Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 61 of 126
Found at i:17826945 original size:15 final size:15
Alignment explanation
Indices: 17826925--17826963 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
17826915 TGTATTTTAG
17826925 CATATATATTAAAAT
1 CATATATATTAAAAT
*
17826940 CATATATAATAAAAT
1 CATATATATTAAAAT
17826955 -ATTATATAT
1 CA-TATATAT
17826964 GTAACAGCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (15 bp):
CATATATATTAAAAT
Found at i:17828123 original size:41 final size:41
Alignment explanation
Indices: 17828068--17828169 Score: 177
Period size: 41 Copynumber: 2.5 Consensus size: 41
17828058 AACTCAATAT
17828068 TTAAATGGAAGACTCATGTCTCGGGATGAGAATGAGATCATA
1 TTAAA-GGAAGACTCATGTCTCGGGATGAGAATGAGATCATA
*
17828110 TTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTATA
1 TTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATCATA
*
17828151 TTAAAGGAAGATTCATGTC
1 TTAAAGGAAGACTCATGTC
17828170 GCAAAATGAG
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
41 53 0.91
42 5 0.09
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.27
Consensus pattern (41 bp):
TTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATCATA
Found at i:17828306 original size:40 final size:40
Alignment explanation
Indices: 17828204--17828293 Score: 128
Period size: 40 Copynumber: 2.2 Consensus size: 40
17828194 TTGAAAAAGG
* * *
17828204 AGACTTATGACTCGGTAGAGCATAAGAGTGACTTAAAGAA
1 AGACTTATGACACGATAGAGTATAAGAGTGACTTAAAGAA
*
17828244 AGACTTATGACACGATAGAGTATAAGAGTGA-TTAAAAGGA
1 AGACTTATGACACGATAGAGTATAAGAGTGACTT-AAAGAA
17828284 AGACTTATGA
1 AGACTTATGA
17828294 ACATATGAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 2 0.04
40 43 0.96
ACGTcount: A:0.42, C:0.10, G:0.24, T:0.23
Consensus pattern (40 bp):
AGACTTATGACACGATAGAGTATAAGAGTGACTTAAAGAA
Found at i:17828316 original size:40 final size:41
Alignment explanation
Indices: 17828198--17828326 Score: 126
Period size: 40 Copynumber: 3.2 Consensus size: 41
17828188 TTATTTTTGA
* * * *
17828198 AAAAGG-AGACTTATGACTCGGTAGAGCATAAGAGTGACTT
1 AAAAGGAAGACTTATGACACGATAGAGTATAAGAGTGATTT
*
17828238 -AAAGAAAGACTTATGACACGATAGAGTATAAGAGTGA-TT
1 AAAAGGAAGACTTATGACACGATAGAGTATAAGAGTGATTT
*
17828277 AAAAGGAAGACTTATGA-AC-ATATGAAGTATGAA-ATTGATTT
1 AAAAGGAAGACTTATGACACGATA-G-AGTAT-AAGAGTGATTT
*
17828318 AAGAGGAAG
1 AAAAGGAAG
17828327 TATTTACAAC
Statistics
Matches: 76, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
38 3 0.04
39 9 0.12
40 52 0.68
41 12 0.16
ACGTcount: A:0.44, C:0.08, G:0.25, T:0.23
Consensus pattern (41 bp):
AAAAGGAAGACTTATGACACGATAGAGTATAAGAGTGATTT
Found at i:17828980 original size:21 final size:22
Alignment explanation
Indices: 17828956--17829012 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
17828946 CTAGAGTTTT
*
17828956 TAGTATCGGTAGAAG-TATAAC
1 TAGTATCGGTAGAAGCTACAAC
* * *
17828977 TAGTTTCGGTAGATGCTACACC
1 TAGTATCGGTAGAAGCTACAAC
*
17828999 TTGTATCGGTAGAA
1 TAGTATCGGTAGAA
17829013 CTATCGTAAG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (22 bp):
TAGTATCGGTAGAAGCTACAAC
Found at i:17835301 original size:41 final size:41
Alignment explanation
Indices: 17835190--17835290 Score: 132
Period size: 41 Copynumber: 2.4 Consensus size: 41
17835180 AACTCGATAT
*
17835190 TTAAATGGAAGACTCATGTCTCGAGATGAAAATGAAATCATA
1 TTAAA-GGAAGACTCATGTCTCGAGATGAGAATGAAATCATA
* * * *
17835232 TTAAAGGAAAACTCATATCTCGGGATGAGAAT-AAGATTATA
1 TTAAAGGAAGACTCATGTCTCGAGATGAGAATGAA-ATCATA
17835273 TTAAAGGAAGACTCATGT
1 TTAAAGGAAGACTCATGT
17835291 TTCAAAATGA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 2 0.04
41 44 0.86
42 5 0.10
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.27
Consensus pattern (41 bp):
TTAAAGGAAGACTCATGTCTCGAGATGAGAATGAAATCATA
Found at i:17835384 original size:40 final size:40
Alignment explanation
Indices: 17835320--17835414 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
17835310 TTGTTTTCAA
* * *
17835320 AAAAGGAAGAC--ATGTCTCGGTAGAGCATAAGAGTGGTT
1 AAAAGGAAGACTTATGACTCGATAGAGCATAAGAGTGATT
* *
17835358 TAAAGTAAGACTTATGACTCGATAGAGCATAAGAGTGATT
1 AAAAGGAAGACTTATGACTCGATAGAGCATAAGAGTGATT
17835398 AAAAGGAAGACTTATGA
1 AAAAGGAAGACTTATGA
17835415 AACTATGAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 9 0.19
40 39 0.81
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.23
Consensus pattern (40 bp):
AAAAGGAAGACTTATGACTCGATAGAGCATAAGAGTGATT
Found at i:17839182 original size:26 final size:25
Alignment explanation
Indices: 17839095--17839183 Score: 81
Period size: 26 Copynumber: 3.4 Consensus size: 25
17839085 TATTTTTATT
*
17839095 TTTATTAAATTGTATTTAATAATAA
1 TTTATTAAATTATATTTAATAATAA
* ** * *
17839120 TTATATTAAAATATGCTTAA-ATTATT
1 TT-TATTAAATTATATTTAATAATA-A
17839146 TATTATTAAATTATATTTAATAATAA
1 T-TTATTAAATTATATTTAATAATAA
17839172 TCTTATTAAATT
1 T-TTATTAAATT
17839184 TAATAAAAAT
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
25 5 0.10
26 39 0.81
27 4 0.08
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
TTTATTAAATTATATTTAATAATAA
Found at i:17839853 original size:51 final size:51
Alignment explanation
Indices: 17839796--17839956 Score: 218
Period size: 51 Copynumber: 3.2 Consensus size: 51
17839786 GACACTGCAA
*
17839796 AAAAAAAACCAAAATTTTTAATTTGGGTGCTGCCAATGTTAACGACACCGC
1 AAAAAAAATCAAAATTTTTAATTTGGGTGCTGCCAATGTTAACGACACCGC
** *
17839847 AAAAAAAATCAAAATTTTTAATTTGGGTTTTGCCAATGTCAACGACACCGC
1 AAAAAAAATCAAAATTTTTAATTTGGGTGCTGCCAATGTTAACGACACCGC
* * * *
17839898 AAAAAAAATCAAAATTTTTTAATTT-GGTGCCGACAATGTCT-ACGGCACCAC
1 AAAAAAAATCAAAA-TTTTTAATTTGGGTGCTGCCAATGT-TAACGACACCGC
17839949 AAAAAAAA
1 AAAAAAAA
17839957 ATAAATTTTT
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
51 87 0.90
52 10 0.10
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (51 bp):
AAAAAAAATCAAAATTTTTAATTTGGGTGCTGCCAATGTTAACGACACCGC
Found at i:17841776 original size:17 final size:18
Alignment explanation
Indices: 17841754--17841793 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
17841744 CTGGCTTTTT
17841754 GAAGATGGAAAG-AAGAA
1 GAAGATGGAAAGAAAGAA
17841771 GAAGATGGAAAGAAAGAA
1 GAAGATGGAAAGAAAGAA
17841789 GAAGA
1 GAAGA
17841794 AAAGAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.60, C:0.00, G:0.35, T:0.05
Consensus pattern (18 bp):
GAAGATGGAAAGAAAGAA
Found at i:17841789 original size:15 final size:15
Alignment explanation
Indices: 17841754--17841803 Score: 64
Period size: 15 Copynumber: 3.2 Consensus size: 15
17841744 CTGGCTTTTT
17841754 GAAGATGGAAAGAAGAA
1 GAAGATGGAAAG-A-AA
17841771 GAAGATGGAAAGAAA
1 GAAGATGGAAAGAAA
* *
17841786 GAAGAAGAAAAGAAA
1 GAAGATGGAAAGAAA
17841801 GAA
1 GAA
17841804 CCGGGCTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 18 0.58
16 1 0.03
17 12 0.39
ACGTcount: A:0.64, C:0.00, G:0.32, T:0.04
Consensus pattern (15 bp):
GAAGATGGAAAGAAA
Found at i:17842769 original size:15 final size:15
Alignment explanation
Indices: 17842746--17842801 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
17842736 AATTTATTTT
*
17842746 ATGTATATATTTTAC
1 ATGTTTATATTTTAC
*
17842761 ATGTTTATATATT-C
1 ATGTTTATATTTTAC
*
17842775 ATATTATATTCATTTTAC
1 ATGTT-TA-T-ATTTTAC
17842793 ATGTTTATA
1 ATGTTTATA
17842802 AATTCATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
14 5 0.16
15 14 0.44
16 2 0.06
17 6 0.19
18 5 0.16
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.55
Consensus pattern (15 bp):
ATGTTTATATTTTAC
Found at i:17842817 original size:31 final size:32
Alignment explanation
Indices: 17842754--17842823 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
17842744 TTATGTATAT
*
17842754 ATTTTACATGTTTATATATTCATATTATATTC
1 ATTTTACATGTTTATAAATTCATATTATATTC
17842786 ATTTTACATGTTTATAAATTCATA-TATATTC
1 ATTTTACATGTTTATAAATTCATATTATATTC
17842817 ATTTTAC
1 ATTTTAC
17842824 TTTTTGTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 14 0.38
32 23 0.62
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (32 bp):
ATTTTACATGTTTATAAATTCATATTATATTC
Found at i:17844824 original size:13 final size:13
Alignment explanation
Indices: 17844808--17844834 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17844798 TTGCGAGCTC
17844808 GTGGTGCTAGAAG
1 GTGGTGCTAGAAG
17844821 GTGGTGCTAGAAG
1 GTGGTGCTAGAAG
17844834 G
1 G
17844835 AGGGCTCGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.22
Consensus pattern (13 bp):
GTGGTGCTAGAAG
Found at i:17848037 original size:16 final size:18
Alignment explanation
Indices: 17848005--17848044 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
17847995 TGGTGAGATG
17848005 CTGTTTTGGACTTGTGTA
1 CTGTTTTGGACTTGTGTA
*
17848023 -TGTTTT-GATTTGTGTA
1 CTGTTTTGGACTTGTGTA
17848039 CTGTTT
1 CTGTTT
17848045 GCTGTAGTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.10, C:0.07, G:0.25, T:0.57
Consensus pattern (18 bp):
CTGTTTTGGACTTGTGTA
Found at i:17852241 original size:25 final size:24
Alignment explanation
Indices: 17852184--17852242 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
17852174 AAAAGTAGGT
* *
17852184 TATA-TATTATTTTTCTAATATTA
1 TATATTATAATTTTTCTAATATCA
17852207 TATATTATAATTTTTACTAAT-TCA
1 TATATTATAATTTTT-CTAATATCA
*
17852231 TATTTTAATAAT
1 TATATT-ATAAT
17852243 AATTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 4 0.13
24 16 0.53
25 10 0.33
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATTATAATTTTTCTAATATCA
Found at i:17852311 original size:57 final size:57
Alignment explanation
Indices: 17852210--17852376 Score: 182
Period size: 58 Copynumber: 2.9 Consensus size: 57
17852200 AATATTATAT
* * *
17852210 ATTATAATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAA-A-CATT-ATTA
1 ATTATTATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAATATAATTAATTA
* *
17852265 ATTATATAGTATTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATAATTAAATTA
1 ATTAT-TA-T-TTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATT-AATTA
*
17852326 ATTATTATTTTTATTAAATTATATTTAATAATAATCT-TATTAAAATTTAAT
1 ATTATTATTTTTATTAAATTATATTTAATAATAAT-TATATTAAAATATAAT
17852377 AACAATAATC
Statistics
Matches: 95, Mismatches: 8, Indels: 15
0.81 0.07 0.13
Matches are distributed among these distances:
55 5 0.05
56 1 0.01
57 22 0.23
58 47 0.49
59 9 0.09
60 2 0.02
61 9 0.09
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (57 bp):
ATTATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAATTA
Found at i:17852883 original size:18 final size:19
Alignment explanation
Indices: 17852846--17852894 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
17852836 AAGTTTATAA
* *
17852846 TATTATATATTATGTTATT
1 TATTATATATTATATAATT
17852865 T-TTATATATTATATAATT
1 TATTATATATTATATAATT
*
17852883 TATTATACATTA
1 TATTATATATTA
17852895 AAAAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
TATTATATATTATATAATT
Found at i:17852888 original size:25 final size:26
Alignment explanation
Indices: 17852839--17852888 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
17852829 CCGTTTTAAG
*
17852839 TTTATAATATTATATATTATGTTATT
1 TTTATAATATTATATATTATATTATT
17852865 TTTAT-ATATTATATAATT-TATTAT
1 TTTATAATATTATAT-ATTATATTAT
17852889 ACATTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTATAATATTATATATTATATTATT
Found at i:17853250 original size:16 final size:16
Alignment explanation
Indices: 17853229--17853300 Score: 81
Period size: 16 Copynumber: 4.5 Consensus size: 16
17853219 CGTTTGGTTC
17853229 GTTGTAATGGAATAGA
1 GTTGTAATGGAATAGA
* *
17853245 GTTGTAATGAAATAAA
1 GTTGTAATGGAATAGA
* * *
17853261 GCTATAATGGAATAGG
1 GTTGTAATGGAATAGA
*
17853277 GTTGTAATAGAATAGA
1 GTTGTAATGGAATAGA
*
17853293 ATTGTAAT
1 GTTGTAAT
17853301 CAGTAATTCA
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.42, C:0.01, G:0.25, T:0.32
Consensus pattern (16 bp):
GTTGTAATGGAATAGA
Found at i:17853530 original size:16 final size:16
Alignment explanation
Indices: 17853506--17853619 Score: 61
Period size: 16 Copynumber: 7.8 Consensus size: 16
17853496 AAATAATAAA
*
17853506 TAATTTAATTATATTT
1 TAATATAATTATATTT
*
17853522 TAATATAATTAT-TAT
1 TAATATAATTATATTT
17853537 TAA-AT-A-TA-A-TT
1 TAATATAATTATATTT
* *
17853548 TAATAAAATAATATATT
1 TAATATAATTATAT-TT
*
17853565 T-A-ATAA-CAT-TTT
1 TAATATAATTATATTT
*
17853577 TAATATAATTAT-TGT
1 TAATATAATTATATTT
* * *
17853592 TATTATTATTAAATTT
1 TAATATAATTATATTT
17853608 TAATATAATTAT
1 TAATATAATTAT
17853620 TACTAAATAT
Statistics
Matches: 71, Mismatches: 16, Indels: 22
0.65 0.15 0.20
Matches are distributed among these distances:
11 4 0.06
12 6 0.08
13 4 0.06
14 9 0.13
15 22 0.31
16 23 0.32
17 3 0.04
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.53
Consensus pattern (16 bp):
TAATATAATTATATTT
Found at i:17854608 original size:21 final size:21
Alignment explanation
Indices: 17854584--17854649 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
17854574 ATAAATAGTC
17854584 TAAAATTTGGTACCAACATAA
1 TAAAATTTGGTACCAACATAA
* *
17854605 TAAAATTAT-GTA--AAGAGT-C
1 TAAAATT-TGGTACCAACA-TAA
*
17854624 TGAAATTTGGTACCAACATAA
1 TAAAATTTGGTACCAACATAA
17854645 TAAAA
1 TAAAA
17854650 CTATATAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 12
0.65 0.12 0.24
Matches are distributed among these distances:
18 1 0.03
19 12 0.36
20 2 0.06
21 17 0.52
22 1 0.03
ACGTcount: A:0.48, C:0.11, G:0.12, T:0.29
Consensus pattern (21 bp):
TAAAATTTGGTACCAACATAA
Found at i:17854635 original size:40 final size:39
Alignment explanation
Indices: 17854570--17854672 Score: 143
Period size: 40 Copynumber: 2.5 Consensus size: 39
17854560 ACTGCAACAT
*
17854570 TTATATAAATAGTCTAAAATTTGGTACCAACATAATAAAA
1 TTATATAAA-AGTCTGAAATTTGGTACCAACATAATAAAA
*
17854610 TTATGTAAAGAGTCTGAAATTTGGTACCAACATAATAAAA
1 TTATATAAA-AGTCTGAAATTTGGTACCAACATAATAAAA
*
17854650 CTATATAAAATCGTCTGAAATTT
1 TTATATAAAA--GTCTGAAATTT
17854673 TTATTTTTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
39 1 0.02
40 44 0.79
41 11 0.20
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (39 bp):
TTATATAAAAGTCTGAAATTTGGTACCAACATAATAAAA
Found at i:17857099 original size:21 final size:21
Alignment explanation
Indices: 17857075--17857115 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17857065 CAAATAAAAG
17857075 GAAAAAGAACCTAAAAATGGT
1 GAAAAAGAACCTAAAAATGGT
* *
17857096 GAAAAGGAACTTAAAAATGG
1 GAAAAAGAACCTAAAAATGG
17857116 ACAAATCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.15
Consensus pattern (21 bp):
GAAAAAGAACCTAAAAATGGT
Found at i:17866670 original size:659 final size:659
Alignment explanation
Indices: 17865412--17866730 Score: 2516
Period size: 659 Copynumber: 2.0 Consensus size: 659
17865402 GGATTACAGA
17865412 CCCTTGGTTAATTGCTGATGATCGTCATGGTGGTCAAGAAAAGCGAGCTACGGTATGCAACACAT
1 CCCTTGGTTAATTGCTGATGATCGTCATGGTGGTCAAGAAAAGCGAGCTACGGTATGCAACACAT
17865477 TCAGCTCTTTTGTGTTTGTCATAATATTACTGATTTAGGGTTTGTGGGTCCAAAGTTTACATGGT
66 TCAGCTCTTTTGTGTTTGTCATAATATTACTGATTTAGGGTTTGTGGGTCCAAAGTTTACATGGT
*
17865542 AAAGGGGCACTCTTCTTTAACGTCTTGATCGAGCTTTGGGTAACGACCTTTGGCAAGTAGCAGCC
131 AAAGGCGCACTCTTCTTTAACGTCTTGATCGAGCTTTGGGTAACGACCTTTGGCAAGTAGCAGCC
*
17865607 TCACATGTGGTGGTTTGTCATCTTCATAAACTGAAATCAGATCCTCGTCCGAATTTGGTGACTAC
196 TCACATGTGGTGGTTTGTCATCTTCATAAACTGAAATCAGATCATCGTCCGAATTTGGTGACTAC
*
17865672 TTATAAGGTTACGAATGGTCGAGAAGAACGTCCTTTTCGGTTCCTGGCTAGTTGGTTGACTCATG
261 TTATAAGGTTACGAATGGTCGAGAAGAACGACCTTTTCGGTTCCTGGCTAGTTGGTTGACTCATG
17865737 CTAAATTCAAAGATGTGGTTCGTCAATCCTTGAGTAATAGTAGATCGGTGTCAGGTAATGTGGAT
326 CTAAATTCAAAGATGTGGTTCGTCAATCCTTGAGTAATAGTAGATCGGTGTCAGGTAATGTGGAT
*
17865802 CATTTTACTACACTGGTTAAGAATTAGAATGCTATTGTCTTTGGAAATATTTTCTATCGTAAGCG
391 CATTTTACTACACTGGTTAAGAATTAGAATGCTATTGTCTATGGAAATATTTTCTATCGTAAGCG
* * *
17865867 CAAGACTATTCGTGAGCTTGATAAATTCAGCGGATTTTGGAAGTGAGGAATTCTTTGAAACTTAG
456 CAAGACTATTCGTGAGCTCGATAAATTCAGCGGAATTTGGAAGTGAAGAATTCTTTGAAACTTAG
17865932 ACAGAGGGACTATGAATTACGAGTTGAACTGGAGAAGATCTTGGAATAGAAGGAACTTCTTTGGT
521 ACAGAGGGACTATGAATTACGAGTTGAACTGGAGAAGATCTTGGAATAGAAGGAACTTCTTTGGT
17865997 TTCAAAAAGTGAGATGTTAGTGGCTTGTAGAGGGTGATCAAAATACTAAGTTCTTTCATCGAAGA
586 TTCAAAAAGTGAGATGTTAGTGGCTTGTAGAGGGTGATCAAAATACTAAGTTCTTTCATCGAAGA
17866062 ACTTTAAGC
651 ACTTTAAGC
17866071 CCCTTGGTTAATTGCTGATGATCGTCATGGTGGTCAAGAAAAGCGAGCTACGGTATGCAACACAT
1 CCCTTGGTTAATTGCTGATGATCGTCATGGTGGTCAAGAAAAGCGAGCTACGGTATGCAACACAT
17866136 TCAGCTCTTTTGTGTTTTGTCATAATATTACTGATTTAGGGTTTGTGGGTCCAAAGTTTACATGG
66 TCAGCTCTTTTGTG-TTTGTCATAATATTACTGATTTAGGGTTTGTGGGTCCAAAGTTTACATGG
*
17866201 TAAAGGCGCACTCTTCTTTAACGTCTTGATCGAGCTTTGGGTAACGATCTTTGGCAAGTAGCAGC
130 TAAAGGCGCACTCTTCTTTAACGTCTTGATCGAGCTTTGGGTAACGACCTTTGGCAAGTAGCAGC
*
17866266 CTCACATGTGGTGGTTTGTCATCTTCATAAACTGAAATCAGATCATCGTCGGAATTTGGTGACTA
195 CTCACATGTGGTGGTTTGTCATCTTCATAAACTGAAATCAGATCATCGTCCGAATTTGGTGACTA
17866331 CTTATAAGGTTACGAATGGTCGAGAAGAACGACCTTTTCGGTTCCTGGCTAGTTGGTTGACTCAT
260 CTTATAAGGTTACGAATGGTCGAGAAGAACGACCTTTTCGGTTCCTGGCTAGTTGGTTGACTCAT
*
17866396 GCTGAATTCAAAGATGT-GTTCGTCAATCCTTGAGTAATAGTAGATCGGTGTCAGGTAATGTGGA
325 GCTAAATTCAAAGATGTGGTTCGTCAATCCTTGAGTAATAGTAGATCGGTGTCAGGTAATGTGGA
17866460 TCATTTTACTACACTGGTTAAGAATTAGAATGCTATTGTCTATGGAAATATTTTCTATCGTAAGC
390 TCATTTTACTACACTGGTTAAGAATTAGAATGCTATTGTCTATGGAAATATTTTCTATCGTAAGC
17866525 GCAAGACTATTCGTGAGCTCGATAAAATTCAGC-GAATTTGGAAGTGAAGAATTCTTTGAAACTT
455 GCAAGACTATTCGTGAGCTCGAT-AAATTCAGCGGAATTTGGAAGTGAAGAATTCTTTGAAACTT
17866589 AGACAGAGGGACTATGAATTACGAGTTGAACTGGAGAAGATCTTGGAATAGAAGGAACTTCTTTG
519 AGACAGAGGGACTATGAATTACGAGTTGAACTGGAGAAGATCTTGGAATAGAAGGAACTTCTTTG
17866654 GTTTCAAAAAGTGAGATGTTAGTGGCTTGTAGAGGGTGATCAAAATACTAAGTTCTTTCATCGAA
584 GTTTCAAAAAGTGAGATGTTAGTGGCTTGTAGAGGGTGATCAAAATACTAAGTTCTTTCATCGAA
17866719 GAACTTTAAGC
649 GAACTTTAAGC
17866730 C
1 C
17866731 GACGTAGACG
Statistics
Matches: 648, Mismatches: 10, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
659 383 0.59
660 265 0.41
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (659 bp):
CCCTTGGTTAATTGCTGATGATCGTCATGGTGGTCAAGAAAAGCGAGCTACGGTATGCAACACAT
TCAGCTCTTTTGTGTTTGTCATAATATTACTGATTTAGGGTTTGTGGGTCCAAAGTTTACATGGT
AAAGGCGCACTCTTCTTTAACGTCTTGATCGAGCTTTGGGTAACGACCTTTGGCAAGTAGCAGCC
TCACATGTGGTGGTTTGTCATCTTCATAAACTGAAATCAGATCATCGTCCGAATTTGGTGACTAC
TTATAAGGTTACGAATGGTCGAGAAGAACGACCTTTTCGGTTCCTGGCTAGTTGGTTGACTCATG
CTAAATTCAAAGATGTGGTTCGTCAATCCTTGAGTAATAGTAGATCGGTGTCAGGTAATGTGGAT
CATTTTACTACACTGGTTAAGAATTAGAATGCTATTGTCTATGGAAATATTTTCTATCGTAAGCG
CAAGACTATTCGTGAGCTCGATAAATTCAGCGGAATTTGGAAGTGAAGAATTCTTTGAAACTTAG
ACAGAGGGACTATGAATTACGAGTTGAACTGGAGAAGATCTTGGAATAGAAGGAACTTCTTTGGT
TTCAAAAAGTGAGATGTTAGTGGCTTGTAGAGGGTGATCAAAATACTAAGTTCTTTCATCGAAGA
ACTTTAAGC
Found at i:17873160 original size:30 final size:29
Alignment explanation
Indices: 17873112--17873197 Score: 91
Period size: 30 Copynumber: 2.9 Consensus size: 29
17873102 TTCATCCTTT
* *
17873112 CCCAGGTCAGTCATCTAGTGTTGAGCATC
1 CCCAAGTCAGTCACCTAGTGTTGAGCATC
* * * *
17873141 CTTCGAGTCAGTTACCTAGTGTTGAGTCTTC
1 C-CCAAGTCAGTCACCTAGTGTTGAG-CATC
*
17873172 CCCAAGTCAGTCACCTACTGTTGAGC
1 CCCAAGTCAGTCACCTAGTGTTGAGC
17873198 CTTTTTTGAG
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
29 2 0.04
30 39 0.87
31 4 0.09
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.30
Consensus pattern (29 bp):
CCCAAGTCAGTCACCTAGTGTTGAGCATC
Found at i:17879834 original size:22 final size:22
Alignment explanation
Indices: 17879804--17879845 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
17879794 CATAATCAAA
*
17879804 CCACTGTGAGCCATCACCATAG
1 CCACCGTGAGCCATCACCATAG
*
17879826 CCACCGTGAGCCGTCACCAT
1 CCACCGTGAGCCATCACCAT
17879846 CGCTGTAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.24, C:0.40, G:0.19, T:0.17
Consensus pattern (22 bp):
CCACCGTGAGCCATCACCATAG
Found at i:17881490 original size:19 final size:19
Alignment explanation
Indices: 17881453--17881540 Score: 103
Period size: 19 Copynumber: 4.8 Consensus size: 19
17881443 GAGATATGAA
*
17881453 AATATGTGAAATT--TGTG
1 AATATGTGACATTGATGTG
* *
17881470 AACATGTGACATTGATTTG
1 AATATGTGACATTGATGTG
*
17881489 AATATGTGAAATTGATGTG
1 AATATGTGACATTGATGTG
*
17881508 AATA--TGAGATTGATGTG
1 AATATGTGACATTGATGTG
17881525 AATATGTGACATTGAT
1 AATATGTGACATTGAT
17881541 ATGTGAAATT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
17 27 0.46
19 32 0.54
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (19 bp):
AATATGTGACATTGATGTG
Found at i:17881521 original size:17 final size:17
Alignment explanation
Indices: 17881480--17881530 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
17881470 AACATGTGAC
*
17881480 ATTGATTTGAATATGTGAA
1 ATTGATGTGAATA--TGAA
*
17881499 ATTGATGTGAATATGAG
1 ATTGATGTGAATATGAA
17881516 ATTGATGTGAATATG
1 ATTGATGTGAATATG
17881531 TGACATTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 18 0.60
19 12 0.40
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.39
Consensus pattern (17 bp):
ATTGATGTGAATATGAA
Found at i:17881632 original size:19 final size:19
Alignment explanation
Indices: 17881608--17881729 Score: 165
Period size: 19 Copynumber: 6.5 Consensus size: 19
17881598 ATGTGGAATT
* *
17881608 TGTGAACATGTGACATTAA
1 TGTGAATATGTGACATTGA
* *
17881627 TTTGAA-ATGTGAAATTGA
1 TGTGAATATGTGACATTGA
* *
17881645 TGTGAATAAGAGACATTGA
1 TGTGAATATGTGACATTGA
*
17881664 TGTGAATATGAGACATTGA
1 TGTGAATATGTGACATTGA
*
17881683 TGTGAATATGTGAAATTGA
1 TGTGAATATGTGACATTGA
17881702 TGTGAATATGTGACATTGA
1 TGTGAATATGTGACATTGA
17881721 TGTGAATAT
1 TGTGAATAT
17881730 CAAATGTGTT
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
18 15 0.16
19 76 0.84
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (19 bp):
TGTGAATATGTGACATTGA
Found at i:17887334 original size:22 final size:22
Alignment explanation
Indices: 17887297--17887383 Score: 84
Period size: 23 Copynumber: 3.9 Consensus size: 22
17887287 AGAAAAAAAA
* *
17887297 ATGAATAGTGAGATTCTCTAGC
1 ATGAACAGTGATATTCTCTAGC
* *
17887319 ATGAACAATGATATTCTCTAAC
1 ATGAACAGTGATATTCTCTAGC
* * *
17887341 ATGAATAGTAAATATTCTCTGGC
1 ATGAACAGT-GATATTCTCTAGC
*
17887364 ATAAACAGTGAATATTCTCT
1 ATGAACAGTG-ATATTCTCT
17887384 TGTAATTTGT
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
22 25 0.49
23 26 0.51
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (22 bp):
ATGAACAGTGATATTCTCTAGC
Found at i:17897574 original size:16 final size:16
Alignment explanation
Indices: 17897549--17897587 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
17897539 CTCAAAATAT
*
17897549 ATTTTAAGCATATTTG
1 ATTTTGAGCATATTTG
17897565 ATTTTGAGCATATTTG
1 ATTTTGAGCATATTTG
17897581 ATTTTGA
1 ATTTTGA
17897588 CATTGAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.51
Consensus pattern (16 bp):
ATTTTGAGCATATTTG
Found at i:17899196 original size:22 final size:22
Alignment explanation
Indices: 17899168--17899254 Score: 84
Period size: 22 Copynumber: 3.9 Consensus size: 22
17899158 AAAAAACAAA
*
17899168 ATGAACAGTGAGATTCTCTAGC
1 ATGAACAGTGATATTCTCTAGC
* * *
17899190 ATGAACATTGATATTTTCTGGC
1 ATGAACAGTGATATTCTCTAGC
* *
17899212 ATGAATAGTAAATATTCTCTAGC
1 ATGAACAGT-GATATTCTCTAGC
* *
17899235 ATAAACAATGAATATTCTCT
1 ATGAACAGTG-ATATTCTCT
17899255 TGTAATTTGT
Statistics
Matches: 50, Mismatches: 13, Indels: 3
0.76 0.20 0.05
Matches are distributed among these distances:
22 25 0.50
23 25 0.50
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (22 bp):
ATGAACAGTGATATTCTCTAGC
Found at i:17899236 original size:23 final size:22
Alignment explanation
Indices: 17899180--17899254 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 22
17899170 GAACAGTGAG
**
17899180 ATTCTCTAGCATGAACATTGAT
1 ATTCTCTAGCATGAACATAAAT
* * *
17899202 ATTTTCTGGCATGAATAGTAAAT
1 ATTCTCTAGCATGAACA-TAAAT
* *
17899225 ATTCTCTAGCATAAACAATGAAT
1 ATTCTCTAGCATGAAC-ATAAAT
17899248 ATTCTCT
1 ATTCTCT
17899255 TGTAATTTGT
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
22 14 0.34
23 26 0.63
24 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (22 bp):
ATTCTCTAGCATGAACATAAAT
Found at i:17899546 original size:92 final size:92
Alignment explanation
Indices: 17899424--17899593 Score: 270
Period size: 92 Copynumber: 1.8 Consensus size: 92
17899414 CAATCACCTG
** **
17899424 ATACATATATCTAAAATTGTTTCACCAAAATCTTTTATCTTTATTTTTCAAATTTTTAAGTTTTC
1 ATACATATATCTAAAATTGTTTCACCAAAATCTGCTATCTTTATTTTTCAAAAATTTAAGTTTTC
17899489 AAAACAAAATAAAACTTCAAACACCCA
66 AAAACAAAATAAAACTTCAAACACCCA
* *
17899516 ATACATATATC-AAAATTTGTTTCTCCAAAATCTGCTATCTTTGTTTTTCAAAAATTTAAGTTTT
1 ATACATATATCTAAAA-TTGTTTCACCAAAATCTGCTATCTTTATTTTTCAAAAATTTAAGTTTT
17899580 CAAAACAAAATAAA
65 CAAAACAAAATAAA
17899594 TTTAACTTTA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
91 4 0.06
92 67 0.94
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.39
Consensus pattern (92 bp):
ATACATATATCTAAAATTGTTTCACCAAAATCTGCTATCTTTATTTTTCAAAAATTTAAGTTTTC
AAAACAAAATAAAACTTCAAACACCCA
Found at i:17903234 original size:18 final size:18
Alignment explanation
Indices: 17903213--17903253 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
17903203 CAAAAATTTA
17903213 AAAGTCTT-AAAATAAATC
1 AAAGTCTTGAAAA-AAATC
*
17903231 AAAGTCTTGAAAAAAATT
1 AAAGTCTTGAAAAAAATC
17903249 AAAGT
1 AAAGT
17903254 TCAATTGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.56, C:0.07, G:0.10, T:0.27
Consensus pattern (18 bp):
AAAGTCTTGAAAAAAATC
Found at i:17905295 original size:18 final size:18
Alignment explanation
Indices: 17905274--17905308 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17905264 ATTTTACCAA
*
17905274 AAATGAGTAGATTGTGTT
1 AAATGAATAGATTGTGTT
*
17905292 AAATGAATTGATTGTGT
1 AAATGAATAGATTGTGT
17905309 GATTTAATGT
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:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (18 bp):
AAATGAATAGATTGTGTT
Found at i:17909120 original size:17 final size:17
Alignment explanation
Indices: 17909098--17909130 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
17909088 TTTAGGATAT
17909098 TATTTATATTTA-ATTTG
1 TATTTA-ATTTAGATTTG
17909115 TATTTAATTTAGATTT
1 TATTTAATTTAGATTT
17909131 ATCTTTTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TATTTAATTTAGATTTG
Found at i:17911448 original size:17 final size:17
Alignment explanation
Indices: 17911426--17911465 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
17911416 TGTAGAAGGC
17911426 ATAAAATA-TAAGATAAA
1 ATAAAATAGTAA-ATAAA
17911443 ATAAAATAGTAAATAAA
1 ATAAAATAGTAAATAAA
*
17911460 AGAAAA
1 ATAAAA
17911466 AGCTTGAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (17 bp):
ATAAAATAGTAAATAAA
Found at i:17917320 original size:31 final size:31
Alignment explanation
Indices: 17917285--17917362 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
17917275 TAATACTATT
17917285 TTTGGCCCTTGTACTAGAGTAAAATTTTTAC
1 TTTGGCCCTTGTACTAGAGTAAAATTTTTAC
* *
17917316 TTTGGCCCTGGTACTAGAGTGAAATTTTTAC
1 TTTGGCCCTTGTACTAGAGTAAAATTTTTAC
*
17917347 TTTGGCCTTTGTACTA
1 TTTGGCCCTTGTACTA
17917363 TTTTTTCGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (31 bp):
TTTGGCCCTTGTACTAGAGTAAAATTTTTAC
Found at i:17917594 original size:22 final size:20
Alignment explanation
Indices: 17917569--17917609 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
17917559 AAAAATTATC
17917569 TATTTTTCAAAATTATAAAAAA
1 TATTTTT-AAAA-TATAAAAAA
*
17917591 TATTTTTTAAATATAAAAA
1 TATTTTTAAAATATAAAAA
17917610 CTAAAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 7 0.39
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TATTTTTAAAATATAAAAAA
Found at i:17918456 original size:19 final size:20
Alignment explanation
Indices: 17918424--17918462 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
17918414 CAAAAATACC
*
17918424 ATAAAATTATTAAAATTTTA
1 ATAAAATTACTAAAATTTTA
17918444 ATAAAATT-CTAAAATTTTA
1 ATAAAATTACTAAAATTTTA
17918463 TACAAACCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAAAATTACTAAAATTTTA
Found at i:17918474 original size:19 final size:19
Alignment explanation
Indices: 17918434--17918478 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
17918424 ATAAAATTAT
**
17918434 TAAAATTTTAATAAAATTC
1 TAAAATTTTAATAAAACCC
17918453 TAAAATTTT-ATACAAACCC
1 TAAAATTTTAATA-AAACCC
17918472 TAAAATT
1 TAAAATT
17918479 CCAAAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 3 0.13
19 20 0.87
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (19 bp):
TAAAATTTTAATAAAACCC
Found at i:17920696 original size:59 final size:59
Alignment explanation
Indices: 17920633--17920891 Score: 274
Period size: 59 Copynumber: 4.4 Consensus size: 59
17920623 AAAATCGGGA
* * * * *
17920633 TCAAAAATGAAATTTTTTGATA-TTCGGGGGTAAAAATGTAATTTTTGCAAGTTTCAAGG
1 TCAAAAATGGAATTTTTGGA-AGTTCGGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGG
* **
17920692 TCAAAAATGGAATTTTTGGAATTTCGGGGGTAAAAACATAATTTTTGGAAGTTTTAGGG
1 TCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGG
* **
17920751 T-TAAAATGGAATTTTTGGAAGTTTAGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGG
1 TCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGG
* ** * * * * **
17920809 TC-AAAATGGAATATTTGGAAGTTTTGAGGTAAAAAATGGAATATTTAGAAGTTCGAGGG
1 TCAAAAATGGAATTTTTGGAAGTTCGGGGGT-AAAAATGTAATTTTTGGAAGTTTTAGGG
*
17920868 T-AAAAATGTAATTTTTGGATAGTT
1 TCAAAAATGGAATTTTTGGA-AGTT
17920892 TAGCGACCTC
Statistics
Matches: 172, Mismatches: 23, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
58 78 0.45
59 90 0.52
60 4 0.02
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (59 bp):
TCAAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGG
Found at i:17920700 original size:30 final size:29
Alignment explanation
Indices: 17920660--17920892 Score: 222
Period size: 29 Copynumber: 7.9 Consensus size: 29
17920650 TGATATTCGG
* *
17920660 GGGTAAAAATGTAATTTTTGCAAGTTTCA
1 GGGTAAAAATGGAATTTTTGGAAGTTTCA
* *
17920689 AGGTCAAAAATGGAATTTTTGGAA-TTTCGG
1 GGGT-AAAAATGGAATTTTTGGAAGTTTC-A
*** *
17920719 GGGTAAAAACATAATTTTTGGAAGTTTTA
1 GGGTAAAAATGGAATTTTTGGAAGTTTCA
*
17920748 GGGTTAAAATGGAATTTTTGGAAGTTT-A
1 GGGTAAAAATGGAATTTTTGGAAGTTTCA
* *
17920776 GGGGTAAAAATGTAATTTTTGGAAGTTTTA
1 -GGGTAAAAATGGAATTTTTGGAAGTTTCA
* * *
17920806 GGGTCAAAATGGAATATTTGGAAGTTT-T
1 GGGTAAAAATGGAATTTTTGGAAGTTTCA
* *
17920834 GAGGTAAAAAATGGAATATTTAGAAG-TTCGA
1 G-GGT-AAAAATGGAATTTTTGGAAGTTTC-A
*
17920865 GGGTAAAAATGTAATTTTTGGATAGTTT
1 GGGTAAAAATGGAATTTTTGGA-AGTTT
17920893 AGCGACCTCT
Statistics
Matches: 167, Mismatches: 26, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
28 2 0.01
29 115 0.69
30 47 0.28
31 3 0.02
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.36
Consensus pattern (29 bp):
GGGTAAAAATGGAATTTTTGGAAGTTTCA
Found at i:17920764 original size:58 final size:58
Alignment explanation
Indices: 17920635--17920892 Score: 261
Period size: 58 Copynumber: 4.4 Consensus size: 58
17920625 AATCGGGATC
* * * * * * *
17920635 AAAAATGAAATTTTTTGATA-TTCGGGGGTAAAAATGTAATTTTTGCAAGTTTCAAGGT
1 AAAAATGGAATTTTTGGA-AGTTTGGGGGTAAAAATATAATTTTTGGAAGTTTTAGGGT
*
17920693 CAAAAATGGAATTTTTGGAA-TTTCGGGGGTAAAAACATAATTTTTGGAAGTTTTAGGGT
1 -AAAAATGGAATTTTTGGAAGTTT-GGGGGTAAAAATATAATTTTTGGAAGTTTTAGGGT
* * *
17920752 TAAAATGGAATTTTTGGAAGTTTAGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGGT
1 AAAAATGGAATTTTTGGAAGTTTGGGGGTAAAAATATAATTTTTGGAAGTTTTAGGGT
* * * * * * **
17920810 CAAAATGGAATATTTGGAAGTTTTGAGGTAAAAA-ATGGAATATTTAGAAGTTCGAGGGT
1 AAAAATGGAATTTTTGGAAGTTTGGGGGTAAAAATAT--AATTTTTGGAAGTTTTAGGGT
*
17920869 AAAAATGTAATTTTTGGATAGTTT
1 AAAAATGGAATTTTTGGA-AGTTT
17920893 AGCGACCTCT
Statistics
Matches: 170, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
57 1 0.01
58 83 0.49
59 81 0.48
60 5 0.03
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (58 bp):
AAAAATGGAATTTTTGGAAGTTTGGGGGTAAAAATATAATTTTTGGAAGTTTTAGGGT
Found at i:17921945 original size:24 final size:25
Alignment explanation
Indices: 17921904--17921954 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
17921894 TTTCCTTTTT
17921904 ATTATTATATAAAAAATATT-ATTA
1 ATTATTATATAAAAAATATTAATTA
* **
17921928 ATTATTATATTACTAATATTAATTA
1 ATTATTATATAAAAAATATTAATTA
17921953 AT
1 AT
17921955 GCCATTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTATTATATAAAAAATATTAATTA
Found at i:17924365 original size:19 final size:21
Alignment explanation
Indices: 17924341--17924385 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
17924331 GGTAAAAAAA
17924341 TCAACGATCAA-A-GTCAAAG
1 TCAACGATCAACAGGTCAAAG
17924360 TCAACGATCAACAGGTCAAAG
1 TCAACGATCAACAGGTCAAAG
17924381 TCAAC
1 TCAAC
17924386 TCGAGTCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 11 0.46
20 1 0.04
21 12 0.50
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (21 bp):
TCAACGATCAACAGGTCAAAG
Found at i:17926219 original size:14 final size:15
Alignment explanation
Indices: 17926187--17926219 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
17926177 AAAATAACCA
17926187 AATTTTATTATAAAT
1 AATTTTATTATAAAT
*
17926202 AATTTTATT-TATAT
1 AATTTTATTATAAAT
17926216 AATT
1 AATT
17926220 AAACATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
AATTTTATTATAAAT
Found at i:17926946 original size:35 final size:36
Alignment explanation
Indices: 17926907--17926977 Score: 85
Period size: 35 Copynumber: 2.0 Consensus size: 36
17926897 TTAGAGTTAA
*
17926907 TTTATTTTATCT-TAATATTACT-TTGAT-TTTGGGTT
1 TTTATTATATCTGTAA-ATTACTATT-ATATTTGGGTT
*
17926942 TTTATTATATTTGTAAATTACTATTATATTTGGGTT
1 TTTATTATATCTGTAAATTACTATTATATTTGGGTT
17926978 GTAAGTACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
35 18 0.58
36 13 0.42
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.61
Consensus pattern (36 bp):
TTTATTATATCTGTAAATTACTATTATATTTGGGTT
Found at i:17930008 original size:103 final size:103
Alignment explanation
Indices: 17929829--17930033 Score: 374
Period size: 103 Copynumber: 2.0 Consensus size: 103
17929819 ACTCTAAGTT
*
17929829 TGAGGCTGAGCATGAGGAGCATCTCAGAGTCGTTCTGCAAACCTTGAGAGAGAAACAGCTTTATG
1 TGAGGCTGAGCATGAGGAGCATCTCAGAGTCGTTCTACAAACCTTGAGAGAGAAACAGCTTTATG
*
17929894 CTAAGTTTAGCAAGTGTGAATTTTGGTTTTCTGAGGTC
66 CTAAGTTTAGCAAGTGTGAATTTTGGTTCTCTGAGGTC
* *
17929932 TGAGGTTGAGCATGAGGAGCATCTCAGAGTCGTTCTACAAACCTTGAGAGAGAAGCAGCTTTATG
1 TGAGGCTGAGCATGAGGAGCATCTCAGAGTCGTTCTACAAACCTTGAGAGAGAAACAGCTTTATG
17929997 CTAAGTTTAGCAAGTGTGAATTTTGGTTCTCTGAGGT
66 CTAAGTTTAGCAAGTGTGAATTTTGGTTCTCTGAGGT
17930034 TATGTTTTTA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 98 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (103 bp):
TGAGGCTGAGCATGAGGAGCATCTCAGAGTCGTTCTACAAACCTTGAGAGAGAAACAGCTTTATG
CTAAGTTTAGCAAGTGTGAATTTTGGTTCTCTGAGGTC
Found at i:17932995 original size:22 final size:21
Alignment explanation
Indices: 17932972--17933024 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
17932962 TAACCCAATA
17932972 AAACCAAACCCTTAAAAATCT
1 AAACCAAACCCTTAAAAATCT
**
17932993 AAACCTAAACTTTTTAAAAATC-
1 AAACC-AAAC-CCTTAAAAATCT
17933015 AAACCAAACC
1 AAACCAAACC
17933025 AAATCTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 9 0.33
22 9 0.33
23 9 0.33
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (21 bp):
AAACCAAACCCTTAAAAATCT
Found at i:17933148 original size:23 final size:23
Alignment explanation
Indices: 17933074--17933149 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
17933064 ACCGACTGGC
* * *
17933074 CCGACCCGAACCCGA-CCATTGA
1 CCGACCCGACCCCAACCCGTTGA
* * * *
17933096 TCGACCCAACCCAAACCCGTTTA
1 CCGACCCGACCCCAACCCGTTGA
* *
17933119 TCTACCCGACCCCAACCCGTTGA
1 CCGACCCGACCCCAACCCGTTGA
17933142 CCGACCCG
1 CCGACCCG
17933150 TTGACCGTTG
Statistics
Matches: 40, Mismatches: 13, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
22 10 0.25
23 30 0.75
ACGTcount: A:0.25, C:0.47, G:0.14, T:0.13
Consensus pattern (23 bp):
CCGACCCGACCCCAACCCGTTGA
Found at i:17938869 original size:12 final size:12
Alignment explanation
Indices: 17938852--17938879 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
17938842 CTTAAACAAT
17938852 TTATTATTAAAC
1 TTATTATTAAAC
17938864 TTATTATTAAAC
1 TTATTATTAAAC
17938876 TTAT
1 TTAT
17938880 CTTAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (12 bp):
TTATTATTAAAC
Found at i:17941486 original size:89 final size:90
Alignment explanation
Indices: 17941362--17941536 Score: 232
Period size: 89 Copynumber: 2.0 Consensus size: 90
17941352 GATATTTGAA
* * * *
17941362 TTTTCAAAATGCATCAAAAAAGCCCTCAAACTTTTTCAAAAACAGTAATTAAGCTCCT-ACTTTT
1 TTTTCAAAATGCATCAAAAAAGCCCTCAAACTTTTTCAAAAAAAGCAATTAAACGCCTGA-TTTT
17941426 ATTTTGCACT-CAATTGAGTACTTAAAC
65 -TTTTGCA-TACAATTGAGTACTTAAAC
* * *
17941453 TTTT-AAAATGCATC-AAAAAGCCCTCAAATTTTTTTAAAAAAAGCAATTAAACGCTTGATTTTT
1 TTTTCAAAATGCATCAAAAAAGCCCTCAAACTTTTTCAAAAAAAGCAATTAAACGCCTGATTTTT
17941516 TTTGCATACAATTGAGTACTT
66 TTTGCATACAATTGAGTACTT
17941537 GTACCGCTCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
87 1 0.01
88 20 0.27
89 39 0.52
90 11 0.15
91 4 0.05
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (90 bp):
TTTTCAAAATGCATCAAAAAAGCCCTCAAACTTTTTCAAAAAAAGCAATTAAACGCCTGATTTTT
TTTGCATACAATTGAGTACTTAAAC
Found at i:17941741 original size:90 final size:89
Alignment explanation
Indices: 17941636--17941820 Score: 250
Period size: 90 Copynumber: 2.1 Consensus size: 89
17941626 TAAAGGGTTT
* * ** *
17941636 TTTTTAATGCATTTTGAAAGTTCAAGTACCCAATTGGGTGCAGAATAAAAG-TA-AGGGTTTAAT
1 TTTTTAATGCATTTTGAAAGTTCAAATACCCAAGTGAATGCA-AAAAAAAGATAGA-GGTTTAAT
17941699 TGCTCTTTTTG-AAAAAGTTTGAGGGTC
64 TGCT-TTTTTGAAAAAAGTTTGAGGG-C
* *
17941726 TTTTTGATGCATTTTGAAAGTTCAAATACCTAAGTGAATGCAAAAAAAAGATAGAGGTTTAATTG
1 TTTTTAATGCATTTTGAAAGTTCAAATACCCAAGTGAATGCAAAAAAAAGATAGAGGTTTAATTG
17941791 CTTTTTTGAAAAAAGTTTGAGGGC
66 CTTTTTTGAAAAAAGTTTGAGGGC
17941815 TTTTTA
1 TTTTTA
17941821 CACCTTAAGC
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
89 19 0.23
90 64 0.76
91 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.37
Consensus pattern (89 bp):
TTTTTAATGCATTTTGAAAGTTCAAATACCCAAGTGAATGCAAAAAAAAGATAGAGGTTTAATTG
CTTTTTTGAAAAAAGTTTGAGGGC
Found at i:17942993 original size:38 final size:40
Alignment explanation
Indices: 17942942--17943019 Score: 124
Period size: 38 Copynumber: 2.0 Consensus size: 40
17942932 GAATATGGGC
**
17942942 TTAAGGGTGTAAAAAGTTCTCAAAC-TT-TAAAAAAAAGT
1 TTAAGGGTGTAAAAAGCCCTCAAACTTTCTAAAAAAAAGT
17942980 TTAAGGGTGTAAAAAGCCCTCAAACTTTCTAAAAAAAAGT
1 TTAAGGGTGTAAAAAGCCCTCAAACTTTCTAAAAAAAAGT
17943020 AATTAAGTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 23 0.64
39 2 0.06
40 11 0.31
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (40 bp):
TTAAGGGTGTAAAAAGCCCTCAAACTTTCTAAAAAAAAGT
Found at i:17943150 original size:88 final size:90
Alignment explanation
Indices: 17942990--17943208 Score: 268
Period size: 88 Copynumber: 2.5 Consensus size: 90
17942980 TTAAGGGTGT
* * * * * *
17942990 AAAAAG-CCCTCAAACTTTCTAAAAAAAAGTAATTAAGTCCCTCCTTTTTTATTGCATTCATTTG
1 AAAAAGACCCTCAAACTTTCTCAAAAAAAGCAATTAAGCCCCTACTTTTTTATTGCAGTCAATTG
17943054 GGTACTTGAAATTTTAAAATACATA
66 GGTACTTGAAATTTTAAAATACATA
* *
17943079 AAAATGGA-CCTCAAACCTTT-TCAAAAAAGGCAATTAAGCCCCTAC-TTTTT-TTGCAGTCAAT
1 AAAA-AGACCCTCAAA-CTTTCTCAAAAAAAGCAATTAAGCCCCTACTTTTTTATTGCAGTCAAT
* *
17943140 TGGGTACTTGAACTTTTAAAATGCATA
64 TGGGTACTTGAAATTTTAAAATACATA
**
17943167 AAAAAGACCCTCAAACTTTGACAAAAAAAAGCAATTAAGCCC
1 AAAAAGACCCTCAAACTTTCTC-AAAAAAAGCAATTAAGCCC
17943209 ATGCTTTTAT
Statistics
Matches: 111, Mismatches: 13, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
87 6 0.05
88 46 0.41
89 27 0.24
90 28 0.25
91 4 0.04
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (90 bp):
AAAAAGACCCTCAAACTTTCTCAAAAAAAGCAATTAAGCCCCTACTTTTTTATTGCAGTCAATTG
GGTACTTGAAATTTTAAAATACATA
Found at i:17943343 original size:10 final size:10
Alignment explanation
Indices: 17943276--17943446 Score: 60
Period size: 10 Copynumber: 18.0 Consensus size: 10
17943266 AAATTTTAAC
17943276 AAAAAATT-T
1 AAAAAATTAT
*
17943285 -AAAAATTAG
1 AAAAAATTAT
17943294 AAAAAA-TAT
1 AAAAAATTAT
*
17943303 -AAAAATTGT
1 AAAAAATTAT
**
17943312 AAAATTTTAT
1 AAAAAATTAT
* *
17943322 ATAAAATCAT
1 AAAAAATTAT
17943332 AAAAAATTAT
1 AAAAAATTAT
*
17943342 AAAATA-TAT
1 AAAAAATTAT
**
17943351 -TGAAA-TAT
1 AAAAAATTAT
17943359 AAAAAAATTAT
1 -AAAAAATTAT
*
17943370 --AAAATTTT
1 AAAAAATTAT
* * *
17943378 ATAAAGTTGT
1 AAAAAATTAT
*
17943388 AAGAAAATTTT
1 AA-AAAATTAT
*
17943399 ATAAAA-TAT
1 AAAAAATTAT
*
17943408 AAAGAA-TAT
1 AAAAAATTAT
** *
17943417 AAAATTTGTAA
1 AAAAAAT-TAT
17943428 AAAAAATTAT
1 AAAAAATTAT
17943438 -AAAAATTAT
1 AAAAAATTAT
17943447 CGTACTAAAA
Statistics
Matches: 115, Mismatches: 35, Indels: 24
0.66 0.20 0.14
Matches are distributed among these distances:
8 24 0.21
9 28 0.24
10 46 0.40
11 17 0.15
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:17943412 original size:21 final size:21
Alignment explanation
Indices: 17943370--17943413 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
17943360 AAAAAATTAT
* *
17943370 AAAATTTTATAAAGTTGTAAG
1 AAAATTTTATAAAATTGAAAG
17943391 AAAATTTTATAAAATAT-AAAG
1 AAAATTTTATAAAAT-TGAAAG
17943412 AA
1 AA
17943414 TATAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (21 bp):
AAAATTTTATAAAATTGAAAG
Found at i:17943625 original size:9 final size:9
Alignment explanation
Indices: 17943613--17943676 Score: 67
Period size: 9 Copynumber: 6.8 Consensus size: 9
17943603 TTTTTCGAAT
17943613 TTTTTTATA
1 TTTTTTATA
17943622 TTTTTTATA
1 TTTTTTATA
*
17943631 TTTATTAT-
1 TTTTTTATA
*
17943639 TTTTATAAATTA
1 TTTT-T-TA-TA
17943651 TTTTTTATA
1 TTTTTTATA
17943660 TTTTTTATTA
1 TTTTTTA-TA
17943670 TTTTTTA
1 TTTTTTA
17943677 AAAAATTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
8 3 0.07
9 26 0.57
10 11 0.24
11 2 0.04
12 4 0.09
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTTTTATA
Found at i:17943636 original size:13 final size:13
Alignment explanation
Indices: 17943620--17943662 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
17943610 AATTTTTTTA
17943620 TATTTTTTATATT
1 TATTTTTTATATT
*
17943633 TATTATTTTTATAAAT
1 TA-T-TTTTTAT-ATT
17943649 TATTTTTTATATT
1 TATTTTTTATATT
17943662 T
1 T
17943663 TTTATTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 5 0.20
14 8 0.32
15 8 0.32
16 4 0.16
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TATTTTTTATATT
Found at i:17943714 original size:23 final size:23
Alignment explanation
Indices: 17943673--17943731 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 23
17943663 TTTATTATTT
* *
17943673 TTTAAAAAATTTTATTTTTAATAA
1 TTTAATAATTTTTATTTTTAA-AA
*
17943697 TTTTATAATTTTTATTTTTAAAA
1 TTTAATAATTTTTATTTTTAAAA
17943720 TTTAATAATTTT
1 TTTAATAATTTT
17943732 CTAAAATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 13 0.42
24 18 0.58
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTAATAATTTTTATTTTTAAAA
Found at i:17943727 original size:31 final size:31
Alignment explanation
Indices: 17943689--17943747 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
17943679 AAATTTTATT
**
17943689 TTTAATAATTTTATAATTTTTATTTTTAAAA
1 TTTAATAATTTTATAAAATTTATTTTTAAAA
*
17943720 TTTAATAATTTTCTAAAATTTATTTTTA
1 TTTAATAATTTTATAAAATTTATTTTTA
17943748 TAACTTTTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTAATAATTTTATAAAATTTATTTTTAAAA
Found at i:17943959 original size:90 final size:89
Alignment explanation
Indices: 17943771--17943992 Score: 252
Period size: 91 Copynumber: 2.5 Consensus size: 89
17943761 TTTTAATAAG
* * * *
17943771 AGCAAGGGCTTAATTGC-TTTTTTGAAATATTTTGAGGGTCTTTTTTATGCATGTTGAAAGTTCA
1 AGCAGGGGCTTAATTGCTTTTTTTGAAA-AGTTTGAGGCTTTTTTTTATGCATGTTGAAAGTTCA
****
17943835 AGTACCCAATTGAGTGGGGGGAAAA
65 AGTACCCAATTGAGTGGCAAAAAAA
* *
17943860 AGCAGGGGCTTAATTGCTTTTTTTGAAGAAGTTTGAGAGCTTTTTTTTATGCATTTTGAAAGTTT
1 AGCAGGGGCTTAATTGCTTTTTTTGAA-AAGTTTGAG-GCTTTTTTTTATGCATGTTGAAAGTTC
* *
17943925 AAGTGCTCAATTGAGT-GCAAAAAAA
64 AAGTACCCAATTGAGTGGCAAAAAAA
* * *
17943950 AGGAGGGGCTTAATT-ATTTTTTTTAAAAGTTTGAGGGCTTTTT
1 AGCAGGGGCTTAATTGCTTTTTTTGAAAAGTTTGA-GGCTTTTT
17943993 ACACCTTTAA
Statistics
Matches: 114, Mismatches: 15, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
88 15 0.13
89 26 0.23
90 35 0.31
91 38 0.33
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.39
Consensus pattern (89 bp):
AGCAGGGGCTTAATTGCTTTTTTTGAAAAGTTTGAGGCTTTTTTTTATGCATGTTGAAAGTTCAA
GTACCCAATTGAGTGGCAAAAAAA
Found at i:17944677 original size:90 final size:89
Alignment explanation
Indices: 17944503--17944751 Score: 259
Period size: 90 Copynumber: 2.7 Consensus size: 89
17944493 TATTTGACAA
** * ** *
17944503 TTCAAGTACCCAATTGAGTGCAAAAAAGAA-TCGGGTGCTTAATTTTTTTTTTTTGAAAATGTTT
1 TTCAAGTACCCAATTGAGTGCAAAAAA-AAGTAAGG-ACTTAA-TTACTTTTTTTGAAAAAGTTT
* *
17944567 GAGGGCCTTTTTGATGCATTTTAAAAG
63 GAGGACATTTTTGATGCATTTTAAAAG
* * *
17944594 TTTAAGTACCCAATTGAGTGCAAAATAAAAGTAAGGACTTAATTGCTTTTATTGAAAAAGTTTGA
1 TTCAAGTACCCAATTGAGTGCAAAA-AAAAGTAAGGACTTAATTACTTTTTTTGAAAAAGTTTGA
* *
17944659 GGATATTTTTGATGCATTTTGAAAG
65 GGACATTTTTGATGCATTTTAAAAG
* * * **
17944684 TTCAAGTATCCAAATAAGTGCAAAAAAAGAGTAA-GACGCTTAATTACTTTTTTTTTAAAAGTTT
1 TTCAAGTACCCAATTGAGTGCAAAAAAA-AGTAAGGA--CTTAATTACTTTTTTTGAAAAAGTTT
17944748 GAGG
63 GAGG
17944752 GTTTTTTACA
Statistics
Matches: 133, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
89 5 0.04
90 66 0.50
91 57 0.43
92 5 0.04
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (89 bp):
TTCAAGTACCCAATTGAGTGCAAAAAAAAGTAAGGACTTAATTACTTTTTTTGAAAAAGTTTGAG
GACATTTTTGATGCATTTTAAAAG
Found at i:17947247 original size:52 final size:52
Alignment explanation
Indices: 17947164--17947356 Score: 251
Period size: 52 Copynumber: 3.7 Consensus size: 52
17947154 ATAAACGAAG
*
17947164 AGGTCCGATGACTAAGTGTGATCGTGAGTATATGAATCCTTTACGGATTAAA
1 AGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAA
* * *
17947216 AGGTTCGATGACTAAGTGTCATCCTGAGTATATGAATCCTTTACGGATTAAG
1 AGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAA
** * * *
17947268 AGGTCCGATGACTCTGTGTCATCGTGAGTATATGAATCCCTTGCGGATTATA
1 AGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAA
* * * * * *
17947320 AGGTCCGGTGGCCATGTGTCATCGTAATTATATGAAT
1 AGGTCCGATGACTAAGTGTCATCGTGAGTATATGAAT
17947357 GAAGTGAAAT
Statistics
Matches: 123, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 123 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (52 bp):
AGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAAA
Found at i:17961953 original size:34 final size:34
Alignment explanation
Indices: 17961915--17961991 Score: 145
Period size: 34 Copynumber: 2.3 Consensus size: 34
17961905 TACAACCTCT
17961915 ATTTCATTCAACCAAACAGAAGAATACTATTATA
1 ATTTCATTCAACCAAACAGAAGAATACTATTATA
17961949 ATTTCATTCAACCAAACAGAAGAATACTATTATA
1 ATTTCATTCAACCAAACAGAAGAATACTATTATA
*
17961983 ATTTTATTC
1 ATTTCATTC
17961992 CATTTCATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (34 bp):
ATTTCATTCAACCAAACAGAAGAATACTATTATA
Found at i:17963292 original size:159 final size:159
Alignment explanation
Indices: 17963003--17963319 Score: 503
Period size: 159 Copynumber: 2.0 Consensus size: 159
17962993 TGTTAATCAG
* * *
17963003 TATTTTGCAAATTTAATGTTTTACAACTTGGTGAGAAAACAGAATAATTTTGAATGTTGGATGTA
1 TATTTTGCAAAATTAATGTTTTACAACTTGGTGAGAAAACACAATAATTTTGAATATTGGATGTA
* * *
17963068 AAAATAAATGACTAGGTGCAAAATTATCCTTAATGAAAATTAATCTAAATGTGATGAATAATTAA
66 AAAATAAATGACTAGATGCAAAATGATCCTCAATGAAAATTAATCTAAATGTGATGAATAATTAA
*
17963133 AATGGAAGAGATGGATTTAGCAGCAGAAA
131 AATGGAAGAGATAGATTTAGCAGCAGAAA
*
17963162 TATTTTGCAAAATTAATGTTTTACAACTTGGTGAGAAAGCACAATAATTTTGAATATTGGATGTA
1 TATTTTGCAAAATTAATGTTTTACAACTTGGTGAGAAAACACAATAATTTTGAATATTGGATGTA
* *
17963227 AAAATAAATGACTAGATGCAAAATGATTCC-CAATGCAAATTAAAT-TATATGTGATGAATAATT
66 AAAATAAATGACTAGATGCAAAATGA-TCCTCAATGAAAATT-AATCTAAATGTGATGAATAATT
*
17963290 AAAATGGATGAGATAGATTTAGCAGCAGAA
129 AAAATGGAAGAGATAGATTTAGCAGCAGAA
17963320 TTCAAAAGAT
Statistics
Matches: 145, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
159 139 0.96
160 6 0.04
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.32
Consensus pattern (159 bp):
TATTTTGCAAAATTAATGTTTTACAACTTGGTGAGAAAACACAATAATTTTGAATATTGGATGTA
AAAATAAATGACTAGATGCAAAATGATCCTCAATGAAAATTAATCTAAATGTGATGAATAATTAA
AATGGAAGAGATAGATTTAGCAGCAGAAA
Found at i:17963644 original size:46 final size:46
Alignment explanation
Indices: 17963576--17963665 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
17963566 CTTTAATCAC
*
17963576 ACAAATCTAAAAGTTAGGCAAGGTAATATAGCTCTATCGAGTTATT
1 ACAAATCTAAAAGTTAGACAAGGTAATATAGCTCTATCGAGTTATT
*
17963622 ACAAATCTAAAAGTTAGACAAGGTAATATAGCTCTATCGGGTTA
1 ACAAATCTAAAAGTTAGACAAGGTAATATAGCTCTATCGAGTTA
17963666 GGATCTAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (46 bp):
ACAAATCTAAAAGTTAGACAAGGTAATATAGCTCTATCGAGTTATT
Found at i:17975644 original size:13 final size:13
Alignment explanation
Indices: 17975626--17975650 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17975616 TTTACTGACA
17975626 TATTTTTTATTAT
1 TATTTTTTATTAT
17975639 TATTTTTTATTA
1 TATTTTTTATTA
17975651 AAAATTAAAA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TATTTTTTATTAT
Found at i:17976516 original size:17 final size:17
Alignment explanation
Indices: 17976494--17976531 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
17976484 AATGATTTTT
17976494 TAATTTT-TTGAAAATAA
1 TAATTTTATT-AAAATAA
17976511 TAATTTTATTAAAATAA
1 TAATTTTATTAAAATAA
17976528 -AATT
1 TAATT
17976532 AATGAATCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.20
17 14 0.70
18 2 0.10
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TAATTTTATTAAAATAA
Found at i:17978815 original size:26 final size:26
Alignment explanation
Indices: 17978783--17978869 Score: 147
Period size: 26 Copynumber: 3.3 Consensus size: 26
17978773 TTTCATTTGG
*
17978783 AATTAATTATGTTTATGTTTGAATTT
1 AATTAATTATGTTTATGTTTGTATTT
*
17978809 AATTAATTATGTTTATATTTGTATTT
1 AATTAATTATGTTTATGTTTGTATTT
*
17978835 CATTAATTATGTTTATGTTTGTATTT
1 AATTAATTATGTTTATGTTTGTATTT
17978861 AATTAATTA
1 AATTAATTA
17978870 GGGTTTAGGG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.31, C:0.01, G:0.09, T:0.59
Consensus pattern (26 bp):
AATTAATTATGTTTATGTTTGTATTT
Found at i:17978904 original size:14 final size:14
Alignment explanation
Indices: 17978887--17978925 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
17978877 GGGTTTATAA
*
17978887 TTATTAGTTTAGGG
1 TTATGAGTTTAGGG
17978901 TTATGAGTTTAGGG
1 TTATGAGTTTAGGG
*
17978915 TTATGGGTTTA
1 TTATGAGTTTA
17978926 AACCCTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.49
Consensus pattern (14 bp):
TTATGAGTTTAGGG
Found at i:17981903 original size:27 final size:27
Alignment explanation
Indices: 17981851--17981906 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
17981841 CTTAAATAAG
* *
17981851 CACTAGTGTCGCCTGTCTGCATGGCAC
1 CACTAGTGTCGCCTATCAGCATGGCAC
*
17981878 CACTGGTGTCGCCTATCAG-ATGGGCAC
1 CACTAGTGTCGCCTATCAGCAT-GGCAC
17981905 CA
1 CA
17981907 TTGATGTTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.18, C:0.32, G:0.27, T:0.23
Consensus pattern (27 bp):
CACTAGTGTCGCCTATCAGCATGGCAC
Found at i:17983493 original size:2 final size:2
Alignment explanation
Indices: 17983478--17983516 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
17983468 CTATTTAGAT
17983478 TA TA -A TA T- 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 TA T
17983517 TTAAATTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 33 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17991695 original size:23 final size:24
Alignment explanation
Indices: 17991669--17991723 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
17991659 CAATCAATTC
*
17991669 ATTTTTTATTA-ATTTGCTCTGAT
1 ATTTTTTATTACATTTGCACTGAT
*
17991692 ATTTTATATTACATTTGCACTGAT
1 ATTTTTTATTACATTTGCACTGAT
*
17991716 AGTTTTTA
1 ATTTTTTA
17991724 CTCTTAAGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 10 0.37
24 17 0.63
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.56
Consensus pattern (24 bp):
ATTTTTTATTACATTTGCACTGAT
Found at i:17995899 original size:51 final size:51
Alignment explanation
Indices: 17995814--17995910 Score: 167
Period size: 51 Copynumber: 1.9 Consensus size: 51
17995804 TTTCTAAATA
* *
17995814 TTAAACAGTAGTTAGTACAAGCACCCATTTTCGTCGCACTAGATTGATCGC
1 TTAAACAGTAGTTAGTACAAGCACCCATTGTCGTCGCACCAGATTGATCGC
*
17995865 TTAAACAGTAGTTAGTACAAGCACCTATTGTCGTCGCACCAGATTG
1 TTAAACAGTAGTTAGTACAAGCACCCATTGTCGTCGCACCAGATTG
17995911 GTCACAACCG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (51 bp):
TTAAACAGTAGTTAGTACAAGCACCCATTGTCGTCGCACCAGATTGATCGC
Found at i:18002047 original size:23 final size:24
Alignment explanation
Indices: 18002021--18002076 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
18002011 ACAATCAATT
* *
18002021 CATTTTTTATTA-ATTTTCTTTGA
1 CATTTTTTATTACATTTGCATTGA
*
18002044 CATTTTATATTACATTTGCATTGA
1 CATTTTTTATTACATTTGCATTGA
*
18002068 CAGTTTTTA
1 CATTTTTTA
18002077 CTCTTAAGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 11 0.41
24 16 0.59
ACGTcount: A:0.25, C:0.11, G:0.07, T:0.57
Consensus pattern (24 bp):
CATTTTTTATTACATTTGCATTGA
Found at i:18002067 original size:24 final size:23
Alignment explanation
Indices: 18002021--18002074 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
18002011 ACAATCAATT
* * *
18002021 CATTTTTTATTAATTTTCTTTGA
1 CATTTTATATTAATTTGCATTGA
18002044 CATTTTATATTACATTTGCATTGA
1 CATTTTATATTA-ATTTGCATTGA
18002068 CAGTTTT
1 CA-TTTT
18002075 TACTCTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 11 0.42
24 11 0.42
25 4 0.15
ACGTcount: A:0.24, C:0.11, G:0.07, T:0.57
Consensus pattern (23 bp):
CATTTTATATTAATTTGCATTGA
Found at i:18018975 original size:3 final size:3
Alignment explanation
Indices: 18018962--18018995 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
18018952 AATTGCATTG
*
18018962 TTA TT- TTA TTA TTA TTA TTA TTA CTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
18018996 TTAAATTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:18022726 original size:18 final size:18
Alignment explanation
Indices: 18022705--18022742 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
18022695 GAGAAGGCAA
18022705 AAATTAAGG-AGATGAAGG
1 AAATTAAGGAAGA-GAAGG
18022723 AAATTAAGGAAGAGAAGG
1 AAATTAAGGAAGAGAAGG
18022741 AA
1 AA
18022743 GAAGAGGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.55, C:0.00, G:0.32, T:0.13
Consensus pattern (18 bp):
AAATTAAGGAAGAGAAGG
Found at i:18033287 original size:21 final size:19
Alignment explanation
Indices: 18033261--18033313 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
18033251 GGTTGACTCC
*
18033261 AAGGACAAGAAAAGAAAGAGG
1 AAGGACAA-AAAAGAAA-AAG
18033282 AAGGAC-AAAAAGAAAAAG
1 AAGGACAAAAAAGAAAAAG
*
18033300 AAGCACAAAAAAGA
1 AAGGACAAAAAAGA
18033314 TCACCTAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 7 0.24
19 15 0.52
20 1 0.03
21 6 0.21
ACGTcount: A:0.68, C:0.08, G:0.25, T:0.00
Consensus pattern (19 bp):
AAGGACAAAAAAGAAAAAG
Found at i:18033302 original size:18 final size:19
Alignment explanation
Indices: 18033270--18033310 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
18033260 CAAGGACAAG
* *
18033270 AAAAGAAAGAGGAAGGACA
1 AAAAGAAAGAAGAAGCACA
18033289 AAAAGAAA-AAGAAGCACA
1 AAAAGAAAGAAGAAGCACA
18033307 AAAA
1 AAAA
18033311 AGATCACCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.71, C:0.07, G:0.22, T:0.00
Consensus pattern (19 bp):
AAAAGAAAGAAGAAGCACA
Found at i:18033449 original size:17 final size:18
Alignment explanation
Indices: 18033410--18033451 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
18033400 ATGCATATCA
* *
18033410 TTTAGTTGTCATTGCATT
1 TTTATTTGTCACTGCATT
18033428 TTTATTTGTCACTGCA-T
1 TTTATTTGTCACTGCATT
18033445 TTTATTT
1 TTTATTT
18033452 AATAGTACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.17, C:0.12, G:0.12, T:0.60
Consensus pattern (18 bp):
TTTATTTGTCACTGCATT
Found at i:18034081 original size:18 final size:17
Alignment explanation
Indices: 18034036--18034072 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
18034026 AATCCTGTAT
*
18034036 AAAAAAAAGAGAAGAAG
1 AAAAAAAAGCGAAGAAG
18034053 AAAAAGAAAGCGAAGAAG
1 AAAAA-AAAGCGAAGAAG
18034071 AA
1 AA
18034073 GAGAAAAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.73, C:0.03, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGCGAAGAAG
Found at i:18036579 original size:158 final size:158
Alignment explanation
Indices: 18036291--18036604 Score: 457
Period size: 158 Copynumber: 2.0 Consensus size: 158
18036281 GGTCTTAGGA
* * * *
18036291 ATTACAAGTTATATGGGTGCTGGTCTTAGATGTCCTATCGATGGCTTAGATCCGGCATTTGTTGC
1 ATTACAAGTTATATGGGTGCTGGTCTTAGATGTCCTACCAATGGCTGAGATCCGGCATTTGCTGC
* * *
18036356 GAATTCTCCATAACTCGTGTGCGCAACATCGTGTAGCTTAACATCTCAACCCATAGATCGTGTGA
66 GAATTCTCCATAACTCGTGTGAGCAACATCGTGTAGCTTAACATCTCAACCCACAGATCATGTGA
*
18036421 GCAGACCCACTTCACAACTCGTGTGAGT
131 GCAGACCCAATTCACAACTCGTGTGAGT
* * *
18036449 ATTACAGGTTATATGGGTGCTGGTCTTAGATGTCCTACCAATGGCTGAGATCTGGTATTTGCTGC
1 ATTACAAGTTATATGGGTGCTGGTCTTAGATGTCCTACCAATGGCTGAGATCCGGCATTTGCTGC
* * ** *
18036514 GAATTCTCCATAGCTCGTGTGAGCAGCATCGTGTAGCTTAATGTCTCAACCCACAGCTCATGTGA
66 GAATTCTCCATAACTCGTGTGAGCAACATCGTGTAGCTTAACATCTCAACCCACAGATCATGTGA
* * *
18036579 GTAGGCCCAATTTACAACTCGTGTGA
131 GCAGACCCAATTCACAACTCGTGTGA
18036605 ACAATACATG
Statistics
Matches: 137, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
158 137 1.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (158 bp):
ATTACAAGTTATATGGGTGCTGGTCTTAGATGTCCTACCAATGGCTGAGATCCGGCATTTGCTGC
GAATTCTCCATAACTCGTGTGAGCAACATCGTGTAGCTTAACATCTCAACCCACAGATCATGTGA
GCAGACCCAATTCACAACTCGTGTGAGT
Found at i:18041634 original size:22 final size:22
Alignment explanation
Indices: 18041577--18041619 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
18041567 CGATCTGAGG
18041577 AAAAATAAAAG-AAACAAAATT
1 AAAAATAAAAGAAAACAAAATT
18041598 AAAAATAAAAGAAAACAAAATT
1 AAAAATAAAAGAAAACAAAATT
18041620 GAAAGAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (22 bp):
AAAAATAAAAGAAAACAAAATT
Found at i:18053647 original size:221 final size:220
Alignment explanation
Indices: 18053264--18053706 Score: 850
Period size: 221 Copynumber: 2.0 Consensus size: 220
18053254 ATGAATTTTA
*
18053264 GAGAAAATTTTTGTTAATAATATAGTTTGCATGCAAGTATGAATGATGATTCTATCTGAGTGAAT
1 GAGAAAATTTTTGTTAATAAGATAGTTTGCATGCAAGTATGAATGATGATTCTATCTGAGTGAAT
18053329 GTATGTTATCATGAAGAATGGAATGCTTGTATGATCTTAGTCTTAGGTAATGTTTGCCATGAAAA
66 GTATGTTATCATGAAGAATGGAATGCTTGTATGATCTTAGTCTTAGGTAATGTTTGCCATGAAAA
18053394 CTTAGTTGCTCTTGAAATTAGACATGCATGAAGGTTTATATCTTTTAGAATTGACTTAGCAACTT
131 CTTAGTTGCTCTTGAAATTAGACATGCATGAAGGTTTATATC-TTTAGAATTGACTTAGCAACTT
*
18053459 TCTTGAGGCGAAATCCTAGGAGACAT
195 TCCTGAGGCGAAATCCTAGGAGACAT
18053485 GAGAAAATTTTTGTTAATAAGATAGTTTGCATGCAAGTATGAATGATGATTCTATCTGAGTGAAT
1 GAGAAAATTTTTGTTAATAAGATAGTTTGCATGCAAGTATGAATGATGATTCTATCTGAGTGAAT
18053550 GTATGTTATCATGAAGAATGGAATGCTTGTATGATCTTAGTCTTAGGTAATGTTTGCCATGAAAA
66 GTATGTTATCATGAAGAATGGAATGCTTGTATGATCTTAGTCTTAGGTAATGTTTGCCATGAAAA
*
18053615 CTTAGTTGCTCTTGAAATTAGACATGCATGAAGGTTTATATCTTTAGAATTGACTTAGTAACTTT
131 CTTAGTTGCTCTTGAAATTAGACATGCATGAAGGTTTATATCTTTAGAATTGACTTAGCAACTTT
18053680 CCTGAGGCGAAATCCTAGGAGACAT
196 CCTGAGGCGAAATCCTAGGAGACAT
18053705 GA
1 GA
18053707 AAATCTAAAA
Statistics
Matches: 219, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
220 48 0.22
221 171 0.78
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (220 bp):
GAGAAAATTTTTGTTAATAAGATAGTTTGCATGCAAGTATGAATGATGATTCTATCTGAGTGAAT
GTATGTTATCATGAAGAATGGAATGCTTGTATGATCTTAGTCTTAGGTAATGTTTGCCATGAAAA
CTTAGTTGCTCTTGAAATTAGACATGCATGAAGGTTTATATCTTTAGAATTGACTTAGCAACTTT
CCTGAGGCGAAATCCTAGGAGACAT
Found at i:18053998 original size:22 final size:21
Alignment explanation
Indices: 18053953--18053994 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
18053943 GCTCATGCTA
18053953 AAAAAAAGTTTGGGGGTGTTC
1 AAAAAAAGTTTGGGGGTGTTC
*
18053974 AAAATAAGTTTGGGGGTGTTC
1 AAAAAAAGTTTGGGGGTGTTC
18053995 CAAAGGTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.31
Consensus pattern (21 bp):
AAAAAAAGTTTGGGGGTGTTC
Found at i:18054833 original size:23 final size:22
Alignment explanation
Indices: 18054807--18054850 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
18054797 AAAATATTTC
*
18054807 ATTAATTAATTTGGGTTGAATTA
1 ATTAATTAAATTGGGTT-AATTA
18054830 ATTAATTAAATTGGGTTAATT
1 ATTAATTAAATTGGGTTAATT
18054851 TTATTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (22 bp):
ATTAATTAAATTGGGTTAATTA
Found at i:18059600 original size:23 final size:23
Alignment explanation
Indices: 18059571--18059946 Score: 509
Period size: 23 Copynumber: 16.3 Consensus size: 23
18059561 CTTATATCTC
* *
18059571 TGCTTAAATATTAATATGATTTA
1 TGCTTAAATATTAATGTGATTTG
*
18059594 TGATTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
18059617 TGCTTAAGTATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
* *
18059640 TGCTTAAATATTAATATGATTTA
1 TGCTTAAATATTAATGTGATTTG
*
18059663 TGCTCAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* * *
18059686 TGCTTAAACATTAATATGATTTA
1 TGCTTAAATATTAATGTGATTTG
*
18059709 TGCTCAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
18059732 TGCTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
18059755 TGCTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
18059778 TGCTCAAATATTAATGTGATGTG
1 TGCTTAAATATTAATGTGATTTG
* *
18059801 TGCTTAAATATTAATATGATTTC
1 TGCTTAAATATTAATGTGATTTG
* *
18059824 CGCTTAACTATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
18059847 TGGTTAAATATTTATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
18059870 TGCTTAAAAATTAATGTAATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
18059893 CGCTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
18059916 TGCTCAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
18059939 TGCTTAAA
1 TGCTTAAA
18059947 GAATTAAGAT
Statistics
Matches: 305, Mismatches: 48, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 305 1.00
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (23 bp):
TGCTTAAATATTAATGTGATTTG
Found at i:18059990 original size:13 final size:13
Alignment explanation
Indices: 18059972--18059997 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18059962 ATTGTGAACA
18059972 AACATGAGATGTT
1 AACATGAGATGTT
18059985 AACATGAGATGTT
1 AACATGAGATGTT
18059998 GTGACATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
AACATGAGATGTT
Found at i:18061366 original size:21 final size:21
Alignment explanation
Indices: 18061341--18061380 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
18061331 GTCTTTATAA
18061341 ATTTTACAATATAAA-AAAATT
1 ATTTTACAA-ATAAATAAAATT
*
18061362 ATTTTATAAATAAATAAAA
1 ATTTTACAAATAAATAAAA
18061381 CCTAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTTTACAAATAAATAAAATT
Found at i:18061861 original size:27 final size:27
Alignment explanation
Indices: 18061829--18061885 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
18061819 TTGGCATGTG
* * * *
18061829 GTGCCACATCAGTAGGTGGCATCGAAT
1 GTGCCACATCAATAGGCGGCACCAAAT
*
18061856 GTGCCATATCAATAGGCGGCACCAAAT
1 GTGCCACATCAATAGGCGGCACCAAAT
18061883 GTG
1 GTG
18061886 TGGAACGATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (27 bp):
GTGCCACATCAATAGGCGGCACCAAAT
Found at i:18064437 original size:12 final size:12
Alignment explanation
Indices: 18064420--18064444 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18064410 TGTTATTATG
18064420 ATGAATGCTATT
1 ATGAATGCTATT
18064432 ATGAATGCTATT
1 ATGAATGCTATT
18064444 A
1 A
18064445 ATTATTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:18067030 original size:21 final size:21
Alignment explanation
Indices: 18067001--18067073 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 21
18066991 CAACTTTGCT
18067001 AGAACCAGAACCAGTTTTACC
1 AGAACCAGAACCAGTTTTACC
* * **
18067022 AGAATCAGAACTAACTTTACC
1 AGAACCAGAACCAGTTTTACC
* *
18067043 AGAACCAAAACCAGTTTCACC
1 AGAACCAGAACCAGTTTTACC
*
18067064 ATAACCAGAA
1 AGAACCAGAA
18067074 GTGGTGAATG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.44, C:0.27, G:0.11, T:0.18
Consensus pattern (21 bp):
AGAACCAGAACCAGTTTTACC
Found at i:18067055 original size:42 final size:42
Alignment explanation
Indices: 18066992--18067073 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
18066982 TTGAAACTCC
* * * * *
18066992 AACTTTGCTAGAACCAGAACCAGTTTTACCAGAATCAGAACT
1 AACTTTACCAGAACCAAAACCAGTTTCACCAGAACCAGAACT
*
18067034 AACTTTACCAGAACCAAAACCAGTTTCACCATAACCAGAA
1 AACTTTACCAGAACCAAAACCAGTTTCACCAGAACCAGAA
18067074 GTGGTGAATG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.41, C:0.27, G:0.11, T:0.21
Consensus pattern (42 bp):
AACTTTACCAGAACCAAAACCAGTTTCACCAGAACCAGAACT
Found at i:18074951 original size:19 final size:20
Alignment explanation
Indices: 18074904--18074951 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
18074894 TTGATAATTC
18074904 TTAA-TATTA-AATTATAAA
1 TTAATTATTATAATTATAAA
*
18074922 TTAAATT-TTATAATT-TATA
1 TT-AATTATTATAATTATAAA
18074941 TTAATTATTAT
1 TTAATTATTAT
18074952 CAAGAGTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.24
19 14 0.56
20 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAATTATTATAATTATAAA
Found at i:18079231 original size:12 final size:12
Alignment explanation
Indices: 18079214--18079238 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18079204 TGTTATTATG
18079214 ATGAATGCTATT
1 ATGAATGCTATT
18079226 ATGAATGCTATT
1 ATGAATGCTATT
18079238 A
1 A
18079239 ATTATTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:18084456 original size:101 final size:101
Alignment explanation
Indices: 18084277--18084505 Score: 341
Period size: 101 Copynumber: 2.3 Consensus size: 101
18084267 AAGCGTTTTC
* * * *
18084277 GGTGCTGCCTATGGGTGAGGCACTACCCACTTGTCAGGTACACTATATCTATCCCAATCCCGTAT
1 GGTGCCGCCTATGGGTGAGGCACCACCCACTTGTCAGGTACACTATACCTATCCCAATCCCATAT
* * *
18084342 ATAACAATCGGGTATATACTATACTCGTATAACAGT
66 ATAACAATAGGGTATATACTATACCCATATAACAGT
* * *
18084378 GGTGCCGCCTATGGGTGAGGCGCCACCCACTTGTTAGGTATACTATACCTATCCCAATCCCATAT
1 GGTGCCGCCTATGGGTGAGGCACCACCCACTTGTCAGGTACACTATACCTATCCCAATCCCATAT
*
18084443 ATTACAATAGGGTATATACTATACCCATATAACAGT
66 ATAACAATAGGGTATATACTATACCCATATAACAGT
* *
18084479 GATGCCGCCTATGGGTGAGACACCACC
1 GGTGCCGCCTATGGGTGAGGCACCACC
18084506 AATAAAATAT
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 114 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.27
Consensus pattern (101 bp):
GGTGCCGCCTATGGGTGAGGCACCACCCACTTGTCAGGTACACTATACCTATCCCAATCCCATAT
ATAACAATAGGGTATATACTATACCCATATAACAGT
Found at i:18084887 original size:88 final size:89
Alignment explanation
Indices: 18084736--18084931 Score: 306
Period size: 88 Copynumber: 2.2 Consensus size: 89
18084726 TGAAAATGGA
* * *
18084736 CACTCCATGGTCGACACCCCTAGATTTTCACCTCAATCATTGGGTGACTTTTTTTTAAGCCATAA
1 CACTCCATGGTCGACACTCCTAGATTTTCACCTCAATCATTGGCTGACTTTTTTTCAAGCCATAA
18084801 AAAATGAATTTTTTGG-TGTCTAC
66 AAAATGAATTTTTTGGATGTCTAC
*
18084824 CACTCCATGGCCGACACTCCTAGATTTTCACCTCAATCATTGGCTGACTTTTCTTTCAA-CCATA
1 CACTCCATGGTCGACACTCCTAGATTTTCACCTCAATCATTGGCTGACTTTT-TTTCAAGCCATA
* *
18084888 AAAAATGAGTTTTTTGGATGTCTGC
65 AAAAATGAATTTTTTGGATGTCTAC
*
18084913 CACTCCATAGTCGACACTC
1 CACTCCATGGTCGACACTC
18084932 TTGTATTTTT
Statistics
Matches: 98, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
88 70 0.71
89 28 0.29
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (89 bp):
CACTCCATGGTCGACACTCCTAGATTTTCACCTCAATCATTGGCTGACTTTTTTTCAAGCCATAA
AAAATGAATTTTTTGGATGTCTAC
Found at i:18086133 original size:57 final size:57
Alignment explanation
Indices: 18086018--18086163 Score: 154
Period size: 57 Copynumber: 2.6 Consensus size: 57
18086008 AAAGTTGGTA
* *
18086018 TCGGCCATTGGTTGCCAAACACCAAAAAAATTATTTTTTAATTTGTATTTTATGGGTG
1 TCGGCCATTGGTTGCCAAACACCAAAAAAATTAATTTTT-ATTCGTATTTTATGGGTG
* * *
18086076 TCGGTCATTGGTTGTCAAACACC-AAAAAATTAATTTTT-TTCGTATTTTTTGTAGGTG
1 TCGGCCATTGGTTGCCAAACACCAAAAAAATTAATTTTTATTCGTATTTTATG--GGTG
* * * * *
18086133 TTGGCCATTAGATGGCAAATA-CAAAAAAATT
1 TCGGCCATTGGTTGCCAAACACCAAAAAAATT
18086164 TTGGGGACCT
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
55 11 0.15
56 1 0.01
57 41 0.55
58 21 0.28
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (57 bp):
TCGGCCATTGGTTGCCAAACACCAAAAAAATTAATTTTTATTCGTATTTTATGGGTG
Found at i:18086240 original size:114 final size:112
Alignment explanation
Indices: 18086097--18086390 Score: 272
Period size: 116 Copynumber: 2.6 Consensus size: 112
18086087 TTGTCAAACA
* * * * * *
18086097 CCAAAAAATTAATTTTTTTCGTATTTTTTGTAGGTGTTGGCCATTAGATGGCAAATA-CAAAAAA
1 CCAAAAAAATAATTTTTTTCGTATTTTTTG--GGTGTCGGCCATAACATGACAAACACCAAAAAA
18086161 ATTTT-GGGGACCT-AAAAAGGTGATGTCGATCATGGCTTGGCAGACAC
64 ATTTTGGGGGACCTGAAAAAGGTGATGTCGATCATGGCTTGGCAGACAC
* *
18086208 CCAAAAAAATAATTTTTTTATTCGTATTTTTTGGGTGTCGGCTATAACTTGACAAACACTCAAAA
1 CCAAAAAAATAA--TTTTT-TTCGTATTTTTTGGGTGTCGGCCATAACATGACAAACAC-CAAAA
* * * * * * *
18086273 AAATTTTGGGGGGCCTGAAAAAGGTGGTGTCGATTATGGCTTGGTAAATAT
62 AAATTTTGGGGGACCTGAAAAAGGTGATGTCGATCATGGCTTGGCAGACAC
* * * ** * * *
18086324 CTAAAAATAATACTTTTTTATTTGTA-TTTTTGGGTGTCGATCATAGCTTGGCAAACACCAAAAA
1 CCAAAAA-AATA-ATTTTT-TTCGTATTTTTTGGGTGTCGGCCATAACATGACAAACACCAAAAA
18086388 AAT
63 AAT
18086391 ATTTTCGTAC
Statistics
Matches: 151, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
111 11 0.07
112 18 0.12
113 5 0.03
114 34 0.23
115 34 0.23
116 45 0.30
117 4 0.03
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (112 bp):
CCAAAAAAATAATTTTTTTCGTATTTTTTGGGTGTCGGCCATAACATGACAAACACCAAAAAAAT
TTTGGGGGACCTGAAAAAGGTGATGTCGATCATGGCTTGGCAGACAC
Found at i:18086395 original size:116 final size:114
Alignment explanation
Indices: 18086154--18086390 Score: 293
Period size: 116 Copynumber: 2.1 Consensus size: 114
18086144 ATGGCAAATA
*
18086154 CAAAAAAATTTTGGGGACCTAAAAAGGTGATGTCGATCATGGCTTGGCAGACACCCAAAAAAATA
1 CAAAAAAATTTTGGGGACCTAAAAAGGTGATGTCGATCATGGCTTGGCAAACACCCAAAAAAATA
*
18086219 ATTTTTTTATTCGTATTTTTTGGGTGTCGGCTATAACTTGACAAACACT
66 ACTTTTTTATTCGTATTTTTTGGGTGTCGGCTATAACTTGACAAACACT
* * * * * * *
18086268 CAAAAAAATTTTGGGGGGCCTGAAAAAGGTGGTGTCGATTATGGCTTGGTAAATATCTAAAAATA
1 CAAAAAAATTTT-GGGGACCT-AAAAAGGTGATGTCGATCATGGCTTGGCAAACACCCAAAAA-A
* * * *
18086333 AT-ACTTTTTTATTTGTA-TTTTTGGGTGTC-GATCATAGCTTGGCAAACAC-
63 ATAACTTTTTTATTCGTATTTTTTGGGTGTCGGCT-ATAACTTGACAAACACT
18086382 CAAAAAAAT
1 CAAAAAAAT
18086391 ATTTTCGTAC
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
114 23 0.22
115 33 0.31
116 47 0.44
117 3 0.03
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (114 bp):
CAAAAAAATTTTGGGGACCTAAAAAGGTGATGTCGATCATGGCTTGGCAAACACCCAAAAAAATA
ACTTTTTTATTCGTATTTTTTGGGTGTCGGCTATAACTTGACAAACACT
Found at i:18087792 original size:17 final size:19
Alignment explanation
Indices: 18087762--18087806 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
18087752 GCATTATTTT
*
18087762 TCAAAAATACTTTTT-AGA
1 TCAAAAATACTTTTTGAAA
*
18087780 TCAAAAGTA-TTTTTGAAA
1 TCAAAAATACTTTTTGAAA
18087798 TCAAAAATA
1 TCAAAAATA
18087807 ATACTAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.36
Consensus pattern (19 bp):
TCAAAAATACTTTTTGAAA
Found at i:18087963 original size:23 final size:22
Alignment explanation
Indices: 18087937--18087985 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
18087927 ATTTTAATCC
*
18087937 TTATAATGTATTTTATA-TAATAT
1 TTAT-ATG-ATTTTATATTAAAAT
*
18087960 TTATATGATTTTCTATTAAAAT
1 TTATATGATTTTATATTAAAAT
18087982 TTAT
1 TTAT
18087986 TTTAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 7 0.30
22 12 0.52
23 4 0.17
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (22 bp):
TTATATGATTTTATATTAAAAT
Found at i:18088683 original size:58 final size:58
Alignment explanation
Indices: 18088585--18088744 Score: 205
Period size: 58 Copynumber: 2.8 Consensus size: 58
18088575 ATACGAATAA
* *
18088585 AAAAAAATTTTTTTTGGGTGCCTGTCGAGCCATGACCGACACCCTCTTTTCCAGATACC
1 AAAAAAATTATTTTTGGGTGTCTGTCGAGCCATGACCGACACCCTCTTTTCCAGATA-C
**
18088644 AAAAAAATTATTTTTGGGTGTCTGTC-AGCCATGGTCGACACCCTCTTTTCCAGATAC
1 AAAAAAATTATTTTTGGGTGTCTGTCGAGCCATGACCGACACCCTCTTTTCCAGATAC
* * * * * * *
18088701 AAAAATATAATTTTTGGGTGTTTGCCAACCCATGAGCGACACCC
1 AAAAAAATTATTTTTGGGTGTCTGTCGAGCCATGACCGACACCC
18088745 AGAAATAAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
57 23 0.26
58 42 0.47
59 24 0.27
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (58 bp):
AAAAAAATTATTTTTGGGTGTCTGTCGAGCCATGACCGACACCCTCTTTTCCAGATAC
Found at i:18095795 original size:294 final size:296
Alignment explanation
Indices: 18095264--18095847 Score: 960
Period size: 294 Copynumber: 2.0 Consensus size: 296
18095254 CAGCGACCAA
* *
18095264 AATATAAACATTTCCAAAAGAATTAGGAAATGGTCCCATGAAATCCATACCCTAGACATCGAAAA
1 AATATAAACATTTCCAAAAGAATTAGGAAATGATCCCATGAAATCCATACCCCAGACATCGAAAA
*
18095329 GCTCAACTTCCATAATAGGTTGTTACAGCAGCATTCATTGCGTCGAGATATTGATCCAGTATGCT
66 GCTCAACTTCCATAATAGGTTGTTACAGCAGCATTCATTGCGACGAGATATTGATCCAGTATGCT
* * * *
18095394 GACAGTTATAGCATTATTGAATAAAATTGTGGGCGTGTTGAAACAATGTTGGCCAATAAAATCCT
131 GACAATTATAGCATTATTGAACAAAATTGTGGGCGTCTCGAAACAATGTTGGCCAATAAAATCCT
18095459 AACTGTAGAACCTTTGCAGTAGTCTAAAGACCACTAAAATGACCTCCATAAGGAGCATCATGGTA
196 AACTGTAGAACCTTTGCAGTAGTCTAAAGACCACTAAAATGACCTCCATAAGGAGCATCATGGTA
*
18095524 ATGGTTCAAGATGGGAAACATTTCTTCTTCCAAAAG
261 ATGCTTCAAGATGGGAAACATTTCTTCTTCCAAAAG
*
18095560 AATATAAACATTTCCAAAAGAATTAGGAAATGATCCCATGAAATCCATACCCCAGACATCTAAAA
1 AATATAAACATTTCCAAAAGAATTAGGAAATGATCCCATGAAATCCATACCCCAGACATCGAAAA
* * *
18095625 GCTCAACTTCTATAATAGGTTG-T-C-GCAGCATTTCGTTGTGACGAGATATTGATCCAGTATGC
66 GCTCAACTTCCATAATAGGTTGTTACAGCAGCA-TTCATTGCGACGAGATATTGATCCAGTATGC
* *
18095687 TGACAATTATCGCATTGTTGAACAAAATTGTGGGCGTCTCGAAACAATGTTGGCCAATAAAATCC
130 TGACAATTATAGCATTATTGAACAAAATTGTGGGCGTCTCGAAACAATGTTGGCCAATAAAATCC
* * *
18095752 TGACTGTAGAACTTTTGCAGCT-GTCTTAAGACCACTAAAATGACCTCCATAAGGAGCATCATGG
195 TAACTGTAGAACCTTTGCAG-TAGTCTAAAGACCACTAAAATGACCTCCATAAGGAGCATCATGG
*
18095816 TAATGCTTCAAGATGGGAAACATTTTTTCTTC
259 TAATGCTTCAAGATGGGAAACATTTCTTCTTC
18095848 AGAAACGCAT
Statistics
Matches: 268, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
293 6 0.02
294 177 0.66
295 2 0.01
296 83 0.31
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (296 bp):
AATATAAACATTTCCAAAAGAATTAGGAAATGATCCCATGAAATCCATACCCCAGACATCGAAAA
GCTCAACTTCCATAATAGGTTGTTACAGCAGCATTCATTGCGACGAGATATTGATCCAGTATGCT
GACAATTATAGCATTATTGAACAAAATTGTGGGCGTCTCGAAACAATGTTGGCCAATAAAATCCT
AACTGTAGAACCTTTGCAGTAGTCTAAAGACCACTAAAATGACCTCCATAAGGAGCATCATGGTA
ATGCTTCAAGATGGGAAACATTTCTTCTTCCAAAAG
Found at i:18099038 original size:18 final size:18
Alignment explanation
Indices: 18099024--18099061 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
18099014 GGCTGCATAC
* *
18099024 GAGCATGTGATTGCATCT
1 GAGCATATGACTGCATCT
18099042 GAGCATATGACTGCATCT
1 GAGCATATGACTGCATCT
18099060 GA
1 GA
18099062 TCATGATGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (18 bp):
GAGCATATGACTGCATCT
Found at i:18105838 original size:25 final size:25
Alignment explanation
Indices: 18105810--18105873 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
18105800 AAATACTTGC
18105810 TTGAAATTAAAATTATAGTTTAAAA
1 TTGAAATTAAAATTATAGTTTAAAA
* *
18105835 TTGAAATTACAATTATAGTTTAAAT
1 TTGAAATTAAAATTATAGTTTAAAA
*
18105860 TTGAAATAAAAATT
1 TTGAAATTAAAATT
18105874 TAATTTTGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.41
Consensus pattern (25 bp):
TTGAAATTAAAATTATAGTTTAAAA
Found at i:18106099 original size:23 final size:22
Alignment explanation
Indices: 18106063--18106105 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
18106053 AAATCGAAAT
**
18106063 TAAAATATTTAAAATACAAAAAA
1 TAAAATATAAAAAATA-AAAAAA
18106086 TAAAATATAAAAAATAAAAA
1 TAAAATATAAAAAATAAAAA
18106106 TATTTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (22 bp):
TAAAATATAAAAAATAAAAAAA
Found at i:18106115 original size:15 final size:14
Alignment explanation
Indices: 18106072--18106104 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
18106062 TTAAAATATT
*
18106072 TAAAATACAAAAAA
1 TAAAATATAAAAAA
18106086 TAAAATATAAAAAA
1 TAAAATATAAAAAA
18106100 TAAAA
1 TAAAA
18106105 ATATTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (14 bp):
TAAAATATAAAAAA
Found at i:18106397 original size:20 final size:19
Alignment explanation
Indices: 18106354--18106397 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
18106344 TGGGAGAAAA
*
18106354 AAATATTTAAAAATATATT
1 AAATATTTAAAAATATAAT
18106373 AAATATTTAATTAAA-ATAAT
1 AAATATTTAA--AAATATAAT
18106393 AAATA
1 AAATA
18106398 AATTACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 10 0.45
20 9 0.41
21 3 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATATTTAAAAATATAAT
Found at i:18106817 original size:20 final size:20
Alignment explanation
Indices: 18106792--18106834 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
18106782 GCTCACCACC
*
18106792 ACCGTCGTTGATCG-CCGTTG
1 ACCGTCGATGATCGACC-TTG
18106812 ACCGTCGATGATCGACCTTG
1 ACCGTCGATGATCGACCTTG
18106832 ACC
1 ACC
18106835 TATGGATCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.16, C:0.33, G:0.26, T:0.26
Consensus pattern (20 bp):
ACCGTCGATGATCGACCTTG
Found at i:18107829 original size:19 final size:17
Alignment explanation
Indices: 18107804--18107856 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
18107794 TATGGTAAGA
18107804 TATATTTTCGAATTTTT
1 TATATTTTCGAATTTTT
***
18107821 TAAATATTTTTTTATTTTT
1 T--ATATTTTCGAATTTTT
18107840 TATATTTTCGAATTTTT
1 TATATTTTCGAATTTTT
18107857 AAAAAAATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 14 0.50
19 14 0.50
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.68
Consensus pattern (17 bp):
TATATTTTCGAATTTTT
Found at i:18108522 original size:12 final size:12
Alignment explanation
Indices: 18108507--18108533 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18108497 GCTCGATCCT
18108507 GAGGACGACCCC
1 GAGGACGACCCC
18108519 GAGGACGACCCC
1 GAGGACGACCCC
18108531 GAG
1 GAG
18108534 CCCCAATATC
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:0.26, C:0.37, G:0.37, T:0.00
Consensus pattern (12 bp):
GAGGACGACCCC
Found at i:18109024 original size:22 final size:21
Alignment explanation
Indices: 18108977--18109025 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
18108967 ATTTAATTTG
*
18108977 TAATTA-TTATTTTTTCAATA
1 TAATTATTTAATTTTTCAATA
18108997 T-A-TATTTAATTTTTCAATAA
1 TAATTATTTAATTTTTCAAT-A
18109017 TAATTATTT
1 TAATTATTT
18109026 CCCCACATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 3 0.12
21 1 0.04
22 5 0.21
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATTATTTAATTTTTCAATA
Found at i:18111567 original size:52 final size:52
Alignment explanation
Indices: 18111488--18112153 Score: 824
Period size: 52 Copynumber: 12.6 Consensus size: 52
18111478 TAAACGAAAA
* *
18111488 AGGTCCGATGACTATGTGTCATTGTGAGTGTATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
18111540 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCATTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
18111592 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTATGGACTATA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
18111644 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTACG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
18111696 AGGTCCGATGACTATGTGTCGTCGTGAGTGAGTATATGAAT-C---ACGGATTATG
1 AGGTCCGATGACTATGTGTCATC----GTGAGTATATGAATCCTTTACGGATTATG
* * * *
18111748 AGGTCCGATGATTATGTGTCGTCGTGAGTATATGAATCCTTTACAGATTATA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
18111800 AGGTCCAATGACTATGTGTCATTGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
18111852 AGGTCCAATAACTATGTGTCGTCGTGAGTATATGAATCATTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
18111904 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCTTTTATGGACTATA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
18111956 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGT--G---A-G-----TATATGAATCCTTTACGGATTATG
*
18112019 AGGTCCGATAACTATGTGTCATCGTGAGTATATGAAT-CTTTCACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTT-ACGGATTATG
* * * * * *
18112071 AGGTCTGATGACATAT-AGTCATCGTGAGCATATGGATCCTTTTTCGGATT-TA
1 AGGTCCGATGAC-TATGTGTCATCGTGAGTATATGAATCC-TTTACGGATTATG
* * *
18112123 AGGTCCGATGAATTTGTGTCATCGTAAGTAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTAT
18112154 TAAATAGGAA
Statistics
Matches: 538, Mismatches: 52, Indels: 48
0.84 0.08 0.08
Matches are distributed among these distances:
48 14 0.03
49 1 0.00
51 6 0.01
52 439 0.82
53 10 0.02
54 4 0.01
55 1 0.00
56 14 0.03
57 2 0.00
58 2 0.00
61 1 0.00
63 44 0.08
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.35
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:18112033 original size:63 final size:63
Alignment explanation
Indices: 18111932--18112056 Score: 205
Period size: 63 Copynumber: 2.0 Consensus size: 63
18111922 TCATCGTGAG
* * *
18111932 TATATGAATCTTTTATGGACTATAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCC
1 TATATGAATCCTTTACGGACTATAAGGTCCGATAACTATGTGTCATCGTGAGTATATGAATCC
* *
18111995 TATATGAATCCTTTACGGATTATGAGGTCCGATAACTATGTGTCATCGTGAGTATATGAATC
1 TATATGAATCCTTTACGGACTATAAGGTCCGATAACTATGTGTCATCGTGAGTATATGAATC
18112057 TTTCACGGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (63 bp):
TATATGAATCCTTTACGGACTATAAGGTCCGATAACTATGTGTCATCGTGAGTATATGAATCC
Done.