Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 117 of 141
Found at i:34481062 original size:44 final size:44
Alignment explanation
Indices: 34480999--34481109 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
34480989 TCAGTCTACT
* ***
34480999 CCACTGCAACTTCAGGGAGATAAGACTTG-TAACTTCAATTTGTC
1 CCACTGCAACTTCAAGGAGATAAGA-TTGATAACTTCAACCGGTC
* * *
34481043 CCACTGCAACTTTAAGGAGATAAGATTGATATCTTCAACCGGTT
1 CCACTGCAACTTCAAGGAGATAAGATTGATAACTTCAACCGGTC
*
34481087 CCACTGCAACTTCAAGGAAATAA
1 CCACTGCAACTTCAAGGAGATAA
34481110 AGGTGGTTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 3 0.05
44 54 0.95
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (44 bp):
CCACTGCAACTTCAAGGAGATAAGATTGATAACTTCAACCGGTC
Found at i:34481535 original size:89 final size:88
Alignment explanation
Indices: 34481381--34481772 Score: 326
Period size: 89 Copynumber: 4.4 Consensus size: 88
34481371 CTACTTAGGG
* * ** * * * *
34481381 AGACAAGATCTACAATCTTCAACCTAATCCACTGCAAACTCAGAGAGGCAAGGTTGGTGCTTTCG
1 AGACAAGATCTGCTATCTTCAGTCTACTCCGCTGCAAACTCAGGGAGGCAAGGCTGGTG-TTTCG
*
34481446 ATCTGCTTCACTGCCAGTACAGGA
65 ATCTACTTCACTGCCAGTACAGGA
* * * * * * *
34481470 AGACAAGATTTGCTGTTTTTAGTTTGCTCCGTTGCAAACTCAGGGAGGCAAGGCTGGTGTATTCG
1 AGACAAGATCTGCTATCTTCAGTCTACTCCGCTGCAAACTCAGGGAGGCAAGGCTGGTGT-TTCG
*
34481535 ATCTACTTCACTGCCAATACAGGA
65 ATCTACTTCACTGCCAGTACAGGA
* * * * * * *
34481559 AGACAAGATCTGCTATCTTCAGTCTACTTCGCTGCAAACACAGGAAGACAAGATCTGCTATTTTC
1 AGACAAGATCTGCTATCTTCAGTCTACTCCGCTGCAAACTCAGGGAGGCAAG-GCTGGT-GTTTC
** *
34481624 GATCTACTTTGCTGCCAGTATAGGA
64 GATCTACTTCACTGCCAGTACAGGA
*** * * * * *
34481649 AGACAAGATCTGCTATCTTC-GATCTACTTTACTGCCAATA-T-AGGAAGACAAGATCTGCTATC
1 AGACAAGATCTGCTATCTTCAG-TCTACTCCGCTG-CAA-ACTCAGGGAGGCAAG-GCTGGTGT-
*
34481711 TTCGATCTACTTCACTGCCAATACAGGA
61 TTCGATCTACTTCACTGCCAGTACAGGA
*
34481739 AGACAAGA-CTGCTATCTTC-GATCTACTTCGCTGC
1 AGACAAGATCTGCTATCTTCAG-TCTACTCCGCTGC
34481773 CAATACAGGA
Statistics
Matches: 251, Mismatches: 45, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
88 2 0.01
89 136 0.54
90 108 0.43
91 4 0.02
92 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (88 bp):
AGACAAGATCTGCTATCTTCAGTCTACTCCGCTGCAAACTCAGGGAGGCAAGGCTGGTGTTTCGA
TCTACTTCACTGCCAGTACAGGA
Found at i:34481602 original size:45 final size:45
Alignment explanation
Indices: 34481531--34481817 Score: 425
Period size: 45 Copynumber: 6.4 Consensus size: 45
34481521 GGCTGGTGTA
34481531 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
* * * *
34481576 TTC-AGTCTACTTCGCTGCAAACACAGGAAGACAAGATCTGCTATT
1 TTCGA-TCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
** * *
34481621 TTCGATCTACTTTGCTGCCAGTATAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
* *
34481666 TTCGATCTACTTTACTGCCAATATAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
34481711 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGA-CTGCTATC
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
*
34481755 TTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
* * *
34481800 TTCAATCCACTCCACTGC
1 TTCGATCTACTTCACTGC
34481818 AACTCTAGGG
Statistics
Matches: 220, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
44 44 0.20
45 175 0.80
46 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (45 bp):
TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATC
Found at i:34481649 original size:90 final size:90
Alignment explanation
Indices: 34481441--34481817 Score: 411
Period size: 89 Copynumber: 4.2 Consensus size: 90
34481431 AGGTTGGTGC
* * * * ** * * * *
34481441 TTTCGATCTGCTTCACTGCCAGTACAGGAAGACAAGATTTGCTGT-TTTTAGTTTGCTCCGTTGC
1 TTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTCGA-TCTACTTCGCTGC
* * * * * *
34481505 AAACTCAGGGAGGCAAG-GCTGGTGT
65 AAACACAGGAAGACAAGATCTGCTAT
*
34481530 ATTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTC-AGTCTACTTCGCTGC
1 TTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTCGA-TCTACTTCGCTGC
34481594 AAACACAGGAAGACAAGATCTGCTAT
65 AAACACAGGAAGACAAGATCTGCTAT
** * * ** *
34481620 TTTCGATCTACTTTGCTGCCAGTATAGGAAGACAAGATCTGCTATCTTCGATCTACTTTACTGCC
1 TTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCA
* *
34481685 AATATAGGAAGACAAGATCTGCTAT
66 AACACAGGAAGACAAGATCTGCTAT
* *
34481710 CTTCGATCTACTTCACTGCCAATACAGGAAGACAAGA-CTGCTATCTTCGATCTACTTCGCTGCC
1 TTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCA
*
34481774 AATACAGGAAGACAAGATCTGCTAT
66 AACACAGGAAGACAAGATCTGCTAT
* * * *
34481799 CTTCAATCCACTCCACTGC
1 TTTCGATCTACTTCACTGC
34481818 AACTCTAGGG
Statistics
Matches: 248, Mismatches: 37, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
89 130 0.52
90 117 0.47
91 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (90 bp):
TTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCGCTGCA
AACACAGGAAGACAAGATCTGCTAT
Found at i:34484069 original size:6 final size:6
Alignment explanation
Indices: 34484060--34484100 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
34484050 TTGGCCTCTC
* *
34484060 CTTTTT C-TTTT CTTTTT CTTTTT CCTTTG C-TTTT CTTTTT C
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C
34484101 CATCATTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
5 9 0.30
6 21 0.70
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (6 bp):
CTTTTT
Found at i:34484074 original size:11 final size:11
Alignment explanation
Indices: 34484060--34484100 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
34484050 TTGGCCTCTC
34484060 CTTTTTCTTTT
1 CTTTTTCTTTT
34484071 CTTTTTCTTTTT
1 CTTTTTC-TTTT
* *
34484083 CCTTTGCTTTT
1 CTTTTTCTTTT
34484094 CTTTTTC
1 CTTTTTC
34484101 CATCATTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:34484101 original size:17 final size:18
Alignment explanation
Indices: 34484060--34484101 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
34484050 TTGGCCTCTC
*
34484060 CTTTTT-CTTTTCTTTTT
1 CTTTTTCCTTTGCTTTTT
34484077 CTTTTTCCTTTGC-TTTT
1 CTTTTTCCTTTGCTTTTT
34484094 CTTTTTCC
1 CTTTTTCC
34484102 ATCATTTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (18 bp):
CTTTTTCCTTTGCTTTTT
Found at i:34484123 original size:9 final size:9
Alignment explanation
Indices: 34484106--34484155 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
34484096 TTTTCCATCA
*
34484106 TTTTCATTT
1 TTTTGATTT
34484115 TTTTGATTT
1 TTTTGATTT
34484124 TTTTGA--T
1 TTTTGATTT
34484131 TTTTGATTTT
1 TTTTGA-TTT
*
34484141 TTTTAATTT
1 TTTTGATTT
34484150 TTTTGA
1 TTTTGA
34484156 AACTCATAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
7 7 0.20
9 22 0.63
10 6 0.17
ACGTcount: A:0.14, C:0.02, G:0.08, T:0.76
Consensus pattern (9 bp):
TTTTGATTT
Found at i:34484150 original size:16 final size:16
Alignment explanation
Indices: 34484115--34484150 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
34484105 ATTTTCATTT
*
34484115 TTTTGATTTTTTTGAT
1 TTTTGATTTTTTTGAA
*
34484131 TTTTGATTTTTTTTAA
1 TTTTGATTTTTTTGAA
34484147 TTTT
1 TTTT
34484151 TTTGAAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (16 bp):
TTTTGATTTTTTTGAA
Found at i:34487155 original size:51 final size:49
Alignment explanation
Indices: 34487034--34487266 Score: 233
Period size: 51 Copynumber: 4.6 Consensus size: 49
34487024 AAAGCGATGG
* *** *
34487034 TCACGTGTGTAGTACTATGTGTAGGCTACTACATG-TACCGGA-ATGAAAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACT--ATGATACCGGATA-GTTTGA
* *
34487084 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGCTTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATG-ATACCGGATAG-TTTGA
*
34487135 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTG-TACCGGATA-TTAATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA--TGATACCGGATAGTT--TGA
* *
34487186 TCACGTGTGTAGTACTATGTGCAGGCTATTACGTGA-ACCGGAAAGTTTGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA--TGATACCGGATAGTTTGA
*
34487236 TCACGTGTGTAGTACTATGTGAAGGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
34487267 CGTGTATTGA
Statistics
Matches: 158, Mismatches: 15, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
48 3 0.02
49 2 0.01
50 66 0.42
51 83 0.53
52 2 0.01
53 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGATACCGGATAGTTTGA
Found at i:34487155 original size:101 final size:100
Alignment explanation
Indices: 34487034--34487272 Score: 347
Period size: 101 Copynumber: 2.4 Consensus size: 100
34487024 AAAGCGATGG
* * *
34487034 TCACGTGTGTAGTACTATGTGTAGGCTACTACATGTACCGGA-ATGAAAGGTCGCATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGGATATGAAAGGTCACATGTGTAGTA
*
34487098 CTATGTGCAGGCTACTA-TGCATACCGGATAGCTTTGA
66 CTATGTGCAGGCTACTACTG-A-ACCGGAAAG-TTTGA
* * * *
34487135 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATATTAATGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGGATATGAAAGGTCACATGTGTAGTA
*
34487200 CTATGTGCAGGCTATTACGTGAACCGGAAAGTTTGA
66 CTATGTGCAGGCTACTAC-TGAACCGGAAAGTTTGA
34487236 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
34487273 TTGAATGATA
Statistics
Matches: 126, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
101 81 0.64
102 42 0.33
103 1 0.01
104 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGGATATGAAAGGTCACATGTGTAGTA
CTATGTGCAGGCTACTACTGAACCGGAAAGTTTGA
Found at i:34487299 original size:101 final size:102
Alignment explanation
Indices: 34487034--34487306 Score: 342
Period size: 101 Copynumber: 2.7 Consensus size: 102
34487024 AAAGCGATGG
* * *
34487034 TCACGTGTGTAGTACTATGTGTAGGCTACTACATGTACCGGAATGA-AA-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACC-GAATGATAATGGTCACATGTGTAGT
*
34487097 ACTATGTGCAGGCTACTATGCATACCGGATAGCTTTGA
65 ACTATGTGCAGGCTACTATGCATACCGGAAAGCTTTGA
* * *
34487135 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-ATTAATGGTCACGTGTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAATGA-TAATGGTCACATGTGTAGT
*
34487199 ACTATGTGCAGGCTATTACGTG-A-ACCGGAAAG-TTTGA
65 ACTATGTGCAGGCTACTA--TGCATACCGGAAAGCTTTGA
** * * * *
34487236 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATTGAATGATAATAGTTAAATGAGTAGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
34487301 CTATGT
66 CTATGT
34487307 ACAAACCACT
Statistics
Matches: 150, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
99 1 0.01
100 3 0.02
101 104 0.69
102 39 0.26
103 1 0.01
104 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCATACCGGAAAGCTTTGA
Found at i:34492221 original size:4 final size:4
Alignment explanation
Indices: 34492204--34492236 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
34492194 AAACAAAAGT
*
34492204 ATAA ATAA AGAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
34492237 ATAGATTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:34500853 original size:19 final size:20
Alignment explanation
Indices: 34500810--34500846 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
34500800 ATAGATTTTA
34500810 ATTAATAAATTAATAAATAG
1 ATTAATAAATTAATAAATAG
*
34500830 GTTAA-AAATTAATAAAT
1 ATTAATAAATTAATAAAT
34500847 CTATTAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
ATTAATAAATTAATAAATAG
Found at i:34502688 original size:27 final size:26
Alignment explanation
Indices: 34502631--34502739 Score: 78
Period size: 29 Copynumber: 3.8 Consensus size: 26
34502621 CTTTACATCT
*
34502631 AAAAAAAGTATATATAAAAAATTATTTA
1 AAAAAAAATATATATAAAAAATTA--TA
*
34502659 AAAAAATAATATATATAAAGAAATTAAA
1 AAAAAA-AATATATATAAA-AAATTATA
34502687 AATATAAAAATATAAAATATAAAAAATTA-A
1 AA-A-AAAAATAT---ATATAAAAAATTATA
*
34502717 AACTATAAAA-ATATATAAAAAAT
1 AA--AAAAAATATATATAAAAAAT
34502740 AAACCTTAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 18
0.77 0.03 0.20
Matches are distributed among these distances:
26 11 0.16
28 9 0.13
29 19 0.27
30 16 0.23
31 8 0.11
32 7 0.10
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.28
Consensus pattern (26 bp):
AAAAAAAATATATATAAAAAATTATA
Found at i:34502696 original size:8 final size:8
Alignment explanation
Indices: 34502679--34502742 Score: 71
Period size: 8 Copynumber: 8.1 Consensus size: 8
34502669 ATATATAAAG
34502679 AAAT-TAA
1 AAATATAA
34502686 AAATATAA
1 AAATATAA
34502694 AAATAT-A
1 AAATATAA
34502701 AAATATAA
1 AAATATAA
34502709 AAA-ATTAA
1 AAATA-TAA
*
34502717 AACTATAA
1 AAATATAA
34502725 AAATATATA
1 AAATATA-A
*
34502734 AAAAATAA
1 AAATATAA
34502742 A
1 A
34502743 CCTTAAACCC
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
7 12 0.24
8 29 0.59
9 8 0.16
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (8 bp):
AAATATAA
Found at i:34502703 original size:15 final size:15
Alignment explanation
Indices: 34502685--34502731 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
34502675 AAAGAAATTA
34502685 AAAATATAAAAATAT
1 AAAATATAAAAATAT
34502700 AAAATATAAAAA-ATT
1 AAAATATAAAAATA-T
34502715 AAAACTATAAAAATAT
1 AAAA-TATAAAAATAT
34502731 A
1 A
34502732 TAAAAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 1 0.03
15 17 0.59
16 10 0.34
17 1 0.03
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATATAAAAATAT
Found at i:34502717 original size:31 final size:34
Alignment explanation
Indices: 34502657--34502731 Score: 111
Period size: 31 Copynumber: 2.3 Consensus size: 34
34502647 AAAAATTATT
*
34502657 TAAAAAAATAATATATATAAAGAAATTAAAAATA
1 TAAAAATATAATATATATAAAGAAATTAAAAATA
*
34502691 TAAAAATATAA-A-ATATAAA-AAATTAAAACTA
1 TAAAAATATAATATATATAAAGAAATTAAAAATA
34502722 TAAAAATATA
1 TAAAAATATA
34502732 TAAAAAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
31 21 0.54
32 7 0.18
33 1 0.03
34 10 0.26
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.27
Consensus pattern (34 bp):
TAAAAATATAATATATATAAAGAAATTAAAAATA
Found at i:34505134 original size:8 final size:8
Alignment explanation
Indices: 34505112--34505149 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
34505102 AAAAGTGATC
*
34505112 GAAAAAGA
1 GAAAAATA
34505120 GAAAAATA
1 GAAAAATA
34505128 GAAAAATA
1 GAAAAATA
34505136 TGAAAAAT-
1 -GAAAAATA
34505144 GAAAAA
1 GAAAAA
34505150 AAAATATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 6 0.21
8 15 0.54
9 7 0.25
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.11
Consensus pattern (8 bp):
GAAAAATA
Found at i:34513140 original size:11 final size:11
Alignment explanation
Indices: 34513126--34513152 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
34513116 AATTAATGTT
34513126 AAAATAAAAAC
1 AAAATAAAAAC
34513137 AAAATAAAAAC
1 AAAATAAAAAC
34513148 AAAAT
1 AAAAT
34513153 GAAGAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.81, C:0.07, G:0.00, T:0.11
Consensus pattern (11 bp):
AAAATAAAAAC
Found at i:34514671 original size:40 final size:40
Alignment explanation
Indices: 34514615--34514746 Score: 210
Period size: 40 Copynumber: 3.3 Consensus size: 40
34514605 TGCCTTCGGG
* *
34514615 TCAACTCGCACGAATGCCTTTGGGTCTTAGCCCGGATATA
1 TCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
* * *
34514655 TCAACTTGCACAAATGCCTTCGGGTCTTAGCCCGTACATA
1 TCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
34514695 TCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 TCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
*
34514735 TCAACTTGCACA
1 TCAACTCGCACA
34514747 TGCACACATA
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (40 bp):
TCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
Found at i:34515015 original size:149 final size:149
Alignment explanation
Indices: 34514745--34515029 Score: 570
Period size: 149 Copynumber: 1.9 Consensus size: 149
34514735 TCAACTTGCA
34514745 CATGCACACATATATCAATAATCATAACACACCCATATCTTATTTTCGTTACTAAGGCTCAAACA
1 CATGCACACATATATCAATAATCATAACACACCCATATCTTATTTTCGTTACTAAGGCTCAAACA
34514810 CAAAACATTTATTAAACCTTTCCAATTTCGGCTCAATAGCCACACACAAAGAGCATGATTTCGAT
66 CAAAACATTTATTAAACCTTTCCAATTTCGGCTCAATAGCCACACACAAAGAGCATGATTTCGAT
34514875 TGGCTTGTATTCAAATGCT
131 TGGCTTGTATTCAAATGCT
34514894 CATGCACACATATATCAATAATCATAACACACCCATATCTTATTTTCGTTACTAAGGCTCAAACA
1 CATGCACACATATATCAATAATCATAACACACCCATATCTTATTTTCGTTACTAAGGCTCAAACA
34514959 CAAAACATTTATTAAACCTTTCCAATTTCGGCTCAATAGCCACACACAAAGAGCATGATTTCGAT
66 CAAAACATTTATTAAACCTTTCCAATTTCGGCTCAATAGCCACACACAAAGAGCATGATTTCGAT
34515024 TGGCTT
131 TGGCTT
34515030 TATAACATAG
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 136 1.00
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.30
Consensus pattern (149 bp):
CATGCACACATATATCAATAATCATAACACACCCATATCTTATTTTCGTTACTAAGGCTCAAACA
CAAAACATTTATTAAACCTTTCCAATTTCGGCTCAATAGCCACACACAAAGAGCATGATTTCGAT
TGGCTTGTATTCAAATGCT
Found at i:34516480 original size:15 final size:16
Alignment explanation
Indices: 34516462--34516492 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
34516452 TTTTCATTAC
34516462 CTTTCTTTT-TTTATT
1 CTTTCTTTTATTTATT
34516477 CTTTCTTTTATTTATT
1 CTTTCTTTTATTTATT
34516493 ATAACTCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (16 bp):
CTTTCTTTTATTTATT
Found at i:34520762 original size:15 final size:17
Alignment explanation
Indices: 34520733--34520765 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
34520723 AATTACTATT
34520733 TCAAATAACATAATTTA
1 TCAAATAACATAATTTA
34520750 TCAAATAA-A-AATTTA
1 TCAAATAACATAATTTA
34520765 T
1 T
34520766 TATAATACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 1 0.06
17 8 0.50
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
TCAAATAACATAATTTA
Found at i:34521332 original size:37 final size:37
Alignment explanation
Indices: 34521290--34521371 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
34521280 GTCGATAAGG
* *
34521290 CACTGGGTTCCAATTTACTTTGGTTTAACCGATGAGA
1 CACTGGGTTCCAATTTACTTCGATTTAACCGATGAGA
* *
34521327 CACTGGGTTCCAATTTGCTTCGATTTAACTGATGAGA
1 CACTGGGTTCCAATTTACTTCGATTTAACCGATGAGA
*
34521364 CATTGGGT
1 CACTGGGT
34521372 GTCAAACTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (37 bp):
CACTGGGTTCCAATTTACTTCGATTTAACCGATGAGA
Found at i:34521569 original size:18 final size:18
Alignment explanation
Indices: 34521523--34521579 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
34521513 TCAAGATATT
34521523 TGATAT-TGAAATGGAAAA
1 TGATATGTGAAATGG-AAA
*
34521541 TTG-T-TGAGAAATGGAAA
1 -TGATATGTGAAATGGAAA
34521558 TGATATGTGAAATGGAATA
1 TGATATGTGAAATGGAA-A
34521577 TGA
1 TGA
34521580 AATGGTGAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 2 0.06
17 5 0.16
18 19 0.59
19 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (18 bp):
TGATATGTGAAATGGAAA
Found at i:34528089 original size:50 final size:50
Alignment explanation
Indices: 34528029--34528164 Score: 164
Period size: 50 Copynumber: 2.7 Consensus size: 50
34528019 GCAGATGTAA
* * **
34528029 AGCCTTCGGGCTTGGCACTTGGTGCCCAGACGTGTTTCCGAAGGGATGTT
1 AGCCTACGGGCTAGGCACTTGGTGCAAAGACGTGTTTCCGAAGGGATGTT
* * *
34528079 AGCCTACGGGCTAGGCACTTTGTGCAAAGGCGTGTTTCTGAAGGGATGTT
1 AGCCTACGGGCTAGGCACTTGGTGCAAAGACGTGTTTCCGAAGGGATGTT
** ** *
34528129 AGCCTACCAGCTAGGCACTTTCTGCAAAGGCGTGTT
1 AGCCTACGGGCTAGGCACTTGGTGCAAAGACGTGTT
34528165 CTCGATTGGT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.18, C:0.23, G:0.32, T:0.27
Consensus pattern (50 bp):
AGCCTACGGGCTAGGCACTTGGTGCAAAGACGTGTTTCCGAAGGGATGTT
Found at i:34536450 original size:11 final size:11
Alignment explanation
Indices: 34536434--34536458 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34536424 CTCCAAACAG
34536434 CAAAATTGGGC
1 CAAAATTGGGC
34536445 CAAAATTGGGC
1 CAAAATTGGGC
34536456 CAA
1 CAA
34536459 GGAGCAAGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (11 bp):
CAAAATTGGGC
Found at i:34546128 original size:10 final size:10
Alignment explanation
Indices: 34546113--34546137 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34546103 CTAGCTAAGT
34546113 GCTGAATTGA
1 GCTGAATTGA
34546123 GCTGAATTGA
1 GCTGAATTGA
34546133 GCTGA
1 GCTGA
34546138 CACGAGCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (10 bp):
GCTGAATTGA
Found at i:34551313 original size:13 final size:13
Alignment explanation
Indices: 34551291--34551333 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
34551281 AACACAAAAT
34551291 AAATTTTTTTTTC
1 AAATTTTTTTTTC
*
34551304 GGAATTTTTTTTTC
1 -AAATTTTTTTTTC
*
34551318 AAATTTTTTTTAC
1 AAATTTTTTTTTC
34551331 AAA
1 AAA
34551334 CTCGTAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (13 bp):
AAATTTTTTTTTC
Found at i:34553162 original size:36 final size:37
Alignment explanation
Indices: 34553122--34553194 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
34553112 TTCAAAAACC
34553122 TGCAAAACAAACAC-TCAA-CACTCAAAAAGAAAAATT
1 TGCAAAACAAAC-CGTCAATCACTCAAAAAGAAAAATT
* ** *
34553158 TGCAAACCTCACCGTTAATCACTCAAAAAGAAAAATT
1 TGCAAAACAAACCGTCAATCACTCAAAAAGAAAAATT
34553195 AAATTCTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
35 1 0.03
36 12 0.39
37 18 0.58
ACGTcount: A:0.52, C:0.23, G:0.07, T:0.18
Consensus pattern (37 bp):
TGCAAAACAAACCGTCAATCACTCAAAAAGAAAAATT
Found at i:34556847 original size:51 final size:50
Alignment explanation
Indices: 34556727--34556927 Score: 172
Period size: 51 Copynumber: 4.0 Consensus size: 50
34556717 ATAAATGATA
* * **
34556727 TCTGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCA-
1 TCTGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCA--AGCAT
* * * * * * *
34556778 TCCGATGCACGTACTAGCCTACACATAGTACTACACACGTGATCGAAGCTAT
1 TCTGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAAGC-AT
* * * * * *
34556830 TC-GGTACGCATAGTAGCCTGCACATAATACTACACATGCGACCTATCAT
1 TCTGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCAT
* * *
34556879 TCTGGTACACGTAGTAGCCTGGACATAGTACTACACACGTGACCTAGCA
1 TCTGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCA
34556928 ACTTCACTCG
Statistics
Matches: 117, Mismatches: 29, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
49 4 0.03
50 43 0.37
51 66 0.56
52 4 0.03
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCAT
Found at i:34556917 original size:101 final size:101
Alignment explanation
Indices: 34556736--34556920 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 101
34556726 ATCTGGTTCA
* * * *
34556736 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATGCACGTACTAGCCTACA
1 CATAGTAGCCTGCACATAATACTACACATGCGACCA-TATCATCCGATACACGTACTAGCCTACA
34556801 CATAGTACTACACACGTGATCGAAGCTATTCGGTACG
65 CATAGTACTACACACGTGATCGAAGCTATTCGGTACG
* * * **
34556838 CATAGTAGCCTGCACATAATACTACACATGCGACC-TATCATTCTGGTACACGTAGTAGCCTGGA
1 CATAGTAGCCTGCACATAATACTACACATGCGACCATATCA-TCCGATACACGTACTAGCCTACA
34556902 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
34556921 CCTAGCAACT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
100 4 0.05
101 36 0.49
102 33 0.45
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAATACTACACATGCGACCATATCATCCGATACACGTACTAGCCTACAC
ATAGTACTACACACGTGATCGAAGCTATTCGGTACG
Found at i:34560406 original size:39 final size:38
Alignment explanation
Indices: 34560349--34560425 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 38
34560339 AGTTTGGGGA
*
34560349 TGGCAAGTTGTTGAAAACAAAAGCTTGGTGTCAAGCTT
1 TGGCAAGTTGTGGAAAACAAAAGCTTGGTGTCAAGCTT
* * *
34560387 NTGGCATGTTGTGGGAAACAATAGCTTGGTGTCAAGCTT
1 -TGGCAAGTTGTGGAAAACAAAAGCTTGGTGTCAAGCTT
34560426 GCCCTACAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.30
Consensus pattern (38 bp):
TGGCAAGTTGTGGAAAACAAAAGCTTGGTGTCAAGCTT
Found at i:34565209 original size:9 final size:9
Alignment explanation
Indices: 34565195--34565238 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
34565185 TTTTGTTACA
34565195 ACAATTAAT
1 ACAATTAAT
34565204 ACAATTAAT
1 ACAATTAAT
34565213 ACAATT-A-
1 ACAATTAAT
34565220 ACAATTAAT
1 ACAATTAAT
34565229 ACAATTAAT
1 ACAATTAAT
34565238 A
1 A
34565239 ATTTGATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 6 0.18
8 2 0.06
9 25 0.76
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:34565225 original size:16 final size:16
Alignment explanation
Indices: 34565204--34565241 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
34565194 AACAATTAAT
34565204 ACAATTAATACAATTA
1 ACAATTAATACAATTA
34565220 ACAATTAATACAATTA
1 ACAATTAATACAATTA
*
34565236 ATAATT
1 ACAATT
34565242 TGATAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (16 bp):
ACAATTAATACAATTA
Found at i:34565348 original size:66 final size:65
Alignment explanation
Indices: 34565208--34565351 Score: 147
Period size: 66 Copynumber: 2.2 Consensus size: 65
34565198 ATTAATACAA
* * *
34565208 TTAAT-ACAATT-AACAATTAATACAATTAATAATTTGATAATTTTATTAATCAAATCTTAGATT
1 TTAATAACAATTAAACAATTAATACAATTAATAATTTGATAATTTTACTAATCAAAACCTAGATT
*
34565271 TTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGATAATTTTACTAA-CAAGTAACAA
1 TTA--ATAACAATTAA-ACAATTAATACAATTAATAATTTGATAATTTTACTAATCAA--AAC--
34565333 CTA-ATT
59 CTAGATT
34565339 TTAATAACAATTA
1 TTAATAACAATTA
34565352 GTTTTAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
63 3 0.04
65 4 0.06
66 42 0.63
67 4 0.06
68 12 0.18
69 2 0.03
ACGTcount: A:0.48, C:0.10, G:0.03, T:0.40
Consensus pattern (65 bp):
TTAATAACAATTAAACAATTAATACAATTAATAATTTGATAATTTTACTAATCAAAACCTAGATT
Found at i:34565362 original size:22 final size:22
Alignment explanation
Indices: 34565334--34565387 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
34565324 AAGTAACAAC
* * *
34565334 TAATTTTAATAACAATTAGTTT
1 TAATTTTAATAAAAAATAATTT
*
34565356 TAATTTTATTAAAAAATAATTT
1 TAATTTTAATAAAAAATAATTT
34565378 TAATTTTAAT
1 TAATTTTAAT
34565388 TTCAATTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
TAATTTTAATAAAAAATAATTT
Found at i:34565467 original size:70 final size:70
Alignment explanation
Indices: 34565383--34565522 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
34565373 AATTTTAATT
34565383 TTAATTTCAATTAAAAACGGGCCGGGCCGAGCTCGGGCCTTTTATTTTTTCCTCGGGCTGGGCCT
1 TTAATTTCAATTAAAAACGGGCCGGGCCGAGCTCGGGCCTTTTATTTTTTCCTCGGGCTGGGCCT
34565448 GGGCA
66 GGGCA
*
34565453 TTAATTTTAATTAAAAACGGGCCGGGCCGAGCTCGGGCCTTTTATTTTTTCCTCGGGCTGGGCCT
1 TTAATTTCAATTAAAAACGGGCCGGGCCGAGCTCGGGCCTTTTATTTTTTCCTCGGGCTGGGCCT
34565518 GGGCA
66 GGGCA
34565523 AAATCTGAGG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.17, C:0.24, G:0.29, T:0.31
Consensus pattern (70 bp):
TTAATTTCAATTAAAAACGGGCCGGGCCGAGCTCGGGCCTTTTATTTTTTCCTCGGGCTGGGCCT
GGGCA
Found at i:34585209 original size:75 final size:75
Alignment explanation
Indices: 34585125--34585276 Score: 250
Period size: 75 Copynumber: 2.0 Consensus size: 75
34585115 GCCAAGAACA
* *
34585125 AAAGGGGCGATTCGATCTTTAGTAAAGAAGAGGGAAAATCAGATTTGGAATGCTTTGGAACGCCT
1 AAAGGGGCGATCCGATCTTTAGTAAAGAAGAAGGAAAATCAGATTTGGAATGCTTTGGAACGCCT
34585190 GAAACGCAAC
66 GAAACGCAAC
** *
34585200 AAAGGGGCGATCCGATCTTTAGTAAAGAAGAAGGCGAATCAGATTTGGAATGCTTTGGAATGCCT
1 AAAGGGGCGATCCGATCTTTAGTAAAGAAGAAGGAAAATCAGATTTGGAATGCTTTGGAACGCCT
*
34585265 GAAATGCAAC
66 GAAACGCAAC
34585275 AA
1 AA
34585277 GAACAGCAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.36, C:0.14, G:0.28, T:0.22
Consensus pattern (75 bp):
AAAGGGGCGATCCGATCTTTAGTAAAGAAGAAGGAAAATCAGATTTGGAATGCTTTGGAACGCCT
GAAACGCAAC
Found at i:34599558 original size:38 final size:38
Alignment explanation
Indices: 34599506--34599736 Score: 284
Period size: 38 Copynumber: 6.1 Consensus size: 38
34599496 AAAATTTATT
* * * *
34599506 ACACCGGTAATAAGCCTACTAGGCACTAAGCTTGAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCTTGAATA
* * * *
34599544 ACACCGGCATTAAGCTTGCTACGCACAAAGCCTGAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCTTGAATA
** * *
34599582 ACATCAAG-ACTAAGCCTGTTAGGCACAAAGCCTGAATA
1 ACA-CCGGCACTAAGCCTGCTAGGCACAAAGCTTGAATA
** *
34599620 ACATAGGCACTAAGCCTGCTAGGCACAAAACTTGAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCTTGAATA
*
34599658 ACACCGGTACTAAGCCTGCTAGGCACAAAGCTTGAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCTTGAATA
* *
34599696 ACACTGGCACTAAGCCTGCTAGGCACAAAGCGTGAATA
1 ACACCGGCACTAAGCCTGCTAGGCACAAAGCTTGAATA
34599734 ACA
1 ACA
34599737 TTATGATTCA
Statistics
Matches: 166, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
37 2 0.01
38 162 0.98
39 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (38 bp):
ACACCGGCACTAAGCCTGCTAGGCACAAAGCTTGAATA
Found at i:34599719 original size:114 final size:114
Alignment explanation
Indices: 34599516--34599737 Score: 320
Period size: 114 Copynumber: 1.9 Consensus size: 114
34599506 ACACCGGTAA
* * * *
34599516 TAAGCCTACTAGGCACTAAGCTTGAATAACACCGGCATTAAGCTTGCTACGCACAAAGCCTGAAT
1 TAAGCCTACTAGGCACAAAACTTGAATAACACCGGCACTAAGCCTGCTACGCACAAAGCCTGAAT
*
34599581 AACATCAAGACTAAGCCTGTTAGGCACAAAGCCTGAATAACATAGGCAC
66 AACATCAAGACTAAGCCTGCTAGGCACAAAGCCTGAATAACATAGGCAC
* * * *
34599630 TAAGCCTGCTAGGCACAAAACTTGAATAACACCGGTACTAAGCCTGCTAGGCACAAAGCTTGAAT
1 TAAGCCTACTAGGCACAAAACTTGAATAACACCGGCACTAAGCCTGCTACGCACAAAGCCTGAAT
** *
34599695 AACA-CTGGCACTAAGCCTGCTAGGCACAAAGCGTGAATAACAT
66 AACATCAAG-ACTAAGCCTGCTAGGCACAAAGCCTGAATAACAT
34599738 TATGATTCAA
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
113 2 0.02
114 93 0.98
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.19
Consensus pattern (114 bp):
TAAGCCTACTAGGCACAAAACTTGAATAACACCGGCACTAAGCCTGCTACGCACAAAGCCTGAAT
AACATCAAGACTAAGCCTGCTAGGCACAAAGCCTGAATAACATAGGCAC
Found at i:34600715 original size:16 final size:16
Alignment explanation
Indices: 34600694--34600733 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
34600684 AAAATAATTA
*
34600694 TTTATTTTTCTTAATG
1 TTTATTTTTATTAATG
* *
34600710 TTTATTTTTATTTATT
1 TTTATTTTTATTAATG
34600726 TTTATTTT
1 TTTATTTT
34600734 CTTTTTCACG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTATTTTTATTAATG
Found at i:34600785 original size:11 final size:10
Alignment explanation
Indices: 34600755--34600797 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 10
34600745 TCTCCATCAT
34600755 TTTTTTCTCTC
1 TTTTTTCT-TC
34600766 TTTTCTTTCTTC
1 -TTT-TTTCTTC
34600778 TTTATTTCTTC
1 TTT-TTTCTTC
34600789 TTTTTTCTT
1 TTTTTTCTT
34600798 TTTGGCTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 6 0.21
11 13 0.45
12 5 0.17
13 5 0.17
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:34601705 original size:20 final size:21
Alignment explanation
Indices: 34601682--34601720 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
34601672 GGCCCTGTTT
*
34601682 CATAAATTGT-TGTTCTGTAG
1 CATAAATTATCTGTTCTGTAG
*
34601702 CATAACTTATCTGTTCTGT
1 CATAAATTATCTGTTCTGT
34601721 TTCTTGTGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (21 bp):
CATAAATTATCTGTTCTGTAG
Found at i:34607597 original size:22 final size:21
Alignment explanation
Indices: 34607562--34607604 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
34607552 CATCACATAT
34607562 TATCTTAAAGTTTACGTTTTTC
1 TATCTTAAAGTTTAC-TTTTTC
* *
34607584 TATCTTGAATTTTACTTTTTC
1 TATCTTAAAGTTTACTTTTTC
34607605 ACATGATCGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.58
Consensus pattern (21 bp):
TATCTTAAAGTTTACTTTTTC
Found at i:34609073 original size:22 final size:22
Alignment explanation
Indices: 34609045--34609090 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
34609035 AGTTATATAC
34609045 TAAGTGATTCAATTGATTAAGT
1 TAAGTGATTCAATTGATTAAGT
34609067 TAAGTGATTCAATTGATTAAGT
1 TAAGTGATTCAATTGATTAAGT
34609089 TA
1 TA
34609091 TTAAGCATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.17, T:0.41
Consensus pattern (22 bp):
TAAGTGATTCAATTGATTAAGT
Found at i:34622918 original size:4 final size:4
Alignment explanation
Indices: 34622909--34622937 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
34622899 TAAAGTTTTA
34622909 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
34622938 TACTTAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:34627142 original size:21 final size:21
Alignment explanation
Indices: 34627091--34627135 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
34627081 TAAAAAAGAG
34627091 AAGAGAAAAAT-AAAAGTGAAA
1 AAGA-AAAAATGAAAAGTGAAA
34627112 AAGAAGAAAATGAAAA-TGAAA
1 AAGAA-AAAATGAAAAGTGAAA
34627133 AAG
1 AAG
34627136 GCAAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 1 0.05
21 17 0.77
22 4 0.18
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (21 bp):
AAGAAAAAATGAAAAGTGAAA
Found at i:34627147 original size:21 final size:20
Alignment explanation
Indices: 34627091--34627147 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 20
34627081 TAAAAAAGAG
*
34627091 AAGAGAAAAATAAAAGTGAAA
1 AAGA-AAAAAGAAAAGTGAAA
34627112 AAGAAGAAAATGAAAA-TGAAA
1 AAGAA-AAAA-GAAAAGTGAAA
34627133 AAGGCAAAAAAGAAA
1 AA-G-AAAAAAGAAA
34627148 GCGAGAGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
20 1 0.03
21 19 0.61
22 9 0.29
23 2 0.06
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.07
Consensus pattern (20 bp):
AAGAAAAAAGAAAAGTGAAA
Found at i:34638831 original size:45 final size:44
Alignment explanation
Indices: 34638767--34638852 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 44
34638757 TAGAGATTTT
*
34638767 CCTACAGTGTGGAATATTTGGAATCAATTATTTCCTGTTGGNTTC
1 CCTACAGTGTGAAATATTTGGAATCAATTATTTCCTGTTGG-TTC
34638812 CCTACAGTGTGAAATATTTGGAATCAATTATTTCCTGTTGG
1 CCTACAGTGTGAAATATTTGGAATCAATTATTTCCTGTTGG
34638853 AAAGCACGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.40
Consensus pattern (44 bp):
CCTACAGTGTGAAATATTTGGAATCAATTATTTCCTGTTGGTTC
Found at i:34650165 original size:14 final size:14
Alignment explanation
Indices: 34650146--34650177 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
34650136 AGTTTGTTAC
34650146 AAAATAATAATAAT
1 AAAATAATAATAAT
34650160 AAAATAATAATAAT
1 AAAATAATAATAAT
34650174 AAAA
1 AAAA
34650178 CATCAAGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
AAAATAATAATAAT
Found at i:34650246 original size:68 final size:69
Alignment explanation
Indices: 34650156--34650306 Score: 259
Period size: 68 Copynumber: 2.2 Consensus size: 69
34650146 AAAATAATAA
* *
34650156 TAATAAAATAATAATAATAAAACATCAAGTTTATTTTACTAATCAAATGTTAGATTTTGTTACAA
1 TAATACAATAATAATAATAAAACATCAAATTTATTTTACTAATCAAATGTTAGATTTTGTTACAA
34650221 CAAT
66 CAAT
*
34650225 TAATACAA-AATAATAATAAAACATCAAATTTATTTTACTAATCAAATGTTAGATTTTGTTATAA
1 TAATACAATAATAATAATAAAACATCAAATTTATTTTACTAATCAAATGTTAGATTTTGTTACAA
34650289 CAAT
66 CAAT
34650293 TAATACAATTAATA
1 TAATACAA-TAATA
34650307 CAATTAATTC
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
68 66 0.86
69 7 0.09
70 4 0.05
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.38
Consensus pattern (69 bp):
TAATACAATAATAATAATAAAACATCAAATTTATTTTACTAATCAAATGTTAGATTTTGTTACAA
CAAT
Found at i:34650302 original size:9 final size:9
Alignment explanation
Indices: 34650288--34650349 Score: 101
Period size: 9 Copynumber: 7.1 Consensus size: 9
34650278 TTTTGTTATA
34650288 ACAATTAAT
1 ACAATTAAT
34650297 ACAATTAAT
1 ACAATTAAT
34650306 ACAATTAAT
1 ACAATTAAT
*
34650315 TCAATT-A-
1 ACAATTAAT
34650322 ACAATTAAT
1 ACAATTAAT
34650331 ACAATTAAT
1 ACAATTAAT
34650340 ACAATTAAT
1 ACAATTAAT
34650349 A
1 A
34650350 ATTTGATAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
7 5 0.10
8 2 0.04
9 42 0.86
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (9 bp):
ACAATTAAT
Found at i:34650352 original size:25 final size:27
Alignment explanation
Indices: 34650288--34650348 Score: 90
Period size: 25 Copynumber: 2.3 Consensus size: 27
34650278 TTTTGTTATA
*
34650288 ACAATTAATACAATTAATACAATTAAT
1 ACAATTAATTCAATTAATACAATTAAT
*
34650315 TCAATTAA--CAATTAATACAATTAAT
1 ACAATTAATTCAATTAATACAATTAAT
34650340 ACAATTAAT
1 ACAATTAAT
34650349 AATTTGATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 24 0.77
27 7 0.23
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.34
Consensus pattern (27 bp):
ACAATTAATTCAATTAATACAATTAAT
Found at i:34650445 original size:16 final size:16
Alignment explanation
Indices: 34650424--34650463 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
34650414 TAATTTGATG
*
34650424 ATTTTACTAACAATTA
1 ATTTTAATAACAATTA
34650440 ATTTTAATAACAATTA
1 ATTTTAATAACAATTA
*
34650456 GTTTTAAT
1 ATTTTAAT
34650464 TTTAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.47
Consensus pattern (16 bp):
ATTTTAATAACAATTA
Found at i:34650487 original size:23 final size:23
Alignment explanation
Indices: 34650437--34650498 Score: 83
Period size: 22 Copynumber: 2.7 Consensus size: 23
34650427 TTACTAACAA
*
34650437 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAATTAGTT
34650459 TTAATTTTAATAAAAAAATTA-TT
1 TTAATTTTAAT-AAAAAATTAGTT
*
34650482 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
34650499 CGGGCCGGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.44
23 13 0.36
24 7 0.19
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAATTAGTT
Found at i:34650496 original size:24 final size:24
Alignment explanation
Indices: 34650437--34650498 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 24
34650427 TTACTAACAA
*
34650437 TTAATTTTAAT--AACAATTAGTT
1 TTAATTTTAATAAAAAAATTAGTT
34650459 TTAATTTTAATAAAAAAATTA-TT
1 TTAATTTTAATAAAAAAATTAGTT
*
34650482 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
34650499 CGGGCCGGGC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 11 0.31
23 18 0.50
24 7 0.19
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
TTAATTTTAATAAAAAAATTAGTT
Found at i:34651643 original size:27 final size:30
Alignment explanation
Indices: 34651583--34651651 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 30
34651573 AAAAAAATAA
*
34651583 AAAAATTTAGAAAAATTATTAAATTTTAAT
1 AAAAATATAGAAAAATTATTAAATTTTAAT
34651613 AAAAATATA-AAAAA-T-TTAAATTTT-AT
1 AAAAATATAGAAAAATTATTAAATTTTAAT
* *
34651639 GAAAATTTAGAAA
1 AAAAATATAGAAA
34651652 TTTTTTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 9 0.26
27 12 0.34
28 1 0.03
29 5 0.14
30 8 0.23
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.36
Consensus pattern (30 bp):
AAAAATATAGAAAAATTATTAAATTTTAAT
Found at i:34651916 original size:9 final size:9
Alignment explanation
Indices: 34651897--34651955 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
34651887 CTTTATAAAA
34651897 TTTTATAATT
1 TTTTAT-ATT
34651907 TTTTATA-T
1 TTTTATATT
* *
34651915 TTCTATATA
1 TTTTATATT
34651924 TTTTATATT
1 TTTTATATT
*
34651933 TTTTACGA-T
1 TTTTA-TATT
34651942 TTTTATAATT
1 TTTTAT-ATT
34651952 TTTT
1 TTTT
34651956 TCTAATTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
8 7 0.18
9 20 0.51
10 12 0.31
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.69
Consensus pattern (9 bp):
TTTTATATT
Found at i:34651943 original size:27 final size:26
Alignment explanation
Indices: 34651895--34651953 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
34651885 TACTTTATAA
*
34651895 AATTTTATAATTTTTTATATTTCTAT
1 AATTTTATAATTTTTTAGATTTCTAT
*
34651921 ATATTTTAT-ATTTTTTACGATTTTTAT
1 A-ATTTTATAATTTTTTA-GATTTCTAT
34651948 AATTTT
1 AATTTT
34651954 TTTCTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (26 bp):
AATTTTATAATTTTTTAGATTTCTAT
Found at i:34651964 original size:19 final size:18
Alignment explanation
Indices: 34651923--34651965 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
34651913 ATTTCTATAT
34651923 ATTTTATATTTTTTACGA
1 ATTTTATATTTTTTACGA
* * *
34651941 TTTTTATAATTTTTTTCTA
1 ATTTTAT-ATTTTTTACGA
34651960 ATTTTA
1 ATTTTA
34651966 AATAAAAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (18 bp):
ATTTTATATTTTTTACGA
Found at i:34652118 original size:90 final size:89
Alignment explanation
Indices: 34651969--34652199 Score: 243
Period size: 90 Copynumber: 2.6 Consensus size: 89
34651959 AATTTTAAAT
* * * * *
34651969 AAAAACAGGGGCTTAGTTG-CTTTTTTTGAAAATGTTTGAGGGTCTTTTTGATGCTTTTTGAAAG
1 AAAAACAGGGGCTTAATTGTTTTTTTTTAAAAAAGTTTGAGGGT-TTTTTGATGATTTTTGAAAG
* *
34652033 TTCAAGTACCCAATTGAGTG-CAAA
65 TTCAACTACCCAAATGAGTGACAAA
* *
34652057 AAAAATAGGGGCTTAATTGTTTTTTTCTTAAAAAGGTTTGAGGGCTTTTTTGAT-ATATTTTGAA
1 AAAAACAGGGGCTTAATTGTTTTTTT-TTAAAAAAGTTTGAGGG-TTTTTTGATGAT-TTTTGAA
* *
34652121 AGTTGAACTACCCAAATGAGTGTAAAGAAA
63 AGTTCAACTACCCAAATGAGTG---ACAAA
* * * *
34652151 AAAAACAAGAGCTTAATTATTTTTTTTAAAAAAAGTTTGAGGGTTTTTT
1 AAAAACAGGGGCTTAATTGTTTTTTTTTAAAAAAGTTTGAGGGTTTTTT
34652200 TGCACCCTTA
Statistics
Matches: 119, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
88 17 0.14
89 6 0.05
90 49 0.41
91 1 0.01
92 6 0.05
93 15 0.13
94 25 0.21
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (89 bp):
AAAAACAGGGGCTTAATTGTTTTTTTTTAAAAAAGTTTGAGGGTTTTTTGATGATTTTTGAAAGT
TCAACTACCCAAATGAGTGACAAA
Found at i:34652667 original size:25 final size:23
Alignment explanation
Indices: 34652635--34652773 Score: 119
Period size: 25 Copynumber: 5.9 Consensus size: 23
34652625 TTTTTATTGG
34652635 TATTCTTAAAAACTAAAATTTAAAT
1 TATTCTTAAAAA--AAAATTTAAAT
* *
34652660 TATTCTT--AAAAGAA-TTAGAT
1 TATTCTTAAAAAAAAATTTAAAT
34652680 TATTCTTAAACAAATAAAGTTTAAAT
1 TATTCTTAAA-AAA-AAA-TTTAAAT
*
34652706 TATTCTAAAACAAACAAATTTAAAT
1 TATTCTTAAA-AAA-AAATTTAAAT
34652731 TATTCTTAAACAAACAAATTTAAA-
1 TATTCTTAAA-AAA-AAATTTAAAT
*
34652755 T-TT-TTAAAAAGAAATTTAA
1 TATTCTTAAAAAAAAATTTAA
34652774 GTTTTTTAAG
Statistics
Matches: 100, Mismatches: 8, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
20 20 0.20
21 5 0.05
22 6 0.06
23 8 0.08
24 3 0.03
25 37 0.37
26 21 0.21
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (23 bp):
TATTCTTAAAAAAAAATTTAAAT
Found at i:34652707 original size:26 final size:25
Alignment explanation
Indices: 34652650--34652756 Score: 134
Period size: 25 Copynumber: 4.4 Consensus size: 25
34652640 TTAAAAACTA
34652650 AAATTTAAATTATTCTT--A-AAA-
1 AAATTTAAATTATTCTTAAACAAAC
* * *
34652671 GAA-TTAGATTATTCTTAAACAAAT
1 AAATTTAAATTATTCTTAAACAAAC
*
34652695 AAAGTTTAAATTATTCTAAAACAAAC
1 AAA-TTTAAATTATTCTTAAACAAAC
34652721 AAATTTAAATTATTCTTAAACAAAC
1 AAATTTAAATTATTCTTAAACAAAC
34652746 AAATTTAAATT
1 AAATTTAAATT
34652757 TTTAAAAAGA
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
20 12 0.16
21 2 0.03
22 1 0.01
23 3 0.04
24 2 0.03
25 32 0.44
26 21 0.29
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.37
Consensus pattern (25 bp):
AAATTTAAATTATTCTTAAACAAAC
Found at i:34653032 original size:17 final size:19
Alignment explanation
Indices: 34652997--34653033 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
34652987 TAAGTAATTT
*
34652997 TATTGGTAAAAATTTTAAA
1 TATTGGTAAAAATTATAAA
34653016 TATT-GTAAAAA-TATAAA
1 TATTGGTAAAAATTATAAA
34653033 T
1 T
34653034 TTGCCTTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
TATTGGTAAAAATTATAAA
Found at i:34661386 original size:69 final size:69
Alignment explanation
Indices: 34661298--34661558 Score: 276
Period size: 69 Copynumber: 3.8 Consensus size: 69
34661288 AACCTTAGTT
* * * ** *
34661298 CTCTTGCTAACTGTGTTGGAGGTCGCGATTCTTCGCCTGCGAACCTTGGTTTTATAGCTGGGAGC
1 CTCTCGCTAACTGTTTTGGAGGTCGCGACTCTTCGCCTGCGAACCTTAATTTTAAAGCTGGGAGC
34661363 TTTG
66 TTTG
* * * *
34661367 CTCTCGCTAACTATTTTGGA-GTTGCGGA-TCTTCGCCTGTGAACCTTAATTTTACAGCTGGGAG
1 CTCTCGCTAACTGTTTTGGAGGTCGC-GACTCTTCGCCTGCGAACCTTAATTTTAAAGCTGGGAG
34661430 CTTTG
65 CTTTG
* * * ** * *
34661435 CTCTCACTAATTGTTTTGGAGGTCTC-AGCTCTTTACTTGCGAACCTTAATTTTAAAGCTGAGAG
1 CTCTCGCTAACTGTTTTGGAGGTCGCGA-CTCTTCGCCTGCGAACCTTAATTTTAAAGCTGGGAG
34661499 CTTTG
65 CTTTG
* * * * *
34661504 CTCTCGCTAATTGTTCTGGAGGTCGTGGCTCTTTTGCCTGCGAACCTTAATTTTA
1 CTCTCGCTAACTGTTTTGGAGGTCGCGACTC-TTCGCCTGCGAACCTTAATTTTA
34661559 CAATTCATCA
Statistics
Matches: 160, Mismatches: 26, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
67 1 0.01
68 57 0.36
69 81 0.51
70 21 0.13
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (69 bp):
CTCTCGCTAACTGTTTTGGAGGTCGCGACTCTTCGCCTGCGAACCTTAATTTTAAAGCTGGGAGC
TTTG
Found at i:34663036 original size:20 final size:20
Alignment explanation
Indices: 34663008--34663138 Score: 115
Period size: 20 Copynumber: 6.5 Consensus size: 20
34662998 GATAGGGGCT
34663008 CAAATGTGCAAACAGGGGCAC
1 CAAA-GTGCAAACAGGGGCAC
** * * *
34663029 CGTAGTGC-GATAGGGACAC
1 CAAAGTGCAAACAGGGGCAC
* *
34663048 CAAAGTGTATACAGGGGCAC
1 CAAAGTGCAAACAGGGGCAC
*
34663068 CGAAGTGCAAACAGGGGCAC
1 CAAAGTGCAAACAGGGGCAC
**
34663088 CAAAGTG-ATAGTAGGGGCAC
1 CAAAGTGCA-AACAGGGGCAC
34663108 CAAAGTG-ATAACAGGGGCAC
1 CAAAGTGCA-AACAGGGGCAC
*
34663128 CGAAGTGCAAA
1 CAAAGTGCAAA
34663139 TCCCGTACAA
Statistics
Matches: 87, Mismatches: 20, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
19 14 0.16
20 70 0.80
21 3 0.03
ACGTcount: A:0.36, C:0.21, G:0.32, T:0.11
Consensus pattern (20 bp):
CAAAGTGCAAACAGGGGCAC
Found at i:34663104 original size:40 final size:40
Alignment explanation
Indices: 34662979--34663134 Score: 131
Period size: 40 Copynumber: 3.9 Consensus size: 40
34662969 CAGATGCATA
* * * * * * *
34662979 ACAGGAGCACCGAGGTGCAGATAGGGGC-TCAAATGTGCAA
1 ACAGGGGCACCGAAGTGCAAACAGGGGCACCAAA-GTGTAT
* * * *
34663019 ACAGGGGCACCGTAGTGC-GATAGGGACACCAAAGTGTAT
1 ACAGGGGCACCGAAGTGCAAACAGGGGCACCAAAGTGTAT
34663058 ACAGGGGCACCGAAGTGCAAACAGGGGCACCAAAGTG-AT
1 ACAGGGGCACCGAAGTGCAAACAGGGGCACCAAAGTGTAT
* * *
34663097 AGTAGGGGCACCAAAGTG-ATAACAGGGGCACCGAAGTG
1 A-CAGGGGCACCGAAGTGCA-AACAGGGGCACCAAAGTG
34663135 CAAATCCCGT
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
39 33 0.34
40 65 0.66
ACGTcount: A:0.33, C:0.21, G:0.35, T:0.12
Consensus pattern (40 bp):
ACAGGGGCACCGAAGTGCAAACAGGGGCACCAAAGTGTAT
Found at i:34663124 original size:60 final size:59
Alignment explanation
Indices: 34663013--34663138 Score: 182
Period size: 60 Copynumber: 2.1 Consensus size: 59
34663003 GGGCTCAAAT
** *
34663013 GTGCAAACAGGGGCACCGTAGTGCGATAGGGACACCAAAGTGTATACAGGGGCACCGAA
1 GTGCAAACAGGGGCACCAAAGTGAGATAGGGACACCAAAGTGTATACAGGGGCACCGAA
* *
34663072 GTGCAAACAGGGGCACCAAAGTGATAGTAGGGGCACCAAAGTG-ATAACAGGGGCACCGAA
1 GTGCAAACAGGGGCACCAAAGTGAGA-TAGGGACACCAAAGTGTAT-ACAGGGGCACCGAA
34663132 GTGCAAA
1 GTGCAAA
34663139 TCCCGTACAA
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
59 24 0.40
60 36 0.60
ACGTcount: A:0.35, C:0.21, G:0.33, T:0.11
Consensus pattern (59 bp):
GTGCAAACAGGGGCACCAAAGTGAGATAGGGACACCAAAGTGTATACAGGGGCACCGAA
Found at i:34666078 original size:14 final size:15
Alignment explanation
Indices: 34666053--34666095 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
34666043 TTGGCTATTA
34666053 ATATGAAAATTCATAC
1 ATAT-AAAATTCATAC
*
34666069 A-ATTAAATTCAT-C
1 ATATAAAATTCATAC
34666082 ATATAAAATTCATA
1 ATATAAAATTCATA
34666096 TACACTCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 2 0.09
14 18 0.78
15 2 0.09
16 1 0.04
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.35
Consensus pattern (15 bp):
ATATAAAATTCATAC
Found at i:34666861 original size:13 final size:14
Alignment explanation
Indices: 34666821--34666873 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 14
34666811 TATTATATCA
34666821 TAATAATATAATA-
1 TAATAATATAATAT
*
34666834 TACATTATTATAATAT
1 TA-A-TAATATAATAT
*
34666850 TTATAA-ATAATAT
1 TAATAATATAATAT
34666863 TAATAATATAA
1 TAATAATATAA
34666874 GAAAACTATG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
13 14 0.44
14 7 0.22
15 10 0.31
16 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATAATATAATAT
Found at i:34668873 original size:86 final size:85
Alignment explanation
Indices: 34668718--34668878 Score: 252
Period size: 86 Copynumber: 1.9 Consensus size: 85
34668708 CCAAAAAGGT
* * **
34668718 GATAAGTTCAAAGAGCTGGGTTGACGCCACTAGCTAGCTAGATAAGTCAGAATGAGACTCAAACG
1 GATAAGTTCAAAGAGCTGGGTTGACGCCACTAGCTAGCTAGATAAGTCAGAACGAGACTAAAAAA
34668783 AAATAAGATANAAGGATTGGC
66 AAATAAGATA-AAGGATTGGC
*
34668804 GATAAGTTCAAGGAG-TCGGGTTGACGCCACTAGCTAGCTAGATAAGTCAGAACGAGACTAAAAA
1 GATAAGTTCAAAGAGCT-GGGTTGACGCCACTAGCTAGCTAGATAAGTCAGAACGAGACTAAAAA
34668868 AAAATAAGATA
65 AAAATAAGATA
34668879 GGAGGTAACC
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
85 1 0.01
86 68 0.99
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.19
Consensus pattern (85 bp):
GATAAGTTCAAAGAGCTGGGTTGACGCCACTAGCTAGCTAGATAAGTCAGAACGAGACTAAAAAA
AAATAAGATAAAGGATTGGC
Found at i:34669733 original size:19 final size:20
Alignment explanation
Indices: 34669709--34669746 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
34669699 TGAGCTGATT
34669709 GGAGCTGAAA-TGAGCTAAG
1 GGAGCTGAAATTGAGCTAAG
34669728 GGAGCTGAAATTGAGCTAA
1 GGAGCTGAAATTGAGCTAA
34669747 AGTCAGCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.37, C:0.11, G:0.34, T:0.18
Consensus pattern (20 bp):
GGAGCTGAAATTGAGCTAAG
Found at i:34677406 original size:27 final size:27
Alignment explanation
Indices: 34677375--34677552 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34677365 TAAATTGTAC
34677375 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34677402 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34677428 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34677456 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34677484 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34677511 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34677538 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34677553 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34677489 original size:82 final size:81
Alignment explanation
Indices: 34677376--34677531 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34677366 AAATTGTACA
* *
34677376 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
34677440 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
34677457 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
34677522 TGCGAGTTGA
65 TGCGAATTGA
34677532 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34677543 original size:82 final size:81
Alignment explanation
Indices: 34677372--34677552 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
34677362 GATTAAATTG
* *
34677372 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34677437 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
34677453 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34677517 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
34677535 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34677553 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34685469 original size:27 final size:27
Alignment explanation
Indices: 34685438--34685615 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34685428 TAAATTGTAC
34685438 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34685465 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34685491 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34685519 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34685547 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34685574 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34685601 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34685616 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34685552 original size:82 final size:81
Alignment explanation
Indices: 34685439--34685594 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34685429 AAATTGTACA
* *
34685439 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
34685503 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
34685520 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
34685585 TGCGAGTTGA
65 TGCGAATTGA
34685595 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34685606 original size:82 final size:81
Alignment explanation
Indices: 34685435--34685615 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
34685425 GATTAAATTG
* *
34685435 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34685500 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
34685516 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34685580 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
34685598 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34685616 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34706440 original size:26 final size:26
Alignment explanation
Indices: 34706404--34706456 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
34706394 CTGATCAAAA
34706404 AGGGGTTGCTAAGTGTAGATTCCCCG
1 AGGGGTTGCTAAGTGTAGATTCCCCG
*
34706430 AGGGGTTGCTAAGTGTTGATTCCCCG
1 AGGGGTTGCTAAGTGTAGATTCCCCG
34706456 A
1 A
34706457 ATTATTGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGTAGATTCCCCG
Found at i:34706473 original size:67 final size:68
Alignment explanation
Indices: 34706363--34706494 Score: 166
Period size: 67 Copynumber: 2.0 Consensus size: 68
34706353 ATTGAATGTA
34706363 AGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAAAAGG-GGTTGCTAAGTG-TAGATTC
1 AGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAAAAGGTGGTTGCTAAGTGCT-GATTC
34706426 CCCG
65 CCCG
** *
34706430 AGGGGTTGCTAAGTGTTGATTCCCCGAATTA-T-TGATTC-TAAAGGTGGTTGCTAAGTGCTGAT
1 AGGGGTTGCTAAGTGCAGATTCCCCGAA--ACTCTGA-TCAAAAAGGTGGTTGCTAAGTGCTGAT
34706492 TCC
63 TCC
34706495 ACCGTATATT
Statistics
Matches: 57, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
67 34 0.60
68 21 0.37
69 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (68 bp):
AGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTGATCAAAAAGGTGGTTGCTAAGTGCTGATTCC
CCG
Found at i:34706480 original size:42 final size:42
Alignment explanation
Indices: 34706433--34706659 Score: 214
Period size: 43 Copynumber: 5.4 Consensus size: 42
34706423 TTCCCCGAGG
* * *
34706433 GGTTGCTAAGTGTTGATTCCCCGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTAAAGGT
34706475 GGTTGCTAAGTGCTGATTCCACCGTA-TATTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATTA-TTGATTGT-AAAGGT
* * * * *
34706518 GGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTAAAGGT
* *
34706560 TGTTGCTAAGTGCTGATTCCACCGT-TTCTTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATT-ATTGATTGT-AAAGGT
* * * *
34706603 GGTTGCTATGTGTTGATTCCCTGTATCATTGAATT-T-AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTG-ATTGTAAAGGT
*
34706644 GGTTACTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
34706660 ATCCACCGAG
Statistics
Matches: 150, Mismatches: 24, Indels: 23
0.76 0.12 0.12
Matches are distributed among these distances:
40 4 0.03
41 18 0.12
42 57 0.38
43 61 0.41
44 10 0.07
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTAAAGGT
Found at i:34706573 original size:85 final size:84
Alignment explanation
Indices: 34706430--34706667 Score: 341
Period size: 85 Copynumber: 2.8 Consensus size: 84
34706420 AGATTCCCCG
* * * *
34706430 AGGGGTTGCTAAGTGTTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGTTGATTCCCCGTATCATTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
34706495 ACCGTATATTTGATTGTGAA
65 ACCGTATATTTGATTGTGAA
* * *
34706515 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTTGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGTTGATTCCCCGTATCATTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
* *
34706580 ACCGTTTCTTTGATTGTGAA
65 ACCGTATATTTGATTGTGAA
* * * *
34706600 AGGGGTTGCTATGTGTTGATTCCCTGTATCATTGAATTTAAGGTGGTTACTAAGTGCTGAATCCA
1 AGGGGTTGCTATGTGTTGATTCCCCGTATCATTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
34706665 CCG
66 CCG
34706668 AGTAATGGAT
Statistics
Matches: 136, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 27 0.20
85 109 0.80
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (84 bp):
AGGGGTTGCTATGTGTTGATTCCCCGTATCATTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
CCGTATATTTGATTGTGAA
Found at i:34712397 original size:26 final size:26
Alignment explanation
Indices: 34712364--34712437 Score: 130
Period size: 26 Copynumber: 2.8 Consensus size: 26
34712354 AATCAAAAGA
34712364 GGGTTGCTAAGTGCAGATTCCCTGAG
1 GGGTTGCTAAGTGCAGATTCCCTGAG
34712390 GGGTTGCTAAGTGCAGATTCCCTGAG
1 GGGTTGCTAAGTGCAGATTCCCTGAG
**
34712416 GGGTTGCTAAGTGTTGATTCCC
1 GGGTTGCTAAGTGCAGATTCCC
34712438 CGAATTATTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.18, C:0.19, G:0.34, T:0.30
Consensus pattern (26 bp):
GGGTTGCTAAGTGCAGATTCCCTGAG
Found at i:34712464 original size:42 final size:42
Alignment explanation
Indices: 34712417--34712569 Score: 159
Period size: 42 Copynumber: 3.6 Consensus size: 42
34712407 TTCCCTGAGG
* * *
34712417 GGTTGCTAAGTGTTGATTCCCCGAATTATTGATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTATAAAGGT
* *
34712459 GGTTGCTAAGTGTTGATTCCACCGTA-TATTTGATTGTGAAA-G-
1 GGTTGCTAAGTGCTGATTCC-CCGTATTA-TTGATTAT-AAAGGT
* * * *
34712501 GGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTATAAAGGT
*
34712543 AGTTGCTAAGTGCTGATTCCACCGTAT
1 GGTTGCTAAGTGCTGATTCC-CCGTAT
34712570 ATTTGTGCTA
Statistics
Matches: 94, Mismatches: 10, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
40 3 0.03
41 11 0.12
42 59 0.63
43 18 0.19
44 3 0.03
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATTATTGATTATAAAGGT
Found at i:34712560 original size:84 final size:84
Alignment explanation
Indices: 34712416--34712574 Score: 237
Period size: 84 Copynumber: 1.9 Consensus size: 84
34712406 ATTCCCTGAG
* * * * * * *
34712416 GGGTTGCTAAGTGTTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCTAAGTGTTGATTCCAC
1 GGGTTGCTAAGTGCTGATTCCCCGAATCACTGAATATAAAGGTAGTTGCTAAGTGCTGATTCCAC
34712481 CGTATATTTGATTGTGAAA
66 CGTATATTTGATTGTGAAA
* *
34712500 GGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTAGTTGCTAAGTGCTGATTCCAC
1 GGGTTGCTAAGTGCTGATTCCCCGAATCACTGAATATAAAGGTAGTTGCTAAGTGCTGATTCCAC
34712565 CGTATATTTG
66 CGTATATTTG
34712575 TGCTAATTCC
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 66 1.00
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (84 bp):
GGGTTGCTAAGTGCTGATTCCCCGAATCACTGAATATAAAGGTAGTTGCTAAGTGCTGATTCCAC
CGTATATTTGATTGTGAAA
Found at i:34712584 original size:64 final size:64
Alignment explanation
Indices: 34712509--34712638 Score: 206
Period size: 64 Copynumber: 2.0 Consensus size: 64
34712499 AGGGTTGCTA
*
34712509 TGTGCTGATTCCCCGTATCACTGAATATAAAGGTAGTTGCTAAGTGCTGATTCCACCGTATATT
1 TGTGCTAATTCCCCGTATCACTGAATATAAAGGTAGTTGCTAAGTGCTGATTCCACCGTATATT
* * * * *
34712573 TGTGCTAATTCCCCGTATCACTGAGTATAAAGGTGGTTTCTAAGTGTTGATTCCACCGTATCTT
1 TGTGCTAATTCCCCGTATCACTGAATATAAAGGTAGTTGCTAAGTGCTGATTCCACCGTATATT
34712637 TG
1 TG
34712639 ATTGTGAAAG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (64 bp):
TGTGCTAATTCCCCGTATCACTGAATATAAAGGTAGTTGCTAAGTGCTGATTCCACCGTATATT
Found at i:34712667 original size:43 final size:43
Alignment explanation
Indices: 34712574--34712714 Score: 148
Period size: 43 Copynumber: 3.3 Consensus size: 43
34712564 CCGTATATTT
* * * *
34712574 GTGCTAATTCC-CCGTATCACTGAGTATAAAGGTGGTTTCTAA
1 GTGCTGATTCCACCGTATCACTGAATTTAAAGGTGGTTGCTAA
* ** *
34712616 GTGTTGATTCCACCGTATCTTTG-ATTGTGAAAGG-GGTTGCTAT
1 GTGCTGATTCCACCGTATCACTGAATT-T-AAAGGTGGTTGCTAA
34712659 GTGCTGATTCC-CCGTATCACTGAATTT-AAGGTGGTTGCTAA
1 GTGCTGATTCCACCGTATCACTGAATTTAAAGGTGGTTGCTAA
*
34712700 GTGCTGAATCCACCG
1 GTGCTGATTCCACCG
34712715 AGTAACGGAT
Statistics
Matches: 80, Mismatches: 13, Indels: 12
0.76 0.12 0.11
Matches are distributed among these distances:
40 4 0.05
41 18 0.22
42 23 0.29
43 30 0.38
44 5 0.06
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (43 bp):
GTGCTGATTCCACCGTATCACTGAATTTAAAGGTGGTTGCTAA
Found at i:34719763 original size:25 final size:25
Alignment explanation
Indices: 34719729--34719781 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
34719719 ATCTCACTCT
*
34719729 CTCGTGCCTTTTACCGCTCTTCNCA
1 CTCGTGCCTTTTACCGCTCTTCTCA
*
34719754 CTCGTTCCTTTTACCGCTCTTCTCA
1 CTCGTGCCTTTTACCGCTCTTCTCA
34719779 CTC
1 CTC
34719782 TCGTGATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.08, C:0.42, G:0.09, T:0.40
Consensus pattern (25 bp):
CTCGTGCCTTTTACCGCTCTTCTCA
Found at i:34731951 original size:12 final size:12
Alignment explanation
Indices: 34731934--34731984 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
34731924 TTGAGTTATT
34731934 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
34731946 TAAGTAAACAAG
1 TAAGTAAGCAAG
*
34731958 TAAG-AGAGTAAG
1 TAAGTA-AGCAAG
* *
34731970 TAAATAAGAAAG
1 TAAGTAAGCAAG
34731982 TAA
1 TAA
34731985 ATATCATGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 1 0.03
12 30 0.94
13 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.22, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:34731960 original size:20 final size:20
Alignment explanation
Indices: 34731935--34731973 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
34731925 TGAGTTATTT
34731935 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
34731955 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
34731974 TAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:34733702 original size:39 final size:40
Alignment explanation
Indices: 34733577--34733761 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
34733567 GCTACTCGTT
*
34733577 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
34733617 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
34733657 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
34733696 CAAATGCCTTC-GGATCTTAGTCCC-GATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGGATTTAGTAAC-TCGCA
34733737 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34733762 CATCATTCGA
Statistics
Matches: 123, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 34 0.28
40 71 0.58
41 16 0.13
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:34741607 original size:40 final size:40
Alignment explanation
Indices: 34741570--34741754 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
34741560 GCTACTCGTT
*
34741570 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
34741610 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
34741650 CCAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
34741689 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
34741730 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34741755 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 77 0.63
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:34741714 original size:79 final size:80
Alignment explanation
Indices: 34741572--34741752 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
34741562 TACTCGTTCA
* **
34741572 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
34741637 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
* **
34741652 AATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
34741714 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
34741731 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
34741753 GACATCATTC
Statistics
Matches: 86, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 4 0.05
79 57 0.66
80 25 0.29
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:34745692 original size:20 final size:20
Alignment explanation
Indices: 34745658--34745711 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
34745648 TAATTTGTCT
* *
34745658 TGTCTTAGTTAAATTAAATA
1 TGTCTTAATTTAATTAAATA
* * *
34745678 TGTCTTGATTTAATTAAGTT
1 TGTCTTAATTTAATTAAATA
34745698 TGTCTTAATTTAAT
1 TGTCTTAATTTAAT
34745712 ACATGTGTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (20 bp):
TGTCTTAATTTAATTAAATA
Found at i:34745908 original size:14 final size:14
Alignment explanation
Indices: 34745889--34745915 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34745879 TACATTGGAC
34745889 AGATTCATGCATGT
1 AGATTCATGCATGT
34745903 AGATTCATGCATG
1 AGATTCATGCATG
34745916 GGGAGATGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (14 bp):
AGATTCATGCATGT
Found at i:34746412 original size:29 final size:29
Alignment explanation
Indices: 34746378--34746450 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
34746368 TTAGATATTA
*
34746378 TTAAATATGTCCTAATTAGTTTAACTGTT
1 TTAAATATGTCCTAATTAGTTCAACTGTT
* *
34746407 TTAAATATGTCTTAATTAGTTCAAGTGTT
1 TTAAATATGTCCTAATTAGTTCAACTGTT
34746436 TTAAATATGTCCTAA
1 TTAAATATGTCCTAA
34746451 ACTAATACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.47
Consensus pattern (29 bp):
TTAAATATGTCCTAATTAGTTCAACTGTT
Found at i:34748478 original size:21 final size:21
Alignment explanation
Indices: 34748450--34748498 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
34748440 CGTTCAAAAC
34748450 AAAAAAAAATT-GAAAATAAA
1 AAAAAAAAATTCGAAAATAAA
**
34748470 AATAAAAAAATTCGAATTTAAA
1 AA-AAAAAAATTCGAAAATAAA
34748492 AAAAAAA
1 AAAAAAA
34748499 GAATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 14 0.56
22 9 0.36
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (21 bp):
AAAAAAAAATTCGAAAATAAA
Found at i:34759635 original size:13 final size:13
Alignment explanation
Indices: 34759617--34759641 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34759607 GTATTGATCA
34759617 TGTGTTCACACCT
1 TGTGTTCACACCT
34759630 TGTGTTCACACC
1 TGTGTTCACACC
34759642 ATGATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:34763522 original size:50 final size:50
Alignment explanation
Indices: 34763463--34763564 Score: 204
Period size: 50 Copynumber: 2.0 Consensus size: 50
34763453 GCATTCAATC
34763463 ATCTCAAATTGTTTCCACAAACCATGAATAAATCATGAGTAATAAATCAA
1 ATCTCAAATTGTTTCCACAAACCATGAATAAATCATGAGTAATAAATCAA
34763513 ATCTCAAATTGTTTCCACAAACCATGAATAAATCATGAGTAATAAATCAA
1 ATCTCAAATTGTTTCCACAAACCATGAATAAATCATGAGTAATAAATCAA
34763563 AT
1 AT
34763565 GGTAAACGTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (50 bp):
ATCTCAAATTGTTTCCACAAACCATGAATAAATCATGAGTAATAAATCAA
Found at i:34774012 original size:21 final size:21
Alignment explanation
Indices: 34773976--34774032 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
34773966 TTGGTATTTG
* *
34773976 GGAATTGGTTCAAAAT-TGTAT
1 GGAATTGGTACGAAATGT-TAT
34773997 GGAATTGGTACGAAATGTTAT
1 GGAATTGGTACGAAATGTTAT
*
34774018 GGTATTTGGTACGAA
1 GG-AATTGGTACGAA
34774033 TTGGTAATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.61
22 12 0.39
ACGTcount: A:0.32, C:0.05, G:0.28, T:0.35
Consensus pattern (21 bp):
GGAATTGGTACGAAATGTTAT
Found at i:34794937 original size:40 final size:40
Alignment explanation
Indices: 34794839--34795101 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
34794829 TCCTCGTTCA
* * * ** *
34794839 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
34794878 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
34794918 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
34794958 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
34794998 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
34795038 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
34795078 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34795102 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:34796675 original size:50 final size:50
Alignment explanation
Indices: 34796615--34796756 Score: 205
Period size: 50 Copynumber: 2.8 Consensus size: 50
34796605 TCATTGAGAT
34796615 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-G
** *
34796666 -ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGG
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGG
** * *
34796715 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATT
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATT
34796757 AGCAGTACGG
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
49 1 0.01
50 79 0.99
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.22
Consensus pattern (50 bp):
TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGG
Found at i:34803162 original size:15 final size:14
Alignment explanation
Indices: 34803142--34803189 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
34803132 CTCATTTTCA
34803142 TCTTTTTCTTTTATT
1 TCTTTTTCTTTT-TT
*
34803157 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTT
*
34803171 TCTCATTTCTTTTTT
1 TCT-TTTTCTTTTTT
34803186 TCTT
1 TCTT
34803190 CTCTCAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (14 bp):
TCTTTTTCTTTTTT
Found at i:34803194 original size:22 final size:21
Alignment explanation
Indices: 34803142--34803200 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
34803132 CTCATTTTCA
* *
34803142 TCTTTTTCTTTTATTTCTTTT
1 TCTTTTTCTCTCATTTCTTTT
34803163 TCTTTTTCTCTCATTTCTTTT
1 TCTTTTTCTCTCATTTCTTTT
*
34803184 T-TTCTTCTCTCAATTTC
1 TCTTTTTCTCTC-ATTTC
34803201 ATTCAAGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 9 0.26
21 25 0.74
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (21 bp):
TCTTTTTCTCTCATTTCTTTT
Found at i:34805414 original size:16 final size:16
Alignment explanation
Indices: 34805388--34805429 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
34805378 TTATTTAAGT
*
34805388 AAGCAAGTAAGTAAAC
1 AAGCGAGTAAGTAAAC
* *
34805404 AAGTGAGTAAGTAAAG
1 AAGCGAGTAAGTAAAC
34805420 AAGCGAGTAA
1 AAGCGAGTAA
34805430 AGATTCTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.52, C:0.07, G:0.26, T:0.14
Consensus pattern (16 bp):
AAGCGAGTAAGTAAAC
Found at i:34806308 original size:16 final size:16
Alignment explanation
Indices: 34806282--34806323 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
34806272 TTATTTAAGT
*
34806282 AAGCAAGTAAGTAAAC
1 AAGCGAGTAAGTAAAC
* *
34806298 AAGTGAGTAAGTAAAG
1 AAGCGAGTAAGTAAAC
34806314 AAGCGAGTAA
1 AAGCGAGTAA
34806324 AGATTCTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.52, C:0.07, G:0.26, T:0.14
Consensus pattern (16 bp):
AAGCGAGTAAGTAAAC
Found at i:34811781 original size:21 final size:21
Alignment explanation
Indices: 34811755--34811822 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
34811745 GATCTGAACA
*
34811755 TTCTGGTGGCTTAACCACAAT
1 TTCTGGTGGCTTATCCACAAT
* * *
34811776 TTCTGGTAGTTTATCTACAAT
1 TTCTGGTGGCTTATCCACAAT
*
34811797 ATT-TGGTGGCTTGTCCACAAT
1 -TTCTGGTGGCTTATCCACAAT
*
34811818 ATCTG
1 TTCTG
34811823 TATCTAACAA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
20 1 0.03
21 33 0.92
22 2 0.06
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (21 bp):
TTCTGGTGGCTTATCCACAAT
Found at i:34812345 original size:16 final size:16
Alignment explanation
Indices: 34812324--34812357 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
34812314 ACTTCAACTA
*
34812324 TATTTTGGTATTTTAT
1 TATTTTGGGATTTTAT
34812340 TATTTTGGGATTTTAT
1 TATTTTGGGATTTTAT
34812356 TA
1 TA
34812358 AGCTTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.15, T:0.65
Consensus pattern (16 bp):
TATTTTGGGATTTTAT
Found at i:34840685 original size:16 final size:15
Alignment explanation
Indices: 34840660--34840693 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
34840650 AAAGTTGATA
*
34840660 ATAATTAATATACATT
1 ATAATAAATATA-ATT
34840676 ATAATAAATATAATT
1 ATAATAAATATAATT
34840691 ATA
1 ATA
34840694 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:34840815 original size:29 final size:29
Alignment explanation
Indices: 34840761--34840816 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
34840751 GCCTTTAAAG
* * *
34840761 ATATTTACAAAATGGGACAACTAATTTCA
1 ATATTTACAAAATAGAACAACAAATTTCA
34840790 ATATTTACAAAA-AGAACAACCAAATTT
1 ATATTTACAAAATAGAACAA-CAAATTT
34840817 TGGAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (29 bp):
ATATTTACAAAATAGAACAACAAATTTCA
Found at i:34849319 original size:27 final size:27
Alignment explanation
Indices: 34849266--34849632 Score: 403
Period size: 27 Copynumber: 13.6 Consensus size: 27
34849256 GGGTATAACA
34849266 GTCATTTTACCCTAT-GGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
34849292 GTCAATCTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
34849319 GTTAGTTTACCCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
** *
34849346 GTCATTTTACTTTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
34849373 ATCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
34849400 GTCAATTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
34849427 ATCATTTTACCATATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
34849454 CTCATTTTACCTTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
34849481 GTCATTCTACCCTATGGGAGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
34849508 ATCATTCTACCTTCTGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
34849535 ATCATTTTACCGTATGGGGATATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
34849562 GTCATTCTATCCTATGGGGGGATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
34849589 ATTATTTTACCTTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
34849616 GTCATTTTACTCTATGG
1 GTCATTTTACCCTATGG
34849633 AGTATTTTCG
Statistics
Matches: 284, Mismatches: 56, Indels: 1
0.83 0.16 0.00
Matches are distributed among these distances:
26 12 0.04
27 272 0.96
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:34852543 original size:80 final size:80
Alignment explanation
Indices: 34852376--34852579 Score: 320
Period size: 80 Copynumber: 2.5 Consensus size: 80
34852366 GGGTAGAATA
* *
34852376 GTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGGTCATTTTACC
1 GTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTAT-GGGGTATTTTGGTCATTCTACC
*
34852441 TTATGGGGGTATTTCC
65 TTATGGGGGTATTTAC
* * *
34852457 GTCATTCTACCCTATGGGGGTATTTCAATTATTTTACCTTATGGGGTATTTTGGTCATTCTACCC
1 GTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGTATTTTGGTCATTCTA-CC
*
34852522 TT-TGGGGGTATTTAG
65 TTATGGGGGTATTTAC
34852537 GTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATG
1 GTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATG
34852580 AGGCTATTCT
Statistics
Matches: 112, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
80 70 0.62
81 42 0.38
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (80 bp):
GTCATTCTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGTATTTTGGTCATTCTACCT
TATGGGGGTATTTAC
Found at i:34852595 original size:27 final size:27
Alignment explanation
Indices: 34852377--34852579 Score: 257
Period size: 27 Copynumber: 7.6 Consensus size: 27
34852367 GGTAGAATAG
34852377 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
34852404 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGA
*
34852431 TCATTTTACCTTATGGGGGTATTTCCG-
1 TCATTTTACCCTATGGGGGTATTT-CGA
* *
34852458 TCATTCTACCCTATGGGGGTATTTCAA
1 TCATTTTACCCTATGGGGGTATTTCGA
* * * *
34852485 TTATTTTACCTTAT-GGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGA
* * * *
34852511 TCATTCTACCCTTTGGGGGTATTTAGG
1 TCATTTTACCCTATGGGGGTATTTCGA
*
34852538 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
34852565 TCATTTTACCCTATG
1 TCATTTTACCCTATG
34852580 AGGCTATTCT
Statistics
Matches: 151, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
26 20 0.13
27 130 0.86
28 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGA
Found at i:34855555 original size:11 final size:12
Alignment explanation
Indices: 34855534--34855581 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
34855524 ATAGTAGTTT
34855534 CTCGAAAAAAAA
1 CTCGAAAAAAAA
34855546 CTCGAAAAAAAAA
1 CTCG-AAAAAAAA
* *
34855559 TTCAAAAAAAAA
1 CTCGAAAAAAAA
*
34855571 TTCGAAAAAAA
1 CTCGAAAAAAA
34855582 CTAGTTTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
12 22 0.69
13 10 0.31
ACGTcount: A:0.69, C:0.12, G:0.06, T:0.12
Consensus pattern (12 bp):
CTCGAAAAAAAA
Found at i:34855556 original size:13 final size:13
Alignment explanation
Indices: 34855534--34855581 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
34855524 ATAGTAGTTT
34855534 CTCG-AAAAAAAA
1 CTCGAAAAAAAAA
34855546 CTCGAAAAAAAAA
1 CTCGAAAAAAAAA
*
34855559 TTC-AAAAAAAAA
1 CTCGAAAAAAAAA
*
34855571 TTCGAAAAAAA
1 CTCGAAAAAAA
34855582 CTAGTTTCCA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
12 16 0.48
13 17 0.52
ACGTcount: A:0.69, C:0.12, G:0.06, T:0.12
Consensus pattern (13 bp):
CTCGAAAAAAAAA
Found at i:34855641 original size:14 final size:14
Alignment explanation
Indices: 34855622--34855672 Score: 79
Period size: 14 Copynumber: 3.7 Consensus size: 14
34855612 TATCAAGTTG
34855622 TGAAAAAAAAATTT
1 TGAAAAAAAAATTT
34855636 TGAAAAAAAAATTT
1 TGAAAAAAAAATTT
34855650 GTG-AAAAAAAA-TT
1 -TGAAAAAAAAATTT
34855663 TGAAAAAAAA
1 TGAAAAAAAA
34855673 GAAAAGCTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
12 2 0.06
13 9 0.26
14 22 0.63
15 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.24
Consensus pattern (14 bp):
TGAAAAAAAAATTT
Found at i:34868459 original size:22 final size:22
Alignment explanation
Indices: 34868431--34868477 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
34868421 CCTTTTTGAA
34868431 CCCTTACCATTTCGTACCAAAT
1 CCCTTACCATTTCGTACCAAAT
*
34868453 CCCTTACCATTTCGTACCAATT
1 CCCTTACCATTTCGTACCAAAT
34868475 CCC
1 CCC
34868478 AAATACCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.40, G:0.04, T:0.32
Consensus pattern (22 bp):
CCCTTACCATTTCGTACCAAAT
Found at i:34896634 original size:50 final size:50
Alignment explanation
Indices: 34896567--34896685 Score: 132
Period size: 50 Copynumber: 2.4 Consensus size: 50
34896557 ATTGCAAATT
* * * * * *
34896567 CCATATCCCAGATATGGTCATACATGAG-AGTTCTCATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCATACA-GAGAAGTTCTCATATCAGTACCAACG
* * *
34896617 CCATGTCCCAGACATGGTCTTACAGGGAAGTTCTCATCTCAGTACCAACG
1 CCATGTCCCAGACATGGTCATACAGAGAAGTTCTCATATCAGTACCAACG
*
34896667 CCATGTCCTAGACATGGTC
1 CCATGTCCCAGACATGGTC
34896686 TTACGTGGGA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
49 2 0.03
50 56 0.97
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCATACAGAGAAGTTCTCATATCAGTACCAACG
Done.