Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 18 of 228
Found at i:6065622 original size:5 final size:5
Alignment explanation
Indices: 6065612--6065636 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
6065602 GATAGGAGCC
6065612 ACCCG ACCCG ACCCG ACCCG ACCCG
1 ACCCG ACCCG ACCCG ACCCG ACCCG
6065637 TTGACCGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.60, G:0.20, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:6070788 original size:3 final size:3
Alignment explanation
Indices: 6070780--6070827 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
6070770 AGGCAATTAT
6070780 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6070827 A
1 A
6070828 GAAACATATA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6070892 original size:3 final size:3
Alignment explanation
Indices: 6070886--6070931 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
6070876 GATGATGATG
6070886 ATA ATA ATA ATA ATA ATA ATA ATA A-A CATTA AT- ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA
6070930 AT
1 AT
6070932 GAGGAATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
2 5 0.13
3 31 0.82
4 1 0.03
5 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:6075290 original size:3 final size:3
Alignment explanation
Indices: 6075282--6075320 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
6075272 GAAGTCTAGA
6075282 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6075321 TAGTATCTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6090931 original size:29 final size:29
Alignment explanation
Indices: 6090898--6090958 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
6090888 TAATTGCACA
*
6090898 ATTACACTAATTATTACAACAT-TAGTAAT
1 ATTACACAAATTATTACAA-ATCTAGTAAT
*
6090927 ATTACACAAATTATTACAAATCTCGTAAT
1 ATTACACAAATTATTACAAATCTAGTAAT
6090956 ATT
1 ATT
6090959 TTGTGTAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (29 bp):
ATTACACAAATTATTACAAATCTAGTAAT
Found at i:6097133 original size:26 final size:25
Alignment explanation
Indices: 6097104--6097163 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
6097094 CAATTTTTTT
* *
6097104 AATAAATACCAAAAATTTATTTTAAA
1 AATAAAAAACAAAAA-TTATTTTAAA
*
6097130 AATAAAAAATAAAAATTATTTTAAA
1 AATAAAAAACAAAAATTATTTTAAA
*
6097155 ATTAAAAAA
1 AATAAAAAA
6097164 TTAAAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 18 0.60
26 12 0.40
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (25 bp):
AATAAAAAACAAAAATTATTTTAAA
Found at i:6097137 original size:20 final size:21
Alignment explanation
Indices: 6097095--6097139 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
6097085 CGGACTCACC
6097095 AATTTTTTTAATAAATACCAAA
1 AATTTTTTTAATAAATA-CAAA
6097117 AATTTATTTTAA-AAATA-AAA
1 AATTT-TTTTAATAAATACAAA
6097137 AAT
1 AAT
6097140 AAAAATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.27
22 10 0.45
23 6 0.27
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (21 bp):
AATTTTTTTAATAAATACAAA
Found at i:6097168 original size:26 final size:26
Alignment explanation
Indices: 6097114--6097170 Score: 89
Period size: 25 Copynumber: 2.2 Consensus size: 26
6097104 AATAAATACC
6097114 AAAAATTTATTTTAAAAATAAAAAAT
1 AAAAATTTATTTTAAAAATAAAAAAT
*
6097140 AAAAA-TTATTTTAAAATTAAAAAATT
1 AAAAATTTATTTTAAAAATAAAAAA-T
6097166 AAAAA
1 AAAAA
6097171 ATACTTATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 18 0.62
26 11 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (26 bp):
AAAAATTTATTTTAAAAATAAAAAAT
Found at i:6098057 original size:11 final size:11
Alignment explanation
Indices: 6098041--6098079 Score: 50
Period size: 9 Copynumber: 3.9 Consensus size: 11
6098031 ATTACTTGAA
6098041 TATAATATATT
1 TATAATATATT
6098052 TATAATA-ATT
1 TATAATATATT
6098062 TA-AATATA-T
1 TATAATATATT
6098071 TAT-ATATAT
1 TATAATATAT
6098080 AATTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
9 12 0.48
10 6 0.24
11 7 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATATATT
Found at i:6098819 original size:30 final size:29
Alignment explanation
Indices: 6098785--6098859 Score: 71
Period size: 30 Copynumber: 2.5 Consensus size: 29
6098775 TGTAATTAGT
*
6098785 AATTAATGTTAATATTATTGAA-TAAAATAA
1 AATT-ATGTTAAT-TAATTGAACTAAAATAA
* *
6098815 AATTATATTAATTAATTGAACTTAACATAA
1 AATTATGTTAATTAATTGAAC-TAAAATAA
*
6098845 AATTCATGTCAATTA
1 AATT-ATGTTAATTA
6098860 TAAGTGTGTG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
28 7 0.19
29 7 0.19
30 15 0.41
31 8 0.22
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (29 bp):
AATTATGTTAATTAATTGAACTAAAATAA
Found at i:6102349 original size:18 final size:18
Alignment explanation
Indices: 6102326--6102365 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
6102316 TATTTAATCT
6102326 TGAGTGTATTATTTTCTG
1 TGAGTGTATTATTTTCTG
6102344 TGAGTGTATTATTTTCTG
1 TGAGTGTATTATTTTCTG
6102362 TGAG
1 TGAG
6102366 AGACAAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.05, G:0.25, T:0.53
Consensus pattern (18 bp):
TGAGTGTATTATTTTCTG
Found at i:6108690 original size:36 final size:36
Alignment explanation
Indices: 6108621--6108693 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
6108611 TAGCAAAATA
* * *
6108621 AATAATAAAATAAAAGTCATACAATATGTAAATAAT
1 AATAATAAAATAAAAGTAATACAATAGGGAAATAAT
** *
6108657 AATAATAAAATAGTAGTAATATAATAGGGAAATAAT
1 AATAATAAAATAAAAGTAATACAATAGGGAAATAAT
6108693 A
1 A
6108694 GCAAAACAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.60, C:0.03, G:0.10, T:0.27
Consensus pattern (36 bp):
AATAATAAAATAAAAGTAATACAATAGGGAAATAAT
Found at i:6110294 original size:16 final size:18
Alignment explanation
Indices: 6110267--6110302 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
6110257 TCAAAATCGG
6110267 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
6110284 ATTGA-AAAATTAATTTA
1 ATTGAGAAAATTAATTTA
6110301 AT
1 AT
6110303 AAATAATGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:6110379 original size:45 final size:45
Alignment explanation
Indices: 6110307--6110399 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 45
6110297 TTTAATAAAT
* * * * *
6110307 AATGTCTATTTTGATAAATAGAGAAACATGCACTGGGTTAGATTG
1 AATGTCTATTTTGAGAAAAAGAAAAACATGCACTAGATTAGATTG
*
6110352 AATGTCTATTTTGAGAAAAAGAAAAACATGCACTAGATTATATTG
1 AATGTCTATTTTGAGAAAAAGAAAAACATGCACTAGATTAGATTG
6110397 AAT
1 AAT
6110400 TATAAAGTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (45 bp):
AATGTCTATTTTGAGAAAAAGAAAAACATGCACTAGATTAGATTG
Found at i:6112953 original size:21 final size:21
Alignment explanation
Indices: 6112927--6112982 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
6112917 GGTGAATCAT
* *
6112927 CTCTTATGAGCTTTTGTTCAG
1 CTCTTATGAGCTTCTGTTCAA
*
6112948 CTCTTACGAGCTTCTGTTCAA
1 CTCTTATGAGCTTCTGTTCAA
*
6112969 CTCTTATAAGCTTC
1 CTCTTATGAGCTTC
6112983 AGTTGGCATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.43
Consensus pattern (21 bp):
CTCTTATGAGCTTCTGTTCAA
Found at i:6117155 original size:77 final size:77
Alignment explanation
Indices: 6117027--6117176 Score: 232
Period size: 77 Copynumber: 1.9 Consensus size: 77
6117017 CATTCCCTAA
*
6117027 TTCCAACAAGGATTGTGTTCGGTTTAGTTGAAATTAGAGTCAAGTACAAATGTACAATGATATTA
1 TTCCAACAAGGATTGAGTTCGGTTTAGTTGAAATTAGAGTCAAGTACAAATGTACAATGATATTA
*
6117092 ACTAAAAGATAG
66 AATAAAAGATAG
* *
6117104 TTCCAACAAGGATTGAG-TCAGGTTT-GATTGAAATTAGAGTTAAGTAGAAATGTACAATGATAT
1 TTCCAACAAGGATTGAGTTC-GGTTTAG-TTGAAATTAGAGTCAAGTACAAATGTACAATGATAT
6117167 TAAATAAAAG
64 TAAATAAAAG
6117177 GGTAGGGTTG
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
76 3 0.04
77 64 0.96
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.31
Consensus pattern (77 bp):
TTCCAACAAGGATTGAGTTCGGTTTAGTTGAAATTAGAGTCAAGTACAAATGTACAATGATATTA
AATAAAAGATAG
Found at i:6118461 original size:27 final size:27
Alignment explanation
Indices: 6118434--6118514 Score: 92
Period size: 33 Copynumber: 2.8 Consensus size: 27
6118424 GAATATAAAG
6118434 GGGGTTGCT-AGTGCTGATTCCCTCAA
1 GGGGTTGCTAAGTGCTGATTCCCTCAA
*
6118460 GGGGTTGCTAAGTGCTGATTCCCCGAATCATT
1 GGGGTTGCTAAGTGCTGATT-CCC---TCA-A
6118492 GGTGGTTGCTAAGTGCTGATTCC
1 GG-GGTTGCTAAGTGCTGATTCC
6118515 ACCGTAACTT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
26 9 0.19
27 10 0.21
28 3 0.06
31 3 0.06
32 4 0.09
33 18 0.38
ACGTcount: A:0.16, C:0.21, G:0.31, T:0.32
Consensus pattern (27 bp):
GGGGTTGCTAAGTGCTGATTCCCTCAA
Found at i:6118504 original size:33 final size:33
Alignment explanation
Indices: 6118462--6118694 Score: 196
Period size: 33 Copynumber: 6.5 Consensus size: 33
6118452 TCCCTCAAGG
6118462 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* *
6118495 GGTTGCTAAGTGCTGATTCCACCGTAACTTGAATGTGAAAT
1 GGTTGCTAAGTGCTGATTCC-CCG-AA--T-CAT-TG--GT
* *
6118536 GGGTTGCTAAGTGCTGATTCTCCGAATCATTGGC
1 -GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
6118570 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* ** *
6118603 GGTTGCTAAGTGCTAATTCCACCCTATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGAATC-----AT-TG---GT
* * *
6118646 GGTTGCTAAGTGCTAATTCCCCGAATCACTAGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
6118679 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
6118695 ATCCACCAAG
Statistics
Matches: 163, Mismatches: 18, Indels: 38
0.74 0.08 0.17
Matches are distributed among these distances:
33 86 0.53
34 8 0.05
35 2 0.01
36 3 0.02
37 4 0.02
38 3 0.02
39 4 0.02
40 4 0.02
41 4 0.02
42 24 0.15
43 21 0.13
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:6118605 original size:108 final size:109
Alignment explanation
Indices: 6118462--6118694 Score: 378
Period size: 108 Copynumber: 2.1 Consensus size: 109
6118452 TCCCTCAAGG
* *
6118462 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAAC-TTG
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTAATTCCACCCTAACTTTG
* * * * *
6118526 AATGTGAAATGGGTTGCTAAGTGCTGATTCTCCGAATCATTGGC
66 AATGTGAAAGGGGTTGCTAAGTGCTAATTCCCCGAATCACTAGC
*
6118570 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTAATTCCACCCTATCTTTG
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTAATTCCACCCTAACTTTG
*
6118635 AATGTGAAAGGGGTTGCTAAGTGCTAATTCCCCGAATCACTAGT
66 AATGTGAAAGGGGTTGCTAAGTGCTAATTCCCCGAATCACTAGC
6118679 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
6118695 ATCCACCAAG
Statistics
Matches: 115, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
108 58 0.50
109 57 0.50
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (109 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTAATTCCACCCTAACTTTG
AATGTGAAAGGGGTTGCTAAGTGCTAATTCCCCGAATCACTAGC
Found at i:6123559 original size:140 final size:141
Alignment explanation
Indices: 6123255--6123677 Score: 794
Period size: 140 Copynumber: 3.0 Consensus size: 141
6123245 AAAACATAAA
* *
6123255 AACCACTTAAATCTGGTTTCATTATCATATAATCATTTGAAGCTCTTTTCTAAAAGACATACAAG
1 AACCACTTAAATCTGGTTTCATTGTCATATAAGCATTTGAAGCTCTTTTCTAAAAGACATACAAG
*
6123320 GCTTATCCTAGAAAGAATGAGTGAGAGTCTGGATTAAGAATTTTATCACATAGGATGAAGTTCAC
66 GCTTATCCAAGAAAGAATGAGTGAGAGTCTGGATTAAGAATTTTATCACATAGGATGAAGTTCAC
*
6123385 CAAGAGATCGT
131 CAAGAGATCAT
6123396 AACCACTTAAATCTGGTTTCATTGTCATATAAGCATTTGAAGCTCTTTTCTAAAAGACATACAAG
1 AACCACTTAAATCTGGTTTCATTGTCATATAAGCATTTGAAGCTCTTTTCTAAAAGACATACAAG
6123461 GCTTATCCAAGAAAGAAT-AGTGAGAGTCTGGATTAAGAATTTTATCACATAGGATGAAGTTCAC
66 GCTTATCCAAGAAAGAATGAGTGAGAGTCTGGATTAAGAATTTTATCACATAGGATGAAGTTCAC
*
6123525 CTAGAGATCAT
131 CAAGAGATCAT
6123536 AACCACTTAAATCTGGTTTCATTGTCATATAAGCATTTGAAGCTCTTTTCTAAAAGACATACAAG
1 AACCACTTAAATCTGGTTTCATTGTCATATAAGCATTTGAAGCTCTTTTCTAAAAGACATACAAG
6123601 GCTTATCCAAGAAAGAATGAGTGAGAGTCTGGATTAAGAATTTTATCACATAGGATGAAGTTCAC
66 GCTTATCCAAGAAAGAATGAGTGAGAGTCTGGATTAAGAATTTTATCACATAGGATGAAGTTCAC
6123666 CAAGAGATCAT
131 CAAGAGATCAT
6123677 A
1 A
6123678 TGGTTTTTAA
Statistics
Matches: 275, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
140 138 0.50
141 137 0.50
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (141 bp):
AACCACTTAAATCTGGTTTCATTGTCATATAAGCATTTGAAGCTCTTTTCTAAAAGACATACAAG
GCTTATCCAAGAAAGAATGAGTGAGAGTCTGGATTAAGAATTTTATCACATAGGATGAAGTTCAC
CAAGAGATCAT
Found at i:6125924 original size:62 final size:62
Alignment explanation
Indices: 6125827--6125950 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
6125817 AAACTGAGAT
6125827 AATTTAATAAAAATGAAGTTTCAACATATATTACATGTGAACCCTAGACTCCACAATTCACC
1 AATTTAATAAAAATGAAGTTTCAACATATATTACATGTGAACCCTAGACTCCACAATTCACC
6125889 AATTTAATAAAAATGAAGTTTCAACATATATTACATGTGAACCCTAGACTCCACAATTCACC
1 AATTTAATAAAAATGAAGTTTCAACATATATTACATGTGAACCCTAGACTCCACAATTCACC
6125951 GTGCCGTCCA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (62 bp):
AATTTAATAAAAATGAAGTTTCAACATATATTACATGTGAACCCTAGACTCCACAATTCACC
Found at i:6126389 original size:6 final size:6
Alignment explanation
Indices: 6126378--6126406 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
6126368 TTTCAGAAGT
6126378 TTGAAA TTGAAA TTGAAA TTGAAA TTGAA
1 TTGAAA TTGAAA TTGAAA TTGAAA TTGAA
6126407 GCAAAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.34
Consensus pattern (6 bp):
TTGAAA
Found at i:6139270 original size:22 final size:22
Alignment explanation
Indices: 6139242--6139288 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
6139232 TATGGTCACA
6139242 ATGCCCTGGCCACCTATAACCT
1 ATGCCCTGGCCACCTATAACCT
6139264 ATGCCCTGGCCACCTATAACCT
1 ATGCCCTGGCCACCTATAACCT
6139286 ATG
1 ATG
6139289 AGATGTCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.23, C:0.38, G:0.15, T:0.23
Consensus pattern (22 bp):
ATGCCCTGGCCACCTATAACCT
Found at i:6140881 original size:22 final size:23
Alignment explanation
Indices: 6140829--6140886 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
6140819 TTTAGAAAAT
*
6140829 TTATTTCTTATAAATAAATTATA
1 TTATTTTTTATAAATAAATTATA
** *
6140852 GCACTTTTTATAAATAAA-TATA
1 TTATTTTTTATAAATAAATTATA
6140874 TTATTTTTTATAA
1 TTATTTTTTATAA
6140887 TATATAGGCT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (23 bp):
TTATTTTTTATAAATAAATTATA
Found at i:6141087 original size:88 final size:88
Alignment explanation
Indices: 6140906--6141174 Score: 285
Period size: 87 Copynumber: 3.1 Consensus size: 88
6140896 TTAAGGGTGT
* * **
6140906 AAAAAGCCCTCAAACTTTTTC-AAAAAAGTAATTAAGCCCCTGCTTTTTTTTTTCTGTTCAATTG
1 AAAAAGCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTGC-TTTTTTTTAC-ACTCAATTG
* * *
6140970 GATACTTGAACTTTTAAAATGCATT
64 GGTACTTGAACTTTCAAAATGCATA
* * * * *
6140995 AAAAAGACCCTCAAACTTTTTCAAAAAAAGCAATTATGCCCCTAC-GTTTTTTGCACTCAGTTGG
1 AAAAAG-CCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTGCTTTTTTTTACACTCAATTGG
*
6141059 GTACTTGAAATTTCAAAATGCATA
65 GTACTTGAACTTTCAAAATGCATA
* ** * * *
6141083 AAAAAGGCCCTCTAA--TTTAAAAAAAAAGCAATTAAGTCCCTGCATTTTTTTACACTCAATTGA
1 AAAAA-GCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTGCTTTTTTTTACACTCAATTGG
* *
6141146 GTACTTGAACTATCAAAACGCATA
65 GTACTTGAACTTTCAAAATGCATA
6141170 AAAAA
1 AAAAA
6141175 AAGCTTTTTG
Statistics
Matches: 151, Mismatches: 25, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
86 23 0.15
87 41 0.27
88 39 0.26
89 14 0.09
90 15 0.10
91 19 0.13
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (88 bp):
AAAAAGCCCTCAAACTTTTTCAAAAAAAGCAATTAAGCCCCTGCTTTTTTTTACACTCAATTGGG
TACTTGAACTTTCAAAATGCATA
Found at i:6141379 original size:20 final size:19
Alignment explanation
Indices: 6141335--6141379 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
6141325 AAATTTATTA
6141335 AAAATTAGAAAAAAAACGT
1 AAAATTAGAAAAAAAACGT
* *
6141354 AGAATTAGAAAAAAAATTGT
1 AAAATTAGAAAAAAAA-CGT
6141374 AAAATT
1 AAAATT
6141380 TTATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.64, C:0.02, G:0.11, T:0.22
Consensus pattern (19 bp):
AAAATTAGAAAAAAAACGT
Found at i:6141395 original size:19 final size:19
Alignment explanation
Indices: 6141380--6141418 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6141370 TTGTAAAATT
6141380 TTATAAAAAT-CATAAAAAA
1 TTAT-AAAATGCATAAAAAA
6141399 TTATAAAATGCATAAAAAA
1 TTATAAAATGCATAAAAAA
6141418 T
1 T
6141419 GCCCTTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (19 bp):
TTATAAAATGCATAAAAAA
Found at i:6141683 original size:18 final size:18
Alignment explanation
Indices: 6141590--6141699 Score: 73
Period size: 18 Copynumber: 5.9 Consensus size: 18
6141580 TTGGTACGAT
* *
6141590 AATTCTTATAATTTTTAGG
1 AATTTTTATAATTTTTA-C
*
6141609 AA-TTTTATATTTCTTTA-
1 AATTTTTATAATT-TTTAC
* *
6141626 ATTTTTTAATAATTTTTTC
1 AATTTTT-ATAATTTTTAC
*
6141645 ATGATTTTTATAAAATTTTAC
1 A--ATTTTTAT-AATTTTTAC
6141666 AATTGTTTAT-ATTTTTAC
1 AATT-TTTATAATTTTTAC
*
6141684 GATTTTTATAATTTTT
1 AATTTTTATAATTTTT
6141700 TTTTCTAATT
Statistics
Matches: 72, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
17 6 0.08
18 31 0.43
19 15 0.21
20 7 0.10
21 13 0.18
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (18 bp):
AATTTTTATAATTTTTAC
Found at i:6141697 original size:9 final size:9
Alignment explanation
Indices: 6141588--6141699 Score: 61
Period size: 9 Copynumber: 12.0 Consensus size: 9
6141578 TATTGGTACG
*
6141588 ATAATTCTT
1 ATAATTTTT
6141597 ATAATTTTT
1 ATAATTTTT
*
6141606 AGGAA-TTTT
1 A-TAATTTTT
6141615 AT-ATTTCTT
1 ATAATTT-TT
6141624 -TAATTTTTT
1 ATAA-TTTTT
6141633 AATAATTTTTT
1 -ATAA-TTTTT
*
6141644 CATGATTTTT
1 -ATAATTTTT
*
6141654 ATAAAATTTT
1 AT-AATTTTT
*
6141664 ACAATTGTTT
1 ATAATT-TTT
6141674 AT-ATTTTT
1 ATAATTTTT
**
6141682 ACGATTTTT
1 ATAATTTTT
6141691 ATAATTTTT
1 ATAATTTTT
6141700 TTTTCTAATT
Statistics
Matches: 80, Mismatches: 13, Indels: 20
0.71 0.12 0.18
Matches are distributed among these distances:
7 1 0.01
8 7 0.09
9 40 0.50
10 20 0.25
11 12 0.15
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.61
Consensus pattern (9 bp):
ATAATTTTT
Found at i:6142016 original size:88 final size:89
Alignment explanation
Indices: 6141880--6142042 Score: 222
Period size: 88 Copynumber: 1.8 Consensus size: 89
6141870 TGGTCAAAGG
* * *
6141880 GCATTTTTGATGCATTTTGGCATATCAAGTACCCAATTGAGGGGAAAAAAACAG-GGGCTTAATT
1 GCATTTTTGATGCATTTTGGCATATAAAGTACCCAATTGAGGGAAAAAAAACAGAGCGCTTAATT
*
6141944 GTTTTTTTTTTTTTAAGTTTGAGA
66 GGTTTTTTTTTTTTAAGTTTGAGA
* ** *
6141968 GCATTTTTTATGCATTTTGGCAGT-TAAAGTACCCAATTGAGTTAAAAAAAAGAGCAGCGCTTAA
1 GCATTTTTGATGCATTTTGGCA-TATAAAGTACCCAATTGAGGGAAAAAAAACAG-AGCGCTTAA
6142032 TTGGTTTTTTT
64 TTGGTTTTTTT
6142043 GAAAAAGTTG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
88 46 0.72
89 1 0.02
90 17 0.27
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.39
Consensus pattern (89 bp):
GCATTTTTGATGCATTTTGGCATATAAAGTACCCAATTGAGGGAAAAAAAACAGAGCGCTTAATT
GGTTTTTTTTTTTTAAGTTTGAGA
Found at i:6142410 original size:20 final size:20
Alignment explanation
Indices: 6142377--6142414 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6142367 ACGGTATAGT
6142377 TAATGGTTGATTAATTAAAC
1 TAATGGTTGATTAATTAAAC
6142397 TAAT-GTTGATTTAATTAA
1 TAATGGTTGA-TTAATTAA
6142415 CAAAAACCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TAATGGTTGATTAATTAAAC
Found at i:6148315 original size:17 final size:16
Alignment explanation
Indices: 6148276--6148318 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
6148266 CCAAAAATAA
*
6148276 AATATAAAAAATTATG
1 AATATAAAAAAATATG
*
6148292 -TTATAAAAATAATATG
1 AATATAAAAA-AATATG
6148308 AATATAAAAAA
1 AATATAAAAAA
6148319 CTACTAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
15 8 0.36
16 6 0.27
17 8 0.36
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (16 bp):
AATATAAAAAAATATG
Found at i:6153456 original size:10 final size:8
Alignment explanation
Indices: 6153426--6153459 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
6153416 ATTTAGTATC
6153426 TTAAAAAT
1 TTAAAAAT
6153434 TTAAAAAT
1 TTAAAAAT
6153442 TTAAAAACTT
1 TTAAAAA--T
6153452 TTAAAAAT
1 TTAAAAAT
6153460 AAAAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 16 0.67
10 8 0.33
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (8 bp):
TTAAAAAT
Found at i:6154175 original size:14 final size:14
Alignment explanation
Indices: 6154156--6154202 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 14
6154146 TCATTATCTT
6154156 AAAACTAAAATATA
1 AAAACTAAAATATA
6154170 AAAACT-AAAT-TA
1 AAAACTAAAATATA
6154182 AAAA--AAAATATA
1 AAAACTAAAATATA
*
6154194 AAGACTAAA
1 AAAACTAAA
6154203 TCTTAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
11 4 0.14
12 11 0.39
13 4 0.14
14 9 0.32
ACGTcount: A:0.72, C:0.06, G:0.02, T:0.19
Consensus pattern (14 bp):
AAAACTAAAATATA
Found at i:6154551 original size:7 final size:7
Alignment explanation
Indices: 6154517--6154541 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6154507 AATTAACCGA
6154517 AATAAAT
1 AATAAAT
6154524 AATAAAT
1 AATAAAT
6154531 AATAAAT
1 AATAAAT
6154538 AATA
1 AATA
6154542 TATATAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AATAAAT
Found at i:6162573 original size:13 final size:13
Alignment explanation
Indices: 6162557--6162582 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6162547 CTTTGCATAT
6162557 TGTCTTCAACAGG
1 TGTCTTCAACAGG
6162570 TGTCTTCAACAGG
1 TGTCTTCAACAGG
6162583 CTCGCACTTT
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:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:6165106 original size:6 final size:6
Alignment explanation
Indices: 6165065--6165103 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
6165055 TTTTGCGTGC
* *
6165065 AAAAC- AAAACG AAAACG AAAACG AAAATG AAAATG AAAA
1 AAAACG AAAACG AAAACG AAAACG AAAACG AAAACG AAAA
6165104 TGACGTGGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.72, C:0.10, G:0.13, T:0.05
Consensus pattern (6 bp):
AAAACG
Found at i:6168934 original size:27 final size:27
Alignment explanation
Indices: 6168893--6168946 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
6168883 AATGAAGGTG
*
6168893 TTAGAATATAGACATCTACATTTATAT
1 TTAGAATATAAACATCTACATTTATAT
6168920 TTAGAATATAAACATCTACATTTATAT
1 TTAGAATATAAACATCTACATTTATAT
6168947 GTTTGTAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.41
Consensus pattern (27 bp):
TTAGAATATAAACATCTACATTTATAT
Found at i:6169847 original size:11 final size:11
Alignment explanation
Indices: 6169833--6169875 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
6169823 AGTTAAATAT
6169833 TATTTTATTAA
1 TATTTTATTAA
6169844 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
6169857 TA-TTTATTAG
1 TATTTTATTAA
6169867 TATTTTATT
1 TATTTTATT
6169876 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:6169862 original size:23 final size:23
Alignment explanation
Indices: 6169836--6169879 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
6169826 TAAATATTAT
6169836 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
6169859 TTTATTAGTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
6169880 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:6172003 original size:31 final size:32
Alignment explanation
Indices: 6171967--6172031 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
6171957 CTTAGATAAT
* *
6171967 TTTAAAGAG-TTTTATTAGTATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATCACTC
6171998 TTTAAAGAGTTTTTATTAGGATTCAATCACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATCACTC
6172030 TT
1 TT
6172032 GTAATTTTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 9 0.29
32 22 0.71
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATCACTC
Found at i:6172604 original size:9 final size:9
Alignment explanation
Indices: 6172571--6172632 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 9
6172561 TTCTTTAAAT
6172571 AAAAGCAAA
1 AAAAGCAAA
6172580 AAAA--AAA
1 AAAAGCAAA
6172587 AAATA--AAA
1 AAA-AGCAAA
*
6172595 AATAGCAAA
1 AAAAGCAAA
*
6172604 AACAGCAAAA
1 AAAAGC-AAA
6172614 AAAAGCAAA
1 AAAAGCAAA
*
6172623 AAACGCAAA
1 AAAAGCAAA
6172632 A
1 A
6172633 GAAAAAAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
7 7 0.16
8 6 0.13
9 24 0.53
10 8 0.18
ACGTcount: A:0.77, C:0.11, G:0.08, T:0.03
Consensus pattern (9 bp):
AAAAGCAAA
Found at i:6172661 original size:23 final size:24
Alignment explanation
Indices: 6172571--6172673 Score: 77
Period size: 23 Copynumber: 4.2 Consensus size: 24
6172561 TTCTTTAAAT
**
6172571 AAAAGCAAAA-AAAAAAAAATAAA
1 AAAAGCAAAAGAAAAAAAAGCAAA
6172594 AAATAGCAAAAACAGCAAAAAAAAGCAAA
1 AAA-AGC--AAA-AG-AAAAAAAAGCAAA
*
6172623 AAACGCAAAAGAAAAAAAAG-AAA
1 AAAAGCAAAAGAAAAAAAAGCAAA
* **
6172646 AAAAG-AAGAAGCAAAAAGCGCAAA
1 AAAAGCAA-AAGAAAAAAAAGCAAA
6172670 AAAA
1 AAAA
6172674 AAGTTGCCTA
Statistics
Matches: 65, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
22 2 0.03
23 19 0.29
24 19 0.29
25 2 0.03
26 6 0.09
27 1 0.02
28 2 0.03
29 14 0.22
ACGTcount: A:0.77, C:0.10, G:0.12, T:0.02
Consensus pattern (24 bp):
AAAAGCAAAAGAAAAAAAAGCAAA
Found at i:6175851 original size:31 final size:32
Alignment explanation
Indices: 6175815--6175879 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
6175805 CTTAGATAAT
*
6175815 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATCACTC
6175846 TTTAAAGAGTTTTTATTAGGATTCAATCACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATCACTC
6175878 TT
1 TT
6175880 GTAATTTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATCACTC
Found at i:6179549 original size:17 final size:18
Alignment explanation
Indices: 6179516--6179551 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6179506 AACTTGATGA
6179516 AAAACATATAGTCTTTCC
1 AAAACATATAGTCTTTCC
*
6179534 AAAACATAT-TTCTTTCC
1 AAAACATATAGTCTTTCC
6179551 A
1 A
6179552 CATTCAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (18 bp):
AAAACATATAGTCTTTCC
Found at i:6182071 original size:124 final size:124
Alignment explanation
Indices: 6181851--6182098 Score: 496
Period size: 124 Copynumber: 2.0 Consensus size: 124
6181841 GGTATGTATT
6181851 TAATATGTATATATTAAAATTTAAAAATATTTTTGAAAGATTATATTTTTATACCATCATGCTTT
1 TAATATGTATATATTAAAATTTAAAAATATTTTTGAAAGATTATATTTTTATACCATCATGCTTT
6181916 CTTCGAATACATATAGTATTCAAGTGGAAGCAATCTACTAAGCTAAAGCGGTCAAAAAA
66 CTTCGAATACATATAGTATTCAAGTGGAAGCAATCTACTAAGCTAAAGCGGTCAAAAAA
6181975 TAATATGTATATATTAAAATTTAAAAATATTTTTGAAAGATTATATTTTTATACCATCATGCTTT
1 TAATATGTATATATTAAAATTTAAAAATATTTTTGAAAGATTATATTTTTATACCATCATGCTTT
6182040 CTTCGAATACATATAGTATTCAAGTGGAAGCAATCTACTAAGCTAAAGCGGTCAAAAAA
66 CTTCGAATACATATAGTATTCAAGTGGAAGCAATCTACTAAGCTAAAGCGGTCAAAAAA
6182099 ACAACCAACG
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 124 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (124 bp):
TAATATGTATATATTAAAATTTAAAAATATTTTTGAAAGATTATATTTTTATACCATCATGCTTT
CTTCGAATACATATAGTATTCAAGTGGAAGCAATCTACTAAGCTAAAGCGGTCAAAAAA
Found at i:6193304 original size:11 final size:11
Alignment explanation
Indices: 6193290--6193314 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6193280 ATATTCAGCC
6193290 AATATTAAAAT
1 AATATTAAAAT
6193301 AATATTAAAAT
1 AATATTAAAAT
6193312 AAT
1 AAT
6193315 GAATTAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATTAAAAT
Found at i:6195771 original size:17 final size:17
Alignment explanation
Indices: 6195749--6195781 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6195739 TAGAATGAGG
*
6195749 TTGAGAAAATGATTTAA
1 TTGAGAAAATAATTTAA
6195766 TTGAGAAAATAATTTA
1 TTGAGAAAATAATTTA
6195782 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
TTGAGAAAATAATTTAA
Found at i:6200716 original size:33 final size:33
Alignment explanation
Indices: 6200678--6200752 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
6200668 CTACTGTTAA
6200678 CCCTCCACCAGCACTGGTGCCGCCAATCGCCAG
1 CCCTCCACCAGCACTGGTGCCGCCAATCGCCAG
* * * * *
6200711 TCCTCCATCAGCATTGGTGCCGCCTATCGTCAG
1 CCCTCCACCAGCACTGGTGCCGCCAATCGCCAG
6200744 CCCTCCACC
1 CCCTCCACC
6200753 CCACCTGAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.16, C:0.47, G:0.19, T:0.19
Consensus pattern (33 bp):
CCCTCCACCAGCACTGGTGCCGCCAATCGCCAG
Found at i:6201889 original size:6 final size:6
Alignment explanation
Indices: 6201875--6201914 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
6201865 GTGGGTGAAC
*
6201875 GGTGGT GGTGAT GGTGAT GGTGAT GGTGAT GGTGAT GGTG
1 GGTGAT GGTGAT GGTGAT GGTGAT GGTGAT GGTGAT GGTG
6201915 CTAGGAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.12, C:0.00, G:0.55, T:0.33
Consensus pattern (6 bp):
GGTGAT
Found at i:6202493 original size:19 final size:18
Alignment explanation
Indices: 6202471--6202522 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 18
6202461 TTCATTATTC
6202471 AAATTATTAAATATAATTA
1 AAATTATTAAA-ATAATTA
* *
6202490 AAATATACTAAAATATTTA
1 AAAT-TATTAAAATAATTA
6202509 AAA--ATTAAAATAAT
1 AAATTATTAAAATAAT
6202523 ATTATAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 9 0.32
19 13 0.46
20 6 0.21
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTATTAAAATAATTA
Found at i:6202693 original size:34 final size:34
Alignment explanation
Indices: 6202640--6202705 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
6202630 AAATACTAAT
* *
6202640 ATGTTTAAAATTTTCATCTTAATCTTTTACTTAA
1 ATGTTTAAAATTTTCATCTTAATATTCTACTTAA
* *
6202674 ATGTTTAAATTTTTTATCTTAATATTCTACTT
1 ATGTTTAAAATTTTCATCTTAATATTCTACTT
6202706 CAATCCATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.30, C:0.11, G:0.03, T:0.56
Consensus pattern (34 bp):
ATGTTTAAAATTTTCATCTTAATATTCTACTTAA
Found at i:6210171 original size:22 final size:22
Alignment explanation
Indices: 6210146--6210205 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
6210136 ACATATGTAT
* * *
6210146 ATATATTTATATTTTTTTATGA
1 ATATTTTTATATTTTTTAATAA
6210168 ATATTTTTCTATATTTTTTAATAA
1 ATA-TTTT-TATATTTTTTAATAA
*
6210192 ATATTTTTGTATTT
1 ATATTTTTATATTT
6210206 ATACATATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 9 0.28
23 7 0.22
24 16 0.50
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.65
Consensus pattern (22 bp):
ATATTTTTATATTTTTTAATAA
Found at i:6210171 original size:24 final size:24
Alignment explanation
Indices: 6210139--6210196 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
6210129 TTTATCTACA
*
6210139 TATGTATATATATT-TATATTTTTT
1 TATGAATAT-TATTCTATATTTTTT
*
6210163 TATGAATATTTTTCTATATTTTTT
1 TATGAATATTATTCTATATTTTTT
* *
6210187 AATAAATATT
1 TATGAATATT
6210197 TTTGTATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (24 bp):
TATGAATATTATTCTATATTTTTT
Found at i:6210197 original size:24 final size:24
Alignment explanation
Indices: 6210153--6210199 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
6210143 TATATATATT
* *
6210153 TATATTTTTTTATGAATATTTTTC
1 TATATTTTTTAATAAATATTTTTC
6210177 TATATTTTTTAATAAATATTTTT
1 TATATTTTTTAATAAATATTTTT
6210200 GTATTTATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (24 bp):
TATATTTTTTAATAAATATTTTTC
Found at i:6210597 original size:15 final size:15
Alignment explanation
Indices: 6210574--6210608 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
6210564 TTTTTATGCC
*
6210574 ATTGATGTATTTATT
1 ATTGTTGTATTTATT
6210589 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
6210604 ATTGT
1 ATTGT
6210609 AGCATTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.14, T:0.63
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:6210615 original size:15 final size:15
Alignment explanation
Indices: 6210582--6210615 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6210572 CCATTGATGT
* *
6210582 ATTTATTATTGTTGT
1 ATTTATTATTGTAGC
6210597 ATTTATTATTGTAGC
1 ATTTATTATTGTAGC
6210612 ATTT
1 ATTT
6210616 GTACATACAA
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:0.03, G:0.12, T:0.62
Consensus pattern (15 bp):
ATTTATTATTGTAGC
Found at i:6222592 original size:131 final size:131
Alignment explanation
Indices: 6222307--6222933 Score: 1017
Period size: 131 Copynumber: 4.8 Consensus size: 131
6222297 AAAAAATAGC
* *
6222307 AGATCTTGTCTTCATGTATTGGAGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
*
6222372 GTAGGAAGTGGATCGAAGA-TGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
66 GTAGGAAGTGGATCGAAGACT--AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAA
*
6222436 AGC
129 AGT
*
6222439 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTTTCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
*
6222504 GTAGGAAGTGGATCGAAGACTAGATCTTGTCTTCCCATATTGGTGGCGCAGTAGATCGAAGAAAG
66 GTAGGAAGTGGATCGAAGACTAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAG
6222569 T
131 T
6222570 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
* * *
6222635 GTAGGAAGCGGATCGAAGACTAGATCTTGTCTTCCCATATTAGTGGCGAAGTAAATCGAAGAAAG
66 GTAGGAAGTGGATCGAAGACTAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAG
*
6222700 G
131 T
* *
6222701 AGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
* * *
6222766 GTAGGAAATTGATTGAAGA-TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAA
66 GTAGGAAGTGGATCGAAGACT--AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAA
6222830 AGT
129 AGT
* *
6222833 TGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAAATCCTGTCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
*
6222898 GTAGGAAGTGGATCGAAGAAGC-AGATCTTGCCTTCC
66 GTAGGAAGTGGATCGAAG-A-CTAGATCTTGTCTTCC
6222934 TGCACCGACA
Statistics
Matches: 460, Mismatches: 29, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
130 1 0.00
131 245 0.53
132 212 0.46
133 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (131 bp):
AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
GTAGGAAGTGGATCGAAGACTAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAG
T
Found at i:6222794 original size:263 final size:262
Alignment explanation
Indices: 6222307--6222933 Score: 1035
Period size: 263 Copynumber: 2.4 Consensus size: 262
6222297 AAAAAATAGC
* *
6222307 AGATCTTGTCTTCATGTATTGGAGTGAAGTAGATCGAAGATAACAGATCCTGTCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
* *
6222372 GTAGGAAGTGGATCGAAGA-TGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAA
66 GTAGGAAGTGGATCGAAGACT--AGATCTTGTCTTCCCATACTAGTGGCGAAGTAAATCGAAGAA
*
6222436 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTTTCTTCCTATA
129 AGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATA
* *
6222501 TTGGTAGGAAGTGGATCGAAGACTAGATCTTGTCTTCCCATATTGGTGGCGCAGTAGATCGAAGA
194 TTGGTAGGAAATGGATCGAAGACTAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGA
6222566 AAGT
259 AAGT
6222570 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
* *
6222635 GTAGGAAGCGGATCGAAGACTAGATCTTGTCTTCCCATATTAGTGGCGAAGTAAATCGAAGAAAG
66 GTAGGAAGTGGATCGAAGACTAGATCTTGTCTTCCCATACTAGTGGCGAAGTAAATCGAAGAAAG
* *
6222700 GAGATCTTGTCTTCATGTATTGGTGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATT
131 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATT
* *
6222765 GGTAGGAAATTGATTGAAGA-TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGA
196 GGTAGGAAATGGATCGAAGACT--AGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGA
6222829 AAGT
259 AAGT
* *
6222833 TGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAAATCCTGTCTTCCTATATTG
1 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
*
6222898 GTAGGAAGTGGATCGAAGAAGC-AGATCTTGCCTTCC
66 GTAGGAAGTGGATCGAAG-A-CTAGATCTTGTCTTCC
6222934 TGCACCGACA
Statistics
Matches: 342, Mismatches: 17, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
261 1 0.00
262 120 0.35
263 205 0.60
264 15 0.04
265 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (262 bp):
AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTG
GTAGGAAGTGGATCGAAGACTAGATCTTGTCTTCCCATACTAGTGGCGAAGTAAATCGAAGAAAG
CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATT
GGTAGGAAATGGATCGAAGACTAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAA
GT
Found at i:6223431 original size:45 final size:44
Alignment explanation
Indices: 6223310--6223581 Score: 143
Period size: 44 Copynumber: 6.2 Consensus size: 44
6223300 TATCACATCT
* * *
6223310 AGTCTTATCTCCCTGAAGTTGCAGTGCAGCAGACTAAGTAAGCA
1 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAGTAAGCA
* * *
6223354 AGTTTTATC-CTCCTGAAGTTGCAAT-GAGGCAGATTGAAG-ATGGCGA
1 AGTCTTATCTCT-CTGAAGTTGCAGTGGA-GCAGATT-AAGTA-AGC-A
* *
6223400 A-TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-TA
1 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AAG-TAAGCA
* * * ** *
6223444 A-TCCTATCTCACTAAAGTTGCAGTGGAGTGGATTAA--AACCA
1 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAGTAAGCA
* * * ** * * *
6223485 CAGATCTTATCTTTCTGAAGGTGCAGTAGAATAGA-TCA-T-ATCG
1 -AG-TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAGTAAGCA
* * * *
6223528 GGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
1 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TTAAGTAAGCA
6223573 AGTCTTATC
1 AGTCTTATC
6223582 CCCTTGAAAT
Statistics
Matches: 169, Mismatches: 41, Indels: 35
0.69 0.17 0.14
Matches are distributed among these distances:
40 2 0.01
41 26 0.15
42 2 0.01
43 9 0.05
44 80 0.47
45 43 0.25
46 6 0.04
47 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAGTAAGCA
Found at i:6223510 original size:44 final size:44
Alignment explanation
Indices: 6223206--6223511 Score: 141
Period size: 44 Copynumber: 7.0 Consensus size: 44
6223196 GACGGTGTAA
* * * * *
6223206 TGGAGCAGATTAAAGCCAATAATCCTATATCCCTGAAGTTGTAG
1 TGGAGCAGATTAAAACCAATAATCTTATCTCTCTGAAGTTGCAG
* * *
6223250 TGGAGC-GAATTAAAATCACA-GATCTTATCTTTCTGAAGTTGCAG
1 TGGAGCAG-ATTAAAACCA-ATAATCTTATCTCTCTGAAGTTGCAG
* * * * * * *
6223294 -AGAGCATA-TCACATC--TAGTCTTATCTCCCTGAAGTTGCAG
1 TGGAGCAGATTAAAACCAATAATCTTATCTCTCTGAAGTTGCAG
* * * *
6223334 TGCAGCAGACTAAGTAAGCAAGT--T-TTATC-CTCCTGAAGTTGCAA
1 TGGAGCAGATTAA--AACCAA-TAATCTTATCTCT-CTGAAGTTGCAG
* *****
6223378 T-GAGGCAGATTGAAGATGGCGAATCTTATCTCTCTGAAGTTGCAG
1 TGGA-GCAGATT-AAAACCAATAATCTTATCTCTCTGAAGTTGCAG
* * * *
6223423 TGGAGCAGATTAAAGCCAATAATCCTATCTCACTAAAGTTGCAG
1 TGGAGCAGATTAAAACCAATAATCTTATCTCTCTGAAGTTGCAG
** * * *
6223467 TGGAGTGGATTAAAACCACA-GATCTTATCTTTCTGAAGGTGCAG
1 TGGAGCAGATTAAAACCA-ATAATCTTATCTCTCTGAAGTTGCAG
6223511 T
1 T
6223512 AGAATAGATC
Statistics
Matches: 190, Mismatches: 52, Indels: 40
0.67 0.18 0.14
Matches are distributed among these distances:
40 20 0.11
41 5 0.03
42 7 0.04
43 9 0.05
44 115 0.61
45 29 0.15
46 4 0.02
47 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
TGGAGCAGATTAAAACCAATAATCTTATCTCTCTGAAGTTGCAG
Found at i:6223595 original size:45 final size:45
Alignment explanation
Indices: 6223529--6223642 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 45
6223519 ATCATATCGG
* *
6223529 GTCTTATCTCCCTGAAGTTGCAGT-GGAGCAGACTCAAGAAAGCAA
1 GTCTTATCTCCCTGAAATTGCAGTAGG-GCAGACCCAAGAAAGCAA
*
6223574 GTCTTATC-CCCTTGAAATTGCAGTAGGGCAGACCCAAGAAATCAA
1 GTCTTATCTCCC-TGAAATTGCAGTAGGGCAGACCCAAGAAAGCAA
* * * * *
6223619 ATCCTACCTCCCTGACATTACAGT
1 GTCTTATCTCCCTGAAATTGCAGT
6223643 GGAGTAGATT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
44 3 0.05
45 50 0.86
46 5 0.09
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (45 bp):
GTCTTATCTCCCTGAAATTGCAGTAGGGCAGACCCAAGAAAGCAA
Found at i:6225176 original size:24 final size:24
Alignment explanation
Indices: 6225133--6225179 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
6225123 TATATATATT
* * *
6225133 TATATTTTTTTATGACTATTTTTC
1 TATATTTTTTAATAAATATTTTTC
6225157 TATATTTTTTAATAAATATTTTT
1 TATATTTTTTAATAAATATTTTT
6225180 GTATTTATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (24 bp):
TATATTTTTTAATAAATATTTTTC
Found at i:6225582 original size:15 final size:15
Alignment explanation
Indices: 6225559--6225600 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
6225549 TTTTTATGTC
*
6225559 ATTGATGTATTTATT
1 ATTGTTGTATTTATT
6225574 ATTGTTGTATTTATT
1 ATTGTTGTATTTATT
*
6225589 ATTGTAGTATTT
1 ATTGTTGTATTT
6225601 GTACATACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (15 bp):
ATTGTTGTATTTATT
Found at i:6229067 original size:13 final size:13
Alignment explanation
Indices: 6229049--6229074 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6229039 ATAAAATAAG
6229049 AAAGTGATTTGAA
1 AAAGTGATTTGAA
6229062 AAAGTGATTTGAA
1 AAAGTGATTTGAA
6229075 TTTTGTAAAC
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:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
AAAGTGATTTGAA
Found at i:6234041 original size:5 final size:5
Alignment explanation
Indices: 6234027--6234062 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
6234017 GATTCATTTG
6234027 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TATTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT T
6234063 GTTTTTTACA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 21 0.70
6 5 0.17
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:6234068 original size:15 final size:15
Alignment explanation
Indices: 6234027--6234070 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
6234017 GATTCATTTG
6234027 TTTATT-TATTTTAT
1 TTTATTGTATTTTAT
*
6234041 TTTATTTTATTTTAT
1 TTTATTGTATTTTAT
*
6234056 TATTATTGTTTTTTA
1 T-TTATTGTATTTTA
6234071 CAAATCGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 6 0.23
15 9 0.35
16 11 0.42
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTATTGTATTTTAT
Found at i:6239319 original size:11 final size:11
Alignment explanation
Indices: 6239303--6239327 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6239293 TTTTTATTTT
6239303 TTTATTTATTG
1 TTTATTTATTG
6239314 TTTATTTATTG
1 TTTATTTATTG
6239325 TTT
1 TTT
6239328 CTATTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTATTTATTG
Found at i:6246356 original size:20 final size:20
Alignment explanation
Indices: 6246312--6246359 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
6246302 TTATTTCCAG
*
6246312 CAGACCC-AAAACCTAACAC
1 CAGACCCAAAAAACTAACAC
6246331 CA-ACCCAAAAAACTAA-ACC
1 CAGACCCAAAAAACTAACA-C
6246350 CAGACCCAAA
1 CAGACCCAAA
6246360 TGGCCCATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.20
19 13 0.52
20 7 0.28
ACGTcount: A:0.52, C:0.40, G:0.04, T:0.04
Consensus pattern (20 bp):
CAGACCCAAAAAACTAACAC
Found at i:6247508 original size:22 final size:22
Alignment explanation
Indices: 6247483--6247525 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6247473 GCAATTTTAT
*
6247483 ATTATTATTATTATTATATATC
1 ATTATTATTATCATTATATATC
*
6247505 ATTATTATTCTCATTATATAT
1 ATTATTATTATCATTATATAT
6247526 TTTCATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTATTATTATCATTATATATC
Found at i:6247857 original size:17 final size:17
Alignment explanation
Indices: 6247818--6247857 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
6247808 TGCACATTTT
*
6247818 TTTATATGTATATATTA
1 TTTATATGTATATAATA
* *
6247835 TATATATTTATATAATA
1 TTTATATGTATATAATA
6247852 TTTATA
1 TTTATA
6247858 CGCATTTGCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTATATGTATATAATA
Found at i:6249794 original size:19 final size:19
Alignment explanation
Indices: 6249770--6249816 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
6249760 CAAGTATCTT
*
6249770 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
6249789 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
6249808 TATGCATTA
1 TTTGCATTA
6249817 GATTTTCACG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:6251021 original size:16 final size:16
Alignment explanation
Indices: 6250986--6251020 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
6250976 AGTGAAAATG
*
6250986 AAAATGAAAAAAATCA
1 AAAATGAAAAAAAACA
6251002 AAAAT-AAAAAAAACA
1 AAAATGAAAAAAAACA
6251017 AAAA
1 AAAA
6251021 AAATATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.83, C:0.06, G:0.03, T:0.09
Consensus pattern (16 bp):
AAAATGAAAAAAAACA
Found at i:6251030 original size:20 final size:20
Alignment explanation
Indices: 6251001--6251039 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
6250991 GAAAAAAATC
6251001 AAAAATAAAAAAAA-CAAAA
1 AAAAATAAAAAAAATCAAAA
6251020 AAAATATAAAAAAAATCAAA
1 AAAA-ATAAAAAAAATCAAA
6251040 GTCAAAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.85, C:0.05, G:0.00, T:0.10
Consensus pattern (20 bp):
AAAAATAAAAAAAATCAAAA
Found at i:6251923 original size:12 final size:12
Alignment explanation
Indices: 6251906--6251959 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
6251896 TGACTCGTAC
6251906 AAAAAAATGATG
1 AAAAAAATGATG
*
6251918 AAAAAAA-GAAG
1 AAAAAAATGATG
6251929 -AAAAAA--ATG
1 AAAAAAATGATG
6251938 -AAAAAATGAATG
1 AAAAAAATG-ATG
6251950 AAAAAAATGA
1 AAAAAAATGA
6251960 AAAATGAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
9 8 0.22
10 6 0.17
11 3 0.08
12 11 0.31
13 8 0.22
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (12 bp):
AAAAAAATGATG
Found at i:6251938 original size:20 final size:21
Alignment explanation
Indices: 6251915--6251963 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
6251905 CAAAAAAATG
6251915 ATGAAAAAAAGAA-GAAAAAA
1 ATGAAAAAAAGAATGAAAAAA
*
6251935 ATGAAAAAATGAATGAAAAAA
1 ATGAAAAAAAGAATGAAAAAA
6251956 ATGAAAAA
1 ATGAAAAA
6251964 TGAAAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (21 bp):
ATGAAAAAAAGAATGAAAAAA
Found at i:6251942 original size:21 final size:22
Alignment explanation
Indices: 6251906--6251963 Score: 75
Period size: 21 Copynumber: 2.6 Consensus size: 22
6251896 TGACTCGTAC
6251906 AAAAAAATGATGAAAAAAAGAA-G
1 AAAAAAATGA--AAAAAAAGAATG
*
6251929 AAAAAAATG-AAAAAATGAATG
1 AAAAAAATGAAAAAAAAGAATG
6251950 AAAAAAATGAAAAA
1 AAAAAAATGAAAAA
6251964 TGAAAAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
20 9 0.28
21 10 0.31
22 4 0.12
23 9 0.28
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (22 bp):
AAAAAAATGAAAAAAAAGAATG
Found at i:6251976 original size:20 final size:20
Alignment explanation
Indices: 6251915--6251971 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
6251905 CAAAAAAATG
*
6251915 ATGAAAAAAAGAAGAAAAAA
1 ATGAAAAAATGAAGAAAAAA
6251935 ATGAAAAAATGAATGAAAAAA
1 ATGAAAAAATGAA-GAAAAAA
6251956 ATG-AAAAATGAA-AAAA
1 ATGAAAAAATGAAGAAAA
6251972 TAAAAATGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 4 0.11
20 21 0.60
21 10 0.29
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (20 bp):
ATGAAAAAATGAAGAAAAAA
Found at i:6251976 original size:21 final size:21
Alignment explanation
Indices: 6251906--6251979 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 21
6251896 TGACTCGTAC
** *
6251906 AAAAAAATGATGAAAAAAAG-
1 AAAAAAAAAATGAAAAAATGA
*
6251926 AAGAAAAAAATGAAAAAATGA
1 AAAAAAAAAATGAAAAAATGA
**
6251947 ATGAAAAAAATG-AAAAATGA
1 AAAAAAAAAATGAAAAAATGA
6251967 AAAAATAAAAATG
1 AAAAA-AAAAATG
6251980 GAGAGGCTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
20 27 0.60
21 18 0.40
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (21 bp):
AAAAAAAAAATGAAAAAATGA
Found at i:6253447 original size:175 final size:175
Alignment explanation
Indices: 6253156--6253715 Score: 868
Period size: 175 Copynumber: 3.2 Consensus size: 175
6253146 GTTCATTATA
* * *
6253156 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
** * *
6253221 ATTACAGCGGAGCAGATCAAAGATGGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGATGGTAATCCTATCTCCTTGAGATTACAGTGGAGTGGATTAAA
** * *
6253286 ACCAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
131 ATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAC
*
6253331 CAGGTCTTGTTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* ** *
6253396 ATTACAGCGGAGCAGATTGAAGATGGAAATCCTATCTTATTGAGATTACAGTGGAATGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGATGGTAATCCTATCTCCTTGAGATTACAGTGGAGTGGATTAAA
**
6253461 ATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
131 ATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAC
6253506 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* *
6253571 ATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGTGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGATGGTAATCCTATCTCCTTGAGATTACAGTGGAGTGGATTAAA
***
6253636 ATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTGT
131 ATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAC
** * * *
6253681 CAAATCTTATCTCCCTGAGATTACAGCGGAGCAGA
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGA
6253716 TTGAAGTTAG
Statistics
Matches: 354, Mismatches: 31, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
175 354 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.28
Consensus pattern (175 bp):
CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATTGAAGATGGTAATCCTATCTCCTTGAGATTACAGTGGAGTGGATTAAA
ATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAC
Found at i:6253705 original size:129 final size:129
Alignment explanation
Indices: 6253555--6253844 Score: 490
Period size: 129 Copynumber: 2.2 Consensus size: 129
6253545 AGAATTTCAG
*
6253555 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCTTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTAC
*
6253620 AATGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTGTCAA
66 AATGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAA
*
6253684 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTAC
* * *
6253749 AGTGGAGTGGATTAAAATGAATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAG
66 AATGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAA
* * * *
6253813 GTCTTATTTCCCTGAGATTACAGTGGAACAGA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGA
6253845 CCGAAGAATT
Statistics
Matches: 151, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 151 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (129 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTAC
AATGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAA
Found at i:6253831 original size:85 final size:84
Alignment explanation
Indices: 6253732--6254015 Score: 259
Period size: 85 Copynumber: 3.3 Consensus size: 84
6253722 TTAGTAATCC
*
6253732 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATGAATGATCTTATCTCTCTGAAGTTACAGCA
1 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAAT-AAAGATCTTATCTCTCTGAAGTTACAGCA
* *
6253797 GAGTAGATCGCGTCAGGTCT
65 GAGAAGATCGAGTCAGGTCT
* *** ** ** * *
6253817 TATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTG-GGATTACA
1 TATCTCCCTGAGATTACAGTGGAGTGGA-TTAA-AA-TAAAGATCTTATCTCTCTGAAG-TTACA
* * * * *
6253881 GCGGAGCAGATTGAAG-CTAGCAATCC
62 GCAGAGAAGATCG-AGTC-AG--GTCT
* *
6253907 TATCTCCCTGAGATTACAGTGGAGTGGATTTAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAA-GATCTTATCTCTCTGAAGTTACAGCA
6253972 GAGAAGATCGTA-TCAGGTCT
65 GAGAAGATCG-AGTCAGGTCT
*
6253992 TATCTCCCTGAGATTACAGCGGAG
1 TATCTCCCTGAGATTACAGTGGAG
6254016 CAGATTGAAG
Statistics
Matches: 152, Mismatches: 36, Indels: 22
0.72 0.17 0.10
Matches are distributed among these distances:
85 49 0.32
86 3 0.02
87 36 0.24
88 36 0.24
89 2 0.01
90 26 0.17
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (84 bp):
TATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGATCTTATCTCTCTGAAGTTACAGCAG
AGAAGATCGAGTCAGGTCT
Found at i:6253872 original size:175 final size:175
Alignment explanation
Indices: 6253684--6254019 Score: 555
Period size: 175 Copynumber: 1.9 Consensus size: 175
6253674 ATCGTGTCAA
* *
6253684 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGCAATCCTATCTCCCTGAGATTAC
* * * *
6253749 AGTGGAGTGGATTAAAATGAATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAGG
66 AGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCGCATCAGG
* *
6253814 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAG
131 TCTTATCTCCCTGAGATTACAGCGGAACAGACCGAAGAATTTCAG
*
6253859 ATCTTATCTCCCTGGGATTACAGCGGAGCAGATTGAAGCTAGCAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGCAATCCTATCTCCCTGAGATTAC
* * *
6253924 AGTGGAGTGGATTTAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGG
66 AGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCGCATCAGG
*
6253989 TCTTATCTCCCTGAGATTACAGCGGAGCAGA
131 TCTTATCTCCCTGAGATTACAGCGGAACAGA
6254020 TTGAAGCTAG
Statistics
Matches: 148, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
175 148 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (175 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGCAATCCTATCTCCCTGAGATTAC
AGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCGCATCAGG
TCTTATCTCCCTGAGATTACAGCGGAACAGACCGAAGAATTTCAG
Found at i:6254009 original size:129 final size:129
Alignment explanation
Indices: 6253855--6254115 Score: 441
Period size: 129 Copynumber: 2.0 Consensus size: 129
6253845 CCGAAGAATT
* *
6253855 TCAGATCTTATCTCCCTGGGATTACAGCGGAGCAGATTGAAGCTAGCAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGCAATCCTATCTCCATGAGA
* * * *
6253920 TTACAGTGGAGTGGATTTAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTA
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCA
* *
6253984 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCATGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGCAATCCTATCTCCATGAGA
*
6254049 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCA
6254113 TCA
1 TCA
6254116 AGTTTTACCT
Statistics
Matches: 123, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 123 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (129 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGCAATCCTATCTCCATGAGA
TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCA
Found at i:6254084 original size:44 final size:43
Alignment explanation
Indices: 6253160--6254108 Score: 330
Period size: 44 Copynumber: 21.7 Consensus size: 43
6253150 ATTATACAGG
** *
6253160 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGA-ATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-ACA-AG--GA
* * * *
6253206 TCTTATCTCCCTGAGATTACAGCGGAGCAGA-TCAAAGATGGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAGG--A
* * * *
6253250 TCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAACCAATGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAA-CAAGGA
* * * * * *
6253294 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG-CACCAGG-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAACAAGGA
* * * **
6253335 TCTTGTTTCCCTGAGATTACAGTGGAACAGACCGAAGA-ATTTCA-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-ACA----AGGA
* * *
6253381 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTG-AAGATGGAAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAGG--A
* *** *** * *
6253425 TCCTATCTTATTGAGATTACAGTGGAATGGATTAAAATGAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAA-CAAGGA
* ** * * ***
6253469 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCGTC-AGG-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAACAAGGA
* * **
6253510 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGA-ATTTCA-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-ACA----AGGA
* * *
6253556 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGA-TAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-ACAAG-GA
* * * ** * *
6253600 TCCTATCTCCTTGAGATTACAATGGAGTGGATTAAAATGAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAA-CAAGGA
* ** * * ***
6253644 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGTGTCAA--A
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAACAAGGA
* *** *
6253685 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAG-GA
* ** * * *
6253729 TCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATGAATGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAA-CAAGGA
* ** * * ***
6253773 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCGTC-AGG-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAACAAGGA
* * **
6253814 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGA-ATTTCA-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAA-ACA----AGGA
* * * * *
6253860 TCTTATCTCCCTGGGATTACAGCGGAGCAGATTGAAGCTAGCAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAG-GA
* ** * *
6253904 TCCTATCTCCCTGAGATTACAGTGGAGTGGATTTAAATAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAA-CAAGGA
* * * * * *
6253948 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGATCGTATC-AGG-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAACAAGGA
* * * *
6253989 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAG-GA
* * * *
6254033 TCCTATCTCCATGAGATTACAGTGGAGCGGATTAAAACAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAC-AAGGA
* * *
6254077 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGAT
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT
6254109 CGCATCAAGT
Statistics
Matches: 653, Mismatches: 191, Indels: 120
0.68 0.20 0.12
Matches are distributed among these distances:
41 134 0.21
42 22 0.03
43 11 0.02
44 335 0.51
45 21 0.03
46 130 0.20
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAACAAGGA
Found at i:6254138 original size:129 final size:129
Alignment explanation
Indices: 6253860--6254155 Score: 414
Period size: 129 Copynumber: 2.3 Consensus size: 129
6253850 GAATTTCAGA
* * * *
6253860 TCTTATCTCCCTGGGATTACAGCGGAGCAGATTGAAGCTAGCAATCCTATCTCCCTGAGATTACA
1 TCTTACCTCACTGAGATTACAGCGGAGCAGATTGAAGCTAGCAATCCTATCTCCATGAGATTACA
* * * * *
6253925 GTGGAGTGGATTTAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTATCAGG
66 GTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCATCAAG
* * *
6253989 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCATGAGATTACA
1 TCTTACCTCACTGAGATTACAGCGGAGCAGATTGAAGCTAGCAATCCTATCTCCATGAGATTACA
*
6254054 GTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAAG
66 GTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCATCAAG
* * * * *
6254118 TTTTACCTCACT-ATGGTTACAGTGGAGTACATTGAAGC
1 TCTTACCTCACTGA-GATTACAGCGGAGCAGATTGAAGC
6254156 CAATAATTTT
Statistics
Matches: 150, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
128 1 0.01
129 149 0.99
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (129 bp):
TCTTACCTCACTGAGATTACAGCGGAGCAGATTGAAGCTAGCAATCCTATCTCCATGAGATTACA
GTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGCATCAAG
Found at i:6254143 original size:304 final size:304
Alignment explanation
Indices: 6253376--6254111 Score: 1240
Period size: 304 Copynumber: 2.4 Consensus size: 304
6253366 CCGAAGAATT
* * *
6253376 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATGGAAATCCTATCT-TATTGAG
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCA-TGAG
*
6253440 ATTACAGTGGAATGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCG
65 ATTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCG
6253505 TCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGA
130 TCAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGA
* *
6253570 GATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGTGGATTAA
195 GATTACAGCGGAGCAGATTGAAGATAGCAATCCTATCTCCCTGAGATTACAATGGAGTGGATTAA
* * *
6253635 AATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTG
260 AATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCGTA
* * *
6253680 TCAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCATGAGA
*
6253745 TTACAGTGGAGTGGATTAAAATGAATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
66 TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
*
6253810 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGGG
131 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* * *
6253875 ATTACAGCGGAGCAGATTGAAGCTAGCAATCCTATCTCCCTGAGATTACAGTGGAGTGGATTTAA
196 ATTACAGCGGAGCAGATTGAAGATAGCAATCCTATCTCCCTGAGATTACAATGGAGTGGATTAAA
*
6253940 ATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCGTA
261 ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCGTA
* *
6253984 TCAGGTCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCATGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCATGAGA
* ** *
6254049 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGC
66 TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGC
6254112 ATCAAGTTTT
Statistics
Matches: 404, Mismatches: 27, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
304 404 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (304 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCATGAGA
TTACAGTGGAGTGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATTGAAGATAGCAATCCTATCTCCCTGAGATTACAATGGAGTGGATTAAA
ATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCGTA
Found at i:6254680 original size:20 final size:20
Alignment explanation
Indices: 6254636--6254683 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
6254626 TTATTTCCAG
*
6254636 CAGACCC-AAAACCTAACAC
1 CAGACCCAAAAAACTAACAC
6254655 CA-ACCCAAAAAACTAA-ACC
1 CAGACCCAAAAAACTAACA-C
6254674 CAGACCCAAA
1 CAGACCCAAA
6254684 TGGCCCATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.20
19 13 0.52
20 7 0.28
ACGTcount: A:0.52, C:0.40, G:0.04, T:0.04
Consensus pattern (20 bp):
CAGACCCAAAAAACTAACAC
Found at i:6255821 original size:3 final size:3
Alignment explanation
Indices: 6255813--6255901 Score: 151
Period size: 3 Copynumber: 29.3 Consensus size: 3
6255803 AGCAATTTTA
6255813 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
6255861 TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT CAT TGT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT T
6255902 CTCATTATAT
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
3 78 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:6256245 original size:17 final size:17
Alignment explanation
Indices: 6256206--6256245 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
6256196 TGCACATTTT
*
6256206 TTTATATGTATATATTA
1 TTTATATGTATATAATA
* *
6256223 TATATATTTATATAATA
1 TTTATATGTATATAATA
6256240 TTTATA
1 TTTATA
6256246 CGCATTTGCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (17 bp):
TTTATATGTATATAATA
Found at i:6269502 original size:3 final size:3
Alignment explanation
Indices: 6269494--6269534 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
6269484 ATTACATCCA
6269494 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6269535 AACATGTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6273832 original size:73 final size:73
Alignment explanation
Indices: 6273750--6273935 Score: 354
Period size: 73 Copynumber: 2.5 Consensus size: 73
6273740 ACAACTTGAC
6273750 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
6273815 CACTAACA
66 CACTAACA
6273823 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
6273888 CACTAACA
66 CACTAACA
* *
6273896 AACTTAGTTGAAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
6273936 AATAATAATA
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 111 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:6290739 original size:26 final size:26
Alignment explanation
Indices: 6290710--6290764 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
6290700 AACACACCAA
* *
6290710 TATCGCAGCAAAACTGCCAGTAATAG
1 TATCGCAGCAAAACTGCCAATAACAG
*
6290736 TATCGCAGCAAAGCTGCCAATAACAG
1 TATCGCAGCAAAACTGCCAATAACAG
6290762 TAT
1 TAT
6290765 ACTTCCTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAACTGCCAATAACAG
Found at i:6301524 original size:45 final size:46
Alignment explanation
Indices: 6301475--6301586 Score: 138
Period size: 45 Copynumber: 2.5 Consensus size: 46
6301465 TGTACTCACC
* **
6301475 GCCAAAGGCAGATTCCATCTGC-GTGCTATTTGTTGTGT-ATCCACA
1 GCCAAAGGCAGATTTCATCTGCTG-GCTAAATGTTGTGTAATCCACA
* * *
6301520 GCCAAAGGCAGATTTCATTTACTGGTTAAATGTTGTGTAATCCACA
1 GCCAAAGGCAGATTTCATCTGCTGGCTAAATGTTGTGTAATCCACA
*
6301566 GTCAAAGGCAGATTTCATCTG
1 GCCAAAGGCAGATTTCATCTG
6301587 TAAGATTTTG
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
45 30 0.54
46 26 0.46
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (46 bp):
GCCAAAGGCAGATTTCATCTGCTGGCTAAATGTTGTGTAATCCACA
Found at i:6301599 original size:45 final size:44
Alignment explanation
Indices: 6301503--6301603 Score: 116
Period size: 46 Copynumber: 2.2 Consensus size: 44
6301493 CTGCGTGCTA
* *
6301503 TTTGTTGTGT-ATCCACAGCCAAAGGCAGATTTCATTTACTGGT
1 TTTGTTGTGTAATCCACAGCCAAAGGCAGATTTCATTTACAGAT
* *
6301546 TAAATGTTGTGTAATCCACAGTCAAAGGCAGATTTCATCTGTA-AGAT
1 T--TTGTTGTGTAATCCACAGCCAAAGGCAGATTTCAT-T-TACAGAT
6301593 TTTGTTGTGTA
1 TTTGTTGTGTA
6301604 CCCATAGCTA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
43 1 0.02
45 17 0.35
46 24 0.50
47 4 0.08
48 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.38
Consensus pattern (44 bp):
TTTGTTGTGTAATCCACAGCCAAAGGCAGATTTCATTTACAGAT
Found at i:6302762 original size:351 final size:352
Alignment explanation
Indices: 6301639--6303042 Score: 2783
Period size: 352 Copynumber: 4.0 Consensus size: 352
6301629 TGCAGAATTT
*
6301639 TTGTTGTGTGTTCACAACCATTAATAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
1 TTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
6301704 TGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATGGTGTGTAGCGGTGAGGTAGGATCGTTT
66 TGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATGGTGTGTAGCGGTGAGGTAGGATCGTTT
*
6301769 TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGAAATTTTTTATA
131 TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGGAATTTTTTATA
6301834 TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
196 TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
6301899 TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
261 TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
6301964 CACATTGGATGTCATAGCATACTCACA
326 CACATTGGATGTCATAGCATACTCACA
6301991 TTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
1 TTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
6302056 TGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATGGTGTGTAGCGGTGAGGTAGGATCGTTT
66 TGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATGGTGTGTAGCGGTGAGGTAGGATCGTTT
6302121 TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGGAATTTTTTATA
131 TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGGAATTTTTTATA
6302186 TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
196 TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
6302251 TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
261 TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
6302316 CACATTGGATGTCATAGCATACTCACA
326 CACATTGGATGTCATAGCATACTCACA
6302343 TTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
1 TTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
6302408 TGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATGGTGTGTAGCGGTGAGGTAGGATCG-TT
66 TGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATGGTGTGTAGCGGTGAGGTAGGATCGTTT
6302472 TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGGAATTTTTTATA
131 TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGGAATTTTTTATA
6302537 TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
196 TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
6302602 TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
261 TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
6302667 CACATTGGATGTCATAGCATACTCACA
326 CACATTGGATGTCATAGCATACTCACA
6302694 TTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
1 TTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
6302759 TGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATGGTGTGTAGCGGTGAGGTAGGATCGTTT
66 TGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATGGTGTGTAGCGGTGAGGTAGGATCGTTT
6302824 TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGGAATTTTTTATA
131 TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGGAATTTTTTATA
6302889 TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
196 TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
6302954 TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
261 TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
6303019 CACATTGGATGTCATAGCATACTC
326 CACATTGGATGTCATAGCATACTC
6303043 TTCTTTTAAT
Statistics
Matches: 1049, Mismatches: 2, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
351 351 0.33
352 698 0.67
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (352 bp):
TTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
TGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATGGTGTGTAGCGGTGAGGTAGGATCGTTT
TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGGAATTTTTTATA
TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
CACATTGGATGTCATAGCATACTCACA
Found at i:6302985 original size:703 final size:704
Alignment explanation
Indices: 6301639--6303042 Score: 2783
Period size: 703 Copynumber: 2.0 Consensus size: 704
6301629 TGCAGAATTT
6301639 TTGTTGTGTGTTCACAACCATTAATAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
1 TTGTTGTGTGTTCACAACCATTAATAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
6301704 TGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATGGTGTGTAGCGGTGAGGTAGGATCGTTT
66 TGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATGGTGTGTAGCGGTGAGGTAGGATCGTTT
6301769 TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGAAATTTTTTATA
131 TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGAAATTTTTTATA
6301834 TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
196 TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
6301899 TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
261 TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
6301964 CACATTGGATGTCATAGCATACTCACATTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAA
326 CACATTGGATGTCATAGCATACTCACATTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAA
6302029 ACCATTAGTGGCTAAGCCACAATCCAGTGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATG
391 ACCATTAGTGGCTAAGCCACAATCCAGTGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATG
6302094 GTGTGTAGCGGTGAGGTAGGATCGTTTTTGTTAAAATCGAAACTGTATGGAATCCATAAAAACAT
456 GTGTGTAGCGGTGAGGTAGGATCGTTTTTGTTAAAATCGAAACTGTATGGAATCCATAAAAACAT
6302159 GTGCATACAAAATTGGAATTTTTTATATGACATATACATACATGAATTTTGAATGATCTAAAACA
521 GTGCATACAAAATTGGAATTTTTTATATGACATATACATACATGAATTTTGAATGATCTAAAACA
6302224 TCGATATGTAGATATTGGTTCTGTAAATTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGT
586 TCGATATGTAGATATTGGTTCTGTAAATTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGT
6302289 TTGCACTGATTTTCTTATGATTGAACTCACATTGGATGTCATAGCATACTCACA
651 TTGCACTGATTTTCTTATGATTGAACTCACATTGGATGTCATAGCATACTCACA
*
6302343 TTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
1 TTGTTGTGTGTTCACAACCATTAATAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
6302408 TGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATGGTGTGTAGCGGTGAGGTAGGATCG-TT
66 TGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATGGTGTGTAGCGGTGAGGTAGGATCGTTT
*
6302472 TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGGAATTTTTTATA
131 TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGAAATTTTTTATA
6302537 TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
196 TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
6302602 TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
261 TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
6302667 CACATTGGATGTCATAGCATACTCACATTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAA
326 CACATTGGATGTCATAGCATACTCACATTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAA
6302732 ACCATTAGTGGCTAAGCCACAATCCAGTGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATG
391 ACCATTAGTGGCTAAGCCACAATCCAGTGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATG
6302797 GTGTGTAGCGGTGAGGTAGGATCGTTTTTGTTAAAATCGAAACTGTATGGAATCCATAAAAACAT
456 GTGTGTAGCGGTGAGGTAGGATCGTTTTTGTTAAAATCGAAACTGTATGGAATCCATAAAAACAT
6302862 GTGCATACAAAATTGGAATTTTTTATATGACATATACATACATGAATTTTGAATGATCTAAAACA
521 GTGCATACAAAATTGGAATTTTTTATATGACATATACATACATGAATTTTGAATGATCTAAAACA
6302927 TCGATATGTAGATATTGGTTCTGTAAATTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGT
586 TCGATATGTAGATATTGGTTCTGTAAATTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGT
6302992 TTGCACTGATTTTCTTATGATTGAACTCACATTGGATGTCATAGCATACTC
651 TTGCACTGATTTTCTTATGATTGAACTCACATTGGATGTCATAGCATACTC
6303043 TTCTTTTAAT
Statistics
Matches: 698, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
703 572 0.82
704 126 0.18
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.36
Consensus pattern (704 bp):
TTGTTGTGTGTTCACAACCATTAATAGTTTATCTGCAAACCATTAGTGGCTAAGCCACAATCCAG
TGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATGGTGTGTAGCGGTGAGGTAGGATCGTTT
TTGTTAAAATCGAAACTGTATGGAATCCATAAAAACATGTGCATACAAAATTGAAATTTTTTATA
TGACATATACATACATGAATTTTGAATGATCTAAAACATCGATATGTAGATATTGGTTCTGTAAA
TTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGTTTGCACTGATTTTCTTATGATTGAACT
CACATTGGATGTCATAGCATACTCACATTGTTGTGTGTTCACAACCATTAGTAGTTTATCTGCAA
ACCATTAGTGGCTAAGCCACAATCCAGTGTGTTGTTGGGTGGAGTTCAAGGGAACTCCCATTATG
GTGTGTAGCGGTGAGGTAGGATCGTTTTTGTTAAAATCGAAACTGTATGGAATCCATAAAAACAT
GTGCATACAAAATTGGAATTTTTTATATGACATATACATACATGAATTTTGAATGATCTAAAACA
TCGATATGTAGATATTGGTTCTGTAAATTATTTCTGTGTGACATACTTCTGTATGCTTAAATCGT
TTGCACTGATTTTCTTATGATTGAACTCACATTGGATGTCATAGCATACTCACA
Found at i:6303561 original size:18 final size:18
Alignment explanation
Indices: 6303534--6303569 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6303524 CTCATTGTTG
6303534 CCATCCTGAACGAATCAA
1 CCATCCTGAACGAATCAA
*
6303552 CCATCTTGAACGAATCAA
1 CCATCCTGAACGAATCAA
6303570 TCTGCGGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.31, G:0.11, T:0.19
Consensus pattern (18 bp):
CCATCCTGAACGAATCAA
Found at i:6306286 original size:43 final size:43
Alignment explanation
Indices: 6306220--6306359 Score: 174
Period size: 43 Copynumber: 3.3 Consensus size: 43
6306210 GCGCCGCGAA
* * *
6306220 AAACGCCGTTAAAGACCACGACCTTTAACGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCAC
* * *
6306263 AAACGCTGCTAAAGACCAAGACCTTTAGCGGCACTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCAC
** * *
6306306 AAATACCGCTAAAAACCAAAACCTTTAGC-AGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGA-CGCTTTTCCCAC
6306349 AAACGCCGCTA
1 AAACGCCGCTA
6306360 TAAATATAAC
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 81 1.00
ACGTcount: A:0.33, C:0.34, G:0.14, T:0.20
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTTTCCCAC
Found at i:6307377 original size:24 final size:24
Alignment explanation
Indices: 6307348--6307401 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
6307338 CTGATGAAAG
* *
6307348 ATGAACTGTTAAATACATGCAGAA
1 ATGAACTGTTAAACACATACAGAA
* *
6307372 ATGAACCGTTCAACACATACAGAA
1 ATGAACTGTTAAACACATACAGAA
6307396 A-GAACT
1 ATGAACT
6307402 TACTTTTCCC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (24 bp):
ATGAACTGTTAAACACATACAGAA
Found at i:6311732 original size:41 final size:41
Alignment explanation
Indices: 6311670--6311828 Score: 219
Period size: 41 Copynumber: 3.9 Consensus size: 41
6311660 AGATTTTTTT
** *
6311670 ATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGTACAAGC
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGTACGAGC
** **
6311711 ATTAGCGGCGCTTTTCCAAAAACGCTACTAAAGGCCCGAGC
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGTACGAGC
* *
6311752 ATTAGCGGTGCTTTTTCAAAAACGCCGCTAAAGGTACGAGC
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGTACGAGC
* *
6311793 ATTAGCGACGCTTTCCCAAAAACGCCGCTAAAGGTA
1 ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGTA
6311829 GGGGTGAGCA
Statistics
Matches: 101, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGGTACGAGC
Found at i:6311812 original size:82 final size:82
Alignment explanation
Indices: 6311670--6311826 Score: 251
Period size: 82 Copynumber: 1.9 Consensus size: 82
6311660 AGATTTTTTT
* * *
6311670 ATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGTACAAGCATTAGCGGCGCTTTTCCAAAAACG
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACAAGCATTAGCGACGCTTTCCCAAAAACG
*
6311735 CTACTAAAGGCCCGAGC
66 CCACTAAAGGCCCGAGC
* *
6311752 ATTAGCGGTGCTTTTTCAAAAACGCCGCTAAAGGTACGAGCATTAGCGACGCTTTCCCAAAAACG
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACAAGCATTAGCGACGCTTTCCCAAAAACG
*
6311817 CCGCTAAAGG
66 CCACTAAAGG
6311827 TAGGGGTGAG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 68 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (82 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTACAAGCATTAGCGACGCTTTCCCAAAAACG
CCACTAAAGGCCCGAGC
Found at i:6312840 original size:21 final size:21
Alignment explanation
Indices: 6312807--6312846 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6312797 GGGGAAAGTG
*
6312807 GGAAAGAGTAAAAGTTTTGAA
1 GGAAAGAGTAAAAGGTTTGAA
6312828 GGAAA-AGTAAAAAGGTTTG
1 GGAAAGAGT-AAAAGGTTTG
6312847 GGAATTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (21 bp):
GGAAAGAGTAAAAGGTTTGAA
Found at i:6312981 original size:9 final size:9
Alignment explanation
Indices: 6312964--6312994 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
6312954 TCGAGTTGAT
6312964 TCGAATAAC
1 TCGAATAAC
*
6312973 TCGATTAAC
1 TCGAATAAC
6312982 TCGAATAAC
1 TCGAATAAC
6312991 TCGA
1 TCGA
6312995 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:6313123 original size:41 final size:41
Alignment explanation
Indices: 6313064--6313275 Score: 282
Period size: 41 Copynumber: 5.1 Consensus size: 41
6313054 CTCACCCCTA
* *
6313064 GCTAAAGG-TACGAGCATTAGCGACGCTTTTCCCAAAACGCC
1 GCTAAAGGAT-CGAGCATTAGCGGCGCTTTTCCAAAAACGCC
* ** *
6313105 GTTAAAGGCCCGAGCATTAGCGGCGCTTTTTCAAAAACGCC
1 GCTAAAGGATCGAGCATTAGCGGCGCTTTTCCAAAAACGCC
* * *
6313146 GCTAAAGGCTCGAGCATTAGTGGCGCTTTTCCAAAAATGCC
1 GCTAAAGGATCGAGCATTAGCGGCGCTTTTCCAAAAACGCC
* *
6313187 GCTAAAGGATCGAACATTAGCGGCGCTTTTTCAAAAACGCC
1 GCTAAAGGATCGAGCATTAGCGGCGCTTTTCCAAAAACGCC
* *
6313228 GCTAAAGGATCGAGCATTAGCGGCACTTTTTTCAAAAACGCC
1 GCTAAAGGATCGAGCATTAGCGGCGC-TTTTCCAAAAACGCC
6313270 GCTAAA
1 GCTAAA
6313276 TTCGCCAAAA
Statistics
Matches: 152, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
41 131 0.86
42 21 0.14
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (41 bp):
GCTAAAGGATCGAGCATTAGCGGCGCTTTTCCAAAAACGCC
Found at i:6313450 original size:40 final size:40
Alignment explanation
Indices: 6313315--6313450 Score: 125
Period size: 40 Copynumber: 3.4 Consensus size: 40
6313305 TGGGCTTAGG
* *
6313315 TTTTTTGCGGCGCTTTTTGGAAAA-CGCCGCTAATGCTT-A
1 TTTTTAGCGGCG-TTTTTGCAAAAGCGCCGCTAATGCTTGA
* * * * *
6313354 ATTTTAGCGGCG-TTTTCCAAAATGAGCCGTTAATGCTCGA
1 TTTTTAGCGGCGTTTTTGCAAAA-GCGCCGCTAATGCTTGA
* * *
6313394 TCTTTAGCGGCATTTTTGTAAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTTGCAAAAGCGCCGCTAATGCTTGA
* *
6313434 TTTTTAGTGTCGTTTTT
1 TTTTTAGCGGCGTTTTT
6313451 TTATCCAAAC
Statistics
Matches: 74, Mismatches: 19, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
37 8 0.11
39 21 0.28
40 37 0.50
41 8 0.11
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTGCAAAAGCGCCGCTAATGCTTGA
Found at i:6313838 original size:22 final size:22
Alignment explanation
Indices: 6313796--6313838 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
6313786 TTTTTTAATA
* *
6313796 GATCTAATATCTCTATCATATT
1 GATCTAAAATCTATATCATATT
6313818 GATCTAAAATACTATAT-ATAT
1 GATCTAAAAT-CTATATCATAT
6313839 ATTTTATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.42
Consensus pattern (22 bp):
GATCTAAAATCTATATCATATT
Found at i:6314080 original size:15 final size:15
Alignment explanation
Indices: 6314060--6314089 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6314050 TACGTATGTT
*
6314060 ATATTATATACTATA
1 ATATTATATAATATA
6314075 ATATTATATAATATA
1 ATATTATATAATATA
6314090 GTAGAAGGGC
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATTATATAATATA
Found at i:6314411 original size:19 final size:19
Alignment explanation
Indices: 6314361--6314402 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6314351 CTAGTAATAC
* *
6314361 ATTAACATATTATTAAAAT
1 ATTAATATATTAATAAAAT
*
6314380 TTTAATATATTAATAAAAT
1 ATTAATATATTAATAAAAT
6314399 ATTA
1 ATTA
6314403 TTTTATTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTAATATATTAATAAAAT
Found at i:6323070 original size:40 final size:39
Alignment explanation
Indices: 6323026--6323164 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 39
6323016 ACACAACAGT
6323026 TTGGCACCCAGTGCCTCATCGGATAATTCGAAGTAATAAA
1 TTGGCACCCAGTGCCTCATCGGATAATTCGAAGT-ATAAA
* * *
6323066 TTGGCACCCAGTGTCTCATCGGCTAAATCGAAG--TAAA
1 TTGGCACCCAGTGCCTCATCGGATAATTCGAAGTATAAA
* * *
6323103 TTGGCACCCACTGCCTCATCGAATTAATTCGAAATAGTAAA
1 TTGGCACCCAGTGCCTCATCGGA-TAATTCGAAGTA-TAAA
* * *
6323144 TTGACACCCAATGTCTCATCG
1 TTGGCACCCAGTGCCTCATCG
6323165 ACTCGAAGTC
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
37 23 0.28
38 8 0.10
40 30 0.36
41 22 0.27
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (39 bp):
TTGGCACCCAGTGCCTCATCGGATAATTCGAAGTATAAA
Found at i:6323368 original size:24 final size:24
Alignment explanation
Indices: 6323323--6323369 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6323313 TATATATACC
6323323 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
6323347 AATTC-ATCATATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
6323370 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:6326294 original size:10 final size:10
Alignment explanation
Indices: 6326281--6326336 Score: 60
Period size: 10 Copynumber: 5.5 Consensus size: 10
6326271 TTATTATTTT
6326281 TAATTTTTAA
1 TAATTTTTAA
*
6326291 TAATTTTTTA
1 TAATTTTTAA
* *
6326301 CAATTTCTAA
1 TAATTTTTAA
6326311 TAAATTTTATAA
1 T-AATTTT-TAA
6326323 -AATTTTTAA
1 TAATTTTTAA
6326332 TAATT
1 TAATT
6326337 ATTATTTTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 3 0.08
10 26 0.70
11 5 0.14
12 3 0.08
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:6326341 original size:21 final size:20
Alignment explanation
Indices: 6326282--6326341 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
6326272 TATTATTTTT
* *
6326282 AATTTTTAATAATTTTTTAC
1 AATTTTTAATAATTTTATAA
*
6326302 AATTTCTAATAAATTTTATAA
1 AATTTTTAAT-AATTTTATAA
6326323 AATTTTTAATAATTATTAT
1 AATTTTTAATAATT-TTAT
6326342 TTTTGTACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 13 0.38
21 21 0.62
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTTTTAATAATTTTATAA
Found at i:6326431 original size:16 final size:17
Alignment explanation
Indices: 6326398--6326437 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
6326388 AAATTATATA
*
6326398 TATATTTATACATATTT
1 TATATTTACACATATTT
*
6326415 TATATTTACA-ATTTTT
1 TATATTTACACATATTT
6326431 TATATTT
1 TATATTT
6326438 TTAATGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATTTACACATATTT
Found at i:6337120 original size:16 final size:17
Alignment explanation
Indices: 6337099--6337130 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6337089 TTATTCATCA
6337099 GAAAAAAAA-TTATTTC
1 GAAAAAAAACTTATTTC
6337115 GAAAAAAAACTTATTT
1 GAAAAAAAACTTATTT
6337131 AATAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.31
Consensus pattern (17 bp):
GAAAAAAAACTTATTTC
Found at i:6347985 original size:4 final size:4
Alignment explanation
Indices: 6347964--6348145 Score: 328
Period size: 4 Copynumber: 44.5 Consensus size: 4
6347954 TTAAGTATGT
6347964 TACA TATCA TATCA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TA-CA TA-CA TACA TACA TACA TACA TACA TACA TACA TACA TACA
6348014 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
6348062 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACAA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TAC-A TACA TACA
6348111 TACA TACA TACA TACA TACA TACA TATCA TACA TA
1 TACA TACA TACA TACA TACA TACA TA-CA TACA TA
6348146 AATCTTATGC
Statistics
Matches: 175, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
4 158 0.90
5 17 0.10
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:6348284 original size:128 final size:128
Alignment explanation
Indices: 6348132--6348431 Score: 503
Period size: 128 Copynumber: 2.3 Consensus size: 128
6348122 ATACATACAT
* *
6348132 ACATATCATACATAAATCT-TATGCATATCACATATCATACATACTTAATAAAGTTAGTTACATA
1 ACATATCATACATACAT-TACATGCATATCACATATCATACATACTTAATAAAGTTAGTTACATA
*
6348196 TCATGCATATATATTGAAGTCTGTTACATGCATATCATGACATACATACATATATAAAATATTG
65 TCATGCATATATATTAAAGTCTGTTACATGCATATCATGACATACATACATATATAAAATATTG
* *
6348260 ACATATCATACATACATTACATGCATAACACATATCATACATACTTAATAAAGTTAGTTACATGT
1 ACATATCATACATACATTACATGCATATCACATATCATACATACTTAATAAAGTTAGTTACATAT
*
6348325 CATGTATATATATTAAAGTCTGTTACATGCATATCATGACATACATACATATATAAAATATTG
66 CATGCATATATATTAAAGTCTGTTACATGCATATCATGACATACATACATATATAAAATATTG
* * *
6348388 ACATATCTTACATACATTAGATGCATGTCACATATCATACATAC
1 ACATATCATACATACATTACATGCATATCACATATCATACATAC
6348432 ACATAATCAA
Statistics
Matches: 161, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
127 1 0.01
128 160 0.99
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (128 bp):
ACATATCATACATACATTACATGCATATCACATATCATACATACTTAATAAAGTTAGTTACATAT
CATGCATATATATTAAAGTCTGTTACATGCATATCATGACATACATACATATATAAAATATTG
Found at i:6355023 original size:42 final size:42
Alignment explanation
Indices: 6354964--6355103 Score: 183
Period size: 42 Copynumber: 3.3 Consensus size: 42
6354954 TAGATAAAAC
*
6354964 ATTTGCAGATAAAATTGCTACTAGGTTATGGATGCACATCAT
1 ATTTGCAGATAAAATTGCTACTAGGTTATGGATGCACAACAT
* * **
6355006 ATTTGTAGATAAAATTGCAACTAGGTGGTGGATGCACAACAT
1 ATTTGCAGATAAAATTGCTACTAGGTTATGGATGCACAACAT
* * * *
6355048 ATTTGCAAATAAAACTG-TCATTGGGTTATGGATGCACAACAT
1 ATTTGCAGATAAAATTGCT-ACTAGGTTATGGATGCACAACAT
6355090 ATTTGCAGATAAAA
1 ATTTGCAGATAAAA
6355104 CAACCACTCT
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 83 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (42 bp):
ATTTGCAGATAAAATTGCTACTAGGTTATGGATGCACAACAT
Found at i:6355239 original size:38 final size:37
Alignment explanation
Indices: 6355188--6355286 Score: 101
Period size: 38 Copynumber: 2.6 Consensus size: 37
6355178 AAAAATAGTA
* *
6355188 GATATCCTTAACATGTATTCAGTTCAACACTAGCAAT
1 GATATGCTAAACATGTATTCAGTTCAACACTAGCAAT
* * * *
6355225 GGATATGCTAAACATGTATACAATTCAACACTGGCCAT
1 -GATATGCTAAACATGTATTCAGTTCAACACTAGCAAT
* *
6355263 GACATGC-ATAACATGTACTCAGTT
1 GATATGCTA-AACATGTATTCAGTT
6355287 GGTGGTACAA
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
36 1 0.02
37 18 0.36
38 31 0.62
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.29
Consensus pattern (37 bp):
GATATGCTAAACATGTATTCAGTTCAACACTAGCAAT
Found at i:6357053 original size:91 final size:88
Alignment explanation
Indices: 6356877--6357098 Score: 211
Period size: 91 Copynumber: 2.5 Consensus size: 88
6356867 GACACTCCAT
* * * * *** *
6356877 TTTGTGGATGAACCACTAGTGTTGCAGGTTAATACGCTGTTAGTAGTTATGAATACACAACTGGT
1 TTTGTGGATAAACCACTAGTTTTGCAAGTTAATACACTACCAGTAGTTATGAATACACAACAGGT
* * *
6356942 TTGCGGACAATAATTGCCAGT-A
66 TTGCAGACAATAACTACCAGTGA
* *
6356964 TAAATTGTGGATAAACCACTAGTTCTTGCAAGTTAATACACTACCAGTAGTTGTGAATTCACAAC
1 T---TTGTGGATAAACCACTAGTT-TTGCAAGTTAATACACTACCAGTAGTTATGAATACACAAC
*
6357029 AGGTTTGCAGATAA-AAGCTACCAGTGA
62 AGGTTTGCAGACAATAA-CTACCAGTGA
* *
6357056 TTTATGGATAAACCACCAGTGTTTGC-AGTTAA-A-ACTACCAGTA
1 TTTGTGGATAAACCACTAGT-TTTGCAAGTTAATACACTACCAGTA
6357099 CTTCCTCCTT
Statistics
Matches: 112, Mismatches: 16, Indels: 15
0.78 0.11 0.10
Matches are distributed among these distances:
86 10 0.09
87 2 0.02
88 6 0.05
89 21 0.19
90 21 0.19
91 50 0.45
92 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (88 bp):
TTTGTGGATAAACCACTAGTTTTGCAAGTTAATACACTACCAGTAGTTATGAATACACAACAGGT
TTGCAGACAATAACTACCAGTGA
Done.