Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002917.1 Hibiscus syriacus cultivar Beakdansim tig00006030_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: 263168
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:4901 original size:23 final size:21
Alignment explanation
Indices: 4871--4923 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
4861 TGAACATGTT
4871 CACAAACATTAAACGCATATGAA
1 CACAAACATTAAACG-A-ATGAA
* * *
4894 CACGAACACTAAATGAATGAA
1 CACAAACATTAAACGAATGAA
4915 CACAAACAT
1 CACAAACAT
4924 ATATAAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 12 0.48
22 1 0.04
23 12 0.48
ACGTcount: A:0.53, C:0.23, G:0.09, T:0.15
Consensus pattern (21 bp):
CACAAACATTAAACGAATGAA
Found at i:5633 original size:35 final size:35
Alignment explanation
Indices: 5582--5653 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
5572 CTTGCAACAC
5582 ATTCATCAATTACATTCTAAACCCCAAAATCCAAA
1 ATTCATCAATTACATTCTAAACCCCAAAATCCAAA
* * *
5617 ATTCTTCAATTACATTCTAAACCTCAAATTCCAAA
1 ATTCATCAATTACATTCTAAACCCCAAAATCCAAA
5652 AT
1 AT
5654 ACAATTACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (35 bp):
ATTCATCAATTACATTCTAAACCCCAAAATCCAAA
Found at i:6658 original size:32 final size:34
Alignment explanation
Indices: 6585--6660 Score: 111
Period size: 32 Copynumber: 2.3 Consensus size: 34
6575 GGGGTTGGTC
*
6585 ATGTAATTGAAGTATTTTTGGAATTTGAGGTTTA
1 ATGTAATTGAAGCATTTTTGGAATTTGAGGTTTA
*
6619 ATATAATTGAAGCA-TTTTGGAATTTG-GGTTTA
1 ATGTAATTGAAGCATTTTTGGAATTTGAGGTTTA
*
6651 CTGTAATTGA
1 ATGTAATTGA
6661 TGATTATGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 14 0.37
33 12 0.32
34 12 0.32
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.45
Consensus pattern (34 bp):
ATGTAATTGAAGCATTTTTGGAATTTGAGGTTTA
Found at i:11853 original size:15 final size:15
Alignment explanation
Indices: 11832--11877 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
11822 TCAACAATAG
*
11832 ATATAATATAATACA
1 ATATAATATAATAAA
* *
11847 TTATAATGTAATAAA
1 ATATAATATAATAAA
*
11862 ATATAATATTATAAA
1 ATATAATATAATAAA
11877 A
1 A
11878 GTGGAGCTCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (15 bp):
ATATAATATAATAAA
Found at i:16179 original size:25 final size:22
Alignment explanation
Indices: 16129--16172 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
16119 TTAATGGACA
16129 TAGTGCATCATCCCACTAGACC
1 TAGTGCATCATCCCACTAGACC
*
16151 TAGTGCCTCATCCCACTAGACC
1 TAGTGCATCATCCCACTAGACC
16173 AACTAGTTGT
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:0.25, C:0.39, G:0.14, T:0.23
Consensus pattern (22 bp):
TAGTGCATCATCCCACTAGACC
Found at i:20100 original size:23 final size:21
Alignment explanation
Indices: 20069--20115 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 21
20059 GAAATAGAAG
20069 AAAGCAAAAGAGAGAGAGAAAAT
1 AAAGC-AAA-AGAGAGAGAAAAT
*
20092 AAAGTAAAAGAGAGAGAAAAT
1 AAAGCAAAAGAGAGAGAAAAT
20113 AAA
1 AAA
20116 AGAAAGCAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.70
22 3 0.13
23 4 0.17
ACGTcount: A:0.68, C:0.02, G:0.23, T:0.06
Consensus pattern (21 bp):
AAAGCAAAAGAGAGAGAAAAT
Found at i:20127 original size:21 final size:20
Alignment explanation
Indices: 20079--20120 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
20069 AAAGCAAAAG
20079 AGAGAGAGAAAATAAAGTAAA
1 AGAGAGAGAAAATAAAG-AAA
20100 AGAGAGAGAAAATAAAAGAAA
1 AGAGAGAGAAAAT-AAAGAAA
20121 GCAGAGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (20 bp):
AGAGAGAGAAAATAAAGAAA
Found at i:20127 original size:23 final size:22
Alignment explanation
Indices: 20075--20115 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
20065 GAAGAAAGCA
20075 AAAGAGAGAGAGAAAATAAAGT
1 AAAGAGAGAGAGAAAATAAAGT
20097 AAA-AGAGAGAGAAAATAAA
1 AAAGAGAGAGAGAAAATAAA
20116 AGAAAGCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.07
Consensus pattern (22 bp):
AAAGAGAGAGAGAAAATAAAGT
Found at i:20128 original size:19 final size:18
Alignment explanation
Indices: 20050--20139 Score: 72
Period size: 19 Copynumber: 4.7 Consensus size: 18
20040 GAAAAAAGGA
*
20050 AAAATAAAAGAAATAGAAG
1 AAAATAAAAGAAAGAG-AG
** *
20069 AAAGCAAAAGAGAGAGAG
1 AAAATAAAAGAAAGAGAG
*
20087 AAAATAAAGTAAAAGAGAGAG
1 AAAATAAA--AGAA-AGAGAG
20108 AAAATAAAAGAAAGCAGAG
1 AAAATAAAAGAAAG-AGAG
**
20127 AAAGCAAAAGAAA
1 AAAATAAAAGAAA
20140 AAAAATAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
18 10 0.18
19 30 0.54
20 2 0.04
21 14 0.25
ACGTcount: A:0.69, C:0.03, G:0.22, T:0.06
Consensus pattern (18 bp):
AAAATAAAAGAAAGAGAG
Found at i:22318 original size:58 final size:58
Alignment explanation
Indices: 22237--22523 Score: 254
Period size: 58 Copynumber: 5.1 Consensus size: 58
22227 CCCAAACAAC
* *
22237 ATGATG-TTTTCAAAAGAATTTTTAAAGAAACTAAGCCTGATATTCAGGGGTTTCTTG
1 ATGATGATTTTCAAATGAATTTTTAAAGAAACTAAGCCTGATTTTCAGGGGTTTCTTG
* * *
22294 ATGATGATTTTCAAATGAACTTTTAAAAGAAGCTAAGCCTAATTTT-AGGGGTTTC-T-
1 ATGATGATTTTCAAATGAA-TTTTTAAAGAAACTAAGCCTGATTTTCAGGGGTTTCTTG
* * * *
22350 -TGATG-TTTTCAAAATGAGTTTTT--AGAAACTAAACCTGATTTTCAGGGATTTTTTG
1 ATGATGATTTTC-AAATGAATTTTTAAAGAAACTAAGCCTGATTTTCAGGGGTTTCTTG
* * ** * *
22405 ATGATTA-TTTCAAAAGAATTTTTAAAGAGGCTAAGCCTAATTTTTAGGGGTTTCTTG
1 ATGATGATTTTCAAATGAATTTTTAAAGAAACTAAGCCTGATTTTCAGGGGTTTCTTG
* * * * * ** *
22462 ATGATAATTAT-AAATGACAGATTTT-AATAAATTAAGATTGATTTTCAAGGGTTTCTTG
1 ATGATGATTTTCAAATGA-A-TTTTTAAAGAAACTAAGCCTGATTTTCAGGGGTTTCTTG
22520 ATGA
1 ATGA
22524 GTAAGTCATT
Statistics
Matches: 182, Mismatches: 35, Indels: 25
0.75 0.14 0.10
Matches are distributed among these distances:
52 16 0.09
53 7 0.04
54 10 0.05
55 21 0.12
56 8 0.04
57 43 0.24
58 51 0.28
59 26 0.14
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.40
Consensus pattern (58 bp):
ATGATGATTTTCAAATGAATTTTTAAAGAAACTAAGCCTGATTTTCAGGGGTTTCTTG
Found at i:22387 original size:111 final size:110
Alignment explanation
Indices: 22238--22464 Score: 323
Period size: 111 Copynumber: 2.0 Consensus size: 110
22228 CCAAACAACA
* *
22238 TGATGTTTTCAAAAGAATTTTTAAAGAAACTAAGCCTGATATTCAGGGGTTTCTTGATGATGATT
1 TGATGTTTTCAAAAGAATTTTT-AAGAAACTAAACCTGATATTCAGGGATTTCTTGATGATGA-T
*
22303 TTCAAATGAACTTTTAAAAGAAGCTAAGCCTAA-TTTTAGGGGTTTCT
64 TTCAAAAGAA-TTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
* * * *
22350 TGATGTTTTCAAAATGAGTTTTT-AGAAACTAAACCTGATTTTCAGGGATTTTTTGATGATTATT
1 TGATGTTTTCAAAA-GAATTTTTAAGAAACTAAACCTGATATTCAGGGATTTCTTGATGATGATT
* *
22414 TCAAAAGAATTTTTAAAGAGGCTAAGCCTAATTTTTAGGGGTTTCT
65 TCAAAAGAATTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
22460 TGATG
1 TGATG
22465 ATAATTATAA
Statistics
Matches: 104, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
109 20 0.19
110 29 0.28
111 34 0.33
112 14 0.13
113 7 0.07
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (110 bp):
TGATGTTTTCAAAAGAATTTTTAAGAAACTAAACCTGATATTCAGGGATTTCTTGATGATGATTT
CAAAAGAATTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCT
Found at i:22917 original size:41 final size:42
Alignment explanation
Indices: 22818--22917 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
22808 ACAAAAGTTT
* * *
22818 TTCGGGCCATC-AGTAAGTCTTTCAAGCATGATGCTTAAATCT
1 TTCGGGCCATCTA-TAAGTCTTTCAAGCAAGATGCATAAATCA
* * * * *
22860 TTTGGGTCATCTATAAGTCTTTCGAGCAAGATG-ATGAGTCA
1 TTCGGGCCATCTATAAGTCTTTCAAGCAAGATGCATAAATCA
22901 TTCGGGCCATCTATAAG
1 TTCGGGCCATCTATAAG
22918 ACCTTCAGGC
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
41 19 0.40
42 27 0.57
43 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (42 bp):
TTCGGGCCATCTATAAGTCTTTCAAGCAAGATGCATAAATCA
Found at i:23144 original size:41 final size:42
Alignment explanation
Indices: 23040--23144 Score: 101
Period size: 41 Copynumber: 2.5 Consensus size: 42
23030 GAATCAGCAA
* * *
23040 AAGTCCTTCGGGCCAT-CAGTAAGTCTTTCGAGAATGATGCTT
1 AAGTCTTTCGGGCCATCCA-TAAGTCTTTCGAGAAAGATGCAT
* * * *
23082 AAATCCTTT--GGTCATCTATAAGTGTTTCGAGAAAGATG-AT
1 AAGT-CTTTCGGGCCATCCATAAGTCTTTCGAGAAAGATGCAT
23122 AAGTCTTTCGGGCCATCCATAAG
1 AAGTCTTTCGGGCCATCCATAAG
23145 ACCTTCGATC
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
39 4 0.08
40 4 0.08
41 34 0.69
42 4 0.08
43 3 0.06
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (42 bp):
AAGTCTTTCGGGCCATCCATAAGTCTTTCGAGAAAGATGCAT
Found at i:23231 original size:227 final size:227
Alignment explanation
Indices: 22743--23232 Score: 592
Period size: 228 Copynumber: 2.2 Consensus size: 227
22733 CAACATTTCG
* * * * * * * * **
22743 AATCAGCAACGCCCCACTTGAGGGATTAGCATTTCCTATTGCTCGATTCACGGCATTACGAATCA
1 AATCAACAACACCCCACTCGAGAGATCAACATTTCATAATGCTTAATTCACGGCATTACGAATCA
** * *
22808 ACAAAAGTTTTTCGGGCCATCAGTAAGTCTTTCAAGCATGATGCTTAAATCTTTTGGGTCATCTA
66 ACAAAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGAATGATGCTTAAATCCTTTGGGTCATCTA
* * * *
22873 TAAGTCTTTCGAGCAAGATGATGAGTCATTCGGGCCATCTATAAGACCTTCAGGCAGGATGTTTT
131 TAAGTCTTTCGAGAAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCAGGCACGATGTTTT
* * *
22938 TCACATTTCCTTTGCTCGATTCACAATACTTTA
196 TCACATTTCCTTTGCTCAATGCACAATAC-TCA
* * * * * *
22971 AATCAGCAACTCCCCACTTGAGGGATTAACATTTCATAATGCTTAATTCACGGCATTTCGAATCA
1 AATCAACAACACCCCACTCGAGAGATCAACATTTCATAATGCTTAATTCACGGCATTACGAATCA
* *
23036 GCAAAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGAATGATGCTTAAATCCTTT-GGTCATCTA
66 ACAAAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGAATGATGCTTAAATCCTTTGGGTCATCTA
* * *
23100 TAAGTGTTTCGAGAAAGATGATAAGTCTTTCGGGCCATCCATAAGACCTTC-GATCACGATG-TT
131 TAAGTCTTTCGAGAAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCAG-GCACGATGTTT
* *
23163 TTCACATTTTCTATTGCTCAATGCACGACATA-TCG
195 TTCACATTTCCT-TTGCTCAATGCAC-A-ATACTCA
*
23198 AATCAACAACACCTCACTCGAGAGATCAACATTTC
1 AATCAACAACACCCCACTCGAGAGATCAACATTTC
23233 CAGTGGAAAG
Statistics
Matches: 227, Mismatches: 31, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
226 14 0.06
227 102 0.45
228 108 0.48
229 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (227 bp):
AATCAACAACACCCCACTCGAGAGATCAACATTTCATAATGCTTAATTCACGGCATTACGAATCA
ACAAAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAGAATGATGCTTAAATCCTTTGGGTCATCTA
TAAGTCTTTCGAGAAAGATGATAAGTCATTCGGGCCATCCATAAGACCTTCAGGCACGATGTTTT
TCACATTTCCTTTGCTCAATGCACAATACTCA
Found at i:24684 original size:20 final size:20
Alignment explanation
Indices: 24645--24695 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
24635 AAAATGTGTT
*
24645 TATGAATAGTA-CGGTATTG
1 TATGAATAGTATCGATATTG
24664 TATGAATAGTATCGATATTG
1 TATGAATAGTATCGATATTG
*
24684 TATAAATAGTAT
1 TATGAATAGTAT
24696 TAATACTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (20 bp):
TATGAATAGTATCGATATTG
Found at i:24782 original size:19 final size:19
Alignment explanation
Indices: 24754--24815 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
24744 AATGCAAAAT
*
24754 GTATATCGATACTGCTACA
1 GTATACCGATACTGCTACA
24773 GTATACCGATACTGCTACA
1 GTATACCGATACTGCTACA
24792 GTATACCGATACATTGCTACA
1 GTATACCGATAC--TGCTACA
24813 GTA
1 GTA
24816 ATTTCAGCCC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 30 0.75
21 10 0.25
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (19 bp):
GTATACCGATACTGCTACA
Found at i:26780 original size:29 final size:29
Alignment explanation
Indices: 26744--26818 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
26734 TTTCAATTTA
26744 TCTT-ATTTGGTCACTGAATTTTAAAATC
1 TCTTAATTTGGTCACTGAATTTTAAAATC
26772 TCTTAATTTGGTCACTGAATTTTAAAATC
1 TCTTAATTTGGTCACTGAATTTTAAAATC
26801 TCTTAATTTGGTCACTGA
1 TCTTAATTTGGTCACTGA
26819 CCCAATATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 4 0.09
29 42 0.91
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (29 bp):
TCTTAATTTGGTCACTGAATTTTAAAATC
Found at i:30635 original size:14 final size:14
Alignment explanation
Indices: 30616--30644 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
30606 TATATAAATC
30616 TTATTTTATTTTAG
1 TTATTTTATTTTAG
30630 TTATTTTATTTTAG
1 TTATTTTATTTTAG
30644 T
1 T
30645 ATTATATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (14 bp):
TTATTTTATTTTAG
Found at i:36970 original size:2 final size:2
Alignment explanation
Indices: 36963--37031 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
36953 TTCTCTGTAT
36963 TA TA TA TA TA TA 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 TA TA TA TA TA TA
37005 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
37032 TTGTTGTATT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:37142 original size:21 final size:20
Alignment explanation
Indices: 37103--37142 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
37093 TTTAAAATTT
*
37103 CATAAAATTTTCATCTCTAA
1 CATAAAATTTACATCTCTAA
*
37123 CATAAAATCTTACGTCTCTA
1 CATAAAAT-TTACATCTCTA
37143 CCAATCATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.38
Consensus pattern (20 bp):
CATAAAATTTACATCTCTAA
Found at i:38886 original size:21 final size:21
Alignment explanation
Indices: 38860--38919 Score: 120
Period size: 21 Copynumber: 2.9 Consensus size: 21
38850 ATGCATAATA
38860 TGCGATAGCACTGTTCACCGT
1 TGCGATAGCACTGTTCACCGT
38881 TGCGATAGCACTGTTCACCGT
1 TGCGATAGCACTGTTCACCGT
38902 TGCGATAGCACTGTTCAC
1 TGCGATAGCACTGTTCAC
38920 ATTGCGAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.20, C:0.28, G:0.23, T:0.28
Consensus pattern (21 bp):
TGCGATAGCACTGTTCACCGT
Found at i:39625 original size:21 final size:21
Alignment explanation
Indices: 39601--39713 Score: 217
Period size: 21 Copynumber: 5.4 Consensus size: 21
39591 TTTTGATCAT
*
39601 TATCGCAATGGTGAACAGTGC
1 TATCGCAACGGTGAACAGTGC
39622 TATCGCAACGGTGAACAGTGC
1 TATCGCAACGGTGAACAGTGC
39643 TATCGCAACGGTGAACAGTGC
1 TATCGCAACGGTGAACAGTGC
39664 TATCGCAACGGTGAACAGTGC
1 TATCGCAACGGTGAACAGTGC
39685 TATCGCAACGGTGAACAGTGC
1 TATCGCAACGGTGAACAGTGC
39706 TATCGCAA
1 TATCGCAA
39714 TGCGATAGTC
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
21 91 1.00
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.20
Consensus pattern (21 bp):
TATCGCAACGGTGAACAGTGC
Found at i:40255 original size:21 final size:20
Alignment explanation
Indices: 40169--40326 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
40159 AAATGACCAA
**
40169 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
40188 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
40208 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
40228 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
40249 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
40270 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
40290 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
40311 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
40327 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:40524 original size:40 final size:40
Alignment explanation
Indices: 40332--40542 Score: 282
Period size: 40 Copynumber: 5.3 Consensus size: 40
40322 CGCGAACACA
* * * *
40332 TAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCATATCCGTAAATCGCAACGAGAATCTG
** * * *
40372 TAAATCGCAACGCATATGGGTAAATCGCAATGAGTATCCG
1 TAAATCGCAACGCATATCCGTAAATCGCAACGAGAATCTG
* *
40412 TATATCGCAACGCGTATCCGTAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCATATCCGTAAATCGCAACGAGAATCTG
40452 TAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCAT-ATCCGTAAATCGCAACGAGAATCTG
40492 TAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTG
1 TAAATCGCAACGCAT-ATCCGTAAATCGCAACGAGAATCTG
*
40532 TAAATCACAAC
1 TAAATCGCAAC
40543 ACTGAAATTT
Statistics
Matches: 155, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 1 0.01
40 154 0.99
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.21
Consensus pattern (40 bp):
TAAATCGCAACGCATATCCGTAAATCGCAACGAGAATCTG
Found at i:40529 original size:20 final size:20
Alignment explanation
Indices: 40293--40542 Score: 252
Period size: 20 Copynumber: 12.5 Consensus size: 20
40283 CGATTTTCCA
* ** *
40293 AAATCGCAACGCGAATATGA
1 AAATCGCAACGAGAATCCGT
* *
40313 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGAGAATC-CGT
* *
40333 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* *
40353 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
* **
40373 AAATCGCAACGCA-TATGGGT
1 AAATCGCAACG-AGAATCCGT
* *
40393 AAATCGCAATGAGTATCCGT
1 AAATCGCAACGAGAATCCGT
* * *
40413 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGAGAATCCGT
*
40433 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
40453 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
40473 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
40493 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGT
*
40513 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGT
*
40533 AAATCACAAC
1 AAATCGCAAC
40543 ACTGAAATTT
Statistics
Matches: 198, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
19 1 0.01
20 196 0.99
21 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGAGAATCCGT
Found at i:41264 original size:24 final size:24
Alignment explanation
Indices: 41225--41271 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
41215 AAATTTGGTC
41225 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
41249 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
41272 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:41463 original size:12 final size:12
Alignment explanation
Indices: 41446--41470 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41436 ATATAATCCT
41446 GAAGAAGAAAAA
1 GAAGAAGAAAAA
41458 GAAGAAGAAAAA
1 GAAGAAGAAAAA
41470 G
1 G
41471 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:43845 original size:19 final size:19
Alignment explanation
Indices: 43805--43954 Score: 203
Period size: 19 Copynumber: 8.4 Consensus size: 19
43795 GATTCTCTCG
43805 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
43825 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
43844 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
43858 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
43877 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
43896 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
43910 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
43929 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
43948 TTGCGAT
1 TTGCGAT
43955 AGTCAATTTT
Statistics
Matches: 116, Mismatches: 4, Indels: 21
0.82 0.03 0.15
Matches are distributed among these distances:
14 12 0.10
16 14 0.12
17 14 0.12
19 61 0.53
20 15 0.13
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:43899 original size:52 final size:52
Alignment explanation
Indices: 43786--43954 Score: 329
Period size: 52 Copynumber: 3.2 Consensus size: 52
43776 GAAATGAAAA
43786 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
43839 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
43891 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
43943 TCGCATTGCGAT
1 TCGCATTGCGAT
43955 AGTCAATTTT
Statistics
Matches: 116, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
52 82 0.71
53 34 0.29
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:43914 original size:33 final size:33
Alignment explanation
Indices: 43786--43936 Score: 146
Period size: 33 Copynumber: 4.4 Consensus size: 33
43776 GAAATGAAAA
43786 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
* *
43819 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTT
1 T-CGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TCATT
* * * *
43860 GCG-ATTTTC-ATT-TCGCATTGCGATTTTCATT
1 TCGCA-TTGCGATTCTCTCGTTGCGATTTTCATT
43891 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
43924 TCGCATTGCGATT
1 TCGCATTGCGATT
43937 TTCATTTCGC
Statistics
Matches: 94, Mismatches: 12, Indels: 24
0.72 0.09 0.18
Matches are distributed among these distances:
31 9 0.10
32 5 0.05
33 39 0.41
34 10 0.11
35 2 0.02
36 3 0.03
37 6 0.06
39 10 0.11
40 6 0.06
41 4 0.04
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:44050 original size:14 final size:14
Alignment explanation
Indices: 44031--44085 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
44021 CGGAAATGAA
44031 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
44045 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
44064 AATCGCAACGAGAG
1 AATCGCAACGAGAG
44078 AATCGCAA
1 AATCGCAA
44086 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:44065 original size:33 final size:33
Alignment explanation
Indices: 44013--44104 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
44003 CCATTACATT
44013 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAA
44047 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
44080 TCGCAATGCGAAATGAAAATCGCAA
1 TCGCAATGCGAAATGAAAATCGCAA
44105 TGCGAAATGA
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
33 49 0.84
34 9 0.16
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
Found at i:44104 original size:52 final size:52
Alignment explanation
Indices: 44045--44161 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
44035 GCAACGAGAG
44045 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
* *
44097 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
*
44149 AATCGCATTGCGA
1 AATCGCAATGCGA
44162 TTCTCCCATT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.16
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:44210 original size:19 final size:19
Alignment explanation
Indices: 44168--44267 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
44158 GCGATTCTCC
44168 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
44188 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
44207 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
44223 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
44240 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
44259 CATTGCGAT
1 CATTGCGAT
44268 AGTCAATTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.49
20 17 0.23
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:44264 original size:52 final size:53
Alignment explanation
Indices: 44151--44267 Score: 209
Period size: 53 Copynumber: 2.2 Consensus size: 53
44141 GAAATTAAAA
44151 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
* *
44204 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
44256 TCGCATTGCGAT
1 TCGCATTGCGAT
44268 AGTCAATTTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 30 0.48
53 32 0.52
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:44393 original size:14 final size:14
Alignment explanation
Indices: 44374--44410 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
44364 CATCAATTAC
44374 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
44388 ACAAATCATCTTTT
1 ACAAATCAACTTTT
44402 ACAAATCAA
1 ACAAATCAA
44411 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:46410 original size:14 final size:14
Alignment explanation
Indices: 46391--46447 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
46381 GCGAAATGAA
*
46391 AATCGCAACGACAG
1 AATCGCAACGAAAG
46405 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
46422 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
46438 AATCGCAACG
1 AATCGCAACG
46448 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:46418 original size:33 final size:33
Alignment explanation
Indices: 46372--46464 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
46362 GCGAAACCAA
*
46372 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
46405 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
46438 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
46465 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:46429 original size:19 final size:19
Alignment explanation
Indices: 46335--46469 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
46325 TAGTTTACTT
* *
46335 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
46355 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
46374 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
46393 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
46407 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
46426 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
46440 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
46459 TCGCAATGCGA
1 TCGCAACGCGA
46470 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:46487 original size:19 final size:18
Alignment explanation
Indices: 46465--46593 Score: 94
Period size: 19 Copynumber: 7.3 Consensus size: 18
46455 AAAATCGCAA
46465 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
46484 TGCGA--TTCTTT--CGT
1 TGCGATTTTGTTTCGCGT
* *
46498 TGCGATTTTCATTTCGCAT
1 TGCGATTTT-GTTTCGCGT
*
46517 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
46531 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
46550 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
46569 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT--GTTTCGCGT
46589 TGCGA
1 TGCGA
46594 AAGTAAACTA
Statistics
Matches: 87, Mismatches: 12, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
14 18 0.21
16 6 0.07
17 6 0.07
19 44 0.51
20 13 0.15
ACGTcount: A:0.10, C:0.18, G:0.26, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:46500 original size:14 final size:14
Alignment explanation
Indices: 46481--46537 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
46471 TTTGGTTTCG
46481 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
46495 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
46512 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
46528 CGTTGCGATT
1 CGTTGCGATT
46538 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:46513 original size:33 final size:33
Alignment explanation
Indices: 46465--46556 Score: 148
Period size: 33 Copynumber: 2.8 Consensus size: 33
46455 AAAATCGCAA
** *
46465 TGCGATTTTGGTTTCGCGTTGCGATTCTTTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTGTCGT
*
46498 TGCGATTTTCATTTCGCATTGCGATTCTGTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTGTCGT
46531 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTCATTTCGCGTTGCGATT
46557 TTGGTTTCGC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTGTCGT
Found at i:46796 original size:93 final size:93
Alignment explanation
Indices: 46637--47481 Score: 1656
Period size: 93 Copynumber: 9.1 Consensus size: 93
46627 TTGAATGGAT
46637 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
46702 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
46730 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
46795 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
46823 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
46888 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
46916 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
46981 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
47009 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
47074 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
47102 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
47167 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
47195 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
47260 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
47288 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
47352 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
47380 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
47445 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
47473 AAATTTACT
1 AAATTTACT
47482 AAGCAATCTA
Statistics
Matches: 746, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
92 92 0.12
93 654 0.88
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:49086 original size:22 final size:25
Alignment explanation
Indices: 49056--49105 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
49046 CAAAAACAAT
*
49056 AAACATACA-AGT-TAGATATACCA
1 AAACATACACAGTGAAGATATACCA
*
49079 AAAC-TACACTGTGAAGATATACCA
1 AAACATACACAGTGAAGATATACCA
49103 AAA
1 AAA
49106 ACAATAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.17
23 6 0.26
24 13 0.57
ACGTcount: A:0.52, C:0.18, G:0.10, T:0.20
Consensus pattern (25 bp):
AAACATACACAGTGAAGATATACCA
Found at i:49205 original size:19 final size:19
Alignment explanation
Indices: 49178--49249 Score: 73
Period size: 19 Copynumber: 4.1 Consensus size: 19
49168 TTTGGTTGAA
*
49178 ATGAAAATCGCAACGAGAG
1 ATGACAATCGCAACGAGAG
49197 ATGACAATCGCAAC--GAG
1 ATGACAATCGCAACGAGAG
* *
49214 A-G--AATCGCAACGCGAA
1 ATGACAATCGCAACGAGAG
*
49230 ATGGCAATCGCAACGAGAG
1 ATGACAATCGCAACGAGAG
49249 A
1 A
49250 ATCGCAACGC
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
14 9 0.20
16 4 0.09
17 5 0.11
19 26 0.59
ACGTcount: A:0.43, C:0.21, G:0.26, T:0.10
Consensus pattern (19 bp):
ATGACAATCGCAACGAGAG
Found at i:49220 original size:33 final size:33
Alignment explanation
Indices: 49183--49275 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
49173 TTGAAATGAA
* *
49183 AATCGCAACGAGAGATGACAATCGCAACGAGAG
1 AATCGCAACGCGAAATGACAATCGCAACGAGAG
*
49216 AATCGCAACGCGAAATGGCAATCGCAACGAGAG
1 AATCGCAACGCGAAATGACAATCGCAACGAGAG
*
49249 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGACAATCGCAA
49276 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.43, C:0.23, G:0.25, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGACAATCGCAACGAGAG
Found at i:49221 original size:14 final size:14
Alignment explanation
Indices: 49202--49258 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
49192 GAGAGATGAC
49202 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
49216 AATCGCAACGCGAAATGG
1 AATCGCAA--CGAGA--G
49234 CAATCGCAACGAGAG
1 -AATCGCAACGAGAG
49249 AATCGCAACG
1 AATCGCAACG
49259 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
15 1 0.03
16 4 0.11
17 4 0.11
18 1 0.03
19 8 0.22
ACGTcount: A:0.40, C:0.25, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:49273 original size:19 final size:19
Alignment explanation
Indices: 49175--49280 Score: 70
Period size: 19 Copynumber: 6.1 Consensus size: 19
49165 TCTTTTGGTT
*
49175 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
* *
49194 GAGATGACAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
49211 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
49227 GAAATGGCAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
49244 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
49260 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
49279 GA
1 GA
49281 TTTTGGTTTC
Statistics
Matches: 67, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
14 19 0.28
15 2 0.03
16 4 0.06
17 3 0.04
18 2 0.03
19 37 0.55
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.10
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:49311 original size:14 final size:14
Alignment explanation
Indices: 49292--49348 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
49282 TTTGGTTTCG
49292 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
49306 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
49325 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
49339 CGTTGCGATT
1 CGTTGCGATT
49349 GTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:49324 original size:33 final size:34
Alignment explanation
Indices: 49276--49407 Score: 133
Period size: 33 Copynumber: 3.7 Consensus size: 34
49266 AAAATCGCAA
**
49276 TGCGATTTTGGTT-TCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTATCGCGTTGCGATTCTCTCGT
49309 TGCGATTTTCATT-TCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTATCGCGTTGCGATTCTCTCGT
* * *
49342 TGCGATTGTCATTTCTCTCGTTGCGACAGTCATTCTCTCGT
1 TGCGATTTTCA-TTATCGCGTT--G-C-G--ATTCTCTCGT
*
49383 TGCGATTTTCATTATCTCGTTGCGA
1 TGCGATTTTCATTATCGCGTTGCGA
49408 CTCTTCTGCA
Statistics
Matches: 85, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
33 41 0.48
34 3 0.04
35 6 0.07
36 1 0.01
37 2 0.02
38 2 0.02
39 1 0.01
40 9 0.11
41 20 0.24
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.44
Consensus pattern (34 bp):
TGCGATTTTCATTATCGCGTTGCGATTCTCTCGT
Found at i:49359 original size:21 final size:20
Alignment explanation
Indices: 49332--49407 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
49322 TCGCGTTGCG
49332 ATTCTCTCGTTGCGATTGTC
1 ATTCTCTCGTTGCGATTGTC
**
49352 ATTTCTCTCGTTGCGACAGTC
1 A-TTCTCTCGTTGCGATTGTC
*
49373 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTGTC
*
49393 ATTATCTCGTTGCGA
1 ATTCTCTCGTTGCGA
49408 CTCTTCTGCA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 31 0.63
21 18 0.37
ACGTcount: A:0.13, C:0.25, G:0.18, T:0.43
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTGTC
Found at i:49389 original size:41 final size:40
Alignment explanation
Indices: 49332--49408 Score: 127
Period size: 41 Copynumber: 1.9 Consensus size: 40
49322 TCGCGTTGCG
*
49332 ATTCTCTCGTTGCGATTGTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTGTCA-TTATCTCGTTGCGACAGTC
*
49373 ATTCTCTCGTTGCGATTTTCATTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTGTCATTATCTCGTTGCGAC
49409 TCTTCTGCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 14 0.41
41 20 0.59
ACGTcount: A:0.13, C:0.26, G:0.18, T:0.43
Consensus pattern (40 bp):
ATTCTCTCGTTGCGATTGTCATTATCTCGTTGCGACAGTC
Found at i:49534 original size:33 final size:33
Alignment explanation
Indices: 49487--49557 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
49477 AATACTAACT
* *
49487 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
49520 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
49553 TGAAA
1 TGAAA
49558 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:49788 original size:22 final size:22
Alignment explanation
Indices: 49736--49790 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
49726 TGGTTGTGAG
**
49736 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
49758 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
49780 GGATTTCTTCG
1 GGATTTCTTCG
49791 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:49956 original size:39 final size:40
Alignment explanation
Indices: 49913--49994 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 40
49903 TACGCGTAGC
*
49913 GATTATAATGGCGCTTTA-A-ATATCGCGTTGCGATTTACG
1 GATTATAATGGCGATTTACAGAT-TCGCGTTGCGATTTACG
** * *
49952 GATTATCGTTGCGATTTACAGATTCTCGTTGCGATTTACG
1 GATTATAATGGCGATTTACAGATTCGCGTTGCGATTTACG
49992 GAT
1 GAT
49995 ACGCGTTGCG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 14 0.39
40 20 0.56
41 2 0.06
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (40 bp):
GATTATAATGGCGATTTACAGATTCGCGTTGCGATTTACG
Found at i:50129 original size:20 final size:20
Alignment explanation
Indices: 49936--50128 Score: 219
Period size: 20 Copynumber: 9.7 Consensus size: 20
49926 CTTTAAATAT
49936 CGCGTTGCGATTTACGGATTA
1 CGCGTTGCGATTTACGGA-TA
* * *
49957 -TCGTTGCGATTTACAGATT
1 CGCGTTGCGATTTACGGATA
*
49976 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
49996 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
50016 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
50036 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
50056 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
50076 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
50096 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
50116 CGCGTTGCGATTT
1 CGCGTTGCGATTT
50129 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
19 1 0.01
20 145 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:50145 original size:21 final size:21
Alignment explanation
Indices: 50115--50197 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
50105 ATTTTCATAT
*
50115 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
50136 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
50157 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
50178 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
50198 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:50188 original size:42 final size:43
Alignment explanation
Indices: 50095--50193 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
50085 ATTTATGTGT
* *
50095 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
50136 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
50178 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
50194 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:57113 original size:23 final size:23
Alignment explanation
Indices: 57063--57108 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
57053 TCAAACTAAT
57063 TAAAAAT--ATTAAAATAAAAAA
1 TAAAAATACATTAAAATAAAAAA
*
57084 TAAAAATACATTATAATACAAAAA
1 TAAAAATACATTAAAATA-AAAAA
57108 T
1 T
57109 CAAATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
23 8 0.38
24 6 0.29
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (23 bp):
TAAAAATACATTAAAATAAAAAA
Found at i:57444 original size:15 final size:16
Alignment explanation
Indices: 57416--57445 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
57406 TGGTAAGTCG
57416 TTTATTTCTTTTTATT
1 TTTATTTCTTTTTATT
57432 TTTATTT-TTTTTAT
1 TTTATTTCTTTTTAT
57446 CGATGACGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTATTTCTTTTTATT
Found at i:58306 original size:11 final size:12
Alignment explanation
Indices: 58281--58307 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
58271 TTCTATTCTC
58281 TTTTTGTATGTT
1 TTTTTGTATGTT
58293 TTTTTGTATGTT
1 TTTTTGTATGTT
58305 TTT
1 TTT
58308 GAATTCTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.00, G:0.15, T:0.78
Consensus pattern (12 bp):
TTTTTGTATGTT
Found at i:60204 original size:18 final size:18
Alignment explanation
Indices: 60165--60206 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
60155 GATATTATCG
*
60165 AATTATTATTTTATAGTC
1 AATTATTATTTTATAGTA
*
60183 AATTATTTTATTTATA-TA
1 AATTATTAT-TTTATAGTA
60201 AATTAT
1 AATTAT
60207 AAAAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
AATTATTATTTTATAGTA
Found at i:71062 original size:15 final size:15
Alignment explanation
Indices: 71042--71071 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
71032 TATTTATTAT
*
71042 TTTTTTTCATTTTAA
1 TTTTTTACATTTTAA
71057 TTTTTTACATTTTAA
1 TTTTTTACATTTTAA
71072 ATATTTAGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTTACATTTTAA
Found at i:71220 original size:14 final size:15
Alignment explanation
Indices: 71187--71237 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 15
71177 TTAAAAATAT
* *
71187 TAAATAAATCAAACA
1 TAAATATATTAAACA
71202 TAAATATATTAAA-A
1 TAAATATATTAAACA
*
71216 TAAATA-AATAAACA
1 TAAATATATTAAACA
71230 TAAATATA
1 TAAATATA
71238 AGTTTATTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 5 0.16
14 14 0.45
15 12 0.39
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAATATATTAAACA
Found at i:71437 original size:3 final size:3
Alignment explanation
Indices: 71429--71517 Score: 151
Period size: 3 Copynumber: 29.7 Consensus size: 3
71419 TTTTTATCCA
* *
71429 TAT TAT TAT TAT TAA TAT TAT TAT TAT TTT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
71477 TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
71518 AATATATATT
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:72931 original size:21 final size:22
Alignment explanation
Indices: 72893--72946 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
72883 TTTTAAAATA
*
72893 TATTGTTTTAGTGGTATTT-TT
1 TATTGTTTTAATGGTATTTGTT
**
72914 TATTGTTTTAATTTTATTTGTT
1 TATTGTTTTAATGGTATTTGTT
72936 TATAT-TTTTAA
1 TAT-TGTTTTAA
72947 ATATTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.57
22 11 0.39
23 1 0.04
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (22 bp):
TATTGTTTTAATGGTATTTGTT
Found at i:73632 original size:6 final size:7
Alignment explanation
Indices: 73611--73635 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
73601 TGTCTCCATT
73611 AATTAAA
1 AATTAAA
73618 AATTAAA
1 AATTAAA
73625 AATTAAA
1 AATTAAA
73632 AATT
1 AATT
73636 TATATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AATTAAA
Found at i:77074 original size:14 final size:15
Alignment explanation
Indices: 77044--77076 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
77034 TTATTATTTT
77044 ATTTATTAAGATAAA
1 ATTTATTAAGATAAA
*
77059 ATTTATTAA-TTAAA
1 ATTTATTAAGATAAA
77073 ATTT
1 ATTT
77077 GAAAAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
ATTTATTAAGATAAA
Found at i:84358 original size:9 final size:9
Alignment explanation
Indices: 84346--84423 Score: 70
Period size: 9 Copynumber: 8.3 Consensus size: 9
84336 GAAAAAAGAA
84346 AAAAGAAAG
1 AAAAGAAAG
84355 AAAAGAAAG
1 AAAAGAAAG
*
84364 AAAATAGAA-
1 AAAAGA-AAG
84373 AAAAGAAAG
1 AAAAGAAAG
*
84382 AAAAGAAAA
1 AAAAGAAAG
84391 AAATAGAAAATG
1 AAA-AG-AAA-G
*
84403 AAAAAAAAG
1 AAAAGAAAG
84412 AAGAA-AAAG
1 AA-AAGAAAG
84421 AAA
1 AAA
84424 GGGGGTCAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
8 3 0.05
9 39 0.67
10 9 0.16
11 4 0.07
12 3 0.05
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:84366 original size:27 final size:27
Alignment explanation
Indices: 84334--84423 Score: 116
Period size: 27 Copynumber: 3.5 Consensus size: 27
84324 ATTATGCTTG
84334 AAGAAAAAAGAAAAAAGAAAGAAAAGA
1 AAGAAAAAAGAAAAAAGAAAGAAAAGA
*
84361 AAGAAAATAGAAAAAAGAAAGAAAAGA
1 AAGAAAAAAGAAAAAAGAAAGAAAAGA
* * *
84388 AA-AAAATAG-AAAATGAAAAAAAAG-
1 AAGAAAAAAGAAAAAAGAAAGAAAAGA
84412 AAG-AAAAAGAAA
1 AAGAAAAAAGAAA
84424 GGGGGTCAAG
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
24 7 0.12
25 15 0.26
26 7 0.12
27 28 0.49
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (27 bp):
AAGAAAAAAGAAAAAAGAAAGAAAAGA
Found at i:84374 original size:34 final size:36
Alignment explanation
Indices: 84335--84424 Score: 107
Period size: 34 Copynumber: 2.6 Consensus size: 36
84325 TTATGCTTGA
*
84335 AGAAAAAAGAAAAAAGAAAGAAAAGAA-AGAAAAT-
1 AGAAAAAAGAAAAAAGAAAGAAAAAAATAGAAAATG
*
84369 AGAAAAAAG-AAAGA-AAAGAAAAAAATAGAAAATG
1 AGAAAAAAGAAAAAAGAAAGAAAAAAATAGAAAATG
*
84403 AAAAAAAAGAAGAAAAAGAAAG
1 AGAAAAAAG-A-AAAAAGAAAG
84425 GGGGTCAAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
32 10 0.22
33 11 0.24
34 17 0.37
37 4 0.09
38 4 0.09
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (36 bp):
AGAAAAAAGAAAAAAGAAAGAAAAAAATAGAAAATG
Found at i:84400 original size:7 final size:7
Alignment explanation
Indices: 84334--84392 Score: 66
Period size: 7 Copynumber: 8.3 Consensus size: 7
84324 ATTATGCTTG
84334 AAGAAAA
1 AAGAAAA
84341 AAGAAAA
1 AAGAAAA
*
84348 AAGAAAG
1 AAGAAAA
*
84355 AA-AAGA
1 AAGAAAA
84361 AAGAAAA
1 AAGAAAA
*
84368 TAGAAAA
1 AAGAAAA
84375 AAGAAAGAA
1 AAG-AA-AA
84384 AAGAAAA
1 AAGAAAA
84391 AA
1 AA
84393 ATAGAAAATG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
6 4 0.09
7 30 0.70
8 4 0.09
9 5 0.12
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (7 bp):
AAGAAAA
Found at i:84419 original size:43 final size:43
Alignment explanation
Indices: 84339--84424 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
84329 GCTTGAAGAA
84339 AAAAGAAAAAAGAAAGAAAAGAAAGAAAATAGAAAAAAGAAAG
1 AAAAGAAAAAAGAAAGAAAAGAAAGAAAATAGAAAAAAGAAAG
*
84382 AAAAGAAAAAA-ATAGAAAATGAAA-AAAA-AGAAGAAAAAGAAAG
1 AAAAGAAAAAAGAAAGAAAA-GAAAGAAAATAG-A-AAAAAGAAAG
84425 GGGGTCAAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
41 2 0.05
42 12 0.31
43 25 0.64
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.03
Consensus pattern (43 bp):
AAAAGAAAAAAGAAAGAAAAGAAAGAAAATAGAAAAAAGAAAG
Found at i:85597 original size:82 final size:82
Alignment explanation
Indices: 85460--85670 Score: 395
Period size: 82 Copynumber: 2.6 Consensus size: 82
85450 AATAGAACAA
** *
85460 ATGAATTTGTTAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
85525 ATCATTGAGTTTAGAAG
66 ATCATTGAGTTTAGAAG
85542 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
85607 ATCATTGAGTTTAGAAG
66 ATCATTGAGTTTAGAAG
85624 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
85671 GTTTGGTATG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 126 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.37
Consensus pattern (82 bp):
ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACA
ATCATTGAGTTTAGAAG
Found at i:86716 original size:113 final size:113
Alignment explanation
Indices: 86518--87071 Score: 932
Period size: 113 Copynumber: 4.9 Consensus size: 113
86508 ATTCAAGTCT
** *
86518 ATCATTTGAAAGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
86583 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCC
*
86631 ATCATTTGATGGATCAGCTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
86696 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCC
86744 ATCATTTGA-GAGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 ATCATTTGATG-GATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
86808 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCC
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCC
* *
86857 ATCATTTGAGGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * *
86922 GAAAAAGTTCATAATTAGAAGAATTTGTTCAACCTTTTACCTGAATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCC
* * * * *
86970 ATCAATTGATGGATTATCTTTTCCGGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA
1 ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* * *
87034 GAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTT
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
87072 GCATAATTCT
Statistics
Matches: 421, Mismatches: 18, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
112 70 0.17
113 350 0.83
114 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCC
Found at i:87398 original size:3 final size:3
Alignment explanation
Indices: 87390--87478 Score: 142
Period size: 3 Copynumber: 29.7 Consensus size: 3
87380 TTTTTATCCA
* *
87390 TAT TAT TAT TAT TAT TAT TAT TTT TAT TAT TAT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
87438 TAT TAT TAT TAT TAT TAT TAT CAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
87479 AATATATATT
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:93988 original size:165 final size:165
Alignment explanation
Indices: 93716--94046 Score: 608
Period size: 165 Copynumber: 2.0 Consensus size: 165
93706 CTTGAGGGGG
93716 AGTGTTAAGATAGAAAATGATTAGTTAGTTTGTTAGAAGTTGGTTAGTAGGCTGTTAGGAGTTTG
1 AGTGTTAAGATAGAAAATGATTAGTTAGTTTGTTAGAAGTTGGTTAGTAGGCTGTTAGGAGTTTG
* *
93781 TTAGAAGCATTTATTTTTTAGTTATTATATTATTGCTTGTACAGTGTACTATATATTGAAGTTTA
66 TTAGAAGCAGTTATTTTTTAGTTATTATATTATTACTTGTACAGTGTACTATATATTGAAGTTTA
93846 ACTGAATAATAATACACACGAGGCATTATTTTAAC
131 ACTGAATAATAATACACACGAGGCATTATTTTAAC
*
93881 AGTGTTAAGATAGCAAATGATTAGTTAGTTTGTTAGAAGTTGGTTAGTAGGCTGTTAGGAGTTTG
1 AGTGTTAAGATAGAAAATGATTAGTTAGTTTGTTAGAAGTTGGTTAGTAGGCTGTTAGGAGTTTG
* *
93946 TTAGAAGCAGTTATTTTTTAGTTCTTGTATTATTACTTGTACAGTGTACTATATATTGAAGTTTA
66 TTAGAAGCAGTTATTTTTTAGTTATTATATTATTACTTGTACAGTGTACTATATATTGAAGTTTA
*
94011 GCTGAATAATAATACACACGAGGCATTATTTTAAC
131 ACTGAATAATAATACACACGAGGCATTATTTTAAC
94046 A
1 A
94047 TGGTATCAGT
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
165 160 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (165 bp):
AGTGTTAAGATAGAAAATGATTAGTTAGTTTGTTAGAAGTTGGTTAGTAGGCTGTTAGGAGTTTG
TTAGAAGCAGTTATTTTTTAGTTATTATATTATTACTTGTACAGTGTACTATATATTGAAGTTTA
ACTGAATAATAATACACACGAGGCATTATTTTAAC
Found at i:98886 original size:38 final size:39
Alignment explanation
Indices: 98840--98930 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 39
98830 TATTTTTTAC
* * *
98840 TAAC-TTTTCGGTTG-AACCTAAAATGTTACG-AAGAATG
1 TAACATTTTCGGTTGCAACCGAAAATATTA-GAAAAAATG
98877 TAACATTTTCGGTTGTCAACCGAAAATATTAGAAAAAATG
1 TAACATTTTCGGTTG-CAACCGAAAATATTAGAAAAAATG
*
98917 TAACATTTTAGGTT
1 TAACATTTTCGGTT
98931 ATACTCAACC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
37 4 0.09
38 10 0.22
39 1 0.02
40 31 0.67
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (39 bp):
TAACATTTTCGGTTGCAACCGAAAATATTAGAAAAAATG
Found at i:98948 original size:43 final size:40
Alignment explanation
Indices: 98854--98950 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
98844 TTTTCGGTTG
* * * *
98854 AACCTAAAATGTTACGAAGAATGTAACATTTTCGGTTGTC
1 AACCTAAAATATTACGAAAAATGTAACATTTTAGGTTCTC
*
98894 AACCGAAAATATTA-GAAAAAATGTAACATTTTAGGTTATACTC
1 AACCTAAAATATTACG-AAAAATGTAACATTTTAGG-T-T-CTC
98937 AACCTAAAATATTA
1 AACCTAAAATATTA
98951 TGATTTTATC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 29 0.62
41 1 0.02
42 1 0.02
43 15 0.32
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.31
Consensus pattern (40 bp):
AACCTAAAATATTACGAAAAATGTAACATTTTAGGTTCTC
Found at i:99798 original size:27 final size:27
Alignment explanation
Indices: 99754--99841 Score: 81
Period size: 27 Copynumber: 3.1 Consensus size: 27
99744 TTTGTTATCA
*
99754 CATCATCTT-AGATGATGTGATACATAT
1 CATCATCTTGA-ATAATGTGATACATAT
99781 CATCAT-TATGAATAATGTGATACAAATCACAT
1 CATCATCT-TGAATAATGTGATAC--AT---AT
*
99813 CATCATCTTGAATAATGTGTTACATAT
1 CATCATCTTGAATAATGTGATACATAT
99840 CA
1 CA
99842 CGTCATCATC
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
26 1 0.02
27 22 0.43
28 1 0.02
29 2 0.04
30 2 0.04
32 22 0.43
33 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (27 bp):
CATCATCTTGAATAATGTGATACATAT
Found at i:99825 original size:32 final size:32
Alignment explanation
Indices: 99779--99853 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 32
99769 TGTGATACAT
99779 ATCATCAT-TATGAATAATGTGATACAAATCAC
1 ATCATCATCT-TGAATAATGTGATACAAATCAC
* *
99811 ATCATCATCTTGAATAATGTGTTACATATCAC
1 ATCATCATCTTGAATAATGTGATACAAATCAC
*
99843 GTCATCATCTT
1 ATCATCATCTT
99854 AGATGACATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
32 38 0.97
33 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (32 bp):
ATCATCATCTTGAATAATGTGATACAAATCAC
Found at i:100784 original size:20 final size:20
Alignment explanation
Indices: 100737--100784 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
100727 AAACTTAAAT
* *
100737 TCGCAACACGAAAATGAAAA
1 TCGCAACGCGAAAATAAAAA
100757 TCGCAACGCGAAAATAAAAA
1 TCGCAACGCGAAAATAAAAA
100777 TCGCAACG
1 TCGCAACG
100785 TTGCGAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.50, C:0.23, G:0.17, T:0.10
Consensus pattern (20 bp):
TCGCAACGCGAAAATAAAAA
Found at i:101020 original size:23 final size:23
Alignment explanation
Indices: 100994--101093 Score: 94
Period size: 23 Copynumber: 4.2 Consensus size: 23
100984 GCACTAAACC
100994 TATATGATGTCCTTTTAAATGTT
1 TATATGATGTCCTTTTAAATGTT
* * **
101017 TATATAAGTGTTTACTTCTGGAATG-T
1 TATATGA-TG--TCCTT-TTAAATGTT
*
101043 TATATGATGCCCTTTTAAATGTT
1 TATATGATGTCCTTTTAAATGTT
* *
101066 TATATGTTGTCATTTTAAATGTT
1 TATATGATGTCCTTTTAAATGTT
101089 TATAT
1 TATAT
101094 AAGTGAACTA
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
22 5 0.08
23 35 0.58
24 2 0.03
25 2 0.03
26 11 0.18
27 5 0.08
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (23 bp):
TATATGATGTCCTTTTAAATGTT
Found at i:102643 original size:21 final size:21
Alignment explanation
Indices: 102602--102643 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
102592 TGGTGCATGG
*
102602 CGTGATGAGGTACGGTATTTA
1 CGTGATGAGGTAAGGTATTTA
*
102623 CGTGGTGAGGTAGAGGT-TTTA
1 CGTGATGAGGTA-AGGTATTTA
102644 TGCGACGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.21, C:0.07, G:0.38, T:0.33
Consensus pattern (21 bp):
CGTGATGAGGTAAGGTATTTA
Found at i:103045 original size:42 final size:42
Alignment explanation
Indices: 102993--103111 Score: 166
Period size: 42 Copynumber: 2.8 Consensus size: 42
102983 GATTCACCTG
** * * *
102993 TCATCGTTCAAGAGGCGTCTCCTATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCACTA
* *
103035 TCATCCTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCACTA
*
103077 TCATCGTTCAAGAGGTCCCTCCCACCGTTCAAGAG
1 TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAG
103112 CCCGATTCAC
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.22, C:0.35, G:0.20, T:0.23
Consensus pattern (42 bp):
TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:103105 original size:21 final size:21
Alignment explanation
Indices: 102997--103111 Score: 115
Period size: 21 Copynumber: 5.5 Consensus size: 21
102987 CACCTGTCAT
** * *
102997 CGTTCAAGAGGCGTCTCCTAT
1 CGTTCAAGAGGCCCCTCCCAC
**
103018 CGTTCAAGAGGCCCCTATCATC
1 CGTTCAAGAGGCCCCTCCCA-C
103040 C-TTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
* ** *
103060 CGTTCAAGAGGCCACTGTCAT
1 CGTTCAAGAGGCCCCTCCCAC
*
103081 CGTTCAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
103102 CGTTCAAGAG
1 CGTTCAAGAG
103112 CCCGATTCAC
Statistics
Matches: 75, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
20 2 0.03
21 72 0.96
22 1 0.01
ACGTcount: A:0.22, C:0.36, G:0.21, T:0.22
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTCCCAC
Found at i:105088 original size:16 final size:16
Alignment explanation
Indices: 105059--105094 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
105049 AAGAAATAAG
* *
105059 AATTGTTTTTTTGTTT
1 AATTGATTTGTTGTTT
105075 AATTGATTTGTTGTTT
1 AATTGATTTGTTGTTT
105091 AATT
1 AATT
105095 TCACTCTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.14, T:0.67
Consensus pattern (16 bp):
AATTGATTTGTTGTTT
Found at i:105166 original size:20 final size:20
Alignment explanation
Indices: 105141--105199 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
105131 AGGTACACTT
105141 TCGCAACGCGAAAGTCAAAA
1 TCGCAACGCGAAAGTCAAAA
*
105161 TCGCAACGCAAAAGTCAAAA
1 TCGCAACGCGAAAGTCAAAA
*
105181 TCGTAACGCGAAAGTCAAA
1 TCGCAACGCGAAAGTCAAA
105200 TTTACGTTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.12
Consensus pattern (20 bp):
TCGCAACGCGAAAGTCAAAA
Found at i:105228 original size:20 final size:20
Alignment explanation
Indices: 105205--105242 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
105195 TCAAATTTAC
105205 GTTGCGATTTTGACTTTCAT
1 GTTGCGATTTTGACTTTCAT
105225 GTTGCGATTTTGACTTTC
1 GTTGCGATTTTGACTTTC
105243 GCGTTGTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATTTTGACTTTCAT
Found at i:105248 original size:20 final size:20
Alignment explanation
Indices: 105203--105248 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
105193 AGTCAAATTT
105203 ACGTTGCGATTTTGACTTTC
1 ACGTTGCGATTTTGACTTTC
*
105223 ATGTTGCGATTTTGACTTTC
1 ACGTTGCGATTTTGACTTTC
*
105243 GCGTTG
1 ACGTTG
105249 TGAATTCAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.13, C:0.17, G:0.24, T:0.46
Consensus pattern (20 bp):
ACGTTGCGATTTTGACTTTC
Found at i:105741 original size:18 final size:18
Alignment explanation
Indices: 105718--105753 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
105708 AAGTCGGTTG
*
105718 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
105736 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
105754 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:108088 original size:24 final size:24
Alignment explanation
Indices: 108037--108088 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
108027 ATCTGAGTAT
** *
108037 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
108061 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
108085 TGAC
1 TGAC
108089 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:108217 original size:12 final size:12
Alignment explanation
Indices: 108195--108233 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
108185 GGAAAGGTAG
108195 TGTGTTTTGATAT
1 TGTG-TTTGATAT
108208 TGTGTTTGATAT
1 TGTGTTTGATAT
*
108220 TGTGTTTGGTAT
1 TGTGTTTGATAT
108232 TG
1 TG
108234 GAAATGTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 21 0.84
13 4 0.16
ACGTcount: A:0.13, C:0.00, G:0.28, T:0.59
Consensus pattern (12 bp):
TGTGTTTGATAT
Found at i:108846 original size:16 final size:16
Alignment explanation
Indices: 108825--108855 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
108815 AAATCATTGA
108825 AAAATTATATAAAAAT
1 AAAATTATATAAAAAT
*
108841 AAAATTATGTAAAAA
1 AAAATTATATAAAAA
108856 AAATAAAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (16 bp):
AAAATTATATAAAAAT
Found at i:109070 original size:20 final size:20
Alignment explanation
Indices: 109047--109084 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
109037 TATTGTGAAT
109047 TCAAAAATCGAGTTGCGAAA
1 TCAAAAATCGAGTTGCGAAA
* *
109067 TCAAAATTCGTGTTGCGA
1 TCAAAAATCGAGTTGCGA
109085 TTTAGAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (20 bp):
TCAAAAATCGAGTTGCGAAA
Found at i:109094 original size:40 final size:40
Alignment explanation
Indices: 109022--109106 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
109012 AAAGCTGTTA
* *
109022 CGAAATTAAAATTCGTATTGTGAATTCAAAAATCGAGTTG
1 CGAAATCAAAATTCGTATTGCGAATTCAAAAATCGAGTTG
* * **
109062 CGAAATCAAAATTCGTGTTGCG-ATTTAGAAAATCTTGTTG
1 CGAAATCAAAATTCGTATTGCGAATTCA-AAAATCGAGTTG
109102 CGAAA
1 CGAAA
109107 AGGAAACTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.11
40 34 0.89
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.32
Consensus pattern (40 bp):
CGAAATCAAAATTCGTATTGCGAATTCAAAAATCGAGTTG
Found at i:109181 original size:20 final size:20
Alignment explanation
Indices: 109158--109268 Score: 102
Period size: 20 Copynumber: 5.5 Consensus size: 20
109148 TGACTTCTGT
109158 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACATATTCGC
*
109178 GTTGCGATTTA-ACTATTCAC
1 GTTGCGATTTACA-TATTCGC
* * *
109198 GTTACGAATTTAGAAAATT-GC
1 GTTGCG-ATTTA-CATATTCGC
*
109219 GTTGCGATTTACCTATTCGC
1 GTTGCGATTTACATATTCGC
*
109239 ATTGCGATTTATC-TATTCGC
1 GTTGCGATTTA-CATATTCGC
*
109259 GTTGCAATTT
1 GTTGCGATTT
109269 TAGAACCTGT
Statistics
Matches: 74, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
19 4 0.05
20 54 0.73
21 12 0.16
22 3 0.04
23 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (20 bp):
GTTGCGATTTACATATTCGC
Found at i:116808 original size:15 final size:15
Alignment explanation
Indices: 116785--116841 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
116775 TATCATATCT
116785 ATAATTATTTATTAAA
1 ATAA-TATTTATTAAA
116801 ATAATATTCT-TT-AA
1 ATAATATT-TATTAAA
*
116815 ATATTATTTATTAAA
1 ATAATATTTATTAAA
*
116830 ATAATATATATT
1 ATAATATTTATT
116842 TTTATTATAC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
13 1 0.03
14 11 0.31
15 18 0.51
16 5 0.14
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
ATAATATTTATTAAA
Found at i:116828 original size:14 final size:14
Alignment explanation
Indices: 116788--116829 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
116778 CATATCTATA
116788 ATTATTTATTAAAAT
1 ATTATTTATT-AAAT
*
116803 AATATTCT-TTAAAT
1 ATTATT-TATTAAAT
116817 ATTATTTATTAAA
1 ATTATTTATTAAA
116830 ATAATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 1 0.04
14 14 0.61
15 7 0.30
16 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTATTTATTAAAT
Found at i:118836 original size:20 final size:20
Alignment explanation
Indices: 118800--118837 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
118790 ATCCTATTCC
**
118800 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
118820 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
118838 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:119190 original size:28 final size:28
Alignment explanation
Indices: 119131--119193 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
119121 CAGAGAACAA
119131 AAATCAGACAACCAGACTTAAACTTTAGT
1 AAATCAGACAACCAGACTTAAAC-TTAGT
*
119160 AAATCAGA-AATCAGACTTTAAA-TTAGAT
1 AAATCAGACAACCAGAC-TTAAACTTAG-T
119188 AAATCA
1 AAATCA
119194 TACTGAATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
27 4 0.13
28 14 0.45
29 13 0.42
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.25
Consensus pattern (28 bp):
AAATCAGACAACCAGACTTAAACTTAGT
Found at i:120889 original size:4 final size:4
Alignment explanation
Indices: 120880--120918 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
120870 CAATGCATGT
120880 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
120919 CATAGTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:129822 original size:182 final size:182
Alignment explanation
Indices: 129508--129985 Score: 751
Period size: 182 Copynumber: 2.6 Consensus size: 182
129498 GATCTAAATA
* * * * * *
129508 AAAAATATATCGATCCATATCAATATAACAGGTAAAAATATGACAAAATCGGTCACGAAAAGACA
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCACGAAAAGATA
* *
129573 AAACCGATAAAGCGCTACCGGATATATTGAAATTGTCGATACTTTAATATAAGTATCGACACTTT
66 AAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTT
* * *
129638 GTGAATTTAAAATAGAAG-TAATTTTAACGCCTATAAAGTGTCGATACTTTAT
131 GTGAATTTAAAAGAGAAGCT-ATTTTAACGCCTAAAAAGCGTCGATACTTTAT
*
129690 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTCACGAAAAGATA
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCACGAAAAGATA
* *
129755 AAATCGGTAAAGTGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTT
66 AAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTT
* * *
129820 GTGAATTTAAGAGAGAAGCTGTTTTAGCGCCTAAAAAGCGTCGATACTTTAT
131 GTGAATTTAAAAGAGAAGCTATTTTAACGCCTAAAAAGCGTCGATACTTTAT
* * *
129872 AAAAATGTATCGATCCACAACGATATAACAAGTAAAAATATGACAAAACTGATCACGAAAAGATA
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCACGAAAAGATA
*
129937 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTAATA
66 AAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATA
129986 AGTACGCGTA
Statistics
Matches: 271, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
182 270 1.00
183 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.26
Consensus pattern (182 bp):
AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGACAAAACCGGTCACGAAAAGATA
AAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTT
GTGAATTTAAAAGAGAAGCTATTTTAACGCCTAAAAAGCGTCGATACTTTAT
Found at i:130803 original size:180 final size:182
Alignment explanation
Indices: 130499--130847 Score: 576
Period size: 180 Copynumber: 1.9 Consensus size: 182
130489 GTGTCGATAC
*
130499 TTTGTGAATTTAAAAGATAAGCAGTTTTAGCGCCCATAAAGTGTCGATACTTTATAAAAATATAT
1 TTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAGTGTCGATACTTTATAAAAATATAT
* * * *
130564 CGATCCACAACGATATAACATGTAAAAATATGACAAAACCGGTCATGAAAAGACAAAACCGGTAA
66 CGATCCACAACAATATAACAGGTAAAAATATGACAAAACCAGTCACGAAAAGACAAAACCGGTAA
* *
130629 AGCGCTAGCTGATATATTGAAAGTGTCGATATTTTAATATAAGTATCGACAA
131 AGCGCTAGCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACAA
* * * *
130681 TTTGTGAATTTAAAAGAGAAGCGGTTTTAGTGTCTATAAAGTGTCGATACTTTAT-AAAA-ATAT
1 TTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAGTGTCGATACTTTATAAAAATATAT
130744 CGATCCACAACAATATAACAGGTAAAAATATGACAAAACCAGTCACGAAAAGACAAAACCGGTAA
66 CGATCCACAACAATATAACAGGTAAAAATATGACAAAACCAGTCACGAAAAGACAAAACCGGTAA
*
130809 AGCGCTATCGGATATATTGAAAGTGTCGATACTTTAATA
131 AGCGCTAGCGGATATATTGAAAGTGTCGATACTTTAATA
130848 AGTACGCGTA
Statistics
Matches: 155, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
180 101 0.65
181 4 0.03
182 50 0.32
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
TTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCCATAAAGTGTCGATACTTTATAAAAATATAT
CGATCCACAACAATATAACAGGTAAAAATATGACAAAACCAGTCACGAAAAGACAAAACCGGTAA
AGCGCTAGCGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACAA
Found at i:131574 original size:87 final size:87
Alignment explanation
Indices: 131482--131644 Score: 274
Period size: 87 Copynumber: 1.9 Consensus size: 87
131472 AAATAGGTCA
*
131482 ATATAAGCGCTACCTATTACATTATATAAGA-GCTACCTAATATGTTATTGTACTTGATAATATT
1 ATATAAGCGCTACCTATTACATTATATAA-ACGCTACCTAATATATTATTGTACTTGATAATATT
131546 TCCGGTTAAATGCCTATTTTATT
65 TCCGGTTAAATGCCTATTTTATT
* *
131569 ATATAAGCGTTATCTATTACATTATATAAACGCTACCTAATATATTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATATTATTGTACTTGATAATATTT
*
131634 TCGGTTAAATG
66 CCGGTTAAATG
131645 ATATAACATA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
86 1 0.01
87 70 0.99
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATATTATTGTACTTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:131615 original size:23 final size:23
Alignment explanation
Indices: 131565--131616 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
131555 ATGCCTATTT
* * * *
131565 TATTATATAAGCGTTATCTATTA
1 TATTATATAAACGCTACCTAATA
*
131588 CATTATATAAACGCTACCTAATA
1 TATTATATAAACGCTACCTAATA
131611 TATTAT
1 TATTAT
131617 TGTACTTGAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.42
Consensus pattern (23 bp):
TATTATATAAACGCTACCTAATA
Found at i:135545 original size:35 final size:34
Alignment explanation
Indices: 135460--135546 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
135450 ATTTGGTATT
*
135460 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
135494 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
135532 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
135547 ACTGTGTCGC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:136147 original size:37 final size:36
Alignment explanation
Indices: 136106--136179 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 36
136096 GGATAAAGAT
*
136106 AAAAAGAAAATAG-ATAAATAAATGAGTAAAATATATA
1 AAAAAGAAAA-AGCATAAATAAATAAGTAAAATA-ATA
* * *
136143 AAAAAGTAAAAGCATATATATATAAGTAAAATAATA
1 AAAAAGAAAAAGCATAAATAAATAAGTAAAATAATA
136179 A
1 A
136180 TAATAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 6 0.19
37 26 0.81
ACGTcount: A:0.66, C:0.01, G:0.09, T:0.23
Consensus pattern (36 bp):
AAAAAGAAAAAGCATAAATAAATAAGTAAAATAATA
Found at i:136161 original size:20 final size:20
Alignment explanation
Indices: 136136--136173 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
136126 AATGAGTAAA
136136 ATATATAAAAAAGTAAAAGC
1 ATATATAAAAAAGTAAAAGC
* *
136156 ATATATATATAAGTAAAA
1 ATATATAAAAAAGTAAAA
136174 TAATAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
ATATATAAAAAAGTAAAAGC
Found at i:137711 original size:106 final size:106
Alignment explanation
Indices: 137518--138674 Score: 1809
Period size: 106 Copynumber: 11.0 Consensus size: 106
137508 GGATTGTTCC
* * * *
137518 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * * *
137582 ACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
137624 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * ** * * *
137689 CCAGTGGTCCTTTCATTTTGAAGTTGAACTTGCATCGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
137730 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
137795 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
137836 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
137901 CCAGCAGTCCATTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
137942 GAGTCCAATATCCTTCGC-----AG-TG-AA---G-T-TGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
137995 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
138036 GAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
138101 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
138142 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
138207 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
138248 GAGTCCAATATCTTTAGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
138313 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
138354 GAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
138419 CCAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** *
138460 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCAAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
138525 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
138566 GAGTTCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
138631 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
138672 GAG
1 GAG
138675 AGAAACTGTC
Statistics
Matches: 966, Mismatches: 72, Indels: 26
0.91 0.07 0.02
Matches are distributed among these distances:
94 78 0.08
95 1 0.00
96 1 0.00
99 4 0.00
100 4 0.00
101 4 0.00
104 1 0.00
105 1 0.00
106 871 0.90
107 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:138797 original size:37 final size:36
Alignment explanation
Indices: 138675--138812 Score: 154
Period size: 37 Copynumber: 3.8 Consensus size: 36
138665 TTGTCTGGAG
* *
138675 AGAA-ACTGTCTCAAGGGAGACAAAATTTGTTTCAA
1 AGAAGACTGTCTCAAGCGAGACAAAATTTGTTTTAA
* * * *
138710 GGAAGACTGTCTCAAGGGAGACGAAATTTGTTTCAA
1 AGAAGACTGTCTCAAGCGAGACAAAATTTGTTTTAA
* * *
138746 AGAAAAACTATCTCAAGCGAGATAAAATCTTGTTTTAA
1 AG-AAGACTGTCTCAAGCGAGACAAAAT-TTGTTTTAA
138784 ATG-AGACTGTCTCAAGCGAGACAAAATTT
1 A-GAAGACTGTCTCAAGCGAGACAAAATTT
138813 ATATTGGAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
35 3 0.03
36 33 0.38
37 41 0.47
38 9 0.10
39 1 0.01
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.26
Consensus pattern (36 bp):
AGAAGACTGTCTCAAGCGAGACAAAATTTGTTTTAA
Found at i:139585 original size:22 final size:22
Alignment explanation
Indices: 139559--139633 Score: 114
Period size: 22 Copynumber: 3.4 Consensus size: 22
139549 TTGTGTTTGG
139559 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
* * *
139581 TCAAATGTTTGGTATTTGATGT
1 TCAAAGGTTTGGCATTTGATGC
*
139603 TCAAAGGTTTGTCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
139625 TCAAAGGTT
1 TCAAAGGTT
139634 AGATGGGGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.41
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:140262 original size:19 final size:18
Alignment explanation
Indices: 140236--140283 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
140226 TTTTTGTCCC
140236 TTTTTCTTTTTGATTTTG
1 TTTTTCTTTTTGATTTTG
**
140254 TTCTTTCTTTTTTCTTTTG
1 TT-TTTCTTTTTGATTTTG
*
140273 TTTCTCTTTTT
1 TTTTTCTTTTT
140284 CTTTGTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.02, C:0.12, G:0.06, T:0.79
Consensus pattern (18 bp):
TTTTTCTTTTTGATTTTG
Found at i:140282 original size:16 final size:16
Alignment explanation
Indices: 140257--140291 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
140247 GATTTTGTTC
140257 TTTCT-TTTTTCTTTTG
1 TTTCTCTTTTTC-TTTG
140273 TTTCTCTTTTTCTTTG
1 TTTCTCTTTTTCTTTG
140289 TTT
1 TTT
140292 TTGATTGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (16 bp):
TTTCTCTTTTTCTTTG
Found at i:143436 original size:37 final size:36
Alignment explanation
Indices: 143395--143479 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 36
143385 TGATAAAGAT
*
143395 AAAAAGAAAATAG-ATAAATAAATGAGTAAAATATATA
1 AAAAAGAAAA-AGCATAAATAAATAAGTAAAATA-ATA
* * *
143432 AAAAAGTAAAAGCATATATATATAAGTAAAATAATA
1 AAAAAGAAAAAGCATAAATAAATAAGTAAAATAATA
*
143468 ATAATAGAAAAA
1 A-AAAAGAAAAA
143480 AGAATATCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
36 6 0.15
37 34 0.85
ACGTcount: A:0.67, C:0.01, G:0.09, T:0.22
Consensus pattern (36 bp):
AAAAAGAAAAAGCATAAATAAATAAGTAAAATAATA
Found at i:143450 original size:20 final size:20
Alignment explanation
Indices: 143425--143462 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
143415 AATGAGTAAA
143425 ATATATAAAAAAGTAAAAGC
1 ATATATAAAAAAGTAAAAGC
* *
143445 ATATATATATAAGTAAAA
1 ATATATAAAAAAGTAAAA
143463 TAATAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (20 bp):
ATATATAAAAAAGTAAAAGC
Found at i:145575 original size:267 final size:267
Alignment explanation
Indices: 145100--145632 Score: 976
Period size: 267 Copynumber: 2.0 Consensus size: 267
145090 AGTGGAGTGT
*
145100 CACTCGACGGTCGCATAACAGATCAAATGGACCATCACCATCCAAACATCTGATGGACCCCTCAA
1 CACTCGACGGTCGCATAACAGATCAAAGGGACCATCACCATCCAAACATCTGATGGACCCCTCAA
* *
145165 CTCAGGTGGGATCACCGCCCTCATATCATCAGTAGAATATGACACCCATTCAAACTAAAACAAAT
66 CTCAGGTGAGATCACCGCCCTCACATCATCAGTAGAATATGACACCCATTCAAACTAAAACAAAT
145230 AATATATAATTTTTATCAAAATAATAATCTAATAATATAACTATAATCTAAAATCGATTTTTAAA
131 AATATATAATTTTTATCAAAATAATAATCTAATAATATAACTATAATCTAAAATCGATTTTTAAA
*
145295 CATTAAAATTCATACCTGTGTGCCAGCCTTCCGATCGATTAGCACCCTAATTTTTTCTAAATCAT
196 CATTAAAATTCATAACTGTGTGCCAGCCTTCCGATCGATTAGCACCCTAATTTTTTCTAAATCAT
145360 CAGGTAC
261 CAGGTAC
*
145367 CACTCGACGGTCGCATAACAGATCAGAGGGACCATCACCATCCAAACATCTGATGGACCCCTCAA
1 CACTCGACGGTCGCATAACAGATCAAAGGGACCATCACCATCCAAACATCTGATGGACCCCTCAA
* *
145432 CTCATGTGAGATCACTGCCCTCACATCATCAGTAGAATATGACACCCATTCAAACTAAAACAAAT
66 CTCAGGTGAGATCACCGCCCTCACATCATCAGTAGAATATGACACCCATTCAAACTAAAACAAAT
* *
145497 AATATATAATTTTTATCAAAATAATAATCTAATTATATAACTATAATCTAAAATTGATTTTTAAA
131 AATATATAATTTTTATCAAAATAATAATCTAATAATATAACTATAATCTAAAATCGATTTTTAAA
*
145562 CATTAAAATTCATAACTGTGTGCCAGCCTTCTGATCGATTAGCACCCTAATTTTTTCTAAATCAT
196 CATTAAAATTCATAACTGTGTGCCAGCCTTCCGATCGATTAGCACCCTAATTTTTTCTAAATCAT
145627 CAGGTA
261 CAGGTA
145633 GCTCCTGATG
Statistics
Matches: 256, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
267 256 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (267 bp):
CACTCGACGGTCGCATAACAGATCAAAGGGACCATCACCATCCAAACATCTGATGGACCCCTCAA
CTCAGGTGAGATCACCGCCCTCACATCATCAGTAGAATATGACACCCATTCAAACTAAAACAAAT
AATATATAATTTTTATCAAAATAATAATCTAATAATATAACTATAATCTAAAATCGATTTTTAAA
CATTAAAATTCATAACTGTGTGCCAGCCTTCCGATCGATTAGCACCCTAATTTTTTCTAAATCAT
CAGGTAC
Found at i:146606 original size:111 final size:111
Alignment explanation
Indices: 146466--146687 Score: 408
Period size: 111 Copynumber: 2.0 Consensus size: 111
146456 ATTATAAAAA
146466 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
146531 AATTAAAACGTTAAAATGTTACCGTATAAGCAAAGTATCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATAAGCAAAGTATAGAGATAT
*
146577 TTAATTCTTAATCTAATAATCATGTATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
146642 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATAAGCAAAGTATAGAGATAT
146688 ATGATTTCCA
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 107 1.00
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATAAGCAAAGTATAGAGATAT
Found at i:146792 original size:17 final size:18
Alignment explanation
Indices: 146751--146789 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
146741 ATTATATTAG
146751 TAAAATA-TTAAATAAAA
1 TAAAATACTTAAATAAAA
*
146768 TAAAATACTTAAATAAAT
1 TAAAATACTTAAATAAAA
146786 TAAA
1 TAAA
146790 TACATAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATACTTAAATAAAA
Found at i:147027 original size:50 final size:49
Alignment explanation
Indices: 146973--147098 Score: 153
Period size: 50 Copynumber: 2.5 Consensus size: 49
146963 AGATACCCAG
* * *
146973 GTATAGCGCGGATCAGGGGGCACGCTATACCCACGTGGCGCCAAATCACC
1 GTATAGCGCGG-TCAGGGGGCGCGCTATACCCACATGACGCCAAATCACC
* * * * *
147023 GTATATCGCAGGGCAGGGCGCGTGCTATACCCACATGACGCCAAATCAGC
1 GTATAGCGC-GGTCAGGGGGCGCGCTATACCCACATGACGCCAAATCACC
147073 GTATAGCGCGGTTCAGGGGGCGCGCT
1 GTATAGCGCGG-TCAGGGGGCGCGCT
147099 TTACTGCTAC
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
49 2 0.03
50 58 0.94
51 2 0.03
ACGTcount: A:0.22, C:0.29, G:0.33, T:0.16
Consensus pattern (49 bp):
GTATAGCGCGGTCAGGGGGCGCGCTATACCCACATGACGCCAAATCACC
Done.