Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 18 of 210
Found at i:6015268 original size:15 final size:15
Alignment explanation
Indices: 6015248--6015278 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6015238 AACATCCATC
6015248 AAAGACAAAGCATGA
1 AAAGACAAAGCATGA
6015263 AAAGACAAAGCATGA
1 AAAGACAAAGCATGA
6015278 A
1 A
6015279 GAGTCGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.19, T:0.06
Consensus pattern (15 bp):
AAAGACAAAGCATGA
Found at i:6015476 original size:7 final size:7
Alignment explanation
Indices: 6015466--6015521 Score: 69
Period size: 7 Copynumber: 8.1 Consensus size: 7
6015456 AAAAAACACA
6015466 AAAAAAT
1 AAAAAAT
*
6015473 AAAAATT
1 AAAAAAT
*
6015480 AAAAATT
1 AAAAAAT
*
6015487 AAAAATT
1 AAAAAAT
*
6015494 AAAAATT
1 AAAAAAT
6015501 AAAAAAT
1 AAAAAAT
6015508 -AAAAAT
1 AAAAAAT
6015514 AAAAAAT
1 AAAAAAT
6015521 A
1 A
6015522 TATATTTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
6 6 0.13
7 40 0.87
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (7 bp):
AAAAAAT
Found at i:6015489 original size:14 final size:14
Alignment explanation
Indices: 6015466--6015520 Score: 83
Period size: 14 Copynumber: 3.9 Consensus size: 14
6015456 AAAAAACACA
*
6015466 AAAAAATAAAAATT
1 AAAAATTAAAAATT
6015480 AAAAATTAAAAATT
1 AAAAATTAAAAATT
*
6015494 AAAAATTAAAAAAT
1 AAAAATTAAAAATT
*
6015508 AAAAATAAAAAAT
1 AAAAATTAAAAAT
6015521 ATATATTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAATTAAAAATT
Found at i:6015496 original size:21 final size:21
Alignment explanation
Indices: 6015467--6015520 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
6015457 AAAAACACAA
*
6015467 AAAAA-TAAAAATTAAAAATT
1 AAAAATTAAAAATTAAAAAAT
6015487 AAAAATTAAAAATTAAAAAAT
1 AAAAATTAAAAATTAAAAAAT
*
6015508 AAAAATAAAAAAT
1 AAAAATTAAAAAT
6015521 ATATATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAAATTAAAAATTAAAAAAT
Found at i:6018426 original size:17 final size:17
Alignment explanation
Indices: 6018395--6018447 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
6018385 CACAAAAAAA
*
6018395 AAAAAAAAAAAAAAGGG
1 AAAAAAAAAAAAAAGCG
6018412 AAAAAAAAAAAAAAGCG
1 AAAAAAAAAAAAAAGCG
* *
6018429 AAAGAAAAGAAAAAGCG
1 AAAAAAAAAAAAAAGCG
6018446 AA
1 AA
6018448 TGACATGAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAGCG
Found at i:6019315 original size:25 final size:26
Alignment explanation
Indices: 6019270--6019325 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
6019260 TATGTATGTG
* *
6019270 TAAAATAAATAATTAAGAAT-ATATT
1 TAAAATAAAAAATTAAGAATAATAAT
*
6019295 TAAAATAAAAAATTTTA-AATAATAAT
1 TAAAATAAAAAA-TTAAGAATAATAAT
6019321 TAAAA
1 TAAAA
6019326 ATATCAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 14 0.54
26 12 0.46
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (26 bp):
TAAAATAAAAAATTAAGAATAATAAT
Found at i:6019930 original size:2 final size:2
Alignment explanation
Indices: 6019923--6019953 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6019913 CCCCAAGTCC
6019923 TA TA TA 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 TA TA TA T
6019954 TTTTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6024565 original size:216 final size:216
Alignment explanation
Indices: 6024190--6024632 Score: 764
Period size: 216 Copynumber: 2.1 Consensus size: 216
6024180 TGAGTGCCTG
6024190 CAACATCTCACCAGCCTCAAAAGATTAACAATAAGAGATTGCAAGGAGGTTGATTTAGAGGGCAT
1 CAACATCTCACCAGCCTCAAAAGATTAACAATAAGAGATTGCAAGGAGGTTGATTTAGAGGGCAT
*
6024255 GCAATGGGAACCACTTAAGAATCTCTCTCATTTGAAGATTGATAATATTCCAAAGCTGGTGTCTC
66 GCAATGGGAACCACTTAAGAATCTCTCTCAATTGAAGATTGATAATATTCCAAAGCTGGTGTCTC
*
6024320 TCCCCATTTCTCTTCAACATCTTGTTCAATTGGAAACATTAAAAATTC-AGAACTGCAATCGATT
131 TCCCCATTTCTCTTCAACATCTTGTTCAATTGAAAACATTAAAAATTCGAGAA-TGCAATCGATT
*
6024384 GAGGTCACTGC-TTCCTGTGTTT
195 GAGGTCACT-CTTTCCTGTGTTC
*
6024406 GAACATCTCACCAGCCTCAAAAGATTAACAATAAGAGATTGCAAGGAGGTTGATTTAGAGGGCAT
1 CAACATCTCACCAGCCTCAAAAGATTAACAATAAGAGATTGCAAGGAGGTTGATTTAGAGGGCAT
*
6024471 GCAATGGGAACCCCTTAAGAATCTCTCTCAATTGAAGATTGATAATATTCCAAAGCTGGTGTCTC
66 GCAATGGGAACCACTTAAGAATCTCTCTCAATTGAAGATTGATAATATTCCAAAGCTGGTGTCTC
* * * * *
6024536 TCCTCATTTCTCTTCAACATCTTGTTCAATTGAAAACATTAGAAATTCGTGAATGCCATGGATTG
131 TCCCCATTTCTCTTCAACATCTTGTTCAATTGAAAACATTAAAAATTCGAGAATGCAATCGATTG
6024601 AGGTCACTCTTTCCTGTGTTC
196 AGGTCACTCTTTCCTGTGTTC
6024622 CAACATCTCAC
1 CAACATCTCAC
6024633 TTTCCTTGAA
Statistics
Matches: 214, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
215 1 0.00
216 210 0.98
217 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (216 bp):
CAACATCTCACCAGCCTCAAAAGATTAACAATAAGAGATTGCAAGGAGGTTGATTTAGAGGGCAT
GCAATGGGAACCACTTAAGAATCTCTCTCAATTGAAGATTGATAATATTCCAAAGCTGGTGTCTC
TCCCCATTTCTCTTCAACATCTTGTTCAATTGAAAACATTAAAAATTCGAGAATGCAATCGATTG
AGGTCACTCTTTCCTGTGTTC
Found at i:6030896 original size:49 final size:50
Alignment explanation
Indices: 6030832--6031071 Score: 211
Period size: 51 Copynumber: 4.8 Consensus size: 50
6030822 TCATTCGATA
* *
6030832 CACGTAGTAGTCTTCACATAGTACTACACACGTGATC-AGTTTTACAATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACAACT
**
6030881 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGCT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACAACT
* ***
6030931 CACGTAGTAGCCTTCAC-TCAGTACTACACACGTGCTCAAAGCTTCTTGGTA--
1 CACGTAGTAGCCTTCACAT-AGTACTACACACGTGATC-AAG-TT-TTACAACT
* * * * * * **
6030982 CACATAGTAGCCTTCACTTAGTACTACACATGTGACCGTAG-TTTACCGAGA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTTTTA-CAACT
* * * *
6031033 CACGTGGTAGCATTCACACAGTACTACACACGTGCTCAA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAA
6031072 AGCTTCTTGG
Statistics
Matches: 155, Mismatches: 27, Indels: 17
0.78 0.14 0.09
Matches are distributed among these distances:
48 2 0.01
49 39 0.25
50 44 0.28
51 65 0.42
52 3 0.02
53 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACAACT
Found at i:6031005 original size:51 final size:51
Alignment explanation
Indices: 6030885--6031110 Score: 223
Period size: 51 Copynumber: 4.5 Consensus size: 51
6030875 ACAATTCACG
* * *
6030885 TAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TT-TTACGGCT-CACG
1 TAGTAGCCTTCACTTAGTACTACACACGTGCTCAAAGCTTCTT--GG-TACACA
*
6030935 TAGTAGCCTTCACTCAGTACTACACACGTGCTCAAAGCTTCTTGGTACACA
1 TAGTAGCCTTCACTTAGTACTACACACGTGCTCAAAGCTTCTTGGTACACA
* ** * * *
6030986 TAGTAGCCTTCACTTAGTACTACACATGTGAC-CGTAGTTTAC-CGAG-ACACG
1 TAGTAGCCTTCACTTAGTACTACACACGTG-CTCAAAGCTT-CTTG-GTACACA
* * **
6031037 TGGTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTCTTGGTACACA
1 TAGTAGCCTTCACTTAGTACTACACACGTGCTCAAAGCTTCTTGGTACACA
6031088 TAGTAGCCTTCACTTAGTACTAC
1 TAGTAGCCTTCACTTAGTACTAC
6031111 CCATGTGAAC
Statistics
Matches: 141, Mismatches: 25, Indels: 19
0.76 0.14 0.10
Matches are distributed among these distances:
50 34 0.24
51 100 0.71
52 5 0.04
53 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (51 bp):
TAGTAGCCTTCACTTAGTACTACACACGTGCTCAAAGCTTCTTGGTACACA
Found at i:6031060 original size:102 final size:100
Alignment explanation
Indices: 6030885--6031168 Score: 365
Period size: 102 Copynumber: 2.8 Consensus size: 100
6030875 ACAATTCACG
* * * * * *
6030885 TAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACG-GCTCACGTAGTAGCCTTCACT
1 TAGTAGCCTTCACTTAGTACTACACATGTGACCTAG-TTTACGAG-ACACGTAGTAGCCTTCACA
6030949 CAGTACTACACACGTGCTCAAAGCTTCTTGGTACACA
64 CAGTACTACACACGTGCTCAAAGCTTCTTGGTACACA
* *
6030986 TAGTAGCCTTCACTTAGTACTACACATGTGACCGTAGTTTACCGAGACACGTGGTAGCATTCACA
1 TAGTAGCCTTCACTTAGTACTACACATGTGACC-TAGTTTA-CGAGACACGTAGTAGCCTTCACA
6031051 CAGTACTACACACGTGCTCAAAGCTTCTTGGTACACA
64 CAGTACTACACACGTGCTCAAAGCTTCTTGGTACACA
* * * *
6031088 TAGTAGCCTTCACTTAGTACTACCCATGTGAACATTA-CTTATCGATACACGTAGTAGCCTTCAC
1 TAGTAGCCTTCACTTAGTACTACACATGTG-AC-CTAGTTTA-CGAGACACGTAGTAGCCTTCAC
* *
6031152 ACAATACTACACGCGTG
63 ACAGTACTACACACGTG
6031169 TTCATCGATA
Statistics
Matches: 161, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
101 34 0.21
102 122 0.76
103 5 0.03
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (100 bp):
TAGTAGCCTTCACTTAGTACTACACATGTGACCTAGTTTACGAGACACGTAGTAGCCTTCACACA
GTACTACACACGTGCTCAAAGCTTCTTGGTACACA
Found at i:6031137 original size:51 final size:50
Alignment explanation
Indices: 6030826--6031151 Score: 180
Period size: 51 Copynumber: 6.5 Consensus size: 50
6030816 TTTTTATCAT
* * * * *
6030826 TCGATACACGTAGTAGTCTTCACATAGTACTACACACGTG--ATCAG-TTT
1 TCGATACACATAGTAGCCTTCACTTAGTACTACACATGTGACAT-AGCTTA
* * * * * *
6030874 TACAATTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AG-TTT
1 T-CGATACACATAGTAGCCTTCACTTAGTACTACACATGTGA-CATAGCTTA
* * * * * * *
6030924 TACGGCT-CACGTAGTAGCCTTCACTCAGTACTACACACGTGCTCAAAGCTTC
1 T-C-GATACACATAGTAGCCTTCACTTAGTACTACACATGTG-ACATAGCTTA
* * * *
6030976 TTGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCGTAGTTTA
1 TCGATACACATAGTAGCCTTCACTTAGTACTACACATGTGA-CATAGCTTA
* * * * * ** * * * *
6031027 CCGAGACACGTGGTAGCATTCACACAGTACTACACACGTGCTCAAAGCTTC
1 TCGATACACATAGTAGCCTTCACTTAGTACTACACATGTG-ACATAGCTTA
* * *
6031078 TTGGTACACATAGTAGCCTTCACTTAGTACTACCCATGTGAACATTA-CTTA
1 TCGATACACATAGTAGCCTTCACTTAGTACTACACATGTG-ACA-TAGCTTA
*
6031129 TCGATACACGTAGTAGCCTTCAC
1 TCGATACACATAGTAGCCTTCAC
6031152 ACAATACTAC
Statistics
Matches: 214, Mismatches: 52, Indels: 21
0.75 0.18 0.07
Matches are distributed among these distances:
48 1 0.00
49 36 0.17
50 44 0.21
51 128 0.60
52 5 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (50 bp):
TCGATACACATAGTAGCCTTCACTTAGTACTACACATGTGACATAGCTTA
Found at i:6031147 original size:153 final size:149
Alignment explanation
Indices: 6030826--6031168 Score: 352
Period size: 153 Copynumber: 2.3 Consensus size: 149
6030816 TTTTTATCAT
* * **
6030826 TCGATACACGTAGTAGTCTTCACATAGTACTACACACGTGATCAGTTTTACAATTCACGTAGTAG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAGTTTTACAAGACACGTAGTAG
* * *
6030891 CCTTCACATAGTACTACACACGTGATCAAGTTTTACGGCTCACGTAGTAGCCTTCACTCAGTACT
66 CATTCACACAGTACTACACACGTGATCAAGTTTTA-GGCTCACATAGTAGCCTTCACTCAGTACT
** *
6030956 ACACACGTGCTCAAAGCTTC
130 ACACACGTGAACAAAGCTTA
* * * * * * *
6030976 TTGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACC-GTAGTTTACCGAGACACGTGG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAGT--TTTA-CAAGACACGTAG
* *
6031040 TAGCATTCACACAGTACTACACACGTGCTCAAAGCTTCTT-GG-TACACATAGTAGCCTTCACTT
63 TAGCATTCACACAGTACTACACACGTGATC-AAG-TT-TTAGGCT-CACATAGTAGCCTTCACTC
* * *
6031103 AGTACTACCCATGTGAACATTA-CTTA
124 AGTACTACACACGTGAACA-AAGCTTA
* * *
6031129 TCGATACACGTAGTAGCCTTCACACAATACTACACGCGTG
1 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTG
6031169 TTCATCGATA
Statistics
Matches: 155, Mismatches: 30, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
149 2 0.01
150 36 0.23
151 4 0.03
152 36 0.23
153 72 0.46
154 3 0.02
155 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (149 bp):
TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAGTTTTACAAGACACGTAGTAG
CATTCACACAGTACTACACACGTGATCAAGTTTTAGGCTCACATAGTAGCCTTCACTCAGTACTA
CACACGTGAACAAAGCTTA
Found at i:6032321 original size:14 final size:14
Alignment explanation
Indices: 6032302--6032360 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
6032292 ATGTAATTGT
6032302 AAAATAAATAATTA
1 AAAATAAATAATTA
6032316 AAAATAAAT--TTA
1 AAAATAAATAATTA
* * *
6032328 AAAAAAAAAAATTT
1 AAAATAAATAATTA
*
6032342 TAAAT-AATAATTA
1 AAAATAAATAATTA
6032355 AAAATA
1 AAAATA
6032361 TCAAAACTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
12 10 0.29
13 10 0.29
14 14 0.41
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAATAAATAATTA
Found at i:6032331 original size:26 final size:27
Alignment explanation
Indices: 6032302--6032360 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
6032292 ATGTAATTGT
* *
6032302 AAAATAAATAATTAAAAATAA-ATTTA
1 AAAATAAAAAATTAAAAATAATAATTA
* **
6032328 AAAAAAAAAAATTTTAAATAATAATTA
1 AAAATAAAAAATTAAAAATAATAATTA
6032355 AAAATA
1 AAAATA
6032361 TCAAAACTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (27 bp):
AAAATAAAAAATTAAAAATAATAATTA
Found at i:6033989 original size:30 final size:29
Alignment explanation
Indices: 6033954--6034033 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 29
6033944 NNNNNNNNNN
6033954 TTTTAAAATATATTTATTTATTTTCACTAT
1 TTTTAAAATATATTTATTTATTTTCA-TAT
** *
6033984 TTTT-AAATATAAAATATTTATTTTTATAT
1 TTTTAAAATAT-ATTTATTTATTTTCATAT
* * *
6034013 TATAAAAATAAATTTATTTAT
1 TTTTAAAATATATTTATTTAT
6034034 AAATTAAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
29 19 0.47
30 21 0.52
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTTAAAATATATTTATTTATTTTCATAT
Found at i:6034005 original size:21 final size:21
Alignment explanation
Indices: 6033981--6034044 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 21
6033971 TTATTTTCAC
6033981 TATTTTTAAATATAAAATATT
1 TATTTTTAAATATAAAATATT
*
6034002 TATTTTTATATTATAAAAATAAATT
1 TATTTTTA-AATAT-AAAAT--ATT
*
6034027 TATTTATAAAT-TAAAATA
1 TATTTTTAAATATAAAATA
6034045 AAGAATATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
20 1 0.03
21 8 0.22
22 9 0.25
23 6 0.17
24 2 0.06
25 10 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATTTTTAAATATAAAATATT
Found at i:6034031 original size:29 final size:31
Alignment explanation
Indices: 6033958--6034033 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 31
6033948 NNNNNNTTTT
* *
6033958 AAAATATATTTATTTATTTTCACTATTTTTA
1 AAAATAAATTTATTTATTTTCACTATTTATA
* * *
6033989 AATATAAA-ATATTTATTTTTA-TA-TTATA
1 AAAATAAATTTATTTATTTTCACTATTTATA
6034017 AAAATAAATTTATTTAT
1 AAAATAAATTTATTTAT
6034034 AAATTAAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
28 11 0.30
29 9 0.24
30 11 0.30
31 6 0.16
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (31 bp):
AAAATAAATTTATTTATTTTCACTATTTATA
Found at i:6034612 original size:10 final size:10
Alignment explanation
Indices: 6034599--6034645 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
6034589 AATATTTTTT
6034599 AAAATTTTAA
1 AAAATTTTAA
6034609 AAAATTTTAA
1 AAAATTTTAA
*
6034619 AAAATATTT-T
1 AAAAT-TTTAA
6034629 AAAATTTATAA
1 AAAATTT-TAA
6034640 GAAAAT
1 -AAAAT
6034646 ATTTTTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 2 0.06
10 21 0.68
11 3 0.10
12 5 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:6034627 original size:22 final size:22
Alignment explanation
Indices: 6034609--6034650 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
6034599 AAAATTTTAA
6034609 AAAATTT-TAA-AAAATATTTT
1 AAAATTTATAAGAAAATATTTT
6034629 AAAATTTATAAGAAAATATTTT
1 AAAATTTATAAGAAAATATTTT
6034651 TTTAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.35
21 3 0.15
22 10 0.50
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AAAATTTATAAGAAAATATTTT
Found at i:6038739 original size:194 final size:194
Alignment explanation
Indices: 6038410--6038763 Score: 629
Period size: 194 Copynumber: 1.8 Consensus size: 194
6038400 GGACTGTCCG
*
6038410 AATATGAAGAGTTGGTGGAGGATGACAAAACCAATCGATGATGATTCCAACGAGGACGACACAAC
1 AATATGAAGAGTTGGTGGAGGACGACAAAACCAATCGATGATGATTCCAACGAGGACGACACAAC
*
6038475 AGTTATTGGAACATCAACCATGGCATTTCCTTGTCTTTCCTCTTTAGAAATTAAAAATTGCCCTT
66 AGTTATGGGAACATCAACCATGGCATTTCCTTGTCTTTCCTCTTTAGAAATTAAAAATTGCCCTT
*
6038540 TGACTTCAATGCCACTGTATTCATCACTCGTTGAAGATCTAATGTTTGCCTACGGGATTGCCCA
131 TGACTTCAATGCCACTGTATCCATCACTCGTTGAAGATCTAATGTTTGCCTACGGGATTGCCCA
*
6038604 AATATGAAGAGTTGGTGGAGGACGACAAAGCCAATCGATGATGATTCCAACGAGGACGACACAAC
1 AATATGAAGAGTTGGTGGAGGACGACAAAACCAATCGATGATGATTCCAACGAGGACGACACAAC
*
6038669 AGTTATGGGAACATCAACCATGGCATTTCCTTGTCTTTCCTCTTTA-ACAATTCAAAATTGCCCT
66 AGTTATGGGAACATCAACCATGGCATTTCCTTGTCTTTCCTCTTTAGA-AATTAAAAATTGCCCT
**
6038733 TTGACTTTGATGCCACTGTATCCATCACTCG
130 TTGACTTCAATGCCACTGTATCCATCACTCG
6038764 ATGATAAGCT
Statistics
Matches: 152, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
193 1 0.01
194 151 0.99
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (194 bp):
AATATGAAGAGTTGGTGGAGGACGACAAAACCAATCGATGATGATTCCAACGAGGACGACACAAC
AGTTATGGGAACATCAACCATGGCATTTCCTTGTCTTTCCTCTTTAGAAATTAAAAATTGCCCTT
TGACTTCAATGCCACTGTATCCATCACTCGTTGAAGATCTAATGTTTGCCTACGGGATTGCCCA
Found at i:6056331 original size:16 final size:16
Alignment explanation
Indices: 6056310--6056342 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6056300 GCTTCTAATA
6056310 TATATATATTTATGTT
1 TATATATATTTATGTT
6056326 TATATATATTTATGTT
1 TATATATATTTATGTT
6056342 T
1 T
6056343 TCTCTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (16 bp):
TATATATATTTATGTT
Found at i:6061509 original size:21 final size:21
Alignment explanation
Indices: 6061484--6061524 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
6061474 TAACTCTGTT
6061484 AATGTTAATTCTGTTACAATA
1 AATGTTAATTCTGTTACAATA
6061505 AATGTTAATTCTGTTACAAT
1 AATGTTAATTCTGTTACAAT
6061525 TTGATATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
AATGTTAATTCTGTTACAATA
Found at i:6061791 original size:3 final size:3
Alignment explanation
Indices: 6061783--6061837 Score: 94
Period size: 3 Copynumber: 18.3 Consensus size: 3
6061773 GCCCAGAGCA
6061783 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
6061829 AAT AA- AAT A
1 AAT AAT AAT A
6061838 TCTTATCAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.90
4 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6063736 original size:21 final size:21
Alignment explanation
Indices: 6063704--6063743 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
6063694 CATTTTTAAA
6063704 ATTTTAAAAAATTCAAAAAAAT
1 ATTTTAAAAAATT-AAAAAAAT
6063726 ATTTT-AAAAATTAAAAAA
1 ATTTTAAAAAATTAAAAAA
6063744 TTTATAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
ATTTTAAAAAATTAAAAAAAT
Found at i:6064615 original size:16 final size:19
Alignment explanation
Indices: 6064580--6064616 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
6064570 ATGTAAAATA
6064580 AATAATTAAGAATATATTT
1 AATAATTAAGAATATATTT
6064599 AATAA-TAA-AATAT-TTT
1 AATAATTAAGAATATATTT
6064615 AA
1 AA
6064617 ATAAACAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 5 0.28
18 3 0.17
19 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
AATAATTAAGAATATATTT
Found at i:6064619 original size:17 final size:20
Alignment explanation
Indices: 6064578--6064620 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 20
6064568 ATATGTAAAA
6064578 TAAATAATTAAGAATATATT
1 TAAATAATTAAGAATATATT
6064598 T-AATAA-TAA-AATAT-TT
1 TAAATAATTAAGAATATATT
6064614 TAAATAA
1 TAAATAA
6064621 ACAAACCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.14
17 10 0.45
18 3 0.14
19 5 0.23
20 1 0.05
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAATAATTAAGAATATATT
Found at i:6069707 original size:26 final size:26
Alignment explanation
Indices: 6069671--6069722 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
6069661 GATACCATCT
6069671 TCAGCATGCTTCATCAGATTGACAAA
1 TCAGCATGCTTCATCAGATTGACAAA
6069697 TCAGCATGCTTCATCAGATTGACAAA
1 TCAGCATGCTTCATCAGATTGACAAA
6069723 CTTTTTCGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (26 bp):
TCAGCATGCTTCATCAGATTGACAAA
Found at i:6073056 original size:418 final size:414
Alignment explanation
Indices: 6072277--6073110 Score: 1632
Period size: 418 Copynumber: 2.0 Consensus size: 414
6072267 TCTTTATATT
6072277 TTGGATTTCCCAGCTCAAACTTTTTCCATTTCTGCTCCCATTGCCTTGTCAGCCAACACATCTTC
1 TTGGATTTCCCAGCTCAAACTTTTTCCATTTCTGCTCCCATTGCCTTGTCAGCCAACACATCTTC
6072342 ATGTTCCCTTTGGCATCATCGTCTCGGTCATCTTTCTGATTCTCGACTAAAACTACTTTTCCCTT
66 ATGTTCCCTTTGGCATCATCGTCTCGGTCATCTTTCTGATTCTCGACTAAAACTACTTTTCCCTT
6072407 ACATTCCTTCTTTGTCTTTGTCAAATAATGCACCTTGTACAGCCTGCCATTTGGCCAAACAAAAG
131 ACATTCCTTCTTTGTCTTTGTCAAATAATGCACCTTGTACAGCCTGCCATTTGGCCAAACAAAAG
6072472 AAATTATCTTTTCCTGTAAGCACTTCCATTTCCAATAAAATTTTTGAACTTGTTCATGTTGATAT
196 AAATTATCTTTTCCTGTAAGCACTTCCATTTCCAATAAAATTTTTGAACTTGTTCATGTTGATAT
6072537 TTGGGGTCCAACTGATGTTATTTCCATTACTGGTCATCGTTATTTTTTAACCATTGTTGATGATT
261 TTGGGGTCCAACTGATGTTATTTCCATTACTGGTCATCGTTATTTTTTAACCATTGTTGATGATT
6072602 TTAGTCGCTTTACTTGGATTATTTTATTGAAAGCAAAATCTGAAGTTCGTACTCACATTCAGAAT
326 TTAGTCGCTTTACTTGGATTATTTTATTGAAAGCAAAATCTGAAGTTCGTACTCACATTCAGAAT
6072667 TTTTTCACACTTGTTGAAACTCAA
391 TTTTTCACACTTGTTGAAACTCAA
6072691 TTNNNNGGATTTCCCAGCTCAAACTTTTTCCATTTCTGCTCCCATTGCCTTGTCAGCCAACACAT
1 TT----GGATTTCCCAGCTCAAACTTTTTCCATTTCTGCTCCCATTGCCTTGTCAGCCAACACAT
6072756 CTTCATGTTCCCTTTGGCATCATCGTCTCGGTCATCTTTCTGATTCTCGACTAAAACTACTTTTC
62 CTTCATGTTCCCTTTGGCATCATCGTCTCGGTCATCTTTCTGATTCTCGACTAAAACTACTTTTC
6072821 CCTTACATTCCTTCTTTGTCTTTGTCAAATAATGCACCTTGTACAGCCTGCCATTTGGCCAAACA
127 CCTTACATTCCTTCTTTGTCTTTGTCAAATAATGCACCTTGTACAGCCTGCCATTTGGCCAAACA
6072886 AAAGAAATTATCTTTTCCTGTAAGCACTTCCATTTCCAATAAAATTTTTGAACTTGTTCATGTTG
192 AAAGAAATTATCTTTTCCTGTAAGCACTTCCATTTCCAATAAAATTTTTGAACTTGTTCATGTTG
6072951 ATATTTGGGGTCCAACTGATGTTATTTCCATTACTGGTCATCGTTATTTTTTAACCATTGTTGAT
257 ATATTTGGGGTCCAACTGATGTTATTTCCATTACTGGTCATCGTTATTTTTTAACCATTGTTGAT
6073016 GATTTTAGTCGCTTTACTTGGATTATTTTATTGAAAGCAAAATCTGAAGTTCGTACTCACATTCA
322 GATTTTAGTCGCTTTACTTGGATTATTTTATTGAAAGCAAAATCTGAAGTTCGTACTCACATTCA
6073081 GAATTTTTTCACACTTGTTGAAACTCAA
387 GAATTTTTTCACACTTGTTGAAACTCAA
6073109 TT
1 TT
6073111 TTCATCTAAA
Statistics
Matches: 416, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
414 2 0.00
418 414 1.00
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (414 bp):
TTGGATTTCCCAGCTCAAACTTTTTCCATTTCTGCTCCCATTGCCTTGTCAGCCAACACATCTTC
ATGTTCCCTTTGGCATCATCGTCTCGGTCATCTTTCTGATTCTCGACTAAAACTACTTTTCCCTT
ACATTCCTTCTTTGTCTTTGTCAAATAATGCACCTTGTACAGCCTGCCATTTGGCCAAACAAAAG
AAATTATCTTTTCCTGTAAGCACTTCCATTTCCAATAAAATTTTTGAACTTGTTCATGTTGATAT
TTGGGGTCCAACTGATGTTATTTCCATTACTGGTCATCGTTATTTTTTAACCATTGTTGATGATT
TTAGTCGCTTTACTTGGATTATTTTATTGAAAGCAAAATCTGAAGTTCGTACTCACATTCAGAAT
TTTTTCACACTTGTTGAAACTCAA
Found at i:6093314 original size:50 final size:50
Alignment explanation
Indices: 6093256--6093360 Score: 192
Period size: 50 Copynumber: 2.1 Consensus size: 50
6093246 ATAAACAAGT
*
6093256 TAAAAGCTTCGACCCTTTTTTAATAAATATATGTATATTTAAAAGAAAAA
1 TAAAAGCTTCGACCCTTTCTTAATAAATATATGTATATTTAAAAGAAAAA
*
6093306 TAAAAGCTTCGATCCTTTCTTAATAAATATATGTATATTTAAAAGAAAAA
1 TAAAAGCTTCGACCCTTTCTTAATAAATATATGTATATTTAAAAGAAAAA
6093356 TAAAA
1 TAAAA
6093361 TGCTACTACT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.35
Consensus pattern (50 bp):
TAAAAGCTTCGACCCTTTCTTAATAAATATATGTATATTTAAAAGAAAAA
Found at i:6093480 original size:31 final size:31
Alignment explanation
Indices: 6093442--6093506 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
6093432 ATAGTTTAAC
6093442 TCATATGCCACGTGGAATAGGGAAGCTGACT
1 TCATATGCCACGTGGAATAGGGAAGCTGACT
6093473 TCATATGCCACGTGGAATAGGGAAGCTGACT
1 TCATATGCCACGTGGAATAGGGAAGCTGACT
6093504 TCA
1 TCA
6093507 CTTGAGACGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (31 bp):
TCATATGCCACGTGGAATAGGGAAGCTGACT
Found at i:6094981 original size:12 final size:12
Alignment explanation
Indices: 6094955--6094988 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6094945 CCACATATCA
*
6094955 ATTAA-TCCTTT
1 ATTAATTCCTTC
6094966 ATTAATTCCTTC
1 ATTAATTCCTTC
6094978 ATTAATTCCTT
1 ATTAATTCCTT
6094989 TGTTTAAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (12 bp):
ATTAATTCCTTC
Found at i:6099367 original size:30 final size:31
Alignment explanation
Indices: 6099332--6099401 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 31
6099322 AGTAATTATT
*
6099332 TTTTAAAATTTTAAAAAATTA-AA-AAATATA
1 TTTTAAAATTTAAAAAAATTATAAGAAA-ATA
*
6099362 TTTTAAAAATTAAAAAAATTATAAGAAAATA
1 TTTTAAAATTTAAAAAAATTATAAGAAAATA
*
6099393 TTTTTAAAT
1 TTTTAAAAT
6099402 AATTAATTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 19 0.56
31 12 0.35
32 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (31 bp):
TTTTAAAATTTAAAAAAATTATAAGAAAATA
Found at i:6103337 original size:15 final size:16
Alignment explanation
Indices: 6103317--6103354 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6103307 TAAATTATTG
6103317 ATTTAAT-ATATTCGA
1 ATTTAATAATATTCGA
*
6103332 ATTTAATAATATTTGA
1 ATTTAATAATATTCGA
*
6103348 TTTTAAT
1 ATTTAAT
6103355 GGTGAATGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (16 bp):
ATTTAATAATATTCGA
Found at i:6107111 original size:216 final size:216
Alignment explanation
Indices: 6106774--6107214 Score: 828
Period size: 216 Copynumber: 2.0 Consensus size: 216
6106764 AATAAGAGAT
*
6106774 TGCAAGGAGGTTGATTTAGAGGGCATGCAATGGGAACCCCTTAAGAATCTCTCTCATTTGGAGAT
1 TGCAAGGAGGTTGATTTAGAGGGCATGCAATGGGAACCCCTTAAGAATCTCTCTCATTTGAAGAT
6106839 TGATAATATTCCAAAGCTGGTGTCTCTCCCCATTGGGCTTCAACATCTTCTTCAATTGAAAACAT
66 TGATAATATTCCAAAGCTGGTGTCTCTCCCCATTGGGCTTCAACATCTTCTTCAATTGAAAACAT
*
6106904 TAAAAATTCATAACTGCAATGGATTGAGGTCGCTGCTTCCTGTGTTCCAACATCTCACTTTCCTT
131 TAAAAATTCATAACTGCAATGGATTGAGGTCACTGCTTCCTGTGTTCCAACATCTCACTTTCCTT
6106969 GAAGAGTTTGAAGTAAAGGAC
196 GAAGAGTTTGAAGTAAAGGAC
6106990 TGCAAGGAGGTTGATTTAGAGGGCATGCAATGGGAACCCCTTAAGAATCTCTCTCATTTGAAGAT
1 TGCAAGGAGGTTGATTTAGAGGGCATGCAATGGGAACCCCTTAAGAATCTCTCTCATTTGAAGAT
* *
6107055 TGATAATATTCCAAAGCTGGTGTCTCTCCCCATTGGGCTTCAACATCTTGTTCAATTGAAAAGAT
66 TGATAATATTCCAAAGCTGGTGTCTCTCCCCATTGGGCTTCAACATCTTCTTCAATTGAAAACAT
*
6107120 TAAAAATTCATAACTGCAATGGATTGAGGTCACTGTTTCCTGTGTTCCAACATCTCACTTTCCTT
131 TAAAAATTCATAACTGCAATGGATTGAGGTCACTGCTTCCTGTGTTCCAACATCTCACTTTCCTT
*
6107185 GAAGAGTTTGAAGTAGAGGAC
196 GAAGAGTTTGAAGTAAAGGAC
6107206 TGCAAGGAG
1 TGCAAGGAG
6107215 CTGGAGTTAT
Statistics
Matches: 219, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
216 219 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (216 bp):
TGCAAGGAGGTTGATTTAGAGGGCATGCAATGGGAACCCCTTAAGAATCTCTCTCATTTGAAGAT
TGATAATATTCCAAAGCTGGTGTCTCTCCCCATTGGGCTTCAACATCTTCTTCAATTGAAAACAT
TAAAAATTCATAACTGCAATGGATTGAGGTCACTGCTTCCTGTGTTCCAACATCTCACTTTCCTT
GAAGAGTTTGAAGTAAAGGAC
Found at i:6109282 original size:10 final size:10
Alignment explanation
Indices: 6109267--6109292 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6109257 ATTTTTAGTT
6109267 TTTATTTTAC
1 TTTATTTTAC
6109277 TTTATTTTAC
1 TTTATTTTAC
6109287 TTTATT
1 TTTATT
6109293 CACCTTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTATTTTAC
Found at i:6116548 original size:42 final size:42
Alignment explanation
Indices: 6116489--6116575 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
6116479 TTCTTTGTAC
*
6116489 TATGAAGTTCATAGTGTATTCATCTTGTGGTTGCAATTTCTT
1 TATGAAGTTCATAGTGTATTCATCTTGAGGTTGCAATTTCTT
6116531 TATGAAGTTCATAGTGTATTCATCTTGAGGTTGCAATTTCTT
1 TATGAAGTTCATAGTGTATTCATCTTGAGGTTGCAATTTCTT
6116573 TAT
1 TAT
6116576 CTCTCTGATT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.23, C:0.11, G:0.18, T:0.47
Consensus pattern (42 bp):
TATGAAGTTCATAGTGTATTCATCTTGAGGTTGCAATTTCTT
Found at i:6121239 original size:15 final size:15
Alignment explanation
Indices: 6121221--6121253 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
6121211 TCCTTTTTGC
6121221 TTATTTTTA-TCTTTA
1 TTATTTTTACT-TTTA
6121236 TTATTTTTACTTTTA
1 TTATTTTTACTTTTA
6121251 TTA
1 TTA
6121254 CATTAGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 16 0.94
16 1 0.06
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTTTTACTTTTA
Found at i:6122748 original size:20 final size:21
Alignment explanation
Indices: 6122719--6122759 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
6122709 ATTTTTTAAA
*
6122719 ATTTTAAAACATTTAAAAAAT
1 ATTTTAAAACATTAAAAAAAT
6122740 ATTTT-AAACATTAAAAAAAT
1 ATTTTAAAACATTAAAAAAAT
6122760 TAAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
ATTTTAAAACATTAAAAAAAT
Found at i:6129718 original size:31 final size:30
Alignment explanation
Indices: 6129649--6129728 Score: 74
Period size: 31 Copynumber: 2.6 Consensus size: 30
6129639 TTATAGTAGT
6129649 ATATCTTTATAATTTTTAAAGAGTTAAATTA
1 ATAT-TTTATAATTTTTAAAGAGTTAAATTA
* *
6129680 ATTTTTTATAAATTTTTAGAG-GATTAAATT-
1 ATATTTTAT-AATTTTTAAAGAG-TTAAATTA
* *
6129710 ATAATTTTATCATTATTAA
1 AT-ATTTTATAATTTTTAA
6129729 TTTAAAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
30 14 0.35
31 26 0.65
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (30 bp):
ATATTTTATAATTTTTAAAGAGTTAAATTA
Found at i:6132535 original size:120 final size:120
Alignment explanation
Indices: 6132322--6132567 Score: 465
Period size: 120 Copynumber: 2.0 Consensus size: 120
6132312 GGAGTACATG
*
6132322 GATGATAATAGCCCAAAAGGAAGTCAAGGAGAACCACAATCATTCTTCCCATCACTTAAGCATCT
1 GATGATAATAGCCCAAAAGGAAGTCAAGGAGAACCACAATCATTCTTCCCATCACTTAAGCAACT
*
6132387 TTGGCTCTGGGACTGTCCGAATATGAAGAGTTGGTGGAGGATGACAAAACCAATC
66 TTGGCTCTGGGACTGTCCGAATATGAAGAGTTGGTGGAGGACGACAAAACCAATC
*
6132442 GATGATAATAGTCCAAAAGGAAGTCAAGGAGAACCACAATCATTCTTCCCATCACTTAAGCAACT
1 GATGATAATAGCCCAAAAGGAAGTCAAGGAGAACCACAATCATTCTTCCCATCACTTAAGCAACT
6132507 TTGGCTCTGGGACTGTCCGAATATGAAGAGTTGGTGGAGGACGACAAAACCAATC
66 TTGGCTCTGGGACTGTCCGAATATGAAGAGTTGGTGGAGGACGACAAAACCAATC
6132562 GATGAT
1 GATGAT
6132568 GATTCCAACG
Statistics
Matches: 123, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 123 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (120 bp):
GATGATAATAGCCCAAAAGGAAGTCAAGGAGAACCACAATCATTCTTCCCATCACTTAAGCAACT
TTGGCTCTGGGACTGTCCGAATATGAAGAGTTGGTGGAGGACGACAAAACCAATC
Found at i:6135026 original size:30 final size:30
Alignment explanation
Indices: 6134968--6135026 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
6134958 AAATTTTTCA
* * *
6134968 AAAATTTTAAAAAGATTGAGGAGTTTAATT
1 AAAATTTTAAAAAAATTGAAGAGCTTAATT
6134998 AAAATTTTCAAAAAAATTGAAG-GCTTAAT
1 AAAATTTT-AAAAAAATTGAAGAGCTTAAT
6135027 GAGAATTTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.49, C:0.03, G:0.14, T:0.34
Consensus pattern (30 bp):
AAAATTTTAAAAAAATTGAAGAGCTTAATT
Found at i:6135798 original size:19 final size:21
Alignment explanation
Indices: 6135760--6135800 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
6135750 AAAGAAATCG
6135760 AGAGAAAATGAAAAGAAAAGA
1 AGAGAAAATGAAAAGAAAAGA
*
6135781 AGAGAAAA-G-AAAGCAAAGA
1 AGAGAAAATGAAAAGAAAAGA
6135800 A
1 A
6135801 AGTGAAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 1 0.05
21 8 0.42
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.02
Consensus pattern (21 bp):
AGAGAAAATGAAAAGAAAAGA
Found at i:6144454 original size:20 final size:20
Alignment explanation
Indices: 6144431--6144468 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6144421 CACGTGCATT
6144431 AAATAAAAATTTAATAATTA
1 AAATAAAAATTTAATAATTA
* *
6144451 AAATATAAATTTATTAAT
1 AAATAAAAATTTAATAAT
6144469 AATTTAGTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATAAAAATTTAATAATTA
Found at i:6158486 original size:478 final size:479
Alignment explanation
Indices: 6157578--6158535 Score: 1909
Period size: 478 Copynumber: 2.0 Consensus size: 479
6157568 ATTATATTAT
6157578 ACACAAATAATATCACTTTATGAGAAAAAAAATTATTTATTCATTAAAAATATAATAATATGATA
1 ACACAAATAATATCACTTTATGAGAAAAAAAATTATTTATTCATTAAAAATATAATAATATGATA
6157643 TCATTTGATTCATTAATTGTTAATTGTATAACATTAAATAAACTTCTTAAATTAATTATAAGAAG
66 TCATTTGATTCATTAATTGTTAATTGTATAACATTAAATAAACTTCTTAAATTAATTATAAGAAG
6157708 GAAAAAAAAAGAGTAGGTCCAAACTATAATTGAAAAAGAAAATATGTAATGCATTGCTTCAACCC
131 GAAAAAAAAAGAGTAGGTCCAAACTATAATTGAAAAAGAAAATATGTAATGCATTGCTTCAACCC
6157773 ATCATTTTCTTTGTTTCTTTTATCTATTTTATGTCAGACCACTCATTTTAAAATTAGCCATTATT
196 ATCATTTTCTTTGTTTCTTTTATCTATTTTATGTCAGACCACTCATTTTAAAATTAGCCATTATT
6157838 TTAATTTATGGGTTAAATTTTACTATTAATTCACAGATTGTTTTTCTAATTTTTATATTTTAATT
261 TTAATTTATGGGTTAAATTTTACTATTAATTCACAGATTGTTTTTCTAATTTTTATATTTTAATT
6157903 TAGTTATTTTTTAGTACTTATTAAAATGATAGTTGTTAAATCTATTAAATTAAATTAAATTATTT
326 TAGTTATTTTTTAGTACTTATTAAAATGATAGTTGTTAAATCTATTAAATTAAATTAAATTATTT
6157968 TCATAATTTTATACGAGAAATGTATTATCACATTTAATGCCATGCCAACTTAATATGTGGACATA
391 TCATAATTTTATACGAGAAATGTATTATCACATTTAATGCCATGCCAACTTAATATGTGGACATA
6158033 ATACTTGCAAAAAAAAAAAGCCAC
456 ATACTTGCAAAAAAAAAAAGCCAC
6158057 ACACAAATAAT-TCACTTTATGAGAAAAAAAATTATTTATTCATTAAAAATATAATAATATGATA
1 ACACAAATAATATCACTTTATGAGAAAAAAAATTATTTATTCATTAAAAATATAATAATATGATA
6158121 TCATTTGATTCATTAATTGTTAATTGTATAACATTAAATAAACTTCTTAAATTAATTATAAGAAG
66 TCATTTGATTCATTAATTGTTAATTGTATAACATTAAATAAACTTCTTAAATTAATTATAAGAAG
6158186 GAAAAAAAAAGAGTAGGTCCAAACTATAATTGAAAAAGAAAATATGTAATGCATTGCTTCAACCC
131 GAAAAAAAAAGAGTAGGTCCAAACTATAATTGAAAAAGAAAATATGTAATGCATTGCTTCAACCC
6158251 ATCATTTTCTTTGTTTCTTTTATCTATTTTATGTCAGACCACTCATTTTAAAATTAGCCATTATT
196 ATCATTTTCTTTGTTTCTTTTATCTATTTTATGTCAGACCACTCATTTTAAAATTAGCCATTATT
6158316 TTAATTTATGGGTTAAATTTTACTATTAATTCACAGATTGTTTTTCTAATTTTTATATTTTAATT
261 TTAATTTATGGGTTAAATTTTACTATTAATTCACAGATTGTTTTTCTAATTTTTATATTTTAATT
6158381 TAGTTATTTTTTAGTACTTATTAAAATGATAGTTGTTAAATCTATTAAATTAAATTAAATTATTT
326 TAGTTATTTTTTAGTACTTATTAAAATGATAGTTGTTAAATCTATTAAATTAAATTAAATTATTT
6158446 TCATAATTTTATACGAGAAATGTATTATCACATTTAATGCCATGCCAACTTAATATGTGGACATA
391 TCATAATTTTATACGAGAAATGTATTATCACATTTAATGCCATGCCAACTTAATATGTGGACATA
6158511 ATACTTGCAAAAAAAAAAAGCCAC
456 ATACTTGCAAAAAAAAAAAGCCAC
6158535 A
1 A
6158536 ATATTTTAAT
Statistics
Matches: 479, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
478 468 0.98
479 11 0.02
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.41
Consensus pattern (479 bp):
ACACAAATAATATCACTTTATGAGAAAAAAAATTATTTATTCATTAAAAATATAATAATATGATA
TCATTTGATTCATTAATTGTTAATTGTATAACATTAAATAAACTTCTTAAATTAATTATAAGAAG
GAAAAAAAAAGAGTAGGTCCAAACTATAATTGAAAAAGAAAATATGTAATGCATTGCTTCAACCC
ATCATTTTCTTTGTTTCTTTTATCTATTTTATGTCAGACCACTCATTTTAAAATTAGCCATTATT
TTAATTTATGGGTTAAATTTTACTATTAATTCACAGATTGTTTTTCTAATTTTTATATTTTAATT
TAGTTATTTTTTAGTACTTATTAAAATGATAGTTGTTAAATCTATTAAATTAAATTAAATTATTT
TCATAATTTTATACGAGAAATGTATTATCACATTTAATGCCATGCCAACTTAATATGTGGACATA
ATACTTGCAAAAAAAAAAAGCCAC
Found at i:6159213 original size:28 final size:25
Alignment explanation
Indices: 6159173--6159226 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 25
6159163 TTTTGCTATT
6159173 TCCCCCATTTACTATAACAAAATTAAAA
1 TCCCCCATTTAC--TAA-AAAATTAAAA
6159201 TCCCCC-TTATACTAAAAAATTAAAA
1 TCCCCCATT-TACTAAAAAATTAAAA
6159226 T
1 T
6159227 ATGTCACAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 11 0.44
26 3 0.12
27 2 0.08
28 9 0.36
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (25 bp):
TCCCCCATTTACTAAAAAATTAAAA
Found at i:6165552 original size:395 final size:395
Alignment explanation
Indices: 6164822--6165612 Score: 1496
Period size: 395 Copynumber: 2.0 Consensus size: 395
6164812 AATTAAAAAA
6164822 ATTAAATTTTGAATTTTCTTGCTAAAAAAGGCCACACCCATTGGCCTTTTACGATTGTTGCCACT
1 ATTAAATTTTGAATTTTCTTGCTAAAAAAGGCCACACCCATTGGCCTTTTACGATTGTTGCCACT
6164887 TGCATCTTTTCACTAAAAATGAATGGTCGAAACGTTTGAAAAGCATAACCAACCAAAACCCAACA
66 TGCATCTTTTCACTAAAAATGAATGGTCGAAACGTTTGAAAAGCATAACCAACCAAAACCCAACA
* *
6164952 TTTTGGTTATGGGGTTTTAAGGTTTAATATTAAAAGAATAATTAAATACCAAAATAGATAAATAG
131 TTTTGGTTATGGGGGTTTAAGGTTTAATATTAAAAGAATAATTAAAAACCAAAATAGATAAATAG
6165017 AATTAATAAATTTATTAAATACAAAAATATATAGATGCTTGGTGATGCCCCCATGGTCATGCTTA
196 AATTAATAAATTTATTAAATACAAAAATATATAGATGCTTGGTGATGCCCCCATGGTCATGCTTA
*
6165082 GTGAACCATTATATAGGTGCTTCTTTGTTGGCTGCTCTGGTTCTCTGTTTTTTGCTCTGTTTTCC
261 GTGAACCATTATATAGATGCTTCTTTGTTGGCTGCTCTGGTTCTCTGTTTTTTGCTCTGTTTTCC
*
6165147 CTGCCCAAAATTTGTACAGGGAGAAAGTCCATTACAGGGAGTTTTATTGGGAGCATGAATCTGTA
326 CTGCCCAAAATTTGTACAGGGAGAAAGTCAATTACAGGGAGTTTTATTGGGAGCATGAATCTGTA
6165212 AAGAG
391 AAGAG
6165217 ATTAAATTTTGAATTTTCTTGCTAAAAAAGAGCCACACCCATTGGCCTTTTACGATTGTTGCCAC
1 ATTAAATTTTGAATTTTCTTGCTAAAAAAG-GCCACACCCATTGGCCTTTTACGATTGTTGCCAC
*
6165282 TTGCATCTTTTCACTAAAAATGAATGGTCGAAACGTTT-AAAAGCATATCCAACCAAAACCCAAC
65 TTGCATCTTTTCACTAAAAATGAATGGTCGAAACGTTTGAAAAGCATAACCAACCAAAACCCAAC
6165346 ATTTTGGTTATGGGGGTTTAAGGTTTAATATTAAAAGAATAATTAAAAACCAAAATAGATAAATA
130 ATTTTGGTTATGGGGGTTTAAGGTTTAATATTAAAAGAATAATTAAAAACCAAAATAGATAAATA
*
6165411 GAATTAATATATTTATTAAATACAAAAATATATAGATGCTTGGTGATGCCCCCATGGTCATGCTT
195 GAATTAATAAATTTATTAAATACAAAAATATATAGATGCTTGGTGATGCCCCCATGGTCATGCTT
6165476 AGTGAACC-TATATATAGATGCTTCTTTGTTGGCTGCTCTGGTTCTCTGTTTTTTGCTCTGTTTT
260 AGTGAACCAT-TATATAGATGCTTCTTTGTTGGCTGCTCTGGTTCTCTGTTTTTTGCTCTGTTTT
6165540 CCCTGCCCAAAATTTGTACAGGGAGAAAGTCAATTACAGGGAGTTTTATTGGGAGCATGAATCTG
324 CCCTGCCCAAAATTTGTACAGGGAGAAAGTCAATTACAGGGAGTTTTATTGGGAGCATGAATCTG
6165605 TAAAGAG
389 TAAAGAG
6165612 A
1 A
6165613 AAAAATTGAC
Statistics
Matches: 388, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
394 1 0.00
395 315 0.81
396 72 0.19
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.34
Consensus pattern (395 bp):
ATTAAATTTTGAATTTTCTTGCTAAAAAAGGCCACACCCATTGGCCTTTTACGATTGTTGCCACT
TGCATCTTTTCACTAAAAATGAATGGTCGAAACGTTTGAAAAGCATAACCAACCAAAACCCAACA
TTTTGGTTATGGGGGTTTAAGGTTTAATATTAAAAGAATAATTAAAAACCAAAATAGATAAATAG
AATTAATAAATTTATTAAATACAAAAATATATAGATGCTTGGTGATGCCCCCATGGTCATGCTTA
GTGAACCATTATATAGATGCTTCTTTGTTGGCTGCTCTGGTTCTCTGTTTTTTGCTCTGTTTTCC
CTGCCCAAAATTTGTACAGGGAGAAAGTCAATTACAGGGAGTTTTATTGGGAGCATGAATCTGTA
AAGAG
Found at i:6165807 original size:13 final size:13
Alignment explanation
Indices: 6165791--6165820 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
6165781 AAAAAAAATC
6165791 TTTAAACAGTAAA
1 TTTAAACAGTAAA
6165804 TTTAAACAGTAAA
1 TTTAAACAGTAAA
6165817 TTTA
1 TTTA
6165821 GTGATGCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (13 bp):
TTTAAACAGTAAA
Found at i:6168263 original size:30 final size:27
Alignment explanation
Indices: 6168227--6168300 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
6168217 GACTATGGAC
*
6168227 TTAAATTTTCAAATTTGAAAAGCAGAGAGA
1 TTAAATTTT-AAATAT-AAAAGCA-AGAGA
* *
6168257 TTAAATTATTAAAAATAGAAGCAAGAGA
1 TTAAATT-TTAAATATAAAAGCAAGAGA
6168285 TTAAATTTTAAATATA
1 TTAAATTTTAAATATA
6168301 CAAGATGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
27 8 0.21
28 12 0.31
29 6 0.15
30 11 0.28
31 2 0.05
ACGTcount: A:0.51, C:0.04, G:0.12, T:0.32
Consensus pattern (27 bp):
TTAAATTTTAAATATAAAAGCAAGAGA
Found at i:6174603 original size:18 final size:20
Alignment explanation
Indices: 6174582--6174625 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
6174572 AAAACTAATC
*
6174582 ATTTTAATAAAA-GAT-TAT
1 ATTTTAATAAAACGATAAAT
*
6174600 ATTTTACTAAAACGATAAAT
1 ATTTTAATAAAACGATAAAT
6174620 ATTTTA
1 ATTTTA
6174626 GCCTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 11 0.50
19 3 0.14
20 8 0.36
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (20 bp):
ATTTTAATAAAACGATAAAT
Found at i:6177228 original size:3 final size:3
Alignment explanation
Indices: 6177220--6177268 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
6177210 AGACATTGAG
6177220 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
6177268 C
1 C
6177269 TGTAATGGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:6185491 original size:221 final size:222
Alignment explanation
Indices: 6185096--6185539 Score: 872
Period size: 221 Copynumber: 2.0 Consensus size: 222
6185086 TATTTTAAAG
6185096 ATTAAAATATAATTTTATTTTTATTAATTTAAAATTTTAAAAATTTCTCAATGGAGACAAAGTTG
1 ATTAAAATAT-ATTTTATTTTTATTAATTTAAAATTTTAAAAATTTCTCAATGGAGACAAAGTTG
6185161 GGATGATGACATTTGGGGTGCTCTGCACAATTACAGCAACTTCGGGAAAATTTGTCCGTCTGTAG
65 GGATGATGACATTTGGGGTGCTCTGCACAATTACAGCAACTTCGGGAAAATTTGTCCGTCTGTAG
6185226 AAATAATTGAAATTAATGAAAAAACTATGAAAGAAGAGAGGAGACAAATCCCATGGAATTCACTT
130 AAATAATTGAAATTAATGAAAAAACTATGAAAGAAGAGAGGAGACAAATCCCATGGAATTCACTT
6185291 TAGGTTCAGGCACATGCATTCAAGTCTT
195 TAGGTTCAGGCACATGCATTCAAGTCTT
6185319 ATTAAAATAT-TTTTATTTTTATTAATTTAAAATTTTAAAAATTTCTCAATGGAGACAAAGTTGG
1 ATTAAAATATATTTTATTTTTATTAATTTAAAATTTTAAAAATTTCTCAATGGAGACAAAGTTGG
6185383 GATGATGACATTTGGGGTGCTCTGCACAATTACAGCAACTTCGGGAAAATTTGTCCGTCTGTAGA
66 GATGATGACATTTGGGGTGCTCTGCACAATTACAGCAACTTCGGGAAAATTTGTCCGTCTGTAGA
6185448 AATAATTGAAATTAATGAAAAAACTATGAAAGAAGAGAGGAGACAAATCCCATGGAATTCACTTT
131 AATAATTGAAATTAATGAAAAAACTATGAAAGAAGAGAGGAGACAAATCCCATGGAATTCACTTT
6185513 AGGTTCAGGCACATGCATTCAAGTCTT
196 AGGTTCAGGCACATGCATTCAAGTCTT
6185540 TCTAAAGCTT
Statistics
Matches: 221, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
221 211 0.95
223 10 0.05
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (222 bp):
ATTAAAATATATTTTATTTTTATTAATTTAAAATTTTAAAAATTTCTCAATGGAGACAAAGTTGG
GATGATGACATTTGGGGTGCTCTGCACAATTACAGCAACTTCGGGAAAATTTGTCCGTCTGTAGA
AATAATTGAAATTAATGAAAAAACTATGAAAGAAGAGAGGAGACAAATCCCATGGAATTCACTTT
AGGTTCAGGCACATGCATTCAAGTCTT
Found at i:6194057 original size:20 final size:20
Alignment explanation
Indices: 6194032--6194069 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6194022 TCACTAAATT
6194032 ATTATTAAATTTATATTTTA
1 ATTATTAAATTTATATTTTA
*
6194052 ATTATTAAATTTTTATTT
1 ATTATTAAATTTATATTT
6194070 AATACACGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTATTAAATTTATATTTTA
Found at i:6208571 original size:17 final size:18
Alignment explanation
Indices: 6208541--6208574 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6208531 TATGAAATCG
6208541 AAAACTAGAATTAAATTA
1 AAAACTAGAATTAAATTA
*
6208559 AAAACTA-ATTTAAATT
1 AAAACTAGAATTAAATT
6208575 GAACCCTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAACTAGAATTAAATTA
Found at i:6209841 original size:30 final size:30
Alignment explanation
Indices: 6209807--6209867 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
6209797 CTATTAATGG
6209807 ATTAACGAAATAGTTGAATCCCTGGAGTAA
1 ATTAACGAAATAGTTGAATCCCTGGAGTAA
*
6209837 ATTAATGAAATAGTTGAATCCCTGGAGTAA
1 ATTAACGAAATAGTTGAATCCCTGGAGTAA
6209867 A
1 A
6209868 CTTGATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.28
Consensus pattern (30 bp):
ATTAACGAAATAGTTGAATCCCTGGAGTAA
Found at i:6211353 original size:43 final size:43
Alignment explanation
Indices: 6211305--6211398 Score: 136
Period size: 43 Copynumber: 2.2 Consensus size: 43
6211295 TTAATTAAAA
6211305 TTTTTAA-ACCTAAACCTTAACTGAAAAAATTGTTCATCTCCTC
1 TTTTTAATACCTAAACCTTAACT-AAAAAATTGTTCATCTCCTC
*** *
6211348 TTTTTAATTTGTCAACCTTAACTAAAAAATTGTTCATCTCCTC
1 TTTTTAATACCTAAACCTTAACTAAAAAATTGTTCATCTCCTC
6211391 TTTTTAAT
1 TTTTTAAT
6211399 TTGTCTTTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 35 0.76
44 11 0.24
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.44
Consensus pattern (43 bp):
TTTTTAATACCTAAACCTTAACTAAAAAATTGTTCATCTCCTC
Found at i:6211399 original size:43 final size:44
Alignment explanation
Indices: 6211317--6211403 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 44
6211307 TTTAAACCTA
6211317 AACCTTAACTGAAAAAATTGTTCATCTCCTCTTTTTAATTTGTC
1 AACCTTAACTGAAAAAATTGTTCATCTCCTCTTTTTAATTTGTC
6211361 AACCTTAACT-AAAAAATTGTTCATCTCCTCTTTTTAATTTGTC
1 AACCTTAACTGAAAAAATTGTTCATCTCCTCTTTTTAATTTGTC
6211404 TTTCATCTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 33 0.77
44 10 0.23
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.44
Consensus pattern (44 bp):
AACCTTAACTGAAAAAATTGTTCATCTCCTCTTTTTAATTTGTC
Found at i:6214931 original size:144 final size:144
Alignment explanation
Indices: 6214696--6214978 Score: 460
Period size: 144 Copynumber: 2.0 Consensus size: 144
6214686 CTAATGTTTC
* * ** *
6214696 CAATTGAACAAGATGTTGAAGCCCAATGGGGAGAGACACCAGCTTTGGAATATTCTTAATCTCCA
1 CAATTGAACAAGATGTTGAAGCCAAAAGGGGAGAGACACCAGCTGCGGAATATTATTAATCTCCA
*
6214761 AACGAGAGAGATTCTTAAGGGCTTCCCATTGCATGCCCTCTAAATCAACCTCCTTGCAATCTCCT
66 AACGAGAGAGATTCTTAAGGGCTTCCCATTGCATGCCCTCGAAATCAACCTCCTTGCAATCTCCT
6214826 ACTGTTAATCCTTT
131 ACTGTTAATCCTTT
*
6214840 CAATTGAACAAGATGTTGAAGCCAAAAGGGGAGAGACACCAGCTGCGGATTATTATTAATCTCCA
1 CAATTGAACAAGATGTTGAAGCCAAAAGGGGAGAGACACCAGCTGCGGAATATTATTAATCTCCA
* *
6214905 AATGAGAGAGATTCTTAAGGAG-TTCCCATTTCATGCCCTCGAAATCAACCTCCTTGCAATCTCC
66 AACGAGAGAGATTCTTAAGG-GCTTCCCATTGCATGCCCTCGAAATCAACCTCCTTGCAATCTCC
*
6214969 TATTGTTAAT
130 TACTGTTAAT
6214979 TTTTTGAGGC
Statistics
Matches: 128, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
144 127 0.99
145 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (144 bp):
CAATTGAACAAGATGTTGAAGCCAAAAGGGGAGAGACACCAGCTGCGGAATATTATTAATCTCCA
AACGAGAGAGATTCTTAAGGGCTTCCCATTGCATGCCCTCGAAATCAACCTCCTTGCAATCTCCT
ACTGTTAATCCTTT
Found at i:6215654 original size:3 final size:3
Alignment explanation
Indices: 6215648--6215711 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
6215638 CTTGTCGTCG
6215648 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
6215696 TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA T
6215712 TCCATACTAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:6230575 original size:2 final size:2
Alignment explanation
Indices: 6230568--6230598 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6230558 TGATTTACAA
6230568 AT AT 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 AT AT A
6230599 GTTGTCAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6232984 original size:41 final size:40
Alignment explanation
Indices: 6232921--6233110 Score: 218
Period size: 41 Copynumber: 4.6 Consensus size: 40
6232911 CTTTGAATGT
* * *
6232921 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAT-TAA
* * *
6232962 AAGGGGTTACTATGTGCTGATTCCCCGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
* *
6233002 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGA-T-TAA
* *
6233046 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
* *
6233086 AAGGTGGTTTCTAAGTGTTGATTCC
1 AAGG-GGTTGCTAAGTGCTGATTCC
6233111 ATTGGGATCC
Statistics
Matches: 126, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
40 10 0.08
41 69 0.55
42 22 0.17
43 20 0.16
44 5 0.04
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (40 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
Found at i:6233064 original size:84 final size:83
Alignment explanation
Indices: 6232920--6233111 Score: 280
Period size: 84 Copynumber: 2.3 Consensus size: 83
6232910 TCTTTGAATG
*
6232920 TAAGG-GGTTGCTAAGTGCAGATTCC-CCGAATCATTGATCAAAAAGGGGTTACTATGTGCTGAT
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGAATCATTGATCAAAAAGGGGTTACTATGTGCTGAT
6232983 TCCCCGTATCATTGATTA
66 TCCCCGTATCATTGATTA
* * *** *
6233001 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGAATCATTGA-TCAAAAAGGGGTTACTATGTGCTGA
6233066 TTCCCCGTATCATTGATTA
65 TTCCCCGTATCATTGATTA
* *
6233085 TAAGGTGGTTTCTAAGTGTTGATTCCA
1 TAAGGTGGTTGCTAAGTGCTGATTCCA
6233112 TTGGGATCCT
Statistics
Matches: 99, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
81 5 0.05
82 19 0.19
83 10 0.10
84 65 0.66
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (83 bp):
TAAGGTGGTTGCTAAGTGCTGATTCCACCGAATCATTGATCAAAAAGGGGTTACTATGTGCTGAT
TCCCCGTATCATTGATTA
Found at i:6233161 original size:44 final size:44
Alignment explanation
Indices: 6233098--6233200 Score: 170
Period size: 44 Copynumber: 2.3 Consensus size: 44
6233088 GGTGGTTTCT
* *
6233098 AAGTGTTGATTCCATTGGGATCCTTTGAACATGAGGAGGTTGCC
1 AAGTGCTGATTCCACTGGGATCCTTTGAACATGAGGAGGTTGCC
* *
6233142 AAGTGCTGATTCCACTGGGATCCTTTGAACATGAGGTGGTTGCT
1 AAGTGCTGATTCCACTGGGATCCTTTGAACATGAGGAGGTTGCC
6233186 AAGTGCTGATTCCAC
1 AAGTGCTGATTCCAC
6233201 CGTGTAACGG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.31
Consensus pattern (44 bp):
AAGTGCTGATTCCACTGGGATCCTTTGAACATGAGGAGGTTGCC
Found at i:6233359 original size:2 final size:2
Alignment explanation
Indices: 6233346--6233627 Score: 555
Period size: 2 Copynumber: 141.0 Consensus size: 2
6233336 CTGATTCCAC
*
6233346 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6233388 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6233430 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6233472 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6233514 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6233556 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6233598 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6233628 GGTAGAACAC
Statistics
Matches: 278, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
2 278 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6234088 original size:3 final size:3
Alignment explanation
Indices: 6234080--6234118 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
6234070 ATACTATCTA
6234080 AAT AAT AAT AAT AA- AAT AAT AAT AAT AAT AAT -AT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6234119 CAAAATAGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6234098 original size:14 final size:14
Alignment explanation
Indices: 6234079--6234125 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
6234069 TATACTATCT
6234079 AAATAATAATAATA
1 AAATAATAATAATA
6234093 AAATAATAATAATA
1 AAATAATAATAATA
*
6234107 ATAAT-ATAATAACA
1 A-AATAATAATAATA
6234121 AAATA
1 AAATA
6234126 GCAGTAAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 3 0.10
14 24 0.80
15 3 0.10
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATAATAATAATA
Found at i:6234102 original size:17 final size:17
Alignment explanation
Indices: 6234080--6234118 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
6234070 ATACTATCTA
6234080 AATAATAATAATAAAAT
1 AATAATAATAATAAAAT
*
6234097 AATAATAATAATAATAT
1 AATAATAATAATAAAAT
6234114 AATAA
1 AATAA
6234119 CAAAATAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AATAATAATAATAAAAT
Found at i:6236308 original size:3 final size:3
Alignment explanation
Indices: 6236300--6236324 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6236290 AAACATTGGG
6236300 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
6236325 TGTAATGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:6246581 original size:20 final size:20
Alignment explanation
Indices: 6246558--6246596 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6246548 AACTACTTAT
* *
6246558 ATATTTTTTATTTTTTAAAA
1 ATATTTTATAATTTTTAAAA
6246578 ATATTTTATAATTTTTAAA
1 ATATTTTATAATTTTTAAA
6246597 TTATTTATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATTTTATAATTTTTAAAA
Found at i:6247003 original size:71 final size:71
Alignment explanation
Indices: 6246887--6247032 Score: 283
Period size: 71 Copynumber: 2.1 Consensus size: 71
6246877 TATCAAACAC
6246887 TTGAAAAAGTTGGTGTCATGAGTTAATCAAACACCATCAATTGAGAAATCATTAAAATATCATTT
1 TTGAAAAAGTTGGTGTCATGAGTTAATCAAACACCATCAATTGAGAAATCATTAAAATATCATTT
6246952 TGTATA
66 TGTATA
*
6246958 TTGAAAAAGTTGGTGTCATGAGTTAATCAAACATCATCAATTGAGAAATCATTAAAATATCATTT
1 TTGAAAAAGTTGGTGTCATGAGTTAATCAAACACCATCAATTGAGAAATCATTAAAATATCATTT
6247023 TGTATA
66 TGTATA
6247029 TTGA
1 TTGA
6247033 CATGATCTTT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.35
Consensus pattern (71 bp):
TTGAAAAAGTTGGTGTCATGAGTTAATCAAACACCATCAATTGAGAAATCATTAAAATATCATTT
TGTATA
Found at i:6249156 original size:31 final size:30
Alignment explanation
Indices: 6249102--6249167 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
6249092 GTGGTATATC
*
6249102 TTTATAATTTTTTAAGAGTTAAATTA-AACT
1 TTTATAATTTTTTAAGAGCTAAATTATAA-T
6249132 TTTATAATTTTTT-AGAGGACTAAATTATAAT
1 TTTATAATTTTTTAAGA-G-CTAAATTATAAT
6249163 TTTAT
1 TTTAT
6249168 CATTATTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
29 3 0.09
30 14 0.44
31 13 0.41
32 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.52
Consensus pattern (30 bp):
TTTATAATTTTTTAAGAGCTAAATTATAAT
Found at i:6251860 original size:107 final size:106
Alignment explanation
Indices: 6251596--6251898 Score: 374
Period size: 106 Copynumber: 2.8 Consensus size: 106
6251586 GAGATTTAAG
* * *
6251596 AGGATATTTGGCTATTTAGTCGAATGAGAAATCGAAACTCAGCACGTTAGGGCACGTTTTCTT-G
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTT-TTCG
* * * * *
6251660 AATTTCCAAACGCAAAACATTGCCTCGTTTTGAAATTTCGAA
65 ATTTTCCAAACACAAAATATTACCTTGTTTTGAAATTTCGAA
* * * * * *
6251702 AGGATATTCGACTATTTGGTCAAACGAGTAATCGAAACCCAACAAGTTAGGGCACGTTTTTTCGA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTTTCGA
*
6251767 TTTTCCAAACACAAAATATTACCTTGTTTTGAAATTATTGAA
66 TTTTCCAAACACAAAATATTACCTTGTTTTGAAATT-TCGAA
* * * * *
6251809 AGGATATTTGGCTATTTGGTCGAACAAGAAATCGAAACCCAGTACGTTAGGGTACATTTTCTCGA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTTTCGA
* * *
6251874 TTTTCTAAAAACAAAATATTTCCTT
66 TTTTCCAAACACAAAATATTACCTT
6251899 ATTTAGATAA
Statistics
Matches: 166, Mismatches: 29, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
105 2 0.01
106 84 0.51
107 80 0.48
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (106 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTTTCGA
TTTTCCAAACACAAAATATTACCTTGTTTTGAAATTTCGAA
Found at i:6253941 original size:19 final size:19
Alignment explanation
Indices: 6253899--6253942 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
6253889 TTTTTTATTT
*
6253899 TTATTTTTATTTTTTAAAA
1 TTATTTTTAATTTTTAAAA
*
6253918 ATATTTTATAATTTTT-AAA
1 TTATTTT-TAATTTTTAAAA
6253937 TTATTT
1 TTATTT
6253943 ATTGATATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATTTTTAATTTTTAAAA
Found at i:6260469 original size:24 final size:24
Alignment explanation
Indices: 6260442--6260493 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
6260432 AATCCATGTC
* *
6260442 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
6260466 AAATATATTATATTAATAAATACT
1 AAATATATTATACTAATAAATACT
6260490 AAAT
1 AAAT
6260494 TTTCTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:6264828 original size:15 final size:15
Alignment explanation
Indices: 6264808--6264860 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
6264798 CTCTAATCAT
6264808 TGAGATTGGATCAAA
1 TGAGATTGGATCAAA
*
6264823 TGAGATTGGATCTACTCAT
1 TGAGATTGGATC-A---AA
6264842 TGAGATTGGATCAAA
1 TGAGATTGGATCAAA
6264857 TGAG
1 TGAG
6264861 GTGTTTTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 17 0.53
16 1 0.03
18 1 0.03
19 13 0.41
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.30
Consensus pattern (15 bp):
TGAGATTGGATCAAA
Found at i:6264847 original size:19 final size:18
Alignment explanation
Indices: 6264803--6264853 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 18
6264793 AAGCTCTCTA
6264803 ATCATTGAGATTGGATC-
1 ATCATTGAGATTGGATCT
*
6264820 A--AATGAGATTGGATCT
1 ATCATTGAGATTGGATCT
6264836 ACTCATTGAGATTGGATC
1 A-TCATTGAGATTGGATC
6264854 AAATGAGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
15 13 0.46
16 1 0.04
17 1 0.04
19 13 0.46
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (18 bp):
ATCATTGAGATTGGATCT
Found at i:6265895 original size:31 final size:31
Alignment explanation
Indices: 6265860--6265919 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
6265850 TTTCTATAAA
6265860 TGTATACAATTT-AATTAAAATAAAAATTTCT
1 TGTATAC-ATTTAAATTAAAATAAAAATTTCT
* *
6265891 TGTATACATTTAAATTATAATTAAAATTT
1 TGTATACATTTAAATTAAAATAAAAATTT
6265920 TATTTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (31 bp):
TGTATACATTTAAATTAAAATAAAAATTTCT
Found at i:6288258 original size:14 final size:14
Alignment explanation
Indices: 6288239--6288265 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6288229 CAATCTTCAA
6288239 CAAACTACTCTCCC
1 CAAACTACTCTCCC
6288253 CAAACTACTCTCC
1 CAAACTACTCTCC
6288266 GGTGGCTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.48, G:0.00, T:0.22
Consensus pattern (14 bp):
CAAACTACTCTCCC
Found at i:6294305 original size:16 final size:16
Alignment explanation
Indices: 6294264--6294311 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
6294254 ATTATTCTAG
6294264 TTATATTT-TATTT-T
1 TTATATTTATATTTAT
**
6294278 TTATATAAATATTTAT
1 TTATATTTATATTTAT
*
6294294 TTATATTTATATATAT
1 TTATATTTATATTTAT
6294310 TT
1 TT
6294312 TGTTGGCTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 6 0.22
15 5 0.19
16 16 0.59
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATATTTATATTTAT
Found at i:6298954 original size:44 final size:44
Alignment explanation
Indices: 6298894--6298991 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 44
6298884 TTGCAAGCTG
*
6298894 AAGTGGCGGACAGTCTAAATGCAAACCT-GAATGGGTGCAAACCA
1 AAGTGGCAGACAGTCTAAATGC-AACCTCGAATGGGTGCAAACCA
* * *
6298938 AAGTGGCAGACGGTCTAAATGCAAGCTCGAATGGGTGCAAGCCA
1 AAGTGGCAGACAGTCTAAATGCAACCTCGAATGGGTGCAAACCA
*
6298982 AAATGGCAGA
1 AAGTGGCAGA
6298992 ATGAAGGCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 4 0.08
44 44 0.92
ACGTcount: A:0.36, C:0.19, G:0.30, T:0.15
Consensus pattern (44 bp):
AAGTGGCAGACAGTCTAAATGCAACCTCGAATGGGTGCAAACCA
Found at i:6299862 original size:12 final size:12
Alignment explanation
Indices: 6299824--6299864 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
6299814 CAACTTTTAC
6299824 ATATATTATTGT
1 ATATATTATTGT
*
6299836 ATAT-TTA-TAT
1 ATATATTATTGT
6299846 ATATATTATTGT
1 ATATATTATTGT
*
6299858 TTATATT
1 ATATATT
6299865 GAGTGCTTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
10 6 0.25
11 6 0.25
12 12 0.50
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (12 bp):
ATATATTATTGT
Found at i:6308262 original size:29 final size:30
Alignment explanation
Indices: 6308195--6308269 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 30
6308185 TTGAATTTTA
****
6308195 AAATTTTAAAAATATGGGGACTAAATTCTT
1 AAATTTTAAAAATATACAAACTAAATTCTT
**
6308225 AAA-AATAAAAATATACAAACTAAATTC-T
1 AAATTTTAAAAATATACAAACTAAATTCTT
6308253 AAATTTTAAAATATATA
1 AAATTTTAAAA-ATATA
6308270 AATAGGACTT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
28 4 0.11
29 23 0.66
30 8 0.23
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (30 bp):
AAATTTTAAAAATATACAAACTAAATTCTT
Found at i:6316287 original size:36 final size:36
Alignment explanation
Indices: 6316240--6316311 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
6316230 TCCTACGTCC
6316240 GCGGGGCTTTGCCGAAAGATGAATCCACTATGAACT
1 GCGGGGCTTTGCCGAAAGATGAATCCACTATGAACT
6316276 GCGGGGCTTTGCCGAAAGATGAATCCACTATGAACT
1 GCGGGGCTTTGCCGAAAGATGAATCCACTATGAACT
6316312 TCATAGTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (36 bp):
GCGGGGCTTTGCCGAAAGATGAATCCACTATGAACT
Found at i:6318702 original size:12 final size:12
Alignment explanation
Indices: 6318684--6318718 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
6318674 TCCCTTAAAC
6318684 AAAGGAATTAAT
1 AAAGGAATTAAT
*
6318696 GAAGGAATTAAT
1 AAAGGAATTAAT
6318708 AAAGG-ATTAAT
1 AAAGGAATTAAT
6318719 TGATATGTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.54, C:0.00, G:0.20, T:0.26
Consensus pattern (12 bp):
AAAGGAATTAAT
Found at i:6329866 original size:72 final size:72
Alignment explanation
Indices: 6329790--6330446 Score: 1280
Period size: 72 Copynumber: 9.1 Consensus size: 72
6329780 ACGCATCTCG
* *
6329790 TCCGGAAGAGATGTTAAATTGGGCAAA-TAACCGAGATAAAGCCCTTGCAGATTTGTTAGATGTT
1 TCCGGAAGAGATGTTAAATTGGGCAAATTAA-CGAGAAAAAGCCGTTGCAGATTTGTTAGATGTT
6329854 GAAGCCAC
65 GAAGCCAC
6329862 TCCGGAAGAGATGTTAAATTGGGCAAATTAACGAGAAAAAGCCGTTGCAGATTTGTTAGATGTTG
1 TCCGGAAGAGATGTTAAATTGGGCAAATTAACGAGAAAAAGCCGTTGCAGATTTGTTAGATGTTG
6329927 AAGCCAC
66 AAGCCAC
6329934 TCCGGAAGAGATGTTAAATTGGGCAAATTAACGAGAAAAAGCCGTTGCAGATTTGTTAGATGTTG
1 TCCGGAAGAGATGTTAAATTGGGCAAATTAACGAGAAAAAGCCGTTGCAGATTTGTTAGATGTTG
6329999 AAGCCAC
66 AAGCCAC
6330006 TCCGGAAGAGATGTTAAATTGGGCAAATTAACGAGAAAAAGCCGTTGCAGATTTGTTAGATGTTG
1 TCCGGAAGAGATGTTAAATTGGGCAAATTAACGAGAAAAAGCCGTTGCAGATTTGTTAGATGTTG
6330071 AAGCCAC
66 AAGCCAC
6330078 TCCGGAAGAGATGTTAAATTGGGCAAATTAACGAGAAAAAGCCGTTGCAGATTTGTTAGATGTTG
1 TCCGGAAGAGATGTTAAATTGGGCAAATTAACGAGAAAAAGCCGTTGCAGATTTGTTAGATGTTG
6330143 AAGCCAC
66 AAGCCAC
6330150 TCCGGAAGAGATGTTAAATTGGGCAAATTAACGAGAAAAAGCCGTTGCAGATTTGTTAGATGTTG
1 TCCGGAAGAGATGTTAAATTGGGCAAATTAACGAGAAAAAGCCGTTGCAGATTTGTTAGATGTTG
6330215 AAGCCAC
66 AAGCCAC
6330222 TCCGGAAGAGATGTTAAATTGGGCAAATTAACGAGAAAAAGCCGTTGCAGATTTGTTAGATGTTG
1 TCCGGAAGAGATGTTAAATTGGGCAAATTAACGAGAAAAAGCCGTTGCAGATTTGTTAGATGTTG
6330287 AAGCCAC
66 AAGCCAC
6330294 TCCGGAAGAGATGTTAAATTGGGCAAATTAACGAGAAAAAGCCGTTGCAGATTTGTTAGATGTTG
1 TCCGGAAGAGATGTTAAATTGGGCAAATTAACGAGAAAAAGCCGTTGCAGATTTGTTAGATGTTG
6330359 AAGCCAC
66 AAGCCAC
6330366 TCCGGAAGAGATGTTAAATTGGGCAAATTAACGAGAAAAAGCCGTTGCAGATTTGTTAGATGTTG
1 TCCGGAAGAGATGTTAAATTGGGCAAATTAACGAGAAAAAGCCGTTGCAGATTTGTTAGATGTTG
6330431 AAGCCAC
66 AAGCCAC
6330438 TCCGGAAGA
1 TCCGGAAGA
6330447 TGCCGACACT
Statistics
Matches: 582, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
72 579 0.99
73 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (72 bp):
TCCGGAAGAGATGTTAAATTGGGCAAATTAACGAGAAAAAGCCGTTGCAGATTTGTTAGATGTTG
AAGCCAC
Found at i:6341028 original size:3 final size:3
Alignment explanation
Indices: 6340948--6341009 Score: 70
Period size: 3 Copynumber: 20.7 Consensus size: 3
6340938 AAATATGATG
* * * * *
6340948 ATA ATA ACA ATA ATA TTA ATA ATA ATA TTA ATA ACA CTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
6340996 TTA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
6341010 TTATTAGTTT
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:6358274 original size:17 final size:17
Alignment explanation
Indices: 6358235--6358278 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
6358225 TGTTTTATAT
*
6358235 AGTAATATTAACATTAT
1 AGTAATATTAACATTAG
** *
6358252 TTTAATATTTACATTAG
1 AGTAATATTAACATTAG
6358269 AGTAATATTA
1 AGTAATATTA
6358279 TATATTTAGT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (17 bp):
AGTAATATTAACATTAG
Found at i:6361483 original size:9 final size:9
Alignment explanation
Indices: 6361468--6361666 Score: 178
Period size: 9 Copynumber: 23.8 Consensus size: 9
6361458 ACATAATGCT
6361468 TAACTTACA
1 TAACTTACA
*
6361477 CAACTTACA
1 TAACTTACA
6361486 TAACTTACA
1 TAACTTACA
6361495 TAACTTACA
1 TAACTTACA
*
6361504 TAACCCTAC-
1 TAA-CTTACA
6361513 -AA--TACA
1 TAACTTACA
*
6361519 CAACTTACA
1 TAACTTACA
6361528 TAACTTACA
1 TAACTTACA
6361537 TAA--TACA
1 TAACTTACA
*
6361544 CAACTTACA
1 TAACTTACA
*
6361553 TAACTTTCA
1 TAACTTACA
6361562 TAA--TACA
1 TAACTTACA
*
6361569 CAACTTACA
1 TAACTTACA
*
6361578 TAA-TAACA
1 TAACTTACA
*
6361586 TAACTTA-G
1 TAACTTACA
6361594 TAA--TACA
1 TAACTTACA
*
6361601 CAACTTACA
1 TAACTTACA
6361610 TAACTTACA
1 TAACTTACA
6361619 TAA--TACA
1 TAACTTACA
6361626 TAACTTACA
1 TAACTTACA
*
6361635 TAACTTATA
1 TAACTTACA
6361644 TAA--TACA
1 TAACTTACA
*
6361651 CAACTTACA
1 TAACTTACA
6361660 TAACTTA
1 TAACTTA
6361667 TACAATACAT
Statistics
Matches: 153, Mismatches: 20, Indels: 34
0.74 0.10 0.16
Matches are distributed among these distances:
5 3 0.02
6 2 0.01
7 27 0.18
8 12 0.08
9 105 0.69
10 4 0.03
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.30
Consensus pattern (9 bp):
TAACTTACA
Found at i:6361547 original size:25 final size:25
Alignment explanation
Indices: 6361448--6361675 Score: 235
Period size: 25 Copynumber: 8.8 Consensus size: 25
6361438 AATTACATTA
* * **
6361448 TACACAACTTACATAATGCTTAACT
1 TACATAACTTACATAATACACAACT
* *
6361473 TACACAACTTACATAACTTACATAACT
1 TACATAACTTACATAA--TACACAACT
*
6361500 TACATAACCCTAC--AATACACAACT
1 TACATAA-CTTACATAATACACAACT
6361524 TACATAACTTACATAATACACAACT
1 TACATAACTTACATAATACACAACT
*
6361549 TACATAACTTTCATAATACACAACT
1 TACATAACTTACATAATACACAACT
*
6361574 TACATAATAACATAACTTAGTAATACACAACT
1 TAC---ATAAC-TTAC--A-TAATACACAACT
*
6361606 TACATAACTTACATAATACATAACT
1 TACATAACTTACATAATACACAACT
*
6361631 TACATAACTTATATAATACACAACT
1 TACATAACTTACATAATACACAACT
* *
6361656 TACATAACTTATACAATACA
1 TACATAACTTACATAATACA
6361676 TAAATTTATA
Statistics
Matches: 177, Mismatches: 14, Indels: 24
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.02
24 15 0.08
25 107 0.60
26 3 0.02
27 13 0.07
28 12 0.07
29 7 0.04
31 1 0.01
32 15 0.08
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.29
Consensus pattern (25 bp):
TACATAACTTACATAATACACAACT
Found at i:6361548 original size:16 final size:16
Alignment explanation
Indices: 6361440--6361662 Score: 145
Period size: 16 Copynumber: 13.5 Consensus size: 16
6361430 CATAACTTAA
* *
6361440 TTACATTATACACAAC
1 TTACATAATACATAAC
* *
6361456 TTACATAATGCTTAAC
1 TTACATAATACATAAC
*
6361472 TTACACAACTTACATAAC
1 TTACATAA--TACATAAC
6361490 TTACATAACTTACATAACC
1 TTACATAA--TACATAA-C
* *
6361509 CTAC--AATACACAAC
1 TTACATAATACATAAC
6361523 TTACATAACTTACATAA-
1 TTACATAA--TACATAAC
*
6361540 -TACACAACTTACATAAC
1 TTACATAA--TACATAAC
* *
6361557 TTTCATAATACACAAC
1 TTACATAATACATAAC
6361573 TTACATAATAACATAAC
1 TTACATAAT-ACATAAC
* *
6361590 TTA-GTAATACACAAC
1 TTACATAATACATAAC
6361605 TTACATAACTTACATAA-
1 TTACATAA--TACATAAC
6361622 -TACATAACTTACATAAC
1 TTACATAA--TACATAAC
* *
6361639 TTATATAATACACAAC
1 TTACATAATACATAAC
6361655 TTACATAA
1 TTACATAA
6361663 CTTATACAAT
Statistics
Matches: 167, Mismatches: 25, Indels: 30
0.75 0.11 0.14
Matches are distributed among these distances:
14 4 0.02
15 15 0.09
16 88 0.53
17 11 0.07
18 45 0.27
19 4 0.02
ACGTcount: A:0.46, C:0.23, G:0.01, T:0.30
Consensus pattern (16 bp):
TTACATAATACATAAC
Found at i:6361616 original size:82 final size:83
Alignment explanation
Indices: 6361482--6361664 Score: 282
Period size: 82 Copynumber: 2.2 Consensus size: 83
6361472 TTACACAACT
* *
6361482 TACATAACTTACATAACTTACATAACCCTACAATACACAACTTACATAACTTACATAATACACAA
1 TACACAACTTACATAACTAACATAACCCTACAATACACAACTTACATAACTTACATAATACACAA
6361547 CTTACATAACTT-TCATAA
66 CTTACATAACTTAT-ATAA
* * *
6361565 TACACAACTTACATAA-TAACATAA-CTTAGTAATACACAACTTACATAACTTACATAATACATA
1 TACACAACTTACATAACTAACATAACCCTA-CAATACACAACTTACATAACTTACATAATACACA
6361628 ACTTACATAACTTATATAA
65 ACTTACATAACTTATATAA
6361647 TACACAACTTACATAACT
1 TACACAACTTACATAACT
6361665 TATACAATAC
Statistics
Matches: 92, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
81 3 0.03
82 72 0.78
83 17 0.18
ACGTcount: A:0.47, C:0.23, G:0.01, T:0.30
Consensus pattern (83 bp):
TACACAACTTACATAACTAACATAACCCTACAATACACAACTTACATAACTTACATAATACACAA
CTTACATAACTTATATAA
Found at i:6365467 original size:216 final size:216
Alignment explanation
Indices: 6365184--6365624 Score: 758
Period size: 216 Copynumber: 2.0 Consensus size: 216
6365174 ATAACTCCAG
* * * *
6365184 CTCCTTGCAGTCCTTTACTGCAAACTTTTCAAGGAAAGTGAGATGTTTGAACACAGGAAGCAGTG
1 CTCCTTGCAGTCCTTTACTGCAAAATCTTCAACGAAAGTGAGATGTTGGAACACAGGAAGCAGTG
*
6365249 ACCTCAATCCATTGCAGTTATGAATTATTAATGTTTTCAACTGAACAAGATGTTGAAGCCAAATG
66 ACCTCAATCCAATGCAGTTATGAATTATTAATGTTTTCAACTGAACAAGATGTTGAAGCCAAATG
*
6365314 GGGAGAGACACCAGCTTTGGAATATTATCAATCTTCAAATGAGAGAGATTCTTAAGGGGTTCCCA
131 GGGAGAGACACCAGCTTTGGAATATTATCAATCTTCAAATGAGAGAGATTCTTAAGGGGTTCCAA
6365379 TTGCATGCCCTCTAAATCAAC
196 TTGCATGCCCTCTAAATCAAC
* * *
6365400 CTCTTTGCAGTCCTTTACTTCAAAATCTTCAACGAAAGTGAGATGTTGGATCACAGGAAAG-AGT
1 CTCCTTGCAGTCCTTTACTGCAAAATCTTCAACGAAAGTGAGATGTTGGAACACAGG-AAGCAGT
* *
6365464 GACCTCAATCCAATGCAGTTATGAATTTTTAATGTTTTCAATTGAACAAGATGTTGAAGCCAAAT
65 GACCTCAATCCAATGCAGTTATGAATTATTAATGTTTTCAACTGAACAAGATGTTGAAGCCAAAT
*
6365529 GGGGAGAGACACCAGCTTTGGAATATTATCAATCTTCAAATGAGAGAGATTCTTATGGGGTTCCA
130 GGGGAGAGACACCAGCTTTGGAATATTATCAATCTTCAAATGAGAGAGATTCTTAAGGGGTTCCA
6365594 ATTGCATGCCCTCTAAATCAAC
195 ATTGCATGCCCTCTAAATCAAC
6365616 CTCCTTGCA
1 CTCCTTGCA
6365625 ATCTCTTATT
Statistics
Matches: 211, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
216 208 0.99
217 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (216 bp):
CTCCTTGCAGTCCTTTACTGCAAAATCTTCAACGAAAGTGAGATGTTGGAACACAGGAAGCAGTG
ACCTCAATCCAATGCAGTTATGAATTATTAATGTTTTCAACTGAACAAGATGTTGAAGCCAAATG
GGGAGAGACACCAGCTTTGGAATATTATCAATCTTCAAATGAGAGAGATTCTTAAGGGGTTCCAA
TTGCATGCCCTCTAAATCAAC
Found at i:6373517 original size:2 final size:2
Alignment explanation
Indices: 6373510--6373534 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6373500 TTAGCATCAT
6373510 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
6373535 GTATGGTAAC
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:6376975 original size:9 final size:9
Alignment explanation
Indices: 6376960--6377211 Score: 224
Period size: 9 Copynumber: 30.3 Consensus size: 9
6376950 ACATAATGCT
6376960 TAACTTACA
1 TAACTTACA
*
6376969 CAACTTACA
1 TAACTTACA
6376978 TAACTTACA
1 TAACTTACA
6376987 TAACTTACA
1 TAACTTACA
*
6376996 TAAC--CCTA
1 TAACTTAC-A
6377004 TAA--TACA
1 TAACTTACA
*
6377011 CAACTTACA
1 TAACTTACA
6377020 TAA--TACA
1 TAACTTACA
*
6377027 TAACTTACG
1 TAACTTACA
6377036 TAA--TACA
1 TAACTTACA
*
6377043 CAACTTACA
1 TAACTTACA
6377052 TAACTTACA
1 TAACTTACA
6377061 TAA--TACA
1 TAACTTACA
6377068 TAACTTACA
1 TAACTTACA
6377077 TAACTTACA
1 TAACTTACA
6377086 TAA--TACA
1 TAACTTACA
*
6377093 CAACTTACA
1 TAACTTACA
*
6377102 TAACTTTCA
1 TAACTTACA
*
6377111 TAA--TGCA
1 TAACTTACA
* *
6377118 CAACTTACG
1 TAACTTACA
6377127 TAA--TACA
1 TAACTTACA
*
6377134 TAACTTACG
1 TAACTTACA
6377143 TAA--TACA
1 TAACTTACA
*
6377150 CAACTTACA
1 TAACTTACA
6377159 TAACTTACA
1 TAACTTACA
6377168 TAA--TACA
1 TAACTTACA
6377175 TAACTTACA
1 TAACTTACA
6377184 TAA--TACA
1 TAACTTACA
*
6377191 CAACTTACA
1 TAACTTACA
6377200 TAACTTACA
1 TAACTTACA
6377209 TAA
1 TAA
6377212 TACATAAATT
Statistics
Matches: 196, Mismatches: 25, Indels: 44
0.74 0.09 0.17
Matches are distributed among these distances:
7 58 0.30
8 5 0.03
9 133 0.68
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (9 bp):
TAACTTACA
Found at i:6377052 original size:25 final size:25
Alignment explanation
Indices: 6377023--6377215 Score: 227
Period size: 25 Copynumber: 7.8 Consensus size: 25
6377013 ACTTACATAA
*
6377023 TACATAACTTACGTAATACACAACT
1 TACATAACTTACATAATACACAACT
*
6377048 TACATAACTTACATAATACATAACT
1 TACATAACTTACATAATACACAACT
6377073 TACATAACTTACATAATACACAACT
1 TACATAACTTACATAATACACAACT
* *
6377098 TACATAACTTTCATAATGCACAACT
1 TACATAACTTACATAATACACAACT
* **
6377123 TACGTAA--TACATAACTTACGTAA--
1 TACATAACTTACATAA--TACACAACT
* *
6377146 TACACAACTTACATAACTTACATAA--
1 TACATAACTTACATAA--TACACAACT
6377171 TACATAACTTACATAATACACAACT
1 TACATAACTTACATAATACACAACT
6377196 TACATAACTTACATAATACA
1 TACATAACTTACATAATACA
6377216 TAAATTTATA
Statistics
Matches: 147, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
23 17 0.12
25 130 0.88
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (25 bp):
TACATAACTTACATAATACACAACT
Found at i:6377064 original size:41 final size:42
Alignment explanation
Indices: 6376932--6377218 Score: 241
Period size: 41 Copynumber: 6.8 Consensus size: 42
6376922 CATAACTTAA
* * * * *
6376932 TTACATTA-TACACAACTTACATAATGCTTAACTTACACAAC
1 TTACATAACTACATAACTTACATAATACATAACTTACATAAC
** *
6376973 TTACATAACTTACATAACTTACATAACCCTATAA--TACACAAC
1 TTACATAAC-TACATAACTTACATAATAC-ATAACTTACATAAC
* *
6377015 TTACATAA-TACATAACTTACGTAATACACAACTTACATAACTTAC
1 TTACATAACTACATAACTTACATAATACATAACTTACAT-A---AC
*
6377060 ATAATACATAACTTACATAACTTACATAATACACAACTTACATAAC
1 -T--TACATAAC-TACATAACTTACATAATACATAACTTACATAAC
* * * * *
6377106 TTTCATAA-TGCACAACTTACGTAATACATAACTTACGTAA-
1 TTACATAACTACATAACTTACATAATACATAACTTACATAAC
*
6377146 -TACACAACTTACATAACTTACATAATACATAACTTACATAA-
1 TTACATAAC-TACATAACTTACATAATACATAACTTACATAAC
*
6377187 -TACACAACTTACATAACTTACATAATACATAA
1 TTACATAAC-TACATAACTTACATAATACATAA
6377219 ATTTATATCA
Statistics
Matches: 207, Mismatches: 23, Indels: 32
0.79 0.09 0.12
Matches are distributed among these distances:
39 8 0.04
40 16 0.08
41 98 0.47
42 17 0.08
43 22 0.11
44 3 0.01
45 3 0.01
46 3 0.01
48 7 0.03
49 1 0.00
50 29 0.14
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.30
Consensus pattern (42 bp):
TTACATAACTACATAACTTACATAATACATAACTTACATAAC
Found at i:6377218 original size:16 final size:16
Alignment explanation
Indices: 6376932--6377202 Score: 191
Period size: 16 Copynumber: 17.5 Consensus size: 16
6376922 CATAACTTAA
* *
6376932 TTACATTATACACAAC
1 TTACATAATACATAAC
* *
6376948 TTACATAATGCTTAAC
1 TTACATAATACATAAC
*
6376964 TTACACAACTTACATAAC
1 TTACATAA--TACATAAC
6376982 TTACATAACTTACATAAC
1 TTACATAA--TACATAAC
* *
6377000 --CCTATAATACACAAC
1 TTAC-ATAATACATAAC
6377015 TTACATAATACATAAC
1 TTACATAATACATAAC
* *
6377031 TTACGTAATACACAAC
1 TTACATAATACATAAC
6377047 TTACATAACTTACATAA-
1 TTACATAA--TACATAAC
6377064 -TACATAACTTACATAAC
1 TTACATAA--TACATAAC
*
6377081 TTACATAATACACAAC
1 TTACATAATACATAAC
6377097 TTACAT-A-AC-T---
1 TTACATAATACATAAC
* *
6377107 TT-CATAATGCACAAC
1 TTACATAATACATAAC
*
6377122 TTACGTAATACATAAC
1 TTACATAATACATAAC
*
6377138 TTACGTAATAC---AC
1 TTACATAATACATAAC
*
6377151 -AAC-T--TACATAAC
1 TTACATAATACATAAC
6377163 TTACATAATACATAAC
1 TTACATAATACATAAC
*
6377179 TTACATAATACACAAC
1 TTACATAATACATAAC
6377195 TTACATAA
1 TTACATAA
6377203 CTTACATAAT
Statistics
Matches: 206, Mismatches: 26, Indels: 46
0.74 0.09 0.17
Matches are distributed among these distances:
9 6 0.03
10 3 0.01
11 2 0.01
12 4 0.02
13 4 0.02
14 3 0.01
15 10 0.05
16 133 0.65
17 5 0.02
18 36 0.17
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (16 bp):
TTACATAATACATAAC
Found at i:6385939 original size:35 final size:35
Alignment explanation
Indices: 6385899--6386003 Score: 91
Period size: 35 Copynumber: 3.1 Consensus size: 35
6385889 AATTAAATCG
6385899 TTTTATTGATATAATATTAATTAAAATATTTTAAA
1 TTTTATTGATATAATATTAATTAAAATATTTTAAA
* *
6385934 TTTTA-T-AAATCAAT-TTAAAATTTAAATA----AAA
1 TTTTATTGATAT-AATATT--AATTAAAATATTTTAAA
*
6385965 -CTTATTGATATAATATTAATTAAAATATTTTAAA
1 TTTTATTGATATAATATTAATTAAAATATTTTAAA
*
6385999 ATTTA
1 TTTTA
6386004 AATAGCATTC
Statistics
Matches: 53, Mismatches: 6, Indels: 22
0.65 0.07 0.27
Matches are distributed among these distances:
30 12 0.23
31 7 0.13
32 5 0.09
33 5 0.09
34 7 0.13
35 17 0.32
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (35 bp):
TTTTATTGATATAATATTAATTAAAATATTTTAAA
Found at i:6386631 original size:17 final size:17
Alignment explanation
Indices: 6386592--6386635 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
6386582 TGTTTTATAT
*
6386592 AGTAATATTAACATTAT
1 AGTAATATTAACATTAG
** *
6386609 TTTAATATTTACATTAG
1 AGTAATATTAACATTAG
6386626 AGTAATATTA
1 AGTAATATTA
6386636 TATATTTAGT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (17 bp):
AGTAATATTAACATTAG
Found at i:6388379 original size:17 final size:17
Alignment explanation
Indices: 6388340--6388383 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
6388330 TATTTTATAT
*
6388340 AGTAATATTAACATTAT
1 AGTAATATTAACATTAG
** *
6388357 TTTAATATTTACATTAG
1 AGTAATATTAACATTAG
6388374 AGTAATATTA
1 AGTAATATTA
6388384 TATATTTAGT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (17 bp):
AGTAATATTAACATTAG
Found at i:6406330 original size:31 final size:31
Alignment explanation
Indices: 6406263--6406331 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
6406253 TTGTCCCCTA
* * *
6406263 AACTTGGCAACTAGGTGCACTTTGGTACTTG
1 AACTTGACAACTAGGTCCACTTTGATACTTG
* * * *
6406294 TACTTGACAATTAGGTCCAGTTTGATCCTTG
1 AACTTGACAACTAGGTCCACTTTGATACTTG
6406325 AACTTGA
1 AACTTGA
6406332 AAAAATTGTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (31 bp):
AACTTGACAACTAGGTCCACTTTGATACTTG
Found at i:6411181 original size:2 final size:2
Alignment explanation
Indices: 6411142--6411168 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6411132 TATGTTCTTG
6411142 TA 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 TA T
6411169 TAAAATCATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6420163 original size:21 final size:21
Alignment explanation
Indices: 6420118--6420172 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
6420108 CGTGCTAATT
* *
6420118 TTTTAGAAATTTTATGAACTA
1 TTTTATAATTTTTATGAACTA
6420139 -TTTATAATTTTTATTGAA-TA
1 TTTTATAATTTTTA-TGAACTA
6420159 TTTTATAATTTTTA
1 TTTTATAATTTTTA
6420173 AATTATTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (21 bp):
TTTTATAATTTTTATGAACTA
Found at i:6424563 original size:22 final size:22
Alignment explanation
Indices: 6424538--6424602 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
6424528 AATTTAATAT
6424538 TTATATTTATCAAATAATTTAA
1 TTATATTTATCAAATAATTTAA
*
6424560 TTATATATTAT-AATTAATTTTAA
1 TTATAT-TTATCAAATAA-TTTAA
* *
6424583 GTA-ATATATCAAATAGATTT
1 TTATATTTATCAAATA-ATTT
6424603 TATGACTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
21 3 0.09
22 20 0.57
23 12 0.34
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (22 bp):
TTATATTTATCAAATAATTTAA
Found at i:6425006 original size:21 final size:21
Alignment explanation
Indices: 6424980--6425019 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6424970 TTTTAATTTT
*
6424980 AATA-TTAAATATTTGAATAAA
1 AATATTTAAAT-TTTAAATAAA
6425001 AATATTTAAATTTTAAATA
1 AATATTTAAATTTTAAATA
6425020 TATTTCATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
AATATTTAAATTTTAAATAAA
Found at i:6427152 original size:15 final size:15
Alignment explanation
Indices: 6427134--6427184 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
6427124 TTTTTAATTA
6427134 GTTTTTAAATAATAT
1 GTTTTTAAATAATAT
*
6427149 GTTTTT--TTAATTAT
1 GTTTTTAAATAA-TAT
*
6427163 -TTTTTAAATAACAT
1 GTTTTTAAATAATAT
6427177 GTTTTTAA
1 GTTTTTAA
6427185 TTACTATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
13 8 0.28
14 5 0.17
15 16 0.55
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (15 bp):
GTTTTTAAATAATAT
Found at i:6427166 original size:28 final size:28
Alignment explanation
Indices: 6427122--6427182 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
6427112 ATGCGTTTAA
*
6427122 TTTTTTTAATTAGTTTTTAAATAATATG
1 TTTTTTTAATTAGTTTTTAAATAACATG
*
6427150 TTTTTTTAATTATTTTTTAAATAACATG
1 TTTTTTTAATTAGTTTTTAAATAACATG
6427178 TTTTT
1 TTTTT
6427183 AATTACTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (28 bp):
TTTTTTTAATTAGTTTTTAAATAACATG
Found at i:6445790 original size:15 final size:14
Alignment explanation
Indices: 6445755--6445792 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
6445745 GACCAAAAAG
6445755 TAAAAATTAAATTT
1 TAAAAATTAAATTT
6445769 TACAAAATTAAATTTT
1 TA-AAAATTAAA-TTT
6445785 TAAAAATT
1 TAAAAATT
6445793 TTAAGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 2 0.09
15 15 0.68
16 5 0.23
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
TAAAAATTAAATTT
Found at i:6447379 original size:5 final size:5
Alignment explanation
Indices: 6447330--6447371 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
6447320 AACAAAACAA
*
6447330 AATAT GATAT AATAT AATAT AATAT AATAT AATAT AATAT AA
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AA
6447372 AAATAAAAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:6447427 original size:28 final size:25
Alignment explanation
Indices: 6447369--6447427 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 25
6447359 TAATATAATA
6447369 TAAAAATAAAAGAAAAAATCTAACC
1 TAAAAATAAAAGAAAAAATCTAACC
6447394 TAAAAATGAAAAGAAAAGAAATCTAACCC
1 TAAAAAT-AAAAG-AAA-AAATCTAA-CC
6447423 TAAAA
1 TAAAA
6447428 CTATGGAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.23
26 5 0.17
27 3 0.10
28 8 0.27
29 7 0.23
ACGTcount: A:0.66, C:0.12, G:0.07, T:0.15
Consensus pattern (25 bp):
TAAAAATAAAAGAAAAAATCTAACC
Found at i:6452571 original size:21 final size:21
Alignment explanation
Indices: 6452547--6452588 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6452537 CTTTTTGTTC
*
6452547 AATTAATTATCGAAACTTTAA
1 AATTAATTAACGAAACTTTAA
**
6452568 AATTTCTTAACGAAACTTTAA
1 AATTAATTAACGAAACTTTAA
6452589 TACTAACTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (21 bp):
AATTAATTAACGAAACTTTAA
Found at i:6456037 original size:131 final size:131
Alignment explanation
Indices: 6455786--6456164 Score: 670
Period size: 131 Copynumber: 2.9 Consensus size: 131
6455776 TCGCGATACT
* * * * * * * * *
6455786 CAGGCTTGGGTGTCACGATACCCACAAAATTCTTGAGATTGGGAATCTTAGGGTGTTGGTATCAT
1 CAGGCTTGGGTTTCACGATACCCATAAAATTCTTAAGATTGGGGATCTTGGGGAGTCGGCATCAC
6455851 GATAA-CATTACTAGGTATCCCCATATCATTGTAGTTGGCCTGAATTCTCTTCTATAACCATTAC
66 GATAACCATTACTAGGTATCCCCATATCATTGTAGTTGGCCTGAATTCTCTTCTATAACCATTAC
6455915 C
131 C
6455916 CAGGCTTGGGTTTCACGATACCCATAAAATTCTTAAGATTGGGGATCTTGGGGAGTCGGCATCAC
1 CAGGCTTGGGTTTCACGATACCCATAAAATTCTTAAGATTGGGGATCTTGGGGAGTCGGCATCAC
6455981 GATAACCATTACTAGGTATCCCCATATCATTGTAGTTGGCCTGAATTCTCTTCTATAACCATTAC
66 GATAACCATTACTAGGTATCCCCATATCATTGTAGTTGGCCTGAATTCTCTTCTATAACCATTAC
6456046 C
131 C
6456047 CAGGCTTGGGTTTCACGATACCCATAAAATTCTTAAGATTGGGGATCTTGGGGAGTCGGCATCAC
1 CAGGCTTGGGTTTCACGATACCCATAAAATTCTTAAGATTGGGGATCTTGGGGAGTCGGCATCAC
6456112 GATAACCATTACTAGGTATCCCCATATCATTGTAGTTGGCCTGAATTCTCTTC
66 GATAACCATTACTAGGTATCCCCATATCATTGTAGTTGGCCTGAATTCTCTTC
6456165 ATTTCAGCAC
Statistics
Matches: 239, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
130 61 0.26
131 178 0.74
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (131 bp):
CAGGCTTGGGTTTCACGATACCCATAAAATTCTTAAGATTGGGGATCTTGGGGAGTCGGCATCAC
GATAACCATTACTAGGTATCCCCATATCATTGTAGTTGGCCTGAATTCTCTTCTATAACCATTAC
C
Found at i:6459890 original size:15 final size:17
Alignment explanation
Indices: 6459870--6459910 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
6459860 TATTTTATTT
6459870 GTAAATATAATT-T-TA
1 GTAAATATAATTCTCTA
6459885 GTAAATATAATTCTCTA
1 GTAAATATAATTCTCTA
*
6459902 GTATATATA
1 GTAAATATA
6459911 TAATAAGGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.52
16 1 0.04
17 10 0.43
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (17 bp):
GTAAATATAATTCTCTA
Found at i:6460752 original size:2 final size:2
Alignment explanation
Indices: 6460745--6460801 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
6460735 AGTGTACCTA
*
6460745 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6460787 A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
6460802 GATTTGGGTA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6464506 original size:1 final size:1
Alignment explanation
Indices: 6464500--6464554 Score: 65
Period size: 1 Copynumber: 55.0 Consensus size: 1
6464490 TGTGTATGTG
* *** *
6464500 TTTTTTTTTTTTTTTTTGTTTTTTGGGTTTTTTTTTTTATTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6464555 GGATTTTGGG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:6464529 original size:27 final size:28
Alignment explanation
Indices: 6464499--6464551 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
6464489 TTGTGTATGT
6464499 GTTTTTTTTTTT-TTTTTTGTTTTTTGG
1 GTTTTTTTTTTTATTTTTTGTTTTTTGG
*
6464526 GTTTTTTTTTTTATTTTTTTTTTTTT
1 GTTTTTTTTTTTATTTTTTGTTTTTT
6464552 TTTGGATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (28 bp):
GTTTTTTTTTTTATTTTTTGTTTTTTGG
Found at i:6464543 original size:31 final size:30
Alignment explanation
Indices: 6464500--6464561 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 30
6464490 TGTGTATGTG
*
6464500 TTTTTTTTTTTTTTTTTGTTTTTTGGGTTT
1 TTTTTTTTTTTTTTTTTGTTTTTTGGATTT
*
6464530 TTTTTTTTATTTTTTTTTTTTTTTTGGATTT
1 TTTTTTTT-TTTTTTTTTGTTTTTTGGATTT
6464561 T
1 T
6464562 GGGTTTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 8 0.28
31 21 0.72
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (30 bp):
TTTTTTTTTTTTTTTTTGTTTTTTGGATTT
Found at i:6464583 original size:38 final size:38
Alignment explanation
Indices: 6464503--6464588 Score: 100
Period size: 38 Copynumber: 2.3 Consensus size: 38
6464493 GTATGTGTTT
** * ** *
6464503 TTTTTTTTTTTTTTGTTTTTTGGGTTTTTTTTTTTATT
1 TTTTTTTTTTTTTTGGATTTTGGGTTTTCTTAATTATC
*
6464541 TTTTTTTTTTTTTTGGATTTTGGGTTTTCTTAATTCTC
1 TTTTTTTTTTTTTTGGATTTTGGGTTTTCTTAATTATC
*
6464579 TTTTTATTTT
1 TTTTTTTTTT
6464589 ATGAAAATCT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.06, C:0.03, G:0.10, T:0.80
Consensus pattern (38 bp):
TTTTTTTTTTTTTTGGATTTTGGGTTTTCTTAATTATC
Found at i:6467620 original size:100 final size:99
Alignment explanation
Indices: 6467514--6467697 Score: 235
Period size: 100 Copynumber: 1.8 Consensus size: 99
6467504 ATATGAACGG
* * * * * *
6467514 ATATTTTTGTAA-TTTCTCTAATCGAGCTGGGGTCCAGTTGACTCGTGACGCAAACTCAATCAGG
1 ATATTTTTGTAATTTTC-CTAACCAAGCTAGGGCCCAGTTGACTCGTGACACAAACTCAATCAAG
6467578 GGCTTAAATAATAGTATATATTTTAAATACAAAATA
65 GGCTTAAATAATA-TATATATTTTAAATACAAAATA
* * * * * *
6467614 ATATTTTTGTAATTTTCCTAACCAAGTTAGTGCCCATTTGACTGGTGACACAAGCTCAATTAAGG
1 ATATTTTTGTAATTTTCCTAACCAAGCTAGGGCCCAGTTGACTCGTGACACAAACTCAATCAAGG
6467679 GCTTAAATAATATATATAT
66 GCTTAAATAATATATATAT
6467698 ACACACACAC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
99 7 0.10
100 60 0.85
101 4 0.06
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (99 bp):
ATATTTTTGTAATTTTCCTAACCAAGCTAGGGCCCAGTTGACTCGTGACACAAACTCAATCAAGG
GCTTAAATAATATATATATTTTAAATACAAAATA
Found at i:6469443 original size:30 final size:32
Alignment explanation
Indices: 6469407--6469466 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
6469397 TTTTAAGGGG
* *
6469407 TCTAATTAAATTTTTCA-AAAATTT-TGAGCA
1 TCTAATTAAAATTTTAAGAAAATTTATGAGCA
6469437 TCTAATTAAAATTTTAAGAAAATTTATGAG
1 TCTAATTAAAATTTTAAGAAAATTTATGAG
6469467 TGTAATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 15 0.58
31 7 0.27
32 4 0.15
ACGTcount: A:0.43, C:0.07, G:0.08, T:0.42
Consensus pattern (32 bp):
TCTAATTAAAATTTTAAGAAAATTTATGAGCA
Done.