Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 161 of 214
Found at i:47783703 original size:56 final size:58
Alignment explanation
Indices: 47783607--47783714 Score: 150
Period size: 56 Copynumber: 1.9 Consensus size: 58
47783597 TTCTTACAAC
* * *
47783607 TTTATAAAATTTTATAATTTTTTTATATTTCTATATATTTTC-TAA-TTTTTATGATT
1 TTTATAAAATTTTACAATTTTTATATATTTCTATAGATTTTCATAACTTTTTATGATT
*
47783663 TTTATAAAATTTTACAATTTTTATATATTT-TTTAAGATTTTCATAACTTTTT
1 TTTATAAAATTTTACAATTTTTATATATTTCTAT-AGATTTTCATAACTTTTT
47783715 TGTAATATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
55 2 0.04
56 35 0.78
57 3 0.07
58 5 0.11
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (58 bp):
TTTATAAAATTTTACAATTTTTATATATTTCTATAGATTTTCATAACTTTTTATGATT
Found at i:47783780 original size:19 final size:19
Alignment explanation
Indices: 47783751--47783796 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
47783741 TATTATATTT
47783751 TTTTTATTAAAATTTAATCA
1 TTTTTA-TAAAATTTAATCA
* * *
47783771 TTTTTATAAATTTTATTGA
1 TTTTTATAAAATTTAATCA
47783790 TTTTTAT
1 TTTTTAT
47783797 TTTTTATCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTTATAAAATTTAATCA
Found at i:47787090 original size:13 final size:13
Alignment explanation
Indices: 47787067--47787091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47787057 TTTATTTTAG
47787067 TATTTTATTTACT
1 TATTTTATTTACT
47787080 TATTTTATTTAC
1 TATTTTATTTAC
47787092 ATTTATACTT
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:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTATTTACT
Found at i:47787192 original size:16 final size:16
Alignment explanation
Indices: 47787167--47787201 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
47787157 TAATTCTCAT
*
47787167 TTTATTTATTTACGTA
1 TTTATCTATTTACGTA
*
47787183 TTTATCTATTTACTTA
1 TTTATCTATTTACGTA
47787199 TTT
1 TTT
47787202 TTACAATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTATCTATTTACGTA
Found at i:47789550 original size:31 final size:31
Alignment explanation
Indices: 47789514--47789575 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
47789504 AATCAAACTA
47789514 TATGTATATTAGCTAGTGTAGGTGAATCATG
1 TATGTATATTAGCTAGTGTAGGTGAATCATG
47789545 TATGTATATTAGCTAGTGTAGGTGAATCATG
1 TATGTATATTAGCTAGTGTAGGTGAATCATG
47789576 AAAGGTCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.39
Consensus pattern (31 bp):
TATGTATATTAGCTAGTGTAGGTGAATCATG
Found at i:47801480 original size:60 final size:61
Alignment explanation
Indices: 47801414--47801533 Score: 215
Period size: 61 Copynumber: 2.0 Consensus size: 61
47801404 CGTGAGATTT
* *
47801414 AAATGCTATATGA-TTTTTTTTATTCTGATCGTAATATTTAACACTTCATTTATGTAAATA
1 AAATGCTATATGATTTTTTTTTATTCTGATCATAATATTGAACACTTCATTTATGTAAATA
47801474 AAATGCTATATGATTTTTTTTTATTCTGATCATAATATTGAACACTTCATTTATGTAAAT
1 AAATGCTATATGATTTTTTTTTATTCTGATCATAATATTGAACACTTCATTTATGTAAAT
47801534 CGTGTTTAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
60 13 0.23
61 44 0.77
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.48
Consensus pattern (61 bp):
AAATGCTATATGATTTTTTTTTATTCTGATCATAATATTGAACACTTCATTTATGTAAATA
Found at i:47806183 original size:82 final size:82
Alignment explanation
Indices: 47806034--47806189 Score: 267
Period size: 82 Copynumber: 1.9 Consensus size: 82
47806024 CCACCTAATT
* *
47806034 TGGAGTAGAAGTTGAGATTTCTTTGTTTTCATTGGTTTTCTATGCTTTCTTGCATCTGTTCCAAA
1 TGGAGTAGAAGTTGAGATTTATTTGTTTTCATTGGTTTTCTATGCTTTCTTGCATCTATTCCAAA
47806099 ATGCGTTTTTTAGTCCC
66 ATGCGTTTTTTAGTCCC
* *
47806116 TGGAGTAGAAGTTGAGATTTATTTGTTTTCATTGGTTTTCTATGCTTTCTTGCATTTATTCCGAA
1 TGGAGTAGAAGTTGAGATTTATTTGTTTTCATTGGTTTTCTATGCTTTCTTGCATCTATTCCAAA
*
47806181 ATGGGTTTT
66 ATGCGTTTT
47806190 AATTCTTCTA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 69 1.00
ACGTcount: A:0.18, C:0.13, G:0.21, T:0.49
Consensus pattern (82 bp):
TGGAGTAGAAGTTGAGATTTATTTGTTTTCATTGGTTTTCTATGCTTTCTTGCATCTATTCCAAA
ATGCGTTTTTTAGTCCC
Found at i:47809963 original size:22 final size:21
Alignment explanation
Indices: 47809920--47809967 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 21
47809910 TGATTTTTTT
47809920 AATTTTAATTTTATTAATATA
1 AATTTTAATTTTATTAATATA
47809941 ATATTTTATATTATT-TTAA-ATA
1 A-ATTTTA-ATT-TTATTAATATA
47809963 AATTT
1 AATTT
47809968 GGATGAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
21 5 0.21
22 10 0.42
23 7 0.29
24 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
AATTTTAATTTTATTAATATA
Found at i:47811208 original size:19 final size:19
Alignment explanation
Indices: 47811179--47811220 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
47811169 TAGAAAATAA
47811179 TTTTTGAAAAATGATTTACT
1 TTTTTGAAAAATGATTTA-T
47811199 TTTTTG-AAAATGATTTAT
1 TTTTTGAAAAATGATTTAT
47811217 TTTT
1 TTTT
47811221 CTAATGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.23
19 11 0.50
20 6 0.27
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TTTTTGAAAAATGATTTAT
Found at i:47816905 original size:14 final size:14
Alignment explanation
Indices: 47816862--47816908 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
47816852 AAACCTAGAG
47816862 AATTTATAAA-TAT
1 AATTTATAAATTAT
* * *
47816875 -ATTAATAACTTAC
1 AATTTATAAATTAT
47816888 AATTTATAAATTAT
1 AATTTATAAATTAT
47816902 AATTTAT
1 AATTTAT
47816909 TAATATCAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
12 7 0.27
13 2 0.08
14 17 0.65
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTTATAAATTAT
Found at i:47817136 original size:22 final size:22
Alignment explanation
Indices: 47817093--47817139 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
47817083 TTCAATAAAT
* *
47817093 ATTAATATATATAATATTTTAG
1 ATTAATATATATAAGATATTAG
47817115 ATTAATATA-ATAGAGATATTAG
1 ATTAATATATATA-AGATATTAG
47817137 ATT
1 ATT
47817140 GGTTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.45
Consensus pattern (22 bp):
ATTAATATATATAAGATATTAG
Found at i:47819824 original size:6 final size:6
Alignment explanation
Indices: 47819813--47819838 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
47819803 AGATCAATGT
47819813 TCATAA TCATAA TCATAA TCATAA TC
1 TCATAA TCATAA TCATAA TCATAA TC
47819839 CTGAATCCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (6 bp):
TCATAA
Found at i:47824212 original size:23 final size:23
Alignment explanation
Indices: 47824186--47824230 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
47824176 TGGAAAGAAA
* *
47824186 TGTAATATCTCGAAAATTACTAT
1 TGTAATACCCCGAAAATTACTAT
47824209 TGTAATACCCCGAAAATTACTA
1 TGTAATACCCCGAAAATTACTA
47824231 CAATAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAT
Found at i:47826753 original size:16 final size:16
Alignment explanation
Indices: 47826732--47826763 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
47826722 CCCTTAGATG
47826732 GATCCTTGAGGCCCAA
1 GATCCTTGAGGCCCAA
47826748 GATCCTTGAGGCCCAA
1 GATCCTTGAGGCCCAA
47826764 TATTCACCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (16 bp):
GATCCTTGAGGCCCAA
Found at i:47830832 original size:43 final size:43
Alignment explanation
Indices: 47830784--47830867 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
47830774 ATTTTCGATA
*
47830784 TGTGTTTTCATGTAAGACCATG-TCTGGGAC-GTTGGCATCGACT
1 TGTGTTTACATGTAAGACCATGTTC-GGGACAG-TGGCATCGACT
* *
47830827 TGTGTTTACGTGTAAGACCCTGTTCGGGACAGTGGCATCGA
1 TGTGTTTACATGTAAGACCATGTTCGGGACAGTGGCATCGA
47830868 TCTAAGAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 33 0.92
44 3 0.08
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.32
Consensus pattern (43 bp):
TGTGTTTACATGTAAGACCATGTTCGGGACAGTGGCATCGACT
Found at i:47831648 original size:15 final size:16
Alignment explanation
Indices: 47831630--47831667 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
47831620 ATGGTTAAAT
*
47831630 TTTATATGG-ATAGTA
1 TTTATATGGTAAAGTA
47831645 TTTATATGGTAAAGTA
1 TTTATATGGTAAAGTA
*
47831661 TATATAT
1 TTTATAT
47831668 ATATGTATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (16 bp):
TTTATATGGTAAAGTA
Found at i:47840585 original size:64 final size:64
Alignment explanation
Indices: 47840484--47840614 Score: 262
Period size: 64 Copynumber: 2.0 Consensus size: 64
47840474 GAATTATAAT
47840484 TCAGCCAATGAGGCTTGATTAAGATGGATGCCCTCGATTTTTAAGTATTTAAGTTTGAATTGAA
1 TCAGCCAATGAGGCTTGATTAAGATGGATGCCCTCGATTTTTAAGTATTTAAGTTTGAATTGAA
47840548 TCAGCCAATGAGGCTTGATTAAGATGGATGCCCTCGATTTTTAAGTATTTAAGTTTGAATTGAA
1 TCAGCCAATGAGGCTTGATTAAGATGGATGCCCTCGATTTTTAAGTATTTAAGTTTGAATTGAA
47840612 TCA
1 TCA
47840615 TATGAAATTA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (64 bp):
TCAGCCAATGAGGCTTGATTAAGATGGATGCCCTCGATTTTTAAGTATTTAAGTTTGAATTGAA
Found at i:47844997 original size:25 final size:25
Alignment explanation
Indices: 47844969--47845058 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 25
47844959 CCTGATAATA
*
47844969 AGCTCTCATGAGCTTCTCGTTATTT
1 AGCTCTCATGAGCTTCTCGTTATGT
* * *
47844994 AGCTCTTATAAG-TATCCCGTTATGT
1 AGCTCTCATGAGCT-TCTCGTTATGT
* *
47845019 GGCTCTCACGAGCTTCTCGATTAATG-
1 AGCTCTCATGAGCTTCTCG-TT-ATGT
*
47845045 -GCTCTCTTGAGCTT
1 AGCTCTCATGAGCTT
47845059 TCCGTTTATG
Statistics
Matches: 50, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
24 1 0.02
25 43 0.86
26 3 0.06
27 3 0.06
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (25 bp):
AGCTCTCATGAGCTTCTCGTTATGT
Found at i:47845155 original size:25 final size:25
Alignment explanation
Indices: 47845018--47845207 Score: 117
Period size: 25 Copynumber: 7.7 Consensus size: 25
47845008 TCCCGTTATG
** *
47845018 TGGCTCTCACGAGCTTCTCGATTAA
1 TGGCTCTCTTGAGCTTCCCGATTAA
* *
47845043 TGGCTCTCTTGAGCTTTCCG-TTTA
1 TGGCTCTCTTGAGCTTCCCGATTAA
* *
47845067 TGGCT-TGTATGAGCTTTCCGA-TAA
1 TGGCTCTCT-TGAGCTTCCCGATTAA
** *
47845091 TTGGCTCTCCAGAGCTTCTCGA-TAA
1 -TGGCTCTCTTGAGCTTCCCGATTAA
47845116 TTGGCTCT-TATGAGCTTCCCGATTAA
1 -TGGCTCTCT-TGAGCTTCCCGATTAA
* * *
47845142 TGGCTCTCTGGAGCTTCCC-AATAT
1 TGGCTCTCTTGAGCTTCCCGATTAA
* * * *
47845166 TAGCTCGCATGAGCTTCCCGGTT-A
1 TGGCTCTCTTGAGCTTCCCGATTAA
*
47845190 CGGCTCT-TATGAGCTTCC
1 TGGCTCTCT-TGAGCTTCC
47845208 TGTTACATGG
Statistics
Matches: 127, Mismatches: 29, Indels: 19
0.73 0.17 0.11
Matches are distributed among these distances:
23 2 0.02
24 52 0.41
25 68 0.54
26 5 0.04
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (25 bp):
TGGCTCTCTTGAGCTTCCCGATTAA
Found at i:47845253 original size:25 final size:25
Alignment explanation
Indices: 47845200--47845254 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
47845190 CGGCTCTTAT
* * * *
47845200 GAGCTTCCTGTTACATGGCTTACAT
1 GAGCTTCATGTTACATGGCTCAAAA
*
47845225 GAGCTTCATGTTATATGGCTCAAAA
1 GAGCTTCATGTTACATGGCTCAAAA
47845250 GAGCT
1 GAGCT
47845255 ACCCATTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (25 bp):
GAGCTTCATGTTACATGGCTCAAAA
Found at i:47846149 original size:23 final size:23
Alignment explanation
Indices: 47846098--47846152 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
47846088 GCCCGGCCCG
47846098 ATTTTTAATAAACACAAAAAAATT
1 ATTTTTAA-AAACACAAAAAAATT
* *
47846122 A-TTTTAAAAATA-AAAAATATAT
1 ATTTTTAAAAACACAAAAAAAT-T
47846144 ATTTTTAAA
1 ATTTTTAAA
47846153 GTATTTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 7 0.26
22 6 0.22
23 13 0.48
24 1 0.04
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
ATTTTTAAAAACACAAAAAAATT
Found at i:47848056 original size:28 final size:28
Alignment explanation
Indices: 47848016--47848075 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
47848006 CCATGACATC
* *
47848016 CACAAAAATAGTCTA-TTGGGATAGTAAA
1 CACAAAAATAGTCTACCT-GGACAGTAAA
47848044 CACAAATAA-AGTCTACCTGGACAGTAAA
1 CACAAA-AATAGTCTACCTGGACAGTAAA
47848072 CACA
1 CACA
47848076 GGGTAAGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 25 0.89
29 3 0.11
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.20
Consensus pattern (28 bp):
CACAAAAATAGTCTACCTGGACAGTAAA
Found at i:47854169 original size:25 final size:25
Alignment explanation
Indices: 47854133--47854185 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
47854123 ATGACAATCT
*
47854133 AATCCTTCTTCAATCTATATCCTTA
1 AATCCTTATTCAATCTATATCCTTA
47854158 AATCCTTATTCAATCTATATCCTTA
1 AATCCTTATTCAATCTATATCCTTA
47854183 AAT
1 AAT
47854186 ATGGAAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.00, T:0.43
Consensus pattern (25 bp):
AATCCTTATTCAATCTATATCCTTA
Found at i:47858690 original size:20 final size:22
Alignment explanation
Indices: 47858647--47858690 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
47858637 AAAAAATTTA
*
47858647 TTCTTTTGAAAAATTTTCGTAC
1 TTCTTTTGAAAAATTTTCGAAC
*
47858669 TTCTTTT-AAAAGTTTT-GAAC
1 TTCTTTTGAAAAATTTTCGAAC
47858689 TT
1 TT
47858691 TTTATAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 8 0.40
22 7 0.35
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.52
Consensus pattern (22 bp):
TTCTTTTGAAAAATTTTCGAAC
Found at i:47861462 original size:18 final size:19
Alignment explanation
Indices: 47861425--47861464 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
47861415 TATTTTGTAT
47861425 AAATTAAATATAAGATTAA
1 AAATTAAATATAAGATTAA
47861444 AAATTGAAA-ATAA-ATTAA
1 AAATT-AAATATAAGATTAA
47861462 AAA
1 AAA
47861465 CATATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 9 0.45
20 3 0.15
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
AAATTAAATATAAGATTAA
Found at i:47880131 original size:15 final size:16
Alignment explanation
Indices: 47880103--47880133 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
47880093 AGGGGTTAAG
47880103 GGTTTAATGATTTTGA
1 GGTTTAATGATTTTGA
47880119 GGTTTAA-GATTTTGA
1 GGTTTAATGATTTTGA
47880134 TTTCAAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (16 bp):
GGTTTAATGATTTTGA
Found at i:47880225 original size:62 final size:61
Alignment explanation
Indices: 47880105--47880233 Score: 143
Period size: 61 Copynumber: 2.1 Consensus size: 61
47880095 GGGTTAAGGG
* ** * * * *
47880105 TTTAATGATTTTGAGGTTTAAGATTTTGATTTCAAGTTTAGGAATGGTAATTAGGTTTAATA
1 TTTAATGATTTTAAGGTTTAAGAGGTTGATTTCAAGGTTAGGAACGATAATTAAGTTT-ATA
* *
47880167 TTTAATGATTTTAAGGTTTAAG-GGTTGATTTCGAGGTTAGGGACGATAATGTAAGTTTATA
1 TTTAATGATTTTAAGGTTTAAGAGGTTGATTTCAAGGTTAGGAACGATAAT-TAAGTTTATA
*
47880228 ATTAAT
1 TTTAAT
47880234 TTTTTAAATA
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
61 29 0.52
62 27 0.48
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.44
Consensus pattern (61 bp):
TTTAATGATTTTAAGGTTTAAGAGGTTGATTTCAAGGTTAGGAACGATAATTAAGTTTATA
Found at i:47880374 original size:16 final size:16
Alignment explanation
Indices: 47880305--47880372 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
47880295 TTTGGTTCGC
47880305 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47880321 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47880337 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
47880353 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
47880369 TGTA
1 TGTA
47880373 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:47880404 original size:45 final size:44
Alignment explanation
Indices: 47880353--47880447 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
47880343 GGATTAGAGG
* * *
47880353 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
47880398 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
47880442 TGTAAT
1 TGTAAT
47880448 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:47880630 original size:18 final size:17
Alignment explanation
Indices: 47880609--47880643 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47880599 TTATTATTTA
*
47880609 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
47880627 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
47880644 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:47880637 original size:28 final size:27
Alignment explanation
Indices: 47880567--47880639 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
47880557 TTTATTATCA
*
47880567 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
47880595 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
47880622 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
47880640 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:47880777 original size:18 final size:17
Alignment explanation
Indices: 47880756--47880790 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47880746 TTATTATTAA
*
47880756 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
47880774 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
47880791 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:47880802 original size:147 final size:149
Alignment explanation
Indices: 47880528--47880802 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
47880518 ATGATTATTG
*
47880528 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
47880593 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
47880658 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
* *
47880677 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTACTCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
47880740 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
47880803 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:47880898 original size:18 final size:17
Alignment explanation
Indices: 47880858--47880910 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
47880848 AAATATAAAT
47880858 TAAAATA-ATAA-TT-A
1 TAAAATATATAATTTAA
*
47880872 TTAAATATAT--TTTAA
1 TAAAATATATAATTTAA
47880887 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
47880905 TAAAAT
1 TAAAAT
47880911 TCTAATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 9 0.29
17 6 0.19
18 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:47880968 original size:60 final size:59
Alignment explanation
Indices: 47880784--47880970 Score: 157
Period size: 60 Copynumber: 3.1 Consensus size: 59
47880774 ATATAATTTA
*
47880784 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTC-TAATAA-TAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* * ** * * * ** * * * *
47880845 GTAAAATAT-AAATTAA-AATAATAATTAT-TAAATATATTTTAATTAAAATATATAAT-TT
1 ATAAAAT-TCTAA-TAATAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
47880903 AATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTAATAAT-AATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
47880964 ATAAAAT
1 ATAAAAT
47880971 ATAATTTGAA
Statistics
Matches: 91, Mismatches: 26, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
58 5 0.05
59 37 0.41
60 38 0.42
61 10 0.11
62 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (59 bp):
ATAAAATTCTAATAATAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:47880969 original size:119 final size:120
Alignment explanation
Indices: 47880736--47881030 Score: 495
Period size: 119 Copynumber: 2.5 Consensus size: 120
47880726 TTACTCATAT
*
47880736 TTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
47880801 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
47880857 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAATC
1 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
*
47880921 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAT
66 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
* *
47880976 TTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
47881031 TAAAATAATT
Statistics
Matches: 166, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 108 0.65
120 53 0.32
121 5 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
Found at i:47884990 original size:18 final size:18
Alignment explanation
Indices: 47884969--47885003 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47884959 TTATATTATT
47884969 TATATGTATTTT-ATAATA
1 TATATGT-TTTTAATAATA
47884987 TATATGTTTTTAATAAT
1 TATATGTTTTTAATAAT
47885004 TTTTTCTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (18 bp):
TATATGTTTTTAATAATA
Found at i:47889213 original size:3 final size:3
Alignment explanation
Indices: 47889205--47889233 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
47889195 TTATCATCTT
47889205 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
47889234 TTAATTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:47889568 original size:22 final size:22
Alignment explanation
Indices: 47889540--47889586 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
47889530 ACAAATCCTA
47889540 TCTCAATTTCCTTCCAAAATCC
1 TCTCAATTTCCTTCCAAAATCC
*
47889562 TCTCAATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTCCAAAATCC
47889584 TCT
1 TCT
47889587 TAAACTCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATCC
Found at i:47889618 original size:52 final size:52
Alignment explanation
Indices: 47889540--47889638 Score: 171
Period size: 52 Copynumber: 1.9 Consensus size: 52
47889530 ACAAATCCTA
* *
47889540 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAATTCTCTTAAAC
1 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCATTCCAAAAATCTCTTAAAC
*
47889592 TCTCAATTTCCTTTCAAAATCCTCTCAATTTCATTCCAAAAATCTCT
1 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCATTCCAAAAATCTCT
47889639 CAAATCCATA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.39
Consensus pattern (52 bp):
TCTCAATTTCCTTCCAAAATCCTCTCAATTTCATTCCAAAAATCTCTTAAAC
Found at i:47889619 original size:22 final size:22
Alignment explanation
Indices: 47889591--47889641 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
47889581 TTCTCTTAAA
* *
47889591 CTCTCAATTTCCTTTC-AAAAT
1 CTCTCAATTTCATTCCAAAAAT
47889612 CCTCTCAATTTCATTCCAAAAAT
1 -CTCTCAATTTCATTCCAAAAAT
47889635 CTCTCAA
1 CTCTCAA
47889642 ATCCATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (22 bp):
CTCTCAATTTCATTCCAAAAAT
Found at i:47892089 original size:29 final size:29
Alignment explanation
Indices: 47892047--47892558 Score: 891
Period size: 29 Copynumber: 17.7 Consensus size: 29
47892037 ATAAAAATCG
47892047 TAATTAAAAACCCTAACCTTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
*
47892076 TAATTAAAAACCCTAACATTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
47892105 TAATTAAAAACCCTAACCTTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
*
47892134 TAATTAAAAACCCTAACCCT-ACCATAATT
1 TAATTAAAAACCCTAACCTTAACC-TAATT
47892163 TAATTAAAAACCCTAACCTTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
*
47892192 TAATTAAAAACCCTAACCTTAACGTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
*
47892221 TAATTAAAAACCCTAACCCTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
* *
47892250 TAATTAAAAACCCTAACCCTACCCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
*
47892279 TAATTAAAAACCCTAACCCTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
*
47892308 TAATTAAAAACCCTAAACTTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
47892337 TAATTAAAAACCCTAACCTTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
47892366 TAATTAAAAACCCTAACCTTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
* *
47892395 TAATTAAAAACCCTAACCCTACCCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
*
47892424 TAATTAAAAACCCTAACCCTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
47892453 TAATTAAAAACCCTAACCTTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
*
47892482 TAATTAAAAACCCTAACTTTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
*
47892511 TAATTAAAAACCCTAACTTTAACCTAATT
1 TAATTAAAAACCCTAACCTTAACCTAATT
47892540 TAATTAAAAACCCTAACCT
1 TAATTAAAAACCCTAACCT
47892559 AATTTATTTA
Statistics
Matches: 463, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
28 3 0.01
29 457 0.99
30 3 0.01
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (29 bp):
TAATTAAAAACCCTAACCTTAACCTAATT
Found at i:47892663 original size:56 final size:56
Alignment explanation
Indices: 47892603--47892727 Score: 189
Period size: 56 Copynumber: 2.2 Consensus size: 56
47892593 AAATCATAAC
* * * * *
47892603 ATAATTTTACCTAATTTGAT-AATCTTACTAACCATTAACACAATTTTTTGGGCTTA
1 ATAATTTTACATAATTTAATAAAT-TTACTAACCATTAACAAAAGTTATTGGGCTTA
47892659 ATAATTTTACATAATTTAATAAATTTACTAACCATTAACAAAAGTTATTGGGCTTA
1 ATAATTTTACATAATTTAATAAATTTACTAACCATTAACAAAAGTTATTGGGCTTA
47892715 ATAATTTTACATA
1 ATAATTTTACATA
47892728 GTTTTTACAT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 60 0.95
57 3 0.05
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (56 bp):
ATAATTTTACATAATTTAATAAATTTACTAACCATTAACAAAAGTTATTGGGCTTA
Found at i:47896357 original size:15 final size:15
Alignment explanation
Indices: 47896339--47896387 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
47896329 CCTTATTTCA
47896339 TTTATGTTTTCTTT-T
1 TTTAT-TTTTCTTTAT
*
47896354 TTTATTATTTATTTAT
1 TTTATT-TTTCTTTAT
*
47896370 TTTATTTTTCTTTCT
1 TTTATTTTTCTTTAT
47896385 TTT
1 TTT
47896388 CTAAAAAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 1 0.03
15 21 0.72
16 7 0.24
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTATTTTTCTTTAT
Found at i:47896381 original size:30 final size:33
Alignment explanation
Indices: 47896322--47896387 Score: 86
Period size: 31 Copynumber: 2.1 Consensus size: 33
47896312 CGTAATATTA
47896322 TTATTATCCTTATTTCATTTATGTTTTCTTT-TT
1 TTATTAT-CTTATTTCATTTATGTTTTCTTTCTT
47896355 TTATTAT-TTATTT-ATTTTAT-TTTTCTTTCTT
1 TTATTATCTTATTTCA-TTTATGTTTTCTTTCTT
47896386 TT
1 TT
47896388 CTAAAAAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
30 9 0.29
31 15 0.48
33 7 0.23
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.74
Consensus pattern (33 bp):
TTATTATCTTATTTCATTTATGTTTTCTTTCTT
Found at i:47901113 original size:18 final size:18
Alignment explanation
Indices: 47901073--47901114 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
47901063 ACAAGCATAC
* *
47901073 ATATAAAAAAAAGATAGT
1 ATATAAAAAAAAGAAACT
47901091 ATATAAAACAAAAGAAACT
1 ATATAAAA-AAAAGAAACT
47901110 -TATAA
1 ATATAA
47901115 TAATTTCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (18 bp):
ATATAAAAAAAAGAAACT
Found at i:47903094 original size:44 final size:44
Alignment explanation
Indices: 47903022--47903447 Score: 559
Period size: 44 Copynumber: 9.6 Consensus size: 44
47903012 ACCCGTATGG
* * ** *
47903022 GAAGACAAGATCTGCTCTCTTTGATCTACTTCATACCAATATAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * *
47903066 GAAAACAATATCTGTTTTCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* * * ***
47903110 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATACAT
*
47903155 GAAGACAAGATCTG-TTATCCTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
* ***
47903199 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCA-CGCCAATACAT
* *
47903244 GAAGATAAGATCTG-TTGTATTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACAT
*
47903288 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGTCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
*
47903332 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* *
47903376 GAAGACAATATCTGTTTTCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
* *
47903420 GAAGACAAGATTTACTTTCTTCGATCTA
1 GAAGACAAGATCTGCTTTCTTCGATCTA
47903448 TTCCACTGCC
Statistics
Matches: 329, Mismatches: 47, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
44 256 0.78
45 73 0.22
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACAT
Found at i:47903179 original size:89 final size:87
Alignment explanation
Indices: 47903022--47903447 Score: 564
Period size: 89 Copynumber: 4.8 Consensus size: 87
47903012 ACCCGTATGG
* * * * * *
47903022 GAAGACAAGATCTGCTCTCTTTGATCTACTTCATACCAATATATGAAAACAATATCTGTTTTCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG-TTTCTT
47903087 CGATCTACTTCACGCCAATACAT
65 CGATCTACTTCACGCCAATACAT
* * * *
47903110 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCC
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGATCTGTT-TCT
47903175 TCGATCTACTTCACGCCAATACAT
64 TCGATCTACTTCACGCCAATACAT
* * *
47903199 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGATAAGATCTGTTGTAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCA-CACCAATATAGGAAGACAAGATCTGTT-TCT
47903264 TCGATCTACTTCACGCCAATACAT
64 TCGATCTACTTCACGCCAATACAT
** * *
47903288 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGTCAATACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTG-TTTCTT
*
47903353 CGATCTACTTCACGCCAGTACAT
65 CGATCTACTTCACGCCAATACAT
* * * * * * *
47903376 GAAGACAATATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATTTACTTTCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCT-GTTTCTT
47903441 CGATCTA
65 CGATCTA
47903448 TTCCACTGCC
Statistics
Matches: 304, Mismatches: 29, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
88 142 0.47
89 162 0.53
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (87 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACACCAATATAGGAAGACAAGATCTGTTTCTTC
GATCTACTTCACGCCAATACAT
Found at i:47903232 original size:133 final size:130
Alignment explanation
Indices: 47902994--47903447 Score: 530
Period size: 133 Copynumber: 3.4 Consensus size: 130
47902984 AAGACTTGTA
* * * **
47902994 TCTTCGATCTACTTCATCACCCGTATGGGAAGACAAGATCTGCTCTCTTTGATCTACTTCATACC
1 TCTTCGATCTACTTCA-CACCAGTATGGGAAGACAAGATCTG-TTTCTTCGATCTACTTCACGCC
* * * *
47903059 AATATATGAAAACAATATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
64 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
47903124 CTT
129 -TT
* *
47903127 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCCTCGATCTACTTCACGCC
1 TCTTCGATCTACTTC-ACACCAGTATGGGAAGACAAGATCTGTT-TCTTCGATCTACTTCACGCC
* *** *
47903192 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACCAATATGGGAAGATAAGATCT
64 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCT
47903257 GTT
128 GTT
* * * *** *
47903260 GTATTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGTC
1 -TCTTCGATCTACTTCACACCAGTATGGGAAGACAAGATCTG-TTTCTTCGATCTACTTCACGCC
* *
47903325 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAGTACATGAAGACAATATCTG
64 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTG
47903390 TTT
129 -TT
* * *** * *
47903393 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATTTACTTTCTTCGATCTA
1 TCTTCGATCTACTTCACACCAGTATGGGAAGACAAGATCT-GTTTCTTCGATCTA
47903448 TTCCACTGCC
Statistics
Matches: 279, Mismatches: 35, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
132 70 0.25
133 173 0.62
134 36 0.13
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (130 bp):
TCTTCGATCTACTTCACACCAGTATGGGAAGACAAGATCTGTTTCTTCGATCTACTTCACGCCAA
TACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGTT
Found at i:47903521 original size:132 final size:131
Alignment explanation
Indices: 47903393--47903792 Score: 426
Period size: 132 Copynumber: 3.0 Consensus size: 131
47903383 ATATCTGTTT
* * * * *
47903393 TCTTCGATCTACTTCACGCCAATAC-ATGAAGACAAGATTTACT-TTCTTCGATCTATTCCACTG
1 TCTTCGATCTAC-TC-CACCAATACTAGGAAGACAAGATCTA-TAATCTTCAATCTATTCCACTG
*
47903456 CCAACCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACTTCAGGGAGGTAAAATCT
63 CCAACCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCT
47903521 GCCA
128 GCCA
* * * * * * * *
47903525 TCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCT
1 TCTTCGATCTACTCCACCAATAC-TAGGAAGACAAGATCTATAATCTTCAATCTATTCCACTGCC
**
47903590 GCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCTGC
65 AACCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCTGC
47903655 CA
130 CA
* * ** * * * * * * * **
47903657 TCTTTGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGTCTATTCCAATGTT
1 TCTTCGATCTACTCCACCAATAC-TAGGAAGACAAGATCTATAATCTTCAATCTATTCCACTGCC
** * * * *
47903722 TCCCAAGGAGATAGAATTATTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCTGC
65 AACCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCTGC
47903787 CA
130 CA
47903789 TCTT
1 TCTT
47903793 TAATCTGCTC
Statistics
Matches: 239, Mismatches: 26, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
130 5 0.02
131 3 0.01
132 231 0.97
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (131 bp):
TCTTCGATCTACTCCACCAATACTAGGAAGACAAGATCTATAATCTTCAATCTATTCCACTGCCA
ACCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCTGCC
A
Found at i:47903554 original size:44 final size:44
Alignment explanation
Indices: 47903504--47903814 Score: 126
Period size: 44 Copynumber: 7.1 Consensus size: 44
47903494 CACTGTAACT
* ** *
47903504 TCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGC
1 TCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGC
* * *** * *
47903548 TTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTGCTGC
1 TCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGC
* * * *** *
47903592 CCAGGGAGATAGAAT-TACTGGCTTCAATATACTCCACTGTAAC--C
1 TCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCAC--T-ACTGC
* ** * *
47903636 TCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCATTACTGC
1 TCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGC
* * ** * * * ** *
47903680 TTAGGGAGATAAGATCTGTAATCTTCAGTCTATTCCAATGTTTC
1 TCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGC
* * * ***** * * **
47903724 CCAAGGAGATAGAAT-TATTGGCTTCAATATACTCCACTGCAAC
1 TCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGC
* * *
47903767 TTCAGGGAGGTAAAATCTGCCATCTTTAATCTGCTCCACTACTGC
1 -TCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGC
47903812 TCA
1 TCA
47903815 ATCTATTCCA
Statistics
Matches: 180, Mismatches: 79, Indels: 16
0.65 0.29 0.06
Matches are distributed among these distances:
42 2 0.01
43 34 0.19
44 112 0.62
45 31 0.17
46 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
TCAGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGC
Found at i:47903793 original size:132 final size:132
Alignment explanation
Indices: 47903437--47903812 Score: 599
Period size: 132 Copynumber: 2.8 Consensus size: 132
47903427 AGATTTACTT
* * *** *
47903437 TCTTCGATCTATTCCACTGCCAACCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAA
1 TCTTCAATCTATTCCAATGCTGCCCAAGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAA
47903502 CTTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAT
66 CTTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAT
47903567 AA
131 AA
* *
47903569 TCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAA
1 TCTTCAATCTATTCCAATGCTGCCCAAGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAA
* * *
47903634 CCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTGT
66 CTTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAT
47903699 AA
131 AA
* * * * *
47903701 TCTTCAGTCTATTCCAATGTTTCCCAAGGAGATAGAATTATTGGCTTCAATATACTCCACTGCAA
1 TCTTCAATCTATTCCAATGCTGCCCAAGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAA
*
47903766 CTTCAGGGAGGTAAAATCTGCCATCTTTAATCTGCTCCACTACTGCT
66 CTTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCT
47903813 CAATCTATTC
Statistics
Matches: 227, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 227 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (132 bp):
TCTTCAATCTATTCCAATGCTGCCCAAGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAA
CTTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAT
AA
Found at i:47903897 original size:108 final size:107
Alignment explanation
Indices: 47903708--47903909 Score: 289
Period size: 108 Copynumber: 1.9 Consensus size: 107
47903698 TAATCTTCAG
* *
47903708 TCTATTCCAATGTTTCCCAAGGAGATAGAATTATTGGCTTCAATATACTCCACTGCAACTTCAGG
1 TCTATTCCAATGTTGCCCAAGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAAC-TCAGG
* *
47903773 GAGGTAAAATCTGCCATCTTTAATCTGCTCCACTACTGCTCAA
65 GAGGTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTCAA
* * * *
47903816 TCTATTCCATTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC-CACGA
1 TCTATTCCAATGTTGCCCAAGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTCA-G-
*
47903880 GGAGGTAAAATCCGCCATCTTCGATCTGCT
64 GGAGGTAAAATCCGCCATCTTCAATCTGCT
47903910 TCGCTGTCTA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
106 2 0.02
107 1 0.01
108 80 0.96
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (107 bp):
TCTATTCCAATGTTGCCCAAGGAGATAGAATTACTGGCTTCAATATACTCCACTGCAACTCAGGG
AGGTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTCAA
Found at i:47904017 original size:44 final size:45
Alignment explanation
Indices: 47903924--47904292 Score: 320
Period size: 44 Copynumber: 8.3 Consensus size: 45
47903914 TGTCTATGCA
* * * * * **
47903924 GGAAGGCAAGATCTGATATCTTTGATCTACTTCA-CGCCAATACA
1 GGAAGACAAGATCTGCTTTCTTTGATCTACTTCACCACCAGTATG
* *
47903968 TGAAGACAAGATCTGCTTTC-TTAATCTACTTCACCACCAGTATG
1 GGAAGACAAGATCTGCTTTCTTTGATCTACTTCACCACCAGTATG
* * * * **
47904012 GGAAGACAAGATCTGGTATCTTTGATCTATTTCA-CGCCAGTACA
1 GGAAGACAAGATCTGCTTTCTTTGATCTACTTCACCACCAGTATG
* * ** *
47904056 TGAAGACAAGATCTACTTT-TTCAATCTACTTCGCCACCAGTATG
1 GGAAGACAAGATCTGCTTTCTTTGATCTACTTCACCACCAGTATG
* * * **
47904100 GGAAGACAAGATCTAG-TATCTTTGATCTACTTCA-CGCCAATACA
1 GGAAGACAAGATCT-GCTTTCTTTGATCTACTTCACCACCAGTATG
* * *
47904144 TGAAGACAAGATCTACTTTCTTTGATCTGCTTCACCACCAGTATG
1 GGAAGACAAGATCTGCTTTCTTTGATCTACTTCACCACCAGTATG
* * * * * **
47904189 GGAAGGCAAGATCTGGTATCTCTGATCTACTTCA-CATCAGTACA
1 GGAAGACAAGATCTGCTTTCTTTGATCTACTTCACCACCAGTATG
* * *
47904233 TGAAGACAATATCTGCTTTCTTTGATCTGCTTCACCACCAGTATG
1 GGAAGACAAGATCTGCTTTCTTTGATCTACTTCACCACCAGTATG
* *
47904278 GGAAGGCAATATCTG
1 GGAAGACAAGATCTG
47904293 GTATTTCTGA
Statistics
Matches: 249, Mismatches: 68, Indels: 15
0.75 0.20 0.05
Matches are distributed among these distances:
43 22 0.09
44 152 0.61
45 75 0.30
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (45 bp):
GGAAGACAAGATCTGCTTTCTTTGATCTACTTCACCACCAGTATG
Found at i:47904216 original size:89 final size:89
Alignment explanation
Indices: 47903924--47904305 Score: 554
Period size: 88 Copynumber: 4.3 Consensus size: 89
47903914 TGTCTATGCA
* *
47903924 GGAAGGCAAGATCTGATATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC-
1 GGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCT
47903988 TTAATCTACTTCACCACCAGTATG
66 TTAATCTACTTCACCACCAGTATG
* * *
47904012 GGAAGACAAGATCTGGTATCTTTGATCTATTTCACGCCAGTACATGAAGACAAGATCTACTTT-T
1 GGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCT
* *
47904076 TCAATCTACTTCGCCACCAGTATG
66 TTAATCTACTTCACCACCAGTATG
* *
47904100 GGAAGACAAGATCTAGTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCT
1 GGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCT
* *
47904165 TTGATCTGCTTCACCACCAGTATG
66 TTAATCTACTTCACCACCAGTATG
* ** * * *
47904189 GGAAGGCAAGATCTGGTATCTCTGATCTACTTCACATCAGTACATGAAGACAATATCTGCTTTCT
1 GGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCT
* *
47904254 TTGATCTGCTTCACCACCAGTATG
66 TTAATCTACTTCACCACCAGTATG
*
47904278 GGAAGGCAATATCTGGTAT-TTCTGATCT
1 GGAAGGCAAGATCTGGTATCTT-TGATCT
47904306 GTTCTCTGGG
Statistics
Matches: 267, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
88 141 0.53
89 126 0.47
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (89 bp):
GGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCT
TTAATCTACTTCACCACCAGTATG
Found at i:47905419 original size:7 final size:7
Alignment explanation
Indices: 47905405--47905472 Score: 95
Period size: 7 Copynumber: 9.7 Consensus size: 7
47905395 TCCATTTTAT
47905405 TTTTTCA
1 TTTTTCA
*
47905412 TTTCTCA
1 TTTTTCA
47905419 TTTTTCA
1 TTTTTCA
47905426 TTTTTCA
1 TTTTTCA
47905433 -TTTTCA
1 TTTTTCA
47905439 TCTTTTCA
1 T-TTTTCA
47905447 TTTTTCA
1 TTTTTCA
47905454 -TTTTCA
1 TTTTTCA
47905460 TCTTTTCA
1 T-TTTTCA
47905468 TTTTT
1 TTTTT
47905473 TCACATCACT
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
6 12 0.22
7 29 0.53
8 14 0.25
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (7 bp):
TTTTTCA
Found at i:47910271 original size:18 final size:18
Alignment explanation
Indices: 47910231--47910272 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
47910221 ACAAGCATAC
* *
47910231 ATATAAAAAAAAGATAGT
1 ATATAAAAAAAAGAAACT
47910249 ATATAAAACAAAAGAAACT
1 ATATAAAA-AAAAGAAACT
47910268 -TATAA
1 ATATAA
47910273 TAATTTCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (18 bp):
ATATAAAAAAAAGAAACT
Found at i:47914525 original size:9 final size:9
Alignment explanation
Indices: 47914511--47914539 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
47914501 CTCCTAATAG
47914511 AAAAATTAA
1 AAAAATTAA
47914520 AAAAATTAA
1 AAAAATTAA
47914529 AAAAATTAA
1 AAAAATTAA
47914538 AA
1 AA
47914540 GAGATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAAATTAA
Found at i:47917515 original size:43 final size:44
Alignment explanation
Indices: 47917416--47917537 Score: 165
Period size: 43 Copynumber: 2.8 Consensus size: 44
47917406 AAGAAAAAAA
* * * *
47917416 CGCCGCTACAGATCAGGGTCTTTTGCGGCGTTTGTGGGGGAAAG
1 CGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTGTGGGCGAAAG
* * *
47917460 CGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCG-AAG
1 CGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTGTGGGCGAAAG
*
47917503 CGCCGCTAAAGATTAGGGTCTTTAGCGGCGCTTGT
1 CGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTGT
47917538 CCCTAAAACG
Statistics
Matches: 68, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
43 35 0.51
44 33 0.49
ACGTcount: A:0.17, C:0.20, G:0.34, T:0.29
Consensus pattern (44 bp):
CGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTGTGGGCGAAAG
Found at i:47917550 original size:43 final size:42
Alignment explanation
Indices: 47917412--47917557 Score: 139
Period size: 43 Copynumber: 3.4 Consensus size: 42
47917402 TTTTAAGAAA
* * * *
47917412 AAAACGCCGCTACAGATCAGGGTCTTTTGCGGCGTTTGTGGGGG
1 AAAACGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTGT--GGT
* * *
47917456 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGT
1 AAAACGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTGTGGT
* * * **
47917498 CGAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCGCTTGTCCCT
1 -AAAACGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTGT-GGT
*
47917542 AAAACGCCGCAAAAGA
1 AAAACGCCGCTAAAGA
47917558 CCCTGATCTA
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
42 2 0.02
43 48 0.57
44 34 0.40
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (42 bp):
AAAACGCCGCTAAAGATTAGGGTCTTTAGCGGCGTTTGTGGT
Found at i:47917572 original size:43 final size:43
Alignment explanation
Indices: 47917521--47917721 Score: 192
Period size: 43 Copynumber: 4.7 Consensus size: 43
47917511 AAGATTAGGG
* * *
47917521 TCTTTAGCGGCGCTTGTCCCTA-AAACGCCGCAAAAGACCCTGA
1 TCTTTAGCGGCGCTTGTACC-ACAAACGCCGCGAAAGAACCTGA
* * * *
47917564 TCTATAGCGGCGCTTCG-ACCACAAACGCCACTAAAGAACCTAA
1 TCTTTAGCGGCGCTT-GTACCACAAACGCCGCGAAAGAACCTGA
* ***
47917607 TCTTTAGCGGTGCTTACCCCACAAACGCCGCGAAAG-ACCATGA
1 TCTTTAGCGGCGCTTGTACCACAAACGCCGCGAAAGAACC-TGA
* * * * *
47917650 TCTTTAGGGGCACTTTTTCCACAAACGCCGCGAAAGAACCTTA
1 TCTTTAGCGGCGCTTGTACCACAAACGCCGCGAAAGAACCTGA
* *
47917693 TCTTTAGCGGCGCTTTTACCAAAAACGCC
1 TCTTTAGCGGCGCTTGTACCACAAACGCC
47917722 ACTAAAGGCC
Statistics
Matches: 129, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
42 4 0.03
43 121 0.94
44 4 0.03
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.21
Consensus pattern (43 bp):
TCTTTAGCGGCGCTTGTACCACAAACGCCGCGAAAGAACCTGA
Found at i:47917611 original size:86 final size:85
Alignment explanation
Indices: 47917521--47917721 Score: 231
Period size: 86 Copynumber: 2.3 Consensus size: 85
47917511 AAGATTAGGG
* * *
47917521 TCTTTAGCGGCGCTTGTCCCTAAAACGCCGCAAAAGACCCTGATCTATAGCGGCGCTTCGACCAC
1 TCTTTAGCGGCGCTT-TCCCAAAAACGCCGCAAAAGACCATGATCTATAGCGGCACTTCGACCAC
*
47917586 AAACGCCACTAAAGAACCTAA
65 AAACGCCACGAAAGAACCTAA
* * * * * * ***
47917607 TCTTTAGCGGTGCTTACCCCACAAACGCCGCGAAAGACCATGATCTTTAGGGGCACTTTTTCCAC
1 TCTTTAGCGGCGCTT-TCCCAAAAACGCCGCAAAAGACCATGATCTATAGCGGCACTTCGACCAC
* *
47917672 AAACGCCGCGAAAGAACCTTA
65 AAACGCCACGAAAGAACCTAA
*
47917693 TCTTTAGCGGCGCTTTTACCAAAAACGCC
1 TCTTTAGCGGCGC-TTTCCCAAAAACGCC
47917722 ACTAAAGGCC
Statistics
Matches: 94, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
86 92 0.98
87 2 0.02
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.21
Consensus pattern (85 bp):
TCTTTAGCGGCGCTTTCCCAAAAACGCCGCAAAAGACCATGATCTATAGCGGCACTTCGACCACA
AACGCCACGAAAGAACCTAA
Found at i:47918123 original size:21 final size:21
Alignment explanation
Indices: 47918085--47918140 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
47918075 GCAGCCTTTG
* ** *
47918085 CTTCCCTCGCTGTAACCTGTA
1 CTTCTCTCGCTGCCACCTCTA
*
47918106 CTTCTCTCGCTGCCACCTCTG
1 CTTCTCTCGCTGCCACCTCTA
*
47918127 CTTCTCTTGCTGCC
1 CTTCTCTCGCTGCC
47918141 GCATCTGCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.07, C:0.43, G:0.14, T:0.36
Consensus pattern (21 bp):
CTTCTCTCGCTGCCACCTCTA
Found at i:47918147 original size:21 final size:21
Alignment explanation
Indices: 47918106--47918150 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
47918096 GTAACCTGTA
*
47918106 CTTCTCTCGCTGCCACCTCTG
1 CTTCTCTCGCTGCCACATCTG
* *
47918127 CTTCTCTTGCTGCCGCATCTG
1 CTTCTCTCGCTGCCACATCTG
47918148 CTT
1 CTT
47918151 TAAGCTGCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.04, C:0.42, G:0.16, T:0.38
Consensus pattern (21 bp):
CTTCTCTCGCTGCCACATCTG
Found at i:47918230 original size:66 final size:66
Alignment explanation
Indices: 47918120--47918286 Score: 203
Period size: 66 Copynumber: 2.5 Consensus size: 66
47918110 TCTCGCTGCC
* * **
47918120 ACCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATA-CTTTCGTT
1 ACCTCAGCTTCTCTCGCTGTTGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATATCTTT-GTT
47918184 GA
65 GA
* * * *
47918186 ACCTCAGCTTCTCTCGCTGTTGCATTTGCTTTCAGTTG-TAGCTGGAGTTCTTCATATCTTTTTT
1 ACCTCAGCTTCTCTCGCTGTTGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATATCTTTGTT
47918250 GA
65 GA
* * *
47918252 ACCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAG
1 ACCTCAGCTTCTCTCGCTGTTGCATCTGCTTTAAG
47918287 TTGTGTGATT
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
65 1 0.01
66 81 0.94
67 4 0.05
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.41
Consensus pattern (66 bp):
ACCTCAGCTTCTCTCGCTGTTGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATATCTTTGTTG
A
Found at i:47922001 original size:9 final size:9
Alignment explanation
Indices: 47921984--47922334 Score: 118
Period size: 9 Copynumber: 41.2 Consensus size: 9
47921974 TAAGTATAAT
*
47921984 TAAGCTATG
1 TAAGTTATG
47921993 TAAGTTATG
1 TAAGTTATG
47922002 T-A-TTATG
1 TAAGTTATG
*
47922009 TAAGTTGTG
1 TAAGTTATG
47922018 T-A-TTATG
1 TAAGTTATG
*
47922025 -AA--AAT-
1 TAAGTTATG
* *
47922030 TATGCTATG
1 TAAGTTATG
47922039 TAAGTTATG
1 TAAGTTATG
* *
47922048 TAAGTCATA
1 TAAGTTATG
47922057 TAAGTTATG
1 TAAGTTATG
47922066 T-A-TTATG
1 TAAGTTATG
47922073 TAAGTTATG
1 TAAGTTATG
47922082 TAAGTTAT-
1 TAAGTTATG
*
47922090 TTA-TTATG
1 TAAGTTATG
* * *
47922098 AAAATTAAG
1 TAAGTTATG
47922107 TAAGTTATG
1 TAAGTTATG
* *
47922116 TAATTTACG
1 TAAGTTATG
*
47922125 -AA-TAAT-
1 TAAGTTATG
***
47922131 TAAAAAAATG
1 T-AAGTTATG
47922141 TAAGTTATG
1 TAAGTTATG
47922150 TAAG-T-TG
1 TAAGTTATG
47922157 TAAGTTATG
1 TAAGTTATG
47922166 TAAGTTATG
1 TAAGTTATG
*
47922175 TATA-ATAT-
1 TA-AGTTATG
**
47922183 TAA-TTAAC
1 TAAGTTATG
47922191 TAAGTTATG
1 TAAGTTATG
*
47922200 TAATTTATG
1 TAAGTTATG
*
47922209 TATA-ATAT-
1 TA-AGTTATG
47922217 TAA-TTAAT-
1 TAAGTT-ATG
47922225 TAAGTTATG
1 TAAGTTATG
* *
47922234 TAATTTATATA
1 TAA-GT-TATG
*
47922245 TAATATTAATG
1 TAA-GTT-ATG
47922256 TAAGTTATG
1 TAAGTTATG
47922265 TATA-TTAT-
1 TA-AGTTATG
47922273 TAA-TTAAT-
1 TAAGTT-ATG
47922281 TAAGTTATG
1 TAAGTTATG
*
47922290 TAATTTATG
1 TAAGTTATG
*
47922299 TATA-ATAT-
1 TA-AGTTATG
47922307 TAA-TTAAT-
1 TAAGTT-ATG
47922315 TAAGTTATG
1 TAAGTTATG
*
47922324 TAATTTATG
1 TAAGTTATG
47922333 TA
1 TA
47922335 TAATATTAAT
Statistics
Matches: 263, Mismatches: 44, Indels: 70
0.70 0.12 0.19
Matches are distributed among these distances:
6 3 0.01
7 39 0.15
8 48 0.18
9 151 0.57
10 9 0.03
11 13 0.05
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:47922073 original size:25 final size:25
Alignment explanation
Indices: 47922043--47922097 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
47922033 GCTATGTAAG
47922043 TTATGTAAGTCATATAAGTTATGTA
1 TTATGTAAGTCATATAAGTTATGTA
* * *
47922068 TTATGTAAGTTATGTAAGTTATTTA
1 TTATGTAAGTCATATAAGTTATGTA
47922093 TTATG
1 TTATG
47922098 AAAATTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (25 bp):
TTATGTAAGTCATATAAGTTATGTA
Found at i:47922097 original size:16 final size:16
Alignment explanation
Indices: 47921989--47922083 Score: 104
Period size: 16 Copynumber: 5.9 Consensus size: 16
47921979 ATAATTAAGC
47921989 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
47922005 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
47922021 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
47922035 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
47922053 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
47922069 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
47922084 AGTTATTTAT
Statistics
Matches: 63, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
14 11 0.17
16 39 0.62
17 1 0.02
18 12 0.19
ACGTcount: A:0.34, C:0.02, G:0.19, T:0.45
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:47922109 original size:25 final size:25
Alignment explanation
Indices: 47922057--47922117 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
47922047 GTAAGTCATA
* * *
47922057 TAAGTTATGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGAAAATTAAG
*
47922082 TAAGTTATTTATTATGAAAATTAAG
1 TAAGTTATGTATTATGAAAATTAAG
47922107 TAAGTTATGTA
1 TAAGTTATGTA
47922118 ATTTACGAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (25 bp):
TAAGTTATGTATTATGAAAATTAAG
Found at i:47922110 original size:34 final size:34
Alignment explanation
Indices: 47922004--47922118 Score: 99
Period size: 34 Copynumber: 3.2 Consensus size: 34
47921994 AAGTTATGTA
* *
47922004 TTATGTAAGTTGTGTATTATGAAAATTATGCTATGTAAG
1 TTATGTAAGTTATTTATTATGAAAATTA----A-GTAAG
* * * *
47922043 TTATGTAAGTCATATAAGTTATG--TATTATGTAAG
1 TTATGTAAGTTAT-TTA-TTATGAAAATTAAGTAAG
47922077 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
1 TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
47922111 TTATGTAA
1 TTATGTAA
47922119 TTTACGAATA
Statistics
Matches: 62, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
32 5 0.08
33 2 0.03
34 34 0.55
39 15 0.24
40 1 0.02
41 5 0.08
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (34 bp):
TTATGTAAGTTATTTATTATGAAAATTAAGTAAG
Found at i:47922160 original size:16 final size:16
Alignment explanation
Indices: 47922139--47922171 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
47922129 ATTAAAAAAA
47922139 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
47922155 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
47922171 T
1 T
47922172 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:47922166 original size:25 final size:25
Alignment explanation
Indices: 47922035--47922176 Score: 80
Period size: 25 Copynumber: 5.6 Consensus size: 25
47922025 AAAATTATGC
*
47922035 TATGTAAGTTATGTAAGTCATATAAGT
1 TATGTAAGTTATGTAAGT--TGTAAGT
47922062 TATGT-A-TTATGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAG-T-TGTAAGT
* * *
47922087 TAT-TTA-TTATGAAAATTAAGTAAGT
1 TATGTAAGTTATGTAAGTT--GTAAGT
* * * **
47922112 TATGTAATTTACGAATAA-TT-AAAAA
1 TATGTAAGTTATG--TAAGTTGTAAGT
*
47922137 AATGTAAGTTATGTAAGTTGTAAGT
1 TATGTAAGTTATGTAAGTTGTAAGT
47922162 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
47922177 TAATATTAAT
Statistics
Matches: 89, Mismatches: 16, Indels: 22
0.70 0.13 0.17
Matches are distributed among these distances:
23 4 0.04
24 4 0.04
25 64 0.72
26 4 0.04
27 9 0.10
28 2 0.02
29 2 0.02
ACGTcount: A:0.39, C:0.01, G:0.17, T:0.42
Consensus pattern (25 bp):
TATGTAAGTTATGTAAGTTGTAAGT
Found at i:47922176 original size:34 final size:33
Alignment explanation
Indices: 47922035--47922176 Score: 96
Period size: 34 Copynumber: 4.2 Consensus size: 33
47922025 AAAATTATGC
47922035 TATGTAAGTTATGTAAGTCATATAAGTTATGT--AT
1 TATGTAAGTTATGTAAGT--T-TAAGTTATGTAAAT
* *
47922069 TATGTAAGTTATGTAAGTTATTTA-TTATGAAAAT
1 TATGTAAGTTATGTAAG-T-TTAAGTTATGTAAAT
* * * *
47922103 TAAGTAAGTTATGTAA-TTTACGAATAAT-TAAAAA
1 TATGTAAGTTATGTAAGTTTA--AGTTATGT-AAAT
* *
47922137 AATGTAAGTTATGTAAGTTGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAGTT-TAAGTTATGTAAAT
47922171 TATGTA
1 TATGTA
47922177 TAATATTAAT
Statistics
Matches: 84, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
31 2 0.02
32 6 0.07
33 3 0.04
34 67 0.80
35 4 0.05
36 2 0.02
ACGTcount: A:0.39, C:0.01, G:0.17, T:0.42
Consensus pattern (33 bp):
TATGTAAGTTATGTAAGTTTAAGTTATGTAAAT
Found at i:47922195 original size:34 final size:34
Alignment explanation
Indices: 47922157--47922344 Score: 195
Period size: 34 Copynumber: 5.9 Consensus size: 34
47922147 ATGTAAGTTG
* *
47922157 TAAGTTATGTAAGTTATGTATAATATTAATTAAC
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
47922191 TAAGTTATGTAATTTATGTATAATATTAATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
* *
47922225 TAAGTTATGTAATTTATATATAATATTAA-T--G
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
*
47922256 TAAGTTATGT-A--TAT-TATTA-ATTAATTAAGT
1 TAAGTTATGTAATTTATGTATAATATTAATTAA-T
* * * *
47922286 TATGTAAT-TTATGTA--T--AATATTAATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
47922315 TAAGTTATGTAATTTATGTATAATATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAAT
47922345 GTAAGTTATG
Statistics
Matches: 128, Mismatches: 13, Indels: 26
0.77 0.08 0.16
Matches are distributed among these distances:
26 5 0.04
27 5 0.04
28 3 0.02
29 9 0.07
30 22 0.17
31 11 0.09
32 3 0.02
33 1 0.01
34 69 0.54
ACGTcount: A:0.41, C:0.01, G:0.10, T:0.49
Consensus pattern (34 bp):
TAAGTTATGTAATTTATGTATAATATTAATTAAT
Found at i:47922263 original size:22 final size:22
Alignment explanation
Indices: 47922231--47922276 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
47922221 TAATTAAGTT
*
47922231 ATGTAATTTATATATAATATTA
1 ATGTAAGTTATATATAATATTA
* *
47922253 ATGTAAGTTATGTATATTATTA
1 ATGTAAGTTATATATAATATTA
47922275 AT
1 AT
47922277 TAATTAAGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (22 bp):
ATGTAAGTTATATATAATATTA
Found at i:47922274 original size:56 final size:57
Alignment explanation
Indices: 47922197--47922800 Score: 348
Period size: 56 Copynumber: 10.0 Consensus size: 57
47922187 TAACTAAGTT
* * *
47922197 ATGTAATTTATGTATAATATTAATTAAT-TAAGTTATGTAATTTATATATAATATTA
1 ATGTAAGTTATGTATATTATTAATTAATGTAAGTTATGTAATTTATGTATAATATTA
47922253 ATGTAAGTTATGTATATTATTAATTAAT-TAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATATTATTAATTAATGTAAGTTATGTAATTTATGTATAATATTA
* * *
47922309 ATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAAT-TA-ATT
1 A-T--GTAAGTTATGT-A--TAT-TATTA-ATTAATGTAAGTTATG--TAAT-TT-ATGTATAAT
* *
47922372 ACGTT
54 A-TTA
* * *
47922377 ATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATATTATTAATTAA-T--GTAAGTTATGTAATTTATGTATAATATTA
* ** * *
47922437 ATGTAAGTTATGTATAATATCCA-TAATTTAAGTTGTGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATATTATTAATTAATGTAAGTTATGTAATTTATGTATAATATTA
* * *
47922493 AT-TAA-TTAAT-TA-AGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTA
1 ATGTAAGTT-ATGTATA-TTAT-TAATTAATG--TAA-GTT-ATGTAATTTATGTATAATATTA
* * *
47922553 ATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTAATTTATGTATATTAATT
1 A-T--GTAAGTTATGT-A--TAT-TATTA-ATTAATGTAAGTTATGTAATTTATGTATAAT-ATT
47922618 A
57 A
* * *
47922619 AT-TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT-A--TA-ATATTA-ATTA
1 ATGTAAGTTATGT-A--TAT-TATTA-ATTAATGTAAGTTATGTAATTTATGTATAATATTA
* *
47922675 AT-TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATATTAAT-TA-ATTACG
1 ATGTAAGTTATGT-A--TAT-TATTA-ATTAATGTAAGTTATG--TAAT-TT-ATGTATAATA--
47922737 TT-
55 TTA
*
47922739 ATGTAATTTATGTATAATATTAATTAATTAAT-TAAGTTATGTAATTTATGTATAATATTA
1 ATGTAAGTTATG--T-ATATT-ATTAATTAATGTAAGTTATGTAATTTATGTATAATATTA
47922799 AT
1 AT
47922801 TAATTGAAAA
Statistics
Matches: 449, Mismatches: 41, Indels: 112
0.75 0.07 0.19
Matches are distributed among these distances:
53 1 0.00
54 7 0.02
55 6 0.01
56 133 0.30
57 1 0.00
58 8 0.02
59 24 0.05
60 58 0.13
61 21 0.05
62 47 0.10
63 26 0.06
64 21 0.05
65 54 0.12
66 8 0.02
67 14 0.03
68 8 0.02
69 12 0.03
ACGTcount: A:0.40, C:0.01, G:0.10, T:0.49
Consensus pattern (57 bp):
ATGTAAGTTATGTATATTATTAATTAATGTAAGTTATGTAATTTATGTATAATATTA
Found at i:47922353 original size:22 final size:22
Alignment explanation
Indices: 47922321--47922366 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
47922311 TAATTAAGTT
* *
47922321 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATATATAATATTA
*
47922343 ATGTAAGTTATGTATAATATTA
1 ATGTAAGTTATATATAATATTA
47922365 AT
1 AT
47922367 TAATTACGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATATATAATATTA
Found at i:47922432 original size:94 final size:94
Alignment explanation
Indices: 47922163--47922800 Score: 934
Period size: 94 Copynumber: 7.0 Consensus size: 94
47922153 GTTGTAAGTT
*
47922163 ATGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTAT-A-A-T-ATTAATTAA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATTAATTAA
*
47922224 TTAAGTTATGTAATTTATATATAATATTA
66 TTAAGTTATGTAATTTATGTATAATATTA
*
47922253 ATGTAAGTTATGTATATTATTAATTAATTAAGTTATGTAATTTATGTAT-A-A-T-ATTAATTAA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATTAATTAA
47922314 TTAAGTTATGTAATTTATGTATAATATTA
66 TTAAGTTATGTAATTTATGTATAATATTA
*
47922343 ATGTAAGTTATGTATAATATTAATTAATTACGTTATGTAATTTATGTATAATATTAATTAATTAA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATTAATTAA
47922408 TTAAGTTATGTAATTTATGTATAATATTA
66 TTAAGTTATGTAATTTATGTATAATATTA
** *
47922437 ATGTAAGTTATGTATAATATCCA-TAATTTAAGTTGTGTAATTTATGTATAATATTAATTAATTA
1 ATGTAAGTTATGTATAATATTAATTAA-TTAAGTTATGTAATTTATGTATAATATTAATTAATTA
47922501 ATTAAGTTATGTAATTTATGTATAATATTA
65 ATTAAGTTATGTAATTTATGTATAATATTA
47922531 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTAT-A-A-T-ATTAA-T--
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATTAATTAA
* *
47922589 GTAAGTTATGTAATTTATGTATATTAATTA
66 TTAAGTTATGTAATTTATGTATAAT-ATTA
* *
47922619 AT-TAAGTTATG--TAAT-TT-ATGT-A-TAATATTAATGTAAGTTATGTATAATATTAA-T---
1 ATGTAAGTTATGTATAATATTAAT-TAATTAA-GTT-ATGTAATTTATGTATAATATTAATTAAT
47922673 TAATTAAGTTATGTAATTTATGTATAATATTA
63 TAATTAAGTTATGTAATTTATGTATAATATTA
*
47922705 ATGTAAGTTATGTATAATATTAATTAATTACGTTATGTAATTTATGTATAATATTAATTAATTAA
1 ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATTAATTAA
47922770 TTAAGTTATGTAATTTATGTATAATATTA
66 TTAAGTTATGTAATTTATGTATAATATTA
47922799 AT
1 AT
47922801 TAATTGAAAA
Statistics
Matches: 500, Mismatches: 21, Indels: 50
0.88 0.04 0.09
Matches are distributed among these distances:
82 3 0.01
83 5 0.01
84 17 0.03
85 6 0.01
86 7 0.01
87 66 0.13
88 7 0.01
89 5 0.01
90 164 0.33
91 8 0.02
92 4 0.01
93 5 0.01
94 200 0.40
95 3 0.01
ACGTcount: A:0.40, C:0.01, G:0.10, T:0.49
Consensus pattern (94 bp):
ATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATTAATTAA
TTAAGTTATGTAATTTATGTATAATATTA
Found at i:47922590 original size:22 final size:22
Alignment explanation
Indices: 47922565--47922677 Score: 107
Period size: 22 Copynumber: 5.4 Consensus size: 22
47922555 TAATTAAGTT
47922565 ATGTAATTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
*
47922587 ATGTAAGTTATG--TAAT-TT-
1 ATGTAATTTATGTATAATATTA
* *
47922605 ATGTATATTAAT-TAATTAA-GTT-
1 ATGTA-ATTTATGT-A-TAATATTA
47922627 ATGTAATTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
*
47922649 ATGTAAGTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
47922671 AT-TAATT
1 ATGTAATT
47922678 AAGTTATGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 19
0.74 0.07 0.19
Matches are distributed among these distances:
18 5 0.07
19 6 0.08
20 7 0.09
21 12 0.16
22 45 0.60
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
ATGTAATTTATGTATAATATTA
Found at i:47922708 original size:22 final size:22
Alignment explanation
Indices: 47922683--47922733 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
47922673 TAATTAAGTT
47922683 ATGTAATTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
*
47922705 ATGTAAGTTATGTATAATATTA
1 ATGTAATTTATGTATAATATTA
47922727 AT-TAATT
1 ATGTAATT
47922734 ACGTTATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
ATGTAATTTATGTATAATATTA
Found at i:47923397 original size:134 final size:134
Alignment explanation
Indices: 47923157--47923401 Score: 472
Period size: 134 Copynumber: 1.8 Consensus size: 134
47923147 TACGTGGAGA
47923157 AAAATTACTTTCAACAATTTTTACTGCAACATGGAGAAAAATTTAAAAATATATAAAGAAGGAAG
1 AAAATTACTTTCAACAATTTTTACTGCAACATGGAGAAAAATTTAAAAATATATAAAGAAGGAAG
47923222 AGCAGCTAAAGCATTTACCTGTAGATGCAGTTTTATACTAAATTACAGAGCTAATTACATAGTTC
66 AGCAGCTAAAGCATTTACCTGTAGATGCAGTTTTATACTAAATTACAGAGCTAATTACATAGTTC
47923287 TAAG
131 TAAG
*
47923291 AAAATTACTTTCAACAATTTTTATTGCAACATGGAGAAAAATTTAAAAATATATAAAGAAGGAAG
1 AAAATTACTTTCAACAATTTTTACTGCAACATGGAGAAAAATTTAAAAATATATAAAGAAGGAAG
*
47923356 AGCAGCTAAAGCATTTCCCTGTAGATGCAGTTTTATACTAAATTAC
66 AGCAGCTAAAGCATTTACCTGTAGATGCAGTTTTATACTAAATTAC
47923402 TCCAAAGCCT
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 109 1.00
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (134 bp):
AAAATTACTTTCAACAATTTTTACTGCAACATGGAGAAAAATTTAAAAATATATAAAGAAGGAAG
AGCAGCTAAAGCATTTACCTGTAGATGCAGTTTTATACTAAATTACAGAGCTAATTACATAGTTC
TAAG
Found at i:47924848 original size:12 final size:12
Alignment explanation
Indices: 47924805--47924848 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
47924795 TAAATTTTAG
47924805 ATTTTTT-TTTC
1 ATTTTTTATTTC
* *
47924816 ATTTTTTGTTTT
1 ATTTTTTATTTC
47924828 ATTTTTTATTTC
1 ATTTTTTATTTC
*
47924840 ATTTCTTAT
1 ATTTTTTAT
47924849 GTATTTGGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 7 0.25
12 21 0.75
ACGTcount: A:0.14, C:0.07, G:0.02, T:0.77
Consensus pattern (12 bp):
ATTTTTTATTTC
Found at i:47925476 original size:7 final size:7
Alignment explanation
Indices: 47925464--47925493 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
47925454 CAAATCCATA
47925464 ACCCCTT
1 ACCCCTT
47925471 ACCCCTT
1 ACCCCTT
47925478 ACCCCTT
1 ACCCCTT
47925485 ACCCCTT
1 ACCCCTT
47925492 AC
1 AC
47925494 ACCTAAATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.17, C:0.57, G:0.00, T:0.27
Consensus pattern (7 bp):
ACCCCTT
Found at i:47925512 original size:7 final size:7
Alignment explanation
Indices: 47925462--47925553 Score: 58
Period size: 7 Copynumber: 12.4 Consensus size: 7
47925452 TCCAAATCCA
47925462 TAACCCC
1 TAACCCC
*
47925469 TTACCCC
1 TAACCCC
*
47925476 TTACCCC
1 TAACCCC
*
47925483 TTACCCC
1 TAACCCC
* *
47925490 TTACACC
1 TAACCCC
47925497 TAAATCCCC
1 T-AA-CCCC
47925506 TAACCCC
1 TAACCCC
** *
47925513 TAAAGCA
1 TAACCCC
*
47925520 TAACCCT
1 TAACCCC
47925527 TAACCCC
1 TAACCCC
47925534 TAAATCCCTC
1 T-AA-CCC-C
47925544 TAACCCC
1 TAACCCC
47925551 TAA
1 TAA
47925554 ACATTAAATT
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
7 50 0.72
8 8 0.12
9 9 0.13
10 2 0.03
ACGTcount: A:0.29, C:0.47, G:0.01, T:0.23
Consensus pattern (7 bp):
TAACCCC
Found at i:47926274 original size:15 final size:15
Alignment explanation
Indices: 47926254--47926292 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
47926244 ACCGTTGAAA
47926254 CCCTAAATTTCAAAC
1 CCCTAAATTTCAAAC
** *
47926269 CCCTAAACCTCTAAC
1 CCCTAAATTTCAAAC
47926284 CCCTAAATT
1 CCCTAAATT
47926293 AACCTTAAAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.26
Consensus pattern (15 bp):
CCCTAAATTTCAAAC
Found at i:47926889 original size:41 final size:41
Alignment explanation
Indices: 47926820--47927040 Score: 196
Period size: 41 Copynumber: 5.4 Consensus size: 41
47926810 GCGTTTCGGC
* * * *
47926820 AAAAACGCCGCTAAAGGT-AAATACATTAGCGGCGCTTAGCT
1 AAAAACGCCGCTAAAGATCAGAGA-ATTAGCGGCGCTTAGAT
* * * * *
47926861 ACAAACGCCGCTGAAGA-CAAGAGAATTAGTGGCGCTAAGTT
1 AAAAACGCCGCTAAAGATC-AGAGAATTAGCGGCGCTTAGAT
* * * *
47926902 AAAAATGCCGCTAAAGATCCGAGCATTAGCGGCGCTTATAT
1 AAAAACGCCGCTAAAGATCAGAGAATTAGCGGCGCTTAGAT
* ** * *
47926943 AAAAACGCCGCCAAAGGCCAGAGCATTAGTGGCG-TTCAGAT
1 AAAAACGCCGCTAAAGATCAGAGAATTAGCGGCGCTT-AGAT
* * * *
47926984 AAAAACGCCGCGAAAGATCTGAGAATAAGCGGCGCTTATAT
1 AAAAACGCCGCTAAAGATCAGAGAATTAGCGGCGCTTAGAT
47927025 AAAAACGCCGCTAAAG
1 AAAAACGCCGCTAAAG
47927041 GTTTAAAAAT
Statistics
Matches: 142, Mismatches: 33, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
40 2 0.01
41 134 0.94
42 6 0.04
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGATCAGAGAATTAGCGGCGCTTAGAT
Found at i:47926949 original size:82 final size:82
Alignment explanation
Indices: 47926843--47927040 Score: 252
Period size: 82 Copynumber: 2.4 Consensus size: 82
47926833 AAGGTAAATA
** * * * *
47926843 CATTAGCGGCGCTTAGCTACAAACGCCGCTGAAGACAAGAGAATTAGTGGCGCTAAGTTAAAAAT
1 CATTAGCGGCGCTTATATAAAAACGCCGCTAAAGACAAGAGAATTAGTGGCGCTAAGATAAAAAC
*
47926908 GCCGCTAAAGATCCGAG
66 GCCGCGAAAGATCCGAG
* * * * * *
47926925 CATTAGCGGCGCTTATATAAAAACGCCGCCAAAGGCCAGAGCATTAGTGGCGTTCAGATAAAAAC
1 CATTAGCGGCGCTTATATAAAAACGCCGCTAAAGACAAGAGAATTAGTGGCGCTAAGATAAAAAC
*
47926990 GCCGCGAAAGATCTGAG
66 GCCGCGAAAGATCCGAG
* *
47927007 AATAAGCGGCGCTTATATAAAAACGCCGCTAAAG
1 CATTAGCGGCGCTTATATAAAAACGCCGCTAAAG
47927041 GTTTAAAAAT
Statistics
Matches: 99, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
82 99 1.00
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (82 bp):
CATTAGCGGCGCTTATATAAAAACGCCGCTAAAGACAAGAGAATTAGTGGCGCTAAGATAAAAAC
GCCGCGAAAGATCCGAG
Found at i:47928177 original size:13 final size:13
Alignment explanation
Indices: 47928159--47928183 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47928149 CCCAATTGGT
47928159 AATTGAACTTGAA
1 AATTGAACTTGAA
47928172 AATTGAACTTGA
1 AATTGAACTTGA
47928184 GATCGTAAAT
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:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (13 bp):
AATTGAACTTGAA
Found at i:47928457 original size:26 final size:26
Alignment explanation
Indices: 47928421--47928472 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
47928411 TTGATGATTG
47928421 AGTGGTGGAAGAATTACACTCCTACT
1 AGTGGTGGAAGAATTACACTCCTACT
47928447 AGTGGTGGAAGAATTACACTCCTACT
1 AGTGGTGGAAGAATTACACTCCTACT
47928473 TGGACTCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (26 bp):
AGTGGTGGAAGAATTACACTCCTACT
Found at i:47932588 original size:88 final size:89
Alignment explanation
Indices: 47932483--47932871 Score: 226
Period size: 88 Copynumber: 4.4 Consensus size: 89
47932473 TATCTCCCTA
* *
47932483 AGTGGAGA-AGATTGAAGATGGCAAATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAGCC
1 AGTGGA-ATAGATTGAAGATGGCAGATTTTATCTCCCTGTGATTACAGTGGAGTACATTGAAGCC
47932547 AATA-ATTCTATCTCCCTGGTTGGC
65 AATAGATTCTATCTCCCTGGTTGGC
** ** * * * * **
47932571 AGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGCA--ATAGTGGAGCAGATCGAAGAT
1 AGTGGAATAGATTGAAGATGGCAGATTTTATCTCCCTGTG-ATTACAGTGGAGTACATTGAAGCC
*** * * *
47932634 GGCAGATTTTACCTCCCTGTGGTT-AC
65 AATAGATTCTATCTCCC--TGGTTGGC
* * * ***** ** * * *
47932660 AGTAGAGTACATTGAAGCCAATA-ATTCCATCTCCCTG-G-TTGGCAGTGGAATAAATTGAAG--
1 AGTGGAATAGATTGAAGATGGCAGATTTTATCTCCCTGTGATT-ACAGTGGAGTACATTGAAGCC
* * * ** *
47932720 ATTTCAGATTTTATCTCCCTAAG-CAGT
65 A-AT-AGATTCTATCTCCCT-GGTTGGC
** * * *
47932747 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAATAGATTGAAGATGGCAGATTTTATCTCCCTGTGATTACAGTGGAGTACATTGAAGCCA
47932812 ATA-ATTCTATCTCCCTGGTTGGC
66 ATAGATTCTATCTCCCTGGTTGGC
**
47932835 AGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCT
1 AGTGGAATAGATTGAAGATGGCAGATTTTATCTCCCT
47932872 AAGCAATAGT
Statistics
Matches: 213, Mismatches: 70, Indels: 36
0.67 0.22 0.11
Matches are distributed among these distances:
86 1 0.00
87 34 0.16
88 134 0.63
89 35 0.16
90 8 0.04
91 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (89 bp):
AGTGGAATAGATTGAAGATGGCAGATTTTATCTCCCTGTGATTACAGTGGAGTACATTGAAGCCA
ATAGATTCTATCTCCCTGGTTGGC
Found at i:47932603 original size:44 final size:44
Alignment explanation
Indices: 47932452--47933267 Score: 183
Period size: 44 Copynumber: 18.7 Consensus size: 44
47932442 AGCAGTAAAA
* *
47932452 TAGATTGAAGATTTCAGATCTTATCTCCC----T--AAGTGGAG
1 TAGATTGAAGATTTCAGATTTTATCTCCCTGGTTGGCAGTGGAG
* ** * * *
47932490 AAGATTGAAGATGGCAAATTTTACCTCCCTGTGATT-ACAGTGGAG
1 TAGATTGAAGATTTCAGATTTTATCTCCCTG-G-TTGGCAGTGGAG
* * * *
47932535 TACATTGAAGCCA-AT-A-ATTCTATCTCCCTGGTTGGCAGTGGAA
1 TAGATTGAAG--ATTTCAGATTTTATCTCCCTGGTTGGCAGTGGAG
* ****
47932578 TAGATTGAAGATTTCAGATTTTATCTCCCTAAG-CAATAGTGGAG
1 TAGATTGAAGATTTCAGATTTTATCTCCCT-GGTTGGCAGTGGAG
* * ** * * *
47932622 CAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTT-ACAGTAGAG
1 TAGATTGAAGATTTCAGATTTTATCTCCC--TGGTTGGCAGTGGAG
* * ** *
47932667 TACATTGAAGCCA-AT-A-ATTCCATCTCCCTGGTTGGCAGTGGAA
1 TAGATTGAAG--ATTTCAGATTTTATCTCCCTGGTTGGCAGTGGAG
* * ** *
47932710 TAAATTGAAGATTTCAGATTTTATCTCCCTAAG-CAGTAGTGGAG
1 TAGATTGAAGATTTCAGATTTTATCTCCCT-GGTTGGCAGTGGAG
* * ** * *
47932754 CAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTT-ACAGTGGAG
1 TAGATTGAAGATTTCAGATTTTATCTCCC--TGGTTGGCAGTGGAG
* * * *
47932799 TACATTGAAGCCA-AT-A-ATTCTATCTCCCTGGTTGGCAGTGGAA
1 TAGATTGAAG--ATTTCAGATTTTATCTCCCTGGTTGGCAGTGGAG
* ****
47932842 TAGATTGAAGATTTCAGATTTTATCTCCCTAAG-CAATAGTGGAG
1 TAGATTGAAGATTTCAGATTTTATCTCCCT-GGTTGGCAGTGGAG
* * * * * *
47932886 CAGATCGAAGATGGT-AGATTTTACCTCCATGTGGTT-ACAGTGGAG
1 TAGATTGAAGAT-TTCAGATTTTATCTCC--CTGGTTGGCAGTGGAG
* * ** *** *
47932931 TACATTGAAGCCA-AT-A-ATTCCATCTCCCTGGGCAGCAGTGGAA
1 TAGATTGAAG--ATTTCAGATTTTATCTCCCTGGTTGGCAGTGGAG
* * * ** *
47932974 TAGAATGAAGATTACAGATTTTATCTCCCTAAG-CAGTAGTGGAG
1 TAGATTGAAGATTTCAGATTTTATCTCCCT-GGTTGGCAGTGGAG
* * ** * *
47933018 CAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTT-ACAGTGGAG
1 TAGATTGAAGATTTCAGATTTTATCTCCC--TGGTTGGCAGTGGAG
* * * *** *
47933063 TATATTGAAGCCA-AT-A-ATTCTATCTCCCTGGGCAGCAGTGGAA
1 TAGATTGAAG--ATTTCAGATTTTATCTCCCTGGTTGGCAGTGGAG
* * * * **** *
47933106 TAGATTGAAGATTACATATATTATCTCCCTAAG-CAATAGTGGAA
1 TAGATTGAAGATTTCAGATTTTATCTCCCT-GGTTGGCAGTGGAG
* * ** * **
47933150 CAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTT-ATAGTGGAG
1 TAGATTGAAGATTTCAGATTTTATCTCCC--TGGTTGGCAGTGGAG
* * * *
47933195 TACATTGAAG---CCAGTAATTCTATCTCCCTGGTTGGCAGTGGAA
1 TAGATTGAAGATTTCAG--ATTTTATCTCCCTGGTTGGCAGTGGAG
*
47933238 TAGATTGAAGATTTCAGATCTTATCTCCCT
1 TAGATTGAAGATTTCAGATTTTATCTCCCT
47933268 AAGCAGTAGT
Statistics
Matches: 552, Mismatches: 162, Indels: 122
0.66 0.19 0.15
Matches are distributed among these distances:
38 23 0.04
41 5 0.01
42 29 0.05
43 99 0.18
44 279 0.51
45 104 0.19
46 8 0.01
47 5 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (44 bp):
TAGATTGAAGATTTCAGATTTTATCTCCCTGGTTGGCAGTGGAG
Found at i:47932681 original size:132 final size:132
Alignment explanation
Indices: 47932421--47933354 Score: 1450
Period size: 132 Copynumber: 7.1 Consensus size: 132
47932411 CTGGGAAGAT
*** ** *
47932421 AATAATTCTATCTCCCTGGGCAGCAGTAAAATAGATTGAAGATTTCAGATCTTATCTCCCT----
1 AATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGC
* * * *
47932482 -A-AGTGGAGAAGATTGAAGATGGCAAATTTTACCTCCCTGTGATTACAGTGGAGTACATTGAAG
66 AATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
47932545 CC
131 CC
47932547 AATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGC
1 AATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGC
*
47932612 AATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTAGAGTACATTGAAG
66 AATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
47932677 CC
131 CC
* *
47932679 AATAATTCCATCTCCCTGGTTGGCAGTGGAATAAATTGAAGATTTCAGATTTTATCTCCCTAAGC
1 AATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGC
*
47932744 AGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
66 AATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
47932809 CC
131 CC
47932811 AATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGC
1 AATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGC
* *
47932876 AATAGTGGAGCAGATCGAAGATGGTAGATTTTACCTCCATGTGGTTACAGTGGAGTACATTGAAG
66 AATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
47932941 CC
131 CC
* *** * *
47932943 AATAATTCCATCTCCCTGGGCAGCAGTGGAATAGAATGAAGATTACAGATTTTATCTCCCTAAGC
1 AATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGC
* *
47933008 AGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTATATTGAAG
66 AATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
47933073 CC
131 CC
*** * * *
47933075 AATAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACATATATTATCTCCCTAAGC
1 AATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGC
* *
47933140 AATAGTGGAACAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAG
66 AATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
47933205 CC
131 CC
* *
47933207 AGTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGC
1 AATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGC
* * * **
47933272 AGTAGTGGAGTAGATCGAAGATGG-AGAATTTTACCTCCCTATGACTACAGTGGAGTACATTGAA
66 AATAGTGGAGCAGATCGAAGATGGCAG-ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAA
47933336 GCC
130 GCC
*
47933339 AGTAATTCTATCTCCC
1 AATAATTCTATCTCCC
47933355 CGACATTGCG
Statistics
Matches: 749, Mismatches: 52, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
126 55 0.07
131 3 0.00
132 691 0.92
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (132 bp):
AATAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGC
AATAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAG
CC
Found at i:47933046 original size:88 final size:88
Alignment explanation
Indices: 47932954--47933311 Score: 215
Period size: 88 Copynumber: 4.1 Consensus size: 88
47932944 ATAATTCCAT
*
47932954 CTCCCTGGGCAGCAGTGGAATAGAATGAAGATTACAGATTTTATCTCCCTAAGCAGTAGTGGAGC
1 CTCCCTGGGCAGCAGTGGAATAGAATGAAGATTACAGATTTTATCTCCCTAAGCAGTAGTGGAGT
47933019 AGATCGAAGATGGCAGATTTTAC
66 AGATCGAAGATGGCAGATTTTAC
* * * * *** * * ** *
47933042 CTCCCTGTGGTTA-CAGTGGAGTATATTGAAGCCAATA-ATTCTATCTCCCTGGGCAGCAGTGGA
1 CTCCCTG-GG-CAGCAGTGGAATAGAATGAAGATTACAGATTTTATCTCCCTAAGCAGTAGTGGA
* * ** * * *
47933105 ATAGATTGAAGATTACATATATTAT
64 GTAGATCGAAGATGGCAGATTTTAC
** ** * ** * ** *
47933130 CTCCCTAAGCAATAGTGGAACAG-ATCGAAGATGGCAGATTTTACCTCCCTGTGGTTA-TAGTGG
1 CTCCCTGGGCAGCAGTGGAATAGAAT-GAAGATTACAGATTTTATCTCCCT-AAG-CAGTAGTGG
* * *** * * *
47933193 AGTACATTGAAGCCAGTA-ATTCTAT
63 AGTAGATCGAAGATGGCAGATTTTAC
*** * * *
47933218 CTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGT
1 CTCCCTGGGCAGCAGTGGAATAGAATGAAGATTACAGATTTTATCTCCCTAAGCAGTAGTGGAGT
47933283 AGATCGAAGATGG-AGAATTTTAC
66 AGATCGAAGATGGCAG-ATTTTAC
47933306 CTCCCT
1 CTCCCT
47933312 ATGACTACAG
Statistics
Matches: 189, Mismatches: 70, Indels: 22
0.67 0.25 0.08
Matches are distributed among these distances:
86 4 0.02
87 31 0.16
88 114 0.60
89 38 0.20
90 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (88 bp):
CTCCCTGGGCAGCAGTGGAATAGAATGAAGATTACAGATTTTATCTCCCTAAGCAGTAGTGGAGT
AGATCGAAGATGGCAGATTTTAC
Found at i:47935583 original size:10 final size:9
Alignment explanation
Indices: 47935568--47935608 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
47935558 AGGTTGTTGC
47935568 TTTTTTTTA
1 TTTTTTTTA
*
47935577 TTTTTTTCA
1 TTTTTTTTA
*
47935586 TTCTTTTTA
1 TTTTTTTTA
47935595 TTTTATTTTA
1 TTTT-TTTTA
47935605 TTTT
1 TTTT
47935609 CCTATTTTCG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
9 18 0.67
10 9 0.33
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:47936309 original size:3 final size:3
Alignment explanation
Indices: 47936301--47936340 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
47936291 AAGTTAGTGC
* *
47936301 TAT TAT TAT TAT TAT TAT TATT TAA TAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
47936341 CATCATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:47937090 original size:15 final size:15
Alignment explanation
Indices: 47937072--47937102 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47937062 TTATTATTCG
*
47937072 TTTTTGTTCATATTA
1 TTTTTGTTCACATTA
47937087 TTTTTGTTCACATTA
1 TTTTTGTTCACATTA
47937102 T
1 T
47937103 CATATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTTGTTCACATTA
Found at i:47937344 original size:109 final size:109
Alignment explanation
Indices: 47937153--47937464 Score: 522
Period size: 109 Copynumber: 2.9 Consensus size: 109
47937143 AAAAAAAAAA
*
47937153 TCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCG
1 TCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCG
*
47937218 ATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAATTT
66 ATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAATT
* * * *
47937262 TCAAAATAAGGGAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCA
1 TCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCG
47937327 ATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAATT
66 ATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAATT
*
47937371 TCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAATGTGCTGGGTTTCG
1 TCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCG
* *
47937435 A--TTTCTCGTTTAACCAAATAGCCAAATATC
66 ATTTTTCTCGTTCAACCAAATAGCTAAATATC
47937465 ATCTTGAATT
Statistics
Matches: 190, Mismatches: 13, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
106 27 0.14
108 25 0.13
109 138 0.73
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (109 bp):
TCAAAGTAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCG
ATTTTTCTCGTTCAACCAAATAGCTAAATATCCTTTTAAAAATT
Found at i:47938892 original size:8 final size:9
Alignment explanation
Indices: 47938853--47938889 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
47938843 TGTAAGTAAT
47938853 TTATTTAAA
1 TTATTTAAA
47938862 TTATATTAAA
1 TTAT-TTAAA
47938872 TTATTTAAA
1 TTATTTAAA
47938881 -TATTTAAA
1 TTATTTAAA
47938889 T
1 T
47938890 ATTGCAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 8 0.31
9 9 0.35
10 9 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TTATTTAAA
Found at i:47939120 original size:23 final size:22
Alignment explanation
Indices: 47939066--47939121 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
47939056 GTATATTATT
*
47939066 TATAAAAGTT-TATATATGAAA
1 TATAAAAGTTGTTTATATGAAA
47939087 TATAAAA-TTGTTTATAT-AAA
1 TATAAAAGTTGTTTATATGAAA
47939107 TAATTAAAAGTTGTT
1 T-A-TAAAAGTTGTT
47939122 ATTTAGAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.20
21 14 0.47
22 5 0.17
23 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (22 bp):
TATAAAAGTTGTTTATATGAAA
Found at i:47939967 original size:21 final size:21
Alignment explanation
Indices: 47939943--47940005 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
47939933 AATATTTTTT
47939943 AATATTAAAAAGATATTATAA
1 AATATTAAAAAGATATTATAA
* *
47939964 AATATT-AAAATA-ATTACTAG
1 AATATTAAAAAGATATTA-TAA
47939984 AA-ATTATAAAAG-TATTATAA
1 AATATTA-AAAAGATATTATAA
47940004 AA
1 AA
47940006 AGTTTAGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
19 7 0.21
20 13 0.38
21 14 0.41
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (21 bp):
AATATTAAAAAGATATTATAA
Found at i:47939989 original size:29 final size:29
Alignment explanation
Indices: 47939957--47940029 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 29
47939947 TTAAAAAGAT
47939957 ATTATAAAATATTA-AAATAA-TTACTAG-AA
1 ATTATAAAATATTATAAA-AAGTT--TAGAAA
47939986 ATTATAAAAGTATTATAAAAAGTTTAGAAA
1 ATTATAAAA-TATTATAAAAAGTTTAGAAA
*
47940016 ATTATAAAAAATTA
1 ATTATAAAATATTA
47940030 GAAACTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
29 16 0.41
30 18 0.46
31 5 0.13
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (29 bp):
ATTATAAAATATTATAAAAAGTTTAGAAA
Found at i:47940030 original size:18 final size:19
Alignment explanation
Indices: 47939997--47940040 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
47939987 TTATAAAAGT
*
47939997 ATTATAAAAAGTTTAGAAA
1 ATTATAAAAAGATTAGAAA
47940016 ATTATAAAAA-ATTAGAAA
1 ATTATAAAAAGATTAGAAA
*
47940034 CTTATAA
1 ATTATAA
47940041 TTTTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (19 bp):
ATTATAAAAAGATTAGAAA
Found at i:47940915 original size:20 final size:20
Alignment explanation
Indices: 47940885--47940922 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47940875 AAGTGTGAAG
47940885 TATTATTGGATTGAATTGAGT
1 TATTATTGGATT-AATTGAGT
47940906 TATT-TTGGATTAATTGA
1 TATTATTGGATTAATTGA
47940923 TTGTGCGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (20 bp):
TATTATTGGATTAATTGAGT
Found at i:47941851 original size:24 final size:24
Alignment explanation
Indices: 47941824--47941869 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
47941814 AATCTATGTC
* *
47941824 TGCATTTGTATCTGAATCTGAATA
1 TGCATCTGTATCTGAACCTGAATA
*
47941848 TGCATCTGTATTTGAACCTGAA
1 TGCATCTGTATCTGAACCTGAA
47941870 AAATACATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.39
Consensus pattern (24 bp):
TGCATCTGTATCTGAACCTGAATA
Found at i:47956019 original size:32 final size:32
Alignment explanation
Indices: 47955964--47956046 Score: 121
Period size: 32 Copynumber: 2.6 Consensus size: 32
47955954 GGGCCCACAT
*
47955964 GCCCGTGTAGGCCCACACACCCTACTTGGCCTA
1 GCCCGTGT-GGCCCACACGCCCTACTTGGCCTA
*
47955997 GCCCATGTGGCCCACACGCCCTACTTGGCCTA
1 GCCCGTGTGGCCCACACGCCCTACTTGGCCTA
* *
47956029 GCCTGTGTGGCCTACACG
1 GCCCGTGTGGCCCACACG
47956047 GCCACACCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 38 0.84
33 7 0.16
ACGTcount: A:0.16, C:0.41, G:0.24, T:0.19
Consensus pattern (32 bp):
GCCCGTGTGGCCCACACGCCCTACTTGGCCTA
Found at i:47967936 original size:9 final size:9
Alignment explanation
Indices: 47967922--47967959 Score: 76
Period size: 9 Copynumber: 4.2 Consensus size: 9
47967912 TAAACAATTC
47967922 AATAATATA
1 AATAATATA
47967931 AATAATATA
1 AATAATATA
47967940 AATAATATA
1 AATAATATA
47967949 AATAATATA
1 AATAATATA
47967958 AA
1 AA
47967960 ATGTGAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AATAATATA
Found at i:47968469 original size:9 final size:9
Alignment explanation
Indices: 47968455--47968491 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
47968445 TATAGTTTGA
47968455 TATTCGAAT
1 TATTCGAAT
47968464 TATTCGAAT
1 TATTCGAAT
*
47968473 TATTCGAGT
1 TATTCGAAT
47968482 TATTCGAAT
1 TATTCGAAT
47968491 T
1 T
47968492 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:47968562 original size:9 final size:9
Alignment explanation
Indices: 47968545--47968575 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
47968535 TCAAGTTGAT
47968545 TCGAATAAC
1 TCGAATAAC
*
47968554 TCGATTAAC
1 TCGAATAAC
47968563 TCGAATAAC
1 TCGAATAAC
47968572 TCGA
1 TCGA
47968576 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:47969149 original size:20 final size:20
Alignment explanation
Indices: 47969104--47969143 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
47969094 TGGTGAATTA
*
47969104 TGTAGCGGCTGAAACATTTT
1 TGTAGCGGCCGAAACATTTT
*
47969124 TGTAGCGGCCGAAACGTTTT
1 TGTAGCGGCCGAAACATTTT
47969144 GTTAGCAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (20 bp):
TGTAGCGGCCGAAACATTTT
Found at i:47973771 original size:18 final size:17
Alignment explanation
Indices: 47973748--47973789 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
47973738 AGTAGTATAG
47973748 GTTCGC-TAGATACCAATA
1 GTTCGCATA-ATACCAA-A
*
47973766 GTTCGCATAATACCTAA
1 GTTCGCATAATACCAAA
47973783 GTTCGCA
1 GTTCGCA
47973790 ACAGGCAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
18 12 0.55
19 2 0.09
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (17 bp):
GTTCGCATAATACCAAA
Found at i:47982201 original size:12 final size:12
Alignment explanation
Indices: 47982168--47982202 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
47982158 TGCTCATCCA
47982168 CCGCATCCAGCG
1 CCGCATCCAGCG
* *
47982180 CCACAACCAGCG
1 CCGCATCCAGCG
47982192 CCGCATCCAGC
1 CCGCATCCAGC
47982203 TGCACAGGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.23, C:0.51, G:0.20, T:0.06
Consensus pattern (12 bp):
CCGCATCCAGCG
Found at i:47995681 original size:44 final size:44
Alignment explanation
Indices: 47995573--47996003 Score: 417
Period size: 44 Copynumber: 9.9 Consensus size: 44
47995563 GTTATCGTGG
* * * **
47995573 CAAATTTTATCTCCCTAAAGTTGCAGTGGA-CAGACTAAAGCCA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTA
* * *
47995616 CATATCTTATCTCCCTGAAGTTGCAGTGGAGCTGATTGAAGTTA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * **
47995660 CAAATTTTATCTCCTTAAAGTTGTAGTGGAGCAGATTGAAAATA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * *
47995704 GCAAATCTTATCTCTCTGAAGTTACAGTGGAACAGATTGAAGTTA
1 -CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * * *
47995749 CAAATCTTATCTTCCTAAAGTTGAAATGGAGAAAATTGAAGTTA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTA
* * *
47995793 CAAATCTTATCTCCCTGAA---GC--TGGAGTAAATTGAAGTTA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTA
*
47995832 AAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * * * ***
47995876 CAAATCTCATCTTCTTGAAGTTGCAGTGGAGTAGATTGAAGACG
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * *
47995920 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTAAAGCTA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTA
* * * *
47995964 CAAATC-TAGTCTCTCTAAAGTTGTAGGGGAGTAGATTGAA
1 CAAATCTTA-TCTCCCTAAAGTTGCAGTGGAGCAGATTGAA
47996004 CAACAAATTC
Statistics
Matches: 315, Mismatches: 65, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
39 34 0.11
41 1 0.00
42 2 0.01
43 29 0.09
44 214 0.68
45 35 0.11
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (44 bp):
CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTA
Found at i:47995881 original size:127 final size:130
Alignment explanation
Indices: 47995574--47995939 Score: 398
Period size: 127 Copynumber: 2.8 Consensus size: 130
47995564 TTATCGTGGC
* * * ** * *
47995574 AAATTTTATCTCCCTAAAGTTGCAGTGGACAGACTAAAGCCACATATCTTATCTCCCTGAAGTTG
1 AAATCTTATCTCCCTAAAGTTGCAGTGGACAGATTGAAGTTACAAATCTTATCTTCCTGAAGTTG
** * * * *
47995639 CAGTGGAGCTGATTGAAGTTACAAATTTTATCTCCTTAAAGTTGTAGTGGAGCAGATTGAAAATA
66 CAGTGGAGAAGATTGAAGTTACAAATCTTATCTCCCTAAAGCTGGAGT-GA-CAGATTGAAAATA
*
47995704 GC
129 GA
* * * *
47995706 AAATCTTATCTCTCTGAAGTTACAGTGGAACAGATTGAAGTTACAAATCTTATCTTCCTAAAGTT
1 AAATCTTATCTCCCTAAAGTTGCAGTGG-ACAGATTGAAGTTACAAATCTTATCTTCCTGAAGTT
* * * * **
47995771 GAAATGGAGAAAATTGAAGTTACAAATCTTATCTCCCTGAAGCTGGAGT-A-A-ATTGAAGTTA-
65 GCAGTGGAGAAGATTGAAGTTACAAATCTTATCTCCCTAAAGCTGGAGTGACAGATTGAAAATAG
47995832 A
130 A
* *
47995833 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTCATCTTCTTGAAGTT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGA-CAGATTGAAGTTACAAATCTTATCTTCCTGAAGTT
* ***
47995898 GCAGTGGAGTAGATTGAAGACGCAAATCTTATCTCCCTAAAG
65 GCAGTGGAGAAGATTGAAGTTACAAATCTTATCTCCCTAAAG
47995940 TTGCAGTGGA
Statistics
Matches: 194, Mismatches: 38, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
126 1 0.01
127 91 0.47
128 8 0.04
129 1 0.01
131 1 0.01
132 24 0.12
133 68 0.35
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (130 bp):
AAATCTTATCTCCCTAAAGTTGCAGTGGACAGATTGAAGTTACAAATCTTATCTTCCTGAAGTTG
CAGTGGAGAAGATTGAAGTTACAAATCTTATCTCCCTAAAGCTGGAGTGACAGATTGAAAATAGA
Found at i:47995937 original size:88 final size:88
Alignment explanation
Indices: 47995573--47996189 Score: 431
Period size: 88 Copynumber: 7.0 Consensus size: 88
47995563 GTTATCGTGG
* * * * * * *
47995573 CAAATTTTATCTCCCTAAAGTTGCAGTGGA-CAGACTAAAGCCACATATCTTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTTCTTGAAGT
47995637 TGCAGTGGAGCT-GATTGAAGTTA
66 TGCAGTGGAG-TAGATTGAAGTTA
* * * **
47995660 CAAATTTTATCTCCTTAAAGTTGTAGTGGAGCAGATTGAAAATAGCAAATCTTATC-TCTCTGAA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTA-CAAATCTTATCTTCT-TGAA
* **
47995724 GTTACAGTGGAACAGATTGAAGTTA
64 GTTGCAGTGGAGTAGATTGAAGTTA
* * * * * * * *
47995749 CAAATCTTATCTTCCTAAAGTTGAAATGGAGAAAATTGAAGTTACAAATCTTATCTCCCTGAA--
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTTCTTGAAGT
*
47995812 -GC--TGGAGTAAATTGAAGTTA
66 TGCAGTGGAGTAGATTGAAGTTA
* * *
47995832 AAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTCATCTTCTTGAAGT
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTTCTTGAAGT
***
47995897 TGCAGTGGAGTAGATTGAAGACG
66 TGCAGTGGAGTAGATTGAAGTTA
* * * *
47995920 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTAAAGCTACAAATC-TAGTC-TCTCTAAA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTA-TCTTCT-TGAA
* * **
47995983 GTTGTAGGGGAGTAGATTGAA-CAA
64 GTTGCAGTGGAGTAGATTGAAGTTA
* * * * * *
47996007 CAAAT-TCAATAC-CTCTAAAGTTGCAGTAGG-TCGGATTAAATCTACCATAGCAAGTCTTAT-T
1 CAAATCT-TAT-CTCCCTAAAGTTGCAGT-GGAGCAGATTGAAGCTA-C--A--AA-TCTTATCT
* * * * **
47996068 TCCCTGAAGCTACAGTAGAATAGAGTAAAGCTACAAGTTA
57 T-CTTGAAGTTGCAGT-G----GAGT--AGATTGAAGTTA
* * *
47996108 CAAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCTACAAGTC-T-TCTTCTTGAAGT
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTTCTTGAAGT
*
47996171 TGCAGTGAAGTAGATTGAA
66 TGCAGTGGAGTAGATTGAA
47996190 ACTACTATTC
Statistics
Matches: 407, Mismatches: 87, Indels: 73
0.72 0.15 0.13
Matches are distributed among these distances:
83 69 0.17
85 1 0.00
86 8 0.02
87 62 0.15
88 114 0.28
89 71 0.17
90 1 0.00
92 3 0.01
93 23 0.06
94 7 0.02
95 2 0.00
96 1 0.00
98 5 0.01
100 9 0.02
101 30 0.07
102 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (88 bp):
CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTTCTTGAAGT
TGCAGTGGAGTAGATTGAAGTTA
Found at i:47997627 original size:21 final size:21
Alignment explanation
Indices: 47997603--47997642 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
47997593 TTACAAACTG
47997603 TTTTATTTATT-TATTATTTTA
1 TTTTATTTATTAT-TTATTTTA
47997624 TTTTATTTATTATTTATTT
1 TTTTATTTATTATTTATTT
47997643 AACTTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTATTTATTATTTATTTTA
Found at i:47997630 original size:17 final size:17
Alignment explanation
Indices: 47997603--47997642 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
47997593 TTACAAACTG
47997603 TTTTA-TTTATTTATTA
1 TTTTATTTTATTTATTA
47997619 TTTTATTTTATTTATTA
1 TTTTATTTTATTTATTA
47997636 -TTTATTT
1 TTTTATTT
47997643 AACTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTATTTTATTTATTA
Found at i:47997759 original size:3 final size:3
Alignment explanation
Indices: 47997704--47997744 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
47997694 TTATATTTTG
* * *
47997704 TTA TCA TTA TTA TTA TTG TTA TTA TTA TCA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
47997745 TTTTCCTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:47999675 original size:41 final size:40
Alignment explanation
Indices: 47999627--47999722 Score: 147
Period size: 41 Copynumber: 2.4 Consensus size: 40
47999617 GATTTAACCG
*
47999627 ATGAGACACTGGGTGTCAATTTACTACTTTGAATTTATTCA
1 ATGAGACACTGGGTGTCAATTTACTACTTCGAA-TTATTCA
*
47999668 ATGAGACACTGGGTGTCAATTTACTACTTCGAATTATTCG
1 ATGAGACACTGGGTGTCAATTTACTACTTCGAATTATTCA
* *
47999708 ATGAGGCACTAGGTG
1 ATGAGACACTGGGTG
47999723 CCAAACTGGT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 19 0.37
41 32 0.63
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (40 bp):
ATGAGACACTGGGTGTCAATTTACTACTTCGAATTATTCA
Found at i:48002435 original size:18 final size:20
Alignment explanation
Indices: 48002380--48002438 Score: 77
Period size: 21 Copynumber: 3.0 Consensus size: 20
48002370 ACCTTTACAC
48002380 CACATTGTGGATAAACCACT
1 CACATTGTGGATAAACCACT
* *
48002400 CATCATTGTGTATGAACCACT
1 CA-CATTGTGGATAAACCACT
48002421 C-C-TTGTGGATAAACCACT
1 CACATTGTGGATAAACCACT
48002439 AGTAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 14 0.41
19 1 0.03
20 2 0.06
21 17 0.50
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (20 bp):
CACATTGTGGATAAACCACT
Found at i:48003311 original size:35 final size:34
Alignment explanation
Indices: 48003234--48003311 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 34
48003224 AAACACAAAA
****
48003234 AAATATTTTAAAAATAAAAAATAAAAATATTTTT
1 AAATATTTTAAAAATAAAAAATAAAAATAAAAGT
*
48003268 AAAGTATTTTAAAATTAAAAAATAAAAATAAAAAGT
1 AAA-TATTTTAAAAATAAAAAATAAAAAT-AAAAGT
*
48003304 ATATATTT
1 AAATATTT
48003312 ATTATATTCG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
34 3 0.08
35 29 0.81
36 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (34 bp):
AAATATTTTAAAAATAAAAAATAAAAATAAAAGT
Done.