Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 140 of 235
Found at i:47094479 original size:163 final size:163
Alignment explanation
Indices: 47094209--47094533 Score: 650
Period size: 163 Copynumber: 2.0 Consensus size: 163
47094199 TGAAGATAGC
47094209 AGATTTGGCATCTCCATATTCGACGGGGAGCAGATTAAAGACATAGTAGATCTGACCTTCATGTG
1 AGATTTGGCATCTCCATATTCGACGGGGAGCAGATTAAAGACATAGTAGATCTGACCTTCATGTG
47094274 TTTACATCGAAGCAGATCTAAGATGACAGATTTGGCATCTTTGTATTAGACGGGGAGCAAATTGG
66 TTTACATCGAAGCAGATCTAAGATGACAGATTTGGCATCTTTGTATTAGACGGGGAGCAAATTGG
47094339 AGATAACAGATTTGACATCTCTGTATTAGACGT
131 AGATAACAGATTTGACATCTCTGTATTAGACGT
47094372 AGATTTGGCATCTCCATATTCGACGGGGAGCAGATTAAAGACATAGTAGATCTGACCTTCATGTG
1 AGATTTGGCATCTCCATATTCGACGGGGAGCAGATTAAAGACATAGTAGATCTGACCTTCATGTG
47094437 TTTACATCGAAGCAGATCTAAGATGACAGATTTGGCATCTTTGTATTAGACGGGGAGCAAATTGG
66 TTTACATCGAAGCAGATCTAAGATGACAGATTTGGCATCTTTGTATTAGACGGGGAGCAAATTGG
47094502 AGATAACAGATTTGACATCTCTGTATTAGACG
131 AGATAACAGATTTGACATCTCTGTATTAGACG
47094534 GGGAGCAGAT
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 162 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (163 bp):
AGATTTGGCATCTCCATATTCGACGGGGAGCAGATTAAAGACATAGTAGATCTGACCTTCATGTG
TTTACATCGAAGCAGATCTAAGATGACAGATTTGGCATCTTTGTATTAGACGGGGAGCAAATTGG
AGATAACAGATTTGACATCTCTGTATTAGACGT
Found at i:47094580 original size:44 final size:45
Alignment explanation
Indices: 47094447--47094601 Score: 181
Period size: 45 Copynumber: 3.5 Consensus size: 45
47094437 TTTACATCGA
* *
47094447 AGCAGATCT-AAGATGACAGATTTGGCATCTTTGTATTAGACGGGG
1 AGCAGAT-TGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* * *
47094492 AGCAAATTGGAGATAACAGATTTGACATCTCTGTATTAGACGGGG
1 AGCAGATTGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
* *
47094537 AGCAGATTGAAGA-AGCA-ATTTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATTGAAGATAACAGA-TTTGGCATCTCTGTATTAGACGGGG
** *
47094581 AGCAGATCAAAGATAGCAGAT
1 AGCAGATTGAAGATAACAGAT
47094602 ATCGCCTTCC
Statistics
Matches: 94, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
43 1 0.01
44 38 0.40
45 54 0.57
46 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (45 bp):
AGCAGATTGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:47099824 original size:51 final size:51
Alignment explanation
Indices: 47099741--47099849 Score: 139
Period size: 51 Copynumber: 2.1 Consensus size: 51
47099731 AAATGAGCTT
* * * *
47099741 TACCATCCAAGAACACGCCTGGGCACTGAGTGCCAAGCCTGTAGGCTAAACA
1 TACC-TCCAAAAACACGCCTGGGCACTAAGTGCCAAGCCTATAAGCTAAACA
* * *
47099793 TACCTCCAAAAACATGCTTGGGCACTAAGTGCCAAGCCTATAAGCTACACA
1 TACCTCCAAAAACACGCCTGGGCACTAAGTGCCAAGCCTATAAGCTAAACA
47099844 T-CCTCC
1 TACCTCC
47099850 CGCAGAAACA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 5 0.10
51 41 0.82
52 4 0.08
ACGTcount: A:0.31, C:0.32, G:0.18, T:0.18
Consensus pattern (51 bp):
TACCTCCAAAAACACGCCTGGGCACTAAGTGCCAAGCCTATAAGCTAAACA
Found at i:47102901 original size:19 final size:19
Alignment explanation
Indices: 47102877--47102913 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
47102867 GTTCATATAA
*
47102877 TAACTAATTTGGTTCAAAC
1 TAACTAATTTGATTCAAAC
*
47102896 TAACTACTTTGATTCAAA
1 TAACTAATTTGATTCAAA
47102914 ATTCTAAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
TAACTAATTTGATTCAAAC
Found at i:47109901 original size:22 final size:23
Alignment explanation
Indices: 47109875--47109918 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
47109865 TATTCATTTA
* *
47109875 TTTATAATTC-TATGTGTTTTTT
1 TTTATAAATCTTATGTATTTTTT
47109897 TTTATAAATCTTATGTATTTTT
1 TTTATAAATCTTATGTATTTTT
47109919 ATCGAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.66
Consensus pattern (23 bp):
TTTATAAATCTTATGTATTTTTT
Found at i:47113536 original size:19 final size:19
Alignment explanation
Indices: 47113512--47113549 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
47113502 GTTGCCATAC
47113512 ACTACCACCTTATTTCCTT
1 ACTACCACCTTATTTCCTT
47113531 ACTACCACCTTATTTCCTT
1 ACTACCACCTTATTTCCTT
47113550 CTCTGTATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.37, G:0.00, T:0.42
Consensus pattern (19 bp):
ACTACCACCTTATTTCCTT
Found at i:47114430 original size:17 final size:17
Alignment explanation
Indices: 47114410--47114478 Score: 72
Period size: 17 Copynumber: 4.1 Consensus size: 17
47114400 ATTTTTAGAG
*
47114410 TTAAATATATAATTTAA
1 TTAAAAATATAATTTAA
*
47114427 TTAAATAT-TAATTTTAA
1 TTAAAAATATAA-TTTAA
47114444 TTGAAAAATA-AATTT-A
1 TT-AAAAATATAATTTAA
*
47114460 TAAAAAATATAATTTAA
1 TTAAAAATATAATTTAA
47114477 TT
1 TT
47114479 TTATAACACT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
15 7 0.16
16 10 0.23
17 20 0.45
18 7 0.16
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (17 bp):
TTAAAAATATAATTTAA
Found at i:47115915 original size:17 final size:15
Alignment explanation
Indices: 47115876--47115920 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
47115866 TATAAATAGG
*
47115876 AATAGAAATACAATA
1 AATAGAAATATAATA
47115891 AATAGAAATATAATA
1 AATAGAAATATAATA
47115906 ATAGTAGAAATATAA
1 A-A-TAGAAATATAA
47115921 GTAGATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 15 0.56
16 1 0.04
17 11 0.41
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.24
Consensus pattern (15 bp):
AATAGAAATATAATA
Found at i:47115920 original size:29 final size:29
Alignment explanation
Indices: 47115888--47116004 Score: 76
Period size: 29 Copynumber: 4.0 Consensus size: 29
47115878 TAGAAATACA
*
47115888 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAATATAATAATAATAGAAAT
* * * * *
47115917 ATAAGTAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AATATAATAATAATAGAAAT
* * * * * * *
47115946 AGT-AATAGTATTAGAATGACAAAATAAAT
1 A-TAAATAGAAATATAATAATAATAGAAAT
*
47115975 ATAAATAGAAATATAATAATAATAGTAAT
1 ATAAATAGAAATATAATAATAATAGAAAT
47116004 A
1 A
47116005 ATATATTAAA
Statistics
Matches: 61, Mismatches: 23, Indels: 8
0.66 0.25 0.09
Matches are distributed among these distances:
28 2 0.03
29 56 0.92
30 3 0.05
ACGTcount: A:0.61, C:0.01, G:0.10, T:0.28
Consensus pattern (29 bp):
ATAAATAGAAATATAATAATAATAGAAAT
Found at i:47119167 original size:39 final size:39
Alignment explanation
Indices: 47119121--47119345 Score: 243
Period size: 39 Copynumber: 5.7 Consensus size: 39
47119111 TTGTGTTGTA
* * * *
47119121 TGATATATGCTTGAATGTTATGTAATTAAATGAGTATTG
1 TGATATATGCTTAAATGTTATGTGATTATATGTGTATTG
* * * * * *
47119160 TGATATATGTTTGAATGCTATGTAATTAGATGTGTATCG
1 TGATATATGCTTAAATGTTATGTGATTATATGTGTATTG
*
47119199 TGATATATGCTTAAATGTTATGTGATTATATGTTTATTG
1 TGATATATGCTTAAATGTTATGTGATTATATGTGTATTG
* * * *
47119238 TGTTATATGCTTAAATGTGATGCGATTATATGTGTATTA
1 TGATATATGCTTAAATGTTATGTGATTATATGTGTATTG
**
47119277 TGATTATATGCTTAAATGTTATGTGATTATATGTGTAACG
1 TGA-TATATGCTTAAATGTTATGTGATTATATGTGTATTG
* * * *
47119317 TAATAAATGCTTAAAAGTGAATGTGATTA
1 TGATATATGCTTAAATGT-TATGTGATTA
47119346 CCATGTAAAT
Statistics
Matches: 157, Mismatches: 27, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
39 115 0.73
40 42 0.27
ACGTcount: A:0.32, C:0.04, G:0.20, T:0.44
Consensus pattern (39 bp):
TGATATATGCTTAAATGTTATGTGATTATATGTGTATTG
Found at i:47122441 original size:29 final size:30
Alignment explanation
Indices: 47122394--47122461 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
47122384 TGGCCCAAGA
* * *
47122394 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TAAAAAGTTGAAGGACTAATAGT
47122424 GTAAATATAAAAAGTTGAAGGACTAATAGT
1 GTAAATATAAAAAGTTGAAGGACTAATAGT
*
47122454 GCAAATAT
1 GTAAATAT
47122462 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.49, C:0.06, G:0.18, T:0.28
Consensus pattern (30 bp):
GTAAATATAAAAAGTTGAAGGACTAATAGT
Found at i:47124935 original size:46 final size:46
Alignment explanation
Indices: 47124883--47125100 Score: 348
Period size: 46 Copynumber: 4.7 Consensus size: 46
47124873 AGTGTGCTCT
*
47124883 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
47124929 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
47124975 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
47125021 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
47125067 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGA
47125101 CAATATGGCA
Statistics
Matches: 162, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 1 0.01
46 161 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:47132154 original size:12 final size:12
Alignment explanation
Indices: 47132137--47132169 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
47132127 TTCCCTGTAA
*
47132137 AATAGTAAAATT
1 AATAGTAAAAAT
47132149 AATAGTAAAAAT
1 AATAGTAAAAAT
47132161 AATAGTAAA
1 AATAGTAAA
47132170 GGGGAAGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:47133102 original size:10 final size:10
Alignment explanation
Indices: 47133083--47133142 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
47133073 TGAAATTCTA
47133083 AAAGATAAAT
1 AAAGATAAAT
47133093 ACAA-ATAAAT
1 A-AAGATAAAT
*
47133103 AAAGATAATT
1 AAAGATAAAT
47133113 AAAGATAAAT
1 AAAGATAAAT
47133123 AAAGATAAAT
1 AAAGATAAAT
47133133 GAAA-ATAAAT
1 -AAAGATAAAT
47133143 CCTAAAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:47137622 original size:15 final size:15
Alignment explanation
Indices: 47137588--47137659 Score: 58
Period size: 15 Copynumber: 4.7 Consensus size: 15
47137578 ATATTATTGA
47137588 AAATA-TTTAAT-AT
1 AAATATTTTAATAAT
*
47137601 TAATATTTTAATAAT
1 AAATATTTTAATAAT
*
47137616 AAATATTTATTATAATTAT
1 AAATA--T-TT-TAATAAT
*
47137635 AAATATATTAATAAT
1 AAATATTTTAATAAT
*
47137650 AAATGTTTTA
1 AAATATTTTA
47137660 TATTATAAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
13 4 0.09
14 6 0.13
15 20 0.43
16 1 0.02
17 2 0.04
18 2 0.04
19 11 0.24
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (15 bp):
AAATATTTTAATAAT
Found at i:47137631 original size:19 final size:19
Alignment explanation
Indices: 47137604--47137640 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
47137594 TTAATATTAA
*
47137604 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
*
47137623 TATTATAATTATAAATAT
1 TATTATAATAATAAATAT
47137641 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:47137646 original size:34 final size:31
Alignment explanation
Indices: 47137602--47137668 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 31
47137592 ATTTAATATT
* *
47137602 AATATTTTAATAATAAATATTTATTATAATTATA
1 AATATATTAATAATAAAT-GTT-TTAT-ATTATA
47137636 AATATATTAATAATAAATGTTTTATATTATA
1 AATATATTAATAATAAATGTTTTATATTATA
47137667 AA
1 AA
47137669 GGTTAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
31 8 0.26
32 4 0.13
33 2 0.06
34 17 0.55
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (31 bp):
AATATATTAATAATAAATGTTTTATATTATA
Found at i:47138099 original size:19 final size:21
Alignment explanation
Indices: 47138075--47138125 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
47138065 CATCCAAACA
47138075 CCAGAAAATATTAA-C-TTTT
1 CCAGAAAATATTAATCATTTT
*
47138094 CCAGAAAA-ATAAATCATTTT
1 CCAGAAAATATTAATCATTTT
*
47138114 CCAGAAATTATT
1 CCAGAAAATATT
47138126 TTCTAGAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 4 0.15
19 9 0.35
20 11 0.42
21 2 0.08
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (21 bp):
CCAGAAAATATTAATCATTTT
Found at i:47138126 original size:14 final size:14
Alignment explanation
Indices: 47138104--47138142 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
47138094 CCAGAAAAAT
47138104 AAATCATTTTCCAG
1 AAATCATTTTCCAG
* *
47138118 AAATTATTTTCTAG
1 AAATCATTTTCCAG
*
47138132 AAGTCATTTTC
1 AAATCATTTTC
47138143 AGTGAAGCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:47138512 original size:22 final size:20
Alignment explanation
Indices: 47138481--47138521 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
47138471 CAAATAACTC
47138481 AAATTATTTAATTCAAAATTTA
1 AAATTATTT-A-TCAAAATTTA
*
47138503 AAATTTTTTATCAAAATTT
1 AAATTATTTATCAAAATTT
47138522 TCAAATCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 1 0.06
22 8 0.44
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATTATTTATCAAAATTTA
Found at i:47142073 original size:16 final size:15
Alignment explanation
Indices: 47142052--47142091 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
47142042 TAAAAAAACT
47142052 AATTGATAGTATAACA
1 AATTGA-AGTATAACA
47142068 AATTG-AGTATAACA
1 AATTGAAGTATAACA
47142082 AATTG-AGTAT
1 AATTGAAGTAT
47142092 CGGGCGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 19 0.79
16 5 0.21
ACGTcount: A:0.47, C:0.05, G:0.15, T:0.33
Consensus pattern (15 bp):
AATTGAAGTATAACA
Found at i:47142078 original size:14 final size:14
Alignment explanation
Indices: 47142059--47142091 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
47142049 ACTAATTGAT
47142059 AGTATAACAAATTG
1 AGTATAACAAATTG
47142073 AGTATAACAAATTG
1 AGTATAACAAATTG
47142087 AGTAT
1 AGTAT
47142092 CGGGCGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.30
Consensus pattern (14 bp):
AGTATAACAAATTG
Found at i:47148517 original size:27 final size:26
Alignment explanation
Indices: 47148479--47148536 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 26
47148469 TGATAACACT
*
47148479 TCTTCCGATCCTAAAGAGCTTAATAG
1 TCTTCCGATCCTAAAGAGCGTAATAG
47148505 NTCTTCCGATCCTAAAGAGCGTAATAG
1 -TCTTCCGATCCTAAAGAGCGTAATAG
*
47148532 GCTTC
1 TCTTC
47148537 ATTGCTTGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 4 0.14
27 25 0.86
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.29
Consensus pattern (26 bp):
TCTTCCGATCCTAAAGAGCGTAATAG
Found at i:47150820 original size:37 final size:38
Alignment explanation
Indices: 47150766--47150840 Score: 134
Period size: 37 Copynumber: 2.0 Consensus size: 38
47150756 GTAAGATATT
47150766 GCTACCTCCGGCTCTCGTTGAGAGTTGAACTCAAGACC
1 GCTACCTCCGGCTCTCGTTGAGAGTTGAACTCAAGACC
*
47150804 GCTACCT-CTGCTCTCGTTGAGAGTTGAACTCAAGACC
1 GCTACCTCCGGCTCTCGTTGAGAGTTGAACTCAAGACC
47150841 TCCCGCTTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 29 0.81
38 7 0.19
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (38 bp):
GCTACCTCCGGCTCTCGTTGAGAGTTGAACTCAAGACC
Found at i:47167135 original size:36 final size:36
Alignment explanation
Indices: 47167088--47167159 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
47167078 TTACGAGGCA
*
47167088 CTACTGATGTTTGCTTATAGTTTAGAAGAACTAAAG
1 CTACTGATGTTTGCTTACAGTTTAGAAGAACTAAAG
47167124 CTACTGATGTTTGCTTACAGTTTAGAAGAACTAAAG
1 CTACTGATGTTTGCTTACAGTTTAGAAGAACTAAAG
47167160 ATGGAGTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (36 bp):
CTACTGATGTTTGCTTACAGTTTAGAAGAACTAAAG
Found at i:47174397 original size:5 final size:5
Alignment explanation
Indices: 47174387--47174423 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
47174377 CAATTTATGA
47174387 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
47174424 GAACACACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:47179901 original size:21 final size:20
Alignment explanation
Indices: 47179850--47179901 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
47179840 AAATCCAAAT
** *
47179850 TAAAATACAAAAATTCAGGA
1 TAAAATACTGAAATTCAGAA
*
47179870 TAAAATTCTGAAATTCAGAA
1 TAAAATACTGAAATTCAGAA
47179890 TAAAAATACTGA
1 T-AAAATACTGA
47179902 TGTATCATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.56, C:0.10, G:0.10, T:0.25
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGAA
Found at i:47190453 original size:41 final size:39
Alignment explanation
Indices: 47190340--47190463 Score: 128
Period size: 37 Copynumber: 3.2 Consensus size: 39
47190330 GTACCCAATA
* *
47190340 CCTCATCGGATAATTCGAAGTAATAATTTGACACCCAGTG
1 CCTCATC-GATAATCCGAAGTAATAAATTGACACCCAGTG
* * * *
47190380 TCTCATCGGCTAAACCGAAG---TAAATTGGCACCCAGTG
1 CCTCATC-GATAATCCGAAGTAATAAATTGACACCCAGTG
47190417 CCTCATCGAATTAATCCGAAGTAATAAATTGACACCCAGTG
1 CCTCATCG-A-TAATCCGAAGTAATAAATTGACACCCAGTG
*
47190458 TCTCAT
1 CCTCAT
47190464 TAACTCGAAG
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
36 1 0.01
37 21 0.31
38 9 0.13
40 16 0.24
41 21 0.31
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (39 bp):
CCTCATCGATAATCCGAAGTAATAAATTGACACCCAGTG
Found at i:47191402 original size:20 final size:20
Alignment explanation
Indices: 47191357--47191403 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
47191347 TTTCTCCTTT
* * *
47191357 TCTTTC-CTTTTTCTTTCTT
1 TCTTTCTCTGTTTCGTTCTA
*
47191376 TCCTTCTCTGTTTCGTTCTA
1 TCTTTCTCTGTTTCGTTCTA
47191396 TCTTTCTC
1 TCTTTCTC
47191404 ATTTTCTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.02, C:0.30, G:0.04, T:0.64
Consensus pattern (20 bp):
TCTTTCTCTGTTTCGTTCTA
Found at i:47191445 original size:5 final size:5
Alignment explanation
Indices: 47191437--47191554 Score: 229
Period size: 5 Copynumber: 23.8 Consensus size: 5
47191427 CTTTTATTAT
47191437 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
47191487 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
47191537 TATAA TATAA TAT-A TATA
1 TATAA TATAA TATAA TATA
47191555 CTTAAACATT
Statistics
Matches: 112, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.04
5 108 0.96
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:47197710 original size:40 final size:38
Alignment explanation
Indices: 47197645--47197772 Score: 157
Period size: 38 Copynumber: 3.3 Consensus size: 38
47197635 AAACCCAAAC
* * *
47197645 ATAACACCAGCACGAAGCCTACAGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCAGGA-TTT-AACTCGGAT
* *
47197685 ATAATACCAGCACTAGGCCTGCAGGATTTAACTCGGAT
1 ATAATACCAGCACGAAGCCTGCAGGATTTAACTCGGAT
* * *
47197723 ATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGAT
1 ATAATACCAGCACGAAGCCTGCAGGATTTAACTCGGAT
*
47197761 ATAATTCCAGCA
1 ATAATACCAGCA
47197773 TATAGCTTGC
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
38 51 0.67
39 3 0.04
40 22 0.29
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (38 bp):
ATAATACCAGCACGAAGCCTGCAGGATTTAACTCGGAT
Found at i:47197784 original size:38 final size:38
Alignment explanation
Indices: 47197682--47197785 Score: 122
Period size: 38 Copynumber: 2.7 Consensus size: 38
47197672 TTTAAACTCA
* * * *
47197682 GATATAATACCAGCACTAGGCCTGCAGGATTTAACTCG
1 GATATAATTCCAGCACTAAGCCTGCGGGATTTAACCCG
*
47197720 GATAT-ATTACCAGCACGAAGCCTGCGGGATTTAACCCG
1 GATATAATT-CCAGCACTAAGCCTGCGGGATTTAACCCG
*
47197758 GATATAATTCCAGCA-TATAGCTTGCGGG
1 GATATAATTCCAGCACTA-AGCCTGCGGG
47197786 TCTTTAAGCT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
37 3 0.05
38 50 0.89
39 3 0.05
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (38 bp):
GATATAATTCCAGCACTAAGCCTGCGGGATTTAACCCG
Found at i:47199833 original size:40 final size:39
Alignment explanation
Indices: 47199789--47199900 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 39
47199779 TCGGATAATT
*
47199789 CGAAGTAATAAGTTGACACCCAGTGTCTCATCGACTAAAC
1 CGAAGTAATAAGTTGACACCCAATG-CTCATCGACTAAAC
* * *
47199829 CGAAGT-A-AA-TTGA-AACCAATGCCTCATCGAATTAATC
1 CGAAGTAATAAGTTGACACCCAATG-CTCATCG-ACTAAAC
*
47199866 CGAAGTAAT-AGATTGACACCTAATGCTCATCGACT
1 CGAAGTAATAAG-TTGACACCCAATGCTCATCGACT
47199901 CGAGGTCAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
36 13 0.22
37 15 0.26
38 4 0.07
39 3 0.05
40 17 0.29
41 6 0.10
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (39 bp):
CGAAGTAATAAGTTGACACCCAATGCTCATCGACTAAAC
Found at i:47200811 original size:18 final size:18
Alignment explanation
Indices: 47200783--47200826 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
47200773 GCTTATTCTT
47200783 TTATT-TATTATAATA-A
1 TTATTATATTATAATATA
47200799 TATATTATATTATAATATA
1 T-TATTATATTATAATATA
47200818 TTATTATAT
1 TTATTATAT
47200827 ACTTAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.04
17 4 0.16
18 18 0.72
19 2 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATTATATTATAATATA
Found at i:47200817 original size:10 final size:10
Alignment explanation
Indices: 47200788--47200836 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
47200778 TTCTTTTATT
47200788 TATTATAATA
1 TATTATAATA
*
47200798 -A-TATATTA
1 TATTATAATA
47200806 TATTATAATA
1 TATTATAATA
*
47200816 TATTATTATA
1 TATTATAATA
47200826 TACTTA-AATA
1 TA-TTATAATA
47200836 T
1 T
47200837 TAAGTATGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
8 6 0.19
9 2 0.06
10 21 0.66
11 3 0.09
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (10 bp):
TATTATAATA
Found at i:47204014 original size:18 final size:18
Alignment explanation
Indices: 47203991--47204026 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
47203981 CAGTAGCACT
47203991 ATAATGTATTTTTGGGGC
1 ATAATGTATTTTTGGGGC
47204009 ATAATGTATTTTTGGGGC
1 ATAATGTATTTTTGGGGC
47204027 TATGATCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.28, T:0.44
Consensus pattern (18 bp):
ATAATGTATTTTTGGGGC
Found at i:47206667 original size:14 final size:14
Alignment explanation
Indices: 47206648--47206677 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47206638 TCTACAATTG
*
47206648 TTAATTTAGTGTAT
1 TTAATTTAGTATAT
47206662 TTAATTTAGTATAT
1 TTAATTTAGTATAT
47206676 TT
1 TT
47206678 TTAGACTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (14 bp):
TTAATTTAGTATAT
Found at i:47213036 original size:69 final size:70
Alignment explanation
Indices: 47212926--47213059 Score: 216
Period size: 69 Copynumber: 1.9 Consensus size: 70
47212916 TAGTTTATTA
* * * * *
47212926 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTG
1 CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
47212991 CTTAG
66 CTTAG
47212996 CTAATTAATATGCTACTGTAATACT-TAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
1 CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
47213060 TTATGTGCTA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 37 0.63
70 22 0.37
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTACTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
CTTAG
Found at i:47214183 original size:45 final size:45
Alignment explanation
Indices: 47214121--47214382 Score: 352
Period size: 45 Copynumber: 5.9 Consensus size: 45
47214111 TTGATTTGAT
* *
47214121 TATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATAT
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
*
47214166 TATTCGGGCCTTCGAGCCTAGCAGGCAATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* * *
47214211 TATTTGGGCCTTAGAGCCTAGCAGGCTACAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* *
47214256 TATTTGGGCTTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
** * *
47214301 TATTCGGGATTTCGAGCCTAGTAGGCTATAATGCCGGTGA-A-AA
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
* * *
47214344 GATATCGGGCC-TCGAGCCTAGCAGGCGA-AATGCCAGTGA
1 TAT-TCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
47214383 ATGAATTCGG
Statistics
Matches: 196, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
42 10 0.05
43 18 0.09
44 6 0.03
45 162 0.83
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.25
Consensus pattern (45 bp):
TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:47217203 original size:31 final size:33
Alignment explanation
Indices: 47217168--47217244 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 33
47217158 TATGTATTGC
47217168 ATTTTA-AA-AATAATAAAGTAGATTATATATT
1 ATTTTATAATAATAATAAAGTAGATTATATATT
*
47217199 ATTTTTATAATATTAATAAAGTAGATTATATATT
1 A-TTTTATAATAATAATAAAGTAGATTATATATT
47217233 ATTTTTATAATA
1 A-TTTTATAATA
47217245 TTATATATTA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
31 1 0.02
32 5 0.12
33 2 0.05
34 34 0.81
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (33 bp):
ATTTTATAATAATAATAAAGTAGATTATATATT
Found at i:47217216 original size:34 final size:34
Alignment explanation
Indices: 47217178--47217247 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
47217168 ATTTTAAAAA
47217178 TAATAAAGTAGATTATATATTATTTTTATAATAT
1 TAATAAAGTAGATTATATATTATTTTTATAATAT
47217212 TAATAAAGTAGATTATATATTATTTTTATAATAT
1 TAATAAAGTAGATTATATATTATTTTTATAATAT
47217246 TA
1 TA
47217248 TATATTATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (34 bp):
TAATAAAGTAGATTATATATTATTTTTATAATAT
Found at i:47217251 original size:23 final size:23
Alignment explanation
Indices: 47217225--47217274 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
47217215 TAAAGTAGAT
*
47217225 TATA-TATTATTTTTATAATATTA
1 TATATTATGATTTTTATAAT-TTA
*
47217248 TATATTATGATTTTTTTAATTTA
1 TATATTATGATTTTTATAATTTA
47217271 TATA
1 TATA
47217275 ATAATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TATATTATGATTTTTATAATTTA
Found at i:47221369 original size:32 final size:31
Alignment explanation
Indices: 47221327--47221390 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 31
47221317 AACAGCTTTG
47221327 GCAGCAGGGGCTGTAGGCTTGAATGAAGAGC
1 GCAGCAGGGGCTGTAGGCTTGAATGAAGAGC
47221358 GNCAGCAGGGGCTGTAGGCTTGAATGAAGAGC
1 G-CAGCAGGGGCTGTAGGCTTGAATGAAGAGC
47221390 G
1 G
47221391 TCTCAGGTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 1 0.03
32 31 0.97
ACGTcount: A:0.25, C:0.16, G:0.42, T:0.16
Consensus pattern (31 bp):
GCAGCAGGGGCTGTAGGCTTGAATGAAGAGC
Found at i:47230165 original size:15 final size:15
Alignment explanation
Indices: 47230145--47230174 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47230135 GAGTCCTAAG
*
47230145 AAAATAGAATTAGAA
1 AAAATAGAAATAGAA
47230160 AAAATAGAAATAGAA
1 AAAATAGAAATAGAA
47230175 TTTTTAGGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (15 bp):
AAAATAGAAATAGAA
Found at i:47231108 original size:30 final size:30
Alignment explanation
Indices: 47231072--47231130 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
47231062 TGCGGAAGAT
47231072 AATTTTTATTAAAAGAAAAGGATGATTCTA
1 AATTTTTATTAAAAGAAAAGGATGATTCTA
47231102 AATTTTTATTAAAAGAAAAGGATGATTCT
1 AATTTTTATTAAAAGAAAAGGATGATTCT
47231131 TACAAAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.37
Consensus pattern (30 bp):
AATTTTTATTAAAAGAAAAGGATGATTCTA
Found at i:47235205 original size:52 final size:52
Alignment explanation
Indices: 47235096--47235246 Score: 171
Period size: 52 Copynumber: 2.9 Consensus size: 52
47235086 TATCATACAG
* * *
47235096 ATGCTATATCCCAGATATGGTCTTATACGGAATCACATTATCACATCACACCA
1 ATGCCATAACCCAGCTATGGTCTTATACGGAA-CACATTATCACATCACACCA
* * **
47235149 ATGCCATAACCCAGCTATAGTCTTATACGGAA-ATATGTATCACATTTCACCA
1 ATGCCATAACCCAGCTATGGTCTTATACGGAACACAT-TATCACATCACACCA
* * *
47235201 ATGCCATAGCTCAGCTATGGTCTTATACGGAAGCACA-TATTACATC
1 ATGCCATAACCCAGCTATGGTCTTATACGGAA-CACATTATCACATC
47235247 TTTTCCGTCA
Statistics
Matches: 82, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
51 3 0.04
52 49 0.60
53 28 0.34
54 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.28
Consensus pattern (52 bp):
ATGCCATAACCCAGCTATGGTCTTATACGGAACACATTATCACATCACACCA
Found at i:47237511 original size:131 final size:131
Alignment explanation
Indices: 47237277--47237562 Score: 518
Period size: 131 Copynumber: 2.2 Consensus size: 131
47237267 TGGTGCCATA
47237277 ATTCCTTTGGAATTTCACTCATGTCTTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTG
1 ATTCCTTTGGAATTTCACTCATGTCTTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTG
*
47237342 GCCATTCGGGGAAACGTGCCCTATCGTTCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAA
66 GCCATTCGGGGAAACGTGCCCTATCGTTCTGGGTTGCAATTACCCGTTTGTTCAAAATAATCGAA
47237407 T
131 T
47237408 ATTCCTTTGGAATTTCACTCATGTCTTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTG
1 ATTCCTTTGGAATTTCACTCATGTCTTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTG
* * *
47237473 GCCATTCGGGGAATCGTGCCTTATCGTTCTGGGTTGCAATTACCTGTTTGTTCAAAATAATCGAA
66 GCCATTCGGGGAAACGTGCCCTATCGTTCTGGGTTGCAATTACCCGTTTGTTCAAAATAATCGAA
47237538 T
131 T
* *
47237539 ATTCCTTTAGAATTTCATTCATGT
1 ATTCCTTTGGAATTTCACTCATGT
47237563 TCTCTGAATT
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
131 149 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (131 bp):
ATTCCTTTGGAATTTCACTCATGTCTTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTG
GCCATTCGGGGAAACGTGCCCTATCGTTCTGGGTTGCAATTACCCGTTTGTTCAAAATAATCGAA
T
Found at i:47239133 original size:19 final size:19
Alignment explanation
Indices: 47239109--47239154 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
47239099 CTTTCTTTCC
47239109 TTTGCATT-CATCCCATGCA
1 TTTGCATTGCATCCCAT-CA
**
47239128 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATCCCATCA
47239147 TTTGCATT
1 TTTGCATT
47239155 AGATTTTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (19 bp):
TTTGCATTGCATCCCATCA
Found at i:47243048 original size:22 final size:24
Alignment explanation
Indices: 47243004--47243048 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
47242994 TAGGAGCATT
47243004 TAATTCATTTCGATCATAGCATCC
1 TAATTCATTTCGATCATAGCATCC
47243028 TAATT-ATTT-GA-CATAAGCATC
1 TAATTCATTTCGATCAT-AGCATC
47243049 ACATCTAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 3 0.15
22 8 0.40
23 4 0.20
24 5 0.25
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (24 bp):
TAATTCATTTCGATCATAGCATCC
Found at i:47243101 original size:64 final size:64
Alignment explanation
Indices: 47242984--47243107 Score: 194
Period size: 64 Copynumber: 1.9 Consensus size: 64
47242974 ATATTCATAA
* *
47242984 CACATCTTGTTAGGAGCATTTAATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAGCATCCTAATCATTTGACATAAGCAT
* * * *
47243048 CACATCTAGTTAGGAGCATTTAATTCATTTTGATCATAGCATCTTAGTCATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAGCATCCTAATCATTTGACATAA
47243108 ACATAGGCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.38
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTAATTCATTTCGATCATAGCATCCTAATCATTTGACATAAGCAT
Found at i:47243293 original size:88 final size:87
Alignment explanation
Indices: 47243217--47243969 Score: 653
Period size: 89 Copynumber: 8.6 Consensus size: 87
47243207 GCAAACCCTG
* * *
47243217 ACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAATAGTGGAG
1 ACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTAAACAGTAGTGGAG
*
47243282 CAAATCGAAGAAGCAGGCCTTA
66 CAAATCGAAGAAGCAAGCCTTA
* * * * * * *** *
47243304 ACTCCTTAAGTGGTAGGGTGACAGGCTGAAGATTGCAGATCTTGTTTGCTTGAAGTTGCAGTGGA
1 ACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCT-AAACAGTAGTGGA
* * * * **
47243369 ACAGATCAAAGATGGTGAGCCTTA
65 GCAAATCGAAGA-AGCAAGCCTTA
* * *
47243393 ACCCCCTAAGTGGTAGGGTAACAGGTTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTAGAG
1 ACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTAAACAGTAGTGGAG
47243458 CAAATCGAAGAAGCAAGCCTTAA
66 CAAATCGAAGAAGCAAGCCTT-A
* * * * * *** *
47243481 ACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAAATTTTGTTTTCCTGAAGTTGCAGTGGA
1 ACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCT-AAACAGTAGTGGA
* * * **
47243546 ACAGATCAAAGACAGTGAGCCTTA
65 GCAAATCGAAGA-AGCAAGCCTTA
* *** *
47243570 A-CCCCTAAGTGGTAGAGTAACAGGCTGAAGATCATAGATC-T-TATCCCTAAACAGTAGTGGAG
1 ACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTAAACAGTAGTGGAG
*
47243632 TAAATCGAAGAAGCAAGCCTTA
66 CAAATCGAAGAAGCAAGCCTTA
* * *
47243654 ACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTGAAGCTA-CAGTGG
1 ACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCT-AAAC-AGTAGTGG
** * * * **
47243718 AATAGATCAAAGACGGTGAGCCTTA
64 AGCAAATCGAAGA-AGCAAGCCTTA
* * * * * *
47243743 ACCCCCTAAGTGGTAGGGTAACAGGCTGAAGAGTGTAGATATTATCTCCTTAAATAGTAGTGGAG
1 ACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTAAACAGTAGTGGAG
47243808 CAAATCGAAGAAGCAAGCCTTA
66 CAAATCGAAGAAGCAAGCCTTA
* * * * * * *
47243830 ACCCCCTAAATGGTAAGATAATAGGCTGAAGATTGCA-AGTCTTGTCTCCCTGAAATTA-CAATG
1 ACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGA-TCTTGTCTCCCT-AAA-CAGTAGTG
* * *
47243893 GAACAGATTGAAGATGATGC--GCCTTA
63 GAGCAAATCGAAGA--A-GCAAGCCTTA
* *
47243919 ACCCCCTAAGTAGTAGGGTAACAGGCTGAA-ATTTGCA-AGTCTTATCTCCCT
1 ACCCCCTAAGTGGTAGGGTAACAGGCTGAAGA-TTGCAGA-TCTTGTCTCCCT
47243970 GAAGTTGCAG
Statistics
Matches: 522, Mismatches: 125, Indels: 36
0.76 0.18 0.05
Matches are distributed among these distances:
84 10 0.02
85 51 0.10
86 7 0.01
87 106 0.20
88 163 0.31
89 174 0.33
90 9 0.02
91 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (87 bp):
ACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCCTAAACAGTAGTGGAG
CAAATCGAAGAAGCAAGCCTTA
Found at i:47243577 original size:176 final size:176
Alignment explanation
Indices: 47243217--47243948 Score: 1029
Period size: 176 Copynumber: 4.2 Consensus size: 176
47243207 GCAAACCCTG
* *
47243217 ACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAATAGTGGAG
1 ACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAG
* * * *
47243282 CAAATCGAAGAAGCAGGCCTTAACTCCTTAAGTGGTAGGGTGACAGGCTGAAGATTGCAGATCTT
66 CAAATCGAAGAAGCAAGCCTTAACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAAATCTT
* * * * *
47243347 GTTTGCTTGAAGTTGCAGTGGAACAGATCAAAGATGGTGAGCCTTA
131 GTCTCCCTGAAGTTACAGTGGAACAGATCAAAGACGGTGAGCCTTA
* *
47243393 ACCCCCTAAGTGGTAGGGTAACAGGTTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTAGAG
1 ACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAG
*
47243458 CAAATCGAAGAAGCAAGCCTTAAACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAAATTT
66 CAAATCGAAGAAGCAAGCCTT-AACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAAATCT
* * * *
47243523 TGTTTTCCTGAAGTTGCAGTGGAACAGATCAAAGACAGTGAGCCTTA
130 TGTCTCCCTGAAGTTACAGTGGAACAGATCAAAGACGGTGAGCCTTA
* ** *
47243570 A-CCCCTAAGTGGTAGAGTAACAGGCTGAAGATCATAGATC-T-TATCCCTAAACAGTAGTGGAG
1 ACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAG
* *
47243632 TAAATCGAAGAAGCAAGCCTTAACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGATCTT
66 CAAATCGAAGAAGCAAGCCTTAACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAAATCTT
* *
47243697 GTCTCCCTGAAGCTACAGTGGAATAGATCAAAGACGGTGAGCCTTA
131 GTCTCCCTGAAGTTACAGTGGAACAGATCAAAGACGGTGAGCCTTA
* * * * *
47243743 ACCCCCTAAGTGGTAGGGTAACAGGCTGAAGAGTGTAGATATTATCTCCTTAAATAGTAGTGGAG
1 ACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAG
* * * * * *
47243808 CAAATCGAAGAAGCAAGCCTTAACCCCCTAAATGGTAAGATAATAGGCTGAAGATTGCAAGTCTT
66 CAAATCGAAGAAGCAAGCCTTAACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAAATCTT
* * ** * * *
47243873 GTCTCCCTGAAATTACAATGGAACAGATTGAAGATGATGCGCCTTA
131 GTCTCCCTGAAGTTACAGTGGAACAGATCAAAGACGGTGAGCCTTA
*
47243919 ACCCCCTAAGTAGTAGGGTAACAGGCTGAA
1 ACCCCCTAAGTGGTAGGGTAACAGGCTGAA
47243949 ATTTGCAAGT
Statistics
Matches: 498, Mismatches: 54, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
173 83 0.17
174 73 0.15
175 2 0.00
176 257 0.52
177 83 0.17
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (176 bp):
ACCCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAG
CAAATCGAAGAAGCAAGCCTTAACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAAATCTT
GTCTCCCTGAAGTTACAGTGGAACAGATCAAAGACGGTGAGCCTTA
Found at i:47243927 original size:350 final size:353
Alignment explanation
Indices: 47243217--47243948 Score: 1060
Period size: 350 Copynumber: 2.1 Consensus size: 353
47243207 GCAAACCCTG
** *
47243217 ACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAATAGTGGAG
1 ACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATCATAGATCTTGTATCCCTAAACAATAGTGGAG
* * *
47243282 CAAATCGAAGAAGCAGGCCTTAACTCCTTAAGTGGTAGGGTGACAGGCTGAAGATTGCAGATCTT
66 CAAATCGAAGAAGCAAGCCTTAACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGATCTT
* * * * * *
47243347 GTTTGCTTGAAGTTGCAGTGGAACAGATCAAAGATGGTGAGCCTTAACCCCCTAAGTGGTAGGGT
131 GTCTCCCTGAAGCTACAGTGGAACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTGGTAGGGT
* * * *
47243412 AACAGGTTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTAGAGCAAATCGAAGAAGCAAGCC
196 AACAGGCTGAAGAGTGTAGATATTATCTCCCTAAACAGTAGTAGAGCAAATCGAAGAAGCAAGCC
* * * * * * * * * *
47243477 TTAAACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAAATTTTGTTTTCCTGAAGTTGCAG
261 TTAAACCCCCTAAATGGTAAGATAACAGGCTGAAGATTGCAAATCTTGTCTCCCTGAAATTACAA
47243542 TGGAACAGATCAAAGACAGTGAGCCTTA
326 TGGAACAGATCAAAGACAGTGAGCCTTA
* * *
47243570 A-CCCCTAAGTGGTAGAGTAACAGGCTGAAGATCATAGATC-T-TATCCCTAAACAGTAGTGGAG
1 ACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATCATAGATCTTGTATCCCTAAACAATAGTGGAG
*
47243632 TAAATCGAAGAAGCAAGCCTTAACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGATCTT
66 CAAATCGAAGAAGCAAGCCTTAACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGATCTT
*
47243697 GTCTCCCTGAAGCTACAGTGGAATAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTGGTAGGGT
131 GTCTCCCTGAAGCTACAGTGGAACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTGGTAGGGT
* * *
47243762 AACAGGCTGAAGAGTGTAGATATTATCTCCTTAAATAGTAGTGGAGCAAATCGAAGAAGCAAGCC
196 AACAGGCTGAAGAGTGTAGATATTATCTCCCTAAACAGTAGTAGAGCAAATCGAAGAAGCAAGCC
* *
47243827 TT-AACCCCCTAAATGGTAAGATAATAGGCTGAAGATTGCAAGTCTTGTCTCCCTGAAATTACAA
261 TTAAACCCCCTAAATGGTAAGATAACAGGCTGAAGATTGCAAATCTTGTCTCCCTGAAATTACAA
** * *
47243891 TGGAACAGATTGAAGA-TGATGCGCCTTA
326 TGGAACAGATCAAAGACAG-TGAGCCTTA
47243919 ACCCCCTAAGTAGTAGGGTAACAGGCTGAA
1 ACCCCCTAAGTAGTAGGGTAACAGGCTGAA
47243949 ATTTGCAAGT
Statistics
Matches: 335, Mismatches: 42, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
348 1 0.00
349 73 0.22
350 224 0.67
351 1 0.00
352 35 0.10
353 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (353 bp):
ACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATCATAGATCTTGTATCCCTAAACAATAGTGGAG
CAAATCGAAGAAGCAAGCCTTAACTCCCTAAGTGGTAGGGTAACAGGCTGAAGATTGCAGATCTT
GTCTCCCTGAAGCTACAGTGGAACAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTGGTAGGGT
AACAGGCTGAAGAGTGTAGATATTATCTCCCTAAACAGTAGTAGAGCAAATCGAAGAAGCAAGCC
TTAAACCCCCTAAATGGTAAGATAACAGGCTGAAGATTGCAAATCTTGTCTCCCTGAAATTACAA
TGGAACAGATCAAAGACAGTGAGCCTTA
Found at i:47246726 original size:55 final size:55
Alignment explanation
Indices: 47246642--47246750 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 55
47246632 TTAAAAATTC
*
47246642 TTTAAAACGAAGGCAATGTTCGATGTTTGGCCATTCGGGGAAACGTGCCCTATCA
1 TTTAAAACGAAGGCAATGTTCGATGTTTGGCCATTCAGGGAAACGTGCCCTATCA
* *
47246697 TTTAAAACGAAGGCAATGTTTGATGTTTGGCCATTCAGGGAATCGTGCCCTATC
1 TTTAAAACGAAGGCAATGTTCGATGTTTGGCCATTCAGGGAAACGTGCCCTATC
47246751 GTGCTGGGTT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (55 bp):
TTTAAAACGAAGGCAATGTTCGATGTTTGGCCATTCAGGGAAACGTGCCCTATCA
Found at i:47246937 original size:131 final size:131
Alignment explanation
Indices: 47246700--47246946 Score: 424
Period size: 131 Copynumber: 1.9 Consensus size: 131
47246690 CCTATCATTT
* *
47246700 AAAACGAAGGCAATGTTTGATGTTTGGCCATTCAGGGAATCGTGCCCTATCGTGCTGGGTTGCAA
1 AAAACGAAGGCAATGTTCGATGTTTGGCCATTCAGGGAAACGTGCCCTATCGTGCTGGGTTGCAA
47246765 TTTCCCGTTCGTTCAAAATAATCGAATATTCCTTTGAAATTTCACTCATGTCTTTAAAAATTCTT
66 TTTCCCGTTCGTTCAAAATAATCGAATATTCCTTTGAAATTTCACTCATGTCTTTAAAAATTCTT
47246830 C
131 C
* * *
47246831 AAAACGAAGGTAATGTTCGATGTTTGGCCATTCGGGGAAACGTGCCCTATCGTTCTGGGTTGCAA
1 AAAACGAAGGCAATGTTCGATGTTTGGCCATTCAGGGAAACGTGCCCTATCGTGCTGGGTTGCAA
*
47246896 TTTCCCGTTTGTTCAAAATAATCGAATATTCCTTT-AGAATTTCACTCATGT
66 TTTCCCGTTCGTTCAAAATAATCGAATATTCCTTTGA-AATTTCACTCATGT
47246947 TCTCTGAATT
Statistics
Matches: 109, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
130 1 0.01
131 108 0.99
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (131 bp):
AAAACGAAGGCAATGTTCGATGTTTGGCCATTCAGGGAAACGTGCCCTATCGTGCTGGGTTGCAA
TTTCCCGTTCGTTCAAAATAATCGAATATTCCTTTGAAATTTCACTCATGTCTTTAAAAATTCTT
C
Found at i:47250002 original size:16 final size:16
Alignment explanation
Indices: 47249981--47250022 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
47249971 ATCGGCACAA
47249981 GCCGAAAAG-TCGAAAT
1 GCCGAAAAGCT-GAAAT
*
47249997 GCCGAAAAGCTTAAAT
1 GCCGAAAAGCTGAAAT
47250013 GCCGAAAAGC
1 GCCGAAAAGC
47250023 CGGTATTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 23 0.96
17 1 0.04
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (16 bp):
GCCGAAAAGCTGAAAT
Found at i:47250493 original size:54 final size:54
Alignment explanation
Indices: 47250411--47250554 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
47250401 TGGAGGAAGC
47250411 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
47250465 GTCCTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
47250519 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
47250555 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:47250565 original size:27 final size:27
Alignment explanation
Indices: 47250414--47250572 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
47250404 AGGAAGCGTC
*
47250414 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
47250441 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
47250468 CTAGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
47250495 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
47250522 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
47250549 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
47250573 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:47250566 original size:81 final size:80
Alignment explanation
Indices: 47250414--47250572 Score: 207
Period size: 81 Copynumber: 2.0 Consensus size: 80
47250404 AGGAAGCGTC
*
47250414 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTAGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTAGTGACTAT
47250479 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * * *
47250495 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTAGTGACT
*
47250558 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
47250573 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
80 17 0.25
81 52 0.75
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTAGTGACTAT
GCCACAATATCTGAT
Found at i:47254238 original size:6 final size:6
Alignment explanation
Indices: 47254227--47254270 Score: 52
Period size: 6 Copynumber: 6.7 Consensus size: 6
47254217 TAATTATTAG
47254227 TTTTAT TTTTAT TTTTATT ATTTTGGAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTA-T -TTTT--AT TTTTAT TTTTAT TTTT
47254271 GGGAAGTGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
6 23 0.68
7 1 0.03
8 8 0.24
9 1 0.03
10 1 0.03
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:47255039 original size:17 final size:17
Alignment explanation
Indices: 47255017--47255050 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
47255007 ATCCACTAAT
*
47255017 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
47255034 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
47255051 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:47256798 original size:9 final size:9
Alignment explanation
Indices: 47256784--47256808 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
47256774 AAACCCATGG
47256784 TAGTGGGTT
1 TAGTGGGTT
47256793 TAGTGGGTT
1 TAGTGGGTT
47256802 TAGTGGG
1 TAGTGGG
47256809 CTACAGTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (9 bp):
TAGTGGGTT
Found at i:47259712 original size:15 final size:15
Alignment explanation
Indices: 47259692--47259722 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
47259682 CCAACCTTCA
47259692 AATTTTACCTCAATT
1 AATTTTACCTCAATT
47259707 AATTTTACCTCAATT
1 AATTTTACCTCAATT
47259722 A
1 A
47259723 TACATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTTACCTCAATT
Found at i:47261983 original size:11 final size:11
Alignment explanation
Indices: 47261967--47261993 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
47261957 TAGAAATTAG
47261967 TTTGTGAAACT
1 TTTGTGAAACT
47261978 TTTGTGAAACT
1 TTTGTGAAACT
47261989 TTTGT
1 TTTGT
47261994 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:47263531 original size:92 final size:92
Alignment explanation
Indices: 47263395--47263588 Score: 286
Period size: 92 Copynumber: 2.1 Consensus size: 92
47263385 TTGATTTTAG
* *
47263395 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
*
47263459 TAT-TAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
47263486 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
47263551 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
47263579 CAAATTCATA
1 TAAATTCATA
47263589 AACTATAATC
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 17 0.18
92 43 0.46
93 30 0.32
94 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:47263636 original size:48 final size:52
Alignment explanation
Indices: 47263566--47263664 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
47263556 AATAATTATT
47263566 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
47263614 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
47263665 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:47263646 original size:17 final size:17
Alignment explanation
Indices: 47263621--47263654 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
47263611 ATAATTTTAA
*
47263621 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
47263638 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
47263655 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:47263671 original size:17 final size:16
Alignment explanation
Indices: 47263626--47263673 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
47263616 TTTAAATTTT
47263626 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
47263643 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
47263657 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
47263674 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:47263753 original size:15 final size:15
Alignment explanation
Indices: 47263718--47263769 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
47263708 TTAAGAATTT
*
47263718 TATTAAATTAT-ATA
1 TATTTAATTATAATA
47263732 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
47263746 TATTTAATAATAAT-
1 TATTTAATTATAATA
47263760 TATGTTAATT
1 TAT-TTAATT
47263770 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:47269263 original size:17 final size:16
Alignment explanation
Indices: 47269242--47269294 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 16
47269232 AATATATGAA
47269242 AAAAATTAAAAAATCTTT
1 AAAAA-TAAAAAAT-TTT
47269260 AAAAATAAAAATATTTT
1 AAAAATAAAAA-ATTTT
47269277 AAAAATATAAAAATTTT
1 AAAAATA-AAAAATTTT
47269294 A
1 A
47269295 GACCGAACTG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAATAAAAAATTTT
Found at i:47269263 original size:18 final size:18
Alignment explanation
Indices: 47269223--47269290 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 18
47269213 TATTTTTATA
***
47269223 AAAAATTAAAATATATGAA
1 AAAAATTAAAA-ATATTTT
47269242 AAAAATTAAAAA-ATCTTT
1 AAAAATTAAAAATAT-TTT
47269260 AAAAA-TAAAAATATTTT
1 AAAAATTAAAAATATTTT
47269277 AAAAATATAAAAAT
1 AAAAAT-TAAAAAT
47269291 TTTAGACCGA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
17 16 0.38
18 8 0.19
19 18 0.43
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (18 bp):
AAAAATTAAAAATATTTT
Found at i:47283011 original size:22 final size:23
Alignment explanation
Indices: 47282986--47283060 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 23
47282976 TTAAATAATC
47282986 AAATATAATA-AATAATATTTAA
1 AAATATAATATAATAATATTTAA
*
47283008 AAAT-TAATATAA-AGATATTCAA
1 AAATATAATATAATA-ATATTTAA
* * *
47283030 ATAATTTAATATAATGATATAT-A
1 A-AATATAATATAATAATATTTAA
47283053 AAATATAA
1 AAATATAA
47283061 ATTAATCTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
21 6 0.14
22 20 0.47
23 5 0.12
24 12 0.28
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (23 bp):
AAATATAATATAATAATATTTAA
Found at i:47283016 original size:26 final size:27
Alignment explanation
Indices: 47282953--47283019 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 27
47282943 AATTTTTTTT
47282953 AAATTAATA-ATATATAAAATATTTTAA
1 AAATTAATATA-ATATAAAATATTTTAA
*
47282980 ATAATCAAATATAATA-AATAATA-TTTAA
1 A-AAT-TAATATAATATAA-AATATTTTAA
47283008 AAATTAATATAA
1 AAATTAATATAA
47283020 AGATATTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
26 7 0.21
27 4 0.12
28 11 0.32
29 11 0.32
30 1 0.03
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (27 bp):
AAATTAATATAATATAAAATATTTTAA
Found at i:47284049 original size:23 final size:22
Alignment explanation
Indices: 47283978--47284053 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 22
47283968 ATTTTTCCCC
47283978 AATTCAACTTTTTTTTGTCTCTAT
1 AATTCAAC--TTTTTTGTCTCTAT
** *
47284002 AATTTGA-TTTGTTTGTCCCTAT
1 AATTCAACTTT-TTTGTCTCTAT
*
47284024 AATTCAACCTTTTTTGTCTCTGT
1 AATTCAA-CTTTTTTGTCTCTAT
47284047 AATTCAA
1 AATTCAA
47284054 AATTTATTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
21 3 0.07
22 15 0.36
23 16 0.38
24 8 0.19
ACGTcount: A:0.22, C:0.17, G:0.08, T:0.53
Consensus pattern (22 bp):
AATTCAACTTTTTTGTCTCTAT
Found at i:47295126 original size:96 final size:96
Alignment explanation
Indices: 47294969--47295143 Score: 260
Period size: 96 Copynumber: 1.8 Consensus size: 96
47294959 GTTATCGATG
* * * *
47294969 GGAATGATCAAGCAGATACGGAGCCCAAGAAGCTTGGTTCGAGCAAGGGAAAAGCCGAAGCCAAG
1 GGAATGATCAAGCAGACAAGGAGCCCAAAAAGCTTAGTTCGAGCAAGGGAAAAGCCGAAGCCAAG
47295034 AGGGCAAAGAGGAGCAAGTCTGTCATCGAAA
66 AGGGCAAAGAGGAGCAAGTCTGTCATCGAAA
* * * *
47295065 GGAATGATGAAGCAGACAATGAGCTCAAAAAGCTTAGTTCGAGCAAGGGTAAAGCCGAAGCCAAG
1 GGAATGATCAAGCAGACAAGGAGCCCAAAAAGCTTAGTTCGAGCAAGGGAAAAGCCGAAGCCAAG
**
47295130 AGGGCTCAGAGGAG
66 AGGGCAAAGAGGAG
47295144 TAAAAAGAAG
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
96 69 1.00
ACGTcount: A:0.38, C:0.18, G:0.33, T:0.12
Consensus pattern (96 bp):
GGAATGATCAAGCAGACAAGGAGCCCAAAAAGCTTAGTTCGAGCAAGGGAAAAGCCGAAGCCAAG
AGGGCAAAGAGGAGCAAGTCTGTCATCGAAA
Found at i:47296779 original size:22 final size:22
Alignment explanation
Indices: 47296748--47296793 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
47296738 CTTGATTATG
*
47296748 CTGTCTCTAGTACTGACATTCT
1 CTGTCCCTAGTACTGACATTCT
*
47296770 CTGTCCCTAGTATTGACATTCT
1 CTGTCCCTAGTACTGACATTCT
47296792 CT
1 CT
47296794 ATGAACTCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.28, G:0.13, T:0.41
Consensus pattern (22 bp):
CTGTCCCTAGTACTGACATTCT
Found at i:47300513 original size:137 final size:137
Alignment explanation
Indices: 47300317--47300569 Score: 319
Period size: 137 Copynumber: 1.8 Consensus size: 137
47300307 TAGTATCAGC
* * * * * *
47300317 TGGGAGTTTTGCTCTCGCTAATTACGTTGGAGGCTACGGTTTTTATCTTGCAAGTCTTAATATGA
1 TGGGAGTTTTGCTCTCGCTAACTACGTTGGAGGCTACAGTATTTATCCTACAAGCCTTAATATGA
* * *
47300382 CAGCT-GAGAGCTTTACTCTCGCTAATTGTGTTAGAGACTGCAATTTTTATCTTAAAGCTTTAAT
66 AAGCTAG-GAGCTTTACTCTCACTAACTGTGTTAGAGACTGCAATTTTTATCTTAAAGCTTTAAT
47300446 ATGATAGT
130 ATGATAGT
* * * *
47300454 TGGGAGTTTTGCTCTTGCTAACTATGTTGGAGGCTGCAGTATTTATCCTACGAGCCTTAATATGA
1 TGGGAGTTTTGCTCTCGCTAACTACGTTGGAGGCTACAGTATTTATCCTACAAGCCTTAATATGA
* * * * **
47300519 AAGCTAGGAGCTTTGCTCTTACTAACTGTGTTGGAGGCTGCGGTTTTTATC
66 AAGCTAGGAGCTTTACTCTCACTAACTGTGTTAGAGACTGCAATTTTTATC
47300570 CTGTGAGCCT
Statistics
Matches: 96, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
137 95 0.99
138 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.38
Consensus pattern (137 bp):
TGGGAGTTTTGCTCTCGCTAACTACGTTGGAGGCTACAGTATTTATCCTACAAGCCTTAATATGA
AAGCTAGGAGCTTTACTCTCACTAACTGTGTTAGAGACTGCAATTTTTATCTTAAAGCTTTAATA
TGATAGT
Found at i:47300578 original size:69 final size:69
Alignment explanation
Indices: 47300126--47300589 Score: 295
Period size: 69 Copynumber: 6.8 Consensus size: 69
47300116 TTTTCAACTT
* * * * * * * * * *
47300126 TTGCTAACTATGTTGGAGGTTACGATTTTTATCCTGTAAGCTTTAGTATGACAGTTGGAAGATTT
1 TTGCTAATTATGTTGGAGGCTGCGGTTTTTATCCTATAAGCCTTAATATGACAGCTGGGAGCTTT
47300191 GCTC
66 GCTC
*** *** ** * * * ** * * * *
47300195 TCATTAATTGCATTAAAAGCTGCGATTTTTATCTTACGAGCTTTAGTATGACAACTGAGAGCTTT
1 TTGCTAATTATGTTGGAGGCTGCGGTTTTTATCCTATAAGCCTTAATATGACAGCTGGGAGCTTT
*
47300260 GCTT
66 GCTC
* * * * * * *
47300264 TTACTAATTTTGTTGAAGGCTGTGGTTTTTATCCTATAATCCTTAGTAT--CAGCTGGGAGTTTT
1 TTGCTAATTATGTTGGAGGCTGCGGTTTTTATCCTATAAGCCTTAATATGACAGCTGGGAGCTTT
47300327 GCTC
66 GCTC
* * * * ** * *
47300331 TCGCTAATTACGTTGGAGGCTACGGTTTTTATCTTGCAAGTCTTAATATGACAGCTGAGAGCTTT
1 TTGCTAATTATGTTGGAGGCTGCGGTTTTTATCCTATAAGCCTTAATATGACAGCTGGGAGCTTT
*
47300396 ACTC
66 GCTC
* * * * ** * * * * *
47300400 TCGCTAATTGTGTTAGAGACTGCAATTTTTATCTTA-AAGCTTTAATATGATAGTTGGGAGTTTT
1 TTGCTAATTATGTTGGAGGCTGCGGTTTTTATCCTATAAGCCTTAATATGACAGCTGGGAGCTTT
47300464 GCTC
66 GCTC
* * * ** * *
47300468 TTGCTAACTATGTTGGAGGCTGCAGTATTTATCCTACGAGCCTTAATATGAAAGCTAGGAGCTTT
1 TTGCTAATTATGTTGGAGGCTGCGGTTTTTATCCTATAAGCCTTAATATGACAGCTGGGAGCTTT
47300533 GCTC
66 GCTC
* * * * * *
47300537 TTACTAACTGTGTTGGAGGCTGCGGTTTTTATCCTGTGAGCCTTAATTTGACA
1 TTGCTAATTATGTTGGAGGCTGCGGTTTTTATCCTATAAGCCTTAATATGACA
47300590 TAAATATTGC
Statistics
Matches: 299, Mismatches: 93, Indels: 6
0.75 0.23 0.02
Matches are distributed among these distances:
67 50 0.17
68 53 0.18
69 196 0.66
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (69 bp):
TTGCTAATTATGTTGGAGGCTGCGGTTTTTATCCTATAAGCCTTAATATGACAGCTGGGAGCTTT
GCTC
Found at i:47313682 original size:14 final size:14
Alignment explanation
Indices: 47313665--47313691 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47313655 AGGGTTTTTA
47313665 TTTTAAATTTTAAG
1 TTTTAAATTTTAAG
47313679 TTTTAAATTTTAA
1 TTTTAAATTTTAA
47313692 AACAGAGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
TTTTAAATTTTAAG
Found at i:47315511 original size:117 final size:117
Alignment explanation
Indices: 47315360--47315710 Score: 684
Period size: 117 Copynumber: 3.0 Consensus size: 117
47315350 CATGAACGGA
*
47315360 GAACTAAAAGATTTATTGAATGCTAGAGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
1 GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
*
47315425 TGGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
66 TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
47315477 GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
1 GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
47315542 TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
66 TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
47315594 GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
1 GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
47315659 TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
66 TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
47315711 AGAAACTTAT
Statistics
Matches: 232, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 232 1.00
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.26
Consensus pattern (117 bp):
GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
Found at i:47316138 original size:174 final size:174
Alignment explanation
Indices: 47315848--47316200 Score: 652
Period size: 174 Copynumber: 2.0 Consensus size: 174
47315838 AGGAAGCACT
*
47315848 TGAAATCAATGGTACCGGAGAAACAGAAGTTCCAAGGGACGAGGAAAAAAGAAGTCTCAAGTCTG
1 TGAAATCAATGGTACCGGAGAAACAGAAGTCCCAAGGGACGAGGAAAAAAGAAGTCTCAAGTCTG
*
47315913 ATACAGTAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGACAAGAGTGTACAGAAGTAAAA
66 ATACAGCAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGACAAGAGTGTACAGAAGTAAAA
* *
47315978 GGGGCTACAGCTGGTCTTGATTCAGTGGATGGTGGAGATGAAGA
131 GGGGCTACAGCTGGTCTTGATCCAGTGGATAGTGGAGATGAAGA
* *
47316022 TGAAATCAATGGTACCGGAGAAACAGAAGTCCCAAGGGATGAGGAAAAAATAAGTCTCAAGTCTG
1 TGAAATCAATGGTACCGGAGAAACAGAAGTCCCAAGGGACGAGGAAAAAAGAAGTCTCAAGTCTG
47316087 ATACAGCAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGACAAGAGTGTACAGAAGTAAAA
66 ATACAGCAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGACAAGAGTGTACAGAAGTAAAA
47316152 GGGGCTACAGCTGGTCTTGATCCAGTGGATAGTGGAGATGAAGA
131 GGGGCTACAGCTGGTCTTGATCCAGTGGATAGTGGAGATGAAGA
47316196 TGAAA
1 TGAAA
47316201 AAGCAAATAA
Statistics
Matches: 173, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 173 1.00
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.19
Consensus pattern (174 bp):
TGAAATCAATGGTACCGGAGAAACAGAAGTCCCAAGGGACGAGGAAAAAAGAAGTCTCAAGTCTG
ATACAGCAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGACAAGAGTGTACAGAAGTAAAA
GGGGCTACAGCTGGTCTTGATCCAGTGGATAGTGGAGATGAAGA
Found at i:47324431 original size:11 final size:10
Alignment explanation
Indices: 47324408--47324441 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
47324398 AATTTATGCA
47324408 ATTTATATAT
1 ATTTATATAT
47324418 ATTTATATTAT
1 ATTTATA-TAT
47324429 ATTTA-ATAT
1 ATTTATATAT
47324438 ATTT
1 ATTT
47324442 TCATTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.30
10 8 0.35
11 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTTATATAT
Found at i:47324494 original size:16 final size:14
Alignment explanation
Indices: 47324461--47324487 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47324451 ATTTTTTAGA
47324461 ATATTTAAAAATTT
1 ATATTTAAAAATTT
47324475 ATATTTAAAAATT
1 ATATTTAAAAATT
47324488 ATTATATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATATTTAAAAATTT
Found at i:47324818 original size:99 final size:99
Alignment explanation
Indices: 47324647--47324936 Score: 571
Period size: 99 Copynumber: 2.9 Consensus size: 99
47324637 GGATTATTAA
*
47324647 ATGGTGATTTTTGAATTTTCCATATACATATATAGAAATAGAAAAAGATAGAATAGAACCGACAT
1 ATGGTGATTTTTGAATTTTCCATATACATATATAGAAATAGAAAAAGATAGACTAGAACCGACAT
47324712 CTCTTATGTCATAACCATGACAATATACATATAT
66 CTCTTATGTCATAACCATGACAATATACATATAT
47324746 ATGGTGATTTTTGAATTTTCCATATACATATATAGAAATAGAAAAAGATAGACTAGAACCGACAT
1 ATGGTGATTTTTGAATTTTCCATATACATATATAGAAATAGAAAAAGATAGACTAGAACCGACAT
47324811 CTCTTATGTCATAACCATGACAATATACATATAT
66 CTCTTATGTCATAACCATGACAATATACATATAT
47324845 ATGGTGATTTTTGAATTTTCCATATACATATATAGAAATAGAAAAAGATAGACTAGAACCGACAT
1 ATGGTGATTTTTGAATTTTCCATATACATATATAGAAATAGAAAAAGATAGACTAGAACCGACAT
47324910 CTCTTATGTCATAACCATGACAATATA
66 CTCTTATGTCATAACCATGACAATATA
47324937 AAAATGAAAT
Statistics
Matches: 190, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 190 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (99 bp):
ATGGTGATTTTTGAATTTTCCATATACATATATAGAAATAGAAAAAGATAGACTAGAACCGACAT
CTCTTATGTCATAACCATGACAATATACATATAT
Found at i:47325772 original size:16 final size:16
Alignment explanation
Indices: 47325753--47325783 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47325743 ATAGAAAATA
47325753 AATATAATATGTAAAC
1 AATATAATATGTAAAC
*
47325769 AATATACTATGTAAA
1 AATATAATATGTAAA
47325784 TGAATAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (16 bp):
AATATAATATGTAAAC
Found at i:47326475 original size:25 final size:25
Alignment explanation
Indices: 47326446--47326497 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
47326436 CAGTTTTAAG
47326446 TTTATATTAAATATTATTTTTATGA
1 TTTATATTAAATATTATTTTTATGA
47326471 TTTATATTAAATATTATTTTTATGA
1 TTTATATTAAATATTATTTTTATGA
47326496 TT
1 TT
47326498 CTAACAAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (25 bp):
TTTATATTAAATATTATTTTTATGA
Found at i:47326699 original size:22 final size:21
Alignment explanation
Indices: 47326661--47326708 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
47326651 GTTTTACTTA
*
47326661 ATTATGATTAATGTTTTTAGGG
1 ATTATGATTAAT-ATTTTAGGG
47326683 ATTATGATTGAA-ATTTTAGGG
1 ATTATGATT-AATATTTTAGGG
*
47326704 TTTAT
1 ATTAT
47326709 ACCAAACCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 12 0.52
22 9 0.39
23 2 0.09
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (21 bp):
ATTATGATTAATATTTTAGGG
Found at i:47334455 original size:32 final size:31
Alignment explanation
Indices: 47334414--47334477 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
47334404 AAGTATCCAA
* *
47334414 ACAGCGATTACGAGTCCCTGAATCTTTCCCT
1 ACAGCGATTACGAGTACCTGAAACTTTCCCT
47334445 NACAGCGATTACGAGTACCTGAAACTTTCCCT
1 -ACAGCGATTACGAGTACCTGAAACTTTCCCT
47334477 A
1 A
47334478 ACCAGCATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 1 0.03
32 29 0.97
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (31 bp):
ACAGCGATTACGAGTACCTGAAACTTTCCCT
Found at i:47340887 original size:36 final size:36
Alignment explanation
Indices: 47340847--47340931 Score: 98
Period size: 36 Copynumber: 2.4 Consensus size: 36
47340837 TTATTTGATT
* * * *
47340847 TTATATGCGAGCCGTGATATCTGAACCATGTGTTTA
1 TTATATGCGAGCCATGATATCTGAACCATATATTGA
** * *
47340883 TTATATATGAGCCATGTTATGTGAACCATATATTGA
1 TTATATGCGAGCCATGATATCTGAACCATATATTGA
47340919 TTATATGCGAGCC
1 TTATATGCGAGCC
47340932 TATATACGAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.36
Consensus pattern (36 bp):
TTATATGCGAGCCATGATATCTGAACCATATATTGA
Found at i:47340989 original size:29 final size:29
Alignment explanation
Indices: 47340927--47341024 Score: 110
Period size: 29 Copynumber: 3.4 Consensus size: 29
47340917 GATTATATGC
* * *
47340927 GAGCCTATATACGAACCCTA-GAATTATGCA
1 GAGCCTACATGCGAACCCTAGGAA-CATG-A
* *
47340957 -AGCCTATATGTGAACCCTAGGAACATGA
1 GAGCCTACATGCGAACCCTAGGAACATGA
*
47340985 GAGCCTACATGCGAACCCTAGGTACATGA
1 GAGCCTACATGCGAACCCTAGGAACATGA
47341014 GAGCCTACATG
1 GAGCCTACATG
47341025 TGAGCCTATG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
28 1 0.02
29 56 0.93
30 3 0.05
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.20
Consensus pattern (29 bp):
GAGCCTACATGCGAACCCTAGGAACATGA
Found at i:47341089 original size:70 final size:70
Alignment explanation
Indices: 47340957--47341090 Score: 182
Period size: 70 Copynumber: 1.9 Consensus size: 70
47340947 GAATTATGCA
*
47340957 AGCCTATATGTGAACCCTAGGAACATGAGAGCCTACATGCGAACCCTAGGTACATGAGAGCCTAC
1 AGCCTATATGTGAACCCTAGGAACATGAGAGCCTACATGCGAACCCTAGGTACATGAAAGCCTAC
47341022 ATGTG
66 ATGTG
* * * * *
47341027 AGCCTATGTGTGAACCCTAGGAACTTGCGAGTCTAGATGC-AACCCCTAGGTACAT-ACAAGCCT
1 AGCCTATATGTGAACCCTAGGAACATGAGAGCCTACATGCGAA-CCCTAGGTACATGA-AAGCCT
47341090 A
64 A
47341091 TATGATCATG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
69 3 0.05
70 53 0.95
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (70 bp):
AGCCTATATGTGAACCCTAGGAACATGAGAGCCTACATGCGAACCCTAGGTACATGAAAGCCTAC
ATGTG
Found at i:47343014 original size:27 final size:26
Alignment explanation
Indices: 47342983--47343089 Score: 80
Period size: 24 Copynumber: 4.2 Consensus size: 26
47342973 TGGTTCTTAC
*
47342983 GAGCTTCCCGATTAA-AGGCTCTTTCG
1 GAGCTTCCCGATTAATAGGCTCTCT-G
** *
47343009 TGAGCTTCTTGATTAATTGGCTCTCTG
1 -GAGCTTCCCGATTAATAGGCTCTCTG
* * *
47343036 GAGCTTCCCGA-T-ATTGGCTCGCTT
1 GAGCTTCCCGATTAATAGGCTCTCTG
* *
47343060 GAACTTCCCG-TTAAT-GGCTCTCCG
1 GAGCTTCCCGATTAATAGGCTCTCTG
47343084 GAGCTT
1 GAGCTT
47343090 TCTGTTACAT
Statistics
Matches: 64, Mismatches: 13, Indels: 9
0.74 0.15 0.10
Matches are distributed among these distances:
24 31 0.48
25 3 0.05
26 9 0.14
27 14 0.22
28 7 0.11
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (26 bp):
GAGCTTCCCGATTAATAGGCTCTCTG
Found at i:47343920 original size:13 final size:13
Alignment explanation
Indices: 47343902--47343927 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47343892 GGGATTTGTT
47343902 TTAACTAAACTAA
1 TTAACTAAACTAA
47343915 TTAACTAAACTAA
1 TTAACTAAACTAA
47343928 GAATGCACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:47348065 original size:21 final size:21
Alignment explanation
Indices: 47348032--47348071 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47348022 ATATTAATTT
*
47348032 TTTTAAATATATTTAATAATA
1 TTTTAAATATATTGAATAATA
47348053 TTTTAGAAT-TATTGAATAA
1 TTTTA-AATATATTGAATAA
47348072 ATATATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
TTTTAAATATATTGAATAATA
Found at i:47349331 original size:21 final size:21
Alignment explanation
Indices: 47349307--47349346 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
47349297 TTAATGATGA
47349307 TTAAATTAAACTAATTAAGGG
1 TTAAATTAAACTAATTAAGGG
* **
47349328 TTAACTTAAGTTAATTAAG
1 TTAAATTAAACTAATTAAG
47349347 ATTAATTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (21 bp):
TTAAATTAAACTAATTAAGGG
Found at i:47351277 original size:46 final size:46
Alignment explanation
Indices: 47351224--47351315 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
47351214 CTTGATAATC
47351224 GAATAAATGAATGTTGGTAAGATATTTTTTTTCGCACTATTTGTTT
1 GAATAAATGAATGTTGGTAAGATATTTTTTTTCGCACTATTTGTTT
*
47351270 GAATAAATGAATGTTTGTAAGATATTTTTTTTCGCACTATTTGTTT
1 GAATAAATGAATGTTGGTAAGATATTTTTTTTCGCACTATTTGTTT
47351316 TAAATTTTCT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.49
Consensus pattern (46 bp):
GAATAAATGAATGTTGGTAAGATATTTTTTTTCGCACTATTTGTTT
Found at i:47351545 original size:24 final size:24
Alignment explanation
Indices: 47351518--47351568 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
47351508 ATATGGTGGC
47351518 TATGAATTTTCATAAGTAGTTGCG
1 TATGAATTTTCATAAGTAGTTGCG
*
47351542 TATGAATTTTCATAGGTAGTTGCG
1 TATGAATTTTCATAAGTAGTTGCG
47351566 TAT
1 TAT
47351569 ATAAAGACTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (24 bp):
TATGAATTTTCATAAGTAGTTGCG
Found at i:47351754 original size:17 final size:18
Alignment explanation
Indices: 47351727--47351772 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
47351717 GTATTAATTT
47351727 TATAT-TATTATAAT-TG
1 TATATATATTATAATGTG
* *
47351743 TGTATATATTAT-GTGTG
1 TATATATATTATAATGTG
47351760 TATATATATTATA
1 TATATATATTATA
47351773 TGCATTCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
TATATATATTATAATGTG
Found at i:47354127 original size:57 final size:57
Alignment explanation
Indices: 47354053--47354162 Score: 175
Period size: 57 Copynumber: 1.9 Consensus size: 57
47354043 GTTTTTAAGG
* * * *
47354053 AGGAATTGAATTTTAACTTAGTTCCTACTATCACTTTTGATGATGTTTAGGTTAATA
1 AGGAATTGAATTCTAACTCAGTTCCTACTATCACTTTCGATAATGTTTAGGTTAATA
*
47354110 AGGAATTGAATTCTAACTCATTTCCTACTATCACTTTCGATAATGTTTAGGTT
1 AGGAATTGAATTCTAACTCAGTTCCTACTATCACTTTCGATAATGTTTAGGTT
47354163 CTCATACCTA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.43
Consensus pattern (57 bp):
AGGAATTGAATTCTAACTCAGTTCCTACTATCACTTTCGATAATGTTTAGGTTAATA
Found at i:47355765 original size:59 final size:59
Alignment explanation
Indices: 47355698--47355819 Score: 235
Period size: 59 Copynumber: 2.1 Consensus size: 59
47355688 TTATTTACTA
*
47355698 TAATGATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGGTTAAATTTTTATTGGGCTT
1 TAATGATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGGTTAAAATTTTATTGGGCTT
47355757 TAATGATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGGTTAAAATTTTATTGGGCTT
1 TAATGATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGGTTAAAATTTTATTGGGCTT
47355816 TAAT
1 TAAT
47355820 TATTAAATAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (59 bp):
TAATGATAGGTTAGCCCAAATTAAAAGTGATCTAATTTGGTTAAAATTTTATTGGGCTT
Found at i:47357295 original size:14 final size:13
Alignment explanation
Indices: 47357265--47357294 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
47357255 ATGCAAACAC
47357265 AAAACAAACCAAA
1 AAAACAAACCAAA
*
47357278 AAAATAAACCAAA
1 AAAACAAACCAAA
47357291 AAAA
1 AAAA
47357295 AACCATAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.17, G:0.00, T:0.03
Consensus pattern (13 bp):
AAAACAAACCAAA
Found at i:47359797 original size:131 final size:129
Alignment explanation
Indices: 47359563--47360217 Score: 491
Period size: 131 Copynumber: 5.0 Consensus size: 129
47359553 AGTTTCACAA
* * ** ** **
47359563 TTATTAAAAATCCTTTAAAATGAAGGTGATATTCGATACTCAGTAATTCGTGGAATCGTGCCCTA
1 TTATTAAAAATCCCTTAAAACGAAGGCAATA-TCGATGTTTGGTAATTCG-GGAATCGTGCCCTA
* * * * * ** * *
47359628 ACGTGTTGGGTTGCAATTCCTCGTTTGCTCAACGTAATCGAAGGTCCCTTTAGAATTTCACCCAC
64 ACGTGCTGGGTTGTAGTTTCTCGTTTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCAC
47359693 G
129 G
*
47359694 ATTATTAAAAATCCCTT-AAACGAAGGCAATATGCGATATTTGGTAATTCGCGGAATCGTGCCCT
1 -TTATTAAAAATCCCTTAAAACGAAGGCAATAT-CGATGTTTGGTAATTCG-GGAATCGTGCCCT
* * * * *
47359758 AACGTGCTGGGTTGTAGTTTCCCGTTTGCTT-AAAATAATCAAATATCCCTTCAAAATTTCACTC
63 AACGTGCTGGGTTGTAGTTTCTCGTTTG-TTCAAAATAATCGAAGATCCCTTTAGAATTTCACTC
*
47359822 ATG
127 ACG
* * * * *
47359825 TCT-TCTAAAAATCCTTTAAAACGAAGGCAATACTCGGTGTTTGATAATTCGAGAATCATGCCCT
1 T-TAT-TAAAAATCCCTTAAAACGAAGGCAATA-TCGATGTTTGGTAATTCGGGAATCGTGCCCT
* * * * * *
47359889 ATCGTTCTGGGTTGT-GATTTCTCGTTTGTTCAAAACAATCGAATATTCCTTTAG-GTATTCACT
63 AACGTGCTGGGTTGTAG-TTTCTCGTTTGTTCAAAATAATCGAAGATCCCTTTAGAAT-TTCACT
**
47359952 CGTG
126 CACG
* ** * *
47359956 TTTATTAAAAA--CCTTCCAAAACAAAAACAATACTCGGTGTTTGATAATTCGGGAATCGTGCCC
1 -TTATTAAAAATCCCTT--AAAACGAAGGCAATA-TCGATGTTTGGTAATTCGGGAATCGTGCCC
* * * * * * *
47360019 TAATGTGTTGGGTTGT-GATTTCTCATTTTTTCAAAACAATCGAAGATTCC-TTCGAAATTTCAC
62 TAACGTGCTGGGTTGTAG-TTTCTCGTTTGTTCAAAATAATCGAAGATCCCTTTAG-AATTTCAC
47360082 TCACG
125 TCACG
* * * * * *
47360087 TTTTCTAAAAAAACCCTTTAAAACGAAGGCGATATTCGATGTTTGGAAATTCGAGGAATAGTACC
1 TTAT-T-AAAAATCCC-TTAAAACGAAGGCAATA-TCGATGTTTGGTAATTCG-GGAATCGTGCC
* * * * * **
47360152 CTATCGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCTCTTCGGAATTTCACT
61 CTAACGTGCTGGGTTGTAGTTTCTCGTTTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACT
47360217 C
126 C
47360218 GTATTTTCTA
Statistics
Matches: 420, Mismatches: 80, Indels: 44
0.77 0.15 0.08
Matches are distributed among these distances:
129 3 0.01
130 13 0.03
131 261 0.62
132 52 0.12
133 27 0.06
134 60 0.14
135 4 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (129 bp):
TTATTAAAAATCCCTTAAAACGAAGGCAATATCGATGTTTGGTAATTCGGGAATCGTGCCCTAAC
GTGCTGGGTTGTAGTTTCTCGTTTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCACG
Found at i:47372865 original size:18 final size:19
Alignment explanation
Indices: 47372830--47372866 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
47372820 ATTATTAAGA
47372830 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
47372849 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
47372867 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:47373096 original size:44 final size:45
Alignment explanation
Indices: 47373031--47373121 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
47373021 ACCTCTATTC
* * *
47373031 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
47373075 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
47373120 CA
1 CA
47373122 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:47373136 original size:17 final size:16
Alignment explanation
Indices: 47373102--47373154 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
47373092 GATTAGCTAT
47373102 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47373118 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
47373135 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47373151 TACA
1 TACA
47373155 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:47373389 original size:22 final size:24
Alignment explanation
Indices: 47373346--47373389 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
47373336 ATTATATTGT
*
47373346 TAAATTGATATTTATAAATATTTA
1 TAAATTGATATTTAGAAATATTTA
*
47373370 TAAATT-A-ATTTAGAATTATT
1 TAAATTGATATTTAGAAATATT
47373390 AATTATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 1 0.06
24 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (24 bp):
TAAATTGATATTTAGAAATATTTA
Found at i:47373545 original size:18 final size:19
Alignment explanation
Indices: 47373501--47373545 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
47373491 AAAAAATTCT
*
47373501 TAATTATTTTTATTTGTTA
1 TAATTATTTTTATTTGTCA
*
47373520 TAAGTATTTTTATTT-TCA
1 TAATTATTTTTATTTGTCA
*
47373538 TATTTATT
1 TAATTATT
47373546 AATCAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (19 bp):
TAATTATTTTTATTTGTCA
Found at i:47374285 original size:24 final size:24
Alignment explanation
Indices: 47374241--47374287 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
47374231 TTTTAACTTC
*
47374241 TTTTATTTATAAAATATTATTTAT
1 TTTTATTTATAAAATAATATTTAT
47374265 TTTTAATTTATAAAA-AATATTTA
1 TTTT-ATTTATAAAATAATATTTA
47374288 CCTGCAACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTATTTATAAAATAATATTTAT
Found at i:47374340 original size:31 final size:31
Alignment explanation
Indices: 47374304--47374370 Score: 118
Period size: 30 Copynumber: 2.2 Consensus size: 31
47374294 ACACAGGTAG
47374304 GTGAGAAAGAAATATATGGAAACATTGACTT
1 GTGAGAAAGAAATATATGGAAACATTGACTT
*
47374335 GTGAG-AAGAAATATATGGAAACATTGAGTT
1 GTGAGAAAGAAATATATGGAAACATTGACTT
47374365 GTGAGA
1 GTGAGA
47374371 TAGTTTTTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 29 0.85
31 5 0.15
ACGTcount: A:0.43, C:0.04, G:0.27, T:0.25
Consensus pattern (31 bp):
GTGAGAAAGAAATATATGGAAACATTGACTT
Found at i:47377039 original size:7 final size:7
Alignment explanation
Indices: 47377027--47377059 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
47377017 GAGTCGATTC
47377027 GTATTTA
1 GTATTTA
47377034 GTATTTA
1 GTATTTA
47377041 GTATTTA
1 GTATTTA
*
47377048 CTATTTA
1 GTATTTA
47377055 GTATT
1 GTATT
47377060 ATGTATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:47377584 original size:30 final size:29
Alignment explanation
Indices: 47377531--47377621 Score: 103
Period size: 30 Copynumber: 3.1 Consensus size: 29
47377521 GACGCGGGCT
*
47377531 CATCAACAGCG-CCACAGAATCACCGGGCC
1 CATCAACAGCGCCCACACAATCACC-GGCC
* * *
47377560 CATCAATAGTGCCCATACAATCACCAGGCC
1 CATCAACAGCGCCCACACAATCACC-GGCC
*
47377590 CATCAACAGCGCCCACACAGTCACTCGGCC
1 CATCAACAGCGCCCACACAATCAC-CGGCC
47377620 CA
1 CA
47377622 ATACTTTAAC
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 9 0.18
30 41 0.80
31 1 0.02
ACGTcount: A:0.31, C:0.42, G:0.16, T:0.11
Consensus pattern (29 bp):
CATCAACAGCGCCCACACAATCACCGGCC
Found at i:47377983 original size:21 final size:21
Alignment explanation
Indices: 47377958--47378005 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
47377948 CCAACACCCA
*
47377958 CAACCAG-ATCCCCTGTCGGAG
1 CAACCAGAATCCCC-GCCGGAG
*
47377979 GAACCAGAATCCCCGCCGGAG
1 CAACCAGAATCCCCGCCGGAG
47378000 CAACCA
1 CAACCA
47378006 CAACCCCTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.29, C:0.40, G:0.23, T:0.08
Consensus pattern (21 bp):
CAACCAGAATCCCCGCCGGAG
Found at i:47378221 original size:54 final size:55
Alignment explanation
Indices: 47378139--47378264 Score: 141
Period size: 54 Copynumber: 2.3 Consensus size: 55
47378129 TATTGTTTCA
* * * *
47378139 TTTAATAAAATAAAAGTTGTTTTGAATAAAG-TA-ATTGT-AATTTACTTTTATATT
1 TTTAATAAAATAAAATTTCTTTTAAATAAAGCAATATTGTGAA--TACTTTTATATT
* * *
47378193 TTTAATAAAATAAAATTTCTTTTAAATAAGGCAATATTTTGAATATTTTTATATT
1 TTTAATAAAATAAAATTTCTTTTAAATAAAGCAATATTGTGAATACTTTTATATT
47378248 TTTAATAAAATATAAAT
1 TTTAATAAAATA-AAAT
47378265 AATGCAACAT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
54 27 0.44
55 24 0.39
56 8 0.13
57 2 0.03
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (55 bp):
TTTAATAAAATAAAATTTCTTTTAAATAAAGCAATATTGTGAATACTTTTATATT
Found at i:47381579 original size:124 final size:126
Alignment explanation
Indices: 47381265--47381634 Score: 566
Period size: 125 Copynumber: 3.0 Consensus size: 126
47381255 GCCAAATAGG
**** *
47381265 AACTACTGTAGAAAAAGAGCGTCTTTATGGGAGCTTTTTTCAGTACTTTTGTTGACA-TGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* *
47381329 TGCTTGAAGCGTTTTTGACACTATTTGTTTAGAAACATCTTTTCAAAATTATTTTTTCAAA
66 TGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTTTCAAAATTATTTTTTCAAA
* * *
47381390 AACTACTGTAGAAAAATAGCGTCCACGTTGGAGCTTTTTTCAGTACTTTTGCTGACAGTGGATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * * *
47381455 TGCTTGAAGCATTTTTGACACTATTT-TTCAGAAACATCTTCTCAAAATTATTTTTTTAGA
66 TGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTTTCAAAATTATTTTTTCAAA
47381515 AACTACTGTAGAAAAA-AGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * *
47381579 TGCTTGAAGCGTTTTTTACACTATTTATTCATAAACATCTTTTTAAAATTATTTTT
66 TGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTTTCAAAATTATTTTT
47381635 CAGATACATC
Statistics
Matches: 223, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
124 70 0.31
125 122 0.55
126 31 0.14
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (126 bp):
AACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTATTCAGAAACATCTTTTCAAAATTATTTTTTCAAA
Found at i:47384585 original size:38 final size:38
Alignment explanation
Indices: 47384530--47384606 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
47384520 TAGGTGTTAG
*
47384530 GGACATCTCACTCTTTCGGCTTAAATTCCCCACTTTTT
1 GGACATATCACTCTTTCGGCTTAAATTCCCCACTTTTT
*
47384568 GGACATATCACTTTTTCGGCTTAAATTCCCCACTTTTT
1 GGACATATCACTCTTTCGGCTTAAATTCCCCACTTTTT
47384606 G
1 G
47384607 ACAACTCTCG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.19, C:0.29, G:0.12, T:0.40
Consensus pattern (38 bp):
GGACATATCACTCTTTCGGCTTAAATTCCCCACTTTTT
Found at i:47384604 original size:22 final size:22
Alignment explanation
Indices: 47384538--47384605 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
47384528 AGGGACATCT
*
47384538 CACTCTTTCGGCTTAAATTCCC
1 CACTTTTTCGGCTTAAATTCCC
*
47384560 CACTTTTT-GG---ACATAT---
1 CACTTTTTCGGCTTAAAT-TCCC
47384576 CACTTTTTCGGCTTAAATTCCC
1 CACTTTTTCGGCTTAAATTCCC
47384598 CACTTTTT
1 CACTTTTT
47384606 GACAACTCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 16
0.65 0.06 0.30
Matches are distributed among these distances:
16 8 0.23
17 2 0.06
18 3 0.09
19 2 0.06
20 3 0.09
21 2 0.06
22 15 0.43
ACGTcount: A:0.19, C:0.29, G:0.09, T:0.43
Consensus pattern (22 bp):
CACTTTTTCGGCTTAAATTCCC
Found at i:47392731 original size:20 final size:20
Alignment explanation
Indices: 47392706--47392752 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
47392696 TGGGTTAGGG
47392706 ACACGGGCGTGTCCCAAACC
1 ACACGGGCGTGTCCCAAACC
47392726 ACACGGGCGTGTCCCAAACC
1 ACACGGGCGTGTCCCAAACC
47392746 ACACGGG
1 ACACGGG
47392753 AACCACCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.26, C:0.38, G:0.28, T:0.09
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAACC
Found at i:47395989 original size:19 final size:19
Alignment explanation
Indices: 47395949--47396003 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
47395939 GTAACAAAAT
* *
47395949 AAAATAAAAATAGATTCAAA
1 AAAAT-AAAATAAATTTAAA
*
47395969 AATAAAAAAATAAATTTAAA
1 AA-AATAAAATAAATTTAAA
*
47395989 AAAATAAAATCAATT
1 AAAATAAAATAAATT
47396004 GGTAAATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 11 0.38
20 16 0.55
21 2 0.07
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAATAAAATAAATTTAAA
Found at i:47395997 original size:20 final size:20
Alignment explanation
Indices: 47395949--47395997 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
47395939 GTAACAAAAT
*
47395949 AAAATAAAAATAGATTCAAA
1 AAAATAAAAATAAATTCAAA
*
47395969 AATAA-AAAAATAAATTTAAA
1 AA-AATAAAAATAAATTCAAA
47395989 AAAATAAAA
1 AAAATAAAA
47395998 TCAATTGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (20 bp):
AAAATAAAAATAAATTCAAA
Found at i:47403840 original size:37 final size:37
Alignment explanation
Indices: 47403777--47403885 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
47403767 AGCTCAGATG
* * *
47403777 AAATCTCCACACGAAGTTATCTGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
47403814 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
47403851 TAATCTCCACACGTAGCCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
47403886 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Done.