACATT-AAAACCCTAACCACT
1 AA--C----CCT-AACCCTTAA-CTTAAAAACCCTAAACCCTTAAC-TTAAAAACCCTAACC-CT
*
31740410 TAACCTAAA
56 TAACTTAAA
* * * ** *
31740419 AACCCTAACCCTTAACTTTAAAACCCTAAACCCTTAACCTAAAAAACTCTAAACTTTTAAATTAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAA-CTTAAAAACCCT-AACCCTTAACTTAA
31740484 A
64 A
* * *** * *
31740485 AACACTAACCCTTAAATTAAAAACCCTAAA-TAGTAACTTTAAAACCCTTAACTCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCC-TAACCCTTAACTTAAA
* *
31740549 AACCCTAAACCCTTAACTTAAAAACCCT-AACCCTAAAC--ACAAAACCCTAA-GC----C-TAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTA-AAAACCCTAACCCTTAACTTAA
31740605 A
64 A
* * * *
31740606 AACCCTAACCCTTAACCTAAAAACCTTAAA-CCTTAAATTTAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * *
31740670 AACCCTAACCCTAAAC--ACAAAACCCT-AA-GC----C-TAAAAACCCTAACCCTTAACCTAAA
1 AACCCTAACCCTTAACTTA-AAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * * * *
31740726 AACCTTAAACCTTAAATTTAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * * *
31740790 AACCCTAAACCCTTAACCTAAAAACCCT-AACCCTTAACCTGAAAAA-CCTAAACCTTAACTTTA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAA-CTTAAAAACCCTAACCCTTAACTTAA
31740853 A
64 A
31740854 AACCCTAGACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACC
1 AACCCTA-ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACC
31740902 TTGAGGTTTT
Statistics
Matches: 503, Mismatches: 67, Indels: 95
0.76 0.10 0.14
Matches are distributed among these distances:
56 50 0.10
57 37 0.07
58 5 0.01
59 2 0.00
62 5 0.01
63 19 0.04
64 192 0.38
65 83 0.17
66 50 0.10
67 3 0.01
69 1 0.00
70 34 0.07
71 22 0.04
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.23
Consensus pattern (64 bp):
AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
Found at i:31741007 original size:30 final size:31
Alignment explanation
Indices: 31740966--31741029 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
31740956 ATAATGTTAG
*
31740966 ATTTAGAAAAATGTTTTGACTAGTACTAACA
1 ATTTAGAAAAATGTTTTGACCAGTACTAACA
31740997 ATTT-GAAAAATGTTTTGACCAGTACTAACA
1 ATTTAGAAAAATGTTTTGACCAGTACTAACA
31741027 ATT
1 ATT
31741030 AATAATTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 28 0.88
31 4 0.12
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (31 bp):
ATTTAGAAAAATGTTTTGACCAGTACTAACA
Found at i:31743922 original size:126 final size:125
Alignment explanation
Indices: 31743667--31744233 Score: 744
Period size: 126 Copynumber: 4.5 Consensus size: 125
31743657 CCAAACATGT
* * * * *
31743667 TACTATAGCAAAAGCGCTTCTACGTGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCCCGACTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * * * *
31743732 AGAAGCG-ATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCTAGGACC
66 TGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
* *
31743791 AACTGTAGCAAAAGCGCGTCCACGTGGGCCCGACTTCACAAATTCTTCTCA-AATAGCATGCTGC
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCCCGACTTCACAAATTCTTCTCATAA-AGCATCCTGC
* * *
31743855 TT-ACAGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACC
65 TTGA-AGCGTT-TTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
*
31743917 TACTGTAGCAAAAGCGCGTCCACGTGGGCCCGACTTCACAAATTCTTCTTATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCCCGACTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * *
31743982 TGAAGCTTTTTTTAAACTATTTGTTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACC
66 TGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGACC
* * * * * * * *
31744043 AACTGTAGTAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTTTTCTCACAAAGTATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCCCGACTTCACAAATTCTTCTCATAAAGCATCCTGCT
* *
31744108 TGAAGCGTTTTTTAAACTATTTGCTAAGAAACGTCAAGTCGAAATTATTTTTCCAGGACC
66 TGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
* * * * * * * *
31744168 TATTGTAGCAAAAGCGCGTACACATGGGCGCGACTTCAAAAATCCTTCTGATAAATCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCCCGACTTCACAAATTCTTCTCATAAAGCATCCTGCT
31744233 T
66 T
31744234 TGATTTTATC
Statistics
Matches: 386, Mismatches: 50, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
123 3 0.01
124 59 0.15
125 99 0.26
126 222 0.58
127 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (125 bp):
TACTGTAGCAAAAGCGCGTCCACGTGGGCCCGACTTCACAAATTCTTCTCATAAAGCATCCTGCT
TGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGACC
Found at i:31744144 original size:251 final size:250
Alignment explanation
Indices: 31743667--31744233 Score: 771
Period size: 251 Copynumber: 2.3 Consensus size: 250
31743657 CCAAACATGT
* * * *
31743667 TACTATAGCAAAAGCGCTTCTACGTGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCACGACTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * * * *
31743732 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCTAGGACCAACTGT
66 TGAAGCGATTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGACCAACTGT
* *
31743797 AGCAAAAGCGCGTCCACGTGGGCCCGACTTCACAAATTCTTCTCAAATAGCATGCTGCTTACAGC
131 AGCAAAAGCGCGTCCACGAGGGCCCGACTTCACAAATTCTTCTCAAATAGCATCCTGCTTACAGC
* * *
31743862 GTTGTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACC
196 GTTGTTTTAAACTATTTGCTAAGAAACGTCAACTCAAAATTATTTTTCCAGGACC
* *
31743917 TACTGTAGCAAAAGCGCGTCCACGTGGGCCCGACTTCACAAATTCTTCTTATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCACGACTTCACAAATTCTTCTCATAAAGCATCCTGCT
** *
31743982 TGAAGCTTTTTTTAAACTATTTGTTCAAAAACGTCAACTCGAAATTATTTCTTCCAGGACCAACT
66 TGAAGC-GATTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTT-TTCCAGGACCAACT
* * * * *
31744047 GTAGTAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTTTTCTCACAA-AGTATCCTGCTTGA
129 GTAGCAAAAGCGCGTCCACGAGGGCCCGACTTCACAAATTCTTCTCA-AATAGCATCCTGCTT-A
* *
31744111 -AGCGTT-TTTTAAACTATTTGCTAAGAAACGTCAAGTCGAAATTATTTTTCCAGGACC
192 CAGCGTTGTTTTAAACTATTTGCTAAGAAACGTCAACTCAAAATTATTTTTCCAGGACC
* * * * * * * *
31744168 TATTGTAGCAAAAGCGCGTACACATGGGCGCGACTTCAAAAATCCTTCTGATAAATCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCACGACTTCACAAATTCTTCTCATAAAGCATCCTGCT
31744233 T
66 T
31744234 TGATTTTATC
Statistics
Matches: 279, Mismatches: 34, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
250 64 0.23
251 141 0.51
252 71 0.25
253 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (250 bp):
TACTGTAGCAAAAGCGCGTCCACGTGGGCACGACTTCACAAATTCTTCTCATAAAGCATCCTGCT
TGAAGCGATTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGACCAACTGT
AGCAAAAGCGCGTCCACGAGGGCCCGACTTCACAAATTCTTCTCAAATAGCATCCTGCTTACAGC
GTTGTTTTAAACTATTTGCTAAGAAACGTCAACTCAAAATTATTTTTCCAGGACC
Found at i:31746316 original size:17 final size:17
Alignment explanation
Indices: 31746296--31746328 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31746286 ATTATATACT
31746296 TTATATTATAATATTTG
1 TTATATTATAATATTTG
31746313 TTATATTATAATATTT
1 TTATATTATAATATTT
31746329 AGTAACTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TTATATTATAATATTTG
Found at i:31751311 original size:23 final size:22
Alignment explanation
Indices: 31751268--31751382 Score: 70
Period size: 19 Copynumber: 5.6 Consensus size: 22
31751258 AAAAGGTATC
* *
31751268 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
31751289 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* * *
31751312 TGCATATCATA---TCTATGAT
1 TACAAATCATATCTTCTAAGAT
*
31751331 TACATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
* *
31751350 TGCATATCATA---TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
*
31751369 TACATATCATATCT
1 TACAAATCATATCT
31751383 AAGATTGCAT
Statistics
Matches: 80, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
19 52 0.65
21 3 0.04
22 15 0.19
23 10 0.12
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:31751331 original size:19 final size:19
Alignment explanation
Indices: 31751304--31751395 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
31751294 AATCATATCT
31751304 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
31751323 TCTATGATTACATATCATA
1 TCTAAGATTGCATATCATA
31751342 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
31751361 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
31751380 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
31751396 CTTGAAGACT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:31751350 original size:38 final size:38
Alignment explanation
Indices: 31751281--31751395 Score: 176
Period size: 38 Copynumber: 2.9 Consensus size: 38
31751271 AAATTAAATC
*
31751281 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
*
31751323 TCTATGATTACATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
31751361 TCTAAGATTACATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
31751396 CTTGAAGACT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 53 0.76
41 7 0.10
42 10 0.14
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:31752255 original size:100 final size:100
Alignment explanation
Indices: 31752011--31754823 Score: 4536
Period size: 100 Copynumber: 28.0 Consensus size: 100
31752001 CATCTTCAGT
*
31752011 TTTTTAAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACC
1 TTTTT-AATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACC
** *
31752076 GCCAGGGAAGTAAAATTCGTCGTTTGCGGCTTCAATA
65 GCCAGGGAAGTAAAATTCACCG-TTGCGGCTTCAATC
* * ** * *
31752113 TTTTTAATTACAATGTTAGGGAAACGAGATTCATCATCGTAGCTTCAATCTGTTCTACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
*
31752178 CCAGGGAAGTAAAATTCACCGTTGTGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
* *
31752213 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGTCGCCGTAGCTTCAATCTGTTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
31752278 CCAGGGAAGTAAAATTCACCGTTTGCGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCG-TTGCGGCTTCAATC
* * * *
31752314 TCTTTAATTGCACTGTTGGGGAAAC-AGGATTCGTCATCGTAGCTTCAATCTGTTCCACTACACC
1 TTTTTAATTGCAATGTTGGGGAAACGA-GATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACC
31752378 GCCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
65 GCCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
* * * *
31752414 TTTTTAATTGCAATGTTGGGGAAACAAGATTCACCATTGTAGCTTCAATCTGTTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
31752479 CCAGGGAAGT-AAATTCACCGTTTGCGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCG-TTGCGGCTTCAATC
* **
31752514 TTTTTATTTGCCCTGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
31752579 CCAGGGAAGTAAAATTCACCGTTTGCGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCG-TTGCGGCTTCAATC
* * * **
31752615 TTTTTAATTGCAATGTTGAGGAAACGGGATTCGTCGTCGTAGCTTCAATCTGTTCCACGGCACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
31752680 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
*
31752715 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACTG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
* *
31752780 CCAGGGAAGTAAAATTCACCGTTTCCGACTTCAATC
66 CCAGGGAAGTAAAATTCACCG-TTGCGGCTTCAATC
* * *
31752816 TTTTTAATTGCAATGTTAGGGAAACGAGATTCGTCGTCGTAGCTTCAATCTATTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
* *
31752881 TCAGGGAAGTAAAATTCACCGTTTGTGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCG-TTGCGGCTTCAATC
* * *
31752917 TTTTTAATTGCACTGTTGGGGAAACGAGACTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCA
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
*
31752982 CCAGGGAAGTAAAATTCACCGTTACGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
* * *
31753017 TTTTTAATTGCACTGTTGGGGAAACGAGACTCGCCGTCGTAGCTTCAATCTATTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
*
31753082 CCAGGGAAGTAAAATTCACCGTTACGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
* * *
31753117 TTTTTAATTGCACTGTTGGGGAAACGAGACTCGCCGTCGTAGCTTCAATCTATTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
*
31753182 CCAGGGAAGTAAAATTCACCGTTACGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
* * *
31753217 TTTTTAATTGCACTGTTGGGGAAACGAGACTCGCCGTCGTAGCTTCAATCTATTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
*
31753282 CCAGGGAAGTAAAATTCACCGTTACGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
* * *
31753317 TTTTTAATTGCACTGTTGGGGAAACGAGACTCGCCGTCGTAGCTTCAATCTATTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
*
31753382 CCAGGGAAGTAAAATTCACCGTTACGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
* * * *
31753417 TTTTTAATTGCAATGTTGGGGAAACGGGATTCGTCGTCGTAGCGTCAATCTGTTCCACTGCACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
*
31753482 CCAGGGAAGTAAAATTCACCGTTGTGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
*
31753517 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACTG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
* *
31753582 GCAGGGAAGTAAAATTCACCGTTACGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
*
31753617 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
*
31753682 CCAGGGAAGTAAAATTCACCGTTTGCAGCTTCAATC
66 CCAGGGAAGTAAAATTCACCG-TTGCGGCTTCAATC
*
31753718 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
*
31753783 CCAGGGAAGTAAAATTCACCGTTTCCGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCG-TTGCGGCTTCAATC
*
31753819 TTTTTAATTGCACTGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
31753884 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
*
31753919 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTACCTTCAATCTGTTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
*
31753984 CTAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
* * *
31754019 TTTTTAGTTGCAATGTTGGGGAAAAGAGATTCGTCGTCGTAGCTTCAATCTGTTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
* *
31754084 CCATGGAAGTAAAATTCACCGTTTGCGACTTCAATC
66 CCAGGGAAGTAAAATTCACCG-TTGCGGCTTCAATC
*
31754120 TTTTTAATTGCAATGTTGGGGAAACGAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
31754185 CCAGGGAAGTAAAATTCACCGTTTGCGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCG-TTGCGGCTTCAATC
* * * * *
31754221 TTTTTATTTGCACTGTTGGGGAAATGAGATTCGTCGTCGTAGCTTCAATATGTTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
31754286 CC-GTGGAAGTAAAATTCACCGTTGCGGCTTCAATC
66 CCAG-GGAAGTAAAATTCACCGTTGCGGCTTCAATC
*
31754321 TTTTTAATTGCAATGTTGGGGAAACGAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
*
31754386 CCAGGGAAGTAAAATTCACTGTTTGCGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCG-TTGCGGCTTCAATC
* * * *
31754422 TTTTTAATTGCATTGTTGGGGAAACGAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTACACTG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
*
31754487 CTAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
* * *
31754522 TTTTTTATTGCAATGTTGGGGAAAAGAGATTCGTCGTCGTAGCTTCAATCTGTTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
31754587 CCAGGGAAGTAAAATTCACCGTTTGCGGCTTCAATC
66 CCAGGGAAGTAAAATTCACCG-TTGCGGCTTCAATC
* *
31754623 TTTTTAATTACAATGTTGGGGAAACGAGATTCGCCCTCGTAGCTTCAATCTGTTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
* *
31754688 CCAGGGAAGTAAAATTCGCCGTTGCGGCTTCAATA
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
* * *
31754723 TTTTTAATTACAATGTTGGGGAAACTAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCA
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
* *
31754788 CCAAGGG-AGTAAGATTCACCGTTGCGGCTTTAATC
66 CC-AGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
31754823 T
1 T
31754824 ACTCCACTGT
Statistics
Matches: 2544, Mismatches: 154, Indels: 28
0.93 0.06 0.01
Matches are distributed among these distances:
99 10 0.00
100 1503 0.59
101 1026 0.40
102 5 0.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (100 bp):
TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATC
Found at i:31752362 original size:201 final size:200
Alignment explanation
Indices: 31752011--31754823 Score: 4536
Period size: 201 Copynumber: 14.0 Consensus size: 200
31752001 CATCTTCAGT
*
31752011 TTTTTAAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACC
1 TTTTT-AATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACC
** * * *
31752076 GCCAGGGAAGTAAAATTCGTCGTTTGCGGCTTCAATATTTTTAATTACAATGTTAGGGAAACGAG
65 GCCAGGGAAGTAAAATTCACCG-TTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAG
** * * *
31752141 ATTCATCATCGTAGCTTCAATCTGTTCTACTACACCGCCAGGGAAGTAAAATTCACCGTTGTGGC
129 ATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACCGTTGCGGC
31752206 TTCAATC
194 TTCAATC
* *
31752213 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGTCGCCGTAGCTTCAATCTGTTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
* *
31752278 CCAGGGAAGTAAAATTCACCGTTTGCGGCTTCAATCTCTTTAATTGCACTGTTGGGGAAAC-AGG
66 CCAGGGAAGTAAAATTCACCG-TTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGA-G
* *
31752342 ATTCGTCATCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACCGTTGCGGC
129 ATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACCGTTGCGGC
31752407 TTCAATC
194 TTCAATC
* * * *
31752414 TTTTTAATTGCAATGTTGGGGAAACAAGATTCACCATTGTAGCTTCAATCTGTTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
* **
31752479 CCAGGGAAGT-AAATTCACCGTTTGCGGCTTCAATCTTTTTATTTGCCCTGTTGGGGAAACGAGA
66 CCAGGGAAGTAAAATTCACCG-TTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGA
31752543 TTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACCGTTTGCGGC
130 TTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACCG-TTGCGGC
31752608 TTCAATC
194 TTCAATC
* * * **
31752615 TTTTTAATTGCAATGTTGAGGAAACGGGATTCGTCGTCGTAGCTTCAATCTGTTCCACGGCACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
31752680 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGAT
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGAT
* * *
31752745 TCGCCGTCGTAGCTTCAATCTGTTCCACTACACTGCCAGGGAAGTAAAATTCACCGTTTCCGACT
131 TCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACCG-TTGCGGCT
31752810 TCAATC
195 TCAATC
* * *
31752816 TTTTTAATTGCAATGTTAGGGAAACGAGATTCGTCGTCGTAGCTTCAATCTATTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
* * *
31752881 TCAGGGAAGTAAAATTCACCGTTTGTGGCTTCAATCTTTTTAATTGCACTGTTGGGGAAACGAGA
66 CCAGGGAAGTAAAATTCACCG-TTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGA
* * *
31752946 CTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCACCAGGGAAGTAAAATTCACCGTTACGGCT
130 TTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACCGTTGCGGCT
31753011 TCAATC
195 TCAATC
* * *
31753017 TTTTTAATTGCACTGTTGGGGAAACGAGACTCGCCGTCGTAGCTTCAATCTATTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
* * *
31753082 CCAGGGAAGTAAAATTCACCGTTACGGCTTCAATCTTTTTAATTGCACTGTTGGGGAAACGAGAC
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGAT
* *
31753147 TCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCAGGGAAGTAAAATTCACCGTTACGGCTT
131 TCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACCGTTGCGGCTT
31753212 CAATC
196 CAATC
* * *
31753217 TTTTTAATTGCACTGTTGGGGAAACGAGACTCGCCGTCGTAGCTTCAATCTATTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
* * *
31753282 CCAGGGAAGTAAAATTCACCGTTACGGCTTCAATCTTTTTAATTGCACTGTTGGGGAAACGAGAC
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGAT
* *
31753347 TCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCAGGGAAGTAAAATTCACCGTTACGGCTT
131 TCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACCGTTGCGGCTT
31753412 CAATC
196 CAATC
* * * *
31753417 TTTTTAATTGCAATGTTGGGGAAACGGGATTCGTCGTCGTAGCGTCAATCTGTTCCACTGCACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
*
31753482 CCAGGGAAGTAAAATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGAT
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGAT
* * *
31753547 TCGCCGTCGTAGCTTCAATCTGTTCCACTACACTGGCAGGGAAGTAAAATTCACCGTTACGGCTT
131 TCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACCGTTGCGGCTT
31753612 CAATC
196 CAATC
*
31753617 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTATTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
*
31753682 CCAGGGAAGTAAAATTCACCGTTTGCAGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGA
66 CCAGGGAAGTAAAATTCACCG-TTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGA
* *
31753747 TTCGCCGTCGTAGCTTCAATCTATTCCACTACACCGCCAGGGAAGTAAAATTCACCGTTTCCGGC
130 TTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACCG-TTGCGGC
31753812 TTCAATC
194 TTCAATC
*
31753819 TTTTTAATTGCACTGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
31753884 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGAT
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGAT
* *
31753949 TCGCCGTCGTACCTTCAATCTGTTCCACTACACCGCTAGGGAAGTAAAATTCACCGTTGCGGCTT
131 TCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACCGTTGCGGCTT
31754014 CAATC
196 CAATC
* * *
31754019 TTTTTAGTTGCAATGTTGGGGAAAAGAGATTCGTCGTCGTAGCTTCAATCTGTTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
* *
31754084 CCATGGAAGTAAAATTCACCGTTTGCGACTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGA
66 CCAGGGAAGTAAAATTCACCG-TTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGA
*
31754149 TTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACCGTTTGCGGC
130 TTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACCG-TTGCGGC
31754214 TTCAATC
194 TTCAATC
* * * * *
31754221 TTTTTATTTGCACTGTTGGGGAAATGAGATTCGTCGTCGTAGCTTCAATATGTTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
31754286 CC-GTGGAAGTAAAATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGA
66 CCAG-GGAAGTAAAATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGA
* *
31754350 TTCACCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACTGTTTGCGGC
130 TTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACCG-TTGCGGC
31754415 TTCAATC
194 TTCAATC
* * * *
31754422 TTTTTAATTGCATTGTTGGGGAAACGAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTACACTG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
* * *
31754487 CTAGGGAAGTAAAATTCACCGTTGCGGCTTCAATCTTTTTTATTGCAATGTTGGGGAAAAGAGAT
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGAT
*
31754552 TCGTCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACCGTTTGCGGCT
131 TCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACCG-TTGCGGCT
31754617 TCAATC
195 TCAATC
* *
31754623 TTTTTAATTACAATGTTGGGGAAACGAGATTCGCCCTCGTAGCTTCAATCTGTTCCACTACACCG
1 TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
* * * *
31754688 CCAGGGAAGTAAAATTCGCCGTTGCGGCTTCAATATTTTTAATTACAATGTTGGGGAAACTAGAT
66 CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGAT
* *
31754753 TCGCCGTCGTAGCTTCAATCTGTTCCACTACACCACCAAGGG-AGTAAGATTCACCGTTGCGGCT
131 TCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCC-AGGGAAGTAAAATTCACCGTTGCGGCT
*
31754817 TTAATC
195 TCAATC
31754823 T
1 T
31754824 ACTCCACTGT
Statistics
Matches: 2458, Mismatches: 141, Indels: 26
0.94 0.05 0.01
Matches are distributed among these distances:
200 790 0.32
201 1362 0.55
202 306 0.12
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (200 bp):
TTTTTAATTGCAATGTTGGGGAAACGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCG
CCAGGGAAGTAAAATTCACCGTTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACGAGAT
TCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAGTAAAATTCACCGTTGCGGCTT
CAATC
Found at i:31755028 original size:167 final size:166
Alignment explanation
Indices: 31754749--31755141 Score: 455
Period size: 167 Copynumber: 2.3 Consensus size: 166
31754739 TGGGGAAACT
* * * * ** *
31754749 AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCACCAAGGGAGTAAGATTCACCGTTGCG
1 AGATTCGCCGTCAT-GCTTCAATCTGCTCCGCTACAACGTCAAGGAAGTAAGATTCACCGTTGCG
* * *
31754814 GCTTTAATCTACTCCACTGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTCAATCCGCTC
65 GCTTCAATCTACTCCACTGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGATTCAATCCACTC
* *
31754879 CACTTTAGCTAATCCAAGCCTTAACGCCAGGGAGATA
130 CACCTCAGCTAATCCAAGCCTTAACGCCAGGGAGATA
* * **
31754916 AGATTCGCCGTCATGGCTTCAATCTGCTCCGCTACAACGTCATGGAAGTAAGATTCGCCGTTTTG
1 AGATTCGCCGTCAT-GCTTCAATCTGCTCCGCTACAACGTCAAGGAAGTAAGATTCACCGTTGCG
* * * * *
31754981 GCTTCAATCTATTTCATTGTAATGCCAAAGAGATAGGATTTGCTGCCCACAGATTTAATCCACTC
65 GCTTCAATCTACTCCACTGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGATTCAATCCACTC
* * * *
31755046 CACCTCAGCTATTTCAAGTCTTAACGCTAGGGAGATA
130 CACCTCAGCTAATCCAAGCCTTAACGCCAGGGAGATA
* * * * * *
31755083 AGATTCGATGCCTTCA-GCTTTAATCTACTCCGCTATAACGTCAGGGAAGTAAAATTCAC
1 AGATTC---GCCGTCATGCTTCAATCTGCTCCGCTACAACGTCAAGGAAGTAAGATTCAC
31755142 AATCTTCAAC
Statistics
Matches: 190, Mismatches: 33, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
167 147 0.77
168 37 0.19
170 6 0.03
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (166 bp):
AGATTCGCCGTCATGCTTCAATCTGCTCCGCTACAACGTCAAGGAAGTAAGATTCACCGTTGCGG
CTTCAATCTACTCCACTGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGATTCAATCCACTCC
ACCTCAGCTAATCCAAGCCTTAACGCCAGGGAGATA
Found at i:31755187 original size:44 final size:44
Alignment explanation
Indices: 31755138--31755348 Score: 226
Period size: 44 Copynumber: 5.0 Consensus size: 44
31755128 GAAGTAAAAT
*
31755138 TCACAATCTTCAACCTATTCCACTGCTAACCAGGGAGATAGGAC
1 TCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGAC
*
31755182 TCACAATCTTCAACCTATTCCTCTGCTGACCAGGGAGATAGG--
1 TCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGAC
* * *
31755224 -----A--TTC-ACCTATTCCACTGCTGACCAGGAAGATATGAT
1 TCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGAC
* * * * *
31755260 TTATAATTTTCAACCTATTCCACTACTGACTAGGGAGATAGGAC
1 TCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGAC
* * * *
31755304 TTACAATTTTCAACATATTCCACTGCTGACCAGGGAGATAAGAC
1 TCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGAC
31755348 T
1 T
31755349 GGGGTCATTG
Statistics
Matches: 142, Mismatches: 15, Indels: 20
0.80 0.08 0.11
Matches are distributed among these distances:
34 27 0.19
35 3 0.02
37 1 0.01
41 1 0.01
43 3 0.02
44 107 0.75
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (44 bp):
TCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGAC
Found at i:31755242 original size:34 final size:34
Alignment explanation
Indices: 31755194--31755260 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
31755184 ACAATCTTCA
* *
31755194 ACCTATTCCTCTGCTGACCAGGGAGATAGGATTC
1 ACCTATTCCACTGCTGACCAGGAAGATAGGATTC
*
31755228 ACCTATTCCACTGCTGACCAGGAAGATATGATT
1 ACCTATTCCACTGCTGACCAGGAAGATAGGATT
31755261 TATAATTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (34 bp):
ACCTATTCCACTGCTGACCAGGAAGATAGGATTC
Found at i:31755279 original size:78 final size:78
Alignment explanation
Indices: 31755150--31755302 Score: 216
Period size: 78 Copynumber: 2.0 Consensus size: 78
31755140 ACAATCTTCA
* * *
31755150 ACCTATTCCACTGCTAACCAGGGAGATAGGACTCACAATCTTCAACCTATTCCTCTGCTGACCAG
1 ACCTATTCCACTGCTAACCAGGAAGATAGGACTCACAATCTTCAACCTATTCCACTACTGACCAG
31755215 GGAGATAGGATTC
66 GGAGATAGGATTC
* * * * * * *
31755228 ACCTATTCCACTGCTGACCAGGAAGATATGATTTATAATTTTCAACCTATTCCACTACTGACTAG
1 ACCTATTCCACTGCTAACCAGGAAGATAGGACTCACAATCTTCAACCTATTCCACTACTGACCAG
31755293 GGAGATAGGA
66 GGAGATAGGA
31755303 CTTACAATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
78 65 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (78 bp):
ACCTATTCCACTGCTAACCAGGAAGATAGGACTCACAATCTTCAACCTATTCCACTACTGACCAG
GGAGATAGGATTC
Found at i:31756748 original size:16 final size:16
Alignment explanation
Indices: 31756715--31756747 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
31756705 TTTCCTCTCC
31756715 TTCTTTCTTTTTCTTT
1 TTCTTTCTTTTTCTTT
31756731 TTCTTT-TTTTTCTTT
1 TTCTTTCTTTTTCTTT
31756746 TT
1 TT
31756748 TTCCCCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (16 bp):
TTCTTTCTTTTTCTTT
Found at i:31761732 original size:19 final size:19
Alignment explanation
Indices: 31761708--31761761 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
31761698 AATCATATCT
31761708 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
31761727 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
31761746 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
31761762 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:31761757 original size:38 final size:40
Alignment explanation
Indices: 31761685--31761761 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
31761675 AAATTAAATC
31761685 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
31761727 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
31761762 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
41 7 0.21
42 11 0.32
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:31761999 original size:22 final size:22
Alignment explanation
Indices: 31761971--31762014 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
31761961 TTTGATGTTA
31761971 AACTTGTAAATTTAAAATTCAG
1 AACTTGTAAATTTAAAATTCAG
*
31761993 AACTTGTAAATTTGAAATTCAG
1 AACTTGTAAATTTAAAATTCAG
31762015 GATAATGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (22 bp):
AACTTGTAAATTTAAAATTCAG
Found at i:31763985 original size:38 final size:39
Alignment explanation
Indices: 31763937--31764012 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 39
31763927 CCTAGGCCAA
*
31763937 GGCCAAGGTCGTGTGATCCACACGGCTAAGGCCATTTTG
1 GGCCAAGGTCGTGTGATCCACACGGCCAAGGCCATTTTG
31763976 GGCC-AGGTCGTGTGATCCACACGGCCAAGGCCATTTT
1 GGCCAAGGTCGTGTGATCCACACGGCCAAGGCCATTTT
31764013 AGGGTGTGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 32 0.89
39 4 0.11
ACGTcount: A:0.20, C:0.28, G:0.30, T:0.22
Consensus pattern (39 bp):
GGCCAAGGTCGTGTGATCCACACGGCCAAGGCCATTTTG
Found at i:31770483 original size:25 final size:24
Alignment explanation
Indices: 31770452--31770508 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
31770442 GCTGTAAACG
31770452 GTAAGCTCTT-CAGAGCTGAATAACA
1 GTAAGCTCTTGCA-AGCTGAATAA-A
* *
31770477 GTAAGCTTTTGCAAGCTGAATAAT
1 GTAAGCTCTTGCAAGCTGAATAAA
31770501 GTAAGCTC
1 GTAAGCTC
31770509 ATACGAGCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 7 0.25
25 19 0.68
26 2 0.07
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (24 bp):
GTAAGCTCTTGCAAGCTGAATAAA
Found at i:31770517 original size:24 final size:24
Alignment explanation
Indices: 31770426--31770545 Score: 66
Period size: 25 Copynumber: 4.9 Consensus size: 24
31770416 GTTCATGTAC
*
31770426 ATGTATGCTCATACGAGCTGTAA-A
1 ATGTAAGCTCATACGAGCTG-AATA
** *
31770450 CGGTAAGCTC-TTCAGAGCTGAATA
1 ATGTAAGCTCATAC-GAGCTGAATA
* ** * *
31770474 ACAGTAAGCTTTTGCAAGCTGAATA
1 A-TGTAAGCTCATACGAGCTGAATA
*
31770499 ATGTAAGCTCATACGAGCTGAGT-
1 ATGTAAGCTCATACGAGCTGAATA
* *
31770522 ATCGGTAAGCTCATAAGAGTTGAA
1 AT--GTAAGCTCATACGAGCTGAA
31770546 ATTGGTAACC
Statistics
Matches: 72, Mismatches: 18, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
23 6 0.08
24 30 0.42
25 34 0.47
26 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (24 bp):
ATGTAAGCTCATACGAGCTGAATA
Found at i:31779545 original size:12 final size:14
Alignment explanation
Indices: 31779516--31779547 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
31779506 CAAACAAAAG
31779516 AAAAATTACAATTT
1 AAAAATTACAATTT
31779530 AAAAATTA-AA-TT
1 AAAAATTACAATTT
31779542 AAAAAT
1 AAAAAT
31779548 AAAAATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 2 0.11
14 8 0.44
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAAATTACAATTT
Found at i:31779552 original size:6 final size:6
Alignment explanation
Indices: 31779529--31779575 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
31779519 AATTACAATT
* *
31779529 TAAAAA TTAAAT TAAAAA TAAAAA TATTAAAA TAAAAA TAAAAA TAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA--AAAA TAAAAA TAAAAA TAA
31779576 CTAAATTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
6 29 0.83
8 6 0.17
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (6 bp):
TAAAAA
Found at i:31779559 original size:20 final size:20
Alignment explanation
Indices: 31779530--31779584 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
31779520 ATTACAATTT
31779530 AAAA-ATTAAATTAAAAATA
1 AAAATATTAAATTAAAAATA
*
31779549 AAAATATTAAAATAAAAATA
1 AAAATATTAAATTAAAAATA
*
31779569 AAAATAACTAAATTAA
1 AAAAT-ATTAAATTAA
31779585 TAGAAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 4 0.13
20 19 0.61
21 8 0.26
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAATATTAAATTAAAAATA
Found at i:31780438 original size:51 final size:51
Alignment explanation
Indices: 31780365--31780466 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
31780355 AACCGAAAGA
*
31780365 AATAAAGAAACTCGTGATAACTTTCTAAGAATTCAATTGGAAATCTTCAAT
1 AATAAAGAAACTCATGATAACTTTCTAAGAATTCAATTGGAAATCTTCAAT
31780416 AATAAAGAAACTCATGATAACTTTCTAAGAATTCAATTGGAAATCTTCAAT
1 AATAAAGAAACTCATGATAACTTTCTAAGAATTCAATTGGAAATCTTCAAT
31780467 CTTGACGGAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.31
Consensus pattern (51 bp):
AATAAAGAAACTCATGATAACTTTCTAAGAATTCAATTGGAAATCTTCAAT
Found at i:31782557 original size:22 final size:22
Alignment explanation
Indices: 31782499--31782557 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
31782489 AATTTTGTTG
* * *
31782499 CCATTTTGATGTTGTTTTGTTA
1 CCATTTTGATGTTATATTGCTA
***
31782521 CCATTTTGCCATTATATTGCTA
1 CCATTTTGATGTTATATTGCTA
*
31782543 CCATTTTGTTGTTAT
1 CCATTTTGATGTTAT
31782558 TATTTGGATA
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.17, C:0.15, G:0.14, T:0.54
Consensus pattern (22 bp):
CCATTTTGATGTTATATTGCTA
Found at i:31782601 original size:17 final size:20
Alignment explanation
Indices: 31782566--31782606 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
31782556 ATTATTTGGA
31782566 TATTATATAATTCTTGTTT-
1 TATTATATAATTCTTGTTTC
31782585 TATTAT-TAATT-TTGTTTC
1 TATTATATAATTCTTGTTTC
31782603 TATT
1 TATT
31782607 TTAGAGATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
18 9 0.43
19 6 0.29
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (20 bp):
TATTATATAATTCTTGTTTC
Found at i:31783779 original size:3 final size:3
Alignment explanation
Indices: 31783771--31783810 Score: 62
Period size: 3 Copynumber: 12.7 Consensus size: 3
31783761 GGGAATGTAA
31783771 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGAT AAT AGAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT A-AT AA
31783811 GTAAATACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 29 0.83
4 6 0.17
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:31785306 original size:16 final size:16
Alignment explanation
Indices: 31785276--31785309 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
31785266 TAATGTTACT
**
31785276 AATTTTTAATTTTTAA
1 AATTTTTAAAATTTAA
31785292 AATTTTTAAAATTTAA
1 AATTTTTAAAATTTAA
31785308 AA
1 AA
31785310 AATTAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTTTTAAAATTTAA
Found at i:31785523 original size:16 final size:16
Alignment explanation
Indices: 31785493--31785526 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
31785483 TAATGTTACT
**
31785493 AATTTTTAATTTTTAA
1 AATTTTTAAAATTTAA
31785509 AATTTTTAAAATTTAA
1 AATTTTTAAAATTTAA
31785525 AA
1 AA
31785527 AATTAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTTTTAAAATTTAA
Found at i:31785614 original size:217 final size:218
Alignment explanation
Indices: 31785226--31785664 Score: 871
Period size: 217 Copynumber: 2.0 Consensus size: 218
31785216 AATTTTTTTA
31785226 AAATTAAAAATATATTTTTATAATATTATACTTTTTTTAATAATGTTACTAATTTTTAATTTTTA
1 AAATTAAAAATATATTTTTATAATATTATACTTTTTTTAATAATGTTACTAATTTTTAATTTTTA
31785291 AAATTTTTAAAATTTAAAAAATTAATTAATTGTTAACGTGGCAATCCATGTGCATATACCATGTC
66 AAATTTTTAAAATTTAAAAAATTAATTAATTGTTAACGTGGCAATCCATGTGCATATACCATGTC
31785356 AGAAAAGTTAACAAACATTAATATTTTCATCTATTTTGAGGTGATTTAAAAAATAATACTAGTTT
131 AGAAAAGTTAACAAACATTAATATTTTCATCTATTTTGAGGTGATTTAAAAAATAATACTAGTTT
31785421 AATGCTAAAAAAGATGAAAGATT
196 AATGCTAAAAAAGATGAAAGATT
31785444 AAATTAAAAATA-ATTTTTATAATATTATACTTTTTTTAATAATGTTACTAATTTTTAATTTTTA
1 AAATTAAAAATATATTTTTATAATATTATACTTTTTTTAATAATGTTACTAATTTTTAATTTTTA
31785508 AAATTTTTAAAATTTAAAAAATTAATTAATTGTTAACGTGGCAATCCATGTGCATATACCATGTC
66 AAATTTTTAAAATTTAAAAAATTAATTAATTGTTAACGTGGCAATCCATGTGCATATACCATGTC
31785573 AGAAAAGTTAACAAACATTAATATTTTCATCTATTTTGAGGTGATTTAAAAAATAATACTAGTTT
131 AGAAAAGTTAACAAACATTAATATTTTCATCTATTTTGAGGTGATTTAAAAAATAATACTAGTTT
31785638 AATGCTAAAAAAGATGAAAGATT
196 AATGCTAAAAAAGATGAAAGATT
31785661 AAAT
1 AAAT
31785665 GGAGCGTTAA
Statistics
Matches: 221, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
217 209 0.95
218 12 0.05
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (218 bp):
AAATTAAAAATATATTTTTATAATATTATACTTTTTTTAATAATGTTACTAATTTTTAATTTTTA
AAATTTTTAAAATTTAAAAAATTAATTAATTGTTAACGTGGCAATCCATGTGCATATACCATGTC
AGAAAAGTTAACAAACATTAATATTTTCATCTATTTTGAGGTGATTTAAAAAATAATACTAGTTT
AATGCTAAAAAAGATGAAAGATT
Found at i:31786891 original size:24 final size:24
Alignment explanation
Indices: 31786864--31786909 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
31786854 CTTGAAACCA
* *
31786864 TTTCCGCAGCTTCTCTCTTCACCC
1 TTTCCACAGCTCCTCTCTTCACCC
31786888 TTTCCACAGCTCCTCTCTTCAC
1 TTTCCACAGCTCCTCTCTTCAC
31786910 TCTCTTCACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.46, G:0.07, T:0.37
Consensus pattern (24 bp):
TTTCCACAGCTCCTCTCTTCACCC
Found at i:31786951 original size:14 final size:14
Alignment explanation
Indices: 31786932--31786961 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31786922 ACCGATTGCA
31786932 GCCTCATCATCTCT
1 GCCTCATCATCTCT
*
31786946 GCCTCATCTTCTCT
1 GCCTCATCATCTCT
31786960 GC
1 GC
31786962 TAGTTCACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.43, G:0.10, T:0.37
Consensus pattern (14 bp):
GCCTCATCATCTCT
Found at i:31788308 original size:24 final size:24
Alignment explanation
Indices: 31788263--31788308 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
31788253 ACAAAAGTTA
*
31788263 AATACATAAATACATTAGATTAAC
1 AATACATAAATACATTAAATTAAC
*
31788287 AATAC-TAAATGCATTACAATTA
1 AATACATAAATACATTA-AATTA
31788309 TTTATCATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.52, C:0.13, G:0.04, T:0.30
Consensus pattern (24 bp):
AATACATAAATACATTAAATTAAC
Found at i:31797012 original size:20 final size:20
Alignment explanation
Indices: 31796989--31797035 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
31796979 AACTATTCAA
** *
31796989 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
31797009 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
31797029 AT-ATATT
1 ATAATATT
31797036 TTTTAAAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:31798109 original size:30 final size:30
Alignment explanation
Indices: 31798068--31798126 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
31798058 TTCGAGCTTT
31798068 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
1 GGGGCAAAAGTGTAAATATGCAAAAGTTTA
* *
31798098 GGGGTAAAAGTGTAAATGTGCAAAAGTTT
1 GGGGCAAAAGTGTAAATATGCAAAAGTTT
31798127 GAGTCAAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.29, T:0.25
Consensus pattern (30 bp):
GGGGCAAAAGTGTAAATATGCAAAAGTTTA
Found at i:31798814 original size:50 final size:50
Alignment explanation
Indices: 31798590--31798922 Score: 373
Period size: 50 Copynumber: 6.6 Consensus size: 50
31798580 TATCGATGAA
* * * * *
31798590 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGAT
* * * * * * *
31798641 CACGTGTGTAGTACTAAGTGAATGCTACAATGTGTACCG-AGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGAT
* * * *** *
31798692 CACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGAT
* *
31798743 CACGTGTGTAGTACTAAGTGAAGGCTACTACGTGAACCGTAAAACTAGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
* *
31798793 CACGTATGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTTAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
* * *
31798843 CATGTGTGAAGTACTATGTGAAGACTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
31798893 CACGTGTGTAGTACTATGTGAAGGCTACTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTA
31798923 TGTGTATCGA
Statistics
Matches: 237, Mismatches: 40, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.00
50 126 0.53
51 107 0.45
52 2 0.01
53 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
Found at i:31798881 original size:100 final size:101
Alignment explanation
Indices: 31798590--31798922 Score: 377
Period size: 102 Copynumber: 3.3 Consensus size: 101
31798580 TATCGATGAA
* * * * *
31798590 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATA-ATGGTCACGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAA-ACATGATCACGTGTGAAGTA
* * * * * *
31798654 CTAAGTGAATG-CTACAATGTGTACCG-AGAAGCTTTGGT
65 CTAAGTGAA-GACTACTACGTGAACCGTA-AAAC-TAGAT
* * * ** * *
31798692 CACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAACATGATCACGTGTGAAGTAC
*
31798757 TAAGTGAAGGCTACTACGTGAACCGTAAAACTAGAT
66 TAAGTGAAGACTACTACGTGAACCGTAAAACTAGAT
* * * *
31798793 CACGTATGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTTATCATGTGTGAAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAACATGATCACGTGTGAAGTAC
* *
31798857 TATGTGAAGACTACTACGTGAACCGTAAAACTTGAT
66 TAAGTGAAGACTACTACGTGAACCGTAAAACTAGAT
31798893 CACGTGTGTAGTACTATGTGAAGGCTACTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTA
31798923 TGTGTATCGA
Statistics
Matches: 204, Mismatches: 24, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
100 80 0.39
101 39 0.19
102 84 0.41
103 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAACATGATCACGTGTGAAGTAC
TAAGTGAAGACTACTACGTGAACCGTAAAACTAGAT
Found at i:31802019 original size:20 final size:21
Alignment explanation
Indices: 31801996--31802035 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
31801986 TAAGCTTTCT
*
31801996 AAAATTTTAAATAT-ATTAAA
1 AAAATGTTAAATATAATTAAA
*
31802016 AAAATGTTAAGTATAATTAA
1 AAAATGTTAAATATAATTAA
31802036 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
AAAATGTTAAATATAATTAAA
Found at i:31802121 original size:19 final size:18
Alignment explanation
Indices: 31802091--31802162 Score: 78
Period size: 19 Copynumber: 4.0 Consensus size: 18
31802081 ACAAAAAAAT
31802091 ATTTTCTTAATATATTTAAA
1 ATTTT-TTAA-ATATTTAAA
31802111 ATTTTTTAATATATTTAAA
1 ATTTTTTAA-ATATTTAAA
*
31802130 A--TTTTAAAAATTTAAA
1 ATTTTTTAAATATTTAAA
*
31802146 AATTTTTAAAT-TTTAAA
1 ATTTTTTAAATATTTAAA
31802163 TATGTTAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.19
17 12 0.25
18 7 0.15
19 15 0.31
20 5 0.10
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTTTAAATATTTAAA
Found at i:31802137 original size:8 final size:8
Alignment explanation
Indices: 31802114--31802162 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
31802104 ATTTAAAATT
*
31802114 TTTTAATA
1 TTTTAAAA
31802122 TATTTAAAA
1 T-TTTAAAA
31802131 TTTTAAAAA
1 TTTT-AAAA
*
31802140 TTTAAAAA
1 TTTTAAAA
*
31802148 TTTTTAAA
1 TTTTAAAA
31802156 TTTTAAA
1 TTTTAAA
31802163 TATGTTAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
8 20 0.59
9 14 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
TTTTAAAA
Found at i:31802139 original size:9 final size:9
Alignment explanation
Indices: 31802105--31802162 Score: 50
Period size: 8 Copynumber: 6.7 Consensus size: 9
31802095 TCTTAATATA
*
31802105 TTTAAAATT
1 TTTAAAAAT
* *
31802114 TTTTAATAT
1 TTTAAAAAT
31802123 ATTT-AAAAT
1 -TTTAAAAAT
31802132 TTTAAAAA-
1 TTTAAAAAT
31802140 TTTAAAAAT
1 TTTAAAAAT
*
31802149 TTT-TAAAT
1 TTTAAAAAT
31802157 TTTAAA
1 TTTAAA
31802163 TATGTTAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
8 18 0.46
9 18 0.46
10 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TTTAAAAAT
Found at i:31830908 original size:45 final size:45
Alignment explanation
Indices: 31830853--31830938 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
31830843 ACAATGAATA
*
31830853 GAAATAGAGAAATGGAA-AAATTTAGAAATGATTATGGTTTTTTTC
1 GAAATAGAGAAAT-GAAGAAATTTAGAAATGAATATGGTTTTTTTC
* ** *
31830898 GAAATTGAGAAATGAAGCCATTTAGAAATGAATGTGGTTTT
1 GAAATAGAGAAATGAAGAAATTTAGAAATGAATATGGTTTT
31830939 CTCAAAATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 3 0.09
45 32 0.91
ACGTcount: A:0.41, C:0.03, G:0.22, T:0.34
Consensus pattern (45 bp):
GAAATAGAGAAATGAAGAAATTTAGAAATGAATATGGTTTTTTTC
Found at i:31830953 original size:6 final size:6
Alignment explanation
Indices: 31830942--31831015 Score: 78
Period size: 6 Copynumber: 12.2 Consensus size: 6
31830932 TGGTTTTCTC
* * *
31830942 AAAATG AAAATG GAAATG AAAATG GAAAT- AGAAATG AAAATG GAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG AAAATG AAAATG
* *
31830990 GAAATG GAAATG AAAATG AGAAATG A
1 AAAATG AAAATG AAAATG A-AAATG A
31831016 TTTATGTGCA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
6 52 0.88
7 7 0.12
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:31830960 original size:12 final size:12
Alignment explanation
Indices: 31830943--31831015 Score: 86
Period size: 12 Copynumber: 6.5 Consensus size: 12
31830933 GGTTTTCTCA
31830943 AAATGAAAATGG
1 AAATGAAAATGG
31830955 AAATGAAAATGG
1 AAATGAAAATGG
31830967 AAAT----A--G
1 AAATGAAAATGG
31830973 AAATGAAAATGG
1 AAATGAAAATGG
*
31830985 AAATGGAAATGG
1 AAATGAAAATGG
31830997 AAATGAAAATGAG
1 AAATGAAAATG-G
31831010 AAATGA
1 AAATGA
31831016 TTTATGTGCA
Statistics
Matches: 52, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
6 5 0.10
8 1 0.02
10 1 0.02
12 38 0.73
13 7 0.13
ACGTcount: A:0.59, C:0.00, G:0.25, T:0.16
Consensus pattern (12 bp):
AAATGAAAATGG
Found at i:31830965 original size:18 final size:18
Alignment explanation
Indices: 31830942--31831015 Score: 103
Period size: 18 Copynumber: 4.1 Consensus size: 18
31830932 TGGTTTTCTC
31830942 AAAATGAAAATGGAAATG
1 AAAATGAAAATGGAAATG
* *
31830960 AAAATGGAAATAGAAATG
1 AAAATGAAAATGGAAATG
*
31830978 AAAATGGAAATGGAAATG
1 AAAATGAAAATGGAAATG
*
31830996 GAAATGAAAATGAGAAATG
1 AAAATGAAAATG-GAAATG
31831015 A
1 A
31831016 TTTATGTGCA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
18 43 0.88
19 6 0.12
ACGTcount: A:0.59, C:0.00, G:0.24, T:0.16
Consensus pattern (18 bp):
AAAATGAAAATGGAAATG
Found at i:31841195 original size:2 final size:2
Alignment explanation
Indices: 31841188--31841217 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
31841178 NNNNNNNNNN
31841188 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31841218 ACACAATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31843211 original size:16 final size:15
Alignment explanation
Indices: 31843190--31843220 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
31843180 AGTTGTAATG
31843190 ATCCAAACTCGAAAAA
1 ATCCAAACTC-AAAAA
31843206 ATCCAAACTCAAAAA
1 ATCCAAACTCAAAAA
31843221 CTTCAAGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.58, C:0.26, G:0.03, T:0.13
Consensus pattern (15 bp):
ATCCAAACTCAAAAA
Found at i:31858126 original size:27 final size:27
Alignment explanation
Indices: 31858069--31858127 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
31858059 AGTTTAAGAA
* * * *
31858069 TATATATATTATATAAAGAAATATGTC
1 TATAAATACTATATAAAAAAATACGTC
* *
31858096 TATAAATACTATATAAAAAAATGCGTG
1 TATAAATACTATATAAAAAAATACGTC
31858123 TATAA
1 TATAA
31858128 GTATAGGAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.51, C:0.05, G:0.08, T:0.36
Consensus pattern (27 bp):
TATAAATACTATATAAAAAAATACGTC
Found at i:31859261 original size:22 final size:22
Alignment explanation
Indices: 31859219--31859261 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
31859209 CGGGCTAGGG
* *
31859219 TATTGGGCTTTGGATTTTTGGT
1 TATTGGGCTTGGGATTATTGGT
31859241 TATTGGGC-TGGGATATATTGG
1 TATTGGGCTTGGGAT-TATTGG
31859262 GTAATTCGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.14, C:0.05, G:0.35, T:0.47
Consensus pattern (22 bp):
TATTGGGCTTGGGATTATTGGT
Found at i:31859709 original size:44 final size:44
Alignment explanation
Indices: 31859638--31859976 Score: 253
Period size: 44 Copynumber: 7.8 Consensus size: 44
31859628 ACTTGATTTG
* * * *
31859638 ATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
* * *
31859682 ATCTGCTCCACTACAACTTCAGGGAGATAGGA-CTATTGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATT-ACTTCA
* * * *
31859726 ATTTGCTCCACTGTAACTTCAGGGAGATAAGAATTGCCA-T-CTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAG-A-T-CTATTACTTCA
* * * * *
31859771 ATCTGCCCCACTGCAACTTTAGGGGGATAAGACCTGCTTAC-TCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-ATTACTTCA
* * ** * * *
31859815 GTTTGCTCTGCTGCAACTTCAGGGAGATAAGA-C--TTAATGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
** * * *
31859856 ATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
* * * * **
31859900 ATCTGCTCCACTACAAATTTAGGGAGATAGGAT-TATCGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTAT-TACTTCA
*
31859944 ATCTGCTCCACTGCAACTTCAAGGAGATAAGAT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
31859977 TTGCCCTTTT
Statistics
Matches: 224, Mismatches: 58, Indels: 26
0.73 0.19 0.08
Matches are distributed among these distances:
40 3 0.01
41 27 0.12
42 2 0.01
43 9 0.04
44 148 0.66
45 32 0.14
47 1 0.00
48 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTATTACTTCA
Found at i:31862351 original size:29 final size:28
Alignment explanation
Indices: 31862297--31862374 Score: 86
Period size: 29 Copynumber: 2.8 Consensus size: 28
31862287 GCTTTTAATA
* ***
31862297 TTTTTATTTTGACTTTGATGGATTTCTT
1 TTTTTTTTTTGACTTTGATTTTTTTCTT
31862325 TTTTTTCTTTTGACTTTGATTTTTTTCTT
1 TTTTTT-TTTTGACTTTGATTTTTTTCTT
* *
31862354 TTTGTTTTTT-ATTTTGATTTT
1 TTTTTTTTTTGACTTTGATTTT
31862375 GATTTTTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
27 10 0.23
28 9 0.21
29 24 0.56
ACGTcount: A:0.10, C:0.06, G:0.10, T:0.73
Consensus pattern (28 bp):
TTTTTTTTTTGACTTTGATTTTTTTCTT
Found at i:31862384 original size:29 final size:28
Alignment explanation
Indices: 31862297--31862384 Score: 72
Period size: 29 Copynumber: 2.9 Consensus size: 28
31862287 GCTTTTAATA
31862297 TTTTTATTTTGACTTTGATGGATTTCTTTTTTT
1 TTTTTATTTTGA-TTT--T-GATTT-TTTTTTT
* *
31862330 TCTTTTGACTTTGATTTT--TTTCTTTTTGT
1 T-TTTT-ATTTTGATTTTGATTT-TTTTTTT
31862359 TTTTTATTTTGATTTTGATTTTTTTT
1 TTTTTATTTTGATTTTGATTTTTTTT
31862385 AGGATTGAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
27 10 0.21
28 9 0.19
29 14 0.29
32 1 0.02
33 1 0.02
34 7 0.15
35 6 0.12
ACGTcount: A:0.10, C:0.06, G:0.10, T:0.74
Consensus pattern (28 bp):
TTTTTATTTTGATTTTGATTTTTTTTTT
Found at i:31866901 original size:8 final size:8
Alignment explanation
Indices: 31866888--31866914 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
31866878 ATAAGTGTAC
31866888 ATACATAT
1 ATACATAT
31866896 ATACATAT
1 ATACATAT
31866904 ATACATAT
1 ATACATAT
31866912 ATA
1 ATA
31866915 TACTTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (8 bp):
ATACATAT
Found at i:31867248 original size:13 final size:12
Alignment explanation
Indices: 31867217--31867247 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
31867207 TTTAAAAAAT
31867217 AAAAAAATTGCA
1 AAAAAAATTGCA
31867229 AAAAAAATTGCA
1 AAAAAAATTGCA
31867241 AAAAAAA
1 AAAAAAA
31867248 AAACAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.13
Consensus pattern (12 bp):
AAAAAAATTGCA
Found at i:31867992 original size:6 final size:6
Alignment explanation
Indices: 31867981--31868023 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
31867971 AGCCGAACCG
* * *
31867981 AGAAAA AGAAAA AGAAAA AGAAAA ACAAAA ACAAAA ACAAAA A
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA A
31868024 TCCATCTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:31874888 original size:16 final size:15
Alignment explanation
Indices: 31874842--31874895 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
31874832 ATTAGATAAA
31874842 TATAAATAAAT-ATT
1 TATAAATAAATAATT
**
31874856 TAT--ATAAATAAAA
1 TATAAATAAATAATT
31874869 TATAAATAGAATAATT
1 TATAAATA-AATAATT
*
31874885 TATAATTAAAT
1 TATAAATAAAT
31874896 TATGAAATAC
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
12 6 0.19
13 4 0.13
14 3 0.10
15 6 0.19
16 12 0.39
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (15 bp):
TATAAATAAATAATT
Found at i:31874889 original size:27 final size:27
Alignment explanation
Indices: 31874839--31874904 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
31874829 CAAATTAGAT
*
31874839 AAATATAAATAAATATTTATATAAATA
1 AAATATAAATAAATAATTATATAAATA
*
31874866 AAATATAAATAGAATAATT-TATAATTA
1 AAATATAAATA-AATAATTATATAAATA
*
31874893 AATTATGAAATA
1 AAATAT-AAATA
31874905 CGAAAATCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 23 0.68
28 11 0.32
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (27 bp):
AAATATAAATAAATAATTATATAAATA
Found at i:31879289 original size:87 final size:86
Alignment explanation
Indices: 31878930--31879356 Score: 413
Period size: 84 Copynumber: 5.0 Consensus size: 86
31878920 TTATACCATT
* * * *
31878930 AAATCAAAATAAAATC-TGTTAAACAGCGGGAAAAAAAATCCTGAAACAGA-ATTATTTGA-TTA
1 AAATC-AAATAAAATCTTGTTAAACAGAGGG--AATAAATCCTGAAACAGATTTTATTTAATTTA
** * * * *
31878992 CGTCT-TTGTTTGGAAAGAAAACA
63 ATTCTAGTATTTGGAAACAAAATA
* * * *
31879015 ATATCGAATAAAATCTTGTTAAACA-ATGGGAATAAATCCTGAAACAAATTTTATTTATTTTAAT
1 AAATCAAATAAAATCTTGTTAAACAGA-GGGAATAAATCCTGAAACAGATTTTATTTAATTTAAT
*
31879079 T-T-GAATTTGGAAACAAAATA
65 TCTAGTATTTGGAAACAAAATA
** * *
31879099 AAATCAAATAAAATCTTGTTAAATGGCGGGAATAAATCCTGAAATAGATTTTATTTAATTTAATT
1 AAATCAAATAAAATCTTGTTAAACAGAGGGAATAAATCCTGAAACAGATTTTATTTAATTTAATT
*
31879164 CTA--ATTTAGAAACAAAATA
66 CTAGTATTTGGAAACAAAATA
* * * * *
31879183 AAATCAAATAAAATCTTGTTAAACAGAGGAAATTAATCCCGGAACAGATTTTATTTAATCTAATT
1 AAATCAAATAAAATCTTGTTAAACAGAGGGAATAAATCCTGAAACAGATTTTATTTAATTTAA-T
* *
31879248 TCTAGTTTTTGGCAACAAAATA
65 TCTAGTATTTGGAAACAAAATA
* * * ** *
31879270 AAATCGAATAAAATTTTGTTAAACAGCGGGAATAAATCCAAAAATAGATTTTATTTAATTTAATT
1 AAATCAAATAAAATCTTGTTAAACAGAGGGAATAAATCCTGAAACAGATTTTATTTAATTTAA-T
* * *
31879335 TCTCGTTTTTGGCAACAAAATA
65 TCTAGTATTTGGAAACAAAATA
31879357 GAATTGTAAT
Statistics
Matches: 285, Mismatches: 47, Indels: 18
0.81 0.13 0.05
Matches are distributed among these distances:
83 16 0.06
84 154 0.54
85 26 0.09
87 89 0.31
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (86 bp):
AAATCAAATAAAATCTTGTTAAACAGAGGGAATAAATCCTGAAACAGATTTTATTTAATTTAATT
CTAGTATTTGGAAACAAAATA
Found at i:31879291 original size:171 final size:168
Alignment explanation
Indices: 31879021--31879334 Score: 441
Period size: 171 Copynumber: 1.9 Consensus size: 168
31879011 AACAATATCG
* * * *
31879021 AATAAAATCTTGTTAAACAATGGGAATAAATCCTGAAACAAATTTTATTTATTTTAATTTGAATT
1 AATAAAATCTTGTTAAACAATGGAAATAAATCCCGAAACAAATTTTATTTAATCTAATTTGAATT
** **
31879086 TGGAAACAAAATAAAATCAAATAAAATCTTGTTAAATGGCGGGAATAAATCCTGAAATAGATTTT
66 TGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACAGCGGGAATAAATCCAAAAATAGATTTT
31879151 ATTTAATTTAATTCTAATTTAGAAACAAAATAAAATCA
131 ATTTAATTTAATTCTAATTTAGAAACAAAATAAAATCA
* * *
31879189 AATAAAATCTTGTTAAACAGA-GGAAATTAATCCCGGAACAGATTTTATTTAATCTAATTTCTAG
1 AATAAAATCTTGTTAAACA-ATGGAAATAAATCCCGAAACAAATTTTATTTAATCTAA-TT-T-G
** * * *
31879253 TTTTTGGCAACAAAATAAAATCGAATAAAATTTTGTTAAACAGCGGGAATAAATCCAAAAATAGA
62 AATTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACAGCGGGAATAAATCCAAAAATAGA
31879318 TTTTATTTAATTTAATT
127 TTTTATTTAATTTAATT
31879335 TCTCGTTTTT
Statistics
Matches: 126, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
168 48 0.38
169 3 0.02
170 1 0.01
171 74 0.59
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.35
Consensus pattern (168 bp):
AATAAAATCTTGTTAAACAATGGAAATAAATCCCGAAACAAATTTTATTTAATCTAATTTGAATT
TGGAAACAAAATAAAATCAAATAAAATCTTGTTAAACAGCGGGAATAAATCCAAAAATAGATTTT
ATTTAATTTAATTCTAATTTAGAAACAAAATAAAATCA
Found at i:31879471 original size:79 final size:79
Alignment explanation
Indices: 31879388--31879569 Score: 256
Period size: 79 Copynumber: 2.3 Consensus size: 79
31879378 ACGGCGTGAG
* *
31879388 TCAATCCCGAAACGAATTTTATTTTACTCATTTTTGGAAATAAAACAAAATGTGGAATAAAATCG
1 TCAATCCCGAAACGAATTTTATTTTACTCATTTTTGGAAATAAAACAAAATGTCGAATAAAACCG
* * **
31879453 TTGAGCAGTAGGAA
66 CTGAACAACAGGAA
* * * *
31879467 TCAATCCCGAAATGAATTTTATTATACTCATTTTTGGAAATAAAACATAATTTCGAATAAAACCG
1 TCAATCCCGAAACGAATTTTATTTTACTCATTTTTGGAAATAAAACAAAATGTCGAATAAAACCG
*
31879532 CTGAACAACGGGAA
66 CTGAACAACAGGAA
*
31879546 TCAATCCCGAAACGGATTTTATTT
1 TCAATCCCGAAACGAATTTTATTT
31879570 ACTTTTGATT
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 89 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (79 bp):
TCAATCCCGAAACGAATTTTATTTTACTCATTTTTGGAAATAAAACAAAATGTCGAATAAAACCG
CTGAACAACAGGAA
Found at i:31880333 original size:10 final size:10
Alignment explanation
Indices: 31880318--31880347 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
31880308 GAAAACACGT
31880318 GAAAAATTTAA
1 GAAAAATTT-A
31880329 GAAAAATTTA
1 GAAAAATTTA
31880339 GAAAAATTT
1 GAAAAATTT
31880348 TAACTGCAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (10 bp):
GAAAAATTTA
Found at i:31880696 original size:21 final size:19
Alignment explanation
Indices: 31880670--31880710 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
31880660 AATCTATTTG
*
31880670 AAACATGATCAAACACACTCA
1 AAACATGA-CAAA-ACAATCA
31880691 AAACATGACAAAACAATCA
1 AAACATGACAAAACAATCA
31880710 A
1 A
31880711 CCTAGGTGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.59, C:0.24, G:0.05, T:0.12
Consensus pattern (19 bp):
AAACATGACAAAACAATCA
Found at i:31882123 original size:10 final size:10
Alignment explanation
Indices: 31882108--31882137 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
31882098 GAAAACACGT
31882108 GAAAAATTTAA
1 GAAAAATTT-A
31882119 GAAAAATTTA
1 GAAAAATTTA
31882129 GAAAAATTT
1 GAAAAATTT
31882138 TAACTGCAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (10 bp):
GAAAAATTTA
Found at i:31882486 original size:21 final size:19
Alignment explanation
Indices: 31882460--31882500 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
31882450 AATCTATTTG
*
31882460 AAACATGATCAAACACACTCA
1 AAACATGA-CAAA-ACAATCA
31882481 AAACATGACAAAACAATCA
1 AAACATGACAAAACAATCA
31882500 A
1 A
31882501 CCTAGGTGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 4 0.21
21 8 0.42
ACGTcount: A:0.59, C:0.24, G:0.05, T:0.12
Consensus pattern (19 bp):
AAACATGACAAAACAATCA
Found at i:31884435 original size:10 final size:10
Alignment explanation
Indices: 31884416--31884449 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
31884406 CGTCCTTCTC
31884416 CTTTCTTCTTT
1 CTTTC-TCTTT
31884427 CTTTCTCTTT
1 CTTTCTCTTT
31884437 CTTTCT-TTT
1 CTTTCTCTTT
31884446 CTTT
1 CTTT
31884450 TTAATTTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 7 0.30
10 11 0.48
11 5 0.22
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (10 bp):
CTTTCTCTTT
Found at i:31884438 original size:14 final size:13
Alignment explanation
Indices: 31884417--31884449 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
31884407 GTCCTTCTCC
31884417 TTTC-TTCTTTCT
1 TTTCTTTCTTTCT
31884429 TTCTCTTTCTTTCT
1 TT-TCTTTCTTTCT
31884443 TTTCTTT
1 TTTCTTT
31884450 TTAATTTGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 7 0.37
14 10 0.53
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTCTTTCT
Found at i:31888716 original size:23 final size:23
Alignment explanation
Indices: 31888686--31888732 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
31888676 TGTGATACTA
* *
31888686 ACTGTACCTGTAACTCATCGCGT
1 ACTGTACCTATAACTCATCACGT
31888709 ACTGTACCTATAACTCATCACGT
1 ACTGTACCTATAACTCATCACGT
31888732 A
1 A
31888733 AACCATGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.30
Consensus pattern (23 bp):
ACTGTACCTATAACTCATCACGT
Found at i:31901234 original size:96 final size:95
Alignment explanation
Indices: 31901111--31901423 Score: 324
Period size: 96 Copynumber: 3.4 Consensus size: 95
31901101 GTTTGATATG
*
31901111 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTATAGCTTCAATCTGTTCCACTAC
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTATA-CTTCAATCTGTTCCACTGC
*
31901176 AACTTCAGGGAAATAAGATTCGCTATCTTCA
65 AACTTTAGGGAAATAAGATTCGCTATCTTCA
* * * * * * *
31901207 ATCTGCTCCACTGCAACTTCAGGGAGATAAAACTTG-----TA-ACTTCAACCTGCTCCATTGCA
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTATACTTCAATCTGTTCCACTGCA
* * * * *
31901266 ACTTTATGGAGATAAGATTTG--AT-AT-G
66 ACTTTAGGGAAATAAGATTCGCTATCTTCA
* *
31901292 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAACTTCAATCTGTTCCACTGC
1 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTAT-ACTTCAATCTGTTCCACTGC
* *
31901357 AAATTTAGGGAAATAAGATTCACTATCTTCA
65 AACTTTAGGGAAATAAGATTCGCTATCTTCA
* * * *
31901388 ATCTGCTCAACTGTAACTTTATGA-AGATAAGGTTTG
1 ATCTGCTCTACTGCAACTTCA-GAGAGATAAGATTTG
31901424 ATATGATCTG
Statistics
Matches: 169, Mismatches: 36, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
85 30 0.18
86 1 0.01
87 2 0.01
89 33 0.20
90 3 0.02
91 2 0.01
92 34 0.20
94 2 0.01
95 1 0.01
96 59 0.35
97 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (95 bp):
ATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAATTTATACTTCAATCTGTTCCACTGCA
ACTTTAGGGAAATAAGATTCGCTATCTTCA
Found at i:31901266 original size:44 final size:45
Alignment explanation
Indices: 31901157--31901768 Score: 181
Period size: 45 Copynumber: 13.6 Consensus size: 45
31901147 TAATTTATAG
* * * * *
31901157 CTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAATTCGCTAA
31901202 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAACTT-G-TAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAA-TTCGCTAA
* * * * * * *
31901246 CTTCAACCTGCTCCATTGCAACTTTATGGAGATAAGATTTGAT-A
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAATTCGCTAA
* * * ***
31901290 --T-GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA-A---AT--TCGCTAA
* * * * * * *
31901338 CTTCAATCTGTTCCACTGCAAATTTAGGGAAATAAGATTCACTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAATTCGCTAA
* * * * * ** * *
31901383 CTTCAATCTGCTCAACTGTAACTTTATGAAGATAAGGTTTGAT-A
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAATTCGCTAA
* * * ** * * *
31901427 --T-GATCTGCTCTACTGCAGCTTCAAAGATATAAGA-TCTGTAATTTATA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAATTC-G----CTA-A
* ** * * *
31901474 GCTTAAATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAATTCGCTAA
* ** *
31901520 GTTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA-AATTCGCTAA
* * * ** * *
31901564 GTTCAACCTGCTCCACTGCAACCTT-ATGGAGATAAGGTTTGAT-A
1 CTTCAATCTGCTCCACTGCAA-CTTCAGGGAGATAAAATTCGCTAA
* * * * *
31901608 --T-GATCTGCTCTACTGCAGCTTCAGAGAGATAAGA-TCTGTAACTTATA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAATTC-G---C-TA-A
* * * *
31901655 GCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTAT
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAATTCGCTAA
* * * *
31901701 GTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACTT--C--A
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA-AATTCGCTAA
* *
31901743 CTTCAATCCGCTCCACTGTAACTTCA
1 CTTCAATCTGCTCCACTGCAACTTCA
31901769 ATGGTATAGA
Statistics
Matches: 416, Mismatches: 108, Indels: 89
0.68 0.18 0.15
Matches are distributed among these distances:
40 5 0.01
41 71 0.17
42 24 0.06
43 4 0.01
44 70 0.17
45 137 0.33
46 6 0.01
47 12 0.03
48 2 0.00
50 3 0.01
51 78 0.19
52 4 0.01
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAATTCGCTAA
Found at i:31901491 original size:318 final size:318
Alignment explanation
Indices: 31900887--31901724 Score: 1125
Period size: 318 Copynumber: 2.7 Consensus size: 318
31900877 TGAAACATTT
* * * * * * * *
31900887 GCTATCTTCAGTCTGCTCCACTACAACTTCAGGGAAATAAGATTTGTAGCTTCCACATGTTTCAC
1 GCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCAC
* * * * * ** *
31900952 TGTAATTTTAAGGAAATAAGGTCTGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCC
66 TGCAACTTTATGGAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
* * * * * * * *
31901017 ATCATTT-TAA--TC---C-GCTCCACTGCAACTTCAGAGAGATAGGATT-GGTTTCTTTAATCT
131 ATAATTTATAACTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCT
* * * * * *
31901074 CCTCCACAGGAACTTTATGGAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGAT
196 GCTCAACTGCAACTTTATGAAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAAAGAGAT
* * *
31901139 AAGATTTGTAATTTATAGCTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTC
261 AAGATCTGTAATTTATAGCTTAAATCTATTCCACTACAACTTCAGGGAAATAAGATTC
* * *
31901197 GCTATCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAACTTGTAACTTCAACCTGCTCCAT
1 GCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCAC
*
31901262 TGCAACTTTATGGAGATAAGATTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
66 TGCAACTTTATGGAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
* * *
31901327 ATAATTTATAACTTCAATCTGTTCCACTGCAAATTTAGGGAAATAAGATTCACTATCTTCAATCT
131 ATAATTTATAACTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCT
* * *
31901392 GCTCAACTGTAACTTTATGAAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTCAAAGATAT
196 GCTCAACTGCAACTTTATGAAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAAAGAGAT
*
31901457 AAGATCTGTAATTTATAGCTTAAATCTATTCCACTGCAACTTCAGGGAAATAAGATTC
261 AAGATCTGTAATTTATAGCTTAAATCTATTCCACTACAACTTCAGGGAAATAAGATTC
* * *
31901515 GCTATGTTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAAGTTCAACCTGCTCCAC
1 GCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCAC
* *
31901580 TGCAACCTTATGGAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTCAGAGAGATAAGATCT
66 TGCAACTTTATGGAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
* * * * *
31901645 GTAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATGTTCAGTCT
131 ATAATTTATAACTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCT
*
31901710 GCTCTACTGCAACTT
196 GCTCAACTGCAACTT
31901725 CAGGGAGATA
Statistics
Matches: 458, Mismatches: 62, Indels: 8
0.87 0.12 0.02
Matches are distributed among these distances:
310 116 0.25
311 3 0.01
313 2 0.00
316 1 0.00
317 24 0.05
318 312 0.68
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (318 bp):
GCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCAC
TGCAACTTTATGGAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCT
ATAATTTATAACTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAATCT
GCTCAACTGCAACTTTATGAAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAAAGAGAT
AAGATCTGTAATTTATAGCTTAAATCTATTCCACTACAACTTCAGGGAAATAAGATTC
Found at i:31901553 original size:137 final size:137
Alignment explanation
Indices: 31901213--31901556 Score: 458
Period size: 137 Copynumber: 2.5 Consensus size: 137
31901203 TTCAATCTGC
* * * *
31901213 TCCACTGCAACTTCAGGGAGATAAAACTT-G-TAACTTCAACCTGCTCCATTGCAACTTTATGGA
1 TCCACTGCAACTTCAGGGAAATAAGA-TTCGCTATCTTCAACCTGCTCCACTGCAACTTTATGGA
*
31901276 GATAAGATTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAACTT
65 GATAAGATTTGATATGATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTATAATTTATAACTT
* *
31901341 CAATCTGT
130 AAATCTAT
* * * * * * *
31901349 TCCACTGCAAATTTAGGGAAATAAGATTCACTATCTTCAATCTGCTCAACTGTAACTTTATGAAG
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAACCTGCTCCACTGCAACTTTATGGAG
* * * * *
31901414 ATAAGGTTTGATATGATCTGCTCTACTGCAGCTTCAAAGATATAAGATCTGTAATTTATAGCTTA
66 ATAAGATTTGATATGATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTATAATTTATAACTTA
31901479 AATCTAT
131 AATCTAT
* * * *
31901486 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATGTTCAGCCTGCTCCACTGCAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAACCTGCTCCACTGCAACTTTATGGAG
31901551 ATAAGA
66 ATAAGA
31901557 CTTGTAAGTT
Statistics
Matches: 175, Mismatches: 31, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
135 2 0.01
136 22 0.13
137 151 0.86
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (137 bp):
TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAACCTGCTCCACTGCAACTTTATGGAG
ATAAGATTTGATATGATCTGCTCTACTGCAACTTCAAAGAGATAAGATCTATAATTTATAACTTA
AATCTAT
Found at i:31901555 original size:96 final size:96
Alignment explanation
Indices: 31901430--31901737 Score: 352
Period size: 96 Copynumber: 3.3 Consensus size: 96
31901420 TTTGATATGA
* * * * *
31901430 TCTGCTCTACTGCAGCTTCAAAGATATAAGATCTGTAATTTATAGCTTAAATCTATTCCACTGCA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCA
31901495 ACTTCAGGGAAATAAGATTCGCTATGTTCAG
66 ACTTCAGGGAAATAAGATTCGCTATGTTCAG
* * * * * *
31901526 CCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--T--TGTA-AG-TTCAACCTGCTCCACTGCA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCA
* * * * *
31901584 ACCTT-ATGGAGATAAGGTTTGATATG---A-
66 A-CTTCAGGGAAATAAGATTCGCTATGTTCAG
* *
31901611 TCTGCTCTACTGCAGCTTCAGAGAGATAAGATCTGTAACTTATAGCTTCAATCTGTTCCACTGCA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCA
31901676 ACTTCAGGGAAATAAGATTCGCTATGTTCAG
66 ACTTCAGGGAAATAAGATTCGCTATGTTCAG
*
31901707 TCTGCTCTACTGCAACTTCAGGGAGATAAGA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGA
31901738 CTTCACTTCA
Statistics
Matches: 168, Mismatches: 31, Indels: 26
0.75 0.14 0.12
Matches are distributed among these distances:
85 27 0.16
86 2 0.01
88 1 0.01
89 32 0.19
90 7 0.04
91 8 0.05
92 34 0.20
93 1 0.01
95 2 0.01
96 54 0.32
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (96 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTCAATCTGTTCCACTGCA
ACTTCAGGGAAATAAGATTCGCTATGTTCAG
Found at i:31901612 original size:181 final size:181
Alignment explanation
Indices: 31901384--31901740 Score: 606
Period size: 181 Copynumber: 2.0 Consensus size: 181
31901374 ATTCACTATC
* * *
31901384 TTCAATCTGCTCAACTGTAACTTTATGAAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTC
1 TTCAACCTGCTCAACTGCAACCTTATGAAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTC
* *
31901449 AAAGATATAAGATCTGTAATTTATAGCTTAAATCTATTCCACTGCAACTTCAGGGAAATAAGATT
66 AAAGAGATAAGATCTGTAACTTATAGCTTAAATCTATTCCACTGCAACTTCAGGGAAATAAGATT
31901514 CGCTATGTTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAAG
131 CGCTATGTTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAAG
* *
31901565 TTCAACCTGCTCCACTGCAACCTTATGGAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTC
1 TTCAACCTGCTCAACTGCAACCTTATGAAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTC
* * *
31901630 AGAGAGATAAGATCTGTAACTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT
66 AAAGAGATAAGATCTGTAACTTATAGCTTAAATCTATTCCACTGCAACTTCAGGGAAATAAGATT
* *
31901695 CGCTATGTTCAGTCTGCTCTACTGCAACTTCAGGGAGATAAGACTT
131 CGCTATGTTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGACTT
31901741 CACTTCAATC
Statistics
Matches: 164, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
181 164 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (181 bp):
TTCAACCTGCTCAACTGCAACCTTATGAAGATAAGGTTTGATATGATCTGCTCTACTGCAGCTTC
AAAGAGATAAGATCTGTAACTTATAGCTTAAATCTATTCCACTGCAACTTCAGGGAAATAAGATT
CGCTATGTTCAGCCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAAG
Found at i:31909326 original size:17 final size:17
Alignment explanation
Indices: 31909304--31909338 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
31909294 ACCATTTAGA
*
31909304 TGCTGCCCCTTTGAGGC
1 TGCTGCCCCTGTGAGGC
31909321 TGCTGCCCCTGTGAGGC
1 TGCTGCCCCTGTGAGGC
31909338 T
1 T
31909339 ATCTTGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.34, G:0.31, T:0.29
Consensus pattern (17 bp):
TGCTGCCCCTGTGAGGC
Found at i:31914373 original size:6 final size:6
Alignment explanation
Indices: 31914362--31914437 Score: 62
Period size: 6 Copynumber: 12.7 Consensus size: 6
31914352 ATATATAAAA
* * ** ** *
31914362 AATAAT AATAAT AGTATT AATAGC AATAAT AATCGT AATAAT AATAAC
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
* * *
31914410 AATAAT AATAAC AATACT AATAAC AATA
1 AATAAT AATAAT AATAAT AATAAT AATA
31914438 TTAAACTAAT
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.29
Consensus pattern (6 bp):
AATAAT
Found at i:31914394 original size:12 final size:12
Alignment explanation
Indices: 31914362--31914437 Score: 80
Period size: 12 Copynumber: 6.3 Consensus size: 12
31914352 ATATATAAAA
*
31914362 AATAATAATAAT
1 AATAATAATAAC
* * *
31914374 AGTATTAATAGC
1 AATAATAATAAC
***
31914386 AATAATAATCGT
1 AATAATAATAAC
31914398 AATAATAATAAC
1 AATAATAATAAC
31914410 AATAATAATAAC
1 AATAATAATAAC
*
31914422 AATACTAATAAC
1 AATAATAATAAC
31914434 AATA
1 AATA
31914438 TTAAACTAAT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 52 1.00
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.29
Consensus pattern (12 bp):
AATAATAATAAC
Found at i:31914425 original size:24 final size:24
Alignment explanation
Indices: 31914362--31914437 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 24
31914352 ATATATAAAA
* * *
31914362 AATAATAATAATAGTATTAATAGC
1 AATAATAATAATAATAATAATAAC
**
31914386 AATAATAATCGTAATAATAATAAC
1 AATAATAATAATAATAATAATAAC
* *
31914410 AATAATAATAACAATACTAATAAC
1 AATAATAATAATAATAATAATAAC
31914434 AATA
1 AATA
31914438 TTAAACTAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.29
Consensus pattern (24 bp):
AATAATAATAATAATAATAATAAC
Found at i:31916403 original size:34 final size:34
Alignment explanation
Indices: 31916350--31916431 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
31916340 GATACACGAG
* * * * *
31916350 TAAACTACAACACATCAGATAGCTTGTAGGAGCT
1 TAAACTACACCACACCAGATAGCTCGCAAGAGCT
31916384 TAAACTACACCACACCAGATAGCTCGCAAGAGCT
1 TAAACTACACCACACCAGATAGCTCGCAAGAGCT
*
31916418 TAAACTATACCACA
1 TAAACTACACCACA
31916432 ACATGACACC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.40, C:0.27, G:0.13, T:0.20
Consensus pattern (34 bp):
TAAACTACACCACACCAGATAGCTCGCAAGAGCT
Found at i:31918736 original size:15 final size:15
Alignment explanation
Indices: 31918716--31918746 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
31918706 ATAACAACAT
31918716 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
31918731 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
31918746 A
1 A
31918747 CTTACATAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Done.