Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D08
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: 69935236
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1740000 characters in sequence are not A, C, G, or T
File 53 of 223
Found at i:16019090 original size:40 final size:40
Alignment explanation
Indices: 16018992--16019168 Score: 252
Period size: 40 Copynumber: 4.5 Consensus size: 40
16018982 TTTGGCTAAG
* * *
16018992 TAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
*
16019031 TAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
* *
16019070 TAAGTCCCGAAGACATTTGTGCGAGTTACTAAATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
*
16019110 TAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGC
*
16019150 TATGTCCCGAAGGCATTTG
1 TAAGTCCCGAAGGCATTTG
16019169 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
39 39 0.31
40 86 0.68
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGC
Found at i:16019186 original size:80 final size:79
Alignment explanation
Indices: 16019031--16019201 Score: 204
Period size: 80 Copynumber: 2.2 Consensus size: 79
16019021 AATTCTGGGC
* * **
16019031 TAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGACATTTGTGCGAG
1 TAAGTCCCGAAGGCATTTGTGCGAATTACTAAATCCGGGCTAAGTCCCGAAGACATTTGAACGAG
*
16019095 TTACTAAATCCGGGT
66 TGACTAAATCC-GGT
* *
16019110 TAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGA
1 TAAGTCCCGAAGGCATTTGTGCGAATTACTA-AATCCGGGCTAAGTCCCGAAGACATTTGAACGA
*
16019174 G-GAGCTATATCCGGT
65 GTGA-CTAAATCCGGT
* *
16019189 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
16019202 TACGTGATTT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 19 0.24
80 58 0.73
81 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAATTACTAAATCCGGGCTAAGTCCCGAAGACATTTGAACGAG
TGACTAAATCCGGT
Found at i:16027051 original size:79 final size:80
Alignment explanation
Indices: 16026865--16027127 Score: 333
Period size: 79 Copynumber: 3.3 Consensus size: 80
16026855 TTGGATGATG
* * *
16026865 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT-TCCGGGCTAAGACCCGAAGGCA
* *
16026926 TTTGTGCGAGATACTAAT
63 TTTGTGCGAGTTACTAAA
16026944 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGACCCGAAGGCATTT
16027007 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
* * * * *
16027022 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGACCCGAAGGCATTT
*
16027087 GTGCGAATTACTATAA
66 GTGCGAGTTACTA-AA
*
16027103 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16027128 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
78 44 0.27
79 59 0.36
80 59 0.36
81 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:16027141 original size:40 final size:40
Alignment explanation
Indices: 16026865--16027127 Score: 342
Period size: 40 Copynumber: 6.7 Consensus size: 40
16026855 TTGGATGATG
* *
16026865 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
16026904 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
16026944 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
16026983 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16027022 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
16027062 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
16027103 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16027128 AACGAGGAGC
Statistics
Matches: 205, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 92 0.45
40 103 0.50
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16027145 original size:80 final size:77
Alignment explanation
Indices: 16026866--16027160 Score: 280
Period size: 79 Copynumber: 3.7 Consensus size: 77
16026856 TGGATGATGT
* * **
16026866 CCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAG-GACTA-ATCCGGGTTAAG-TCCCGAAGGCATT
*
16026928 TGTGCGAGA-TACTAATT
62 TGTGCGA-ATTACTAA-A
* *
16026945 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-GACTAA-TCCGGGTTAAGTCCCGAAGGCATTTG
*
16027008 TGCGAGTTACTAAA
64 TGCGAATTACTAAA
* *
16027022 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-GACT-AATCCGGGTTAAGTCCCGAAGGCATTT
16027087 GTGCGAATTACTATAA
63 GTGCGAATTACTA-AA
* ** * *
16027103 CCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGA-CTA-ATCCGGGTTAAGTCCCGAAGG
16027161 TACGTGATTT
Statistics
Matches: 186, Mismatches: 18, Indels: 24
0.82 0.08 0.11
Matches are distributed among these distances:
78 43 0.23
79 75 0.40
80 66 0.35
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (77 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGACTAATCCGGGTTAAGTCCCGAAGGCATTTGTG
CGAATTACTAAA
Found at i:16030940 original size:53 final size:52
Alignment explanation
Indices: 16030855--16030957 Score: 127
Period size: 53 Copynumber: 2.0 Consensus size: 52
16030845 CAAAGAATGT
*
16030855 ATATGCATGATATTTGACTTTGCAAAGGTTTGGGCAGATTGTACGGAGGATGC
1 ATATGCATGATATTTGACTTTGCAAAGCTTTGGGCAGATTGTACGG-GGATGC
** ***
16030908 ATATGCATGATATTT-AGCTTTGCGGAGCTTTGGTTGGATTGTACGGGGAT
1 ATATGCATGATATTTGA-CTTTGCAAAGCTTTGGGCAGATTGTACGGGGAT
16030958 ATATGTGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
52 5 0.12
53 38 0.88
ACGTcount: A:0.23, C:0.11, G:0.31, T:0.35
Consensus pattern (52 bp):
ATATGCATGATATTTGACTTTGCAAAGCTTTGGGCAGATTGTACGGGGATGC
Found at i:16038826 original size:22 final size:21
Alignment explanation
Indices: 16038801--16038844 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
16038791 TGATAAACTT
16038801 TAATATATA-ATTAAATTATTTA
1 TAATATATATATT-AATT-TTTA
*
16038823 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
16038844 T
1 T
16038845 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 12 0.60
23 3 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:16039227 original size:16 final size:15
Alignment explanation
Indices: 16039195--16039228 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
16039185 TTTGAATTTT
*
16039195 GTTAAGTATGCTAAA
1 GTTAAGTATGATAAA
16039210 GTTAAGTATGAATAAA
1 GTTAAGTATG-ATAAA
16039226 GTT
1 GTT
16039229 TGATTATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (15 bp):
GTTAAGTATGATAAA
Found at i:16047963 original size:16 final size:16
Alignment explanation
Indices: 16047926--16047965 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
16047916 TAGTAAAAAT
16047926 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
16047943 ATAATTTA-TATTTTA
1 ATAATTTATTATTTTA
16047958 ATTAATTT
1 A-TAATTT
16047966 TAATAATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.36
16 10 0.45
17 4 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:16050158 original size:26 final size:26
Alignment explanation
Indices: 16050115--16050187 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 26
16050105 TATCATCTCT
*
16050115 ATTTTACCCCTAGCAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGATG
*
16050141 ATTTTACCCTTAGTAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGATG
* *
16050167 ATTTTGCCCCTCGTAAAATTT
1 ATTTTACCCCTAGTAAAATTT
16050188 CGAGAAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGATG
Found at i:16057704 original size:4 final size:4
Alignment explanation
Indices: 16057695--16057746 Score: 86
Period size: 4 Copynumber: 13.0 Consensus size: 4
16057685 TACTTTCACC
* *
16057695 TCTA TCTA TCTA TCAA TTTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
16057743 TCTA
1 TCTA
16057747 GTACATATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (4 bp):
TCTA
Found at i:16067512 original size:28 final size:28
Alignment explanation
Indices: 16067444--16067597 Score: 238
Period size: 28 Copynumber: 5.5 Consensus size: 28
16067434 CATGAGATTG
* * * *
16067444 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
16067473 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
16067501 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
16067529 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
16067557 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
16067584 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
16067598 GACTTAATAT
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 24 0.20
28 76 0.64
29 18 0.15
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:16075430 original size:42 final size:42
Alignment explanation
Indices: 16075371--16075477 Score: 205
Period size: 42 Copynumber: 2.5 Consensus size: 42
16075361 TGTTGATCTC
16075371 GGCACTAAGTGTGCGGGTATAAACATTTATGATCATGAGATT
1 GGCACTAAGTGTGCGGGTATAAACATTTATGATCATGAGATT
16075413 GGCACTAAGTGTGCGGGTATAAACATTTATGATCATGAGATT
1 GGCACTAAGTGTGCGGGTATAAACATTTATGATCATGAGATT
*
16075455 GGCACTAAGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
16075478 TTGTACAGCA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAACATTTATGATCATGAGATT
Found at i:16075524 original size:28 final size:28
Alignment explanation
Indices: 16075456--16075582 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
16075446 CATGAGATTG
* * * *
16075456 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
16075485 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
16075513 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
16075541 GCGCTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
16075569 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
16075583 GACTTAATAT
Statistics
Matches: 89, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
28 71 0.80
29 18 0.20
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:16077389 original size:26 final size:26
Alignment explanation
Indices: 16077334--16077382 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
16077324 AGATTTAGAA
16077334 AAAAAATCAAAATCAAAAACAAATGG
1 AAAAAATCAAAATCAAAAACAAATGG
*
16077360 AAAAAATCAAAGTC-AAAACAAAT
1 AAAAAATCAAAATCAAAAACAAAT
16077383 ATGAAAAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.69, C:0.12, G:0.06, T:0.12
Consensus pattern (26 bp):
AAAAAATCAAAATCAAAAACAAATGG
Found at i:16077791 original size:13 final size:13
Alignment explanation
Indices: 16077761--16077800 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
16077751 GTTCAAAAAA
* *
16077761 AGAAAAAAAAAGG
1 AGAATAAAAAATG
16077774 AGAATAAAAAATG
1 AGAATAAAAAATG
*
16077787 AGAATGAAAAATG
1 AGAATAAAAAATG
16077800 A
1 A
16077801 AAAATGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.10
Consensus pattern (13 bp):
AGAATAAAAAATG
Found at i:16077801 original size:7 final size:7
Alignment explanation
Indices: 16077780--16077813 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
16077770 AAGGAGAATA
16077780 AAAAATG
1 AAAAATG
*
16077787 -AGAATG
1 AAAAATG
16077793 AAAAATG
1 AAAAATG
16077800 AAAAATG
1 AAAAATG
16077807 AAAAATG
1 AAAAATG
16077814 GAGAGGCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:16079092 original size:43 final size:43
Alignment explanation
Indices: 16079043--16079126 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
16079033 GTGAATATTA
16079043 CGAATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGCGG
1 CGAATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGCGG
* *
16079086 CGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGC
1 CGAATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGC
16079127 CACCAGTCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (43 bp):
CGAATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGCGG
Found at i:16079137 original size:43 final size:43
Alignment explanation
Indices: 16079045--16079138 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
16079035 GAATATTACG
** *
16079045 AATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGCGGCG
1 AATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGCCACC
* *
16079088 AATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACC
1 AATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGCCACC
*
16079131 AGTCTTAT
1 AATCTTAT
16079139 GTCCCTGACC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (43 bp):
AATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGCCACC
Found at i:16079328 original size:127 final size:127
Alignment explanation
Indices: 16079173--16079632 Score: 660
Period size: 127 Copynumber: 3.6 Consensus size: 127
16079163 TTGGAAATTA
16079173 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
1 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
16079238 ACAGTGGAGCAGATTAAAATAGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCAT
66 ACAGTGGAGCAGATTAAAATAGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCAT
16079300 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
1 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
*
16079365 ACAGTAGAG-AGGATTAAAATAGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCAT
66 ACAGTGGAGCA-GATTAAAATAGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCAT
* ** * * * *
16079427 CAAATCTTA-CTCCCTAAGCAGTAATGGAGCAGAC-GAAAAAAACCAATCCTATCTCCCCGAAAT
1 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAG-AAGAAATCAATCCTATCTCCCTGAAGT
* * * *
16079490 TGCAGTGGAGCGGATTAAAACCA-CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCAT
65 TACAGTGGAGCAGATTAAAA-TAGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCAT
* * * * * * *
16079553 CAAGTCTTATCTCCCTAAGCAGTAGTGGGGAAGACTGAAG-AAGCAAATCTTATCTCCCTGAGGT
1 CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAGAAGAAATC-AATCCTATCTCCCTGAAGT
* *
16079617 TGCAATGGAGCAGATT
65 TACAGTGGAGCAGATT
16079633 GAAGTCGATA
Statistics
Matches: 301, Mismatches: 25, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
125 1 0.00
126 113 0.38
127 186 0.62
128 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (127 bp):
CAAGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAGAAGAAATCAATCCTATCTCCCTGAAGTT
ACAGTGGAGCAGATTAAAATAGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCAT
Found at i:16079654 original size:171 final size:171
Alignment explanation
Indices: 16079471--16079856 Score: 673
Period size: 171 Copynumber: 2.3 Consensus size: 171
16079461 GAAAAAAACC
* *
16079471 AATCCTATCTCCCCGAAATTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCCCTAAGCAGT
1 AATCCTATCTCCCCGAAATTGTAGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTAAGCAGT
16079536 AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGGGAAGACTGAAGAAGCAAAT
66 AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGGGAAGACTGAAGAAGCAAAT
*
16079601 CTTATCTCCCTGAGGTTGCAATGGAGCAGATTGAAGTCGAT
131 CTTATCTCCCTAAGGTTGCAATGGAGCAGATTGAAGTCGAT
*
16079642 AATCCTATCTCCCCGAAATTATAGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTAAGCAGT
1 AATCCTATCTCCCCGAAATTGTAGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTAAGCAGT
* *
16079707 AGTGGAGCAGATCTCATCAAGTCTTATCTCCCTAAGCAGTAGTGGGGCAGACTGAAGAAGCAAAT
66 AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGGGAAGACTGAAGAAGCAAAT
*
16079772 CTTATCTCCCTAAGGTTGCAGTGGAGCAGATTGAAGTCGAT
131 CTTATCTCCCTAAGGTTGCAATGGAGCAGATTGAAGTCGAT
* * * *
16079813 AATCCTATCTCCCTGAAGTTGTAGTGGAACAGATTAAAGCCACA
1 AATCCTATCTCCCCGAAATTGTAGTGGAGCAGATTAAAACCACA
16079857 TCGGTGAATC
Statistics
Matches: 203, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
171 203 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (171 bp):
AATCCTATCTCCCCGAAATTGTAGTGGAGCAGATTAAAACCACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGGGAAGACTGAAGAAGCAAAT
CTTATCTCCCTAAGGTTGCAATGGAGCAGATTGAAGTCGAT
Found at i:16079822 original size:44 final size:42
Alignment explanation
Indices: 16079218--16079847 Score: 212
Period size: 44 Copynumber: 14.8 Consensus size: 42
16079208 AGAAGAAATC
* ** * * *
16079218 AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATAGTA
1 AATCTTATCTCCCT-AAGTTGTAGTGGAGCAGATTGAAGTCG-A
* ** * *
16079262 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCA-TC-A
1 AATCTTATCTCCCTAAGTTGTAGTGGAGCAGATTGAAGTCGA
* ** * **
16079302 AGTCTTATCTCCCTAAGCAGTAGCGGAGCAGACAGAAGAAATC--
1 AATCTTATCTCCCTAAGTTGTAGTGGAGCAGATTGAAG---TCGA
* ** * * * *
16079345 AATCCTATCTCCCTGAAGTTACAGTAGAG-AGGATTAAAATAGTA
1 AATCTTATCTCCCT-AAGTTGTAGTGGAGCA-GATTGAAGTCG-A
* ** * *
16079389 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCA-TC-A
1 AATCTTATCTCCCTAAGTTGTAGTGGAGCAGATTGAAGTCGA
** * * ****
16079429 AATCTTA-CTCCCTAAGCAGTAATGGAGCAGA-CGAAAAAAA
1 AATCTTATCTCCCTAAGTTGTAGTGGAGCAGATTGAAGTCGA
* * * * * ** *
16079469 CCAATCCTATCTCCCCGAAATTGCAGTGGAGCGGATT-AAAACCA
1 --AATCTTATCT-CCCTAAGTTGTAGTGGAGCAGATTGAAGTCGA
** * *
16079513 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCA-TC-A
1 -A-ATCTTATCTCCCTAAGTTGTAGTGGAGCAGATTGAAGTCGA
* ** * * * **
16079555 AGTCTTATCTCCCTAAGCAGTAGTGGGGAAGACTGAAGAAGCA
1 AATCTTATCTCCCTAAGTTGTAGTGGAGCAGATTGAAGTCG-A
* * *
16079598 AATCTTATCTCCCTGAGGTTGCAATGGAGCAGATTGAAGTCGA
1 AATCTTATCTCCCT-AAGTTGTAGTGGAGCAGATTGAAGTCGA
* * * * ** *
16079641 TAATCCTATCTCCCCGAAATTATAGTGGAGCAGATT-AAAACCA
1 -AATCTTATCT-CCCTAAGTTGTAGTGGAGCAGATTGAAGTCGA
** *
16079684 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCT-CA-TC-A
1 -A-ATCTTATCTCCCTAAGTTGTAGTGGAGCAGAT-TGAAGTCGA
* ** * * **
16079726 AGTCTTATCTCCCTAAGCAGTAGTGGGGCAGACTGAAGAAGCA
1 AATCTTATCTCCCTAAGTTGTAGTGGAGCAGATTGAAGTCG-A
*
16079769 AATCTTATCTCCCTAAGGTTGCAGTGGAGCAGATTGAAGTCGA
1 AATCTTATCTCCCTAA-GTTGTAGTGGAGCAGATTGAAGTCGA
* *
16079812 TAATCCTATCTCCCTGAAGTTGTAGTGGAACAGATT
1 -AATCTTATCTCCCT-AAGTTGTAGTGGAGCAGATT
16079848 AAAGCCACAT
Statistics
Matches: 431, Mismatches: 121, Indels: 68
0.70 0.20 0.11
Matches are distributed among these distances:
38 3 0.01
39 24 0.06
40 100 0.23
41 3 0.01
42 10 0.02
43 120 0.28
44 166 0.39
45 5 0.01
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.24
Consensus pattern (42 bp):
AATCTTATCTCCCTAAGTTGTAGTGGAGCAGATTGAAGTCGA
Found at i:16079900 original size:50 final size:49
Alignment explanation
Indices: 16079835--16079978 Score: 134
Period size: 47 Copynumber: 2.9 Consensus size: 49
16079825 CTGAAGTTGT
* *
16079835 AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTAC
1 AGTGGAAAAGATTAAAGCCACA-CGGCGAATCTTGCTTCCCTGACATTAC
* * * * * *
16079885 AGTTTG-AAAGATTAAAGCTACA--GCGAATCTTACTT-CCTAGATAGTGC
1 AG-TGGAAAAGATTAAAGCCACACGGCGAATCTTGCTTCCCT-GACATTAC
* *
16079932 AGTGGAAAAAATTAAAGCCACAGCGGCAAATCTTGCTTCCCTGACAT
1 AGTGGAAAAGATTAAAGCCACA-CGGCGAATCTTGCTTCCCTGACAT
16079979 CAGTTATGAG
Statistics
Matches: 72, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
46 5 0.07
47 32 0.44
50 30 0.42
51 5 0.07
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (49 bp):
AGTGGAAAAGATTAAAGCCACACGGCGAATCTTGCTTCCCTGACATTAC
Found at i:16089467 original size:55 final size:55
Alignment explanation
Indices: 16089378--16089609 Score: 315
Period size: 55 Copynumber: 4.2 Consensus size: 55
16089368 ATATTAAGTC
* * *
16089378 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * *
16089433 CGCACAC-TAGTGCTACATAATCAAATTCGCACACTCAGTGCTACAT-ATCAAGCT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACT
*
16089487 CGCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAA-CTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
16089543 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
16089599 CGCACACTTAG
1 CGCACACTTAG
16089610 CGCCAATCTC
Statistics
Matches: 156, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
54 29 0.19
55 81 0.52
56 46 0.29
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:16089519 original size:28 final size:28
Alignment explanation
Indices: 16089378--16089609 Score: 310
Period size: 27 Copynumber: 8.4 Consensus size: 28
16089368 ATATTAAGTC
* *
16089378 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
16089405 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
16089433 CGCACAC-TAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
16089460 CGCACACTCAGTGCTACAT-ATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
16089487 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
16089515 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
16089543 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * *
16089570 CGCACACTTAGTGCTACACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
16089599 CGCACACTTAG
1 CGCACACTTAG
16089610 CGCCAATCTC
Statistics
Matches: 185, Mismatches: 15, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
27 93 0.50
28 79 0.43
29 13 0.07
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:16096586 original size:15 final size:15
Alignment explanation
Indices: 16096562--16096608 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
16096552 ATAAAGTAAG
16096562 TAAT-AGAAAAATAA
1 TAATAAGAAAAATAA
16096576 TAATAAGAAAAATAA
1 TAATAAGAAAAATAA
* *
16096591 -AGTAAAGTAAAATAA
1 TAAT-AAGAAAAATAA
16096606 TAA
1 TAA
16096609 AATAAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 6 0.22
15 20 0.74
16 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (15 bp):
TAATAAGAAAAATAA
Found at i:16096607 original size:41 final size:39
Alignment explanation
Indices: 16096508--16096607 Score: 107
Period size: 41 Copynumber: 2.6 Consensus size: 39
16096498 TTGCAATAAT
* * *
16096508 AATAATAATAAACTAAAT-ATA-ATAAATATAAAAGAAA
1 AATAAAAATAAAGTAAATAATAGAAAAATATAAAAGAAA
*
16096545 AATAAAAATAAAGTAAGTAATAGAAAAATAATAATAAGAAA
1 AATAAAAATAAAGTAAATAATAGAAAAAT-ATAA-AAGAAA
*
16096586 AAT-AAAGTAAAGTAAAATAATA
1 AATAAAAATAAAGT-AAATAATA
16096608 AAATAAAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
37 15 0.29
38 3 0.06
39 5 0.10
40 13 0.25
41 16 0.31
ACGTcount: A:0.70, C:0.01, G:0.07, T:0.22
Consensus pattern (39 bp):
AATAAAAATAAAGTAAATAATAGAAAAATATAAAAGAAA
Found at i:16096618 original size:40 final size:39
Alignment explanation
Indices: 16096523--16096619 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 39
16096513 TAATAAACTA
* *
16096523 AATATAATAAATATAAAAGAAAAATAAAAATAAAGTAAGT
1 AATAAAATAAA-ATAAAAGAAAAATAAAAATAAAGTAAAT
*
16096563 AATAGAAA-AATAATAATAAGAAAAAT-AAAGTAAAGTAAAAT
1 AATA-AAATAA-AATAA-AAGAAAAATAAAAATAAAGT-AAAT
16096604 AATAAAATAAAATAAA
1 AATAAAATAAAATAAA
16096620 TAAATAATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
39 1 0.02
40 27 0.55
41 21 0.43
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (39 bp):
AATAAAATAAAATAAAAGAAAAATAAAAATAAAGTAAAT
Found at i:16096624 original size:13 final size:13
Alignment explanation
Indices: 16096584--16096632 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
16096574 AATAATAAGA
16096584 AAAATAAAGTAAAGT
1 AAAATAAA-TAAA-T
16096599 AAAAT-AATAAAAT
1 AAAATAAAT-AAAT
16096612 AAAATAAATAAAT
1 AAAATAAATAAAT
*
16096625 AATATAAA
1 AAAATAAA
16096633 GAAAGAACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 18 0.58
14 8 0.26
15 5 0.16
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:16100509 original size:105 final size:101
Alignment explanation
Indices: 16100326--16100523 Score: 288
Period size: 105 Copynumber: 1.9 Consensus size: 101
16100316 AATTGACGGA
* *
16100326 TAAGACCATGGTTGGACCATGACAGTGTTTAAATGTAAGACCATAGTTGGGCTATGACATTCTAA
1 TAAGACCATGGTTGGACCATGACAGTATTTAAATGTAAGACCATAGCTGGGCTATGACATTCTAA
*
16100391 TGAAAAGATCATAACTGGGTTATGGCACCTTGAACG
66 TGAAAAGACCATAACTGGGTTATGGCACCTTGAACG
* * *
16100427 TAAGACCATGGTTGGACCATGGCAGTATATATATATGTGTAAGACCATAGCTGGGCTATGGCATT
1 TAAGACCATGGTTGGACCATGACAGTAT-T-TA-A-ATGTAAGACCATAGCTGGGCTATGACATT
* *
16100492 CTGATGATAAGACCATAACTGGGTTATGGCAC
62 CTAATGAAAAGACCATAACTGGGTTATGGCAC
16100524 TACAAATGTA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
101 26 0.31
102 1 0.01
103 2 0.02
104 1 0.01
105 55 0.65
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAGTATTTAAATGTAAGACCATAGCTGGGCTATGACATTCTAA
TGAAAAGACCATAACTGGGTTATGGCACCTTGAACG
Found at i:16100536 original size:33 final size:32
Alignment explanation
Indices: 16100464--16100574 Score: 96
Period size: 33 Copynumber: 3.4 Consensus size: 32
16100454 TATATATATG
* * **
16100464 TGTAAGACCATAGCTGGGCTATGGCATTCTGA
1 TGTAAGACCATAACTGGGCTATGGCATACAAA
*
16100496 TGATAAGACCATAACTGGGTTATGGCACTACAAA
1 TG-TAAGACCATAACTGGGCTATGGCA-TACAAA
** * * * *
16100530 TGTAAGACCATGGCAGGGCCATGGCAATGCATA
1 TGTAAGACCATAACTGGGCTATGGC-ATACAAA
16100563 TGTAAGACCATA
1 TGTAAGACCATA
16100575 GTTGGACTGT
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
32 2 0.03
33 55 0.87
34 6 0.10
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.23
Consensus pattern (32 bp):
TGTAAGACCATAACTGGGCTATGGCATACAAA
Found at i:16100552 original size:105 final size:105
Alignment explanation
Indices: 16100359--16100555 Score: 279
Period size: 105 Copynumber: 1.9 Consensus size: 105
16100349 AGTGTTTAAA
* * **
16100359 TGTAAGACCATAGTTGGGCTATGACATTCTAATGAAAAGATCATAACTGGGTTATGGCACCTTGA
1 TGTAAGACCATAGCTGGGCTATGACATTCTAATGAAAAGACCATAACTGGGTTATGGCACCTCAA
**
16100424 ACGTAAGACCATGGTTGGACCATGGCAGTATATATATATG
66 ACGTAAGACCATGGCAGGACCATGGCAGTATATATATATG
* * *
16100464 TGTAAGACCATAGCTGGGCTATGGCATTCTGATGATAAGACCATAACTGGGTTATGGCA-CTACA
1 TGTAAGACCATAGCTGGGCTATGACATTCTAATGAAAAGACCATAACTGGGTTATGGCACCT-CA
* *
16100528 AATGTAAGACCATGGCAGGGCCATGGCA
65 AACGTAAGACCATGGCAGGACCATGGCA
16100556 ATGCATATGT
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
104 2 0.03
105 78 0.98
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.26
Consensus pattern (105 bp):
TGTAAGACCATAGCTGGGCTATGACATTCTAATGAAAAGACCATAACTGGGTTATGGCACCTCAA
ACGTAAGACCATGGCAGGACCATGGCAGTATATATATATG
Found at i:16127323 original size:12 final size:12
Alignment explanation
Indices: 16127302--16127331 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16127292 TCAGAGAGTT
*
16127302 ACACGTCCTAGC
1 ACACGGCCTAGC
16127314 ACACGGCCTAGC
1 ACACGGCCTAGC
16127326 ACACGG
1 ACACGG
16127332 GCTTGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.40, G:0.23, T:0.10
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:16127329 original size:54 final size:54
Alignment explanation
Indices: 16127243--16127355 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
16127233 CCAAGTTAGT
* * * * * *
16127243 GAGTTACACGGCCTAACGCATGGCTTGGCACACGGGCGTGTGTGGCAACTCAGA
1 GAGTTACACGGCCTAACACACGGCCTAGCACACGGGCGTGTGAGGCAACCCAGA
* * * *
16127297 GAGTTACACGTCCTAGCACACGGCCTAGCACACGGGCTTGTGAGGCAACCCAGT
1 GAGTTACACGGCCTAACACACGGCCTAGCACACGGGCGTGTGAGGCAACCCAGA
16127351 GAGTT
1 GAGTT
16127356 TGACAAGTGA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.23, C:0.27, G:0.31, T:0.19
Consensus pattern (54 bp):
GAGTTACACGGCCTAACACACGGCCTAGCACACGGGCGTGTGAGGCAACCCAGA
Found at i:16143234 original size:14 final size:17
Alignment explanation
Indices: 16143215--16143251 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
16143205 GACAAGAAAG
16143215 GAAGGAA-G-GACT-AA
1 GAAGGAAGGCGACTGAA
16143229 GAAGGAAGGCGACTGAA
1 GAAGGAAGGCGACTGAA
16143246 GAAGGA
1 GAAGGA
16143252 GAAGATGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.35
15 1 0.05
16 4 0.20
17 8 0.40
ACGTcount: A:0.46, C:0.08, G:0.41, T:0.05
Consensus pattern (17 bp):
GAAGGAAGGCGACTGAA
Found at i:16149176 original size:26 final size:26
Alignment explanation
Indices: 16149147--16149196 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
16149137 TCTCATCCCT
16149147 ATTTTACCCCTAGTAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGATG
16149173 ATTTTACCCCTAGTAAAATTTTGA
1 ATTTTACCCCTAGTAAAATTTTGA
16149197 GAAAATATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGATG
Found at i:16156026 original size:10 final size:10
Alignment explanation
Indices: 16156026--16156061 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
16156016 TAAGATTAAT
*
16156026 TTAATTAGGA
1 TTAATTAAGA
16156036 TTAATT-AGA
1 TTAATTAAGA
16156045 TTAATTAAGA
1 TTAATTAAGA
16156055 TTAATTA
1 TTAATTA
16156062 TATTTTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (10 bp):
TTAATTAAGA
Found at i:16156037 original size:15 final size:16
Alignment explanation
Indices: 16156005--16156060 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 16
16155995 ACTAAAGTTC
16156005 TTAATTTAAATTAAGA
1 TTAATTTAAATTAAGA
*
16156021 TTAATTT-AATTAGGA
1 TTAATTTAAATTAAGA
*
16156036 TTAATTAGATTAATTAAGA
1 TTAATT---TAAATTAAGA
16156055 TTAATT
1 TTAATT
16156061 ATATTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 13 0.38
16 7 0.21
18 1 0.03
19 13 0.38
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.46
Consensus pattern (16 bp):
TTAATTTAAATTAAGA
Found at i:16156399 original size:21 final size:22
Alignment explanation
Indices: 16156359--16156399 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16156349 CTTAGATATG
16156359 AAAAATGGCTAGTTTGTAAAGT
1 AAAAATGGCTAGTTTGTAAAGT
* *
16156381 AAAAATTGTTAGTTT-TAAA
1 AAAAATGGCTAGTTTGTAAA
16156400 CATAATAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.37
Consensus pattern (22 bp):
AAAAATGGCTAGTTTGTAAAGT
Found at i:16161392 original size:37 final size:37
Alignment explanation
Indices: 16161342--16161420 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
16161332 TTATTACGAA
* *
16161342 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
16161379 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
16161416 GTCTT
1 GTCTT
16161421 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:16161617 original size:47 final size:47
Alignment explanation
Indices: 16161539--16162028 Score: 820
Period size: 47 Copynumber: 10.4 Consensus size: 47
16161529 CCCTTCGGGA
* * * * * * *
16161539 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16161586 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16161633 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16161680 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16161727 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16161774 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16161823 CTTATCACATATATACACTTTCACATTCATC-CATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16161869 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16161916 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16161963 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16162010 CTTATCACATATATACACT
1 CTTATCACATATATACACT
16162029 GTCTTGGCTG
Statistics
Matches: 420, Mismatches: 20, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
46 45 0.11
47 329 0.78
49 46 0.11
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16161968 original size:236 final size:237
Alignment explanation
Indices: 16161539--16162024 Score: 843
Period size: 236 Copynumber: 2.1 Consensus size: 237
16161529 CCCTTCGGGA
* * * * *
16161539 CTTATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
16161602 ACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACA
* *
16161667 TCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
16161732 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
196 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
16161774 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
* *
16161839 ACTTTCACATTCATC-CATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACA
16161903 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
16161968 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
196 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
16162010 CTTATCACATATATA
1 CTTATCACATATATA
16162025 CACTGTCTTG
Statistics
Matches: 237, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
235 10 0.04
236 168 0.71
237 59 0.25
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (237 bp):
CTTATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:16165682 original size:40 final size:39
Alignment explanation
Indices: 16165571--16165745 Score: 198
Period size: 40 Copynumber: 4.5 Consensus size: 39
16165561 CCAGCATGAT
* * *
16165571 TGCTCTTCGGGAC-TAGCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGCCGGATATATCACTAGCACGAA
**
16165609 TGCTCTTCGG-GTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGC-CGGATATATCACTAGCACGAA
*
16165648 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAG-CCGGATATATCACTAGCACGAA
*
16165688 TGCTCTTCGGAACTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGAACTTAG-CCGGATAT-ATCAC-TAGCACGAA
*
16165729 AGC-CTTCGG-ACTTAGCC
1 TGCTCTTCGGAACTTAGCC
16165746 CGGACATCAT
Statistics
Matches: 121, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 16 0.13
39 35 0.29
40 55 0.45
41 9 0.07
42 6 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
TGCTCTTCGGAACTTAGCCGGATATATCACTAGCACGAA
Found at i:16165749 original size:79 final size:77
Alignment explanation
Indices: 16165572--16165745 Score: 194
Period size: 79 Copynumber: 2.2 Consensus size: 77
16165562 CAGCATGATT
* **
16165572 GCTCTTCGGGAC-TAGCCGGATATAACACCAGCACGAATGCTCTTCGGGTTTAGCACGGATATAT
1 GCTCTTC-GGACTTAGCCGGATACAACACCAGCACGAATGCTCTTCGGACTTAGCACGGATATAT
*
16165636 CACTAGCACGAAT
65 CACTAGCACGAAA
* *
16165649 GCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTC-CGGATA
1 GCTCTTCGG-ACTTAG-CCGGATACAACACCAGCACGAATGCTCTTCGG-ACTTAG-CACGGATA
*
16165713 TGGTCACTTAGCAC-AAA
62 T-ATCAC-TAGCACGAAA
16165730 GC-CTTCGGACTTAGCC
1 GCTCTTCGGACTTAGCC
16165746 CGGACATCAT
Statistics
Matches: 83, Mismatches: 7, Indels: 13
0.81 0.07 0.13
Matches are distributed among these distances:
76 2 0.02
77 9 0.11
78 5 0.06
79 35 0.42
80 17 0.20
81 9 0.11
82 6 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (77 bp):
GCTCTTCGGACTTAGCCGGATACAACACCAGCACGAATGCTCTTCGGACTTAGCACGGATATATC
ACTAGCACGAAA
Found at i:16166094 original size:29 final size:29
Alignment explanation
Indices: 16166055--16166133 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
16166045 CTTAATAATC
*
16166055 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
16166085 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
16166114 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
16166134 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:16168085 original size:37 final size:37
Alignment explanation
Indices: 16168035--16168113 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
16168025 TTATTACGAA
* *
16168035 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
16168072 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
16168109 GTCTT
1 GTCTT
16168114 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:16168310 original size:47 final size:47
Alignment explanation
Indices: 16168232--16168765 Score: 896
Period size: 47 Copynumber: 11.4 Consensus size: 47
16168222 CCCTTCGGGA
* * * * * * *
16168232 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16168279 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16168326 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16168373 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16168420 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16168467 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16168516 CTTATCACATATATACACTTTCACATTCATC-CATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16168561 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16168608 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16168653 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16168700 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16168747 CTTATCACATATATACACT
1 CTTATCACATATATACACT
16168766 GTCTTGGCTG
Statistics
Matches: 463, Mismatches: 18, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
45 84 0.18
46 12 0.03
47 321 0.69
49 46 0.10
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16168617 original size:22 final size:22
Alignment explanation
Indices: 16168589--16168662 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
16168579 TTTCACATTC
16168589 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
*** * *
16168611 ATCACATATACACTTTCA--CATT
1 ATCACATCGGC-CATT-AGGCCTT
16168633 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
16168656 ATCACAT
1 ATCACAT
16168663 ATATACACTT
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 21 0.57
23 14 0.38
24 1 0.03
ACGTcount: A:0.28, C:0.31, G:0.11, T:0.30
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:16172430 original size:40 final size:40
Alignment explanation
Indices: 16172301--16172481 Score: 201
Period size: 40 Copynumber: 4.6 Consensus size: 40
16172291 CCAGCATGAT
* * * *
16172301 TGCTCTTCGGGAC-TAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
***
16172340 TGCTCTTCGGGGTTTAG-CACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTC-CGGATATATCACTAGCACGAA
*
16172380 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
*
16172420 TGCTCTTCGGAACTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGAACTTAGTCCGGATAT-ATCAC-TAGCACGAA
* *
16172461 AGC-CTTCGG-ACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGTCCGGA
16172482 CATCATTCAA
Statistics
Matches: 125, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
39 23 0.18
40 87 0.70
41 9 0.07
42 6 0.05
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
Found at i:16172825 original size:29 final size:29
Alignment explanation
Indices: 16172786--16172864 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
16172776 CTTAATAATC
*
16172786 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
16172816 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
16172845 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
16172865 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:16174809 original size:37 final size:37
Alignment explanation
Indices: 16174759--16174837 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
16174749 TTATTACGAA
* *
16174759 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
16174796 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
16174833 GTCTT
1 GTCTT
16174838 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:16175034 original size:47 final size:47
Alignment explanation
Indices: 16174956--16175397 Score: 726
Period size: 47 Copynumber: 9.4 Consensus size: 47
16174946 CCCTTCGGGA
* * * * * * *
16174956 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16175003 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16175050 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16175097 CTTA--ACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16175142 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16175189 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16175238 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16175285 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16175332 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16175379 CTTATCACATATATACACT
1 CTTATCACATATATACACT
16175398 GTCTTGGCTG
Statistics
Matches: 374, Mismatches: 17, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
45 44 0.12
47 284 0.76
49 46 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16178972 original size:40 final size:40
Alignment explanation
Indices: 16178927--16179119 Score: 194
Period size: 40 Copynumber: 4.8 Consensus size: 40
16178917 CGAATACACG
* * * *
16178927 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* *** *
16178967 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * *
16179007 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
* * *
16179047 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATGG
1 TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATAT-A
* *
16179088 TCACTTAGCAC-AAAGC-CTTCGG-ACTTAGCCCG
1 TCAC-CAGCACGAATGCTCTTCGGAACTTAGCCCG
16179120 ACATCATTCA
Statistics
Matches: 132, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 9 0.07
40 109 0.83
41 8 0.06
42 6 0.05
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATATA
Found at i:16179467 original size:29 final size:29
Alignment explanation
Indices: 16179428--16179506 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
16179418 CTTAATAATC
*
16179428 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
16179458 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
16179487 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
16179507 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:16181460 original size:37 final size:37
Alignment explanation
Indices: 16181410--16181488 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
16181400 TTATTACAAA
* *
16181410 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
16181447 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
16181484 GTCTT
1 GTCTT
16181489 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:16181685 original size:47 final size:47
Alignment explanation
Indices: 16181607--16182049 Score: 726
Period size: 47 Copynumber: 9.4 Consensus size: 47
16181597 CCCTTCGGGA
* * * * * * *
16181607 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16181654 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16181701 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16181748 CTTATTACATATATACAC-TTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16181794 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16181841 CTTATCACATCTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGC
16181890 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16181937 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16181984 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16182031 CTTATCACATATATACACT
1 CTTATCACATATATACACT
16182050 GTCTTGGTTG
Statistics
Matches: 375, Mismatches: 18, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
46 44 0.12
47 285 0.76
49 46 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16188737 original size:30 final size:30
Alignment explanation
Indices: 16188702--16188788 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
16188692 CACGAGAATA
*
16188702 AGTTGCTCACACAAGATGACAATATATTAG
1 AGTTGCTCACACAAGATGACATTATATTAG
* * * * *
16188732 GGTTGCCCATACAA-ATTGACGTTATAATAG
1 AGTTGCTCACACAAGA-TGACATTATATTAG
* *
16188762 AATTGCTCACACAAGCTGACATTATAT
1 AGTTGCTCACACAAGATGACATTATAT
16188789 CGAGGTTACC
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
29 1 0.02
30 41 0.98
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (30 bp):
AGTTGCTCACACAAGATGACATTATATTAG
Found at i:16189887 original size:25 final size:26
Alignment explanation
Indices: 16189846--16189895 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
16189836 ATACTTTGAT
16189846 TAAACTTTAATTAATCTTA-ATTAAC
1 TAAACTTTAATTAATCTTACATTAAC
16189871 TAAACCTTTAATT-ATCTTACATTAA
1 TAAA-CTTTAATTAATCTTACATTAA
16189896 TCACCATTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (26 bp):
TAAACTTTAATTAATCTTACATTAAC
Found at i:16200871 original size:29 final size:30
Alignment explanation
Indices: 16200817--16200874 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 30
16200807 AATAGTATTT
16200817 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAATTTAATATT-AAGTGATTATCTTAA
*
16200848 TATTAAATTTAAT-TT-AGTGCTTATCTT
1 TATT-AATTTAATATTAAGTGATTATCTT
16200875 GTAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 11 0.44
31 6 0.24
32 8 0.32
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (30 bp):
TATTAATTTAATATTAAGTGATTATCTTAA
Found at i:16209211 original size:9 final size:9
Alignment explanation
Indices: 16209155--16209213 Score: 57
Period size: 9 Copynumber: 6.3 Consensus size: 9
16209145 CTAAAAACAA
*
16209155 AAATAAAAA
1 AAATAAAAT
16209164 AAATAAAA-
1 AAATAAAAT
16209172 AAATAAAAT
1 AAATAAAAT
* *
16209181 TACTAAAAT
1 AAATAAAAT
16209190 AAATGGAAAAAT
1 AAAT---AAAAT
16209202 AAATAAAAT
1 AAATAAAAT
16209211 AAA
1 AAA
16209214 ATTAAATTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
8 8 0.19
9 25 0.60
12 9 0.21
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:16212858 original size:6 final size:6
Alignment explanation
Indices: 16212847--16212883 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
16212837 ATTATCTCCC
*
16212847 CCTAAA CCTAAA CTTAAA CCTAAA CCTAAA CCTAAA C
1 CCTAAA CCTAAA CCTAAA CCTAAA CCTAAA CCTAAA C
16212884 TATAACTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (6 bp):
CCTAAA
Found at i:16225534 original size:21 final size:21
Alignment explanation
Indices: 16225483--16225534 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 21
16225473 CCGCTCGTGT
16225483 GGTTGGCCATGTGATTGAACA
1 GGTTGGCCATGTGATTGAACA
*
16225504 ---TGGACATGTGATTG-ACGA
1 GGTTGGCCATGTGATTGAAC-A
16225522 GGTTGGCCATGTG
1 GGTTGGCCATGTG
16225535 CGAATCATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
17 2 0.08
18 14 0.56
21 9 0.36
ACGTcount: A:0.21, C:0.13, G:0.37, T:0.29
Consensus pattern (21 bp):
GGTTGGCCATGTGATTGAACA
Found at i:16233495 original size:36 final size:36
Alignment explanation
Indices: 16233443--16233512 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
16233433 AACCACATAT
16233443 TTTAGATTTTAACTTTTATTTCATGTAAGTTTATAG
1 TTTAGATTTTAACTTTTATTTCATGTAAGTTTATAG
* *
16233479 TTTAGATTTTACCTTTTATTTGATGTAAGTTTAT
1 TTTAGATTTTAACTTTTATTTCATGTAAGTTTAT
16233513 CCTTAGATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.26, C:0.06, G:0.11, T:0.57
Consensus pattern (36 bp):
TTTAGATTTTAACTTTTATTTCATGTAAGTTTATAG
Found at i:16243178 original size:51 final size:49
Alignment explanation
Indices: 16243118--16243252 Score: 148
Period size: 51 Copynumber: 2.7 Consensus size: 49
16243108 TAGATAATGG
* *** *
16243118 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACTGGAAGGTTTTGA
1 TCAC-TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAAAG-TTTGA
* * *
16243169 TCACGTGTGTAGCACTATGTACAGGCTACTACGTGAACCAAAAAGTTTGA
1 TCAC-TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAAAGTTTGA
*
16243219 TCAC-GTGT-GTACTATGTGAAGGCTACTACGTGTA
1 TCACTGTGTAGTACTATGTGCAGGCTACTACGTGTA
16243253 TCGAATGATA
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
47 22 0.31
48 4 0.06
50 9 0.13
51 36 0.51
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (49 bp):
TCACTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAAAGTTTGA
Found at i:16260842 original size:16 final size:17
Alignment explanation
Indices: 16260821--16260852 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
16260811 TACTTCTCTT
16260821 TGGTTGATTAA-AATTA
1 TGGTTGATTAAGAATTA
16260837 TGGTTGATTAAGAATT
1 TGGTTGATTAAGAATT
16260853 TCTGTGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (17 bp):
TGGTTGATTAAGAATTA
Found at i:16262975 original size:50 final size:50
Alignment explanation
Indices: 16262869--16263061 Score: 217
Period size: 50 Copynumber: 3.7 Consensus size: 50
16262859 GGTAAGGAGA
*
16262869 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGATATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CG--A-TATGAGAGG
* *
16262925 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGG
* * **
16262975 TCCC-TCGTAAGATCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCAT-GTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGG
* * * *
16263025 TCCCATGAAAGACCATATCTGGGATATGACATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
16263062 GTATAGAAAA
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
49 1 0.01
50 79 0.66
51 2 0.02
53 1 0.01
55 1 0.01
56 36 0.30
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGG
Found at i:16274364 original size:3 final size:3
Alignment explanation
Indices: 16274356--16274383 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16274346 CTTTTGAACA
16274356 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16274384 GCTACCATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16276474 original size:19 final size:20
Alignment explanation
Indices: 16276447--16276485 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
16276437 TTAATGTAAC
*
16276447 AAATGTTAACTTTTGTAAAA
1 AAATGTTAAATTTTGTAAAA
*
16276467 AAAT-TTAAATTTTTTAAAA
1 AAATGTTAAATTTTGTAAAA
16276486 TTACAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.44
Consensus pattern (20 bp):
AAATGTTAAATTTTGTAAAA
Found at i:16277132 original size:24 final size:25
Alignment explanation
Indices: 16277073--16277134 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 25
16277063 ATAAGGCTTA
*
16277073 TTTTGTAAA-TTTTTAAAAAATGTCAT
1 TTTTGAAAATTTTTTAAAAAA--TCAT
16277099 TTTT-ATAAATTTTTTAAAAAA-CAT
1 TTTTGA-AAATTTTTTAAAAAATCAT
16277123 TTTTGAAAATTT
1 TTTTGAAAATTT
16277135 AATTTGAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
24 13 0.41
25 1 0.03
26 7 0.22
27 11 0.34
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (25 bp):
TTTTGAAAATTTTTTAAAAAATCAT
Found at i:16288415 original size:3 final size:3
Alignment explanation
Indices: 16288407--16288434 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16288397 CTTTTGAACA
16288407 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
16288435 GCTACCATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:16292905 original size:16 final size:17
Alignment explanation
Indices: 16292884--16292931 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
16292874 ATAAATATCA
16292884 ATAATTTTAT-TTAAAT
1 ATAATTTTATATTAAAT
* *
16292900 ATAATTTAATATTAATT
1 ATAATTTTATATTAAAT
16292917 ATAATTATTATATTA
1 ATAATT-TTATATTA
16292932 TTTTAAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 9 0.33
17 11 0.41
18 7 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATAATTTTATATTAAAT
Found at i:16297421 original size:20 final size:20
Alignment explanation
Indices: 16297396--16297443 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
16297386 AATTGAAATG
16297396 AATGTGATATTGAGTTATGA
1 AATGTGATATTGAGTTATGA
*
16297416 AATGTGATATTGGGTTATGA
1 AATGTGATATTGAGTTATGA
16297436 AATGTGAT
1 AATGTGAT
16297444 TTTATTCGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (20 bp):
AATGTGATATTGAGTTATGA
Found at i:16298783 original size:17 final size:18
Alignment explanation
Indices: 16298761--16298804 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
16298751 TAGTAGTTAT
*
16298761 AATCCATAA-CTAATAAA
1 AATCCATAATCTAAGAAA
* *
16298778 AATCCAAAATTTAAGAAA
1 AATCCATAATCTAAGAAA
16298796 AATCCATAA
1 AATCCATAA
16298805 AGGTCATATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.59, C:0.16, G:0.02, T:0.23
Consensus pattern (18 bp):
AATCCATAATCTAAGAAA
Found at i:16300581 original size:22 final size:22
Alignment explanation
Indices: 16300554--16300602 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
16300544 TAGGAATTTA
16300554 AAAAT-AAA-AAAATAACAAAAAT
1 AAAATAAAATAAAAT-A-AAAAAT
16300576 AAAATAAAATAAAATAAAAAAT
1 AAAATAAAATAAAATAAAAAAT
16300598 AAAAT
1 AAAAT
16300603 TCAGCCCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 16 0.64
23 4 0.16
24 5 0.20
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (22 bp):
AAAATAAAATAAAATAAAAAAT
Found at i:16300597 original size:17 final size:17
Alignment explanation
Indices: 16300554--16300602 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
16300544 TAGGAATTTA
*
16300554 AAAATAAAAAAATAACA-
1 AAAAT-AAAAAATAAAAT
16300571 AAAAT--AAAATAAAAT
1 AAAATAAAAAATAAAAT
16300586 AAAATAAAAAATAAAAT
1 AAAATAAAAAATAAAAT
16300603 TCAGCCCCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 8 0.29
15 5 0.18
17 15 0.54
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATAAAAAATAAAAT
Found at i:16300602 original size:5 final size:5
Alignment explanation
Indices: 16300554--16300594 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
16300544 TAGGAATTTA
*
16300554 AAAAT -AAA- AAAAT AACA- AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
16300595 AATAAAATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
4 9 0.29
5 22 0.71
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:16307552 original size:5 final size:5
Alignment explanation
Indices: 16307527--16307572 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
16307517 AGGGTATTTG
*
16307527 AAAAT -AAA- AAAAT AACA- AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
16307573 AAAGAAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
4 9 0.25
5 27 0.75
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:16313105 original size:13 final size:13
Alignment explanation
Indices: 16313087--16313113 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16313077 ACTTGTGAAC
16313087 TTTGATATATATA
1 TTTGATATATATA
16313100 TTTGATATATATA
1 TTTGATATATATA
16313113 T
1 T
16313114 GATACTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTTGATATATATA
Found at i:16313540 original size:20 final size:20
Alignment explanation
Indices: 16313515--16313562 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
16313505 AATTGAAATG
16313515 AATGTGATATTGAGTTATGA
1 AATGTGATATTGAGTTATGA
*
16313535 AATGTGATATTGGGTTATGA
1 AATGTGATATTGAGTTATGA
16313555 AATGTGAT
1 AATGTGAT
16313563 TTTATTTGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (20 bp):
AATGTGATATTGAGTTATGA
Found at i:16313901 original size:74 final size:74
Alignment explanation
Indices: 16313764--16313902 Score: 181
Period size: 74 Copynumber: 1.9 Consensus size: 74
16313754 GCACTGGGCC
** * * **
16313764 CAAATATCGTTGGTAAACCAAACTAAAGCTGGGCTCACTATTTGTTTGTCAGTTTGTTTGACTAG
1 CAAATATCGTTGGTAAACCAAACTAAAGCTGGGCTCACTATTCATTCGTCAGTTTATCCGACTAG
16313829 TGATAGGTG
66 TGATAGGTG
* * *
16313838 CAAATATCGTTGGTATAACC-AACTAAAGCTGGGCTTATTATTCATTCGTCGGTTTATCCGACTA
1 CAAATATCGTTGGTA-AACCAAACTAAAGCTGGGCTCACTATTCATTCGTCAGTTTATCCGACTA
16313902 G
65 G
16313903 CGCTGGGCGA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
74 51 0.93
75 4 0.07
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (74 bp):
CAAATATCGTTGGTAAACCAAACTAAAGCTGGGCTCACTATTCATTCGTCAGTTTATCCGACTAG
TGATAGGTG
Found at i:16319158 original size:20 final size:20
Alignment explanation
Indices: 16319129--16319180 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
16319119 AGATAACTGA
16319129 AATG-AATGTGATATTGAGT
1 AATGAAATGTGATATTGAGT
*
16319148 AATGAAATGTGATATTGGGT
1 AATGAAATGTGATATTGAGT
*
16319168 TATGAAATGTGAT
1 AATGAAATGTGAT
16319181 TGTATTCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (20 bp):
AATGAAATGTGATATTGAGT
Found at i:16324357 original size:11 final size:11
Alignment explanation
Indices: 16324343--16324405 Score: 96
Period size: 11 Copynumber: 5.9 Consensus size: 11
16324333 ATTTTTTTAA
16324343 TTTTAAAATAT
1 TTTTAAAATAT
16324354 TTTTAAAATAT
1 TTTTAAAATAT
16324365 TTTTAAAATACT
1 TTTTAAAATA-T
16324377 TTTTAAAAT-T
1 TTTTAAAATAT
16324387 TTTT-AAA-AT
1 TTTTAAAATAT
16324396 TTTTAAAATA
1 TTTTAAAATA
16324406 AAAATGGACC
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
9 8 0.17
10 8 0.17
11 22 0.46
12 10 0.21
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:16330671 original size:25 final size:25
Alignment explanation
Indices: 16330485--16330697 Score: 207
Period size: 25 Copynumber: 8.6 Consensus size: 25
16330475 ACACAAATTA
* * *
16330485 TCTGTAAAGCCTTTATGGTGAACTC
1 TCTGAAAAGCCTTTGTGGTGAACCC
* * *
16330510 TTTGAAGAGCTTTTGTGGTGAACCC
1 TCTGAAAAGCCTTTGTGGTGAACCC
* * **
16330535 TCTGCAAAGCTTTTGTGGCAAACCC
1 TCTGAAAAGCCTTTGTGGTGAACCC
*
16330560 TCTGAAAAGCCTTTGTGG-AAACCC
1 TCTGAAAAGCCTTTGTGGTGAACCC
*
16330584 TCTAAAAAGCCTTTGTGGTGAACCC
1 TCTGAAAAGCCTTTGTGGTGAACCC
**
16330609 TCTGAAAAGCCTTTGTGGCAAACCC
1 TCTGAAAAGCCTTTGTGGTGAACCC
* * *
16330634 TCTGTAAAGCCTTTCTGGTGAACTC
1 TCTGAAAAGCCTTTGTGGTGAACCC
* * *
16330659 TCTGGAAAA-CCTTTATAGCT-AACTC
1 TCT-GAAAAGCCTTTGT-GGTGAACCC
16330684 TCTGAAAAGCCTTT
1 TCTGAAAAGCCTTT
16330698 TTGGCATATT
Statistics
Matches: 158, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
24 28 0.18
25 124 0.78
26 6 0.04
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (25 bp):
TCTGAAAAGCCTTTGTGGTGAACCC
Found at i:16331062 original size:15 final size:15
Alignment explanation
Indices: 16331037--16331071 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
16331027 GACTCTATTT
*
16331037 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
16331051 TAATTAATATTAAGA
1 TAATTAATATTAAGA
16331066 TAATTA
1 TAATTA
16331072 TTAATGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:16338969 original size:30 final size:30
Alignment explanation
Indices: 16338904--16339091 Score: 145
Period size: 29 Copynumber: 6.4 Consensus size: 30
16338894 GGTCGTCATA
* * * **
16338904 ATCCCTTTTCATAATTTGATAACC-AAGTT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCC
16338933 ATCCCTTTTCATAGTTCGATAGCCGAAGCC
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCC
* ** *
16338963 ATCCCTTTTCATAGTTCGATGGTTGTCA-CC
1 ATCCCTTTTCATAGTTCGATAGCCG-AAGCC
* * * * *
16338993 ATCCGTTTTCATTGTT-GATGGTCGTCA-CC
1 ATCCCTTTTCATAGTTCGATAGCCG-AAGCC
* *
16339022 ATCCCTTTTCATA-ATCGATAGCCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCC
* * *
16339051 ATCCCTTTTCGTA-TTCGATAGTCGAAGCT
1 ATCCCTTTTCATAGTTCGATAGCCGAAGCC
16339080 ATCCCTTTTCAT
1 ATCCCTTTTCAT
16339092 TTGTCGATGA
Statistics
Matches: 132, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
28 2 0.02
29 88 0.67
30 41 0.31
31 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAGTTCGATAGCCGAAGCC
Found at i:16345388 original size:12 final size:12
Alignment explanation
Indices: 16345371--16345400 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16345361 AGCCACACAC
16345371 CCGTGTGCTAGG
1 CCGTGTGCTAGG
16345383 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
16345395 CTGTGT
1 CCGTGT
16345401 AACAGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.23, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:16346488 original size:30 final size:30
Alignment explanation
Indices: 16346454--16346592 Score: 95
Period size: 30 Copynumber: 4.7 Consensus size: 30
16346444 TCATCAAAGT
*
16346454 TATCCTTTTTCATAGTTCAACAGCCGAAGC
1 TATCCTTTTTCATAGTTCGACAGCCGAAGC
* * *** * *
16346484 TATCCCTTTTCATA-TTTGGTGGTCGTCA-C
1 TATCCTTTTTCATAGTTCGACAGCCG-AAGC
* * * *
16346513 CATCCTTTTTCATAATTTGACAACCGAAGC
1 TATCCTTTTTCATAGTTCGACAGCCGAAGC
* * *
16346543 TATCCCTTTTCATAGTTCTATAGCCGAAGC
1 TATCCTTTTTCATAGTTCGACAGCCGAAGC
*
16346573 CAT-CTCTTTTCATAGTTCGA
1 TATCCT-TTTTCATAGTTCGA
16346593 TGGTCGTCAC
Statistics
Matches: 79, Mismatches: 26, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
29 20 0.25
30 59 0.75
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (30 bp):
TATCCTTTTTCATAGTTCGACAGCCGAAGC
Found at i:16346606 original size:30 final size:29
Alignment explanation
Indices: 16346544--16346645 Score: 96
Period size: 30 Copynumber: 3.4 Consensus size: 29
16346534 AACCGAAGCT
* * * *
16346544 ATCCCTTTTCATAGTTCTATAGCCGAAGCC
1 ATCCCTTTTCATAGTT-AATGGTCGAAACC
* * **
16346574 ATCTCTTTTCATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAGTT-AATGGTCGAAACC
* *
16346604 ATCCCCTTTCATTGTTAATGGTCGAAACC
1 ATCCCTTTTCATAGTTAATGGTCGAAACC
16346633 ATCCCTTTTCATA
1 ATCCCTTTTCATA
16346646 ATCGATAGTT
Statistics
Matches: 57, Mismatches: 15, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
29 21 0.37
30 36 0.63
ACGTcount: A:0.22, C:0.28, G:0.13, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATAGTTAATGGTCGAAACC
Found at i:16346637 original size:89 final size:88
Alignment explanation
Indices: 16346455--16346645 Score: 204
Period size: 89 Copynumber: 2.1 Consensus size: 88
16346445 CATCAAAGTT
* * * * **
16346455 ATCCTTTTTCATAGTTCAACAGCCGAAGCTATCCCTTTTCATATTTGGTGGTCGTCACCATCCTT
1 ATCCCTTTTCATAGTTCAACAGCCGAAGCCATCCCTTTTCATATTCGATGGTCGTCACCATCCCC
* * *
16346520 TTTCATAATTTGACAACCGAAGCT
66 TTTCAT-ATTTAACAACCGAAACC
* * *
16346544 ATCCCTTTTCATAGTTCTATAGCCGAAGCCATCTCTTTTCATAGTTCGATGGTCGTCACCATCCC
1 ATCCCTTTTCATAGTTCAACAGCCGAAGCCATCCCTTTTCATA-TTCGATGGTCGTCACCATCCC
****
16346609 CTTTCAT-TGTTAATGGTCGAAACC
65 CTTTCATAT-TTAACAACCGAAACC
16346633 ATCCCTTTTCATA
1 ATCCCTTTTCATA
16346646 ATCGATAGTT
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
88 1 0.01
89 59 0.70
90 24 0.29
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (88 bp):
ATCCCTTTTCATAGTTCAACAGCCGAAGCCATCCCTTTTCATATTCGATGGTCGTCACCATCCCC
TTTCATATTTAACAACCGAAACC
Found at i:16346669 original size:29 final size:29
Alignment explanation
Indices: 16346637--16346727 Score: 112
Period size: 29 Copynumber: 3.2 Consensus size: 29
16346627 GAAACCATCC
* * *
16346637 CTTTTCATAATCGATAGTTGAAGCTATCT
1 CTTTTCGTATTCGATAGCTGAAGCTATCT
* * *
16346666 CTTTTTGTATTCCATAGCCGAAGCTATCT
1 CTTTTCGTATTCGATAGCTGAAGCTATCT
*
16346695 CTTTTCGTATTCGATAGCTGAAGCTTTC-
1 CTTTTCGTATTCGATAGCTGAAGCTATCT
16346723 CTTTT
1 CTTTT
16346728 TTATTTTTCG
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
28 5 0.10
29 47 0.90
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (29 bp):
CTTTTCGTATTCGATAGCTGAAGCTATCT
Found at i:16350209 original size:27 final size:28
Alignment explanation
Indices: 16350143--16350225 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 28
16350133 CACAACAGTT
16350143 AAGAATAACCTTTGTGGCGAACTCTAAA
1 AAGAATAACCTTTGTGGCGAACTCTAAA
* * *
16350171 AAGAATAACCTTTTTGGCGAACTTTGAA
1 AAGAATAACCTTTGTGGCGAACTCTAAA
* * *
16350199 AGGAAT-GCCTTTGTGGCAAACTCTAAA
1 AAGAATAACCTTTGTGGCGAACTCTAAA
16350226 TGAATTTCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 16 0.35
28 30 0.65
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (28 bp):
AAGAATAACCTTTGTGGCGAACTCTAAA
Found at i:16362437 original size:20 final size:22
Alignment explanation
Indices: 16362412--16362452 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16362402 AGACTTAATT
16362412 GAAAAA-TCAATAAA-AAAGTA
1 GAAAAATTCAATAAATAAAGTA
16362432 GAAAAATTTCAATAAATAAAG
1 GAAAAA-TTCAATAAATAAAG
16362453 GTCACATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.66, C:0.05, G:0.10, T:0.20
Consensus pattern (22 bp):
GAAAAATTCAATAAATAAAGTA
Found at i:16363091 original size:60 final size:60
Alignment explanation
Indices: 16363011--16363140 Score: 161
Period size: 60 Copynumber: 2.2 Consensus size: 60
16363001 TGACACCTCA
* * * * *
16363011 TGCTTGATACAATATAAACACCAGTACATAGTACCTGATAAAGTAATCATCGGCACATTG
1 TGCTTGATACAACACAAACACCAGTACAAAGTACCTGATAAAATAATCATCGGCACATAG
* ** * *
16363071 TGCTTGATACAACACGAACACTGGTACAAAGTACCTGATAAAATAATCATTGGTACATAG
1 TGCTTGATACAACACAAACACCAGTACAAAGTACCTGATAAAATAATCATCGGCACATAG
*
16363131 TACTTGATAC
1 TGCTTGATAC
16363141 TTTAAACCCT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.27
Consensus pattern (60 bp):
TGCTTGATACAACACAAACACCAGTACAAAGTACCTGATAAAATAATCATCGGCACATAG
Found at i:16368915 original size:27 final size:27
Alignment explanation
Indices: 16368882--16369115 Score: 378
Period size: 27 Copynumber: 8.6 Consensus size: 27
16368872 TAAATTGTGC
*
16368882 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
16368909 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
16368937 AGCACTAAGTGTGAGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
16368964 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
16368992 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
16369019 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
16369046 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
16369074 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
16369101 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16369116 GACTTAATAT
Statistics
Matches: 196, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
27 118 0.60
28 78 0.40
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:16368946 original size:55 final size:54
Alignment explanation
Indices: 16368882--16369115 Score: 378
Period size: 55 Copynumber: 4.3 Consensus size: 54
16368872 TAAATTGTGC
16368882 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
*
16368937 AGCACTAAGTGTGAGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
*
16368992 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * * *
16369046 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
16369101 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16369116 GACTTAATAT
Statistics
Matches: 170, Mismatches: 8, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
54 26 0.15
55 144 0.85
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:16369114 original size:82 final size:82
Alignment explanation
Indices: 16368882--16369115 Score: 389
Period size: 82 Copynumber: 2.9 Consensus size: 82
16368872 TAAATTGTGC
*
16368882 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAG
*
16368946 TGTGAGAATTGACTATGT
65 TGTGCGAATTGACTATGT
16368964 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
*
16369029 GTGCGAGTTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
16369046 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
16369111 GTGCG
66 GTGCG
16369116 GACTTAATAT
Statistics
Matches: 144, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
82 117 0.81
83 27 0.19
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:16370622 original size:15 final size:17
Alignment explanation
Indices: 16370602--16370640 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
16370592 AAAGTCGCAA
16370602 AAGTTAAATT-T-TTAT
1 AAGTTAAATTATATTAT
16370617 AAGTTAAATTATATTAT
1 AAGTTAAATTATATTAT
16370634 ATAGTTA
1 A-AGTTA
16370641 TAAAACCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
16 1 0.05
17 5 0.24
18 5 0.24
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (17 bp):
AAGTTAAATTATATTAT
Found at i:16374086 original size:16 final size:17
Alignment explanation
Indices: 16374065--16374096 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
16374055 TAAGTTCGTA
16374065 TTAAACTTACT-CAAAC
1 TTAAACTTACTGCAAAC
16374081 TTAAACTTACTGCAAA
1 TTAAACTTACTGCAAA
16374097 GGTTGTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.22, G:0.03, T:0.31
Consensus pattern (17 bp):
TTAAACTTACTGCAAAC
Found at i:16374343 original size:13 final size:13
Alignment explanation
Indices: 16374325--16374352 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16374315 CAATTTTCCC
16374325 TTTCATATAACCA
1 TTTCATATAACCA
16374338 TTTCATATAACCA
1 TTTCATATAACCA
16374351 TT
1 TT
16374353 CCCGTTTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCATATAACCA
Found at i:16377372 original size:13 final size:13
Alignment explanation
Indices: 16377356--16377423 Score: 59
Period size: 13 Copynumber: 5.4 Consensus size: 13
16377346 TTATAATAAA
16377356 TTCATATAACCAT
1 TTCATATAACCAT
* *
16377369 TTCATGTAATCAT
1 TTCATATAACCAT
*
16377382 TTCTTAT-A-CAT
1 TTCATATAACCAT
**
16377393 TTGGTATAACCAT
1 TTCATATAACCAT
* *
16377406 TTCATCTAAACAT
1 TTCATATAACCAT
16377419 TTCAT
1 TTCAT
16377424 TTTATCATTT
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
11 8 0.19
12 2 0.05
13 33 0.77
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.44
Consensus pattern (13 bp):
TTCATATAACCAT
Found at i:16400137 original size:9 final size:9
Alignment explanation
Indices: 16400121--16400153 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
16400111 GAGTTAAACG
16400121 AATCGAGTT
1 AATCGAGTT
*
16400130 ATTCGAGTT
1 AATCGAGTT
16400139 AATCGAGTT
1 AATCGAGTT
16400148 AATCGA
1 AATCGA
16400154 ATCAACTCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (9 bp):
AATCGAGTT
Found at i:16400424 original size:30 final size:31
Alignment explanation
Indices: 16400388--16400447 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
16400378 AAACCTTTTA
16400388 TTTTCCCCCAAAACTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
16400418 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
16400448 TCCCACCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.42, G:0.00, T:0.38
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:16402163 original size:21 final size:21
Alignment explanation
Indices: 16402137--16402182 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
16402127 ATGTCATCAA
16402137 AGTGAGAAACTTTCTAGGTTT
1 AGTGAGAAACTTTCTAGGTTT
* * *
16402158 AGTGAGGAGCTTTCTGGGTTT
1 AGTGAGAAACTTTCTAGGTTT
16402179 AGTG
1 AGTG
16402183 GGGTACTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.09, G:0.33, T:0.37
Consensus pattern (21 bp):
AGTGAGAAACTTTCTAGGTTT
Found at i:16404409 original size:43 final size:43
Alignment explanation
Indices: 16404361--16404453 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
16404351 TGTTTTCGTA
* * *
16404361 TAAGACCATGTATGGGACATTGGC-TTCGA-ATTTTATATACATG
1 TAAGACCATGTATGGGACAGTGGCATT-GATATGTGAT-TACATG
* *
16404404 TAAGACCCTGTCTGGGACAGTGGCATTGATATGTGATTACATG
1 TAAGACCATGTATGGGACAGTGGCATTGATATGTGATTACATG
16404447 TAAGACC
1 TAAGACC
16404454 GCGTCTGGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
43 36 0.84
44 7 0.16
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
TAAGACCATGTATGGGACAGTGGCATTGATATGTGATTACATG
Found at i:16418044 original size:19 final size:19
Alignment explanation
Indices: 16418020--16418149 Score: 215
Period size: 19 Copynumber: 6.8 Consensus size: 19
16418010 AATCTTCAAG
*
16418020 GATATGCAATCTTAGATAA
1 GATATGCAATCTTAGATAT
*
16418039 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
16418058 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
16418077 GATATGCAATCTTAGACAT
1 GATATGCAATCTTAGATAT
*
16418096 GATATACAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
16418115 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
16418134 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
16418150 AGATATGATT
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 102 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:16418185 original size:21 final size:23
Alignment explanation
Indices: 16418109--16418185 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 23
16418099 ATACAATCTT
*
16418109 AGATATG-ATATGTAATCTT---
1 AGATATGAATTTGTAATCTTAGA
* *
16418128 AGATATG-ATATGCAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
16418150 AGATATGATTTTGTAATCTTA-A
1 AGATATGAATTTGTAATCTTAGA
*
16418172 AGAT-TTAATTTGTA
1 AGATATGAATTTGTA
16418186 GGTACCTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
19 18 0.38
21 8 0.17
22 12 0.25
23 10 0.21
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.42
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:16418609 original size:43 final size:43
Alignment explanation
Indices: 16418548--16418669 Score: 217
Period size: 43 Copynumber: 2.8 Consensus size: 43
16418538 TTTTTAAAAT
16418548 AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTCCCCAC
*
16418591 AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTCCCCAC
* *
16418634 AAACGCCGCTAAAGGTCATGAGCTTTAGCGGCGCTT
1 AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTT
16418670 CTATTACAAT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 76 1.00
ACGTcount: A:0.24, C:0.33, G:0.23, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGGCCATGACCTTTAGCGGCGCTTTCCCCAC
Found at i:16420543 original size:41 final size:39
Alignment explanation
Indices: 16420460--16420543 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 39
16420450 GCACAATACA
**
16420460 ATATAAAAAGCATATATAAATATATGAATGTAGAGGCAT
1 ATATAAAAAGCATATATAAATATATGAATGTAGAGAAAT
* *
16420499 ATATAAAAAGCATATATAAATATATGTATGTCATAGAAACT
1 ATATAAAAAGCATATATAAATATATGAATGT-AGAGAAA-T
16420540 ATAT
1 ATAT
16420544 TCATTTATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 30 0.77
40 4 0.10
41 5 0.13
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (39 bp):
ATATAAAAAGCATATATAAATATATGAATGTAGAGAAAT
Found at i:16422799 original size:21 final size:22
Alignment explanation
Indices: 16422767--16422808 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
16422757 AGGATACCAA
16422767 TTTTAGGGGGGAAAATTAGGGG
1 TTTTAGGGGGGAAAATTAGGGG
*
16422789 TTTTA-GGGGGAAATTTAGGG
1 TTTTAGGGGGGAAAATTAGGG
16422809 AAAAAAAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.26, C:0.00, G:0.43, T:0.31
Consensus pattern (22 bp):
TTTTAGGGGGGAAAATTAGGGG
Found at i:16423359 original size:14 final size:14
Alignment explanation
Indices: 16423342--16423381 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
16423332 TCGTAAACCA
16423342 TAAACAATAATCCC
1 TAAACAATAATCCC
*
16423356 TAAACCCATAATCCC
1 TAAA-CAATAATCCC
*
16423371 TAAACTATAAT
1 TAAACAATAAT
16423382 GATAATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (14 bp):
TAAACAATAATCCC
Found at i:16424544 original size:40 final size:41
Alignment explanation
Indices: 16424494--16424807 Score: 244
Period size: 41 Copynumber: 7.7 Consensus size: 41
16424484 AATATTTTTT
* * *
16424494 GCGGTGCTTTTTCAAAAACGGCGCTAAA-AATAGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGACTAGAGCATTA
* * * * *
16424534 GCGGCGCTTTTTCAAAAAGGTCACTAAACACCT-GAACATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGA-CTAGAGCATTA
* * * *
16424575 GCGACGC-TTTTAAAAAACCGCCGCTAAAGCCCAGAGCATTA
1 GCGGCGCTTTTTCAAAAA-CGCCGCTAAAGACTAGAGCATTA
* * * * ** *
16424616 GCGGTGCTTTCTCAAAAACGTCGCTAAAGCCCCGAGCACTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGACTAGAGCATTA
* *
16424657 GCGGCGCTTTCTCAAAAACGCCGCTAAAG-CTCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGACTAGAGCATTA
* ** ** *
16424697 GCGGCACTTTTTCAAAAACGCCGCTAAATCCCCGACCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGACTAGAGCATTA
* * * * *
16424738 GCGTCAC-TTTTCTAAAAACGCAGCTAAAGGCCT-GAGAATTA
1 GCGGCGCTTTTTC-AAAAACGCCGCTAAA-GACTAGAGCATTA
* *
16424779 GTGGCGCTTTTTAAAAAACGCCGCTAAAG
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAG
16424808 CCCCGAAAAC
Statistics
Matches: 223, Mismatches: 42, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
40 75 0.34
41 133 0.60
42 15 0.07
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGACTAGAGCATTA
Found at i:16424602 original size:41 final size:40
Alignment explanation
Indices: 16424526--16424810 Score: 277
Period size: 41 Copynumber: 7.0 Consensus size: 40
16424516 GCTAAAAATA
* * *
16424526 GAGCATTAGCGGCGCTTTTTCAAAAAGGTCACTAAA-CACCT
1 GAGCATTAGCGGCGC-TTTTCAAAAACGCCGCTAAAGC-CCT
* * * *
16424567 GAACATTAGCGACGCTTTTAAAAAACCGCCGCTAAAGCCCA
1 GAGCATTAGCGGCGCTTTTCAAAAA-CGCCGCTAAAGCCCT
* * *
16424608 GAGCATTAGCGGTGCTTTCTCAAAAACGTCGCTAAAGCCCC
1 GAGCATTAGCGGCGCTTT-TCAAAAACGCCGCTAAAGCCCT
* *
16424649 GAGCACTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCTC-
1 GAGCATTAGCGGCGCTTT-TCAAAAACGCCGCTAAAGCCCT
* * *
16424689 GAGCATTAGCGGCACTTTTTCAAAAACGCCGCTAAATCCCC
1 GAGCATTAGCGGCGC-TTTTCAAAAACGCCGCTAAAGCCCT
* * * * *
16424730 GACCATTAGCGTCACTTTTCTAAAAACGCAGCTAAAGGCCT
1 GAGCATTAGCGGCGCTTTTC-AAAAACGCCGCTAAAGCCCT
* * *
16424771 GAGAATTAGTGGCGCTTTTTAAAAAACGCCGCTAAAGCCC
1 GAGCATTAGCGGCGC-TTTTCAAAAACGCCGCTAAAGCCC
16424811 CGAAAACTCA
Statistics
Matches: 202, Mismatches: 35, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
40 46 0.23
41 145 0.72
42 11 0.05
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (40 bp):
GAGCATTAGCGGCGCTTTTCAAAAACGCCGCTAAAGCCCT
Found at i:16424643 original size:82 final size:81
Alignment explanation
Indices: 16424525--16424814 Score: 314
Period size: 82 Copynumber: 3.6 Consensus size: 81
16424515 CGCTAAAAAT
* * * *
16424525 AGAGCATTAGCGGCGCTTTTTCAAAAAGGTCACTAAA-CACCTGAACATTAGCGACGCTTTTAAA
1 AGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGC-CCCGAACATTAGCGACGCTTTTAAA
16424589 AAACCGCCGCTAAAGCCC
65 AAA-CGCCGCTAAAGCCC
* * * * * * *
16424607 AGAGCATTAGCGGTGCTTTCTCAAAAACGTCGCTAAAGCCCCGAGCACTAGCGGCGCTTTCTCAA
1 AGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAACATTAGCGACGCTTT-TAAA
*
16424672 AAACGCCGCTAAAGCTC
65 AAACGCCGCTAAAGCCC
* * * * * *
16424689 -GAGCATTAGCGGCACTTTTTCAAAAACGCCGCTAAATCCCCGACCATTAGCGTCACTTTTCTAA
1 AGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAACATTAGCGACGCTTTT-AAA
* *
16424753 AAACGCAGCTAAAGGCC
65 AAACGCCGCTAAAGCCC
* * * *
16424770 TGAGAATTAGTGGCGCTTTTTAAAAAACGCCGCTAAAGCCCCGAA
1 AGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAA
16424815 AACTCAAAAA
Statistics
Matches: 175, Mismatches: 29, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 66 0.38
82 101 0.58
83 7 0.04
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (81 bp):
AGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAACATTAGCGACGCTTTTAAAA
AACGCCGCTAAAGCCC
Found at i:16424699 original size:122 final size:122
Alignment explanation
Indices: 16424494--16424808 Score: 309
Period size: 122 Copynumber: 2.6 Consensus size: 122
16424484 AATATTTTTT
** * * *
16424494 GCGGTGCTTTTTCAAAAACGGCGCTAAA-AATAGAGCATTAGCGGCGCTTTTTCAAAAAGGTCAC
1 GCGGTGC-TTTTCAAAAAC-GCGCTAAAGACCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
* *
16424558 TAAA-CACCTGAACATTAGCGACGC-TTTTAAAAAACCGCCGCTAAAGCCCAGAGCATTA
64 TAAAGCACCTGAACATTAGCGACACTTTTTAAAAAA-CGCCGCTAAAGCCCAGACCATTA
* * * *
16424616 GCGGTGCTTTCTCAAAAACGTCGCTAAAGCCCCGAGCACTAGCGGCGCTTTCTCAAAAACGCCGC
1 GCGGTGCTTT-TCAAAAACG-CGCTAAAGACCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGC
* * * * * *
16424681 TAAAGC-TC-GAGCATTAGCGGCACTTTTTCAAAAACGCCGCTAAATCCCCGACCATTA
64 TAAAGCACCTGAACATTAGCGACACTTTTTAAAAAACGCCGCTAAAGCCCAGACCATTA
* * * * * *
16424738 GC-GTCACTTTTCTAAAAACGCAGCTAAAGGCCTGAGAATTAGTGGCGCTTTTTAAAAAACGCCG
1 GCGGT-GCTTTTC-AAAAACGC-GCTAAAGACCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCG
16424802 CTAAAGC
63 CTAAAGC
16424809 CCCGAAAACT
Statistics
Matches: 160, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
121 9 0.06
122 109 0.68
123 41 0.26
124 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (122 bp):
GCGGTGCTTTTCAAAAACGCGCTAAAGACCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTA
AAGCACCTGAACATTAGCGACACTTTTTAAAAAACGCCGCTAAAGCCCAGACCATTA
Found at i:16424710 original size:163 final size:163
Alignment explanation
Indices: 16424494--16424813 Score: 392
Period size: 163 Copynumber: 2.0 Consensus size: 163
16424484 AATATTTTTT
* * * * * *
16424494 GCGGTGCTTTTTCAAAAACGGCGCTAAAAATAGAGCATTAGCGGCGCTTTTTCAAAAAGGTCACT
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAATAGAGCATTAGCGGCACTTTTTCAAAAACGCCACT
* * * * *
16424559 AAA-CACCTGAACATTAGCGACGCTTTT-AAAAAACCGCCGCTAAAGCCCAGAGCATTAGCGGTG
66 AAATC-CCCGAACATTAGCGACACTTTTCAAAAAA-CGCAGCTAAAGCCCAGAGAATTAGCGGCG
* *
16424622 CTTTCTCAAAAACGTCGCTAAAGCCCCGAGCACTA
129 CTTTCTAAAAAACGCCGCTAAAGCCCCGAGCACTA
** * *
16424657 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCTCGAGCATTAGCGGCACTTTTTCAAAAACGCCGCT
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAATAGAGCATTAGCGGCACTTTTTCAAAAACGCCACT
* * * * * *
16424722 AAATCCCCGACCATTAGCGTCACTTTTCTAAAAACGCAGCTAAAGGCCTGAGAATTAGTGGCGCT
66 AAATCCCCGAACATTAGCGACACTTTTCAAAAAACGCAGCTAAAGCCCAGAGAATTAGCGGCGCT
*
16424787 TTTTAAAAAACGCCGCTAAAGCCCCGA
131 TTCTAAAAAACGCCGCTAAAGCCCCGA
16424814 AAACTCAAAA
Statistics
Matches: 131, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
163 125 0.95
164 6 0.05
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (163 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAAATAGAGCATTAGCGGCACTTTTTCAAAAACGCCACT
AAATCCCCGAACATTAGCGACACTTTTCAAAAAACGCAGCTAAAGCCCAGAGAATTAGCGGCGCT
TTCTAAAAAACGCCGCTAAAGCCCCGAGCACTA
Found at i:16425216 original size:17 final size:17
Alignment explanation
Indices: 16425177--16425210 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16425167 ATCTTGTATC
16425177 ATTATTATTATTATTTT
1 ATTATTATTATTATTTT
*
16425194 ATTATTATTTTTATTTT
1 ATTATTATTATTATTTT
16425211 TATATTCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
ATTATTATTATTATTTT
Found at i:16431858 original size:88 final size:88
Alignment explanation
Indices: 16431707--16432020 Score: 457
Period size: 88 Copynumber: 3.6 Consensus size: 88
16431697 GTGAAGATAA
* * * *
16431707 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCATTCTTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
16431772 GTAGCGGAGTAGGTTAAAAATAG
66 GTAGCGGAGCAAGTTAAAAATAG
* *
16431795 CAGATCTTGCCTTCTTGCACCGACAGTGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
16431860 GCAGCGGAGCAAGTTAAAAATAG
66 GTAGCGGAGCAAGTTAAAAATAG
* * *
16431883 CAGATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACTAGTCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
** * *
16431948 GTAGCAAAACAAGTTAAAAATAT
66 GTAGCGGAGCAAGTTAAAAATAG
* * *
16431971 CAGATCTTACCTTCCTGCACCGACAGCGAAGCAGATCGATGACCCCAGCC
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
16432021 CTATCTCCCT
Statistics
Matches: 203, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 203 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.21
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GTAGCGGAGCAAGTTAAAAATAG
Found at i:16431935 original size:44 final size:43
Alignment explanation
Indices: 16431799--16431943 Score: 105
Period size: 44 Copynumber: 3.3 Consensus size: 43
16431789 AAATAGCAGA
* *
16431799 TCTTGCCTTCTTGCACCGACAGTGAAGCAGATCGAAGACACCAG
1 TCTTGCCTCCCTGCACCGACAGTGAAGCAGATCGAAGACA-CAG
* **** * * ** * *
16431843 CCTTGCCTCCCTGGGTTG-CAGCGGAGCA-AGTTAAAAATAGCAG
1 TCTTGCCTCCCTGCACCGACAGTGAAGCAGA-TCGAAGACA-CAG
*
16431886 ATCTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACTAG
1 -TCTTGCCTCCCTGCACCGACAGTGAAGCAGATCGAAGACAC-AG
16431931 TCTTGCCTCCCTG
1 TCTTGCCTCCCTG
16431944 GGTTGTAGCA
Statistics
Matches: 69, Mismatches: 27, Indels: 10
0.65 0.25 0.09
Matches are distributed among these distances:
42 1 0.01
43 16 0.23
44 36 0.52
45 15 0.22
46 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (43 bp):
TCTTGCCTCCCTGCACCGACAGTGAAGCAGATCGAAGACACAG
Found at i:16432514 original size:44 final size:42
Alignment explanation
Indices: 16432461--16432799 Score: 213
Period size: 44 Copynumber: 7.8 Consensus size: 42
16432451 GAAAATGGTG
16432461 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTAAT
1 AATCTTATC-TCCTGAAGTTGCAGTGGAGCAGATTAAAG-TAAT
* * * * * *
16432505 AATCCTATCTCCCTGAAGTCGTAGTGGAGCAGATTAAAATCAC
1 AATCTTATCT-CCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
* * * * *
16432548 AGATCTTATCTCTCTGAAGTTGCAG-AGAGTAGATCACA-T-CT
1 A-ATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
** * *
16432589 CGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACT-AAGTAAGC
1 AATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTAAAGTAA-T
* * * * * **
16432632 AAGCCTTATCCTTCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGT
1 AA-TCTTAT-CTCCTGAAGTTGCAGTGGA-GCAGATTAAAG-TAAT
*
16432677 GAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 -AATCTTATCTCC-TGAAGTTGCAGTGGAGCAGATTAAAG-TAAT
* ** * * *
16432722 AATCCTATCTCGCTGAAGTTGCAGTGGAGTGGATTAAAATCAC
1 AATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
*
16432765 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATT
1 A-ATCTTATCTC-CTGAAGTTGCAGTGGAGCAGATT
16432800 GCACCGGGTC
Statistics
Matches: 224, Mismatches: 53, Indels: 37
0.71 0.17 0.12
Matches are distributed among these distances:
39 1 0.00
40 21 0.09
41 7 0.03
42 1 0.00
43 25 0.11
44 131 0.58
45 33 0.15
46 5 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (42 bp):
AATCTTATCTCCTGAAGTTGCAGTGGAGCAGATTAAAGTAAT
Found at i:16432710 original size:45 final size:44
Alignment explanation
Indices: 16432590--16432950 Score: 158
Period size: 44 Copynumber: 8.2 Consensus size: 44
16432580 ATCACATCTC
16432590 GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
1 GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
* * * * *
16432634 GCCTTATC-CTTCTGAAGTTGTAGT-GAGGCAGACTGAAG-ATGGTGAA
1 GTCTTATCTCCT-TGAAGTTGCAGTGGA-GCAGACT-AAGTA-AG-CAA
* * *
16432680 -TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-TAA
1 GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCAA
* ** * *
16432724 -TCCTATCTCGC-TGAAGTTGCAGTGGAGTGGATTAA--AATCACA
1 GTCTTATCTC-CTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA-A
* * * * **
16432766 GATCTTATCT-CTCTGAAGTTGCAG-AGAGCAGA-T-TG-CACCGG
1 G-TCTTATCTCCT-TGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
* * * * * *
16432807 GTCTTATCTCCCTAAAGTTGCAGTGGAGCAGTCCCAAGAAAGCGA
1 GTCTTATCTCCTTGAAGTTGCAGTGGAGCAG-ACTAAGTAAGCAA
* * * * *
16432852 GTCTTA-CTCCCTGAAGTTGTAGTGGAGTAGACTCAAGAAATCAA
1 GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCAA
* * * * * *
16432896 GTCTTATCCCCCTGAAATTGCAGTGGGGCAGACTAAATAAACAA
1 GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
* *
16432940 ATCTCATCTCC
1 GTCTTATCTCC
16432951 CTAAATTTGT
Statistics
Matches: 240, Mismatches: 52, Indels: 50
0.70 0.15 0.15
Matches are distributed among these distances:
40 20 0.08
41 9 0.04
42 5 0.02
43 12 0.05
44 125 0.52
45 62 0.26
46 6 0.03
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
GTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAA
Done.