Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002201.1 Hibiscus syriacus cultivar Beakdansim tig00004488_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 180771
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:5995 original size:24 final size:27
Alignment explanation
Indices: 5939--5993 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
5929 TCAAAAGGTG
*
5939 AAAATGTTTTATGAAAGAATTTTGAAA
1 AAAATGTTTGATGAAAGAATTTTGAAA
*
5966 AAAATGTTTGATG-AAG-TTTTTGAAA
1 AAAATGTTTGATGAAAGAATTTTGAAA
5991 AAA
1 AAA
5994 TGGTGCCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 11 0.42
26 3 0.12
27 12 0.46
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.36
Consensus pattern (27 bp):
AAAATGTTTGATGAAAGAATTTTGAAA
Found at i:6110 original size:26 final size:26
Alignment explanation
Indices: 6079--6136 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
6069 CTCTTTTAAT
*
6079 TTTTCAAAGTTATTATTCATTGACAA
1 TTTTCAAAGTTATTATTCATTAACAA
6105 TTTTCAAAGTTATTATTCATTAACAA
1 TTTTCAAAGTTATTATTCATTAACAA
*
6131 GTTTCA
1 TTTTCA
6137 TGATTTGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.47
Consensus pattern (26 bp):
TTTTCAAAGTTATTATTCATTAACAA
Found at i:7200 original size:12 final size:12
Alignment explanation
Indices: 7174--7207 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
7164 AACTGTTGAT
7174 GGTTTAGGCTTAG
1 GGTTTAGG-TTAG
7187 GGTTTAGGTTAG
1 GGTTTAGGTTAG
7199 GG-TTAGGTT
1 GGTTTAGGTT
7208 TAATTAGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 7 0.33
12 6 0.29
13 8 0.38
ACGTcount: A:0.15, C:0.03, G:0.41, T:0.41
Consensus pattern (12 bp):
GGTTTAGGTTAG
Found at i:12073 original size:17 final size:16
Alignment explanation
Indices: 12053--12084 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
12043 TTATCTCTAA
12053 ATAAATAAAATAAAATT
1 ATAAATAAAA-AAAATT
12070 ATAAATAAAAAAAAT
1 ATAAATAAAAAAAAT
12085 CAATTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
ATAAATAAAAAAAATT
Found at i:12879 original size:14 final size:14
Alignment explanation
Indices: 12836--12872 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
12826 GTATATGCTA
12836 TAGGGTTTAAGATT
1 TAGGGTTTAAGATT
*
12850 TAGAGTTTAAGATT
1 TAGGGTTTAAGATT
*
12864 TAAGGTTTA
1 TAGGGTTTA
12873 GGGTTTACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.43
Consensus pattern (14 bp):
TAGGGTTTAAGATT
Found at i:19824 original size:26 final size:26
Alignment explanation
Indices: 19788--19851 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
19778 AAACACAGAG
* *
19788 AAAAAAACCAAAATAATACAAGCAA-T
1 AAAATAACCAAAAAAAT-CAAGCAACT
* *
19814 AAAATACCCAAAAAAATCGAGCAACT
1 AAAATAACCAAAAAAATCAAGCAACT
19840 AAAATAACCAAA
1 AAAATAACCAAA
19852 CCACAAGTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 6 0.19
26 26 0.81
ACGTcount: A:0.66, C:0.19, G:0.05, T:0.11
Consensus pattern (26 bp):
AAAATAACCAAAAAAATCAAGCAACT
Found at i:20500 original size:19 final size:18
Alignment explanation
Indices: 20468--20523 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
20458 ATAATTTCTA
*
20468 ATTTAATTTTTTTAATTTT
1 ATTT-ATTTATTTAATTTT
*
20487 CTCTTATTTATTTAATATTT
1 AT-TTATTTATTTAAT-TTT
20507 ATTTATTTA-TTAATTTT
1 ATTTATTTATTTAATTTT
20524 TACAATCTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.09
18 5 0.16
19 18 0.56
20 6 0.19
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTATTTATTTAATTTT
Found at i:33948 original size:79 final size:79
Alignment explanation
Indices: 33854--34174 Score: 480
Period size: 79 Copynumber: 4.1 Consensus size: 79
33844 TAATAGCATA
** * * ** * *
33854 CTTTTATGTTGATAATGCACCCATATGTATTTCAACTTTGGCATCATTTCATGTCTATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCATTTCATGCCAATAATGCAC
* *
33919 TCATATGCATTATT
66 CCATATACATTATT
*
33933 CTTTTATGCCGATAATGCACTCATATGCATTTCAGCTAAGGCATCATTTCATGCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCATTTCATGCCAATAATGCAC
33998 CCATATACATTATT
66 CCATATACATTATT
* * * *
34012 CTTTTATGCCGAGAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCCTGCTAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCATTTCATGCCAATAATGCAC
*
34077 CCATATGCATTATT
66 CCATATACATTATT
* *
34091 CTTTTATGCCGATAATGCATCCATATGCATTTCAGCTAAGGCATCATTTCATGCCAATAATGCAT
1 CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCATTTCATGCCAATAATGCAC
34156 CCATATACATTATT
66 CCATATACATTATT
34170 CTTTT
1 CTTTT
34175 GATCATTCGT
Statistics
Matches: 218, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 218 1.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (79 bp):
CTTTTATGCCGATAATGCACCCATATGCATTTCAGCTAAGGCATCATTTCATGCCAATAATGCAC
CCATATACATTATT
Found at i:33953 original size:34 final size:34
Alignment explanation
Indices: 33910--34121 Score: 127
Period size: 34 Copynumber: 5.6 Consensus size: 34
33900 TTTCATGTCT
*
33910 ATAATGCACTCATATGCATTATTCTTTTATGCCG
1 ATAATGCACCCATATGCATTATTCTTTTATGCCG
* * *
33944 ATAATGCACTCATATGCATTTCAGCTAAGGCATCATTTCATGCCA
1 ATAATGCACCCATATGCA-TT-A--T------TC-TTTTATGCCG
*
33989 ATAATGCACCCATATACATTATTCTTTTATGCCG
1 ATAATGCACCCATATGCATTATTCTTTTATGCCG
* ** **
34023 AGAATGCACCCATATGCATTTCAGCTAAGGCATCCTTTCCTGCTA
1 ATAATGCACCCATATGCA-TT-A--T------T-CTTTTATGCCG
34068 ATAATGCACCCATATGCATTATTCTTTTATGCCG
1 ATAATGCACCCATATGCATTATTCTTTTATGCCG
*
34102 ATAATGCATCCATATGCATT
1 ATAATGCACCCATATGCATT
34122 TCAGCTAAGG
Statistics
Matches: 138, Mismatches: 18, Indels: 44
0.69 0.09 0.22
Matches are distributed among these distances:
34 68 0.49
35 7 0.05
36 2 0.01
38 2 0.01
41 2 0.01
43 2 0.01
44 7 0.05
45 48 0.35
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (34 bp):
ATAATGCACCCATATGCATTATTCTTTTATGCCG
Found at i:33993 original size:45 final size:44
Alignment explanation
Indices: 33932--34166 Score: 177
Period size: 45 Copynumber: 5.7 Consensus size: 44
33922 TATGCATTAT
* * *
33932 TCTTTTATGCCGATAATGCACTCATATGCATTTCAGCTAAGGCA
1 TCTTTCATGCCAATAATGCACCCATATGCATTTCAGCTAAGGCA
*
33976 TCATTTCATGCCAATAATGCACCCATATACA-TT-A--T------
1 TC-TTTCATGCCAATAATGCACCCATATGCATTTCAGCTAAGGCA
* * *
34011 TCTTTTATGCCGAGAATGCACCCATATGCATTTCAGCTAAGGCA
1 TCTTTCATGCCAATAATGCACCCATATGCATTTCAGCTAAGGCA
* *
34055 TCCTTTCCTGCTAATAATGCACCCATATGCA-TT-A--T------
1 T-CTTTCATGCCAATAATGCACCCATATGCATTTCAGCTAAGGCA
* * *
34090 TCTTTTATGCCGATAATGCATCCATATGCATTTCAGCTAAGGCA
1 TCTTTCATGCCAATAATGCACCCATATGCATTTCAGCTAAGGCA
* *
34134 TCATTTCATGCCAATAATGCATCCATATACATT
1 TC-TTTCATGCCAATAATGCACCCATATGCATT
34167 ATTCTTTTGA
Statistics
Matches: 147, Mismatches: 21, Indels: 45
0.69 0.10 0.21
Matches are distributed among these distances:
34 48 0.33
35 7 0.05
36 2 0.01
38 2 0.01
41 2 0.01
43 2 0.01
44 9 0.06
45 75 0.51
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (44 bp):
TCTTTCATGCCAATAATGCACCCATATGCATTTCAGCTAAGGCA
Found at i:34609 original size:20 final size:22
Alignment explanation
Indices: 34584--34635 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
34574 GGTTCCTCAG
34584 TATCGATACCA-C-TACCATGA
1 TATCGATACCACCATACCATGA
* *
34604 TATCGATACTACCATACTATGA
1 TATCGATACCACCATACCATGA
34626 TATCGATACC
1 TATCGATACC
34636 GTTTTTGCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 10 0.37
21 1 0.04
22 16 0.59
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.29
Consensus pattern (22 bp):
TATCGATACCACCATACCATGA
Found at i:34628 original size:22 final size:23
Alignment explanation
Indices: 34590--34634 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
34580 TCAGTATCGA
34590 TACCACTACCATGATATCGATAC
1 TACCACTACCATGATATCGATAC
*
34613 TACCA-TACTATGATATCGATAC
1 TACCACTACCATGATATCGATAC
34635 CGTTTTTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.29
Consensus pattern (23 bp):
TACCACTACCATGATATCGATAC
Found at i:34684 original size:20 final size:20
Alignment explanation
Indices: 34659--34710 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
34649 GTTTCAAAAT
*
34659 GGTATCGATACAT-TCCCTTC
1 GGTATCGATAC-TCCCCCTTC
*
34679 GGTATCGATACTCCCCCTTT
1 GGTATCGATACTCCCCCTTC
34699 GGTATCGATACT
1 GGTATCGATACT
34711 GATTGAATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (20 bp):
GGTATCGATACTCCCCCTTC
Found at i:35564 original size:25 final size:24
Alignment explanation
Indices: 35536--35618 Score: 62
Period size: 25 Copynumber: 3.3 Consensus size: 24
35526 ATTCTTGGCT
35536 TATATATAAGCTTATCACGTGTCTG
1 TATATATAAGCTTATCA-GTGTCTG
* * * *
35561 TATATATTAA-CTCA-GATTGTTTGGG
1 TATATA-TAAGCTTATCAGTGTCT--G
35586 TTATATATAAGCTTATCATGTGTCTG
1 -TATATATAAGCTTATCA-GTGTCTG
35612 TATATAT
1 TATATAT
35619 TAACTCAGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
23 4 0.09
24 1 0.02
25 20 0.47
26 13 0.30
27 1 0.02
28 4 0.09
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.45
Consensus pattern (24 bp):
TATATATAAGCTTATCAGTGTCTG
Found at i:35592 original size:26 final size:26
Alignment explanation
Indices: 35561--35639 Score: 69
Period size: 25 Copynumber: 3.1 Consensus size: 26
35551 CACGTGTCTG
35561 TATATATTAACTCAGATTGTTTGGGT
1 TATATATTAACTCAGATTGTTTGGGT
* * *
35587 TATATA-TAAGCTTATCATGTGTCT--G-
1 TATATATTAA-CTCA-GAT-TGTTTGGGT
35612 TATATATTAACTCAGATTG-TTGGGT
1 TATATATTAACTCAGATTGTTTGGGT
35637 TAT
1 TAT
35640 TCCAGCCTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 15
0.66 0.10 0.25
Matches are distributed among these distances:
22 1 0.03
23 2 0.05
24 3 0.08
25 15 0.38
26 13 0.32
27 2 0.05
28 4 0.10
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.46
Consensus pattern (26 bp):
TATATATTAACTCAGATTGTTTGGGT
Found at i:35596 original size:51 final size:50
Alignment explanation
Indices: 35521--35639 Score: 202
Period size: 51 Copynumber: 2.4 Consensus size: 50
35511 GCTGATATGT
* *
35521 CTCAGATTCTTGGCTTATATATAAGCTTATCACGTGTCTGTATATATTAA
1 CTCAGATTGTTGGGTTATATATAAGCTTATCACGTGTCTGTATATATTAA
*
35571 CTCAGATTGTTTGGGTTATATATAAGCTTATCATGTGTCTGTATATATTAA
1 CTCAGATTG-TTGGGTTATATATAAGCTTATCACGTGTCTGTATATATTAA
35622 CTCAGATTGTTGGGTTAT
1 CTCAGATTGTTGGGTTAT
35640 TCCAGCCTTA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
50 17 0.26
51 48 0.74
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.44
Consensus pattern (50 bp):
CTCAGATTGTTGGGTTATATATAAGCTTATCACGTGTCTGTATATATTAA
Found at i:36439 original size:89 final size:89
Alignment explanation
Indices: 36288--36462 Score: 323
Period size: 89 Copynumber: 2.0 Consensus size: 89
36278 GATACCTAAT
*
36288 TGATTACCCTATATTTTAAAATTAAAAACTTTGAGTTCAAGATTTTATTTAATTTAAAAATCATT
1 TGATTACCCTATATTTAAAAATTAAAAACTTTGAGTTCAAGATTTTATTTAATTTAAAAATCATT
*
36353 ATGTATGCAAAGTTTGGAAAAAGA
66 ATGTATGAAAAGTTTGGAAAAAGA
*
36377 TGATTACCCTATATTTAAAAATTAGAAACTTTGAGTTCAAGATTTTATTTAATTTAAAAATCATT
1 TGATTACCCTATATTTAAAAATTAAAAACTTTGAGTTCAAGATTTTATTTAATTTAAAAATCATT
36442 ATGTATGAAAAGTTTGGAAAA
66 ATGTATGAAAAGTTTGGAAAA
36463 TTATGTGGTT
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 83 1.00
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.39
Consensus pattern (89 bp):
TGATTACCCTATATTTAAAAATTAAAAACTTTGAGTTCAAGATTTTATTTAATTTAAAAATCATT
ATGTATGAAAAGTTTGGAAAAAGA
Found at i:37345 original size:45 final size:45
Alignment explanation
Indices: 37296--37396 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
37286 GTTAGGCTAA
* * *
37296 TCCGGGTTTGGTTTGTAAATGGGCTTTTGGGTCTGATATTGGGCC
1 TCCGGGTCTGGTTTGTAAATGGGCTTCTGGATCTGATATTGGGCC
**
37341 TCCGGGTCTGGTTTGTAAATGGGCTTCTGGATCTTCTATTGGGCC
1 TCCGGGTCTGGTTTGTAAATGGGCTTCTGGATCTGATATTGGGCC
* *
37386 TCTGAGTCTGG
1 TCCGGGTCTGG
37397 GCCTATAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.11, C:0.17, G:0.34, T:0.39
Consensus pattern (45 bp):
TCCGGGTCTGGTTTGTAAATGGGCTTCTGGATCTGATATTGGGCC
Found at i:37433 original size:3 final size:3
Alignment explanation
Indices: 37425--37488 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
37415 TAGTGTTATT
37425 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
37472 TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA
37489 AACTGGACAA
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 4 0.07
3 55 0.93
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:40933 original size:6 final size:6
Alignment explanation
Indices: 40922--40949 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
40912 TAAGCTATGG
40922 TTTTGT TTTTGT TTTTGT TTTTGT TTTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTT
40950 TTTATGAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (6 bp):
TTTTGT
Found at i:41324 original size:22 final size:24
Alignment explanation
Indices: 41282--41335 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
41272 TTAAATCGTT
41282 TTTAAGAACTTATTTGTAAATA-A
1 TTTAAGAACTTATTTGTAAATATA
*
41305 TTTAAGATC-TATTT-TCAAATATA
1 TTTAAGAACTTATTTGT-AAATATA
*
41328 TATAAGAA
1 TTTAAGAA
41336 ATAAAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 10 0.38
23 15 0.58
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (24 bp):
TTTAAGAACTTATTTGTAAATATA
Found at i:43157 original size:10 final size:9
Alignment explanation
Indices: 43128--43201 Score: 51
Period size: 10 Copynumber: 7.8 Consensus size: 9
43118 AAATAGTAAG
*
43128 TAAAACAAA
1 TAAAAAAAA
43137 TATAAAAAAA
1 TA-AAAAAAA
43147 TAAAAATAAA
1 TAAAAA-AAA
43157 TAAAGAAAAA
1 TAAA-AAAAA
*
43167 GAAGAAAAAA
1 TAA-AAAAAA
* *
43177 TATATATAAA
1 TA-AAAAAAA
*
43187 T-AAAATAA
1 TAAAAAAAA
43195 TAAAAAA
1 TAAAAAA
43202 GTAAAAATAA
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
8 5 0.10
9 10 0.20
10 31 0.62
11 4 0.08
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:43177 original size:56 final size:57
Alignment explanation
Indices: 43086--43211 Score: 145
Period size: 56 Copynumber: 2.2 Consensus size: 57
43076 AAAATAAATT
* *
43086 AAATAAAAGATAAGATAAAGAAAGCAAAGATAAAATAGTA-AGTAAA-ACAAAT-ATAAAA
1 AAATAAAA-ATAAGATAAAGAAAGAAAAGAAAAAATA-TATA-TAAATA-AAATAATAAAA
43144 AAATAAAAATAA-ATAAAGAAA-AAGAAGAAAAAATATATATAAATAAAATAATAAAA
1 AAATAAAAATAAGATAAAGAAAGAA-AAGAAAAAATATATATAAATAAAATAATAAAA
*
43200 AAGTAAAAATAA
1 AAATAAAAATAA
43212 TATATATATA
Statistics
Matches: 61, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
55 11 0.18
56 38 0.62
57 4 0.07
58 8 0.13
ACGTcount: A:0.73, C:0.02, G:0.09, T:0.17
Consensus pattern (57 bp):
AAATAAAAATAAGATAAAGAAAGAAAAGAAAAAATATATATAAATAAAATAATAAAA
Found at i:43201 original size:35 final size:35
Alignment explanation
Indices: 43150--43256 Score: 96
Period size: 35 Copynumber: 3.0 Consensus size: 35
43140 AAAAAAATAA
43150 AAAT-AAATAA-AGAAAAAG-AAGAAAAAATATATAT
1 AAATAAAATAATA-AAAAAGTAA-AAAAAATATATAT
*
43184 AAATAAAATAATAAAAAAGTAAAAATAATATATAT
1 AAATAAAATAATAAAAAAGTAAAAAAAATATATAT
* * **
43219 ATATATATATAATAAATAAA-TAATAGTAAATATATAT
1 AAATA-AAATAATAAA-AAAGTAA-AAAAAATATATAT
43256 A
1 A
43257 TATATATATA
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
34 4 0.07
35 28 0.46
36 15 0.25
37 14 0.23
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (35 bp):
AAATAAAATAATAAAAAAGTAAAAAAAATATATAT
Found at i:43216 original size:2 final size:2
Alignment explanation
Indices: 43211--43278 Score: 86
Period size: 2 Copynumber: 34.5 Consensus size: 2
43201 AGTAAAAATA
* * *
43211 AT AT AT AT AT AT AT AT AT A- AT AA AT AA AT A- AT AGT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
43252 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
43279 AATTAATAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
1 2 0.04
2 53 0.93
3 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (2 bp):
AT
Found at i:43219 original size:39 final size:43
Alignment explanation
Indices: 43176--43266 Score: 127
Period size: 39 Copynumber: 2.2 Consensus size: 43
43166 AGAAGAAAAA
43176 ATATATATAAATAAAAT-AATAAA-AA-AGTAAAAATA-ATAT
1 ATATATATAAATAAAATAAATAAATAATAGTAAAAATATATAT
* * *
43215 ATATATATATATATAATAAATAAATAATAGTAAATATATATAT
1 ATATATATAAATAAAATAAATAAATAATAGTAAAAATATATAT
43258 ATATATATA
1 ATATATATA
43267 TATATATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
39 15 0.33
40 6 0.13
41 2 0.04
42 9 0.20
43 13 0.29
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (43 bp):
ATATATATAAATAAAATAAATAAATAATAGTAAAAATATATAT
Found at i:43352 original size:25 final size:24
Alignment explanation
Indices: 43297--43359 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
43287 AAACTGATAA
* *
43297 TAAAAAATAATATATATATATAATC
1 TAAAAAATAA-AAATATATATAAAC
*
43322 TAAAAAAATAAAAATATATACTAAAG
1 T-AAAAAATAAAAATATATA-TAAAC
*
43348 TAAAAAAGAAAA
1 TAAAAAATAAAA
43360 TGCATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 19 0.59
26 13 0.41
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (24 bp):
TAAAAAATAAAAATATATATAAAC
Found at i:43353 original size:27 final size:26
Alignment explanation
Indices: 43298--43354 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
43288 AACTGATAAT
* *
43298 AAAAAATAATATATATATATAATCTA
1 AAAAAATAATAAATATATATAAACTA
*
43324 AAAAAATAA-AAATATATACTAAAGTA
1 AAAAAATAATAAATATATA-TAAACTA
43350 AAAAA
1 AAAAA
43355 GAAAATGCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (26 bp):
AAAAAATAATAAATATATATAAACTA
Found at i:44600 original size:36 final size:36
Alignment explanation
Indices: 44553--44783 Score: 219
Period size: 36 Copynumber: 6.6 Consensus size: 36
44543 GTTTTTTTTC
* *
44553 TTCAAGAGAAACTGTCTCAAGAGGGACAAAATTTGT
1 TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
** *
44589 TTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAG-
1 TTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGT
* * * * *
44625 TTCTAAAGGAAACTATCTCAAGGGAGACGAAATTAGT
1 TTC-AAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
* * * *
44662 TTCAAGGAAAAGATAT-TC-A-A-AG----ATTTTGT
1 TTCAAGGGAAA-CTGTCTCAAGAGAGACAAAATTTGT
*
44691 TTCAAGGGAATCTGTCTCAAGAGAGACAAAATTTGT
1 TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
*
44727 TTCAAGGGAAACTGTCTCAAGAGAGACAAGATTTTGT
1 TTCAAGGGAAACTGTCTCAAGAGAGACAA-AATTTGT
44764 TTCAAGGGAAACTGTCTCAA
1 TTCAAGGGAAACTGTCTCAA
44784 AACTCGTTTT
Statistics
Matches: 162, Mismatches: 20, Indels: 25
0.78 0.10 0.12
Matches are distributed among these distances:
28 2 0.01
29 16 0.10
30 1 0.01
31 1 0.01
32 2 0.01
33 2 0.01
35 1 0.01
36 78 0.48
37 59 0.36
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (36 bp):
TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGT
Found at i:44784 original size:102 final size:102
Alignment explanation
Indices: 44584--44770 Score: 254
Period size: 102 Copynumber: 1.8 Consensus size: 102
44574 AGGGACAAAA
*
44584 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAGGAAACTATCTCAAGGG
1 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAGGAAACTATCTCAAGAG
44649 AGACGAAATTAGTTTCAAGGAAAAGATATTCAAAGAT
66 AGACGAAATTAGTTTCAAGGAAAAGATATTCAAAGAT
** * * * *
44686 TTTGTTTCAAGGGAATCTGTCTCAAGAGAGACAAAA-TTTGTT-TCAAGGGAAACTGTCTCAAGA
1 TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCT-AAAGGAAACTATCTCAAGA
*
44749 GAGAC-AAGATTTTGTTTCAAGG
65 GAGACGAA-A-TTAGTTTCAAGG
44771 GAAACTGTCT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
100 3 0.04
101 27 0.36
102 44 0.59
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.28
Consensus pattern (102 bp):
TTTGTTTCAAAAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCTAAAGGAAACTATCTCAAGAG
AGACGAAATTAGTTTCAAGGAAAAGATATTCAAAGAT
Found at i:44999 original size:102 final size:102
Alignment explanation
Indices: 44821--45060 Score: 320
Period size: 102 Copynumber: 2.4 Consensus size: 102
44811 ATATTTTGTG
** *
44821 TTTCAAGGGAAACATTTTCAAGGTTTATGTTTC-AGAGAAACTATCTCAAAGGAGACAAAATGTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAAGGAGACAAAATGTT
* * * *
44885 GTTTTAATGGAAACTATCTCAAGAGAGACAAAATTAA
66 GTTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
* * * * *
44922 TTTCAAAGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTTAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAAGGAGACAAAATGTT
* * * *
44987 GTTTCAAGGGAAACTACCCCAGGCGAGATAAAATTTA
66 GTTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
45024 TTTCAAGGGAAATGTTTTTCAATGTTTATGTTTCAAG
1 TTTCAAGGGAAATG-TTTTCAATGTTTATGTTTCAAG
45061 GGAGACAAAA
Statistics
Matches: 120, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
101 29 0.24
102 69 0.57
103 22 0.18
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (102 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAAGGAGACAAAATGTT
GTTTCAAGGGAAACTACCCCAAGAGAGACAAAATTAA
Found at i:45079 original size:88 final size:87
Alignment explanation
Indices: 44970--45143 Score: 285
Period size: 88 Copynumber: 2.0 Consensus size: 87
44960 AAACTGTCTT
* * *
44970 AAGGGAGACAAAATTTTGTTTCAAGGGAAACTACCCCAGGCGAGATAAAATTTATTTCAAGGGAA
1 AAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGGAA
45035 ATGTTTTTCAATGTTTATGTTTC
66 ATG-TTTTCAATGTTTATGTTTC
* * *
45058 AAGGGAGACAAAATTTCGTTTCAAGGGAAACTATCTCAATCGAGATAAAATTCATTTCAAGGGAA
1 AAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGGAA
45123 ATGTTTTCAATGTTTATGTTT
66 ATGTTTTCAATGTTTATGTTT
45144 TAAGAGAAAC
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
87 18 0.22
88 62 0.77
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (87 bp):
AAGGGAGACAAAATTTCGTTTCAAGGGAAACTACCCCAAGCGAGATAAAATTCATTTCAAGGGAA
ATGTTTTCAATGTTTATGTTTC
Found at i:45580 original size:106 final size:106
Alignment explanation
Indices: 45405--45620 Score: 279
Period size: 106 Copynumber: 2.0 Consensus size: 106
45395 GTATTGTTCT
* * * * *
45405 GAGTCCAATATCCTCCGCCGTGAAGTTAAAATTGGCTCTGGAACTAAGAAATTGTTTGTTGACAG
1 GAGTCCAATATCATCCGACGTGAAGTTAAAATTGACTCTGAAACTAAGAAATTGTTTGTTGACAA
* *
45470 CCAGCTGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTC
66 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTC
* * * * **
45511 GAGTCCAATATCATTCGATGTGAAGTTGAAATTGACTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCATCCGACGTGAAGTTAAAATTGACTCTGAAACTAAGAAATTGTTTGTTGACAA
* * * *
45576 CCAGCCGTCCCTTCGTTGTGGAGTTGAACTTGTGTTGTCTC
66 CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTC
45617 GAGT
1 GAGT
45621 GGCACGATAT
Statistics
Matches: 93, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
106 93 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (106 bp):
GAGTCCAATATCATCCGACGTGAAGTTAAAATTGACTCTGAAACTAAGAAATTGTTTGTTGACAA
CCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTC
Found at i:46239 original size:32 final size:31
Alignment explanation
Indices: 46198--46317 Score: 141
Period size: 32 Copynumber: 3.7 Consensus size: 31
46188 TTTGCATCAG
* * *
46198 GATGTTGAATTCTCAAAGATGCCCCAATATTC
1 GATGTTGAA-TCTCAAAAATGCCCCAACATTT
46230 GATGTTGAATCTCAAAAAATGCCCCAACATTT
1 GATGTTGAATCTC-AAAAATGCCCCAACATTT
* * *
46262 GATGTTAAATCTAAAAAAATGCCTCAACATTT
1 GATGTTGAATCT-CAAAAATGCCCCAACATTT
*
46294 GATGTTGAATCTTCAAAGATGCCC
1 GATGTTGAATC-TCAAAAATGCCC
46318 TCATTGTTCC
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
31 4 0.05
32 70 0.93
33 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (31 bp):
GATGTTGAATCTCAAAAATGCCCCAACATTT
Found at i:49000 original size:10 final size:10
Alignment explanation
Indices: 48987--49019 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
48977 TCTAAAAAAG
48987 AAAAAAAGAA
1 AAAAAAAGAA
48997 AAAAAAAG-A
1 AAAAAAAGAA
*
49006 AGAAAAAGAA
1 AAAAAAAGAA
49016 AAAA
1 AAAA
49020 TAAATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
9 8 0.40
10 12 0.60
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:49002 original size:19 final size:19
Alignment explanation
Indices: 48980--49019 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
48970 AAATAAATCT
48980 AAAAAAGAA-AAAAAGAAA
1 AAAAAAGAAGAAAAAGAAA
48998 AAAAAAGAAGAAAAAGAAA
1 AAAAAAGAAGAAAAAGAAA
49017 AAA
1 AAA
49020 TAAATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (19 bp):
AAAAAAGAAGAAAAAGAAA
Found at i:49036 original size:17 final size:17
Alignment explanation
Indices: 49016--49072 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
49006 AGAAAAAGAA
49016 AAAATAAATAAATAAAT
1 AAAATAAATAAATAAAT
49033 AAAAT-AATAAA-AAAGT
1 AAAATAAATAAATAAA-T
*
49049 AAAAATAATATATATATAAT
1 -AAAATAA-ATAAATA-AAT
49069 AAAA
1 AAAA
49073 AAAGTATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
15 3 0.09
16 7 0.21
17 10 0.30
18 1 0.03
19 8 0.24
20 2 0.06
21 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (17 bp):
AAAATAAATAAATAAAT
Found at i:49045 original size:28 final size:28
Alignment explanation
Indices: 49014--49106 Score: 82
Period size: 28 Copynumber: 3.1 Consensus size: 28
49004 GAAGAAAAAG
49014 AAAAAATAAATAAATAA-ATA-AAATAATA
1 AAAAAAT-AA-AAATAATATATAAATAATA
* *
49042 AAAAAGTAAAAATAATATATATATAATA
1 AAAAAATAAAAATAATATATAAATAATA
*
49070 AAAAAAGTATATATATATATATATAAATTAATA
1 AAAAAA-TA-A-AAATA-ATATATAAA-TAATA
49103 AAAA
1 AAAA
49107 TGATAATAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
26 6 0.11
27 5 0.09
28 18 0.34
29 2 0.04
30 1 0.02
31 4 0.08
32 8 0.15
33 9 0.17
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (28 bp):
AAAAAATAAAAATAATATATAAATAATA
Found at i:49103 original size:69 final size:69
Alignment explanation
Indices: 49023--49159 Score: 165
Period size: 69 Copynumber: 2.0 Consensus size: 69
49013 GAAAAAATAA
* *
49023 ATAAATAAAT-AAAATAATAA-AAAAGTAAA-AATAATATATATATAA-TAAAAAAAGTATATAT
1 ATAAATAAATAAAAATAATAATAAAA--AAATAAT-ATATATATATAACTAAAAAAAATA-AAAT
49084 ATATATAT
62 ATATATAT
* *
49092 ATAAATTAATAAAAATGATAATAAAAAAATAATATATATATATAATCTAAAAAAAATAAAATATA
1 ATAAATAAATAAAAATAATAATAAAAAAATAATATATATATATAA-CTAAAAAAAATAAAATATA
49157 TAT
65 TAT
49160 TAAAGTAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
69 24 0.41
70 21 0.36
71 14 0.24
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (69 bp):
ATAAATAAATAAAAATAATAATAAAAAAATAATATATATATATAACTAAAAAAAATAAAATATAT
ATAT
Found at i:49170 original size:27 final size:27
Alignment explanation
Indices: 49114--49171 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
49104 AAATGATAAT
* *
49114 AAAAAAATAATATATATATATAATCTA
1 AAAAAAATAAAATATATATATAAACTA
*
49141 AAAAAAATAAAATATATAT-TAAAGTA
1 AAAAAAATAAAATATATATATAAACTA
49167 AAAAA
1 AAAAA
49172 GAAAATGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (27 bp):
AAAAAAATAAAATATATATATAAACTA
Found at i:59629 original size:34 final size:32
Alignment explanation
Indices: 59559--59633 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
59549 TTTAGGCGAT
* *
59559 ATGACACGTGTCATGTTATCAGTTTAGGTAAC
1 ATGACACATGTCATGCTATCAGTTTAGGTAAC
* * *
59591 ATGACACATGTCATGCTATTATTTTAAGGGTGAC
1 ATGACACATGTCATGCTATCAGTTT-A-GGTAAC
59625 ATGACACAT
1 ATGACACAT
59634 AATGCATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
32 21 0.58
33 1 0.03
34 14 0.39
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (32 bp):
ATGACACATGTCATGCTATCAGTTTAGGTAAC
Found at i:60608 original size:21 final size:21
Alignment explanation
Indices: 60582--60623 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
60572 AAGATAGTAA
*
60582 AATTATTTTAT-ATTATATTAT
1 AATTATTTAATAATT-TATTAT
60603 AATTATTTAATAATTTATTAT
1 AATTATTTAATAATTTATTAT
60624 TTTATTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
AATTATTTAATAATTTATTAT
Found at i:62459 original size:21 final size:21
Alignment explanation
Indices: 62435--62478 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
62425 AGATGCCATT
62435 GCAGCTGAG-TCAGATGACACC
1 GCAGCT-AGTTCAGATGACACC
* *
62456 GCAGCTAGTTTAGATGCCACC
1 GCAGCTAGTTCAGATGACACC
62477 GC
1 GC
62479 CGCAAGGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.18
Consensus pattern (21 bp):
GCAGCTAGTTCAGATGACACC
Found at i:64040 original size:21 final size:21
Alignment explanation
Indices: 64014--64058 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
64004 GATTTCTGGG
* *
64014 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
64035 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
64056 CAA
1 CAA
64059 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:64666 original size:18 final size:18
Alignment explanation
Indices: 64643--64677 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
64633 CTAGGAGATT
64643 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
64661 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
64678 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:65662 original size:149 final size:149
Alignment explanation
Indices: 65482--65785 Score: 581
Period size: 149 Copynumber: 2.0 Consensus size: 149
65472 GAGTCGAGGG
65482 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
* *
65547 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTATATGTGGTCCTTATGGACATCATTA
*
65612 TATGGCACTACGGTGCACT
131 TATGGCACTACGGTGCAAT
65631 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
65696 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTATATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTATATGTGGTCCTTATGGACATCATTA
65761 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
65780 TCTACG
1 TCTACG
65786 GGGCACTTCG
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTATATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:65808 original size:23 final size:23
Alignment explanation
Indices: 65764--65808 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
65754 ATCATTATAT
*
65764 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
65787 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
65809 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:69548 original size:18 final size:18
Alignment explanation
Indices: 69525--69559 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
69515 CTAGGAGATT
69525 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
69543 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
69560 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:70543 original size:149 final size:149
Alignment explanation
Indices: 70363--70666 Score: 581
Period size: 149 Copynumber: 2.0 Consensus size: 149
70353 GAGTCGAGGG
70363 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
* *
70428 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTATATGTGGTCCTTATGGACATCATTA
*
70493 TATGGCACTACGGTGCACT
131 TATGGCACTACGGTGCAAT
70512 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
70577 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTATATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTATATGTGGTCCTTATGGACATCATTA
70642 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
70661 TCTACG
1 TCTACG
70667 GGGCACTTCG
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTATATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:70689 original size:23 final size:23
Alignment explanation
Indices: 70645--70689 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
70635 ATCATTATAT
*
70645 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
70668 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
70690 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:78592 original size:27 final size:27
Alignment explanation
Indices: 78561--78646 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 27
78551 ATTCTGACAT
78561 AACCATTGATTCTATAGCCATCTGCAG
1 AACCATTGATTCTATAGCCATCTGCAG
** *
78588 AACCAGAGA-GC-A-AGACCATTCTG-ACG
1 AACCATTGATTCTATAG-CCA-TCTGCA-G
78614 TAACCATTGATTCTATAGCCATCTGCAG
1 -AACCATTGATTCTATAGCCATCTGCAG
78642 AACCA
1 AACCA
78647 GAGAGTAAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
24 2 0.04
25 5 0.11
26 6 0.13
27 19 0.42
28 6 0.13
29 5 0.11
30 2 0.04
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (27 bp):
AACCATTGATTCTATAGCCATCTGCAG
Found at i:78624 original size:54 final size:54
Alignment explanation
Indices: 78542--78694 Score: 225
Period size: 54 Copynumber: 2.8 Consensus size: 54
78532 ACAACTAGAA
* *
78542 AGCAAGATCATTCTGACATAACCATTGATTCTATAGCCATCTGCAGAACCAGAG
1 AGCAAGACCATTCTGACGTAACCATTGATTCTATAGCCATCTGCAGAACCAGAG
78596 AGCAAGACCATTCTGACGTAACCATTGATTCTATAGCCATCTGCAGAACCAGAG
1 AGCAAGACCATTCTGACGTAACCATTGATTCTATAGCCATCTGCAGAACCAGAG
* * ** * * *
78650 AGTAAGACCATTCTGAAGTAACTGTTAAATCTATAGCCATATGCA
1 AGCAAGACCATTCTGACGTAACCATTGATTCTATAGCCATCTGCA
78695 TTACCTAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 90 1.00
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (54 bp):
AGCAAGACCATTCTGACGTAACCATTGATTCTATAGCCATCTGCAGAACCAGAG
Found at i:79259 original size:2 final size:2
Alignment explanation
Indices: 79252--79281 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
79242 AAGAGGAATT
*
79252 GA GA GA GA GA GA GA GA GA GA CA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
79282 AACAGGAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:83259 original size:18 final size:18
Alignment explanation
Indices: 83236--83273 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
83226 GATATTTTAT
83236 TTTAATATAGAAAGACTC
1 TTTAATATAGAAAGACTC
83254 TTTAATATAGAAAGACTC
1 TTTAATATAGAAAGACTC
83272 TT
1 TT
83274 CTCCTCCCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (18 bp):
TTTAATATAGAAAGACTC
Found at i:91688 original size:4 final size:4
Alignment explanation
Indices: 91679--91707 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
91669 GTGTTAATAT
91679 AGTG AGTG AGTG AGTG AGTG AGTG AGTG A
1 AGTG AGTG AGTG AGTG AGTG AGTG AGTG A
91708 CCCATCTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.48, T:0.24
Consensus pattern (4 bp):
AGTG
Found at i:98698 original size:33 final size:33
Alignment explanation
Indices: 98656--98756 Score: 168
Period size: 33 Copynumber: 3.1 Consensus size: 33
98646 GATATTAAGC
*
98656 CTTTTAATAATCAT-AAGATTCAACAAAGTAACA
1 CTTTTAATAATC-TGAAGACTCAACAAAGTAACA
98689 CTTTTAATAATCTGAAGACTCAACAAAGTAACA
1 CTTTTAATAATCTGAAGACTCAACAAAGTAACA
*
98722 CTTTTAATAATCTGAAGACTCAATAAAGTAACA
1 CTTTTAATAATCTGAAGACTCAACAAAGTAACA
98755 CT
1 CT
98757 ATAGTGTGAA
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
32 1 0.02
33 64 0.98
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.30
Consensus pattern (33 bp):
CTTTTAATAATCTGAAGACTCAACAAAGTAACA
Found at i:99849 original size:4 final size:4
Alignment explanation
Indices: 99842--99885 Score: 54
Period size: 4 Copynumber: 11.2 Consensus size: 4
99832 ATATATATAT
* * *
99842 ATAA ATAA TTAA ATAA TTAA ATAA TTAA ATAA ATAA AT-A ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
99886 AAGAATAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (4 bp):
ATAA
Found at i:99854 original size:8 final size:8
Alignment explanation
Indices: 99843--99882 Score: 71
Period size: 8 Copynumber: 5.0 Consensus size: 8
99833 TATATATATA
99843 TAAATAAT
1 TAAATAAT
99851 TAAATAAT
1 TAAATAAT
99859 TAAATAAT
1 TAAATAAT
*
99867 TAAATAAA
1 TAAATAAT
99875 TAAATAAT
1 TAAATAAT
99883 AAAAAGAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
TAAATAAT
Found at i:99892 original size:16 final size:16
Alignment explanation
Indices: 99842--99903 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
99832 ATATATATAT
*
99842 ATAAATAATTAAATAA
1 ATAAATAATTAAAAAA
* *
99858 TTAAATAATTAAATAA
1 ATAAATAATTAAAAAA
99874 ATAAATAA-TAAAAAGA
1 ATAAATAATTAAAAA-A
99890 ATAAA-ATATTAAAA
1 ATAAATA-ATTAAAA
99904 GTACCGAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
15 6 0.15
16 29 0.73
17 5 0.12
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (16 bp):
ATAAATAATTAAAAAA
Found at i:101543 original size:84 final size:83
Alignment explanation
Indices: 101416--102054 Score: 670
Period size: 84 Copynumber: 7.7 Consensus size: 83
101406 TTGAATATAA
* * *
101416 TCGAACTCGAAGGTC--T-TTAGCAGATAGCCCTTCTCTACTTAAGTTATGCTGCAAATGATGTG
1 TCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
*
101478 CCTTGGAGCTGAGCATAG
66 CCTTGGAGCTGAGCGTAG
*
101496 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
101561 GCCTTGGAGCTGAGCATAG
65 GCCTTGGAGCTGAGCGTAG
* ** * * * * *
101580 TTGAACTCGAAGGTCTTTTGTTGATAGATAACCC-TCATAGCCTTGAGTTATGTTGTAAATGATG
1 TCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTC-TCGACTTAAGTTATGCTGCAAATGATG
* * * *
101644 TGCCCTCGAAGCTGAGTGTAA
64 TG-CCTTGGAGCTGAGCGTAG
* * * * **
101665 TCGAACTTGACGGTC--T-TTGGCAGATAACCCTTATTGACTTAACCTATGCTGCAAATGATGTG
1 TCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
101727 CCTTGGAGCTGAGCGTAG
66 CCTTGGAGCTGAGCGTAG
* * *
101745 TCGAACTCGAAGGTTTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATAT
1 TCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* *
101810 GCCTTGGAGTTGGGCGTAG
65 GCCTTGGAGCTGAGCGTAG
* * * * * * * *
101829 TCGAACTCGAAGGTATTTTGTTGACATATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGT
1 TCGAACTCGAAGGT-CTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * *
101894 GCCCTCGAAGCTGAGTGTAA
65 G-CCTTGGAGCTGAGCGTAG
* * * * *
101914 TCGAACTCGAGGGTC--T-TTGGCAGATAGCTCTTCTCAACTTAAGCTATGCTGCAAATGATGTG
1 TCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
101976 CCTTGGAGCTGAGCGTAG
66 CCTTGGAGCTGAGCGTAG
* * * *
101994 TCGAACTC-AGAGGTCTTTAGTTGACAGATATCCATTCTCGACTTAAGTTATGCTGTAAATG
1 TCGAACTCGA-AGGTCTTT-GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
102055 TTGTCTTTAA
Statistics
Matches: 456, Mismatches: 84, Indels: 34
0.79 0.15 0.06
Matches are distributed among these distances:
79 1 0.00
80 67 0.15
81 69 0.15
82 6 0.01
83 2 0.00
84 254 0.56
85 57 0.12
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (83 bp):
TCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
CCTTGGAGCTGAGCGTAG
Found at i:101851 original size:249 final size:248
Alignment explanation
Indices: 101344--102054 Score: 1014
Period size: 249 Copynumber: 2.9 Consensus size: 248
101334 AAACTCGACA
* * * ** * * * * *
101344 ATTTTATTGACATATATCCCTTCTTTCCTTGAGCTATGTTGTAAGCTTGATTTG-CCTCTAAGTT
1 ATTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAA--ATGATGTGCCCTCGAAGCT
* * * *
101408 GAATATAATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCTACTTAAGTTATGCTGCAAATG
64 GAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCT-TACTTAAGCTATGCTGCAAATG
*
101473 ATGTGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGAC
128 ATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGAC
* *
101538 TTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCATAGTTGAACTCGAAGGT
193 TTAAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGT
* *
101594 CTTTTGTTGATAGATAACCC-TCATAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTG
1 ATTTTGTTGACAGATAACCCTTC-TAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTG
* * * * *
101658 AGTGTAATCGAACTTGACGGTCTTTGGCAGATAACCCTTATTGACTTAACCTATGCTGCAAATGA
65 AGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTT-ACTTAAGCTATGCTGCAAATGA
*
101723 TGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTGGTTGGCAGATAACCCTTCTCGACT
129 TGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACT
* * *
101788 TAAGTTATGCTGTAAATGATATGCCTTGGAGTTGGGCGTAGTCGAACTCGAAGGT
194 TAAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGT
*
101843 ATTTTGTTGACATATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGA
1 ATTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGA
* * *
101908 GTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCTCTTCTCAACTTAAGCTATGCTGCAAATGAT
66 GTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCT-TACTTAAGCTATGCTGCAAATGAT
* * * *
101973 GTGCCTTGGAGCTGAGCGTAGTCGAACTC-AGAGGTCTTTAGTTGACAGATATCCATTCTCGACT
130 GTGCCTTGGAGCTGAGCGTAGTCGAACTCGA-AGGTCTTTGGTTGGCAGATAACCCTTCTCGACT
102037 TAAGTTATGCTGTAAATG
194 TAAGTTATGCTGTAAATG
102055 TTGTCTTTAA
Statistics
Matches: 412, Mismatches: 43, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
248 8 0.02
249 369 0.90
250 35 0.08
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (248 bp):
ATTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGA
GTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTACTTAAGCTATGCTGCAAATGATG
TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
AGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCATAGTCGAACTCGAAGGT
Found at i:101936 original size:165 final size:164
Alignment explanation
Indices: 101412--102054 Score: 632
Period size: 165 Copynumber: 3.9 Consensus size: 164
101402 TAAGTTGAAT
* * *
101412 ATAATCGAACTCGAAGGTCTTTAGCAGATAGCCCTTCTCTACTTAAGTTATGCTGCAAATGATGT
1 ATAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * *
101477 GCCTTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAA
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTTGTTGACAGATAACCCTTCTCGACTTAA
* * * *
101542 GTTATGCTGCAAATGATATGCCTTGGAGCTGAGC
131 GTTATGCTGTAAATGATGTGCCTCGAAGCTGAGC
* * * * * * * *
101576 ATAGTTGAACTCGAAGGTCTTTTGTTGATAGATAACCC-TCATAGCCTTGAGTTATGTTGTAAAT
1 ATAATCGAACTCGAAGGTC-TTTG--G-CAGATAACCCTTC-TCGACTTAAGTTATGCTGCAAAT
* * * * * * * * *
101640 GATGTGCCCTCGAAGCTGAGTGTAATCGAACTTGACGGT-CTTTG--G-CAGATAACCCTTATTG
61 GATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTTGTTGACAGATAACCCTTCTCG
** * * *
101701 ACTTAACCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
125 ACTTAAGTTATGCTGTAAATGATGTGCCTCGAAGCTGAGC
* * * *
101741 GTAGTCGAACTCGAAGGTTTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATG
1 ATAATCGAACTCGAAGG--TCT--TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
* * * * * *
101806 ATATGCCTTGGAGTTGGGCGTAGTCGAACTCGAAGGTATTTTGTTGACATATAACCCTTCTAGCC
62 ATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTTGTTGACAGATAACCCTTCTCGAC
* * *
101871 TTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGT
127 TTAAGTTATGCTGTAAATGATGTG-CCTCGAAGCTGAGC
* * * * * *
101910 GTAATCGAACTCGAGGGTCTTTGGCAGATAGCTCTTCTCAACTTAAGCTATGCTGCAAATGATGT
1 ATAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * *
101975 GCCTTGGAGCTGAGCGTAGTCGAACTC-AGAGGTCTTTAGTTGACAGATATCCATTCTCGACTTA
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGA-AGGTATTTTGTTGACAGATAACCCTTCTCGACTTA
102039 AGTTATGCTGTAAATG
130 AGTTATGCTGTAAATG
102055 TTGTCTTTAA
Statistics
Matches: 387, Mismatches: 75, Indels: 33
0.78 0.15 0.07
Matches are distributed among these distances:
164 42 0.11
165 212 0.55
166 5 0.01
167 7 0.02
168 70 0.18
169 51 0.13
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (164 bp):
ATAATCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTTGTTGACAGATAACCCTTCTCGACTTAA
GTTATGCTGTAAATGATGTGCCTCGAAGCTGAGC
Found at i:104827 original size:19 final size:19
Alignment explanation
Indices: 104803--104845 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
104793 ACACATAGTC
*
104803 GCATTGTAGATTGTCCTCT
1 GCATTGTAGACTGTCCTCT
104822 GCATTGTAGACTGTCCTCT
1 GCATTGTAGACTGTCCTCT
104841 GCATT
1 GCATT
104846 TTCATCTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.40
Consensus pattern (19 bp):
GCATTGTAGACTGTCCTCT
Found at i:106076 original size:9 final size:8
Alignment explanation
Indices: 106053--106077 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
106043 AAAAAGAAAG
106053 AGGAAAAA
1 AGGAAAAA
106061 AGGAAAAA
1 AGGAAAAA
106069 AGGAAAAA
1 AGGAAAAA
106077 A
1 A
106078 TATGAGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (8 bp):
AGGAAAAA
Found at i:106095 original size:3 final size:3
Alignment explanation
Indices: 106087--106120 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
106077 ATATGAGATA
106087 AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
106121 AACAAACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:111114 original size:103 final size:103
Alignment explanation
Indices: 110935--111160 Score: 416
Period size: 103 Copynumber: 2.2 Consensus size: 103
110925 GTCGAGGGTC
**
110935 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTATGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
111000 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGAATATGATTCTTAAGGAATGA
*
111038 TATGTGGTCCTTTTGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTATGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
111103 TTGATCCCTAGTATATGAATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGAATATGATTCTTAAGGAATGA
111141 TATGTGGTCCTTATGGACAT
1 TATGTGGTCCTTATGGACAT
111161 TATTATATGG
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 119 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTATGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGTATATGAATATGATTCTTAAGGAATGA
Found at i:115630 original size:22 final size:22
Alignment explanation
Indices: 115602--115644 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
115592 AACGGTCAAC
115602 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
115624 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
115645 AGACCGGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:115665 original size:19 final size:19
Alignment explanation
Indices: 115643--115720 Score: 113
Period size: 19 Copynumber: 4.1 Consensus size: 19
115633 TCGGGTCGGG
115643 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
115662 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
115681 TC-GAACCGGTCAAACCGGT
1 TCAG-ACCGGTCAAACCGGT
* *
115700 TCAAAACTGGTCAAACCGGT
1 TC-AGACCGGTCAAACCGGT
115720 T
1 T
115721 TTCCAGCAGC
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
18 1 0.02
19 38 0.70
20 15 0.28
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.18
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:115703 original size:10 final size:9
Alignment explanation
Indices: 115641--115719 Score: 86
Period size: 9 Copynumber: 8.3 Consensus size: 9
115631 GGTCGGGTCG
*
115641 GGTCAGACC
1 GGTCAAACC
115650 GGTCAAACC
1 GGTCAAACC
*
115659 GGTTCAGACC
1 GG-TCAAACC
115669 GGTCAAACC
1 GGTCAAACC
*
115678 GGTTCGAACC
1 GG-TCAAACC
115688 GGTCAAACC
1 GGTCAAACC
*
115697 GGTTCAAAACT
1 GG-TC-AAACC
115708 GGTCAAACC
1 GGTCAAACC
115717 GGT
1 GGT
115720 TTTCCAGCAG
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
9 33 0.56
10 20 0.34
11 6 0.10
ACGTcount: A:0.28, C:0.29, G:0.27, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:122923 original size:17 final size:17
Alignment explanation
Indices: 122901--122939 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
122891 AACGGTCAAC
122901 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
122918 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
122935 GGTCA
1 GGTCA
122940 GACCGGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:122928 original size:7 final size:7
Alignment explanation
Indices: 122881--122911 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
122871 GTCAAAGAAA
*
122881 GTCAATG
1 GTCAACG
122888 GTCAACG
1 GTCAACG
122895 GTCAACG
1 GTCAACG
122902 GTCAACG
1 GTCAACG
122909 GTC
1 GTC
122912 GGGTCGGGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (7 bp):
GTCAACG
Found at i:122959 original size:19 final size:19
Alignment explanation
Indices: 122937--123014 Score: 113
Period size: 19 Copynumber: 4.1 Consensus size: 19
122927 TCGGGTCGGG
122937 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
122956 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
122975 TC-GAACCGGTCAAACCGGT
1 TCAG-ACCGGTCAAACCGGT
* *
122994 TCAAAACTGGTCAAACCGGT
1 TC-AGACCGGTCAAACCGGT
123014 T
1 T
123015 TTCCAGCAGC
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
18 1 0.02
19 38 0.70
20 15 0.28
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.18
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:122997 original size:10 final size:9
Alignment explanation
Indices: 122935--123013 Score: 86
Period size: 9 Copynumber: 8.3 Consensus size: 9
122925 GGTCGGGTCG
*
122935 GGTCAGACC
1 GGTCAAACC
122944 GGTCAAACC
1 GGTCAAACC
*
122953 GGTTCAGACC
1 GG-TCAAACC
122963 GGTCAAACC
1 GGTCAAACC
*
122972 GGTTCGAACC
1 GG-TCAAACC
122982 GGTCAAACC
1 GGTCAAACC
*
122991 GGTTCAAAACT
1 GG-TC-AAACC
123002 GGTCAAACC
1 GGTCAAACC
123011 GGT
1 GGT
123014 TTTCCAGCAG
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
9 33 0.56
10 20 0.34
11 6 0.10
ACGTcount: A:0.28, C:0.29, G:0.27, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:125887 original size:103 final size:103
Alignment explanation
Indices: 125662--125879 Score: 409
Period size: 103 Copynumber: 2.1 Consensus size: 103
125652 GTCGAGGGTC
125662 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
125727 ATGATCCCTAGTATATGTATATGATTCTTAAGGAATAA
66 ATGATCCCTAGTATATGTATATGATTCTTAAGGAATAA
*
125765 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAATATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
125830 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 ATGATCCCTAGTATATGTATATGATTCTTAAGGAATAA
125868 TATGTGGTCCTT
1 TATGTGGTCCTT
125880 ATGGACATTA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 112 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
ATGATCCCTAGTATATGTATATGATTCTTAAGGAATAA
Found at i:125963 original size:23 final size:23
Alignment explanation
Indices: 125886--125963 Score: 93
Period size: 23 Copynumber: 3.3 Consensus size: 23
125876 CCTTATGGAC
*
125886 ATTATTATATGGCACTACGGTGCA
1 ATTA-TATGTGGCACTACGGTGCA
* *
125910 ATTATACGCGGCACTACGGTGCA
1 ATTATATGTGGCACTACGGTGCA
* *
125933 ATTCTATGTGGCACTTCGGTGCA
1 ATTATATGTGGCACTACGGTGCA
*
125956 TTTATATG
1 ATTATATG
125964 AGCTGTGGTG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 41 0.91
24 4 0.09
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.33
Consensus pattern (23 bp):
ATTATATGTGGCACTACGGTGCA
Found at i:130925 original size:103 final size:103
Alignment explanation
Indices: 130746--130963 Score: 418
Period size: 103 Copynumber: 2.1 Consensus size: 103
130736 TTCGAGGGTC
*
130746 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATAC
*
130811 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGAATATGATTCTTAAGGAATGA
130849 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATAC
130914 TTGATCCCTAGTATATGAATATGATTCTTAAGGAATGA
66 TTGATCCCTAGTATATGAATATGATTCTTAAGGAATGA
130952 TATGTGGTCCTT
1 TATGTGGTCCTT
130964 ATGGAGATTA
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 113 1.00
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATAC
TTGATCCCTAGTATATGAATATGATTCTTAAGGAATGA
Found at i:131036 original size:23 final size:23
Alignment explanation
Indices: 130979--131037 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
130969 GATTATTATA
130979 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* * *
131002 CGGTACTACGGTGCAATTCTATG
1 TGGCACTACGGTGCAATTCTACG
*
131025 TGGCACTTCGGTG
1 TGGCACTACGGTG
131038 TATTTATATG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.29
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:131897 original size:3 final size:3
Alignment explanation
Indices: 131889--131923 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
131879 AAGATAATTA
131889 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
131924 GATGGTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:132352 original size:131 final size:130
Alignment explanation
Indices: 132107--132388 Score: 385
Period size: 131 Copynumber: 2.2 Consensus size: 130
132097 GAGATTTTTT
* * * *
132107 AAGATCAAATCTG--AAAAGAGATATGCTCTGCTACTTTTCAGGGTAAATCAATCTGGAAACTTT
1 AAGATCAAATCTGAAAAAAGGGATATGCTCTGCTACTCTTCAGGGTAAATCAATCTAGAAACGTT
* * * *
132170 GATTCACTTCACTACTCTTCAGGGAAGATTGAATCGAGGTAGATTTTCTTCACAT-CTCTTTAGA
66 GATTCACTTCACTACTCTTCAGAGAAGATTGAATCAAGGTAGATTTGCTTCAC-TGCTCTTCAGA
132234 A
130 A
* *
132235 AAGATCAAATCTGAAAAAAGGGATATGCTCTGTTACTCTTCAGGGTAGATCAAATCTAGAAACGT
1 AAGATCAAATCTGAAAAAAGGGATATGCTCTGCTACTCTTCAGGGTAAATC-AATCTAGAAACGT
* *
132300 TGATTCAGTTCATTACTCTTCAGAGAAGATTGAATCAAGGTTA-ATTTGCTTCACTGCTCTTCAG
65 TGATTCACTTCACTACTCTTCAGAGAAGATTGAATCAAGG-TAGATTTGCTTCACTGCTCTTCAG
*
132364 AG
129 AA
132366 AAGATCAAATCT-AAAAAAGGGAT
1 AAGATCAAATCTGAAAAAAGGGAT
132389 TTGTTCTGAT
Statistics
Matches: 136, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
128 13 0.10
130 44 0.32
131 77 0.57
132 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (130 bp):
AAGATCAAATCTGAAAAAAGGGATATGCTCTGCTACTCTTCAGGGTAAATCAATCTAGAAACGTT
GATTCACTTCACTACTCTTCAGAGAAGATTGAATCAAGGTAGATTTGCTTCACTGCTCTTCAGAA
Found at i:133484 original size:45 final size:45
Alignment explanation
Indices: 133435--134331 Score: 973
Period size: 45 Copynumber: 20.0 Consensus size: 45
133425 ATTTAAGTTG
* * * *
133435 AGAATGACATCACTAAAAGGTTGACTCCTCTTCCCGAGAAAGTTA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
* * * * *
133480 AGAATGACATCATTAAAAGGTTGACTCCTCTTCGCTAGAAAGTCA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
* * * * *
133525 ATAATCACATCACTAAAAGGTTAACTCCTCTT-AGCGAGAAAGTCA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCA-CGAGAAAGTCA
* * * *
133570 AGAATGACATA-ACTATAACATTGACTCATCTTCGCGAGAAAGTCA
1 AGAATGACA-ACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
* * *
133615 AGAATGACATCACTAAAAGATTGACTCCTCTTCGCGAAAAAGTCA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
* * * *
133660 AAAATGACAATACTAAAAGATCGACTCCTC-T-ATGAGAAAGTCA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
* * *
133703 AGAATGACAACACTAAAAGATTAACTCATCTTCACGATAAAGTCA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
* * * * *
133748 AGAATAACATCACTAAAAGGTTGACTCATCTTTTA--AGAAAGTCA
1 AGAATGACAACACTAAAAGATTGACTCCTC-TTCACGAGAAAGTCA
* * * * *
133792 ATAAGGACAACACTAAATGATTGACTCATCTTCACAAGAAAGTCA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
* * *
133837 ATAAAGACAACACTAAAAGATTGACTCCTCTTCGCGAGAAAGTCA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
* * * * * * *
133882 AGAATAACATCACTAAAAGGTTGAGTTCTCTTCATGAGAAACTCA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
* * * * * *
133927 AGAATCACATCACTAAAATAATGACTCCTCTTCATGAGAAATTCA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
* * * **
133972 AGAAAGACAACACTAAAAGATCGAATCCTCTTCGTGAGAAAGTCA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
* * * * *
134017 AGAAGGACAACACTAAAATATTGACTCTTCTTCGCGAAAAAGTCA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
* *
134062 AGAATGACAACACTAAAAGATTGACTCTTCTTCACGAGAAAATCA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
*
134107 AGAATGACAACACTAAAAGATTGACTCTTCTTCACGAGAAAGTCA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
* *
134152 AGAATGACAACACT-AAAGATTGACTCCTCTTCACAAGAAAGTTA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
* * **
134196 AGAATGACAACACTAAAAG-TTGACTCATGTTCATAAGAAAGTCA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
* * *
134240 AGAATGACAACATTAAAAGATTGACTCTTCTTCACAAGAAAGTCA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
* * * ** *
134285 ATAATGACATCGCTAAAAGATTGACTTTTCTTCACGAAAAAGTCA
1 AGAATGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
134330 AG
1 AG
134332 TTGAGGTTTC
Statistics
Matches: 727, Mismatches: 114, Indels: 22
0.84 0.13 0.03
Matches are distributed among these distances:
43 37 0.05
44 114 0.16
45 573 0.79
46 3 0.00
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.24
Consensus pattern (45 bp):
AGAATGACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCA
Found at i:134569 original size:19 final size:20
Alignment explanation
Indices: 134537--134574 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
134527 AAAATTTATC
134537 ATGTATGTATGAAATGATGA
1 ATGTATGTATGAAATGATGA
134557 ATGTATG-ATGAAATGATG
1 ATGTATGTATGAAATGATG
134575 CAAATTCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.39, C:0.00, G:0.26, T:0.34
Consensus pattern (20 bp):
ATGTATGTATGAAATGATGA
Found at i:135836 original size:14 final size:14
Alignment explanation
Indices: 135812--135858 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
135802 GAAGTACTTG
135812 ATTTGTATTTTATT-T
1 ATTT-TATTTT-TTAT
135827 ATTTTATTTTTTAT
1 ATTTTATTTTTTAT
*
135841 TTTTTATTTTTTAT
1 ATTTTATTTTTTAT
135855 -TTTT
1 ATTTT
135859 CTATCTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 6 0.20
14 20 0.67
15 4 0.13
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (14 bp):
ATTTTATTTTTTAT
Found at i:135840 original size:7 final size:7
Alignment explanation
Indices: 135828--135858 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
135818 ATTTTATTTA
135828 TTTTATT
1 TTTTATT
135835 TTTTATT
1 TTTTATT
135842 TTTTATT
1 TTTTATT
135849 TTTTATT
1 TTTTATT
135856 TTT
1 TTT
135859 CTATCTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTATT
Found at i:135841 original size:21 final size:23
Alignment explanation
Indices: 135817--135868 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 23
135807 ACTTGATTTG
135817 TATTTTATT-TATTTTATTTTT-
1 TATTTTATTATATTTTATTTTTC
*
135838 TATTTT-TTATTTTTTATTTTTC
1 TATTTTATTATATTTTATTTTTC
135860 TATCTTTAT
1 TAT-TTTAT
135869 CTCTCTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 2 0.08
21 17 0.65
22 3 0.12
23 3 0.12
24 1 0.04
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (23 bp):
TATTTTATTATATTTTATTTTTC
Found at i:136863 original size:31 final size:31
Alignment explanation
Indices: 136803--136990 Score: 188
Period size: 31 Copynumber: 6.0 Consensus size: 31
136793 GATCCTCGGT
* * *
136803 AACTGTCTATAGGTTCCG-ATGAACCTAGGTA
1 AACTGTCCATATGTTCCGTA-GAACATAGGTA
*
136834 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
* *
136865 TACTGTCCATATG-TCTCG-AAAGACATAGGT-
1 AACTGTCCATATGTTC-CGTAGA-ACATAGGTA
136895 AACTATGTCCATATGTTCCGTAGAACATAGGTA
1 AAC--TGTCCATATGTTCCGTAGAACATAGGTA
* * *
136928 TACTGTCCATATG-TCTCGAAAAACATAGGTA
1 AACTGTCCATATGTTC-CGTAGAACATAGGTA
*
136959 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGTAGAACATAGGTA
136991 TACCCTCGAC
Statistics
Matches: 130, Mismatches: 16, Indels: 21
0.78 0.10 0.13
Matches are distributed among these distances:
30 8 0.06
31 69 0.53
32 45 0.35
33 8 0.06
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGTAGAACATAGGTA
Found at i:136912 original size:63 final size:63
Alignment explanation
Indices: 136837--136993 Score: 278
Period size: 63 Copynumber: 2.5 Consensus size: 63
136827 CTAGGTAAAC
* *
136837 TGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACATAGGTAACTA
1 TGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACATAGGTAACTA
* *
136900 TGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACATAGGTAATTC
1 TGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACATAGGTAACTA
136963 TGTCCATATGTTCCGTAGAACATAGGTATAC
1 TGTCCATATGTTCCGTAGAACATAGGTATAC
136994 CCTCGACTCT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 90 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (63 bp):
TGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACATAGGTAACTA
Found at i:137999 original size:64 final size:65
Alignment explanation
Indices: 137928--138084 Score: 162
Period size: 64 Copynumber: 2.4 Consensus size: 65
137918 CAATGAAAGT
* * * * * *
137928 ATGCATCGATGCACTACTGATGCATCGGTGCA-TAAAATGCATTCGATG-TTGTATTATCAATGG
1 ATGCATCGATGCACTACTGATGCATCGATGCACT-AAATGCATTCAATGTTTCTATTATAAAAGA
137991 G
65 G
* * * *
137992 ATGCATCGATGCA-TGTCTTATGCATCGATGCACTAATTGCATTCAATGTTTCTATTTTAAAAGA
1 ATGCATCGATGCACT-ACTGATGCATCGATGCACTAAATGCATTCAATGTTTCTATTATAAAAGA
138056 G
65 G
138057 -TGCATCGATGCACTACTTG-TGCATCGAT
1 ATGCATCGATGCACTAC-TGATGCATCGAT
138085 ACACCTTCAA
Statistics
Matches: 76, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
63 1 0.01
64 61 0.80
65 14 0.18
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (65 bp):
ATGCATCGATGCACTACTGATGCATCGATGCACTAAATGCATTCAATGTTTCTATTATAAAAGAG
Found at i:139699 original size:17 final size:18
Alignment explanation
Indices: 139670--139705 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
139660 AACTTTTTCT
139670 GAGCTCTTTCTCTTTAAA
1 GAGCTCTTTCTCTTTAAA
139688 GAGCTC-TTCTCTTTAAA
1 GAGCTCTTTCTCTTTAAA
139705 G
1 G
139706 CTTAACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (18 bp):
GAGCTCTTTCTCTTTAAA
Found at i:141391 original size:30 final size:30
Alignment explanation
Indices: 141352--141516 Score: 165
Period size: 30 Copynumber: 5.4 Consensus size: 30
141342 AGGTTTCGAT
* *
141352 GAACCTAGGTAAACTGTCCATATGTTCTTA
1 GAACATAGGTAAACTGTCCATATGTTCGTA
*
141382 GAACATAGGTATACTGTCCATATGTCTCG-A
1 GAACATAGGTAAACTGTCCATATGT-TCGTA
* *
141412 AAGACATAGGTAACTCTGTCCATATGTTCCGTA
1 GA-ACATAGGTAA-ACTGTCCATATGTT-CGTA
* *
141445 GAACATAGGTATACTGT-CATATGTCTCGAA
1 GAACATAGGTAAACTGTCCATATGT-TCGTA
* *
141475 AAACATAGGTAATTCTGTCCAT-TGTTCCGTA
1 GAACATAGGTAA-ACTGTCCATATGTT-CGTA
141506 GAACATAGGTA
1 GAACATAGGTA
141517 TACCCTCGAC
Statistics
Matches: 111, Mismatches: 15, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
30 46 0.41
31 37 0.33
32 26 0.23
33 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (30 bp):
GAACATAGGTAAACTGTCCATATGTTCGTA
Found at i:141439 original size:62 final size:61
Alignment explanation
Indices: 141357--141519 Score: 258
Period size: 62 Copynumber: 2.7 Consensus size: 61
141347 TCGATGAACC
* * *
141357 TAGGTAAACTGTCCATATGTT-CTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATCTGTCCATATGTTCCGTAGAACATAGGTATACTGT-CATATGTCTCGAAAAACA
141418 TAGGTAACTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCATATGTCTCGAAAAACA
1 TAGGTAA-TCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCATATGTCTCGAAAAACA
141480 TAGGTAATTCTGTCCAT-TGTTCCGTAGAACATAGGTATAC
1 TAGGTAA-TCTGTCCATATGTTCCGTAGAACATAGGTATAC
141520 CCTCGACTCT
Statistics
Matches: 96, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
61 30 0.31
62 46 0.48
63 20 0.21
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Consensus pattern (61 bp):
TAGGTAATCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCATATGTCTCGAAAAACA
Found at i:142611 original size:64 final size:65
Alignment explanation
Indices: 142481--142634 Score: 174
Period size: 64 Copynumber: 2.4 Consensus size: 65
142471 TGAAAGTATA
* * * ** *
142481 CATCGATGCACTA-CTGATGCATCGATGCATAAAATGCATTCGATGTTGTATTATCACTGGGATG
1 CATCGATGCACTACCTTATGCATCGATGCATAAAATGCATTCGATGTTCTATTATAAAAGAGATG
* *
142545 CATCGATGCA-TACCTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATTTTAAAAGAG-
1 CATCGATGCACTACCTTATGCATCGATGCA-TAAAATGCATTCGATG-TTCTATTATAAAAGAGA
142607 TG
64 TG
*
142609 CATCGATGCACTACC-TGTGCATCGAT
1 CATCGATGCACTACCTTATGCATCGAT
142635 ACACCTTCAA
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
63 2 0.03
64 60 0.78
65 15 0.19
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (65 bp):
CATCGATGCACTACCTTATGCATCGATGCATAAAATGCATTCGATGTTCTATTATAAAAGAGATG
Found at i:144293 original size:13 final size:13
Alignment explanation
Indices: 144275--144299 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
144265 TCCAGATTTC
144275 TCTTCTTCTTCAT
1 TCTTCTTCTTCAT
144288 TCTTCTTCTTCA
1 TCTTCTTCTTCA
144300 CCGTGAAGCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.32, G:0.00, T:0.60
Consensus pattern (13 bp):
TCTTCTTCTTCAT
Found at i:145690 original size:23 final size:23
Alignment explanation
Indices: 145602--145682 Score: 128
Period size: 23 Copynumber: 3.6 Consensus size: 23
145592 ATCTTATATA
*
145602 GCACTACGGTGCAATTCTACGTG
1 GCACTTCGGTGCAATTCTACGTG
*
145625 GCACTTCGGTGCAATTCT-CATG
1 GCACTTCGGTGCAATTCTACGTG
145647 GCACTTCGGTGCAATTCTACGTG
1 GCACTTCGGTGCAATTCTACGTG
*
145670 GCACTCCGGTGCA
1 GCACTTCGGTGCA
145683 TTTATACGAG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
22 21 0.40
23 32 0.60
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.27
Consensus pattern (23 bp):
GCACTTCGGTGCAATTCTACGTG
Found at i:148262 original size:17 final size:17
Alignment explanation
Indices: 148240--148281 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
148230 AATGACTCCG
* *
148240 AAAGAATTGCAAGATTT
1 AAAGAATCGCAAGAGTT
*
148257 AAAGAATCGCAATAGTT
1 AAAGAATCGCAAGAGTT
148274 AAAGAATC
1 AAAGAATC
148282 AATTGCAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.24
Consensus pattern (17 bp):
AAAGAATCGCAAGAGTT
Found at i:151898 original size:64 final size:64
Alignment explanation
Indices: 151793--151914 Score: 172
Period size: 64 Copynumber: 1.9 Consensus size: 64
151783 ATTGTTCAAG
* * * * **
151793 GTGTATTGATGCACATGAAGTGTATCGATGCACTCTTTTAAAATAAAAACATCGAATGCCATCA
1 GTGTATCGATGCACAAGAAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGCCATCA
* *
151857 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATACAAACATCGAATG
1 GTGTATCGATGCACAAGAAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATG
151915 GGATTTATGT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 50 1.00
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (64 bp):
GTGTATCGATGCACAAGAAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGCCATCA
Found at i:151932 original size:64 final size:63
Alignment explanation
Indices: 151793--151955 Score: 168
Period size: 64 Copynumber: 2.5 Consensus size: 63
151783 ATTGTTCAAG
* * * * **
151793 GTGTATTGATGCACATGAAGTGTATCGATGCACTCTTTTAAAATAAAAACATCGAATGCCATCA
1 GTGTA-TGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGCCATCA
* ** *
151857 GTGTATCGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATACAAACATCGAATGGGATTTA
1 GTGTAT-GATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGCCA-TCA
*
151922 -TGTACTGATGCA-GAGATAGTGCATCGATGCACCC
1 GTGTA-TGATGCACAAG-TAGTGCATCGATGCACCC
151956 GTCAAGGGAT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
63 3 0.04
64 78 0.93
65 3 0.04
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (63 bp):
GTGTATGATGCACAAGTAGTGCATCGATGCACCCCCTTAAAATAAAAACATCGAATGCCATCA
Found at i:152631 original size:23 final size:23
Alignment explanation
Indices: 152599--152657 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
152589 TCTTTATATA
*
152599 GCACTACGGTGCAATTCTACGTG
1 GCACTTCGGTGCAATTCTACGTG
152622 GCACTTCGGTGCAATTCTACGTG
1 GCACTTCGGTGCAATTCTACGTG
* *
152645 GAACTTCAGTGCA
1 GCACTTCGGTGCA
152658 TTTATACGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.27
Consensus pattern (23 bp):
GCACTTCGGTGCAATTCTACGTG
Found at i:157754 original size:31 final size:31
Alignment explanation
Indices: 157719--157788 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 31
157709 TACAATACAG
157719 TCCCTCAACATTTAGTCCATTTGCAATATGA
1 TCCCTCAACATTTAGTCCATTTGCAATATGA
* *
157750 TCCCTCAACATTTAGTCCGTTTGCAATATGG
1 TCCCTCAACATTTAGTCCATTTGCAATATGA
157781 TCCC-CAAC
1 TCCCTCAAC
157789 GTAACTGTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
30 4 0.11
31 33 0.89
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (31 bp):
TCCCTCAACATTTAGTCCATTTGCAATATGA
Found at i:159225 original size:31 final size:30
Alignment explanation
Indices: 159168--159244 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 30
159158 TCCCCAACTC
159168 TTGCAATATAGTCCCCAACATTTAGTCCGT
1 TTGCAATATAGTCCCCAACATTTAGTCCGT
* * *
159198 TTGTAATATGGTCCCTCAATATTTAGTCCGT
1 TTGCAATATAGTCCC-CAACATTTAGTCCGT
159229 TTGCAATATAGTCCCC
1 TTGCAATATAGTCCCC
159245 GACGTAACAG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
30 14 0.34
31 27 0.66
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (30 bp):
TTGCAATATAGTCCCCAACATTTAGTCCGT
Found at i:166249 original size:20 final size:16
Alignment explanation
Indices: 166200--166242 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
166190 ACTTTAACAA
166200 GAAATATATTATTTTC
1 GAAATATATTATTTTC
166216 GAAATATATTATTTTC
1 GAAATATATTATTTTC
*
166232 GAAAAATATTA
1 GAAATATATTA
166243 ATTATTTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (16 bp):
GAAATATATTATTTTC
Found at i:170044 original size:3 final size:3
Alignment explanation
Indices: 170036--170060 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
170026 TTAATCCAAG
170036 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
170061 ATATTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:170503 original size:21 final size:21
Alignment explanation
Indices: 170479--170575 Score: 86
Period size: 21 Copynumber: 4.6 Consensus size: 21
170469 AAATGTTAAG
*
170479 ACCTTTCGATGAAAGGACTTA
1 ACCTTTTGATGAAAGGACTTA
* * * *
170500 ACCTTTTGATTAAAAGATTTC
1 ACCTTTTGATGAAAGGACTTA
* *
170521 TCCTTTTGATGAAAGGGCTTA
1 ACCTTTTGATGAAAGGACTTA
* * *
170542 ACCTTTTTATAAAAGGATTTA
1 ACCTTTTGATGAAAGGACTTA
* *
170563 ATCTTTTCATGAA
1 ACCTTTTGATGAA
170576 GAGAATTGTT
Statistics
Matches: 57, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (21 bp):
ACCTTTTGATGAAAGGACTTA
Found at i:170532 original size:42 final size:42
Alignment explanation
Indices: 170480--170561 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
170470 AATGTTAAGA
170480 CCTTTCGATGAAAGGACTTAACCTTTTGATTAAAA-GATTTCT
1 CCTTTCGATGAAAGGACTTAACCTTTTGA-TAAAAGGATTTCT
* * *
170522 CCTTTTGATGAAAGGGCTTAACCTTTTTATAAAAGGATTT
1 CCTTTCGATGAAAGGACTTAACCTTTTGATAAAAGGATTT
170562 AATCTTTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
41 5 0.14
42 31 0.86
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (42 bp):
CCTTTCGATGAAAGGACTTAACCTTTTGATAAAAGGATTTCT
Found at i:170569 original size:42 final size:42
Alignment explanation
Indices: 170480--170575 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
170470 AATGTTAAGA
* *
170480 CCTTTCGATGAAAGGACTTAACCTTTTGATTAAAAGATTTCT
1 CCTTTTGATGAAAGGACTTAACCTTTTGATTAAAAGATTTAT
* *
170522 CCTTTTGATGAAAGGGCTTAACCTTTTTA-TAAAAGGATTTAAT
1 CCTTTTGATGAAAGGACTTAACCTTTTGATTAAAA-GATTT-AT
*
170565 -CTTTTCATGAA
1 CCTTTTGATGAA
170576 GAGAATTGTT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 5 0.11
42 41 0.87
43 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (42 bp):
CCTTTTGATGAAAGGACTTAACCTTTTGATTAAAAGATTTAT
Found at i:173343 original size:2 final size:2
Alignment explanation
Indices: 173336--173364 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
173326 CTCGGATTAA
173336 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
173365 ATCTGTCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:173855 original size:21 final size:21
Alignment explanation
Indices: 173831--173885 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
173821 TCAATGAAAG
173831 GACTTAACCTTTTGATTAAAA
1 GACTTAACCTTTTGATTAAAA
** *
173852 GACTTCTCCTTTTGATTAAAG
1 GACTTAACCTTTTGATTAAAA
* *
173873 GGCTTAATCTTTT
1 GACTTAACCTTTT
173886 CGTGTAAAGA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (21 bp):
GACTTAACCTTTTGATTAAAA
Found at i:174042 original size:2 final size:2
Alignment explanation
Indices: 174035--174096 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
174025 ACCATACACG
174035 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
174077 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
174097 TGTATGTGAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:174282 original size:31 final size:31
Alignment explanation
Indices: 174247--174307 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
174237 TATAAAATTA
174247 TGAGTCGAGTAGAATAAAAAAATCAATTTTT
1 TGAGTCGAGTAGAATAAAAAAATCAATTTTT
* * * *
174278 TGAGTCGAGTCGAGTAAAAAATTCAGTTTT
1 TGAGTCGAGTAGAATAAAAAAATCAATTTT
174308 CGACTCGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (31 bp):
TGAGTCGAGTAGAATAAAAAAATCAATTTTT
Done.