Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 19 of 136
Found at i:6063913 original size:47 final size:46
Alignment explanation
Indices: 6063843--6063933 Score: 155
Period size: 47 Copynumber: 2.0 Consensus size: 46
6063833 AGCCTCTCCA
* *
6063843 TTTTTTTTTACTCAAGGCTCCCTTTGTAGGCTTTCACCTTGGTCTC
1 TTTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTCTC
6063889 TTTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTC
1 TTTTTTTTT-ACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTC
6063934 CCACCTTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
46 9 0.21
47 33 0.79
ACGTcount: A:0.12, C:0.25, G:0.16, T:0.46
Consensus pattern (46 bp):
TTTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTCTC
Found at i:6068835 original size:35 final size:35
Alignment explanation
Indices: 6068774--6068840 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
6068764 GAAGAGGGAT
*
6068774 AAAATACAAAAATATGTATATGTGTATATATTTAC
1 AAAATACAAAAATATGTATATATGTATATATTTAC
*
6068809 AAAATA-AAAAA-ATGTATAAGTATGTATGTATT
1 AAAATACAAAAATATGTAT-A-TATGTATATATT
6068841 GGAAAATCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 6 0.21
34 6 0.21
35 16 0.57
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (35 bp):
AAAATACAAAAATATGTATATATGTATATATTTAC
Found at i:6068964 original size:2 final size:2
Alignment explanation
Indices: 6068959--6068983 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6068949 CAAAAAAATG
6068959 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
6068984 GTGTGTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6069670 original size:10 final size:11
Alignment explanation
Indices: 6069645--6069674 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
6069635 TGTTTTAGGA
6069645 AAAATAAAATG
1 AAAATAAAATG
6069656 AAAATAAAA-G
1 AAAATAAAATG
6069666 AAAATAAAA
1 AAAATAAAA
6069675 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (11 bp):
AAAATAAAATG
Found at i:6070400 original size:16 final size:17
Alignment explanation
Indices: 6070359--6070402 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
6070349 AAACAATTGA
*
6070359 ATTACTATTACGCCTCT
1 ATTACTATTACACCTCT
6070376 ATT-CTATTACACCTCT
1 ATTACTATTACACCTCT
6070392 ATTAC-ATTACA
1 ATTACTATTACA
6070403 GCGAACCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.30, C:0.27, G:0.02, T:0.41
Consensus pattern (17 bp):
ATTACTATTACACCTCT
Found at i:6076645 original size:21 final size:23
Alignment explanation
Indices: 6076614--6076656 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
6076604 ATCGAATTAT
6076614 AAAATAAAAAAAACTC-AAAGAC
1 AAAATAAAAAAAACTCGAAAGAC
*
6076636 AAAA-AAAAAAAGCTCGAAAGA
1 AAAATAAAAAAAACTCGAAAGA
6076657 ACATAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.72, C:0.12, G:0.09, T:0.07
Consensus pattern (23 bp):
AAAATAAAAAAAACTCGAAAGAC
Found at i:6077075 original size:40 final size:40
Alignment explanation
Indices: 6076991--6077087 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 40
6076981 AAAAACGCAG
* *
6076991 CTAAAAATCGATCATTAGCGGCGCATTATGTAAAACACCG
1 CTAAAAATCGATCATTAGCGGCGCATTATGGAAAACACCA
* * * * *
6077031 CTAAAGATCGATCATTTGCGGCGCTTTCA-GGAAAGCGCCA
1 CTAAAAATCGATCATTAGCGGCGCATT-ATGGAAAACACCA
*
6077071 CTAAAAAT-GAGCATTAG
1 CTAAAAATCGATCATTAG
6077088 AAAAACGCCG
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
39 7 0.15
40 38 0.83
41 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.23
Consensus pattern (40 bp):
CTAAAAATCGATCATTAGCGGCGCATTATGGAAAACACCA
Found at i:6077218 original size:41 final size:41
Alignment explanation
Indices: 6077142--6077416 Score: 390
Period size: 41 Copynumber: 6.7 Consensus size: 41
6077132 CCTTTCGGGG
* *
6077142 CTTTAGCGGCGTTCTTTAAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTT-TTTGAAAAAGCGCCGCGAATGCTCAGAT
* * *
6077184 CTTTAGCAGCGTTTTTGAAAAAGCGTCGCGAATGCCCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCTCAGAT
* *
6077225 CTTTAGCGGCGTTTTTGAAAAAGCGCCGTGAATGCTCATAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCTCAGAT
6077266 C-TTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCTCAGAT
*
6077306 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCTCAGAT
* * * * * **
6077347 CTTTAGCGGCGTTTTTGGAAAAGTGCCGCTATTGCTCGGGG
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCTCAGAT
*
6077388 CTTTAGCGGCGTTTTTTAAAAAGCGCCGC
1 CTTTAGCGGCGTTTTTGAAAAAGCGCCGC
6077417 AAAAACATTT
Statistics
Matches: 210, Mismatches: 22, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
40 38 0.18
41 160 0.76
42 12 0.06
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCTCAGAT
Found at i:6077369 original size:122 final size:123
Alignment explanation
Indices: 6077141--6077416 Score: 394
Period size: 122 Copynumber: 2.2 Consensus size: 123
6077131 ACCTTTCGGG
*
6077141 GCTTTAGCGGCGTTCTTTAAAAAAGCGCCGCTAATGCTCAGATCTTTAGCAGCGTTTTTGAAAAA
1 GCTTTAGCGGCGTT-TTTAAAAAAGCGCCGCGAATGCTCAGATCTTTAGCAGCGTTTTTGAAAAA
* *
6077206 GCGTCGCGAATGCCCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCG-TGAATGCTCATA
65 GCGCCGCGAATGCCCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCT-AATGCTCAGA
* * *
6077265 TC-TTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCTCAGATCTTTAGCGGCGTTTTTGAAAAAG
1 GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCGAATGCTCAGATCTTTAGCAGCGTTTTTGAAAAAG
* * * * * * *
6077329 CGCCGCTAATGCTCAGATCTTTAGCGGCGTTTTTGGAAAAGTGCCGCTATTGCTCGGG
66 CGCCGCGAATGCCCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGA
*
6077387 GCTTTAGCGGCGTTTTTTAAAAAGCGCCGC
1 GCTTTAGCGGCGTTTTTAAAAAAGCGCCGC
6077417 AAAAACATTT
Statistics
Matches: 135, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
122 96 0.71
123 38 0.28
124 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (123 bp):
GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCGAATGCTCAGATCTTTAGCAGCGTTTTTGAAAAAG
CGCCGCGAATGCCCAGATCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGA
Found at i:6078037 original size:89 final size:89
Alignment explanation
Indices: 6077944--6078119 Score: 262
Period size: 89 Copynumber: 2.0 Consensus size: 89
6077934 TTCAGTGTTA
*
6077944 GGTTAGGATTTAGGGTTTAAATTAATTAGTGTGTTTTAATTTATATATTAAATAAAGTTTAGGGG
1 GGTTAGGATTTAGGATTTAAATTAATTAGTGTGTTTTAATTTATATATTAAATAAAGTTTAGGGG
6078009 TTAGGGGTTAGGGAATTGGGGTCG
66 TTAGGGGTTAGGGAATTGGGGTCG
* * ** *
6078033 GGTTAGGGTTTAGGATTTAAATTAATTAGTGTTTTTTAATTTATATATTCGATAAGGTTTAGGGG
1 GGTTAGGATTTAGGATTTAAATTAATTAGTGTGTTTTAATTTATATATTAAATAAAGTTTAGGGG
* * **
6078098 TTAGTGTTTAGGGGTTTGGGGT
66 TTAGGGGTTAGGGAATTGGGGT
6078120 TTGGGGTTAA
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 77 1.00
ACGTcount: A:0.26, C:0.01, G:0.30, T:0.43
Consensus pattern (89 bp):
GGTTAGGATTTAGGATTTAAATTAATTAGTGTGTTTTAATTTATATATTAAATAAAGTTTAGGGG
TTAGGGGTTAGGGAATTGGGGTCG
Found at i:6078156 original size:15 final size:15
Alignment explanation
Indices: 6078133--6078162 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6078123 GGGTTAAGAG
*
6078133 TTAGTGATTTAGGGT
1 TTAGAGATTTAGGGT
6078148 TTAGAGATTTAGGGT
1 TTAGAGATTTAGGGT
6078163 CGGGTTAGGG
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:0.23, C:0.00, G:0.33, T:0.43
Consensus pattern (15 bp):
TTAGAGATTTAGGGT
Found at i:6078381 original size:108 final size:108
Alignment explanation
Indices: 6078192--6078954 Score: 1359
Period size: 108 Copynumber: 7.0 Consensus size: 108
6078182 TAGATTAATT
6078192 AAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCAAAACAGTGTCGTTTTATTCCA
1 AAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCAAAACAGTGTCGTTTTATTCCA
6078257 AATGAAATAATTTTTTGCGGCATTTTTATAAAAAACGCCACAA
66 AATGAAATAATTTTTTGCGGCATTTTTATAAAAAACGCCACAA
6078300 AAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCAAAACAGTGTCGTTTTATTCCA
1 AAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCAAAACAGTGTCGTTTTATTCCA
6078365 AATGAAATAATTTTTTGCGGCATTTTTATAAAAAACGCCACAA
66 AATGAAATAATTTTTTGCGGCATTTTTATAAAAAACGCCACAA
6078408 AAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCAAAACAGTGTCGTTTTATTCCA
1 AAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCAAAACAGTGTCGTTTTATTCCA
6078473 AATGAAATAATTTTTTGCGGCATTTTTATAAAAAACGCCACAA
66 AATGAAATAATTTTTTGCGGCATTTTTATAAAAAACGCCACAA
6078516 AAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCAAAACAGTGTCGTTTTATTCCA
1 AAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCAAAACAGTGTCGTTTTATTCCA
6078581 AATGAAATAATTTTTTGCGGCATTTTTATAAAAAACGCCACAA
66 AATGAAATAATTTTTTGCGGCATTTTTATAAAAAACGCCACAA
6078624 AAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCAAAACAGTGTCGTTTTATTCCA
1 AAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCAAAACAGTGTCGTTTTATTCCA
6078689 AATGAAATAATTTTTTGCGGCATTTTTATAAAAAACGCCACAA
66 AATGAAATAATTTTTTGCGGCATTTTTATAAAAAACGCCACAA
6078732 AAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCAAAACAGTGTCGTTTTATTCCA
1 AAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCAAAACAGTGTCGTTTTATTCCA
6078797 AATGAAATAATTTTTTGCGAAGCAATAGCAGCGTTTTTATAAAAAAACGCCAC-A
66 AATGAAATAATTTTTTGC---G-----GCA---TTTTTAT-AAAAAACGCCACAA
* * *
6078851 AAAATAATTTTACTTTAAAAAAATAGCGCCCTTTTAGCATAGCAAAACAGTGTCCTTTTATTCCA
1 AAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCAAAACAGTGTCGTTTTATTCCA
*
6078916 AATGAAATAA-TTTTTGCGGCGTTTTTATAAAAAAACGCC
66 AATGAAATAATTTTTTGCGGCATTTTTAT-AAAAAACGCC
6078955 GCAATAGATA
Statistics
Matches: 639, Mismatches: 4, Indels: 25
0.96 0.01 0.04
Matches are distributed among these distances:
107 18 0.03
108 515 0.81
110 2 0.00
111 1 0.00
115 1 0.00
116 3 0.00
118 7 0.01
119 80 0.13
120 12 0.02
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (108 bp):
AAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCAAAACAGTGTCGTTTTATTCCA
AATGAAATAATTTTTTGCGGCATTTTTATAAAAAACGCCACAA
Found at i:6078855 original size:119 final size:119
Alignment explanation
Indices: 6078711--6078930 Score: 397
Period size: 119 Copynumber: 1.8 Consensus size: 119
6078701 TTTTGCGGCA
6078711 TTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCA
1 TTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCA
*
6078776 AAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGAAGCAATAGCAGCG
66 AAACAGTGTCCTTTTATTCCAAATGAAATAATTTTTTGCGAAGCAATAGCAGCG
* *
6078830 TTTTTATAAAAAAACGCCAC-AAAAATAATTTTACTTTAAAAAAATAGCGCCCTTTTAGCATAGC
1 TTTTTAT-AAAAAACGCCACAAAAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGC
6078894 AAAACAGTGTCCTTTTATTCCAAATGAAATAATTTTT
65 AAAACAGTGTCCTTTTATTCCAAATGAAATAATTTTT
6078931 GCGGCGTTTT
Statistics
Matches: 97, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
119 85 0.88
120 12 0.12
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.33
Consensus pattern (119 bp):
TTTTTATAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAAATAACACCCTTTTAGCATAGCA
AAACAGTGTCCTTTTATTCCAAATGAAATAATTTTTTGCGAAGCAATAGCAGCG
Found at i:6079068 original size:21 final size:21
Alignment explanation
Indices: 6079042--6079087 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6079032 TAAAATTCCC
*
6079042 TCCCCCC-GAAATCCCCAACTT
1 TCCCCCCTAAAATCCCCAA-TT
*
6079063 TCCCCCCTAAAATCCCTAATT
1 TCCCCCCTAAAATCCCCAATT
6079084 TCCC
1 TCCC
6079088 ACATCCAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.24, C:0.50, G:0.02, T:0.24
Consensus pattern (21 bp):
TCCCCCCTAAAATCCCCAATT
Found at i:6082568 original size:85 final size:85
Alignment explanation
Indices: 6082393--6082619 Score: 357
Period size: 85 Copynumber: 2.6 Consensus size: 85
6082383 AAGTTATGTT
* *
6082393 TTTAGCGGCGTTTGTGGTAAAAGGCGCCGCTAAAGGTCTTGGTCTTTAGTGGCGTTTGTGAGAAA
1 TTTAGCGGCGTTTGTGG-AAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCG-TTGTGAGAAA
6082458 AGCGCCGCTAAAGGTCTTGGTC
64 AGCGCCGCTAAAGGTCTTGGTC
* *
6082480 TTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTGTG-GAATAA
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTGTGAGAA-AA
6082544 GCGCCGCTAAAGGTCTTGGTC
65 GCGCCGCTAAAGGTCTTGGTC
* * *
6082565 TTTAACGACGTTTGTGGAAAAAGCGCCGCTAAATGTCTTGGTCTTTAGCGGCGTT
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTT
6082620 TTTTTTATAA
Statistics
Matches: 130, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
84 3 0.02
85 78 0.60
86 33 0.25
87 16 0.12
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTGTGAGAAAAG
CGCCGCTAAAGGTCTTGGTC
Found at i:6082640 original size:43 final size:43
Alignment explanation
Indices: 6082393--6082620 Score: 352
Period size: 43 Copynumber: 5.3 Consensus size: 43
6082383 AAGTTATGTT
*
6082393 TTTAGCGGCGTTTGTGGTAAAAGGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAA-GCGCCGCTAAAGGTCTTGGTC
* *
6082437 TTTAGTGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
6082480 TTTAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
6082523 TTTAGCGGCG-TTGT-GGAATAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAA-AAGCGCCGCTAAAGGTCTTGGTC
* * * *
6082565 TTTAACGACGTTTGTGGAAAAAGCGCCGCTAAATGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
6082608 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
6082621 TTTTTATAAA
Statistics
Matches: 168, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
41 4 0.02
42 35 0.21
43 107 0.64
44 22 0.13
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:6086604 original size:30 final size:31
Alignment explanation
Indices: 6086570--6086633 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
6086560 TATTTATTTT
6086570 AATTT-TAAAATTTTTTAATAATT-TTTAAAA
1 AATTTCTAAAA-TTTTTAATAATTATTTAAAA
* *
6086600 AATTTCTATAATTTTTAATAATTATTTGAAA
1 AATTTCTAAAATTTTTAATAATTATTTAAAA
6086631 AAT
1 AAT
6086634 CCAAGTTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (31 bp):
AATTTCTAAAATTTTTAATAATTATTTAAAA
Found at i:6086622 original size:10 final size:10
Alignment explanation
Indices: 6086572--6086622 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
6086562 TTTATTTTAA
6086572 TTTTAA-AATT
1 TTTTAATAA-T
6086582 TTTTAATAAT
1 TTTTAATAAT
*
6086592 TTTTAAAAAAT
1 TTTT-AATAAT
*
6086603 TTCT-ATAAT
1 TTTTAATAAT
6086612 TTTTAATAAT
1 TTTTAATAAT
6086622 T
1 T
6086623 ATTTGAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 7 0.21
10 17 0.50
11 10 0.29
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (10 bp):
TTTTAATAAT
Found at i:6088189 original size:27 final size:27
Alignment explanation
Indices: 6088159--6088216 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
6088149 AAATAAATAG
6088159 TAAAGTAA-AAAAAATACAAAACAGTTT
1 TAAAGTAATAAAAAATACAAAACA-TTT
* *
6088186 TAAAGTAATTAACATATACAAAACATTT
1 TAAAGTAA-TAAAAAATACAAAACATTT
6088214 TAA
1 TAA
6088217 CATAAGATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 8 0.30
28 6 0.22
29 13 0.48
ACGTcount: A:0.59, C:0.09, G:0.05, T:0.28
Consensus pattern (27 bp):
TAAAGTAATAAAAAATACAAAACATTT
Found at i:6092075 original size:18 final size:18
Alignment explanation
Indices: 6092052--6092128 Score: 59
Period size: 18 Copynumber: 4.1 Consensus size: 18
6092042 CTTTTGGTAG
6092052 TTGGTATTTAGATTTATT
1 TTGGTATTTAGATTTATT
*
6092070 TTGGTATTATATATATT-TT
1 TTGGTATT-TAGAT-TTATT
* *
6092089 TT-CTATTTTAGTATTTGAAT
1 TTGGTA-TTTAG-ATTT-ATT
*
6092109 TTGGTAATTAGATTTATT
1 TTGGTATTTAGATTTATT
6092127 TT
1 TT
6092129 AATCCATGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 14
0.68 0.11 0.21
Matches are distributed among these distances:
18 18 0.40
19 16 0.36
20 9 0.20
21 2 0.04
ACGTcount: A:0.25, C:0.01, G:0.13, T:0.61
Consensus pattern (18 bp):
TTGGTATTTAGATTTATT
Found at i:6092330 original size:57 final size:59
Alignment explanation
Indices: 6092227--6092413 Score: 198
Period size: 58 Copynumber: 3.1 Consensus size: 59
6092217 TATAATATCC
* * * * *
6092227 GGTACCTGAACTTGATACTTTTTTCTAATTTGGTATCTAAACTTTTT-TTGGCCCAATTT
1 GGTACCTGAACTTGACAC-TTTTCCTAATTTGGCACCTAAACTTTTTCTAGGCCCAATTT
6092286 GGTACCTGAACTTGACAC-TTTCCTAATTTGGCACCTAAACTTTTTCTAGGCCCAATTT
1 GGTACCTGAACTTGACACTTTTCCTAATTTGGCACCTAAACTTTTTCTAGGCCCAATTT
* * * * * ***
6092344 GGTACTTGAACTTGACATTTTTTTTCCTAATTTGGTACCTGAGCTTTTTCTTAGATTCAATTT
1 GGTACCTGAACTTGACA---CTTTTCCTAATTTGGCACCTAAACTTTTTC-TAGGCCCAATTT
6092407 GGTACCT
1 GGTACCT
6092414 AAATTTGTTA
Statistics
Matches: 108, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
57 24 0.22
58 27 0.25
59 17 0.16
62 25 0.23
63 15 0.14
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (59 bp):
GGTACCTGAACTTGACACTTTTCCTAATTTGGCACCTAAACTTTTTCTAGGCCCAATTT
Found at i:6093095 original size:74 final size:75
Alignment explanation
Indices: 6092994--6093142 Score: 291
Period size: 74 Copynumber: 2.0 Consensus size: 75
6092984 GAAAAAGTGT
6092994 CAAGTTCAAGTGCCAAATATTATATTAAGTCAAAAAATTCTCTAAGTTTTCAGGTGATGATGTGA
1 CAAGTTCAAGTGCCAAATATTATATTAAGTCAAAAAATTCTCTAAGTTTTCAGGTGATGATGTGA
6093059 TACAATCTTA
66 TACAATCTTA
6093069 CAAGTTCAAG-GCCAAATATTATATTAAGTCAAAAAATTCTCTAAGTTTTCAGGTGATGATGTGA
1 CAAGTTCAAGTGCCAAATATTATATTAAGTCAAAAAATTCTCTAAGTTTTCAGGTGATGATGTGA
6093133 TACAATCTTA
66 TACAATCTTA
6093143 GAGTGTCACA
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
74 64 0.86
75 10 0.14
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (75 bp):
CAAGTTCAAGTGCCAAATATTATATTAAGTCAAAAAATTCTCTAAGTTTTCAGGTGATGATGTGA
TACAATCTTA
Found at i:6100153 original size:27 final size:27
Alignment explanation
Indices: 6100123--6100404 Score: 243
Period size: 27 Copynumber: 10.4 Consensus size: 27
6100113 TATAACAGTT
*
6100123 ATTTTACCTTATAGGGGTATTTCGATC
1 ATTTTACCCTATAGGGGTATTTCGATC
* * *
6100150 ATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATAGGGGTATTTCGATC
* *
6100177 ATTTTACCCTATAAGGGTATTT-TAGTC
1 ATTTTACCCTATAGGGGTATTTCGA-TC
* *
6100204 ATTTTACCTTAT-GAGGGTATTTCAATC
1 ATTTTACCCTATAG-GGGTATTTCGATC
* * *
6100231 ATTTTATCTTAT-GAGGGCATTTCGATC
1 ATTTTACCCTATAG-GGGTATTTCGATC
* * *
6100258 ATTTTACCCTATGGGGGTATTT-TAGTT
1 ATTTTACCCTATAGGGGTATTTCGA-TC
* * *
6100285 ATTTTACCTTATGGGGGTATTTCGGTC
1 ATTTTACCCTATAGGGGTATTTCGATC
* *
6100312 ATTTTACCCTATAGGGGTATTTTGGTC
1 ATTTTACCCTATAGGGGTATTTCGATC
* * * *
6100339 ATTTTAACCTATGGGGGTATTT-TAGTT
1 ATTTTACCCTATAGGGGTATTTCGA-TC
*
6100366 ATTTTACCCTATAGGAGTATTTC-AGTC
1 ATTTTACCCTATAGGGGTATTTCGA-TC
*
6100393 ATTTTATCCTAT
1 ATTTTACCCTAT
6100405 TTTGGGGTCT
Statistics
Matches: 211, Mismatches: 36, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.00
27 208 0.99
28 2 0.01
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.45
Consensus pattern (27 bp):
ATTTTACCCTATAGGGGTATTTCGATC
Found at i:6100195 original size:54 final size:54
Alignment explanation
Indices: 6100123--6100404 Score: 298
Period size: 54 Copynumber: 5.2 Consensus size: 54
6100113 TATAACAGTT
* * *
6100123 ATTTTACCTTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTAGTC
** * * * * *
6100177 ATTTTACCCTATAAGGGTATTT-TAGTCATTTTACCTTATGAGGGTATTTCAATC
1 ATTTTACCCTATGGGGGTATTTCGA-TCATTTTACCCTATGGGGGTATTTTAGTC
* * * * *
6100231 ATTTTATCTTATGAGGGCATTTCGATCATTTTACCCTATGGGGGTATTTTAGTT
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTAGTC
* * * *
6100285 ATTTTACCTTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTAGTC
* * * * * *
6100339 ATTTTAACCTATGGGGGTATTT-TAGTTATTTTACCCTATAGGAGTATTTCAGTC
1 ATTTTACCCTATGGGGGTATTTCGA-TCATTTTACCCTATGGGGGTATTTTAGTC
*
6100393 ATTTTATCCTAT
1 ATTTTACCCTAT
6100405 TTTGGGGTCT
Statistics
Matches: 191, Mismatches: 34, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
53 1 0.01
54 189 0.99
55 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.45
Consensus pattern (54 bp):
ATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTAGTC
Found at i:6100260 original size:81 final size:80
Alignment explanation
Indices: 6100119--6100404 Score: 367
Period size: 81 Copynumber: 3.5 Consensus size: 80
6100109 GGGGTATAAC
* *
6100119 AGTTATTTTACCTTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGGTCATTTTAC
1 AGTTATTTTACCTTATA-GGGTATTTCAATCATTTTACCCTATGAGGGTATTTTGGTCATTTTAC
**
6100184 CCTATAAGGGTATTTT
65 CCTATGGGGGTATTTT
* * * * * *
6100200 AGTCATTTTACCTTATGAGGGTATTTCAATCATTTTATCTTATGAGGGCATTTCGATCATTTTAC
1 AGTTATTTTACCTTAT-AGGGTATTTCAATCATTTTACCCTATGAGGGTATTTTGGTCATTTTAC
6100265 CCTATGGGGGTATTTT
65 CCTATGGGGGTATTTT
* **
6100281 AGTTATTTTACCTTATGGGGGTATTTCGGTCATTTTACCCTAT-AGGGGTATTTTGGTCATTTTA
1 AGTTATTTTACCTTAT-AGGGTATTTCAATCATTTTACCCTATGA-GGGTATTTTGGTCATTTTA
*
6100345 ACCTATGGGGGTATTTT
64 CCCTATGGGGGTATTTT
* * *
6100362 AGTTATTTTACCCTATAGGAGTATTTCAGTCATTTTATCCTAT
1 AGTTATTTTACCTTATAGG-GTATTTCAATCATTTTACCCTAT
6100405 TTTGGGGTCT
Statistics
Matches: 178, Mismatches: 24, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
80 3 0.02
81 174 0.98
82 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.45
Consensus pattern (80 bp):
AGTTATTTTACCTTATAGGGTATTTCAATCATTTTACCCTATGAGGGTATTTTGGTCATTTTACC
CTATGGGGGTATTTT
Found at i:6105318 original size:4 final size:4
Alignment explanation
Indices: 6105306--6105337 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
6105296 CATTGTTTTT
6105306 TTTA TTTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTT
6105338 TTGTTATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:6105641 original size:29 final size:29
Alignment explanation
Indices: 6105607--6105668 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
6105597 TCACACAATT
*
6105607 GAAATTCAGT-ATCTTTACTTTTAATTTTA
1 GAAATTCAGTCA-CTTTACTTTTAATTTCA
*
6105636 GAAATTTAGTCACTTTACTTTTAATTTCA
1 GAAATTCAGTCACTTTACTTTTAATTTCA
6105665 GAAA
1 GAAA
6105669 ATTTTTCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (29 bp):
GAAATTCAGTCACTTTACTTTTAATTTCA
Found at i:6116684 original size:2 final size:2
Alignment explanation
Indices: 6116673--6116702 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6116663 CGCCTTGCAG
6116673 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6116703 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6118066 original size:123 final size:124
Alignment explanation
Indices: 6117921--6118167 Score: 487
Period size: 123 Copynumber: 2.0 Consensus size: 124
6117911 TTGTGAAACA
6117921 TTTAAAATTTTAAAATATTTTAATTAATATAGCATAAATTTTGTACTATTTTTTTGTAAATAATT
1 TTTAAAATTTTAAAATATTTTAATTAATATAGCATAAATTTTGTACTATTTTTTTGTAAATAATT
6117986 ATAATATATCATAACTATTAGACACAAACAAGGAATGGGGCAATTTACCAATAAAAGCC
66 ATAATATATCATAACTATTAGACACAAACAAGGAATGGGGCAATTTACCAATAAAAGCC
6118045 TTTAAAA-TTTAAAATATTTTAATTAATATAGCATAAATTTTGTACTATTTTTTTGTAAATAATT
1 TTTAAAATTTTAAAATATTTTAATTAATATAGCATAAATTTTGTACTATTTTTTTGTAAATAATT
6118109 ATAATATATCATAACTATTAGACACAAACAAGGAATGGGGCAATTTACCAATAAAAGCC
66 ATAATATATCATAACTATTAGACACAAACAAGGAATGGGGCAATTTACCAATAAAAGCC
6118168 CCTTTTTTTC
Statistics
Matches: 123, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
123 116 0.94
124 7 0.06
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.38
Consensus pattern (124 bp):
TTTAAAATTTTAAAATATTTTAATTAATATAGCATAAATTTTGTACTATTTTTTTGTAAATAATT
ATAATATATCATAACTATTAGACACAAACAAGGAATGGGGCAATTTACCAATAAAAGCC
Found at i:6121460 original size:24 final size:23
Alignment explanation
Indices: 6121389--6121473 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 23
6121379 AAACCACTCA
6121389 ATTTTTTTTTTCACTCAATTATAT
1 ATTTTTTTTTTCACTCAATTAT-T
* *
6121413 ATTTTTTATTTTAATTACATAATTATT
1 ATTTTTT-TTTTCACT-C--AATTATT
*
6121440 GTCTTTTTTTTTCACTCAATTATT
1 AT-TTTTTTTTTCACTCAATTATT
**
6121464 AAATTTTTTT
1 ATTTTTTTTT
6121474 AATTTGTTCA
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
23 7 0.15
24 14 0.29
25 6 0.12
26 2 0.04
27 8 0.17
28 11 0.23
ACGTcount: A:0.26, C:0.09, G:0.01, T:0.64
Consensus pattern (23 bp):
ATTTTTTTTTTCACTCAATTATT
Found at i:6121510 original size:30 final size:28
Alignment explanation
Indices: 6121443--6121510 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 28
6121433 AATTATTGTC
* *
6121443 TTTTTTT-TTCACTCAATTATTAAATTT
1 TTTTTTTGTTCACTCAATAATCAAATTT
6121470 TTTTAATTTGTTCACTCAACTAATCAAGATTT
1 TTTT--TTTGTTCACTCAA-TAATCAA-ATTT
6121502 TTTTTTTGT
1 TTTTTTTGT
6121511 CCATTTCTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
27 4 0.12
29 3 0.09
30 14 0.41
31 5 0.15
32 8 0.24
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.59
Consensus pattern (28 bp):
TTTTTTTGTTCACTCAATAATCAAATTT
Found at i:6122760 original size:23 final size:25
Alignment explanation
Indices: 6122710--6122762 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
6122700 TAATTTTAAT
**
6122710 TAATTGGGTGACTAAAAAATAATGA
1 TAATTGGGTGACTAAAAAATAACCA
*
6122735 TAATTGGGTGA-TTAAAAA-AACCA
1 TAATTGGGTGACTAAAAAATAACCA
6122758 TAATT
1 TAATT
6122763 ATATAAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.32
24 6 0.24
25 11 0.44
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.30
Consensus pattern (25 bp):
TAATTGGGTGACTAAAAAATAACCA
Found at i:6123421 original size:23 final size:24
Alignment explanation
Indices: 6123375--6123421 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
6123365 AGAAAGGCTA
* *
6123375 AAAAAACTTACTACAAGAGTAGAC
1 AAAAAACTTACTAAAAGAGAAGAC
*
6123399 AAAAAACTT-CTAAAAGTGAAGAC
1 AAAAAACTTACTAAAAGAGAAGAC
6123422 TTATTAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.55, C:0.15, G:0.13, T:0.17
Consensus pattern (24 bp):
AAAAAACTTACTAAAAGAGAAGAC
Found at i:6125086 original size:8 final size:8
Alignment explanation
Indices: 6125073--6125097 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6125063 AAAATTTTGT
6125073 ATTTTAAA
1 ATTTTAAA
6125081 ATTTTAAA
1 ATTTTAAA
6125089 ATTTTAAA
1 ATTTTAAA
6125097 A
1 A
6125098 GGATATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTTTAAA
Found at i:6126759 original size:3 final size:3
Alignment explanation
Indices: 6126753--6126796 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
6126743 TCTTCATCAT
*
6126753 TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6126797 TAAATTTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6126918 original size:74 final size:74
Alignment explanation
Indices: 6126840--6127137 Score: 596
Period size: 74 Copynumber: 4.0 Consensus size: 74
6126830 CATTGCTTTA
6126840 AACATGTTTATACATTATATATATATACACATGTTTATACATTCTTTACCATATCTTATAATACG
1 AACATGTTTATACATTATATATATATACACATGTTTATACATTCTTTACCATATCTTATAATACG
6126905 TATATATTT
66 TATATATTT
6126914 AACATGTTTATACATTATATATATATACACATGTTTATACATTCTTTACCATATCTTATAATACG
1 AACATGTTTATACATTATATATATATACACATGTTTATACATTCTTTACCATATCTTATAATACG
6126979 TATATATTT
66 TATATATTT
6126988 AACATGTTTATACATTATATATATATACACATGTTTATACATTCTTTACCATATCTTATAATACG
1 AACATGTTTATACATTATATATATATACACATGTTTATACATTCTTTACCATATCTTATAATACG
6127053 TATATATTT
66 TATATATTT
6127062 AACATGTTTATACATTATATATATATACACATGTTTATACATTCTTTACCATATCTTATAATACG
1 AACATGTTTATACATTATATATATATACACATGTTTATACATTCTTTACCATATCTTATAATACG
6127127 TATATATTT
66 TATATATTT
6127136 AA
1 AA
6127138 TATATTTTTA
Statistics
Matches: 224, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 224 1.00
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (74 bp):
AACATGTTTATACATTATATATATATACACATGTTTATACATTCTTTACCATATCTTATAATACG
TATATATTT
Found at i:6127104 original size:27 final size:26
Alignment explanation
Indices: 6126841--6127103 Score: 160
Period size: 27 Copynumber: 10.5 Consensus size: 26
6126831 ATTGCTTTAA
6126841 ACATGTTTATACATTATATATATATAC
1 ACATGTTTATACA-TATATATATATAC
*
6126868 ACATGTTTATAC--AT-TCT-T-TAC
1 ACATGTTTATACATATATATATATAC
* *
6126889 -CATATCTTATA-ATACGTATATATTTA-
1 ACATGT-TTATACATA--TATATATATAC
6126915 ACATGTTTATACATTATATATATATAC
1 ACATGTTTATACA-TATATATATATAC
*
6126942 ACATGTTTATAC--AT-TCT-T-TAC
1 ACATGTTTATACATATATATATATAC
* *
6126963 -CATATCTTATA-ATACGTATATATTTA-
1 ACATGT-TTATACATA--TATATATATAC
6126989 ACATGTTTATACATTATATATATATAC
1 ACATGTTTATACA-TATATATATATAC
*
6127016 ACATGTTTATAC--AT-TCT-T-TAC
1 ACATGTTTATACATATATATATATAC
* *
6127037 -CATATCTTATA-ATACGTATATATTTA-
1 ACATGT-TTATACATA--TATATATATAC
6127063 ACATGTTTATACATTATATATATATAC
1 ACATGTTTATACA-TATATATATATAC
6127090 ACATGTTTATACAT
1 ACATGTTTATACAT
6127104 TCTTTACCAT
Statistics
Matches: 185, Mismatches: 15, Indels: 73
0.68 0.05 0.27
Matches are distributed among these distances:
20 12 0.06
21 24 0.13
22 6 0.03
23 6 0.03
24 9 0.05
25 6 0.03
26 46 0.25
27 70 0.38
28 6 0.03
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (26 bp):
ACATGTTTATACATATATATATATAC
Found at i:6127136 original size:27 final size:26
Alignment explanation
Indices: 6126884--6127136 Score: 107
Period size: 26 Copynumber: 10.2 Consensus size: 26
6126874 TTATACATTC
6126884 TTTACCATATCTTATAATACGTATATA
1 TTTACCATATCTTATAATAC-TATATA
* *
6126911 TTTAACATGT-TTATACATTA-TATATA
1 TTTACCATATCTTATA-A-TACTATATA
* * * *
6126937 TATA-CACATGTT-T-ATAC-AT-TC
1 TTTACCATATCTTATAATACTATATA
6126958 TTTACCATATCTTATAATACGTATATA
1 TTTACCATATCTTATAATAC-TATATA
* *
6126985 TTTAACATGT-TTATACATTA-TATATA
1 TTTACCATATCTTATA-A-TACTATATA
* * * *
6127011 TATA-CACATGTT-T-ATAC-AT-TC
1 TTTACCATATCTTATAATACTATATA
6127032 TTTACCATATCTTATAATACGTATATA
1 TTTACCATATCTTATAATAC-TATATA
* *
6127059 TTTAACATGT-TTATACATTA-TATATA
1 TTTACCATATCTTATA-A-TACTATATA
* * * *
6127085 TATA-CACATGTT-T-ATAC-AT-TC
1 TTTACCATATCTTATAATACTATATA
6127106 TTTACCATATCTTATAATACGTATATA
1 TTTACCATATCTTATAATAC-TATATA
6127133 TTTA
1 TTTA
6127137 ATATATTTTT
Statistics
Matches: 166, Mismatches: 30, Indels: 60
0.65 0.12 0.23
Matches are distributed among these distances:
21 12 0.07
22 30 0.18
23 6 0.04
24 12 0.07
25 12 0.07
26 54 0.33
27 34 0.20
28 6 0.04
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.46
Consensus pattern (26 bp):
TTTACCATATCTTATAATACTATATA
Found at i:6137193 original size:39 final size:41
Alignment explanation
Indices: 6137139--6137242 Score: 131
Period size: 44 Copynumber: 2.5 Consensus size: 41
6137129 TCCTTATGCT
* *
6137139 ATTACACCTCTATTCCATTCAACCAAACACAAGAA-TA-CC
1 ATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTACCC
6137178 ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTACCC
1 ATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATTACCC
6137224 ATTACGCCTCTATTCCATT
1 ATTACGCCTCTATTCCATT
6137243 ACGCCTCTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
39 13 0.23
40 1 0.02
41 4 0.07
44 19 0.34
45 3 0.05
46 16 0.29
ACGTcount: A:0.37, C:0.32, G:0.04, T:0.28
Consensus pattern (41 bp):
ATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTACCC
Found at i:6137217 original size:44 final size:46
Alignment explanation
Indices: 6137154--6137244 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
6137144 ACCTCTATTC
*
6137154 CATTCAACCAAACACAAGAA-TA-CCATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCCATTACGCCTCTATTCCATTA
6137198 CATTCAACCAAACAAAAGAATTACCCATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCCATTACGCCTCTATTCCATTA
6137244 C
1 C
6137245 GCCTCTATTC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 19 0.43
45 2 0.05
46 23 0.52
ACGTcount: A:0.38, C:0.32, G:0.04, T:0.25
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCCATTACGCCTCTATTCCATTA
Found at i:6137243 original size:16 final size:16
Alignment explanation
Indices: 6137222--6137260 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
6137212 AAAGAATTAC
6137222 CCATTACGCCTCTATT
1 CCATTACGCCTCTATT
6137238 CCATTACGCCTCTATT
1 CCATTACGCCTCTATT
6137254 CCATTAC
1 CCATTAC
6137261 AGCGAACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.21, C:0.38, G:0.05, T:0.36
Consensus pattern (16 bp):
CCATTACGCCTCTATT
Found at i:6137986 original size:29 final size:29
Alignment explanation
Indices: 6137930--6137986 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
6137920 TCAGTTTAAC
* * *
6137930 AAATTTTTTTATTTTTTTAGATTTTTATA
1 AAATTTTATTATTTATTTAGATTATTATA
6137959 AAATTTTAATTATTTATTTA-ATTATTAT
1 AAATTTT-ATTATTTATTTAGATTATTAT
6137987 TTGGCCATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (29 bp):
AAATTTTATTATTTATTTAGATTATTATA
Found at i:6139178 original size:11 final size:11
Alignment explanation
Indices: 6139134--6139180 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
6139124 TATTTAAAAA
*
6139134 TTTTATGAAGTT
1 TTTTAT-AATTT
6139146 TTTTATAATTT
1 TTTTATAATTT
*
6139157 TCTTT-TGATTT
1 T-TTTATAATTT
6139168 TTTTATAATTT
1 TTTTATAATTT
6139179 TT
1 TT
6139181 AAATTATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 3 0.10
11 18 0.60
12 9 0.30
ACGTcount: A:0.21, C:0.02, G:0.06, T:0.70
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:6142063 original size:14 final size:14
Alignment explanation
Indices: 6142044--6142072 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6142034 TCATCGTGCG
6142044 AAATCACATGGCCT
1 AAATCACATGGCCT
6142058 AAATCACATGGCCT
1 AAATCACATGGCCT
6142072 A
1 A
6142073 CCGCACAGGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.21
Consensus pattern (14 bp):
AAATCACATGGCCT
Found at i:6143081 original size:3 final size:3
Alignment explanation
Indices: 6143073--6143113 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
6143063 GTGAATTAAA
*
6143073 TAT TAT TA- TAT TAT TAT TAT ATAT TGT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TA
6143114 ACTAATACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:6147226 original size:30 final size:31
Alignment explanation
Indices: 6147192--6147252 Score: 115
Period size: 30 Copynumber: 2.0 Consensus size: 31
6147182 GAAAAAAACT
6147192 TAATAATTTAATGACTTAAATAA-AACTTTC
1 TAATAATTTAATGACTTAAATAATAACTTTC
6147222 TAATAATTTAATGACTTAAATAATAACTTTC
1 TAATAATTTAATGACTTAAATAATAACTTTC
6147253 GAATGATTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 23 0.77
31 7 0.23
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (31 bp):
TAATAATTTAATGACTTAAATAATAACTTTC
Found at i:6150847 original size:20 final size:20
Alignment explanation
Indices: 6150822--6150865 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
6150812 AGTAAGTTTT
6150822 TTCTCTTTTGTTGCTTCTAG
1 TTCTCTTTTGTTGCTTCTAG
6150842 TTCTCTTTTGTTGCTTCTAG
1 TTCTCTTTTGTTGCTTCTAG
6150862 TTCT
1 TTCT
6150866 GTAATATAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.05, C:0.20, G:0.14, T:0.61
Consensus pattern (20 bp):
TTCTCTTTTGTTGCTTCTAG
Found at i:6151645 original size:60 final size:58
Alignment explanation
Indices: 6151568--6151695 Score: 166
Period size: 60 Copynumber: 2.2 Consensus size: 58
6151558 CCTTTCGCTG
* * * **
6151568 AAGTTTCAGTCTCAACAAAGATGGGCTGCTCAAGTTTCTTTGCTTTTTTTCAAACTTTTC
1 AAGTTTCAGTCTCAACAAAGATGGACGGCTCAAGTTTCATT--TTAATTTCAAACTTTTC
* * *
6151628 AAGTTTTAGTCTTAACAAAGATGGACGGCTCAAGTTTCATTTTAATTTCAAACTTTTT
1 AAGTTTCAGTCTCAACAAAGATGGACGGCTCAAGTTTCATTTTAATTTCAAACTTTTC
6151686 AAGTTTCAGT
1 AAGTTTCAGT
6151696 TTTGTTATTA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
58 23 0.39
60 36 0.61
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.41
Consensus pattern (58 bp):
AAGTTTCAGTCTCAACAAAGATGGACGGCTCAAGTTTCATTTTAATTTCAAACTTTTC
Found at i:6157717 original size:69 final size:69
Alignment explanation
Indices: 6157637--6157771 Score: 243
Period size: 69 Copynumber: 2.0 Consensus size: 69
6157627 CTTCTTCGGC
* *
6157637 TGATGTTGACTTGGTGCAATCACCAGATGTTTCAAGTGGTAATGCTCGGTCTATCACAATAACAT
1 TGATGTTGACTTAGTGCAATCACCAGATGTTTCAAGTGGTAATGCTCGGTCTATCACAAGAACAT
6157702 CGAT
66 CGAT
*
6157706 TGATGTTGACTTAGTGCAATCACCAGATGTTTCAAGTGGTAATGCTCGGTCTATTACAAGAACAT
1 TGATGTTGACTTAGTGCAATCACCAGATGTTTCAAGTGGTAATGCTCGGTCTATCACAAGAACAT
6157771 C
66 C
6157772 TGAAGGTGTC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (69 bp):
TGATGTTGACTTAGTGCAATCACCAGATGTTTCAAGTGGTAATGCTCGGTCTATCACAAGAACAT
CGAT
Found at i:6159878 original size:20 final size:19
Alignment explanation
Indices: 6159853--6159890 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
6159843 AAATAATTTG
6159853 AATTTTAAAAATTAATTTTT
1 AATTTTAAAAATT-ATTTTT
*
6159873 AATTTTGAAAATTATTTT
1 AATTTTAAAAATTATTTT
6159891 AAGTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
AATTTTAAAAATTATTTTT
Found at i:6162774 original size:50 final size:50
Alignment explanation
Indices: 6162699--6162795 Score: 169
Period size: 50 Copynumber: 1.9 Consensus size: 50
6162689 GGTAATACTG
6162699 ACATTTGAACTCAACAAAGATTCATTTCGTCAACAACCAAAATATCACCA
1 ACATTTGAACTCAACAAAGATTCATTTCGTCAACAACCAAAATATCACCA
*
6162749 ACATTTGAACTCAACAAA-AGTTCATTTCGTCTACAACCAAAATATCA
1 ACATTTGAACTCAACAAAGA-TTCATTTCGTCAACAACCAAAATATCA
6162796 TTGCCACAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
49 1 0.02
50 44 0.98
ACGTcount: A:0.43, C:0.25, G:0.06, T:0.26
Consensus pattern (50 bp):
ACATTTGAACTCAACAAAGATTCATTTCGTCAACAACCAAAATATCACCA
Found at i:6166059 original size:44 final size:44
Alignment explanation
Indices: 6165958--6166647 Score: 434
Period size: 44 Copynumber: 15.4 Consensus size: 44
6165948 CTTTGATCCA
* * * ** **
6165958 CTCCACTGTAACTTCAGGGAGATAAAACTTGTAGCTTCCATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTG
* * *
6166002 TTCCACT-CTAACTTCAGGGAGATAAGACTTATAGCTTTAATCTG
1 CTCCACTGC-AACTTCAGGGAGATAAGATTTGTAGCTTTAATCTG
* * * * *
6166046 CTCCGCTGCAACTTCAGGGGGATGAGATTTGT-GTTTTCTATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTT-AATCTG
* * * *
6166090 CTTCACTACGACCTT-AGGGAGATAA-AGTGTGTAGCTTTAATCTG
1 CTCCACTGC-AACTTCAGGGAGATAAGA-TTTGTAGCTTTAATCTG
** *** * ** *
6166134 CTCTGCTGCAACTTCAAAAAGTTAAGATTTGCTATTTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTG
* * * * **
6166179 CTCCACTGTAATTTTAGGGAGATAAGGTTTGCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTG
* * *
6166223 CTCCGCTGCAACTTTAAGGAGATAAGATTTGTAGCCTGTCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAG-C--T-TT-AATCTG
* ** *
6166272 CTCCACTGCAATTTCAGGGAGATAAGATTTGTTTATTTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG--TAGCTTTAATCTG
* * *
6166318 CTCCACTGCAACTTCAAGGAGATAAGGTTTATAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTG
* * ** ** *
6166362 CTCTACTGCAACTTCAGAGAGATAAGATTTGCTTTCTCCAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTG
* * * ** *
6166407 TTCTACTGCAACTTCAGGGAGATAAGGTTTGTTTATTTTTAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG--TAGCTTTAATCTG
* * * * * * *
6166453 CTCCACTACAACTTTAAGGAAATAAGGTTTATAGCTTTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTG
* * ** * *** *
6166497 CTCTACTGCAACTTCAGAGAGATAATTTTTGCTATCTCCGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTG
* * * * * *
6166542 CTCAACTGCAACTTCAGGGAGATAAGATCTATAACTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTG
* * * * *
6166586 CTCCACTACAACTTCAGGGAGACAATATTTGTAGCCTTTAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTAG-CTTTAATCTG
*
6166631 ATCCACTGCAACTTCAG
1 CTCCACTGCAACTTCAG
6166648 ACTCCACTGT
Statistics
Matches: 484, Mismatches: 142, Indels: 39
0.73 0.21 0.06
Matches are distributed among these distances:
43 9 0.02
44 238 0.49
45 133 0.27
46 63 0.13
47 3 0.01
48 3 0.01
49 33 0.07
51 2 0.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTG
Found at i:6166249 original size:89 final size:88
Alignment explanation
Indices: 6166003--6166618 Score: 385
Period size: 89 Copynumber: 6.9 Consensus size: 88
6165993 TTCCATCCAT
* ** * * * *
6166003 TCCACT-CTAACTTCAGGGAGATAAGACTTATAGCTTTAATCTGCTCCGCTGCAACTTCAGGGGG
1 TCCACTGC-AACTTTAGGGAGATAAGGTTTGTAGCTTTAATCTGCTCCACTGCAACTTCAAGGAG
* *
6166067 ATGAGATTTGTGTTTTCT-ATCTGC
65 ATAAGATTTGTATTTT-TAATCTGC
* * * * * * ** ** *
6166091 TTCACTACGACCTTAGGGAGATAAAGTGTGTAGCTTTAATCTGCTCTGCTGCAACTTCAAAAAGT
1 TCCACTGCAACTTTAGGGAGATAAGGTTTGTAGCTTTAATCTGCTCCACTGCAACTTCAAGGAGA
*
6166156 TAAGATTTGCTATTTTTAACCTGC
66 TAAGATTTG-TATTTTTAATCTGC
* * ** * *
6166180 TCCACTGTAATTTTAGGGAGATAAGGTTTGCGGCTTTAATCTGCTCCGCTGCAACTTTAAGGAGA
1 TCCACTGCAACTTTAGGGAGATAAGGTTTGTAGCTTTAATCTGCTCCACTGCAACTTCAAGGAGA
*
6166245 TAAGATTTGTAGCCTGTCTTCAATCTGC
66 TAAGATTTGTA---T-T-TTTAATCTGC
* ** *
6166273 TCCACTGCAA-TTTCAGGGAGATAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTCAAGG
1 TCCACTGCAACTTT-AGGGAGATAAGGTTTG--TAGCTTTAATCTGCTCCACTGCAACTTCAAGG
* * **
6166337 AGATAAGGTTTATAGCTTTAATCTGC
63 AGATAAGATTTGTATTTTTAATCTGC
* * * * ** ** ** * *
6166363 TCTACTGCAACTTCAGAGAGATAAGATTTGCTTTCTCCAATCTATTCTACTGCAACTTCAGGGAG
1 TCCACTGCAACTTTAGGGAGATAAGGTTTG-TAGCTTTAATCTGCTCCACTGCAACTTCAAGGAG
* *
6166428 ATAAGGTTTGTTTATTTTTAACCTGC
65 ATAAGATTTG--TATTTTTAATCTGC
* * * * * *
6166454 TCCACTACAACTTTAAGGAAATAAGGTTTATAGCTTTAATCTACTCTACTGCAACTTC-AGAGAG
1 TCCACTGCAACTTTAGGGAGATAAGGTTTGTAGCTTTAATCTGCTCCACTGCAACTTCAAG-GAG
** * *** *
6166518 ATAATTTTTGCTATCTCCGATCTAC
65 ATAAGATTTG-TATTTTTAATCTGC
* * * * * * * * * *
6166543 TCAACTGCAACTTCAGGGAGATAAGATCTATAACTTCAACCTGCTCCACTACAACTTCAGGGAGA
1 TCCACTGCAACTTTAGGGAGATAAGGTTTGTAGCTTTAATCTGCTCCACTGCAACTTCAAGGAGA
* *
6166608 CAATATTTGTA
66 TAAGATTTGTA
6166619 GCCTTTAGTT
Statistics
Matches: 407, Mismatches: 105, Indels: 32
0.75 0.19 0.06
Matches are distributed among these distances:
88 61 0.15
89 169 0.42
90 68 0.17
91 36 0.09
92 4 0.01
93 32 0.08
95 37 0.09
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (88 bp):
TCCACTGCAACTTTAGGGAGATAAGGTTTGTAGCTTTAATCTGCTCCACTGCAACTTCAAGGAGA
TAAGATTTGTATTTTTAATCTGC
Found at i:6166340 original size:139 final size:136
Alignment explanation
Indices: 6166156--6166569 Score: 539
Period size: 135 Copynumber: 3.0 Consensus size: 136
6166146 TTCAAAAAGT
* * * * ***
6166156 TAAGATTTG-CTATTTTTAACCTGCTCCACTGTAATTTTAGGGAGATAAGGTTTGCGGCTTTAAT
1 TAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTTAAGGAGATAAGGTTTATAGCTTTAAT
** * * * * * *
6166220 CTGCTCCGCTGCAACTTTA-AGGAGATAAGATTTGTAGCCTGTCTTCAATCTGCTCCACTGCAAT
66 CTGCTCTACTGCAACTTCAGA-GAGATAAGATTT-T-G-CTATCTCCAATCTACTCAACTGCAAC
6166284 TTCAGGGAGA
127 TTCAGGGAGA
*
6166294 TAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTATAGCTTTAAT
1 TAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTTAAGGAGATAAGGTTTATAGCTTTAAT
* * *
6166359 CTGCTCTACTGCAACTTCAGAGAGATAAGA-TTTGCTTTCTCCAATCTATTCTACTGCAACTTCA
66 CTGCTCTACTGCAACTTCAGAGAGATAAGATTTTGCTATCTCCAATCTACTCAACTGCAACTTCA
6166423 GGGAGA
131 GGGAGA
* * *
6166429 TAAGGTTTGTTTATTTTTAACCTGCTCCACTACAACTTTAAGGAAATAAGGTTTATAGCTTTAAT
1 TAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTTAAGGAGATAAGGTTTATAGCTTTAAT
* * *
6166494 CTACTCTACTGCAACTTCAGAGAGATAA-TTTTTGCTATCTCCGATCTACTCAACTGCAACTTCA
66 CTGCTCTACTGCAACTTCAGAGAGATAAGATTTTGCTATCTCCAATCTACTCAACTGCAACTTCA
6166558 GGGAGA
131 GGGAGA
6166564 TAAGAT
1 TAAGAT
6166570 CTATAACTTC
Statistics
Matches: 245, Mismatches: 28, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
135 159 0.65
136 1 0.00
137 1 0.00
138 11 0.04
139 72 0.29
140 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (136 bp):
TAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTTAAGGAGATAAGGTTTATAGCTTTAAT
CTGCTCTACTGCAACTTCAGAGAGATAAGATTTTGCTATCTCCAATCTACTCAACTGCAACTTCA
GGGAGA
Found at i:6166390 original size:90 final size:93
Alignment explanation
Indices: 6166176--6166436 Score: 262
Period size: 95 Copynumber: 2.8 Consensus size: 93
6166166 TATTTTTAAC
* * * * * ** * *
6166176 CTGCTCCACTGTAATTTTAGGGAGATAAGGTTTGC-GGCTTTAATCTGCTCCGCTGCAACTTTAA
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTTTCTTTAATCTGCTCCACTGCAACTTCAA
* *
6166240 GGAGATAAGATTTGTAGCCTGTCTTCAAT
66 GGAGATAAGGTTTATAGCC-GTCTTCAAT
* * * * *
6166269 CTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTCA
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTT-TCTTTAATCTGCTCCACTGCAACTTCA
6166334 AGGAGATAAGGTTTATAG-C-T-TT-AAT
65 AGGAGATAAGGTTTATAGCCGTCTTCAAT
* ** ** * *
6166359 CTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTTTCTCCAATCTATTCTACTGCAACTTCAG
1 CTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTTTCTTTAATCTGCTCCACTGCAACTTCAA
6166424 GGAGATAAGGTTT
66 GGAGATAAGGTTT
6166437 GTTTATTTTT
Statistics
Matches: 142, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
89 33 0.23
90 36 0.25
91 2 0.01
92 1 0.01
93 31 0.22
94 1 0.01
95 38 0.27
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (93 bp):
CTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTTTCTTTAATCTGCTCCACTGCAACTTCAA
GGAGATAAGGTTTATAGCCGTCTTCAAT
Found at i:6166465 original size:135 final size:135
Alignment explanation
Indices: 6166166--6166648 Score: 513
Period size: 135 Copynumber: 3.6 Consensus size: 135
6166156 TAAGATTTGC
** * * * *** *
6166166 TATTTTTAACCTGCTCCACTGTAATTTTAGGGAGATAAGGTTTGCGGCTTTAATCTGCTCCGCTG
1 TATTTTTAACCTGCTCCACTACAACTTCAAGGAGATAAGGTTTATAGCTTTAATCTGCTCCACTG
* * * * * *
6166231 CAACTTTA-AGGAGATAAGATTTGTAGCCTGTCTTCAATCTGCTCCACTGCAATTTCAGGGAGAT
66 CAACTTCAGA-GAGATAAGA-TT-T-G-CTATCTCCAATCTACTCAACTGCAACTTCAGGGAGAT
*
6166295 AAGATTTGTT
126 AAGGTTTGTT
* *
6166305 TATTTTTAACCTGCTCCACTGCAACTTCAAGGAGATAAGGTTTATAGCTTTAATCTGCTCTACTG
1 TATTTTTAACCTGCTCCACTACAACTTCAAGGAGATAAGGTTTATAGCTTTAATCTGCTCCACTG
* * *
6166370 CAACTTCAGAGAGATAAGATTTGCTTTCTCCAATCTATTCTACTGCAACTTCAGGGAGATAAGGT
66 CAACTTCAGAGAGATAAGATTTGCTATCTCCAATCTACTCAACTGCAACTTCAGGGAGATAAGGT
6166435 TTGTT
131 TTGTT
* * * *
6166440 TATTTTTAACCTGCTCCACTACAACTTTAAGGAAATAAGGTTTATAGCTTTAATCTACTCTACTG
1 TATTTTTAACCTGCTCCACTACAACTTCAAGGAGATAAGGTTTATAGCTTTAATCTGCTCCACTG
** *
6166505 CAACTTCAGAGAGATAATTTTTGCTATCTCCGATCTACTCAACTGCAACTTCAGGGAGATAA-G-
66 CAACTTCAGAGAGATAAGATTTGCTATCTCCAATCTACTCAACTGCAACTTCAGGGAGATAAGGT
* * *
6166568 ATCTA
131 TTGTT
** * * * ** * * * *
6166573 TAACTTCAACCTGCTCCACTACAACTTCAGGGAGACAATATTTGTAGCCTTTAGTTTGATCCACT
1 TATTTTTAACCTGCTCCACTACAACTTCAAGGAGATAAGGTTTATAG-CTTTAATCTGCTCCACT
6166638 GCAACTTCAGA
65 GCAACTTCAGA
6166649 CTCCACTGTA
Statistics
Matches: 297, Mismatches: 45, Indels: 9
0.85 0.13 0.03
Matches are distributed among these distances:
133 39 0.13
134 24 0.08
135 157 0.53
136 1 0.00
137 1 0.00
138 2 0.01
139 72 0.24
140 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (135 bp):
TATTTTTAACCTGCTCCACTACAACTTCAAGGAGATAAGGTTTATAGCTTTAATCTGCTCCACTG
CAACTTCAGAGAGATAAGATTTGCTATCTCCAATCTACTCAACTGCAACTTCAGGGAGATAAGGT
TTGTT
Found at i:6166735 original size:44 final size:44
Alignment explanation
Indices: 6166650--6166764 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
6166640 AACTTCAGAC
* * ** * *
6166650 TCCACTGTAACTTCAGGGAGATACGATTTATAGCTTTAATATAA
1 TCCACTGCAACTTCAGGGAGATAAGATCGATAACTTCAATATAA
* * * **
6166694 TCTAGTGCAACTTCAGAGAGATAAGATCGATAACTTCAATATGC
1 TCCACTGCAACTTCAGGGAGATAAGATCGATAACTTCAATATAA
6166738 TCCACTGCAACTTCAGGGAGATAAGAT
1 TCCACTGCAACTTCAGGGAGATAAGAT
6166765 TTGTAATTTG
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATCGATAACTTCAATATAA
Found at i:6166889 original size:44 final size:44
Alignment explanation
Indices: 6166841--6167044 Score: 153
Period size: 44 Copynumber: 4.5 Consensus size: 44
6166831 TGCTGTACTG
* *
6166841 CAACTTCAGAGAGATAAGATCTATAATTTCAATCTGCTCCACTA
1 CAACTTCAGGGAGATAAGATCTGTAATTTCAATCTGCTCCACTA
* * * *
6166885 CAACTTCAGGGAGATACGATTTGTAATTTGTAGCTTTAATATGTTCCACTA
1 CAACTTCAGGGAGATAAGATCTGTAA-TT-T--C---AATCTGCTCCACTA
* * * * *
6166936 CAACTTTAGGGAAATAAGAT-TCGCT-ATCTTCAGTTTGCTCCACTG
1 CAACTTCAGGGAGATAAGATCT-G-TAAT-TTCAATCTGCTCCACTA
* * * *
6166981 CAACTTCAGGGAGATAAGA-CTTGTAACTTCAACCTGCTCTACTG
1 CAACTTCAGGGAGATAAGATC-TGTAATTTCAATCTGCTCCACTA
6167025 CAACTTCAGGGAGATAAGAT
1 CAACTTCAGGGAGATAAGAT
6167045 TTTCCATAAT
Statistics
Matches: 126, Mismatches: 20, Indels: 27
0.73 0.12 0.16
Matches are distributed among these distances:
44 55 0.44
45 31 0.25
46 2 0.02
48 2 0.02
50 3 0.02
51 32 0.25
52 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATCTGTAATTTCAATCTGCTCCACTA
Found at i:6166951 original size:140 final size:140
Alignment explanation
Indices: 6166699--6167046 Score: 527
Period size: 140 Copynumber: 2.5 Consensus size: 140
6166689 TATAATCTAG
* *
6166699 TGCAACTTCAGAGAGATAAGATCGATAACTTCAATATGCTCCACTGCAACTTCAGGGAGATAAGA
1 TGCAACTTCAGAGAGATAAGATCTATAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * *
6166764 TTTGTAATTTGTAGCTTTAATCTGTTCCGCTGCAACTTTAGGGAAATAAAATTCACTATCTTCAG
66 TTTGTAATTTGTAGCTTTAATATGTTCCACTACAACTTTAGGGAAATAAAATTCACTATCTTCAG
**
6166829 TCTGCTGTAC
131 TCTGCTCCAC
* * *
6166839 TGCAACTTCAGAGAGATAAGATCTATAATTTCAATCTGCTCCACTACAACTTCAGGGAGATACGA
1 TGCAACTTCAGAGAGATAAGATCTATAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* *
6166904 TTTGTAATTTGTAGCTTTAATATGTTCCACTACAACTTTAGGGAAATAAGATTCGCTATCTTCAG
66 TTTGTAATTTGTAGCTTTAATATGTTCCACTACAACTTTAGGGAAATAAAATTCACTATCTTCAG
*
6166969 TTTGCTCCAC
131 TCTGCTCCAC
* * * *
6166979 TGCAACTTCAGGGAGATAAGA-CTTGTAACTTCAACCTGCTCTACTGCAACTTCAGGGAGATAAG
1 TGCAACTTCAGAGAGATAAGATC-TATAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
6167043 ATTT
65 ATTT
6167047 TCCATAATGA
Statistics
Matches: 187, Mismatches: 20, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
139 1 0.01
140 186 0.99
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (140 bp):
TGCAACTTCAGAGAGATAAGATCTATAACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
TTTGTAATTTGTAGCTTTAATATGTTCCACTACAACTTTAGGGAAATAAAATTCACTATCTTCAG
TCTGCTCCAC
Found at i:6178773 original size:3 final size:3
Alignment explanation
Indices: 6178765--6178829 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
6178755 TGGTTTTAAA
* * * * *
6178765 AAT AAT AAT ACT AAT AAT AAT GAG AAT AAT -AT GAAT GAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
6178810 AAT AAT AAAT AAT GAAT AAT
1 AAT AAT -AAT AAT -AAT AAT
6178830 CAAAGGTTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
2 2 0.04
3 38 0.79
4 8 0.17
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:6178848 original size:18 final size:18
Alignment explanation
Indices: 6178825--6178860 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6178815 TAAATAATGA
6178825 ATAATCAAAGGTTTGTAG
1 ATAATCAAAGGTTTGTAG
*
6178843 ATAATCTAAGGTTTGTAG
1 ATAATCAAAGGTTTGTAG
6178861 TCATATAAAA
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:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (18 bp):
ATAATCAAAGGTTTGTAG
Found at i:6179492 original size:24 final size:24
Alignment explanation
Indices: 6179460--6179508 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
6179450 GGTAAGACAT
*
6179460 TTTCCACAGCTCCTCTCTTCACCC
1 TTTCCACAGCTCCTCTATTCACCC
6179484 TTTCCACAGCTCCTCTATTCACCC
1 TTTCCACAGCTCCTCTATTCACCC
6179508 T
1 T
6179509 ATCGATTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.14, C:0.47, G:0.04, T:0.35
Consensus pattern (24 bp):
TTTCCACAGCTCCTCTATTCACCC
Found at i:6185181 original size:14 final size:14
Alignment explanation
Indices: 6185158--6185197 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
6185148 ACAGAAAAGT
*
6185158 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
6185172 AAATCATTTTACGG
1 AAAACATTTTACAG
6185186 AAAACATTTTAC
1 AAAACATTTTAC
6185198 TGCCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:6185183 original size:34 final size:35
Alignment explanation
Indices: 6185123--6185189 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
6185113 CAAACACCAG
* *
6185123 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
6185158 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
6185190 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:6187283 original size:16 final size:17
Alignment explanation
Indices: 6187258--6187292 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6187248 GAGAGAGAGA
6187258 TGTGTGGAATGAA-AGG
1 TGTGTGGAATGAATAGG
*
6187274 TGTGTTGAATGAATAGG
1 TGTGTGGAATGAATAGG
6187291 TG
1 TG
6187293 AAGGGGGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.29, C:0.00, G:0.40, T:0.31
Consensus pattern (17 bp):
TGTGTGGAATGAATAGG
Found at i:6189650 original size:16 final size:15
Alignment explanation
Indices: 6189616--6189651 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
6189606 CAATTTAAAG
6189616 AAAAATGAATATTGT
1 AAAAATGAATATTGT
*
6189631 AAAAATGAATGTTGT
1 AAAAATGAATATTGT
6189646 AAAAAT
1 AAAAAT
6189652 ATTGGTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.14, T:0.31
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:6191372 original size:28 final size:26
Alignment explanation
Indices: 6191314--6191385 Score: 67
Period size: 28 Copynumber: 2.6 Consensus size: 26
6191304 AAATAATTTT
6191314 TAAATATTT-ATAGAAATTCTAAAAATTA
1 TAAA-ATTTAATA-AAA-TCTAAAAATTA
*
6191342 TAAGTATTTAA-AAAATCTAAAAATATAA
1 TAA-AATTTAATAAAATCTAAAAAT-T-A
6191370 TAAAATTTAATAAAAT
1 TAAAATTTAATAAAAT
6191386 AATAATTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
26 9 0.24
27 10 0.27
28 17 0.46
29 1 0.03
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (26 bp):
TAAAATTTAATAAAATCTAAAAATTA
Found at i:6191374 original size:18 final size:18
Alignment explanation
Indices: 6191353--6191390 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6191343 AAGTATTTAA
6191353 AAAATCTAA-AAATATAAT
1 AAAATCTAATAAA-ATAAT
*
6191371 AAAATTTAATAAAATAAT
1 AAAATCTAATAAAATAAT
6191389 AA
1 AA
6191391 TTTTAGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAATCTAATAAAATAAT
Found at i:6191710 original size:21 final size:21
Alignment explanation
Indices: 6191686--6191725 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6191676 ACCTTTTCTA
*
6191686 AAGTTAAAAGTCAAAACTATC
1 AAGTTAAAAGGCAAAACTATC
6191707 AAGTTAAAAGGCAAAACTA
1 AAGTTAAAAGGCAAAACTA
6191726 CATTATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.20
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATC
Found at i:6196224 original size:33 final size:33
Alignment explanation
Indices: 6196134--6196231 Score: 94
Period size: 33 Copynumber: 2.9 Consensus size: 33
6196124 TATATATATA
*
6196134 TATAC-TT-CCATGGTCCAACCATGGTCTTACG
1 TATACATTGCCATGGTCTAACCATGGTCTTACG
* * * *
6196165 -ACTGAACAACTGCCATAGCCTCACCATGGTCTTACG
1 TA-T--AC-ATTGCCATGGTCTAACCATGGTCTTACG
6196201 TATACATTGCCATGGTCTAACCATGGTCTTA
1 TATACATTGCCATGGTCTAACCATGGTCTTA
6196232 TATCCGAACA
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
30 1 0.02
31 1 0.02
33 24 0.47
34 2 0.04
35 1 0.02
36 21 0.41
37 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.30
Consensus pattern (33 bp):
TATACATTGCCATGGTCTAACCATGGTCTTACG
Found at i:6208445 original size:12 final size:12
Alignment explanation
Indices: 6208398--6208445 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 12
6208388 GGTCCAACCC
6208398 AAAAAAAAAATT
1 AAAAAAAAAATT
*
6208410 AACAAAATAAAAAT
1 AA-AAAA-AAAATT
6208424 AAAAATAAAAATT
1 AAAAA-AAAAATT
6208437 AGAAAAAAA
1 A-AAAAAAA
6208446 TCAAATATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
12 2 0.07
13 16 0.53
14 12 0.40
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (12 bp):
AAAAAAAAAATT
Found at i:6208944 original size:27 final size:27
Alignment explanation
Indices: 6208905--6208973 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
6208895 ACAAAAAAAA
* **
6208905 TTATAAATAAAAATTAGAAAAAAG-GT
1 TTATAAAAAAAAAAAAGAAAAAAGAGT
6208931 TTATAAAAAGAAAAAAAGAAAAAAGAGT
1 TTATAAAAA-AAAAAAAGAAAAAAGAGT
*
6208959 TT-TAAATAAAAAAAA
1 TTATAAAAAAAAAAAA
6208974 TCAGTCGACC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 15 0.41
27 18 0.49
28 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (27 bp):
TTATAAAAAAAAAAAAGAAAAAAGAGT
Found at i:6212784 original size:35 final size:35
Alignment explanation
Indices: 6212713--6212793 Score: 85
Period size: 35 Copynumber: 2.3 Consensus size: 35
6212703 TACCCTTCTC
* * *
6212713 TACATATATAGTTTTTATATTTTATAATTCGTATA
1 TACATATATATTTTTTATATTTTACAATTCGCATA
6212748 TACATATATATTTTGTGTATATTTTACAA-T-GCATA
1 TACATATATATTTT-T-TATATTTTACAATTCGCATA
* *
6212783 TATATACATAT
1 TACATATATAT
6212794 ATATATATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
35 26 0.67
36 2 0.05
37 11 0.28
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (35 bp):
TACATATATATTTTTTATATTTTACAATTCGCATA
Found at i:6212799 original size:16 final size:17
Alignment explanation
Indices: 6212780--6212813 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
6212770 TTTACAATGC
6212780 ATATATAT-ACATATAT
1 ATATATATCACATATAT
6212796 ATATATATCCACATATAT
1 ATATATAT-CACATATAT
6212814 TTTTTATACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATATATCACATATAT
Found at i:6215951 original size:6 final size:6
Alignment explanation
Indices: 6215940--6215980 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
6215930 TATAGAAACA
6215940 ATGGAT ATGGAT ATGGAT ATGGAT ATGGAT ATGGAT ATGGA
1 ATGGAT ATGGAT ATGGAT ATGGAT ATGGAT ATGGAT ATGGA
6215981 ATTCATTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (6 bp):
ATGGAT
Found at i:6216183 original size:13 final size:14
Alignment explanation
Indices: 6216155--6216184 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6216145 AGCTTCAAAT
6216155 TATTTTTTTTATAA
1 TATTTTTTTTATAA
6216169 TATTTTTTTTA-AA
1 TATTTTTTTTATAA
6216182 TAT
1 TAT
6216185 CACTAGTGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTTTTTTATAA
Found at i:6222017 original size:3 final size:3
Alignment explanation
Indices: 6222009--6222053 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
6221999 TTTCACAAAA
6222009 AAT AAT 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 AAT AAT
6222054 GAGAATTATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6226730 original size:18 final size:19
Alignment explanation
Indices: 6226704--6226741 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
6226694 TATCAGTATT
*
6226704 TTTACTACTATTA-TTATG
1 TTTAATACTATTATTTATG
6226722 TTTAATACTATTATTTATG
1 TTTAATACTATTATTTATG
6226741 T
1 T
6226742 ATTTTTACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.29, C:0.08, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTAATACTATTATTTATG
Found at i:6226783 original size:38 final size:40
Alignment explanation
Indices: 6226700--6226783 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
6226690 ATATTATCAG
* *
6226700 TATTTTTACTACTATTATTATGTTTAATACTATTATTTATG
1 TATTTTTACTACTACTATTATGTTTAATA-TATTATTTATC
*
6226741 TATTTTTACTACTACTATTAT-TATT-AT-TCTTATTTATC
1 TATTTTTACTACTACTATTATGT-TTAATATATTATTTATC
6226779 TATTT
1 TATTT
6226784 AATATTGTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
38 14 0.36
40 3 0.08
41 22 0.56
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (40 bp):
TATTTTTACTACTACTATTATGTTTAATATATTATTTATC
Found at i:6227122 original size:20 final size:19
Alignment explanation
Indices: 6227099--6227142 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
6227089 TTCAAAATAC
6227099 ATTTAT-ATACATACTCGTAT
1 ATTTATCATACATA-TC-TAT
6227119 ATTT-TCATACATATCTAT
1 ATTTATCATACATATCTAT
6227137 ATTTAT
1 ATTTAT
6227143 TCACACATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 7 0.32
19 4 0.18
20 11 0.50
ACGTcount: A:0.34, C:0.14, G:0.02, T:0.50
Consensus pattern (19 bp):
ATTTATCATACATATCTAT
Found at i:6227145 original size:20 final size:20
Alignment explanation
Indices: 6227105--6227140 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 20
6227095 ATACATTTAT
6227105 ATACATACTCGTATATTTTC
1 ATACATACTCGTATATTTTC
6227125 ATACATA-TC-TATATTT
1 ATACATACTCGTATATTT
6227141 ATTCACACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.44
19 2 0.12
20 7 0.44
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (20 bp):
ATACATACTCGTATATTTTC
Found at i:6228948 original size:18 final size:18
Alignment explanation
Indices: 6228886--6228950 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 18
6228876 CCAACACATT
6228886 CAAAGAACAAATAACAAA
1 CAAAGAACAAATAACAAA
* *
6228904 CAATA-AA-AAACCCAACACATC
1 CAA-AGAACAAA--TAACA-A-A
6228925 CAAAGAACAAATAACAAA
1 CAAAGAACAAATAACAAA
6228943 CAAAGAAC
1 CAAAGAAC
6228951 CCAAAATCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
17 3 0.08
18 13 0.36
19 6 0.17
20 6 0.17
21 5 0.14
22 3 0.08
ACGTcount: A:0.66, C:0.23, G:0.05, T:0.06
Consensus pattern (18 bp):
CAAAGAACAAATAACAAA
Found at i:6229090 original size:19 final size:19
Alignment explanation
Indices: 6229066--6229114 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
6229056 AAAAAAAATT
* *
6229066 AACAACCTAATATAATAGC
1 AACAACCTAAAATAAGAGC
*
6229085 AACAACCCAAAATAAGAGC
1 AACAACCTAAAATAAGAGC
6229104 AACAACCTAAA
1 AACAACCTAAA
6229115 GAATTACAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.57, C:0.24, G:0.06, T:0.12
Consensus pattern (19 bp):
AACAACCTAAAATAAGAGC
Found at i:6229728 original size:13 final size:13
Alignment explanation
Indices: 6229710--6229737 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6229700 AAAGAGGAAT
6229710 GAAAGATGAAGAA
1 GAAAGATGAAGAA
6229723 GAAAGATGAAGAA
1 GAAAGATGAAGAA
6229736 GA
1 GA
6229738 CAGTGTGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.32, T:0.07
Consensus pattern (13 bp):
GAAAGATGAAGAA
Found at i:6231534 original size:33 final size:33
Alignment explanation
Indices: 6231465--6231615 Score: 134
Period size: 33 Copynumber: 4.5 Consensus size: 33
6231455 ATGTGAAGGG
*
6231465 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
6231492 GGTTGCTAAGTGCTGATTTCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
6231525 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGAATC----AT-TG---GT
6231567 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
6231600 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
6231616 ATCCACTGAT
Statistics
Matches: 100, Mismatches: 9, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
27 21 0.21
31 2 0.02
32 2 0.02
33 35 0.35
34 6 0.06
36 2 0.02
37 2 0.02
38 2 0.02
39 2 0.02
41 6 0.06
42 20 0.20
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:6231569 original size:102 final size:102
Alignment explanation
Indices: 6231392--6231588 Score: 304
Period size: 102 Copynumber: 1.9 Consensus size: 102
6231382 ATAAAAGGAT
* * * ** *
6231392 TTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGTTAAGTACTGATTGCACCATATTTTAAAT
1 TTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATCCCACCATATCTTAAAT
*
6231457 GTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGG
66 GTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAAGGGG
* * *
6231494 TTGCTAAGTGCTGATTTCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAAT
1 TTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATCCCACCATATCTTAAAT
6231559 GTGAAAGGGGTTGCTAAGTGCTGATTCCCC
66 GTGAAAGGGGTTGCTAAGTGCTGATTCCCC
6231589 GAATCATTGG
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
102 85 1.00
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (102 bp):
TTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTACTGATCCCACCATATCTTAAAT
GTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAAGGGG
Found at i:6240861 original size:14 final size:14
Alignment explanation
Indices: 6240838--6240880 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
6240828 TATTAATATA
6240838 TATTTA-CTTTTTT
1 TATTTACCTTTTTT
*
6240851 TATTTACCTTTATT
1 TATTTACCTTTTTT
6240865 TATTT-CCATTTTTT
1 TATTTACC-TTTTTT
6240879 TA
1 TA
6240881 GATACCTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 8 0.31
14 18 0.69
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTACCTTTTTT
Found at i:6241737 original size:21 final size:21
Alignment explanation
Indices: 6241713--6241752 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6241703 ATGTACCTAA
6241713 AAATTAGGTATAAACTAAGAG
1 AAATTAGGTATAAACTAAGAG
*
6241734 AAATTAGGTATAAATTAAG
1 AAATTAGGTATAAACTAAG
6241753 TACTCCAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.17, T:0.28
Consensus pattern (21 bp):
AAATTAGGTATAAACTAAGAG
Found at i:6248301 original size:169 final size:169
Alignment explanation
Indices: 6248022--6248359 Score: 640
Period size: 169 Copynumber: 2.0 Consensus size: 169
6248012 GTTTTAAGCA
* * *
6248022 TAATTGTATTCGGCTAAAGCTTGAGAATTTGACCATATGAATAGTAACTTTAGTTATTTGATGAA
1 TAATTGTATTCGGCTAAAGCTTGAAAAATTAACCATATGAATAGTAACTTTAGTTATTTGATGAA
6248087 TAAATACCTATATGCGATTTTGATAAATGGTTTTGAGTATTTGATTAATAATGATTGAATATACT
66 TAAATACCTATATGCGATTTTGATAAATGGTTTTGAGTATTTGATTAATAATGATTGAATATACT
*
6248152 ATGAAGGTATACAAATGCTTATGACATATTCGGCCTAAT
131 ATGAAGGTATACAAATGCTTATGACATATTCAGCCTAAT
6248191 TAATTGTATTCGGCTAAAGCTTGAAAAATTAACCATATGAATAGTAACTTTAGTTATTTGATGAA
1 TAATTGTATTCGGCTAAAGCTTGAAAAATTAACCATATGAATAGTAACTTTAGTTATTTGATGAA
6248256 TAAATACCTATATGCGATTTTGATAAATGGTTTTGAGTATTTGATTAATAATGATTGAATATACT
66 TAAATACCTATATGCGATTTTGATAAATGGTTTTGAGTATTTGATTAATAATGATTGAATATACT
6248321 ATGAAGGTATACAAATGCTTATGACATATTCAGCCTAAT
131 ATGAAGGTATACAAATGCTTATGACATATTCAGCCTAAT
6248360 ATATATATAT
Statistics
Matches: 165, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
169 165 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (169 bp):
TAATTGTATTCGGCTAAAGCTTGAAAAATTAACCATATGAATAGTAACTTTAGTTATTTGATGAA
TAAATACCTATATGCGATTTTGATAAATGGTTTTGAGTATTTGATTAATAATGATTGAATATACT
ATGAAGGTATACAAATGCTTATGACATATTCAGCCTAAT
Found at i:6248365 original size:2 final size:2
Alignment explanation
Indices: 6248358--6248384 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6248348 ATTCAGCCTA
6248358 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6248385 ATTGTTTGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6255186 original size:28 final size:28
Alignment explanation
Indices: 6255153--6255367 Score: 290
Period size: 28 Copynumber: 7.7 Consensus size: 28
6255143 AGTACACTGA
*
6255153 GGGCCTTAGCCCAATACAGTAA-CAATGT
1 GGGCCTTAGCCCAATACAG-AATCAGTGT
* *
6255181 GGGCCTTAGCCCAATACAGAATCTGTAT
1 GGGCCTTAGCCCAATACAGAATCAGTGT
* *
6255209 GGGCCTTAGCCCAATATAGAATTAGTGT
1 GGGCCTTAGCCCAATACAGAATCAGTGT
6255237 GGGCCTTAGCCCAATACAGTAAT-AGTGT
1 GGGCCTTAGCCCAATACAG-AATCAGTGT
6255265 GGGCCTTAGCCCAATACAGAATCAGTGT
1 GGGCCTTAGCCCAATACAGAATCAGTGT
* ** *
6255293 TGGCCTTAGAACAATACATAATCAGTGT
1 GGGCCTTAGCCCAATACAGAATCAGTGT
* *
6255321 GAGCCTTAGCCCAATACAGAATTAGTGT
1 GGGCCTTAGCCCAATACAGAATCAGTGT
*
6255349 GGGCTTTAGCCCAATACAG
1 GGGCCTTAGCCCAATACAG
6255368 TAACAATGCA
Statistics
Matches: 164, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 5 0.03
28 156 0.95
29 3 0.02
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (28 bp):
GGGCCTTAGCCCAATACAGAATCAGTGT
Found at i:6255524 original size:26 final size:26
Alignment explanation
Indices: 6255481--6255530 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
6255471 ACCAATATTG
* *
6255481 CAGCAAAGCTGCCGGTAATAGTATCA
1 CAGCAAAGCTGCCAGTAACAGTATCA
*
6255507 CAGCAAAGCTGCTAGTAACAGTAT
1 CAGCAAAGCTGCCAGTAACAGTAT
6255531 ATGTGGCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAGTATCA
Found at i:6255667 original size:15 final size:14
Alignment explanation
Indices: 6255647--6255685 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
6255637 GTCATGCTCA
6255647 ATCATAGTCATACAT
1 ATCATAGTC-TACAT
6255662 ATCATAGATCTACAT
1 ATCATAG-TCTACAT
*
6255677 ATCCTAGTC
1 ATCATAGTC
6255686 CAGTATTTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 18 0.82
16 2 0.09
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (14 bp):
ATCATAGTCTACAT
Found at i:6258204 original size:34 final size:34
Alignment explanation
Indices: 6258159--6258225 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
6258149 ACAAATCCAA
6258159 AACAAGAAATACTTTTTCGTTTTCACTTCATTTT
1 AACAAGAAATACTTTTTCGTTTTCACTTCATTTT
*
6258193 AACAAGTAATACTTTTTCGTTTTCACTTCATTT
1 AACAAGAAATACTTTTTCGTTTTCACTTCATTT
6258226 CGGATTTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.48
Consensus pattern (34 bp):
AACAAGAAATACTTTTTCGTTTTCACTTCATTTT
Found at i:6261424 original size:13 final size:13
Alignment explanation
Indices: 6261406--6261430 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6261396 TAAGTTATAT
6261406 GTGTGAAAATTTC
1 GTGTGAAAATTTC
6261419 GTGTGAAAATTT
1 GTGTGAAAATTT
6261431 GATAGTTTGA
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:6264719 original size:15 final size:14
Alignment explanation
Indices: 6264685--6264714 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
6264675 CCAAGCTTAT
6264685 TATATTTAAATATA
1 TATATTTAAATATA
6264699 TATATTT-AATATA
1 TATATTTAAATATA
6264712 TAT
1 TAT
6264715 GTATTGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATTTAAATATA
Found at i:6273266 original size:15 final size:14
Alignment explanation
Indices: 6273232--6273261 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
6273222 CCAAGCTTAT
6273232 TATATTTAAATATA
1 TATATTTAAATATA
6273246 TATATTT-AATATA
1 TATATTTAAATATA
6273259 TAT
1 TAT
6273262 GTATTGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATTTAAATATA
Found at i:6278570 original size:15 final size:15
Alignment explanation
Indices: 6278533--6278601 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 15
6278523 AAATTAATCC
*
6278533 AATTCAATTTGATTT
1 AATTTAATTTGATTT
*
6278548 -TTTATAATTTGATTT
1 AATT-TAATTTGATTT
*
6278563 TATTTAATTCT--TTT
1 AATTTAATT-TGATTT
*
6278577 AATTTAATTTAATTT
1 AATTTAATTTGATTT
6278592 AATTTAATTT
1 AATTTAATTT
6278602 TAATATACCT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
13 1 0.02
14 13 0.29
15 28 0.62
16 3 0.07
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
AATTTAATTTGATTT
Found at i:6278582 original size:5 final size:5
Alignment explanation
Indices: 6278552--6278601 Score: 59
Period size: 5 Copynumber: 10.2 Consensus size: 5
6278542 TGATTTTTTA
* *
6278552 TAATT TGATT TTATT TAATT CT--TT TAATT TAATT TAATT TAATT TAATT
1 TAATT TAATT TAATT TAATT -TAATT TAATT TAATT TAATT TAATT TAATT
6278601 T
1 T
6278602 TAATATACCT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
3 1 0.03
4 2 0.05
5 35 0.90
6 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (5 bp):
TAATT
Found at i:6288269 original size:35 final size:37
Alignment explanation
Indices: 6288210--6288281 Score: 112
Period size: 35 Copynumber: 2.0 Consensus size: 37
6288200 TAAACATTAA
6288210 AAAACTATTTTAAAAATAATAAAAATAAAAATATTTT
1 AAAACTATTTTAAAAATAATAAAAATAAAAATATTTT
* *
6288247 AAAAGTATTTT-AAAATTA-AAAAATAAAAATATTTT
1 AAAACTATTTTAAAAATAATAAAAATAAAAATATTTT
6288282 TCCCAAGCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 17 0.52
36 6 0.18
37 10 0.30
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (37 bp):
AAAACTATTTTAAAAATAATAAAAATAAAAATATTTT
Found at i:6288360 original size:18 final size:17
Alignment explanation
Indices: 6288333--6288368 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
6288323 TCCCATATTT
*
6288333 CGGGCGGGCCGTCGGGC
1 CGGGCGGGCCGTCCGGC
6288350 CGGGCCGGGCCGTCCGGC
1 CGGG-CGGGCCGTCCGGC
6288368 C
1 C
6288369 TATGGACAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.00, C:0.42, G:0.53, T:0.06
Consensus pattern (17 bp):
CGGGCGGGCCGTCCGGC
Found at i:6288897 original size:43 final size:42
Alignment explanation
Indices: 6288836--6288960 Score: 180
Period size: 41 Copynumber: 3.0 Consensus size: 42
6288826 TTGTCCACAT
* *
6288836 AAACGCCACTAAAGAACATGACCTTTATCGGTGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTAT-AC
* * *
6288879 AAACGCCGCTAAGGAACATGACCTTTAGCGATGCTTTTA-GC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTATAC
*
6288920 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTATA
6288961 GACCTTTATC
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
41 37 0.51
43 35 0.49
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGTGCTTTTATAC
Found at i:6289047 original size:44 final size:43
Alignment explanation
Indices: 6288961--6289084 Score: 131
Period size: 44 Copynumber: 2.9 Consensus size: 43
6288951 CGCTTTTATA
* * *
6288961 GACCTTTATCGGCGCTTTTTTCACAATCGCCACTAAAGAACAT
1 GACCTTTAGCGGCACTTTTTTCACAAACGCCACTAAAGAACAT
* ** *
6289004 GACCTTTAGCGGCACTTTTTATCACAAAGGCTGCTAAATAACAT
1 GACCTTTAGCGGCACTTTTT-TCACAAACGCCACTAAAGAACAT
* * * * *
6289048 GACCTTTAGCGACGCTTTATTAACAAACACCACTAAA
1 GACCTTTAGCGGCACTTTTTTCACAAACGCCACTAAA
6289085 AGTACCGTTC
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
43 30 0.46
44 35 0.54
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
GACCTTTAGCGGCACTTTTTTCACAAACGCCACTAAAGAACAT
Found at i:6304101 original size:164 final size:164
Alignment explanation
Indices: 6303830--6304302 Score: 928
Period size: 164 Copynumber: 2.9 Consensus size: 164
6303820 TATCCCACAT
* *
6303830 TCAATTTGATCCTGGTTTTATCTGTTTCCTGTTATTATCTCAAGTACTGGAAATGAATAAGCTTG
1 TCAATTTGATCCTGGTTTTATCTGTTTGCTGTTATTATCTCAAGTACGGGAAATGAATAAGCTTG
6303895 GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCTGC
66 GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCTGC
6303960 TACGGTCTTTTTCTTGGATATGAATAAGCTTGGA
131 TACGGTCTTTTTCTTGGATATGAATAAGCTTGGA
6303994 TCAATTTGATCCTGGTTTTATCTGTTTGCTGTTATTATCTCAAGTACGGGAAATGAATAAGCTTG
1 TCAATTTGATCCTGGTTTTATCTGTTTGCTGTTATTATCTCAAGTACGGGAAATGAATAAGCTTG
6304059 GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCTGC
66 GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCTGC
6304124 TACGGTCTTTTTCTTGGATATGAATAAGCTTGGA
131 TACGGTCTTTTTCTTGGATATGAATAAGCTTGGA
6304158 TCAATTTGATCCTGGTTTTATCTGTTTGCTGTTATTATCTCAAGTACGGGAAATGAATAAGCTTG
1 TCAATTTGATCCTGGTTTTATCTGTTTGCTGTTATTATCTCAAGTACGGGAAATGAATAAGCTTG
6304223 GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCTGC
66 GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCTGC
6304288 TACGGTCTTTTTCTT
131 TACGGTCTTTTTCTT
6304303 CATAAAGCTC
Statistics
Matches: 307, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
164 307 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.38
Consensus pattern (164 bp):
TCAATTTGATCCTGGTTTTATCTGTTTGCTGTTATTATCTCAAGTACGGGAAATGAATAAGCTTG
GATCTATTCTGTAAAACCTCCAATTGTACATCAATAAGATCCTGAGAATCGATTATAATGTCTGC
TACGGTCTTTTTCTTGGATATGAATAAGCTTGGA
Found at i:6307370 original size:3 final size:3
Alignment explanation
Indices: 6307364--6307395 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
6307354 AGAGGAGGAG
*
6307364 GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
6307396 GAAAACAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:6308830 original size:20 final size:19
Alignment explanation
Indices: 6308790--6308830 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
6308780 TTTAAATTTT
* *
6308790 ATTTTATTTTATTATTCTA
1 ATTTTATTTTATTACTATA
6308809 ATTTTAATTTTATTACTATA
1 ATTTT-ATTTTATTACTATA
6308829 AT
1 AT
6308831 ATTTTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTATTTTATTACTATA
Found at i:6318907 original size:3 final size:3
Alignment explanation
Indices: 6318899--6318930 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
6318889 GCTTAGTTAA
6318899 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
6318931 ATAATTGTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6322687 original size:20 final size:20
Alignment explanation
Indices: 6322662--6322701 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
6322652 TTACCGGACC
6322662 GCTGATATGGCAAGTTAACT
1 GCTGATATGGCAAGTTAACT
*
6322682 GCTGATATGGCCAGTTAACT
1 GCTGATATGGCAAGTTAACT
6322702 TGTCACGTTG
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:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (20 bp):
GCTGATATGGCAAGTTAACT
Found at i:6323768 original size:3 final size:3
Alignment explanation
Indices: 6323760--6323828 Score: 74
Period size: 3 Copynumber: 24.0 Consensus size: 3
6323750 CAATTTTTTC
* *
6323760 TCT TCT TC- TCTT TCT TCT TCT TCT TCT TCT TC- TCC TCT TCT TAT
1 TCT TCT TCT TC-T TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
6323804 TCT TCT T-T TCT TCT T-T TCC TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
6323829 AAACCCAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
2 8 0.14
3 46 0.82
4 2 0.04
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:6323776 original size:9 final size:8
Alignment explanation
Indices: 6323753--6323826 Score: 64
Period size: 8 Copynumber: 9.2 Consensus size: 8
6323743 GGCATCTCAA
6323753 TTTT-TTC
1 TTTTCTTC
*
6323760 TCTTCTTC
1 TTTTCTTC
6323768 TCTTTCTTC
1 T-TTTCTTC
6323777 --TTCTTC
1 TTTTCTTC
6323783 TTCTTCTTC
1 TT-TTCTTC
**
6323792 TCCTCTTC
1 TTTTCTTC
6323800 TTATTCTTC
1 TT-TTCTTC
6323809 TTTTCTTC
1 TTTTCTTC
*
6323817 TTTTCCTC
1 TTTTCTTC
6323825 TT
1 TT
6323827 CTAAACCCAA
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
6 6 0.11
7 3 0.06
8 25 0.46
9 20 0.37
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (8 bp):
TTTTCTTC
Found at i:6326975 original size:88 final size:89
Alignment explanation
Indices: 6326826--6327004 Score: 351
Period size: 88 Copynumber: 2.0 Consensus size: 89
6326816 ATTTTATTTC
6326826 ATTAAAAATTGAAATAAATTATTAAAAAGAATGAGATATTCAAATTACCATATTTATCTTTCATT
1 ATTAAAAATTGAAATAAATTATTAAAAAGAATGAGATATTCAAATTACCATATTTATCTTTCATT
6326891 CAAAACCATTAT-AATGATATAAA
66 CAAAACCATTATAAATGATATAAA
6326914 ATTAAAAATTGAAATAAATTATTAAAAAGAATGAGATATTCAAATTACCATATTTATCTTTCATT
1 ATTAAAAATTGAAATAAATTATTAAAAAGAATGAGATATTCAAATTACCATATTTATCTTTCATT
6326979 CAAAACCATTATAAATGATATAAA
66 CAAAACCATTATAAATGATATAAA
6327003 AT
1 AT
6327005 ATTATATTAA
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 77 0.86
89 13 0.14
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (89 bp):
ATTAAAAATTGAAATAAATTATTAAAAAGAATGAGATATTCAAATTACCATATTTATCTTTCATT
CAAAACCATTATAAATGATATAAA
Found at i:6330180 original size:41 final size:41
Alignment explanation
Indices: 6330098--6330185 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
6330088 GGTTTATTGT
** * *
6330098 CAGTGAAATAATTCAAACTTTATGTCTAGCAGGCCTGATGC
1 CAGTGAAATAATTCAAACTACAAGTCTAGCAGGCCTAATGC
* * *
6330139 CAGTGAAATTATTCAGACTACAAGTCTAGCAGGCTTAATGC
1 CAGTGAAATAATTCAAACTACAAGTCTAGCAGGCCTAATGC
*
6330180 CGGTGA
1 CAGTGA
6330186 TACATTTCGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (41 bp):
CAGTGAAATAATTCAAACTACAAGTCTAGCAGGCCTAATGC
Found at i:6331197 original size:121 final size:122
Alignment explanation
Indices: 6330980--6331214 Score: 427
Period size: 121 Copynumber: 1.9 Consensus size: 122
6330970 AAAATATTTA
6330980 AATTCTAACTATGGCATGTATAGACTAGATAAATATTTTGAAGGTCGTATTTTGTTGTATTGTAT
1 AATTCTAACTATGGCATGTATAGACTAGATAAATATTTTGAAGGTCGTATTTTGTTGTATTGTAT
6331045 ATCATTATTATAGCCATACTAAAATGATTTA-TTGCTTATGGATTTGCTTTGAATAT
66 ATCATTATTATAGCCATACTAAAATGATTTATTTGCTTATGGATTTGCTTTGAATAT
*
6331101 AATTCTAACTATGGCATGTATAGACTAGATAAATGTTTTGAAGGTCGTATTTTGTTGTATTGTAT
1 AATTCTAACTATGGCATGTATAGACTAGATAAATATTTTGAAGGTCGTATTTTGTTGTATTGTAT
* * *
6331166 ATGATTATTATAGCCATACTAAAATGGTTTATTTTCTTATGGATTTGCT
66 ATCATTATTATAGCCATACTAAAATGATTTATTTGCTTATGGATTTGCT
6331215 AGTTTGCAAT
Statistics
Matches: 109, Mismatches: 4, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
121 93 0.85
122 16 0.15
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (122 bp):
AATTCTAACTATGGCATGTATAGACTAGATAAATATTTTGAAGGTCGTATTTTGTTGTATTGTAT
ATCATTATTATAGCCATACTAAAATGATTTATTTGCTTATGGATTTGCTTTGAATAT
Found at i:6335163 original size:17 final size:16
Alignment explanation
Indices: 6335116--6335163 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
6335106 GGCCTAGAAT
*
6335116 ATTTGGATAGATTATTG
1 ATTT-GATAGATTATTA
*
6335133 ATTTGATAAAATTAGTTA
1 ATTTGAT-AGATTA-TTA
6335151 ATTTGATAGATTA
1 ATTTGATAGATTA
6335164 ACTAATTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 3 0.12
17 14 0.54
18 9 0.35
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.46
Consensus pattern (16 bp):
ATTTGATAGATTATTA
Found at i:6335693 original size:21 final size:21
Alignment explanation
Indices: 6335667--6335728 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
6335657 ATTGGGTGAA
*
6335667 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
*
6335688 TCAGCTCTTACGAGCTTCTGA
1 TCAGCTCTTACGAGCTTCTGT
6335709 TCAGCT-TT-CGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
6335728 T
1 T
6335729 GGCGTATTTG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 11 0.29
20 2 0.05
21 25 0.66
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.40
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:6341297 original size:29 final size:28
Alignment explanation
Indices: 6341256--6341310 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
6341246 TATACATGCA
6341256 TACATACATTTTT-TATAATATATATACG
1 TACATACATTTTTCT-TAATATATATACG
* *
6341284 TACATAACCTTTTTCTTAATTTATATA
1 TACAT-ACATTTTTCTTAATATATATA
6341311 GATATACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.22
29 17 0.74
30 1 0.04
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (28 bp):
TACATACATTTTTCTTAATATATATACG
Found at i:6341920 original size:71 final size:71
Alignment explanation
Indices: 6341804--6341938 Score: 216
Period size: 71 Copynumber: 1.9 Consensus size: 71
6341794 TCTTTTCAAA
* * * *
6341804 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCT
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCATGTCCTAACTTACTGAGCATGATCCT
6341869 TTTTTT
66 TTTTTT
* *
6341875 CTCAAGTTTTAAATAATCTCGGGAATTAAGAAAAGTTCATGTCCTAACTTACTGAGCATGATCC
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCATGTCCTAACTTACTGAGCATGATCC
6341939 CCCTTTTTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (71 bp):
CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCATGTCCTAACTTACTGAGCATGATCCT
TTTTTT
Found at i:6354010 original size:45 final size:45
Alignment explanation
Indices: 6353601--6354008 Score: 466
Period size: 45 Copynumber: 9.1 Consensus size: 45
6353591 ACAGATCAGT
* * * * * *
6353601 GAAGATAGTAGATATTGCCTTCCTGTACTGACAGCGAAA-CAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGC-AAAGTAGATC
* * *
6353646 GAAGATAGAAGATCTTGTCTTCTTGTATTGGCAGTAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
* *
6353691 GAAGATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGA-C
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
* *
6353735 TGAAGATAGTAGATCTTGTCTTCCTATATTGGCAGCGAAA-TAGATC
1 -GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGC-AAAGTAGATC
* * *
6353781 AAAGATAGTAGGTCTTGTCTTCCTGTATTGGCAGCAAAGTAGA-C
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
* ** * *
6353825 TGAAGATAGCAGATCTTATCTTCCTGTATTAACAGTAAAGTAGATT
1 -GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
* * * *
6353871 GAAGATAGCATG-TCTTATTTTCCTGTATTGGCAACAAAGTAGACC
1 GAAGATAGCA-GATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
* * *
6353916 GAAGATAACAGATCTTATCTTCCTGTATTGGCAGCAAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
* *
6353961 GAATATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
6354006 GAA
1 GAA
6354009 TACTGGCTTC
Statistics
Matches: 311, Mismatches: 43, Indels: 18
0.84 0.12 0.05
Matches are distributed among these distances:
44 9 0.03
45 298 0.96
46 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
Found at i:6354087 original size:44 final size:44
Alignment explanation
Indices: 6354024--6354322 Score: 246
Period size: 44 Copynumber: 6.8 Consensus size: 44
6354014 GCTTCAAATT
* * *
6354024 TTATCTCTCTGAATTTGCAGTGGAGCAAATTAAAGCCATAAACC
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAACC
* * *
6354068 TTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAA-ATAATAAACT
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ATAAACC
* * * * * * * **
6354112 TTATCCCTCTGAAGTTGCAGTGGGGTAGGTTGAAGATACAAGTC
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAACC
* * *
6354156 TTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATATCAAACC
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTAT-AAACC
* * * * * ** *
6354201 TTATTTCCCTGAAGTTGCAGTGGAGCAGGTTAACGATACCAATC
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAACC
* * * *
6354245 TTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAA-CTACTAATCC
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AAAGCTA-TAAACC
*
6354290 TATATC-CT-TGAAGTTGCAGTGGAGCGGATTAAA
1 T-TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAA
6354323 ATGATGAATT
Statistics
Matches: 202, Mismatches: 47, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
43 3 0.01
44 152 0.75
45 43 0.21
46 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTATAAACC
Found at i:6354247 original size:89 final size:87
Alignment explanation
Indices: 6354067--6354314 Score: 256
Period size: 89 Copynumber: 2.8 Consensus size: 87
6354057 AGCCATAAAC
* * * *
6354067 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAATAAT-AAACTTTA-TCCCTCTGAAGTTGC
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TGAAAT-ATCAAACCTTATTTCC-CTGAAGTTGC
* *
6354130 AGTGGGGTAGGTTGAAGATACAAGT
63 AGTGGAGCAGGTTGAAGATACAAGT
6354155 CTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATATCAAACCTTATTTCCCTGAAGTTGCA
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TGAA-ATATCAAACCTTATTTCCCTGAAGTTGCA
6354220 GTGGAGCAGGTT-AACGATACCAA-T
64 GTGGAGCAGGTTGAA-GATA-CAAGT
* * * * * *
6354244 CTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAACTA-CTAATCC-TATATCCTTGAAGTTGC
1 CTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TGAAA-TATC-AAACCTTATTTCCCTGAAGTTGC
6354307 AGTGGAGC
63 AGTGGAGC
6354315 GGATTAAAAT
Statistics
Matches: 139, Mismatches: 14, Indels: 14
0.83 0.08 0.08
Matches are distributed among these distances:
88 61 0.44
89 72 0.52
90 6 0.04
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (87 bp):
CTTATCTCTCTGAAGTTGCAGTGGAGCAGATGAAATATCAAACCTTATTTCCCTGAAGTTGCAGT
GGAGCAGGTTGAAGATACAAGT
Done.