Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 40 of 253
Found at i:10262654 original size:40 final size:39
Alignment explanation
Indices: 10262590--10262801 Score: 264
Period size: 40 Copynumber: 5.3 Consensus size: 39
10262580 TCTTCGGAAT
* *
10262590 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
10262629 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
10262669 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * * *
10262709 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
10262749 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
10262789 TTAGCCCGGATAT
1 TTAGCCCGGATAT
10262802 CATTCAAATG
Statistics
Matches: 148, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
39 10 0.07
40 131 0.89
41 7 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:10262717 original size:80 final size:80
Alignment explanation
Indices: 10262590--10262801 Score: 345
Period size: 80 Copynumber: 2.7 Consensus size: 80
10262580 TCTTCGGAAT
* * * * *
10262590 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
10262654 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* *
10262669 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
10262734 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
10262749 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
10262802 CATTCAAATG
Statistics
Matches: 122, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
79 4 0.03
80 118 0.97
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:10270696 original size:40 final size:39
Alignment explanation
Indices: 10270632--10270842 Score: 264
Period size: 40 Copynumber: 5.3 Consensus size: 39
10270622 TCTTCGGAAT
* *
10270632 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAT-ATCACTAGCACAAATGCCTTCGGGTC
*
10270671 TTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* *
10270711 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
* * *
10270751 TTA-CCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATATC-ACTAGCACAAATGCCTTCGGGTC
* * *
10270790 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGAT-ATATCACTAGCACAAATGCCTTCGGGTC
10270830 TTAGCCCGGATAT
1 TTAGCCCGGATAT
10270843 CATTCAAATG
Statistics
Matches: 148, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
38 3 0.02
39 37 0.25
40 101 0.68
41 7 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
TTAGCCCGGATATATCACTAGCACAAATGCCTTCGGGTC
Found at i:10270775 original size:79 final size:80
Alignment explanation
Indices: 10270632--10270842 Score: 345
Period size: 79 Copynumber: 2.7 Consensus size: 80
10270622 TCTTCGGAAT
* * * * *
10270632 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
10270696 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
10270711 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTA-CCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
10270775 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
*
10270790 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCCCGGATAT
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
10270843 CATTCAAATG
Statistics
Matches: 122, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
79 80 0.66
80 42 0.34
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:10274908 original size:3 final size:3
Alignment explanation
Indices: 10274900--10274934 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
10274890 ATTCAATGAC
10274900 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
10274935 CTCTGTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:10275014 original size:21 final size:21
Alignment explanation
Indices: 10274990--10275031 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10274980 CAACGTGGCA
10274990 AGTTAACTGGCCACGTCAGCT
1 AGTTAACTGGCCACGTCAGCT
*
10275011 AGTTAACTTGCCACGTCAGCT
1 AGTTAACTGGCCACGTCAGCT
10275032 GTTCTGTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (21 bp):
AGTTAACTGGCCACGTCAGCT
Found at i:10294380 original size:18 final size:20
Alignment explanation
Indices: 10294345--10294390 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
10294335 TATGAGAGAG
* *
10294345 AAAAAAAGTGCAACAAAATA
1 AAAAAAAATGCAACAAAAGA
10294365 AAAAAAAATG-AA-AAAAGA
1 AAAAAAAATGCAACAAAAGA
10294383 AAAGAAAA
1 AAA-AAAA
10294391 GTGTAAGCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 8 0.35
19 6 0.26
20 9 0.39
ACGTcount: A:0.78, C:0.04, G:0.11, T:0.07
Consensus pattern (20 bp):
AAAAAAAATGCAACAAAAGA
Found at i:10294996 original size:28 final size:27
Alignment explanation
Indices: 10294962--10295035 Score: 85
Period size: 28 Copynumber: 2.7 Consensus size: 27
10294952 ATTTTTTAAA
10294962 ATTTTAAAATTGAAAAAAAATGAAAAAT
1 ATTTTAAAATT-AAAAAAAATGAAAAAT
* * *
10294990 ATTTTAAAAATTAAAAAACATTAAAATT
1 ATTTT-AAAATTAAAAAAAATGAAAAAT
* *
10295018 ATTATAAAATTATAAAAA
1 ATTTTAAAATTAAAAAAA
10295036 TATTTTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
27 11 0.28
28 22 0.56
29 6 0.15
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (27 bp):
ATTTTAAAATTAAAAAAAATGAAAAAT
Found at i:10298046 original size:26 final size:26
Alignment explanation
Indices: 10298010--10298118 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
10298000 ATGAAATTCC
10298010 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAAACCAT
*
10298036 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAAACCAT
* *
10298062 TATCATGGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAAACCAT
10298088 TATCATGGAACATTTACCT-AACTCAT
1 TATCATGGAACATTTACCTAAAC-CAT
10298114 TATCA
1 TATCA
10298119 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 2 0.03
26 75 0.97
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAAACCAT
Found at i:10303417 original size:25 final size:26
Alignment explanation
Indices: 10303380--10303431 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
10303370 TCAAACATGC
10303380 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
10303406 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
10303431 A
1 A
10303432 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:10304949 original size:26 final size:26
Alignment explanation
Indices: 10304913--10305021 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
10304903 ATGAAATTCC
10304913 TATCATGGAACATTTACCTAAACCAT
1 TATCATGGAACATTTACCTAAACCAT
*
10304939 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAAACCAT
* *
10304965 TATCATGGAATATTTACCTAATCCAT
1 TATCATGGAACATTTACCTAAACCAT
10304991 TATCATGGAACATTTACCT-AACCTAT
1 TATCATGGAACATTTACCTAAACC-AT
10305017 TATCA
1 TATCA
10305022 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 74 0.96
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAAACCAT
Found at i:10306245 original size:28 final size:28
Alignment explanation
Indices: 10306210--10306291 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
10306200 TGAGCAGCCT
* * *
10306210 AAATATCACAGCTTGTGTGAGCAAATTC
1 AAATATCACAACTCGTGTGAGAAAATTC
10306238 AAATATCACAACTCGTGTGAGAAAATTC
1 AAATATCACAACTCGTGTGAGAAAATTC
* * * *
10306266 AAATATTATAACTTGTGTGGGAAAAT
1 AAATATCACAACTCGTGTGAGAAAAT
10306292 CAATCCCATG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.29
Consensus pattern (28 bp):
AAATATCACAACTCGTGTGAGAAAATTC
Found at i:10314651 original size:28 final size:28
Alignment explanation
Indices: 10314618--10314671 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
10314608 TGAGCAGCCT
10314618 AAATATCACAACTTGTGTGAGAAAATTC
1 AAATATCACAACTTGTGTGAGAAAATTC
* *
10314646 AAATATTATAACTTGTGTGAGAAAAT
1 AAATATCACAACTTGTGTGAGAAAAT
10314672 CAATCTCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.31
Consensus pattern (28 bp):
AAATATCACAACTTGTGTGAGAAAATTC
Found at i:10318803 original size:10 final size:11
Alignment explanation
Indices: 10318773--10318809 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
10318763 AATATTTTGA
10318773 ATTTTAAAAATT
1 ATTTT-AAAATT
10318785 ATTTT-AAATT
1 ATTTTAAAATT
10318795 -TTTTAAAATT
1 ATTTTAAAATT
10318805 ATTTT
1 ATTTT
10318810 GACTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
9 4 0.17
10 10 0.43
11 4 0.17
12 5 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTTTAAAATT
Found at i:10318816 original size:20 final size:20
Alignment explanation
Indices: 10318730--10318818 Score: 92
Period size: 20 Copynumber: 4.3 Consensus size: 20
10318720 GAATTTTTAT
10318730 ATTTTTTAAAATATAAATTTTGA
1 ATTTTTTAAAAT-T--ATTTTGA
*
10318753 AATTTTTATAAA-TATTTTGA
1 ATTTTTTA-AAATTATTTTGA
* *
10318773 A-TTTTAAAAATTATTTTAA
1 ATTTTTTAAAATTATTTTGA
10318792 ATTTTTTAAAATTATTTTGA
1 ATTTTTTAAAATTATTTTGA
*
10318812 CTTTTTT
1 ATTTTTT
10318819 TGTAAATTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
18 3 0.05
19 13 0.23
20 30 0.53
22 1 0.02
23 7 0.12
24 3 0.05
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.57
Consensus pattern (20 bp):
ATTTTTTAAAATTATTTTGA
Found at i:10322980 original size:15 final size:14
Alignment explanation
Indices: 10322954--10323025 Score: 65
Period size: 15 Copynumber: 5.0 Consensus size: 14
10322944 TATTCTAATA
*
10322954 CTATTATTATTTAT
1 CTATTTTTATTTAT
10322968 CTAATTTTTATTTAT
1 CT-ATTTTTATTTAT
* *
10322983 CTATTTATATTTCAA
1 CTATTTTTATTT-AT
*
10322998 CTATTATTATATT-T
1 CTATTTTTAT-TTAT
*
10323012 CTATTTATATTTAT
1 CTATTTTTATTTAT
10323026 ATACTAATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
13 2 0.04
14 20 0.43
15 22 0.48
16 2 0.04
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.62
Consensus pattern (14 bp):
CTATTTTTATTTAT
Found at i:10322993 original size:29 final size:28
Alignment explanation
Indices: 10322912--10323025 Score: 79
Period size: 29 Copynumber: 4.0 Consensus size: 28
10322902 TTATTGCTAT
* * * *
10322912 TATTATTATGTCTCTATTTATGTTTATTT
1 TATTATTATATTTCTATTTATATTTA-TC
* * * *
10322941 TGTTATTCTAATACTA-TTATTATTTATC
1 TATTATTATATTTCTATTTA-TATTTATC
* *
10322969 TAATTTTTAT-TTATCTATTTATATTTCAAC
1 T-ATTATTATATT-TCTATTTATATTT-ATC
10322999 TATTATTATATTTCTATTTATATTTAT
1 TATTATTATATTTCTATTTATATTTAT
10323026 ATACTAATAT
Statistics
Matches: 63, Mismatches: 16, Indels: 13
0.68 0.17 0.14
Matches are distributed among these distances:
28 7 0.11
29 48 0.76
30 8 0.13
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (28 bp):
TATTATTATATTTCTATTTATATTTATC
Found at i:10323039 original size:29 final size:29
Alignment explanation
Indices: 10322982--10323042 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
10322972 TTTTTATTTA
*
10322982 TCTATTTATATTTCAACTATTATTATATT
1 TCTATTTATATTTCAACTAATATTATATT
*
10323011 TCTATTTATATTTATATACTAATATTAT-TT
1 TCTATTTATATTT-CA-ACTAATATTATATT
10323041 TC
1 TC
10323043 ATTATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 13 0.46
30 5 0.18
31 10 0.36
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (29 bp):
TCTATTTATATTTCAACTAATATTATATT
Found at i:10325276 original size:19 final size:19
Alignment explanation
Indices: 10325235--10325276 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
10325225 TACTTTCTTT
*
10325235 TGCATTCATTCCATGCATT
1 TGCATTCATTCCATGCATG
*
10325254 TGCATTGCATTGCAT-CATG
1 TGCATT-CATTCCATGCATG
10325273 TGCA
1 TGCA
10325277 CTAAACTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (19 bp):
TGCATTCATTCCATGCATG
Found at i:10331371 original size:24 final size:24
Alignment explanation
Indices: 10331347--10331393 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10331337 ATGATGAATA
*
10331347 AATTA-AAAATTCAATAAATTTAT
1 AATTATAAAATTCAAAAAATTTAT
* *
10331370 AATTATAATATTTAAAAAATTTAT
1 AATTATAAAATTCAAAAAATTTAT
10331394 TTTTAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
AATTATAAAATTCAAAAAATTTAT
Found at i:10333882 original size:23 final size:23
Alignment explanation
Indices: 10333852--10333897 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
10333842 AATGTTAATG
10333852 TAGGTTAAACTAATACTCAGCTA
1 TAGGTTAAACTAATACTCAGCTA
10333875 TAGGTTAAACTAATACTCAGCTA
1 TAGGTTAAACTAATACTCAGCTA
10333898 AGTAAATTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (23 bp):
TAGGTTAAACTAATACTCAGCTA
Found at i:10336591 original size:23 final size:23
Alignment explanation
Indices: 10336541--10336593 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
10336531 TTTAGCCTGG
*
10336541 ACCTAAATAAACCAAACCAATCA
1 ACCTAAATAAACCAAACCAACCA
* *
10336564 ACCTAAATAAACCAAGCCAGCCA
1 ACCTAAATAAACCAAACCAACCA
*
10336587 GCCTAAA
1 ACCTAAA
10336594 CAAAAAACAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.51, C:0.32, G:0.06, T:0.11
Consensus pattern (23 bp):
ACCTAAATAAACCAAACCAACCA
Found at i:10337954 original size:28 final size:28
Alignment explanation
Indices: 10337921--10337976 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
10337911 TGTTGTTCAA
** *
10337921 ATTTGTATTTTTTTCGCTAGTTATTTAT
1 ATTTGTACATTTTTCGCTACTTATTTAT
*
10337949 ATTTGTACATTTTTCGCTCCTTATTTAT
1 ATTTGTACATTTTTCGCTACTTATTTAT
10337977 TTATATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.18, C:0.12, G:0.09, T:0.61
Consensus pattern (28 bp):
ATTTGTACATTTTTCGCTACTTATTTAT
Found at i:10338083 original size:3 final size:3
Alignment explanation
Indices: 10338070--10338127 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
10338060 ATTACCTTAT
** *
10338070 TTA TT- TTA TTA TTA TTA TTA TGC TT- TGA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
10338116 TTA TTG TTA TTA
1 TTA TTA TTA TTA
10338128 CATTAGTATT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
2 3 0.07
3 43 0.93
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:10338086 original size:23 final size:21
Alignment explanation
Indices: 10338060--10338142 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 21
10338050 CTTGTTTTAA
10338060 ATTACCTTATTTATTTTATTATT
1 ATTA-CTTA-TTATTTTATTATT
** *
10338083 ATTA-TTATGCTTTGATTATT
1 ATTACTTATTATTTTATTATT
*
10338103 ATTA-TTATTATTATTATTGTT
1 ATTACTTATTATT-TTATTATT
*
10338124 ATTACATTAGTATTGTTAT
1 ATTAC-TTATTATT-TTAT
10338143 AGTATTCCCT
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 20 0.42
21 13 0.27
23 15 0.31
ACGTcount: A:0.28, C:0.05, G:0.06, T:0.61
Consensus pattern (21 bp):
ATTACTTATTATTTTATTATT
Found at i:10338132 original size:29 final size:26
Alignment explanation
Indices: 10338068--10338116 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
10338058 AAATTACCTT
10338068 ATTT-ATT-TTATTATTATTATTATG
1 ATTTGATTATTATTATTATTATTATG
*
10338092 CTTTGATTATTATTATTATTATTAT
1 ATTTGATTATTATTATTATTATTAT
10338117 TATTGTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 3 0.14
26 16 0.73
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (26 bp):
ATTTGATTATTATTATTATTATTATG
Found at i:10340728 original size:47 final size:47
Alignment explanation
Indices: 10340636--10340728 Score: 105
Period size: 47 Copynumber: 2.0 Consensus size: 47
10340626 CTAAACAACC
* ** * *
10340636 ATAACTCTATATTCAATCATGATAATCATGATAATGTTTTTTAAATT
1 ATAACTCTATATTCAATCAAGATAATCATGATAAAATTATATAAATT
** **
10340683 ATAACTCTATATTCAATCAAGATAATTTTTTTAAAATTATATAAAT
1 ATAACTCTATATTCAATCAAGATAATCATGATAAAATTATATAAAT
10340729 ATTTTCTTTA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.44
Consensus pattern (47 bp):
ATAACTCTATATTCAATCAAGATAATCATGATAAAATTATATAAATT
Found at i:10340731 original size:36 final size:38
Alignment explanation
Indices: 10340659--10340731 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 38
10340649 CAATCATGAT
* **
10340659 AATCATGATAATGTTTTTTAAATTATAACTCTATATTC
1 AATCAAGATAATGTTTTTTAAATTATAACTAAATATTC
10340697 AATCAAGATAAT-TTTTTTAAAATTAT-A-TAAATATT
1 AATCAAGATAATGTTTTTT-AAATTATAACTAAATATT
10340732 TTCTTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
36 6 0.19
37 7 0.23
38 18 0.58
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (38 bp):
AATCAAGATAATGTTTTTTAAATTATAACTAAATATTC
Found at i:10343013 original size:3 final size:3
Alignment explanation
Indices: 10343005--10343125 Score: 93
Period size: 3 Copynumber: 39.7 Consensus size: 3
10342995 AATTTAAAAT
* *
10343005 TAA TAA TAA TAA TAA TAA TAA TAA TACGC TAA TAA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA--A TAA TAA TAA TAA TAA TAA
* * ** * *
10343052 GAA TAA TGA T-A TGT TAA TAA TAA T-A TGAA TAG TAA TAA AAGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TA-A TAA
* * *
10343097 TAG TAA TAA TAA TAA TAG TAA TAC TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
10343126 TTAAACTAAT
Statistics
Matches: 92, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
2 4 0.04
3 82 0.89
4 4 0.04
5 2 0.02
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:10345006 original size:131 final size:131
Alignment explanation
Indices: 10344822--10345064 Score: 371
Period size: 131 Copynumber: 1.9 Consensus size: 131
10344812 GAGAAATTAG
* * *
10344822 GCCACAGACAACCGATAGTAAAAAGACTATAATCGCCCTTGCAAAAAGAGCCATATTACATCTTT
1 GCCACAGACAACCGAAAGTAAAAAGACCATAATCGCCCTAGCAAAAAGAGCCATATTACATCTTT
* *
10344887 TTCTTAGACG-GTCAACAATTGGAAATAAACGATGCTACATGTCATTACAACTGAGAGAGAGACT
66 TTCTTAGA-GTGTCAACAATTGCAAATAAACGATACTACATGTCATTACAACTGAGAGAGAGACT
10344951 GA
130 GA
** *
10344953 GCCACAGACAGTCGAAAGTAAAAAGACCATAATCGCCCTAGCGAAAAGAGCCATATTACATCTTT
1 GCCACAGACAACCGAAAGTAAAAAGACCATAATCGCCCTAGCAAAAAGAGCCATATTACATCTTT
* * *
10345018 TTTTTAGAGTGTCAACAATTGCAAATAATCGATACTATATGTCATTA
66 TTCTTAGAGTGTCAACAATTGCAAATAAACGATACTACATGTCATTA
10345065 AAGAAGCTGC
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
130 1 0.01
131 99 0.99
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (131 bp):
GCCACAGACAACCGAAAGTAAAAAGACCATAATCGCCCTAGCAAAAAGAGCCATATTACATCTTT
TTCTTAGAGTGTCAACAATTGCAAATAAACGATACTACATGTCATTACAACTGAGAGAGAGACTG
A
Found at i:10349652 original size:24 final size:24
Alignment explanation
Indices: 10349625--10349680 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
10349615 TATATTCTAA
* *
10349625 TTATATTTTATAAATAATTAATAT
1 TTATATTTTAAAAATAATTAAAAT
* *
10349649 TTAT-TACTTAAAAATATTTAAAAT
1 TTATAT-TTTAAAAATAATTAAAAT
10349673 TTATATTT
1 TTATATTT
10349681 CATATATTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
23 1 0.04
24 23 0.92
25 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TTATATTTTAAAAATAATTAAAAT
Found at i:10355422 original size:5 final size:5
Alignment explanation
Indices: 10355414--10355483 Score: 124
Period size: 5 Copynumber: 14.2 Consensus size: 5
10355404 AATGAAATGA
*
10355414 GATAT GATAT GATAT GATAT GATAA GATAT GATAT GATAT GATAT GATAT
1 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATAT
10355464 GATAT GATAT GATAT -ATAT G
1 GATAT GATAT GATAT GATAT G
10355484 TGAATTGGTT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
4 4 0.06
5 58 0.94
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (5 bp):
GATAT
Found at i:10356906 original size:21 final size:22
Alignment explanation
Indices: 10356880--10356920 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
10356870 AATTTACAAA
*
10356880 AGAAGAAGATAG-AAAGAAAGG
1 AGAAGAAGAAAGAAAAGAAAGG
10356901 AGAAGAAGAAAGAAAAGAAA
1 AGAAGAAGAAAGAAAAGAAA
10356921 AGGTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.02
Consensus pattern (22 bp):
AGAAGAAGAAAGAAAAGAAAGG
Found at i:10356917 original size:18 final size:19
Alignment explanation
Indices: 10356877--10356919 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
10356867 AAAAATTTAC
10356877 AAAAGAAGAAGATAGAAAG
1 AAAAGAAGAAGATAGAAAG
*
10356896 -AAAGGAGAAGA-AGAAAG
1 AAAAGAAGAAGATAGAAAG
10356913 AAAAGAA
1 AAAAGAA
10356920 AAGGTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (19 bp):
AAAAGAAGAAGATAGAAAG
Found at i:10363325 original size:13 final size:13
Alignment explanation
Indices: 10363307--10363359 Score: 52
Period size: 15 Copynumber: 3.8 Consensus size: 13
10363297 TTTGGTATTT
10363307 ATTTTATTTTCAA
1 ATTTTATTTTCAA
*
10363320 ATTTTATTTTTTAAA
1 ATTTTA--TTTTCAA
*
10363335 ATATATTATTTTCAT
1 AT-T-TTATTTTCAA
10363350 ATTTTATTTT
1 ATTTTATTTT
10363360 TTATATTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
13 13 0.39
14 1 0.03
15 15 0.45
16 1 0.03
17 3 0.09
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTTTATTTTCAA
Found at i:10363328 original size:30 final size:29
Alignment explanation
Indices: 10363302--10363372 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 29
10363292 TATATTTTGG
10363302 TATTTATTTTATTTTCAAATTTTATTTTT
1 TATTTATTTTATTTTCAAATTTTATTTTT
** * *
10363331 TAAAATATATTATTTTCATATTTTATTTTT
1 T-ATTTATTTTATTTTCAAATTTTATTTTT
10363361 TATATTATTTTA
1 TAT-TTATTTTA
10363373 GCACATAATG
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
29 2 0.06
30 31 0.94
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (29 bp):
TATTTATTTTATTTTCAAATTTTATTTTT
Found at i:10363365 original size:14 final size:14
Alignment explanation
Indices: 10363306--10363366 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
10363296 TTTTGGTATT
*
10363306 TATTTTA-TTTTCA
1 TATTTTATTTTTTA
*
10363319 AATTTTATTTTTTA
1 TATTTTATTTTTTA
* * *
10363333 AAATATATTATTTTCA
1 TATTTTATT-TTTT-A
10363349 TATTTTATTTTTTA
1 TATTTTATTTTTTA
10363363 TATT
1 TATT
10363367 ATTTTAGCAC
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
13 6 0.16
14 17 0.45
15 8 0.21
16 7 0.18
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTTATTTTTTA
Found at i:10363463 original size:150 final size:146
Alignment explanation
Indices: 10363304--10363628 Score: 533
Period size: 150 Copynumber: 2.2 Consensus size: 146
10363294 TATTTTGGTA
* *
10363304 TTTATTTTATTTTCAAATTTTATTTTTTAAAATATATTATTTTCATATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATATTAT
* *
10363369 TTTAGCACATAATGTTTCAAATGTATTGTTTTTGTATTTTTTATATTAATTTAGTAAAAAAACTC
66 TTTAGCACATAATGTTTCAAATGTATTATTTTAG--TTTTTTATATTAATTTAGT-AAAAAACTC
* *
10363434 TGATTTTGGCCGTTTGTTTT
128 TAATTTTGGCCGTTT-ATTT
*
10363454 TTTATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTAT
1 TTTATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATATTAT
*
10363519 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAGTAAAAAACTCTAA
66 TTTAGCACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAGTAAAAAACTCTAA
10363584 TTTTGGCCGTTTATTT
131 TTTTGGCCGTTTATTT
*
10363600 TTTATTTTATTTTCGGATTTTATTTTTTA
1 TTTATTTTATTTTCAGATTTTATTTTTTA
10363629 TTATTGTTTT
Statistics
Matches: 166, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
146 31 0.19
147 23 0.14
148 19 0.11
150 93 0.56
ACGTcount: A:0.27, C:0.06, G:0.07, T:0.60
Consensus pattern (146 bp):
TTTATTTTATTTTCAGATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATATTAT
TTTAGCACATAATGTTTCAAATGTATTATTTTAGTTTTTTATATTAATTTAGTAAAAAACTCTAA
TTTTGGCCGTTTATTT
Found at i:10363623 original size:116 final size:115
Alignment explanation
Indices: 10363491--10363743 Score: 384
Period size: 117 Copynumber: 2.2 Consensus size: 115
10363481 TAAAATATAC
*
10363491 TATTTTCGTATTTTATTTTTTA-TATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
1 TATTTTCGGATTTTATTTTTTATTATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
* * * * *
10363555 TTTTATATTAATTTAG-TAAAAAACTCTAATTTTGGCCGTTTATTTTTTATTT
66 TTTTATATTAATTTAGAAAAAAAACTATAATTTTGACC-CTT-TTTTAT-TTT
*
10363607 TATTTTCGGATTTTATTTTTTATTATTGTTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
1 TATTTTCGGATTTTATTTTTTATTATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
**
10363672 TTTTATATTAATTTAGAAAAAAAACTATGCTTTTGACCCTTTTTTATTTT
66 TTTTATATTAATTTAGAAAAAAAACTATAATTTTGACCCTTTTTTATTTT
10363722 TATTTTCGGATTTTATTTTTTA
1 TATTTTCGGATTTTATTTTTTA
10363744 AAATATACTA
Statistics
Matches: 126, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
115 25 0.20
116 26 0.21
117 59 0.47
118 16 0.13
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.58
Consensus pattern (115 bp):
TATTTTCGGATTTTATTTTTTATTATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
TTTTATATTAATTTAGAAAAAAAACTATAATTTTGACCCTTTTTTATTTT
Found at i:10363870 original size:13 final size:13
Alignment explanation
Indices: 10363852--10363886 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
10363842 GATTTTGGCC
10363852 ATTTTTTAATTTT
1 ATTTTTTAATTTT
**
10363865 ATTTTTGGATTTT
1 ATTTTTTAATTTT
10363878 ATTTTTTAA
1 ATTTTTTAA
10363887 AATATACTAT
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:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (13 bp):
ATTTTTTAATTTT
Found at i:10364077 original size:147 final size:146
Alignment explanation
Indices: 10363607--10364447 Score: 1319
Period size: 145 Copynumber: 5.8 Consensus size: 146
10363597 TTTTTTATTT
* *
10363607 TATTTTCGGATTTTA-TTTTTTATTATTGTTTTAGTACATAATGTTTCAAATGTATTATTTTAG-
1 TATTTTCGTATTTTATTTTTTTA-TATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGT
* * * * * * *
10363670 TTTTTTATATTAATTTAGAAAAAAAACTATGCTTTTGACCCTTTTTTAT-TTTTATTTTCGGATT
65 TTTTTTATATTAATTTAG-TAAAAAACTCTGATTTTGGCCATTTTTTTTATTTTATTTTTGGATT
10363734 TTATTTTTTAAAATATAC
129 TTATTTTTTAAAATATAC
10363752 TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTC--ATGTATTATTTTAG-T
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
** * *
10363814 TTTTTATATTAATTTAGTAAAAATTTGTGATTTTGGCCA-TTTTTTAATTTTATTTTTGGATTTT
66 TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTTTTTTATTTTATTTTTGGATTTT
10363878 ATTTTTTAAAATATAC
131 ATTTTTTAAAATATAC
*
10363894 TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTT
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
10363959 TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTATTTTTATTTTATTTTTGGATTT
66 TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTT-TTTTTATTTTATTTTTGGATTT
*
10364024 TATTTTTCAAAATATAC
130 TATTTTTTAAAATATAC
10364041 TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTC--ATGTATTATTTTAGTT
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
* * *
10364104 TTTTTATATTAATTTAGTAAAAATCTGTGATTTTGGCCA-TTTTTTAATTTTATTTTTGGATTTT
66 TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTTTTTTATTTTATTTTTGGATTTT
10364168 ATTTTTTAAAATATAC
131 ATTTTTTAAAATATAC
* *
10364184 TATTTTCATATTTTATTTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTT
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAG-T
10364249 TTTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTATTTTTATTTTATTTTTGGATT
65 TTTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTT-TTTTTATTTTATTTTTGGATT
*
10364314 TTATTTTTCAAAATATAC
129 TTATTTTTTAAAATATAC
* *
10364332 TATTTTCGTATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCATATGTATTATTTTAGTA
1 TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
* *
10364396 TATTTATATTAATTTAGT-AAAAACTCTGATTTTGGCCTTTTTATTTTATTTT
66 TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTT-TTTTATTTT
10364448 CGAATTTTTT
Statistics
Matches: 648, Mismatches: 35, Indels: 26
0.91 0.05 0.04
Matches are distributed among these distances:
141 5 0.01
142 93 0.14
143 114 0.18
144 17 0.03
145 172 0.27
146 66 0.10
147 130 0.20
148 51 0.08
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.59
Consensus pattern (146 bp):
TATTTTCGTATTTTATTTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTT
TTTTTATATTAATTTAGTAAAAAACTCTGATTTTGGCCATTTTTTTTATTTTATTTTTGGATTTT
ATTTTTTAAAATATAC
Found at i:10364160 original size:13 final size:13
Alignment explanation
Indices: 10364142--10364176 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
10364132 GATTTTGGCC
10364142 ATTTTTTAATTTT
1 ATTTTTTAATTTT
**
10364155 ATTTTTGGATTTT
1 ATTTTTTAATTTT
10364168 ATTTTTTAA
1 ATTTTTTAA
10364177 AATATACTAT
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:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (13 bp):
ATTTTTTAATTTT
Found at i:10364471 original size:14 final size:15
Alignment explanation
Indices: 10364454--10364484 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
10364444 TTTTCGAATT
10364454 TTTTAAAATATA-TA
1 TTTTAAAATATACTA
10364468 TTTTAAAATATACTA
1 TTTTAAAATATACTA
10364483 TT
1 TT
10364485 AAGCTATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTTAAAATATACTA
Found at i:10364954 original size:6 final size:6
Alignment explanation
Indices: 10364945--10364975 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
10364935 CTTCTCCTTC
*
10364945 TCTTTT TCTTTC TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
10364976 TCTTCTCTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TCTTTT
Found at i:10364957 original size:18 final size:18
Alignment explanation
Indices: 10364936--10364983 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
10364926 CTTCTTGTTC
10364936 TTCTCCTTCTCTTTTTCT
1 TTCTCCTTCTCTTTTTCT
* *
10364954 TTCTCTTTTTCTTTTTCT
1 TTCTCCTTCTCTTTTTCT
* *
10364972 TTTTTCTTCTCT
1 TTCTCCTTCTCT
10364984 CACCAATGAC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (18 bp):
TTCTCCTTCTCTTTTTCT
Found at i:10364959 original size:12 final size:12
Alignment explanation
Indices: 10364942--10364975 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
10364932 GTTCTTCTCC
10364942 TTCTCTTTTTCT
1 TTCTCTTTTTCT
10364954 TTCTCTTTTTCT
1 TTCTCTTTTTCT
*
10364966 TTTTCTTTTT
1 TTCTCTTTTT
10364976 TCTTCTCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTCTCTTTTTCT
Found at i:10365010 original size:3 final size:3
Alignment explanation
Indices: 10365002--10365047 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
10364992 ACGCCTCCAC
10365002 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-T CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
10365048 CTTTCTCTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:10366370 original size:27 final size:27
Alignment explanation
Indices: 10366338--10366390 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
10366328 TAATTTTTTA
10366338 AAAAGAAAAAGTAGTTTTC-CTTTAAAG
1 AAAAG-AAAAGTAGTTTTCTCTTTAAAG
**
10366365 AAAAGAAGGGTAGTTTTCTCTTTAAA
1 AAAAGAAAAGTAGTTTTCTCTTTAAA
10366391 AAGTGGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.32
Consensus pattern (27 bp):
AAAAGAAAAGTAGTTTTCTCTTTAAAG
Found at i:10366779 original size:21 final size:22
Alignment explanation
Indices: 10366742--10366783 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
10366732 AAGCATTTAT
*
10366742 ATAAAATTTTTATATTTAAAAA
1 ATAAAATTTTCATATTTAAAAA
10366764 ATAAAA-TTTCATATTTAAAA
1 ATAAAATTTTCATATTTAAAA
10366784 GAAAAAGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
ATAAAATTTTCATATTTAAAAA
Found at i:10367049 original size:32 final size:35
Alignment explanation
Indices: 10367003--10367080 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 35
10366993 ACCAATGTTA
10367003 GTAAGAAAATATTTATA-CCTAT-TT-ATTATT-TAG
1 GTAA-AAAATATTTATATCCTATGTTAATT-TTGTAG
10367036 GTAAAAAATATTTATATTCCTATGTTAATTTTGTAG
1 GTAAAAAATATTTATA-TCCTATGTTAATTTTGTAG
10367072 GTAAAAAAT
1 GTAAAAAAT
10367081 TAAAAAATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
32 12 0.30
33 4 0.10
34 5 0.12
35 4 0.10
36 15 0.38
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (35 bp):
GTAAAAAATATTTATATCCTATGTTAATTTTGTAG
Found at i:10370866 original size:2 final size:2
Alignment explanation
Indices: 10370861--10370888 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10370851 ATATAGGGAG
10370861 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC
10370889 GAAAGCAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:10374815 original size:13 final size:13
Alignment explanation
Indices: 10374799--10374838 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
10374789 TATATTTAAC
*
10374799 AATTCAAATAATA
1 AATTAAAATAATA
*
10374812 AATTAAAAAAAT-
1 AATTAAAATAATA
10374824 AATTAAAATAATA
1 AATTAAAATAATA
10374837 AA
1 AA
10374839 AAATATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAAATAATA
Found at i:10377061 original size:25 final size:26
Alignment explanation
Indices: 10377015--10377063 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
10377005 TTAAAAAAAT
***
10377015 ATTTTTATATTTTTATGGTTTTAATA
1 ATTTTTATATTTTTAAAATTTTAATA
10377041 ATTTTTA-ATTTTTAAAATTTTAA
1 ATTTTTATATTTTTAAAATTTTAA
10377064 AAAATTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (26 bp):
ATTTTTATATTTTTAAAATTTTAATA
Found at i:10378258 original size:24 final size:24
Alignment explanation
Indices: 10378212--10378259 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10378202 CAAACCCCAT
* **
10378212 TTTTCTCTTCTTCCACACCCCAAA
1 TTTTCTCTTCTTCCAAAAACCAAA
*
10378236 TTTTCTCTTCTTCTAAAAACCAAA
1 TTTTCTCTTCTTCCAAAAACCAAA
10378260 AGAAAAAAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (24 bp):
TTTTCTCTTCTTCCAAAAACCAAA
Found at i:10382375 original size:19 final size:19
Alignment explanation
Indices: 10382331--10382383 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
10382321 TTTTTCTTTT
*
10382331 TTATA-AAAAATATAAAAAA
1 TTATATAAAAAT-TATAAAA
10382350 TT-T-TAAAAATTATAAAA
1 TTATATAAAAATTATAAAA
10382367 TTATATAAAAAATTATA
1 TTATAT-AAAAATTATA
10382384 GAATAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 8 0.28
18 8 0.28
19 3 0.10
20 10 0.34
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TTATATAAAAATTATAAAA
Found at i:10382383 original size:10 final size:10
Alignment explanation
Indices: 10382331--10382383 Score: 58
Period size: 9 Copynumber: 5.5 Consensus size: 10
10382321 TTTTTCTTTT
10382331 TTATAAAAAA
1 TTATAAAAAA
10382341 -TATAAAAAA
1 TTATAAAAAA
*
10382350 TT-TTAAAAA
1 TTATAAAAAA
*
10382359 TTAT-AAAAT
1 TTATAAAAAA
10382368 TATATAAAAAA
1 T-TATAAAAAA
10382379 TTATA
1 TTATA
10382384 GAATAATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 22 0.61
10 9 0.25
11 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:10385996 original size:29 final size:28
Alignment explanation
Indices: 10385914--10385996 Score: 67
Period size: 29 Copynumber: 2.8 Consensus size: 28
10385904 TCTTTTATAA
*
10385914 AAATAACCTTAAAATTTTAATTAATTATGT
1 AAATAACC-TAAAATTTTAA-TAAATATGT
** *** *
10385944 AAATAATTTACTTTTTTTATTAAATATGT
1 AAATAACCTA-AAATTTTAATAAATATGT
10385973 AAATAACCTAAAATTTATAATAAA
1 AAATAACCTAAAATTT-TAATAAA
10385997 AATTAGTGGA
Statistics
Matches: 38, Mismatches: 13, Indels: 5
0.68 0.23 0.09
Matches are distributed among these distances:
28 3 0.08
29 24 0.63
30 11 0.29
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.43
Consensus pattern (28 bp):
AAATAACCTAAAATTTTAATAAATATGT
Found at i:10386585 original size:22 final size:22
Alignment explanation
Indices: 10386544--10386602 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 22
10386534 TTATCATATA
10386544 AAAAGATAAAAA--TAACTTTAT
1 AAAA-ATAAAAATTTAACTTTAT
*
10386565 AAAAATAAAAATTTAATTTTAT
1 AAAAATAAAAATTTAACTTTAT
*
10386587 ACAAATTAAATAATTT
1 A-AAAATAAA-AATTT
10386603 GTATAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 7 0.22
21 4 0.12
22 9 0.28
23 7 0.22
24 5 0.16
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAAATAAAAATTTAACTTTAT
Found at i:10388192 original size:29 final size:29
Alignment explanation
Indices: 10388145--10388251 Score: 142
Period size: 29 Copynumber: 3.7 Consensus size: 29
10388135 CATAAATGCT
* *
10388145 TCATATATCAGAATTAACCACAAAGACTC
1 TCATATAACAGAATCAACCACAAAGACTC
* * * *
10388174 ACATATAACAAAATCAACCCCAAAGGCTC
1 TCATATAACAGAATCAACCACAAAGACTC
*
10388203 TCATATAGCAGAATCAACCACAAAGACTC
1 TCATATAACAGAATCAACCACAAAGACTC
*
10388232 TCATATAACAGAATTAACCA
1 TCATATAACAGAATCAACCA
10388252 AAAATGCTCC
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.47, C:0.26, G:0.07, T:0.20
Consensus pattern (29 bp):
TCATATAACAGAATCAACCACAAAGACTC
Found at i:10389134 original size:54 final size:54
Alignment explanation
Indices: 10389031--10389134 Score: 172
Period size: 54 Copynumber: 1.9 Consensus size: 54
10389021 CTAAACGATA
* * **
10389031 GATCACATAAACTCATCAAGATCTGTACATTTGACTCATTCCTCTTTCCACTTT
1 GATCACAAAAACTCATCAAGATCAGTACATTTGACTCATTCCTAGTTCCACTTT
10389085 GATCACAAAAACTCATCAAGATCAGTACATTTGACTCATTCCTAGTTCCA
1 GATCACAAAAACTCATCAAGATCAGTACATTTGACTCATTCCTAGTTCCA
10389135 TCGAGTAGAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.33
Consensus pattern (54 bp):
GATCACAAAAACTCATCAAGATCAGTACATTTGACTCATTCCTAGTTCCACTTT
Found at i:10397079 original size:15 final size:15
Alignment explanation
Indices: 10397059--10397092 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
10397049 GTATGTGTAT
*
10397059 TTTAGTTAGTTATAC
1 TTTAGTTACTTATAC
*
10397074 TTTAGTTACTTTTAC
1 TTTAGTTACTTATAC
10397089 TTTA
1 TTTA
10397093 TTATTTTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.59
Consensus pattern (15 bp):
TTTAGTTACTTATAC
Found at i:10399405 original size:29 final size:31
Alignment explanation
Indices: 10399351--10399408 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
10399341 GTGTGTAATT
10399351 ACACGAGCAATTCTAGTAGGCCGTGTGCCCC
1 ACACGAGCAATTCTAGTAGGCCGTGTGCCCC
* *
10399382 ACACGAGC-A-TCTAGTTGGCTGTGTGCC
1 ACACGAGCAATTCTAGTAGGCCGTGTGCC
10399409 AGGTCGTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.64
30 1 0.04
31 8 0.32
ACGTcount: A:0.21, C:0.29, G:0.28, T:0.22
Consensus pattern (31 bp):
ACACGAGCAATTCTAGTAGGCCGTGTGCCCC
Found at i:10404498 original size:19 final size:20
Alignment explanation
Indices: 10404476--10404518 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
10404466 GAGAAAACCG
*
10404476 AAGAA-GAACAAAAAAAGAA
1 AAGAACGAAAAAAAAAAGAA
10404495 AAGAACGTGAAAAAAAAAAGAA
1 AAGAAC--GAAAAAAAAAAGAA
10404517 AA
1 AA
10404519 AAGCAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
22 15 0.75
ACGTcount: A:0.77, C:0.05, G:0.16, T:0.02
Consensus pattern (20 bp):
AAGAACGAAAAAAAAAAGAA
Found at i:10417905 original size:15 final size:16
Alignment explanation
Indices: 10417885--10417924 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
10417875 CTGTTCATAT
10417885 TTTATTTTAT-ATGT-A
1 TTTATTTTATAAT-TAA
10417900 TTTA-TTTATAATTAA
1 TTTATTTTATAATTAA
10417915 TTTATTTTAT
1 TTTATTTTAT
10417925 TCGCTAACGT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.27
15 11 0.50
16 5 0.23
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTATTTTATAATTAA
Found at i:10427354 original size:43 final size:43
Alignment explanation
Indices: 10427306--10427444 Score: 115
Period size: 42 Copynumber: 3.3 Consensus size: 43
10427296 TCCCTAACTC
* *
10427306 ACACGGGCGTGTGCCTTAGCCACACGATCTTTTGCCTACTCTT
1 ACACGGGCGTGTGCCTTAGCCACACGATCATCTGCCTACTCTT
** ** * * * *
10427349 ACAC-GG-GTGTGTATTTCCTCAAACGGTCATGTCCCTAACTC--
1 ACACGGGCGTGTGCCTTAGC-CACACGATCATCTGCCT-ACTCTT
*
10427390 ACACGGGCGTGTGCCTTAGCCACACGATCGTCTGCCTACTCTT
1 ACACGGGCGTGTGCCTTAGCCACACGATCATCTGCCTACTCTT
* *
10427433 ACAAGGGTGTGT
1 ACACGGGCGTGT
10427445 ATTTTCTCAC
Statistics
Matches: 70, Mismatches: 20, Indels: 12
0.69 0.20 0.12
Matches are distributed among these distances:
41 16 0.23
42 28 0.40
43 26 0.37
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.28
Consensus pattern (43 bp):
ACACGGGCGTGTGCCTTAGCCACACGATCATCTGCCTACTCTT
Found at i:10427485 original size:84 final size:84
Alignment explanation
Indices: 10427283--10427465 Score: 312
Period size: 84 Copynumber: 2.2 Consensus size: 84
10427273 CATGGCCTAT
* *
10427283 TCACACGGTCATGTCCCTAACTCACACGGGCGTGTGCCTTAGCCACACGATCTTTTGCCTACTCT
1 TCACACGGTCATGTCCCTAACTCACACGGGCGTGTGCCTTAGCCACACGATCGTCTGCCTACTCT
*
10427348 TACACGGGTGTGTATTTCC
66 TACAAGGGTGTGTATTTCC
*
10427367 TCAAACGGTCATGTCCCTAACTCACACGGGCGTGTGCCTTAGCCACACGATCGTCTGCCTACTCT
1 TCACACGGTCATGTCCCTAACTCACACGGGCGTGTGCCTTAGCCACACGATCGTCTGCCTACTCT
*
10427432 TACAAGGGTGTGTATTTTC
66 TACAAGGGTGTGTATTTCC
*
10427451 TCACACGGACATGTC
1 TCACACGGTCATGTC
10427466 TCTCCCTCAC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 92 1.00
ACGTcount: A:0.20, C:0.31, G:0.21, T:0.28
Consensus pattern (84 bp):
TCACACGGTCATGTCCCTAACTCACACGGGCGTGTGCCTTAGCCACACGATCGTCTGCCTACTCT
TACAAGGGTGTGTATTTCC
Found at i:10428165 original size:24 final size:24
Alignment explanation
Indices: 10428133--10428181 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
10428123 GAGAGGTGTG
*
10428133 TTAGCTGGATGGGCGGGTTTTTAC
1 TTAGCTGGATAGGCGGGTTTTTAC
*
10428157 TTAGCTGGATAGGTGGGTTTTTAC
1 TTAGCTGGATAGGCGGGTTTTTAC
10428181 T
1 T
10428182 ACTTGACTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.14, C:0.10, G:0.35, T:0.41
Consensus pattern (24 bp):
TTAGCTGGATAGGCGGGTTTTTAC
Found at i:10430977 original size:21 final size:21
Alignment explanation
Indices: 10430951--10430996 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
10430941 GTCCCTGACT
10430951 CACACGGGCGTGTGCCATAAC
1 CACACGGGCGTGTGCCATAAC
* * *
10430972 CACACGGTCGTGTGCCTTAGC
1 CACACGGGCGTGTGCCATAAC
10430993 CACA
1 CACA
10430997 TAGTCATGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.35, G:0.26, T:0.17
Consensus pattern (21 bp):
CACACGGGCGTGTGCCATAAC
Found at i:10431006 original size:21 final size:21
Alignment explanation
Indices: 10430961--10431030 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
10430951 CACACGGGCG
* * * *
10430961 TGTGCCATAACCACACGGTCG
1 TGTGCCTTAGCCACACAGTCA
*
10430982 TGTGCCTTAGCCACATAGTCA
1 TGTGCCTTAGCCACACAGTCA
*
10431003 TGTGCCTTAGCCACACAGTCG
1 TGTGCCTTAGCCACACAGTCA
10431024 TGTGCCT
1 TGTGCCT
10431031 CCTTTCACAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (21 bp):
TGTGCCTTAGCCACACAGTCA
Found at i:10433352 original size:81 final size:81
Alignment explanation
Indices: 10433213--10433369 Score: 208
Period size: 81 Copynumber: 1.9 Consensus size: 81
10433203 TTTAGCGGTG
* * * * *
10433213 TCAATAGCGGCGTTTTTGTTAACACGCCCCTAAAAACAGAGCAATAGCGGCGTTTTTTGTTAAAA
1 TCAATAGCGGCGCTTTTGGTAAAACGCCCCTAAAAACAGAGCAATAGCGGCGTCTTTTGGTAAAA
*
10433278 CGACGCTAAAAACAGA
66 CGACACTAAAAACAGA
* * *
10433294 TCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAGCAATAGCGGCG-CTTTTGGTAAA
1 TCAATAGCGGCGCTTTTGGTAAAACGCCCCTAAAA-ACAGAGCAATAGCGGCGTCTTTTGGTAAA
*
10433358 ACGCCACTAAAA
65 ACGACACTAAAA
10433370 GTCATATAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 50 0.77
82 15 0.23
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (81 bp):
TCAATAGCGGCGCTTTTGGTAAAACGCCCCTAAAAACAGAGCAATAGCGGCGTCTTTTGGTAAAA
CGACACTAAAAACAGA
Found at i:10433372 original size:41 final size:40
Alignment explanation
Indices: 10433214--10433369 Score: 195
Period size: 41 Copynumber: 3.9 Consensus size: 40
10433204 TTAGCGGTGT
* * * *
10433214 CAATAGCGGCGTTTTTGTTAACACGCCCCTAAAAACAGAG
1 CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAGAG
* * * *
10433254 CAATAGCGGCGTTTTTTGTTAAAACGACGCTAAAAACAGAT
1 CAATAGCGGCG-CTTTTGGTAAAACGCCGCTAAAAACAGAG
* *
10433295 CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGTCGGAG
1 CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA-ACAGAG
*
10433336 CAATAGCGGCGCTTTTGGTAAAACGCCACTAAAA
1 CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
10433370 GTCATATAAC
Statistics
Matches: 103, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 31 0.30
41 72 0.70
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (40 bp):
CAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACAGAG
Found at i:10433465 original size:16 final size:17
Alignment explanation
Indices: 10433439--10433472 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10433429 CTAAAATACT
*
10433439 AAACCTCTAAACCCTAA
1 AAACCTCTAAACACTAA
10433456 AAACCT-TAAACACTAA
1 AAACCTCTAAACACTAA
10433472 A
1 A
10433473 CTATAACTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (17 bp):
AAACCTCTAAACACTAA
Found at i:10433486 original size:53 final size:55
Alignment explanation
Indices: 10433382--10433496 Score: 135
Period size: 53 Copynumber: 2.1 Consensus size: 55
10433372 CATATAACCC
* * * * *
10433382 CTAAAACTCCTAAACCCTAAAAAATCATGAACACTAATCTATAACCCCTAAAATA
1 CTAAACCTCCTAAACCCTAAAAAACCATAAACACTAAACTATAACCCCTAAAACA
* ** *
10433437 CTAAACCT-CTAAACCCT-AAAAACCTTAAACACTAAACTATAACTTCTAAAACC
1 CTAAACCTCCTAAACCCTAAAAAACCATAAACACTAAACTATAACCCCTAAAACA
10433490 CTAAACC
1 CTAAACC
10433497 CCAAAAAACA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 35 0.69
54 9 0.18
55 7 0.14
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.22
Consensus pattern (55 bp):
CTAAACCTCCTAAACCCTAAAAAACCATAAACACTAAACTATAACCCCTAAAACA
Found at i:10434263 original size:7 final size:7
Alignment explanation
Indices: 10434253--10434311 Score: 50
Period size: 7 Copynumber: 8.3 Consensus size: 7
10434243 CATTAAACCG
10434253 AAATAAA
1 AAATAAA
10434260 AAAT--A
1 AAATAAA
*
10434265 AACTCAAA
1 AAAT-AAA
*
10434273 AAATTAA
1 AAATAAA
*
10434280 AATTAAA
1 AAATAAA
10434287 AAATTAAA
1 AAA-TAAA
10434295 AAATTAAA
1 AAA-TAAA
10434303 AAATAAA
1 AAATAAA
10434310 AA
1 AA
10434312 CTTAAAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 4 0.10
7 19 0.45
8 19 0.45
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.20
Consensus pattern (7 bp):
AAATAAA
Found at i:10434280 original size:14 final size:14
Alignment explanation
Indices: 10434253--10434327 Score: 55
Period size: 14 Copynumber: 5.3 Consensus size: 14
10434243 CATTAAACCG
10434253 AAAT-AAAAAA-TA
1 AAATCAAAAAATTA
*
10434265 AACTCAAAAAATTA
1 AAATCAAAAAATTA
*
10434279 AAATTAAAAAATTAAA
1 AAATCAAAAAATT--A
* *
10434295 AAATTAAAAAATAA
1 AAATCAAAAAATTA
* *
10434309 AAACTTAAAAATTTA
1 AAA-TCAAAAAATTA
10434324 AAAT
1 AAAT
10434328 TTAATATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
12 3 0.06
13 6 0.12
14 18 0.35
15 12 0.23
16 13 0.25
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATCAAAAAATTA
Found at i:10434289 original size:8 final size:8
Alignment explanation
Indices: 10434270--10434326 Score: 75
Period size: 8 Copynumber: 7.5 Consensus size: 8
10434260 AAATAAACTC
10434270 AAAAAATT
1 AAAAAATT
10434278 --AAAATT
1 AAAAAATT
10434284 AAAAAATT
1 AAAAAATT
10434292 AAAAAATT
1 AAAAAATT
10434300 AAAAAA-T
1 AAAAAATT
*
10434307 AAAAACTT
1 AAAAAATT
*
10434315 AAAAATTT
1 AAAAAATT
10434323 AAAA
1 AAAA
10434327 TTTAATATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
6 6 0.14
7 6 0.14
8 32 0.73
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (8 bp):
AAAAAATT
Found at i:10434298 original size:22 final size:22
Alignment explanation
Indices: 10434270--10434328 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 22
10434260 AAATAAACTC
10434270 AAAAAATTAAAATTAAAAAATT
1 AAAAAATTAAAATTAAAAAATT
* *
10434292 AAAAAATTAAAAAATAAAAACTT
1 AAAAAATT-AAAATTAAAAAATT
*
10434315 AAAAATTTAAAATT
1 AAAAAATTAAAATT
10434329 TAATATTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAAAATTAAAATTAAAAAATT
Found at i:10434331 original size:15 final size:15
Alignment explanation
Indices: 10434270--10434331 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
10434260 AAATAAACTC
*
10434270 AAAAAATTAAAA-TT
1 AAAAAATAAAAATTT
*
10434284 AAAAAATTAAAAAATT
1 AAAAAA-TAAAAATTT
*
10434300 AAAAAATAAAAACTT
1 AAAAAATAAAAATTT
* *
10434315 AAAAATTTAAAATTT
1 AAAAAATAAAAATTT
10434330 AA
1 AA
10434332 TATTTTAGTC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
14 6 0.15
15 27 0.66
16 8 0.20
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAAATAAAAATTT
Found at i:10434416 original size:18 final size:16
Alignment explanation
Indices: 10434395--10434432 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 16
10434385 TCCAAAAGAG
10434395 AAAAATAAAAAATATGTT
1 AAAAATAAAAAA-AT-TT
10434413 AAAAATAAAAAAATTT
1 AAAAATAAAAAAATTT
10434429 AAAA
1 AAAA
10434433 TTAATCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 2 0.10
18 12 0.60
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
AAAAATAAAAAAATTT
Found at i:10440922 original size:23 final size:23
Alignment explanation
Indices: 10440896--10440940 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
10440886 CACACCCTAA
* *
10440896 ATGGCCGAGCCCGTGTGGCCCAG
1 ATGGCCGAGCCCATGTAGCCCAG
*
10440919 ATGGCCTAGCCCATGTAGCCCA
1 ATGGCCGAGCCCATGTAGCCCA
10440941 CACTGCCCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.36, G:0.31, T:0.16
Consensus pattern (23 bp):
ATGGCCGAGCCCATGTAGCCCAG
Found at i:10443354 original size:32 final size:32
Alignment explanation
Indices: 10443318--10443382 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
10443308 TGTATGCATT
10443318 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
10443350 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
10443382 T
1 T
10443383 AGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:10444964 original size:26 final size:26
Alignment explanation
Indices: 10444914--10444964 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
10444904 ACAGTTTTAC
10444914 CCCCTAGGAGATAAATTACCGAAATA
1 CCCCTAGGAGATAAATTACCGAAATA
* *
10444940 CCCCTAGG-GTTAAATTGACCTAAAT
1 CCCCTAGGAGATAAATT-ACCGAAAT
10444965 GCATGTTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.24
Consensus pattern (26 bp):
CCCCTAGGAGATAAATTACCGAAATA
Found at i:10451067 original size:19 final size:19
Alignment explanation
Indices: 10451043--10451079 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
10451033 TCCAAACACC
10451043 AGAAAAGTAAATCATTTTT
1 AGAAAAGTAAATCATTTTT
10451062 AGAAAAGTAAATCATTTT
1 AGAAAAGTAAATCATTTT
10451080 CCAGAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (19 bp):
AGAAAAGTAAATCATTTTT
Found at i:10455704 original size:60 final size:60
Alignment explanation
Indices: 10455609--10455753 Score: 218
Period size: 60 Copynumber: 2.4 Consensus size: 60
10455599 GCGTCTTAAA
* ** **
10455609 ACCAAGGATGGATTTGAGTTGAAAACCCAAATAGTGCAGCTAGAATGTGTGATTATAATT
1 ACCAAGGGTGGATTCAAGTTGAAAACCCAAATAGTGCAGCTAGAATGTGCAATTATAATT
* * *
10455669 ACCAAGGGTGGATTCAAGTTGAAAACCCAACTAGTGGAGCTAGAATGTGCAATTATGATT
1 ACCAAGGGTGGATTCAAGTTGAAAACCCAAATAGTGCAGCTAGAATGTGCAATTATAATT
10455729 ACCAAGGGTGGATTCAAGTTGAAAA
1 ACCAAGGGTGGATTCAAGTTGAAAA
10455754 TCCTATATGT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 77 1.00
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.26
Consensus pattern (60 bp):
ACCAAGGGTGGATTCAAGTTGAAAACCCAAATAGTGCAGCTAGAATGTGCAATTATAATT
Found at i:10456034 original size:76 final size:75
Alignment explanation
Indices: 10455955--10456206 Score: 285
Period size: 76 Copynumber: 3.3 Consensus size: 75
10455945 TTTATTTAAA
* * * * *
10455955 AAAAATCAAATATGTTTTCAAGAAATGGGTCGAGCCTCGAGATTGCTATTGAGGTCTTTTAATTT
1 AAAAATCGAATATGTTTTCAAGAAATGGGTCGAGCCTTGAGATTGCTGTTGAGGTCTTTTAGTTA
10456020 TCATTTTATC
66 TCATTTTATC
* * ** **
10456030 AAAAATCGAAT-TCATTTT-AAGAAATGGGTTGAGCCTTGAGATTATTGTCAAGGTCTTTTTAGT
1 AAAAATCGAATAT-GTTTTCAAGAAATGGGTCGAGCCTTGAGATTGCTGTTGAGGTC-TTTTAGT
*
10456093 TGTCATTTTATC
64 TATCATTTTATC
* * *
10456105 AAAAATTGAATATGTTTTCAAGAAATGGATCGAGCCTTGAGATTGAC-GTTGAGGTCCTTTCAGT
1 AAAAATCGAATATGTTTTCAAGAAATGGGTCGAGCCTTGAGATTG-CTGTTGAGGT-CTTTTAGT
*
10456169 TATCATTTTACC
64 TATCATTTTATC
* *
10456181 AAAAATTGAATTTGTTTTCAAGAAAT
1 AAAAATCGAATATGTTTTCAAGAAAT
10456207 AAGCTAAGCT
Statistics
Matches: 148, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
74 31 0.21
75 45 0.30
76 71 0.48
77 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (75 bp):
AAAAATCGAATATGTTTTCAAGAAATGGGTCGAGCCTTGAGATTGCTGTTGAGGTCTTTTAGTTA
TCATTTTATC
Found at i:10462468 original size:16 final size:15
Alignment explanation
Indices: 10462440--10462474 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
10462430 TTGATATGTG
10462440 TTTT-TTTTTAAATA
1 TTTTATTTTTAAATA
10462454 TTTTATTTTTGAAATA
1 TTTTATTTTT-AAATA
10462470 TTTTA
1 TTTTA
10462475 CTATACTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 5 0.26
16 10 0.53
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTATTTTTAAATA
Found at i:10470608 original size:15 final size:16
Alignment explanation
Indices: 10470576--10470609 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
10470566 ATTTCATCCT
10470576 ATTTGCATTTAGGTTA
1 ATTTGCATTTAGGTTA
10470592 ATTTGCATTTA-GTTA
1 ATTTGCATTTAGGTTA
10470607 ATT
1 ATT
10470610 AATTTAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (16 bp):
ATTTGCATTTAGGTTA
Found at i:10470884 original size:15 final size:16
Alignment explanation
Indices: 10470854--10470886 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10470844 ACAATTTGGT
*
10470854 TTTTATTTTATTTTAA
1 TTTTATTTTATATTAA
10470870 TTTTA-TTTATATTAA
1 TTTTATTTTATATTAA
10470885 TT
1 TT
10470887 GTTTTGTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTATTTTATATTAA
Found at i:10473177 original size:16 final size:16
Alignment explanation
Indices: 10473166--10473226 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
10473156 TCAATCATTT
10473166 TAATATTAAATCAATA
1 TAATATTAAATCAATA
* *
10473182 TAATATT-TATCAAGA
1 TAATATTAAATCAATA
* * *
10473197 TAAATATTAGATTAAATT
1 T-AATATTA-AATCAATA
10473215 TAATATTAAATC
1 TAATATTAAATC
10473227 TTATTAAAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
15 7 0.21
16 15 0.45
17 7 0.21
18 4 0.12
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (16 bp):
TAATATTAAATCAATA
Found at i:10473287 original size:31 final size:30
Alignment explanation
Indices: 10473193--10473287 Score: 70
Period size: 31 Copynumber: 3.1 Consensus size: 30
10473183 AATATTTATC
*
10473193 AAGATAAATATTAGATTAAATTTAATATTAA
1 AAGATAAA-ATTAAATTAAATTTAATATTAA
** * *
10473224 ATCTTATTAAAA-T-AATGAAATTT-TTATCTAA
1 A--AGA-TAAAATTAAATTAAATTTAATAT-TAA
10473255 AAGATAAACATTAAATTAAATTTAATATTAA
1 AAGATAAA-ATTAAATTAAATTTAATATTAA
10473286 AA
1 AA
10473288 TAATCACTTT
Statistics
Matches: 47, Mismatches: 9, Indels: 16
0.65 0.12 0.22
Matches are distributed among these distances:
28 4 0.09
29 2 0.04
30 4 0.09
31 27 0.57
32 4 0.09
33 2 0.04
34 4 0.09
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (30 bp):
AAGATAAAATTAAATTAAATTTAATATTAA
Found at i:10474959 original size:25 final size:25
Alignment explanation
Indices: 10474925--10474975 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
10474915 ATCTTCAGTT
*
10474925 TGAACTTAAACAATCAATGAGCTAA
1 TGAACTTAAACAATCAAAGAGCTAA
*
10474950 TGAACTTAAATAATCAAAGAGCTAA
1 TGAACTTAAACAATCAAAGAGCTAA
10474975 T
1 T
10474976 ATTTGCTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (25 bp):
TGAACTTAAACAATCAAAGAGCTAA
Found at i:10480618 original size:21 final size:20
Alignment explanation
Indices: 10480592--10480631 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10480582 TTAATTATTT
10480592 TTTTTAAAAAATTTAAAAGTC
1 TTTTT-AAAAATTTAAAAGTC
* *
10480613 TTTTTATACATTTAAAAGT
1 TTTTTAAAAATTTAAAAGT
10480632 TTAATTACCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (20 bp):
TTTTTAAAAATTTAAAAGTC
Found at i:10488627 original size:15 final size:14
Alignment explanation
Indices: 10488593--10488630 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
10488583 CTATCCAAAA
10488593 TAATA-TAAAATAT
1 TAATATTAAAATAT
10488606 T-ATATTAATAATAT
1 TAATATTAA-AATAT
10488620 TAATATTAAAA
1 TAATATTAAAA
10488631 ATAAATAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 4 0.18
14 8 0.36
15 7 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAATATTAAAATAT
Found at i:10488633 original size:15 final size:14
Alignment explanation
Indices: 10488599--10488633 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
10488589 AAAATAATAT
10488599 AAAATATTATATTA
1 AAAATATTATATTA
*
10488613 ATAATATTAATATTA
1 AAAATATT-ATATTA
10488628 AAAATA
1 AAAATA
10488634 AATAATCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AAAATATTATATTA
Found at i:10499852 original size:142 final size:141
Alignment explanation
Indices: 10499517--10499933 Score: 608
Period size: 142 Copynumber: 3.0 Consensus size: 141
10499507 TAGAAAAATG
* * * *
10499517 AATTATATTATTTCCAAAATAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
* * * *
10499582 TATGATTGTTTATATTAATAAATCTGGTAAAATATATACAATTAATATTTTATATGAATCAAATT
66 TATAACTGTTTATATTAATAAAT-TCGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
10499647 C----ATATATT
130 CATATATATATT
* * * *
10499655 AATTATACTCTGTCCTAAAGAATATTAATTTCCATGTCTTTTATATTTTAACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
* * * *
10499720 TATAACTATTTATATTAATAAATTCGATAAAACATATACACTTAATATTTTGTATTAATCAAATT
66 TATAACTGTTTATATTAATAAATTCG-TAAAATATATACAATTAATATTTTGTATGAATCAAATT
10499785 CATATATATATT
130 CATATATATATT
10499797 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
* *
10499862 TATAACTGTTTTTATTAATAAATTATGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATT-CGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
*
10499927 TATATAT
130 CATATAT
10499934 TAATTATATC
Statistics
Matches: 246, Mismatches: 27, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
137 2 0.01
138 112 0.46
142 131 0.53
143 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (141 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGTAAAATATATACAATTAATATTTTGTATGAATCAAATTC
ATATATATATT
Found at i:10500025 original size:16 final size:16
Alignment explanation
Indices: 10500004--10500035 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10499994 TTTAACTATC
10500004 AAATTAAATTAATTCA
1 AAATTAAATTAATTCA
*
10500020 AAATTAATTTAATTCA
1 AAATTAAATTAATTCA
10500036 TGTGACAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTAAATTAATTCA
Found at i:10502324 original size:28 final size:28
Alignment explanation
Indices: 10502292--10502357 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
10502282 TGGGAAGTAG
* * *
10502292 TTGGGCCTAATGGGCCATATGAATGTGA
1 TTGGGCCTAATAGGCCATATGAACGAGA
* *
10502320 TTGGGCCTGATAGGCCATGTGAACGAGA
1 TTGGGCCTAATAGGCCATATGAACGAGA
10502348 TTGGGCCTAA
1 TTGGGCCTAA
10502358 AAGGGTCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAATAGGCCATATGAACGAGA
Found at i:10502703 original size:27 final size:27
Alignment explanation
Indices: 10502673--10503144 Score: 534
Period size: 27 Copynumber: 17.6 Consensus size: 27
10502663 TAACAAAGAG
* *
10502673 AAATTACCGAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
10502700 AAATTA-CTGAAATACCCTCGA-TTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
10502726 AAATTA-CTGAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
*
10502753 AAATTA-CTGAAA-ACCCTCGA-TTGTG
1 AAATTATC-GAAATACCCTCGATTTGTA
*
10502778 AAATTATCGAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
10502805 AAATTATCGAAATATCCC-CAATTTGTG
1 AAATTATCGAAATA-CCCTCGATTTGTA
* *
10502832 GAATTATCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
10502859 AAATTA-CTGAAATAACCC-CAATTTGTG
1 AAATTATC-GAAAT-ACCCTCGATTTGTA
*
10502886 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
10502913 AAATTATCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
10502940 AAATTATCGAAATATCCTCGATTTATA
1 AAATTATCGAAATACCCTCGATTTGTA
* * * *
10502967 AAATTATCAAAACACCC-CTAATTTGTG
1 AAATTATCGAAATACCCTC-GATTTGTA
* *
10502994 AAATTATCGAAACACCCTTGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
*
10503021 AAATTATCGAAACACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
10503048 AAATTATTGAAATGCCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
10503075 AAATTA-CTGAAATACCCTCGATTTGTA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * * *
10503102 AAATTACCGAAACACCCCCGACTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
10503129 AAATTATCGAAATACC
1 AAATTATCGAAATACC
10503145 TTTGTAGTGT
Statistics
Matches: 385, Mismatches: 45, Indels: 30
0.84 0.10 0.07
Matches are distributed among these distances:
25 14 0.04
26 51 0.13
27 311 0.81
28 9 0.02
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:10503155 original size:27 final size:27
Alignment explanation
Indices: 10503098--10503189 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
10503088 ACCCTCGATT
* * * *
10503098 TGTAAAATTACCGAAACACCCCCG-ACT
1 TGTAAAATGACCGAAATACCCCTGTA-G
* * **
10503125 TGTAAAATTATCGAAATACCTTTGTAG
1 TGTAAAATGACCGAAATACCCCTGTAG
*
10503152 TGTAAAATGACCGACATACCCCTGTAG
1 TGTAAAATGACCGAAATACCCCTGTAG
*
10503179 GGTAAAATGAC
1 TGTAAAATGAC
10503190 TGTTTTACCC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCCTGTAG
Found at i:10511955 original size:28 final size:28
Alignment explanation
Indices: 10511868--10511967 Score: 94
Period size: 28 Copynumber: 3.6 Consensus size: 28
10511858 TCGATGTTTC
* * * *
10511868 GCACACTATGTACCATACTCGATACCTC
1 GCACACTAAGTGCCATACTCGATACTTT
* * * * *
10511896 GCACGCTAAGTGCTATTCTGGAT-GTTT
1 GCACACTAAGTGCCATACTCGATACTTT
*
10511923 CGCACACTAAGTGCCATCCTCGATACTTT
1 -GCACACTAAGTGCCATACTCGATACTTT
10511952 GCACACTAAGTGCCAT
1 GCACACTAAGTGCCAT
10511968 TTATATATAT
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
27 1 0.02
28 52 0.93
29 3 0.05
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (28 bp):
GCACACTAAGTGCCATACTCGATACTTT
Found at i:10524834 original size:34 final size:34
Alignment explanation
Indices: 10524779--10524849 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
10524769 GTATGCATTT
10524779 CTGATACTGCCACTGTAATGGGCTAAGGCCCACA
1 CTGATACTGCCACTGTAATGGGCTAAGGCCCACA
* * * *
10524813 CTGATATTGCTACTG-ATATGGGCTTAGGCCCAGA
1 CTGATACTGCCACTGTA-ATGGGCTAAGGCCCACA
10524847 CTG
1 CTG
10524850 TTCAGCACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 1 0.03
34 31 0.97
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (34 bp):
CTGATACTGCCACTGTAATGGGCTAAGGCCCACA
Found at i:10534390 original size:13 final size:13
Alignment explanation
Indices: 10534372--10534397 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10534362 GCTGGAAAGT
10534372 GAAGATAATCATA
1 GAAGATAATCATA
10534385 GAAGATAATCATA
1 GAAGATAATCATA
10534398 AGATAGAGTT
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:0.08, G:0.15, T:0.23
Consensus pattern (13 bp):
GAAGATAATCATA
Found at i:10536052 original size:19 final size:18
Alignment explanation
Indices: 10536024--10536059 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
10536014 TGGCCCATTA
10536024 CAGTAACAGTAAACAGTG
1 CAGTAACAGTAAACAGTG
10536042 CAGTAAACAGTAAACAGT
1 CAGT-AACAGTAAACAGT
10536060 ATGCAAGCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAAACAGTG
Found at i:10536470 original size:27 final size:27
Alignment explanation
Indices: 10536422--10536508 Score: 138
Period size: 27 Copynumber: 3.2 Consensus size: 27
10536412 AGGGGCGTTT
* *
10536422 CAGTCATTTTACCTCATAAGGGCAAAA
1 CAGTCATTTTACCTCATGAGGGTAAAA
*
10536449 CAGTCATTTTACCTTATGAGGGTAAAA
1 CAGTCATTTTACCTCATGAGGGTAAAA
*
10536476 CAGTCATTTTACCTCATGGGGGTAAAA
1 CAGTCATTTTACCTCATGAGGGTAAAA
10536503 CAGTCA
1 CAGTCA
10536509 ATATGTGTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (27 bp):
CAGTCATTTTACCTCATGAGGGTAAAA
Found at i:10537455 original size:27 final size:27
Alignment explanation
Indices: 10537404--10537546 Score: 137
Period size: 27 Copynumber: 5.3 Consensus size: 27
10537394 AACACGTCAG
* *
10537404 GAAAGAAATTCCTTTGTGGCGAACTCT
1 GAAAGAAATGCCTTTGTGGCAAACTCT
* *
10537431 GAAGGACATGCCTTTGTGGCAAACTCT
1 GAAAGAAATGCCTTTGTGGCAAACTCT
* *
10537458 GAAAGAAATGCCTTTGTAGCGAACTCT
1 GAAAGAAATGCCTTTGTGGCAAACTCT
* * **
10537485 AAAAGAAATTCCTTTGTGGCAAGTTCT
1 GAAAGAAATGCCTTTGTGGCAAACTCT
* * *
10537512 -AAGAGAATTACCTTTGTGGCGAACTCT
1 GAA-AGAAATGCCTTTGTGGCAAACTCT
10537539 -AAATGAAA
1 GAAA-GAAA
10537547 GGCCATTGAG
Statistics
Matches: 94, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 3 0.03
27 91 0.97
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (27 bp):
GAAAGAAATGCCTTTGTGGCAAACTCT
Found at i:10537499 original size:54 final size:54
Alignment explanation
Indices: 10537404--10537546 Score: 171
Period size: 54 Copynumber: 2.6 Consensus size: 54
10537394 AACACGTCAG
* * * *
10537404 GAAAGAAATTCCTTTGTGGCGAACTCTGAAGGACATGCCTTTGTGGCAAACTCT
1 GAAAGAAATACCTTTGTGGCGAACTCTAAAAGAAATGCCTTTGTGGCAAACTCT
* * * **
10537458 GAAAGAAATGCCTTTGTAGCGAACTCTAAAAGAAATTCCTTTGTGGCAAGTTCT
1 GAAAGAAATACCTTTGTGGCGAACTCTAAAAGAAATGCCTTTGTGGCAAACTCT
* *
10537512 -AAGAGAATTACCTTTGTGGCGAACTCTAAATGAAA
1 GAA-AGAAATACCTTTGTGGCGAACTCTAAAAGAAA
10537547 GGCCATTGAG
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
53 2 0.03
54 74 0.97
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (54 bp):
GAAAGAAATACCTTTGTGGCGAACTCTAAAAGAAATGCCTTTGTGGCAAACTCT
Found at i:10537846 original size:34 final size:30
Alignment explanation
Indices: 10537766--10537829 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
10537756 AAGGTTAAAT
10537766 TATGAATGTTCGAAGAAGGCATTTGCCAAC
1 TATGAATGTTCGAAGAAGGCATTTGCCAAC
10537796 TATGAATGTTCGAAGAAGGCATTTGCCAAC
1 TATGAATGTTCGAAGAAGGCATTTGCCAAC
10537826 TATG
1 TATG
10537830 TATGAGTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (30 bp):
TATGAATGTTCGAAGAAGGCATTTGCCAAC
Found at i:10538479 original size:40 final size:40
Alignment explanation
Indices: 10538433--10538513 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
10538423 ATCAAGACTA
10538433 AGACTCTTTTCTTGATAAATTATTACTTCTAACCATATAT
1 AGACTCTTTTCTTGATAAATTATTACTTCTAACCATATAT
10538473 AGACTCTTTTCTTGATAAATTATTACTTCTAACCATATAT
1 AGACTCTTTTCTTGATAAATTATTACTTCTAACCATATAT
10538513 A
1 A
10538514 TTTTGGGGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.05, T:0.44
Consensus pattern (40 bp):
AGACTCTTTTCTTGATAAATTATTACTTCTAACCATATAT
Found at i:10538714 original size:18 final size:18
Alignment explanation
Indices: 10538691--10538738 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
10538681 TCAAAGTATT
10538691 ATTATTATTATTA-TCATC
1 ATTATTATTATTATTCA-C
10538709 ATTATTATTATTATTCAC
1 ATTATTATTATTATTCAC
*
10538727 ATTATTAATATT
1 ATTATTATTATT
10538739 TTTCTAGTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 25 0.89
19 3 0.11
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTATTATTATTATTCAC
Found at i:10538733 original size:3 final size:3
Alignment explanation
Indices: 10538687--10538723 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
10538677 CTTCTCAAAG
* *
10538687 TAT TAT TAT TAT TAT TAT CAT CAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10538724 CACATTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:10539605 original size:25 final size:25
Alignment explanation
Indices: 10539577--10539633 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
10539567 TAATATTTTG
*
10539577 AAAAATATATAAAATGT-AAATTTAT
1 AAAAATACATAAAAT-TAAAATTTAT
* *
10539602 AAAAATGCATACAATTAAAAATTTAT
1 AAAAATACATAAAATT-AAAATTTAT
10539628 AAAAAT
1 AAAAAT
10539634 CTTATAGTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 12 0.44
26 14 0.52
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (25 bp):
AAAAATACATAAAATTAAAATTTAT
Found at i:10540323 original size:16 final size:18
Alignment explanation
Indices: 10540288--10540325 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
10540278 ATTCATTTTT
10540288 ATATTCTATTATTGTTAA
1 ATATTCTATTATTGTTAA
*
10540306 ATATT-TATTCTT-TTAA
1 ATATTCTATTATTGTTAA
10540322 ATAT
1 ATAT
10540326 GCAATTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (18 bp):
ATATTCTATTATTGTTAA
Found at i:10540980 original size:7 final size:7
Alignment explanation
Indices: 10540945--10540987 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
10540935 GAGTTGCACC
*
10540945 ATATAAG
1 ATATATG
*
10540952 ATATATT
1 ATATATG
10540959 ATATA-G
1 ATATATG
10540965 ATATA-G
1 ATATATG
10540971 ATATATG
1 ATATATG
10540978 ATATATG
1 ATATATG
10540985 ATA
1 ATA
10540988 GTTATTTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
6 11 0.34
7 21 0.66
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.40
Consensus pattern (7 bp):
ATATATG
Found at i:10557560 original size:27 final size:27
Alignment explanation
Indices: 10557515--10557569 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
10557505 TAATTATATA
* *
10557515 TAATTTAAAAATTTTACAT-AAACTAT
1 TAATATAAAAATTTCACATCAAACTAT
10557541 TAATATAAATAATTTCACATCAAACTAT
1 TAATATAAA-AATTTCACATCAAACTAT
10557569 T
1 T
10557570 CAAGTAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.32
27 9 0.36
28 8 0.32
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (27 bp):
TAATATAAAAATTTCACATCAAACTAT
Found at i:10566010 original size:17 final size:18
Alignment explanation
Indices: 10565990--10566024 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10565980 AAGTGAATTG
10565990 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
10566007 AAATTGCAGAAATTAAAT
1 AAATTGCAGAAATTAAAT
10566025 GAGGAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.54, C:0.06, G:0.11, T:0.29
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:10566759 original size:10 final size:10
Alignment explanation
Indices: 10566740--10566799 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
10566730 TGAAATTCTA
10566740 AAAGATAAAT
1 AAAGATAAAT
10566750 ACAA-ATAAAT
1 A-AAGATAAAT
*
10566760 AAAGATAATT
1 AAAGATAAAT
10566770 AAAGATAAAT
1 AAAGATAAAT
10566780 AAAGATAAAT
1 AAAGATAAAT
10566790 GAAA-ATAAAT
1 -AAAGATAAAT
10566800 CCTAGAATTA
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:10567581 original size:96 final size:97
Alignment explanation
Indices: 10567456--10567637 Score: 285
Period size: 96 Copynumber: 1.9 Consensus size: 97
10567446 ATTTTTTTTA
* * * * ** *
10567456 TTTATTTTTACTTAGGTATATATTGAACCTTTTGACTTGAAGAGAGATGACAGCCAAGCACTCCA
1 TTTATTTTTACTTAAGAACATATTAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
10567521 CCCCGGTTACTCAGCCCAACATACTCCTAATT
66 CCCCGGTTACTCAGCCCAACATACTCCTAATT
10567553 TTTATTTTT-CTTAAGAACATATTAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
1 TTTATTTTTACTTAAGAACATATTAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
*
10567617 CCCCGGTTACTTAGCCCAACA
66 CCCCGGTTACTCAGCCCAACA
10567638 CATTCTTAGA
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 68 0.88
97 9 0.12
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATTAAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
CCCCGGTTACTCAGCCCAACATACTCCTAATT
Found at i:10570153 original size:3 final size:3
Alignment explanation
Indices: 10570139--10570187 Score: 54
Period size: 3 Copynumber: 17.7 Consensus size: 3
10570129 TGAATTAGTA
10570139 AAT AAT AA- AAT AAT -AT AAT AA- AAT AA- AAT AAAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
10570181 AA- AAT AA
1 AAT AAT AA
10570188 AAAAAAATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
2 10 0.25
3 27 0.68
4 3 0.08
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:10570158 original size:13 final size:13
Alignment explanation
Indices: 10570140--10570189 Score: 64
Period size: 13 Copynumber: 3.7 Consensus size: 13
10570130 GAATTAGTAA
10570140 ATAATAAAATAAT
1 ATAATAAAATAAT
*
10570153 ATAATAAAATAAA
1 ATAATAAAATAAT
10570166 ATAAATAATAATAAT
1 AT-AATAA-AATAAT
*
10570181 AAAATAAAA
1 ATAATAAAA
10570190 AAAAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 16 0.50
14 10 0.31
15 6 0.19
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
ATAATAAAATAAT
Found at i:10570165 original size:18 final size:17
Alignment explanation
Indices: 10570142--10570199 Score: 84
Period size: 18 Copynumber: 3.4 Consensus size: 17
10570132 ATTAGTAAAT
10570142 AATAAAATAATATAATAA
1 AATAAAATAA-ATAATAA
10570160 AATAAAATAAATAATAA
1 AATAAAATAAATAATAA
10570177 TAATAAAATAAA-AA-AA
1 -AATAAAATAAATAATAA
10570193 AATAAAA
1 AATAAAA
10570200 ATTGGGTTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.18
16 2 0.05
17 9 0.23
18 21 0.54
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AATAAAATAAATAATAA
Done.