Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 199 of 310
Found at i:64972730 original size:13 final size:13
Alignment explanation
Indices: 64972712--64972736 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64972702 GGATGGAAAC
64972712 ACGGCCGTGCGAT
1 ACGGCCGTGCGAT
64972725 ACGGCCGTGCGA
1 ACGGCCGTGCGA
64972737 AAAAAGGGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.40, T:0.12
Consensus pattern (13 bp):
ACGGCCGTGCGAT
Found at i:64981085 original size:23 final size:22
Alignment explanation
Indices: 64981051--64981111 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
64981041 GTAATTAGGT
64981051 TTAGAATTAAAAAATTAAGAATAAA
1 TTAGAA-TAAAAAATTAA-AAT-AA
*
64981076 TTA-AATAAAATATTAAAATAA
1 TTAGAATAAAAAATTAAAATAA
*
64981097 TTAGAATTAAAAATT
1 TTAGAATAAAAAATT
64981112 TTAGGTTAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 5 0.16
22 12 0.38
23 10 0.31
24 2 0.06
25 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (22 bp):
TTAGAATAAAAAATTAAAATAA
Found at i:64988026 original size:28 final size:27
Alignment explanation
Indices: 64987951--64988030 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
64987941 ACCCCAAGAC
* **
64987951 GGGTGAAATGACCAAAATACCCCTAAA
1 GGGTAAAATGACCATTATACCCCTAAA
* * *
64987978 GGGTAAAATGACTATTTTACCCCTAATT
1 GGGTAAAATGACCATTATACCCCTAA-A
* *
64988006 GGTTAAAATGACCGTTATACCCCTA
1 GGGTAAAATGACCATTATACCCCTA
64988031 GAGGTGGATT
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
27 21 0.50
28 21 0.50
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (27 bp):
GGGTAAAATGACCATTATACCCCTAAA
Found at i:64988184 original size:26 final size:27
Alignment explanation
Indices: 64988154--64988205 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
64988144 TGGAGGAAGT
64988154 TACTG-TACTGGTGGCTTTGCCACATA
1 TACTGTTACTGGTGGCTTTGCCACATA
*
64988180 TACTGTTACTGGTGGTTTTGCCACAT
1 TACTGTTACTGGTGGCTTTGCCACAT
64988206 TTATTGATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 5 0.21
27 19 0.79
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTTGCCACATA
Found at i:64988216 original size:27 final size:27
Alignment explanation
Indices: 64988154--64988218 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
64988144 TGGAGGAAGT
64988154 TACTG-TACTGGTGGCTTTGCCACATA
1 TACTGATACTGGTGGCTTTGCCACATA
* * *
64988180 TACTGTTACTGGTGGTTTTGCCACATT
1 TACTGATACTGGTGGCTTTGCCACATA
*
64988207 TATTGATACTGG
1 TACTGATACTGG
64988219 CAGCTTTACT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 5 0.15
27 29 0.85
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.40
Consensus pattern (27 bp):
TACTGATACTGGTGGCTTTGCCACATA
Found at i:64997551 original size:13 final size:13
Alignment explanation
Indices: 64997533--64997558 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64997523 GGTTTTCTCC
64997533 AAAATGAAAATGA
1 AAAATGAAAATGA
64997546 AAAATGAAAATGA
1 AAAATGAAAATGA
64997559 CTTGGAAATG
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:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAATGA
Found at i:65012798 original size:17 final size:19
Alignment explanation
Indices: 65012770--65012804 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
65012760 GGATTACTCG
65012770 TGTGGACCCATAT-GCCCT
1 TGTGGACCCATATAGCCCT
65012788 TGTGG-CCCATATAGCCC
1 TGTGGACCCATATAGCCC
65012805 AAATTAGTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.17, C:0.34, G:0.23, T:0.26
Consensus pattern (19 bp):
TGTGGACCCATATAGCCCT
Found at i:65021102 original size:25 final size:26
Alignment explanation
Indices: 65021074--65021133 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 26
65021064 TAATTAATAT
*
65021074 AAAATATTAATAATTCAAT-AAATTG
1 AAAATATTAATAATTAAATAAAATTG
* *
65021099 AAAA-ATTAAATTATTAAATAAAATTT
1 AAAATATT-AATAATTAAATAAAATTG
65021125 AAAAT-TTAA
1 AAAATATTAA
65021134 GAGAAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 3 0.10
25 15 0.52
26 11 0.38
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (26 bp):
AAAATATTAATAATTAAATAAAATTG
Found at i:65022009 original size:29 final size:30
Alignment explanation
Indices: 65021950--65022010 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
65021940 GCCTTTTGAA
* * *
65021950 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCAACCAAATTTT
*
65021980 AATATTTATAAAAAGA-GCAACCAAATTTT
1 AATATTTACAAAAAGAGGCAACCAAATTTT
65022009 AA
1 AA
65022011 AAATAGTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.33
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCAACCAAATTTT
Found at i:65026891 original size:20 final size:20
Alignment explanation
Indices: 65026866--65026906 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
65026856 GTTGGTTTGA
*
65026866 AGACTATTATTATAATGTAT
1 AGACTATTACTATAATGTAT
65026886 AGACTATTACTATAATGTAT
1 AGACTATTACTATAATGTAT
65026906 A
1 A
65026907 TGAGACTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (20 bp):
AGACTATTACTATAATGTAT
Found at i:65027025 original size:49 final size:49
Alignment explanation
Indices: 65026945--65027043 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
65026935 AGAAGATAGT
* *
65026945 TATAATCAGTTTGTAATTTGATATTTTCTTGTCTAAATGTTATTGAATG
1 TATAATCAGTTTGTAATTTGATACTTGCTTGTCTAAATGTTATTGAATG
65026994 TATAATCAGTTTGTAATTTGATACTTGCTTGTCTAAATGTTATTGAATG
1 TATAATCAGTTTGTAATTTGATACTTGCTTGTCTAAATGTTATTGAATG
65027043 T
1 T
65027044 GATGAATTGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.49
Consensus pattern (49 bp):
TATAATCAGTTTGTAATTTGATACTTGCTTGTCTAAATGTTATTGAATG
Found at i:65028466 original size:47 final size:45
Alignment explanation
Indices: 65028404--65028527 Score: 144
Period size: 47 Copynumber: 2.7 Consensus size: 45
65028394 CTCGTAGCTG
*
65028404 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAA-T-GCCA
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AAGTGGCCA
* * *
65028450 ATGCCATGTCCTAGACATGTTCTTACACTGGCTCTCATAATGTGGCCG
1 ATG-CATGTCCCAGACATG-TCTTACACTAGCTCTCATAA-GTGGCCA
65028498 ATGCATGTCCCAGACATGTCTTACACTAGC
1 ATGCATGTCCCAGACATGTCTTACACTAGC
65028528 ACGTAAATGA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
45 2 0.03
46 15 0.22
47 29 0.43
48 21 0.31
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.29
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAAGTGGCCA
Found at i:65038328 original size:13 final size:13
Alignment explanation
Indices: 65038310--65038335 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65038300 CATACATCTT
65038310 TTAAATGTAGCAG
1 TTAAATGTAGCAG
65038323 TTAAATGTAGCAG
1 TTAAATGTAGCAG
65038336 GTGCATTACG
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:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
TTAAATGTAGCAG
Found at i:65041852 original size:41 final size:41
Alignment explanation
Indices: 65041803--65041883 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 41
65041793 TGTGAGAAGA
*
65041803 ATTATTTATGAATGCTATATAAAACACTTTGGTGAAGAAAG
1 ATTATTTATAAATGCTATATAAAACACTTTGGTGAAGAAAG
*
65041844 ATTATTTATAAATGCTATTTAAAACACTTTGGTGAAGAAA
1 ATTATTTATAAATGCTATATAAAACACTTTGGTGAAGAAA
65041884 AATATTTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (41 bp):
ATTATTTATAAATGCTATATAAAACACTTTGGTGAAGAAAG
Found at i:65047803 original size:70 final size:70
Alignment explanation
Indices: 65047711--65047864 Score: 245
Period size: 70 Copynumber: 2.2 Consensus size: 70
65047701 CATTACAGGA
* * * *
65047711 CCAGTGTCCCAACATTGCATTTTGATTTTGAATTCTTTGGCTTTGAAGTTCGGTGTTGCGATACC
1 CCAGTGTCGCAACACTGCATTTTGATTTTGAATTCTTTGGCTTTAAAGTTCGGTGTTGCGACACC
65047776 ACATC
66 ACATC
* *
65047781 CCAGTGTCGCGACACTGTATTTTGATTTTGAATTCTTTGGCTTTAAAGTTCGGTGTTGCGACACC
1 CCAGTGTCGCAACACTGCATTTTGATTTTGAATTCTTTGGCTTTAAAGTTCGGTGTTGCGACACC
65047846 ACATC
66 ACATC
*
65047851 CTAGTGTCGCAACA
1 CCAGTGTCGCAACA
65047865 TTGCCATCAT
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (70 bp):
CCAGTGTCGCAACACTGCATTTTGATTTTGAATTCTTTGGCTTTAAAGTTCGGTGTTGCGACACC
ACATC
Found at i:65051641 original size:38 final size:38
Alignment explanation
Indices: 65051590--65051673 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
65051580 ATTTGATGTG
* * *
65051590 TATCCAGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCAGGATAAATCCCGCAGGCCTAGTGCTGGTATTA
* *
65051628 TATCCGGGATAAATCTCGCAGGCCTAGTGCTGGTATTA
1 TATCCAGGATAAATCCCGCAGGCCTAGTGCTGGTATTA
*
65051666 TATTCAGG
1 TATCCAGG
65051674 CCTTCGTGCC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (38 bp):
TATCCAGGATAAATCCCGCAGGCCTAGTGCTGGTATTA
Found at i:65052263 original size:43 final size:43
Alignment explanation
Indices: 65051666--65052250 Score: 1017
Period size: 43 Copynumber: 13.6 Consensus size: 43
65051656 GCTGGTATTA
* *
65051666 TATTCAGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
65051709 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
65051752 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
65051795 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
65051838 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
65051881 TATTCAGGCCTTCGTGCCCAGCAGGCTTTGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
65051924 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
65051967 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
65052010 TATTCAGGCCTTCGTGCCCAGCAGGCTTTGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
65052053 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
65052096 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
65052139 TATTCAGGCCTTCGTGCCCAGCAGGCTTTGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
65052182 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
65052225 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
65052251 GTAATGCCGG
Statistics
Matches: 510, Mismatches: 32, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 510 1.00
ACGTcount: A:0.10, C:0.25, G:0.34, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:65053873 original size:39 final size:38
Alignment explanation
Indices: 65053796--65053873 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 38
65053786 TTATGAGTAT
* *
65053796 TGTGATATATGCTTAAATGTTATATGATTATATGTGTAA
1 TGTGATATATGCTTAAAAGTAATATGATTATA-GTGTAA
*
65053835 TGTGATATATGCTTAAAAGTGAATGTGATTACTA-TGTAA
1 TGTGATATATGCTTAAAAGT-AATATGATTA-TAGTGTAA
65053874 ATGAACTAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 24 0.71
40 8 0.24
41 2 0.06
ACGTcount: A:0.35, C:0.04, G:0.19, T:0.42
Consensus pattern (38 bp):
TGTGATATATGCTTAAAAGTAATATGATTATAGTGTAA
Found at i:65055031 original size:24 final size:25
Alignment explanation
Indices: 65055003--65055066 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
65054993 TCAACCAAAT
* * *
65055003 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
65055027 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
65055052 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
65055067 TGAAATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:65055117 original size:24 final size:24
Alignment explanation
Indices: 65055090--65055139 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
65055080 CATGCATCGA
*
65055090 CATTCAAATCTGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
* *
65055114 CATTTAATTCCGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
65055138 CA
1 CA
65055140 ATGTTAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (24 bp):
CATTCAAATCCGCACACATAGTGC
Found at i:65055212 original size:94 final size:94
Alignment explanation
Indices: 65055095--65055470 Score: 707
Period size: 94 Copynumber: 4.0 Consensus size: 94
65055085 ATCGACATTC
* *
65055095 AAATCTGCACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
65055160 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
65055189 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
65055254 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
65055283 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
65055348 GGCAATTTACTTAATTCAAATAGCATATC
66 GGCAATTTACTTAATTCAAATAGCATATA
*
65055377 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
65055442 GGCAACTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
65055471 CGGTCACATT
Statistics
Matches: 276, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 276 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:65068519 original size:24 final size:25
Alignment explanation
Indices: 65068491--65068554 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
65068481 TCAACCAAAT
* * *
65068491 TCGCACACATAGTGCTA-ATTAAGC
1 TCGCACACATAGTGCCATACTAAAC
65068515 TCGCACACATAGTGCCATACTAAAC
1 TCGCACACATAGTGCCATACTAAAC
65068540 -CGCACACATAGTGCC
1 TCGCACACATAGTGCC
65068555 TGAAATTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 31 0.86
25 5 0.14
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.20
Consensus pattern (25 bp):
TCGCACACATAGTGCCATACTAAAC
Found at i:65068605 original size:24 final size:24
Alignment explanation
Indices: 65068578--65068627 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
65068568 CATGCATCGA
*
65068578 CATTCAAATCTGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
* *
65068602 CATTTAATTCCGCACACATAGTGC
1 CATTCAAATCCGCACACATAGTGC
65068626 CA
1 CA
65068628 ATGTTAACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (24 bp):
CATTCAAATCCGCACACATAGTGC
Found at i:65068700 original size:94 final size:94
Alignment explanation
Indices: 65068583--65069052 Score: 904
Period size: 94 Copynumber: 5.0 Consensus size: 94
65068573 ATCGACATTC
* *
65068583 AAATCTGCACACATAGTGCCATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
65068648 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
65068677 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
65068742 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
65068771 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
65068836 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
65068865 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
65068930 GGCAATTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
*
65068959 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAT
1 AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
*
65069024 GGCAACTTACTTAATTCAAATAGCATATA
66 GGCAATTTACTTAATTCAAATAGCATATA
65069053 CGGTCACATT
Statistics
Matches: 372, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 372 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.30
Consensus pattern (94 bp):
AAATCTGCACACAAAGTGACATTTAATTCCGCACACATAGTGCCAATGTTAACTCATTATAATAA
GGCAATTTACTTAATTCAAATAGCATATA
Found at i:65073836 original size:18 final size:19
Alignment explanation
Indices: 65073783--65073840 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
65073773 AAAGTTACAA
*
65073783 AAAAATTCAAAATATTTTT
1 AAAAATTCAAAATATTTAT
*
65073802 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
65073821 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
65073839 AA
1 AA
65073841 TTTTAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
18 8 0.23
19 27 0.77
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:65077870 original size:21 final size:19
Alignment explanation
Indices: 65077837--65077875 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
65077827 TTTCTTTATT
*
65077837 TTTTTTTCTTTCTTCCTTG
1 TTTTTTTCTTTCTCCCTTG
65077856 TTTTTTTCATCTTCTCCCTT
1 TTTTTTTC-T-TTCTCCCTT
65077876 CTAACCTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 1 0.06
21 8 0.47
ACGTcount: A:0.03, C:0.26, G:0.03, T:0.69
Consensus pattern (19 bp):
TTTTTTTCTTTCTCCCTTG
Found at i:65078898 original size:18 final size:18
Alignment explanation
Indices: 65078872--65078906 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65078862 TTCTAGATAA
*
65078872 GTTTGGAAACTATAAAAG
1 GTTTAGAAACTATAAAAG
*
65078890 GTTTAGAAATTATAAAA
1 GTTTAGAAACTATAAAA
65078907 AAAATATTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.03, G:0.17, T:0.31
Consensus pattern (18 bp):
GTTTAGAAACTATAAAAG
Found at i:65081327 original size:23 final size:24
Alignment explanation
Indices: 65081295--65081345 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
65081285 ACTCATTTAG
65081295 AAAATCT-AAAAATTATAAATATAA
1 AAAATCTAAAAAATTA-AAATATAA
65081319 AAAAT-TAAAAAATTAAAATATAA
1 AAAATCTAAAAAATTAAAATATAA
65081342 AAAA
1 AAAA
65081346 GTTGTAACGC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 13 0.50
24 13 0.50
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (24 bp):
AAAATCTAAAAAATTAAAATATAA
Found at i:65090022 original size:13 final size:14
Alignment explanation
Indices: 65090004--65090033 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
65089994 CTGTGTATTC
65090004 TTTA-TTTTATTTT
1 TTTATTTTTATTTT
65090017 TTTATTTTTATTTT
1 TTTATTTTTATTTT
65090031 TTT
1 TTT
65090034 CGTAACTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTATTTTTATTTT
Found at i:65090085 original size:36 final size:34
Alignment explanation
Indices: 65090002--65090086 Score: 80
Period size: 36 Copynumber: 2.4 Consensus size: 34
65089992 ATCTGTGTAT
* * *
65090002 TCTTTATTTTATTTTTTTATTTTTATTTTTTTCG
1 TCTTTTTTTTATTTTTTTATTTTTATTTTCTTCA
*** **
65090036 TAACTTTCATATTTTCTTTATTCTTTATTTTCTTCA
1 TCTTTTTTTTATTTT-TTTATT-TTTATTTTCTTCA
65090072 TCTTTTTTTTATTTT
1 TCTTTTTTTTATTTT
65090087 ATAACACGTT
Statistics
Matches: 36, Mismatches: 13, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
34 9 0.25
35 6 0.17
36 21 0.58
ACGTcount: A:0.14, C:0.11, G:0.01, T:0.74
Consensus pattern (34 bp):
TCTTTTTTTTATTTTTTTATTTTTATTTTCTTCA
Found at i:65108365 original size:5 final size:5
Alignment explanation
Indices: 65108355--65108413 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
65108345 AGGAATCAAA
* * * *
65108355 AAAAT AAAAT AAAAT --AAT AAAAT TAAAG AAAAT ATAAAT TAAAG AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT
65108404 ATAAAT AAAA
1 A-AAAT AAAA
65108414 ACTTAAATTA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
3 3 0.07
5 30 0.71
6 9 0.21
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:65108373 original size:13 final size:13
Alignment explanation
Indices: 65108352--65108414 Score: 63
Period size: 16 Copynumber: 4.4 Consensus size: 13
65108342 ATAAGGAATC
65108352 AAAAAAATAAAAT
1 AAAAAAATAAAAT
*
65108365 AAAATAATAAAATT
1 AAAAAAATAAAA-T
65108379 AAAGAAAATATAAATT
1 AAA-AAAATA-AAA-T
65108395 AAAGAAAATATAAAT
1 AAA-AAAATA-AAAT
65108410 AAAAA
1 AAAAA
65108415 CTTAAATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
13 11 0.24
14 6 0.13
15 9 0.20
16 19 0.42
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:65108395 original size:16 final size:16
Alignment explanation
Indices: 65108370--65108409 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
65108360 AAAATAAAAT
65108370 AATA-AAATTAAAGAA
1 AATATAAATTAAAGAA
65108385 AATATAAATTAAAGAA
1 AATATAAATTAAAGAA
65108401 AATATAAAT
1 AATATAAAT
65108410 AAAAACTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (16 bp):
AATATAAATTAAAGAA
Found at i:65119822 original size:13 final size:12
Alignment explanation
Indices: 65119785--65119824 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
65119775 ACCCATATAA
65119785 TATTTTTTTCTTT
1 TATTTTTTT-TTT
*
65119798 TCTTTTTTTTTT
1 TATTTTTTTTTT
65119810 TATTTTTTGTTTT
1 TATTTTTT-TTTT
65119823 TA
1 TA
65119825 CACTTTTTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.07, C:0.05, G:0.03, T:0.85
Consensus pattern (12 bp):
TATTTTTTTTTT
Found at i:65124896 original size:40 final size:40
Alignment explanation
Indices: 65124836--65124969 Score: 189
Period size: 40 Copynumber: 3.4 Consensus size: 40
65124826 CGGTTGTTTG
* * *
65124836 TGGCACTTAGTGTGCAATACGACATAGCTTCGGCTATATA
1 TGGCACTTAATGTGCGATACGACATAGCTTCAGCTATATA
*
65124876 TGGCACTTAATGTGCGATACGATATAGCTTCAGCTATATA
1 TGGCACTTAATGTGCGATACGACATAGCTTCAGCTATATA
* * *
65124916 TGGCAC-TAAGTGTGCGATTCGACATAGCTTCTGCTATACA
1 TGGCACTTAA-TGTGCGATACGACATAGCTTCAGCTATATA
65124956 TGGCACTTAATGTG
1 TGGCACTTAATGTG
65124970 AGACTTGAGA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.04
40 78 0.93
41 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (40 bp):
TGGCACTTAATGTGCGATACGACATAGCTTCAGCTATATA
Found at i:65124983 original size:40 final size:39
Alignment explanation
Indices: 65124836--65124986 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 39
65124826 CGGTTGTTTG
* * * *
65124836 TGGCACTTAGTGTGCAATACGACATAGCTTCGGCTATATA
1 TGGCACTTAATGTGCGAT-TGACATAGCTTCAGCTATATA
* *
65124876 TGGCACTTAATGTGCGATACGATATAGCTTCAGCTATATA
1 TGGCACTTAATGTGCGAT-TGACATAGCTTCAGCTATATA
* *
65124916 TGGCAC-TAAGTGTGCGATTCGACATAGCTTCTGCTATACA
1 TGGCACTTAA-TGTGCGATT-GACATAGCTTCAGCTATATA
* *
65124956 TGGCACTTAATGTGAGACTTGAGATAGCTTC
1 TGGCACTTAATGTGCGA-TTGACATAGCTTC
65124987 GGCTGGTACG
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.03
40 89 0.92
41 5 0.05
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (39 bp):
TGGCACTTAATGTGCGATTGACATAGCTTCAGCTATATA
Found at i:65124983 original size:80 final size:80
Alignment explanation
Indices: 65124836--65124986 Score: 214
Period size: 80 Copynumber: 1.9 Consensus size: 80
65124826 CGGTTGTTTG
* * * *
65124836 TGGCACTTAGTGTGCAATACGACATAGCTTCGGCTATATATGGCACTTAATGTGCGATACGATAT
1 TGGCACTAAGTGTGCAATACGACATAGCTTCGGCTATACATGGCACTTAATGTGAGATACGAGAT
65124901 AGCTTCAGCTATATA
66 AGCTTCAGCTATATA
* * * *
65124916 TGGCACTAAGTGTGCGATTCGACATAGCTTCTGCTATACATGGCACTTAATGTGAGACT-TGAGA
1 TGGCACTAAGTGTGCAATACGACATAGCTTCGGCTATACATGGCACTTAATGTGAGA-TACGAGA
65124980 TAGCTTC
65 TAGCTTC
65124987 GGCTGGTACG
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 61 0.98
81 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (80 bp):
TGGCACTAAGTGTGCAATACGACATAGCTTCGGCTATACATGGCACTTAATGTGAGATACGAGAT
AGCTTCAGCTATATA
Found at i:65137142 original size:20 final size:20
Alignment explanation
Indices: 65137117--65137156 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
65137107 CATTTTATGA
65137117 ATGATTTTCCATTAAAATTG
1 ATGATTTTCCATTAAAATTG
*
65137137 ATGATTTTCCATTAGAATTG
1 ATGATTTTCCATTAAAATTG
65137157 GTGAATTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
ATGATTTTCCATTAAAATTG
Found at i:65141064 original size:13 final size:14
Alignment explanation
Indices: 65141046--65141074 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
65141036 AATTGTTTTA
65141046 AAGGTTAA-TTAGT
1 AAGGTTAATTTAGT
65141059 AAGGTTAATTTAGT
1 AAGGTTAATTTAGT
65141073 AA
1 AA
65141075 ATTAGCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (14 bp):
AAGGTTAATTTAGT
Found at i:65141918 original size:40 final size:40
Alignment explanation
Indices: 65141873--65142045 Score: 215
Period size: 40 Copynumber: 4.3 Consensus size: 40
65141863 CGGTTATTTG
*
65141873 TGGCACTTAGTGTGTGATACGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATACGACATAGCTTCGGCTATATA
* *
65141913 TGGCACTTAGTGTGCGATAAGATATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATACGACATAGCTTCGGCTATATA
* * * *
65141953 TGGCACTTAGTATGCGATTCAACATAGCTTTGGCTATATA
1 TGGCACTTAGTGTGCGATACGACATAGCTTCGGCTATATA
* * *
65141993 TGGCACTTAGTGTGCGACT-TGAGATAGCTTCGGCTA-GTA
1 TGGCACTTAGTGTGCGA-TACGACATAGCTTCGGCTATATA
* *
65142032 CGACACTTAGTGTG
1 TGGCACTTAGTGTG
65142046 TGAGATATCG
Statistics
Matches: 115, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 14 0.12
40 100 0.87
41 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATACGACATAGCTTCGGCTATATA
Found at i:65142086 original size:28 final size:28
Alignment explanation
Indices: 65142035--65142088 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
65142025 GCTAGTACGA
** *
65142035 CACTTAGTGTGTGAGATATCGAGTATGG
1 CACTTAGTGTGCAAGACATCGAGTATGG
*
65142063 CACTTAGTGTGCAAGACATTGAGTAT
1 CACTTAGTGTGCAAGACATCGAGTAT
65142089 TCAACGACAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (28 bp):
CACTTAGTGTGCAAGACATCGAGTATGG
Found at i:65143829 original size:25 final size:25
Alignment explanation
Indices: 65143793--65143841 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
65143783 ACATGACTTT
*
65143793 ATATGTTACCTTTGTGGCATATTCC
1 ATATGTTACCTTTATGGCATATTCC
*
65143818 ATATGTTGCCTTTATGGCATATTC
1 ATATGTTACCTTTATGGCATATTC
65143842 TGTTTGGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (25 bp):
ATATGTTACCTTTATGGCATATTCC
Found at i:65156127 original size:26 final size:26
Alignment explanation
Indices: 65156096--65156177 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
65156086 TGAAATGCCC
65156096 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
65156122 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
65156148 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
65156174 ATCA
1 ATCA
65156178 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:65161445 original size:22 final size:22
Alignment explanation
Indices: 65161420--65161485 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
65161410 AAACTATCGA
65161420 TTTTGTATTATTAGAAAAACCC
1 TTTTGTATTATTAGAAAAACCC
* * *
65161442 TTTTG----CTTAG-AAATCCA
1 TTTTGTATTATTAGAAAAACCC
65161459 TTTTGTATTATTAGAAAAACCC
1 TTTTGTATTATTAGAAAAACCC
*
65161481 ATTTG
1 TTTTG
65161486 CGTAAAAACT
Statistics
Matches: 32, Mismatches: 7, Indels: 10
0.65 0.14 0.20
Matches are distributed among these distances:
17 10 0.31
18 4 0.12
21 4 0.12
22 14 0.44
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (22 bp):
TTTTGTATTATTAGAAAAACCC
Found at i:65161603 original size:17 final size:17
Alignment explanation
Indices: 65161581--65161615 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
65161571 CAGTCTAGAG
65161581 AGTCCCAAAAATTACAA
1 AGTCCCAAAAATTACAA
65161598 AGTCCCAAAAATTACAA
1 AGTCCCAAAAATTACAA
65161615 A
1 A
65161616 CTTTCAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.23, G:0.06, T:0.17
Consensus pattern (17 bp):
AGTCCCAAAAATTACAA
Found at i:65166865 original size:20 final size:20
Alignment explanation
Indices: 65166842--65166907 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
65166832 CAGAAATGTG
*
65166842 GACAAGCCATCAGTATTGTA
1 GACAAGCCAACAGTATTGTA
** * * *
65166862 GACAAGATAACAGTAATCTG
1 GACAAGCCAACAGTATTGTA
* *
65166882 GACAAGCCACCAGTATTGCA
1 GACAAGCCAACAGTATTGTA
65166902 GACAAG
1 GACAAG
65166908 TTACTAGTAA
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (20 bp):
GACAAGCCAACAGTATTGTA
Found at i:65166896 original size:40 final size:40
Alignment explanation
Indices: 65166840--65166943 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
65166830 GTCAGAAATG
* *
65166840 TGGACAAGCCATCAGTATTGTAGACAAGATAAC-AGTAATC
1 TGGACAAGCCACCAGTATTGCAGACAAG-TAACTAGTAATC
* *
65166880 TGGACAAGCCACCAGTATTGCAGACAAGTTACTAGTAATG
1 TGGACAAGCCACCAGTATTGCAGACAAGTAACTAGTAATC
* *
65166920 TGGACAAGCCACCAATAATGCAGA
1 TGGACAAGCCACCAGTATTGCAGA
65166944 TAAACTACTA
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 3 0.05
40 54 0.95
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.20
Consensus pattern (40 bp):
TGGACAAGCCACCAGTATTGCAGACAAGTAACTAGTAATC
Found at i:65166916 original size:20 final size:20
Alignment explanation
Indices: 65166882--65167020 Score: 66
Period size: 20 Copynumber: 7.0 Consensus size: 20
65166872 CAGTAATCTG
* * *
65166882 GACAAGCCACCAGTATTGCA
1 GACAAGCTACTAGTAATGCA
* **
65166902 GACAAGTTACTAGTAATGTG
1 GACAAGCTACTAGTAATGCA
* * *
65166922 GACAAGCCACCAATAATGCA
1 GACAAGCTACTAGTAATGCA
* * *
65166942 GATAAACTACTAGTATTGCA
1 GACAAGCTACTAGTAATGCA
* * *
65166962 GACAACCTGCTAGT-ATTCTA
1 GACAAGCTACTAGTAATGC-A
* * *
65166982 GACAAGCAACCAG-AATTACA
1 GACAAGCTACTAGTAA-TGCA
* *
65167002 GACAACCTATTAGTAATGC
1 GACAAGCTACTAGTAATGC
65167021 CTTTTTCCAA
Statistics
Matches: 82, Mismatches: 33, Indels: 8
0.67 0.27 0.07
Matches are distributed among these distances:
19 2 0.02
20 76 0.93
21 4 0.05
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (20 bp):
GACAAGCTACTAGTAATGCA
Found at i:65166953 original size:40 final size:40
Alignment explanation
Indices: 65166836--65166956 Score: 129
Period size: 40 Copynumber: 3.0 Consensus size: 40
65166826 AACTGTCAGA
* * *
65166836 AATGTGGACAAGCCATCAGTATTGTAGACAAGA-TAAC-AGT
1 AATGTGGACAAGCCACCAGTAATGCAGACAA-ACT-ACTAGT
* * **
65166876 AATCTGGACAAGCCACCAGTATTGCAGACAAGTTACTAGT
1 AATGTGGACAAGCCACCAGTAATGCAGACAAACTACTAGT
* *
65166916 AATGTGGACAAGCCACCAATAATGCAGATAAACTACTAGT
1 AATGTGGACAAGCCACCAGTAATGCAGACAAACTACTAGT
65166956 A
1 A
65166957 TTGCAGACAA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.03
40 67 0.97
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (40 bp):
AATGTGGACAAGCCACCAGTAATGCAGACAAACTACTAGT
Found at i:65166966 original size:40 final size:40
Alignment explanation
Indices: 65166882--65166966 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
65166872 CAGTAATCTG
* * ** **
65166882 GACAAGCCACCAGTATTGCAGACAAGTTACTAGTAATGTG
1 GACAAGCCACCAATAATGCAGACAAACTACTAGTAATGCA
* *
65166922 GACAAGCCACCAATAATGCAGATAAACTACTAGTATTGCA
1 GACAAGCCACCAATAATGCAGACAAACTACTAGTAATGCA
65166962 GACAA
1 GACAA
65166967 CCTGCTAGTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.20
Consensus pattern (40 bp):
GACAAGCCACCAATAATGCAGACAAACTACTAGTAATGCA
Found at i:65168901 original size:17 final size:17
Alignment explanation
Indices: 65168881--65168917 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
65168871 TATCAAAAGT
65168881 ATAAACCAAAGATTTCA
1 ATAAACCAAAGATTTCA
*
65168898 ATAAACCAAAGATTTTA
1 ATAAACCAAAGATTTCA
65168915 ATA
1 ATA
65168918 TCGTCCCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (17 bp):
ATAAACCAAAGATTTCA
Found at i:65169562 original size:48 final size:48
Alignment explanation
Indices: 65169139--65169564 Score: 407
Period size: 48 Copynumber: 8.9 Consensus size: 48
65169129 GGGTGAATTA
* * **
65169139 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCACGTCGA-GG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGG
* * * * **
65169187 TCGATGCCATGTCCCAGACATGGTCTTACACTAGTTCACATCCCAAT-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGG
* * *
65169235 CCGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCATAAT-GTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCATGG
* * *
65169283 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAAT-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGG
* * * * * *
65169331 TCAATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCACAACATCG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGG
* * * *
65169379 CCGATGCCATGTTCCAAACATAGTCTTACACTGGCTCTCATATCGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGG
* * * * *
65169427 CCGATGCCATGTCCCAGACTTGGTCTT---TTGGCTCTCACAACATCG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGG
* * * **
65169472 CCGATGCCATGTTCCAAACATGGTCCTACACTGGCTCTCATATTGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGG
* * * *
65169520 CCGATGTCATGTCCCAAACATGGTCTTACACTGGCACACATATCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCA
65169565 CCCAAATGTC
Statistics
Matches: 304, Mismatches: 65, Indels: 18
0.79 0.17 0.05
Matches are distributed among these distances:
45 36 0.12
47 5 0.02
48 262 0.86
49 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGG
Found at i:65169796 original size:101 final size:101
Alignment explanation
Indices: 65169621--65169818 Score: 396
Period size: 101 Copynumber: 2.0 Consensus size: 101
65169611 GGGAATTTAT
65169621 CGCATTAATTTCATCATACATTATTCATAATCATATTCAACCATATTATGCAAAATAAATCATTC
1 CGCATTAATTTCATCATACATTATTCATAATCATATTCAACCATATTATGCAAAATAAATCATTC
65169686 AACACATAATAACGATAAAGCTACCTTACTTACGTC
66 AACACATAATAACGATAAAGCTACCTTACTTACGTC
65169722 CGCATTAATTTCATCATACATTATTCATAATCATATTCAACCATATTATGCAAAATAAATCATTC
1 CGCATTAATTTCATCATACATTATTCATAATCATATTCAACCATATTATGCAAAATAAATCATTC
65169787 AACACATAATAACGATAAAGCTACCTTACTTA
66 AACACATAATAACGATAAAGCTACCTTACTTA
65169819 TGTACAACTT
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 97 1.00
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (101 bp):
CGCATTAATTTCATCATACATTATTCATAATCATATTCAACCATATTATGCAAAATAAATCATTC
AACACATAATAACGATAAAGCTACCTTACTTACGTC
Found at i:65172540 original size:17 final size:17
Alignment explanation
Indices: 65172520--65172556 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
65172510 AAAATAGGTT
*
65172520 AAATAGATAAAAAGAAA
1 AAATAAATAAAAAGAAA
*
65172537 AAATAAATAAAAATAAA
1 AAATAAATAAAAAGAAA
65172554 AAA
1 AAA
65172557 AACGAAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (17 bp):
AAATAAATAAAAAGAAA
Found at i:65173998 original size:7 final size:7
Alignment explanation
Indices: 65173968--65174005 Score: 55
Period size: 6 Copynumber: 5.9 Consensus size: 7
65173958 GATTTTCTCA
65173968 AAATG-G
1 AAATGAG
65173974 AAATG-G
1 AAATGAG
65173980 AAATGA-
1 AAATGAG
65173986 AAATGAG
1 AAATGAG
65173993 AAATGAG
1 AAATGAG
65174000 AAATGA
1 AAATGA
65174006 TTCATTTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 17 0.57
7 13 0.43
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (7 bp):
AAATGAG
Found at i:65175433 original size:21 final size:21
Alignment explanation
Indices: 65175409--65175461 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
65175399 GTTGCTATAA
65175409 TGACAG-TCGGTTAGAGTCACC
1 TGACAGCT-GGTTAGAGTCACC
65175430 TGACAGCTGGTTAGAGTCACC
1 TGACAGCTGGTTAGAGTCACC
65175451 TGACAGCTGGT
1 TGACAGCTGGT
65175462 AAACATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (21 bp):
TGACAGCTGGTTAGAGTCACC
Found at i:65177240 original size:17 final size:20
Alignment explanation
Indices: 65177201--65177241 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
65177191 ATTAAAGTAA
65177201 GATTTTTGATCGTTTTTGAT
1 GATTTTTGATCGTTTTTGAT
65177221 GATTTTT-A-CGTTTTTG-T
1 GATTTTTGATCGTTTTTGAT
65177238 GATT
1 GATT
65177242 GTTGCTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 8 0.38
19 1 0.05
20 7 0.33
ACGTcount: A:0.15, C:0.05, G:0.20, T:0.61
Consensus pattern (20 bp):
GATTTTTGATCGTTTTTGAT
Found at i:65179836 original size:42 final size:42
Alignment explanation
Indices: 65179728--65179889 Score: 175
Period size: 43 Copynumber: 3.8 Consensus size: 42
65179718 TTCCGATATG
* *
65179728 TGATTTCGTGTAAGACCACGTTTGGGACTTTGGCATCG-ATT
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGTATT
* *
65179769 TGAGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATA
1 T--GATTT-CGTGTAAGACCACGTCTGGGACATTGGCATCGTATT
* * *
65179814 TGATTTCGTGTAAGACC-CTGTCTAGGATAATGGCATCGATATT
1 TGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCATCG-TATT
** *
65179857 TGATAACATGTAAGACCACGTCTGGGACATTGG
1 TGATTTCGTGTAAGACCACGTCTGGGACATTGG
65179890 TATTGTATGA
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
41 1 0.01
42 27 0.27
43 38 0.38
44 30 0.30
45 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGTATT
Found at i:65180658 original size:12 final size:12
Alignment explanation
Indices: 65180637--65180665 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
65180627 TTGGTATGCT
65180637 TTGA-TATGAAA
1 TTGATTATGAAA
65180648 TTGATTATGAAA
1 TTGATTATGAAA
65180660 TTGATT
1 TTGATT
65180666 GGTGATATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (12 bp):
TTGATTATGAAA
Found at i:65183221 original size:31 final size:30
Alignment explanation
Indices: 65183146--65183225 Score: 117
Period size: 29 Copynumber: 2.7 Consensus size: 30
65183136 AGCTCCGGCT
*
65183146 ATCAAACTATGAAAAGGGATGGTGACGACC
1 ATCAAAATATGAAAAGGGATGGTGACGACC
* *
65183176 ATCAACA-ATGAAAAGGGATGGTGATGACC
1 ATCAAAATATGAAAAGGGATGGTGACGACC
65183205 ATCAAAATTATGAAAAGGGAT
1 ATCAAAA-TATGAAAAGGGAT
65183226 AACTTCAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 27 0.61
30 5 0.11
31 12 0.27
ACGTcount: A:0.44, C:0.12, G:0.25, T:0.19
Consensus pattern (30 bp):
ATCAAAATATGAAAAGGGATGGTGACGACC
Found at i:65183246 original size:30 final size:30
Alignment explanation
Indices: 65183210--65183345 Score: 173
Period size: 30 Copynumber: 4.5 Consensus size: 30
65183200 TGACCATCAA
* * *
65183210 AATTATGAAAAGGGATAACTTCAACTATTG
1 AATTATGAAAAGGGATAGCTTCAGCTATCG
*
65183240 AATTATGAAAAGGGATAGCTTCGGCTATCG
1 AATTATGAAAAGGGATAGCTTCAGCTATCG
* * **
65183270 AATTACGAAAATGGATAGCTTTGGCTATCG
1 AATTATGAAAAGGGATAGCTTCAGCTATCG
* *
65183300 AATCATGAAAAGGGATAGCTTTAGCTATCG
1 AATTATGAAAAGGGATAGCTTCAGCTATCG
*
65183330 AATTATGGAAAGGGAT
1 AATTATGAAAAGGGAT
65183346 GTGTCAACCA
Statistics
Matches: 93, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 93 1.00
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.28
Consensus pattern (30 bp):
AATTATGAAAAGGGATAGCTTCAGCTATCG
Found at i:65183280 original size:120 final size:120
Alignment explanation
Indices: 65183066--65183285 Score: 278
Period size: 120 Copynumber: 1.8 Consensus size: 120
65183056 TCGAGCTATA
* * * * **
65183066 AAAAGGGATGGTGACGACTATAAAAAATATGAAAGGGGGTAGCTTCGGCTACCGAATCATGAAAA
1 AAAAGGGATGGTGACGACCATAAAAAATATGAAAAGGGATAACTTCAACTACCGAATCATGAAAA
*
65183131 AGGATAGCTCCGGCTATCAAACTATGAAAAGGGATGGTGACGACCATCAACAATG
66 AGGATAGCTCCGGCTATCAAACTACGAAAAGGGATGGTGACGACCATCAACAATG
* * * ** *
65183186 AAAAGGGATGGTGATGACCATCAAAATTATGAAAAGGGATAACTTCAACTATTGAATTATGAAAA
1 AAAAGGGATGGTGACGACCATAAAAAATATGAAAAGGGATAACTTCAACTACCGAATCATGAAAA
* * * * *
65183251 GGGATAGCTTCGGCTATCGAATTACGAAAATGGAT
66 AGGATAGCTCCGGCTATCAAACTACGAAAAGGGAT
65183286 AGCTTTGGCT
Statistics
Matches: 82, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
120 82 1.00
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (120 bp):
AAAAGGGATGGTGACGACCATAAAAAATATGAAAAGGGATAACTTCAACTACCGAATCATGAAAA
AGGATAGCTCCGGCTATCAAACTACGAAAAGGGATGGTGACGACCATCAACAATG
Found at i:65195756 original size:21 final size:22
Alignment explanation
Indices: 65195730--65195770 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
65195720 AAGTAGTTAG
65195730 ATTTAATA-GAAAATAAAAAAA
1 ATTTAATATGAAAATAAAAAAA
*
65195751 ATTTAATATGAGAATAAAAA
1 ATTTAATATGAAAATAAAAA
65195771 GTATTGGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (22 bp):
ATTTAATATGAAAATAAAAAAA
Found at i:65196589 original size:19 final size:20
Alignment explanation
Indices: 65196555--65196592 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
65196545 ACAAGGACTA
*
65196555 AATAAATCATTCAAATATTC
1 AATAAATCACTCAAATATTC
65196575 AATAAA-CACTCAAATATT
1 AATAAATCACTCAAATATT
65196593 ATGATATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (20 bp):
AATAAATCACTCAAATATTC
Found at i:65197736 original size:17 final size:17
Alignment explanation
Indices: 65197695--65197737 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
65197685 AAACAAGGGA
*
65197695 CACACGCCCGTGTGTCT
1 CACACGGCCGTGTGTCT
* *
65197712 CGCCCGGCCGTGTGTCT
1 CACACGGCCGTGTGTCT
*
65197729 CATACGGCC
1 CACACGGCC
65197738 AACAGACACG
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.09, C:0.42, G:0.28, T:0.21
Consensus pattern (17 bp):
CACACGGCCGTGTGTCT
Found at i:65203819 original size:45 final size:44
Alignment explanation
Indices: 65203706--65203869 Score: 226
Period size: 44 Copynumber: 3.8 Consensus size: 44
65203696 TACGGTATTA
*
65203706 ATCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATGAT
1 ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGAT
* * *
65203750 ATCGGGCCTTTGAGCCTAGCAGGCTATAATGTCGGTGAGAT-ACT
1 ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA-T
*
65203794 ATTCGGGCCTTCGAGCCTAGTAGGCTATAATGCCGGTGAAATGAT
1 A-TCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGAT
* *
65203839 ATCAGG-CTTCGAGCCTAGCAGGCGA-AATGCC
1 ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCC
65203870 AGTGGATGAA
Statistics
Matches: 108, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
42 6 0.06
43 18 0.17
44 45 0.42
45 38 0.35
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (44 bp):
ATCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGAT
Found at i:65208136 original size:16 final size:16
Alignment explanation
Indices: 65208115--65208150 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
65208105 ATGGTTTCAT
* *
65208115 TATTTTTTTTAAATGA
1 TATTTTTATTAAATAA
65208131 TATTTTTATTAAATAA
1 TATTTTTATTAAATAA
65208147 TATT
1 TATT
65208151 ATAATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TATTTTTATTAAATAA
Found at i:65217175 original size:7 final size:7
Alignment explanation
Indices: 65217163--65217260 Score: 54
Period size: 7 Copynumber: 13.6 Consensus size: 7
65217153 CATCAACTGT
65217163 GGTTTAG
1 GGTTTAG
65217170 GGTTTAG
1 GGTTTAG
*
65217177 GGTTTTG
1 GGTTTAG
*
65217184 AGGTTTAA
1 -GGTTTAG
* *
65217192 TGTTTAA
1 GGTTTAG
*
65217199 GGTTTAA
1 GGTTTAG
*
65217206 GATTTATG
1 GGTTTA-G
** *
65217214 ATTTTAT
1 GGTTTAG
65217221 GGTTTAG
1 GGTTTAG
65217228 GGTTTTAG
1 GG-TTTAG
65217236 GGTTTA-
1 GGTTTAG
**
65217242 AATTTAG
1 GGTTTAG
65217249 GGTTTGAG
1 GGTTT-AG
65217257 GGTT
1 GGTT
65217261 CGTAAATTTA
Statistics
Matches: 69, Mismatches: 17, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
6 4 0.06
7 43 0.62
8 22 0.32
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (7 bp):
GGTTTAG
Found at i:65217248 original size:21 final size:22
Alignment explanation
Indices: 65217223--65217271 Score: 73
Period size: 21 Copynumber: 2.2 Consensus size: 22
65217213 GATTTTATGG
*
65217223 TTTAGGGTTTTAGGGTT-TAAA
1 TTTAGGGTTTGAGGGTTCTAAA
65217244 TTTAGGGTTTGAGGGTTCGTAAA
1 TTTAGGGTTTGAGGGTTC-TAAA
65217267 TTTAG
1 TTTAG
65217272 CTCTGGCAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 16 0.64
23 9 0.36
ACGTcount: A:0.22, C:0.02, G:0.31, T:0.45
Consensus pattern (22 bp):
TTTAGGGTTTGAGGGTTCTAAA
Found at i:65218945 original size:34 final size:36
Alignment explanation
Indices: 65218907--65218976 Score: 83
Period size: 34 Copynumber: 2.0 Consensus size: 36
65218897 AAACTGCTCA
65218907 TAAATCAA-AGATAAAAACAGA-AATG-AAACAAAAT
1 TAAAT-AATAGATAAAAACAGATAATGAAAACAAAAT
* **
65218941 TAAATAATTGATAGCAACAGATAATGAAAACAAAAT
1 TAAATAATAGATAAAAACAGATAATGAAAACAAAAT
65218977 GAAAGTAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
33 2 0.07
34 15 0.50
35 4 0.13
36 9 0.30
ACGTcount: A:0.63, C:0.09, G:0.10, T:0.19
Consensus pattern (36 bp):
TAAATAATAGATAAAAACAGATAATGAAAACAAAAT
Found at i:65221951 original size:49 final size:49
Alignment explanation
Indices: 65221886--65222012 Score: 168
Period size: 49 Copynumber: 2.6 Consensus size: 49
65221876 ATCAAAGTCG
*
65221886 ATGCCATATCCCAGACAGGTCTTACACT-GACTTTCATATATCGAG-GTCA
1 ATGCCATATCCCAGACAGGTCTTACACTAG-CTCTCATATATCG-GTGTCA
* * * *
65221935 ATGCCATGTCCTAGACAGGTCTTACACTAGCTCTCATCTATCGGTGTCG
1 ATGCCATATCCCAGACAGGTCTTACACTAGCTCTCATATATCGGTGTCA
*
65221984 ATACCATATCCCAGACAGGTCTTACACTA
1 ATGCCATATCCCAGACAGGTCTTACACTA
65222013 ACACACAACA
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
48 1 0.01
49 66 0.97
50 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (49 bp):
ATGCCATATCCCAGACAGGTCTTACACTAGCTCTCATATATCGGTGTCA
Found at i:65222099 original size:48 final size:48
Alignment explanation
Indices: 65222032--65222195 Score: 233
Period size: 48 Copynumber: 3.5 Consensus size: 48
65222022 AAGCTAACGC
* *
65222032 CATGTCCCAAACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* ** * *
65222080 CATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
* *
65222126 CATGTCCCAGACATGTCTTACACTGGCTTGTATATCTCGAGGCCGATA
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
65222174 CATGTCCCAGACATGTCTTACA
1 CATGTCCCAGACATGTCTTACA
65222196 GTGCCTCTCG
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
46 38 0.38
47 4 0.04
48 58 0.58
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
Found at i:65222220 original size:94 final size:93
Alignment explanation
Indices: 65222032--65222246 Score: 292
Period size: 94 Copynumber: 2.3 Consensus size: 93
65222022 AAGCTAACGC
* * *
65222032 CATGTCCCAAACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATACATGTCCCAGACATGTC
65222097 TTACACTAGCTCTCGTCTCAATGCCGATG
66 TTACACTAGCTCTCG-CTCAATGCCGATG
*
65222126 CATGTCCCAGACATGTCTTACACTGGCTTGTATATCTCGAGGCCGATACATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATACATGTCCCAGACATGTC
* *
65222191 TTACAGT-GCCTCTCG-T-AATGTGGCTGATG
66 TTACACTAG-CTCTCGCTCAA--T-GCCGATG
* *
65222220 CATGTCTCAGACATTTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
65222247 ACACATATCA
Statistics
Matches: 108, Mismatches: 9, Indels: 8
0.86 0.07 0.06
Matches are distributed among these distances:
91 2 0.02
92 1 0.01
93 2 0.02
94 103 0.95
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGGCCGATACATGTCCCAGACATGTC
TTACACTAGCTCTCGCTCAATGCCGATG
Found at i:65222923 original size:20 final size:20
Alignment explanation
Indices: 65222898--65222936 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
65222888 ACAATTTTAA
65222898 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
65222918 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
65222937 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:65230037 original size:29 final size:28
Alignment explanation
Indices: 65229982--65230096 Score: 106
Period size: 29 Copynumber: 4.0 Consensus size: 28
65229972 GTGAGCATGA
* * *
65229982 ATATGAATGTGACTAGGCCTAACGGGCC
1 ATATAAATGTGATTAGGCCTAATGGGCC
65230010 ATATAAATGTGATTTAGGCCTAATGGGCC
1 ATATAAATGTGA-TTAGGCCTAATGGGCC
* *
65230039 ATATACAGGTGATTTTA-GCCTAATGGGCC
1 ATATAAATGTGA--TTAGGCCTAATGGGCC
* * * * *
65230068 AAATGAATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTAGGCCTAATGGGCC
65230096 A
1 A
65230097 GATACAGGTA
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.32
29 43 0.60
30 4 0.06
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (28 bp):
ATATAAATGTGATTAGGCCTAATGGGCC
Found at i:65234548 original size:29 final size:29
Alignment explanation
Indices: 65234493--65234607 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 29
65234483 GTGAGCATGA
* * *
65234493 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
65234521 ATATAAATGTGATTTAGGCCTAATGGGCT
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * *
65234550 ATATACAGGTGATTTGGGCCTAATGGGTC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * *
65234579 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
65234607 A
1 A
65234608 GATATAGGTA
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
28 26 0.37
29 44 0.63
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.30
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:65239179 original size:3 final size:3
Alignment explanation
Indices: 65239171--65239208 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
65239161 ATACAAAAAT
65239171 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
65239209 GCAAGGTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:65247789 original size:26 final size:26
Alignment explanation
Indices: 65247753--65247838 Score: 154
Period size: 26 Copynumber: 3.3 Consensus size: 26
65247743 AGACATGAAA
65247753 CATTATCATGGAACATTTACCTAACC
1 CATTATCATGGAACATTTACCTAACC
* *
65247779 CATTATCATGGAATATTTACCTAATC
1 CATTATCATGGAACATTTACCTAACC
65247805 CATTATCATGGAACATTTACCTAACC
1 CATTATCATGGAACATTTACCTAACC
65247831 CATTATCA
1 CATTATCA
65247839 ATTTGTACCA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
CATTATCATGGAACATTTACCTAACC
Found at i:65249345 original size:43 final size:43
Alignment explanation
Indices: 65249280--65249365 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
65249270 GTCAGACATT
65249280 TCCCTACAAACTCCGTTACTTCTCGCTTAAGTCCAGGCCACCA
1 TCCCTACAAACTCCGTTACTTCTCGCTTAAGTCCAGGCCACCA
* *
65249323 TCCCTACAAACTCCGTTGCTTCTCGTTTAAGTCCAGGCCACCA
1 TCCCTACAAACTCCGTTACTTCTCGCTTAAGTCCAGGCCACCA
65249366 GTACAATTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.22, C:0.38, G:0.13, T:0.27
Consensus pattern (43 bp):
TCCCTACAAACTCCGTTACTTCTCGCTTAAGTCCAGGCCACCA
Found at i:65254841 original size:26 final size:26
Alignment explanation
Indices: 65254810--65254917 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
65254800 TGAAATGCCC
*
65254810 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
65254836 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
65254862 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
65254888 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
65254914 ATCA
1 ATCA
65254918 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:65255955 original size:59 final size:59
Alignment explanation
Indices: 65255888--65256005 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
65255878 GCTAAAATCA
*
65255888 TTTTGAAGTTCGAATAAGATGGTGTTTATGTTTGGAAGATATATGTTATATTGCAGAAT
1 TTTTGAAGTTAGAATAAGATGGTGTTTATGTTTGGAAGATATATGTTATATTGCAGAAT
65255947 TTTTGAAGTTAGAATAAGATGGTGTTTATGTTTGGAAGATATATGTTATATTGCAGAAT
1 TTTTGAAGTTAGAATAAGATGGTGTTTATGTTTGGAAGATATATGTTATATTGCAGAAT
65256006 GAGATGAAAC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.31, C:0.03, G:0.24, T:0.42
Consensus pattern (59 bp):
TTTTGAAGTTAGAATAAGATGGTGTTTATGTTTGGAAGATATATGTTATATTGCAGAAT
Found at i:65276685 original size:17 final size:18
Alignment explanation
Indices: 65276657--65276696 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
65276647 ATGTATTAAA
65276657 TTGAATTGAAATT-AAAT
1 TTGAATTGAAATTGAAAT
65276674 TATGAA-TGAAATTGAAAT
1 T-TGAATTGAAATTGAAAT
65276692 TTGAA
1 TTGAA
65276697 AGTTTATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (18 bp):
TTGAATTGAAATTGAAAT
Found at i:65278072 original size:40 final size:40
Alignment explanation
Indices: 65278002--65278219 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
65277992 AAACCAAGTA
* *
65278002 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
65278041 CCTTTGGGACTTAGCCCAGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
65278081 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
65278121 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
65278161 CCTTCGGGGCTTAGCCTGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
65278201 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
65278220 TTATCATCCG
Statistics
Matches: 160, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 14 0.09
40 146 0.91
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:65281324 original size:24 final size:24
Alignment explanation
Indices: 65281292--65281352 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
65281282 AAAATCCAAT
* * *
65281292 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAATA-A
65281316 GCACTATGTGTGCGAGTGTAATAA
1 GCACTATGTGTGCGAGTGTAATAA
65281340 GCACTATGTGTGC
1 GCACTATGTGTGC
65281353 AAATTCGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 27 0.82
25 6 0.18
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATAA
Found at i:65288551 original size:17 final size:18
Alignment explanation
Indices: 65288523--65288562 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
65288513 ATTTTTTAAA
65288523 TTGAATTGAAATT-AAAT
1 TTGAATTGAAATTGAAAT
65288540 TATGAA-TGAAATTGAAAT
1 T-TGAATTGAAATTGAAAT
65288558 TTGAA
1 TTGAA
65288563 AGTTTATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (18 bp):
TTGAATTGAAATTGAAAT
Found at i:65288932 original size:22 final size:22
Alignment explanation
Indices: 65288907--65288951 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
65288897 ACTGCTACCG
* * *
65288907 AATGTTAGACTGTTACTGAATA
1 AATGATAGACTGATACTAAATA
*
65288929 AATGATGGACTGATACTAAATA
1 AATGATAGACTGATACTAAATA
65288951 A
1 A
65288952 TAATGATTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (22 bp):
AATGATAGACTGATACTAAATA
Found at i:65297836 original size:20 final size:21
Alignment explanation
Indices: 65297798--65297836 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
65297788 TGAATTGATT
65297798 AAATGTGTGATTAAATTAGTG
1 AAATGTGTGATTAAATTAGTG
*
65297819 AAATGTGT-ATTAATTTAG
1 AAATGTGTGATTAAATTAG
65297837 ATCAAGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (21 bp):
AAATGTGTGATTAAATTAGTG
Found at i:65298221 original size:42 final size:43
Alignment explanation
Indices: 65298114--65298228 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 43
65298104 AATGTGATAT
* * *
65298114 CGTGTAAGACCATGTCTGGGACATTGGCACCGATCTAAGATTA
1 CGTGTAAGAACATGTCTGGGACATTGGCATCGATATAAGATTA
* * * *
65298157 CGTGTAAGACCATGTCTAGGACATTGGCATCG-TATATGATTT
1 CGTGTAAGAACATGTCTGGGACATTGGCATCGATATAAGATTA
* * * *
65298199 CGTGTAGGAACTTGTTTGGGACAGTGGCAT
1 CGTGTAAGAACATGTCTGGGACATTGGCAT
65298229 TGAAATTTGA
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 31 0.51
43 30 0.49
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
CGTGTAAGAACATGTCTGGGACATTGGCATCGATATAAGATTA
Found at i:65303725 original size:50 final size:49
Alignment explanation
Indices: 65303605--65303791 Score: 198
Period size: 50 Copynumber: 3.8 Consensus size: 49
65303595 TGAGGTCGCA
* * * * *
65303605 TGTGTAGTACTAAGTGCAGTCTACTATGCGTACCCGAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
**
65303656 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
65303706 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* * *
65303755 TGTGTAGTACTAAGTGCAGGTTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
65303792 TAGCTTCGGT
Statistics
Matches: 117, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 39 0.33
50 43 0.37
51 30 0.26
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:65305330 original size:8 final size:9
Alignment explanation
Indices: 65305317--65305359 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
65305307 ATTCTAGATT
65305317 AAAAAAAGA
1 AAAAAAAGA
65305326 AAAAAAAGA
1 AAAAAAAGA
65305335 AAAAAAAG-
1 AAAAAAAGA
*
65305343 ATAAAAAGA
1 AAAAAAAGA
65305352 TAAAAAAA
1 -AAAAAAA
65305360 TATTGATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
8 7 0.23
9 17 0.57
10 6 0.20
ACGTcount: A:0.86, C:0.00, G:0.09, T:0.05
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:65305565 original size:15 final size:15
Alignment explanation
Indices: 65305545--65305574 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
65305535 CACCCTTAAC
65305545 CTAAGCCACATTACA
1 CTAAGCCACATTACA
65305560 CTAAGCCACATTACA
1 CTAAGCCACATTACA
65305575 ACCTCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.20
Consensus pattern (15 bp):
CTAAGCCACATTACA
Found at i:65306924 original size:26 final size:26
Alignment explanation
Indices: 65306895--65307002 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
65306885 TGGTACAAAT
65306895 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
65306921 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65306947 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
65306973 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65306999 TGAT
1 TGAT
65307003 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:65308615 original size:32 final size:27
Alignment explanation
Indices: 65308506--65308619 Score: 160
Period size: 27 Copynumber: 4.2 Consensus size: 27
65308496 AGGAAGCGTC
* *
65308506 CTGGTGGCTATGCCACA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGTT
65308533 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
65308560 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
* *
65308587 ATGGTGGCTCTGCCACA-ATATTTGTAT
1 CTGGTGGCTCTGCCACATATATCTGT-T
65308614 CTGGTG
1 CTGGTG
65308620 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
26 7 0.09
27 72 0.90
28 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.24, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGTT
Found at i:65310857 original size:37 final size:37
Alignment explanation
Indices: 65310774--65311045 Score: 212
Period size: 37 Copynumber: 7.4 Consensus size: 37
65310764 ATTACACGCG
* ** *
65310774 TTCCTTTAACCCTTCAAGCTCTTTACAATTT-TCCCTT-
1 TTCCTTCAACCCTTCAAGCTCCCTAC--TTTCTTCCTTA
* *
65310811 TTCCATCAACCCCTCAAGCTCCCTACTTTCTT-CTTGA
1 TTCCTTCAACCCTTCAAGCTCCCTACTTTCTTCCTT-A
* **
65310848 TTCCTTCAACCCTGCAAGCTCCCTACAATCTTTCCTT-
1 TTCCTTCAACCCTTCAAGCTCCCTACTTTC-TTCCTTA
* * *
65310885 TTTCTTCAACCCTTGAAGCTCCCTACTTTCTT-CTCGA
1 TTCCTTCAACCCTTCAAGCTCCCTACTTTCTTCCT-TA
* * * * * *
65310922 TTCATTCAACCCTTGAAGATCCCTACATTCTTCCCTC
1 TTCCTTCAACCCTTCAAGCTCCCTACTTTCTTCCTTA
* * * * *
65310959 TTGCTTCAAGCTTTCAAACTCCCTACTTTCTTCCTTC
1 TTCCTTCAACCCTTCAAGCTCCCTACTTTCTTCCTTA
* * * * *
65310996 TTCCTTCAGCCCTTCAATCTCCCTATTTTCTTCCCTC
1 TTCCTTCAACCCTTCAAGCTCCCTACTTTCTTCCTTA
65311033 TTCCTTCAACCCT
1 TTCCTTCAACCCT
65311046 CATCATCCCA
Statistics
Matches: 186, Mismatches: 41, Indels: 16
0.77 0.17 0.07
Matches are distributed among these distances:
35 8 0.04
36 3 0.02
37 169 0.91
38 3 0.02
39 3 0.02
ACGTcount: A:0.17, C:0.38, G:0.05, T:0.40
Consensus pattern (37 bp):
TTCCTTCAACCCTTCAAGCTCCCTACTTTCTTCCTTA
Found at i:65310895 original size:74 final size:74
Alignment explanation
Indices: 65310774--65311045 Score: 253
Period size: 74 Copynumber: 3.7 Consensus size: 74
65310764 ATTACACGCG
* * ** * *
65310774 TTCCTTTAACCCTTCAAGCTCTTTACAAT-TTTCCCTTTTCCATCAACCCCTCAAGCTCCCTACT
1 TTCCTTCAACCCTGCAAGCTCCCTACAATCTTT-CCTTTTCCTTCAACCCTTCAAGCTCCCTACT
65310838 TTCTTCTTGA
65 TTCTTCTTGA
* *
65310848 TTCCTTCAACCCTGCAAGCTCCCTACAATCTTTCCTTTTTCTTCAACCCTTGAAGCTCCCTACTT
1 TTCCTTCAACCCTGCAAGCTCCCTACAATCTTTCCTTTTCCTTCAACCCTTCAAGCTCCCTACTT
*
65310913 TCTTCTCGA
66 TCTTCTTGA
* * * * * * * * *
65310922 TTCATTCAACCCTTG-AAGATCCCTACATTCTTCCCTCTTGCTTCAAGCTTTCAAACTCCCTACT
1 TTCCTTCAACCC-TGCAAGCTCCCTACAATCTTTCCTTTTCCTTCAACCCTTCAAGCTCCCTACT
*
65310986 TTCTTCCTT-C
65 TTCTT-CTTGA
* * * *** * *
65310996 TTCCTTCAGCCCTTCAATCTCCCTATTTTCTTCCCTCTTCCTTCAACCCT
1 TTCCTTCAACCCTGCAAGCTCCCTACAATCTTTCCTTTTCCTTCAACCCT
65311046 CATCATCCCA
Statistics
Matches: 163, Mismatches: 31, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
73 1 0.01
74 155 0.95
75 7 0.04
ACGTcount: A:0.17, C:0.38, G:0.05, T:0.40
Consensus pattern (74 bp):
TTCCTTCAACCCTGCAAGCTCCCTACAATCTTTCCTTTTCCTTCAACCCTTCAAGCTCCCTACTT
TCTTCTTGA
Found at i:65323531 original size:61 final size:61
Alignment explanation
Indices: 65323436--65323557 Score: 217
Period size: 61 Copynumber: 2.0 Consensus size: 61
65323426 CCGATGAGCG
*
65323436 GTTCATTTTCACAGCAACCTGGAAAGTCAAGGAATATGAATCCTCATTCCCAAGCTTCAGC
1 GTTCATTGTCACAGCAACCTGGAAAGTCAAGGAATATGAATCCTCATTCCCAAGCTTCAGC
* *
65323497 GTTCATTGTCACAGCAACCTGGAAAGTCAAGGAATATGAATCCTCGTTCCCAAGTTTCAGC
1 GTTCATTGTCACAGCAACCTGGAAAGTCAAGGAATATGAATCCTCATTCCCAAGCTTCAGC
65323558 TGGGCAATCA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (61 bp):
GTTCATTGTCACAGCAACCTGGAAAGTCAAGGAATATGAATCCTCATTCCCAAGCTTCAGC
Found at i:65329285 original size:21 final size:22
Alignment explanation
Indices: 65329256--65329302 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
65329246 CAGAAGGAGT
*
65329256 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
65329278 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
65329299 GAGT
1 GAGT
65329303 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:65335447 original size:2 final size:2
Alignment explanation
Indices: 65335440--65335536 Score: 194
Period size: 2 Copynumber: 48.5 Consensus size: 2
65335430 TACTCACATT
65335440 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
65335482 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
65335524 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
65335537 NNNNNNNNNN
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 95 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:65337686 original size:16 final size:17
Alignment explanation
Indices: 65337665--65337699 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
65337655 ACATTTGTAA
65337665 TAAAT-ATATTGATTAT
1 TAAATAATATTGATTAT
65337681 TAAATAGATATTGATTAT
1 TAAATA-ATATTGATTAT
65337699 T
1 T
65337700 GTTATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
18 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (17 bp):
TAAATAATATTGATTAT
Found at i:65338710 original size:6 final size:6
Alignment explanation
Indices: 65338699--65338735 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
65338689 TTTGTGTACC
* *
65338699 GTTACT GTTACT ATTACT GTTACT GTTACC GTTACT G
1 GTTACT GTTACT GTTACT GTTACT GTTACT GTTACT G
65338736 ACACAGTGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (6 bp):
GTTACT
Found at i:65342625 original size:48 final size:48
Alignment explanation
Indices: 65342554--65342652 Score: 198
Period size: 48 Copynumber: 2.1 Consensus size: 48
65342544 ATAAGTGTGC
65342554 TACCCCCATAGGATATTCTTAATCTCTTTGGGATAAATTTGTTAACCT
1 TACCCCCATAGGATATTCTTAATCTCTTTGGGATAAATTTGTTAACCT
65342602 TACCCCCATAGGATATTCTTAATCTCTTTGGGATAAATTTGTTAACCT
1 TACCCCCATAGGATATTCTTAATCTCTTTGGGATAAATTTGTTAACCT
65342650 TAC
1 TAC
65342653 ATCTTCCTTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.39
Consensus pattern (48 bp):
TACCCCCATAGGATATTCTTAATCTCTTTGGGATAAATTTGTTAACCT
Found at i:65345878 original size:28 final size:28
Alignment explanation
Indices: 65345818--65345913 Score: 147
Period size: 28 Copynumber: 3.4 Consensus size: 28
65345808 TCGGGCAAGA
* * * *
65345818 TGGGTCATATAAATGTGATTTGGGCCTAA
1 TGGGCCATATGAATGAGA-TTGGGCCTAG
65345847 TGGGCCATATGAATGAGATTGGGCCTAG
1 TGGGCCATATGAATGAGATTGGGCCTAG
65345875 TGGGCCATATGAATGAGATTGGGCCTAG
1 TGGGCCATATGAATGAGATTGGGCCTAG
65345903 TGGGCCATATG
1 TGGGCCATATG
65345914 CATGTATGTA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
28 48 0.76
29 15 0.24
ACGTcount: A:0.25, C:0.14, G:0.33, T:0.28
Consensus pattern (28 bp):
TGGGCCATATGAATGAGATTGGGCCTAG
Found at i:65357471 original size:23 final size:23
Alignment explanation
Indices: 65357437--65357493 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
65357427 GATGCCTATA
65357437 TGGCATGA-TCTACAAAGCCTT-AG
1 TGGCAT-ATTCTACAAAG-CTTGAG
* *
65357460 TGGCATATTCTATAAAGCTTGTG
1 TGGCATATTCTACAAAGCTTGAG
65357483 TGGCATATTCT
1 TGGCATATTCT
65357494 GTATCGCCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 4 0.13
23 26 0.87
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (23 bp):
TGGCATATTCTACAAAGCTTGAG
Found at i:65359111 original size:13 final size:13
Alignment explanation
Indices: 65359093--65359118 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65359083 AAGCTACCTT
65359093 ACACGGGCGTGTC
1 ACACGGGCGTGTC
65359106 ACACGGGCGTGTC
1 ACACGGGCGTGTC
65359119 CCTGTCGAGC
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:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:65362591 original size:4 final size:4
Alignment explanation
Indices: 65362582--65362619 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
65362572 TATAAGATAA
65362582 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
65362620 TTCCTTAACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:65363683 original size:26 final size:27
Alignment explanation
Indices: 65363638--65363688 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
65363628 CAAATACCAC
* *
65363638 AAAAATTTCAAGAGATCCTATAATGCT
1 AAAAATTTCAAGAGAACCTAAAATGCT
*
65363665 AAAAGTTTCAAGA-AACCTAAAATG
1 AAAAATTTCAAGAGAACCTAAAATG
65363689 AAGAAAGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.43
27 12 0.57
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (27 bp):
AAAAATTTCAAGAGAACCTAAAATGCT
Found at i:65366474 original size:23 final size:25
Alignment explanation
Indices: 65366443--65366489 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
65366433 TTATATGAAA
65366443 ATATACTCAATAAGATT-TAATTCC
1 ATATACTCAATAAGATTCTAATTCC
* *
65366467 ATAT-CTCACTCAGATTCTAATTC
1 ATATACTCAATAAGATTCTAATTC
65366490 AATTTCTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.38
Consensus pattern (25 bp):
ATATACTCAATAAGATTCTAATTCC
Found at i:65371131 original size:22 final size:21
Alignment explanation
Indices: 65371067--65371133 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 21
65371057 CAGAAAATAA
*
65371067 ATATTGCTGCTATTTTTTATT
1 ATATTGCTACTATTTTTTATT
* **
65371088 ATTTTGCTA-TCATTTCACTATT
1 ATATTGCTACT-ATTT-TTTATT
65371110 ATATTGCTACTATTTTGTTATT
1 ATATTGCTACTATTTT-TTATT
65371132 AT
1 AT
65371134 TATCTGGATA
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
20 1 0.03
21 11 0.31
22 22 0.63
23 1 0.03
ACGTcount: A:0.22, C:0.12, G:0.07, T:0.58
Consensus pattern (21 bp):
ATATTGCTACTATTTTTTATT
Found at i:65374579 original size:39 final size:39
Alignment explanation
Indices: 65374535--65374732 Score: 369
Period size: 39 Copynumber: 5.1 Consensus size: 39
65374525 ATTATATTAT
* *
65374535 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
65374574 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
65374613 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
65374652 CAGTACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
65374691 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
65374730 CAG
1 CAG
65374733 TGTCTTGCAT
Statistics
Matches: 155, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 155 1.00
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:65380382 original size:39 final size:39
Alignment explanation
Indices: 65380338--65380613 Score: 525
Period size: 39 Copynumber: 7.1 Consensus size: 39
65380328 ATTATATTAT
* *
65380338 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
65380377 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
65380416 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
65380455 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
65380494 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
65380533 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
65380572 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
65380611 CAG
1 CAG
65380614 TGTCTTGCAT
Statistics
Matches: 233, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 233 1.00
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.20
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:65386200 original size:33 final size:33
Alignment explanation
Indices: 65386158--65386224 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
65386148 TACTTTTATC
65386158 AAATTCATCGGCACTTGGCCTACTAGGTATAAA
1 AAATTCATCGGCACTTGGCCTACTAGGTATAAA
65386191 AAATTCATCGGCACTTGGCCTACTAGGTATAAA
1 AAATTCATCGGCACTTGGCCTACTAGGTATAAA
65386224 A
1 A
65386225 CCCGAAATTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (33 bp):
AAATTCATCGGCACTTGGCCTACTAGGTATAAA
Found at i:65386325 original size:39 final size:39
Alignment explanation
Indices: 65386241--65386373 Score: 223
Period size: 39 Copynumber: 3.4 Consensus size: 39
65386231 ATTATATTAT
* * *
65386241 CAGCACAAAGCCTGCGGGACTTTAACCCAG-TACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
65386279 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
65386318 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
65386357 CAGCACGAAGCCTGCGG
1 CAGCACGAAGCCTGCGG
65386374 ACCCTAAGTC
Statistics
Matches: 89, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
38 26 0.29
39 63 0.71
ACGTcount: A:0.24, C:0.32, G:0.26, T:0.19
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:65386387 original size:39 final size:39
Alignment explanation
Indices: 65386271--65386469 Score: 226
Period size: 39 Copynumber: 5.1 Consensus size: 39
65386261 TTTAACCCAG
* ** *
65386271 TACATTTCCAGCACGAAGCCTGCGGGA-CTTTGGCCCGGA
1 TACATTTCCAGCACGAAGCCTGC-GGACCCTAAGTCCGGA
* * *
65386310 TACATTTCCAGCACGAAGCCTGCGGGA-CTTTAGCCCGGA
1 TACATTTCCAGCACGAAGCCTGC-GGACCCTAAGTCCGGA
65386349 TACATTTCCAGCACGAAGCCTGCGGACCCTAAGTCCGGA
1 TACATTTCCAGCACGAAGCCTGCGGACCCTAAGTCCGGA
* * *
65386388 TATAGTTCCAGTAC-ATAGCCTGCGGACCCTAAGTCCGGA
1 TACATTTCCAGCACGA-AGCCTGCGGACCCTAAGTCCGGA
* *
65386427 TATAATTCCAGCAC-ATAGCCTGCGGACCCTAAGTCCGGA
1 TACATTTCCAGCACGA-AGCCTGCGGACCCTAAGTCCGGA
65386466 TACA
1 TACA
65386470 CATCAAATAT
Statistics
Matches: 148, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
38 4 0.03
39 144 0.97
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.21
Consensus pattern (39 bp):
TACATTTCCAGCACGAAGCCTGCGGACCCTAAGTCCGGA
Found at i:65386387 original size:78 final size:77
Alignment explanation
Indices: 65386241--65386469 Score: 250
Period size: 78 Copynumber: 2.9 Consensus size: 77
65386231 ATTATATTAT
* * * **
65386241 CAGCACAAAGCCTGCGGGACTTTAACCCAG-TACATTTCCAGCACGAAGCCTGCGGGA-CTTTGG
1 CAGCAC-AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGC-GGACCCTAAG
* *
65386304 CCCGGATACATTTC
64 TCCGGATACAGTTC
65386318 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGACCCTAAGT
1 CAGCAC-AAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGACCCTAAGT
*
65386383 CCGGATATAGTTC
65 CCGGATACAGTTC
* * * * * *
65386396 CAGTACATAGCCTGC-GGACCCTAAGTCCGGATATAATTCCAGCAC-ATAGCCTGCGGACCCTAA
1 CAGCACA-AGCCTGCGGGA-CTTTAGCCCGGATACATTTCCAGCACGA-AGCCTGCGGACCCTAA
65386459 GTCCGGATACA
63 GTCCGGATACA
65386470 CATCAAATAT
Statistics
Matches: 131, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
77 35 0.27
78 96 0.73
ACGTcount: A:0.26, C:0.31, G:0.24, T:0.20
Consensus pattern (77 bp):
CAGCACAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGCCTGCGGACCCTAAGTC
CGGATACAGTTC
Found at i:65389372 original size:41 final size:43
Alignment explanation
Indices: 65389296--65389388 Score: 127
Period size: 41 Copynumber: 2.2 Consensus size: 43
65389286 GTACCTAATA
*
65389296 CCTCATCGGATTTAATCCAAAGCAATAATACGACAC-ATAGTG
1 CCTCATCGGAATTAATCCAAAGCAATAATACGACACAATAGTG
* * *
65389338 CCTCATCGGAATT-ATCCGAAGCAATATTATGACACATATAGTG
1 CCTCATCGGAATTAATCCAAAGCAATAATACGACACA-ATAGTG
65389381 CCTCATCG
1 CCTCATCG
65389389 ACTCGAGGTC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
41 19 0.42
42 12 0.27
43 14 0.31
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
CCTCATCGGAATTAATCCAAAGCAATAATACGACACAATAGTG
Found at i:65390348 original size:16 final size:17
Alignment explanation
Indices: 65390320--65390353 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
65390310 TTTTCTTCTC
65390320 TGTTTCAATTTCTATTA
1 TGTTTCAATTTCTATTA
*
65390337 TGTTTC-ATTTCTTTTA
1 TGTTTCAATTTCTATTA
65390353 T
1 T
65390354 TTGTTTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.65
Consensus pattern (17 bp):
TGTTTCAATTTCTATTA
Found at i:65394334 original size:22 final size:22
Alignment explanation
Indices: 65394300--65394350 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
65394290 AAATTTAATA
65394300 TAAAATTA--TAA-TTAACTCG
1 TAAAATTATTTAATTTAACTCG
65394319 TAAATATTATTTAATTTAACTCG
1 TAAA-ATTATTTAATTTAACTCG
65394342 TAAAATTAT
1 TAAAATTAT
65394351 GGAAACGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.14
20 4 0.14
22 8 0.29
23 12 0.43
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (22 bp):
TAAAATTATTTAATTTAACTCG
Found at i:65410270 original size:86 final size:87
Alignment explanation
Indices: 65410153--65410314 Score: 208
Period size: 86 Copynumber: 1.9 Consensus size: 87
65410143 GTTGGTATTG
* * * *
65410153 ATCTAAATTATTGTGTAAGACCGTGTCTGGGAC-GCAGGCAACGA-ATTGAAATTTACGTGTAAG
1 ATCTAAATTATTGTATAAGACCGTGTCTGGGACAG-AGACAACGATACTG-AA-TTACATGTAAG
65410216 ACCATGTCCGGGACATCGGTATCGT
63 ACCATGTCCGGGACATCGGTATCGT
*
65410241 ATCT-AATT-TTGTATAAGACTC-TGTCTGGGACAGAGACATCGATACTGAATTACATGTAAGAC
1 ATCTAAATTATTGTATAAGAC-CGTGTCTGGGACAGAGACAACGATACTGAATTACATGTAAGAC
65410303 CATGTCCGGGAC
65 CATGTCCGGGAC
65410315 GTTGGCATTA
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
85 24 0.36
86 29 0.44
87 9 0.14
88 4 0.06
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (87 bp):
ATCTAAATTATTGTATAAGACCGTGTCTGGGACAGAGACAACGATACTGAATTACATGTAAGACC
ATGTCCGGGACATCGGTATCGT
Found at i:65414545 original size:66 final size:66
Alignment explanation
Indices: 65414418--65414550 Score: 207
Period size: 67 Copynumber: 2.0 Consensus size: 66
65414408 GAAAATAATA
* * *
65414418 CAAAAAGATTGATAGGTCATTCATTCCTTCCTTCTCTCTCTCTCCCTGAATCTTGCTCCCTCTTT
1 CAAAAAGATTGATAGGCCATTCATTCATCCCTTCTCTCTCTCTCCCTGAATCTTGCTCCCTCTTT
65414483 C
66 C
65414484 NCAAAAAGATTGATAGGCCATTCATTCATCCCTT-TCTCTCTCTCTCC-GAATCTTGCTCCCTCT
1 -CAAAAAGATTGATAGGCCATTCATTCATCCCTTCTCTCTCTCTC-CCTGAATCTTGCTCCCTCT
65414547 TTC
64 TTC
65414550 C
1 C
65414551 CTTCAATTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
65 1 0.02
66 29 0.47
67 32 0.52
ACGTcount: A:0.19, C:0.34, G:0.09, T:0.38
Consensus pattern (66 bp):
CAAAAAGATTGATAGGCCATTCATTCATCCCTTCTCTCTCTCTCCCTGAATCTTGCTCCCTCTTT
C
Found at i:65422923 original size:46 final size:46
Alignment explanation
Indices: 65422870--65423092 Score: 203
Period size: 47 Copynumber: 4.8 Consensus size: 46
65422860 TATTTGGGCA
*
65422870 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
65422916 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAAC---G
*
65422961 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
65423009 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
*
65423054 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65423093 GCGAGTTACA
Statistics
Matches: 144, Mismatches: 14, Indels: 34
0.75 0.07 0.18
Matches are distributed among these distances:
42 10 0.07
43 8 0.06
45 5 0.03
46 52 0.36
47 53 0.37
48 4 0.03
50 5 0.03
51 7 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Done.