Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 160 of 205
Found at i:47786316 original size:24 final size:24
Alignment explanation
Indices: 47786264--47786310 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
47786254 GACAATTCCT
* *
47786264 AAACCAGAGGCCAAACAGGAGACC
1 AAACCAGAGACCAAACAGGAAACC
*
47786288 AAACCAGAGACCAAACCGGAAAC
1 AAACCAGAGACCAAACAGGAAAC
47786311 TGAACCCGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.49, C:0.30, G:0.21, T:0.00
Consensus pattern (24 bp):
AAACCAGAGACCAAACAGGAAACC
Found at i:47788768 original size:18 final size:19
Alignment explanation
Indices: 47788737--47788773 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
47788727 TCAAACTATG
47788737 AAAACCTATTTTTACATTT
1 AAAACCTATTTTTACATTT
*
47788756 AAAACCT-TTTTTAGATTT
1 AAAACCTATTTTTACATTT
47788774 TCCAGTTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.49
Consensus pattern (19 bp):
AAAACCTATTTTTACATTT
Found at i:47797894 original size:16 final size:18
Alignment explanation
Indices: 47797862--47797894 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47797852 TTTAATAGAA
47797862 TAAATTTAGTGTTAATTG
1 TAAATTTAGTGTTAATTG
47797880 TAAATTT-GT-TTAATT
1 TAAATTTAGTGTTAATT
47797895 TTTCGTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (18 bp):
TAAATTTAGTGTTAATTG
Found at i:47798036 original size:19 final size:19
Alignment explanation
Indices: 47798012--47798055 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
47798002 TCATTAAATC
47798012 AACTCTTAAACCCAGATTA
1 AACTCTTAAACCCAGATTA
*
47798031 AACTCTTAAACCCGGATTA
1 AACTCTTAAACCCAGATTA
*
47798050 AGCTCT
1 AACTCT
47798056 AAAAAGCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.27
Consensus pattern (19 bp):
AACTCTTAAACCCAGATTA
Found at i:47805310 original size:30 final size:32
Alignment explanation
Indices: 47805276--47805338 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
47805266 TGTAAATTTT
* *
47805276 GAATG-TATATGTTTTAAATA-TGCCTAATTG
1 GAATGATATATATTTTAAATATTGCCGAATTG
*
47805306 GAATGCATATATATTTTACATATTGCCGAATTG
1 GAATG-ATATATATTTTAAATATTGCCGAATTG
47805339 TTATAAGCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 5 0.19
32 13 0.48
33 9 0.33
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (32 bp):
GAATGATATATATTTTAAATATTGCCGAATTG
Found at i:47805509 original size:44 final size:43
Alignment explanation
Indices: 47805452--47805580 Score: 163
Period size: 43 Copynumber: 3.0 Consensus size: 43
47805442 ATAGGATTTT
*
47805452 GATTTGAGATTTCGTGTAAGACCACGTCTGGGACATTGGTATC
1 GATTTGAGATTTCGTGTAAGACCACGTCTGGGACATTGGCATC
* *
47805495 GATTTGAGACTTTCGTGTAAGACC-CTGTCTAGGACAATGGCATC
1 GATTTGAGA-TTTCGTGTAAGACCAC-GTCTGGGACATTGGCATC
* * *
47805539 GATATTTA-ATTACATGTAAGACCACGTCTGGGACATTGGCAT
1 GAT-TTGAGATTTCGTGTAAGACCACGTCTGGGACATTGGCAT
47805581 TGTACGAGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
43 37 0.50
44 34 0.46
45 3 0.04
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTTGAGATTTCGTGTAAGACCACGTCTGGGACATTGGCATC
Found at i:47809111 original size:16 final size:15
Alignment explanation
Indices: 47809090--47809123 Score: 59
Period size: 15 Copynumber: 2.2 Consensus size: 15
47809080 ATTTAATCAA
47809090 TTTTAATTCTTAATTT
1 TTTTAATT-TTAATTT
47809106 TTTTAATTTTAATTT
1 TTTTAATTTTAATTT
47809121 TTT
1 TTT
47809124 AGTCATGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTAATTTTAATTT
Found at i:47809606 original size:10 final size:10
Alignment explanation
Indices: 47809591--47809650 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 10
47809581 TATTCTTTAG
47809591 AATTTTTATA
1 AATTTTTATA
47809601 AATTTTT-TA
1 AATTTTTATA
*
47809610 AA---ATATA
1 AATTTTTATA
*
47809617 AATTTTTA-G
1 AATTTTTATA
47809626 AATTTTTATA
1 AATTTTTATA
47809636 AATATTTTA-A
1 AAT-TTTTATA
47809646 AATTT
1 AATTT
47809651 AAAAATTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
6 1 0.03
7 4 0.10
9 14 0.35
10 16 0.40
11 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (10 bp):
AATTTTTATA
Found at i:47809609 original size:20 final size:20
Alignment explanation
Indices: 47809575--47809693 Score: 76
Period size: 20 Copynumber: 6.2 Consensus size: 20
47809565 TTTTACTTTC
* *
47809575 TTTATATATTCTTTAGAATT
1 TTTATAAATTTTTTAGAATT
47809595 TTTATAAATTTTTTA-AA--
1 TTTATAAATTTTTTAGAATT
*
47809612 -ATATAAA-TTTTTAGAATT
1 TTTATAAATTTTTTAGAATT
* *
47809630 TTTATAAATATTTTA-AA-A
1 TTTATAAATTTTTTAGAATT
*
47809648 TTTAAAAATTATTTT-GAATT
1 TTTATAAATT-TTTTAGAATT
* *
47809668 TTTGA-AAATCATTTTAAAATT
1 TTT-ATAAAT-TTTTTAGAATT
47809689 TTTAT
1 TTTAT
47809694 TGAGAAAGAC
Statistics
Matches: 76, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
15 6 0.08
16 8 0.11
18 8 0.11
19 16 0.21
20 30 0.39
21 8 0.11
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTATAAATTTTTTAGAATT
Found at i:47809628 original size:35 final size:36
Alignment explanation
Indices: 47809577--47809687 Score: 127
Period size: 35 Copynumber: 3.0 Consensus size: 36
47809567 TTACTTTCTT
* *
47809577 TATATATTCTTTAGAATTTTTATAAATTTTTTAAAA
1 TATAAATTCTTTAGAATTTTTATAAATATTTTAAAA
47809613 TATAAATT-TTTAGAATTTTTATAAATATTTTAAAA
1 TATAAATTCTTTAGAATTTTTATAAATATTTTAAAA
* * *
47809648 TTTAAAAATTATTTTGAATTTTTGA-AAATCATTTTAAAA
1 --TATAAATTCTTTAGAATTTTT-ATAAAT-ATTTTAAAA
47809687 T
1 T
47809688 TTTTATTGAG
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
35 26 0.39
36 7 0.11
37 8 0.12
38 15 0.23
39 10 0.15
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (36 bp):
TATAAATTCTTTAGAATTTTTATAAATATTTTAAAA
Found at i:47812208 original size:15 final size:16
Alignment explanation
Indices: 47812188--47812217 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47812178 TTTAGAATTT
47812188 TAAATTAAAA-ATAAC
1 TAAATTAAAATATAAC
47812203 TAAATTAAAATATAA
1 TAAATTAAAATATAA
47812218 AAACTAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
TAAATTAAAATATAAC
Found at i:47812532 original size:18 final size:18
Alignment explanation
Indices: 47812505--47812539 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47812495 ACTTTTTTTC
* *
47812505 TTTTATTTTCTTCTAAAT
1 TTTTACTTTCCTCTAAAT
47812523 TTTTACTTTCCTCTAAA
1 TTTTACTTTCCTCTAAA
47812540 CCTCATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.17, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTACTTTCCTCTAAAT
Found at i:47820392 original size:3 final size:3
Alignment explanation
Indices: 47820384--47820412 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
47820374 CATGAGATTT
47820384 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
47820413 GAGTTGAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:47828189 original size:60 final size:59
Alignment explanation
Indices: 47828044--47828214 Score: 162
Period size: 60 Copynumber: 2.8 Consensus size: 59
47828034 TTCAAATTCT
* * * *
47828044 AATGTGAGAACAATTGCCAAGTTTAAGGCCTAACTTGGACCAAAGAAAAAAAATTCAAGTCCC
1 AATGTGGGAACAATTG-CAAGTTCAAGGCCTAACTTGGA-C-AA-AAAAAGAATTCAAGCCCC
* * ** *
47828107 AACGTGGGAACATTTGCTAAGTTCAAGGCCTAACTTGGACAAAAAAAGGGTTCAGGCCCC
1 AATGTGGGAACAATTGC-AAGTTCAAGGCCTAACTTGGACAAAAAAAGAATTCAAGCCCC
* * * * *
47828167 AATGTGGGAACAACTGTCAAGTTCATGACTTAATTTGGACAAAAAAAG
1 AATGTGGGAACAATTG-CAAGTTCAAGGCCTAACTTGGACAAAAAAAG
47828215 TTCAAACCTC
Statistics
Matches: 90, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
60 52 0.58
61 3 0.03
62 2 0.02
63 33 0.37
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (59 bp):
AATGTGGGAACAATTGCAAGTTCAAGGCCTAACTTGGACAAAAAAAGAATTCAAGCCCC
Found at i:47828511 original size:21 final size:22
Alignment explanation
Indices: 47828479--47828533 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
47828469 TTTTTTTCAC
* *
47828479 TGTTGTTTTGCTGCTATTTTGT
1 TGTTGTTTTGCTGCCATTTTGA
47828501 TGTTG-TTTGCTGCCATTTTGA
1 TGTTGTTTTGCTGCCATTTTGA
*
47828522 TGTTATTTTGCT
1 TGTTGTTTTGCT
47828534 ATTATATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.07, C:0.11, G:0.22, T:0.60
Consensus pattern (22 bp):
TGTTGTTTTGCTGCCATTTTGA
Found at i:47828538 original size:11 final size:11
Alignment explanation
Indices: 47828533--47828563 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
47828523 GTTATTTTGC
*
47828533 TATTATATTAT
1 TATTATTTTAT
47828544 TATTATTTTAT
1 TATTATTTTAT
47828555 TATTATTTT
1 TATTATTTT
47828564 TTGGATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:47828555 original size:14 final size:14
Alignment explanation
Indices: 47828533--47828565 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
47828523 GTTATTTTGC
*
47828533 TATTATATTATTAT
1 TATTTTATTATTAT
47828547 TATTTTATTATTAT
1 TATTTTATTATTAT
47828561 T-TTTT
1 TATTTT
47828566 GGATATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
TATTTTATTATTAT
Found at i:47831823 original size:105 final size:104
Alignment explanation
Indices: 47831623--47831850 Score: 234
Period size: 105 Copynumber: 2.1 Consensus size: 104
47831613 CCGTCATATT
* * *
47831623 ATTATTTTTAATTTAACATTTAATTGTTATAAATAATAAATTATTGTAAATATTCATGGAGATAA
1 ATTATTTTTAATTTAACATTTAATTGTTATAAATAATAAATTATTGTAAACATTAATAGAGATAA
*
47831688 ATTATTTCTTTCTATCTAAGACAAAAAAATATATATTTA-C
66 ATTATTTCTTTCTATCTAAGA-AAAAATA-ATATATTTATC
*
47831728 ATTATTTTTAATTTAATATTTAATAT-TTATAAATAATAAATTATTGTGGATATACATATAATAA
1 ATTATTTTTAATTTAACATTTAAT-TGTTATAAATAATAAATTATTGT--A-A-ACAT-TAAT-A
* *
47831792 GAGATAAATTACTTT-TTT-T-TCTAAG-ATAAATAATTTATTTATC
59 GAGATAAATTA-TTTCTTTCTATCTAAGAAAAAATAATATATTTATC
* *
47831835 TTTATGTGTTAATTTA
1 ATTAT-TTTTAATTTA
47831851 TCTCCTTTAT
Statistics
Matches: 104, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
105 44 0.42
106 9 0.09
107 11 0.11
108 10 0.10
109 9 0.09
110 4 0.04
111 14 0.13
112 3 0.03
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (104 bp):
ATTATTTTTAATTTAACATTTAATTGTTATAAATAATAAATTATTGTAAACATTAATAGAGATAA
ATTATTTCTTTCTATCTAAGAAAAAATAATATATTTATC
Found at i:47833708 original size:22 final size:21
Alignment explanation
Indices: 47833661--47833709 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
47833651 AGTTTATACA
47833661 ATTTTAATAAATTTAATATAT
1 ATTTTAATAAATTTAATATAT
* *
47833682 TTTTTAA-AGAATTCTAATATGT
1 ATTTTAATA-AATT-TAATATAT
47833704 ATTTTA
1 ATTTTA
47833710 TTTTAAATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 10 0.43
22 12 0.52
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (21 bp):
ATTTTAATAAATTTAATATAT
Found at i:47833779 original size:9 final size:9
Alignment explanation
Indices: 47833738--47833791 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
47833728 AATTTTTTAT
*
47833738 ATTTTTATA
1 ATTTTAATA
47833747 ATATTT-ATA
1 AT-TTTAATA
* *
47833756 AGTTTATACA
1 ATTTTA-ATA
47833766 ATTTTAATA
1 ATTTTAATA
47833775 ATTTTAATA
1 ATTTTAATA
47833784 ATTTTAAT
1 ATTTTAAT
47833792 TTTTTTAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
8 3 0.08
9 25 0.66
10 10 0.26
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (9 bp):
ATTTTAATA
Found at i:47833834 original size:111 final size:113
Alignment explanation
Indices: 47833660--47833911 Score: 373
Period size: 111 Copynumber: 2.2 Consensus size: 113
47833650 CAGTTTATAC
* * *
47833660 AATTTTAATAAATTTAATATATTTTTTAAAGAATTCTAATATGTATTTTATTTTAAATAGGTTTC
1 AATTTTAAT-AATTTTA-AT-TTTTTTAAAGAATTCTAATATATATTTTATATTAAATAGGTTTC
*
47833725 ATTAATT-TTTTATATTTTTATAATATTTATAAGTTTATA-CAATTTTAAT
63 ATTAATTATTTTATATTTTTATAATATTTATAAGTTTATATAAATTTTAAT
47833774 AATTTTAATAATTTTAATTTTTTTAAAGAATTCTAATATATATTTTATATTAAATAGGTTTCATT
1 AATTTTAATAATTTTAATTTTTTTAAAGAATTCTAATATATATTTTATATTAAATAGGTTTCATT
**
47833839 GTTTATTTTATATTTTTATAATATTTATAAGTTTATATAAATTTTAAT
66 AATTATTTTATATTTTTATAATATTTATAAGTTTATATAAATTTTAAT
* *
47833887 ATCTTTTTATAATTTTTAATTTTTT
1 A-ATTTTAATAA-TTTTAATTTTTT
47833912 ATGATTTTTA
Statistics
Matches: 126, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
111 47 0.37
112 34 0.27
113 16 0.13
114 17 0.13
115 12 0.10
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (113 bp):
AATTTTAATAATTTTAATTTTTTTAAAGAATTCTAATATATATTTTATATTAAATAGGTTTCATT
AATTATTTTATATTTTTATAATATTTATAAGTTTATATAAATTTTAAT
Found at i:47833903 original size:20 final size:20
Alignment explanation
Indices: 47833851--47833906 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
47833841 TTATTTTATA
* *
47833851 TTTTTATAATATTT-ATAAG
1 TTTTTATAATTTTTAATAAC
* * *
47833870 TTTATATAAATTTTAATATC
1 TTTTTATAATTTTTAATAAC
47833890 TTTTTATAATTTTTAAT
1 TTTTTATAATTTTTAAT
47833907 TTTTTATGAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTTTATAATTTTTAATAAC
Found at i:47833912 original size:17 final size:17
Alignment explanation
Indices: 47833851--47833921 Score: 61
Period size: 19 Copynumber: 3.9 Consensus size: 17
47833841 TTATTTTATA
*
47833851 TTTTTATAATATTTATAAG
1 TTTTTATAAT-TTT-TAAT
* *
47833870 TTTATATAAATTTTAATAT
1 TTTTTAT-AATTTTTA-AT
47833889 CTTTTTATAATTTTTAAT
1 -TTTTTATAATTTTTAAT
*
47833907 TTTTTATGATTTTTA
1 TTTTTATAATTTTTA
47833922 GGGGAAAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
17 14 0.33
18 3 0.07
19 17 0.40
20 9 0.21
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (17 bp):
TTTTTATAATTTTTAAT
Found at i:47837254 original size:22 final size:24
Alignment explanation
Indices: 47837212--47837256 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
47837202 ATATAATAGG
*
47837212 AGATAAATTACTTCTATTTATCTA
1 AGATAAATCACTTCTATTTATCTA
47837236 AGATAAATCA-TT-TATTTATCT
1 AGATAAATCACTTCTATTTATCT
47837257 TTATGTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 2 0.10
24 9 0.45
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (24 bp):
AGATAAATCACTTCTATTTATCTA
Found at i:47838441 original size:21 final size:19
Alignment explanation
Indices: 47838415--47838458 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
47838405 ATTTGATTTG
*
47838415 TTTTAGAAACACAAATTGATT
1 TTTTAG-AAC-CAAATTAATT
*
47838436 TTTTAGAGCCAAATTAATT
1 TTTTAGAACCAAATTAATT
47838455 TTTT
1 TTTT
47838459 TAAAATCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 13 0.62
20 2 0.10
21 6 0.29
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTTAGAACCAAATTAATT
Found at i:47839134 original size:21 final size:21
Alignment explanation
Indices: 47839088--47839135 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
47839078 AGTTTATACA
* *
47839088 ATTTTAATAATTTTAATATTT
1 ATTTTAATAATTCTAATATAT
*
47839109 TTTTTAATAATTCTAATATAT
1 ATTTTAATAATTCTAATATAT
47839130 ATTTTA
1 ATTTTA
47839136 TTTTAAATAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTAATAATTCTAATATAT
Found at i:47839170 original size:8 final size:9
Alignment explanation
Indices: 47839157--47839235 Score: 56
Period size: 9 Copynumber: 8.7 Consensus size: 9
47839147 TTTCGTTAAT
47839157 TTTTTAT-A
1 TTTTTATAA
47839165 TTTTTATAA
1 TTTTTATAA
*
47839174 TATTTAT-A
1 TTTTTATAA
47839182 TGTTTATATAAA
1 T-TTT-TAT-AA
* *
47839194 TTTTAATATC
1 TTTTTATA-A
47839204 TTTTTATAA
1 TTTTTATAA
*
47839213 TTTTT-TAT
1 TTTTTATAA
*
47839221 TTTTTATGA
1 TTTTTATAA
47839230 TTTTTA
1 TTTTTA
47839236 AGGGAAAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
8 16 0.29
9 22 0.40
10 12 0.22
11 3 0.05
12 2 0.04
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (9 bp):
TTTTTATAA
Found at i:47839198 original size:19 final size:16
Alignment explanation
Indices: 47839158--47839224 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 16
47839148 TTCGTTAATT
47839158 TTTTATATTTTTATAA
1 TTTTATATTTTTATAA
47839174 TATTTATATGTTTATATAAA
1 T-TTTATAT-TTT-TAT-AA
47839194 TTTTAATATCTTTTTATAA
1 TTTT-ATA--TTTTTATAA
*
47839213 TTTTTTATTTTT
1 TTTTATATTTTT
47839225 TATGATTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
16 6 0.14
17 7 0.16
18 5 0.12
19 12 0.28
20 9 0.21
21 3 0.07
22 1 0.02
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (16 bp):
TTTTATATTTTTATAA
Found at i:47842575 original size:22 final size:24
Alignment explanation
Indices: 47842533--47842577 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
47842523 ATATAATAGG
*
47842533 AGATAAATTACTTCTATTTATCTA
1 AGATAAATCACTTCTATTTATCTA
47842557 AGATAAATCA-TT-TATTTATCT
1 AGATAAATCACTTCTATTTATCT
47842578 TTATGTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 2 0.10
24 9 0.45
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (24 bp):
AGATAAATCACTTCTATTTATCTA
Found at i:47843160 original size:15 final size:15
Alignment explanation
Indices: 47843142--47843170 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47843132 CTTTTCTATT
47843142 TTTATTTTTTTTCTC
1 TTTATTTTTTTTCTC
47843157 TTTATTTTTTTTCT
1 TTTATTTTTTTTCT
47843171 TTCGAACTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTATTTTTTTTCTC
Found at i:47843800 original size:3 final size:3
Alignment explanation
Indices: 47843792--47843902 Score: 63
Period size: 3 Copynumber: 37.3 Consensus size: 3
47843782 TTTAACACTT
* * *
47843792 TTA TTA TTA TTA TTA TT- TT- TTC TTCA TTA TT- TTA ATG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
* * * *
47843835 TCTT TTA TTA TTA TGA TTA TTA TT- TCTA TTA TTA TT- TATA TCA TTT
1 T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA TTA TTA
*
47843881 TTA TTCA TCA -TA TTA TTA TTA T
1 TTA TT-A TTA TTA TTA TTA TTA T
47843903 ATGATAGTTT
Statistics
Matches: 83, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
2 9 0.11
3 66 0.80
4 8 0.10
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:47844086 original size:23 final size:23
Alignment explanation
Indices: 47844060--47844103 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
47844050 ATACCTACGC
47844060 ATATGTACATATT-TTATATATAT
1 ATATGTACATATTCTT-TATATAT
* *
47844083 ATATTTATATATTCTTTATAT
1 ATATGTACATATTCTTTATAT
47844104 TTTAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.89
24 2 0.11
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (23 bp):
ATATGTACATATTCTTTATATAT
Found at i:47844102 original size:21 final size:21
Alignment explanation
Indices: 47844078--47844141 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 21
47844068 ATATTTTATA
47844078 TATATATATTTATATATTCTT
1 TATATATATTTATATATTCTT
* * *
47844099 TATAT-T-TTAAAATA-T-AT
1 TATATATATTTATATATTCTT
*
47844116 TATATATATTTTATATATACTT
1 TATATATA-TTTATATATTCTT
47844138 TATA
1 TATA
47844142 ATTCTAACAT
Statistics
Matches: 31, Mismatches: 7, Indels: 9
0.66 0.15 0.19
Matches are distributed among these distances:
17 6 0.19
18 2 0.06
19 6 0.19
20 7 0.23
21 5 0.16
22 5 0.16
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATATATTTATATATTCTT
Found at i:47844129 original size:11 final size:11
Alignment explanation
Indices: 47844068--47844141 Score: 66
Period size: 11 Copynumber: 6.9 Consensus size: 11
47844058 GCATATGTAC
47844068 ATATTTTATAT
1 ATATTTTATAT
47844079 ATATATATT-TAT
1 ATAT-T-TTATAT
*
47844091 ATATTCT-T-T
1 ATATTTTATAT
*
47844100 ATATTTTA-AA
1 ATATTTTATAT
*
47844110 ATATATTATAT
1 ATATTTTATAT
47844121 ATATTTTATAT
1 ATATTTTATAT
*
47844132 ATACTTTATA
1 ATATTTTATA
47844142 ATTCTAACAT
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
9 7 0.14
10 9 0.18
11 25 0.49
12 8 0.16
13 2 0.04
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (11 bp):
ATATTTTATAT
Found at i:47844301 original size:18 final size:19
Alignment explanation
Indices: 47844259--47844304 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
47844249 ACTTAAAGTG
*
47844259 CTTTATTATTTGTTTATTTA
1 CTTT-TTATTTGTTGATTTA
47844279 C-TTTTATTTGTTGATTT-
1 CTTTTTATTTGTTGATTTA
47844296 CTTTTTATT
1 CTTTTTATT
47844305 ATATTTGCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 1 0.04
18 20 0.83
19 2 0.08
20 1 0.04
ACGTcount: A:0.15, C:0.07, G:0.07, T:0.72
Consensus pattern (19 bp):
CTTTTTATTTGTTGATTTA
Found at i:47846371 original size:21 final size:19
Alignment explanation
Indices: 47846345--47846389 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
47846335 ATTTGATTTG
*
47846345 TTTTAGAAACTCAAATTGATT
1 TTTTAG-AAC-CAAATTAATT
*
47846366 TTTTAGAGCCAAATTAATT
1 TTTTAGAACCAAATTAATT
47846385 TTTTA
1 TTTTA
47846390 AAAATCCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 14 0.64
20 2 0.09
21 6 0.27
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.47
Consensus pattern (19 bp):
TTTTAGAACCAAATTAATT
Found at i:47847100 original size:8 final size:9
Alignment explanation
Indices: 47847087--47847165 Score: 63
Period size: 9 Copynumber: 8.7 Consensus size: 9
47847077 TTTCATTAAT
47847087 TTTTTAT-A
1 TTTTTATAA
47847095 TTTTTATAA
1 TTTTTATAA
*
47847104 TATTTATAA
1 TTTTTATAA
*
47847113 GTTTATATAAA
1 -TTTTTAT-AA
* *
47847124 TTTTAATATC
1 TTTTTATA-A
47847134 TTTTTATAA
1 TTTTTATAA
*
47847143 TTTTT-TAT
1 TTTTTATAA
*
47847151 TTTTTATGA
1 TTTTTATAA
47847160 TTTTTA
1 TTTTTA
47847166 AGGGAAAATA
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
8 14 0.25
9 22 0.40
10 17 0.31
11 2 0.04
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:47847147 original size:10 final size:10
Alignment explanation
Indices: 47847083--47847150 Score: 54
Period size: 10 Copynumber: 7.1 Consensus size: 10
47847073 TAGGTTTCAT
47847083 TAATTTTTTA
1 TAATTTTTTA
47847093 T-A-TTTTTA
1 TAATTTTTTA
*
47847101 TAA-TATTTA
1 TAATTTTTTA
* *
47847110 TAAGTTTATA
1 TAATTTTTTA
* *
47847120 TAAATTTTAA
1 TAATTTTTTA
47847130 T-ATCTTTTTA
1 TAAT-TTTTTA
47847140 TAATTTTTTA
1 TAATTTTTTA
47847150 T
1 T
47847151 TTTTTATGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
8 7 0.15
9 11 0.24
10 26 0.57
11 2 0.04
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:47850693 original size:18 final size:18
Alignment explanation
Indices: 47850659--47850693 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47850649 ATTTAATCAA
* *
47850659 TTTTAATTTTTATATTTT
1 TTTTAATTTTGAAATTTT
47850677 TTTTAATTTTGAAATTT
1 TTTTAATTTTGAAATTT
47850694 CAATAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTAATTTTGAAATTTT
Found at i:47853049 original size:27 final size:29
Alignment explanation
Indices: 47853005--47853068 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 29
47852995 TCTTCCTCAC
** *
47853005 CTTCTTCCTCAGTTGAAG-ACC-CTTCTT
1 CTTCTTCCTCAGAAGAAGCACCTCTTCAT
47853032 CTTCTTCCTCAGAAGAAGTCACCTCTTCAT
1 CTTCTTCCTCAGAAGAAG-CACCTCTTCAT
47853062 CTTCTTC
1 CTTCTTC
47853069 AGATGAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 16 0.52
29 3 0.10
30 12 0.39
ACGTcount: A:0.17, C:0.34, G:0.09, T:0.39
Consensus pattern (29 bp):
CTTCTTCCTCAGAAGAAGCACCTCTTCAT
Found at i:47872065 original size:49 final size:50
Alignment explanation
Indices: 47872003--47872099 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 50
47871993 ACATGTGAAA
* * *
47872003 ATGTGATTATGTGATTCCATGTAAGACCATAGCTGGGCTATGGCATCGGT
1 ATGTGATTATGTGACTACATGTAAGACCATAGCTGGACTATGGCATCGGT
* *
47872053 ATGTGA-TATGTGACTACATGTAAGACCATAGTTTGACTATGGCATCG
1 ATGTGATTATGTGACTACATGTAAGACCATAGCTGGACTATGGCATCG
47872100 AGAAAATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 36 0.86
50 6 0.14
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (50 bp):
ATGTGATTATGTGACTACATGTAAGACCATAGCTGGACTATGGCATCGGT
Found at i:47885032 original size:16 final size:17
Alignment explanation
Indices: 47885001--47885033 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
47884991 GTGTTTAAAA
47885001 TATTTTCTAGAAATTATG
1 TATTTTCTA-AAATTATG
47885019 TATTTTCT-AAATTAT
1 TATTTTCTAAAATTAT
47885034 CCTTACTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (17 bp):
TATTTTCTAAAATTATG
Found at i:47885897 original size:27 final size:27
Alignment explanation
Indices: 47885877--47885943 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 27
47885867 AAAAAATATG
*
47885877 AAAATTGATATAAA-CT-TAAAAAATAT
1 AAAATT-ATATAAAGATGTAAAAAATAT
47885903 AAATATTATA-AAAGATGTAAAAAATAT
1 AAA-ATTATATAAAGATGTAAAAAATAT
47885930 AATAAATTATATAA
1 -A-AAATTATATAA
47885944 TTAATAAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
25 3 0.09
26 7 0.21
27 13 0.38
28 7 0.21
29 4 0.12
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (27 bp):
AAAATTATATAAAGATGTAAAAAATAT
Found at i:47885968 original size:22 final size:22
Alignment explanation
Indices: 47885943--47885996 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
47885933 AAATTATATA
47885943 ATTAATAAAACATAT-TTAAAAT
1 ATTAATAAAA-ATATATTAAAAT
*
47885965 ATT-ATAAAAATGTATTAAAAT
1 ATTAATAAAAATATATTAAAAT
*
47885986 ACTAA-AAAAAT
1 ATTAATAAAAAT
47885997 CATGAACCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 3 0.11
21 21 0.75
22 4 0.14
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (22 bp):
ATTAATAAAAATATATTAAAAT
Found at i:47886597 original size:9 final size:9
Alignment explanation
Indices: 47886539--47886614 Score: 52
Period size: 9 Copynumber: 8.7 Consensus size: 9
47886529 TTTATTAGTT
47886539 TTTTTAT-A
1 TTTTTATAA
47886547 TTTTTATAA
1 TTTTTATAA
* *
47886556 TATCTATAA
1 TTTTTATAA
*
47886565 GTTTATATCAA
1 -TTTTTAT-AA
**
47886576 TTTAAAT-A
1 TTTTTATAA
47886584 TTTTTATAA
1 TTTTTATAA
47886593 TTTTT-T-A
1 TTTTTATAA
*
47886600 TTTTTATGA
1 TTTTTATAA
47886609 TTTTTA
1 TTTTTA
47886615 AGGGAAAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
7 6 0.11
8 15 0.27
9 21 0.38
10 11 0.20
11 2 0.04
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:47886603 original size:16 final size:16
Alignment explanation
Indices: 47886582--47886613 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47886572 TCAATTTAAA
47886582 TATTTTTATAATTTTT
1 TATTTTTATAATTTTT
*
47886598 TATTTTTATGATTTTT
1 TATTTTTATAATTTTT
47886614 AAGGGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (16 bp):
TATTTTTATAATTTTT
Found at i:47886797 original size:29 final size:30
Alignment explanation
Indices: 47886716--47886797 Score: 69
Period size: 29 Copynumber: 2.7 Consensus size: 30
47886706 GTTAACGGAA
* *
47886716 GGGCTTAATTGATTATTTTAGTTAACGACAG
1 GGGCTTAATTGATT-TGTTATTTAACGACAG
* ** * *
47886747 GAGCTTAATTG-GGTGTGAATTTAA-TACAG
1 GGGCTTAATTGATTTGT-TATTTAACGACAG
47886776 GGGCTTAATTGATTTGTTATTT
1 GGGCTTAATTGATTTGTTATTT
47886798 GCATTTTCTT
Statistics
Matches: 38, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
29 20 0.53
30 8 0.21
31 10 0.26
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.41
Consensus pattern (30 bp):
GGGCTTAATTGATTTGTTATTTAACGACAG
Found at i:47887218 original size:81 final size:81
Alignment explanation
Indices: 47887123--47887284 Score: 288
Period size: 81 Copynumber: 2.0 Consensus size: 81
47887113 TCCCCTCCAC
* * *
47887123 GTTTCTGCATTGCAGGTAGCACTACATTCTCTCATAATGGCAGGTATATAGCTTCTACTTATAAC
1 GTTTCTGCAGTGCAGGTAGCACCACATTCTCTAATAATGGCAGGTATATAGCTTCTACTTATAAC
47887188 CCTTTCTTTCTTTATT
66 CCTTTCTTTCTTTATT
*
47887204 GTTTCTGCAGTGCAGGTAGCACCACATTCTCTAATAATGGCAGGTATATAGCTTCTACTTTTAAC
1 GTTTCTGCAGTGCAGGTAGCACCACATTCTCTAATAATGGCAGGTATATAGCTTCTACTTATAAC
47887269 CCTTTCTTTCTTTATT
66 CCTTTCTTTCTTTATT
47887285 ATGTATGTAA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.41
Consensus pattern (81 bp):
GTTTCTGCAGTGCAGGTAGCACCACATTCTCTAATAATGGCAGGTATATAGCTTCTACTTATAAC
CCTTTCTTTCTTTATT
Found at i:47928844 original size:11 final size:11
Alignment explanation
Indices: 47928828--47928914 Score: 51
Period size: 11 Copynumber: 8.3 Consensus size: 11
47928818 ATTAATCATT
47928828 TCTCAATTTCC
1 TCTCAATTTCC
* *
47928839 TCTCAAATTGC
1 TCTCAATTTCC
47928850 TCTCAATTTCC
1 TCTCAATTTCC
47928861 T-TCCAAATTT-C
1 TCT-C-AATTTCC
*
47928872 TCTCAA-ATCC
1 TCTCAATTTCC
* **
47928882 -AT--ATTTAA
1 TCTCAATTTCC
*
47928890 TCTCAATTTGC
1 TCTCAATTTCC
47928901 TCTCAATTTCC
1 TCTCAATTTCC
47928912 TCT
1 TCT
47928915 TAAATTTCTC
Statistics
Matches: 55, Mismatches: 13, Indels: 16
0.65 0.15 0.19
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 4 0.07
11 40 0.73
12 6 0.11
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:47928856 original size:22 final size:22
Alignment explanation
Indices: 47928828--47928877 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
47928818 ATTAATCATT
47928828 TCTCAATTTCC-TCTCAAATTGC
1 TCTCAATTTCCTTC-CAAATTGC
*
47928850 TCTCAATTTCCTTCCAAATTTC
1 TCTCAATTTCCTTCCAAATTGC
47928872 TCTCAA
1 TCTCAA
47928878 ATCCATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.24, C:0.32, G:0.02, T:0.42
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAATTGC
Found at i:47928901 original size:51 final size:51
Alignment explanation
Indices: 47928839--47928938 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
47928829 CTCAATTTCC
47928839 TCTCAAATTGCTCTCAATTTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAAATTGCTCTCAATTTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * * *
47928890 TCTCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAAATTGCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTT
47928939 TTAATTTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.02, T:0.45
Consensus pattern (51 bp):
TCTCAAATTGCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:47931185 original size:40 final size:40
Alignment explanation
Indices: 47931109--47931186 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
47931099 TTATGTGGCA
* *
47931109 GCAAAACGCGCCCTTGAGGGAGCGATTTATGTCCACGTAG
1 GCAAAACGCGCCCTTCAGGGAGCGATTTATCTCCACGTAG
*
47931149 GCAAAACGCG-CCTTCAGGGATGCG-TTTTTCTACCACGT
1 GCAAAACGCGCCCTTCAGGGA-GCGATTTATCT-CCACGT
47931187 CCCCTGACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 14 0.42
40 19 0.58
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.23
Consensus pattern (40 bp):
GCAAAACGCGCCCTTCAGGGAGCGATTTATCTCCACGTAG
Found at i:47935536 original size:16 final size:16
Alignment explanation
Indices: 47935515--47935545 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47935505 CTATGCATGC
*
47935515 AAAATATAAAAGATAG
1 AAAATACAAAAGATAG
47935531 AAAATACAAAAGATA
1 AAAATACAAAAGATA
47935546 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.03, G:0.10, T:0.16
Consensus pattern (16 bp):
AAAATACAAAAGATAG
Found at i:47936869 original size:2 final size:2
Alignment explanation
Indices: 47936862--47936890 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
47936852 ACATGTTCGA
47936862 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
47936891 ACATTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47937343 original size:24 final size:24
Alignment explanation
Indices: 47937248--47937546 Score: 149
Period size: 23 Copynumber: 12.7 Consensus size: 24
47937238 ATTTTCACAC
*
47937248 CAAAATTTGGACAGCATAAATACAA
1 CAAAA-TTGGACAGCATATATACAA
* * *
47937273 C-AATTTGGGCAGCATATATA-TA
1 CAAAATTGGACAGCATATATACAA
* * * * *
47937295 CAACAGTTTGAGCAGCATTTTTACAC
1 CAA-AATTGGA-CAGCATATATACAA
*
47937321 CAAAACTGGACAGCATATATACAA
1 CAAAATTGGACAGCATATATACAA
* * *
47937345 C-AAATTGGGCAGCATTTA-AGCAT
1 CAAAATTGGACAGCATATATA-CAA
**
47937368 CAAAATTGGACAGCATATATGTAA
1 CAAAATTGGACAGCATATATACAA
* *
47937392 C-AAATTGG-CAGCATTTA-AGCAT
1 CAAAATTGGACAGCATATATA-CAA
* **
47937414 CAAAATTAGACAGCATATATGTAA
1 CAAAATTGGACAGCATATATACAA
*
47937438 C-AAATTAGG-CAGCACT-TA-AGCAT
1 CAAAATT-GGACAGCA-TATATA-CAA
* **
47937461 CGAAATTGGACAGCATATATGTAA
1 CAAAATTGGACAGCATATATACAA
* * *
47937485 C-AAATTGGGCAGCATTTA-AGCAT
1 CAAAATTGGACAGCATATATA-CAA
**
47937508 CAAAATTGGACAGCATATATGTAA
1 CAAAATTGGACAGCATATATACAA
*
47937532 C-AAATTGGGCAGCAT
1 CAAAATTGGACAGCAT
47937547 TTAAGCATCA
Statistics
Matches: 200, Mismatches: 53, Indels: 44
0.67 0.18 0.15
Matches are distributed among these distances:
22 13 0.06
23 92 0.46
24 78 0.39
25 14 0.07
26 3 0.01
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (24 bp):
CAAAATTGGACAGCATATATACAA
Found at i:47937345 original size:47 final size:47
Alignment explanation
Indices: 47937288--47937559 Score: 271
Period size: 47 Copynumber: 5.8 Consensus size: 47
47937278 TGGGCAGCAT
** *
47937288 ATATATACAACAGTTTGAGCAGCATTTTTA-CACCAAAACTGGACAGC
1 ATATATACAACAAATTGAGCAGCA-TTTAAGCACCAAAACTGGACAGC
* * *
47937335 ATATATACAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGC
1 ATATATACAACAAATTGAGCAGCATTTAAGCACCAAAACTGGACAGC
** * * *
47937382 ATATATGTAACAAATTG-GCAGCATTTAAGCATCAAAATTAGACAGC
1 ATATATACAACAAATTGAGCAGCATTTAAGCACCAAAACTGGACAGC
** * * * *
47937428 ATATATGTAACAAATT-AGGCAGCACTTAAGCATCGAAATTGGACAGC
1 ATATATACAACAAATTGA-GCAGCATTTAAGCACCAAAACTGGACAGC
** * * *
47937475 ATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGC
1 ATATATACAACAAATTGAGCAGCATTTAAGCACCAAAACTGGACAGC
** * *
47937522 ATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
1 ATATATACAACAAATTGAGCAGCATTTAAGCACCAAAA
47937560 TATGTATATA
Statistics
Matches: 206, Mismatches: 15, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
46 48 0.23
47 158 0.77
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (47 bp):
ATATATACAACAAATTGAGCAGCATTTAAGCACCAAAACTGGACAGC
Found at i:47937574 original size:47 final size:47
Alignment explanation
Indices: 47937321--47937560 Score: 410
Period size: 47 Copynumber: 5.1 Consensus size: 47
47937311 ATTTTTACAC
* **
47937321 CAAAACTGGACAGCATATATACAACAAATTGGGCAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
47937368 CAAAATTGGACAGCATATATGTAACAAATT-GGCAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
* * *
47937414 CAAAATTAGACAGCATATATGTAACAAATTAGGCAGCACTTAAGCAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
*
47937461 CGAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
47937508 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
47937555 CAAAAT
1 CAAAAT
47937561 ATGTATATAT
Statistics
Matches: 182, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
46 45 0.25
47 137 0.75
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.24
Consensus pattern (47 bp):
CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCAT
Found at i:47937574 original size:94 final size:93
Alignment explanation
Indices: 47937321--47937560 Score: 408
Period size: 93 Copynumber: 2.6 Consensus size: 93
47937311 ATTTTTACAC
* **
47937321 CAAAACTGGACAGCATATATACAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATAT
47937386 ATGTAACAAATTGGCAGCATTTAAGCAT
66 ATGTAACAAATTGGCAGCATTTAAGCAT
* * * *
47937414 CAAAATTAGACAGCATATATGTAACAAATTAGGCAGCACTTAAGCATCGAAATTGGACAGCATAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATAT
47937479 ATGTAACAAATTGGGCAGCATTTAAGCAT
66 ATGTAACAAATT-GGCAGCATTTAAGCAT
47937508 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAAT
1 CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAAT
47937561 ATGTATATAT
Statistics
Matches: 135, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
93 70 0.52
94 65 0.48
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.24
Consensus pattern (93 bp):
CAAAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATAT
ATGTAACAAATTGGCAGCATTTAAGCAT
Found at i:47942810 original size:24 final size:25
Alignment explanation
Indices: 47942756--47942817 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 25
47942746 TCCGCTAAGT
*
47942756 GCTCTATGGAGCTACCCGTTGATTA
1 GCTCTTTGGAGCTACCCGTTGATTA
*
47942781 -CACTTTGGAGCTACCCGTT-A-TA
1 GCTCTTTGGAGCTACCCGTTGATTA
47942803 GGCTCTTTGTGAGCT
1 -GCTCTTTG-GAGCT
47942818 TCTCATTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 2 0.06
23 1 0.03
24 23 0.74
25 5 0.16
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (25 bp):
GCTCTTTGGAGCTACCCGTTGATTA
Found at i:47953285 original size:14 final size:14
Alignment explanation
Indices: 47953266--47953292 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47953256 AAGAGAAATT
47953266 TATTTTTGCTTATC
1 TATTTTTGCTTATC
47953280 TATTTTTGCTTAT
1 TATTTTTGCTTAT
47953293 AGATATAACA
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:0.15, C:0.11, G:0.07, T:0.67
Consensus pattern (14 bp):
TATTTTTGCTTATC
Found at i:47955158 original size:19 final size:19
Alignment explanation
Indices: 47955134--47955171 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47955124 TTCCTAATTG
*
47955134 GAATTGTAGATGGCATAAT
1 GAATTGTAGACGGCATAAT
47955153 GAATTGTAGACGGCATAAT
1 GAATTGTAGACGGCATAAT
47955172 AATCCTTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (19 bp):
GAATTGTAGACGGCATAAT
Found at i:47957282 original size:19 final size:19
Alignment explanation
Indices: 47957258--47957295 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47957248 TTCCTAATTG
*
47957258 GAATTGTAGATGGCATAAT
1 GAATTGTAGACGGCATAAT
47957277 GAATTGTAGACGGCATAAT
1 GAATTGTAGACGGCATAAT
47957296 AATCCTTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (19 bp):
GAATTGTAGACGGCATAAT
Found at i:47961080 original size:42 final size:42
Alignment explanation
Indices: 47960954--47961091 Score: 147
Period size: 42 Copynumber: 3.3 Consensus size: 42
47960944 TTTGGCACCG
* * * *
47960954 AAGTGCATTATTAGATAAACCGAAGCAAATATATTGGCACACAT
1 AAGTGCATCATTGGATGAACCGAAGCAAATATA-TAG-ACACAT
* * *
47960998 AA-TGCAT-ATTTGGATGAACTGAAACAAATATATTGACACAT
1 AAGTGCATCA-TTGGATGAACCGAAGCAAATATATAGACACAT
*
47961039 AAGTGCATCATTGGATGAACCGAAGCAAATATACA-AGCACAT
1 AAGTGCATCATTGGATGAACCGAAGCAAATATATAGA-CACAT
47961081 AAGTGCATCAT
1 AAGTGCATCAT
47961092 CAGACAAGTC
Statistics
Matches: 81, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
41 9 0.11
42 45 0.56
43 25 0.31
44 2 0.02
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.25
Consensus pattern (42 bp):
AAGTGCATCATTGGATGAACCGAAGCAAATATATAGACACAT
Found at i:47965096 original size:14 final size:13
Alignment explanation
Indices: 47965077--47965139 Score: 58
Period size: 12 Copynumber: 4.8 Consensus size: 13
47965067 TTAATTTTTT
47965077 TATTTTCAATATAA
1 TATTTT-AATATAA
*
47965091 TATTTTTAT-TAA
1 TATTTTAATATAA
47965103 TATTTTGAATATAAA
1 TATTTT-AATAT-AA
* *
47965118 TAATTTAACATAA
1 TATTTTAATATAA
47965131 -ATTTTAATA
1 TATTTTAATA
47965140 CTACATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
12 16 0.40
13 6 0.15
14 11 0.28
15 7 0.17
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (13 bp):
TATTTTAATATAA
Found at i:47965479 original size:22 final size:22
Alignment explanation
Indices: 47965449--47965491 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
47965439 ACAGCAGAAC
* *
47965449 AGGTTTTTAGCGGCGTTTTTTT
1 AGGTCTTTAGCGGCGCTTTTTT
47965471 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
47965492 AACGCCACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.14, G:0.28, T:0.49
Consensus pattern (22 bp):
AGGTCTTTAGCGGCGCTTTTTT
Found at i:47965723 original size:84 final size:83
Alignment explanation
Indices: 47965563--47965875 Score: 364
Period size: 85 Copynumber: 3.7 Consensus size: 83
47965553 ACGTCACTAA
* * *
47965563 CTTTTGCGGCGCTTACATAAAAAAACGCCGCTAAAGATCATGCTCTTTAGCGGCGCTTA-GAAAG
1 CTTTAGCGGCGCTT--ATAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTAGGAAA-
47965627 AAACGCCCCTAAAGATCATGTT
63 AAA-GCCCCTAAAGATCATGTT
*
47965649 CTTTAGCGGCGCTTATAAAAAAACGCTGCTAAAGATCATGTTCTTTAGCGACGCTTAGGAAAAAA
1 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTAGGAAAAAA
*
47965714 TGCCGCTAAAGATCATGTT
66 -GCCCCTAAAGATCATGTT
* * * * *
47965733 CTTTAGCGGCGCTTTTGTAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGACGATTTGGAAGAA
1 CTTTAGCGGCGCTTAT-AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTAGGAAAAA
* *
47965798 AGCGCTTCTAAA-AGTAATGTT
65 AGC-C-CCTAAAGA-TCATGTT
* * *
47965819 CTATAGCGGCGCTTATTAAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGACGCTTA
47965876 TTTCACAAAC
Statistics
Matches: 201, Mismatches: 19, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
84 79 0.39
85 84 0.42
86 38 0.19
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (83 bp):
CTTTAGCGGCGCTTATAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTAGGAAAAAA
GCCCCTAAAGATCATGTT
Found at i:47965877 original size:42 final size:42
Alignment explanation
Indices: 47965563--47965876 Score: 350
Period size: 42 Copynumber: 7.4 Consensus size: 42
47965553 ACGTCACTAA
* * *
47965563 CTTTTGCGGCGCTTACATAAAAAAACGCCGCTAAAGATCATGCT
1 CTTTAGCGGCGCTT--ATGAAAAAACGCCGCTAAAGATCATGTT
*
47965607 CTTTAGCGGCGCTTA-GAAAGAAACGCCCCTAAAGATCATGTT
1 CTTTAGCGGCGCTTATGAAA-AAACGCCGCTAAAGATCATGTT
* *
47965649 CTTTAGCGGCGCTTATAAAAAAACGCTGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
* * *
47965691 CTTTAGCGACGCTTAGGAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
*
47965733 CTTTAGCGGCGCTTTTGTAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTATG-AAAAAACGCCGCTAAAGATCATGTT
* * * ** *
47965776 CTTTAGCGACGATT-TGGAAGAAAGCGCTTCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTTAT-GAA-AAAACGCCGCTAAAGA-TCATGTT
* *
47965819 CTATAGCGGCGCTTATTAAAAAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGA-TCA-TGTT
47965861 CTTTAGCGGCGCTTAT
1 CTTTAGCGGCGCTTAT
47965877 TTCACAAACG
Statistics
Matches: 232, Mismatches: 30, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
41 4 0.02
42 144 0.62
43 70 0.30
44 14 0.06
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (42 bp):
CTTTAGCGGCGCTTATGAAAAAACGCCGCTAAAGATCATGTT
Found at i:47966312 original size:12 final size:12
Alignment explanation
Indices: 47966295--47966334 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
47966285 TTTTGAACCT
*
47966295 CTGCTTCTATTG
1 CTGCTTCTATCG
*
47966307 CTGCTTCTCTCG
1 CTGCTTCTATCG
*
47966319 CTGCTTCTCTCG
1 CTGCTTCTATCG
47966331 CTGC
1 CTGC
47966335 GGCCTCTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.03, C:0.38, G:0.17, T:0.42
Consensus pattern (12 bp):
CTGCTTCTATCG
Found at i:47966345 original size:21 final size:21
Alignment explanation
Indices: 47966319--47966397 Score: 140
Period size: 21 Copynumber: 3.8 Consensus size: 21
47966309 GCTTCTCTCG
47966319 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCGGCCT
*
47966340 CTGCTTCTCTTGCTGCGGCCT
1 CTGCTTCTCTCGCTGCGGCCT
*
47966361 CTACTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCGGCCT
47966382 CTGCTTCTCTCGCTGC
1 CTGCTTCTCTCGCTGC
47966398 TTCTTTCGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.01, C:0.42, G:0.22, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCGGCCT
Found at i:47966349 original size:33 final size:33
Alignment explanation
Indices: 47966307--47966436 Score: 161
Period size: 33 Copynumber: 3.7 Consensus size: 33
47966297 GCTTCTATTG
47966307 CTGCTTCTCTCGCTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCTTCTCTCGCTGCGGCCT
*
47966340 CTGCTTCTCTTGCTGCGGCCTCTACTTCTCTCGCTGCGGCCT
1 CTGC-T-TC-T-CT-C-G---CTGCTTCTCTCGCTGCGGCCT
*
47966382 CTGCTTCTCTCGCTGCTTCTTTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCTTCTCTCGCTGCGGCCT
47966415 CTGCTTCTCTCGCTGCTTCTCT
1 CTGCTTCTCTCGCTGCTTCTCT
47966437 NNNNNNNNNN
Statistics
Matches: 84, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
33 44 0.52
34 1 0.01
35 2 0.02
36 2 0.02
37 3 0.04
38 3 0.04
39 2 0.02
40 2 0.02
41 1 0.01
42 24 0.29
ACGTcount: A:0.01, C:0.41, G:0.20, T:0.38
Consensus pattern (33 bp):
CTGCTTCTCTCGCTGCTTCTCTCGCTGCGGCCT
Found at i:47966399 original size:12 final size:12
Alignment explanation
Indices: 47966382--47966436 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
47966372 GCTGCGGCCT
47966382 CTGCTTCTCTCG
1 CTGCTTCTCTCG
*
47966394 CTGCTTCTTTCG
1 CTGCTTCTCTCG
**
47966406 CTGCGGC-CT--
1 CTGCTTCTCTCG
47966415 CTGCTTCTCTCG
1 CTGCTTCTCTCG
47966427 CTGCTTCTCT
1 CTGCTTCTCT
47966437 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
9 5 0.15
10 2 0.06
11 1 0.03
12 26 0.76
ACGTcount: A:0.00, C:0.40, G:0.18, T:0.42
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:47976853 original size:14 final size:13
Alignment explanation
Indices: 47976807--47976887 Score: 58
Period size: 14 Copynumber: 5.8 Consensus size: 13
47976797 ATATATACCA
47976807 TAAACCTTAAA-TC
1 TAAACC-TAAACTC
*
47976820 TTAAATCCTAAACCC
1 -TAAA-CCTAAACTC
*
47976835 CAAACCTAAAACTC
1 TAAACCT-AAACTC
*
47976849 TAAACTCTAAACTG
1 TAAAC-CTAAACTC
47976863 TAAACCCTAAAC-C
1 TAAA-CCTAAACTC
47976876 ATAAACCTAAAC
1 -TAAACCTAAAC
47976888 CATATTTTTG
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
13 10 0.18
14 39 0.71
15 6 0.11
ACGTcount: A:0.47, C:0.30, G:0.01, T:0.22
Consensus pattern (13 bp):
TAAACCTAAACTC
Found at i:47976860 original size:21 final size:20
Alignment explanation
Indices: 47976807--47976886 Score: 54
Period size: 21 Copynumber: 3.8 Consensus size: 20
47976797 ATATATACCA
* * *
47976807 TAAACCTTAAATCTTAAATCC
1 TAAACC-TAAACCTAAAACCC
* *
47976828 TAAACCCCAAACCTAAAACTC
1 TAAA-CCTAAACCTAAAACCC
*
47976849 TAAACTCTAAA-CTGTAAACCC
1 TAAAC-CTAAACCT-AAAACCC
47976870 TAAACCATAAACCTAAA
1 TAAACC-TAAACCTAAA
47976887 CCATATTTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
20 4 0.09
21 37 0.82
22 4 0.09
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (20 bp):
TAAACCTAAACCTAAAACCC
Found at i:47977056 original size:20 final size:21
Alignment explanation
Indices: 47977020--47977067 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
47977010 TTCAATTTCC
47977020 AAACT-AAACCCTAAAACCCA
1 AAACTCAAACCCTAAAACCCA
* *
47977040 AAACTCAAA-CCTTAAACCCT
1 AAACTCAAACCCTAAAACCCA
47977060 AAACTCAA
1 AAACTCAA
47977068 TCTCTAACAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (21 bp):
AAACTCAAACCCTAAAACCCA
Found at i:47977893 original size:188 final size:187
Alignment explanation
Indices: 47977528--47977894 Score: 390
Period size: 188 Copynumber: 2.0 Consensus size: 187
47977518 AAACCCTGAG
* * * *
47977528 CATTAGCGGCGCTTCCCAAAAAACGCCGCTAAATCCCCAAAAAGCTCCAAAAACGGCACCGTTCG
1 CATTAGCGGCGCTTCACAAAAAACGCCGCTAAAGCCCCAAAAAGATACAAAAACGGCACCGTTCG
* * *
47977593 GCTTAGTTTTCTTGCGGCGCTTCTCCAAAAACGCCGCTAAAGGAAGCATTAGCGGCGCTTCATTT
66 GCATAGTTTTCTTGCGGCGCTTCTCCAAAAACGCCGCTAAAGGAAGCATTAGCGACGCTTCA-GT
****
47977658 GAAAACGCCGCTAAAGCCACTGAAAGTTAAGAAAACGGTGTCGTTTGGCAACCCCAAC
130 GAAAACGCCGCTAAAGCCACTGAAAGTTAAGAAAACGACACCGTTTGGCAACCCCAAC
* * * ** **
47977716 CATTAGCGGCGCTTCACTAAAAACGCCGCTAAGGCCTC-AAAAGATATGAAAACGGTGCCGTT-G
1 CATTAGCGGCGCTTCACAAAAAACGCCGCTAAAGCCCCAAAAAGATACAAAAACGGCACCGTTCG
*
47977779 GACATATGTTTT-TTGCGGCGCTTCTCCATAAACGCCGCTAAAGCCCTGAA-CATTAGCGACGCT
66 G-CATA-GTTTTCTTGCGGCGCTTCTCCAAAAACGCCGCTAAAG----GAAGCATTAGCGACGCT
** *
47977842 ATC-GT-AAAAGCGCCGCTAATTCCAC-GAAAGCTT-GGAAAACGACACCGTTTGGC
125 -TCAGTGAAAA-CGCCGCTAAAGCCACTGAAAG-TTAAGAAAACGACACCGTTTGGC
47977895 TTAGGTTTTT
Statistics
Matches: 148, Mismatches: 22, Indels: 18
0.79 0.12 0.10
Matches are distributed among these distances:
186 2 0.01
187 51 0.34
188 62 0.42
189 16 0.11
190 12 0.08
191 5 0.03
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.21
Consensus pattern (187 bp):
CATTAGCGGCGCTTCACAAAAAACGCCGCTAAAGCCCCAAAAAGATACAAAAACGGCACCGTTCG
GCATAGTTTTCTTGCGGCGCTTCTCCAAAAACGCCGCTAAAGGAAGCATTAGCGACGCTTCAGTG
AAAACGCCGCTAAAGCCACTGAAAGTTAAGAAAACGACACCGTTTGGCAACCCCAAC
Found at i:47977970 original size:72 final size:70
Alignment explanation
Indices: 47977878--47978075 Score: 206
Period size: 72 Copynumber: 2.8 Consensus size: 70
47977868 AAAGCTTGGA
* *
47977878 AAACGACACCGTTTGGCTTAGGTTTTTTAGCGGCGCTTTTCCAAAAACGCCGCTAAAT-CCCAAA
1 AAACGGCACCGTTTGTCTTAGG-TTTTTAGCGGCGCTTTT-CAAAAACGCCGCTAAATCCCCAAA
*
47977942 AACTACCG
64 AACT-CAG
*** * *
47977950 AAACGGCACCGTTTGTCTTAGGAAAATTAGTGGCGCTTGATT-AAAAACGTCGCTAAATCCCCAA
1 AAACGGCACCGTTTGTCTTAGG-TTTTTAGCGGCGCTT--TTCAAAAACGCCGCTAAATCCCCAA
47978014 AAACTCAG
63 AAACTCAG
* *
47978022 AAACGGCATCGTTTGTCTTTGGTTTTT-GCGGCGC-TTTCAGTAAAACGCCGCTAA
1 AAACGGCACCGTTTGTCTTAGGTTTTTAGCGGCGCTTTTCA--AAAACGCCGCTAA
47978076 TACTTATTTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
67 2 0.02
68 1 0.01
69 1 0.01
70 18 0.17
71 2 0.02
72 68 0.65
73 10 0.10
74 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (70 bp):
AAACGGCACCGTTTGTCTTAGGTTTTTAGCGGCGCTTTTCAAAAACGCCGCTAAATCCCCAAAAA
CTCAG
Found at i:47981047 original size:36 final size:36
Alignment explanation
Indices: 47981004--47981075 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
47980994 CCAAATACGC
47981004 CACCTACCTCCACTACACCTATCCCATCACATTCAA
1 CACCTACCTCCACTACACCTATCCCATCACATTCAA
* * *
47981040 CACCTACCTCCACTACACCTTTTCCATCCCATTCAA
1 CACCTACCTCCACTACACCTATCCCATCACATTCAA
47981076 TGTCTCACTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.47, G:0.00, T:0.25
Consensus pattern (36 bp):
CACCTACCTCCACTACACCTATCCCATCACATTCAA
Found at i:47983464 original size:29 final size:29
Alignment explanation
Indices: 47983427--47983496 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
47983417 ATTAAATGTA
*
47983427 TAATGTTATACAT-AAATTTTGATTTTAT
1 TAATTTTATACATGAAATTTTGATTTTAT
* * *
47983455 GTAATTTTATATATGAATTTTTTATTTTAT
1 -TAATTTTATACATGAAATTTTGATTTTAT
47983485 TCAATTTT-TACA
1 T-AATTTTATACA
47983497 AATCATTAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
29 15 0.44
30 19 0.56
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (29 bp):
TAATTTTATACATGAAATTTTGATTTTAT
Found at i:47984402 original size:15 final size:14
Alignment explanation
Indices: 47984374--47984400 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47984364 TGTCTTGTGT
47984374 TTTTTTAATATTTA
1 TTTTTTAATATTTA
47984388 TTTTTTAATATTT
1 TTTTTTAATATTT
47984401 TACTAACTCT
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTTAATATTTA
Found at i:47984968 original size:22 final size:22
Alignment explanation
Indices: 47984921--47984961 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
47984911 TTATAAGAGG
*
47984921 AAAAAACAACTTAAAATAAGCT
1 AAAAAACAACTTAAAAAAAGCT
47984943 AAAAAAC-A-TTAAAAAAAGC
1 AAAAAACAACTTAAAAAAAGC
47984962 ATTAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.68, C:0.12, G:0.05, T:0.15
Consensus pattern (22 bp):
AAAAAACAACTTAAAAAAAGCT
Found at i:47988069 original size:27 final size:27
Alignment explanation
Indices: 47988039--47988090 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
47988029 TGATGTTTCG
*
47988039 AGACACTAACATAAATTGACTTAAACC
1 AGACACTAACATAAAATGACTTAAACC
*
47988066 AGACTCTAACATAAAATGACTTAAA
1 AGACACTAACATAAAATGACTTAAA
47988091 ATAAACATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23
Consensus pattern (27 bp):
AGACACTAACATAAAATGACTTAAACC
Found at i:47990638 original size:21 final size:22
Alignment explanation
Indices: 47990612--47990658 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
47990602 CCTTTGTGTG
47990612 AATTTATCA-AAAATAAATCAA
1 AATTTATCATAAAATAAATCAA
* * *
47990633 AATTTATTATAAAATTAATTAA
1 AATTTATCATAAAATAAATCAA
47990655 AATT
1 AATT
47990659 CAACATGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
AATTTATCATAAAATAAATCAA
Found at i:47996477 original size:295 final size:295
Alignment explanation
Indices: 47995947--47996536 Score: 1180
Period size: 295 Copynumber: 2.0 Consensus size: 295
47995937 CTTGTTCCGT
47995947 GGAATCTCAGGCAGAGTCTTGCCCAAGACAACCTGCATTCCTGAAAAAAATAAAAAATAACAGAA
1 GGAATCTCAGGCAGAGTCTTGCCCAAGACAACCTGCATTCCTGAAAAAAATAAAAAATAACAGAA
47996012 TTAAAGGTTTGGATCTAAAAACGAAGAATAAAATAAAAACAGAATTAAGAATATTGAATCGAAAA
66 TTAAAGGTTTGGATCTAAAAACGAAGAATAAAATAAAAACAGAATTAAGAATATTGAATCGAAAA
47996077 TTTGAGAAATTAAAAATAGAGTTGAGAGAAAGGAAATTCTTATGGGAGATTCCAGCCTCCAGTTG
131 TTTGAGAAATTAAAAATAGAGTTGAGAGAAAGGAAATTCTTATGGGAGATTCCAGCCTCCAGTTG
47996142 TCTCATTTTGTCTTGGGTTCAATCCTCGGCTTTTAGATGATCCTTACCAAACCGAATAAGCCAGT
196 TCTCATTTTGTCTTGGGTTCAATCCTCGGCTTTTAGATGATCCTTACCAAACCGAATAAGCCAGT
47996207 TATAGTGGAAGAGGACGCCTACGACCACCAGCTCC
261 TATAGTGGAAGAGGACGCCTACGACCACCAGCTCC
47996242 GGAATCTCAGGCAGAGTCTTGCCCAAGACAACCTGCATTCCTGAAAAAAATAAAAAATAACAGAA
1 GGAATCTCAGGCAGAGTCTTGCCCAAGACAACCTGCATTCCTGAAAAAAATAAAAAATAACAGAA
47996307 TTAAAGGTTTGGATCTAAAAACGAAGAATAAAATAAAAACAGAATTAAGAATATTGAATCGAAAA
66 TTAAAGGTTTGGATCTAAAAACGAAGAATAAAATAAAAACAGAATTAAGAATATTGAATCGAAAA
47996372 TTTGAGAAATTAAAAATAGAGTTGAGAGAAAGGAAATTCTTATGGGAGATTCCAGCCTCCAGTTG
131 TTTGAGAAATTAAAAATAGAGTTGAGAGAAAGGAAATTCTTATGGGAGATTCCAGCCTCCAGTTG
47996437 TCTCATTTTGTCTTGGGTTCAATCCTCGGCTTTTAGATGATCCTTACCAAACCGAATAAGCCAGT
196 TCTCATTTTGTCTTGGGTTCAATCCTCGGCTTTTAGATGATCCTTACCAAACCGAATAAGCCAGT
47996502 TATAGTGGAAGAGGACGCCTACGACCACCAGCTCC
261 TATAGTGGAAGAGGACGCCTACGACCACCAGCTCC
47996537 AAGGATTTAG
Statistics
Matches: 295, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
295 295 1.00
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (295 bp):
GGAATCTCAGGCAGAGTCTTGCCCAAGACAACCTGCATTCCTGAAAAAAATAAAAAATAACAGAA
TTAAAGGTTTGGATCTAAAAACGAAGAATAAAATAAAAACAGAATTAAGAATATTGAATCGAAAA
TTTGAGAAATTAAAAATAGAGTTGAGAGAAAGGAAATTCTTATGGGAGATTCCAGCCTCCAGTTG
TCTCATTTTGTCTTGGGTTCAATCCTCGGCTTTTAGATGATCCTTACCAAACCGAATAAGCCAGT
TATAGTGGAAGAGGACGCCTACGACCACCAGCTCC
Found at i:47998675 original size:9 final size:10
Alignment explanation
Indices: 47998661--47998703 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
47998651 ATTAATATCC
47998661 AAAT-AAGTA
1 AAATAAAGTA
*
47998670 AAATAAAATA
1 AAATAAAGTA
47998680 AAATAAAGTAA
1 AAATAAAGT-A
47998691 TAAATAAAGTA
1 -AAATAAAGTA
47998702 AA
1 AA
47998704 GAAAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 4 0.14
10 14 0.48
11 2 0.07
12 9 0.31
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (10 bp):
AAATAAAGTA
Found at i:47998697 original size:17 final size:17
Alignment explanation
Indices: 47998674--47998731 Score: 75
Period size: 17 Copynumber: 3.5 Consensus size: 17
47998664 TAAGTAAAAT
47998674 AAAATAAAATAAAGTAA
1 AAAATAAAATAAAGTAA
* * *
47998691 TAAATAAAGTAAAGAAA
1 AAAATAAAATAAAGTAA
47998708 AAAATAAAA-AAA-TAA
1 AAAATAAAATAAAGTAA
47998723 AAAATAAAA
1 AAAATAAAA
47998732 ATTGGGTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 11 0.31
16 3 0.09
17 21 0.60
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (17 bp):
AAAATAAAATAAAGTAA
Found at i:47998715 original size:21 final size:21
Alignment explanation
Indices: 47998679--47998733 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
47998669 AAAATAAAAT
*
47998679 AAAATAAAGTAATAAATAAAGTAA
1 AAAATAAA--AATAAA-AAAATAA
*
47998703 AGAA-AAAAATAAAAAAATAA
1 AAAATAAAAATAAAAAAATAA
47998723 AAAATAAAAAT
1 AAAATAAAAAT
47998734 TGGGTTGCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 9 0.33
21 12 0.44
23 3 0.11
24 3 0.11
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (21 bp):
AAAATAAAAATAAAAAAATAA
Found at i:47998718 original size:8 final size:8
Alignment explanation
Indices: 47998674--47998732 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
47998664 TAAGTAAAAT
47998674 AAAATAAA
1 AAAATAAA
47998682 ATAAAGT-AA
1 A-AAA-TAAA
*
47998691 TAAATAAA
1 AAAATAAA
* *
47998699 GTAAAGAAA
1 -AAAATAAA
47998708 AAAATAAA
1 AAAATAAA
47998716 AAAAT-AA
1 AAAATAAA
47998723 AAAATAAA
1 AAAATAAA
47998731 AA
1 AA
47998733 TTGGGTTGCC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
7 8 0.19
8 21 0.50
9 12 0.29
10 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (8 bp):
AAAATAAA
Found at i:48017713 original size:14 final size:14
Alignment explanation
Indices: 48017694--48017723 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48017684 CTGACCCGTG
*
48017694 TGGCCCACACGGCT
1 TGGCCCACAAGGCT
48017708 TGGCCCACAAGGCT
1 TGGCCCACAAGGCT
48017722 TG
1 TG
48017724 TGGCTCAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.37, G:0.30, T:0.17
Consensus pattern (14 bp):
TGGCCCACAAGGCT
Found at i:48023012 original size:88 final size:89
Alignment explanation
Indices: 48022908--48023094 Score: 290
Period size: 88 Copynumber: 2.1 Consensus size: 89
48022898 ATCCACTCTT
* *
48022908 CTGC-ACTTCA-AGTAGATATGACTTGTAACTGCAATCTTCTTCGCAACAACTTCAAGGGGAAGA
1 CTGCAACTTCAGAGTAGATATGACTTGTAACTGCAATCTCCTTCGCAACAACTTCAAGGGGAAAA
48022971 GATTTGTGGTTTTAGCCTGCTCCA
66 GATTTGTGGTTTTAGCCTGCTCCA
* * * *
48022995 CTGCAACTTCAGA-TAGATATGACTTGTAACTTCAATCTCCTTCGTAACAACTTTAGGGGGAAAA
1 CTGCAACTTCAGAGTAGATATGACTTGTAACTGCAATCTCCTTCGCAACAACTTCAAGGGGAAAA
*
48023059 GATTTGTGGTTTTAGTCTGCTCCA
66 GATTTGTGGTTTTAGCCTGCTCCA
48023083 CTGCAACTTCAG
1 CTGCAACTTCAG
48023095 GGAGATTAGA
Statistics
Matches: 91, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
87 4 0.04
88 86 0.95
89 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (89 bp):
CTGCAACTTCAGAGTAGATATGACTTGTAACTGCAATCTCCTTCGCAACAACTTCAAGGGGAAAA
GATTTGTGGTTTTAGCCTGCTCCA
Found at i:48023472 original size:131 final size:132
Alignment explanation
Indices: 48023219--48023702 Score: 738
Period size: 132 Copynumber: 3.7 Consensus size: 132
48023209 TTACTTCCCT
* * ** * *
48023219 ACTACCTTGGGAAGATAAGATTCACCATCTTTTATCTGCTCCAATACTGCTTAAGGAGACA-AGA
1 ACTATCTTGAGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGA-A
* * * ** *
48023283 TCTGCAATCTTCAACTTACTCCACTGCTGCTCAGGGAGATATAACTAATGACTTAAATCTGCTTC
65 TCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTC
48023348 TCC
130 TCC
48023351 ACTATCTTGAGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAAT
1 ACTATCTTGAGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAAT
*
48023416 -TGCAATCTTCAACGTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCT
66 CTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCT
*
48023480 CT
131 CC
* * *
48023482 ACTATCTTGAGAAGATAAGATTCACTATCTTCGATCTGCTCCACTACTACTTAGGGAGACAAAAT
1 ACTATCTTGAGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAAT
* *
48023547 CTGCAATTTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCT
66 CTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCT
48023612 CC
131 CC
* * *
48023614 ATTATCTTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGAAT
1 ACTATCTTGAGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAAT
*
48023679 TTGCAATCTTCAACCTACTCCACT
66 CTGCAATCTTCAACCTACTCCACT
48023703 GTCAGTACAA
Statistics
Matches: 322, Mismatches: 28, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
131 121 0.38
132 200 0.62
133 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (132 bp):
ACTATCTTGAGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAAT
CTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCT
CC
Found at i:48023688 original size:44 final size:44
Alignment explanation
Indices: 48023377--48023689 Score: 134
Period size: 44 Copynumber: 7.1 Consensus size: 44
48023367 AAGATTCACC
*
48023377 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAA-TTGCA
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGAATTTGCA
* * * *
48023420 ATCTTC-AACGTACTCCACTACTGCTTAGGGAGATAGGA-CT--A
1 ATCTTCGATC-TGCTCCACTACTGCTTAGGGAGATAGAATTTGCA
** * * * * ** *
48023461 ATGGCTTAAATCTGCTTCTCTACTATCTT-GAGAAGATA-AGATTCACT
1 AT--CTTCGATCTGCTCCACTACT-GCTTAG-GGAGATAGA-ATTTGCA
* * * *
48023508 ATCTTCGATCTGCTCCACTACTACTTAGGGAGACAAAATCTGCA
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGAATTTGCA
* * * * * *
48023552 ATTTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAA
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATA-GA--ATTTGC---A
* * ** *
48023602 ATC-T--A-CTTCTCCATTA-T-CTT-GGGAAGATA-AGATTCACC
1 ATCTTCGATCTGCTCCACTACTGCTTAGGG-AGATAGA-ATTTGCA
48023640 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGAATTTGCA
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGAATTTGCA
48023684 ATCTTC
1 ATCTTC
48023690 AACCTACTCC
Statistics
Matches: 193, Mismatches: 50, Indels: 53
0.65 0.17 0.18
Matches are distributed among these distances:
38 3 0.02
39 1 0.01
41 7 0.04
42 12 0.06
43 49 0.25
44 78 0.40
45 24 0.12
46 9 0.05
47 6 0.03
49 1 0.01
50 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGAATTTGCA
Found at i:48024584 original size:89 final size:89
Alignment explanation
Indices: 48023696--48024571 Score: 1097
Period size: 89 Copynumber: 9.8 Consensus size: 89
48023686 CTTCAACCTA
* * * * *** * * * *
48023696 CTCCACTGTCAGTACAAGAAGGCAAGGCCGGTGTTTTCGATCCAATTCACTGTCGGTATAGGAAG
1 CTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCCGTCAGTACAGGAAG
48023761 GCAAGATCTGCTATCTTCAGTCTG
66 GCAAGATCTGCTATCTTCAGTCTG
* * * * * * * * * * * *
48023785 CTCTGCCGTCTGTAAAGGAATGTAAGGATGGTGTCTTTGATCTGTTTCGCCGTCAGTATAAGAAA
1 CTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCCGTCAGTACAGGAAG
* *
48023850 GCAAGATCTACTATCTTTAGTCTG
66 GCAAGATCTGCTATCTTCAGTCTG
* * ** ** * * * *
48023874 CTCCGTTGTTAGTACAAAAAGGCAAAACTGGTGTCTTTGATCTGCTTCGCTGTCAGTATAGGAAA
1 CTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCCGTCAGTACAGGAAG
* *
48023939 ACAAGATCTACTATCTTCAGTCTG
66 GCAAGATCTGCTATCTTCAGTCTG
* * * * * *
48023963 CTTCGCTGTCAGTACAGGAAGGCAAGACTGGTGTCTTCGATCTGTTTCTCTGTCAGTATAGGAAG
1 CTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCCGTCAGTACAGGAAG
*
48024028 GCAAGATCTGCTATCTTCAGTCTA
66 GCAAGATCTGCTATCTTCAGTCTG
* *
48024052 CTCCGCTGTCGGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCCGTCAGTACAAGAAG
1 CTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCCGTCAGTACAGGAAG
* *
48024117 GCAAGATCTTCTATCTTCAGCCTG
66 GCAAGATCTGCTATCTTCAGTCTG
* * * *
48024141 CTCCGCTGTCAGTACAGGAATGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTCAGTATAGGAAG
1 CTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCCGTCAGTACAGGAAG
*
48024206 GCAAGATCTGTTATCTTCAGTCTG
66 GCAAGATCTGCTATCTTCAGTCTG
* * * * *
48024230 CTTCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCTCTGTTAGTACATGAAG
1 CTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCCGTCAGTACAGGAAG
48024295 GCAAGATCTGCTATCTTCAGTCTG
66 GCAAGATCTGCTATCTTCAGTCTG
* * * * *
48024319 CTCTGCTGTCAGTATAGGAAGGCAAGGCTAGTGTCTTCAATCTGCTTCGCCATCAGTACAGGAAG
1 CTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCCGTCAGTACAGGAAG
48024384 GCAAGATCTGCTATCTTCAGTCTG
66 GCAAGATCTGCTATCTTCAGTCTG
* * *
48024408 CTCCGCTGTCAGTACAGGAAGGCAAGGCTAGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAG
1 CTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCCGTCAGTACAGGAAG
*
48024473 GCAATATCTGCTATCTTCAGTCTG
66 GCAAGATCTGCTATCTTCAGTCTG
* * * *
48024497 CTCCGCTGTCAATACACGAAGGCAAGGCTGATGTCTTC-ATTCTGCTTTGCCGTCAGTACAGGAA
1 CTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGA-TCTGCTTCGCCGTCAGTACAGGAA
48024561 GGCAAGATCTG
65 GGCAAGATCTG
48024572 TTGTTTTTAG
Statistics
Matches: 680, Mismatches: 106, Indels: 2
0.86 0.13 0.00
Matches are distributed among these distances:
88 1 0.00
89 679 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (89 bp):
CTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCCGTCAGTACAGGAAG
GCAAGATCTGCTATCTTCAGTCTG
Found at i:48025921 original size:11 final size:11
Alignment explanation
Indices: 48025895--48025982 Score: 72
Period size: 11 Copynumber: 7.8 Consensus size: 11
48025885 TGGCCTCTCA
48025895 TTTTCTTTTACT
1 TTTTCTTTT-CT
48025907 TTTTCTTTTTCT
1 TTTTC-TTTTCT
*
48025919 TTTCCTTTTCT
1 TTTTCTTTTCT
*
48025930 TTTTCTTTTAT
1 TTTTCTTTTCT
*
48025941 TCTTCTTCTTTCT
1 TTTTC-T-TTTCT
*
48025954 TTTT-TCTTCT
1 TTTTCTTTTCT
* *
48025964 ATTTC-CTTCT
1 TTTTCTTTTCT
48025974 TTTTCTTTT
1 TTTTCTTTT
48025983 TTCTCTCTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
10 16 0.26
11 22 0.36
12 12 0.20
13 11 0.18
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:48025960 original size:17 final size:17
Alignment explanation
Indices: 48025895--48025983 Score: 85
Period size: 17 Copynumber: 5.2 Consensus size: 17
48025885 TGGCCTCTCA
*
48025895 TTTTCTTTTACTTTTTCT
1 TTTTCTTTT-CTTCTTCT
48025913 TTTTCTTTTCCTT-TTCT
1 TTTTCTTTT-CTTCTTCT
*
48025930 TTTTCTTTTATTCTTCT
1 TTTTCTTTTCTTCTTCT
48025947 TCTTTCTTTT-TTCTTCT
1 T-TTTCTTTTCTTCTTCT
* * *
48025964 ATTTC-CTTCTTTTTCT
1 TTTTCTTTTCTTCTTCT
48025980 TTTT
1 TTTT
48025984 TCTCTCTTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
15 2 0.03
16 15 0.24
17 25 0.40
18 20 0.32
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTCTTTTCTTCTTCT
Found at i:48025983 original size:6 final size:6
Alignment explanation
Indices: 48025895--48025957 Score: 67
Period size: 6 Copynumber: 10.7 Consensus size: 6
48025885 TGGCCTCTCA
* * *
48025895 TTTTCT TTTACT TTTTCT TTTTC- TTTTCC TTTTCT TTTTC- TTTTAT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
*
48025941 TCTTCT TCTTTCT TTTT
1 TTTTCT T-TTTCT TTTT
48025958 TCTTCTATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
5 9 0.19
6 33 0.70
7 5 0.11
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTCT
Found at i:48025991 original size:17 final size:17
Alignment explanation
Indices: 48025905--48025994 Score: 50
Period size: 17 Copynumber: 5.4 Consensus size: 17
48025895 TTTTCTTTTA
*
48025905 CTTTTTC-TTTTTCTTTT
1 CTTTTTCTTTTTTC-TCT
*
48025922 CCTTTTC-TTTTTCT-T
1 CTTTTTCTTTTTTCTCT
*
48025937 -TTATTCTTCTTCTT-TCT
1 CTTTTTCTT-TT-TTCTCT
48025954 -TTTTTCTTCTATTTC-CTT
1 CTTTTTCTT-T-TTTCTC-T
48025972 CTTTTTCTTTTTTCTCT
1 CTTTTTCTTTTTTCTCT
48025989 CTTTTT
1 CTTTTT
48025995 TTCTTAACAT
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.07
15 2 0.03
16 4 0.07
17 38 0.63
18 4 0.07
19 8 0.13
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (17 bp):
CTTTTTCTTTTTTCTCT
Found at i:48030718 original size:12 final size:13
Alignment explanation
Indices: 48030694--48030718 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48030684 ATATTGCCTT
48030694 ATTTAGAAAAAAA
1 ATTTAGAAAAAAA
48030707 ATTTAGAAAAAA
1 ATTTAGAAAAAA
48030719 TCATCATCTC
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
ATTTAGAAAAAAA
Found at i:48032832 original size:27 final size:28
Alignment explanation
Indices: 48032773--48032826 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
48032763 AAAATAATTA
*
48032773 AAATTAAATATGTTAATAATTTAAGTGC
1 AAATTAAATATGTTAATAATTAAAGTGC
* *
48032801 AAATTAATTAT-TTTATAATTAAAGTG
1 AAATTAAATATGTTAATAATTAAAGTG
48032827 TGAATTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (28 bp):
AAATTAAATATGTTAATAATTAAAGTGC
Found at i:48034866 original size:13 final size:13
Alignment explanation
Indices: 48034837--48034891 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
48034827 ACTTTTAAAT
48034837 AAAT-AATTAAT-
1 AAATCAATTAATC
*
48034848 AGAATCAATTGATC
1 A-AATCAATTAATC
48034862 AAATCAATTAAT-
1 AAATCAATTAATC
*
48034874 AAATTCAATTCATC
1 AAA-TCAATTAATC
48034888 AAAT
1 AAAT
48034892 TAAATACTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
11 1 0.03
12 6 0.17
13 25 0.69
14 4 0.11
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.33
Consensus pattern (13 bp):
AAATCAATTAATC
Found at i:48034872 original size:26 final size:24
Alignment explanation
Indices: 48034837--48034922 Score: 77
Period size: 26 Copynumber: 3.5 Consensus size: 24
48034827 ACTTTTAAAT
48034837 AAAT-AATTAATAGAATCAATTGATC
1 AAATCAATTAATA-AATCAATT-ATC
48034862 AAATCAATTAATAAATTCAATTCATC
1 AAATCAATTAATAAA-TCAATT-ATC
* * * *
48034888 AAATTAAATACTACAATCAAATATC
1 AAATCAATTAATA-AATCAATTATC
48034913 -AATCAATTAA
1 AAATCAATTAA
48034923 AAAAAATCTT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
24 7 0.14
25 9 0.18
26 32 0.64
27 2 0.04
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.31
Consensus pattern (24 bp):
AAATCAATTAATAAATCAATTATC
Found at i:48036456 original size:7 final size:7
Alignment explanation
Indices: 48036444--48036485 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
48036434 TTTTTGAAAA
48036444 TATTTTT
1 TATTTTT
48036451 TA-TTTT
1 TATTTTT
48036457 TA-TTTT
1 TATTTTT
*
48036463 TACTTTT
1 TATTTTT
48036470 TATTTTT
1 TATTTTT
48036477 TATTTTT
1 TATTTTT
48036484 TA
1 TA
48036486 GAAATAGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
6 12 0.36
7 21 0.64
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (7 bp):
TATTTTT
Found at i:48036460 original size:13 final size:13
Alignment explanation
Indices: 48036444--48036483 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
48036434 TTTTTGAAAA
48036444 TATTTTTTATTTT
1 TATTTTTTATTTT
48036457 TA-TTTTTACTTTT
1 TATTTTTTA-TTTT
48036470 TATTTTTTATTTT
1 TATTTTTTATTTT
48036483 T
1 T
48036484 TAGAAATAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.24
13 13 0.52
14 6 0.24
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:48036462 original size:5 final size:6
Alignment explanation
Indices: 48036447--48036483 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
48036437 TTGAAAATAT
48036447 TTTTTA TTTTTA TTTTTA CTTTTTA TTTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA -TTTTTA -TTTTTA TTTTT
48036484 TAGAAATAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 17 0.59
7 12 0.41
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:48039119 original size:3 final size:3
Alignment explanation
Indices: 48039111--48039154 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
48039101 TATTTACGTT
48039111 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
48039155 GTTTTATTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:48040780 original size:3 final size:3
Alignment explanation
Indices: 48040772--48040815 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
48040762 TATTTACGTT
48040772 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
48040816 GTTTTATTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:48042746 original size:15 final size:15
Alignment explanation
Indices: 48042726--48042755 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48042716 TCTGTAGGCA
*
48042726 CGCATTTCATGCATT
1 CGCATTACATGCATT
48042741 CGCATTACATGCATT
1 CGCATTACATGCATT
48042756 AGAGAATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (15 bp):
CGCATTACATGCATT
Found at i:48044886 original size:24 final size:24
Alignment explanation
Indices: 48044859--48044904 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
48044849 AAAAAAAAAC
*
48044859 AAAACAAAACAAAAAAATGAAATG
1 AAAAAAAAACAAAAAAATGAAATG
**
48044883 AAAAAAAAATGAAAAAATGAAA
1 AAAAAAAAACAAAAAAATGAAA
48044905 GAGTAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.78, C:0.04, G:0.09, T:0.09
Consensus pattern (24 bp):
AAAAAAAAACAAAAAAATGAAATG
Found at i:48046283 original size:88 final size:88
Alignment explanation
Indices: 48046131--48046457 Score: 564
Period size: 88 Copynumber: 3.7 Consensus size: 88
48046121 CAGTGAATAT
* *
48046131 AACAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGTTCGAAGACACAAACCTTGCCTCTCTCGG
1 AACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
48046196 TTGTGATGGAGCTGGTTGAAGAC
66 TTGTGATGGAGCTGGTTGAAGAC
** * *
48046219 AACAGATCTTGTATTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCCCTCGG
1 AACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
* *
48046284 CTGTGGTGGAGCTGGTTGAAGAC
66 TTGTGATGGAGCTGGTTGAAGAC
*
48046307 AACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTACCTCTCTCGG
1 AACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
*
48046372 TTATGATGGAGCTGGTTGAAGAC
66 TTGTGATGGAGCTGGTTGAAGAC
48046395 AACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTC
1 AACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTC
48046458 NNNNNNNNNN
Statistics
Matches: 223, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 223 1.00
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (88 bp):
AACAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGG
TTGTGATGGAGCTGGTTGAAGAC
Found at i:48048719 original size:87 final size:87
Alignment explanation
Indices: 48048109--48049435 Score: 1661
Period size: 87 Copynumber: 15.2 Consensus size: 87
48048099 GTGAATATAA
* * *
48048109 CAGATCTTGCCTTCCTGCCTTGACAGCGAAGCAGTTCGAAGACACAAA-CCTTGCCTCTC-TCGG
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCCTC-CATCGG
*
48048172 TTGT-GATGGAGCTGGTTGAAGACAA-
63 TTGTAG-TGGAGCTGGTTAAAGA-AAG
** * * *
48048197 CAGATCTTGTATTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCCCTCGGC
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCCTCCATCGGT
* *
48048261 TGTGGTGGAGCTGGTTGAAGACAA-
64 TGTAGTGGAGCTGGTTAAAGA-AAG
* * *
48048285 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAA-CCTTACCTCTC-TCGG
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCCTC-CATCGG
* *
48048348 TTAT-GATGGAGCTGGTTGAAGACAA-
63 TTGTAG-TGGAGCTGGTTAAAGA-AAG
*
48048373 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTC-TCGG
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCCTC-CATCGG
* *
48048436 TTGT-GATGAAGCTGGTTGAAGACAA-
63 TTGTAG-TGGAGCTGGTTAAAGA-AAG
* * * * *
48048461 AAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGGAGACACAAA-CCTTGCCTCTC-TCAG
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC-GA-AAACAAAGCCTTGCCTC-CATCGG
* *
48048524 TTGTAATGGAGCTGGTTGAAGACAA-
63 TTGTAGTGGAGCTGGTTAAAGA-AAG
* * *
48048549 CAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGATCGAAGACACAAA-CCTTGCCTCCCTCGGT
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCCTCCATCGGT
*
48048613 TGTGGTGGAGCTGGTTAAAGAAAG
64 TGTAGTGGAGCTGGTTAAAGAAAG
* * * *
48048637 CAGATCTTGCCTTCATGTATTAACAGCGAAGCAGATCGAAAACAAAGGCTTGCCTCCATAGGTTG
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTG
*
48048702 TAGTGAAGCTGGTTAAAGAAAG
66 TAGTGGAGCTGGTTAAAGAAAG
* *
48048724 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAGCAAAGCCTTGCCTCTATCGGTTG
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTG
*
48048789 TAGTGGAGCTGGTTAAAAAAAG
66 TAGTGGAGCTGGTTAAAGAAAG
* * *
48048811 TAGATCTTGCCTTCATGCATTGAA-AGCGAAGCAGATCGAAAACAAAGTCTTGCCTCCATCGGTT
1 CAGATCTTGCCTTCCTGCATT-AACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTT
48048875 GTAGTGGAGCTGGTTAAAG-AAG
65 GTAGTGGAGCTGGTTAAAGAAAG
* * *
48048897 CAGGTCTTGCCTTCCTGCATTAACAGCCAAGCAGATCGAAAACAAAGCCTTGCCTTCATCGGTTG
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTG
*
48048962 CAGTGGAGCTGGTTAAAGAAAG
66 TAGTGGAGCTGGTTAAAGAAAG
* *
48048984 CAAATCTTGCCTTCCTGCATTAATAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTG
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTG
48049049 TAGTGGAGCTGGTTAAAGAAAG
66 TAGTGGAGCTGGTTAAAGAAAG
*
48049071 CAGATCTTGCCTTCATGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTG
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTG
* * **
48049136 CAGTGGAGCTGGTTAAATATCG
66 TAGTGGAGCTGGTTAAAGAAAG
* * *
48049158 CAGATCTTGCCTTCCTGCGTTAACAGCAAAGCAGATCGAAAACAAAACCTTGCCTCCATCGGTTG
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTG
* * **
48049223 CAGTGGAGCTGGTTAAATATCG
66 TAGTGGAGCTGGTTAAAGAAAG
* * *
48049245 CAGATCTTGCCTTCCTGCATTAGCATCAAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTG
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTG
* *
48049310 CAGTGGAGCTGGTTAAAGATAG
66 TAGTGGAGCTGGTTAAAGAAAG
*
48049332 CAGATCTTGCCTTCATGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTG
1 CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTG
* *
48049397 CAGTGGAGTTGGTTAAAGATAA-
66 TAGTGGAGCTGGTTAAAGA-AAG
*
48049419 CAGATCTTGTCTTCCTG
1 CAGATCTTGCCTTCCTG
48049436 TATTTGGCAG
Statistics
Matches: 1133, Mismatches: 90, Indels: 33
0.90 0.07 0.03
Matches are distributed among these distances:
85 2 0.00
86 82 0.07
87 618 0.55
88 426 0.38
89 4 0.00
90 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.24
Consensus pattern (87 bp):
CAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTG
TAGTGGAGCTGGTTAAAGAAAG
Found at i:48051111 original size:29 final size:29
Alignment explanation
Indices: 48051044--48051111 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
48051034 TTCAAATCAA
*
48051044 TCCCTTCTTTTTTTTATTATTTCAATTTCG
1 TCCCTT-TTTTTTTTATTATTTCAATTTAG
* * *
48051074 CCCCATTTTTTATTT-TTATTTCGATTTAG
1 TCCC-TTTTTTTTTTATTATTTCAATTTAG
48051103 TCCCTTTTT
1 TCCCTTTTT
48051112 AGCAATTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 5 0.16
29 15 0.47
30 10 0.31
31 2 0.06
ACGTcount: A:0.13, C:0.21, G:0.04, T:0.62
Consensus pattern (29 bp):
TCCCTTTTTTTTTTATTATTTCAATTTAG
Found at i:48051149 original size:23 final size:23
Alignment explanation
Indices: 48051119--48051162 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
48051109 TTTAGCAATT
48051119 TTATTATT-TAATTAATTATTACC
1 TTATTATTATAATT-ATTATTACC
*
48051142 TTATTATTATTATTATTATTA
1 TTATTATTATAATTATTATTA
48051163 GTAGTAGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (23 bp):
TTATTATTATAATTATTATTACC
Found at i:48051167 original size:3 final size:3
Alignment explanation
Indices: 48051161--48051189 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
48051151 TTATTATTAT
48051161 TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
48051190 TTATTATTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:48051385 original size:3 final size:3
Alignment explanation
Indices: 48051377--48051411 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
48051367 TATTTACGTT
*
48051377 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
48051412 GTTTTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:48053825 original size:7 final size:7
Alignment explanation
Indices: 48053813--48053854 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
48053803 TTTTTGAAAA
48053813 TATTTTT
1 TATTTTT
48053820 TA-TTTT
1 TATTTTT
48053826 TA-TTTT
1 TATTTTT
*
48053832 TACTTTT
1 TATTTTT
48053839 TATTTTT
1 TATTTTT
48053846 TATTTTT
1 TATTTTT
48053853 TA
1 TA
48053855 GAAATAGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
6 12 0.36
7 21 0.64
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (7 bp):
TATTTTT
Found at i:48053829 original size:13 final size:13
Alignment explanation
Indices: 48053813--48053852 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
48053803 TTTTTGAAAA
48053813 TATTTTTTATTTT
1 TATTTTTTATTTT
48053826 TA-TTTTTACTTTT
1 TATTTTTTA-TTTT
48053839 TATTTTTTATTTT
1 TATTTTTTATTTT
48053852 T
1 T
48053853 TAGAAATAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.24
13 13 0.52
14 6 0.24
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:48053831 original size:5 final size:6
Alignment explanation
Indices: 48053816--48053852 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
48053806 TTGAAAATAT
48053816 TTTTTA TTTTTA TTTTTA CTTTTTA TTTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA -TTTTTA -TTTTTA TTTTT
48053853 TAGAAATAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 17 0.59
7 12 0.41
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTA
Found at i:48055745 original size:14 final size:14
Alignment explanation
Indices: 48055728--48055761 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
48055718 ACCTTTGAAT
*
48055728 CCAAACTTGTAACC
1 CCAAACTCGTAACC
48055742 CCAAACTCGTAACC
1 CCAAACTCGTAACC
48055756 CCAAAC
1 CCAAAC
48055762 AAAAACCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.41, G:0.06, T:0.15
Consensus pattern (14 bp):
CCAAACTCGTAACC
Found at i:48057477 original size:28 final size:28
Alignment explanation
Indices: 48057439--48057493 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
48057429 GAATATGTAT
*
48057439 AAATAACGAGCGAAAGATGAACAAATAA
1 AAATAACGAGCGAAAAATGAACAAATAA
* *
48057467 AAATAATGAGCGAAAAATGTACAAATA
1 AAATAACGAGCGAAAAATGAACAAATA
48057494 TGAACATCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.60, C:0.09, G:0.16, T:0.15
Consensus pattern (28 bp):
AAATAACGAGCGAAAAATGAACAAATAA
Found at i:48064948 original size:15 final size:16
Alignment explanation
Indices: 48064928--48064959 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
48064918 AGAAAATGAA
48064928 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
48064943 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
48064959 A
1 A
48064960 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:48071180 original size:23 final size:24
Alignment explanation
Indices: 48071136--48071182 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
48071126 TCAATATAGG
* *
48071136 TTTTTTCACTCACTGCAGTACCTA
1 TTTTTTCACTCACTGAAATACCTA
*
48071160 TTTTTTC-CTCACTTAAATACCTA
1 TTTTTTCACTCACTGAAATACCTA
48071183 AACTATTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.23, C:0.28, G:0.04, T:0.45
Consensus pattern (24 bp):
TTTTTTCACTCACTGAAATACCTA
Done.