Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 158 of 230
Found at i:46827696 original size:9 final size:9
Alignment explanation
Indices: 46827655--46827697 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
46827645 CAACAGTAGT
*
46827655 AGTAGCAAC
1 AGTAGCAGC
*
46827664 AG-AGTAGC
1 AGTAGCAGC
46827672 AGTAGCAGC
1 AGTAGCAGC
*
46827681 AGCAGCAGC
1 AGTAGCAGC
46827690 AGTAGCAG
1 AGTAGCAG
46827698 TAGCAGTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.37, C:0.21, G:0.33, T:0.09
Consensus pattern (9 bp):
AGTAGCAGC
Found at i:46832211 original size:27 final size:27
Alignment explanation
Indices: 46832170--46832225 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
46832160 TTTGTTCCTC
46832170 AAGTTGTAAGCGGCCCTAAAACCAACA
1 AAGTTGTAAGCGGCCCTAAAACCAACA
*
46832197 AAGTTGTAAGTGGCCCTAAAACCAACA
1 AAGTTGTAAGCGGCCCTAAAACCAACA
46832224 AA
1 AA
46832226 CTCGTTGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (27 bp):
AAGTTGTAAGCGGCCCTAAAACCAACA
Found at i:46838710 original size:17 final size:19
Alignment explanation
Indices: 46838678--46838712 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
46838668 TTATAAAATA
46838678 TGAACTTGATAAATGATAT
1 TGAACTTGATAAATGATAT
46838697 TGAA-TTGA-AAATGATA
1 TGAACTTGATAAATGATA
46838713 GTATGAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 4 0.25
19 4 0.25
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (19 bp):
TGAACTTGATAAATGATAT
Found at i:46846374 original size:2 final size:2
Alignment explanation
Indices: 46846367--46846400 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
46846357 CCTCCTCCAT
46846367 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
46846401 ACTATCACAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:46846411 original size:2 final size:2
Alignment explanation
Indices: 46846406--46846443 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
46846396 CTCTCACTAT
* *
46846406 CA CA CA CA CA CA CA CA TA CA CA CA CA CA AA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
46846444 TGCGCGCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.45, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:46847939 original size:111 final size:109
Alignment explanation
Indices: 46847713--46847941 Score: 422
Period size: 109 Copynumber: 2.1 Consensus size: 109
46847703 AGCCTTTAAC
*
46847713 TTTTGTTTCTTTTAATAATTTGTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGCAACATG
1 TTTTGTTGCTTTTAATAATTTGTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGCAACATG
46847778 TAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
66 TAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
*
46847822 TTTTGTTGCTTTTAATAATTTTTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGCATCACA
1 TTTTGTTGCTTTTAATAATTTGTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGCA--ACA
46847887 TGTAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
64 TGTAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
46847933 TTTTGTTGC
1 TTTTGTTGC
46847942 ATCCCATTGG
Statistics
Matches: 116, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
109 58 0.50
111 58 0.50
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.48
Consensus pattern (109 bp):
TTTTGTTGCTTTTAATAATTTGTGAACATTTCTCTTAAACAAAATAGTGAGCTGTGAGCAACATG
TAGTCTTCTAGGTTCTGCTTTCAGCTGATTGTTAATTTTTTTCT
Found at i:46852346 original size:21 final size:21
Alignment explanation
Indices: 46852320--46852359 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
46852310 TTTTTAATTT
46852320 TTTTATTAGTA-TATATTTTTA
1 TTTTATT-GTATTATATTTTTA
46852341 TTTTATTGTATTATATTTT
1 TTTTATTGTATTATATTTT
46852360 ATAATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTTATTGTATTATATTTTTA
Found at i:46853632 original size:10 final size:9
Alignment explanation
Indices: 46853593--46853659 Score: 50
Period size: 10 Copynumber: 7.4 Consensus size: 9
46853583 AAGTGGCAAA
46853593 AAAAATTAT
1 AAAAATTAT
46853602 AAAAA--AT
1 AAAAATTAT
*
46853609 AAAAATCAAT
1 AAAAAT-TAT
*
46853619 AAAAGTTAT
1 AAAAATTAT
46853628 AAAAATTATT
1 AAAAATTA-T
**
46853638 AAATTTTAAT
1 AAAAATT-AT
46853648 AAAAA-TAT
1 AAAAATTAT
46853656 AAAA
1 AAAA
46853660 TATATTTAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
7 7 0.15
8 6 0.13
9 15 0.33
10 17 0.37
11 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:46858978 original size:15 final size:16
Alignment explanation
Indices: 46858955--46858987 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
46858945 ATAGTTAATT
46858955 AATTAAAAAAGAT-TA
1 AATTAAAAAAGATGTA
*
46858970 AATTGAAAAAGATGTA
1 AATTAAAAAAGATGTA
46858986 AA
1 AA
46858988 AGTTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (16 bp):
AATTAAAAAAGATGTA
Found at i:46871070 original size:25 final size:25
Alignment explanation
Indices: 46871042--46871093 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
46871032 CTCACTTGAA
46871042 CTTCTCGA-TATATGGCTATTCAGAG
1 CTTCTCGATTA-ATGGCTATTCAGAG
* *
46871067 CTTCTCGATTAATGGCTCTTCTGAG
1 CTTCTCGATTAATGGCTATTCAGAG
46871092 CT
1 CT
46871094 AACCGTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (25 bp):
CTTCTCGATTAATGGCTATTCAGAG
Found at i:46872468 original size:25 final size:25
Alignment explanation
Indices: 46872431--46872485 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
46872421 ACAGGCTGGG
* *
46872431 ATACGATCTTGTGTCCCTACTTTGA
1 ATACCATCGTGTGTCCCTACTTTGA
46872456 ATACCATCGTGTGTCCCTACTTTGA
1 ATACCATCGTGTGTCCCTACTTTGA
46872481 ATACC
1 ATACC
46872486 CACACGGCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (25 bp):
ATACCATCGTGTGTCCCTACTTTGA
Found at i:46875065 original size:17 final size:17
Alignment explanation
Indices: 46875045--46875081 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
46875035 TTAGAATTGG
46875045 ATTGAGAAAATAATTTA
1 ATTGAGAAAATAATTTA
46875062 ATTGAGAAAATAATTTA
1 ATTGAGAAAATAATTTA
46875079 ATT
1 ATT
46875082 AATTAAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (17 bp):
ATTGAGAAAATAATTTA
Found at i:46877704 original size:24 final size:24
Alignment explanation
Indices: 46877677--46877728 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
46877667 TTAGTAAGTC
*
46877677 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
46877701 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
46877725 AAAT
1 AAAT
46877729 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:46878876 original size:85 final size:85
Alignment explanation
Indices: 46878733--46878905 Score: 346
Period size: 85 Copynumber: 2.0 Consensus size: 85
46878723 CGGTACAGCT
46878733 AAAATTAAGCTTTTCTAAGTTATTTACCTTGCAAGAGAACCCTTAAAAACTTTATGGAACACTCC
1 AAAATTAAGCTTTTCTAAGTTATTTACCTTGCAAGAGAACCCTTAAAAACTTTATGGAACACTCC
46878798 AACTACCTATGCAAGTCTCG
66 AACTACCTATGCAAGTCTCG
46878818 AAAATTAAGCTTTTCTAAGTTATTTACCTTGCAAGAGAACCCTTAAAAACTTTATGGAACACTCC
1 AAAATTAAGCTTTTCTAAGTTATTTACCTTGCAAGAGAACCCTTAAAAACTTTATGGAACACTCC
46878883 AACTACCTATGCAAGTCTCG
66 AACTACCTATGCAAGTCTCG
46878903 AAA
1 AAA
46878906 TTCATCCTAT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 88 1.00
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (85 bp):
AAAATTAAGCTTTTCTAAGTTATTTACCTTGCAAGAGAACCCTTAAAAACTTTATGGAACACTCC
AACTACCTATGCAAGTCTCG
Found at i:46880016 original size:111 final size:111
Alignment explanation
Indices: 46879762--46880076 Score: 499
Period size: 111 Copynumber: 2.8 Consensus size: 111
46879752 ATATTTGGCA
* *
46879762 ATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAT
1 ATTTGGTTGAACGAGAAAAAACAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAAC
46879827 GCAAAACATTGCCTTATTTT-AAAA-TTTTTAAAAGGATATTAAGCC
65 GCAAAACATTGCCTTATTTTAAAAATTTTTTAAAAGGATATTAAGCC
* * *
46879872 ATTTGATTGAATGAGAAAAAACGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTTGAACGAGAAAAAACAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
*
46879937 CAAAACATTGCCTTATTTTAAAAATTTTTTAAAAGGTTATTAAGCC
66 CAAAACATTGCCTTATTTTAAAAATTTTTTAAAAGGATATTAAGCC
*
46879983 ATTTGGTTGAACGAGAAAAAACAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAGG
1 ATTTGGTTGAACGAGAAAAAACAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
* * * *
46880048 CTAAATATTGCCTCATTTAGAAAAATTTT
66 CAAAACATTGCCTTATTT-TAAAAATTTT
46880077 CCTTTCTTGA
Statistics
Matches: 188, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
109 25 0.13
110 58 0.31
111 96 0.51
112 9 0.05
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.31
Consensus pattern (111 bp):
ATTTGGTTGAACGAGAAAAAACAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
CAAAACATTGCCTTATTTTAAAAATTTTTTAAAAGGATATTAAGCC
Found at i:46880142 original size:21 final size:20
Alignment explanation
Indices: 46880105--46880143 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
46880095 GTTAATGTGC
*
46880105 ATAATGGAATAATAAATATA
1 ATAATGGAATAAAAAATATA
*
46880125 ATAATGTGCATAAAAAATA
1 ATAATG-GAATAAAAAATA
46880144 ATGAGTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.28
Consensus pattern (20 bp):
ATAATGGAATAAAAAATATA
Found at i:46880209 original size:22 final size:22
Alignment explanation
Indices: 46880184--46880248 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
46880174 CAATCATAGC
46880184 AAATAAATAAATAAAC-TAAAGT
1 AAATAAATAAATAAACATAAA-T
*
46880206 AAATAAA-AAAGAACACATAAAT
1 AAATAAATAAATAA-ACATAAAT
* *
46880228 AAATACATAAATGAACATAAA
1 AAATAAATAAATAAACATAAA
46880249 AAACAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 5 0.14
22 23 0.64
23 8 0.22
ACGTcount: A:0.69, C:0.08, G:0.05, T:0.18
Consensus pattern (22 bp):
AAATAAATAAATAAACATAAAT
Found at i:46880634 original size:21 final size:21
Alignment explanation
Indices: 46880554--46880635 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 21
46880544 ATATATATAG
*
46880554 ATGAAG-AAATAATAATAATA
1 ATGAAGAAAATAATAAAAATA
*
46880574 AT-AACAACAATAATAATAAA-A
1 ATGAAGAA-AATAATAA-AAATA
* * *
46880595 GATG-ATAATATATTAAAAATA
1 -ATGAAGAAAATAATAAAAATA
46880616 ATGAAGAAAATAATAAAAAT
1 ATGAAGAAAATAATAAAAAT
46880636 GGTAAAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 13
0.69 0.12 0.19
Matches are distributed among these distances:
19 2 0.04
20 9 0.19
21 29 0.62
22 7 0.15
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.24
Consensus pattern (21 bp):
ATGAAGAAAATAATAAAAATA
Found at i:46882148 original size:43 final size:44
Alignment explanation
Indices: 46882094--46883074 Score: 156
Period size: 44 Copynumber: 22.3 Consensus size: 44
46882084 AGATTCACCA
*
46882094 TCTTTGATCTGCTCCACT-ACAACCGAGGGAGGCAAGGCTTGTG
1 TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* ** ** * * *
46882137 TCTTCGATCTGCTTCGTTGTCAA-TGAAGGAAGGCAAGATCTAT-TG
1 TCTTCGATCTGCTCCACTCACAACCG-AGGGAGGCAAG-GCT-TGTG
* * * * *
46882182 TCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* ** * * * ** *
46882225 TCTTCGATCTGCTTCACTGTCAGTA-C-AAGAAGGCAAGATCTACTA
1 TCTTCGATCTGCTCCAC--TCACAACCGAGGGAGGCAAG-GCTTGTG
** * * * *
46882270 TCTTC-AGTCTGCTCCACTGTCAA-TGCAGGAAGGGAAGATCTAT-TG
1 TCTTCGA-TCTGCTCCACTCACAACCG-AGGGAGGCAAG-GCT-TGTG
* * * ** * *
46882315 TCTTCAACCAGCTCTGCT-ACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* * *** * * *
46882358 TCTTCGATCTGCTTCGCTGTTAA-TGCAGGAAGGCAA-GATCTGTTG
1 TCTTCGATCTGCTCCACTCACAACCG-AGGGAGGCAAGGCT-TG-TG
* * * *
46882403 TCTTC-AACTAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTA
1 TCTTCGATCT-GCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* * * ** * *
46882446 TCTTCGACCTGCTTCGCTGTCAA-TGCA-GGACGGCAA-GATCTGTTG
1 TCTTCGATCTGCTCCACTCACAACCG-AGGGA-GGCAAGGCT-TG-TG
* * * *
46882491 TCTTC-AACTAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTA
1 TCTTCGATCT-GCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* * * * ** * * * *
46882534 TCTTCGACCTACTTCGCTGTCAA-TGCAGGAAGGCAAGATCTTTTG
1 TCTTCGATCTGCTCCACTCACAACCG-AGGGAGGCAAG-GCTTGTG
* * * * *
46882579 TCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* * * ** * * * *
46882622 TCTTCGACCTGCTTCGCTGTCAATAC-AGGAAGGCAAGATCTTTTG
1 TCTTCGATCTGCTCCACTCACAA-CCGAGGGAGGCAAG-GCTTGTG
* * * * *
46882667 TCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* * ** * * *
46882710 TCTTCGATCTGCTTCGCTGTCAA-TGCAGGAAGGCAA-GATCTGTTG
1 TCTTCGATCTGCTCCACTCACAACCG-AGGGAGGCAAGGCT-TG-TG
* * * * * *
46882755 TCTTCAACCAGCTCC-TTCACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* * * ** * * * **
46882798 TCTTCGACCTGCTTCGCTGTCAA-TGTAGGAAGGTAA-AATCTGTTG
1 TCTTCGATCTGCTCCACTCACAACCG-AGGGAGGCAAGGCT-TG-TG
* * * * *
46882843 TCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* * ** * * * *
46882886 TCTTCGACCTGCTTCACTGTCAATAC-AGGAAGGCAAGATCTTTTG
1 TCTTCGATCTGCTCCACTCACAA-CCGAGGGAGGCAAG-GCTTGTG
* * * * *
46882931 TCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
* * ** * * * *
46882974 TCTTCGATCTGCTTCGCTGTCAA-TGCAGGAAGGCAAGATCTTTTG
1 TCTTCGATCTGCTCCACTCACAACCG-AGGGAGGCAAG-GCTTGTG
* * * * *
46883019 TCTTCAACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTG
1 TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
46883062 TCTTCGATCTGCT
1 TCTTCGATCTGCT
46883075 TCGCTGTCAA
Statistics
Matches: 633, Mismatches: 242, Indels: 126
0.63 0.24 0.13
Matches are distributed among these distances:
42 2 0.00
43 173 0.27
44 265 0.42
45 187 0.30
46 6 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (44 bp):
TCTTCGATCTGCTCCACTCACAACCGAGGGAGGCAAGGCTTGTG
Found at i:46882281 original size:45 final size:45
Alignment explanation
Indices: 46882232--46882320 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
46882222 GTGTCTTCGA
* *
46882232 TCTGCTTCACTGTCAGTACAAGAAGGCAAGATCTACTATCTTCAG
1 TCTGCTCCACTGTCAATACAAGAAGGCAAGATCTACTATCTTCAG
* * * * *
46882277 TCTGCTCCACTGTCAATGCAGGAAGGGAAGATCTATTGTCTTCA
1 TCTGCTCCACTGTCAATACAAGAAGGCAAGATCTACTATCTTCA
46882321 ACCAGCTCTG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (45 bp):
TCTGCTCCACTGTCAATACAAGAAGGCAAGATCTACTATCTTCAG
Found at i:46882284 original size:88 final size:88
Alignment explanation
Indices: 46882100--46882287 Score: 245
Period size: 88 Copynumber: 2.1 Consensus size: 88
46882090 ACCATCTTTG
* ** *
46882100 ATCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGTGTCTTCGATCTGCTTCGTTGTCAATGAAG
1 ATCTGCTCCACTACAACCGAGAGAGGCAAGGCTTGTGTCTTCGATCTGCTTCACTGTCAATGAAA
* *
46882165 GAAGGCAAGATCTATTGTCTTCA
66 GAAGGCAAGATCTACTATCTTCA
* * * *
46882188 ACCAGCTCCA-TCACAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAGT-AC
1 ATCTGCTCCACT-ACAACCGAGAGAGGCAAGGCTTGTGTCTTCGATCTGCTTCACTGTCAATGA-
46882251 AAGAAGGCAAGATCTACTATCTTCA
64 AAGAAGGCAAGATCTACTATCTTCA
*
46882276 GTCTGCTCCACT
1 ATCTGCTCCACT
46882288 GTCAATGCAG
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
87 2 0.02
88 81 0.96
89 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (88 bp):
ATCTGCTCCACTACAACCGAGAGAGGCAAGGCTTGTGTCTTCGATCTGCTTCACTGTCAATGAAA
GAAGGCAAGATCTACTATCTTCA
Found at i:46882362 original size:88 final size:88
Alignment explanation
Indices: 46882286--46883112 Score: 1406
Period size: 88 Copynumber: 9.4 Consensus size: 88
46882276 GTCTGCTCCA
* *
46882286 CTGTCAATGCAGGAAGGGAAGATCTATTGTCTTCAACCAGCT-C-TGCTACAACCGAGAGAGGCA
1 CTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCAT-C-ACAACCGAGAGAGGCA
*
46882349 AGGTTTGTGTCTTCGATCTGCTTCG
64 AGGTTTGTGTCTTCGACCTGCTTCG
* * *
46882374 CTGTTAATGCAGGAAGGCAAGATCTGTTGTCTTCAACTAGCTCCATCACAACCGAGAGAGGCAAG
1 CTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
*
46882439 GTTTGTATCTTCGACCTGCTTCG
66 GTTTGTGTCTTCGACCTGCTTCG
* * *
46882462 CTGTCAATGCAGGACGGCAAGATCTGTTGTCTTCAACTAGCTCCATCACAACCGAGAGAGGCAAG
1 CTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
* *
46882527 GTTTGTATCTTCGACCTACTTCG
66 GTTTGTGTCTTCGACCTGCTTCG
46882550 CTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
1 CTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
46882615 GTTTGTGTCTTCGACCTGCTTCG
66 GTTTGTGTCTTCGACCTGCTTCG
*
46882638 CTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
1 CTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
*
46882703 GTTTGTGTCTTCGATCTGCTTCG
66 GTTTGTGTCTTCGACCTGCTTCG
* *
46882726 CTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCTTCACAACCGAGAGAGGCAAG
1 CTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
46882791 GTTTGTGTCTTCGACCTGCTTCG
66 GTTTGTGTCTTCGACCTGCTTCG
* * * *
46882814 CTGTCAATGTAGGAAGGTAAAATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
1 CTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
*
46882879 GTTTGTGTCTTCGACCTGCTTCA
66 GTTTGTGTCTTCGACCTGCTTCG
*
46882902 CTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
1 CTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
*
46882967 GTTTGTGTCTTCGATCTGCTTCG
66 GTTTGTGTCTTCGACCTGCTTCG
46882990 CTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
1 CTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
*
46883055 GTTTGTGTCTTCGATCTGCTTCG
66 GTTTGTGTCTTCGACCTGCTTCG
46883078 CTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
1 CTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCA
46883113 CTGATCTGTT
Statistics
Matches: 704, Mismatches: 33, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
88 701 1.00
89 2 0.00
90 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (88 bp):
CTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAG
GTTTGTGTCTTCGACCTGCTTCG
Found at i:46882390 original size:133 final size:133
Alignment explanation
Indices: 46882154--46882926 Score: 418
Period size: 133 Copynumber: 5.8 Consensus size: 133
46882144 TCTGCTTCGT
46882154 TGTCAATGAAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
1 TGTCAATGAAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
*
46882219 TTTGTGTCTTCGATCTGCTTCACTGTCAGTACAAGAAGGCAAGATCTACTATCTTCAGTCTGCTC
66 TTTGTGTCTTCGATCTGCTTCACTGTCAATACAAGAAGGCAAGATCTACTATCTTCAGTCTGCTC
46882284 CAC
131 CAC
* *
46882287 TGTCAATGCAGGAAGGGAAGATCTATTGTCTTCAACCAGCT-C-TGCTACAACCGAGAGAGGCAA
1 TGTCAATGAAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCAT-C-ACAACCGAGAGAGGCAA
* * * * ** * *
46882350 GGTTTGTGTCTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGTTGTCTTCA-ACTAG
64 GGTTTGTGTCTTCGATCTGCTTCACTGTCAATACAAGAAGGCAAGATCTACTATCTTCAGTCT-G
46882414 CTCCA-
128 CTCCAC
** * * * * * ** *
46882419 TCACAACCG-A-GAGAGGCAAGGT-T-TGTATCTTCGACCTGCTTCGC-TGTCAA-TGCAG-GAC
1 TGTCAA-TGAAGGA-AGGCAAGATCTAT-TGTCTTCAACCAGC-TC-CATCACAACCG-AGAGA-
* * * * ** * * * **
46882477 GGCAAGATCTGTTGTCTTC-AACTAGCTCCA-TCACAA-CCGAGAGAGGCAAGGT-TTGTATCTT
59 GGCAAGGTTTG-TGTCTTCGATCT-GCTTCACTGTCAATACAAGA-AGGCAAGATCTACTATCTT
* * * *
46882538 C-GACCTACTTCGC
121 CAG-TCTGCTCCAC
* *
46882551 TGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
1 TGTCAATGAAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
* * * ** * ** *
46882616 TTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTC
66 TTTGTGTCTTCGATCTGCTTCACTGTCAATACAAGAAGGCAAGATCTACTATCTTCAGTCTGCTC
46882681 CA-
131 CAC
** * * * * * ** *
46882683 TCACAACCG-A-GAGAGGCAAGGT-T-TGTGTCTTCGATCTGCTTCGC-TGTCAA-TGCAG-GAA
1 TGTCAA-TGAAGGA-AGGCAAGATCTAT-TGTCTTCAACCAGC-TC-CATCACAACCG-AGAG-A
* * * * * * * ** *
46882741 GGCAAGATCTGTTGTCTTCAACCAGC-TC-CT-TCACA-ACCGAGAGAGGCAAGGT-TTGTGTCT
59 GGCAAGGTTTG-TGTCTTCGATCTGCTTCACTGTCA-ATA-CAAGA-AGGCAAGATCTACTATCT
* * *
46882801 TC-GACCTGCTTCGC
120 TCAG-TCTGCTCCAC
* * * *
46882815 TGTCAATGTAGGAAGGTAAAATCTGTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
1 TGTCAATGAAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
* *
46882880 TTTGTGTCTTCGACCTGCTTCACTGTCAATACAGGAAGGCAAGATCT
66 TTTGTGTCTTCGATCTGCTTCACTGTCAATACAAGAAGGCAAGATCT
46882927 TTTGTCTTCA
Statistics
Matches: 476, Mismatches: 110, Indels: 108
0.69 0.16 0.16
Matches are distributed among these distances:
130 6 0.01
131 95 0.20
132 172 0.36
133 195 0.41
134 8 0.02
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (133 bp):
TGTCAATGAAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGG
TTTGTGTCTTCGATCTGCTTCACTGTCAATACAAGAAGGCAAGATCTACTATCTTCAGTCTGCTC
CAC
Found at i:46884209 original size:21 final size:21
Alignment explanation
Indices: 46884183--46884229 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
46884173 GGTATAGCAA
46884183 GATCACCACATGCCCCGA-TCT
1 GATCACCACATGCCCC-ATTCT
**
46884204 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCATTCT
46884225 GATCA
1 GATCA
46884230 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.23, C:0.38, G:0.13, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCATTCT
Found at i:46884335 original size:9 final size:9
Alignment explanation
Indices: 46884321--46884353 Score: 52
Period size: 8 Copynumber: 3.9 Consensus size: 9
46884311 CCATTTTTAC
46884321 TTTTTCATT
1 TTTTTCATT
46884330 TTTTTCA-T
1 TTTTTCATT
46884338 TTTTT-ATT
1 TTTTTCATT
46884346 TTTTTCAT
1 TTTTTCAT
46884354 CATTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 1 0.05
8 12 0.55
9 9 0.41
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTCATT
Found at i:46884363 original size:16 final size:16
Alignment explanation
Indices: 46884322--46884363 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
46884312 CATTTTTACT
*
46884322 TTTTCATTTTTTTCATT
1 TTTT-ATTTTTTTCATA
46884339 TTTTATTTTTTTCATCA
1 TTTTATTTTTTTCAT-A
46884356 TTTT-TTTT
1 TTTTATTTT
46884364 GTTTGACTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTATTTTTTTCATA
Found at i:46885180 original size:10 final size:10
Alignment explanation
Indices: 46885165--46885200 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
46885155 TCCTTTTTCC
46885165 TTTTCTTTTT
1 TTTTCTTTTT
46885175 TTTTCTTTTT
1 TTTTCTTTTT
* *
46885185 TCTTCTTTCT
1 TTTTCTTTTT
46885195 TTTTCT
1 TTTTCT
46885201 CCTATTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:46885959 original size:17 final size:18
Alignment explanation
Indices: 46885927--46885963 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
46885917 TCTGCACAGT
46885927 ATGATTATGAATGAAAGA
1 ATGATTATGAATGAAAGA
*
46885945 ATGATT-TGGATGAAAGA
1 ATGATTATGAATGAAAGA
46885962 AT
1 AT
46885964 AAAAGAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (18 bp):
ATGATTATGAATGAAAGA
Found at i:46895527 original size:28 final size:28
Alignment explanation
Indices: 46895496--46895561 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
46895486 AAATAAACAA
**
46895496 TAAACCCTAATTTATTTTTTAAAAACCT
1 TAAACCCTAATTTATTTTCCAAAAACCT
*
46895524 TAAACCCTAATTTATTTTCCAAAGACCT
1 TAAACCCTAATTTATTTTCCAAAAACCT
46895552 TAAACCCTAA
1 TAAACCCTAA
46895562 CATACAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.36
Consensus pattern (28 bp):
TAAACCCTAATTTATTTTCCAAAAACCT
Found at i:46895970 original size:13 final size:13
Alignment explanation
Indices: 46895954--46895986 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
46895944 TACAAATTGT
46895954 AATTACAAGTTAC
1 AATTACAAGTTAC
46895967 AATTACAAGTTAC
1 AATTACAAGTTAC
46895980 AATTACA
1 AATTACA
46895987 TAATTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.30
Consensus pattern (13 bp):
AATTACAAGTTAC
Found at i:46898662 original size:20 final size:20
Alignment explanation
Indices: 46898637--46898710 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
46898627 AATATTTTCC
*
46898637 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
46898657 AGTAAAACATTTT-CTAG-AA
1 AGTAAAACATTTTAC-AGAAA
46898676 A-T----CATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
46898691 AGTAAAACATTTTTCAGAAA
1 AGTAAAACATTTTACAGAAA
46898711 TCATTTTACT
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
14 8 0.18
15 4 0.09
16 1 0.02
18 1 0.02
19 4 0.09
20 26 0.59
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.31
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:46898679 original size:34 final size:34
Alignment explanation
Indices: 46898625--46898719 Score: 147
Period size: 34 Copynumber: 2.8 Consensus size: 34
46898615 CAAACACCAG
* *
46898625 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCTAG-AAATCATTTTACAGAAAAGT
46898660 AAAACATTTTCTAGAAATCATTTTACAGAAAAGT
1 AAAACATTTTCTAGAAATCATTTTACAGAAAAGT
46898694 AAAACATTTT-TCAGAAATCATTTTAC
1 AAAACATTTTCT-AGAAATCATTTTAC
46898720 TGGTAATCAA
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
33 1 0.02
34 44 0.77
35 12 0.21
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (34 bp):
AAAACATTTTCTAGAAATCATTTTACAGAAAAGT
Found at i:46899568 original size:23 final size:23
Alignment explanation
Indices: 46899542--46899621 Score: 70
Period size: 24 Copynumber: 3.4 Consensus size: 23
46899532 TACAAAATTA
46899542 AGTGGCTTGTCCACAACGATATG
1 AGTGGCTTGTCCACAACGATATG
* * * * **
46899565 AGTGGCTTGTTCATAATGCTAACA
1 AGTGGCTTGTCCACAACGAT-ATG
* *
46899589 AGTGGCTTGACCACAACAATATTG
1 AGTGGCTTGTCCACAACGATA-TG
46899613 AGTGGCTTG
1 AGTGGCTTG
46899622 GACACAATGT
Statistics
Matches: 41, Mismatches: 14, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
23 17 0.41
24 24 0.59
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (23 bp):
AGTGGCTTGTCCACAACGATATG
Found at i:46900559 original size:254 final size:254
Alignment explanation
Indices: 46900101--46900603 Score: 808
Period size: 254 Copynumber: 2.0 Consensus size: 254
46900091 TCTCGATATC
* * * * *
46900101 CAAAATTATTGTTGTGTCATCGAACAAGTTGATCTGTGGAAGCTGAATAGTAGCTTTGATACCAA
1 CAAAATCATTGTTGTGTCATCGAACAAGTCGATCTGCGGAACCTAAATAGTAGCTTTGATACCAA
*
46900166 TTTTTTGGGGATCGACCCCCATATGCAACAAAGTAGTAAAAGCGGAGAAGAACGAACACAAATAT
66 TTTTTTGGGGATCGACCCCCATATGCAACAAAGTAGTAAAAGCGGAGAAGAACAAACACAAATAT
46900231 TTTACCTAGAAAACCCTCAAAGAGGGAAAAACCACAGGTAGAGGAGGAATCGACTTCTCACTAAA
131 TTTACCTAGAAAACCCTCAAAGAGGGAAAAACCACAGGTAGAGGAGGAATCGACTTCTCACTAAA
*
46900296 TGAGTAAACAAATAAGAGTACAATATGGAGAAAATAAACCTAAATGTATTAAACATAAA
196 TGAGTAAACAAATAAGAGTACAATATGGAGAAAATAAACCTAAATGTACTAAACATAAA
*
46900355 CAAAATCATTGTTGTGTCATCGAACAAGTCGATCTGCGGAACCTAAATTGTAGCTTTGATACCAA
1 CAAAATCATTGTTGTGTCATCGAACAAGTCGATCTGCGGAACCTAAATAGTAGCTTTGATACCAA
* *** ** *
46900420 TTTTTTGGGGATTGACCTGTATATGCAATGAAGTAGTAAAAGTGGAGAAGAACAAACACAAATAT
66 TTTTTTGGGGATCGACCCCCATATGCAACAAAGTAGTAAAAGCGGAGAAGAACAAACACAAATAT
* * * * *
46900485 TTTACGTAGAAAATCCTGAAAGAGGGAAAAACCACAGGTAGAGGAGGTATCGACTTTTCACTAAA
131 TTTACCTAGAAAACCCTCAAAGAGGGAAAAACCACAGGTAGAGGAGGAATCGACTTCTCACTAAA
* *
46900550 TGTGTAAACAAATAAGAGTACAATATGGAGAAAATAAATCTAAATGTACTAAAC
196 TGAGTAAACAAATAAGAGTACAATATGGAGAAAATAAACCTAAATGTACTAAAC
46900604 GTACATTACC
Statistics
Matches: 227, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
254 227 1.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (254 bp):
CAAAATCATTGTTGTGTCATCGAACAAGTCGATCTGCGGAACCTAAATAGTAGCTTTGATACCAA
TTTTTTGGGGATCGACCCCCATATGCAACAAAGTAGTAAAAGCGGAGAAGAACAAACACAAATAT
TTTACCTAGAAAACCCTCAAAGAGGGAAAAACCACAGGTAGAGGAGGAATCGACTTCTCACTAAA
TGAGTAAACAAATAAGAGTACAATATGGAGAAAATAAACCTAAATGTACTAAACATAAA
Found at i:46900951 original size:23 final size:23
Alignment explanation
Indices: 46900913--46900957 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
46900903 GTTCCATTCG
*
46900913 TGTAATATCCCAAAAATTACTAT
1 TGTAATACCCCAAAAATTACTAT
*
46900936 TGTAATACCCCGAAAATTACTA
1 TGTAATACCCCAAAAATTACTA
46900958 CAGTAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAT
Found at i:46900963 original size:23 final size:23
Alignment explanation
Indices: 46900914--46900963 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
46900904 TTCCATTCGT
* **
46900914 GTAATATCCCAAAAATTACTATT
1 GTAATACCCCAAAAATTACTACA
*
46900937 GTAATACCCCGAAAATTACTACA
1 GTAATACCCCAAAAATTACTACA
46900960 GTAA
1 GTAA
46900964 GAAAGTAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (23 bp):
GTAATACCCCAAAAATTACTACA
Found at i:46906458 original size:18 final size:18
Alignment explanation
Indices: 46906432--46906470 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
46906422 TATTTAATAT
46906432 TTTTATAATATTTTACAAA
1 TTTTATAATATTTTA-AAA
46906451 TTTT-TAATATTTTAAAA
1 TTTTATAATATTTTAAAA
46906468 TTT
1 TTT
46906471 AAAAAATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 6 0.30
18 10 0.50
19 4 0.20
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTATAATATTTTAAAA
Found at i:46917838 original size:39 final size:40
Alignment explanation
Indices: 46917793--46918000 Score: 109
Period size: 40 Copynumber: 5.2 Consensus size: 40
46917783 CGGGGTTTTG
* * *
46917793 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
46917832 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
46917872 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * * *
46917912 CCGGATGTAGTCGCTTAACACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
** * *
46917953 CCGGATATAGTCGCTTAGACA-AAA-GCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAG-CATAAAGGCCTTCGGGACTTAAC
46917993 CCGGATAT
1 CCGGATAT
46918001 CATTCGAGTA
Statistics
Matches: 146, Mismatches: 18, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
39 18 0.12
40 85 0.58
41 38 0.26
42 5 0.03
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:46917863 original size:40 final size:41
Alignment explanation
Indices: 46917816--46918000 Score: 243
Period size: 40 Copynumber: 4.6 Consensus size: 41
46917806 CTCGCACAAG
* * * * *
46917816 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAT
46917856 GCCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAT
* * * *
46917896 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAACACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAT
*
46917937 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAG-ACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAT
46917977 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
46918001 CATTCGAGTA
Statistics
Matches: 130, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 89 0.68
41 35 0.27
42 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAT
Found at i:46919679 original size:49 final size:49
Alignment explanation
Indices: 46919623--46919761 Score: 242
Period size: 49 Copynumber: 2.8 Consensus size: 49
46919613 CTTATTTTCT
* * *
46919623 CGATGCCATAGTCCAACTATGATCTTACACGTAATCACATAACATATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATAC
46919672 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATAC
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATAC
*
46919721 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATA
1 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATA
46919762 TCACTTATTG
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 86 1.00
ACGTcount: A:0.33, C:0.28, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATAC
Found at i:46922845 original size:49 final size:47
Alignment explanation
Indices: 46922674--46922887 Score: 329
Period size: 47 Copynumber: 4.5 Consensus size: 47
46922664 TTCGGGACTC
* * * * * * *
46922674 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
**
46922721 GCCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
46922768 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
46922815 ATCACATATATAGACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTT
46922864 ATCACATATATACACTTTCACATT
1 ATCACATATATACACTTTCACATT
46922888 TATTCAAATA
Statistics
Matches: 154, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 107 0.69
49 47 0.31
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:46922865 original size:96 final size:94
Alignment explanation
Indices: 46922674--46922887 Score: 329
Period size: 96 Copynumber: 2.3 Consensus size: 94
46922664 TTCGGGACTC
* * * * * *
46922674 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGCCACATATATACACTTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTACCACATATATACACTTT
46922739 CACATTCATCACATCGGCCATTAGGCCTT
66 CACATTCATCACATCGGCCATTAGGCCTT
* * *
46922768 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAGACACT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTACCACATATAT--ACACT
46922833 TTCACATTCATCACATCGGCCATTAGGCCTT
64 TTCACATTCATCACATCGGCCATTAGGCCTT
46922864 ATCACATATATACACTTTCACATT
1 ATCACATATATACACTTTCACATT
46922888 TATTCAAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
94 49 0.45
96 60 0.55
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (94 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTACCACATATATACACTTT
CACATTCATCACATCGGCCATTAGGCCTT
Found at i:46925309 original size:23 final size:23
Alignment explanation
Indices: 46925283--46925427 Score: 195
Period size: 23 Copynumber: 6.3 Consensus size: 23
46925273 ATAAGTGCCA
*
46925283 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
46925306 CACTGATACGTAACC-ATAGCTAC
1 CACTGATATGTAGCCGA-AGCTAC
* *
46925329 CTCTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
46925352 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
46925375 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
46925398 CACTGATATGTAGCCGTAA-CTAC
1 CACTGATATGTAGCCG-AAGCTAC
46925421 CACTGAT
1 CACTGAT
46925428 CAATAACACT
Statistics
Matches: 107, Mismatches: 12, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
22 1 0.01
23 103 0.96
24 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:46935833 original size:42 final size:42
Alignment explanation
Indices: 46935774--46935855 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
46935764 TAACCTAATT
46935774 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATGA
1 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATGA
*
46935816 GGGAAAATAATTTCCTTATTCTAATAAACTACTAAAAGAT
1 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGAT
46935856 AAAATAAAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.30
Consensus pattern (42 bp):
GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATGA
Found at i:46936986 original size:24 final size:24
Alignment explanation
Indices: 46936954--46937004 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
46936944 ACCTCTTTGT
46936954 GAGTGAACCGTTCAAACCAAGCTC
1 GAGTGAACCGTTCAAACCAAGCTC
46936978 GAGTGAACCGTTCAAACCAAGCTC
1 GAGTGAACCGTTCAAACCAAGCTC
46937002 GAG
1 GAG
46937005 GAGACTGCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (24 bp):
GAGTGAACCGTTCAAACCAAGCTC
Found at i:46939051 original size:19 final size:18
Alignment explanation
Indices: 46939027--46939068 Score: 75
Period size: 19 Copynumber: 2.3 Consensus size: 18
46939017 TTATTCTAAT
46939027 ATTTATCTACCTAAATAA
1 ATTTATCTACCTAAATAA
46939045 GATTTATCTACCTAAATAA
1 -ATTTATCTACCTAAATAA
46939064 ATTTA
1 ATTTA
46939069 AACTATATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.40
Consensus pattern (18 bp):
ATTTATCTACCTAAATAA
Found at i:46942005 original size:20 final size:20
Alignment explanation
Indices: 46941978--46942030 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
46941968 AAATAAATTC
46941978 AAAA-TTCAAAAAAGTTCAT
1 AAAAGTTCAAAAAAGTTCAT
*
46941997 AAAAGTTCATAAAAGTTCAT
1 AAAAGTTCAAAAAAGTTCAT
46942017 AAAAGTTCAAAAAA
1 AAAAGTTCAAAAAA
46942031 TAGAAAATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 4 0.13
20 27 0.87
ACGTcount: A:0.58, C:0.09, G:0.08, T:0.25
Consensus pattern (20 bp):
AAAAGTTCAAAAAAGTTCAT
Found at i:46942030 original size:10 final size:10
Alignment explanation
Indices: 46941978--46942029 Score: 81
Period size: 10 Copynumber: 5.4 Consensus size: 10
46941968 AAATAAATTC
*
46941978 AAAA-TTCAA
1 AAAAGTTCAT
46941987 AAAAGTTCAT
1 AAAAGTTCAT
46941997 AAAAGTTCAT
1 AAAAGTTCAT
46942007 AAAAGTTCAT
1 AAAAGTTCAT
46942017 AAAAGTTCA-
1 AAAAGTTCAT
46942026 AAAA
1 AAAA
46942030 ATAGAAAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
9 8 0.20
10 33 0.80
ACGTcount: A:0.58, C:0.10, G:0.08, T:0.25
Consensus pattern (10 bp):
AAAAGTTCAT
Found at i:46959664 original size:51 final size:51
Alignment explanation
Indices: 46959579--46959737 Score: 145
Period size: 51 Copynumber: 3.3 Consensus size: 51
46959569 GAAGATAGCG
* * *
46959579 AATCTTATTTCCCTGAAGTTGCAATGGAATAGATTAAAGGTACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTAGAATAGATTAAAGGTACAAGTTACA
* ** * * *
46959630 AATCTTATCTCCCTAAAGTTGCAGTAGAGCAGATTGAA-G---ATG-T--G
1 AATCTTATCTCCCTGAAGTTGCAGTAGAATAGATTAAAGGTACAAGTTACA
* * *
46959674 AATCTTATTTCCCTGAAGTTGCAG-AGGAATAGATTAAAGTTACGAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTA-GAATAGATTAAAGGTACAAGTTACA
46959725 AATCTTATCTCCC
1 AATCTTATCTCCC
46959738 GAAAATTGTA
Statistics
Matches: 81, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
43 1 0.01
44 31 0.38
46 1 0.01
47 2 0.02
48 1 0.01
49 1 0.01
50 1 0.01
51 43 0.53
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (51 bp):
AATCTTATCTCCCTGAAGTTGCAGTAGAATAGATTAAAGGTACAAGTTACA
Found at i:46959709 original size:95 final size:96
Alignment explanation
Indices: 46959540--46959789 Score: 346
Period size: 95 Copynumber: 2.6 Consensus size: 96
46959530 CGCAAACCTC
*
46959540 ATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATG
1 ATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATG
46959605 GAATAGATTAAAGGTACAAGTTACAAATCTT
66 GAATAGATTAAAGGTACAAGTTACAAATCTT
* *
46959636 ATCTCCCTAAAGTTGCAGTAGAGCAGATTGAAGAT-GTGAATCTTATTTCCCTGAAGTTGCAGA-
1 ATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCA-AT
* *
46959699 GGAATAGATTAAAGTTACGAGTTACAAATCTT
65 GGAATAGATTAAAGGTACAAGTTACAAATCTT
* * * * * * *
46959731 ATCTCCCGAAAATTGTAATGGAGCAGATTGAAGCTA-CTAATCTTATCTT-CTTGAAGTTG
1 ATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTAT-TTCCCTGAAGTTG
46959790 TAGTGGAACA
Statistics
Matches: 137, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
95 101 0.74
96 36 0.26
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (96 bp):
ATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATG
GAATAGATTAAAGGTACAAGTTACAAATCTT
Found at i:46961531 original size:6 final size:6
Alignment explanation
Indices: 46961520--46961556 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
46961510 ATTTATGAAT
46961520 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T
46961557 ACATGTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:46968611 original size:26 final size:26
Alignment explanation
Indices: 46968575--46968662 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
46968565 TTTTGCCCCA
*
46968575 TGTTTAATGTCCCGACAGACTACCCG
1 TGTTTACTGTCCCGACAGACTACCCG
* ** *
46968601 TGTTTACTGTCCTGGTAGACTATCCCA
1 TGTTTACTGTCCCGACAGACTA-CCCG
* * *
46968628 TGTTCACTG-CCCCAGCAGGCTACCCAG
1 TGTTTACTGTCCCGA-CAGACTACCC-G
46968655 TGTTTACT
1 TGTTTACT
46968663 ATCTTAACAG
Statistics
Matches: 46, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
26 23 0.50
27 23 0.50
ACGTcount: A:0.19, C:0.31, G:0.19, T:0.31
Consensus pattern (26 bp):
TGTTTACTGTCCCGACAGACTACCCG
Found at i:46973181 original size:20 final size:21
Alignment explanation
Indices: 46973156--46973197 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
46973146 AATAAAGTAG
*
46973156 ATTATATATTAT-TTTTTAGT
1 ATTATATATTATGATTTTAGT
46973176 ATTATATATTATGATTTTAGT
1 ATTATATATTATGATTTTAGT
46973197 A
1 A
46973198 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
ATTATATATTATGATTTTAGT
Found at i:46973337 original size:58 final size:57
Alignment explanation
Indices: 46973205--46973339 Score: 173
Period size: 58 Copynumber: 2.3 Consensus size: 57
46973195 GTAAATTCAT
* **
46973205 ATAATAATTATATTAAGAATTTTATTAAATTATATACTTTTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATATGGTTAAATTATATACTTTTTTATTAAATTATATTTA
* * * *
46973263 ATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATATGGTTAAATTATATACT-TTTTTATTAAATTATATTTA
46973321 ATAATAATCT-TATTAAAAT
1 ATAATAAT-TATATTAAAAT
46973340 TTAATAACAA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
57 16 0.24
58 50 0.75
59 1 0.01
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGGTTAAATTATATACTTTTTTATTAAATTATATTTA
Found at i:46973455 original size:13 final size:13
Alignment explanation
Indices: 46973437--46973462 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46973427 ATATTATTCC
46973437 ATTCAACCAAACA
1 ATTCAACCAAACA
46973450 ATTCAACCAAACA
1 ATTCAACCAAACA
46973463 CAAAAATACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (13 bp):
ATTCAACCAAACA
Found at i:46973564 original size:31 final size:31
Alignment explanation
Indices: 46973526--46973588 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
46973516 TGATTATAGC
*
46973526 TTTATTCCATTATAACTCTATTCAATTACAG
1 TTTATTCCATTACAACTCTATTCAATTACAG
** *
46973557 TTTATTCCATTACAGTTCTATTCCATTACAG
1 TTTATTCCATTACAACTCTATTCAATTACAG
46973588 T
1 T
46973589 GAACCAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.46
Consensus pattern (31 bp):
TTTATTCCATTACAACTCTATTCAATTACAG
Found at i:46973585 original size:16 final size:16
Alignment explanation
Indices: 46973528--46973588 Score: 79
Period size: 16 Copynumber: 3.9 Consensus size: 16
46973518 ATTATAGCTT
* **
46973528 TATTCCATTATAACTC
1 TATTCCATTACAGTTC
*
46973544 TATTCAATTACAGTT-
1 TATTCCATTACAGTTC
46973559 TATTCCATTACAGTTC
1 TATTCCATTACAGTTC
46973575 TATTCCATTACAGT
1 TATTCCATTACAGT
46973589 GAACCAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
15 14 0.36
16 25 0.64
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (16 bp):
TATTCCATTACAGTTC
Found at i:46974654 original size:30 final size:31
Alignment explanation
Indices: 46974596--46974658 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
46974586 TAAGATAGTT
*
46974596 ATTAAATTATTTAAAAATTTTAATTTAAGTC
1 ATTAAATTAATTAAAAATTTTAATTTAAGTC
* *
46974627 ATTAAATTAATTGAAAGTTTT-ATTTAAGTC
1 ATTAAATTAATTAAAAATTTTAATTTAAGTC
46974657 AT
1 AT
46974659 CGTATTGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 11 0.38
31 18 0.62
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (31 bp):
ATTAAATTAATTAAAAATTTTAATTTAAGTC
Found at i:46982711 original size:43 final size:43
Alignment explanation
Indices: 46982642--46982728 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
46982632 ATGGTGATTT
46982642 TTCAAAGTTAACCTACTGCTGCTGTCCAAAACTGTTTTAGTGC
1 TTCAAAGTTAACCTACTGCTGCTGTCCAAAACTGTTTTAGTGC
* *
46982685 TTCAAAGTTAACCTACTGTTGTTGTCCAAAACTGTTTTAGTGC
1 TTCAAAGTTAACCTACTGCTGCTGTCCAAAACTGTTTTAGTGC
46982728 T
1 T
46982729 AGATGTTGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (43 bp):
TTCAAAGTTAACCTACTGCTGCTGTCCAAAACTGTTTTAGTGC
Found at i:46987467 original size:48 final size:49
Alignment explanation
Indices: 46987406--46987560 Score: 127
Period size: 48 Copynumber: 3.3 Consensus size: 49
46987396 TGTATGAACT
46987406 TGATTGTATATTTGTTGAACATGAATTAATAATATTGTACATGAAACACA
1 TGATTGTATATTTGTTGAACAT-AATTAATAATATTGTACATGAAACACA
* * * *
46987456 TGATT-TA-ATTTGCTT--AC-TAACTTGTAA-CATATT-TGCA--AGA-ACT
1 TGATTGTATATTTG-TTGAACATAA--T-TAATAATATTGTACATGAAACACA
*
46987499 TGATTGTATATTTGTTGAACATTAATTAATAATATTGCACATGAAACACA
1 TGATTGTATATTTGTTGAACA-TAATTAATAATATTGTACATGAAACACA
46987549 TGATT-TA-ATTTG
1 TGATTGTATATTTG
46987561 CTTACTAACT
Statistics
Matches: 81, Mismatches: 9, Indels: 32
0.66 0.07 0.26
Matches are distributed among these distances:
43 7 0.09
44 6 0.07
45 10 0.12
46 12 0.15
47 10 0.12
48 16 0.20
49 8 0.10
50 12 0.15
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.41
Consensus pattern (49 bp):
TGATTGTATATTTGTTGAACATAATTAATAATATTGTACATGAAACACA
Found at i:46987501 original size:93 final size:93
Alignment explanation
Indices: 46987379--46987598 Score: 379
Period size: 93 Copynumber: 2.4 Consensus size: 93
46987369 TTATTAACTG
* * *
46987379 CTAAATTGTAACATATTTGTATGAACTTGATTGTATATTTGTTGAACATGAATTAATAATATTGT
1 CTAACTTGTAACATATTTGTAAGAACTTGATTGTATATTTGTTGAACATGAATTAATAATATTGC
46987444 ACATGAAACACATGATTTAATTTGCTTA
66 ACATGAAACACATGATTTAATTTGCTTA
* *
46987472 CTAACTTGTAACATATTTGCAAGAACTTGATTGTATATTTGTTGAACATTAATTAATAATATTGC
1 CTAACTTGTAACATATTTGTAAGAACTTGATTGTATATTTGTTGAACATGAATTAATAATATTGC
46987537 ACATGAAACACATGATTTAATTTGCTTA
66 ACATGAAACACATGATTTAATTTGCTTA
46987565 CTAACTTGTAACATATTTGTATA-AACTTGATTGT
1 CTAACTTGTAACATATTTGTA-AGAACTTGATTGT
46987599 CACATATATT
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
93 119 0.99
94 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.41
Consensus pattern (93 bp):
CTAACTTGTAACATATTTGTAAGAACTTGATTGTATATTTGTTGAACATGAATTAATAATATTGC
ACATGAAACACATGATTTAATTTGCTTA
Found at i:47002501 original size:23 final size:23
Alignment explanation
Indices: 47002471--47002515 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
47002461 ATATGAATTA
* *
47002471 TGTAATATTCCGAAAATTACTAT
1 TGTAATATCCCAAAAATTACTAT
47002494 TGTAATATCCCAAAAATTACTA
1 TGTAATATCCCAAAAATTACTA
47002516 CAGTAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.36
Consensus pattern (23 bp):
TGTAATATCCCAAAAATTACTAT
Found at i:47002521 original size:23 final size:23
Alignment explanation
Indices: 47002472--47002521 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
47002462 TATGAATTAT
* * **
47002472 GTAATATTCCGAAAATTACTATT
1 GTAATATCCCAAAAATTACTACA
47002495 GTAATATCCCAAAAATTACTACA
1 GTAATATCCCAAAAATTACTACA
47002518 GTAA
1 GTAA
47002522 GAAAGTAGGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (23 bp):
GTAATATCCCAAAAATTACTACA
Found at i:47013423 original size:111 final size:110
Alignment explanation
Indices: 47013230--47013551 Score: 538
Period size: 111 Copynumber: 2.9 Consensus size: 110
47013220 AAGGAAAATT
*
47013230 TTTCAAAATAAGGTAATGTTTTACCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
1 TTTCAAAATAAGGCAATGTTTTACCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
47013295 TCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAA
66 TCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAA
47013340 TTTCAAAATAAGGCAATGTTTTACCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGT
1 TTTCAAAATAAGGCAATGTTTTACCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGT
* *
47013405 GTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTTAAAAA
65 GTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAA
* * * *
47013451 TTTTAAAATAAGGCAATGTTTT-GCTTTTGGAAATTCGAGAAAACATGCCCTAATGTGCTGGGTG
1 TTTCAAAATAAGGCAATGTTTTACCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
* * *
47013515 TCGATTTTTCTCATTTAACCAAATAGCCAAATATCCT
66 TCGATTTTTCTCATTCAACCAAATGGCTAAATATCCT
47013552 CTTGAATTTC
Statistics
Matches: 199, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
109 67 0.34
110 32 0.16
111 100 0.50
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (110 bp):
TTTCAAAATAAGGCAATGTTTTACCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTG
TCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTAAAAA
Found at i:47014811 original size:107 final size:107
Alignment explanation
Indices: 47014622--47014831 Score: 296
Period size: 107 Copynumber: 2.0 Consensus size: 107
47014612 AAATGGGTTT
* *
47014622 TTCACTGTACAAAAAATCAGGTTGTAACTCTATTTCATCAATACAAATCACGTGAGAGGGATTAG
1 TTCACTGTACAAAAAATCAGGTTGCAACTCTATTTCATCAATACAAATCACGTGAGAGGGATCAG
* * *
47014687 AAAGATAATGACGTAACATCAATACATGGAACACATTAGCTC
66 AAAAATAACGACATAACATCAATACATGGAACACATTAGCTC
* * * ** *
47014729 TTCACTGTACGAAAAATCGGGTTGCAACTCTATTTCTTCTGTACAAATCACGTGAGAGGGA-CCG
1 TTCACTGTACAAAAAATCAGGTTGCAACTCTATTTCATCAATACAAATCACGTGAGAGGGATCAG
*
47014793 AAACAATAACGACATAACATCCATACATGGAACACATTA
66 AAA-AATAACGACATAACATCAATACATGGAACACATTA
47014832 TGAATCTTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
106 4 0.04
107 86 0.96
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (107 bp):
TTCACTGTACAAAAAATCAGGTTGCAACTCTATTTCATCAATACAAATCACGTGAGAGGGATCAG
AAAAATAACGACATAACATCAATACATGGAACACATTAGCTC
Found at i:47016144 original size:43 final size:43
Alignment explanation
Indices: 47016047--47016199 Score: 134
Period size: 42 Copynumber: 3.6 Consensus size: 43
47016037 TTTATGTGAA
** * * ** *
47016047 AAACGCCGCTAAAGGTCATGACATTTAGCGGCAC-TTTGTCAC
1 AAACGCCGCTAAAGAACATAACCTTTAGCGAAACTTTTATCAC
* **
47016089 AAACGTCGCTAAAGAACATAACCTTTAGC-AGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATAACCTTTAGCGA-AACTTTTATCAC
* * * *
47016132 AAACGCCACTAAAGAACA-AACATTTAGCGAAACTTTTAGCAA
1 AAACGCCGCTAAAGAACATAACCTTTAGCGAAACTTTTATCAC
*
47016174 AAACACCGCTAAA-AACATAACCTTTA
1 AAACGCCGCTAAAGAACATAACCTTTA
47016200 AAAAAAATTA
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 4 0.04
42 61 0.69
43 24 0.27
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATAACCTTTAGCGAAACTTTTATCAC
Found at i:47016605 original size:43 final size:43
Alignment explanation
Indices: 47016539--47016629 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
47016529 CACATTGCAA
* * *
47016539 GGTAATAAAAAATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
* *
47016582 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
47016625 -GTAAT
1 GGTAAT
47016630 GAACTCAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (43 bp):
GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:47019016 original size:29 final size:29
Alignment explanation
Indices: 47018979--47019081 Score: 77
Period size: 29 Copynumber: 3.5 Consensus size: 29
47018969 GAAAAAAATT
*
47018979 AAAACCAAAATAAAGAGGAAAAATACTGG
1 AAAAACAAAATAAAGAGGAAAAATACTGG
** *
47019008 AAAAACAAAATAAA-ATCTCAAAGAA-AAT-G
1 AAAAACAAAATAAAGA--GGAAA-AATACTGG
* *
47019037 AAGCGAAGAAAATAAAGAGGAAAAATACTGG
1 AA--AAACAAAATAAAGAGGAAAAATACTGG
*
47019068 AAAAATAAAATAAA
1 AAAAACAAAATAAA
47019082 ATCAAGGGCC
Statistics
Matches: 55, Mismatches: 11, Indels: 16
0.67 0.13 0.20
Matches are distributed among these distances:
28 1 0.02
29 28 0.51
30 10 0.18
31 15 0.27
32 1 0.02
ACGTcount: A:0.66, C:0.08, G:0.15, T:0.12
Consensus pattern (29 bp):
AAAAACAAAATAAAGAGGAAAAATACTGG
Found at i:47019408 original size:23 final size:23
Alignment explanation
Indices: 47019377--47019420 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
47019367 AAAGATGTCG
*
47019377 TTTTAATCTGTTAAAAATTATTTA
1 TTTTAATCTGCT-AAAATTATTTA
47019401 TTTT-ATCTGCTAAAATTATT
1 TTTTAATCTGCTAAAATTATT
47019421 AGTTAAGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 6 0.32
24 4 0.21
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (23 bp):
TTTTAATCTGCTAAAATTATTTA
Found at i:47020407 original size:22 final size:21
Alignment explanation
Indices: 47020358--47020407 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
47020348 AAACCTCAAC
*
47020358 CCTTAAACCATAATCCATAAT
1 CCTTAAACCATAATCCATAAA
* *
47020379 CCATAAACACATAATCCCTAAA
1 CCTTAAAC-CATAATCCATAAA
47020401 CCTTAAA
1 CCTTAAA
47020408 ATAGTAACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (21 bp):
CCTTAAACCATAATCCATAAA
Found at i:47020780 original size:40 final size:40
Alignment explanation
Indices: 47020658--47020821 Score: 186
Period size: 40 Copynumber: 4.1 Consensus size: 40
47020648 TTCGCGGCGC
* * * *
47020658 TTTTTGGAAAACGCCGCTAATGCT-AATTTTTAGCGGCGT
1 TTTTTGGAAAGCGCCGCTAATGCTCGATCTTTAGCGGCAT
**** * *
47020697 TTTCCAAAAAGCACCGCTAATGCTCGATCTTTAGCGGCGT
1 TTTTTGGAAAGCGCCGCTAATGCTCGATCTTTAGCGGCAT
*
47020737 TTTTTGGAAAGCGCCGCTAATGCTCGATCTTTAGAGGCAT
1 TTTTTGGAAAGCGCCGCTAATGCTCGATCTTTAGCGGCAT
* * * *
47020777 TTTTTGGAAAGAGCCGCTAATTCTTGATTTTTAGCGGCAT
1 TTTTTGGAAAGCGCCGCTAATGCTCGATCTTTAGCGGCAT
47020817 TTTTT
1 TTTTT
47020822 ATCCAAACAC
Statistics
Matches: 104, Mismatches: 20, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 18 0.17
40 86 0.83
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.36
Consensus pattern (40 bp):
TTTTTGGAAAGCGCCGCTAATGCTCGATCTTTAGCGGCAT
Found at i:47023588 original size:28 final size:27
Alignment explanation
Indices: 47023557--47023652 Score: 95
Period size: 28 Copynumber: 3.5 Consensus size: 27
47023547 ATAATATATG
* *
47023557 TAAATTAAAATATTTAAATAAGTTTAAA
1 TAAATTAAAATA-TTAAAAAAGTTGAAA
47023585 TAAATTAACAATATTAAAAAAGTTGAAA
1 TAAATTAA-AATATTAAAAAAGTTGAAA
* * * *
47023613 TGAATTAAAGATGTTAAAATATTTGAAA
1 TAAATTAAA-ATATTAAAAAAGTTGAAA
*
47023641 GAAA-TAAAATAT
1 TAAATTAAAATAT
47023653 CTATATAATA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
26 3 0.05
27 5 0.09
28 45 0.79
29 4 0.07
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.33
Consensus pattern (27 bp):
TAAATTAAAATATTAAAAAAGTTGAAA
Found at i:47024755 original size:14 final size:14
Alignment explanation
Indices: 47024736--47024762 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47024726 TCCGATTAAA
47024736 AAAATAAATAAAAT
1 AAAATAAATAAAAT
47024750 AAAATAAATAAAA
1 AAAATAAATAAAA
47024763 AAACAGAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:47025653 original size:44 final size:44
Alignment explanation
Indices: 47025602--47025797 Score: 193
Period size: 44 Copynumber: 4.4 Consensus size: 44
47025592 GCTCTACTAT
* *
47025602 AACTTCAGAGAGATAAGATCT-CTGGTTTTAATCCG-TACCACTGC
1 AACTTCAGGGAGATAAGAT-TACTGGCTTTAATCCGCT-CCACTGC
* * * *
47025646 AACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCGCTGC
1 AACTTCAGGGAGATAAGATTACTGGCTTTAATCCGCTCCACTGC
*
47025690 AACTTCAGGGAGATAAGATT-C-GCCATCTTCAATCCGCTCCACTGC
1 AACTTCAGGGAGATAAGATTACTGGC-T-TT-AATCCGCTCCACTGC
* * * ** *
47025735 AACTTCAGGGAGATATGATTATTGGCTTCAATATGCTCCACTGT
1 AACTTCAGGGAGATAAGATTACTGGCTTTAATCCGCTCCACTGC
*
47025779 AACTTCAGGGAGATGAGAT
1 AACTTCAGGGAGATAAGAT
47025798 CTGCCATAAT
Statistics
Matches: 125, Mismatches: 20, Indels: 14
0.79 0.13 0.09
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 84 0.67
45 34 0.27
46 1 0.01
47 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGATTACTGGCTTTAATCCGCTCCACTGC
Found at i:47025804 original size:89 final size:89
Alignment explanation
Indices: 47025631--47025797 Score: 264
Period size: 89 Copynumber: 1.9 Consensus size: 89
47025621 CTCTGGTTTT
* * *
47025631 AATCCGTACCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCGCTGCAACTTC
1 AATCCGTACCACTGCAACTTCAGGGAGATAGGATTATTGGCTTCAATATGCTCCACTGCAACTTC
47025696 AGGGAGATAAGATTCGCCATCTTC
66 AGGGAGATAAGATTCGCCATCTTC
* *
47025720 AATCCGCT-CCACTGCAACTTCAGGGAGATATGATTATTGGCTTCAATATGCTCCACTGTAACTT
1 AATCCG-TACCACTGCAACTTCAGGGAGATAGGATTATTGGCTTCAATATGCTCCACTGCAACTT
*
47025784 CAGGGAGATGAGAT
65 CAGGGAGATAAGAT
47025798 CTGCCATAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
89 70 0.99
90 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (89 bp):
AATCCGTACCACTGCAACTTCAGGGAGATAGGATTATTGGCTTCAATATGCTCCACTGCAACTTC
AGGGAGATAAGATTCGCCATCTTC
Found at i:47038255 original size:29 final size:28
Alignment explanation
Indices: 47038182--47038259 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 28
47038172 ATAATATATG
* *
47038182 TAAATTAAAATTTTAAAATAAGTTTAAA
1 TAAATTAAAATATTAAAATAAGTTGAAA
*
47038210 TAAATGAACAATATTAAAATAAGTTGAAA
1 TAAATTAA-AATATTAAAATAAGTTGAAA
* *
47038239 TGAATTAAAGATGTTAAAATA
1 TAAATTAAA-ATATTAAAATA
47038260 TTTGAAAGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 8 0.19
29 34 0.81
ACGTcount: A:0.56, C:0.01, G:0.09, T:0.33
Consensus pattern (28 bp):
TAAATTAAAATATTAAAATAAGTTGAAA
Found at i:47038601 original size:3 final size:3
Alignment explanation
Indices: 47038589--47038655 Score: 55
Period size: 3 Copynumber: 22.3 Consensus size: 3
47038579 ATAATAGCAG
* * * *
47038589 TAA TAG TAA TAA TAT TAA TAA TAA TGAA -AG TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
* * *
47038634 TTA TAA TAA CAA CAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA T
47038656 CCTAATATTA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
2 1 0.02
3 49 0.94
4 2 0.04
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:47044283 original size:18 final size:18
Alignment explanation
Indices: 47044246--47044283 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
47044236 TAAATGATGA
47044246 ATTTGAAGTATTAGTTGTT
1 ATTTGAAGTATTA-TTGTT
47044265 ATTTGTAAGTATT-TTGTT
1 ATTTG-AAGTATTATTGTT
47044283 A
1 A
47044284 AGTGATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.55
Consensus pattern (18 bp):
ATTTGAAGTATTATTGTT
Found at i:47045718 original size:20 final size:20
Alignment explanation
Indices: 47045693--47045747 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
47045683 AAGCTTATGC
47045693 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
47045713 TAAGTAAAT-GAAGTGGAAAG
1 TAAGTAAATGGAA-TGGAAAG
47045733 TAAGTAAATGGAATG
1 TAAGTAAATGGAATG
47045748 ATTCATCGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:47048742 original size:20 final size:20
Alignment explanation
Indices: 47048717--47048788 Score: 126
Period size: 20 Copynumber: 3.6 Consensus size: 20
47048707 TATAAGCCAC
*
47048717 TCCATTTACTTACTTACCAT
1 TCCATTTACTTACTTTCCAT
47048737 TCCATTTACTTACTTTCCAT
1 TCCATTTACTTACTTTCCAT
*
47048757 TTCATTTACTTACTTTCCAT
1 TCCATTTACTTACTTTCCAT
47048777 TCCATTTACTTA
1 TCCATTTACTTA
47048789 GCATAAGCTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.22, C:0.28, G:0.00, T:0.50
Consensus pattern (20 bp):
TCCATTTACTTACTTTCCAT
Found at i:47048777 original size:15 final size:16
Alignment explanation
Indices: 47048726--47048758 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
47048716 CTCCATTTAC
47048726 TTACTTACCATTCCAT
1 TTACTTACCATTCCAT
*
47048742 TTACTTA-CTTTCCAT
1 TTACTTACCATTCCAT
47048757 TT
1 TT
47048759 CATTTACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.21, C:0.27, G:0.00, T:0.52
Consensus pattern (16 bp):
TTACTTACCATTCCAT
Found at i:47053074 original size:24 final size:25
Alignment explanation
Indices: 47053054--47053113 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 25
47053044 AAATTTATCG
47053054 ATATTT-T-TAAAAAAT-ATTTTAT
1 ATATTTATATAAAAAATAATTTTAT
*
47053076 ATATTTATATAAAAAATAATTTTAA
1 ATATTTATATAAAAAATAATTTTAT
*
47053101 ATA-TTAAATAAAA
1 ATATTTATATAAAA
47053114 TTTAAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 6 0.18
23 1 0.03
24 17 0.52
25 9 0.27
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATTTATATAAAAAATAATTTTAT
Found at i:47053131 original size:18 final size:18
Alignment explanation
Indices: 47053085--47053131 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
47053075 TATATTTATA
47053085 TAAAAAATAATTTTAAATAT
1 TAAAAAA-AA-TTTAAATAT
*
47053105 TAAATAAAATTTAAAT-T
1 TAAAAAAAATTTAAATAT
47053122 TATAAAAAAA
1 TA-AAAAAAA
47053132 AATGCACAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 3 0.12
18 13 0.54
19 2 0.08
20 6 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAAAAAAAATTTAAATAT
Found at i:47053132 original size:19 final size:20
Alignment explanation
Indices: 47053081--47053132 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
47053071 TTTATATATT
47053081 TATATAAAAAATAATTTTAAA
1 TATATAAAAAA-AATTTTAAA
*
47053102 TAT-TAAATAAAA-TTTAAA
1 TATATAAAAAAAATTTTAAA
*
47053120 TTTATAAAAAAAA
1 TATATAAAAAAAA
47053133 ATGCACAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.30
19 10 0.37
20 6 0.22
21 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TATATAAAAAAAATTTTAAA
Found at i:47063464 original size:16 final size:16
Alignment explanation
Indices: 47063443--47063473 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47063433 TTCACTATTA
*
47063443 TGTCTTTTTTATTTTC
1 TGTCTTTTATATTTTC
47063459 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
47063474 GCATGCATAG
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:0.10, C:0.10, G:0.06, T:0.74
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:47063999 original size:28 final size:28
Alignment explanation
Indices: 47063943--47063999 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
47063933 TACTTTACCT
*
47063943 CCAAAACTTTTACTCCCTCCCACTTCCC
1 CCAAAACTTTTACTCCCTCCCACTCCCC
47063971 CCAAAACTTTTACTCCCCTCCCA-TCCCC
1 CCAAAACTTTTACT-CCCTCCCACTCCCC
47063999 C
1 C
47064000 TTCTACCCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.21, C:0.53, G:0.00, T:0.26
Consensus pattern (28 bp):
CCAAAACTTTTACTCCCTCCCACTCCCC
Found at i:47065711 original size:39 final size:39
Alignment explanation
Indices: 47065619--47065716 Score: 144
Period size: 39 Copynumber: 2.5 Consensus size: 39
47065609 CCCAGCCCAA
* **
47065619 ACCCAATTACCCAACCCAGTAAAACTAAAACTAAAATTT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAAACT
*
47065658 ATCCAATTACCCAACCCAATAAAACTAAAACTAAAAGACT
1 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAA-ACT
47065698 ACCCAATTA-CCAACCCAAT
1 ACCCAATTACCCAACCCAAT
47065717 TTACTAAATC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
39 44 0.83
40 9 0.17
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (39 bp):
ACCCAATTACCCAACCCAATAAAACTAAAACTAAAAACT
Found at i:47065792 original size:11 final size:11
Alignment explanation
Indices: 47065778--47065816 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
47065768 GCTGCCATTT
*
47065778 TTTTTCCCTAA
1 TTTTTCTCTAA
*
47065789 TTTTTCTCT-T
1 TTTTTCTCTAA
47065799 TTTTTCTCTAA
1 TTTTTCTCTAA
47065810 TTTTTCT
1 TTTTTCT
47065817 TGTTCTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.10, C:0.21, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTTCTCTAA
Found at i:47065802 original size:21 final size:21
Alignment explanation
Indices: 47065776--47065816 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
47065766 CGGCTGCCAT
47065776 TTTTTTTCCCTAATTTTTCTC
1 TTTTTTTCCCTAATTTTTCTC
*
47065797 TTTTTTTCTCTAATTTTTCT
1 TTTTTTTCCCTAATTTTTCT
47065817 TGTTCTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTTTCCCTAATTTTTCTC
Found at i:47082305 original size:2 final size:2
Alignment explanation
Indices: 47082294--47082322 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
47082284 CTAGGGTTTA
47082294 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
47082323 TAATCTTTTA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:47085841 original size:30 final size:31
Alignment explanation
Indices: 47085796--47085868 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
47085786 TTTTTTAAAA
47085796 AAAAATTGAAGGGGTTAAATTATAAATATTC
1 AAAAATTGAAGGGGTTAAATTATAAATATTC
* *
47085827 AAAAGTTG-AGGGGTTAAATTATAAATA-TA
1 AAAAATTGAAGGGGTTAAATTATAAATATTC
47085856 AAAAATTTGAAGG
1 AAAAA-TTGAAGG
47085869 ACTAAAGTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 5 0.14
30 22 0.59
31 10 0.27
ACGTcount: A:0.49, C:0.01, G:0.19, T:0.30
Consensus pattern (31 bp):
AAAAATTGAAGGGGTTAAATTATAAATATTC
Found at i:47093342 original size:16 final size:15
Alignment explanation
Indices: 47093321--47093355 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
47093311 TGAATATAAA
*
47093321 TATATAATTATTATTT
1 TATATAATTAAT-TTT
47093337 TATATAATTAATTTT
1 TATATAATTAATTTT
47093352 TATA
1 TATA
47093356 ATATAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATATAATTAATTTT
Found at i:47093355 original size:13 final size:14
Alignment explanation
Indices: 47093321--47093362 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
47093311 TGAATATAAA
47093321 TATATAATTATTATTT
1 TATATAATTA--ATTT
47093337 TATATAATTAATTT
1 TATATAATTAATTT
47093351 T-TATAATATAAT
1 TATATAAT-TAAT
47093363 ATACTTGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.24
14 9 0.36
16 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATATAATTAATTT
Found at i:47095146 original size:109 final size:109
Alignment explanation
Indices: 47094971--47095188 Score: 364
Period size: 109 Copynumber: 2.0 Consensus size: 109
47094961 TCCTAACAGC
*
47094971 ATTTGCCCGCAACTGCCGCACATCCTAACAACAGCCCCGCACATGTCGCGCACGTTCGCCTCCAC
1 ATTTGCCCGCAACCGCCGCACATCCTAACAACAGCCCCGCACATGTCGCGCACGTTCGCCTCCAC
*
47095036 GTTGACTGGTCGTACCTGCAGCAAAAAGCAGAAACAAACAGCAA
66 GTTGACTGGTCGTACCTGCAGCAAAAAGCAAAAACAAACAGCAA
* * * *
47095080 ATTTGCCCGTAGCCGCCGCACATCCTAACAGCAGCCCGGCACATGTCGCGCACGTTCGCCTCCAC
1 ATTTGCCCGCAACCGCCGCACATCCTAACAACAGCCCCGCACATGTCGCGCACGTTCGCCTCCAC
* *
47095145 GTTGACTGGTCGTACCTGCAGCAACAAGCAAAAAGAAACAGCAA
66 GTTGACTGGTCGTACCTGCAGCAAAAAGCAAAAACAAACAGCAA
47095189 CGAAATAATA
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
109 101 1.00
ACGTcount: A:0.28, C:0.35, G:0.21, T:0.16
Consensus pattern (109 bp):
ATTTGCCCGCAACCGCCGCACATCCTAACAACAGCCCCGCACATGTCGCGCACGTTCGCCTCCAC
GTTGACTGGTCGTACCTGCAGCAAAAAGCAAAAACAAACAGCAA
Found at i:47095929 original size:15 final size:14
Alignment explanation
Indices: 47095911--47095950 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
47095901 TTATTTTGTT
*
47095911 TTTTTTTTCAATTTG
1 TTTTTTTT-AAATTG
47095926 TTTTTTTTAAATTG
1 TTTTTTTTAAATTG
*
47095940 TTATTTTTAAA
1 TTTTTTTTAAA
47095951 ATTATTACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (14 bp):
TTTTTTTTAAATTG
Found at i:47095946 original size:17 final size:16
Alignment explanation
Indices: 47095906--47095947 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
47095896 TTTGGTTATT
*
47095906 TTGTTTTTTTTTTCAA
1 TTGTTTTTTTTTTAAA
*
47095922 TT-TGTTTTTTTTAAA
1 TTGTTTTTTTTTTAAA
47095937 TTGTTATTTTT
1 TTGTT-TTTTT
47095948 AAAATTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 13 0.62
16 3 0.14
17 5 0.24
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.76
Consensus pattern (16 bp):
TTGTTTTTTTTTTAAA
Found at i:47096131 original size:11 final size:10
Alignment explanation
Indices: 47096115--47096148 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
47096105 TTTTAACCTT
47096115 TATATACTTTA
1 TATATA-TTTA
47096126 TATATATTATA
1 TATATATT-TA
47096137 TATATATTTA
1 TATATATTTA
47096147 TA
1 TA
47096149 CATTTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.27
11 16 0.73
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (10 bp):
TATATATTTA
Found at i:47096226 original size:21 final size:21
Alignment explanation
Indices: 47096188--47096227 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
47096178 ATATACATAC
* **
47096188 TTTTATTTTTATTTTTCTTTA
1 TTTTATTTTCATAATTCTTTA
47096209 TTTTATTTTCATAATTCTT
1 TTTTATTTTCATAATTCTT
47096228 ACATATACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTATTTTCATAATTCTTTA
Found at i:47102450 original size:44 final size:44
Alignment explanation
Indices: 47102383--47103284 Score: 833
Period size: 44 Copynumber: 20.4 Consensus size: 44
47102373 GCTAAAAAGC
* *
47102383 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGAT
*** *** *
47102427 AGCAGATCTTGTCTTCCCATATTGGTGGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATT-GACATGAAGTAGATCAAAGAT
*** * * *
47102472 AATGGATCTTGGCTTCATGTATTAACATGAAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGAT
* * *
47102516 AGTAGATCTTGTCTTCATGTATTGACATGGAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGAT
* * *
47102560 AGTAGATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGAT
* * *
47102604 -G-ATGGATATTGTCTTCATGTATTGACATGGAGTAGATCAGAGAT
1 AGCA--GATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGAT
* * * *
47102648 AGCAGGTATTGCCTTCATGTATTGACATGAAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGAT
* * * * * * *
47102692 AACATATCTTATTTTCATGTATTGACATGAATTAGATCGAAGGT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGAT
*** * *
47102736 AATGGATATTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGAT
*** * ** * *
47102780 AGCAGATCTTGTCTTCCCATACTGGTAGTGAAGTAGATCGAAGGT
1 AGCAGATCTTGTCTTCATGTATTGACA-TGAAGTAGATCAAAGAT
*** *
47102825 AATGGATCTTGTCTTCATGTATTGACAT-AGAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGA-AGTAGATCAAAGAT
*
47102869 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGAT
* * *
47102913 AGCATATCTTATCTTCATGTATTGACATGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGAT
*** *
47102957 AATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGAT
* * * *
47103001 AGCAGATCTTGTCTTCATGTACT-AGCGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGA-CATGAAGTAGATCAAAGAT
* * * *
47103045 AGCAGATCTTGTCTTCATGTACTGGCATGAAGTAGATAAAAAAGAA
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGAT--CAAAGAT
* * * * * *
47103091 AACAGATATTGTCTTCATGTACTGACGTGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGAT
* * * * *
47103135 AGCAAATATTGTCTTCCTGTACT-AGCAGTGAAGTATATCAAAGAT
1 AGCAGATCTTGTCTTCATGTATTGA-CA-TGAAGTAGATCAAAGAT
* *** * ** * * *
47103180 AACAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGATCGAAGAA
1 AGCAGATCTTGTCTTCATGTATTGACA-TGAAGTAGATCAAAGAT
* * *
47103225 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGAT
*
47103269 AGTAGATCTTGTCTTC
1 AGCAGATCTTGTCTTC
47103285 CCATACTGGT
Statistics
Matches: 701, Mismatches: 142, Indels: 30
0.80 0.16 0.03
Matches are distributed among these distances:
42 1 0.00
43 4 0.01
44 522 0.74
45 135 0.19
46 39 0.06
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (44 bp):
AGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAAAGAT
Found at i:47103037 original size:353 final size:354
Alignment explanation
Indices: 47102385--47103284 Score: 1159
Period size: 353 Copynumber: 2.5 Consensus size: 354
47102375 TAAAAAGCAG
* * * *
47102385 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATATT
1 CAGATATTGTCTTCATGTATTGACGTGAAGTAGATCAGAGATAGCAGATCTTGTCTTCCCATACT
* * *
47102450 GGTGGTGAAGTAGATCGAAGATAATGGATCTTGGCTTCATGTATTAACATGAAGTAGATCAGAGA
66 GGTAGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGA
* *
47102515 TAGTAGATCTTGTCTTCATGTATTGACATGGAGTAGATCAGAGATAGTAGATCTTATCTTCATGT
131 TAGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTAGATCTTATCTTCATGT
* *
47102580 ATTGACATGAAGTAGATCGAAGATGATGGATATTGTCTTCATGTATTGACATGGAGTAGATCAGA
196 ATTGACATGAAGTAGATCGAAGATAATGGATATTGTCTTCATGTATTGACATGAAGTAGATCAGA
* * * *
47102645 GATAGCAGGTATTGCCTTCATGTATTGACATGAAGTAGATC-AGAGATAA-CATATCTTATTTTC
261 GATAGCAGATATTGCCTTCATGTATAGACATGAAGTAGATCGA-AGA-AAGCAGATCTTATCTTC
* * ** **
47102708 ATGTATTGACATGAATTAGAT-CGAAGGTAA
324 ATGTACTGACATGAAGTAGATAAAAAGAAAA
** *
47102738 TGGATATTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCAGATCTTGTCTTCCCATACT
1 CAGATATTGTCTTCATGTATTGACGTGAAGTAGATCAGAGATAGCAGATCTTGTCTTCCCATACT
*
47102803 GGTAGTGAAGTAGATCGAAGGTAATGGATCTTGTCTTCATGTATTGACAT-AGAGTAGATCAGAG
66 GGTAGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGA-AGTAGATCAGAG
* *
47102867 ATAGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGCATATCTTATCTTCATG
130 ATAGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTAGATCTTATCTTCATG
*
47102932 TATTGACATGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAG
195 TATTGACATGAAGTAGATCGAAGATAATGGATATTGTCTTCATGTATTGACATGAAGTAGATCAG
* * * *
47102997 AGATAGCAGATCTTGTCTTCATGTACTAG-CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTC
260 AGATAGCAGATATTGCCTTCATGTA-TAGACATGAAGTAGATCGAAGAAAGCAGATCTTATCTTC
*
47103061 ATGTACTGGCATGAAGTAGATAAAAAAGAAAA
324 ATGTACTGACATGAAGTAGAT-AAAAAGAAAA
* * * * **
47103093 CAGATATTGTCTTCATGTACTGACGTGAAGTAGATC-GAAGAAAGCAAATATTGTCTTCCTGTAC
1 CAGATATTGTCTTCATGTATTGACGTGAAGTAGATCAG-AGATAGCAGATCTTGTCTTCCCATAC
* * * * ** *** * ** *
47103157 TAGCAGTGAAGTATATCAAAGATAACAGATCTTGTCTTCCCATACTGGTAGCGAAGTAGATC-GA
65 TGGTAGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACA-TGAAGTAGATCAG-
* * * *
47103221 AGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC-GAAGATAGTAGATCTTGTCTTC
128 AGATAGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAG-AGATAGTAGATCTTATCTTC
47103285 CCATACTGGT
Statistics
Matches: 474, Mismatches: 62, Indels: 19
0.85 0.11 0.03
Matches are distributed among these distances:
352 3 0.01
353 305 0.64
354 4 0.01
355 97 0.20
356 64 0.14
357 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (354 bp):
CAGATATTGTCTTCATGTATTGACGTGAAGTAGATCAGAGATAGCAGATCTTGTCTTCCCATACT
GGTAGTGAAGTAGATCGAAGATAATGGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGA
TAGCAGATCTTGTCTTCATGTATTGACATGAAGTAGATCAGAGATAGTAGATCTTATCTTCATGT
ATTGACATGAAGTAGATCGAAGATAATGGATATTGTCTTCATGTATTGACATGAAGTAGATCAGA
GATAGCAGATATTGCCTTCATGTATAGACATGAAGTAGATCGAAGAAAGCAGATCTTATCTTCAT
GTACTGACATGAAGTAGATAAAAAGAAAA
Found at i:47103816 original size:20 final size:20
Alignment explanation
Indices: 47103787--47103827 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
47103777 CAATAAACAG
47103787 ACCCAATTAA-TAGCCCAAA
1 ACCCAATTAACTAGCCCAAA
47103806 ACCCAAATTAACCTAGCCCAAA
1 ACCC-AATTAA-CTAGCCCAAA
47103828 CATTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
22 9 0.47
ACGTcount: A:0.46, C:0.34, G:0.05, T:0.15
Consensus pattern (20 bp):
ACCCAATTAACTAGCCCAAA
Found at i:47105470 original size:29 final size:29
Alignment explanation
Indices: 47105415--47105471 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
47105405 TCTATATTGG
*
47105415 ATAAATATAATTATATGTATATGCAATAT
1 ATAAATATAATAATATGTATATGCAATAT
47105444 ATAAATATAA-AATGATGCTATAT-CAATA
1 ATAAATATAATAAT-ATG-TATATGCAATA
47105472 ATTGTGTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 2 0.08
29 18 0.72
30 5 0.20
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.37
Consensus pattern (29 bp):
ATAAATATAATAATATGTATATGCAATAT
Found at i:47107245 original size:5 final size:5
Alignment explanation
Indices: 47107235--47107261 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
47107225 CGAGCATTCG
47107235 ATCGA ATCGA ATCGA ATCGA ATCGA AT
1 ATCGA ATCGA ATCGA ATCGA ATCGA AT
47107262 AAAAAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (5 bp):
ATCGA
Found at i:47108306 original size:9 final size:9
Alignment explanation
Indices: 47108292--47108328 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
47108282 TATAGTTTGA
47108292 TATTCGAAT
1 TATTCGAAT
47108301 TATTCGAAT
1 TATTCGAAT
*
47108310 TATTCGAGT
1 TATTCGAAT
47108319 TATTCGAAT
1 TATTCGAAT
47108328 T
1 T
47108329 CAAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:47111104 original size:25 final size:25
Alignment explanation
Indices: 47111072--47111149 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
47111062 ATACAATACA
* *
47111072 CCACAAAGACTTTTTAGATAATTCG
1 CCACAAAGGCTTTTCAGATAATTCG
* * * *
47111097 CCATAAAGGCTTTACAGATAACTCA
1 CCACAAAGGCTTTTCAGATAATTCG
47111122 CCACAAAGGCTTTTCAGATAATTCG
1 CCACAAAGGCTTTTCAGATAATTCG
47111147 CCA
1 CCA
47111150 GATAATTCGC
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (25 bp):
CCACAAAGGCTTTTCAGATAATTCG
Found at i:47111124 original size:50 final size:50
Alignment explanation
Indices: 47111070--47111217 Score: 161
Period size: 62 Copynumber: 2.7 Consensus size: 50
47111060 TCATACAATA
*
47111070 CACCACAAAGACTTTTTAGATAATTCGCCATAAAGGCTTTACAGATAACT
1 CACCACAAAGGCTTTTTAGATAATTCGCCATAAAGGCTTTACAGATAACT
47111120 CACCACAAAGGCTTTTCAGATAATTCGCCAGATAATTCGCCATAAAGGCTTTACAGATAACT
1 CACCACAAAGGC--TT----T--TT----AGATAATTCGCCATAAAGGCTTTACAGATAACT
* *
47111182 CACCACAAAGGCTTTTCAGATAATTCGCCACAAAGG
1 CACCACAAAGGCTTTTTAGATAATTCGCCATAAAGG
47111218 TTTGCCACCA
Statistics
Matches: 83, Mismatches: 3, Indels: 24
0.75 0.03 0.22
Matches are distributed among these distances:
50 29 0.35
52 2 0.02
54 1 0.01
56 2 0.02
58 2 0.02
60 2 0.02
62 45 0.54
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.25
Consensus pattern (50 bp):
CACCACAAAGGCTTTTTAGATAATTCGCCATAAAGGCTTTACAGATAACT
Found at i:47111153 original size:12 final size:12
Alignment explanation
Indices: 47111136--47111161 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47111126 AAAGGCTTTT
47111136 CAGATAATTCGC
1 CAGATAATTCGC
47111148 CAGATAATTCGC
1 CAGATAATTCGC
47111160 CA
1 CA
47111162 TAAAGGCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (12 bp):
CAGATAATTCGC
Found at i:47111176 original size:25 final size:25
Alignment explanation
Indices: 47111148--47111217 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
47111138 GATAATTCGC
*
47111148 CAGATAATTCGCCATAAAGGCTTTA
1 CAGATAATTCGCCACAAAGGCTTTA
* * *
47111173 CAGATAACTCACCACAAAGGCTTTT
1 CAGATAATTCGCCACAAAGGCTTTA
47111198 CAGATAATTCGCCACAAAGG
1 CAGATAATTCGCCACAAAGG
47111218 TTTGCCACCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (25 bp):
CAGATAATTCGCCACAAAGGCTTTA
Found at i:47111184 original size:62 final size:62
Alignment explanation
Indices: 47111087--47111211 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
47111077 AAGACTTTTT
47111087 AGATAATTCGCCATAAAGGCTTTACAGATAACTCACCACAAAGGCTTTTCAGATAATTCGCC
1 AGATAATTCGCCATAAAGGCTTTACAGATAACTCACCACAAAGGCTTTTCAGATAATTCGCC
47111149 AGATAATTCGCCATAAAGGCTTTACAGATAACTCACCACAAAGGCTTTTCAGATAATTCGCC
1 AGATAATTCGCCATAAAGGCTTTACAGATAACTCACCACAAAGGCTTTTCAGATAATTCGCC
47111211 A
1 A
47111212 CAAAGGTTTG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (62 bp):
AGATAATTCGCCATAAAGGCTTTACAGATAACTCACCACAAAGGCTTTTCAGATAATTCGCC
Found at i:47114299 original size:20 final size:21
Alignment explanation
Indices: 47114262--47114317 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
47114252 TTCTCTTATA
47114262 TATAT-ATTATATTAAACTTG-
1 TATATGATTAT-TTAAACTTGC
*
47114282 TATATGATTATTTTAACTTGC
1 TATATGATTATTTAAACTTGC
*
47114303 TTTATAGATTATTTA
1 TATAT-GATTATTTA
47114318 CATTAAGTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 13 0.43
21 9 0.30
22 8 0.27
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (21 bp):
TATATGATTATTTAAACTTGC
Found at i:47114314 original size:22 final size:22
Alignment explanation
Indices: 47114282--47114344 Score: 63
Period size: 26 Copynumber: 2.6 Consensus size: 22
47114272 ATTAAACTTG
47114282 TATATGATTATTTTAACTTGCTT
1 TATA-GATTATTTTAACTTGCTT
*
47114305 TATAGATTATTTACATTAAGTTGCTT
1 TATAGATTA-TT---TTAACTTGCTT
*
47114331 TATATATTATTTTA
1 TATAGATTATTTTA
47114345 TTTTAAGTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
22 8 0.24
23 6 0.18
25 2 0.06
26 18 0.53
ACGTcount: A:0.30, C:0.06, G:0.08, T:0.56
Consensus pattern (22 bp):
TATAGATTATTTTAACTTGCTT
Found at i:47114352 original size:27 final size:26
Alignment explanation
Indices: 47114289--47114376 Score: 104
Period size: 26 Copynumber: 3.3 Consensus size: 26
47114279 TTGTATATGA
* *
47114289 TTATTTTAACTTGCTTTATAGATTAT
1 TTATTTTAAGTTGCTTTATATATTAT
**
47114315 TTACATTAAGTTGCTTTATATATTATT
1 TTATTTTAAGTTGCTTTATATATTA-T
** *
47114342 TTATTTTAAGTTATTTTATATATTAC
1 TTATTTTAAGTTGCTTTATATATTAT
47114368 TTATTTTAA
1 TTATTTTAA
47114377 AATTAACCTA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 30 0.58
27 22 0.42
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.59
Consensus pattern (26 bp):
TTATTTTAAGTTGCTTTATATATTAT
Found at i:47120234 original size:10 final size:10
Alignment explanation
Indices: 47120221--47120290 Score: 52
Period size: 10 Copynumber: 7.0 Consensus size: 10
47120211 AAATTCAAAG
47120221 AAATATATAA
1 AAATATATAA
*
47120231 AAATATGTAA
1 AAATATATAA
** * *
47120241 CTATTTTTAA
1 AAATATATAA
*
47120251 AAATAAATAA
1 AAATATATAA
*
47120261 TAAA-ATTTAA
1 -AAATATATAA
47120271 AAATATATAA
1 AAATATATAA
*
47120281 AAATAAATAA
1 AAATATATAA
47120291 TTTCAAAAAA
Statistics
Matches: 44, Mismatches: 14, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
9 3 0.07
10 38 0.86
11 3 0.07
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (10 bp):
AAATATATAA
Found at i:47120285 original size:26 final size:26
Alignment explanation
Indices: 47120255--47120305 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
47120245 TTTTAAAAAT
*
47120255 AAATAATAAAATTT-AAAAATATATAA
1 AAATAA-AAAATTTCAAAAAAATATAA
*
47120281 AAATAAATAATTTCAAAAAAATATA
1 AAATAAAAAATTTCAAAAAAATATA
47120306 GTAAAACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (26 bp):
AAATAAAAAATTTCAAAAAAATATAA
Found at i:47120707 original size:31 final size:29
Alignment explanation
Indices: 47120637--47120710 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
47120627 GGCTCAAGTT
* *
47120637 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTCAAATGTA
* **
47120666 ACGTTTTAGTCACTTATGTTATCATGTTGTA
1 ACATTTTAGTCACTTATGTT-TCA-AATGTA
47120697 ACATTTTAGTCACT
1 ACATTTTAGTCACT
47120711 GAGCCGTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 19 0.51
30 2 0.05
31 16 0.43
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTCAAATGTA
Found at i:47121554 original size:6 final size:6
Alignment explanation
Indices: 47121545--47121593 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
47121535 TCTTTTAAAT
* *
47121545 TTAATA TTAATA TTAATA TTAATA TATAA-A TTAAAA TTATTA TT-ATA
1 TTAATA TTAATA TTAATA TTAATA T-TAATA TTAATA TTAATA TTAATA
47121592 TT
1 TT
47121594 TTTAAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
5 7 0.18
6 28 0.74
7 3 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TTAATA
Found at i:47121566 original size:18 final size:18
Alignment explanation
Indices: 47121539--47121593 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
47121529 GAGGGTTCTT
*
47121539 TTAAATTTAATATTAATA
1 TTAAAATTAATATTAATA
*
47121557 TTAATATTAATATATAA-A
1 TTAAAATTAATAT-TAATA
*
47121575 TTAAAATTATTATT-ATA
1 TTAAAATTAATATTAATA
47121592 TT
1 TT
47121594 TTTAAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 1 0.03
17 4 0.13
18 23 0.74
19 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAAATTAATATTAATA
Found at i:47121600 original size:20 final size:20
Alignment explanation
Indices: 47121575--47121643 Score: 86
Period size: 20 Copynumber: 3.4 Consensus size: 20
47121565 AATATATAAA
47121575 TTAAAATTATTATTATATTT
1 TTAAAATTATTATTATATTT
*
47121595 TTAAAAATATT-TATATATTT
1 TTAAAATTATTAT-TATATTT
*
47121615 TTAAATTTATTATTATATAATT
1 TTAAAATTATTATTATAT--TT
47121637 TTAAAAT
1 TTAAAAT
47121644 ATTTATGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 1 0.02
20 31 0.76
21 1 0.02
22 8 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTAAAATTATTATTATATTT
Found at i:47121649 original size:22 final size:21
Alignment explanation
Indices: 47121575--47121668 Score: 74
Period size: 22 Copynumber: 4.5 Consensus size: 21
47121565 AATATATAAA
47121575 TTAAAAT-TATTATTATAT-TT
1 TTAAAATAT-TTATTATATATT
47121595 TTAAAAATATTTA-TATAT-TT
1 TT-AAAATATTTATTATATATT
*
47121615 TT-AAATTTATTATTATATAATT
1 TTAAAATAT-TTATTATAT-ATT
* *
47121637 TTAAAATATTTATGTATTTTTT
1 TTAAAATATTTAT-TATATATT
47121659 TTAAAA-ATTT
1 TTAAAATATTT
47121669 TAGAATTAAG
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
18 5 0.08
19 3 0.05
20 16 0.26
21 12 0.19
22 17 0.27
23 9 0.15
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (21 bp):
TTAAAATATTTATTATATATT
Found at i:47121659 original size:43 final size:40
Alignment explanation
Indices: 47121575--47121657 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 40
47121565 AATATATAAA
47121575 TTAAAATTATTATTATATTTTTAAAAATATTTATATATTT
1 TTAAAATTATTATTATATTTTTAAAAATATTTATATATTT
* *
47121615 TTAAATTTATTATTATATAATTTT-AAAATATTTATGTATTT
1 TTAAAATTATTATTATAT--TTTTAAAAATATTTATATATTT
47121656 TT
1 TT
47121658 TTTAAAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
40 17 0.44
41 18 0.46
42 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (40 bp):
TTAAAATTATTATTATATTTTTAAAAATATTTATATATTT
Done.