Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003335.1 Hibiscus syriacus cultivar Beakdansim tig00007019_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: 149161
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:775 original size:38 final size:38
Alignment explanation
Indices: 724--799 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
714 GCAATCCGGC
724 TATCCATATGTTCTAAACTCGTCATTTTCAGTTTAAAA
1 TATCCATATGTTCTAAACTCGTCATTTTCAGTTTAAAA
762 TATCCATATGTTCTAAACTCGTCATTTTCAGTTTAAAA
1 TATCCATATGTTCTAAACTCGTCATTTTCAGTTTAAAA
800 AATGACAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.18, G:0.08, T:0.42
Consensus pattern (38 bp):
TATCCATATGTTCTAAACTCGTCATTTTCAGTTTAAAA
Found at i:5166 original size:30 final size:29
Alignment explanation
Indices: 5118--5225 Score: 92
Period size: 30 Copynumber: 3.7 Consensus size: 29
5108 GTATAATTTG
* *
5118 ATTAAAGTAAATATTTAAAATTACTCTTTT
1 ATTAAAATAAATACTTAAAATTACT-TTTT
* * * *
5148 ATTAAAATAAGTAGTT-AAAGTACATTTTG
1 ATTAAAATAAATACTTAAAATTAC-TTTTT
* * *
5177 ATCAAAATAAATACTTAAAGTTATTTTTTT
1 ATTAAAATAAATACTTAAAATTA-CTTTTT
*
5207 ATTAAAATAAGTACTTAAA
1 ATTAAAATAAATACTTAAA
5226 GTATTTAGAT
Statistics
Matches: 61, Mismatches: 14, Indels: 6
0.75 0.17 0.07
Matches are distributed among these distances:
29 22 0.36
30 39 0.64
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (29 bp):
ATTAAAATAAATACTTAAAATTACTTTTT
Found at i:5178 original size:59 final size:59
Alignment explanation
Indices: 5114--5228 Score: 167
Period size: 59 Copynumber: 1.9 Consensus size: 59
5104 TGAAGTATAA
* * * *
5114 TTTGATTAAAGTAAATATTTAAAATTACTCTTTTATTAAAATAAGTAGTTAAAGTACAT
1 TTTGATCAAAATAAATACTTAAAATTACTCTTTTATTAAAATAAGTACTTAAAGTACAT
* * *
5173 TTTGATCAAAATAAATACTTAAAGTTATTTTTTTATTAAAATAAGTACTTAAAGTA
1 TTTGATCAAAATAAATACTTAAAATTACTCTTTTATTAAAATAAGTACTTAAAGTA
5229 TTTAGATTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (59 bp):
TTTGATCAAAATAAATACTTAAAATTACTCTTTTATTAAAATAAGTACTTAAAGTACAT
Found at i:5184 original size:29 final size:29
Alignment explanation
Indices: 5151--5228 Score: 93
Period size: 30 Copynumber: 2.7 Consensus size: 29
5141 CTCTTTTATT
*
5151 AAAATAAGTAGTTAAAGTACATTTTGATC
1 AAAATAAGTACTTAAAGTACATTTTGATC
* ** * *
5180 AAAATAAATACTTAAAGTTATTTTTTTATT
1 AAAATAAGTACTTAAAG-TACATTTTGATC
5210 AAAATAAGTACTTAAAGTA
1 AAAATAAGTACTTAAAGTA
5229 TTTAGATTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 17 0.41
30 24 0.59
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.38
Consensus pattern (29 bp):
AAAATAAGTACTTAAAGTACATTTTGATC
Found at i:5231 original size:29 final size:29
Alignment explanation
Indices: 5144--5231 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 29
5134 AAAATTACTC
* **
5144 TTTTATTAAAATAAGTAGTTAAAGTACAT
1 TTTTATTAAAATAAGTACTTAAAGTATTT
* * *
5173 TTTGATCAAAATAAATACTTAAAGTTATTT
1 TTTTATTAAAATAAGTACTTAAAG-TATTT
5203 TTTTATTAAAATAAGTACTTAAAGTATTT
1 TTTTATTAAAATAAGTACTTAAAGTATTT
5232 AGATTAAAAG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 25 0.51
30 24 0.49
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.44
Consensus pattern (29 bp):
TTTTATTAAAATAAGTACTTAAAGTATTT
Found at i:5406 original size:20 final size:20
Alignment explanation
Indices: 5370--5407 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5360 ATAATATAAG
*
5370 AATATTATTTTTAATTAATT
1 AATATTATATTTAATTAATT
5390 AATATTTATATTT-ATTAA
1 AATA-TTATATTTAATTAA
5408 ATATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AATATTATATTTAATTAATT
Found at i:10653 original size:31 final size:33
Alignment explanation
Indices: 10613--10673 Score: 99
Period size: 31 Copynumber: 1.9 Consensus size: 33
10603 CATATAAGCG
*
10613 AACTTACAAAAATCC-AACAC-TATTTTCTATA
1 AACTAACAAAAATCCAAACACTTATTTTCTATA
10644 AACTAACAAAAATCCAAACACTTATTTTCT
1 AACTAACAAAAATCCAAACACTTATTTTCT
10674 CTATTTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 14 0.52
32 5 0.19
33 8 0.30
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (33 bp):
AACTAACAAAAATCCAAACACTTATTTTCTATA
Found at i:14607 original size:2 final size:2
Alignment explanation
Indices: 14600--14634 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
14590 ATTATATCAT
14600 TA TA TA TA 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 TA TA TA TA T
14635 TAATGATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23887 original size:22 final size:21
Alignment explanation
Indices: 23822--23892 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 21
23812 TTTTGGGGGA
23822 TTTT-TAGGAATTTAGGATTT
1 TTTTATAGGAATTTAGGATTT
* **
23842 TTTTATTTAGAAATTT-GGGGTT
1 TTTTA--TAGGAATTTAGGATTT
23864 TTTTATAGGAATTTTAGGATTT
1 TTTTATAGGAA-TTTAGGATTT
23886 TTTTATA
1 TTTTATA
23893 TAAAAAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 9 0.22
21 3 0.08
22 20 0.50
23 8 0.20
ACGTcount: A:0.25, C:0.00, G:0.18, T:0.56
Consensus pattern (21 bp):
TTTTATAGGAATTTAGGATTT
Found at i:25546 original size:17 final size:17
Alignment explanation
Indices: 25526--25571 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
25516 TAGTTTAACG
25526 TAATTATTAAATAATAT
1 TAATTATTAAATAATAT
25543 TAATT-TTAAAT--T-T
1 TAATTATTAAATAATAT
*
25556 TAATTATTTAATAATA
1 TAATTATTAAATAATA
25572 AACCTTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 8
0.73 0.03 0.24
Matches are distributed among these distances:
13 6 0.25
14 6 0.25
16 7 0.29
17 5 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATTATTAAATAATAT
Found at i:26735 original size:2 final size:2
Alignment explanation
Indices: 26728--26757 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26718 TTAAACAAAT
26728 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
26758 ATCGGTGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:28252 original size:21 final size:21
Alignment explanation
Indices: 28228--28269 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
28218 GAATATCAAG
28228 TAGCTCGTTTCGGCTCGTTAA
1 TAGCTCGTTTCGGCTCGTTAA
28249 TAGCTCGTTTCGGCTCGTTAA
1 TAGCTCGTTTCGGCTCGTTAA
28270 GAACTCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.38
Consensus pattern (21 bp):
TAGCTCGTTTCGGCTCGTTAA
Found at i:28276 original size:21 final size:21
Alignment explanation
Indices: 28231--28276 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
28221 TATCAAGTAG
* *
28231 CTCGTTTCGGCTCGTTAATAG
1 CTCGTTTCGGCTCGTTAAGAA
28252 CTCGTTTCGGCTCGTTAAGAA
1 CTCGTTTCGGCTCGTTAAGAA
28273 CTCG
1 CTCG
28277 GGTCGAGCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.26, G:0.24, T:0.35
Consensus pattern (21 bp):
CTCGTTTCGGCTCGTTAAGAA
Found at i:29543 original size:17 final size:17
Alignment explanation
Indices: 29523--29570 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
29513 CAAAATTATT
29523 TTAAATATTTTAAAAAA
1 TTAAATATTTTAAAAAA
* **
29540 TTAAATTTTTTATTAAA
1 TTAAATATTTTAAAAAA
*
29557 -TATATATTTTAAAA
1 TTAAATATTTTAAAA
29571 CTACTTGATT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAATATTTTAAAAAA
Found at i:29779 original size:32 final size:32
Alignment explanation
Indices: 29743--29860 Score: 146
Period size: 32 Copynumber: 3.7 Consensus size: 32
29733 TAATTACCAG
* *
29743 TTACATAATTAACAAGTAGTAACAAGTTGAGA
1 TTACATAATTAACAAGTAATAACAAATTGAGA
* *
29775 TTACATAATGAACAAGTAATAACAAATTGGGA
1 TTACATAATTAACAAGTAATAACAAATTGAGA
* * * *
29807 TTGCATACTTAATAAGTAATAACAAATTAAGA
1 TTACATAATTAACAAGTAATAACAAATTGAGA
* *
29839 TTACATAATCAACAAGTTATAA
1 TTACATAATTAACAAGTAATAA
29861 ATTGATCACT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 71 1.00
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (32 bp):
TTACATAATTAACAAGTAATAACAAATTGAGA
Found at i:31645 original size:30 final size:28
Alignment explanation
Indices: 31586--31646 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
31576 ATTTTTTATT
* *
31586 TAAATATTTAAAGTATTTTTTAATCAAA
1 TAAATATATAAAGTATTTTTTAATAAAA
*
31614 TAAATATATAAAGTTATTTTTTAGTTAAAA
1 TAAATATATAAAG-TATTTTTTA-ATAAAA
31644 TAA
1 TAA
31647 GTATTTATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 12 0.43
29 9 0.32
30 7 0.25
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.46
Consensus pattern (28 bp):
TAAATATATAAAGTATTTTTTAATAAAA
Found at i:32101 original size:12 final size:13
Alignment explanation
Indices: 32072--32102 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
32062 TTGGTTAAAG
32072 TATTTAAATATAA
1 TATTTAAATATAA
32085 TATTTAAATAT-A
1 TATTTAAATATAA
32097 TATTTA
1 TATTTA
32103 TTGAATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TATTTAAATATAA
Found at i:36695 original size:20 final size:20
Alignment explanation
Indices: 36655--36695 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
36645 ATAAGTGATA
*
36655 AATAAATAAATAATAATAAT
1 AATAAATAAATAATAAAAAT
36675 AATAAATAAAATAA-AAAAAT
1 AATAAAT-AAATAATAAAAAT
36695 A
1 A
36696 GATATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (20 bp):
AATAAATAAATAATAAAAAT
Found at i:36790 original size:36 final size:36
Alignment explanation
Indices: 36710--36916 Score: 238
Period size: 37 Copynumber: 5.6 Consensus size: 36
36700 TAAAAACACG
36710 TTTT-AAAACTATATAATATATATGTTTTAAAAA-TAA
1 TTTTCAAAACTATATAATATATA--TTTTAAAAACTAA
36746 TTTTCAAAACTATATAATATATATTTTAAAAACTAA
1 TTTTCAAAACTATATAATATATATTTTAAAAACTAA
*
36782 TTTTCAAAACTATATAATATATATTTTTTAAAACCTAA
1 TTTTCAAAACTATATAATATATA--TTTTAAAAACTAA
* * * *
36820 TTTTCAAAATTATATAATGTATATTTAAAAAAATTAA
1 TTTTCAAAACTATATAATATATATTT-TAAAAACTAA
* * ** **
36857 TTTTAAAAACTATATAATATATGTTTTCAAAAGTTTT
1 TTTTCAAAACTATATAATATATATTTT-AAAAACTAA
*
36894 TTTTAAAAACTATATAATATATA
1 TTTTCAAAACTATATAATATATA
36917 AATGTTTTCA
Statistics
Matches: 150, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
35 9 0.06
36 33 0.22
37 75 0.50
38 33 0.22
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (36 bp):
TTTTCAAAACTATATAATATATATTTTAAAAACTAA
Found at i:36955 original size:25 final size:26
Alignment explanation
Indices: 36893--36954 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
36883 TCAAAAGTTT
36893 TTTTTAAAAACTATATAATATATAAA
1 TTTTTAAAAACTATATAATATATAAA
* * *
36919 TGTTTTCAAAACTATATATTATATATA
1 T-TTTTAAAAACTATATAATATATAAA
36946 TTTTTAAAA
1 TTTTTAAAA
36955 CATTTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 8 0.26
27 23 0.74
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (26 bp):
TTTTTAAAAACTATATAATATATAAA
Found at i:36966 original size:66 final size:65
Alignment explanation
Indices: 36857--36983 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 65
36847 AAAAAATTAA
* * *
36857 TTTTAAAAACTATATAATATATGTTTTCAAAA-GTTTTTTTTAAAAACTATATAATATATAAATG
1 TTTTAAAAACTATATAATATATATTTTCAAAACATTTTTTTAAAAAACTATATAATATATAAATG
* *
36921 TTTTCAAAACTATATATTATATATATTTTTAAAACATTTTTTTAAAAAACTATATAATATATA
1 TTTTAAAAACTATATA--ATATATATTTTCAAAACATTTTTTTAAAAAACTATATAATATATA
36984 TTTTTGAAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
64 15 0.27
66 14 0.25
67 26 0.47
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (65 bp):
TTTTAAAAACTATATAATATATATTTTCAAAACATTTTTTTAAAAAACTATATAATATATAAATG
Found at i:37772 original size:84 final size:82
Alignment explanation
Indices: 37677--38859 Score: 1089
Period size: 84 Copynumber: 14.2 Consensus size: 82
37667 CTGAATGTAA
* *
37677 TCGAACTCGAAGGTCTTCGATTGGCAGATAACCCTTCTCGACTTAAGCTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTT-G-TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
37742 GCCTTGGAGCTGAGCGTAG
64 GCCTTGGAGCTGAGCGTAG
* *
37761 TCAAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTC-TT-GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
37826 GCCTTGGAGCTGAGCGTAG
64 GCCTTGGAGCTGAGCGTAG
* * * * * * * *
37845 TCGAACCCGAAGGTCTT-TTGGTGACGGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATA
1 TCGAACTCGAAGGTCTTGTT-G-G-CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
* * * *
37909 TGCCCTCGAAGCTGAGTGTAA
63 TG-CCTTGGAGCTGAGCGTAG
* * * * * * *
37930 TCGAACTCGAGGGTC-T-TTAGCAGATAGCCCTTCTCAACTTAAGCTATGCTGTAAATGATGCGC
1 TCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
* *
37993 CTTGGGGCTGACCGTAG
66 CTTGGAGCTGAGCGTAG
* * * *
38010 TCGAACTCGAAGGTCTTTGGTTGGTAGATAACTCTTCTCGATTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTC-TT-GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
** * *
38075 GCCTTACAGTTGAACGTAG
64 GCCTTGGAGCTGAGCGTAG
* * * * * * * * *
38094 TCAAACTCGAAGGTCTTTTGTTGGAAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTC--TTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * *
38159 GCCCTCGAAGCTGAGTGTAA
64 G-CCTTGGAGCTGAGCGTAG
* * * * * *
38179 TCAAACTCGAGGGTC-T-TTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGCGC
1 TCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
38242 CTTGGAGCTGAGCGTAG
66 CTTGGAGCTGAGCGTAG
* * * * * *
38259 TCAAACTCGAAGGTCTT-TTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATG
1 TCGAACTCGAAGGTCTTGTTGG---CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
* * * *
38323 TGCCCTCGAAGCTGAGTGTAA
63 TG-CCTTGGAGCTGAGCGTAG
* * *
38344 TCGAACTC-AAGGGTC-T-TTGGCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATGTG
1 TCGAACTCGAA-GGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
38406 CCTTGGAGCTGAGCGTAG
65 CCTTGGAGCTGAGCGTAG
38424 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTC-TT-GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * * *
38489 GCCCTCGAAGCTGAGTGTAA
64 G-CCTTGGAGCTGAGCGTAG
* * * * * * *
38509 TCAAACTCGAAGGTCTT-TTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATA
1 TCGAACTCGAAGGTCTTGTT-G-G-CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
* * * *
38573 TGCCCTCGAAGCTGAGTGTAA
63 TG-CCTTGGAGCTGAGCGTAG
* ** * *
38594 TCGAACTAGGGGGTC-T-TTGGCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGT
1 TCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-
*
38657 CGTT-GAGCTGAGCGTAG
65 CCTTGGAGCTGAGCGTAG
* * * * * *
38674 TCGAACTCAAAGGTCTTGTGTTGGCAGAAAACCCTTCTAGACTTAAGTTGTGTTGCAAATGATAT
1 TCGAACTCGAAGGTC-T-TGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
*
38739 GCCTTGGAACTGAGCGTAG
64 GCCTTGGAGCTGAGCGTAG
* * * * **
38758 TCGAACTCGAAGGTCTT-TTGGTCACAGATAACCCTTCTAGCCTTGAGTTATACTGTGAATGATG
1 TCGAACTCGAAGGTCTTGTTGG---CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
*
38822 TACCTTGGAGCTGAGCGTAG
63 TGCCTTGGAGCTGAGCGTAG
38842 TCGAACTCGAAGGTCTTG
1 TCGAACTCGAAGGTCTTG
38860 ACTGACAGAC
Statistics
Matches: 896, Mismatches: 168, Indels: 69
0.79 0.15 0.06
Matches are distributed among these distances:
80 101 0.11
81 153 0.17
82 9 0.01
83 10 0.01
84 446 0.50
85 177 0.20
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (82 bp):
TCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
CTTGGAGCTGAGCGTAG
Found at i:37980 original size:165 final size:166
Alignment explanation
Indices: 37677--38858 Score: 1042
Period size: 165 Copynumber: 7.1 Consensus size: 166
37667 CTGAATGTAA
* * *
37677 TCGAACTCGAAGGTCTTCGATT-G-GCAGATAACCCTTCTCGACTTAAGCTATGTTGCAAATGAT
1 TCGAACTCGAAGGTCTT---TTGGTGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGAT
* * * * *
37740 GTG-CCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACT
63 ATGCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTC-TT--TTGGCAGATAACCCTTCTCGACT
37804 TAAGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAG
125 TAAGTTATGCTGCAAATGATGTGCCCTTGGAGCTGAGCGTAG
* * * * * *
37845 TCGAACCCGAAGGTCTTTTGGTGACGGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATAT
1 TCGAACTCGAAGGTCTTTTGGTG-CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
* * * * * * *
37910 GCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC-TTTAGCAGATAGCCCTTCTCAACTTAAGC
65 GCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGT
* * * *
37974 TATGCTGTAAATGATGCG-CCTTGGGGCTGACCGTAG
130 TATGCTGCAAATGATGTGCCCTTGGAGCTGAGCGTAG
* * * *
38010 TCGAACTCGAAGGTC-TTTGGTTGGTAGATAACTCTTCTCGATTTAAGTTATGCTGCAAATGATA
1 TCGAACTCGAAGGTCTTTTGG-T-GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATA
* * * * * * * * *
38074 TG-CCT-TACAGTTGAACGTAGTCAAACTCGAAGGTCTTTTGTTGGAAAATAGCCCTTCTTGCCT
64 TGCCCTCGA-AGCTGAGCGTAGTCGAACTCGAAGGTC--TT-TTGGCAGATAACCCTTCTCGACT
* * * * * * *
38137 TGAGCTATGTTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
125 TAAGTTATGCTGCAAATGATGTGCCCTTGGAGCTGAGCGTAG
* * * * * *
38179 TCAAACTCGAGGGTC-TTT--AGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATG--ATG
1 TCGAACTCGAAGGTCTTTTGGTGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG
* * * * * *
38239 CGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTG
66 C-CCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG---CAGATAACCCTTCTCGACTTA
* * * * * *
38304 AGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
127 AGTTATGCTGCAAATGATGTGCCCTTGGAGCTGAGCGTAG
* * * * *
38344 TCGAACTC-AAGGGTC-TTT-G-GCAGATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATGT
1 TCGAACTCGAA-GGTCTTTTGGTGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
* *
38405 G-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
65 GCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTC-TT--TTGGCAGATAACCCTTCTCGACTTA
* * * *
38469 AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
127 AGTTATGCTGCAAATGATGTGCCCTTGGAGCTGAGCGTAG
* * * * *
38509 TCAAACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATAT
1 TCGAACTCGAAGGTCTTTTGGTG-CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
* * * ** * *
38574 GCCCTCGAAGCTGAGTGTAATCGAACTAGGGGGTC-TTTGGCAGATAACCCTTCTTGACTTAAGC
65 GCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGT
* *
38638 TATGCTGCAAATGATGTGTCGTT-GAGCTGAGCGTAG
130 TATGCTGCAAATGATGTGCCCTTGGAGCTGAGCGTAG
* * * * * *
38674 TCGAACTCAAAGGTCTTGTGTTGGCAGAAAACCCTTCTAGACTTAAGTTGTGTTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTTGGT-GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATAT
* * * * *
38739 GCCTTGGAA-CTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTG
65 GCCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG---CAGATAACCCTTCTCGACTTA
* ** *
38803 AGTTATACTGTGAATGATGT-ACCTTGGAGCTGAGCGTAG
127 AGTTATGCTGCAAATGATGTGCCCTTGGAGCTGAGCGTAG
38842 TCGAACTCGAAGGTCTT
1 TCGAACTCGAAGGTCTT
38859 GACTGACAGA
Statistics
Matches: 842, Mismatches: 135, Indels: 74
0.80 0.13 0.07
Matches are distributed among these distances:
162 4 0.00
163 6 0.01
164 50 0.06
165 449 0.53
166 56 0.07
167 9 0.01
168 154 0.18
169 88 0.10
170 26 0.03
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (166 bp):
TCGAACTCGAAGGTCTTTTGGTGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG
CCCTCGAAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGTT
ATGCTGCAAATGATGTGCCCTTGGAGCTGAGCGTAG
Found at i:38139 original size:249 final size:249
Alignment explanation
Indices: 37612--38858 Score: 1011
Period size: 249 Copynumber: 5.0 Consensus size: 249
37602 GACAATTTAT
* * * * *
37612 TGACAGATAGCCCTTCTTGCTTTGAGCTATGCTGTAAATTTGGTTTGCCTCTC--AGCTGAATGT
1 TGACAAATAGCCCTTCTTGCCTTGAGCTATGCTGTAAA--TGATATGCC-CTCGAAGCTGAGTGT
* * * *
37675 AATCGAACTCGAAGGTCTTCGATTGGCAGATAACCCTTCTCGACTTAAGCTATGTTGCAAATGAT
63 AATCGAACTCGAGGGTC-T---TTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAT
* *
37740 GTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTCGACTT
124 GCGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTT
* ** * *
37805 AAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACCCGAAGGTCTTTTGG
189 AAGTTATGCTGCAAATGATATGCCTTACAGCTGAACGTAGTCAAACCCGAAGGTCTTTTGG
** * * * *
37866 TGACGGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAAT
1 TGACAAATAGCCCTTCTTGCCTTGAGCTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAAT
* *
37931 CGAACTCGAGGGTCTTTAGCAGATAGCCCTTCTCAACTTAAGCTATGCTGTAAATGATGCGCCTT
66 CGAACTCGAGGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGCGCCTT
* * * * * *
37996 GGGGCTGACCGTAGTCGAACTCGAAGGTCTTTGGTTGGTAGATAACTCTTCTCGATTTAAGTTAT
131 GGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTAT
* * *
38061 GCTGCAAATGATATGCCTTACAGTTGAACGTAGTCAAACTCGAAGGTCTTTTGT
196 GCTGCAAATGATATGCCTTACAGCTGAACGTAGTCAAACCCGAAGGTCTTTTGG
* * *
38115 TGGA-AAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
1 T-GACAAATAGCCCTTCTTGCCTTGAGCTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAA
*
38179 TCAAACTCGAGGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGCGCCT
65 TCGAACTCGAGGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGCGCCT
** * * *
38244 TGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGG-TCACAGATAACCCTTCTAGCCTTGAGTT
130 TGGAGCTGAGCGTAGTCAAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAAGTT
* * * * ** * * *
38308 ATGTTGTAAATGATGTGCCCT-CGAAGCTGAGTGTAATCGAACTC-AAGGGTC-TTT-G
194 ATGCTGCAAATGATATGCCTTAC--AGCTGAACGTAGTCAAACCCGAA-GGTCTTTTGG
* * * * * * * * * * *
38363 -G-CAGATAGCCCTTATCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGT
1 TGACAAATAGCCCTTCTTGCCTTGAGCTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAAT
* * * * *
38425 CGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG
66 CGAACTCGAGGGTC--T--TTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGCG
* * * * * * * *
38490 CCCTCGAAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGG-TGACAGATAACCCTTCTAGCCTTG
127 -CCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTA
* * * ** * * ** **
38554 AGTTATGTTGTAAATGATATGCCCT-CGAAGCTGAGTGTAATCGAACTAGGGGGTC-TTT-G
190 AGTTATGCTGCAAATGATATGCCTTAC--AGCTGAACGTAGTCAAACCCGAAGGTCTTTTGG
* * * * * * * * * * *
38613 -G-CAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGTCGTTG-AGCTGAGCGTAGT
1 TGACAAATAGCCCTTCTTGCCTTGAGCTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAAT
* * * * * * * * * **
38675 CGAACTCAAAGGTCTTGTGTTGGCAGAAAACCCTTCTAGACTTAAGTTGTGTTGCAAATGATATG
66 CGAACTCGAGGGTC---T-TTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGCG
* * ** * * *
38740 CCTTGGAACTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TCACAGATAACCCTTCTAGCCTTGA
127 CCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTTCTCGACTTAA
* ** * * ** * * *
38804 GTTATACTGTGAATGATGTACCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
191 GTTATGCTGCAAATGATATGCCTTACAGCTGAACGTAGTCAAACCCGAAGGTCTT
38859 GACTGACAGA
Statistics
Matches: 856, Mismatches: 119, Indels: 41
0.84 0.12 0.04
Matches are distributed among these distances:
245 27 0.03
246 36 0.04
247 1 0.00
248 23 0.03
249 449 0.52
250 246 0.29
251 9 0.01
252 8 0.01
253 25 0.03
254 32 0.04
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (249 bp):
TGACAAATAGCCCTTCTTGCCTTGAGCTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAAT
CGAACTCGAGGGTCTTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGCGCCTT
GGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTAT
GCTGCAAATGATATGCCTTACAGCTGAACGTAGTCAAACCCGAAGGTCTTTTGG
Found at i:41281 original size:14 final size:14
Alignment explanation
Indices: 41262--41289 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
41252 TTTAGATTTT
41262 TTAAAATTATATTA
1 TTAAAATTATATTA
41276 TTAAAATTATATTA
1 TTAAAATTATATTA
41290 AAAATACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAAAATTATATTA
Found at i:42966 original size:11 final size:11
Alignment explanation
Indices: 42950--43051 Score: 57
Period size: 11 Copynumber: 8.9 Consensus size: 11
42940 TAACCCATTC
42950 TCGAGCTT-AA
1 TCGAGCTTGAA
42960 GTCGAGCTTGAA
1 -TCGAGCTTGAA
42972 TCGAGCTCAT-AA
1 TCGAGCT--TGAA
*
42984 TCAAGCTTGAA
1 TCGAGCTTGAA
*
42995 TCGAG-TTCAAAA
1 TCGAGCTT--GAA
* *
43007 TTGAGTTTGAA
1 TCGAGCTTGAA
**
43018 TCGAGCTCAAAA
1 TCGAGCT-TGAA
*
43030 TCGAGCTTCAA
1 TCGAGCTTGAA
43041 TCGAGTCTTGA
1 TCGAG-CTTGA
43052 GCTTCAGTTG
Statistics
Matches: 70, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
10 3 0.04
11 35 0.50
12 29 0.41
13 3 0.04
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (11 bp):
TCGAGCTTGAA
Found at i:42993 original size:23 final size:23
Alignment explanation
Indices: 42961--43045 Score: 116
Period size: 23 Copynumber: 3.7 Consensus size: 23
42951 CGAGCTTAAG
*
42961 TCGAGCTTGAATCGAGCTCATAA
1 TCGAGCTTGAATCGAGCTCAAAA
* *
42984 TCAAGCTTGAATCGAGTTCAAAA
1 TCGAGCTTGAATCGAGCTCAAAA
* *
43007 TTGAGTTTGAATCGAGCTCAAAA
1 TCGAGCTTGAATCGAGCTCAAAA
*
43030 TCGAGCTTCAATCGAG
1 TCGAGCTTGAATCGAG
43046 TCTTGAGCTT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (23 bp):
TCGAGCTTGAATCGAGCTCAAAA
Found at i:43113 original size:31 final size:31
Alignment explanation
Indices: 43075--43154 Score: 151
Period size: 31 Copynumber: 2.6 Consensus size: 31
43065 TTTTGAGCCT
43075 TTTCGAGTTCGAGTCGAGTTTCATTATTATC
1 TTTCGAGTTCGAGTCGAGTTTCATTATTATC
*
43106 TTTCGAGTTCGAGTCAAGTTTCATTATTATC
1 TTTCGAGTTCGAGTCGAGTTTCATTATTATC
43137 TTTCGAGTTCGAGTCGAG
1 TTTCGAGTTCGAGTCGAG
43155 CTTGAAAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.42
Consensus pattern (31 bp):
TTTCGAGTTCGAGTCGAGTTTCATTATTATC
Found at i:45603 original size:65 final size:66
Alignment explanation
Indices: 45499--45654 Score: 278
Period size: 65 Copynumber: 2.4 Consensus size: 66
45489 ATTCCCTTAT
*
45499 GCCCGCACGGTGAATAAATTCACACAAAGACATAAGGTATATGAAT-CCCGAAGGCTACTTGCAA
1 GCCCGCACGGTGAATAAATTCACACAAAGACATAAGGTATAAGAATCCCCGAAGGCTACTTGCAA
45563 G
66 G
*
45564 GCCCGCACGGTGAATAAATTCACACAAAGACATAAGGTATAAGAATCCCCGAAGGCTACTTGCTA
1 GCCCGCACGGTGAATAAATTCACACAAAGACATAAGGTATAAGAATCCCCGAAGGCTACTTGCAA
45629 G
66 G
*
45630 GCCCGCATGGTGAATAAATTCACAC
1 GCCCGCACGGTGAATAAATTCACAC
45655 GAAGGCGTCG
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 45 0.52
66 42 0.48
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (66 bp):
GCCCGCACGGTGAATAAATTCACACAAAGACATAAGGTATAAGAATCCCCGAAGGCTACTTGCAA
G
Found at i:46880 original size:49 final size:50
Alignment explanation
Indices: 46827--46928 Score: 170
Period size: 50 Copynumber: 2.1 Consensus size: 50
46817 TACCCGTGTT
* * *
46827 TTCACTGAGTTGA-TGCCACGTGTGGAAGGCGCATCCCCGGGGACGCGCC
1 TTCACTGACTCGACTGCCACGTGTGGAAAGCGCATCCCCGGGGACGCGCC
46876 TTCACTGACTCGACTGCCACGTGTGGAAAGCGCATCCCCGGGGACGCGCC
1 TTCACTGACTCGACTGCCACGTGTGGAAAGCGCATCCCCGGGGACGCGCC
46926 TTC
1 TTC
46929 TATTAAATGC
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 11 0.22
50 38 0.78
ACGTcount: A:0.17, C:0.33, G:0.31, T:0.19
Consensus pattern (50 bp):
TTCACTGACTCGACTGCCACGTGTGGAAAGCGCATCCCCGGGGACGCGCC
Found at i:52000 original size:4 final size:4
Alignment explanation
Indices: 51991--52031 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
51981 AAAAAAAGTG
51991 ATAA ATAA ATAA AT-A AT-A AT-A ATAA ATAAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATA
52032 GATATAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 9 0.26
4 22 0.63
5 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:52038 original size:26 final size:26
Alignment explanation
Indices: 51971--52043 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
51961 AAAAAACAAA
*
51971 AAATAAA-AATAA-AAAAAGTGATAAAT
1 AAATAAATAATAATAAAAAAT-A-AAAT
*
51997 AAATAAATAATAATAATAAATAAAAT
1 AAATAAATAATAATAAAAAATAAAAT
52023 AAATAAATAGAT-ATAAAAAAT
1 AAATAAATA-ATAATAAAAAAT
52044 GTTTTAAAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 28 0.68
27 8 0.20
28 5 0.12
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (26 bp):
AAATAAATAATAATAAAAAATAAAAT
Found at i:52104 original size:37 final size:37
Alignment explanation
Indices: 52060--52388 Score: 328
Period size: 38 Copynumber: 8.6 Consensus size: 37
52050 AAACTATATA
* *
52060 ATATAATATATATGTTTAAAAAATAATTTTCAAAACT
1 ATATAATATATATTTTTAAAAACTAATTTTCAAAACT
52097 ATATAATATATATTTTTAAAAACTAATTTTCAAAACT
1 ATATAATATATATTTTTAAAAACTAATTTTCAAAACT
52134 ATATAATATATA-TTTTAAAAACTAATTTTCAAAACT
1 ATATAATATATATTTTTAAAAACTAATTTTCAAAACT
*
52170 ATATAATATATATTTTTTAAAAACTAATTTTCAAAATT
1 ATATAATATATA-TTTTTAAAAACTAATTTTCAAAACT
* * *
52208 ATATAATGTATATTTTTTTAAAAAATTAATTTTAAAAACT
1 ATATAA--TATATATTTTT-AAAAACTAATTTTCAAAACT
* * *
52248 ATATAATATATATGTTTTCAAAAAGT--TTTTAAAAAAAATT
1 ATATAATATATAT-TTTT-AAAAACTAATTTT---CAAAACT
* * *
52288 ATATAATATATAAATGTTTTCAAAA-T-GTTTTCAAAAAT
1 ATATAATATAT--AT-TTTTAAAAACTAATTTTCAAAACT
* *
52326 ATATATTATATATATATTTTAAAAACGT-TTTTTAAAAAACT
1 ATATA--ATATATAT-TTTTAAAAAC-TAATTTT-CAAAACT
*
52367 ATATAATATATATTTTTGAAAA
1 ATATAATATATATTTTTAAAAA
52389 TCGTTTACCG
Statistics
Matches: 255, Mismatches: 20, Indels: 33
0.83 0.06 0.11
Matches are distributed among these distances:
36 36 0.14
37 51 0.20
38 63 0.25
39 23 0.09
40 57 0.22
41 18 0.07
42 7 0.03
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (37 bp):
ATATAATATATATTTTTAAAAACTAATTTTCAAAACT
Found at i:52190 original size:38 final size:38
Alignment explanation
Indices: 52045--52388 Score: 328
Period size: 40 Copynumber: 8.9 Consensus size: 38
52035 ATAAAAAATG
*
52045 TTTT-AAAACTATATAATATAATATATATGTTTAAAAAATAA
1 TTTTCAAAACTATATAATAT-ATAT-T-T-TTTAAAAACTAA
52086 TTTTCAAAACTATATAATATATA-TTTTTAAAAACTAA
1 TTTTCAAAACTATATAATATATATTTTTTAAAAACTAA
52123 TTTTCAAAACTATATAATATATA--TTTTAAAAACTAA
1 TTTTCAAAACTATATAATATATATTTTTTAAAAACTAA
52159 TTTTCAAAACTATATAATATATATTTTTTAAAAACTAA
1 TTTTCAAAACTATATAATATATATTTTTTAAAAACTAA
* * *
52197 TTTTCAAAATTATATAATGTATATTTTTTTAAAAAATTAA
1 TTTTCAAAACTATATAATATATA-TTTTTT-AAAAACTAA
* * *
52237 TTTTAAAAACTATATAATATATATGTTTTCAAAAAGT--
1 TTTTCAAAACTATATAATATATAT-TTTTTAAAAACTAA
* * * * *
52274 TTTTAAAAAAAATTATATAATATATAAATGTTTTCAAAA-T-G
1 TTTT---CAAAACTATATAATATAT--ATTTTTTAAAAACTAA
* * *
52315 TTTTCAAAAATATATATTATATATATATTTTAAAAACGT-T
1 TTTTCAAAACTATATA--ATATATATTTTTTAAAAAC-TAA
* *
52355 TTTTAAAAAACTATATAATATATATTTTTGAAAA
1 TTTT-CAAAACTATATAATATATATTTTTTAAAA
52389 TCGTTTACCG
Statistics
Matches: 264, Mismatches: 22, Indels: 36
0.82 0.07 0.11
Matches are distributed among these distances:
36 36 0.14
37 38 0.14
38 55 0.21
39 29 0.11
40 61 0.23
41 28 0.11
42 17 0.06
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (38 bp):
TTTTCAAAACTATATAATATATATTTTTTAAAAACTAA
Found at i:52315 original size:11 final size:11
Alignment explanation
Indices: 52299--52323 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
52289 TATAATATAT
52299 AAATGTTTTCA
1 AAATGTTTTCA
52310 AAATGTTTTCA
1 AAATGTTTTCA
52321 AAA
1 AAA
52324 ATATATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:61138 original size:182 final size:182
Alignment explanation
Indices: 60797--61999 Score: 2056
Period size: 182 Copynumber: 6.6 Consensus size: 182
60787 TGCGTTCATC
** * * * *
60797 TTTTGTCATTTATAGACCGATTTTATTATATTTTTACATGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
60862 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAATAGTGTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
* *
60926 ATACTTATATTAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * *
60979 TTTTGTAATTTCGAGACCGGTTTTGTCATATTTGTACATGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
61044 TTTATAAAGTATCGACACTTTATTGGCGGTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
* * *
61109 TACTTATAATAAATTATCGACACTTTCAACATAACTGGTAGCGTTTTACTTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
61161 TTTTGTCATTTCGAGACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
61226 TTTATAAAGTATCGACATTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
61291 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGTTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
61343 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
61408 TTTATAAAGTATCGACACGTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA--GTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
* *
61470 ATACTTATAATGAATTATCAACACTTTCAACATAACCGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
61523 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
61588 TTTATAAAGTATCGACACTTTATTGGCGCTATAAC-TCTTCTCTTTTAAATTCCAAAATTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
* *
61652 TACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGTTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
61704 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
61769 TTTATAAAGTATCGACACTTTATTGGCGGTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
61834 TACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
61886 TCTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
61951 TTTATAAAATATCGACACTTTATTGACGCTATAACTTCTTCTCTTTTAA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAA
62000 CTTCTTCTCT
Statistics
Matches: 970, Mismatches: 45, Indels: 12
0.94 0.04 0.01
Matches are distributed among these distances:
178 2 0.00
179 19 0.02
180 153 0.16
181 153 0.16
182 641 0.66
183 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.42
Consensus pattern (182 bp):
TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
Found at i:61827 original size:543 final size:546
Alignment explanation
Indices: 60797--61999 Score: 2117
Period size: 543 Copynumber: 2.2 Consensus size: 546
60787 TGCGTTCATC
** * * * *
60797 TTTTGTCATTTATAGACCGATTTTATTATATTTTTACATGTTATATTATTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
60862 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCAATAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCAATAGAGTCGA
* * *
60927 TACTTATATTAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTGTTTTGTAATTTCG
131 TACTTATAATAAATTATCAACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTAATTTCG
60992 AGACCGGTTTTGTCATATTTGTACATGTTATATTATTATGGATCGATACATTTTTATAAAGTATC
196 AGACCGGTTTTGTCATATTTGTACATGTTATATTATTATGGATCGATACATTTTTATAAAGTATC
* *
61057 GACACTTTATTGGCGGTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAA
261 GACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACGTATAATAAA
* *
61122 TTATCGACACTTTCAACATAACTGGTAGCGTTTTACTTGTTTTGTCATTTCGAGACCGGTTTTGT
326 TTATCGACACTTTCAACATAACCGGTAGCGTTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGT
*
61187 CATATTATTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACATTTTATTGG
391 CATATTATTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGG
61252 CGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTT
456 CGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTT
*
61317 CAACATAACCGGTAGCGTTTTACCTG
521 CAACATAACCGGTAGCGCTTTACCTG
61343 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
61408 TTTATAAAGTATCGACACGTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCAA-A-AGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCAATAGAGTCGA
* *
61471 TACTTATAATGAATTATCAACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCG
131 TACTTATAATAAATTATCAACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTAATTTCG
* *
61536 AGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATTTTTATAAAGTATC
196 AGACCGGTTTTGTCATATTTGTACATGTTATATTATTATGGATCGATACATTTTTATAAAGTATC
*
61601 GACACTTTATTGGCGCTATAAC-TCTTCTCTTTTAAATTCCAAAATTGTCGATACGTATAATAAA
261 GACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACGTATAATAAA
61665 TTATCGACACTTTCAACATAACCGGTAGCGTTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGT
326 TTATCGACACTTTCAACATAACCGGTAGCGTTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGT
*
61730 CATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGG
391 CATATTATTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGG
*
61795 CGGTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTT
456 CGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTT
*
61860 CAACATATCCGGTAGCGCTTTACCTG
521 CAACATAACCGGTAGCGCTTTACCTG
* *
61886 TCTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
61951 TTTATAAAATATCGACACTTTATTGACGCTATAACTTCTTCTCTT-TTAA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAA
62000 CTTCTTCTCT
Statistics
Matches: 627, Mismatches: 30, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
542 4 0.01
543 359 0.57
544 149 0.24
545 1 0.00
546 114 0.18
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.42
Consensus pattern (546 bp):
TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATTAATTCCAATAGAGTCGA
TACTTATAATAAATTATCAACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTAATTTCG
AGACCGGTTTTGTCATATTTGTACATGTTATATTATTATGGATCGATACATTTTTATAAAGTATC
GACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACGTATAATAAA
TTATCGACACTTTCAACATAACCGGTAGCGTTTTACCTGTTTTGTCATTTCGAGACCGGTTTTGT
CATATTATTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATTGG
CGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAAATTATCGACACTTT
CAACATAACCGGTAGCGCTTTACCTG
Found at i:62002 original size:15 final size:15
Alignment explanation
Indices: 61982--62010 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
61972 ATTGACGCTA
61982 TAACTTCTTCTCTTT
1 TAACTTCTTCTCTTT
61997 TAACTTCTTCTCTT
1 TAACTTCTTCTCTT
62011 CAGATGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.59
Consensus pattern (15 bp):
TAACTTCTTCTCTTT
Found at i:62962 original size:15 final size:15
Alignment explanation
Indices: 62942--62996 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
62932 TCCTCCTCAT
62942 TTCTTCCATCTCTTC
1 TTCTTCCATCTCTTC
*
62957 TTCTTCC-TCCTCCCTCTT
1 TTCTTCCAT-CT--CT-TC
62975 TTCTTCCATCTCTTC
1 TTCTTCCATCTCTTC
62990 TTCTTCC
1 TTCTTCC
62997 TCCTCCCTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 1 0.03
15 17 0.52
16 2 0.06
17 2 0.06
18 10 0.30
19 1 0.03
ACGTcount: A:0.04, C:0.44, G:0.00, T:0.53
Consensus pattern (15 bp):
TTCTTCCATCTCTTC
Found at i:62978 original size:33 final size:33
Alignment explanation
Indices: 62926--63013 Score: 151
Period size: 33 Copynumber: 2.7 Consensus size: 33
62916 ATGACATCGA
*
62926 CTTCCTTCCT-CCTCATTTCTTCCATCTCTTCTT
1 CTTCC-TCCTCCCTCTTTTCTTCCATCTCTTCTT
62959 CTTCCTCCTCCCTCTTTTCTTCCATCTCTTCTT
1 CTTCCTCCTCCCTCTTTTCTTCCATCTCTTCTT
62992 CTTCCTCCTCCCTCTTTTCTTC
1 CTTCCTCCTCCCTCTTTTCTTC
63014 TTCATATTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
32 4 0.08
33 49 0.92
ACGTcount: A:0.03, C:0.45, G:0.00, T:0.51
Consensus pattern (33 bp):
CTTCCTCCTCCCTCTTTTCTTCCATCTCTTCTT
Found at i:63238 original size:33 final size:33
Alignment explanation
Indices: 63201--63266 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
63191 CATCTTAAGA
*
63201 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
63234 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
63267 CCATCTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:63327 original size:21 final size:21
Alignment explanation
Indices: 63303--63343 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
63293 CTTATGTCTC
63303 TCAAGTGTATCTTCGACTCTA
1 TCAAGTGTATCTTCGACTCTA
* *
63324 TCAAGTTTCTCTTCGACTCT
1 TCAAGTGTATCTTCGACTCT
63344 TGATTGTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (21 bp):
TCAAGTGTATCTTCGACTCTA
Found at i:65871 original size:181 final size:182
Alignment explanation
Indices: 65567--66039 Score: 700
Period size: 181 Copynumber: 2.6 Consensus size: 182
65557 CGTACTTACG
* * * * *
65567 AAAGTTTCGACACTTTTAATATATCCGGTATCATTTTACCGATTTTATCATTTTAATA-CTGATT
1 AAAGTTTCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTAATACCAG-TT
65631 TTATCATATTTTTACCTGTTATATCGTTGTTTGATCGATACA-TTTTTAAAAGTATCGACACTTT
65 TTATCATATTTTTACCTGTTATATCGTTG-TTGATCGATACATTTTTTAAAAGTATCGACACTTT
*
65695 ATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
129 ATAGGCGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
* * * *
65748 AAAGTTTCGACACTTTCAATATATCCGGTAGCGTTTTACCGGTTTCATCATTTTGATACCAGTTT
1 AAAGTTTCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTAATACCAGTTT
* *
65813 TATCATATTTTTACCTGTTATATCGTTGTTGATCGATATATTTTTTGAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTTTAAAAGTATCGACACTTTAT
*
65878 AGGCGCTAAAACTGCTTCTCTTTTAAATTAACGAAGTGTCGATCCTTATATT
131 AGGCGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
** * * * **
65930 AAAGTACCGACACTTTAAATATATTCGGTACCGCTTTACCGGTTTTATCATTTCAATACTGGTTT
1 AAAGTTTCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTAATACCAGTTT
* * *
65995 TGTCATAGTTTTACCTGTTATATCGTTGTGGATCGATACATTTTT
66 TATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTT
66040 AATTTGGATC
Statistics
Matches: 263, Mismatches: 26, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
180 11 0.04
181 154 0.59
182 98 0.37
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (182 bp):
AAAGTTTCGACACTTTAAATATATCCGGTACCGTTTTACCGGTTTTATCATTTTAATACCAGTTT
TATCATATTTTTACCTGTTATATCGTTGTTGATCGATACATTTTTTAAAAGTATCGACACTTTAT
AGGCGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
Found at i:67631 original size:31 final size:30
Alignment explanation
Indices: 67596--67727 Score: 78
Period size: 31 Copynumber: 4.4 Consensus size: 30
67586 TTACACTTAC
67596 CATTAATATTTTAATAAAATTTCATTTTAAT
1 CATTAATATTTTAATAAAATTTCATTTT-AT
* * *
67627 CATTAAGATTTGAA-AAATAATTC-TATTT-T
1 CATTAATATTTTAATAAA-ATTTCAT-TTTAT
* * * * *
67656 CA-TATTCTTTTAAGGGT-AAATTACA-CTTAC
1 CATTAATATTTTAA---TAAAATTTCATTTTAT
67686 CATTAATATTTTAATAAAATTTCATTTTAAT
1 CATTAATATTTTAATAAAATTTCATTTT-AT
*
67717 CATTAAGATTT
1 CATTAATATTT
67728 GAAAAATAAT
Statistics
Matches: 72, Mismatches: 17, Indels: 24
0.64 0.15 0.21
Matches are distributed among these distances:
28 8 0.11
29 12 0.17
30 11 0.15
31 41 0.57
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (30 bp):
CATTAATATTTTAATAAAATTTCATTTTAT
Found at i:67714 original size:90 final size:90
Alignment explanation
Indices: 67561--67743 Score: 366
Period size: 90 Copynumber: 2.0 Consensus size: 90
67551 CCACCGTCTG
67561 ATTTTCATATTCTTTTAAGGGTAAATTACACTTACCATTAATATTTTAATAAAATTTCATTTTAA
1 ATTTTCATATTCTTTTAAGGGTAAATTACACTTACCATTAATATTTTAATAAAATTTCATTTTAA
67626 TCATTAAGATTTGAAAAATAATTCT
66 TCATTAAGATTTGAAAAATAATTCT
67651 ATTTTCATATTCTTTTAAGGGTAAATTACACTTACCATTAATATTTTAATAAAATTTCATTTTAA
1 ATTTTCATATTCTTTTAAGGGTAAATTACACTTACCATTAATATTTTAATAAAATTTCATTTTAA
67716 TCATTAAGATTTGAAAAATAATTCT
66 TCATTAAGATTTGAAAAATAATTCT
67741 ATT
1 ATT
67744 CATTAACGCT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (90 bp):
ATTTTCATATTCTTTTAAGGGTAAATTACACTTACCATTAATATTTTAATAAAATTTCATTTTAA
TCATTAAGATTTGAAAAATAATTCT
Found at i:67963 original size:21 final size:21
Alignment explanation
Indices: 67918--67965 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
67908 ATTTTAAAAT
* *
67918 TTAAATGAATTATAAATTTTT
1 TTAAATGAATTATAAAATTTG
67939 TTAAAT-AATTATAAAAATTTG
1 TTAAATGAATTAT-AAAATTTG
67960 TTAAAT
1 TTAAAT
67966 TTTTTGGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
TTAAATGAATTATAAAATTTG
Found at i:74523 original size:55 final size:55
Alignment explanation
Indices: 74443--75029 Score: 742
Period size: 55 Copynumber: 10.8 Consensus size: 55
74433 AATCTTCGAA
* * *
74443 AAACGTGTCTGCTCTCTATTCTTTCAAGGAATATAGGACTCGAACAATCTTC-GAC
1 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAG-C
** * * ** *
74498 AAACAAGTCCGCTCCCTATTTTTTCAGGGAGTATAAAACTCGAACAATATTCAGC
1 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGC
* *
74553 AAACGTGTCTGCTCCTTATTCTTTTAGGGAG--T---A-TCGAACAATCTTCAGC
1 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGC
* *
74602 GAACGTGTCCGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGC
1 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGC
* * * * *
74657 AAACGTATCCGCTCCCTATTCTTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
1 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGC
* * * * *
74712 AAATGTGTCTGCTCCCTATTATTTCAAGGTGTATAGGACTCGAACAATCTTCAGT
1 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGC
*
74767 AAACGTGT-T-CATTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGT
1 AAACGTGTCTGC--TCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGC
* * *
74822 AAACGTGTCCGCTCCCTATTATTTCAGGGAGTATAGGACTCGAACAATCTTTAGC
1 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGC
* * * * *
74877 AAACGTGTCTGCTCCCTATTCTTTTAGGGAGTATAAGACTCGAATAATTTTCAAC
1 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGC
* * * * *
74932 AAAAGTGTCTGCTCCCTATTTTTTTAGGGAGTATAGGACTCGAACAATCTTAAGT
1 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGC
74987 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGA
1 AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGA
75030 TCTTGATTTG
Statistics
Matches: 458, Mismatches: 63, Indels: 22
0.84 0.12 0.04
Matches are distributed among these distances:
49 42 0.09
50 1 0.00
51 1 0.00
53 2 0.00
54 2 0.00
55 408 0.89
56 1 0.00
57 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (55 bp):
AAACGTGTCTGCTCCCTATTCTTTCAGGGAGTATAGGACTCGAACAATCTTCAGC
Found at i:75083 original size:37 final size:36
Alignment explanation
Indices: 75033--75224 Score: 258
Period size: 37 Copynumber: 5.2 Consensus size: 36
75023 GACTCGATCT
75033 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTATAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTA-AGA
*
75070 TGATTTGTTTCACTACTCTTCCGTGAAGGCTTATAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTA-AGA
** * * * *
75107 TGATTCACCTCACTACTCTTTCATTAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
* *
75143 TGAGTTGCTTCACTACTCTTTCGTGAAGGCTTAAGA
1 TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
*
75179 TTGATTTGCTTCACTACTCTTCCGTGAAGGATTAAGA
1 -TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
75216 TTGATTTGC
1 -TGATTTGC
75225 CTCAATCTCA
Statistics
Matches: 137, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
36 33 0.24
37 104 0.76
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (36 bp):
TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGA
Found at i:75169 original size:73 final size:74
Alignment explanation
Indices: 75042--75216 Score: 221
Period size: 73 Copynumber: 2.4 Consensus size: 74
75032 TTGATTTGCT
* * *
75042 TCACTACTCTTCCGTGAAGGCTTATAGATGATTTGTTTCACTACTCTTCCGTGAAGGCTTATAGA
1 TCACTACTCTTCCATGAAGGCTTATAGATGAGTTGCTTCACTACTCTTCCGTGAAGGCTTA-AGA
75107 -TGATTCACC
65 TTGATTCACC
* * *
75116 TCACTACTCTTTCATTAAGGCTTA-AGATGAGTTGCTTCACTACTCTTTCGTGAAGGCTTAAGAT
1 TCACTACTCTTCCATGAAGGCTTATAGATGAGTTGCTTCACTACTCTTCCGTGAAGGCTTAAGAT
** *
75180 TGATTTGCT
66 TGATTCACC
* *
75189 TCACTACTCTTCCGTGAAGGATTA-AGAT
1 TCACTACTCTTCCATGAAGGCTTATAGAT
75217 TGATTTGCCT
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
72 3 0.03
73 63 0.72
74 21 0.24
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (74 bp):
TCACTACTCTTCCATGAAGGCTTATAGATGAGTTGCTTCACTACTCTTCCGTGAAGGCTTAAGAT
TGATTCACC
Found at i:77090 original size:2 final size:2
Alignment explanation
Indices: 77083--77111 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
77073 CAAGCTTTAT
77083 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
77112 ACCACCTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:77207 original size:113 final size:111
Alignment explanation
Indices: 77003--77215 Score: 311
Period size: 113 Copynumber: 1.9 Consensus size: 111
76993 TCGTAATTTG
* * *
77003 CCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGAGTTTAACCAATTGCTCTAGAGGGA
1 CCTTTATCAAGCTAGCTAAATCTTATCCATAAAGCCGAGGAGTTTAACCAATTGCTCTAGAGGGA
* *
77068 TAGTTCAAGCTTTATTATATATATATATATATATATATAATATAACCA
66 CAGTTCAAGCTTTATTATATACATATA-ATAT-TATATAATATAACCA
* *
77116 CCTTTATTAAGCTAGCTAAATCTTATCCATAAAGCCGAGGCGTTTAACCAATTGCTCTAGAGGGA
1 CCTTTATCAAGCTAGCTAAATCTTATCCATAAAGCCGAGGAGTTTAACCAATTGCTCTAGAGGGA
* *
77181 CA-TCTCAAGTTTTATTGTATACATATAATATTATA
66 CAGT-TCAAGCTTTATTATATACATATAATATTATA
77216 ATCTGGGTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
111 4 0.04
112 5 0.06
113 81 0.90
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (111 bp):
CCTTTATCAAGCTAGCTAAATCTTATCCATAAAGCCGAGGAGTTTAACCAATTGCTCTAGAGGGA
CAGTTCAAGCTTTATTATATACATATAATATTATATAATATAACCA
Found at i:87194 original size:19 final size:19
Alignment explanation
Indices: 87170--87273 Score: 86
Period size: 19 Copynumber: 5.9 Consensus size: 19
87160 AGAATGTCCA
87170 GGGGGTA-CAGATTCCCCTG
1 GGGGGTATC-GATTCCCCTG
87189 GGGGGTATCGATTCCCC--
1 GGGGGTATCGATTCCCCTG
*
87206 --GGG-AACAGATTCCCCTG
1 GGGGGTATC-GATTCCCCTG
87223 GGGGGTATCGATTCCCC--
1 GGGGGTATCGATTCCCCTG
*
87240 --GGG-AACAGATTCCCCTG
1 GGGGGTATC-GATTCCCCTG
87257 GGGGGTATCGATTCCCC
1 GGGGGTATCGATTCCCC
87274 CCTAAATAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 26
0.69 0.04 0.27
Matches are distributed among these distances:
14 4 0.06
15 22 0.32
19 37 0.54
20 5 0.07
ACGTcount: A:0.16, C:0.29, G:0.34, T:0.21
Consensus pattern (19 bp):
GGGGGTATCGATTCCCCTG
Found at i:87218 original size:15 final size:15
Alignment explanation
Indices: 87198--87254 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
87188 GGGGGGTATC
87198 GATTCCCCGGGAACA
1 GATTCCCCGGGAACA
*
87213 GATTCCCCTGGGGGGTATC-
1 GATTCCCC----GGG-AACA
87232 GATTCCCCGGGAACA
1 GATTCCCCGGGAACA
87247 GATTCCCC
1 GATTCCCC
87255 TGGGGGGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
14 2 0.06
15 19 0.56
19 11 0.32
20 2 0.06
ACGTcount: A:0.19, C:0.33, G:0.28, T:0.19
Consensus pattern (15 bp):
GATTCCCCGGGAACA
Found at i:87219 original size:34 final size:34
Alignment explanation
Indices: 87176--87273 Score: 196
Period size: 34 Copynumber: 2.9 Consensus size: 34
87166 TCCAGGGGGT
87176 ACAGATTCCCCTGGGGGGTATCGATTCCCCGGGA
1 ACAGATTCCCCTGGGGGGTATCGATTCCCCGGGA
87210 ACAGATTCCCCTGGGGGGTATCGATTCCCCGGGA
1 ACAGATTCCCCTGGGGGGTATCGATTCCCCGGGA
87244 ACAGATTCCCCTGGGGGGTATCGATTCCCC
1 ACAGATTCCCCTGGGGGGTATCGATTCCCC
87274 CCTAAATAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 64 1.00
ACGTcount: A:0.17, C:0.31, G:0.31, T:0.21
Consensus pattern (34 bp):
ACAGATTCCCCTGGGGGGTATCGATTCCCCGGGA
Found at i:88266 original size:31 final size:31
Alignment explanation
Indices: 88224--88410 Score: 286
Period size: 31 Copynumber: 6.0 Consensus size: 31
88214 AGGGTCGAGG
* *
88224 GTTTACATATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
88255 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
88286 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
88317 GTTTACCTATATTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
88348 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * * *
88379 GATCACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
88410 G
1 G
88411 GTCCTTCGGG
Statistics
Matches: 145, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
31 144 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:88916 original size:21 final size:21
Alignment explanation
Indices: 88891--88933 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
88881 AAAGAATATA
88891 TTGTATAA-GCTCTGAATAATT
1 TTGTA-AATGCTCTGAATAATT
* *
88912 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGCTCTGAATAATT
88933 T
1 T
88934 AAATGCTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (21 bp):
TTGTAAATGCTCTGAATAATT
Found at i:91470 original size:19 final size:18
Alignment explanation
Indices: 91448--91508 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
91438 AGGGGATACA
91448 GATTCCCCTGGGGGGTATC
1 GATTCCCCT-GGGGGTATC
*
91467 GATTCCCC---GGG-AAC
1 GATTCCCCTGGGGGTATC
91481 AGATTCCCCTAGGGGGTATC
1 -GATTCCCCT-GGGGGTATC
91501 GATTCCCC
1 GATTCCCC
91509 CCTAAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
19 19 0.56
20 2 0.06
ACGTcount: A:0.16, C:0.31, G:0.30, T:0.23
Consensus pattern (18 bp):
GATTCCCCTGGGGGTATC
Found at i:91488 original size:34 final size:35
Alignment explanation
Indices: 91440--91508 Score: 122
Period size: 34 Copynumber: 2.0 Consensus size: 35
91430 GAATGTCCAG
*
91440 GGGATACAGATTCCCCTGGGGGGTATCGATTCCCC
1 GGGATACAGATTCCCCTAGGGGGTATCGATTCCCC
91475 GGGA-ACAGATTCCCCTAGGGGGTATCGATTCCCC
1 GGGATACAGATTCCCCTAGGGGGTATCGATTCCCC
91509 CCTAAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 29 0.88
35 4 0.12
ACGTcount: A:0.19, C:0.29, G:0.30, T:0.22
Consensus pattern (35 bp):
GGGATACAGATTCCCCTAGGGGGTATCGATTCCCC
Found at i:92498 original size:31 final size:31
Alignment explanation
Indices: 92460--92646 Score: 286
Period size: 31 Copynumber: 6.0 Consensus size: 31
92450 AGGGTCGAGG
92460 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
92491 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
92522 GTTTACCTATGTTTTTCGGGACATATAGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
92553 GTTTACCTATGTTCTTCAGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
92584 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
92615 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
92646 G
1 G
92647 GTCCTTCGGG
Statistics
Matches: 142, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
31 142 1.00
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:93150 original size:21 final size:21
Alignment explanation
Indices: 93125--93167 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
93115 CAAAAGAATA
93125 TTGTATAA-GCTCTGAATAATT
1 TTGTA-AATGCTCTGAATAATT
* *
93146 TTGTAAATGTTTTGAATAATT
1 TTGTAAATGCTCTGAATAATT
93167 T
1 T
93168 AAATGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.49
Consensus pattern (21 bp):
TTGTAAATGCTCTGAATAATT
Found at i:99938 original size:21 final size:21
Alignment explanation
Indices: 99914--99958 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
99904 TTTTGTTCGT
* *
99914 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
99935 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
99956 TTG
1 TTG
99959 CCCAGAAATC
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:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:107095 original size:31 final size:31
Alignment explanation
Indices: 107060--107118 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
107050 AGAGTTTAAA
107060 ATTTATTTTG-GGATATCAAATTTAGAAAAAT
1 ATTTATTTTGTGG-TATCAAATTTAGAAAAAT
*
107091 ATTTATTTTGTGGTGTCAAATTTAGAAA
1 ATTTATTTTGTGGTATCAAATTTAGAAA
107119 TTATATGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 24 0.92
32 2 0.08
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.44
Consensus pattern (31 bp):
ATTTATTTTGTGGTATCAAATTTAGAAAAAT
Found at i:109444 original size:12 final size:12
Alignment explanation
Indices: 109427--109451 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
109417 CTCCCGATGA
109427 AAATGAATGTCT
1 AAATGAATGTCT
109439 AAATGAATGTCT
1 AAATGAATGTCT
109451 A
1 A
109452 CGCATTTCTT
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:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
AAATGAATGTCT
Found at i:109535 original size:7 final size:7
Alignment explanation
Indices: 109523--109548 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
109513 AACTCATGTC
109523 GGGGTTA
1 GGGGTTA
109530 GGGGTTA
1 GGGGTTA
109537 GGGGTTA
1 GGGGTTA
109544 GGGGT
1 GGGGT
109549 CAGATTATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.62, T:0.27
Consensus pattern (7 bp):
GGGGTTA
Found at i:111990 original size:46 final size:46
Alignment explanation
Indices: 111918--112021 Score: 181
Period size: 46 Copynumber: 2.3 Consensus size: 46
111908 GTTTTAACAG
*
111918 ATGATCAAAACATAACGTCAAACATGAACTTGAAAATAATAATTGA
1 ATGACCAAAACATAACGTCAAACATGAACTTGAAAATAATAATTGA
*
111964 ATGACCAAAACATAACGTCAGACATGAACTTGAAAATAATAATTGA
1 ATGACCAAAACATAACGTCAAACATGAACTTGAAAATAATAATTGA
*
112010 ACGACCAAAACA
1 ATGACCAAAACA
112022 GAGACGTTAC
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 55 1.00
ACGTcount: A:0.52, C:0.16, G:0.12, T:0.20
Consensus pattern (46 bp):
ATGACCAAAACATAACGTCAAACATGAACTTGAAAATAATAATTGA
Found at i:124206 original size:15 final size:17
Alignment explanation
Indices: 124186--124217 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
124176 CCCATGTTAC
124186 TCGGA-TTGGG-ATGTG
1 TCGGATTTGGGAATGTG
124201 TCGGATTTGGGAATGTG
1 TCGGATTTGGGAATGTG
124218 AATACGATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 5 0.33
17 5 0.33
ACGTcount: A:0.16, C:0.06, G:0.44, T:0.34
Consensus pattern (17 bp):
TCGGATTTGGGAATGTG
Found at i:124610 original size:2 final size:2
Alignment explanation
Indices: 124603--124664 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
124593 TTGATATCTT
124603 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
124645 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
124665 AATACAGACT
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):
TA
Found at i:129345 original size:25 final size:25
Alignment explanation
Indices: 129317--129368 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
129307 AAACTAGGTT
*
129317 CATGCCAATGAAACAAGGCATGGGG
1 CATGCCAATGAAACAAGGCATAGGG
*
129342 CATGCCAATGAAACGAGGCATAGGG
1 CATGCCAATGAAACAAGGCATAGGG
129367 CA
1 CA
129369 GCTACTTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.21, G:0.31, T:0.12
Consensus pattern (25 bp):
CATGCCAATGAAACAAGGCATAGGG
Found at i:132941 original size:22 final size:22
Alignment explanation
Indices: 132898--132941 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
132888 ACAAGGCTCT
* *
132898 CCACCGCACCAGCCGCCGCCGA
1 CCACCGCACCAGCCACCACCGA
* *
132920 CCACCGCTCCGGCCACCACCGA
1 CCACCGCACCAGCCACCACCGA
132942 TGGTCGAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.18, C:0.59, G:0.20, T:0.02
Consensus pattern (22 bp):
CCACCGCACCAGCCACCACCGA
Found at i:133345 original size:18 final size:18
Alignment explanation
Indices: 133322--133357 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
133312 GTTCGAGGTT
*
133322 AAGGGTTATTGTTTGACC
1 AAGGGTTATTGGTTGACC
*
133340 AAGGGTTGTTGGTTGACC
1 AAGGGTTATTGGTTGACC
133358 GGCTAAAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.11, G:0.33, T:0.36
Consensus pattern (18 bp):
AAGGGTTATTGGTTGACC
Found at i:133800 original size:35 final size:35
Alignment explanation
Indices: 133749--134048 Score: 218
Period size: 37 Copynumber: 8.7 Consensus size: 35
133739 TCGGAATTTT
133749 TTTTCAAAA-TATTATATTTATATAAATTTTCAAAATG
1 TTTTCAAAACTA-TATA-TTATAT-AATTTTCAAAATG
* *
133786 TTTTCTAAAA-TATATAATATATATATTTTCCAAAACG
1 TTTTC-AAAACTATATATTATATA-ATTTT-CAAAATG
*
133823 TTTTCAAAATTATATATTATAT-ATTTTCAAAATG
1 TTTTCAAAACTATATATTATATAATTTTCAAAATG
* * * *
133857 TTTTCAAAACTATACATTATATATGTTTTTAAAAATA
1 TTTTCAAAACTATATATTATATA--ATTTTCAAAATG
*
133894 TTTTCAAAATTATATATTATAT-ATTTTCAAAAATG
1 TTTTCAAAACTATATATTATATAATTTTC-AAAATG
* * * **
133929 ATTTCAAAACTATATAATTCAAAAAAAAATTCAAAA--
1 TTTTCAAAACTATAT-ATT--ATATAATTTTCAAAATG
* *
133965 --TTCAAAA-T-TATA-TAT-T--TTCTC-AAACG
1 TTTTCAAAACTATATATTATATAATTTTCAAAATG
**
133991 TTTTCAAAATAATATATTATAT-ATTTTCAAAAATG
1 TTTTCAAAACTATATATTATATAATTTTC-AAAATG
134026 TTTTCAAAACTATATATTATATA
1 TTTTCAAAACTATATATTATATA
134049 TTTATTATGT
Statistics
Matches: 209, Mismatches: 30, Indels: 49
0.73 0.10 0.17
Matches are distributed among these distances:
24 3 0.01
25 2 0.01
28 8 0.04
30 5 0.02
31 4 0.02
32 4 0.02
33 5 0.02
34 37 0.18
35 48 0.23
36 17 0.08
37 60 0.29
38 12 0.06
39 4 0.02
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.44
Consensus pattern (35 bp):
TTTTCAAAACTATATATTATATAATTTTCAAAATG
Found at i:133879 original size:71 final size:71
Alignment explanation
Indices: 133749--134051 Score: 253
Period size: 71 Copynumber: 4.4 Consensus size: 71
133739 TCGGAATTTT
*
133749 TTTTCAAAA-TATTATATTTATATAAATTTTCAAAATGTTTTCTAAAA-TATATAATATATATAT
1 TTTTCAAAATTA-TATA-TTATAT--ATTTTCAAAATGTTTTC-AAAACTATACAATATATATAT
* *
133812 TTTCCAAAACG
61 TTTCAAAAACA
* * *
133823 TTTTCAAAATTATATATTATATATTTTCAAAATGTTTTCAAAACTATACATTATATATGTTTTTA
1 TTTTCAAAATTATATATTATATATTTTCAAAATGTTTTCAAAACTATACAATATATATATTTTCA
*
133888 AAAATA
66 AAAACA
* *
133894 TTTTCAAAATTATATATTATATATTTTCAAAAATGATTTCAAAACTATATAAT-TCA-A-A----
1 TTTTCAAAATTATATATTATATATTTTC-AAAATGTTTTCAAAACTATACAATAT-ATATATTTT
133952 -AAAAA-A
64 CAAAAACA
* * * *
133958 --TTCAAAATTCA-AAATTATATATTTTCTCAAACGTTTTCAAAA-TA-A-TATATTATATATTT
1 TTTTCAAAATT-ATATATTATATATTTTC-AAAATGTTTTCAAAACTATACAATA-TATATATTT
**
134017 TCAAAAATG
63 TCAAAAACA
*
134026 TTTTCAAAACTATATATTATATATTT
1 TTTTCAAAATTATATATTATATATTT
134052 ATTATGTATA
Statistics
Matches: 191, Mismatches: 20, Indels: 40
0.76 0.08 0.16
Matches are distributed among these distances:
59 2 0.01
60 2 0.01
61 4 0.02
62 36 0.19
63 1 0.01
64 1 0.01
65 5 0.03
67 5 0.03
69 1 0.01
70 24 0.13
71 67 0.35
72 22 0.12
73 6 0.03
74 13 0.07
75 2 0.01
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (71 bp):
TTTTCAAAATTATATATTATATATTTTCAAAATGTTTTCAAAACTATACAATATATATATTTTCA
AAAACA
Found at i:133943 original size:97 final size:97
Alignment explanation
Indices: 133859--134041 Score: 260
Period size: 97 Copynumber: 1.9 Consensus size: 97
133849 TCAAAATGTT
* * * *
133859 TTCAAAACT-ATACATTATATATGTTTTTAAAAATATTTTCAAAATTATATATTATATATTTTCA
1 TTCAAAACTCA-AAATTATATAT-TTTCT-AAAACATTTTCAAAATAATATATTATATATTTTCA
133923 AAAATGATTTCAAAACTATATAATTCAAAAAAAAA
63 AAAATGATTTCAAAACTATATAATTCAAAAAAAAA
* * *
133958 TTCAAAATTCAAAATTATATATTTTCTCAAACGTTTTCAAAATAATATATTATATATTTTCAAAA
1 TTCAAAACTCAAAATTATATATTTTCTAAAACATTTTCAAAATAATATATTATATATTTTCAAAA
*
134023 ATGTTTTCAAAACTATATA
66 ATGATTTCAAAACTATATA
134042 TTATATATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
97 52 0.69
98 4 0.05
99 18 0.24
100 1 0.01
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (97 bp):
TTCAAAACTCAAAATTATATATTTTCTAAAACATTTTCAAAATAATATATTATATATTTTCAAAA
ATGATTTCAAAACTATATAATTCAAAAAAAAA
Found at i:134049 original size:35 final size:35
Alignment explanation
Indices: 133971--134051 Score: 119
Period size: 35 Copynumber: 2.3 Consensus size: 35
133961 AAAATTCAAA
**
133971 ATTATATATTTTCTCAAACGTTTTCAAAATAATAT
1 ATTATATATTTTCAAAAACGTTTTCAAAATAATAT
*
134006 ATTATATATTTTCAAAAATGTTTTCAAAACT-ATAT
1 ATTATATATTTTCAAAAACGTTTTCAAAA-TAATAT
134041 ATTATATATTT
1 ATTATATATTT
134052 ATTATGTATA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
35 41 0.98
36 1 0.02
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.48
Consensus pattern (35 bp):
ATTATATATTTTCAAAAACGTTTTCAAAATAATAT
Found at i:135033 original size:20 final size:22
Alignment explanation
Indices: 134994--135036 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
134984 TTTATGCAGG
134994 TTCTAATTCTATTATTTATCAT
1 TTCTAATTCTATTATTTATCAT
*
135016 TTCTAATT-T-TTTTTTATCAT
1 TTCTAATTCTATTATTTATCAT
135036 T
1 T
135037 AACAAACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 1 0.05
22 8 0.40
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (22 bp):
TTCTAATTCTATTATTTATCAT
Found at i:136671 original size:77 final size:77
Alignment explanation
Indices: 136476--136672 Score: 279
Period size: 77 Copynumber: 2.5 Consensus size: 77
136466 TATATATAAG
** * * *
136476 AAATACAGTTGCACCTAAAAATGTCATGGTTCACTAAGAAACAGGTTGCGATATGTAATGTTAAT
1 AAATA-AGTTGCACCCCAAAATGTCATGGTTCACTAAGAAATAAGTTACGATATGTAATGTTAAT
136541 ATTTTTATTAATA
65 ATTTTTATTAATA
* *
136554 AAATAAGTTACA-CCCAAGAATGTCATGGTTCACTAAGAAATAAGTTACGATCTGTAATGTTAAT
1 AAATAAGTTGCACCCCAA-AATGTCATGGTTCACTAAGAAATAAGTTACGATATGTAATGTTAAT
136618 ATTTTTATTAATA
65 ATTTTTATTAATA
* * *
136631 AAATAGGTTGCACCCCAAAATGTAATGATTCACTAAGAAATA
1 AAATAAGTTGCACCCCAAAATGTCATGGTTCACTAAGAAATA
136673 TATTACAAAT
Statistics
Matches: 106, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
76 3 0.03
77 93 0.88
78 10 0.09
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (77 bp):
AAATAAGTTGCACCCCAAAATGTCATGGTTCACTAAGAAATAAGTTACGATATGTAATGTTAATA
TTTTTATTAATA
Found at i:136718 original size:125 final size:123
Alignment explanation
Indices: 136567--136795 Score: 327
Period size: 125 Copynumber: 1.8 Consensus size: 123
136557 TAAGTTACAC
**
136567 CCAAGAATGTCATGGTTCACTAAGAAATAAGTTACGATCTGTAATGTTAATATTTTTATTAATAA
1 CCAAGAATGTCATGGTTCACTAAGAAATAAGTTACGATCTAAAATGTTAA-ATTTTT-TTAATAA
136632 AATAG-GTTGCACCCCAA-AATGTAATGATTCACTAAGAAATATATTACAAATGAGTTGCGT
64 AAT-GTGTTGC-CCCCAAGAATGTAATGATTCACTAAGAAATATATTACAAATGAGTTGCGT
* **
136692 CCAAGAATGTCATTGTTCACTAAGAAATAAGTTGTGATCTAAAATGTTAAATTTTTTTAATAAAA
1 CCAAGAATGTCATGGTTCACTAAGAAATAAGTTACGATCTAAAATGTTAAATTTTTTTAATAAAA
** * *
136757 TGTGTTGCGTCCAAGAATGTCATGGTTCACTAAGAAATA
66 TGTGTTGCCCCCAAGAATGTAATGATTCACTAAGAAATA
136796 AGTTTACGAT
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
122 5 0.05
123 37 0.40
124 6 0.06
125 45 0.48
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (123 bp):
CCAAGAATGTCATGGTTCACTAAGAAATAAGTTACGATCTAAAATGTTAAATTTTTTTAATAAAA
TGTGTTGCCCCCAAGAATGTAATGATTCACTAAGAAATATATTACAAATGAGTTGCGT
Found at i:136853 original size:40 final size:38
Alignment explanation
Indices: 136809--136933 Score: 101
Period size: 40 Copynumber: 3.2 Consensus size: 38
136799 TTACGATCTG
*
136809 GAATGTTAATATTTTTATTAATAAAATGGGTTGCGCTCAA
1 GAATGTTAAT-TTTTTATTAATAAAATGAGTTGCG-TCAA
* ** * * * *
136849 GAATG-TCATGGTTTACTAA-GAAATAAGTTACGATCAA
1 GAATGTTAATTTTTTATTAATAAAATGAGTTGCG-TCAA
* *
136886 TAATATTAATTTTTTTATTAATAAAATGAGTTGCGTCCAA
1 GAATGTTAA-TTTTTTATTAATAAAATGAGTTGCGT-CAA
136926 GAATGTTA
1 GAATGTTA
136934 TGGTTCACTA
Statistics
Matches: 61, Mismatches: 20, Indels: 8
0.69 0.22 0.09
Matches are distributed among these distances:
37 16 0.26
38 9 0.15
39 12 0.20
40 24 0.39
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (38 bp):
GAATGTTAATTTTTTATTAATAAAATGAGTTGCGTCAA
Found at i:136869 original size:201 final size:202
Alignment explanation
Indices: 136495--136873 Score: 548
Period size: 201 Copynumber: 1.9 Consensus size: 202
136485 TGCACCTAAA
* **
136495 AATGTCATGGTTCACTAAGAAACAGGTTGCGATATGTAATGTTAATATTTTTATTAATAAAATAA
1 AATGTCATGGTTCACTAAGAAACAAGTTGCGATATAAAATGTTAATATTTTTATTAATAAAATAA
*
136560 GTTACACCCAAGAATGTCATGGTTCACTAAGAAATAAGTTACGATCTGTAATGTTAATATTTTTA
66 GTTACACCCAAGAATGTCATGGTTCACTAAGAAATAAGTTACGATCTGGAATGTTAATATTTTTA
136625 TTAATAAAATAGGTTGCACCCCAAAATGTAATGATTCACTAAGAAATATATTACAAATGAGTTGC
131 TTAATAAAATAGGTTGCACCCCAAAATGTAATGATTCACTAAGAAATATATTACAAATGAGTTGC
136690 GTCCAAG
196 GTCCAAG
* * * * **
136697 AATGTCATTGTTCACTAAGAAATAAGTTGTGATCTAAAATGTTAA-ATTTTT-TTAATAAAATGT
1 AATGTCATGGTTCACTAAGAAACAAGTTGCGATATAAAATGTTAATATTTTTATTAATAAAATAA
* **
136760 GTTGCGTCCAAGAATGTCATGGTTCACTAAGAAATAAGTTTACGATCTGGAATGTTAATATTTTT
66 GTTACACCCAAGAATGTCATGGTTCACTAAGAAATAAG-TTACGATCTGGAATGTTAATATTTTT
* * * * * *
136825 ATTAATAAAATGGGTTGC-GCTCAAGAATGTCATGGTTTACTAAGAAATA
130 ATTAATAAAATAGGTTGCACCCCAA-AATGTAATGATTCACTAAGAAATA
136874 AGTTACGATC
Statistics
Matches: 156, Mismatches: 19, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
200 49 0.31
201 69 0.44
202 38 0.24
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (202 bp):
AATGTCATGGTTCACTAAGAAACAAGTTGCGATATAAAATGTTAATATTTTTATTAATAAAATAA
GTTACACCCAAGAATGTCATGGTTCACTAAGAAATAAGTTACGATCTGGAATGTTAATATTTTTA
TTAATAAAATAGGTTGCACCCCAAAATGTAATGATTCACTAAGAAATATATTACAAATGAGTTGC
GTCCAAG
Found at i:136927 original size:77 final size:76
Alignment explanation
Indices: 136679--137066 Score: 385
Period size: 77 Copynumber: 5.1 Consensus size: 76
136669 AATATATTAC
* **
136679 AAATGAGTTGCGTCCAAGAATGTCATTGTTCACTAAGAAATAAGTTGTGATCTAAAATGTTAA-A
1 AAATGAGTTGCGTCCAAGAATGTCATGGTTCACTAAGAAATAAGTTACGATC-AAAATGTTAATA
136743 TTTTT-TTAATA
65 TTTTTATTAATA
* **
136754 AAATGTGTTGCGTCCAAGAATGTCATGGTTCACTAAGAAATAAGTTTACGATCTGGAATGTTAAT
1 AAATGAGTTGCGTCCAAGAATGTCATGGTTCACTAAGAAATAAG-TTACGATC-AAAATGTTAAT
136819 ATTTTTATTAATA
64 ATTTTTATTAATA
* * *
136832 AAATGGGTTGCG-CTCAAGAATGTCATGGTTTACTAAGAAATAAGTTACGATCAATAATATTAAT
1 AAATGAGTTGCGTC-CAAGAATGTCATGGTTCACTAAGAAATAAGTTACGATCAA-AATGTTAAT
*
136896 TTTTTTATTAATA
64 ATTTTTATTAATA
* * ** *** * **
136909 AAATGAGTTGCGTCCAAGAATGTTATGGTTCACTAAGAAATAGGTTGTGATTTGGAATATTTTTA
1 AAATGAGTTGCGTCCAAGAATGTCATGGTTCACTAAGAAATAAGTTACGA-TCAAAATGTTAATA
*
136974 TTTTT-TAAATA
65 TTTTTATTAATA
* * * * ***
136985 AAATGGGATGCG-CCAAAAAATGTCATGGTT-AGTTAAGAAATAAGGTTA-GATTTTGAATGTTA
1 AAATGAGTTGCGTCC-AAGAATGTCATGGTTCA-CTAAGAAATAA-GTTACGA-TCAAAATGTTA
137047 ATATTTTTATTAATA
62 ATATTTTTATTAATA
137062 AAATG
1 AAATG
137067 GGTTATACAC
Statistics
Matches: 265, Mismatches: 37, Indels: 20
0.82 0.11 0.06
Matches are distributed among these distances:
75 45 0.17
76 70 0.26
77 102 0.38
78 48 0.18
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.38
Consensus pattern (76 bp):
AAATGAGTTGCGTCCAAGAATGTCATGGTTCACTAAGAAATAAGTTACGATCAAAATGTTAATAT
TTTTATTAATA
Found at i:136988 original size:153 final size:153
Alignment explanation
Indices: 136679--137101 Score: 454
Period size: 153 Copynumber: 2.8 Consensus size: 153
136669 AATATATTAC
* * * *
136679 AAATGAGTTGCG-TCCAAGAATGTCATTGTTCACTAAGAAATAAGTTGTGATCTAA-AATGTTAA
1 AAATGGGTTGCGCT-CAAGAATGTCATGGTTTACTAAGAAATAAGTT-AGATC-AATAATGTTAA
* *
136742 -ATTTTT-TTAATAAAATGTGTTGCGTCCAAGAATGTCATGGTTCACTAAGAAATAAGTTTACGA
63 TATTTTTATTAATAAAATGAGTTGCGTCCAAGAATGTTATGGTTCACTAAGAAATAAGTTTA-GA
* *
136805 TCTGGAATGTTAATATTTTTATTAATA
127 TCTGGAATATTAATATTTTTATAAATA
* *
136832 AAATGGGTTGCGCTCAAGAATGTCATGGTTTACTAAGAAATAAGTTACGATCAATAATATTAATT
1 AAATGGGTTGCGCTCAAGAATGTCATGGTTTACTAAGAAATAAGTTA-GATCAATAATGTTAATA
* *
136897 TTTTTATTAATAAAATGAGTTGCGTCCAAGAATGTTATGGTTCACTAAGAAATAGGTTGT-GATT
65 TTTTTATTAATAAAATGAGTTGCGTCCAAGAATGTTATGGTTCACTAAGAAATAAGTT-TAGATC
**
136961 TGGAATATTTTTATTTTT-TAAATA
129 TGGAATATTAATATTTTTATAAATA
* * * **
136985 AAATGGGATGCGC-CAAAAAATGTCATGG-TTAGTTAAGAAATAAGGTTAGAT-TTTGAATGTTA
1 AAATGGGTTGCGCTC-AAGAATGTCATGGTTTA-CTAAGAAATAA-GTTAGATCAAT-AATGTTA
* * * *
137047 ATATTTTTATTAATAAAATGGGTT--ATACACAAGAATATTATAGTTCACTAAGAAA
62 ATATTTTTATTAATAAAATGAGTTGCGT-C-CAAGAATGTTATGGTTCACTAAGAAA
137102 GCAAGTTGCA
Statistics
Matches: 233, Mismatches: 25, Indels: 24
0.83 0.09 0.09
Matches are distributed among these distances:
151 1 0.00
152 8 0.03
153 146 0.63
154 28 0.12
155 49 0.21
156 1 0.00
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.37
Consensus pattern (153 bp):
AAATGGGTTGCGCTCAAGAATGTCATGGTTTACTAAGAAATAAGTTAGATCAATAATGTTAATAT
TTTTATTAATAAAATGAGTTGCGTCCAAGAATGTTATGGTTCACTAAGAAATAAGTTTAGATCTG
GAATATTAATATTTTTATAAATA
Found at i:137082 original size:230 final size:230
Alignment explanation
Indices: 136679--137101 Score: 575
Period size: 230 Copynumber: 1.8 Consensus size: 230
136669 AATATATTAC
*
136679 AAATGAGTTGCGTCCAAGAATGTCATTGTTCACTAAGAAATAAGTTGTGATCTAAAATGTTAAAT
1 AAATGAGTTGCGTCCAAGAATGTCATGGTTCACTAAGAAATAAGTTGTGATCTAAAATGTTAAAT
* * * * *
136744 TTTTTTAATAAAATGTGTTGCGTCCAAGAATGTCATGGTTCACTAAGAAATAAGTTTACGATCTG
66 TTTTTAAATAAAATGGGATGCGTCCAAAAATGTCATGGTTCACTAAGAAATAAGGTTACGATCTG
* * * * * *
136809 GAATGTTAATATTTTTATTAATAAAATGGGTTGCGCTCAAGAATGTCATGGTTTACTAAGAAATA
131 GAATGTTAATATTTTTATTAATAAAATGGGTTACACACAAGAATATCATAGTTCACTAAGAAATA
136874 AGTTACGATCAATAATATTAATTTTTTTATTAATA
196 AGTTACGATCAATAATATTAATTTTTTTATTAATA
* * * * **
136909 AAATGAGTTGCGTCCAAGAATGTTATGGTTCACTAAGAAATAGGTTGTGATTTGGAATAT-TTTT
1 AAATGAGTTGCGTCCAAGAATGTCATGGTTCACTAAGAAATAAGTTGTGATCT--AAAATGTTAA
*
136973 ATTTTTTAAATAAAATGGGATGCG-CCAAAAAATGTCATGGTT-AGTTAAGAAATAAGGTTA-GA
64 ATTTTTTAAATAAAATGGGATGCGTCC-AAAAATGTCATGGTTCA-CTAAGAAATAAGGTTACGA
* * * *
137035 TTTTGAATGTTAATATTTTTATTAATAAAATGGGTTATACACAAGAATATTATAGTTCACTAAGA
127 TCTGGAATGTTAATATTTTTATTAATAAAATGGGTTACACACAAGAATATCATAGTTCACTAAGA
137100 AA
192 AA
137102 GCAAGTTGCA
Statistics
Matches: 166, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
230 111 0.67
231 51 0.31
232 4 0.02
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.37
Consensus pattern (230 bp):
AAATGAGTTGCGTCCAAGAATGTCATGGTTCACTAAGAAATAAGTTGTGATCTAAAATGTTAAAT
TTTTTAAATAAAATGGGATGCGTCCAAAAATGTCATGGTTCACTAAGAAATAAGGTTACGATCTG
GAATGTTAATATTTTTATTAATAAAATGGGTTACACACAAGAATATCATAGTTCACTAAGAAATA
AGTTACGATCAATAATATTAATTTTTTTATTAATA
Found at i:137948 original size:261 final size:261
Alignment explanation
Indices: 137304--138111 Score: 871
Period size: 260 Copynumber: 3.1 Consensus size: 261
137294 TGCAACCTAT
* ** *
137304 TTTATTAATAAAAATATTAACATTCAAATATTGTAACCTATTTAGTAGTGAACCATGACATTCTT
1 TTTATTAA-AAAAATATTAACATTC-CATATTGTAACCTATTTCTTAGTGAATCATGACATTCTT
* * * ** * * * *
137369 GAGCACATCCCATTTTATTAATAAAAATATTAAAATTTCATATCGTGACCTATTTCTTAATTTA-
64 GGGCACAACCCATTTTATTAATAAAAATATTAACATTTCATATCGCAACATGTTTCTTAGTTAAC
* * * * *
137433 TCATGATATATTTAGGCACAACCATATTTCTTATATATATTCATAACATTTTCAATTTTCAATTT
129 T-ATGATATTTTTAGGCGCAACCATATTTCTTATATATATTCATAACATTTTCAGTTTTTAACTT
* * * * * ** **
137498 ATTTTCTTATCGTGGGAAATTCAATGCTCAATTAGCTTAAATTGTGGTAACATTTTAGGTACAAT
193 ATTTTCTTATCGTGGAAAATCCAATGCTCCATCAGTTTAAACCGTGGTAACATTTTAGACACAAT
137563 CCAA
258 CCAA
** * * *
137567 TTTATTAAAAAAATATTAACATTCCAGGTCGCAACCTATTTCTTAGTGAATGA-GACATTCTTGG
1 TTTATTAAAAAAATATTAACATTCCATATTGTAACCTATTTCTTAGTGAATCATGACATTCTTGG
*** * * * *
137631 GTGTAACTCATTTTATTAATAAAAATATTAACA-TTCTAGATCCCAACATGTTTCTTAGTAAACT
66 GCACAACCCATTTTATTAATAAAAATATTAACATTTC-ATATCGCAACATGTTTCTTAGTTAACT
* * *
137695 ATGACATTTTTAGACGCAACCATATTTTTTTTTATATATATTCATAACATTTTCAGTTTTTAACT
130 ATGATATTTTTAGGCGCAACCATA---TTTCTTATATATATTCATAACATTTTCAGTTTTTAACT
* * * * *
137760 TATTTTCTTATCATGAGAAAACCCTATGCTCCATCAGTTTAAACCGTGGTAAGATTTTAGACGCA
192 TATTTTCTTATCGTG-GAAAATCCAATGCTCCATCAGTTTAAACCGTGGTAACATTTTAGACACA
*
137825 ATTC-A
256 ATCCAA
* *
137830 TTTATT-AAAAAA-A-TAATATTTCATATTGTAACCTATTTCTTCA-TGAATCATGACATTCTTG
1 TTTATTAAAAAAATATTAACATTCCATATTGTAACCTATTTCTT-AGTGAATCATGACATTCTTG
* * * *
137891 GGCCCAACCCATTTTATTAATAAAAATATCAACATTTCATATTGCAACATGTTTCTTAGTTAACC
65 GGCACAACCCATTTTATTAATAAAAATATTAACATTTCATATCGCAACATGTTTCTTAGTTAACT
* *
137956 ATGATATTTTTAGGCGCAACCGTATTTCTTATATATATTCCTAACATTTTCAGTTTTTAACTTAT
130 ATGATATTTTTAGGCGCAACCATATTTCTTATATATATTCATAACATTTTCAGTTTTTAACTTAT
** *** *
138021 TTTCTTATCGTGGGAAAATCCAATGCTCCATCA-TCTTAAACTAT-GTAACATTTTAGGTGCAAC
195 TTTCTTATCGT-GGAAAATCCAATGCTCCATCAGT-TTAAACCGTGGTAACATTTTAGACACAAT
*
138084 CCAT
258 CCAA
138088 TTTATTAATAAAAATATTAACATT
1 TTTATTAA-AAAAATATTAACATT
138112 TCAAATCGCA
Statistics
Matches: 447, Mismatches: 82, Indels: 33
0.80 0.15 0.06
Matches are distributed among these distances:
257 17 0.04
258 80 0.18
259 5 0.01
260 106 0.24
261 106 0.24
262 31 0.07
263 63 0.14
264 39 0.09
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.40
Consensus pattern (261 bp):
TTTATTAAAAAAATATTAACATTCCATATTGTAACCTATTTCTTAGTGAATCATGACATTCTTGG
GCACAACCCATTTTATTAATAAAAATATTAACATTTCATATCGCAACATGTTTCTTAGTTAACTA
TGATATTTTTAGGCGCAACCATATTTCTTATATATATTCATAACATTTTCAGTTTTTAACTTATT
TTCTTATCGTGGAAAATCCAATGCTCCATCAGTTTAAACCGTGGTAACATTTTAGACACAATCCA
A
Found at i:138207 original size:184 final size:184
Alignment explanation
Indices: 137895--138506 Score: 906
Period size: 184 Copynumber: 3.3 Consensus size: 184
137885 TTCTTGGGCC
* * * ** * * **
137895 CAACCCATTTTATTAATAAAAATATCAACATTTCATATTGCAACATGTTTCTTAGTTAACCATGA
1 CAACCCATTTTATTAATAAAAATATTAACATTTCAAATCGCAACAAATTTCTCAGTGAATAATGA
* * * * * * *
137960 -TATTTTTAGGCGCAACCGTATTTCTTATATATATTCCTAACATTTTCAGTTTTTAACTTATTTT
66 CAATTTTTTGACGCAACCATA-TT-TTATATATATTCATAACATTTTTAGTTTTTAATTTATTTT
138024 CTTATCGTGGGAAAATCCAATGCTCCATCATCTTAAACTATGTAACATTTTAGGTG
129 CTTATCGTGGGAAAATCCAATGCTCCATCATCTTAAACTATGTAACATTTTAGGTG
138080 CAACCCATTTTATTAATAAAAATATTAACATTTCAAATCGCAACAAATTTCTCAGTGAATAATGA
1 CAACCCATTTTATTAATAAAAATATTAACATTTCAAATCGCAACAAATTTCTCAGTGAATAATGA
138145 CAATTTTTTGACGCAACCATATTTTATATATATTCATAACATTTTTAGTTTTTAATTTATTTTCT
66 CAATTTTTTGACGCAACCATATTTTATATATATTCATAACATTTTTAGTTTTTAATTTATTTTCT
138210 TATCGTGGGAAAATCCAATGCTCCATCATCTTAAACTATGTAACATTTTAGGTG
131 TATCGTGGGAAAATCCAATGCTCCATCATCTTAAACTATGTAACATTTTAGGTG
138264 CAACCCATTTTATTAATAAAAATATTAACATTTCAAATCGCAACAAATTTCTCAGTGAATAATGA
1 CAACCCATTTTATTAATAAAAATATTAACATTTCAAATCGCAACAAATTTCTCAGTGAATAATGA
138329 CAATTTTTTGACGCAACCATATTTTATATATATTCATAACATTTTTAGTTTTTAATTTATTTTCT
66 CAATTTTTTGACGCAACCATATTTTATATATATTCATAACATTTTTAGTTTTTAATTTATTTTCT
* * * * *
138394 TATAGTGGGAAAATCTAATGCTCCATCAGT-TTTAATTGTGGTAACATTTTAGGTG
131 TATCGTGGGAAAATCCAATGCTCCATCA-TCTTAAACTAT-GTAACATTTTAGGTG
* * * * * ** *
138449 CAACTCATTTTATTAA-AAAAATATTAGCATTCCAGATCCCAACCTATTTCTTAGTGAA
1 CAACCCATTTTATTAATAAAAATATTAACATTTCAAATCGCAACAAATTTCTCAGTGAA
138507 GCATGATATT
Statistics
Matches: 395, Mismatches: 29, Indels: 7
0.92 0.07 0.02
Matches are distributed among these distances:
184 290 0.73
185 89 0.23
186 16 0.04
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.40
Consensus pattern (184 bp):
CAACCCATTTTATTAATAAAAATATTAACATTTCAAATCGCAACAAATTTCTCAGTGAATAATGA
CAATTTTTTGACGCAACCATATTTTATATATATTCATAACATTTTTAGTTTTTAATTTATTTTCT
TATCGTGGGAAAATCCAATGCTCCATCATCTTAAACTATGTAACATTTTAGGTG
Found at i:138574 original size:77 final size:76
Alignment explanation
Indices: 138445--138665 Score: 284
Period size: 76 Copynumber: 2.9 Consensus size: 76
138435 TAACATTTTA
* * * *
138445 GGTGCAACTCATTTTATTAA-AAAAATATTAGCATTCCAGATCCCAACCTATTTCTTAGTGAAGC
1 GGTGCAACCCATTTTATTAATAAAAATATTAACATT-CAGATCACAACCTATTTCTTAGTGAACC
138509 ATGATATTCTTG
65 ATGATATTCTTG
* * * * *
138521 GGTGCTACCCATTTTGTTAATAAAAATATTAACATTCTATATCACAACTTATTTCTTAATGAACC
1 GGTGCAACCCATTTTATTAATAAAAATATTAACATTC-AGATCACAACCTATTTCTTAGTGAACC
138586 ATGATATTCTTG
65 ATGATATTCTTG
** * *
138598 GGCACAACCC-TTTTATTAATAAAAATATTAACATTACAGATCATAACCTAATTCTTAGTGAACC
1 GGTGCAACCCATTTTATTAATAAAAATATTAACATT-CAGATCACAACCTATTTCTTAGTGAACC
138662 ATGA
65 ATGA
138666 CATTGTTAGG
Statistics
Matches: 124, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
76 68 0.55
77 56 0.45
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (76 bp):
GGTGCAACCCATTTTATTAATAAAAATATTAACATTCAGATCACAACCTATTTCTTAGTGAACCA
TGATATTCTTG
Found at i:138682 original size:76 final size:75
Alignment explanation
Indices: 138437--138682 Score: 262
Period size: 76 Copynumber: 3.2 Consensus size: 75
138427 AATTGTGGTA
* * * *
138437 ACATT-TTAGGTGCAACTCATTTTATTAA-AAAAATATTAGCATTCCAGATCCCAACCTATTTCT
1 ACATTCTTAGGCGCAAC-CCTTTTATTAATAAAAATATTAACATT-CAGATCACAACCTATTTCT
*
138500 TAGTGAAGCATG
64 TAGTGAACCATG
* * * * * * *
138512 ATATTCTTGGGTGCTACCCATTTTGTTAATAAAAATATTAACATTCTATATCACAACTTATTTCT
1 ACATTCTTAGGCGCAACCC-TTTTATTAATAAAAATATTAACATTC-AGATCACAACCTATTTCT
*
138577 TAATGAACCATG
64 TAGTGAACCATG
* * * * *
138589 ATATTCTTGGGCACAACCCTTTTATTAATAAAAATATTAACATTACAGATCATAACCTAATTCTT
1 ACATTCTTAGGCGCAACCCTTTTATTAATAAAAATATTAACATT-CAGATCACAACCTATTTCTT
138654 AGTGAACCATG
65 AGTGAACCATG
*
138665 ACATTGTTAGGCGCAACC
1 ACATTCTTAGGCGCAACC
138683 GTATTTCTTA
Statistics
Matches: 142, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
75 5 0.04
76 81 0.57
77 56 0.39
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (75 bp):
ACATTCTTAGGCGCAACCCTTTTATTAATAAAAATATTAACATTCAGATCACAACCTATTTCTTA
GTGAACCATG
Found at i:138912 original size:22 final size:22
Alignment explanation
Indices: 138887--138936 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
138877 TACTATATTA
138887 ATAACTTTTCCA-GTTCCGTTTT
1 ATAACTTTT-CATGTTCCGTTTT
*
138909 ATAA-TATTTTATGTTCCGTTTT
1 ATAACT-TTTCATGTTCCGTTTT
138931 -TAACTT
1 ATAACTT
138937 GTAAGATAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.22, C:0.16, G:0.08, T:0.54
Consensus pattern (22 bp):
ATAACTTTTCATGTTCCGTTTT
Found at i:140407 original size:25 final size:25
Alignment explanation
Indices: 140374--140450 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
140364 TAAAATTTTG
140374 AAAATATATTAATAAATTTAGTTTA
1 AAAATATATTAATAAATTTAGTTTA
* * *
140399 AAAATATATGAA-ATATGTAG---A
1 AAAATATATTAATAAATTTAGTTTA
*
140420 ATAATA-A-TAATAAATTTAGTTTA
1 AAAATATATTAATAAATTTAGTTTA
140443 AAAATATA
1 AAAATATA
140451 AATATATTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 11
0.67 0.14 0.19
Matches are distributed among these distances:
19 2 0.05
20 7 0.18
21 6 0.15
23 6 0.15
24 7 0.18
25 11 0.28
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (25 bp):
AAAATATATTAATAAATTTAGTTTA
Found at i:140451 original size:22 final size:22
Alignment explanation
Indices: 140374--140451 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
140364 TAAAATTTTG
140374 AAAATATATTAATAAATTTAGTTT
1 AAAA-ATA-TAATAAATTTAGTTT
* **
140398 AAAAATAT-ATGAAATAT-GTAG
1 AAAAATATAAT-AAATTTAGTTT
*
140419 AATAATAATAATAAATTTAGTTT
1 AAAAAT-ATAATAAATTTAGTTT
140442 AAAAATATAA
1 AAAAATATAA
140452 ATATATTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
21 9 0.21
22 17 0.40
23 12 0.29
24 4 0.10
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.37
Consensus pattern (22 bp):
AAAAATATAATAAATTTAGTTT
Found at i:140454 original size:23 final size:23
Alignment explanation
Indices: 140374--140454 Score: 62
Period size: 23 Copynumber: 3.6 Consensus size: 23
140364 TAAAATTTTG
*
140374 AAAATATATTAATAAATTTAGTTT
1 AAAA-ATATAAATAAATTTAGTTT
* **
140398 AAAAATAT--ATGAAATAT-GTAG
1 AAAAATATAAAT-AAATTTAGTTT
*
140419 AATAATA-ATAATAAATTTAGTTT
1 AAAAATATA-AATAAATTTAGTTT
140442 AAAAATATAAATA
1 AAAAATATAAATA
140455 TATTAAACTC
Statistics
Matches: 43, Mismatches: 8, Indels: 13
0.67 0.12 0.20
Matches are distributed among these distances:
21 10 0.23
22 10 0.23
23 18 0.42
24 5 0.12
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (23 bp):
AAAAATATAAATAAATTTAGTTT
Found at i:140997 original size:2 final size:2
Alignment explanation
Indices: 140990--141023 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
140980 TCTTATCAGT
*
140990 TA TA TA TA TA TA TA TA TA TA TA TA AA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
141024 TTAATTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:142805 original size:21 final size:19
Alignment explanation
Indices: 142773--142831 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 19
142763 CAGTTGGTTA
*
142773 AAATCTTAAATTTCAATTCTT
1 AAAT-TTAAATTT-AAATCTT
*
142794 AGATTCTAAATTATAAATCTT
1 AAATT-TAAATT-TAAATCTT
142815 AAATTTAAATTTTAAAT
1 AAATTTAAA-TTTAAAT
142832 TATACACCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 10 0.31
21 21 0.66
22 1 0.03
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (19 bp):
AAATTTAAATTTAAATCTT
Found at i:142829 original size:13 final size:14
Alignment explanation
Indices: 142800--142835 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
142790 TCTTAGATTC
142800 TAAATTATAAATCT
1 TAAATTATAAATCT
*
142814 TAAATT-TAAATTT
1 TAAATTATAAATCT
142827 TAAATTATA
1 TAAATTATA
142836 CACCCTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
TAAATTATAAATCT
Found at i:145904 original size:32 final size:32
Alignment explanation
Indices: 145863--145948 Score: 118
Period size: 32 Copynumber: 2.7 Consensus size: 32
145853 ATATACTAGT
* *
145863 AGTGTTGCATTTAGGTAATGCACAACAGTGTA
1 AGTGTTGCATTTAGATAATGCACAACAGAGTA
* * *
145895 AGTGTTGCATTCAGATAATGTACAACAGAGTC
1 AGTGTTGCATTTAGATAATGCACAACAGAGTA
*
145927 ACTGTTGCATTTAGATAATGCA
1 AGTGTTGCATTTAGATAATGCA
145949 TATGTGTGTC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (32 bp):
AGTGTTGCATTTAGATAATGCACAACAGAGTA
Done.