Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 49 of 50
Found at i:11468822 original size:28 final size:29
Alignment explanation
Indices: 11468736--11468837 Score: 100
Period size: 30 Copynumber: 3.5 Consensus size: 29
11468726 TTTTTTCATC
* *
11468736 TAAGTACCTAAAATATTTTTTGGTCAAAA
1 TAAGTACCTAAAGTACTTTTTGGTCAAAA
* * * * *
11468765 GAAGTATCTAAACTTACTTTTTAGTAAAAA
1 TAAGTACCTAAA-GTACTTTTTGGTCAAAA
*
11468795 TAAGTACCTAAAGTA-TTTTTGGGCAAAA
1 TAAGTACCTAAAGTACTTTTTGGTCAAAA
11468823 T-AGATACCTAAAGTA
1 TAAG-TACCTAAAGTA
11468838 TTCAATTGTT
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
27 2 0.03
28 22 0.37
29 12 0.20
30 23 0.39
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (29 bp):
TAAGTACCTAAAGTACTTTTTGGTCAAAA
Found at i:11468852 original size:200 final size:201
Alignment explanation
Indices: 11468500--11468890 Score: 565
Period size: 200 Copynumber: 1.9 Consensus size: 201
11468490 TTTATATCAC
* * *
11468500 AAATAAGTACCTAAAGTATACCTTCCTTTTCATTTAAGTACCTAAAGTATTGTTTTGGTCAAAAT
1 AAATAAGTACCTAAAGTATACCTT-CTTTTCATCTAAGTACCTAAAATATTGTTTTGGTCAAAAG
* * * * ** *
11468565 AAGTACCTAAATTTATCTTTTTTGTCAAAATAAGTACTTAAAGTATTTTATGTTAAAATAGGTAC
65 AAGTACCTAAACTTATCTTTTTAGTAAAAATAAGTACCTAAAGTATTTTATGGCAAAATAGATAC
11468630 CTAAAGTATTCAAACCTTTTCATCTAAGTTCCAAAAAAGTTGACATATGACATTAATTAAAGGCT
130 CTAAAGTATTCAAACCTTTTCATCTAAGTT-CAAAAAAGTTGACATATGACATTAATTAAAGGCT
11468695 TCTATTAT
194 TCTATTAT
11468703 AAATAAGTACCTAAAGTATACTCTT-TTTTCATCTAAGTACCTAAAATATT-TTTTGGTCAAAAG
1 AAATAAGTACCTAAAGTATAC-CTTCTTTTCATCTAAGTACCTAAAATATTGTTTTGGTCAAAAG
*
11468766 AAGTATCTAAACTTA-CTTTTTAGTAAAAATAAGTACCTAAAGTATTTT-TGGGCAAAATAGATA
65 AAGTACCTAAACTTATCTTTTTAGTAAAAATAAGTACCTAAAGTATTTTAT-GGCAAAATAGATA
*** * * *
11468829 CCTAAAGTATTCAATTGTTTTCATCTAAGTTCTAAAAAGTTGACATGTGATATTAATTAAAG
129 CCTAAAGTATTCAAACCTTTTCATCTAAGTTCAAAAAAGTTGACATATGACATTAATTAAAG
11468891 AAAGGTACTT
Statistics
Matches: 169, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
199 29 0.17
200 68 0.40
201 25 0.15
202 23 0.14
203 21 0.12
204 3 0.02
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (201 bp):
AAATAAGTACCTAAAGTATACCTTCTTTTCATCTAAGTACCTAAAATATTGTTTTGGTCAAAAGA
AGTACCTAAACTTATCTTTTTAGTAAAAATAAGTACCTAAAGTATTTTATGGCAAAATAGATACC
TAAAGTATTCAAACCTTTTCATCTAAGTTCAAAAAAGTTGACATATGACATTAATTAAAGGCTTC
TATTAT
Found at i:11469158 original size:30 final size:30
Alignment explanation
Indices: 11469051--11469155 Score: 115
Period size: 30 Copynumber: 3.5 Consensus size: 30
11469041 GAACTTTTTT
*
11469051 AATACTTTAGATACCTATTTTGATTAAAAA
1 AATACTTTAGATACCTATTTTGACTAAAAA
* *
11469081 AATACTTTAGGA-ACCTACTTTGACCAAAAA
1 AATACTTTA-GATACCTATTTTGACTAAAAA
* * *
11469111 GATAACTCTAGATACTTATTTTTGA-TAAAAA
1 AAT-ACTTTAGATACCTA-TTTTGACTAAAAA
11469142 AATACTTTAGATAC
1 AATACTTTAGATAC
11469156 TTAAATGAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
30 38 0.62
31 18 0.30
32 5 0.08
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (30 bp):
AATACTTTAGATACCTATTTTGACTAAAAA
Found at i:11470095 original size:111 final size:112
Alignment explanation
Indices: 11469951--11470153 Score: 345
Period size: 111 Copynumber: 1.8 Consensus size: 112
11469941 TTGTCGGTTT
* *
11469951 GTGTCGATACTTTATAAAAACATATTGATCCATAACAATATAATAGGT-AAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAACATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
11470015 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
** * *
11470062 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAAATGACAAAACT
1 GTGTCGATACTTTATAAAAACATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
11470127 GGTCTATAAATGACAAAACAGGTAAAG
66 GGTCTATAAATGACAAAACAGGTAAAG
11470154 TGTAACATCC
Statistics
Matches: 85, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
111 43 0.51
112 42 0.49
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.25
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAACATATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:11473509 original size:112 final size:112
Alignment explanation
Indices: 11473378--11473660 Score: 458
Period size: 112 Copynumber: 2.5 Consensus size: 112
11473368 TTGTCGGTTT
** * *
11473378 GTGTCGATACTTTATAAAAACATATTGATCCATAATAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
11473443 GGTCTATAAATGACAAAACAGGTAAAGCGCTATCAGATATATTGAAA
66 GGTCTATAAAGGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
* * *
11473490 GTGTCGATACTTTAAAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACATAATC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
11473555 GGTCTATAAAGGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAAGGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
* *
11473602 GTATCGATACTTTATAAAAATGTATCGATCCATAACAATATAATAGGTAAAAAAATGAC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGAC
11473661 TATTTTGAAT
Statistics
Matches: 158, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
112 158 1.00
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.25
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAAGGACAAAACAGGTAAAGCGCTACCAGATATATTGAAA
Found at i:11474887 original size:111 final size:112
Alignment explanation
Indices: 11474688--11475147 Score: 762
Period size: 112 Copynumber: 4.1 Consensus size: 112
11474678 CTTGTCGGTT
* * * *
11474688 TGTCTATACTTTATAAAAATATGTTGATCCATAACAATATAACAGGT-AAAAAATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCG
*
11474752 GTCTATAAATGACAAAACATGTAAAGCGCTACCGGATATATTGAAAG
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
*
11474799 TGTTGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCG
11474863 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
* * *
11474910 TGCCGATACTTTATAAAAATGTATCAATCCATAACAATATAACAGGTAAAAAAATGACAAAATCG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCG
*
11474975 GTCTATAAATAACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
* *
11475022 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAATCG
1 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCG
* * * *
11475087 GTCTATAAATGACAAAATAGGTAAAGCACTACCGGATATGTTGATAG
66 GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
11475134 TGTCGATACTTTAT
1 TGTCGATACTTTAT
11475148 TATAAGTATC
Statistics
Matches: 329, Mismatches: 19, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
111 149 0.45
112 180 0.55
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (112 bp):
TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCG
GTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAAG
Found at i:11475325 original size:182 final size:182
Alignment explanation
Indices: 11475018--11475470 Score: 757
Period size: 182 Copynumber: 2.5 Consensus size: 182
11475008 GGATATATTG
* *
11475018 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
** *
11475083 ATCGGTCT-ATAAATGACAAAATAGGTAAAGCACTACCGGATATGTTGATAGTGTCGATACTTTA
66 ATCGGTCTCA-AAATGACAAAACCGGTAAAGCACTACCGGATATGTTGAAAGTGTCGATACTTTA
* *
11475147 TTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
130 TTATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
* *
11475200 AAAGTGTCGATACTTTATAAAAATGTATCAATCCATAACAATATAATAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* *
11475265 ACCAGTCTCAAAATGACAAAACCGGTAAAG-AGCTACCGGATATGTTGAAAGTGTCGATACTTTA
66 ATCGGTCTCAAAATGACAAAACCGGTAAAGCA-CTACCGGATATGTTGAAAGTGTCGATACTTTA
*
11475329 TTATAAGTATCGACACTTTTGGAATTTAAAGGAAAAGAAGTTATAGCGCCAAT
130 TTATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
11475382 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
*
11475447 ATCGGTCTCGAAATGACAAAACCG
66 ATCGGTCTCAAAATGACAAAACCG
11475471 ATAGTAAAAA
Statistics
Matches: 252, Mismatches: 17, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
181 1 0.00
182 250 0.99
183 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.27
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
ATCGGTCTCAAAATGACAAAACCGGTAAAGCACTACCGGATATGTTGAAAGTGTCGATACTTTAT
TATAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAAT
Found at i:11476406 original size:2 final size:2
Alignment explanation
Indices: 11476399--11476437 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
11476389 ATTTTATCAA
11476399 AT AT AT AT AT 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 AT AT AT AT AT A
11476438 CAAATTATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11494449 original size:20 final size:22
Alignment explanation
Indices: 11494399--11494441 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
11494389 ACGGGATGTT
*
11494399 TCTGCAAGCATTAGAGGCTATA
1 TCTGCAAGCATTAGAAGCTATA
11494421 TCTGCAAGCATTAGAAGCTAT
1 TCTGCAAGCATTAGAAGCTAT
11494442 CTTGAAGCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (22 bp):
TCTGCAAGCATTAGAAGCTATA
Found at i:11495907 original size:15 final size:15
Alignment explanation
Indices: 11495887--11495923 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
11495877 ATGTATAAGT
11495887 TTATATGCTATGTGA
1 TTATATGCTATGTGA
11495902 TTATATGCTATGTGA
1 TTATATGCTATGTGA
11495917 TTATATG
1 TTATATG
11495924 AAACATGTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.27, C:0.05, G:0.19, T:0.49
Consensus pattern (15 bp):
TTATATGCTATGTGA
Found at i:11497610 original size:24 final size:24
Alignment explanation
Indices: 11497566--11497612 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
11497556 ATAAAGAACC
*
11497566 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
11497590 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
11497613 CAACCATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:11499570 original size:24 final size:24
Alignment explanation
Indices: 11499538--11499584 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
11499528 AGTGCGCAAT
11499538 GCGTCCAGCCGTGGTCTTGGTGCA
1 GCGTCCAGCCGTGGTCTTGGTGCA
11499562 GCGTCCAGCCGTGGTCTTGGTGC
1 GCGTCCAGCCGTGGTCTTGGTGC
11499585 GGCGACCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.06, C:0.30, G:0.38, T:0.26
Consensus pattern (24 bp):
GCGTCCAGCCGTGGTCTTGGTGCA
Found at i:11506769 original size:21 final size:20
Alignment explanation
Indices: 11506730--11506769 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11506720 CAGTACTGTA
* *
11506730 GTAGCAGGGTATTGGTACCT
1 GTAGCAGGGTATCGATACCT
11506750 GTAGCAGGGGTATCGATACC
1 GTAGCA-GGGTATCGATACC
11506770 CCTGCAGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.23, C:0.17, G:0.35, T:0.25
Consensus pattern (20 bp):
GTAGCAGGGTATCGATACCT
Found at i:11508381 original size:2 final size:2
Alignment explanation
Indices: 11508369--11508428 Score: 84
Period size: 2 Copynumber: 30.0 Consensus size: 2
11508359 TTCCAGTGAA
*
11508369 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
11508411 AT AT GT AG AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
11508429 TTATCAAACC
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11509195 original size:114 final size:113
Alignment explanation
Indices: 11508977--11509214 Score: 413
Period size: 114 Copynumber: 2.1 Consensus size: 113
11508967 CAAAATCAAC
* * *
11508977 GGTCAACGGTTTTACATAAATATCACCCTAACAGAAATTAATTACATATTAGGCACCATTTTAAA
1 GGTCAACGGGTTTACACAAATATCACCCTAACAGAAATTAATTACATATTAGGAACCATTTTAAA
* *
11509042 ATATTTACAAAACTAGCACCTGAGTTTTTTTACTCATTTCACAAGTCG
66 ATATTTACAAAACTAGCACCCGAGTTTTTTTACACATTTCACAAGTCG
*
11509090 GGTCAACGGGTTTACACAAATATCACCCTAACATAAATTAATTACATATTAGGAACCATTTTAAA
1 GGTCAACGGGTTTACACAAATATCACCCTAACAGAAATTAATTACATATTAGGAACCATTTT-AA
11509155 AATATTTACAAAACTAGCACCCGAGTTTTTTTACACATTTCACAAGTCG
65 AATATTTACAAAACTAGCACCCGAGTTTTTTTACACATTTCACAAGTCG
11509204 GGTCAACGGGT
1 GGTCAACGGGT
11509215 CGGGTCAGCG
Statistics
Matches: 118, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
113 58 0.49
114 60 0.51
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (113 bp):
GGTCAACGGGTTTACACAAATATCACCCTAACAGAAATTAATTACATATTAGGAACCATTTTAAA
ATATTTACAAAACTAGCACCCGAGTTTTTTTACACATTTCACAAGTCG
Found at i:11509218 original size:13 final size:13
Alignment explanation
Indices: 11509199--11509233 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
11509189 ACATTTCACA
11509199 AGTCGGGTCAACG
1 AGTCGGGTCAACG
* *
11509212 GGTCGGGTCAGCG
1 AGTCGGGTCAACG
11509225 AGTCGGGTC
1 AGTCGGGTC
11509234 GAATCGGTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.14, C:0.23, G:0.46, T:0.17
Consensus pattern (13 bp):
AGTCGGGTCAACG
Found at i:11516295 original size:129 final size:128
Alignment explanation
Indices: 11516065--11516322 Score: 338
Period size: 129 Copynumber: 2.0 Consensus size: 128
11516055 GCATTTTTCT
* ** * *
11516065 GGTTTGACTGACAATTTGGAGGCTTTCGAGTTTGAATTTGGCTAAATGGACTATGGAATCGGAAT
1 GGTTTGACTGACAATTTCGAGGCTTTCGAGTTTGAATTTGGAAAAACGGACTATGGAATCAGAAT
* * * *
11516130 CATGACGTTAAAAAACATAAAATATGACTTTTCAAAAATTTTGACTTTTTGGTCAAAGTCAATG
66 CAGGACGTCAAAAAACATAAAATATGACTTTTCAAAAAATTTAAC-TTTTGGTCAAAGTCAATG
* * * * * *
11516194 GGTTTGACTGACGATTTCGAGGCTTTCGGGTTTGAATTTTGAAAAACGGACTTTGGATTCAGACT
1 GGTTTGACTGACAATTTCGAGGCTTTCGAGTTTGAATTTGGAAAAACGGACTATGGAATCAGAAT
* *
11516259 CAGGACGTCGAAAAACATAAATTA-GAACTTTTCAAAAAATTTAACTTTTGGTCAAAGTCAATG
66 CAGGACGTCAAAAAACATAAAATATG-ACTTTTCAAAAAATTTAACTTTTGGTCAAAGTCAATG
11516322 G
1 G
11516323 TCAATGCTCG
Statistics
Matches: 111, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
128 20 0.18
129 91 0.82
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (128 bp):
GGTTTGACTGACAATTTCGAGGCTTTCGAGTTTGAATTTGGAAAAACGGACTATGGAATCAGAAT
CAGGACGTCAAAAAACATAAAATATGACTTTTCAAAAAATTTAACTTTTGGTCAAAGTCAATG
Found at i:11517734 original size:65 final size:65
Alignment explanation
Indices: 11517601--11517808 Score: 223
Period size: 65 Copynumber: 3.2 Consensus size: 65
11517591 TGCACTAAGA
* *
11517601 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAAAATAGCCAGAGTGCATTGATGCATGGTTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGTTG
* *
11517665 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAGT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATAGC-CAGAGTGCATCGATGCATAGT
11517728 AT-
64 -TG
* ** * *
11517730 GTGCATCGATGCATGAAATGCATTCGATG--TTCAATTTATTCCATG-GTGCATCGATGCATGGA
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATA-GCCA-GAGTGCATCGATGCATAG-
11517792 TTG
63 TTG
*
11517795 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
11517809 CACTCTGAAA
Statistics
Matches: 124, Mismatches: 10, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
62 1 0.01
63 5 0.04
64 46 0.37
65 68 0.55
66 4 0.03
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGTTG
Found at i:11523968 original size:117 final size:117
Alignment explanation
Indices: 11523753--11523969 Score: 278
Period size: 117 Copynumber: 1.9 Consensus size: 117
11523743 AAATCGAAAT
*
11523753 TTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAGATTTCATTT
1 TTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTTCATTT
* * *
11523818 TGATTTTCAAAATTTATTTTCGTTTCTAGAAGAAGTTTGTTTAATTTGACAA
66 TGATTTTCAAAATCTATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTGACAA
* * * * *
11523870 TTTCTTTTTCAA-AGTTTTCAGATTTTATTTTTGAAAGCTCTAACT-CTTTTCTCAACATTTCAT
1 TTTCTTTTTCAATA-CTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCT-TCAACATTTCAT
* * *
11523933 TTTGATTTTCCAAGTCTGTTTTAGCTTTC-AAAAGAAG
64 TTTGATTTTCAAAATCTATTTTAG-TTTCTAAAAGAAG
11523970 ATCATTTTTA
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
116 5 0.06
117 76 0.89
118 4 0.05
ACGTcount: A:0.27, C:0.15, G:0.09, T:0.49
Consensus pattern (117 bp):
TTTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTTCATTT
TGATTTTCAAAATCTATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTGACAA
Found at i:11532881 original size:23 final size:24
Alignment explanation
Indices: 11532854--11532898 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
11532844 TCTTATAAAA
11532854 TTTTAAAATTAAGATA-AAATATT
1 TTTTAAAATTAAGATATAAATATT
* *
11532877 TTTTATAGTTAAGATATAAATA
1 TTTTAAAATTAAGATATAAATA
11532899 AAATATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (24 bp):
TTTTAAAATTAAGATATAAATATT
Found at i:11532931 original size:30 final size:29
Alignment explanation
Indices: 11532863--11533064 Score: 144
Period size: 30 Copynumber: 6.6 Consensus size: 29
11532853 ATTTTAAAAT
*
11532863 TAAG-ATAAAATAT-TTTTTATAGTTAAGA
1 TAAGAATAAAATATATTTTTA-AATTAAGA
*
11532891 TATA-AATAAAATATATTTCTTAAATTAAAA
1 TA-AGAATAAAATATATTT-TTAAATTAAGA
*
11532921 TAAGAATAAAATATATATTTTAAAATTATGA
1 TAAGAATAAAATATAT-TTTT-AAATTAAGA
* *
11532952 TAAGAAT-AAATAATATTTAATAATTTAATG-
1 TAAGAATAAAAT-ATATTT-TTAAATTAA-GA
*
11532982 TAAGAATATAATATATTTAATAATTTATAAGTTAAGA
1 TAAGAATA-AA-ATA--T-AT--TTT-TAAATTAAGA
* * *
11533019 TAAGATTAAAATATATTTTTTAGTTAAGA
1 TAAGAATAAAATATATTTTTAAATTAAGA
11533048 TAAGAATAAAATATATT
1 TAAGAATAAAATATATT
11533065 GAATAAGTTA
Statistics
Matches: 142, Mismatches: 12, Indels: 39
0.74 0.06 0.20
Matches are distributed among these distances:
28 2 0.01
29 36 0.25
30 46 0.32
31 25 0.18
32 5 0.04
33 3 0.02
34 1 0.01
35 5 0.04
36 3 0.02
37 16 0.11
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (29 bp):
TAAGAATAAAATATATTTTTAAATTAAGA
Found at i:11532961 original size:61 final size:60
Alignment explanation
Indices: 11532856--11533063 Score: 174
Period size: 61 Copynumber: 3.4 Consensus size: 60
11532846 TTATAAAATT
*
11532856 TTAAAATTAAG-ATAAAATAT-T-TTTTATAGTTAAGATATA-AATAAAATATATTTCTTAAA
1 TTAAAA-TAAGAATAAAATATATATTTTAAAGTTAAGATA-AGAATAAAATATATTT-TTAAA
* * * *
11532915 TTAAAATAAGAATAAAATATATATTTTAAAATTATGATAAGAAT-AAATAATATTTAATAAT
1 TTAAAATAAGAATAAAATATATATTTTAAAGTTAAGATAAGAATAAAAT-ATATTT-TTAAA
** * * *
11532976 TTAATGTAAGAATATAATATATTTAATAATTTATAAGTTAAGATAAGATTAAAATATATTTTTTA
1 TTAAAATAAGAATA-AA-ATA--T-ATATTTTA-AAGTTAAGATAAGAATAAAATATATTTTTAA
*
11533041 G
60 A
*
11533042 TTAAGATAAGAATAAAATATAT
1 TTAAAATAAGAATAAAATATAT
11533064 TGAATAAGTT
Statistics
Matches: 120, Mismatches: 17, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
58 4 0.03
59 15 0.12
60 6 0.05
61 39 0.32
62 3 0.03
63 3 0.03
64 3 0.03
65 3 0.03
66 21 0.17
67 19 0.16
68 4 0.03
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (60 bp):
TTAAAATAAGAATAAAATATATATTTTAAAGTTAAGATAAGAATAAAATATATTTTTAAA
Found at i:11532986 original size:96 final size:95
Alignment explanation
Indices: 11532886--11533075 Score: 208
Period size: 96 Copynumber: 2.0 Consensus size: 95
11532876 TTTTTATAGT
*
11532886 TAAG-ATATAA-ATA-AAATATATTTCTTAAATTAAAATAAGAATAAAATATATATTTTAAAATT
1 TAAGAATATAATATATAAATA-ATTT-ATAAATTAAAATAAGAATAAAATATAT-TTTT-AAATT
* * *
11532948 ATGATAAGAAT-AAATAATATTTAATAATTTAATG
62 AAGATAAGAATAAAAT-ATATTGAATAAGTTAATG
* * * * * *
11532982 TAAGAATATAATATATTTAATAATTTATAAGTTAAGATAAGATTAAAATATATTTTTTAGTTAAG
1 TAAGAATATAATATA-TAAATAATTTATAAATTAAAATAAGAATAAAATATATTTTTAAATTAAG
11533047 ATAAGAATAAAATATATTGAATAAGTTAA
65 ATAAGAATAAAATATATTGAATAAGTTAA
11533076 AAAAATATAA
Statistics
Matches: 79, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
96 31 0.39
97 14 0.18
98 26 0.33
99 4 0.05
100 4 0.05
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (95 bp):
TAAGAATATAATATATAAATAATTTATAAATTAAAATAAGAATAAAATATATTTTTAAATTAAGA
TAAGAATAAAATATATTGAATAAGTTAATG
Found at i:11533132 original size:17 final size:19
Alignment explanation
Indices: 11533080--11533134 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 19
11533070 AGTTAAAAAA
*
11533080 ATATAATTTTAATGTTAAG
1 ATATGATTTTAATGTTAAG
11533099 ATATGATTTTAA-GTTAAG
1 ATATGATTTTAATGTTAAG
*
11533117 ATAT-A-TTTAATATTAAG
1 ATATGATTTTAATGTTAAG
11533134 A
1 A
11533135 ATTTAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
16 5 0.15
17 7 0.21
18 10 0.30
19 11 0.33
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.45
Consensus pattern (19 bp):
ATATGATTTTAATGTTAAG
Found at i:11533170 original size:21 final size:21
Alignment explanation
Indices: 11533144--11533192 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
11533134 AATTTAAGAT
11533144 TATAATAAGAAACTAGATAAA
1 TATAATAAGAAACTAGATAAA
11533165 TATAATAAGAAACTAGATAAA
1 TATAATAAGAAACTAGATAAA
11533186 TATAATA
1 TATAATA
11533193 TGTAATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (21 bp):
TATAATAAGAAACTAGATAAA
Found at i:11533934 original size:2 final size:2
Alignment explanation
Indices: 11533929--11533963 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11533919 ATGAAAAACC
11533929 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
11533964 CTCGTTTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:11538199 original size:24 final size:27
Alignment explanation
Indices: 11538137--11538202 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 27
11538127 CAAGTATAAT
11538137 AAATAATATTATTTATTACAAAATAATTA
1 AAATAAT-TTATTTATTA-AAAATAATTA
* *
11538166 ATACAA-TTATTT-TT-AAAAT-ATTA
1 AAATAATTTATTTATTAAAAATAATTA
11538189 AAATAATTTATTTA
1 AAATAATTTATTTA
11538203 ATATTATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
23 8 0.26
24 11 0.35
26 2 0.06
27 6 0.19
29 4 0.13
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAATAATTTATTTATTAAAAATAATTA
Found at i:11538406 original size:22 final size:22
Alignment explanation
Indices: 11538374--11538422 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
11538364 ACTATAATTT
*
11538374 AATATATTATTATAATACTAAA
1 AATATAATATTATAATACTAAA
* *
11538396 AATATAATATTATATTATTAAA
1 AATATAATATTATAATACTAAA
11538418 AATAT
1 AATAT
11538423 TAAACAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AATATAATATTATAATACTAAA
Found at i:11539295 original size:2 final size:2
Alignment explanation
Indices: 11539242--11539279 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
11539232 TGTCGATTTA
11539242 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11539280 CTTCGCTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11539994 original size:12 final size:12
Alignment explanation
Indices: 11539977--11540003 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11539967 CAAAATTTTT
11539977 TTTATTAATTTA
1 TTTATTAATTTA
11539989 TTTATTAATTTA
1 TTTATTAATTTA
11540001 TTT
1 TTT
11540004 TAATAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTATTAATTTA
Found at i:11540978 original size:2 final size:2
Alignment explanation
Indices: 11540973--11541001 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11540963 ATAACAACAT
11540973 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11541002 TGATTAGTCA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11543660 original size:21 final size:21
Alignment explanation
Indices: 11543636--11543675 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
11543626 GTTTCATTTG
11543636 TGGAGCTTTGATCTTTTGGGT
1 TGGAGCTTTGATCTTTTGGGT
11543657 TGGAGCTTTGATCTTTTGG
1 TGGAGCTTTGATCTTTTGG
11543676 TGAATTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.10, G:0.33, T:0.47
Consensus pattern (21 bp):
TGGAGCTTTGATCTTTTGGGT
Found at i:11552976 original size:13 final size:13
Alignment explanation
Indices: 11552954--11552998 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
11552944 AACCCGACCC
*
11552954 GACCCAACCCGTT
1 GACCCGACCCGTT
11552967 GACCCGACCCGTT
1 GACCCGACCCGTT
*
11552980 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
11552995 GACC
1 GACC
11552999 GTTGACCAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 16 0.57
15 12 0.43
ACGTcount: A:0.18, C:0.42, G:0.22, T:0.18
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:11552987 original size:7 final size:7
Alignment explanation
Indices: 11552975--11553005 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
11552965 TTGACCCGAC
11552975 CCGTTGA
1 CCGTTGA
11552982 CCGTTGA
1 CCGTTGA
11552989 CCCGTTGA
1 -CCGTTGA
11552997 CCGTTGA
1 CCGTTGA
11553004 CC
1 CC
11553006 AGCGTTGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.13, C:0.35, G:0.26, T:0.26
Consensus pattern (7 bp):
CCGTTGA
Found at i:11552992 original size:15 final size:15
Alignment explanation
Indices: 11552960--11553015 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
11552950 ACCCGACCCA
*
11552960 ACCCGTTGACC--CG
1 ACCCGTTGACCGTTG
11552973 ACCCGTTGACCGTTG
1 ACCCGTTGACCGTTG
11552988 ACCCGTTGACCGTTG
1 ACCCGTTGACCGTTG
11553003 ACCAGCGTTGACC
1 ACC--CGTTGACC
11553016 ACTGTTGACC
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
13 11 0.29
15 19 0.50
17 8 0.21
ACGTcount: A:0.16, C:0.38, G:0.25, T:0.21
Consensus pattern (15 bp):
ACCCGTTGACCGTTG
Found at i:11553013 original size:10 final size:9
Alignment explanation
Indices: 11552972--11553026 Score: 50
Period size: 10 Copynumber: 6.6 Consensus size: 9
11552962 CCGTTGACCC
11552972 GACC-CGTT
1 GACCACGTT
11552980 GA-C-CGTT
1 GACCACGTT
11552987 GACC-CGTT
1 GACCACGTT
11552995 GA-C-CGTT
1 GACCACGTT
11553002 GACCAGCGTT
1 GACCA-CGTT
11553012 GACCACTGTT
1 GACCAC-GTT
11553022 GACCA
1 GACCA
11553027 AAACTTTGAC
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
7 14 0.33
8 10 0.24
9 1 0.02
10 17 0.40
ACGTcount: A:0.18, C:0.33, G:0.25, T:0.24
Consensus pattern (9 bp):
GACCACGTT
Found at i:11555863 original size:13 final size:13
Alignment explanation
Indices: 11555845--11555869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11555835 TATGTCACGG
11555845 TGGAATTGAATTT
1 TGGAATTGAATTT
11555858 TGGAATTGAATT
1 TGGAATTGAATT
11555870 ACGATGGAAT
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:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (13 bp):
TGGAATTGAATTT
Found at i:11557943 original size:8 final size:8
Alignment explanation
Indices: 11557930--11557994 Score: 80
Period size: 8 Copynumber: 8.0 Consensus size: 8
11557920 ATTTTTTTTT
11557930 CAAAAAAA
1 CAAAAAAA
11557938 CAAAAAAA
1 CAAAAAAA
11557946 C-AAAAAA
1 CAAAAAAA
11557953 CAAAAAAA
1 CAAAAAAA
11557961 GGC-AAAAAA
1 --CAAAAAAA
*
11557970 CAAAAAAGG
1 CAAAAAA-A
11557979 CAAAAAAA
1 CAAAAAAA
11557987 CAAAAAAA
1 CAAAAAAA
11557995 GAGCCAAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
7 8 0.16
8 28 0.56
9 13 0.26
10 1 0.02
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:11557950 original size:6 final size:7
Alignment explanation
Indices: 11557932--11557993 Score: 61
Period size: 7 Copynumber: 7.9 Consensus size: 7
11557922 TTTTTTTTCA
11557932 AAAAAAC
1 AAAAAAC
11557939 AAAAAAAC
1 -AAAAAAC
11557947 AAAAAAC
1 AAAAAAC
11557954 AAAAAAAGGC
1 -AAAAAA--C
11557964 AAAAAAC
1 AAAAAAC
11557971 AAAAAAGGC
1 AAAAAA--C
11557980 AAAAAAAC
1 -AAAAAAC
11557988 AAAAAA
1 AAAAAA
11557994 AGAGCCAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 13
0.79 0.00 0.21
Matches are distributed among these distances:
7 20 0.42
8 14 0.29
9 7 0.15
10 7 0.15
ACGTcount: A:0.82, C:0.11, G:0.06, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:11557959 original size:17 final size:17
Alignment explanation
Indices: 11557932--11558005 Score: 100
Period size: 17 Copynumber: 4.4 Consensus size: 17
11557922 TTTTTTTTCA
11557932 AAAAAACAAAAAAA--C
1 AAAAAACAAAAAAAGGC
11557947 AAAAAACAAAAAAAGGC
1 AAAAAACAAAAAAAGGC
11557964 AAAAAAC-AAAAAAGGC
1 AAAAAACAAAAAAAGGC
11557980 AAAAAAACAAAAAAAGAGCC
1 -AAAAAACAAAAAAAG-G-C
11558000 AAAAAA
1 AAAAAA
11558006 GCCAAAATTT
Statistics
Matches: 53, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
15 14 0.26
16 9 0.17
17 15 0.28
18 7 0.13
19 7 0.13
20 1 0.02
ACGTcount: A:0.80, C:0.12, G:0.08, T:0.00
Consensus pattern (17 bp):
AAAAAACAAAAAAAGGC
Found at i:11558003 original size:9 final size:9
Alignment explanation
Indices: 11557946--11558012 Score: 50
Period size: 9 Copynumber: 7.6 Consensus size: 9
11557936 AACAAAAAAA
11557946 CAAAAAA-C
1 CAAAAAAGC
* *
11557954 AAAAAAAGG
1 CAAAAAAGC
11557963 CAAAAAA--
1 CAAAAAAGC
*
11557970 CAAAAAAGG
1 CAAAAAAGC
*
11557979 CAAAAAAAC
1 CAAAAAAGC
*
11557988 AAAAAAAGAGC
1 -CAAAAA-AGC
11557999 CAAAAAAGC
1 CAAAAAAGC
11558008 CAAAA
1 CAAAA
11558013 TTTCAAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
7 7 0.15
8 6 0.13
9 21 0.46
10 10 0.22
11 2 0.04
ACGTcount: A:0.75, C:0.15, G:0.10, T:0.00
Consensus pattern (9 bp):
CAAAAAAGC
Found at i:11562722 original size:13 final size:13
Alignment explanation
Indices: 11562704--11562735 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
11562694 TTGGTACAAA
11562704 ACTTCTCTATTCC
1 ACTTCTCTATTCC
11562717 ACTTCTCTATTCC
1 ACTTCTCTATTCC
11562730 ACTTCT
1 ACTTCT
11562736 TGTCATCCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.38, G:0.00, T:0.47
Consensus pattern (13 bp):
ACTTCTCTATTCC
Found at i:11566051 original size:18 final size:18
Alignment explanation
Indices: 11566028--11566062 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11566018 AATAGTTTAC
*
11566028 TAAGAGTCCTAGCTAAGG
1 TAAGAGTCCTAACTAAGG
*
11566046 TAAGAGTTCTAACTAAG
1 TAAGAGTCCTAACTAAG
11566063 TTAAACTTAT
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:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (18 bp):
TAAGAGTCCTAACTAAGG
Found at i:11571925 original size:60 final size:60
Alignment explanation
Indices: 11571837--11571995 Score: 169
Period size: 60 Copynumber: 2.6 Consensus size: 60
11571827 ATTTCAAACC
* * * * * *
11571837 AGTCCTTAAATTTTTAAATATTTCAATTTTATC-CTTAAATTATGAATAGCATTCTAAATT
1 AGTCCTTAAACTTTTAAACATTACAATTTCATCTC-CAAAATATGAATAGCATTCTAAATT
* * **
11571897 AGTCCTTAAACTTTTGAACATTAGAATTTCATCTCCAAAATATGAATCTCATTCTAAATT
1 AGTCCTTAAACTTTTAAACATTACAATTTCATCTCCAAAATATGAATAGCATTCTAAATT
* * *
11571957 AGTCCCTAAACTTTTAGATC-TTACAATTTCATCCCCAAA
1 AGTCCTTAAACTTTTA-AACATTACAATTTCATCTCCAAA
11571996 TTCATCCAAA
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
60 79 0.96
61 3 0.04
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.40
Consensus pattern (60 bp):
AGTCCTTAAACTTTTAAACATTACAATTTCATCTCCAAAATATGAATAGCATTCTAAATT
Found at i:11573826 original size:20 final size:20
Alignment explanation
Indices: 11573777--11573826 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
11573767 GCGATTTTCA
11573777 AAATCGCAACGCGAATTTGT
1 AAATCGCAACGCGAATTTGT
* * * *
11573797 AAACCACAACGTGACTTTGT
1 AAATCGCAACGCGAATTTGT
*
11573817 AATTCGCAAC
1 AAATCGCAAC
11573827 ACAGAAGTCA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (20 bp):
AAATCGCAACGCGAATTTGT
Found at i:11574022 original size:22 final size:22
Alignment explanation
Indices: 11573997--11574038 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
11573987 TCTACGGTGA
11573997 CATCTCCGACGAAATCCGTCCC
1 CATCTCCGACGAAATCCGTCCC
11574019 CATCTCCGACGAAATCCGTC
1 CATCTCCGACGAAATCCGTC
11574039 TATCTCCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.43, G:0.14, T:0.19
Consensus pattern (22 bp):
CATCTCCGACGAAATCCGTCCC
Found at i:11575886 original size:21 final size:21
Alignment explanation
Indices: 11575846--11575886 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11575836 AGGGGAGTTA
*
11575846 CGTGATGAGGTCAGTGCTTTG
1 CGTGATGAGGTCAGTACTTTG
**
11575867 CGTGATGAGGTTGGTACTTT
1 CGTGATGAGGTCAGTACTTT
11575887 ACGTCACAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.37, T:0.37
Consensus pattern (21 bp):
CGTGATGAGGTCAGTACTTTG
Found at i:11576320 original size:21 final size:21
Alignment explanation
Indices: 11576294--11576366 Score: 101
Period size: 21 Copynumber: 3.5 Consensus size: 21
11576284 CACCTGTCAT
11576294 CGTTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
** *
11576315 CGTTCAAGAGGCCCCTGTCAT
1 CGTTCAAGAGGCCCCTCCCAC
* *
11576336 CATTCAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
11576357 CGTTCAAGAG
1 CGTTCAAGAG
11576367 CCCGATTCAC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.22, C:0.38, G:0.21, T:0.19
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTCCCAC
Found at i:11576333 original size:42 final size:42
Alignment explanation
Indices: 11576286--11576366 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
11576276 GCCCGATTCA
*
11576286 CCTGTCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAGGCC
*
11576328 CCTGTCATCATTCAAGAGGTCCCTCCCACCGTTCAAGAG
1 CCTGTCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAG
11576367 CCCGATTCAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.21, C:0.38, G:0.20, T:0.21
Consensus pattern (42 bp):
CCTGTCATCATTCAAGAGGCCCCTCCCACCGTTCAAGAGGCC
Found at i:11580653 original size:12 final size:12
Alignment explanation
Indices: 11580636--11580669 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
11580626 GGTTGTGGGT
11580636 TTTGATATTGTG
1 TTTGATATTGTG
11580648 TTTGATATTGTG
1 TTTGATATTGTG
*
11580660 TTTGGTATTG
1 TTTGATATTG
11580670 GAAATGTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:11586304 original size:2 final size:2
Alignment explanation
Indices: 11586297--11586323 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11586287 TCAATCTACA
11586297 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 A
11586324 ATTTACGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11586495 original size:85 final size:84
Alignment explanation
Indices: 11586343--11586562 Score: 244
Period size: 85 Copynumber: 2.6 Consensus size: 84
11586333 ATACAATCAC
* * * * * * *
11586343 GACACACGAATGTGTGTCATCTTTTTTAATTACGTGTGCTTTAATGACACGCAATGTAAGTCGTA
1 GACACACAAATGTGTGTCATCTTATTT-ATGACGGGGGCTTCAATGACGCGCAATGTAAGTCGTA
*
11586408 AATGCGTGTCATAAATTTAT
65 AATGCGCGTCATAAATTTAT
* * *
11586428 GACACACAAATATGTGTCATCTTCATTTATGACGGGGGCTTCAATGACGCGCAATG-AGCGTCTT
1 GACACACAAATGTGTGTCATCTT-ATTTATGACGGGGGCTTCAATGACGCGCAATGTA-AGTCGT
* *
11586492 AAATGTGCGTCATAGATTTAT
64 AAATGCGCGTCATAAATTTAT
* * *
11586513 GACACACAATTGTGTGTCATCTGATATTTATGTCGGTGGCTTCAATGACG
1 GACACACAAATGTGTGTCATCT--TATTTATGACGGGGGCTTCAATGACG
11586563 TGTATTTGTG
Statistics
Matches: 114, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
84 1 0.01
85 86 0.75
86 26 0.23
87 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (84 bp):
GACACACAAATGTGTGTCATCTTATTTATGACGGGGGCTTCAATGACGCGCAATGTAAGTCGTAA
ATGCGCGTCATAAATTTAT
Found at i:11592359 original size:21 final size:21
Alignment explanation
Indices: 11592322--11592373 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 21
11592312 AGAAAACTAG
11592322 GAAGAAAAAAATATTTTCTAAG-
1 GAAG-AAAAAATATTTTC-AAGT
11592344 G-AGAAAAAATATTTTTCAAGT
1 GAAGAAAAAATA-TTTTCAAGT
11592365 GAAGAAAAA
1 GAAGAAAAA
11592374 TTCTTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 11 0.41
21 8 0.30
22 8 0.30
ACGTcount: A:0.56, C:0.04, G:0.15, T:0.25
Consensus pattern (21 bp):
GAAGAAAAAATATTTTCAAGT
Found at i:11592777 original size:189 final size:192
Alignment explanation
Indices: 11592547--11592891 Score: 529
Period size: 191 Copynumber: 1.8 Consensus size: 192
11592537 TTCACACTTG
* * * * *
11592547 AATATATATTATTTTAATTTGAATTATACAAAAGTATATAA-T-TATCTTTAATATTTAAAGTTA
1 AATATATATTATTTTAATTTGAAATATAAAAAACTATATAATTATATCTTTAATATTCAAAATTA
* * * *
11592610 AAAATG-TAATAAATACCTTTTTAAATTGACATATTTAAATATTAATTATCCTACTAATATTCAA
66 AAAA-GATAACAAATACCTTTTTAAATTGACATATTAAAAGAGTAATTATCCTACTAATATTCAA
11592674 ATTAAATAA-TATA-TTTAATTTGCAATGCTCAAACGATAAACTCTTTTTACTTTTCAAAATTA
130 ATTAAA-AATTATATTTTAATTTGCAATGCTCAAACGATAAACTCTTTTTACTTTTCAAAATTA
*
11592736 AATATATATTATTTTAATTTGAAATATAAAAAACTATATAATTATATTTTTAATATTCAAAATTA
1 AATATATATTATTTTAATTTGAAATATAAAAAACTATATAATTATATCTTTAATATTCAAAATTA
* *
11592801 AAAAGATAACAAATATCTTTTTAAATTGACTTATTAAAAGAGTAATTATCCTACTAATATTCAAA
66 AAAAGATAACAAATACCTTTTTAAATTGACATATTAAAAGAGTAATTATCCTACTAATATTCAAA
11592866 TTAAAAATTATATTTTAATTTGCAAT
131 TTAAAAATTATATTTTAATTTGCAAT
11592892 AGTCAAAAGG
Statistics
Matches: 139, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
189 38 0.27
190 4 0.03
191 84 0.60
192 13 0.09
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (192 bp):
AATATATATTATTTTAATTTGAAATATAAAAAACTATATAATTATATCTTTAATATTCAAAATTA
AAAAGATAACAAATACCTTTTTAAATTGACATATTAAAAGAGTAATTATCCTACTAATATTCAAA
TTAAAAATTATATTTTAATTTGCAATGCTCAAACGATAAACTCTTTTTACTTTTCAAAATTA
Found at i:11593400 original size:72 final size:72
Alignment explanation
Indices: 11593313--11593461 Score: 289
Period size: 72 Copynumber: 2.1 Consensus size: 72
11593303 GTAATTTTAT
*
11593313 AATATAATTTTAAATTATTACATGTCTATTTAGTAATTTGAATTTTATTTTTAGGTTTTTATATT
1 AATATAATTTAAAATTATTACATGTCTATTTAGTAATTTGAATTTTATTTTTAGGTTTTTATATT
11593378 TATTTTG
66 TATTTTG
11593385 AATATAATTTAAAATTATTACATGTCTATTTAGTAATTTGAATTTTATTTTTAGGTTTTTATATT
1 AATATAATTTAAAATTATTACATGTCTATTTAGTAATTTGAATTTTATTTTTAGGTTTTTATATT
11593450 TATTTTG
66 TATTTTG
11593457 AATAT
1 AATAT
11593462 TTAAATATTT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 76 1.00
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.57
Consensus pattern (72 bp):
AATATAATTTAAAATTATTACATGTCTATTTAGTAATTTGAATTTTATTTTTAGGTTTTTATATT
TATTTTG
Found at i:11593464 original size:19 final size:19
Alignment explanation
Indices: 11593442--11593496 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 19
11593432 TTTTTAGGTT
*
11593442 TTTATATTTATTTTGAATA
1 TTTATATTTATTTTGAAAA
11593461 TTTAAATATTTTATATTTGAAAA
1 TTT--ATA-TTTAT-TTTGAAAA
11593484 TTTAT-TTTATTTT
1 TTTATATTTATTTT
11593497 TTATTTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
18 3 0.10
19 8 0.26
21 5 0.16
22 5 0.16
23 10 0.32
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (19 bp):
TTTATATTTATTTTGAAAA
Found at i:11595274 original size:23 final size:23
Alignment explanation
Indices: 11595248--11595295 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
11595238 ATAAAGTACA
*
11595248 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
11595271 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
11595294 AT
1 AT
11595296 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:11596045 original size:18 final size:18
Alignment explanation
Indices: 11596022--11596058 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11596012 CGAAATATAT
11596022 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
11596040 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
11596058 A
1 A
11596059 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:11596288 original size:23 final size:23
Alignment explanation
Indices: 11596262--11596326 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
11596252 ATGCGAGATA
11596262 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
11596285 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
11596308 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
11596327 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:11597040 original size:406 final size:405
Alignment explanation
Indices: 11596287--11597237 Score: 1800
Period size: 406 Copynumber: 2.3 Consensus size: 405
11596277 ATATAAACGA
11596287 TACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTC
1 TACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTC
11596352 CATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTT
66 CATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAC-TATGTAATTTATGTTTCAA-TTTTT
11596417 TAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTAT
129 TAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTAT
11596482 TTGATTGTTTTTATATTTTATAAATATTATTTAGAATTTTAAATTTAATAATAATATATACCGTA
194 TTGATTGTTTTTATATTTTATAAATATTATTTAGAATTTTAAATTTAATAATAATATATACCGTA
11596547 ACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAG
259 ACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAG
*
11596612 ATAACCTTAAATTAATGTTTTCCACATTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACA
324 ATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACA
11596677 CTTTACAATATAACCAT
389 CTTTACAATATAACCAT
11596694 TACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTC
1 TACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTC
11596759 CATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGA-TATGTAATTTATGTTTCAATATTTT
66 CATACTTTTTATAAAAAGGATCGATACTTTTTTTAAA-ACTATGTAATTTATGTTTCAAT-TTTT
*
11596823 TAAGTA-TGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCAC-AAAAATTA
129 TAA-CAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTA
11596886 TTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAAATTTAATAATAATATATACCG
193 TTTGATTGTTTTTATATTTTAT-AAATATTATTTAGAATTTTAAATTTAATAATAATATATACCG
11596951 TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
257 TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
11597016 AGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGA
322 AGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGA
11597081 CACTTTACAATATAACCAT
387 CACTTTACAATATAACCAT
11597100 TACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTC
1 TACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTC
11597165 CATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTT
66 CATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAC-TATGTAATTTATGTTTCAATTTTTT
11597230 AACAGTGT
130 AACAGTGT
11597238 ACTGCGAATT
Statistics
Matches: 534, Mismatches: 3, Indels: 15
0.97 0.01 0.03
Matches are distributed among these distances:
405 33 0.06
406 377 0.71
407 123 0.23
408 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.41
Consensus pattern (405 bp):
TACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTC
CATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTATGTAATTTATGTTTCAATTTTTTA
ACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTT
GATTGTTTTTATATTTTATAAATATTATTTAGAATTTTAAATTTAATAATAATATATACCGTAAC
GTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGAT
AACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACT
TTACAATATAACCAT
Found at i:11600006 original size:184 final size:184
Alignment explanation
Indices: 11599697--11600552 Score: 1631
Period size: 184 Copynumber: 4.7 Consensus size: 184
11599687 TTTTAAATGG
* *
11599697 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
11599762 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
11599827 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
11599881 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
11599946 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
11600011 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
*
11600065 TATGGATATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
11600130 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
11600195 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
*
11600249 TATGGATATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
11600314 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
11600379 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
11600433 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
** **
11600498 TAAGCCCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
11600553 ATGTTGAAAG
Statistics
Matches: 664, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
184 664 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:11602031 original size:3 final size:3
Alignment explanation
Indices: 11602023--11602096 Score: 76
Period size: 3 Copynumber: 24.7 Consensus size: 3
11602013 ACTTGTTTGG
* * * **
11602023 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
11602071 AGC TTC ATC GTC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
11602097 TGTCATCTTC
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.26, C:0.34, G:0.05, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:11602090 original size:42 final size:42
Alignment explanation
Indices: 11602031--11602121 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 42
11602021 GGATCATCAT
*
11602031 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* ** * *
11602073 CTTCATCGTCATCATCATCATCATTGTCATCTTCATTGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
11602115 CTTCATC
1 CTTCATC
11602122 TTCTGCGACC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.22, C:0.33, G:0.08, T:0.37
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:11602102 original size:9 final size:9
Alignment explanation
Indices: 11602036--11602103 Score: 57
Period size: 9 Copynumber: 7.6 Consensus size: 9
11602026 ATCATCTTCA
*
11602036 TCATCATCA
1 TCATCATCG
11602045 TCATCATCG
1 TCATCATCG
*
11602054 TCATCATCT
1 TCATCATCG
**
11602063 TCATCGCCAG
1 TCATCATC-G
*
11602073 -CTTCATCG
1 TCATCATCG
*
11602081 TCATCATCA
1 TCATCATCG
*
11602090 TCATCATTG
1 TCATCATCG
11602099 TCATC
1 TCATC
11602104 TTCATTGTCA
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
8 1 0.02
9 44 0.98
ACGTcount: A:0.24, C:0.34, G:0.07, T:0.35
Consensus pattern (9 bp):
TCATCATCG
Found at i:11602124 original size:6 final size:6
Alignment explanation
Indices: 11602027--11602124 Score: 56
Period size: 6 Copynumber: 16.3 Consensus size: 6
11602017 GTTTGGATCA
* * * * * * * *
11602027 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * *
11602075 TCATCG TCATCA TCATCA TCAT-T GTCATCT TCAT-T GTCAGCT TCATCT
1 TCATCT TCATCT TCATCT TCATCT -TCATCT TCATCT -TCATCT TCATCT
11602123 TC
1 TC
11602125 TGCGACCGAT
Statistics
Matches: 73, Mismatches: 15, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
5 1 0.01
6 70 0.96
7 2 0.03
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:11604216 original size:199 final size:199
Alignment explanation
Indices: 11603587--11604806 Score: 2268
Period size: 199 Copynumber: 6.1 Consensus size: 199
11603577 TTTAAATTAG
11603587 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
11603652 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
11603717 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGTAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
11603782 AAAA
196 AAAA
11603786 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
11603851 ATTGTACCGGTTAGATT-AAAAA--ACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
11603913 CGACACTTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
11603977 AAAA
196 AAAA
11603981 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
11604046 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
11604111 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGTAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
11604176 AAAA
196 AAAA
11604180 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
11604245 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
11604310 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAA
11604375 AAAAA
195 AAAAA
*
11604380 TATCGACACAGACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
11604445 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
11604510 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGTAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
11604575 AAAA
196 AAAA
11604579 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
11604644 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
11604709 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
11604774 AAAA
196 AAAA
*
11604778 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
11604807 TGACCCTTAA
Statistics
Matches: 989, Mismatches: 27, Indels: 10
0.96 0.03 0.01
Matches are distributed among these distances:
195 135 0.14
196 56 0.06
198 55 0.06
199 551 0.56
200 192 0.19
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
AAAA
Found at i:11604505 original size:399 final size:398
Alignment explanation
Indices: 11603587--11604806 Score: 2340
Period size: 399 Copynumber: 3.1 Consensus size: 398
11603577 TTTAAATTAG
11603587 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
11603652 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
11603717 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGTAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGTAAAA
11603782 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
11603847 TATAATTGTACCGGTTAGATT-AAAAA--ACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
11603909 GGATCGACACTTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
11603973 GAAAAAAA
391 GAAAAAAA
11603981 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
11604046 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
11604111 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGTAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGTAAAA
11604176 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
11604241 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
11604306 GGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
326 GGATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
11604371 GGAAAAAAA
390 GGAAAAAAA
*
11604380 TATCGACACAGACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
11604445 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
11604510 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGTAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGTAAAA
11604575 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
11604640 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
261 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
* *
11604705 GGATCGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGG
326 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
*
11604770 AAAAAAAA
391 GAAAAAAA
*
11604778 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
11604807 TGACCCTTAA
Statistics
Matches: 813, Mismatches: 8, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
394 279 0.34
395 5 0.01
397 46 0.06
398 92 0.11
399 391 0.48
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (398 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATTCTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGTAAAA
AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
GAAAAAAA
Found at i:11604915 original size:19 final size:19
Alignment explanation
Indices: 11604888--11604932 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
11604878 ATTCACATAA
*
11604888 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
11604907 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
11604926 AAAATTA
1 AAAATTA
11604933 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:11606763 original size:33 final size:33
Alignment explanation
Indices: 11606726--11606791 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
11606716 CATCTTAATA
*
11606726 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
11606759 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
11606792 CCTTCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:11609120 original size:17 final size:18
Alignment explanation
Indices: 11609098--11609140 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
11609088 ATATATCCGG
11609098 TATCATT-TTACCGGTTT
1 TATCATTATTACCGGTTT
11609115 TATCATTTTATTACCGGTTT
1 TATCA--TTATTACCGGTTT
11609135 TATCAT
1 TATCAT
11609141 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.22
18 1 0.04
19 2 0.09
20 15 0.65
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.53
Consensus pattern (18 bp):
TATCATTATTACCGGTTT
Found at i:11609130 original size:20 final size:20
Alignment explanation
Indices: 11609103--11609149 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
11609093 TCCGGTATCA
11609103 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
11609122 TTATTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
11609143 TTTTACC
1 TTTTACC
11609150 TGTTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:11609297 original size:20 final size:20
Alignment explanation
Indices: 11609271--11609316 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
11609261 CACTTTTAAA
11609271 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
11609290 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
11609311 TTTACC
1 TTTACC
11609317 TGGTATATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:11609821 original size:228 final size:227
Alignment explanation
Indices: 11609382--11609829 Score: 781
Period size: 229 Copynumber: 2.0 Consensus size: 227
11609372 TTAAAACTGC
11609382 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTCATGTTTTCCACCTACAATAT
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTCATGTTTTCCACCTACAATAT
**
11609447 TAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTATT
66 TAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
* *
11609512 TAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAAG
131 TAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATAAG
*
11609577 TATGGACACTTTTATAAAAATGATATATACTT
196 TATGGACACTTTTATAAAAAGGATATATACTT
*
11609609 TTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAAT
1 TTTT-AAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTG-TTCATGTTTTCCACCTACAAT
*
11609674 ATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
64 ATTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
* *
11609739 TTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTC-ACAGTGAAATA
129 TTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATA
*
11609803 AGTATGGATACTTTTATAAAAAGGATA
194 AGTATGGACACTTTTATAAAAAGGATA
11609830 GATAATTTAC
Statistics
Matches: 209, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
227 4 0.02
228 73 0.35
229 132 0.63
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (227 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTCATGTTTTCCACCTACAATAT
TAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
TAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATAAG
TATGGACACTTTTATAAAAAGGATATATACTT
Found at i:11610668 original size:10 final size:10
Alignment explanation
Indices: 11610653--11610706 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
11610643 GTTAGTTTTT
11610653 TTATATATAA
1 TTATATATAA
11610663 TTATATA-AA
1 TTATATATAA
*
11610672 ATATA-ATGAA
1 TTATATAT-AA
*
11610682 TTATTTAT-A
1 TTATATATAA
*
11610691 TTATATATTA
1 TTATATATAA
11610701 TTATAT
1 TTATAT
11610707 TTTGTATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 1 0.03
9 14 0.39
10 19 0.53
11 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (10 bp):
TTATATATAA
Found at i:11611166 original size:6 final size:6
Alignment explanation
Indices: 11611155--11611179 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11611145 CCTTTGTGGT
11611155 GGCTTA GGCTTA GGCTTA GGCTTA G
1 GGCTTA GGCTTA GGCTTA GGCTTA G
11611180 CATTAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.36, T:0.32
Consensus pattern (6 bp):
GGCTTA
Found at i:11612699 original size:2 final size:2
Alignment explanation
Indices: 11612659--11612691 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11612649 CCTTATTAAT
11612659 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11612692 TCTATATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11612705 original size:13 final size:15
Alignment explanation
Indices: 11612663--11612699 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
11612653 ATTAATTATA
*
11612663 TATATATATATATATA
1 TATATATATATAT-TC
11612679 TATATATATATATTC
1 TATATATATATATTC
11612694 TATATA
1 TATATA
11612700 ATTATTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (15 bp):
TATATATATATATTC
Found at i:11612764 original size:15 final size:14
Alignment explanation
Indices: 11612723--11612782 Score: 75
Period size: 15 Copynumber: 4.1 Consensus size: 14
11612713 TTTCATGTTC
11612723 TTTTATTTTTATTT
1 TTTTATTTTTATTT
*
11612737 TTTTATCTTTATTT
1 TTTTATTTTTATTT
*
11612751 TATTTGTTTTTATTT
1 T-TTTATTTTTATTT
*
11612766 TCTTTATTATTATTT
1 T-TTTATTTTTATTT
11612781 TT
1 TT
11612783 CTTTATTGTC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 15 0.38
15 24 0.62
ACGTcount: A:0.15, C:0.03, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTTATTTTTATTT
Found at i:11612769 original size:24 final size:24
Alignment explanation
Indices: 11612723--11612813 Score: 94
Period size: 25 Copynumber: 3.7 Consensus size: 24
11612713 TTTCATGTTC
*
11612723 TTTTATTTTTATTTTTTTATCTTTA
1 TTTTATTTTTATTTATTT-TCTTTA
11612748 TTTTATTTGTT-TTTATTTTCTTTA
1 TTTTATTT-TTATTTATTTTCTTTA
* *
11612772 TTATTATTTTTCTTTATTGTCTTTA
1 TT-TTATTTTTATTTATTTTCTTTA
* * *
11612797 TCTTATTTATCTTTATT
1 TTTTATTTTTATTTATT
11612814 GTATTTTCTC
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
24 24 0.41
25 33 0.56
26 2 0.03
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTATTTTTATTTATTTTCTTTA
Found at i:11612771 original size:9 final size:9
Alignment explanation
Indices: 11612730--11612829 Score: 53
Period size: 9 Copynumber: 10.9 Consensus size: 9
11612720 TTCTTTTATT
11612730 TTTATTTT-
1 TTTATTTTC
*
11612738 TTTATCTTTAT
1 TTTAT-TTT-C
*
11612749 TTTATTTGTT
1 TTTATTT-TC
11612759 TTTATTTTC
1 TTTATTTTC
*
11612768 TTTATTAT-
1 TTTATTTTC
*
11612776 TAT-TTTTC
1 TTTATTTTC
*
11612784 TTTATTGTC
1 TTTATTTTC
* *
11612793 TTTATCTTA
1 TTTATTTTC
*
11612802 TTTATCTTTA
1 TTTAT-TTTC
11612812 TTGTATTTTC
1 TT-TATTTTC
*
11612822 TCTATTTT
1 TTTATTTT
11612830 GTCTTATTTA
Statistics
Matches: 72, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
7 3 0.04
8 9 0.12
9 32 0.44
10 19 0.26
11 9 0.12
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.74
Consensus pattern (9 bp):
TTTATTTTC
Found at i:11612800 original size:15 final size:15
Alignment explanation
Indices: 11612724--11612822 Score: 70
Period size: 15 Copynumber: 7.1 Consensus size: 15
11612714 TTCATGTTCT
*
11612724 TTTATTTTTATTTT-
1 TTTATCTTTATTTTC
*
11612738 TTTATCTTTATTTTA
1 TTTATCTTTATTTTC
* *
11612753 TTTGTTTTTATTTTC
1 TTTATCTTTATTTTC
*
11612768 TTTA---TTATTAT-
1 TTTATCTTTATTTTC
*
11612779 TTT-TCTTTATTGTC
1 TTTATCTTTATTTTC
11612793 TTTATC-TTATTTATC
1 TTTATCTTTATTT-TC
*
11612808 TTTAT-TGTATTTTC
1 TTTATCTTTATTTTC
11612822 T
1 T
11612823 CTATTTTGTC
Statistics
Matches: 68, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
11 3 0.04
12 6 0.09
13 6 0.09
14 24 0.35
15 29 0.43
ACGTcount: A:0.15, C:0.07, G:0.03, T:0.75
Consensus pattern (15 bp):
TTTATCTTTATTTTC
Found at i:11612814 original size:24 final size:24
Alignment explanation
Indices: 11612742--11612828 Score: 86
Period size: 24 Copynumber: 3.6 Consensus size: 24
11612732 TATTTTTTTA
* * * *
11612742 TCTTTATTTTATTTGTTTTTATTT
1 TCTTTATCTTATTTATCTTTATTG
* *
11612766 TCTTTATTATTATTTTTCTTTATTG
1 TCTTTA-TCTTATTTATCTTTATTG
11612791 TCTTTATCTTATTTATCTTTATTG
1 TCTTTATCTTATTTATCTTTATTG
*
11612815 TATTT-TCTCTATTT
1 TCTTTATCT-TATTT
11612829 TGTCTTATTT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
23 3 0.06
24 31 0.57
25 20 0.37
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.72
Consensus pattern (24 bp):
TCTTTATCTTATTTATCTTTATTG
Found at i:11612836 original size:24 final size:24
Alignment explanation
Indices: 11612744--11612842 Score: 80
Period size: 24 Copynumber: 4.1 Consensus size: 24
11612734 TTTTTTTATC
* * *
11612744 TTTATTTTATTTGTT-TTTATTTTC
1 TTTATCTTATTT-TTCTTTATTGTA
* *
11612768 TTTATTATTATTTTTCTTTATTGTC
1 TTTA-TCTTATTTTTCTTTATTGTA
*
11612793 TTTATCTTATTTATCTTTATTGTA
1 TTTATCTTATTTTTCTTTATTGTA
11612817 TTT-TCTCTATTTTGTC-TTATT-TA
1 TTTATCT-TATTTT-TCTTTATTGTA
11612840 TTT
1 TTT
11612843 CATTCGTTTC
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
23 8 0.12
24 36 0.55
25 21 0.32
ACGTcount: A:0.15, C:0.08, G:0.04, T:0.73
Consensus pattern (24 bp):
TTTATCTTATTTTTCTTTATTGTA
Found at i:11612878 original size:15 final size:14
Alignment explanation
Indices: 11612853--11612895 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
11612843 CATTCGTTTC
11612853 TTACTTTATTTTTAT
1 TTAC-TTATTTTTAT
11612868 GTTACTTATTTTTA-
1 -TTACTTATTTTTAT
11612882 TTACTT-TTTTTAT
1 TTACTTATTTTTAT
11612895 T
1 T
11612896 CTAACACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.23
13 7 0.27
15 9 0.35
16 4 0.15
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (14 bp):
TTACTTATTTTTAT
Found at i:11615663 original size:95 final size:94
Alignment explanation
Indices: 11615478--11615677 Score: 312
Period size: 95 Copynumber: 2.1 Consensus size: 94
11615468 ATATTATAAT
* *
11615478 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCTACTTTAT
1 ATTATA-ATATACAATAAAGCTTGAGTTATCCCTCTAAAGCAATTGGTTAAACGCCCGACTTTAT
*
11615543 GGATAAAATTCAGCTAGCCTGAT-AAAGATG
65 GGATAAAATTCAACTAGCCTGATAAAAG-TG
11615573 ATTATAATATACAATAAAGCTTGAGTTATCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTAT
1 ATTATAATATACAATAAAGCTTGAGTTATCCCTCTAAAGCAATTGGTTAAACG-CCCGACTTTAT
* *
11615638 GGATAATATTCAACTAGCTTGATAAAAGTG
65 GGATAAAATTCAACTAGCCTGATAAAAGTG
*
11615668 TTTATAATAT
1 ATTATAATAT
11615678 TGAGTTGTCC
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
94 46 0.47
95 47 0.48
96 4 0.04
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (94 bp):
ATTATAATATACAATAAAGCTTGAGTTATCCCTCTAAAGCAATTGGTTAAACGCCCGACTTTATG
GATAAAATTCAACTAGCCTGATAAAAGTG
Found at i:11618040 original size:80 final size:80
Alignment explanation
Indices: 11617821--11619382 Score: 2111
Period size: 80 Copynumber: 19.3 Consensus size: 80
11617811 ACCTTCAACA
* * * *
11617821 AAAGACATTTGAGTTCAATTACACTCAGCTCAAAGGCATATCATTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* **
11617886 GAAGGGTTATATGCC
66 GAAGGGCTACCTGCC
* * *
11617901 ATAAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAAGCATATCATTTGCAGTATAGCTCAAG
1 ----AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAG
*
11617966 GCAAGAAGGGCTACATGCC
62 GCAAGAAGGGCTACCTGCC
* * * * *
11617985 AAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGTACATCGTTTGTAACATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
11618050 GAAGGGCTACCTGCC
66 GAAGGGCTACCTGCC
* * *
11618065 AAAGACCTTCGAGTTCGATTACACT-AGGCTTAAAGGCATATCATTTGCAGCATAACTCAAGGCA
1 AAAGACCTTCGAGTTCGATTACACTCA-GCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
*
11618129 AGAAGAGCTACCTGCC
65 AGAAGGGCTACCTGCC
* * *
11618145 AAAAACCTTCGAGTTCGATTACACT-AGACTCAAAGGCATATCATTTGCAGCATAACTCAAGGCA
1 AAAGACCTTCGAGTTCGATTACACTCAG-CTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
11618209 AGAAGGGCTACCTGCC
65 AGAAGGGCTACCTGCC
*
11618225 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGTACATCATTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* *
11618290 GAAGGGTTATCTGCC
66 GAAGGGCTACCTGCC
** * *
11618305 AAAGACCTTCGAGTTTAATTACACTCAGCTTAAAGGCATATCATTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
11618370 GAAGGGCTATCTGCCAAC
66 GAAGGGCTACCTG-C--C
* * *
11618388 AAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGCAACATAACTCAAGGCA
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
* * *
11618453 ATAAAGGCTACCTACC
65 AGAAGGGCTACCTGCC
* *
11618469 AAAGACCTTCGAGTTTGATTACACTCAACTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
11618534 GAAGGGCTACCTGCC
66 GAAGGGCTACCTGCC
* *
11618549 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAAGCACATCATTTACAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* ** *
11618614 GAAGGGTTATATACCAACA
66 GAAGGG----CTACCTGCC
* * *
11618633 AAAGACCTTCGAGTTCGATTATACTCAGCTCAAAAGCACATTATTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
11618698 GAAGGGCTACTTGCC
66 GAAGGGCTACCTGCC
* * * **
11618713 AAAGCCCTTCGAGTTTGATTACACTCAGCTCAAAGACACATCATTTGCATTATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
11618778 GAAGGGTTACCTGCC
66 GAAGGGCTACCTGCC
* * * *
11618793 AAAGACATTCGAGTTCGATTACACTTAGCTCAAAGGCACATCATTTGCAGTATAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
11618858 GAAGGGCTACCTTCC
66 GAAGGGCTACCTGCC
* * * * * *
11618873 AAAGACCTTAGAGTTCAATTACACTCAGCTTAAAGGCACATAATTTGCAGTATAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
11618938 GAAGGGCTATCTGCCAAC
66 GAAGGGCTACCTG-C--C
* * * *
11618956 AAAATACCTTCGAGTTCGATTAAACTCATCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCA
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
* * *
11619021 AGAAGGGTTATCTTCC
65 AGAAGGGCTACCTGCC
* * *
11619037 AAAGAACTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAACATAGCTCAAGGAAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* *
11619102 GAAGGGCTACATTCC
66 GAAGGGCTACCTGCC
* * * * * *
11619117 AAATACCTTCAAGTTCGATTACACTCAGCTTAAAGGTATATCATTTGCAGCATAGCTCAAGGAAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* *
11619182 GAAGGGTTATCTGCC
66 GAAGGGCTACCTGCC
* *
11619197 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAATGCACATCATTTGCATCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
11619262 GAAGGGCTACCTGCC
66 GAAGGGCTACCTGCC
* * *
11619277 AAAGACCTTTGAGTTCGACTACACTCAGATCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
11619342 GAAGGGCTACCTGCC
66 GAAGGGCTACCTGCC
*
11619357 AAAGACCTTCAAGTTCGATTACACTC
1 AAAGACCTTCGAGTTCGATTACACTC
11619383 GACTCAAGGG
Statistics
Matches: 1314, Mismatches: 149, Indels: 34
0.88 0.10 0.02
Matches are distributed among these distances:
79 2 0.00
80 1021 0.78
81 6 0.00
83 4 0.00
84 281 0.21
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (80 bp):
AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
GAAGGGCTACCTGCC
Found at i:11618453 original size:324 final size:320
Alignment explanation
Indices: 11617821--11619382 Score: 2124
Period size: 324 Copynumber: 4.8 Consensus size: 320
11617811 ACCTTCAACA
* * *
11617821 AAAGACATTTGAGTTCAATTACACTCAGCTCAAAGGCATATCATTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCATTTGCAGCATAGCTCAAGGCAA
* ** *
11617886 GAAGGGTTATATGCCATAAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAAGCATATCATTT
66 GAAGGGCTACCTGCC----AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAAGCACATCATTT
* *
11617951 GCAGTATAGCTCAAGGCAAGAAGGGCTA-CATGCCAAAGACCTTCGAGTTTGATTACACTCAGCT
127 GCAGCATAGCTCAAGGCAAGAAGGGCTATC-TGCCAAAGACCTTCGAGTTCGATTACACTCAGCT
* * * *
11618015 CAAAGGTACATCGTTTGTAACATAGCTCAAGGCAAGAAGGGCTACCTGCCAAAGACCTTCGAGTT
191 CAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTACCTGCCAAAGACCTTCGAGTT
* * *
11618080 CGATTACACT-AGGCTTAAAGGCATATCATTTGCAGCATAACTCAAGGCAAGAAGAGCTACCTGC
256 CGATTACACTCA-GCTCAAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGAGCTACCTGC
11618144 C
320 C
* *
11618145 AAAAACCTTCGAGTTCGATTACACT-AGACTCAAAGGCATATCATTTGCAGCATAACTCAAGGCA
1 AAAGACCTTCGAGTTCGATTACACTCAG-CTCAAAGGCATATCATTTGCAGCATAGCTCAAGGCA
* *
11618209 AGAAGGGCTACCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGTACATCATTTGCA
65 AGAAGGGCTACCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAAGCACATCATTTGCA
* ** *
11618274 GCATAGCTCAAGGCAAGAAGGGTTATCTGCCAAAGACCTTCGAGTTTAATTACACTCAGCTTAAA
130 GCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAA
* *
11618339 GGCATATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGACCTTCGAGTT
195 GGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTACCTG-C--C-AAAGACCTTCGAGTT
* * *
11618404 TGATTACACTCAGCTCAAAGGCACATCATTTGCAACATAACTCAAGGCAATAA-AGGCTACCTAC
256 CGATTACACTCAGCTCAAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGA-GCTACCTGC
11618468 C
320 C
* * *
11618469 AAAGACCTTCGAGTTTGATTACACTCAACTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCATTTGCAGCATAGCTCAAGGCAA
*
11618534 GAAGGGCTACCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAAGCACATCATTTACAG
66 GAAGGGCTACCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAAGCACATCATTTGCAG
* * * *
11618599 CATAGCTCAAGGCAAGAAGGGTTATATACCAACAAAAGACCTTCGAGTTCGATTATACTCAGCTC
131 CATAGCTCAAGGCAAGAAGGGCTATCT-GC--C-AAAGACCTTCGAGTTCGATTACACTCAGCTC
* * * * *
11618664 AAAAGCACATTATTTGCAGCATAGCTCAAGGCAAGAAGGGCTACTTGCCAAAGCCCTTCGAGTTT
192 AAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTACCTGCCAAAGACCTTCGAGTTC
* ** * * *
11618729 GATTACACTCAGCTCAAAGACACATCATTTGCATTATAGCTCAAGGCAAGAAGGGTTACCTGCC
257 GATTACACTCAGCTCAAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGAGCTACCTGCC
* * * * *
11618793 AAAGACATTCGAGTTCGATTACACTTAGCTCAAAGGCACATCATTTGCAGTATAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCATTTGCAGCATAGCTCAAGGCAA
* * * * * *
11618858 GAAGGGCTACCTTCCAAAGACCTTAGAGTTCAATTACACTCAGCTTAAAGGCACATAATTTGCAG
66 GAAGGGCTACCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAAGCACATCATTTGCAG
* * * * *
11618923 TATAACTCAAGGCAAGAAGGGCTATCTGCCAACAAAATACCTTCGAGTTCGATTAAACTCATCTC
131 CATAGCTCAAGGCAAGAAGGGCTATCTG-C--C-AAAGACCTTCGAGTTCGATTACACTCAGCTC
* * * * *
11618988 AAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAGGGTTATCTTCCAAAGAACTTCGAGTTC
192 AAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTACCTGCCAAAGACCTTCGAGTTC
* * * * *
11619053 GATTACACTCAGCTCAAAGGCACATCATTTGCAACATAGCTCAAGGAAAGAAGGGCTACATTCC
257 GATTACACTCAGCTCAAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGAGCTACCTGCC
* * * * *
11619117 AAATACCTTCAAGTTCGATTACACTCAGCTTAAAGGTATATCATTTGCAGCATAGCTCAAGGAAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCATTTGCAGCATAGCTCAAGGCAA
* * * *
11619182 GAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAATGCACATCATTTGCAT
66 GAAGGGCTACCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAAGCACATCATTTGCAG
* * * *
11619247 CATAGCTCAAGGCAAGAAGGGCTACCTGCCAAAGACCTTTGAGTTCGACTACACTCAGATCAAAG
131 CATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
*
11619312 GCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTACCTGCCAAAGACCTTCAAGTTCGATT
196 GCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTACCTGCCAAAGACCTTCGAGTTCGATT
11619377 ACACTC
261 ACACTC
11619383 GACTCAAGGG
Statistics
Matches: 1096, Mismatches: 127, Indels: 34
0.87 0.10 0.03
Matches are distributed among these distances:
320 237 0.22
321 3 0.00
323 5 0.00
324 776 0.71
325 4 0.00
327 2 0.00
328 69 0.06
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (320 bp):
AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCATTTGCAGCATAGCTCAAGGCAA
GAAGGGCTACCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAAGCACATCATTTGCAG
CATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
GCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTACCTGCCAAAGACCTTCGAGTTCGATT
ACACTCAGCTCAAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGAGCTACCTGCC
Found at i:11620212 original size:2 final size:2
Alignment explanation
Indices: 11620181--11620260 Score: 119
Period size: 2 Copynumber: 40.5 Consensus size: 2
11620171 TGATTTATGG
* *
11620181 TA TA TA T- TG TA TA TG TA T- TA TA TGA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
11620222 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11620261 TATGCTATGT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
1 2 0.03
2 68 0.94
3 2 0.03
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11621460 original size:3 final size:3
Alignment explanation
Indices: 11621417--11621442 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11621407 ATAGATTTTG
11621417 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
11621443 TTGTCTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11621589 original size:12 final size:11
Alignment explanation
Indices: 11621572--11621658 Score: 72
Period size: 11 Copynumber: 7.7 Consensus size: 11
11621562 TTTCATGTTC
11621572 TTTTATTTTTAA
1 TTTTATTTTT-A
*
11621584 TTTTATCTTTA
1 TTTTATTTTTA
*
11621595 TTTTATTTGT-
1 TTTTATTTTTA
11621605 TTTTATTTTCT-
1 TTTTATTTT-TA
11621616 TTATTATTTTTTA
1 TT-TTA-TTTTTA
*
11621629 TTTTCTTTATTA
1 TTTTATTT-TTA
11621641 -TTTATTTTTA
1 TTTTATTTTTA
*
11621651 TCTTATTT
1 TTTTATTT
11621659 ATCTTTATTG
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
10 11 0.18
11 27 0.44
12 18 0.29
13 6 0.10
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:11621594 original size:6 final size:5
Alignment explanation
Indices: 11621549--11621674 Score: 57
Period size: 5 Copynumber: 24.6 Consensus size: 5
11621539 ATTCTATATG
* * * *
11621549 TTTAT TTTA- CTTAT TTCAT GTTCT TTTATT TTTAAT TTTAT CTTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA-T TTT-AT TTTAT -TTTAT
* *
11621596 TTTAT TTGT-T TTTAT TTT-C TTTAT TATT-T TTTAT TTT-C TTTATT
1 TTTAT TT-TAT TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT TTTA-T
* *
11621640 ATTTATT TTTAT CTTA- TTTAT CTTTAT TGTAT TTT
1 -TTTA-T TTTAT TTTAT TTTAT -TTTAT TTTAT TTT
11621675 CTCTATCTTG
Statistics
Matches: 91, Mismatches: 16, Indels: 28
0.67 0.12 0.21
Matches are distributed among these distances:
4 15 0.16
5 44 0.48
6 25 0.27
7 7 0.08
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:11621611 original size:15 final size:15
Alignment explanation
Indices: 11621585--11621673 Score: 78
Period size: 15 Copynumber: 6.2 Consensus size: 15
11621575 TATTTTTAAT
*
11621585 TTTATCTTTATTTTA
1 TTTATTTTTATTTTA
* *
11621600 TTTGTTTTTATTTTC
1 TTTATTTTTATTTTA
*
11621615 TTTATTATT-TTTTA
1 TTTATTTTTATTTTA
*
11621629 TTT-TCTTTA--TTA
1 TTTATTTTTATTTTA
*
11621641 TTTATTTTTATCTTA
1 TTTATTTTTATTTTA
* *
11621656 TTTATCTTTATTGTA
1 TTTATTTTTATTTTA
11621671 TTT
1 TTT
11621674 TCTCTATCTT
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
12 6 0.10
13 8 0.14
14 7 0.12
15 37 0.64
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTATTTTTATTTTA
Found at i:11621618 original size:9 final size:9
Alignment explanation
Indices: 11621596--11621639 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
11621586 TTATCTTTAT
*
11621596 TTTATTTGTT
1 TTTATTT-TC
11621606 TTTATTTTC
1 TTTATTTTC
*
11621615 TTTATTATTT
1 TTTATT-TTC
11621625 TTTATTTTC
1 TTTATTTTC
11621634 TTTATT
1 TTTATT
11621640 ATTTATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
9 15 0.50
10 15 0.50
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.80
Consensus pattern (9 bp):
TTTATTTTC
Found at i:11621620 original size:19 final size:19
Alignment explanation
Indices: 11621604--11621643 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
11621594 ATTTTATTTG
11621604 TTTTTATTTTCTTTATTAT
1 TTTTTATTTTCTTTATTAT
11621623 TTTTTATTTTCTTTATTAT
1 TTTTTATTTTCTTTATTAT
11621642 TT
1 TT
11621644 ATTTTTATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTATTTTCTTTATTAT
Found at i:11621654 original size:19 final size:19
Alignment explanation
Indices: 11621573--11621654 Score: 69
Period size: 19 Copynumber: 4.1 Consensus size: 19
11621563 TTCATGTTCT
*
11621573 TTTATT-TTTAATTTTATC
1 TTTATTATTTATTTTTATC
*
11621591 TTTATTTTATTTGTTTTTATTTTC
1 TTTA--TTATTTATTTTTA---TC
*
11621615 TTTATTATTT-TTTATTTTC
1 TTTATTATTTATTT-TTATC
11621634 TTTATTATTTATTTTTATC
1 TTTATTATTTATTTTTATC
11621653 TT
1 TT
11621655 ATTTATCTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
18 4 0.08
19 18 0.35
20 5 0.10
21 11 0.21
22 8 0.15
24 6 0.12
ACGTcount: A:0.17, C:0.05, G:0.01, T:0.77
Consensus pattern (19 bp):
TTTATTATTTATTTTTATC
Found at i:11621734 original size:15 final size:16
Alignment explanation
Indices: 11621707--11621736 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11621697 CATTCTTTTC
11621707 TTACTTAATTTTTATG
1 TTACTTAATTTTTATG
11621723 TTACTT-ATTTTTAT
1 TTACTTAATTTTTAT
11621737 TACTTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (16 bp):
TTACTTAATTTTTATG
Found at i:11622774 original size:2 final size:2
Alignment explanation
Indices: 11622769--11622825 Score: 89
Period size: 2 Copynumber: 29.0 Consensus size: 2
11622759 ATTAAAAAAT
* *
11622769 TA TA TA TA TA AA TA AA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11622810 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
11622826 AATAAATTAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:11623357 original size:2 final size:2
Alignment explanation
Indices: 11623350--11623391 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
11623340 TCATACTTTA
11623350 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11623392 CAAATATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11628289 original size:16 final size:16
Alignment explanation
Indices: 11628268--11628308 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
11628258 GCAAAGAGTT
*
11628268 GAGCAACGGGCTTAAC
1 GAGCAACGAGCTTAAC
11628284 GAGCAACGAGCTTAAC
1 GAGCAACGAGCTTAAC
*
11628300 AAG-AACGAG
1 GAGCAACGAG
11628309 TCGAGCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.39, C:0.22, G:0.29, T:0.10
Consensus pattern (16 bp):
GAGCAACGAGCTTAAC
Found at i:11633214 original size:21 final size:21
Alignment explanation
Indices: 11633188--11633238 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
11633178 ATTTATCTTT
11633188 TTTGCAGCAGTCGTAACTCAA
1 TTTGCAGCAGTCGTAACTCAA
** * *
11633209 TTTGCAATAGTTGTGACTCAA
1 TTTGCAGCAGTCGTAACTCAA
11633230 TTTGCAGCA
1 TTTGCAGCA
11633239 ACCGTTATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (21 bp):
TTTGCAGCAGTCGTAACTCAA
Found at i:11633977 original size:69 final size:69
Alignment explanation
Indices: 11633891--11634027 Score: 274
Period size: 69 Copynumber: 2.0 Consensus size: 69
11633881 ATTTCATTCT
11633891 CTAAAGTGAATCTTTCATTGTTCTTGATTCCCCCCAATTCTTCTTGTTATATCTTGATTTAGGGT
1 CTAAAGTGAATCTTTCATTGTTCTTGATTCCCCCCAATTCTTCTTGTTATATCTTGATTTAGGGT
11633956 TTCC
66 TTCC
11633960 CTAAAGTGAATCTTTCATTGTTCTTGATTCCCCCCAATTCTTCTTGTTATATCTTGATTTAGGGT
1 CTAAAGTGAATCTTTCATTGTTCTTGATTCCCCCCAATTCTTCTTGTTATATCTTGATTTAGGGT
11634025 TTC
66 TTC
11634028 TATCAGCCCA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.47
Consensus pattern (69 bp):
CTAAAGTGAATCTTTCATTGTTCTTGATTCCCCCCAATTCTTCTTGTTATATCTTGATTTAGGGT
TTCC
Found at i:11635141 original size:22 final size:24
Alignment explanation
Indices: 11635105--11635161 Score: 80
Period size: 25 Copynumber: 2.4 Consensus size: 24
11635095 TAGAAATGTT
11635105 AAAA-AATATAATTATAATGACGA
1 AAAATAATATAATTATAATGACGA
*
11635128 AAAATAATATTTATTATAATGACGA
1 AAAATAATA-TAATTATAATGACGA
*
11635153 AGAATAATA
1 AAAATAATA
11635162 ACTTCAATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 4 0.13
24 4 0.13
25 22 0.73
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.30
Consensus pattern (24 bp):
AAAATAATATAATTATAATGACGA
Found at i:11641378 original size:42 final size:42
Alignment explanation
Indices: 11641198--11641362 Score: 172
Period size: 42 Copynumber: 4.0 Consensus size: 42
11641188 TTTATTGTAA
* * * * *
11641198 AAACGCCGTAATAGAGTAGAAATTTTACAGCGTTT-TAGCC-C
1 AAACGCCGAAATAGAGTGGTAATTTAACGGCGTTTATA-CCAC
* *
11641239 AAACGCCGAAATAGAGTTGTAATTTAACGGCGTTTATACGAC
1 AAACGCCGAAATAGAGTGGTAATTTAACGGCGTTTATACCAC
* * * * *
11641281 AAACGTCGCAATATAATGGTAATTTAGCGGCGTTTATACCAC
1 AAACGCCGAAATAGAGTGGTAATTTAACGGCGTTTATACCAC
* * *
11641323 AAATGCCGAAATAGAGTGGTAAATTAACGACGTTTATACC
1 AAACGCCGAAATAGAGTGGTAATTTAACGGCGTTTATACC
11641363 TGAAACGTCG
Statistics
Matches: 101, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
41 31 0.31
42 70 0.69
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.27
Consensus pattern (42 bp):
AAACGCCGAAATAGAGTGGTAATTTAACGGCGTTTATACCAC
Found at i:11643026 original size:42 final size:41
Alignment explanation
Indices: 11642895--11643045 Score: 133
Period size: 42 Copynumber: 3.6 Consensus size: 41
11642885 TAGCACTTCT
* * * * *
11642895 GTGGCGTTTTTTTATACAAACGCCGCTATAGATTTGTCAAGTA
1 GTGGCG-TTTGTT-TACAAACGCCGCAATAGAGTTGGCATGTA
* * * * * *
11642938 GTGGCATTT-TTTAGTAAACACCGTAATAGAGTTGGAATATA
1 GTGGCGTTTGTTTA-CAAACGCCGCAATAGAGTTGGCATGTA
* *
11642979 ATGGCGTTTGGTTTACAAACGCCGCAATAGAGTTGGCATGTG
1 GTGGCGTTT-GTTTACAAACGCCGCAATAGAGTTGGCATGTA
11643021 GTGGCGTTTGATTTACAAACGCCGC
1 GTGGCGTTTG-TTTACAAACGCCGC
11643046 GAACATTTAT
Statistics
Matches: 85, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
40 2 0.02
41 28 0.33
42 46 0.54
43 9 0.11
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (41 bp):
GTGGCGTTTGTTTACAAACGCCGCAATAGAGTTGGCATGTA
Found at i:11643500 original size:17 final size:17
Alignment explanation
Indices: 11643478--11643510 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11643468 CTATATAAAT
*
11643478 ATTCACCCTCACTTTTA
1 ATTCACCCTCAATTTTA
11643495 ATTCACCCTCAATTTT
1 ATTCACCCTCAATTTT
11643511 CATCTCCAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.33, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTCACCCTCAATTTTA
Found at i:11644922 original size:19 final size:20
Alignment explanation
Indices: 11644898--11644988 Score: 150
Period size: 20 Copynumber: 4.7 Consensus size: 20
11644888 GGTATCAAAA
11644898 TGCATCCATGCACC-TGTAG
1 TGCATCCATGCACCATGTAG
11644917 TGCATCCATGCACC-TGTAG
1 TGCATCCATGCACCATGTAG
11644936 TGCATCCATGCACCATGTAG
1 TGCATCCATGCACCATGTAG
* *
11644956 TGCATCGATGCGCCATGTAG
1 TGCATCCATGCACCATGTAG
11644976 TGCATCCATGCAC
1 TGCATCCATGCAC
11644989 TCAAACACCG
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
19 33 0.49
20 34 0.51
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (20 bp):
TGCATCCATGCACCATGTAG
Found at i:11645445 original size:34 final size:33
Alignment explanation
Indices: 11645406--11645476 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 33
11645396 CTTTGTAAAG
* * *
11645406 GGGAAAGGTTCTAG-TTAAGCTCGTGTAAAAGCTA
1 GGGAAAGGTTATAGTTTAACCT-GTG-AAAAACTA
11645440 GGGAAAGGTTATAGTTTAACCTGTGAAAAACTA
1 GGGAAAGGTTATAGTTTAACCTGTGAAAAACTA
11645473 GGGA
1 GGGA
11645477 GTTGTAAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 11 0.33
34 16 0.48
35 6 0.18
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (33 bp):
GGGAAAGGTTATAGTTTAACCTGTGAAAAACTA
Found at i:11648153 original size:67 final size:67
Alignment explanation
Indices: 11648073--11648204 Score: 246
Period size: 67 Copynumber: 2.0 Consensus size: 67
11648063 GGGGAGAAGT
* *
11648073 AAGTTTGGTTTGAAAAATTCAATTTCTTAATGAAAAAGGGGTAGCTTAACATTTTCATATATTTT
1 AAGTTTAGTTTGAAAAATTCAATTTCTTAATGAAAAAGGGGGAGCTTAACATTTTCATATATTTT
11648138 CC
66 CC
11648140 AAGTTTAGTTTGAAAAATTCAATTTCTTAATGAAAAAGGGGGAGCTTAACATTTTCATATATTTT
1 AAGTTTAGTTTGAAAAATTCAATTTCTTAATGAAAAAGGGGGAGCTTAACATTTTCATATATTTT
11648205 TCAACAATTG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (67 bp):
AAGTTTAGTTTGAAAAATTCAATTTCTTAATGAAAAAGGGGGAGCTTAACATTTTCATATATTTT
CC
Found at i:11652630 original size:44 final size:44
Alignment explanation
Indices: 11652563--11652774 Score: 200
Period size: 43 Copynumber: 4.9 Consensus size: 44
11652553 AAGAACAAAG
11652563 CTATTGCGACGTTTGTGT-GAAAAAACGCCGCTAAATATCAAAAC
1 CTATTGCGACGTTTGT-TAGAAAAAACGCCGCTAAATATCAAAAC
* * * *
11652607 CTATTGCGTCGTTTGTTA-AAAAAACCGCCGCTAAATCTTAATAC
1 CTATTGCGACGTTTGTTAGAAAAAA-CGCCGCTAAATATCAAAAC
* * ** * ** *
11652651 ATATTGCGGCGTTT-TCGGGAAAAACGCCGCTAAACCTCAACAC
1 CTATTGCGACGTTTGTTAGAAAAAACGCCGCTAAATATCAAAAC
* * *
11652694 CTATTGCGACGTTT-TTAGGACAAACGCCGCTAAATATCAAAGC
1 CTATTGCGACGTTTGTTAGAAAAAACGCCGCTAAATATCAAAAC
* * * *
11652737 CTATTACGACGTTTGTT-GAAAAAAGGCTGCTATATATC
1 CTATTGCGACGTTTGTTAGAAAAAACGCCGCTAAATATC
11652775 GTTACATATT
Statistics
Matches: 137, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
43 87 0.64
44 50 0.36
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (44 bp):
CTATTGCGACGTTTGTTAGAAAAAACGCCGCTAAATATCAAAAC
Found at i:11653858 original size:35 final size:34
Alignment explanation
Indices: 11653819--11653886 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
11653809 TATCAATTTA
*
11653819 ATTTTAAATGGTAAAAGA-AGTT-TTATGTTTTAAAT
1 ATTTTAAAT--TAAAAGATA-TTATTATCTTTTAAAT
11653854 ATTTTAAATTAAAAGATATTATTATCTTTTAAA
1 ATTTTAAATTAAAAGATATTATTATCTTTTAAA
11653887 GTTGAATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 9 0.30
34 12 0.40
35 9 0.30
ACGTcount: A:0.43, C:0.01, G:0.09, T:0.47
Consensus pattern (34 bp):
ATTTTAAATTAAAAGATATTATTATCTTTTAAAT
Found at i:11654022 original size:14 final size:14
Alignment explanation
Indices: 11654003--11654029 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11653993 TCTCTTGAAA
11654003 AATATTTTCTCTCC
1 AATATTTTCTCTCC
11654017 AATATTTTCTCTC
1 AATATTTTCTCTC
11654030 ATTCTTAGAA
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:0.22, C:0.26, G:0.00, T:0.52
Consensus pattern (14 bp):
AATATTTTCTCTCC
Found at i:11654772 original size:16 final size:16
Alignment explanation
Indices: 11654725--11654781 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
11654715 GTTTACTTCA
*
11654725 GAATGATT-AAGTGTT
1 GAATGATTCAAATGTT
* * *
11654740 AAATAATTTAAATGTT
1 GAATGATTCAAATGTT
11654756 GAATGATTCAAATGTT
1 GAATGATTCAAATGTT
11654772 GAATGATTCA
1 GAATGATTCA
11654782 GAGGCTCTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
15 6 0.17
16 29 0.83
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.39
Consensus pattern (16 bp):
GAATGATTCAAATGTT
Found at i:11657047 original size:22 final size:22
Alignment explanation
Indices: 11656993--11657047 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
11656983 GAGTTAATTC
*
11656993 AGTTTGGATCATTTTTATGTTG
1 AGTTTGGATCATATTTATGTTG
*
11657015 A-TTTGACATCATATTTA-GTTCG
1 AGTTTG-GATCATATTTATGTT-G
11657037 AGTTTGGATCA
1 AGTTTGGATCA
11657048 ACTTAATTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
21 7 0.26
22 16 0.59
23 4 0.15
ACGTcount: A:0.24, C:0.09, G:0.20, T:0.47
Consensus pattern (22 bp):
AGTTTGGATCATATTTATGTTG
Found at i:11658588 original size:4 final size:4
Alignment explanation
Indices: 11658581--11658641 Score: 63
Period size: 4 Copynumber: 15.8 Consensus size: 4
11658571 ACAAAATACA
* * * * *
11658581 TATG TATG -ATG TATG TATG -ATG CATG TATA TATA TATA TATA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
11658627 TATG TATG TATG TAT
1 TATG TATG TATG TAT
11658642 AATTTATTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
3 6 0.12
4 46 0.88
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:11659017 original size:24 final size:24
Alignment explanation
Indices: 11658976--11659021 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 24
11658966 TTATTTTATA
11658976 TATATTTTAAAATTTTAAGTTAAAG
1 TATATTTTAAAATTTTAA-TTAAAG
11659001 TATA-TTT-AAATTATTAATTAA
1 TATATTTTAAAATT-TTAATTAA
11659022 TTATCATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 9 0.45
24 7 0.35
25 4 0.20
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (24 bp):
TATATTTTAAAATTTTAATTAAAG
Found at i:11660190 original size:8 final size:7
Alignment explanation
Indices: 11660167--11660196 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
11660157 CAAGAGTTCT
11660167 TTTTCCA
1 TTTTCCA
11660174 TTTTCCA
1 TTTTCCA
11660181 TTTTCTCA
1 TTTTC-CA
11660189 TTTTCCA
1 TTTTCCA
11660196 T
1 T
11660197 GAACACAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.13, C:0.27, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTTCCA
Found at i:11660190 original size:15 final size:14
Alignment explanation
Indices: 11660167--11660196 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
11660157 CAAGAGTTCT
11660167 TTTTCCATTTTCCA
1 TTTTCCATTTTCCA
11660181 TTTTCTCATTTTCCA
1 TTTTC-CATTTTCCA
11660196 T
1 T
11660197 GAACACAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.13, C:0.27, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTCCATTTTCCA
Found at i:11664004 original size:29 final size:29
Alignment explanation
Indices: 11663962--11664029 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
11663952 CAAAGTCAAT
11663962 AGGTTGACTCGGATGAGTTGAATCAGCTC
1 AGGTTGACTCGGATGAGTTGAATCAGCTC
* *
11663991 AGGTTGACTCGGATGAGTTGACTCAGTTC
1 AGGTTGACTCGGATGAGTTGAATCAGCTC
11664020 AGGTTGACTC
1 AGGTTGACTC
11664030 AGTTGGGTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (29 bp):
AGGTTGACTCGGATGAGTTGAATCAGCTC
Found at i:11664012 original size:14 final size:14
Alignment explanation
Indices: 11663964--11664014 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
11663954 AAGTCAATAG
11663964 GTTGACTCGGATGA
1 GTTGACTCGGATGA
* * * *
11663978 GTTGAATCAGCTCA
1 GTTGACTCGGATGA
11663992 GGTTGACTCGGATGA
1 -GTTGACTCGGATGA
11664007 GTTGACTC
1 GTTGACTC
11664015 AGTTCAGGTT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 18 0.64
15 10 0.36
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (14 bp):
GTTGACTCGGATGA
Found at i:11664027 original size:15 final size:15
Alignment explanation
Indices: 11663978--11664033 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
11663968 ACTCGGATGA
* *
11663978 GTTGAATCAGCTCAG
1 GTTGACTCAGTTCAG
* * *
11663993 GTTGACTCGGATGA-
1 GTTGACTCAGTTCAG
11664007 GTTGACTCAGTTCAG
1 GTTGACTCAGTTCAG
11664022 GTTGACTCAGTT
1 GTTGACTCAGTT
11664034 GGGTCAAACA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
14 11 0.33
15 22 0.67
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (15 bp):
GTTGACTCAGTTCAG
Done.