Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 140 of 199
Found at i:46624721 original size:8 final size:8
Alignment explanation
Indices: 46624710--46624734 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
46624700 TAAATATATT
46624710 TTTTATAA
1 TTTTATAA
46624718 TTTTATAA
1 TTTTATAA
46624726 TTTTATAA
1 TTTTATAA
46624734 T
1 T
46624735 AATTTTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTATAA
Found at i:46624904 original size:15 final size:14
Alignment explanation
Indices: 46624884--46624930 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
46624874 AAATTTAATA
46624884 AAAAAATAAAAAGTT
1 AAAAAATAAAAA-TT
46624899 AAAAAATGAAAAATT
1 AAAAAAT-AAAAATT
*
46624914 AAATAA-AAAAATT
1 AAAAAATAAAAATT
46624927 AAAA
1 AAAA
46624931 TGAATGTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 10 0.34
15 14 0.48
16 5 0.17
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (14 bp):
AAAAAATAAAAATT
Found at i:46639720 original size:51 final size:51
Alignment explanation
Indices: 46639604--46639736 Score: 131
Period size: 51 Copynumber: 2.6 Consensus size: 51
46639594 GTAAATGTTG
** * * * * *
46639604 ACAAAATGGGTAAATGTTATGGGCTAAATTTGTTAAATTAGGACCAAGTTA
1 ACAAAATACGTAAATGTTGTGGGCTAAATTTATTAAATCAAGACCAAATTA
* *
46639655 ACAAAATACATAAATGTTGTGGGCTAAATTTATTAAATCAAGACCAAATTG
1 ACAAAATACGTAAATGTTGTGGGCTAAATTTATTAAATCAAGACCAAATTA
* * * * * *
46639706 ACACATTATGTAAATTTTGAGAGCTAAATTT
1 ACAAAATACGTAAATGTTGTGGGCTAAATTT
46639737 GTTATTATAT
Statistics
Matches: 66, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (51 bp):
ACAAAATACGTAAATGTTGTGGGCTAAATTTATTAAATCAAGACCAAATTA
Found at i:46644059 original size:14 final size:14
Alignment explanation
Indices: 46644040--46644070 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
46644030 TTGAAAAGCC
46644040 TTGCTTTGTTGTAT
1 TTGCTTTGTTGTAT
46644054 TTGCTTTGTTGTAT
1 TTGCTTTGTTGTAT
46644068 TTG
1 TTG
46644071 TTGGTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.06, G:0.23, T:0.65
Consensus pattern (14 bp):
TTGCTTTGTTGTAT
Found at i:46646852 original size:50 final size:50
Alignment explanation
Indices: 46646728--46646976 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
46646718 GATAATAACA
* * ** * *
46646728 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
46646779 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
46646829 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
46646879 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
46646934 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
46646977 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:46646906 original size:100 final size:104
Alignment explanation
Indices: 46646727--46646976 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
46646717 TGATAATAAC
**
46646727 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
46646792 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
46646829 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
46646892 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
46646934 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
46646977 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:46647092 original size:13 final size:13
Alignment explanation
Indices: 46647071--46647102 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
46647061 GCTTGGATCA
*
46647071 TCATCAAATAAAT
1 TCATAAAATAAAT
46647084 TCATAAAATAAAT
1 TCATAAAATAAAT
46647097 TCATAA
1 TCATAA
46647103 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:46647349 original size:30 final size:30
Alignment explanation
Indices: 46647314--46647371 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
46647304 CCTCGACTCT
*
46647314 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
46647344 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
46647372 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:46654445 original size:50 final size:50
Alignment explanation
Indices: 46654321--46654569 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
46654311 GATAATAACA
* * ** * *
46654321 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
46654372 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
46654422 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
46654472 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
46654527 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
46654570 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:46654499 original size:100 final size:104
Alignment explanation
Indices: 46654320--46654569 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
46654310 TGATAATAAC
**
46654320 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
46654385 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
46654422 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
46654485 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
46654527 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
46654570 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:46654685 original size:13 final size:13
Alignment explanation
Indices: 46654664--46654695 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
46654654 GCTTGGATCA
*
46654664 TCATCAAATAAAT
1 TCATAAAATAAAT
46654677 TCATAAAATAAAT
1 TCATAAAATAAAT
46654690 TCATAA
1 TCATAA
46654696 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:46654942 original size:30 final size:30
Alignment explanation
Indices: 46654907--46654964 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
46654897 CCTCGACTCT
*
46654907 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
46654937 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
46654965 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:46659309 original size:51 final size:48
Alignment explanation
Indices: 46659254--46659415 Score: 214
Period size: 44 Copynumber: 3.5 Consensus size: 48
46659244 ACCCAATTAC
46659254 CCAACCTAATAAACTAAAGTCTACCCAAACCCAATTACCATTTACCAAGTA
1 CCAACC-AATAAACTAAAGTCTACCCAAACCCAATTACCATTTACCAA--A
46659305 CCAACCCAATAAACTAAAGTCTACCCAAACCCAATTACCATTTACC-AA
1 CCAA-CCAATAAACTAAAGTCTACCCAAACCCAATTACCATTTACCAAA
*
46659353 -C--CCAATGAACTAAAGTCTACCCAAACCCAATTACCATTTACC--A
1 CCAACCAATAAACTAAAGTCTACCCAAACCCAATTACCATTTACCAAA
*
46659396 --ATCCAATAAACTAAAGTCTA
1 CCAACCAATAAACTAAAGTCTA
46659416 AAACTAAAGA
Statistics
Matches: 106, Mismatches: 2, Indels: 13
0.88 0.02 0.11
Matches are distributed among these distances:
43 1 0.01
44 57 0.54
47 1 0.01
48 1 0.01
50 1 0.01
51 43 0.41
52 2 0.02
ACGTcount: A:0.43, C:0.32, G:0.04, T:0.21
Consensus pattern (48 bp):
CCAACCAATAAACTAAAGTCTACCCAAACCCAATTACCATTTACCAAA
Found at i:46660099 original size:9 final size:9
Alignment explanation
Indices: 46660085--46660157 Score: 94
Period size: 9 Copynumber: 8.2 Consensus size: 9
46660075 ATTATATAGA
46660085 AAATCGGTT
1 AAATCGGTT
*
46660094 AAATCGATT
1 AAATCGGTT
**
46660103 AAATTAGTT
1 AAATCGGTT
*
46660112 AAATCAGTT
1 AAATCGGTT
46660121 AAATCGGTT
1 AAATCGGTT
*
46660130 AAATCAGTT
1 AAATCGGTT
46660139 -AATCGGTT
1 AAATCGGTT
46660147 AAATCGGTT
1 AAATCGGTT
46660156 AA
1 AA
46660158 TCGATTAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
8 7 0.13
9 48 0.87
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (9 bp):
AAATCGGTT
Found at i:46660115 original size:27 final size:27
Alignment explanation
Indices: 46660085--46660157 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
46660075 ATTATATAGA
* *
46660085 AAATCGGTTAAATCGATTAAATTAGTT
1 AAATCGGTTAAATCGGTTAAATCAGTT
*
46660112 AAATCAGTTAAATCGGTTAAATCAGTT
1 AAATCGGTTAAATCGGTTAAATCAGTT
46660139 -AATCGGTTAAATCGGTTAA
1 AAATCGGTTAAATCGGTTAA
46660158 TCGATTAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 18 0.43
27 24 0.57
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (27 bp):
AAATCGGTTAAATCGGTTAAATCAGTT
Found at i:46660147 original size:8 final size:8
Alignment explanation
Indices: 46660122--46660166 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
46660112 AAATCAGTTA
46660122 AATCGGTT
1 AATCGGTT
*
46660130 AAATCAGTT
1 -AATCGGTT
46660139 AATCGGTT
1 AATCGGTT
46660147 AAATCGGTT
1 -AATCGGTT
*
46660156 AATCGATT
1 AATCGGTT
46660164 AAT
1 AAT
46660167 TTTTAACCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
8 17 0.53
9 15 0.47
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (8 bp):
AATCGGTT
Found at i:46660346 original size:12 final size:12
Alignment explanation
Indices: 46660329--46660353 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46660319 AGTTATTTCA
46660329 GGTCGGTTAACC
1 GGTCGGTTAACC
46660341 GGTCGGTTAACC
1 GGTCGGTTAACC
46660353 G
1 G
46660354 AATGCACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:46663719 original size:13 final size:15
Alignment explanation
Indices: 46663700--46663732 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
46663690 ATTTTAATAG
*
46663700 TTTTTTTAATT-TAA
1 TTTTTTAAATTCTAA
46663714 TTTTTTAAATTCTAA
1 TTTTTTAAATTCTAA
46663729 TTTT
1 TTTT
46663733 CTTTTGTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTTAAATTCTAA
Found at i:46665382 original size:25 final size:24
Alignment explanation
Indices: 46665299--46665451 Score: 104
Period size: 23 Copynumber: 6.5 Consensus size: 24
46665289 AATCTACCCT
* *
46665299 ATTTGGACAGCTTTTATACATC-A
1 ATTTGGACAGCATTTATACACCAA
*
46665322 ATTTGGACAGCATTTATATACCAA
1 ATTTGGACAGCATTTATACACCAA
*
46665346 A-TTAGACAGCATTT-TCACACCAAA
1 ATTTGGACAGCATTTAT-ACACC-AA
** *
46665370 ATTTGGACAGCATAAATACATC-A
1 ATTTGGACAGCATTTATACACCAA
* * * *
46665393 ATTTGGGCAGCATATAAACAAC-A
1 ATTTGGACAGCATTTATACACCAA
*
46665416 ATTT-GAGCAACATTT-TACACCAA
1 ATTTGGA-CAGCATTTATACACCAA
**
46665439 AACTGGACAGCAT
1 ATTTGGACAGCAT
46665452 ATATGCCACA
Statistics
Matches: 101, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
22 6 0.06
23 73 0.72
24 7 0.07
25 14 0.14
26 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (24 bp):
ATTTGGACAGCATTTATACACCAA
Found at i:46665430 original size:71 final size:69
Alignment explanation
Indices: 46665299--46665452 Score: 177
Period size: 71 Copynumber: 2.2 Consensus size: 69
46665289 AATCTACCCT
* ** * * *
46665299 ATTTGGACAGCTTTTATACATCAATTTGGACAGCATTTATATACCAAATTAGACAGCATTTTCAC
1 ATTTGGACAGCATAAATACATCAATTTGGACAGCA-TTATAAACAAAATTAGACAACATTTT-AC
46665364 ACCAAA
64 ACCAAA
* *
46665370 ATTTGGACAGCATAAATACATCAATTTGGGCAGCA-TATAAACAACAATTTGAGCAACATTTTAC
1 ATTTGGACAGCATAAATACATCAATTTGGACAGCATTATAAACAA-AATTAGA-CAACATTTTAC
46665434 ACCAAA
64 ACCAAA
*
46665440 A-CTGGACAGCATA
1 ATTTGGACAGCATA
46665453 TATGCCACAT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
69 18 0.25
70 15 0.21
71 39 0.54
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (69 bp):
ATTTGGACAGCATAAATACATCAATTTGGACAGCATTATAAACAAAATTAGACAACATTTTACAC
CAAA
Found at i:46665502 original size:23 final size:23
Alignment explanation
Indices: 46665473--46665643 Score: 171
Period size: 23 Copynumber: 7.3 Consensus size: 23
46665463 TTAAGCATCA
46665473 AAATTGGACAGCATATATGTAAC
1 AAATTGGACAGCATATATGTAAC
* * *** *
46665496 AAATTGGGCAGCATTTAAACATC
1 AAATTGGACAGCATATATGTAAC
46665519 AAAATTGGACAGCATATATGTAAC
1 -AAATTGGACAGCATATATGTAAC
* * * * *
46665543 AAATTGGGCAGCATTTAAGCATC
1 AAATTGGACAGCATATATGTAAC
46665566 AAAATTGGACAGCATATATGTAAC
1 -AAATTGGACAGCATATATGTAAC
* * * * *
46665590 AAATTGGGCAGCATTTAAGCATC
1 AAATTGGACAGCATATATGTAAC
46665613 AAAATTGGACAGCATATATGTAAC
1 -AAATTGGACAGCATATATGTAAC
46665637 AAATTGG
1 AAATTGG
46665644 TTCAACTCAT
Statistics
Matches: 113, Mismatches: 32, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
23 60 0.53
24 53 0.47
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.26
Consensus pattern (23 bp):
AAATTGGACAGCATATATGTAAC
Found at i:46665529 original size:47 final size:47
Alignment explanation
Indices: 46665460--46665643 Score: 359
Period size: 47 Copynumber: 3.9 Consensus size: 47
46665450 ATATATGCCA
46665460 CATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAG
1 CATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAG
*
46665507 CATTTAAACATCAAAATTGGACAGCATATATGTAACAAATTGGGCAG
1 CATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAG
46665554 CATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAG
1 CATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAG
46665601 CATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGG
1 CATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGG
46665644 TTCAACTCAT
Statistics
Matches: 135, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 135 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (47 bp):
CATTTAAGCATCAAAATTGGACAGCATATATGTAACAAATTGGGCAG
Found at i:46665531 original size:24 final size:24
Alignment explanation
Indices: 46665460--46665627 Score: 171
Period size: 24 Copynumber: 7.1 Consensus size: 24
46665450 ATATATGCCA
46665460 CATTTAAGCATCAAAATTGGACAG
1 CATTTAAGCATCAAAATTGGACAG
* * * * *
46665484 CATATATGTAAC-AAATTGGGCAG
1 CATTTAAGCATCAAAATTGGACAG
*
46665507 CATTTAAACATCAAAATTGGACAG
1 CATTTAAGCATCAAAATTGGACAG
* * * * *
46665531 CATATATGTAAC-AAATTGGGCAG
1 CATTTAAGCATCAAAATTGGACAG
46665554 CATTTAAGCATCAAAATTGGACAG
1 CATTTAAGCATCAAAATTGGACAG
* * * * *
46665578 CATATATGTAAC-AAATTGGGCAG
1 CATTTAAGCATCAAAATTGGACAG
46665601 CATTTAAGCATCAAAATTGGACAG
1 CATTTAAGCATCAAAATTGGACAG
46665625 CAT
1 CAT
46665628 ATATGTAACA
Statistics
Matches: 109, Mismatches: 32, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
23 53 0.49
24 56 0.51
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (24 bp):
CATTTAAGCATCAAAATTGGACAG
Found at i:46666561 original size:43 final size:43
Alignment explanation
Indices: 46666504--46666622 Score: 161
Period size: 43 Copynumber: 2.8 Consensus size: 43
46666494 AATGCCATCG
*
46666504 TCCCAGATGTGGTCTTACATGTAATCACATATCGATGCC-ACT
1 TCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCGACT
* *
46666546 GTCCCAGACAG-GGTCTTACACGTAATCAGATATCGATGCCGACT
1 -TCCCAGAC-GTGGTCTTACATGTAATCACATATCGATGCCGACT
* *
46666590 TCCCAGACGTGGTCTTACATGAAAACACATATC
1 TCCCAGACGTGGTCTTACATGTAATCACATATC
46666623 AGAATCCTAT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
42 1 0.02
43 61 0.92
44 4 0.06
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
TCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCGACT
Found at i:46667519 original size:28 final size:28
Alignment explanation
Indices: 46667479--46667535 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
46667469 TATGTTTGTT
46667479 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
46667507 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
46667535 T
1 T
46667536 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:46672369 original size:25 final size:25
Alignment explanation
Indices: 46672289--46672363 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
46672279 TTCAACTCAC
**
46672289 ATGAGCTTCCGGATTAACAGCTCGT
1 ATGAGCTTCCCAATTAACAGCTCGT
* ** *
46672314 ATGAGCTTCCTAATTTGCAGCTCAT
1 ATGAGCTTCCCAATTAACAGCTCGT
*
46672339 ATGAGCTTCCCAATTCACAGCTCGT
1 ATGAGCTTCCCAATTAACAGCTCGT
46672364 GAGAGCATAC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCAATTAACAGCTCGT
Found at i:46674523 original size:42 final size:42
Alignment explanation
Indices: 46674384--46674525 Score: 153
Period size: 42 Copynumber: 3.4 Consensus size: 42
46674374 GGACATAAGT
* * * *
46674384 GCTAAA-TGGAAACCCATAAGGGTTGAACGGAAGCTCATAGGA
1 GCTAAACT-GAAACCCATAAGGGTTAAACAGAAGCTCAAAAGA
* * *
46674426 GCTAAACGGAAACCCATAAGGGTTAATCTA-AAGCTCAGAAGA
1 GCTAAACTGAAACCCATAAGGGTTAAAC-AGAAGCTCAAAAGA
* *
46674468 GCTAAACTGAAACCTATTAGGGTTAAACAGAAGCTCAAAAGA
1 GCTAAACTGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGA
* *
46674510 GCTGAACTAAAACCCA
1 GCTAAACTGAAACCCA
46674526 AGTGCTAAAC
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
41 1 0.01
42 82 0.99
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (42 bp):
GCTAAACTGAAACCCATAAGGGTTAAACAGAAGCTCAAAAGA
Found at i:46674605 original size:42 final size:40
Alignment explanation
Indices: 46674529--46674680 Score: 126
Period size: 42 Copynumber: 3.6 Consensus size: 40
46674519 AAACCCAAGT
* * * * * *
46674529 GCTAAACGGAAACTCGTAAAGGTTGAACGAAAGCTTATAGGA
1 GCTAAACGGAAACCCATAAGGGTT-AACG-AAGCTCAGAAGA
46674571 GCTAAACGGAAACCCATAAGGGTTAATCTGAAGCTCAGAAGA
1 GCTAAACGGAAACCCATAAGGGTTAA-C-GAAGCTCAGAAGA
* * *
46674613 GCTAAACTGAAACCCATTAGGGTTAAACAGAAGCTCAAAAGA
1 GCTAAACGGAAACCCATAAGGGTT-AAC-GAAGCTCAGAAGA
* * *
46674655 GC-AGAACTGAAACCTAGAAGGGTTAA
1 GCTA-AACGGAAACCCATAAGGGTTAA
46674681 ACTAAAACTC
Statistics
Matches: 93, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
41 5 0.05
42 85 0.91
43 3 0.03
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.17
Consensus pattern (40 bp):
GCTAAACGGAAACCCATAAGGGTTAACGAAGCTCAGAAGA
Found at i:46674605 original size:103 final size:103
Alignment explanation
Indices: 46674426--46674628 Score: 255
Period size: 103 Copynumber: 2.0 Consensus size: 103
46674416 GCTCATAGGA
* * * * *
46674426 GCTAAACGGAAACCCATAAGGGTTAATCTAAAGCTCAGAAGAGCTAAACTGAAACCTATTAGGGT
1 GCTAAACGGAAACCCATAAAGGTTAATCGAAAGCTCAGAAGAGCTAAACGGAAACCCATAAGGGT
*
46674491 TAAACAGAAGCTCAAAAGAGCTGAACTAAAACCCAAGT
66 TAAACAGAAGCTCAAAAGAGCTAAACTAAAACCCAAGT
* * * * *
46674529 GCTAAACGGAAACTCGTAAAGGTTGAA-CGAAAGCTTATAGGAGCTAAACGGAAACCCATAAGGG
1 GCTAAACGGAAACCCATAAAGGTT-AATCGAAAGCTCAGAAGAGCTAAACGGAAACCCATAAGGG
* * * *
46674593 TTAATCTGAAGCTCAGAAGAGCTAAACTGAAACCCA
65 TTAAACAGAAGCTCAAAAGAGCTAAACTAAAACCCA
46674629 TTAGGGTTAA
Statistics
Matches: 84, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
103 82 0.98
104 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.17
Consensus pattern (103 bp):
GCTAAACGGAAACCCATAAAGGTTAATCGAAAGCTCAGAAGAGCTAAACGGAAACCCATAAGGGT
TAAACAGAAGCTCAAAAGAGCTAAACTAAAACCCAAGT
Found at i:46674609 original size:145 final size:145
Alignment explanation
Indices: 46674380--46674668 Score: 488
Period size: 145 Copynumber: 2.0 Consensus size: 145
46674370 AGAAGGACAT
* * *
46674380 AAGTGCTAAATGGAAACCCATAAGGGTTGAACGGAAGCTCATAGGAGCTAAACGGAAACCCATAA
1 AAGTGCTAAACGGAAACCCATAAAGGTTGAACGAAAGCTCATAGGAGCTAAACGGAAACCCATAA
*
46674445 GGGTTAATCTAAAGCTCAGAAGAGCTAAACTGAAACCTATTAGGGTTAAACAGAAGCTCAAAAGA
66 GGGTTAATCTAAAGCTCAGAAGAGCTAAACTGAAACCCATTAGGGTTAAACAGAAGCTCAAAAGA
*
46674510 GCTGAACTAAAACCC
131 GCAGAACTAAAACCC
* * *
46674525 AAGTGCTAAACGGAAACTCGTAAAGGTTGAACGAAAGCTTATAGGAGCTAAACGGAAACCCATAA
1 AAGTGCTAAACGGAAACCCATAAAGGTTGAACGAAAGCTCATAGGAGCTAAACGGAAACCCATAA
*
46674590 GGGTTAATCTGAAGCTCAGAAGAGCTAAACTGAAACCCATTAGGGTTAAACAGAAGCTCAAAAGA
66 GGGTTAATCTAAAGCTCAGAAGAGCTAAACTGAAACCCATTAGGGTTAAACAGAAGCTCAAAAGA
*
46674655 GCAGAACTGAAACC
131 GCAGAACTAAAACC
46674669 TAGAAGGGTT
Statistics
Matches: 134, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
145 134 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.17
Consensus pattern (145 bp):
AAGTGCTAAACGGAAACCCATAAAGGTTGAACGAAAGCTCATAGGAGCTAAACGGAAACCCATAA
GGGTTAATCTAAAGCTCAGAAGAGCTAAACTGAAACCCATTAGGGTTAAACAGAAGCTCAAAAGA
GCAGAACTAAAACCC
Found at i:46674639 original size:21 final size:21
Alignment explanation
Indices: 46674392--46674693 Score: 69
Period size: 21 Copynumber: 14.5 Consensus size: 21
46674382 GTGCTAAATG
* *
46674392 GAAACCCATAAGGGTTGAACG
1 GAAACCCATAAGGGTTAAACT
* * * *
46674413 GAAGCTCAT-AGGAGCTAAACG
1 GAAACCCATAAGG-GTTAAACT
*
46674434 GAAACCCATAAGGGTTAATCT
1 GAAACCCATAAGGGTTAAACT
* * * *
46674455 -AAAGCTCAGAAGAGCTAAACT
1 GAAA-CCCATAAGGGTTAAACT
* * *
46674476 GAAACCTATTAGGGTTAAACA
1 GAAACCCATAAGGGTTAAACT
* * * * * *
46674497 GAAGCTCAAAAGAGCTGAACT
1 GAAACCCATAAGGGTTAAACT
* * * *
46674518 AAAACCC--AAGTGCTAAACG
1 GAAACCCATAAGGGTTAAACT
* * * *
46674537 GAAACTCGTAAAGGTTGAAC-
1 GAAACCCATAAGGGTTAAACT
* * * *
46674557 GAAA-GCTTATAGGAGCTAAACG
1 GAAACCCATA-AGG-GTTAAACT
*
46674579 GAAACCCATAAGGGTTAATCT
1 GAAACCCATAAGGGTTAAACT
* * * * *
46674600 GAAGCTCAGAAGAGCTAAACT
1 GAAACCCATAAGGGTTAAACT
* *
46674621 GAAACCCATTAGGGTTAAACA
1 GAAACCCATAAGGGTTAAACT
* * * * *
46674642 GAAGCTCAAAAGAG-CAGAACT
1 GAAACCCATAAGGGTTA-AACT
* *
46674663 GAAACCTAGAAGGGTTAAACT
1 GAAACCCATAAGGGTTAAACT
* *
46674684 AAAACTCATA
1 GAAACCCATA
46674694 TGAGTTGGCT
Statistics
Matches: 187, Mismatches: 82, Indels: 24
0.64 0.28 0.08
Matches are distributed among these distances:
19 17 0.09
20 13 0.07
21 140 0.75
22 14 0.07
23 3 0.02
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (21 bp):
GAAACCCATAAGGGTTAAACT
Found at i:46674681 original size:42 final size:42
Alignment explanation
Indices: 46674569--46674682 Score: 149
Period size: 42 Copynumber: 2.7 Consensus size: 42
46674559 AAGCTTATAG
* * * *
46674569 GAGCTAAACGGAAACCCATAAGGGTTAATCTGAAGCTCAGAA
1 GAGCTAAACTGAAACCCATAAGGGTTAAACAGAAGCTCAAAA
*
46674611 GAGCTAAACTGAAACCCATTAGGGTTAAACAGAAGCTCAAAA
1 GAGCTAAACTGAAACCCATAAGGGTTAAACAGAAGCTCAAAA
* *
46674653 GAGC-AGAACTGAAACCTAGAAGGGTTAAAC
1 GAGCTA-AACTGAAACCCATAAGGGTTAAAC
46674683 TAAAACTCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 1 0.02
42 62 0.98
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (42 bp):
GAGCTAAACTGAAACCCATAAGGGTTAAACAGAAGCTCAAAA
Found at i:46681914 original size:46 final size:43
Alignment explanation
Indices: 46681841--46681939 Score: 119
Period size: 46 Copynumber: 2.2 Consensus size: 43
46681831 AATAATATCA
*
46681841 GATACACGGTGGATTCAGCACACAGCAACCACCCTTTGTAATCAAT
1 GATAC-CGGTGGATTCAGCACACAGCAACCA-CC-TTATAATCAAT
* *
46681887 GATATCCGGTGGGA-TCAGCACATAGCAACCACCTTATAATTAAT
1 GATA-CCGGT-GGATTCAGCACACAGCAACCACCTTATAATCAAT
46681931 GATACCGGT
1 GATACCGGT
46681940 TCACATAGTA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 5 0.10
44 13 0.27
45 2 0.04
46 24 0.50
47 4 0.08
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (43 bp):
GATACCGGTGGATTCAGCACACAGCAACCACCTTATAATCAAT
Found at i:46682003 original size:51 final size:51
Alignment explanation
Indices: 46681945--46682135 Score: 244
Period size: 51 Copynumber: 3.8 Consensus size: 51
46681935 CCGGTTCACA
* *
46681945 TAGTAGCCTGCACATAGTACTACATATGTCACCATCGCTATCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTCACCATCGCTATCTGGTACACG
* * ** * *
46681996 TAGTAGCCTGCACATAGTACTACACACGTGATCAAAGCTATCTGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTCACCATCGCTATCTGGTACACG
* *
46682047 TAGTAGCCTGCACATAGTACTACACATG-CGACCTATC-AT-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTC-ACC-ATCGCTATCTGGTACACG
*
46682097 TAGTAGCCTGCACATAGTACTACACACGTGACCATCGCT
1 TAGTAGCCTGCACATAGTACTACACACGTCACCATCGCT
46682136 TTCACTTTCA
Statistics
Matches: 117, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
49 3 0.03
50 40 0.34
51 73 0.62
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTCACCATCGCTATCTGGTACACG
Found at i:46682103 original size:101 final size:102
Alignment explanation
Indices: 46681943--46682127 Score: 313
Period size: 101 Copynumber: 1.8 Consensus size: 102
46681933 TACCGGTTCA
* *
46681943 CATAGTAGCCTGCACATAGTACTACATATGTCACCATCGCTATCTGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTCACCATCGATATCTGGTACACGTAGTAGCCTGCA
46682008 CATAGTACTACACACGTGATCAAAGCTATCTGGTACG
66 CATAGTACTACACACGTGATCAAAGCTATCTGGTACG
46682045 CATAGTAGCCTGCACATAGTACTACACATG-CGACCTATC-AT-TCTGGTACACGTAGTAGCCTG
1 CATAGTAGCCTGCACATAGTACTACACATGTC-ACC-ATCGATATCTGGTACACGTAGTAGCCTG
46682107 CACATAGTACTACACACGTGA
64 CACATAGTACTACACACGTGA
46682128 CCATCGCTTT
Statistics
Matches: 79, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
101 43 0.54
102 33 0.42
103 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGTCACCATCGATATCTGGTACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCAAAGCTATCTGGTACG
Found at i:46682150 original size:101 final size:102
Alignment explanation
Indices: 46681938--46682161 Score: 292
Period size: 101 Copynumber: 2.2 Consensus size: 102
46681928 AATGATACCG
* *
46681938 GTTCACATAGTAGCCTGCACATAGTACTACATATGTCACCATCGCTATCTGGTACACGTAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGTCACCATCGATATCTGGTACACGTAGTAGC
* **
46682003 CTGCACATAGTACTACACACGTGATCAAAGCTATCTG
66 CTGCACATAGTACTACACACGTGACCAAAGCTATCAC
* *
46682040 GTACGCATAGTAGCCTGCACATAGTACTACACATG-CGACCTATC-AT-TCTGGTACACGTAGTA
1 GTTCACATAGTAGCCTGCACATAGTACTACACATGTC-ACC-ATCGATATCTGGTACACGTAGTA
** *
46682102 GCCTGCACATAGTACTACACACGTGACCATCGCTTTCAC
64 GCCTGCACATAGTACTACACACGTGACCAAAGCTATCAC
* * *
46682141 TTTCACATAGTGGCCTACACA
1 GTTCACATAGTAGCCTGCACA
46682162 CAGTCTATGC
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
101 66 0.63
102 36 0.34
103 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (102 bp):
GTTCACATAGTAGCCTGCACATAGTACTACACATGTCACCATCGATATCTGGTACACGTAGTAGC
CTGCACATAGTACTACACACGTGACCAAAGCTATCAC
Found at i:46687860 original size:6 final size:6
Alignment explanation
Indices: 46687849--46687874 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
46687839 ATATGGTCGA
46687849 ATGTAT ATGTAT ATGTAT ATGTAT AT
1 ATGTAT ATGTAT ATGTAT ATGTAT AT
46687875 ATATGTTTAA
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:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:46688361 original size:41 final size:42
Alignment explanation
Indices: 46688219--46688361 Score: 188
Period size: 41 Copynumber: 3.5 Consensus size: 42
46688209 CAGGCTCAGC
* * *
46688219 GCCTAGCAGG-TATATTGCC-AGTGAA-TCAATTCAGGCTTAAA
1 GCCTAGCAGGCTA-AGTGCCGAGTGAACTGAA-TCAGGCTTTAA
*
46688260 GCCTAGCAGGCTAAGTGCC-AGTGAACTGAATCAGGCTATAA
1 GCCTAGCAGGCTAAGTGCCGAGTGAACTGAATCAGGCTTTAA
*
46688301 GCCTAGCAGGCTAAGTGCCGA-TGATCTGAATCAGGCTTTAA
1 GCCTAGCAGGCTAAGTGCCGAGTGAACTGAATCAGGCTTTAA
46688342 GCCTAGCAGGCTAAGTGCCG
1 GCCTAGCAGGCTAAGTGCCG
46688362 GAAAATCTGT
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
41 87 0.94
42 6 0.06
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (42 bp):
GCCTAGCAGGCTAAGTGCCGAGTGAACTGAATCAGGCTTTAA
Found at i:46692737 original size:33 final size:31
Alignment explanation
Indices: 46692675--46692754 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 31
46692665 CTAAAGTTCA
46692675 GAACAACTATTATTTAGAATAATGGTGTTTTAG
1 GAACAACTATTATTTAGAATAATGGTG-TTT-G
* **
46692708 GAACAACTA-TGTTTAGAATAACTTTTGTTTG
1 GAACAACTATTATTTAGAATAA-TGGTGTTTG
46692739 GAACAACT-TCTATTTA
1 GAACAACTAT-TATTTA
46692755 AAACAATTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
31 9 0.22
32 19 0.47
33 12 0.30
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (31 bp):
GAACAACTATTATTTAGAATAATGGTGTTTG
Found at i:46693181 original size:12 final size:12
Alignment explanation
Indices: 46693160--46693189 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46693150 TACTACTTAT
46693160 CATCAACATCAC
1 CATCAACATCAC
*
46693172 CATCACCATCAC
1 CATCAACATCAC
46693184 CATCAA
1 CATCAA
46693190 AATCTTTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (12 bp):
CATCAACATCAC
Found at i:46694165 original size:9 final size:9
Alignment explanation
Indices: 46694120--46694180 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
46694110 TGGTTTACCC
*
46694120 TTATAATAT
1 TTATAATTT
46694129 TTATAAGTTT
1 TTATAA-TTT
*
46694139 ATATCAATTT
1 TTAT-AATTT
*
46694149 TAAT-ATTT
1 TTATAATTT
46694157 TTATAATTT
1 TTATAATTT
* *
46694166 TTTTACTTT
1 TTATAATTT
46694175 TTATAA
1 TTATAA
46694181 AAGATTATTA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
8 7 0.17
9 21 0.52
10 10 0.25
11 2 0.05
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (9 bp):
TTATAATTT
Found at i:46702735 original size:13 final size:13
Alignment explanation
Indices: 46702702--46702736 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
46702692 TTGGCAATGG
46702702 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
* *
46702715 TGTGGAAAAGTGC
1 TTTTGAAAAGTGC
46702728 TTTTGAAAA
1 TTTTGAAAA
46702737 ATTTGGTTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.26, T:0.34
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:46703221 original size:15 final size:15
Alignment explanation
Indices: 46703201--46703230 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
46703191 TAAAAATTTT
46703201 AAGCACTTCTGAAAA
1 AAGCACTTCTGAAAA
46703216 AAGCACTTCTGAAAA
1 AAGCACTTCTGAAAA
46703231 GCCAAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.13, T:0.20
Consensus pattern (15 bp):
AAGCACTTCTGAAAA
Found at i:46705931 original size:46 final size:44
Alignment explanation
Indices: 46705836--46705949 Score: 124
Period size: 46 Copynumber: 2.5 Consensus size: 44
46705826 ATGCTCTTAT
*
46705836 TAAAAATAAAAAAACAATAAAATTTAAAAAAATTATTTAATTTTAA
1 TAAAAATATAAAAA-AATAAAATTTAAAAAAATTATTT-ATTTTAA
*
46705882 TAAAAATATAAAAAATATAAAATTTATTAAAAATTAAATTT-TTTT-A
1 TAAAAATATAAAAAA-ATAAAATTTA-AAAAAATT--ATTTATTTTAA
*
46705928 TAAAAATCGTAAAAAAATAAAA
1 TAAAAAT-ATAAAAAAATAAAA
46705950 AAATTGTAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
45 1 0.02
46 37 0.62
47 18 0.30
49 4 0.07
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (44 bp):
TAAAAATATAAAAAAATAAAATTTAAAAAAATTATTTATTTTAA
Found at i:46705970 original size:19 final size:19
Alignment explanation
Indices: 46705923--46705985 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
46705913 AATTAAATTT
46705923 TTTTATAAAAATCGTAAAA
1 TTTTATAAAAATCGTAAAA
*** * *
46705942 AAATAAAAAAATTGTAAAA
1 TTTTATAAAAATCGTAAAA
*
46705961 TTTTATAAAAATCATAAAAA
1 TTTTATAAAAATCGT-AAAA
46705981 TTTTA
1 TTTTA
46705986 ATGACCTCTA
Statistics
Matches: 32, Mismatches: 11, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
19 23 0.72
20 9 0.28
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
TTTTATAAAAATCGTAAAA
Found at i:46706192 original size:10 final size:10
Alignment explanation
Indices: 46706177--46706202 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
46706167 TTCTTATGAC
46706177 TTTATAAAAT
1 TTTATAAAAT
46706187 TTTATAAAAT
1 TTTATAAAAT
46706197 TTTATA
1 TTTATA
46706203 TTTCTATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTATAAAAT
Found at i:46706240 original size:56 final size:58
Alignment explanation
Indices: 46706118--46706246 Score: 158
Period size: 56 Copynumber: 2.3 Consensus size: 58
46706108 GTTACAATAG
** * * *
46706118 TTTTTATAATTTTTTATGAAATTTATATTTCTTTACATTTTGTATAATTTTCTTATGA
1 TTTTTATAAAATTTTATAAAATTTATATTTCTATACATTTTGTATAATTTTCTTACGA
* *
46706176 -CTTTATAAAATTTTATAAAATTTTATATTTCTATATA-TTT-TATAATTTT-TTACGA
1 TTTTTATAAAATTTTATAAAA-TTTATATTTCTATACATTTTGTATAATTTTCTTACGA
46706231 TTTTTATAAAATTTTA
1 TTTTTATAAAATTTTA
46706247 CAATTTTACA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
55 5 0.08
56 23 0.38
57 19 0.31
58 14 0.23
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (58 bp):
TTTTTATAAAATTTTATAAAATTTATATTTCTATACATTTTGTATAATTTTCTTACGA
Found at i:46710152 original size:38 final size:38
Alignment explanation
Indices: 46710100--46710215 Score: 142
Period size: 38 Copynumber: 3.0 Consensus size: 38
46710090 TAATTTAGTT
46710100 TGAGTCTTTAATTATGTCATAATTTGAACATCATTAATA
1 TGAGT-TTTAATTATGTCATAATTTGAACATCATTAATA
* * *
46710139 TGAGTTTTAATTATGTTATAATCTGAACAACATTAATA
1 TGAGTTTTAATTATGTCATAATTTGAACATCATTAATA
* * * * *
46710177 AGGGTTTTAATTATGTCATAGTTTAGGACATCTTTAATA
1 TGAGTTTTAATTATGTCATAATTT-GAACATCATTAATA
46710216 CATGTTTTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 49 0.75
39 16 0.25
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (38 bp):
TGAGTTTTAATTATGTCATAATTTGAACATCATTAATA
Found at i:46715329 original size:15 final size:15
Alignment explanation
Indices: 46715309--46715342 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
46715299 GATATGTGTA
46715309 CCCTACTATTTATTT
1 CCCTACTATTTATTT
46715324 CCCTACTATTTATTT
1 CCCTACTATTTATTT
46715339 CCCT
1 CCCT
46715343 TTCCCTAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.18, C:0.32, G:0.00, T:0.50
Consensus pattern (15 bp):
CCCTACTATTTATTT
Found at i:46716167 original size:26 final size:26
Alignment explanation
Indices: 46716133--46716195 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
46716123 TTTACTCTAG
*
46716133 TAAAATTTTGACAATTTTACCCCCGA
1 TAAAATTTTGACAATTTTACCCCCAA
*
46716159 TAAAATTTTGACTATTTTACCCCCAA
1 TAAAATTTTGACAATTTTACCCCCAA
46716185 TAAAATTTTGA
1 TAAAATTTTGA
46716196 GAAAATTCGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.38
Consensus pattern (26 bp):
TAAAATTTTGACAATTTTACCCCCAA
Found at i:46717789 original size:15 final size:15
Alignment explanation
Indices: 46717769--46717798 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46717759 TCTGTGACAA
46717769 AACTTTCACCCAAAT
1 AACTTTCACCCAAAT
*
46717784 AACTTTCCCCCAAAT
1 AACTTTCACCCAAAT
46717799 GCATATGCAC
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:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (15 bp):
AACTTTCACCCAAAT
Found at i:46717981 original size:31 final size:31
Alignment explanation
Indices: 46717894--46717981 Score: 124
Period size: 31 Copynumber: 2.8 Consensus size: 31
46717884 GGTCTGACAA
*
46717894 ATAACATACATAATATAT-ACACTAAAATATC
1 ATAACATACATAATAT-TCACACTAATATATC
*
46717925 ATAACATACATAATATGCACACTAATATATC
1 ATAACATACATAATATTCACACTAATATATC
* *
46717956 ATAAAATACATAATATTCATACTAAT
1 ATAACATACATAATATTCACACTAAT
46717982 GTACATACTA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (31 bp):
ATAACATACATAATATTCACACTAATATATC
Found at i:46718196 original size:18 final size:18
Alignment explanation
Indices: 46718168--46718211 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
46718158 AATACAATAC
46718168 AATAC-AATACAATATAT
1 AATACAAATACAATATAT
*
46718185 AATACAAATACAATATCT
1 AATACAAATACAATATAT
46718203 AA-ACAAATA
1 AATACAAATA
46718212 AGACACTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (18 bp):
AATACAAATACAATATAT
Found at i:46718199 original size:5 final size:5
Alignment explanation
Indices: 46718048--46718181 Score: 268
Period size: 5 Copynumber: 26.8 Consensus size: 5
46718038 CCAACAAAAA
46718048 AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC
1 AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC
46718098 AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC
1 AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC AATAC
46718148 AATAC AATAC AATAC AATAC AATAC AATAC AATA
1 AATAC AATAC AATAC AATAC AATAC AATAC AATA
46718182 TATAATACAA
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 129 1.00
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAC
Found at i:46727079 original size:36 final size:35
Alignment explanation
Indices: 46726952--46727078 Score: 155
Period size: 35 Copynumber: 3.6 Consensus size: 35
46726942 ACTCTCTGTT
*
46726952 TTGGTGTGTTTCGGAGGGATTAGCTCTTACGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTACGAGCA
* *
46726987 TTGGTGTGTTTCGGAAGGATTAGCTTTTACGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTACGAGCA
** * **
46727022 TTGGTGTGTTTAAGATGGATTGGCTCTTGTGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTACGAGCA
* *
46727057 TCTGGTGTGTTTTGGTTGGATT
1 T-TGGTGTGTTTCGGATGGATT
46727079 GTTAATGTAC
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
35 62 0.78
36 17 0.22
ACGTcount: A:0.16, C:0.10, G:0.34, T:0.40
Consensus pattern (35 bp):
TTGGTGTGTTTCGGATGGATTAGCTCTTACGAGCA
Found at i:46727551 original size:18 final size:18
Alignment explanation
Indices: 46727524--46727562 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
46727514 TTATCATTTA
*
46727524 TAATACATGTGAATTATG
1 TAATACATGTGAATTAGG
*
46727542 TAATATATGTGAATTAGG
1 TAATACATGTGAATTAGG
46727560 TAA
1 TAA
46727563 AATGTGTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (18 bp):
TAATACATGTGAATTAGG
Found at i:46729982 original size:27 final size:27
Alignment explanation
Indices: 46729951--46730152 Score: 246
Period size: 27 Copynumber: 7.4 Consensus size: 27
46729941 TTGAGTCCGG
* * *
46729951 ACACTCAGTGCTATATCA-TCAACTCGC
1 ACACTTAGTGCTACAT-AGTCAAATCGC
* *
46729978 ACACTTAGTGCTACGTAATCAAATCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
46730005 ACACTTAGTGCTACATAGTCAAACTCGC
1 ACACTTAGTGCTACATAGTCAAA-TCGC
** * *
46730033 ACACTTAGTGCCGCATGGTCAATTCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
* **
46730060 ACACTTAGTGC-ATCATATTCATTTCGC
1 ACACTTAGTGCTA-CATAGTCAAATCGC
*
46730087 ACACTTAGTGCAACATAGTCAAATCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
46730114 ACACTTAGTGCTACATAGTCAAATCGC
1 ACACTTAGTGCTACATAGTCAAATCGC
46730141 ACACTTAGTGCT
1 ACACTTAGTGCT
46730153 GTACAATTTA
Statistics
Matches: 153, Mismatches: 18, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 128 0.84
28 24 0.16
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
ACACTTAGTGCTACATAGTCAAATCGC
Found at i:46735722 original size:37 final size:38
Alignment explanation
Indices: 46735668--46735740 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 38
46735658 TTTTCATAAT
* *
46735668 TTCACTTTTTCACTTTCAA-T-AACTATTTAATTCAAAA
1 TTCACTTTTCCACTTTCAAGTCAA-TATTCAATTCAAAA
*
46735705 TTCACTTTTCCATTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTCAAGTCAATATTCAATTCAA
46735741 TTCCACACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 17 0.55
38 12 0.39
39 2 0.06
ACGTcount: A:0.33, C:0.21, G:0.01, T:0.45
Consensus pattern (38 bp):
TTCACTTTTCCACTTTCAAGTCAATATTCAATTCAAAA
Found at i:46735771 original size:23 final size:22
Alignment explanation
Indices: 46735728--46735771 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
46735718 TTTCAAGTCA
46735728 ATATTCAATTCAATTCCACACAT
1 ATATTCAATTCAATT-CACACAT
46735751 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
46735772 TTAAGCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACAT
Found at i:46735914 original size:46 final size:43
Alignment explanation
Indices: 46735832--46735939 Score: 130
Period size: 46 Copynumber: 2.4 Consensus size: 43
46735822 ACACTTCAGA
46735832 ATAA-TAATAGATACACGGTGGATTCAGCACACAGCAACCACCCTTT
1 ATAATTAAT-GATAC-CGGTGGATTCAGCACACAGCAACCA-CC-TT
* *
46735878 GTAATTAATGATATCCGGTGGGA-TCAGCACATAGCAACCACCTT
1 ATAATTAATGATA-CCGGT-GGATTCAGCACACAGCAACCACCTT
46735922 ATAATTAATGATACCGGT
1 ATAATTAATGATACCGGT
46735940 TCATATAGTA
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
43 5 0.09
44 14 0.25
45 2 0.04
46 27 0.48
47 8 0.14
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (43 bp):
ATAATTAATGATACCGGTGGATTCAGCACACAGCAACCACCTT
Found at i:46736003 original size:51 final size:50
Alignment explanation
Indices: 46735945--46736129 Score: 183
Period size: 51 Copynumber: 3.7 Consensus size: 50
46735935 CCGGTTCATA
* * *
46735945 TAGTAGCCTACACATAGTACTACACATGTGACCGTCATTATCTGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCGT-ATTATCTGGTACACG
** * * * ***
46735996 TAGTAGCCTGCACATAGTACTACACACGTGATTGAAGCTATCCGGTACGTA
1 TAGTAGCCTGCACATAGTACTACACACGTGACCGTA-TTATCTGGTACACG
* *** * *
46736047 TAGTAGCTTGCACATAGTACTACACATACGA-CATATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCGTAT-TATCTGGTACACG
46736097 TAGTAGCCTGCACATAGTACTACACACGTGACC
1 TAGTAGCCTGCACATAGTACTACACACGTGACC
46736130 ATCACTTTCA
Statistics
Matches: 103, Mismatches: 28, Indels: 6
0.75 0.20 0.04
Matches are distributed among these distances:
50 37 0.36
51 66 0.64
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCGTATTATCTGGTACACG
Found at i:46736121 original size:101 final size:102
Alignment explanation
Indices: 46735943--46736127 Score: 284
Period size: 101 Copynumber: 1.8 Consensus size: 102
46735933 TACCGGTTCA
** *
46735943 TATAGTAGCCTACACATAGTACTACACATGTGACCGTCATTATCTGATACACGTAGTAGCCTGCA
1 TATAGTAGCCTACACATAGTACTACACATACGACCATCATTATCTGATACACGTAGTAGCCTGCA
46736008 CATAGTACTACACACGTGATTGAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATTGAAGCTATCCGGTACG
* * * *
46736045 TATAGTAGCTTGCACATAGTACTACACATACGA-CAT-ATCTTTCTGGTACACGTAGTAGCCTGC
1 TATAGTAGCCTACACATAGTACTACACATACGACCATCAT-TATCTGATACACGTAGTAGCCTGC
46736108 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
46736128 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 2 0.03
101 44 0.59
102 29 0.39
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (102 bp):
TATAGTAGCCTACACATAGTACTACACATACGACCATCATTATCTGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATTGAAGCTATCCGGTACG
Found at i:46737433 original size:68 final size:67
Alignment explanation
Indices: 46737346--46737586 Score: 205
Period size: 68 Copynumber: 3.5 Consensus size: 67
46737336 TCACAACCTC
*
46737346 CAAAAATAGCTAGCGGACCTACGCTCCCAGTTGATATTCTAAGAGCTTGCAGATTTAAGCTCGCA
1 CAAACATAGCTAGCGGACCTACGCTCCCAGTTGATATTCTAAGAGCTTG-AGATTTAAGCTCGCA
46737411 ACT
65 ACT
* * * * * * * * * *
46737414 CCAACATAGCTAGCAGACCTACGCTCTCAGTTGATGTTATAA-AGGTTTGACGGTTTATGATCAC
1 CAAACATAGCTAGCGGACCTACGCTCCCAGTTGATATTCTAAGA-GCTTGA-GATTTAAGCTCGC
46737478 AACCT
64 AA-CT
* * * * ** * * * *
46737483 CTAAAAATAGCTACCGGGCCTATGCTCTTAGTTGATATTCCAAGAGCTCGTAGAGTTAAGCTCGT
1 C-AAACATAGCTAGCGGACCTACGCTCCCAGTTGATATTCTAAGAGCTTG-AGATTTAAGCTCGC
46737548 AACT
64 AACT
* * *
46737552 CTAACACAGCTAGCGGACCTACGCTCCCAGCTGAT
1 CAAACATAGCTAGCGGACCTACGCTCCCAGTTGAT
46737587 GTTATAAAGG
Statistics
Matches: 129, Mismatches: 38, Indels: 12
0.72 0.21 0.07
Matches are distributed among these distances:
67 2 0.02
68 76 0.59
69 6 0.05
70 43 0.33
71 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (67 bp):
CAAACATAGCTAGCGGACCTACGCTCCCAGTTGATATTCTAAGAGCTTGAGATTTAAGCTCGCAA
CT
Found at i:46737563 original size:138 final size:137
Alignment explanation
Indices: 46737307--46737972 Score: 572
Period size: 138 Copynumber: 4.9 Consensus size: 137
46737297 TGTTTGTACT
* * * *
46737307 TGATGTTATAATGGTTTGCCGGTTTAAT-ATCACAACCTCCAAAAATAGCTAGCGGACCTACGCT
1 TGATGTTATAAAGGTTTGACGGTTT-ATGATCACAACCTCCAAAAATAGCTAACGGACCTATGCT
* * * * *
46737371 CCCAGTTGATATTCTAAGAGCTTGCAGATTTAAGCTCGCAACTCCAACATAGCTAGCAGACCTAC
65 CCCAGTTGATATTCAAAGAGCTCG-AGAGTTAAGCTCGCAACTCCAACACAGCTAGCGGACCTAC
* *
46737436 GCTCTCAGT
129 GCTCCCAGC
* * *
46737445 TGATGTTATAAAGGTTTGACGGTTTATGATCACAACCTCTAAAAATAGCTACCGGGCCTATGCTC
1 TGATGTTATAAAGGTTTGACGGTTTATGATCACAACCTCCAAAAATAGCTAACGGACCTATGCTC
** * * *
46737510 TTAGTTGATATTCCAAGAGCTCGTAGAGTTAAGCTCGTAACTCTAACACAGCTAGCGGACCTACG
66 CCAGTTGATATTCAAAGAGCTCG-AGAGTTAAGCTCGCAACTCCAACACAGCTAGCGGACCTACG
46737575 CTCCCAGC
130 CTCCCAGC
* * ** * * *
46737583 TGATGTTATAAAGGTTT-ATTGTTTTATGATTGCAACCTCCAAAAACAACTAACGAACCTATGCT
1 TGATGTTATAAAGGTTTGA-CGGTTTATGATCACAACCTCCAAAAATAGCTAACGGACCTATGCT
* * * * * *
46737647 CCCAGTTGATATTCAAAGAGCTCGCGAAGTTAAGCTCACAGCTCCAGCACAACTAGCGGACATAC
65 CCCAGTTGATATTCAAAGAGCTCGAG-AGTTAAGCTCGCAACTCCAACACAGCTAGCGGACCTAC
46737712 GCTCCCAGC
129 GCTCCCAGC
* * * * * * * *
46737721 TGATGTTATAAAGATTTGCCGATTTATGATTGA-AACCTTCAAAAATAGCTAGCAGACCTATACT
1 TGATGTTATAAAGGTTTGACGGTTTATGA-TCACAACCTCCAAAAATAGCTAACGGACCTATGCT
* * * * * * * *
46737785 ACTAGCTGATATTTAAAGAG--C-----TT--G-T---AGCTCCAACATAGCTAGCTGACCTATG
65 CCCAGTTGATATTCAAAGAGCTCGAGAGTTAAGCTCGCAACTCCAACACAGCTAGCGGACCTACG
46737837 CTCCCAGC
130 CTCCCAGC
** ** * * *
46737845 TGATGTTATAAAGGTTTTCCATTTTATGATCACAACCTCCAAAAATAGCTAGCAGACCTATGCCC
1 TGATGTTATAAAGGTTTGACGGTTTATGATCACAACCTCCAAAAATAGCTAACGGACCTATGCTC
* * * * * * * * * *
46737910 CCAGCTGATATTCAAAGAACTTGCAAAGTTAAGTTGGCAGCTCCAACAAAGGTAGCAGACCTA
66 CCAGTTGATATTCAAAGAGCTCG-AGAGTTAAGCTCGCAACTCCAACACAGCTAGCGGACCTA
46737973 AGTTCATAAT
Statistics
Matches: 430, Mismatches: 78, Indels: 40
0.78 0.14 0.07
Matches are distributed among these distances:
123 2 0.00
124 98 0.23
127 1 0.00
128 1 0.00
130 2 0.00
132 2 0.00
134 1 0.00
135 1 0.00
136 1 0.00
137 4 0.01
138 316 0.73
139 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (137 bp):
TGATGTTATAAAGGTTTGACGGTTTATGATCACAACCTCCAAAAATAGCTAACGGACCTATGCTC
CCAGTTGATATTCAAAGAGCTCGAGAGTTAAGCTCGCAACTCCAACACAGCTAGCGGACCTACGC
TCCCAGC
Found at i:46738208 original size:51 final size:52
Alignment explanation
Indices: 46738082--46738215 Score: 152
Period size: 51 Copynumber: 2.6 Consensus size: 52
46738072 AGGTAGTTCG
* * * *
46738082 AAATCTACTTAAGTTTAGAATTTT-CTTAAGATTAAAATTTGCTTAAGCCCA
1 AAATTTACTTAAGTTCAGAATTTTGCTTAAGTTTAAAATATGCTTAAGCCCA
**
46738133 AAATTTACTTAAGTTCAGAA-TTTGCTTAAGTTTAAAATATGCTTAAGTTCA
1 AAATTTACTTAAGTTCAGAATTTTGCTTAAGTTTAAAATATGCTTAAGCCCA
*
46738184 AGATTTGA-TTGAA-TTCA-AATTTTGCTTAAGTT
1 AAATTT-ACTT-AAGTTCAGAATTTTGCTTAAGTT
46738216 CATAGAAAGA
Statistics
Matches: 72, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
50 5 0.07
51 64 0.89
52 3 0.04
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (52 bp):
AAATTTACTTAAGTTCAGAATTTTGCTTAAGTTTAAAATATGCTTAAGCCCA
Found at i:46738217 original size:17 final size:17
Alignment explanation
Indices: 46738089--46738217 Score: 118
Period size: 17 Copynumber: 7.6 Consensus size: 17
46738079 TCGAAATCTA
* * *
46738089 CTTAAGTTTAGAATTTT
1 CTTAAGTTCAAAATTTG
46738106 CTTAAGATT-AAAATTTG
1 CTTAAG-TTCAAAATTTG
** *
46738123 CTTAAGCCCAAAATTTA
1 CTTAAGTTCAAAATTTG
*
46738140 CTTAAGTTCAGAATTTG
1 CTTAAGTTCAAAATTTG
* *
46738157 CTTAAGTTTAAAATATG
1 CTTAAGTTCAAAATTTG
*
46738174 CTTAAGTTCAAGATTTG
1 CTTAAGTTCAAAATTTG
* *
46738191 ATTGAA-TTCAAATTTTG
1 CTT-AAGTTCAAAATTTG
46738208 CTTAAGTTCA
1 CTTAAGTTCA
46738218 TAGAAAGATA
Statistics
Matches: 89, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
16 2 0.02
17 83 0.93
18 4 0.04
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (17 bp):
CTTAAGTTCAAAATTTG
Found at i:46738273 original size:18 final size:19
Alignment explanation
Indices: 46738250--46738289 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
46738240 ACTAGTAAGT
*
46738250 AAACTTGAAATTTTT-TTC
1 AAACTTCAAATTTTTATTC
*
46738268 AAACTTCAATTTTTTATTC
1 AAACTTCAAATTTTTATTC
46738287 AAA
1 AAA
46738290 TCATAAGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (19 bp):
AAACTTCAAATTTTTATTC
Found at i:46741204 original size:18 final size:18
Alignment explanation
Indices: 46741181--46741225 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
46741171 AATCGTGTCG
46741181 TTCATTTTCAAAACATTA
1 TTCATTTTCAAAACATTA
* * *
46741199 TTCATTTACAAATCGTTA
1 TTCATTTTCAAAACATTA
46741217 TTCAATTTT
1 TTC-ATTTT
46741226 AAATTTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.33, C:0.16, G:0.02, T:0.49
Consensus pattern (18 bp):
TTCATTTTCAAAACATTA
Found at i:46742485 original size:16 final size:17
Alignment explanation
Indices: 46742464--46742496 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
46742454 AACCTAATTC
*
46742464 AAAATTTTAA-ACATAA
1 AAAATTATAACACATAA
46742480 AAAATTATAACACATAA
1 AAAATTATAACACATAA
46742497 TTATTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATTATAACACATAA
Found at i:46748033 original size:18 final size:18
Alignment explanation
Indices: 46748010--46748062 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
46748000 AATCGTGTCG
46748010 TTCATTTTCAAAACATTA
1 TTCATTTTCAAAACATTA
* *
46748028 TTCATTTACAAATCATTA
1 TTCATTTTCAAAACATTA
* *
46748046 TTCAATTTAAAAACATT
1 TTCATTTTCAAAACATT
46748063 TTTTTTATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.43
Consensus pattern (18 bp):
TTCATTTTCAAAACATTA
Found at i:46753756 original size:10 final size:10
Alignment explanation
Indices: 46753743--46753776 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
46753733 GCAAAAATAG
46753743 AAAAATTAAA
1 AAAAATTAAA
**
46753753 AAAAAAGAAA
1 AAAAATTAAA
46753763 AAAAATTAAA
1 AAAAATTAAA
46753773 AAAA
1 AAAA
46753777 TATTTTTTCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (10 bp):
AAAAATTAAA
Found at i:46755427 original size:6 final size:6
Alignment explanation
Indices: 46755394--46755427 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
46755384 TTGAGAAAAG
*
46755394 AAAAAT AAAA-T AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAAT
46755428 CCCACAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (6 bp):
AAAATT
Found at i:46771127 original size:72 final size:72
Alignment explanation
Indices: 46771027--46771198 Score: 240
Period size: 72 Copynumber: 2.4 Consensus size: 72
46771017 TTTTGGGTGC
* *
46771027 ACACGGCCTG-GCCACACGGGC-TTGTGTCACACACGGGAAACACACATGGACGTGTGACCCAAG
1 ACACGGCCTGAG--ACACGGGCGTT-TGTCACACACGGGAAACACACATGGACCTGTGACACAAG
46771090 TCAGAGAGTT
63 TCAGAGAGTT
* *
46771100 ACACGGCCTGAGACACGGGCGTTTGTCACACACGGGCAACACACATGGGCCTGTGACACAAGTCA
1 ACACGGCCTGAGACACGGGCGTTTGTCACACACGGGAAACACACATGGACCTGTGACACAAGTCA
46771165 GAGAGTT
66 GAGAGTT
* * *
46771172 ACATGGCCTGAGACACGAGCGTGTGTC
1 ACACGGCCTGAGACACGGGCGTTTGTC
46771199 TCAACCGTGT
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
72 77 0.86
73 12 0.13
74 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.30, T:0.16
Consensus pattern (72 bp):
ACACGGCCTGAGACACGGGCGTTTGTCACACACGGGAAACACACATGGACCTGTGACACAAGTCA
GAGAGTT
Found at i:46774843 original size:27 final size:27
Alignment explanation
Indices: 46774784--46774843 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
46774774 CTCTTTTGAA
46774784 TTAAAA-AATTCTCTTTGAGTTTTTCT
1 TTAAAAGAATTCTCTTTGAGTTTTTCT
*
46774810 TT-CAAGAATT-TCTCTTGAG-TTTTCTT
1 TTAAAAGAATTCTCT-TTGAGTTTTTC-T
46774836 TTAAAAGA
1 TTAAAAGA
46774844 GTTTTAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
25 10 0.36
26 14 0.50
27 4 0.14
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (27 bp):
TTAAAAGAATTCTCTTTGAGTTTTTCT
Found at i:46775042 original size:18 final size:19
Alignment explanation
Indices: 46775019--46775066 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
46775009 CTGCTTTACT
46775019 ATCTTT-TTTATTGTTCTA
1 ATCTTTATTTATTGTTCTA
*
46775037 ATCTTTGATTTATTTTTCT-
1 ATCTTT-ATTTATTGTTCTA
46775056 AT-TTTATTTAT
1 ATCTTTATTTAT
46775067 CTTAGTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 6 0.22
18 9 0.33
19 2 0.07
20 10 0.37
ACGTcount: A:0.19, C:0.08, G:0.04, T:0.69
Consensus pattern (19 bp):
ATCTTTATTTATTGTTCTA
Found at i:46776004 original size:18 final size:18
Alignment explanation
Indices: 46775953--46776005 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
46775943 TTAATTTAAC
*
46775953 AAAATTATAATTGAATTATG
1 AAAATTA-AATT-AATTAGG
* *
46775973 AAAA-TAATTTAATTGGG
1 AAAATTAAATTAATTAGG
46775990 AAAATTAAATTAATTA
1 AAAATTAAATTAATTA
46776006 TTTTCTTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 9 0.33
18 12 0.44
19 2 0.07
20 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (18 bp):
AAAATTAAATTAATTAGG
Found at i:46786313 original size:33 final size:35
Alignment explanation
Indices: 46786276--46786372 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
46786266 ATGGTTATAT
46786276 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
46786309 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
46786344 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
46786373 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.16
35 11 0.22
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:46793131 original size:15 final size:16
Alignment explanation
Indices: 46793105--46793134 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
46793095 AAAATCAGAT
46793105 AAAAATGCAAAAGAAA
1 AAAAATGCAAAAGAAA
46793121 AAAAATG-AAAAGAA
1 AAAAATGCAAAAGAA
46793135 TGTGTTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.77, C:0.03, G:0.13, T:0.07
Consensus pattern (16 bp):
AAAAATGCAAAAGAAA
Found at i:46797960 original size:20 final size:20
Alignment explanation
Indices: 46797935--46797975 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
46797925 CTTAAGGCCT
46797935 TCCTTCTTTGACATATGTCC
1 TCCTTCTTTGACATATGTCC
46797955 TCCTTCTTTGACATATGTCC
1 TCCTTCTTTGACATATGTCC
46797975 T
1 T
46797976 TTCTTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.29, G:0.10, T:0.46
Consensus pattern (20 bp):
TCCTTCTTTGACATATGTCC
Found at i:46807024 original size:20 final size:20
Alignment explanation
Indices: 46806999--46807037 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
46806989 TACTTTCTTC
46806999 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
46807019 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
46807038 AAATAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:46807368 original size:50 final size:50
Alignment explanation
Indices: 46807302--46807434 Score: 142
Period size: 50 Copynumber: 2.7 Consensus size: 50
46807292 CAATGCCGTA
* * * ** * * *
46807302 TCCTAGATATAGTCTTACATGGGAGTTCTCATATCGGTGCCCATGTCATG
1 TCCTAGACATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACGCCATG
* *
46807352 TCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCTAGACATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACGCCATG
* *
46807402 TCCCAGACATGGTCTTA-TGTGGGACCTCTCATA
1 TCCTAGACATGGTCTTACAG-GGGACCTCTCATA
46807435 ATCTCGATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
49 1 0.01
50 68 0.99
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.29
Consensus pattern (50 bp):
TCCTAGACATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACGCCATG
Found at i:46810284 original size:13 final size:13
Alignment explanation
Indices: 46810266--46810290 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46810256 GTACCACATT
46810266 TATATCATCAAAA
1 TATATCATCAAAA
46810279 TATATCATCAAA
1 TATATCATCAAA
46810291 GCATTATTCA
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:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
TATATCATCAAAA
Found at i:46811189 original size:35 final size:35
Alignment explanation
Indices: 46811128--46811379 Score: 326
Period size: 35 Copynumber: 7.2 Consensus size: 35
46811118 ACATCGTCAG
* ** *
46811128 TCCAACCATAACACGCTGATGTTCATAAGAGCTAA
1 TCCAACCGTAACACGCCAATGCTCATAAGAGCTAA
* * * *
46811163 TCCAACTG-AAGCATGCTAGTGCTCATAAGAGCTAA
1 TCCAACCGTAA-CACGCCAATGCTCATAAGAGCTAA
*
46811198 TCCAACCGTAACACACCAATGCTCATAAGAGCTAA
1 TCCAACCGTAACACGCCAATGCTCATAAGAGCTAA
**
46811233 TCCAACCGTAACACGGAAATGCTCATAAGAGCTAA
1 TCCAACCGTAACACGCCAATGCTCATAAGAGCTAA
* * * *
46811268 TCCAACCGAAACACACCAGTGATCATAAGAGCTAA
1 TCCAACCGTAACACGCCAATGCTCATAAGAGCTAA
*
46811303 TCCAACCGTAACACGCCAATTCTCATAAGAGCTAA
1 TCCAACCGTAACACGCCAATGCTCATAAGAGCTAA
* *
46811338 TCCAACCGAAACACGCCAATGCTCGTAAGAGCTAA
1 TCCAACCGTAACACGCCAATGCTCATAAGAGCTAA
46811373 TCCAACC
1 TCCAACC
46811380 AAAACACGTC
Statistics
Matches: 187, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
34 2 0.01
35 183 0.98
36 2 0.01
ACGTcount: A:0.38, C:0.29, G:0.15, T:0.18
Consensus pattern (35 bp):
TCCAACCGTAACACGCCAATGCTCATAAGAGCTAA
Found at i:46828235 original size:43 final size:42
Alignment explanation
Indices: 46828188--46828275 Score: 167
Period size: 43 Copynumber: 2.1 Consensus size: 42
46828178 AGAAAACGGG
46828188 CCGGGCCTCGGGCACCACTTTTTCGGCCCGGGCCCGGCCCGGC
1 CCGGGCCTCGGGCACCACTTTTTCGGCCC-GGCCCGGCCCGGC
46828231 CCGGGCCTCGGGCACCACTTTTTCGGCCCGGCCCGGCCCGGC
1 CCGGGCCTCGGGCACCACTTTTTCGGCCCGGCCCGGCCCGGC
46828273 CCG
1 CCG
46828276 ATATAATAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 16 0.36
43 29 0.64
ACGTcount: A:0.05, C:0.48, G:0.34, T:0.14
Consensus pattern (42 bp):
CCGGGCCTCGGGCACCACTTTTTCGGCCCGGCCCGGCCCGGC
Found at i:46828383 original size:81 final size:80
Alignment explanation
Indices: 46828298--46828482 Score: 239
Period size: 81 Copynumber: 2.3 Consensus size: 80
46828288 TATATTTTTT
* *
46828298 ATTTTAAAATATTTTTTACATAC-TTTTAAAATTTTTTTAAATTTTAAAATATTTTTAAAATACT
1 ATTTTAAAATATTTTTAAAATACTTTTTAAAA-TTTTTTAAATTTTAAAATATTTTTAAAATA-T
46828362 TTTTTTAATTTTTTTAA
64 TTTTTTAATTTTTTTAA
**
46828379 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAATTTTAAAATATTTTTAAAATATTT
1 ATTTTAAAATATTTTTAAAATACTTTTTAAAATTTTTTAAATTTTAAAATATTTTTAAAATATTT
* *
46828444 TTAAAATACTTTTTTTAA
66 TT---TTAATTTTTTTAA
* *
46828462 TTTTTTAAA-ATTTTTAAAATA
1 ATTTTAAAATATTTTTAAAATA
46828483 AAAATGGGCC
Statistics
Matches: 92, Mismatches: 8, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
80 5 0.05
81 51 0.55
82 18 0.20
83 18 0.20
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (80 bp):
ATTTTAAAATATTTTTAAAATACTTTTTAAAATTTTTTAAATTTTAAAATATTTTTAAAATATTT
TTTTAATTTTTTTAA
Found at i:46828384 original size:41 final size:41
Alignment explanation
Indices: 46828298--46828482 Score: 243
Period size: 40 Copynumber: 4.5 Consensus size: 41
46828288 TATATTTTTT
* * *
46828298 ATTTTAAAATATTTTTTACATAC-TTTTAAAATTTTTTTAA
1 ATTTTAAAATATTTTTAAAATACTTTTTATAATTTTTTTAA
*
46828338 ATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTAA
1 ATTTTAAAATATTTTTAAAATACTTTTTATAATTTTTTTAA
*
46828379 ATTTTAAAATATTTTTAAAATACTTTTTTTAA-TTTTTTAA
1 ATTTTAAAATATTTTTAAAATACTTTTTATAATTTTTTTAA
*
46828419 ATTTTAAAATATTTTTAAAATA-TTTTTAAAATACTTTTTTTAA
1 ATTTTAAAATATTTTTAAAATACTTTTT---ATAATTTTTTTAA
* *
46828462 TTTTTTAAA-ATTTTTAAAATA
1 ATTTTAAAATATTTTTAAAATA
46828483 AAAATGGGCC
Statistics
Matches: 132, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 5 0.04
40 51 0.39
41 47 0.36
42 14 0.11
43 15 0.11
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (41 bp):
ATTTTAAAATATTTTTAAAATACTTTTTATAATTTTTTTAA
Found at i:46828416 original size:8 final size:9
Alignment explanation
Indices: 46828362--46828479 Score: 60
Period size: 9 Copynumber: 12.0 Consensus size: 9
46828352 TTAAAATACT
*
46828362 TTTTTTAAT
1 TTTTTTAAA
46828371 TTTTTTAAA
1 TTTTTTAAA
*
46828380 -TTTTAAAA
1 TTTTTTAAA
46828388 TATTTTTAAAATA
1 T-TTTTT--AA-A
*
46828401 CTTTTTTTAA
1 -TTTTTTAAA
46828411 TTTTTTAAA
1 TTTTTTAAA
*
46828420 -TTTTAAAA
1 TTTTTTAAA
46828428 TATTTTTAAAA
1 T-TTTTT-AAA
46828439 TATTTTTAAAATA
1 T-TTTTT--AA-A
*
46828452 CTTTTTTTAA
1 -TTTTTTAAA
46828462 TTTTTTAAA
1 TTTTTTAAA
*
46828471 ATTTTTAAA
1 TTTTTTAAA
46828480 ATAAAAATGG
Statistics
Matches: 87, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
8 14 0.16
9 32 0.37
10 10 0.11
11 12 0.14
12 5 0.06
13 12 0.14
14 2 0.02
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:46828458 original size:51 final size:53
Alignment explanation
Indices: 46828380--46828482 Score: 192
Period size: 51 Copynumber: 2.0 Consensus size: 53
46828370 TTTTTTTAAA
46828380 TTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTT-AAA-TTTTAAAATAT
1 TTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAAATTTTTAAAATAT
46828431 TTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAAATTTTTAAAATA
46828483 AAAATGGGCC
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
51 37 0.74
52 3 0.06
53 10 0.20
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (53 bp):
TTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAAAATTTTTAAAATAT
Found at i:46828466 original size:22 final size:21
Alignment explanation
Indices: 46828299--46828476 Score: 74
Period size: 20 Copynumber: 8.7 Consensus size: 21
46828289 ATATTTTTTA
*
46828299 TTTTAAAATA-TTTTTTACATAC
1 TTTTAAAATATTTTTTTA-AT-T
*
46828321 TTTT-AAA-ATTTTTTTAA-A
1 TTTTAAAATATTTTTTTAATT
**
46828339 TTTTAAAATATTTTTAAAATACT
1 TTTTAAAATATTTTTTTAAT--T
** *
46828362 TTTT-TTA-ATTTTTTTAA-A
1 TTTTAAAATATTTTTTTAATT
**
46828380 TTTTAAAATATTTTTAAAATACT
1 TTTTAAAATATTTTTTTAAT--T
* * *
46828403 TTTT---TTAATTTTTTAA-A
1 TTTTAAAATATTTTTTTAATT
**
46828420 TTTTAAAATATTTTTAAAATAT
1 TTTTAAAATATTTTTTTAAT-T
46828442 TTTTAAAATACTTTTTTTAATT
1 TTTTAAAATA-TTTTTTTAATT
46828464 TTTTAAAAT-TTTT
1 TTTTAAAATATTTT
46828477 AAAATAAAAA
Statistics
Matches: 113, Mismatches: 26, Indels: 36
0.65 0.15 0.21
Matches are distributed among these distances:
17 4 0.04
18 8 0.07
19 4 0.04
20 38 0.34
21 18 0.16
22 25 0.22
23 16 0.14
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTAAAATATTTTTTTAATT
Found at i:46829067 original size:26 final size:26
Alignment explanation
Indices: 46829002--46829112 Score: 89
Period size: 26 Copynumber: 4.2 Consensus size: 26
46828992 GTACATAGTA
* *
46829002 CCTACTAAATAAAACACCGACAACTAATG
1 CCTACTAAAT-ATACACCGA-AAC-AAAG
* * * **
46829031 TCTGCTAAATATACACTGGCACAAAG
1 CCTACTAAATATACACCGAAACAAAG
46829057 CCTACTAAATATACACCGAAACAAAG
1 CCTACTAAATATACACCGAAACAAAG
* * *
46829083 CTTGCTAAATATACACC-AACATAAAG
1 CCTACTAAATATACACCGAA-ACAAAG
46829109 CCTA
1 CCTA
46829113 TTACGCCCTA
Statistics
Matches: 64, Mismatches: 17, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
25 2 0.03
26 46 0.72
27 2 0.03
28 6 0.09
29 8 0.12
ACGTcount: A:0.45, C:0.26, G:0.09, T:0.20
Consensus pattern (26 bp):
CCTACTAAATATACACCGAAACAAAG
Found at i:46829109 original size:52 final size:55
Alignment explanation
Indices: 46829002--46829112 Score: 131
Period size: 52 Copynumber: 2.1 Consensus size: 55
46828992 GTACATAGTA
* ***
46829002 CCTACTAAATAAAACACCGACAACTAATGTCTGCTAAATATACACTGGCACAAAG
1 CCTACTAAATAAAACACCGACAACTAAAGTCTGCTAAATATACACCAACACAAAG
* *
46829057 CCTACTAAAT-ATACACCGA-AAC-AAAG-CTTGCTAAATATACACCAACATAAAG
1 CCTACTAAATAAAACACCGACAACTAAAGTC-TGCTAAATATACACCAACACAAAG
46829109 CCTA
1 CCTA
46829113 TTACGCCCTA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
51 1 0.02
52 27 0.55
53 3 0.06
54 8 0.16
55 10 0.20
ACGTcount: A:0.45, C:0.26, G:0.09, T:0.20
Consensus pattern (55 bp):
CCTACTAAATAAAACACCGACAACTAAAGTCTGCTAAATATACACCAACACAAAG
Found at i:46836577 original size:26 final size:26
Alignment explanation
Indices: 46836500--46836580 Score: 90
Period size: 26 Copynumber: 3.1 Consensus size: 26
46836490 AAACTAATGG
* *
46836500 CTGCTAAATTATACACCAACACAAAGC
1 CTGCTAAA-TATACACTAGCACAAAGC
* *
46836527 CTGCTAAATATGCAGTAGCACAAAGC
1 CTGCTAAATATACACTAGCACAAAGC
* * *
46836553 CTGCTAGATATACACTGGCATAAAGC
1 CTGCTAAATATACACTAGCACAAAGC
46836579 CT
1 CT
46836581 ACTACACCCT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 37 0.82
27 8 0.18
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (26 bp):
CTGCTAAATATACACTAGCACAAAGC
Found at i:46847995 original size:51 final size:51
Alignment explanation
Indices: 46847928--46848125 Score: 242
Period size: 51 Copynumber: 3.9 Consensus size: 51
46847918 TTAATGATAT
* *
46847928 CGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATC
* * *
46847979 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGA-CCATCA-CTATC
** * *
46848030 CGGTAGGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTATC
* *
46848080 TGGTACACGTAGTAGCCTGCACATAGTACTACACTTGTGACCATCA
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCA
46848126 ATTTCACTTT
Statistics
Matches: 124, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
49 4 0.03
50 40 0.32
51 77 0.62
52 2 0.02
53 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (51 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATC
Found at i:46848157 original size:101 final size:100
Alignment explanation
Indices: 46847925--46848113 Score: 276
Period size: 101 Copynumber: 1.9 Consensus size: 100
46847915 TAATTAATGA
* *
46847925 TATCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTA
1 TATCCGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTA
46847990 GTAGCCTGCACATAGTACTACACACGTGATCGAAGC
66 GTAGCCTGCACATAGTACTACACACGTGATCGAA-C
* * *
46848026 TATCCGGT-AGGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACAC
1 TATCCGTTCA--CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACAC
46848088 GTAGTAGCCTGCACATAGTACTACAC
63 GTAGTAGCCTGCACATAGTACTACAC
46848114 TTGTGACCAT
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
100 1 0.01
101 40 0.50
102 35 0.44
103 4 0.05
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.24
Consensus pattern (100 bp):
TATCCGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTA
GTAGCCTGCACATAGTACTACACACGTGATCGAAC
Found at i:46851028 original size:20 final size:21
Alignment explanation
Indices: 46850989--46851035 Score: 78
Period size: 20 Copynumber: 2.2 Consensus size: 21
46850979 AATGGAACAA
46850989 TACAACACATGTGATTTCTTAT
1 TACAACACATGT-ATTTCTTAT
46851011 TACAACACATGT-TTTCTTAT
1 TACAACACATGTATTTCTTAT
46851031 TACAA
1 TACAA
46851036 AACTTCTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 13 0.52
22 12 0.48
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.40
Consensus pattern (21 bp):
TACAACACATGTATTTCTTAT
Found at i:46851048 original size:20 final size:20
Alignment explanation
Indices: 46851005--46851048 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
46850995 ACATGTGATT
* * *
46851005 TCTTATTACAACACATGTTT
1 TCTTATTACAAAACATCTTA
*
46851025 TCTTATTACAAAACTTCTTA
1 TCTTATTACAAAACATCTTA
46851045 TCTT
1 TCTT
46851049 TAATGGATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.02, T:0.48
Consensus pattern (20 bp):
TCTTATTACAAAACATCTTA
Found at i:46851505 original size:26 final size:26
Alignment explanation
Indices: 46851476--46851529 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
46851466 CCTAAAGTTT
*
46851476 TTTTGACAATTTTACCCTTGGTAAAA
1 TTTTGACAATTTTACCCTTGATAAAA
*
46851502 TTTTGACAATTTTTCCCTTGATAAAA
1 TTTTGACAATTTTACCCTTGATAAAA
46851528 TT
1 TT
46851530 CTGAGAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (26 bp):
TTTTGACAATTTTACCCTTGATAAAA
Found at i:46851817 original size:40 final size:42
Alignment explanation
Indices: 46851773--46851863 Score: 132
Period size: 44 Copynumber: 2.2 Consensus size: 42
46851763 AAACCATAAT
46851773 CATTCAT-GA-ATGTTTCCCATTTCACTTTTCCTATTCATTC
1 CATTCATCGATATGTTTCCCATTTCACTTTTCCTATTCATTC
* *
46851813 CATTCATTTCTATTTGTTTCCCATTTCACTTTTCCTATTCATTC
1 CATTCA--TCGATATGTTTCCCATTTCACTTTTCCTATTCATTC
46851857 CATTCAT
1 CATTCAT
46851864 TTCTATTCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
40 6 0.13
42 2 0.04
43 1 0.02
44 36 0.80
ACGTcount: A:0.19, C:0.27, G:0.03, T:0.51
Consensus pattern (42 bp):
CATTCATCGATATGTTTCCCATTTCACTTTTCCTATTCATTC
Found at i:46851832 original size:44 final size:44
Alignment explanation
Indices: 46851783--46851870 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
46851773 CATTCATGAA
46851783 TGTTTCCCATTTCACTTTTCCTATTCATTCCATTCATTTCTATT
1 TGTTTCCCATTTCACTTTTCCTATTCATTCCATTCATTTCTATT
46851827 TGTTTCCCATTTCACTTTTCCTATTCATTCCATTCATTTCTATT
1 TGTTTCCCATTTCACTTTTCCTATTCATTCCATTCATTTCTATT
46851871 CAAACACACA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.16, C:0.27, G:0.02, T:0.55
Consensus pattern (44 bp):
TGTTTCCCATTTCACTTTTCCTATTCATTCCATTCATTTCTATT
Found at i:46856288 original size:65 final size:65
Alignment explanation
Indices: 46856216--46856485 Score: 267
Period size: 65 Copynumber: 4.2 Consensus size: 65
46856206 CTTTAACTCT
** ***
46856216 TTTAAAGAAGTGTAATATCTAAGTTTGCTTTCAAGAAACATATTACCTTAAAAAGGTAGTTCCAC
1 TTTAAAGAAGTGTAATATCTAAGTTCACTTTCAAGAAACATATTACCTTAAAAAGGTAAAGCCAC
* **
46856281 TTTAAAGAAGTGTAATATCTAAGTTCACTTTCAAGATATGTATTACCTTAAAAAGGTAAAGCCAC
1 TTTAAAGAAGTGTAATATCTAAGTTCACTTTCAAGAAACATATTACCTTAAAAAGGTAAAGCCAC
** **** * *
46856346 TTTAAAGAAGTGTGTTATCTAAGTTCACTTTCAAGAAGTGCATTA-CTT-TAAAGGTAAAACCAC
1 TTTAAAGAAGTGTAATATCTAAGTTCACTTTCAAGAAACATATTACCTTAAAAAGGTAAAGCCAC
*** * * *** * * *
46856409 TTTAAACTGGTGTTATATCTAATTTCACTTTCAAGAAATGCATTACCTTAAAGAGATACAA-CCG
1 TTTAAAGAAGTGTAATATCTAAGTTCACTTTCAAGAAACATATTACCTTAAAAAGGTA-AAGCCA
46856473 C
65 C
46856474 TTTAAAGAAGTG
1 TTTAAAGAAGTG
46856486 GGCTATCTAA
Statistics
Matches: 173, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
63 51 0.29
64 6 0.03
65 114 0.66
66 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.33
Consensus pattern (65 bp):
TTTAAAGAAGTGTAATATCTAAGTTCACTTTCAAGAAACATATTACCTTAAAAAGGTAAAGCCAC
Found at i:46861942 original size:19 final size:21
Alignment explanation
Indices: 46861915--46861953 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
46861905 TAAACTATAC
46861915 TAAAAACA-TAAAAT-AAGAT
1 TAAAAACATTAAAATCAAGAT
*
46861934 TAAATACATTAAAATCAAGA
1 TAAAAACATTAAAATCAAGA
46861954 AATCAAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 6 0.35
21 4 0.24
ACGTcount: A:0.64, C:0.08, G:0.05, T:0.23
Consensus pattern (21 bp):
TAAAAACATTAAAATCAAGAT
Found at i:46871495 original size:358 final size:359
Alignment explanation
Indices: 46870832--46871551 Score: 1388
Period size: 358 Copynumber: 2.0 Consensus size: 359
46870822 AGACTTTGCA
*
46870832 GTTTTTGATTCTTTTGGTGTAAGAACTTCAACAGCTGATTGATTCTTCTCAATGGGATTATCTTC
1 GTTTCTGATTCTTTTGGTGTAAGAACTTCAACAGCTGATTGATTCTTCTCAATGGGATTATCTTC
46870897 GACATCAATCAATCGGGGTTCTAGAATTTTACCACTTCGCAATGCCACTGCCTTGATATGTTCTT
66 GACATCAATCAATCGGGGTTCTAGAATTTTACCACTTCGCAATGCCACTGCCTTGATATGTTCTT
46870962 TACCCAAATTTCTTAGACTCTCAGTATCGCTCGGCAAGGTTCCTTGCAGCCTATTACGAAGCTCC
131 TACCCAAATTTCTTAGACTCTCAGTATCGCTCGGCAAGGTTCCTTGCAGCCTATTACGAAGCTCC
*
46871027 GTAGCCAACTGACCCATTTGGTTTTCCAAATTTTTTAGTGTTGCTGCTTGGCTTAGGATCAAAAC
196 GTAGCCAACTGACCCATTTGGTTTTCCAAATTTTTCAGTGTTGCTGCTTGGCTTAGGATCAAAAC
46871092 GTCATTCTTTTCCATGTACGCTTTCAACAAGTTCTCCAAACTGTTTGATGCCTTAGCTTGAGGTG
261 GTCATTCTTTTCCATGTACGCTTTCAACAAGTTCTCCAAACTGTTTGATGCCTTAGCTTGAGGTG
46871157 GTTTTAGAGCTTGCTGATTAAACCCCTGAGATTG
326 GTTTTAGAGCTTGCTGATTAAACCCCTGAGATTG
46871191 GTTTCTGATTCTTTTGGTGTAAGAACTTCAACAGCTGATTGATTCTTCTCAATGGGATTATCTTC
1 GTTTCTGATTCTTTTGGTGTAAGAACTTCAACAGCTGATTGATTCTTCTCAATGGGATTATCTTC
*
46871256 GACATTAATCAATCGGGGTTCTAGAATTTTACCAC-TCGCAATGCCACTGCCTTGATATGTTCTT
66 GACATCAATCAATCGGGGTTCTAGAATTTTACCACTTCGCAATGCCACTGCCTTGATATGTTCTT
*
46871320 TACCCAAATTTCTTAGACTCTCAGTATCGTTCGGCAAGGTTCCTTGCAGCCTATTACGAAGCTCC
131 TACCCAAATTTCTTAGACTCTCAGTATCGCTCGGCAAGGTTCCTTGCAGCCTATTACGAAGCTCC
*
46871385 GTAGCCAACTGACCCATTTGGTTTTCCAAATTTTTCAGTGTTGCTGCTTGGCTTTGGATCAAAAC
196 GTAGCCAACTGACCCATTTGGTTTTCCAAATTTTTCAGTGTTGCTGCTTGGCTTAGGATCAAAAC
46871450 GTCATTCTTTTCCATGTACGCTTTCAACAAGTTCTCCAAACTGTTTGATGCCTTAGCTTGAGGTG
261 GTCATTCTTTTCCATGTACGCTTTCAACAAGTTCTCCAAACTGTTTGATGCCTTAGCTTGAGGTG
46871515 GTTTTAGAGCTTGCTGATTAAACCCCTGAGATTG
326 GTTTTAGAGCTTGCTGATTAAACCCCTGAGATTG
46871549 GTT
1 GTT
46871552 GGGTCTTTGC
Statistics
Matches: 356, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
358 258 0.72
359 98 0.28
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (359 bp):
GTTTCTGATTCTTTTGGTGTAAGAACTTCAACAGCTGATTGATTCTTCTCAATGGGATTATCTTC
GACATCAATCAATCGGGGTTCTAGAATTTTACCACTTCGCAATGCCACTGCCTTGATATGTTCTT
TACCCAAATTTCTTAGACTCTCAGTATCGCTCGGCAAGGTTCCTTGCAGCCTATTACGAAGCTCC
GTAGCCAACTGACCCATTTGGTTTTCCAAATTTTTCAGTGTTGCTGCTTGGCTTAGGATCAAAAC
GTCATTCTTTTCCATGTACGCTTTCAACAAGTTCTCCAAACTGTTTGATGCCTTAGCTTGAGGTG
GTTTTAGAGCTTGCTGATTAAACCCCTGAGATTG
Found at i:46893030 original size:20 final size:20
Alignment explanation
Indices: 46893005--46893049 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
46892995 TCGCTTAAAG
46893005 TTTTATTTA-TAAGATTATTA
1 TTTTATTTATTAA-ATTATTA
*
46893025 TTTTATTTATTTAATTATTA
1 TTTTATTTATTAAATTATTA
46893045 TTTTA
1 TTTTA
46893050 ATAAATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTATTTATTAAATTATTA
Found at i:46893060 original size:20 final size:20
Alignment explanation
Indices: 46893013--46893060 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
46893003 AGTTTTATTT
* *
46893013 ATAAGATTATTATTTTATTTA
1 ATAA-ATTATTATTTTAATAA
* *
46893034 TTTAATTATTATTTTAATAA
1 ATAAATTATTATTTTAATAA
46893054 ATAAATT
1 ATAAATT
46893061 TCATATTAGA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
ATAAATTATTATTTTAATAA
Found at i:46897923 original size:17 final size:19
Alignment explanation
Indices: 46897901--46897944 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
46897891 TTTTTTCAGC
46897901 TATTTTAT-TTATT-TAAT
1 TATTTTATATTATTATAAT
46897918 TATTTT-TATTATTATAAT
1 TATTTTATATTATTATAAT
*
46897936 TATGTTATA
1 TATTTTATA
46897945 CCATTATCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 1 0.04
17 11 0.48
18 9 0.39
19 2 0.09
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TATTTTATATTATTATAAT
Found at i:46897926 original size:18 final size:18
Alignment explanation
Indices: 46897903--46897938 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
46897893 TTTTCAGCTA
46897903 TTTTATTTATT-TAATTAT
1 TTTTA-TTATTATAATTAT
46897921 TTTTATTATTATAATTAT
1 TTTTATTATTATAATTAT
46897939 GTTATACCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTATTATTATAATTAT
Found at i:46898629 original size:16 final size:17
Alignment explanation
Indices: 46898605--46898643 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
46898595 ATTATGTACC
46898605 TTTTA-TTCTTT-ATTT
1 TTTTATTTCTTTCATTT
46898620 TTTTATTTCTTTCATTT
1 TTTTATTTCTTTCATTT
*
46898637 GTTTATT
1 TTTTATT
46898644 AATTTGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
17 10 0.48
ACGTcount: A:0.13, C:0.08, G:0.03, T:0.77
Consensus pattern (17 bp):
TTTTATTTCTTTCATTT
Found at i:46898755 original size:13 final size:14
Alignment explanation
Indices: 46898722--46898758 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
46898712 TTTTTTATGA
46898722 ATATTAGTTTCGTTT
1 ATATTA-TTTCGTTT
46898737 AT-TTATTT-GTTT
1 ATATTATTTCGTTT
46898749 ATATTATTTC
1 ATATTATTTC
46898759 TATGTCATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 6 0.30
13 9 0.45
14 3 0.15
15 2 0.10
ACGTcount: A:0.22, C:0.05, G:0.08, T:0.65
Consensus pattern (14 bp):
ATATTATTTCGTTT
Found at i:46898785 original size:15 final size:15
Alignment explanation
Indices: 46898765--46898796 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
46898755 TTTCTATGTC
46898765 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
*
46898780 ATTGTTGTATTTGTT
1 ATTGTTGTATTTATT
46898795 AT
1 AT
46898797 CGCGACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.66
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:46905178 original size:14 final size:15
Alignment explanation
Indices: 46905152--46905184 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
46905142 TCCCAAGCTG
*
46905152 GGAAGGACCTTATGT
1 GGAAGGACCTTATCT
46905167 GGAAGG-CCTTATCT
1 GGAAGGACCTTATCT
46905181 GGAA
1 GGAA
46905185 AAGCGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.24
Consensus pattern (15 bp):
GGAAGGACCTTATCT
Found at i:46906967 original size:100 final size:100
Alignment explanation
Indices: 46906860--46907217 Score: 448
Period size: 100 Copynumber: 3.6 Consensus size: 100
46906850 ACTACGACGA
* * * *
46906860 CGAATCTTACTCCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGGCGGCGAATCTCGTTTCCC
1 CGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGACGAATCTTGTTTCCC
46906925 CAACATTGCAATTAAAAAGATTGAAGCCGCAATGG
66 CAACATTGCAATTAAAAAGATTGAAGCCGCAATGG
* ** * * * *
46906960 CAAATCTTACTTCATTGGC-GATATAATGGAACAGATTGAAGCTACGATGACGAATCTTGTTTCT
1 CGAATCTTACTTCCCTGGCAG-TGTAGTGGAACAGATTGAAGCTACGACGACGAATCTTGTTTCC
* * *
46907024 CCAAAATTGCAATTAAAAATATTGAAGCCGCAACGG
65 CCAACATTGCAATTAAAAAGATTGAAGCCGCAATGG
* * * ** *
46907060 CGAATCTTACTTCCTTGGCGGTGTAGTGGAACAGATTGAAGCTACGATGGTGAATCTTGTTTTCC
1 CGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGACGAATCTTGTTTCCC
* *
46907125 CAACATTGCAATTAAAAAGATCGAAGCCACAATGG
66 CAACATTGCAATTAAAAAGATTGAAGCCGCAATGG
* * * * * *
46907160 CGAATCTCATTTCCCTGGCATTGTAGCGGAGCAGATTGAAGCCACGACGACGAATCTT
1 CGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGACGAATCTT
46907218 ATCTCCCTAG
Statistics
Matches: 218, Mismatches: 38, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
99 1 0.00
100 216 0.99
101 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (100 bp):
CGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACGACGACGAATCTTGTTTCCC
CAACATTGCAATTAAAAAGATTGAAGCCGCAATGG
Found at i:46907529 original size:45 final size:43
Alignment explanation
Indices: 46907425--46907584 Score: 125
Period size: 44 Copynumber: 3.7 Consensus size: 43
46907415 AAGATATCAG
*
46907425 GTCTTATCTCCCTGAGGTTGCAGTGGAGCGACTAAGTAAGCAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCGACTAAGTAAGCAA
* *
46907468 GTCTTATC-CTCTTGAAGTTGCAGT-GAGGCAGACTGAAGGT-GGCGAA
1 GTCTTATCTC-CCTGAAGTTGCAGTGGA-GC-GACT-AA-GTAAGC-AA
* * *
46907514 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-TAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGC-GACT-AAG-TAAGCAA
* *
46907558 -TCCTATCTCCCTGAAGTTACAGTGGAG
1 GTCTTATCTCCCTGAAGTTGCAGTGGAG
46907585 TAGATTAAAT
Statistics
Matches: 96, Mismatches: 11, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
42 3 0.03
43 22 0.23
44 32 0.33
45 32 0.33
46 7 0.07
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (43 bp):
GTCTTATCTCCCTGAAGTTGCAGTGGAGCGACTAAGTAAGCAA
Found at i:46909200 original size:17 final size:19
Alignment explanation
Indices: 46909178--46909221 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
46909168 TTTTTTCAGC
46909178 TATTTTAT-TTATT-TAAT
1 TATTTTATATTATTATAAT
46909195 TATTTT-TATTATTATAAT
1 TATTTTATATTATTATAAT
*
46909213 TATGTTATA
1 TATTTTATA
46909222 CCATTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 1 0.04
17 11 0.48
18 9 0.39
19 2 0.09
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TATTTTATATTATTATAAT
Found at i:46909203 original size:18 final size:18
Alignment explanation
Indices: 46909180--46909215 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
46909170 TTTTCAGCTA
46909180 TTTTATTTATT-TAATTAT
1 TTTTA-TTATTATAATTAT
46909198 TTTTATTATTATAATTAT
1 TTTTATTATTATAATTAT
46909216 GTTATACCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTATTATTATAATTAT
Found at i:46909256 original size:18 final size:17
Alignment explanation
Indices: 46909228--46909262 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46909218 TATACCATTA
*
46909228 TTTTATTTTATTTTTAT
1 TTTTATTTTATCTTTAT
46909245 TTTTATTATTATCTTTAT
1 TTTTATT-TTATCTTTAT
46909263 ATTCATACGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATTTTATCTTTAT
Found at i:46909864 original size:31 final size:28
Alignment explanation
Indices: 46909791--46909865 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 28
46909781 TTTACATCAG
*
46909791 GTTACATTTTAGTCACTTATGTTTGACAT
1 GTTACATTTTAGTCACTTACGTTT-ACAT
*
46909820 GTTACGTTTTAGTCACTTACG-TTATCAT
1 GTTACATTTTAGTCACTTACGTTTA-CAT
46909848 GTTGTAACATTTTAGTCA
1 G-T-T-ACATTTTAGTCA
46909866 TTGAGCCATT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
27 1 0.03
28 6 0.15
29 20 0.51
30 1 0.03
31 11 0.28
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (28 bp):
GTTACATTTTAGTCACTTACGTTTACAT
Found at i:46914640 original size:30 final size:31
Alignment explanation
Indices: 46914620--46914680 Score: 108
Period size: 30 Copynumber: 2.0 Consensus size: 31
46914610 TGTCTTCGTG
46914620 AATTCCTTCTTCTAGATCCA-TCATCCCTGT
1 AATTCCTTCTTCTAGATCCATTCATCCCTGT
46914650 AATTCCTTCTTCTAGATCCA-TCATCCCTGT
1 AATTCCTTCTTCTAGATCCATTCATCCCTGT
46914680 A
1 A
46914681 CGAGTTAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.21, C:0.33, G:0.07, T:0.39
Consensus pattern (31 bp):
AATTCCTTCTTCTAGATCCATTCATCCCTGT
Found at i:46927755 original size:23 final size:23
Alignment explanation
Indices: 46927729--46927850 Score: 183
Period size: 23 Copynumber: 5.3 Consensus size: 23
46927719 ATAAGTGCCA
46927729 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
46927752 CACTGATATGTAACCGCAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
46927775 CACTGAAATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
46927798 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
46927821 CACTGA-ATTGTAGCCGAAGCTAC
1 CACTGATA-TGTAGCCGAAGCTAC
46927844 CACTGAT
1 CACTGAT
46927851 CAATAACACT
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
22 1 0.01
23 86 0.99
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:46931042 original size:57 final size:57
Alignment explanation
Indices: 46930979--46931213 Score: 222
Period size: 57 Copynumber: 4.1 Consensus size: 57
46930969 TTCGGAGTTC
* *
46930979 TGCCACAAACGTCATCCTTAAACAGGTTCACCACAAAGGTTTGCCTTTCCAGAATTT
1 TGCCACAAACGTCATCCTTTAACAGGTTCGCCACAAAGGTTTGCCTTTCCAGAATTT
* * * * * * *
46931036 TGCCACAAA-GGCTATCCTTTTATAGGTTTGCCACAAAGGTTTTCCTTTTCAGAGTTT
1 TGCCACAAACGTC-ATCCTTTAACAGGTTCGCCACAAAGGTTTGCCTTTCCAGAATTT
* *** * *
46931093 TACCACAAACGTTGCCCTTTAACATGTTCGCCACAAAGGTTTTCCTTTCCA-AAGTTT
1 TGCCACAAACGTCATCCTTTAACAGGTTCGCCACAAAGGTTTGCCTTTCCAGAA-TTT
* * ** * ** * *
46931150 TGCTACAAAGGTTGTCCTTTAACATGTTCGTTACAAAGGCTTGCCTTTCCAGAGTTT
1 TGCCACAAACGTCATCCTTTAACAGGTTCGCCACAAAGGTTTGCCTTTCCAGAATTT
46931207 TGCCACA
1 TGCCACA
46931214 GGTTCGCCAC
Statistics
Matches: 144, Mismatches: 30, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
56 3 0.02
57 139 0.97
58 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (57 bp):
TGCCACAAACGTCATCCTTTAACAGGTTCGCCACAAAGGTTTGCCTTTCCAGAATTT
Found at i:46931092 original size:28 final size:28
Alignment explanation
Indices: 46931009--46931213 Score: 110
Period size: 29 Copynumber: 7.2 Consensus size: 28
46930999 AACAGGTTCA
* *
46931009 CCACAAAGGTTTGCCTTTCCAGAATTTTG
1 CCACAAAGGTTTTCCTTTCCAG-AGTTTG
* * * *
46931038 CCACAAAGGCTATCCTTT-TATAGGTTTG
1 CCACAAAGGTTTTCCTTTCCAGA-GTTTG
* *
46931066 CCACAAAGGTTTTCCTTTTCAGAGTTTTA
1 CCACAAAGGTTTTCCTTTCCAGAG-TTTG
* ** * * *
46931095 CCACAAACGTTGCCCTTTAACA-TGTTCG
1 CCACAAAGGTTTTCCTTT-CCAGAGTTTG
*
46931123 CCACAAAGGTTTTCCTTTCCAAAGTTTTG
1 CCACAAAGGTTTTCCTTTCCAGAG-TTTG
* * * * *
46931152 CTACAAAGGTTGTCCTTTAACA-TGTTCG
1 CCACAAAGGTTTTCCTTT-CCAGAGTTTG
** * *
46931180 TTACAAAGGCTTGCCTTTCCAGAGTTTTG
1 CCACAAAGGTTTTCCTTTCCAGAG-TTTG
46931209 CCACA
1 CCACA
46931214 GGTTCGCCAC
Statistics
Matches: 129, Mismatches: 38, Indels: 18
0.70 0.21 0.10
Matches are distributed among these distances:
27 5 0.04
28 58 0.45
29 62 0.48
30 4 0.03
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.35
Consensus pattern (28 bp):
CCACAAAGGTTTTCCTTTCCAGAGTTTG
Done.