Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold66
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: 4623749
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 850 characters in sequence are not A, C, G, or T
File 23 of 26
Found at i:4034149 original size:25 final size:25
Alignment explanation
Indices: 4034111--4034158 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
4034101 TACTTTTAAT
*
4034111 TTTTTGATACTTAATTATAATTCCTA
1 TTTTTGATAATTAA-TATAATTCCTA
*
4034137 TTTTTGA-AATTAATATTATTCC
1 TTTTTGATAATTAATATAATTCC
4034159 AATTCAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 5 0.25
26 7 0.35
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTTTGATAATTAATATAATTCCTA
Found at i:4037339 original size:19 final size:20
Alignment explanation
Indices: 4037315--4037365 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
4037305 TAGCCAAACT
**
4037315 TGTATCGATACA-CACAGTA
1 TGTATCGATACACCACAAAA
*
4037334 TGTATCGATACACCATAAAA
1 TGTATCGATACACCACAAAA
4037354 TGTATCGATACA
1 TGTATCGATACA
4037366 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACCACAAAA
Found at i:4039623 original size:35 final size:35
Alignment explanation
Indices: 4039600--4039674 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
4039590 AAGTCAGGGC
* *
4039600 CTTAACATCTTTGAAAAGTATCCTCAAGAAAGGCT
1 CTTAACATCTCTAAAAAGTATCCTCAAGAAAGGCT
*
4039635 TTTAACATCTCTAAAAAGTATCCTCAAGAAAGGCT
1 CTTAACATCTCTAAAAAGTATCCTCAAGAAAGGCT
*
4039670 TTTAA
1 CTTAA
4039675 AAGTATCCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.31
Consensus pattern (35 bp):
CTTAACATCTCTAAAAAGTATCCTCAAGAAAGGCT
Found at i:4039681 original size:25 final size:25
Alignment explanation
Indices: 4039648--4039699 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
4039638 AACATCTCTA
*
4039648 AAAAGTATCCTCAAGAAAGGCTTTT
1 AAAAGTATCCTCAAGAAAAGCTTTT
4039673 AAAAGTATCCTCAAGAAAAGCTTTT
1 AAAAGTATCCTCAAGAAAAGCTTTT
4039698 AA
1 AA
4039700 TATCTCTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.27
Consensus pattern (25 bp):
AAAAGTATCCTCAAGAAAAGCTTTT
Found at i:4039706 original size:60 final size:59
Alignment explanation
Indices: 4039608--4039731 Score: 194
Period size: 60 Copynumber: 2.1 Consensus size: 59
4039598 GCCTTAACAT
* * *
4039608 CTTTGAAAAGTATCCTCAAGAAAGGCTTTTAACATCTCTAAAAAGTATCCTCAAGAAAGG
1 CTTTGAAAAGTATCCTCAAGAAAAGCTTTTAACATCTCTAAAAA-CATCCTCAAGAAAAG
* *
4039668 CTTTTAAAAGTATCCTCAAGAAAAGCTTTTAATATCTCTAAAAACATCCTCAAGAAAAG
1 CTTTGAAAAGTATCCTCAAGAAAAGCTTTTAACATCTCTAAAAACATCCTCAAGAAAAG
4039727 CTTTG
1 CTTTG
4039732 GGAACTCTCT
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
59 17 0.29
60 41 0.71
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (59 bp):
CTTTGAAAAGTATCCTCAAGAAAAGCTTTTAACATCTCTAAAAACATCCTCAAGAAAAG
Found at i:4040218 original size:53 final size:53
Alignment explanation
Indices: 4040155--4040259 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 53
4040145 TCACTATTTA
* *
4040155 CTAAGAATCTTTCTCTCTTAATTCGGTGATCTAAACCATTAGTATTCATCTCT
1 CTAAGAATCTTTCTCTCCTAATTCGGTGATCTAAACCATCAGTATTCATCTCT
*
4040208 CTAAGAATCTTTCTCTCCTAATTTGGTGATCTAAACCATCAGTATTCATCTC
1 CTAAGAATCTTTCTCTCCTAATTCGGTGATCTAAACCATCAGTATTCATCTC
4040260 ACTTCTTTTC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.40
Consensus pattern (53 bp):
CTAAGAATCTTTCTCTCCTAATTCGGTGATCTAAACCATCAGTATTCATCTCT
Found at i:4048508 original size:19 final size:19
Alignment explanation
Indices: 4048471--4048508 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
4048461 AAAAAGATCT
*
4048471 ACAAAAATAGTTATCTTTA
1 ACAAAAATAGTCATCTTTA
4048490 ACAAAAATAGCTCAT-TTTA
1 ACAAAAATAG-TCATCTTTA
4048509 TAGCACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.34
Consensus pattern (19 bp):
ACAAAAATAGTCATCTTTA
Found at i:4051979 original size:65 final size:66
Alignment explanation
Indices: 4051877--4052048 Score: 165
Period size: 65 Copynumber: 2.6 Consensus size: 66
4051867 AAACTAATGT
* * * * * * * *
4051877 TTGACCTGCTTAG-GAGAAAAAAGGTTTGATTTAAAAAGAAAAAGATCTAGATGGTAATCTTTAG
1 TTGACCTACTTAGAAAGAAATAA-GTTTGACTTAAAAAGAAAAAGACCTAAATGGTAATCTCTAA
4051941 GC
65 GC
* * * * *
4051943 TT-ATCCTA-TTAAGAAAGAAATAAGTTTGACTT-AAAAGGAAGATACCTAAATGTTTATCTCTA
1 TTGA-CCTACTT-AGAAAGAAATAAGTTTGACTTAAAAAGAAAAAGACCTAAATGGTAATCTCTA
4052005 AGC
64 AGC
4052008 TTGACCTACTTAGAAA-AAATAAGTTTGACTTAAAAAGAAAA
1 TTGACCTACTTAGAAAGAAATAAGTTTGACTTAAAAAGAAAA
4052049 CACCTTGACA
Statistics
Matches: 85, Mismatches: 15, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
64 15 0.18
65 45 0.53
66 18 0.21
67 7 0.08
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (66 bp):
TTGACCTACTTAGAAAGAAATAAGTTTGACTTAAAAAGAAAAAGACCTAAATGGTAATCTCTAAG
C
Found at i:4052132 original size:45 final size:45
Alignment explanation
Indices: 4052076--4052164 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
4052066 CTAGACTCGA
* *
4052076 CCTATTTAAAAAGAAACAAGTTCAACTTGAAAGAAAAGGACCTAG
1 CCTATTCAAAAAGAAACAAGTTCAACTTAAAAGAAAAGGACCTAG
* * * *
4052121 CCTATTCAAAAAGAAATAAGTTTAACTTAAAAGGAAATGACCTA
1 CCTATTCAAAAAGAAACAAGTTCAACTTAAAAGAAAAGGACCTA
4052165 AAAGACAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.22
Consensus pattern (45 bp):
CCTATTCAAAAAGAAACAAGTTCAACTTAAAAGAAAAGGACCTAG
Found at i:4053206 original size:20 final size:20
Alignment explanation
Indices: 4053181--4053220 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
4053171 ATTAGCTTGG
*
4053181 TTTTTTTT-CTCATTTCTTT
1 TTTTTTTTGTTCATTTCTTT
*
4053200 TTTTTTTTGTTTATTTCTTT
1 TTTTTTTTGTTCATTTCTTT
4053220 T
1 T
4053221 CACTTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.05, C:0.10, G:0.03, T:0.82
Consensus pattern (20 bp):
TTTTTTTTGTTCATTTCTTT
Found at i:4056203 original size:38 final size:37
Alignment explanation
Indices: 4056159--4056262 Score: 93
Period size: 37 Copynumber: 2.8 Consensus size: 37
4056149 AACAAAACAT
*
4056159 ACTATTCTTAACTAGTGGTACAATTCGAAATAAAAATC
1 ACTATTCTAAACTAGTGGTACAATTCGAAA-AAAAATC
* * * * * *
4056197 ATTATTCTAAATTGGTGGTATAGTTCGAAACAAAATC
1 ACTATTCTAAACTAGTGGTACAATTCGAAAAAAAATC
* * * *
4056234 ACTATTCCAAATTGGTGGCACAATT-GAAA
1 ACTATTCTAAACTAGTGGTACAATTCGAAA
4056263 TTGGTTTCTA
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
36 4 0.07
37 26 0.48
38 24 0.44
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (37 bp):
ACTATTCTAAACTAGTGGTACAATTCGAAAAAAAATC
Found at i:4056246 original size:37 final size:38
Alignment explanation
Indices: 4056173--4056263 Score: 114
Period size: 37 Copynumber: 2.4 Consensus size: 38
4056163 TTCTTAACTA
* *
4056173 GTGGTACAATTCGAAATAAAAATCATTATTCTAAATTG
1 GTGGTACAATTCGAAATAAAAATCACTATTCCAAATTG
* * *
4056211 GTGGTATAGTTCGAAA-CAAAATCACTATTCCAAATTG
1 GTGGTACAATTCGAAATAAAAATCACTATTCCAAATTG
*
4056248 GTGGCACAATT-GAAAT
1 GTGGTACAATTCGAAAT
4056264 TGGTTTCTAA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
36 4 0.09
37 26 0.59
38 14 0.32
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (38 bp):
GTGGTACAATTCGAAATAAAAATCACTATTCCAAATTG
Found at i:4061632 original size:13 final size:13
Alignment explanation
Indices: 4061614--4061638 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4061604 CAATTCTTGA
4061614 TGTATCGATACAC
1 TGTATCGATACAC
4061627 TGTATCGATACA
1 TGTATCGATACA
4061639 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:4062535 original size:20 final size:20
Alignment explanation
Indices: 4062490--4062541 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
4062480 GTAGCCAAAC
**
4062490 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
4062510 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
4062529 TTGTATCGATACA
1 TTGTATCGATACA
4062542 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:4066245 original size:15 final size:15
Alignment explanation
Indices: 4066225--4066255 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4066215 TAAAAATGTC
*
4066225 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
4066240 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
4066255 C
1 C
4066256 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:4070008 original size:23 final size:21
Alignment explanation
Indices: 4069966--4070009 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
4069956 GTTTAATGTT
**
4069966 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
4069987 TTTGCATTGTACTTTGAATTTTA
1 TTTGC-TTG-ACTTTGAATTTTA
4070010 ATCTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.16, C:0.09, G:0.16, T:0.59
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:4070182 original size:30 final size:30
Alignment explanation
Indices: 4070147--4070208 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
4070137 ATAAATTTTT
4070147 GATATGTGTGTAAATTACCTTATAAAGGGG
1 GATATGTGTGTAAATTACCTTATAAAGGGG
4070177 GATATGTGTGTAAATTACCTTATAAAGGGG
1 GATATGTGTGTAAATTACCTTATAAAGGGG
4070207 GA
1 GA
4070209 GATTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.32
Consensus pattern (30 bp):
GATATGTGTGTAAATTACCTTATAAAGGGG
Found at i:4070956 original size:13 final size:13
Alignment explanation
Indices: 4070938--4070963 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4070928 TACACAAAGT
4070938 ATGTATCGATACA
1 ATGTATCGATACA
4070951 ATGTATCGATACA
1 ATGTATCGATACA
4070964 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4070961 original size:32 final size:33
Alignment explanation
Indices: 4070920--4070983 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
4070910 TAGCCAAACT
**
4070920 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
4070952 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
4070984 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:4073908 original size:20 final size:21
Alignment explanation
Indices: 4073880--4073919 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
4073870 ATCTGGGTTT
4073880 TTTCAAATGTATCGATACATC
1 TTTCAAATGTATCGATACATC
4073901 TTTC-AATGTATCGATACAT
1 TTTCAAATGTATCGATACAT
4073920 TCTGAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (21 bp):
TTTCAAATGTATCGATACATC
Found at i:4077225 original size:13 final size:12
Alignment explanation
Indices: 4077192--4077221 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4077182 ATGGTGCCAA
*
4077192 TTCCTTCAATTT
1 TTCCTTCGATTT
4077204 TTCCTTCGATTT
1 TTCCTTCGATTT
4077216 TTCCTT
1 TTCCTT
4077222 TCGAGTTGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.27, G:0.03, T:0.60
Consensus pattern (12 bp):
TTCCTTCGATTT
Found at i:4078819 original size:32 final size:32
Alignment explanation
Indices: 4078723--4078822 Score: 166
Period size: 31 Copynumber: 3.1 Consensus size: 32
4078713 TTCAACGATT
4078723 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
4078756 TGTATCAATACATAAGTGTTGT-TCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
4078787 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
4078819 TGTA
1 TGTA
4078823 AGCTACTGCC
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
31 29 0.46
32 22 0.35
33 12 0.19
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:4078857 original size:13 final size:13
Alignment explanation
Indices: 4078839--4078866 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4078829 TGCCAAAAAA
4078839 TGTATCGATACAT
1 TGTATCGATACAT
4078852 TGTATCGATACAT
1 TGTATCGATACAT
4078865 TG
1 TG
4078867 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4078930 original size:52 final size:52
Alignment explanation
Indices: 4078872--4079052 Score: 344
Period size: 52 Copynumber: 3.5 Consensus size: 52
4078862 CATTGATCTT
*
4078872 TGTATCGATACATGCAGGCAAGTTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
4078924 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
4078976 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
4079028 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
4079053 TCATATTTCG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 127 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:4094455 original size:59 final size:58
Alignment explanation
Indices: 4094315--4095097 Score: 996
Period size: 59 Copynumber: 13.4 Consensus size: 58
4094305 TCACCCTTCA
* * * *
4094315 AAAGCCCACAAGTCAGTGGCATCATTTT-CAAAGCCCATAAGTCAGTGGCAAC-CTTCA
1 AAAGCCCACAAGTCAGTGGCATC-TTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
* *
4094372 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* * * * * * * *
4094431 AAAGCTCACAAGTCTGTGGTATCTTTTCAAAAGCCCACATGTTAGTGGCACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* * * *
4094490 AAAGCCCATAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
* * *
4094547 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
* *
4094606 AAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
* * *
4094665 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAACTTAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* * *
4094724 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* * * *
4094783 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
* ** * *
4094841 AAAGCCCACAAGTCAGTGGCACCCTTTTTTAAAGCCCACAAGTCAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
* * * * *
4094900 AAATCCCACAAGTCAGTGGCACCCTTTTCTAAAGCCCACAAGTCAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
* *
4094959 AAAGCCCACAAGTCAATGGCATCCTTTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAT-CTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
* * * * *
4095018 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAATGGTATCTCTTCA
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
4095077 AAAGCCCACAAGTCAGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
4095098 ACCTTCAAAA
Statistics
Matches: 653, Mismatches: 64, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
56 4 0.01
57 69 0.11
58 76 0.12
59 504 0.77
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (58 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
Found at i:4094662 original size:88 final size:87
Alignment explanation
Indices: 4094315--4095097 Score: 1009
Period size: 88 Copynumber: 8.9 Consensus size: 87
4094305 TCACCCTTCA
* * * *
4094315 AAAGCCCACAAGTCAGTGGCATCATTTT-CAAAGCCCATAAGTCAGTGGCAAC-CTTCAAAAGCC
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCC
4094378 CACAAGTCAGTGGCATCTTTTCC
65 CACAAGTCAGTGGCATCTTTTCC
* * * *
4094401 AAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCTCACAAGTCTGTGGTATCTTTTCAAAAGCC
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCC
* * * *
4094466 CACATGTTAGTGGCACCCTTTTTC
65 CACAAGTCAGTGGCA-TCTTTTCC
* * *
4094490 AAAGCCCATAAGTCAGTGGCAACC--TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCC
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCC
*
4094553 CACAAGTCAGTGGCACCCTTTTCC
65 CACAAGTCAGTGGCA-TCTTTTCC
* * * *
4094577 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTC-AAAGC
1 AAAGCCCACAAGTCAGTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCA-TC-TTTTCAAAAGC
4094641 CCACAAGTCAGTGGCATCTTTTCC
64 CCACAAGTCAGTGGCATCTTTTCC
* * * * *
4094665 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAACTTAGTGGCACCCTTTTCCAAAGCC
1 AAAGCCCACAAGTCAGTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAAGCC
* *
4094730 CACAAGTCAGTGGTATCTTTTCA
65 CACAAGTCAGTGGCATCTTTTCC
*
4094753 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCC
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCC
* *
4094818 CACAAGTCAGTGGTATCTTTTCA
65 CACAAGTCAGTGGCATCTTTTCC
** * *
4094841 AAAGCCCACAAGTCAGTGGCACCCTTTTTTAAAGCCCACAAGTCAGTGGTATCTTTTCAAAATCC
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCC
* *
4094906 CACAAGTCAGTGGCACCCTTTTCT
65 CACAAGTCAGTGGCA-TCTTTTCC
* * * * *
4094930 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAATGGCATCCTTTTCCAAAGCC
1 AAAGCCCACAAGTCAGTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCAT-CTTTTCAAAAGCC
*
4094995 CACAAGTTAGTGGCATCTTTTCC
65 CACAAGTCAGTGGCATCTTTTCC
* * *
4095018 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAATGGTATCTCTTCAAAAGCC
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCC
4095083 CACAAGTCAGTGGCA
65 CACAAGTCAGTGGCA
4095098 ACCTTCAAAA
Statistics
Matches: 620, Mismatches: 64, Indels: 24
0.88 0.09 0.03
Matches are distributed among these distances:
86 27 0.04
87 97 0.16
88 339 0.55
89 151 0.24
90 6 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (87 bp):
AAAGCCCACAAGTCAGTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCC
ACAAGTCAGTGGCATCTTTTCC
Found at i:4095147 original size:31 final size:28
Alignment explanation
Indices: 4095072--4095153 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
4095062 AATGGTATCT
**
4095072 CTTCAAAAGCC-CACAAGTCAGTGGCAAC
1 CTTCAAAAGCCACACAAGTTGGT-GCAAC
4095100 CTTCAAAAG-CACACAAGTTGGTGCAACC
1 CTTCAAAAGCCACACAAGTTGGTGCAA-C
4095128 CTTTCAAAAGCCCACACAAGTTGGTG
1 C-TTCAAAAG-CCACACAAGTTGGTG
4095154 GCATCTTCTT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.11
28 20 0.43
29 8 0.17
31 14 0.30
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.18
Consensus pattern (28 bp):
CTTCAAAAGCCACACAAGTTGGTGCAAC
Found at i:4095160 original size:147 final size:147
Alignment explanation
Indices: 4094311--4095117 Score: 1189
Period size: 147 Copynumber: 5.5 Consensus size: 147
4094301 TTCCTCACCC
* * *
4094311 TTCAAAAGCCCACAAGTCAGTGGCA-TCATTTTCAAAGCCCATAAGTCAGTGGCAAC-CTTCAAA
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAGTCAGTGGCAACTCTTCAAA
* *
4094374 AGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCTCA
66 AGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCA
*
4094439 CAAGTCTGTGGTATCTT
131 CAAGTCAGTGGTATCTT
* * *
4094456 TTCAAAAGCCCACATGTTAGTGGCACCCTTTTTCAAAGCCCATAAGTCAGTGGCAAC-CTTCAAA
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAGTCAGTGGCAACTCTTCAAA
4094520 AGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCA
66 AGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCA
4094585 CAAGTCAGTGGTATCTT
131 CAAGTCAGTGGTATCTT
* * *
4094602 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCCAA
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAGTCAGTGGCAACTCTTCAAA
* *
4094667 AGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAACTTAGTGGCACCCTTTTCCAAAGCCCA
66 AGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCA
4094732 CAAGTCAGTGGTATCTT
131 CAAGTCAGTGGTATCTT
* * * *
4094749 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCACAAGTCAGTGGTATCTTTTCAAA
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAGTCAGTGGCAACTCTTCAAA
* * **
4094814 AGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTTAAAGCCCA
66 AGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCA
4094879 CAAGTCAGTGGTATCTT
131 CAAGTCAGTGGTATCTT
* * * *
4094896 TTCAAAATCCCACAAGTCAGTGGCACCC-TTTTCTAAAGCCCACAAGTCAGTGGTATCTTTTCAA
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTC-AAAGCCCACAAGTCAGTGGCAACTCTTCAA
* * *
4094960 AAGCCCACAAGTCAATGGCATCCTTTTCCAAAGCCCACAAGTTAGTGGCA-TCTTTTCCAAAGCC
65 AAGCCCACAAGTCAGTGGCAT-CTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCC
* *
4095024 CACAAGTCAGTGGCACCCTT
129 CACAAGTCAGTGGTA-TCTT
* * * * *
4095044 TTCCAAAGCCCACAAGTCAATGGTA-TC-TCTTCAAAAGCCCACAAGTCAGTGGCAAC-CTTCAA
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTC-AAAGCCCACAAGTCAGTGGCAACTCTTCAA
*
4095106 AAGCACACAAGT
65 AAGCCCACAAGT
4095118 TGGTGCAACC
Statistics
Matches: 611, Mismatches: 46, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
145 23 0.04
146 188 0.31
147 350 0.57
148 50 0.08
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (147 bp):
TTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTCAAAGCCCACAAGTCAGTGGCAACTCTTCAAA
AGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCCA
CAAGTCAGTGGTATCTT
Found at i:4095217 original size:43 final size:43
Alignment explanation
Indices: 4095165--4095527 Score: 429
Period size: 43 Copynumber: 8.0 Consensus size: 43
4095155 CATCTTCTTC
* * *
4095165 TAAGTCCAATATCGCTGGCTTTTAATCAGCACATTGGCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * *
4095208 TAAATCCAATATAGCTGGCCTTGAGTCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
*
4095257 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
* *
4095300 TAAGTCCAATATAGCTGGCCTTGAGTCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
*
4095349 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
* *
4095392 TAAGTCCAATATAGCTGGCCTTGAATCAGCATAATGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
* *
4095441 TAAGTCCAATCTAGCTGGCCTTGAATTAGCACATTGGCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
4095484 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
4095527 T
1 T
4095528 TCCATCTTTA
Statistics
Matches: 276, Mismatches: 26, Indels: 36
0.82 0.08 0.11
Matches are distributed among these distances:
43 155 0.56
45 3 0.01
47 3 0.01
49 115 0.42
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (43 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT
Found at i:4095322 original size:92 final size:92
Alignment explanation
Indices: 4095160--4095580 Score: 671
Period size: 92 Copynumber: 4.5 Consensus size: 92
4095150 GGTGGCATCT
* * * * *
4095160 TCTTCTAAGTCCAATATCGCTGGCTTTTAATCAGCACATTGGCACCTTTAAATCCAATATAGCTG
1 TCTT-TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTG
*
4095225 GCCTTGAGTCAGCATATTGGCACCTTCA
65 GCCTTGAATCAGCATATTGGCACCTTCA
4095253 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
*
4095318 CCTTGAGTCAGCATATTGGCACCTTCA
66 CCTTGAATCAGCATATTGGCACCTTCA
4095345 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
* *
4095410 CCTTGAATCAGCATAATGGCACCTTCT
66 CCTTGAATCAGCATATTGGCACCTTCA
* *
4095437 TCTTTAAGTCCAATCTAGCTGGCCTTGAATTAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
4095502 CCTTGAATCAGCATATTGGCACCTTTTCCA
66 CCTTGAATCAGCATATTGGCACC--TT-CA
* * *
4095532 TCTTTAAGTTCAATGTAGCTGGCCTTTAATCAGCACATTGACATCCTTT
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
4095581 TTCTCATCTT
Statistics
Matches: 307, Mismatches: 17, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
92 257 0.84
93 4 0.01
94 2 0.01
95 39 0.13
96 5 0.02
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (92 bp):
TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
CCTTGAATCAGCATATTGGCACCTTCA
Found at i:4095563 original size:52 final size:55
Alignment explanation
Indices: 4095481--4095617 Score: 163
Period size: 52 Copynumber: 2.5 Consensus size: 55
4095471 ACATTGGCAC
* *
4095481 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* * *
4095533 CTTTAAGTTCAATGTAGCTGGCCTTTAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
** * * *
4095588 CTTTAAACCCAATATCGTTGGCCATGAATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATC
4095618 GACGTATTGG
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
52 37 0.54
53 2 0.03
54 5 0.07
55 25 0.36
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.36
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:4095701 original size:218 final size:218
Alignment explanation
Indices: 4095437--4095914 Score: 830
Period size: 218 Copynumber: 2.2 Consensus size: 218
4095427 GGCACCTTCT
* *
4095437 TCTTTAAGTCCAATCTAGCTGGCCTTGAATTAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
* *
4095502 CCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTTAATCAGCA
66 CCTTGAATCAGCATATTGGCACCCTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCA
*
4095567 CATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCATGAATCGACGTATTGGTCCT
131 CATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCATGAATCAACGTATTGGTCCT
4095632 TTTATCACTCTTCATCCTCATCA
196 TTTATCACTCTTCATCCTCATCA
4095655 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
4095720 CCTTGAATCAGCATATTGGCACCCTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCA
66 CCTTGAATCAGCATATTGGCACCCTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCA
* * * *
4095785 CATTGACATCCTTTTTCTTATCTTTGAACCCAATATCGTTGGCCGTGAATCAATGTATTGGTCCT
131 CATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCATGAATCAACGTATTGGTCCT
4095850 TTTATCACTCTTCATCCTCATCA
196 TTTATCACTCTTCATCCTCATCA
* * * * *
4095873 TCTTTAAGTCCAGTGTTGCAGGCCTTGAATCTGCACAGTGGC
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
4095915 GCATTGCAAA
Statistics
Matches: 246, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
218 246 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (218 bp):
TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
CCTTGAATCAGCATATTGGCACCCTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCA
CATTGACATCCTTTTTCTCATCTTTAAACCCAATATCGTTGGCCATGAATCAACGTATTGGTCCT
TTTATCACTCTTCATCCTCATCA
Found at i:4095717 original size:43 final size:43
Alignment explanation
Indices: 4095656--4095742 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
4095646 TCCTCATCAT
*
4095656 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
*
4095699 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
4095742 C
1 C
4095743 CTTTCCATCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:4095777 original size:52 final size:52
Alignment explanation
Indices: 4095699--4095798 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
4095689 ACATTGGCAC
* *
4095699 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCCTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCCTTTCCAT
* * *
4095751 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCCTTT
4095799 TTCTTATCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACCCTTTCCAT
Found at i:4096521 original size:13 final size:13
Alignment explanation
Indices: 4096503--4096527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4096493 CATAAAGTGT
4096503 TGTATCGATACAA
1 TGTATCGATACAA
4096516 TGTATCGATACA
1 TGTATCGATACA
4096528 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4096543 original size:32 final size:33
Alignment explanation
Indices: 4096483--4096551 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
4096473 TTCAACGATT
4096483 TGTATCGAAACATAAAGTGTTGTATCGATACAA
1 TGTATCGAAACATAAAGTGTTGTATCGATACAA
* *
4096516 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGAAACATAAAGTGTTGTATCGATACAA
4096548 TGTA
1 TGTA
4096552 AGCTACTGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 22 0.65
33 12 0.35
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (33 bp):
TGTATCGAAACATAAAGTGTTGTATCGATACAA
Found at i:4096678 original size:52 final size:52
Alignment explanation
Indices: 4096622--4096802 Score: 308
Period size: 52 Copynumber: 3.5 Consensus size: 52
4096612 CATTGATCTT
* *
4096622 TGTATCGATACATGCGGGCAAGTTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
4096674 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
4096726 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
4096778 TGTATCGATACATGTAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
4096803 TCATATTTTG
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 122 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:4100950 original size:60 final size:60
Alignment explanation
Indices: 4100854--4100970 Score: 198
Period size: 60 Copynumber: 1.9 Consensus size: 60
4100844 AGAGAGAAAA
* *
4100854 GAAATGAGAAGGCTTGACATGAGAATTTATAAAGGTTCGGTCCAAACACGGCACCTAAAG
1 GAAATGAGAAGGCTTGACATGAGAATTTATAAAGGTTCAGTCCAAACACAGCACCTAAAG
* *
4100914 GAAATGAGAAGGCTTGACATGAGAATTTATAGAGGTTCAGTCCAAACATAGCACCTA
1 GAAATGAGAAGGCTTGACATGAGAATTTATAAAGGTTCAGTCCAAACACAGCACCTA
4100971 CGTCCTCTCT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.21
Consensus pattern (60 bp):
GAAATGAGAAGGCTTGACATGAGAATTTATAAAGGTTCAGTCCAAACACAGCACCTAAAG
Found at i:4101587 original size:13 final size:13
Alignment explanation
Indices: 4101569--4101593 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4101559 CAATTCTTCG
4101569 TGTATCGATACAC
1 TGTATCGATACAC
4101582 TGTATCGATACA
1 TGTATCGATACA
4101594 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:4101675 original size:20 final size:20
Alignment explanation
Indices: 4101647--4101697 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
4101637 CAATTTCATG
* **
4101647 TATCAATACAATTGTGCATA
1 TATCGATACAATTGAACATA
4101667 TATCGATACAA-TGAACATA
1 TATCGATACAATTGAACATA
4101686 TATCGATACAAT
1 TATCGATACAAT
4101698 GTATCGATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (20 bp):
TATCGATACAATTGAACATA
Found at i:4101720 original size:20 final size:21
Alignment explanation
Indices: 4101695--4101748 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
4101685 ATATCGATAC
4101695 AATGTATCGATACAA-AGCAT
1 AATGTATCGATACAACAGCAT
* *
4101715 AATGTATCGATACAACTGGAT
1 AATGTATCGATACAACAGCAT
4101736 -ATGTATCGATACA
1 AATGTATCGATACA
4101749 TACAAGGGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 28 0.90
21 3 0.10
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
AATGTATCGATACAACAGCAT
Found at i:4104942 original size:13 final size:13
Alignment explanation
Indices: 4104926--4104950 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4104916 AGATTACACA
4104926 GTATCGATACATT
1 GTATCGATACATT
4104939 GTATCGATACAT
1 GTATCGATACAT
4104951 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:4104963 original size:20 final size:21
Alignment explanation
Indices: 4104938--4104990 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
4104928 ATCGATACAT
*
4104938 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
4104958 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
4104979 TGTATCGATACA
1 TGTATCGATACA
4104991 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:4108398 original size:3 final size:3
Alignment explanation
Indices: 4108392--4108425 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
4108382 AAAAATAGTA
4108392 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4108426 TGAAATTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4108734 original size:26 final size:26
Alignment explanation
Indices: 4108670--4108734 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 26
4108660 TCTTAGAAGT
* * *
4108670 AAGAATTTTAATTATGAATTTACATGT
1 AAGAATTTT-ATTATAAATTTAAATGA
**
4108697 AAGAATCCTATT-TAAATTATAAATGA
1 AAGAATTTTATTATAAATT-TAAATGA
4108723 AAGAATTTTATT
1 AAGAATTTTATT
4108735 GAGAAAAGAT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
25 5 0.17
26 18 0.60
27 7 0.23
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.42
Consensus pattern (26 bp):
AAGAATTTTATTATAAATTTAAATGA
Found at i:4109168 original size:21 final size:20
Alignment explanation
Indices: 4109116--4109174 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 20
4109106 TTTTTAATGG
* *
4109116 AAGCAAGTTACTTTCTAACA
1 AAGCAAGTAACTTTCTAATA
* *
4109136 AA-AAAATAACTTTCTAATA
1 AAGCAAGTAACTTTCTAATA
*
4109155 AGAGCAAGTAACTTCCTAAT
1 A-AGCAAGTAACTTTCTAAT
4109175 GAAAAGTAGT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (20 bp):
AAGCAAGTAACTTTCTAATA
Found at i:4114877 original size:52 final size:52
Alignment explanation
Indices: 4114799--4114926 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
4114789 CGAAATATGA
*
4114799 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
4114851 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
*
4114903 AAA-TTACCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
4114927 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 20 0.27
52 48 0.66
53 5 0.07
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:4115037 original size:33 final size:33
Alignment explanation
Indices: 4115000--4115066 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
4114990 AGTAGCTTGA
4115000 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
4115033 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
4115066 A
1 A
4115067 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:4115040 original size:13 final size:13
Alignment explanation
Indices: 4115022--4115046 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4115012 CAAAAAAATA
4115022 TGTATCGATACAT
1 TGTATCGATACAT
4115035 TGTATCGATACA
1 TGTATCGATACA
4115047 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4118675 original size:13 final size:13
Alignment explanation
Indices: 4118659--4118683 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4118649 CAAATCATCA
4118659 TGTATCGATACAT
1 TGTATCGATACAT
4118672 TGTATCGATACA
1 TGTATCGATACA
4118684 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4118694 original size:33 final size:36
Alignment explanation
Indices: 4118657--4118740 Score: 111
Period size: 40 Copynumber: 2.3 Consensus size: 36
4118647 TACAAATCAT
4118657 CATGTATCGATAC-A-T-TGTATCGATACAATGTGC
1 CATGTATCGATACAAGTCTGTATCGATACAATGTGC
4118690 CATGTATCGATACAATGTGCCATGTATCGATACAATGTGC
1 CATGTATCGATACAA-GT--C-TGTATCGATACAATGTGC
4118730 CATGTATCGAT
1 CATGTATCGAT
4118741 GAAAACAGTG
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
33 13 0.30
34 1 0.02
36 1 0.02
40 29 0.66
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (36 bp):
CATGTATCGATACAAGTCTGTATCGATACAATGTGC
Found at i:4118697 original size:20 final size:20
Alignment explanation
Indices: 4118672--4118740 Score: 138
Period size: 20 Copynumber: 3.5 Consensus size: 20
4118662 ATCGATACAT
4118672 TGTATCGATACAATGTGCCA
1 TGTATCGATACAATGTGCCA
4118692 TGTATCGATACAATGTGCCA
1 TGTATCGATACAATGTGCCA
4118712 TGTATCGATACAATGTGCCA
1 TGTATCGATACAATGTGCCA
4118732 TGTATCGAT
1 TGTATCGAT
4118741 GAAAACAGTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (20 bp):
TGTATCGATACAATGTGCCA
Found at i:4118796 original size:20 final size:20
Alignment explanation
Indices: 4118771--4118827 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
4118761 TACTACCAGT
4118771 TTCATGTATCGATACAATTG
1 TTCATGTATCGATACAATTG
*
4118791 TTCATGTATTGATACAA-TG
1 TTCATGTATCGATACAATTG
** *
4118810 AACATGTATCGATGCAAT
1 TTCATGTATCGATACAAT
4118828 GTATCGATAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (20 bp):
TTCATGTATCGATACAATTG
Found at i:4118817 original size:19 final size:19
Alignment explanation
Indices: 4118773--4118828 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
4118763 CTACCAGTTT
**
4118773 CATGTATCGATACAATTGTT
1 CATGTATCGATACAA-TGAA
*
4118793 CATGTATTGATACAATGAA
1 CATGTATCGATACAATGAA
*
4118812 CATGTATCGATGCAATG
1 CATGTATCGATACAATG
4118829 TATCGATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:4120242 original size:11 final size:11
Alignment explanation
Indices: 4120226--4120280 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
4120216 AGTCAGAAGT
4120226 AAAAACACAAA
1 AAAAACACAAA
4120237 AAAAAC-C--A
1 AAAAACACAAA
*
4120245 AAAAACA-AAC
1 AAAAACACAAA
4120255 AAAAACA-AACA
1 AAAAACACAA-A
4120266 AAAAACACAAA
1 AAAAACACAAA
4120277 AAAA
1 AAAA
4120281 GAGAGGGAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 7 0.19
10 10 0.27
11 18 0.49
12 2 0.05
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACACAAA
Found at i:4120246 original size:10 final size:9
Alignment explanation
Indices: 4120226--4120280 Score: 56
Period size: 10 Copynumber: 5.7 Consensus size: 9
4120216 AGTCAGAAGT
*
4120226 AAAAACACA
1 AAAAAAACA
4120235 AAAAAAACCAA
1 AAAAAAA-C-A
4120246 AAAACAAACA
1 AAAA-AAACA
4120256 AAAACAAACA
1 AAAA-AAACA
*
4120266 AAAAACACA
1 AAAAAAACA
4120275 AAAAAA
1 AAAAAA
4120281 GAGAGGGAGT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
9 15 0.38
10 16 0.40
11 6 0.15
12 3 0.08
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:4120256 original size:21 final size:18
Alignment explanation
Indices: 4120226--4120280 Score: 74
Period size: 21 Copynumber: 2.8 Consensus size: 18
4120216 AGTCAGAAGT
4120226 AAAAACACAAAAAAAACCA
1 AAAAACACAAAAAAAA-CA
4120245 AAAAACAAACAAAAACAAACA
1 AAAAAC--ACAAAAA-AAACA
4120266 AAAAACACAAAAAAA
1 AAAAACACAAAAAAA
4120281 GAGAGGGAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
18 2 0.06
19 13 0.39
21 15 0.45
22 3 0.09
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAACACAAAAAAAACA
Found at i:4121922 original size:221 final size:221
Alignment explanation
Indices: 4121537--4121975 Score: 510
Period size: 221 Copynumber: 2.0 Consensus size: 221
4121527 TCTCTTTTCT
* * **
4121537 AAGTCCACGACTTAGTGGCATCTTTTTTCTCCAAAGTCCACAACTTAGTGGCATCTTGTCTTAAA
1 AAGTCCACGACTTAGTGGCATCTTTTTTCTCCAAAGTCCACAACTCAGTGGCATCTTATCCCAAA
* * * * * *
4121602 GTCCACAACTCAGTGGCATTTCTTTTCTAAGTCCACCACTCAGTGGCATCCTTTTCTTCCAAGTC
66 GTCCACAACTCAGTGGCA-TCCCTTTCTAAGTCCACAACTCACTAGCATCCTTTTCTTCCAAATC
* * **
4121667 CACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCATGACTCAGTGGCATCCTT-TTC-TTCAAAG
130 CACAACTCAGTAGCATCTTTTTCCTTCAAAGTCCACAACTCAGTGGCA-CCTTGTTCTTTCAAAG
* *
4121730 TCCACAACTCTGTGGCATCTTTTCTTCA
194 CCCACAACTCCGTGGCATCTTTTCTTCA
* ** *
4121758 AAGTCCACGACTTAGTGGCATCTTTTTTCTTCAAAGTCCATGACTCAGTGGCGTCTCTTATCCCA
1 AAGTCCACGACTTAGTGGCATCTTTTTTCTCCAAAGTCCACAACTCAGTGGC--ATCTTATCCCA
* * * **
4121823 AAGTCCACAACTCTGTGGCA-CCCTTT-TAAGTCCACAACTCCCTAGCATCTTTTTCCTTTTAAA
64 AAGTCCACAACTCAGTGGCATCCCTTTCTAAGTCCACAACTCACTAGCATCCTTTT-CTTCCAAA
* ** * *
4121886 TCCACAGCTCCA-TAGCATCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTGTTCTTTTTA
128 TCCACAACT-CAGTAGCATCTTTTTCCTTCAAAGTCCACAACTCAGTGGCACCTTGTTC-TTTCA
4121950 AAGCCCACAACTCCGTGGCATCTTTT
191 AAGCCCACAACTCCGTGGCATCTTTT
4121976 TCCTTTTAAG
Statistics
Matches: 181, Mismatches: 30, Indels: 12
0.81 0.13 0.05
Matches are distributed among these distances:
220 27 0.15
221 99 0.55
222 2 0.01
223 53 0.29
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.35
Consensus pattern (221 bp):
AAGTCCACGACTTAGTGGCATCTTTTTTCTCCAAAGTCCACAACTCAGTGGCATCTTATCCCAAA
GTCCACAACTCAGTGGCATCCCTTTCTAAGTCCACAACTCACTAGCATCCTTTTCTTCCAAATCC
ACAACTCAGTAGCATCTTTTTCCTTCAAAGTCCACAACTCAGTGGCACCTTGTTCTTTCAAAGCC
CACAACTCCGTGGCATCTTTTCTTCA
Found at i:4121968 original size:34 final size:33
Alignment explanation
Indices: 4121600--4122402 Score: 614
Period size: 33 Copynumber: 24.8 Consensus size: 33
4121590 TCTTGTCTTA
* *
4121600 AAGTCCACAACTCAGTGGCA--TTTCTT--TTCT
1 AAGTCCACAACTCCGTGGCACCTTT-TTCCTTTT
* * **
4121630 AAGTCCACCACTCAGTGGCATCC-TTTT-CTTCC
1 AAGTCCACAACTCCGTGGCA-CCTTTTTCCTTTT
* * * **
4121662 AAGTCCACAACTCAGTGGCATCTTTTTTCTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
** * **
4121695 AAGTCCATGACTCAGTGGCATCC-TTTT-CTTCA
1 AAGTCCACAACTCCGTGGCA-CCTTTTTCCTTTT
* * **
4121727 AAGTCCACAACTCTGTGGCATC-TTTT-CTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* ** * * **
4121758 AAGTCCACGACTTAGTGGCATCTTTTTTCTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
** * ** * **
4121791 AAGTCCATGACTCAGTGGCGTCTCTTATCC--CA
1 AAGTCCACAACTCCGTGGCACCT-TTTTCCTTTT
*
4121823 AAGTCCACAACTCTGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
4121850 AAGTCCACAACTCCCTAGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * * * *
4121883 AAATCCACAGCTCCATAGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
4121916 AAGTCCACAACTCTGTGGCACCTTGTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
4121949 AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTT
1 -AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
4121983 AAGTCCACAACTCTGTGGCACCTTGTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
4122016 AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTT
1 -AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
4122050 AAGTCCACAACAT-CGTGGCACATTTTTCTTTTT
1 AAGTCCACAAC-TCCGTGGCACCTTTTTCCTTTT
* *
4122083 AAAGCCCATAACTCCGTGGCA-C-----CCTTTT
1 -AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
***
4122111 AAGTCCACAACTCCGTGGCACCTTGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCTT-TTTCCTTTT
*
4122145 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
** *
4122178 AAGTCCACAACTCTATGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* *
4122211 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
*
4122244 AAGTCCACAACTCCGTGGCACC-TTTTCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
4122276 AAGTCCACGACTCTGTGGCACCCTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTTCCTTTT
* * * * *
4122310 AAGCCCATACCTCCGTGGCATCCTTTTTTCTTGT
1 AAGTCCACAACTCCGTGGCA-CCTTTTTCCTTTT
* *
4122344 AAGTCCACAACTCCGTGGCACCCTTTTTTCTTGT
1 AAGTCCACAACTCCGTGGCA-CCTTTTTCCTTTT
4122378 AAGTCCACAACTCCGTGGCACCTTT
1 AAGTCCACAACTCCGTGGCACCTTT
4122403 AAGTCCAATA
Statistics
Matches: 649, Mismatches: 92, Indels: 61
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.00
27 35 0.05
28 7 0.01
30 19 0.03
31 33 0.05
32 99 0.15
33 264 0.41
34 190 0.29
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.36
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCACCTTTTTCCTTTT
Found at i:4121987 original size:67 final size:66
Alignment explanation
Indices: 4121570--4122401 Score: 644
Period size: 67 Copynumber: 12.9 Consensus size: 66
4121560 TTTTTCTCCA
** * * *
4121570 AAGTCCACAACTTAGTGGCATC-TTGT-C-TTAAAGTCCACAACTCAGTGGCA---T-TTCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCTTTT
4121628 CT
66 -T
* * * ** * *
4121630 AAGTCCACCACTCAGTGGCATCCTTTT-CTTCCAAGTCCACAACTCAGTGGCATCTT-TT-TTCT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCTT-T
*
4121692 TCA
65 T-T
** * * ** * * *
4121695 AAGTCCATGACTCAGTGGCATCCTTTT-CTTCAAAGTCCACAACTCTGTGGCATCTT-TTC-TTC
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCTTTT
*
4121757 A
66 T
* ** * ** ** * ** * * ***
4121758 AAGTCCACGACTTAGTGGCATCTTTTTTCTTCAAAGTCCATGACTCAGTGGCGTC-TCTTATCCC
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCTTTT
*
4121822 A
66 T
* * * * * *
4121823 AAGTCCACAACTCTGTGGCA-C-----CCTTTTAAGTCCACAACTCCCTAGCATCTTTTTCCTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCTTTT
4121882 T
66 T
* * * * *
4121883 AAATCCACAGCTCCATAGCATCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTGTTCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCTTTT
4121948 T
66 T
* *
4121949 AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTGTTCTTT
1 -AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCTTT
4122014 TT
65 TT
* * *
4122016 AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACAT-CGTGGCACATTTTTCTT
1 -AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAAC-TCCGTGGCACCTTGTTCTT
4122080 TTT
64 TTT
* * ** *
4122083 AAAGCCCATAACTCCGTGGCA-C-----CCTTTTAAGTCCACAACTCCGTGGCACCTTGCACCCT
1 -AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTG-TTCTT
4122142 TTT
64 TTT
** * * *
4122145 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCTATGGCATCTTTTTCCTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCTTTT
4122210 T
66 T
*
4122211 AAGTCCACAACTCTGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTT-TTCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCTTTT
4122275 T
66 T
* * * * * * *
4122276 AAGTCCACGACTCTGTGGCACCCTTTTCCCTTTTAAGCCCATACCTCCGTGGCATCCTT-TT-TT
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTTGTTCTT
4122339 CTTGT
64 -TT-T
* * *
4122344 AAGTCCACAACTCCGTGGCACCCTTTTTTCTTGTAAGTCCACAACTCCGTGGCACCTT
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTT
4122402 TAAGTCCAAT
Statistics
Matches: 649, Mismatches: 92, Indels: 55
0.82 0.12 0.07
Matches are distributed among these distances:
59 19 0.03
60 39 0.06
61 50 0.08
62 27 0.04
63 26 0.04
64 29 0.04
65 106 0.16
66 123 0.19
67 182 0.28
68 48 0.07
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (66 bp):
AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCTTTT
T
Found at i:4122480 original size:51 final size:48
Alignment explanation
Indices: 4122402--4123213 Score: 367
Period size: 39 Copynumber: 17.8 Consensus size: 48
4122392 GTGGCACCTT
4122402 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATT-TACCATC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTGT--C-TC
* *
4122452 TTGAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTC
1 -TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTGTCTC
* * * *
4122501 TAAGACCAATGTCGCTGGCCTTGAAT-----TA---GCACATTGGC-A
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTGTCTC
* * *
4122540 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTGTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTGTCTC
* * *
4122588 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG--CA-------
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTGTCTC
* * *
4122627 TAAG-CCTAATATCACTGG-CTTCGAATTAGTATATTGG--CA----C-C
1 TAAGTCC-AATATCGCTGGCCTT-GAATCAGCATATTGGCACATTGTCTC
* * *
4122668 T-AGACCAATGTCGCTGGCCTTGAATCAGCACATTGG--CA-------
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTGTCTC
* * * *
4122706 TAAGCCCAATATCACTGGCCTTGAATCAGTATATTGGCAGC-TTGTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CATTGTCTC
* *
4122754 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGG--CA------C
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTGTCTC
* * *
4122794 -AAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACTTTGTCTC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTGTCTC
* * *
4122841 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACA-AG-C-C
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTGTCTC
* * *
4122886 -----CC-ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATT-GTCTC
* * * * * * * * *
4122929 TAAGACCAATGTCGTTGGCCTTAAATCAGCACATTGGCACCTTCATATT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATT-GTCTC
* * * * * * * *
4122978 TAAGACCGATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTAACTATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-C---ATTGTCTC
* * * * * * * *
4123030 TAAGACCAATGTCGCTGGCCTTGAATCAACACATTAGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATT-GTCTC
* * * **
4123079 TAAGTCCAATATCGTTGGCCTTGAATCAACATATTGGCATCTTTAACATTCC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CATTGTC--T-C
* * ** * *
4123131 TAAGCCCAATGTCGCTGGCCTTGTCTCAGCACATTGG--CATTCT-TC
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTGTCTC
* * * *
4123176 TTCAAGTCTAATGTCGCTGGCCATGAATCAGCACATTG
1 -T-AAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
4123214 TCATTCTTCG
Statistics
Matches: 612, Mismatches: 91, Indels: 120
0.74 0.11 0.15
Matches are distributed among these distances:
38 6 0.01
39 145 0.24
40 35 0.06
41 7 0.01
42 2 0.00
43 2 0.00
44 2 0.00
45 3 0.00
46 4 0.01
47 40 0.07
48 128 0.21
49 119 0.19
50 5 0.01
51 43 0.07
52 70 0.11
53 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (48 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACATTGTCTC
Found at i:4122601 original size:87 final size:87
Alignment explanation
Indices: 4122458--4123064 Score: 746
Period size: 87 Copynumber: 6.9 Consensus size: 87
4122448 CATCTTGAGT
*
4122458 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* *
4122523 GAATTAGCACATTGGCATAAGT
66 GAATCAGCACATTGGCATAAGC
*
4122545 CCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
4122610 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCATAAGC
* * * *
4122632 CTAATATCACTGG-CTTCGAATTAGTATATTGGCA-C----C--T-AGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTT-GAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCT
4122688 TGAATCAGCACATTGGCATAAGC
65 TGAATCAGCACATTGGCATAAGC
* * *
4122711 CCAATATCACTGGCCTTGAATCAGTATATTGGCAGCTTGTCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* *
4122776 GAATCAGCATATTGGCACAAGC
66 GAATCAGCACATTGGCATAAGC
* * *
4122798 CCAATATCGCTGGCCTTGAATCAACATATTGGCACTTTGTCTCTAAGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* *
4122863 GAATCAGCATATTGGCACAAGC
66 GAATCAGCACATTGGCATAAGC
* * *
4122885 CCCATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGCTGGCCT
* *
4122950 TAAATCAGCACATTGGCACCTTCATATTTAAGA
65 TGAATCAGCACATTGG------C--A--TAAGC
* * * * *
4122983 CCGATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTAACTATCTTTAAGACCAATGTCGCTGG
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-T---TGTCTTTAAGACCAATGTCGCTGG
*
4123048 CCTTGAATCAACACATT
62 CCTTGAATCAGCACATT
4123065 AGCACCTTCA
Statistics
Matches: 459, Mismatches: 36, Indels: 36
0.86 0.07 0.07
Matches are distributed among these distances:
79 70 0.15
80 5 0.01
82 1 0.00
84 1 0.00
86 5 0.01
87 264 0.58
88 37 0.08
94 1 0.00
96 1 0.00
98 35 0.08
99 1 0.00
101 37 0.08
102 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGCATAAGC
Found at i:4122777 original size:166 final size:169
Alignment explanation
Indices: 4122458--4122968 Score: 697
Period size: 166 Copynumber: 3.0 Consensus size: 169
4122448 CATCTTGAGT
* *
4122458 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
1 CCAATATCACTGGCCTTGAATCAACATATTGGCA-----TCTCTAAGACCAATGTCGCTGGCCTT
* * *
4122523 GAATTAGCACATTGGCATAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTGTCTT
61 GAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
*
4122588 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGC
126 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGC
* * **
4122632 CTAATATCACTGG-CTTCGAATTAGTATATTGGCA-C-CT-AGACCAATGTCGCTGGCCTTGAAT
1 CCAATATCACTGGCCTT-GAATCAACATATTGGCATCTCTAAGACCAATGTCGCTGGCCTTGAAT
* * *
4122693 CAGCACATTGGCATAAGCCCAATATCACTGGCCTTGAATCAGTATATTGGCAGCTTGTCTTTAAG
65 CAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAG
*
4122758 ACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACAAGC
130 ACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGC
*
4122798 CCAATATCGCTGGCCTTGAATCAACATATTGGCACTTTGTCTCTAAGACCAATGTCGCTGGCCTT
1 CCAATATCACTGGCCTTGAATCAACATATTGGCA-----TCTCTAAGACCAATGTCGCTGGCCTT
* * * *
4122863 GAATCAGCATATTGGCACAAGCCCCATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCT
61 GAATCAGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCT
* *
4122928 TTAAGACCAATGTCGTTGGCCTTAAATCAGCACATTGGCAC
125 TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
4122969 CTTCATATTT
Statistics
Matches: 299, Mismatches: 27, Indels: 21
0.86 0.08 0.06
Matches are distributed among these distances:
166 146 0.49
167 5 0.02
168 1 0.00
172 1 0.00
173 5 0.02
174 100 0.33
175 41 0.14
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (169 bp):
CCAATATCACTGGCCTTGAATCAACATATTGGCATCTCTAAGACCAATGTCGCTGGCCTTGAATC
AGCACATTGGCATAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGC
Found at i:4122916 original size:253 final size:253
Alignment explanation
Indices: 4122458--4122921 Score: 741
Period size: 253 Copynumber: 1.8 Consensus size: 253
4122448 CATCTTGAGT
*
4122458 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
1 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
* * * * *
4122523 GAATTAGCACATTGGCATAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTGTCTT
66 GAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTGTCTC
* *
4122588 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGCCTAATATCACTGGCTTCGAAT
131 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCACTGGCTTCGAAT
* *
4122653 TAGTATATTGGCACCTAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGC
196 CAGCATATTGGCACCTAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGC
* * *
4122711 CCAATATCACTGGCCTTGAATCAGTATATTGGCAGCTTGTCTTTAAGACCAATGTCGCTGGCCTT
1 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
* * *
4122776 GAATCAGCATATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACTTTGTCTC
66 GAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTGTCTC
* * *
4122841 TAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACAAGCCCCATATCGCTGGCCTT-GAA
131 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCACTGG-CTTCGAA
4122905 TCAGCATATTGGCACCT
195 TCAGCATATTGGCACCT
4122922 TCATCTTTAA
Statistics
Matches: 191, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
253 188 0.98
254 3 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (253 bp):
CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAACATATTAGCACCTTGTCTC
TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCACTGGCTTCGAAT
CAGCATATTGGCACCTAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATAAGC
Found at i:4122967 original size:49 final size:49
Alignment explanation
Indices: 4122891--4123213 Score: 362
Period size: 49 Copynumber: 6.5 Consensus size: 49
4122881 AAGCCCCATA
*
4122891 TCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATG
* * * *
4122940 TCGTTGGCCTTAAATCAGCACATTGGCACCTTCATATTTAAGACCGATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATG
*
4122989 TCGTTGGCCTTGAATCAGCACATTGGCACCTTAACTATCTTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTT--C-ATCTTTAAGACCAATG
* * * *
4123041 TCGCTGGCCTTGAATCAACACATTAGCACCTTCATCTTTAAGTCCAATA
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATG
* * * * * * *
4123090 TCGTTGGCCTTGAATCAACATATTGGCATCTTTAACATTCCTAAGCCCAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC-TT--TAAGACCAATG
** * * * *
4123142 TCGCTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTCAAGTCTAATG
1 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATG
*
4123189 TCGCTGGCCATGAATCAGCACATTG
1 TCGCTGGCCTTGAATCAGCACATTG
4123214 TCATTCTTCG
Statistics
Matches: 233, Mismatches: 35, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
47 30 0.13
49 121 0.52
50 6 0.03
51 1 0.00
52 75 0.32
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (49 bp):
TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATG
Found at i:4123070 original size:101 final size:100
Alignment explanation
Indices: 4122888--4123153 Score: 358
Period size: 101 Copynumber: 2.7 Consensus size: 100
4122878 CACAAGCCCC
* *
4122888 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--CATCTTTAAGACCAATGTCGTTGGCCTT
1 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTAACATCTTTAAGACCAATGTCGCTGGCCTT
* * * *
4122951 AAATCAGCACATTGGCACCTTCATATTTAAGACCG
66 GAATCAACACATTAGCACCTTCATATTTAAGACCA
* *
4122986 ATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTAACTATCTTTAAGACCAATGTCGCTGGCCT
1 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTAAC-ATCTTTAAGACCAATGTCGCTGGCCT
* *
4123051 TGAATCAACACATTAGCACCTTCATCTTTAAGTCCA
65 TGAATCAACACATTAGCACCTTCATATTTAAGACCA
* * * *
4123087 ATATCGTTGGCCTTGAATCAACATATTGGCATCTTTAACAT-TCCTAAGCCCAATGTCGCTGGCC
1 ATATCGTTGGCCTTGAATCAGCATATTGGCA-CCTTAACATCT-TTAAGACCAATGTCGCTGGCC
4123151 TTG
64 TTG
4123154 TCTCAGCACA
Statistics
Matches: 147, Mismatches: 16, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
98 32 0.22
100 2 0.01
101 107 0.73
102 6 0.04
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (100 bp):
ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTAACATCTTTAAGACCAATGTCGCTGGCCTT
GAATCAACACATTAGCACCTTCATATTTAAGACCA
Found at i:4123115 original size:150 final size:147
Alignment explanation
Indices: 4122798--4123212 Score: 415
Period size: 150 Copynumber: 2.9 Consensus size: 147
4122788 TGGCACAAGC
* * * * **
4122798 CCAATATCGCTGGCCTTGAATCAACATATTGGCA-CTTTGTC--TCTAAGACCAATGTCGCTGGC
1 CCAATATCGTTGGCCTTAAATCAACACATTGGCATCCTTAACATTCTAAGACCAATGTCGCTGGC
* * * * * *
4122860 CTTGAATCAGCATATTGGCA--------CAAGCCCCATATCGCTGGCCTTGAATCAGCATATTGG
66 CTTGAATCAGCACATTGGCATTCTTCTTCAAGACCAATGTCGCTGGCCTTGAATCAGCACATTAG
4122917 CACCTTCATCTTTAAGA
131 CACCTTCATCTTTAAGA
* * * * * *
4122934 CCAATGTCGTTGGCCTTAAATCAGCACATTGGCA-CCTTCATATT-TAAGACCGATGTCGTTGGC
1 CCAATATCGTTGGCCTTAAATCAACACATTGGCATCCTTAACATTCTAAGACCAATGTCGCTGGC
* *
4122997 CTTGAATCAGCACATTGGCACCTTAACTATCTTTAAGACCAATGTCGCTGGCCTTGAATCAACAC
66 CTTGAATCAGCACATTGGCA--TT--CT-TCTTCAAGACCAATGTCGCTGGCCTTGAATCAGCAC
*
4123062 ATTAGCACCTTCATCTTTAAGT
126 ATTAGCACCTTCATCTTTAAGA
* * * *
4123084 CCAATATCGTTGGCCTTGAATCAACATATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTGG
1 CCAATATCGTTGGCCTTAAATCAACACATTGGCATCCTTAACATT-CTAAGACCAATGTCGCTGG
** * * *
4123149 CCTTGTCTCAGCACATTGGCATTCTTCTTCAAGTCTAATGTCGCTGGCCATGAATCAGCACATT
65 CCTTGAATCAGCACATTGGCATTCTTCTTCAAGACCAATGTCGCTGGCCTTGAATCAGCACATT
4123213 GTCATTCTTC
Statistics
Matches: 224, Mismatches: 37, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
136 32 0.14
137 36 0.16
138 1 0.00
148 34 0.15
149 2 0.01
150 76 0.34
151 9 0.04
153 34 0.15
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (147 bp):
CCAATATCGTTGGCCTTAAATCAACACATTGGCATCCTTAACATTCTAAGACCAATGTCGCTGGC
CTTGAATCAGCACATTGGCATTCTTCTTCAAGACCAATGTCGCTGGCCTTGAATCAGCACATTAG
CACCTTCATCTTTAAGA
Found at i:4123164 original size:101 final size:98
Alignment explanation
Indices: 4122888--4123213 Score: 352
Period size: 101 Copynumber: 3.3 Consensus size: 98
4122878 CACAAGCCCC
* * * *
4122888 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT-TAAGACCAATGTCGTTGGCCTTA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTAACTTCTAAGACCAATGTCGCTGGCCTTG
* * *
4122952 AATCAGCACATTGGCACCTTCATATTTAAGACCG
65 AATCAGCACATTGGCACCTTCATCTTTAAGTCCA
* * * *
4122986 ATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTAACTATCTTTAAGACCAATGTCGCTGGCCT
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACTTTAACT-TC--TAAGACCAATGTCGCTGGCCT
* *
4123051 TGAATCAACACATTAGCACCTTCATCTTTAAGTCCA
63 TGAATCAGCACATTGGCACCTTCATCTTTAAGTCCA
* * *
4123087 ATATCGTTGGCCTTGAATCAACATATTGGCATCTTTAACATTCCTAAGCCCAATGTCGCTGGCCT
1 ATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTAAC-TT-CTAAGACCAATGTCGCTGGCCT
** * * *
4123152 TGTCTCAGCACATTGGCA--TTCTTCTTCAAGTCTA
63 TGAATCAGCACATTGGCACCTTCATCTTTAAGTCCA
* * *
4123186 ATGTCGCTGGCCATGAATCAGCACATTG
1 ATATCGCTGGCCTTGAATCAGCATATTG
4123214 TCATTCTTCG
Statistics
Matches: 191, Mismatches: 30, Indels: 13
0.82 0.13 0.06
Matches are distributed among these distances:
97 5 0.03
98 29 0.15
99 36 0.19
101 112 0.59
102 7 0.04
103 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (98 bp):
ATATCGCTGGCCTTGAATCAGCATATTGGCACTTTAACTTCTAAGACCAATGTCGCTGGCCTTGA
ATCAGCACATTGGCACCTTCATCTTTAAGTCCA
Found at i:4128734 original size:6 final size:6
Alignment explanation
Indices: 4128714--4128766 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
4128704 TGGCTTAGTT
* *
4128714 TTTTTC TTTTCTC TTTTTC TTTCCTTT TTTTTC TTTTTC -TTCTC TTTTTC
1 TTTTTC TTTT-TC TTTTTC TTT--TTC TTTTTC TTTTTC TTTTTC TTTTTC
4128764 TTT
1 TTT
4128767 CACTTGCTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
5 4 0.10
6 24 0.62
7 6 0.15
8 5 0.13
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:4128748 original size:20 final size:20
Alignment explanation
Indices: 4128720--4128767 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
4128710 AGTTTTTTTC
*
4128720 TTTTCTCTTTTTCTT-TCCTT
1 TTTTTTCTTTTTCTTCT-CTT
4128740 TTTTTTCTTTTTCTTCTCTT
1 TTTTTTCTTTTTCTTCTCTT
4128760 TTTCTTTC
1 TTT-TTTC
4128768 ACTTGCTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTTTCTTTTTCTTCTCTT
Found at i:4131265 original size:18 final size:19
Alignment explanation
Indices: 4131234--4131271 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
4131224 TATCTAATTT
4131234 TTTTTAAATATTAAATAAA
1 TTTTTAAATATTAAATAAA
4131253 TTTTTAAAT-TTAAATAAA
1 TTTTTAAATATTAAATAAA
4131271 T
1 T
4131272 AGTTGATCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTTAAATATTAAATAAA
Found at i:4136293 original size:51 final size:51
Alignment explanation
Indices: 4136179--4136295 Score: 126
Period size: 51 Copynumber: 2.3 Consensus size: 51
4136169 TAATTCTTCT
* * * * *
4136179 TAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAGCATCGATTTACCG
1 TAATCGGAGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTACCA
* * * **
4136230 TAATCGGGGATACTCCAACTCTGATTTTATTTTTAAAACACCAATTTTTCA
1 TAATCGGAGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTACCA
* *
4136281 TAATTGTAGATACTC
1 TAATCGGAGATACTC
4136296 AAATCCCGTT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (51 bp):
TAATCGGAGATACTCCAACTCCGATTTTATTTCTAAAACACCAATTTACCA
Found at i:4136345 original size:28 final size:27
Alignment explanation
Indices: 4136289--4136352 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
4136279 CATAATTGTA
*
4136289 GATACTCAAATCCCGTTATTTCATCGGG
1 GATACTCCAATCCCGTTATTTCA-CGGG
*
4136317 GATACTCCTATCCCGTTATTTTCGA-GGG
1 GATACTCCAATCCCGTTA-TTTC-ACGGG
4136345 GATACTCC
1 GATACTCC
4136353 GACCCCGGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 27 0.84
29 4 0.12
30 1 0.03
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.33
Consensus pattern (27 bp):
GATACTCCAATCCCGTTATTTCACGGG
Found at i:4136423 original size:108 final size:106
Alignment explanation
Indices: 4136235--4136514 Score: 326
Period size: 108 Copynumber: 2.6 Consensus size: 106
4136225 TACCGTAATC
* * * * * * * * * *
4136235 GGGGATACTCCAACTCTGATTTTATTTTTAAAACACCAATTTTTCATAATTGTAGATACTCAAAT
1 GGGGATACTCCAACCCCGACTTTATATCTAAAATACTAATTTTTCATAATCGGAGATACTCCAA-
* * *
4136300 CCCGTTATTTCATCGGGGATACTCCTATCCCGTTATTTTCGA
65 CCCGTTATTTCATCGGAGATACTCCAATCCCGTCATTTTCGA
* * * * *
4136342 GGGGATACTCCGACCCCGGCTTTATATCTAAAATATTGATTTTTTCATAATCGGAGGTACTCCAA
1 GGGGATACTCCAACCCCGACTTTATATCTAAAATACT-AATTTTTCATAATCGGAGATACTCCAA
* *
4136407 CACCGTTATTTCATCGGAGATGCTCCAATCCTGTCATTTTCGA
65 C-CCGTTATTTCATCGGAGATACTCCAATCCCGTCATTTTCGA
* * *
4136450 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACTAATTTTTCACAATCGGAGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATATCTAAAATACTAATTTTTCATAATCGGAGATACTCCAAC
4136515 GCCAATTTTA
Statistics
Matches: 143, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
107 53 0.37
108 90 0.63
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (106 bp):
GGGGATACTCCAACCCCGACTTTATATCTAAAATACTAATTTTTCATAATCGGAGATACTCCAAC
CCGTTATTTCATCGGAGATACTCCAATCCCGTCATTTTCGA
Found at i:4136512 original size:51 final size:51
Alignment explanation
Indices: 4136453--4136565 Score: 156
Period size: 51 Copynumber: 2.2 Consensus size: 51
4136443 TTTTCGAGGG
* * * *
4136453 GATACTCCAACCCCGATTTTA-TTTCTAAAATACTAATTTTTCACAATCGGA
1 GATACTCCAACCCCAATTTTATTTTC-AAAACACGAATTTCTCACAATCGGA
* *
4136504 GATACTCCAACGCCAATTTTATTTTCAAAACACGAATTTCTCACAATCGGG
1 GATACTCCAACCCCAATTTTATTTTCAAAACACGAATTTCTCACAATCGGA
4136555 GATACTCCAAC
1 GATACTCCAAC
4136566 TCTGTTATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 51 0.93
52 4 0.07
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.31
Consensus pattern (51 bp):
GATACTCCAACCCCAATTTTATTTTCAAAACACGAATTTCTCACAATCGGA
Found at i:4136587 original size:79 final size:79
Alignment explanation
Indices: 4136504--4136801 Score: 334
Period size: 79 Copynumber: 3.8 Consensus size: 79
4136494 CACAATCGGA
* * *
4136504 GATACTCCAACGCCAATTTTATTTTCAAAACA-CGAATTTCTCACAATCGGGGATACTCCAACTC
1 GATACTCCAACCCCGATTTTATTTTCAAAACACCG-ATTTCTCACAATCGGGGATACTCCAACCC
* *
4136568 TGTTATTTTTGCGGG
65 TGTTATTTTCGAGGG
* * * * * *
4136583 GATACTTCAACCCCGGTCTTA-TTTCTAAAGCATCGATTTTTCACAATCGGGGATACTCCAACCC
1 GATACTCCAACCCCGATTTTATTTTC-AAAACACCGATTTCTCACAATCGGGGATACTCCAACCC
*
4136647 CGTTATTTTCGAGGG
65 TGTTATTTTCGAGGG
* * * * *
4136662 GATATTCCAACCCCGATTTTATTTTCAAAACACCAATTT-TCTATAATCAGGGATACTTCAACCC
1 GATACTCCAACCCCGATTTTATTTTCAAAACACCGATTTCTC-ACAATCGGGGATACTCCAACCC
* *
4136726 TTTTATTTCCGAGGG
65 TGTTATTTTCGAGGG
* *
4136741 GATACTCCAACCCCGATTTTATTTTCAAAATACCGATTATC-CATAATCAGGGGATACTCCA
1 GATACTCCAACCCCGATTTTATTTTCAAAACACCGATT-TCTCACAATC-GGGGATACTCCA
4136802 GCCCGTTGTC
Statistics
Matches: 183, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
78 6 0.03
79 159 0.87
80 18 0.10
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
GATACTCCAACCCCGATTTTATTTTCAAAACACCGATTTCTCACAATCGGGGATACTCCAACCCT
GTTATTTTCGAGGG
Found at i:4139496 original size:118 final size:115
Alignment explanation
Indices: 4139270--4139503 Score: 423
Period size: 118 Copynumber: 2.0 Consensus size: 115
4139260 CTTTTGTTCT
* *
4139270 TACTTGATTTTTATGATTATGTTATTGCACACATTAAGCGTGTGTCACTAAATTCTCATGGTTAA
1 TACTTGATTTTTATGAATATGTTATTGAACACATTAAGCGTGTGTCACTAAATTCTCATGGTTAA
4139335 GGGTGATTTCAAAGTCCTAAGCAAGTTTATTAGTTAATAAATTTTAGAAC
66 GGGTGATTTCAAAGTCCTAAGCAAGTTTATTAGTTAATAAATTTTAGAAC
4139385 TACTTGATTTTTATGAATATGTTATTGAACACATTAAGCGTGTGTCACTAAATTCTTTTCATGGT
1 TACTTGATTTTTATGAATATGTTATTGAACACATTAAGCGTGTGTCACTAAATTC---TCATGGT
4139450 TAAGGGTGATTTCAAAGTCCTAAGCAAGTTTATTAGTTAATAAATTTTAGAAC
63 TAAGGGTGATTTCAAAGTCCTAAGCAAGTTTATTAGTTAATAAATTTTAGAAC
4139503 T
1 T
4139504 CTTTCAACTC
Statistics
Matches: 114, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
115 53 0.46
118 61 0.54
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.41
Consensus pattern (115 bp):
TACTTGATTTTTATGAATATGTTATTGAACACATTAAGCGTGTGTCACTAAATTCTCATGGTTAA
GGGTGATTTCAAAGTCCTAAGCAAGTTTATTAGTTAATAAATTTTAGAAC
Found at i:4141108 original size:21 final size:21
Alignment explanation
Indices: 4141082--4141154 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
4141072 ACATGTTAGT
4141082 CTCTTCTTGTTTCACCTCTTG
1 CTCTTCTTGTTTCACCTCTTG
* *
4141103 CTCTTCTCT-TTT-TCCTCTTAAC
1 CTCTTCT-TGTTTCACCTCTT--G
* *
4141125 CTCCTCTTGTTTCAACTCTTG
1 CTCTTCTTGTTTCACCTCTTG
*
4141146 CTCTCCTTG
1 CTCTTCTTG
4141155 AGTGCTAAGG
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
20 6 0.15
21 18 0.46
22 10 0.26
23 5 0.13
ACGTcount: A:0.07, C:0.36, G:0.07, T:0.51
Consensus pattern (21 bp):
CTCTTCTTGTTTCACCTCTTG
Found at i:4141151 original size:23 final size:22
Alignment explanation
Indices: 4141081--4141152 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 22
4141071 AACATGTTAG
*
4141081 TCTCTTCTTGTTTCACCTCTTGC
1 TCTCCTCTTGTTTCA-CTCTTGC
* *
4141104 TCTTCTCTT-TTTC-CTCTTAAC
1 TCTCCTCTTGTTTCACTCTT-GC
4141125 -CTCCTCTTGTTTCAACTCTTGC
1 TCTCCTCTTGTTTC-ACTCTTGC
4141147 TCTCCT
1 TCTCCT
4141153 TGAGTGCTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
20 12 0.31
21 5 0.13
22 5 0.13
23 17 0.44
ACGTcount: A:0.07, C:0.36, G:0.06, T:0.51
Consensus pattern (22 bp):
TCTCCTCTTGTTTCACTCTTGC
Found at i:4143917 original size:3 final size:3
Alignment explanation
Indices: 4143909--4143934 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4143899 TCAAACAGCT
4143909 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
4143935 GAAGATGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4145278 original size:19 final size:18
Alignment explanation
Indices: 4145254--4145289 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4145244 ATAAATGATA
*
4145254 TTAAAAAATTATATATTTT
1 TTAAAAAAATATA-ATTTT
4145273 TTAAAAAAATATAATTT
1 TTAAAAAAATATAATTT
4145290 AAAAAACAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAAAAAATATAATTTT
Found at i:4149551 original size:33 final size:35
Alignment explanation
Indices: 4149511--4149582 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 35
4149501 AAAATTATTA
4149511 ATTATATTAA-AATTTTAAATTT-TAATATAATAT
1 ATTATATTAACAATTTTAAATTTATAATATAATAT
* * *
4149544 ATTATATTAATCATTTTTAAATTTATTATATCATAT
1 ATTATATTAA-CAATTTTAAATTTATAATATAATAT
4149580 ATT
1 ATT
4149583 TTTATATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 10 0.30
35 11 0.33
36 12 0.36
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (35 bp):
ATTATATTAACAATTTTAAATTTATAATATAATAT
Found at i:4149729 original size:30 final size:30
Alignment explanation
Indices: 4149695--4149756 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
4149685 ATTTTTTTAA
4149695 ATAAAT-TAATTAGATAA-AAATTAAAAAATT
1 ATAAATATAATTA-A-AATAAATTAAAAAATT
* *
4149725 ATAAATATATTTAAAATATATTAAAAAATT
1 ATAAATATAATTAAAATAAATTAAAAAATT
4149755 AT
1 AT
4149757 GCTTTATCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 2 0.07
30 21 0.75
31 5 0.18
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (30 bp):
ATAAATATAATTAAAATAAATTAAAAAATT
Found at i:4150069 original size:2 final size:2
Alignment explanation
Indices: 4150062--4150101 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4150052 GATTTAACTC
4150062 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4150102 CTAAAATTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4150172 original size:16 final size:16
Alignment explanation
Indices: 4150141--4150183 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
4150131 TTTAATATTC
*
4150141 ATAAAATTTTTAATTAA
1 ATAAAATTTATAATT-A
4150158 ATAAAA-TTATAATTA
1 ATAAAATTTATAATTA
*
4150173 ATAAAGTTTAT
1 ATAAAATTTAT
4150184 TTAAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 6 0.26
16 11 0.48
17 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
ATAAAATTTATAATTA
Found at i:4150726 original size:20 final size:22
Alignment explanation
Indices: 4150667--4150715 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
4150657 GAATAATTAA
*
4150667 AACATAGCATAAAAATAATATG
1 AACATAGTATAAAAATAATATG
4150689 AACATAGTATAAAAATAATATG
1 AACATAGTATAAAAATAATATG
4150711 AACAT
1 AACAT
4150716 GATACAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.24
Consensus pattern (22 bp):
AACATAGTATAAAAATAATATG
Found at i:4151286 original size:28 final size:30
Alignment explanation
Indices: 4151234--4151301 Score: 97
Period size: 28 Copynumber: 2.3 Consensus size: 30
4151224 TATACTTGAA
4151234 ATAAAATAAATTATTAATATGTAAAA-TTTT
1 ATAAAA-AAATTATTAATATGTAAAACTTTT
*
4151264 ATAAAAAAATTA-TAATATTTAAAACTTTT
1 ATAAAAAAATTATTAATATGTAAAACTTTT
4151293 A-AAAAAAAT
1 ATAAAAAAAT
4151302 AATATGAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 19 0.53
29 11 0.31
30 6 0.17
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (30 bp):
ATAAAAAAATTATTAATATGTAAAACTTTT
Found at i:4151371 original size:24 final size:23
Alignment explanation
Indices: 4151321--4151381 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 23
4151311 ACATAAATTT
*
4151321 TTTCTTTATCTTTCTTTTTTTCTA
1 TTTCTTT-TCTTTCTTTTTCTCTA
4151345 TTTCTTTTCTTT-TTTTCTCTCTCA
1 TTTCTTTTCTTTCTTTT-TCTCT-A
4151369 TTTC-TTTCTTTCT
1 TTTCTTTTCTTTCT
4151382 CTCCCTTCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 4 0.12
23 16 0.48
24 13 0.39
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTCTTTTCTTTCTTTTTCTCTA
Found at i:4151382 original size:19 final size:19
Alignment explanation
Indices: 4151318--4151384 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
4151308 AATACATAAA
* *
4151318 TTTTTTCTTTATC-TTTCT
1 TTTTTTCTCTCTCATTTCT
* * *
4151336 TTTTTTCTATTTCTTTTCT
1 TTTTTTCTCTCTCATTTCT
4151355 TTTTTTCTCTCTCATTTCT
1 TTTTTTCTCTCTCATTTCT
*
4151374 TTCTTTCTCTC
1 TTTTTTCTCTC
4151385 CCTTCACGAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
18 11 0.26
19 31 0.74
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTTCTCTCTCATTTCT
Found at i:4152030 original size:11 final size:11
Alignment explanation
Indices: 4152000--4152041 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
4151990 ATGTATAAAT
*
4152000 TTTTTTTTTAC
1 TTTTTTTTTCC
4152011 -TTTTTTTTCC
1 TTTTTTTTTCC
4152021 TTTTTTTTTCC
1 TTTTTTTTTCC
* *
4152032 ATTTTCTTTC
1 TTTTTTTTTC
4152042 TTTCTCTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
10 9 0.33
11 18 0.67
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTTTCC
Found at i:4152044 original size:21 final size:21
Alignment explanation
Indices: 4152000--4152041 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4151990 ATGTATAAAT
*
4152000 TTTTTTTTTACTTTTTTTTCC
1 TTTTTTTTTACTTTTCTTTCC
*
4152021 TTTTTTTTTCCATTTTCTTTC
1 TTTTTTTTTAC-TTTTCTTTC
4152042 TTTCTCTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTTTTTACTTTTCTTTCC
Found at i:4152126 original size:2 final size:2
Alignment explanation
Indices: 4152119--4152153 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4152109 ATGTAATTAA
4152119 AT AT 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 AT AT A
4152154 CTAAAATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4152648 original size:21 final size:21
Alignment explanation
Indices: 4152601--4152654 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
4152591 TATTACTTTA
4152601 AATATACAAAAAATAAAAACAT
1 AATATA-AAAAAATAAAAACAT
* * * *
4152623 GATATAAAATAATTAAAACCT
1 AATATAAAAAAATAAAAACAT
4152644 AATATAAAAAA
1 AATATAAAAAA
4152655 TGAATATGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (21 bp):
AATATAAAAAAATAAAAACAT
Found at i:4153276 original size:15 final size:16
Alignment explanation
Indices: 4153256--4153303 Score: 64
Period size: 15 Copynumber: 3.0 Consensus size: 16
4153246 AAAAACGTAA
4153256 TTTTTTTTCT-TTTTC
1 TTTTTTTTCTCTTTTC
4153271 TTTTTTTTCTCTTTTC
1 TTTTTTTTCTCTTTTC
4153287 TTTCTTTCTT-TCTTTTC
1 TTT-TTT-TTCTCTTTTC
4153304 CCTCATAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.33
16 8 0.27
17 10 0.33
18 2 0.07
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTTTCTCTTTTC
Found at i:4153278 original size:17 final size:17
Alignment explanation
Indices: 4153256--4153302 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
4153246 AAAAACGTAA
4153256 TTTTTTTTCTTTTTCTT
1 TTTTTTTTCTTTTTCTT
*
4153273 TTTTTTCTC-TTTTCTT
1 TTTTTTTTCTTTTTCTT
*
4153289 TCTTTCTTTCTTTT
1 T-TTTTTTTCTTTT
4153303 CCCTCATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 8 0.32
17 14 0.56
18 3 0.12
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTTTTTCTTTTTCTT
Found at i:4153303 original size:17 final size:15
Alignment explanation
Indices: 4153256--4153303 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 15
4153246 AAAAACGTAA
4153256 TTTTTTTTCTTTTTCT
1 TTTTTTTTC-TTTTCT
4153272 TTTTTTTCTCTTTTCT
1 TTTTTTT-TCTTTTCT
4153288 TTCTTTCTTTCTTTTC
1 TT-TTT-TTTCTTTTC
4153304 CCTCATAAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 15 0.52
17 12 0.41
18 2 0.07
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTTTTCTTTTCT
Found at i:4153376 original size:2 final size:2
Alignment explanation
Indices: 4153369--4153400 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4153359 TAGTTGATTT
*
4153369 TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4153401 ACTATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4162496 original size:17 final size:17
Alignment explanation
Indices: 4162476--4162582 Score: 54
Period size: 17 Copynumber: 5.9 Consensus size: 17
4162466 AACACAATAC
4162476 AAAAAAATAACATGATA
1 AAAAAAATAACATGATA
* * *
4162493 AAAAATATGACATGACA
1 AAAAAAATAACATGATA
* * *
4162510 CAAAAAATAAGATGAAA
1 AAAAAAATAACATGATA
4162527 CCGACATGAAAAATAACATGATA
1 ---A-A--AAAAATAACATGATA
*
4162550 AAAAATAA-AATATGATA
1 AAAAA-AATAACATGATA
* *
4162567 CCAAAAAATAAAATGA
1 -AAAAAAATAACATGA
4162583 ACATGACATG
Statistics
Matches: 67, Mismatches: 14, Indels: 17
0.68 0.14 0.17
Matches are distributed among these distances:
17 39 0.58
18 12 0.18
19 1 0.01
20 1 0.01
21 1 0.01
23 13 0.19
ACGTcount: A:0.64, C:0.09, G:0.09, T:0.17
Consensus pattern (17 bp):
AAAAAAATAACATGATA
Found at i:4162515 original size:58 final size:59
Alignment explanation
Indices: 4162453--4162602 Score: 155
Period size: 58 Copynumber: 2.6 Consensus size: 59
4162443 AATATGATAT
* * **
4162453 AAAAAATAAAACGAACACAATACA-AAAAAATAACATGATAAAAAATATGACATGACA-C
1 AAAAAATAAAATGAACAC-AGACATAAAAAATAACATGATAAAAAATAAAACATGACACC
* * * * *
4162511 AAAAAATAAGATGAA-ACCGACATGAAAAATAACATGATAAAAAATAAAATATGATACC
1 AAAAAATAAAATGAACACAGACATAAAAAATAACATGATAAAAAATAAAACATGACACC
* **
4162569 AAAAAATAAAATGAACA-TGACATGGAAAATAACA
1 AAAAAATAAAATGAACACAGACATAAAAAATAACA
4162603 AGAACATAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
56 3 0.04
57 30 0.39
58 43 0.56
59 1 0.01
ACGTcount: A:0.64, C:0.11, G:0.09, T:0.15
Consensus pattern (59 bp):
AAAAAATAAAATGAACACAGACATAAAAAATAACATGATAAAAAATAAAACATGACACC
Found at i:4162547 original size:57 final size:58
Alignment explanation
Indices: 4162478--4162602 Score: 164
Period size: 58 Copynumber: 2.2 Consensus size: 58
4162468 CACAATACAA
** *
4162478 AAAAATAACATGATAAAAAATATGACATGACA-CAAAAAATAAGATGAA-ACCGACATG
1 AAAAATAACATGATAAAAAATAAAACATGACACCAAAAAATAAAATGAACA-CGACATG
* * *
4162535 AAAAATAACATGATAAAAAATAAAATATGATACCAAAAAATAAAATGAACATGACATG
1 AAAAATAACATGATAAAAAATAAAACATGACACCAAAAAATAAAATGAACACGACATG
*
4162593 GAAAATAACA
1 AAAAATAACA
4162603 AGAACATAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
57 28 0.47
58 30 0.51
59 1 0.02
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.17
Consensus pattern (58 bp):
AAAAATAACATGATAAAAAATAAAACATGACACCAAAAAATAAAATGAACACGACATG
Found at i:4162561 original size:20 final size:21
Alignment explanation
Indices: 4162536--4162589 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
4162526 ACCGACATGA
*
4162536 AAAATAACATGA-TAAAAAAT
1 AAAATAACATGACCAAAAAAT
**
4162556 AAAATATGAT-ACCAAAAAAT
1 AAAATAACATGACCAAAAAAT
4162576 AAAATGAACATGAC
1 AAAAT-AACATGAC
4162590 ATGGAAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 20 0.77
21 3 0.12
22 2 0.08
ACGTcount: A:0.65, C:0.09, G:0.07, T:0.19
Consensus pattern (21 bp):
AAAATAACATGACCAAAAAAT
Found at i:4162669 original size:19 final size:20
Alignment explanation
Indices: 4162627--4162669 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
4162617 TATCACGATT
* *
4162627 TAAAATACAATAAGGTATGA
1 TAAAATAAAATAAGATATGA
4162647 -AAAATAAAATAA-ATATGA
1 TAAAATAAAATAAGATATGA
4162665 TAAAA
1 TAAAA
4162670 AATAATATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.23
Consensus pattern (20 bp):
TAAAATAAAATAAGATATGA
Found at i:4162687 original size:20 final size:21
Alignment explanation
Indices: 4162646--4162699 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
4162636 ATAAGGTATG
4162646 AAAAATAAAATAAATATGATA
1 AAAAATAAAATAAATATGATA
* *
4162667 AAAAATAATATGAATAT-ATA
1 AAAAATAAAATAAATATGATA
*
4162687 AAAAATAACATAA
1 AAAAATAAAATAA
4162700 CCTAAAATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (21 bp):
AAAAATAAAATAAATATGATA
Found at i:4162731 original size:17 final size:17
Alignment explanation
Indices: 4162699--4162733 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4162689 AAATAACATA
*
4162699 ACCTAAAATACTACACG
1 ACCTAAAATACGACACG
*
4162716 ACCTAAAATAGGACACG
1 ACCTAAAATACGACACG
4162733 A
1 A
4162734 ATATACAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.26, G:0.11, T:0.14
Consensus pattern (17 bp):
ACCTAAAATACGACACG
Found at i:4167372 original size:29 final size:29
Alignment explanation
Indices: 4167339--4167401 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
4167329 ATTCCGTGAC
*
4167339 AAAAATAATAATATTTTGATAATATATTT
1 AAAAATAATAATATTTTAATAATATATTT
* *
4167368 AAAAATAATAGTATTTTAATAATTTATTT
1 AAAAATAATAATATTTTAATAATATATTT
4167397 AAAAA
1 AAAAA
4167402 ATAAAGATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (29 bp):
AAAAATAATAATATTTTAATAATATATTT
Found at i:4169245 original size:6 final size:6
Alignment explanation
Indices: 4169234--4169260 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4169224 ATTTAATAAT
4169234 TTTAAA TTTAAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT
4169261 TTATAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:4169932 original size:22 final size:22
Alignment explanation
Indices: 4169907--4169950 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4169897 TGTTTATCAA
4169907 TAATTATTTAATTTAACAAATT
1 TAATTATTTAATTTAACAAATT
* *
4169929 TAATTATTTCATTTAATAAATT
1 TAATTATTTAATTTAACAAATT
4169951 ATTCATGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATTATTTAATTTAACAAATT
Found at i:4170017 original size:2 final size:2
Alignment explanation
Indices: 4170012--4170052 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
4170002 TTCATTTTTG
* *
4170012 AT AT AT AT AT AT AT AT -T AT AT TT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4170053 CGAATTCAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (2 bp):
AT
Found at i:4170313 original size:10 final size:10
Alignment explanation
Indices: 4170296--4170344 Score: 62
Period size: 10 Copynumber: 4.9 Consensus size: 10
4170286 ATATACCTAA
*
4170296 AAATATAAAT
1 AAATATATAT
* *
4170306 ATATATAAAT
1 AAATATATAT
4170316 AAATATATAT
1 AAATATATAT
4170326 AAATATATAT
1 AAATATATAT
*
4170336 ATATATATA
1 AAATATATA
4170345 CACAAATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 35 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
AAATATATAT
Found at i:4170319 original size:14 final size:14
Alignment explanation
Indices: 4170300--4170340 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
4170290 ACCTAAAAAT
4170300 ATAAATATATATAA
1 ATAAATATATATAA
4170314 ATAAATATATATAA
1 ATAAATATATATAA
*
4170328 ATATATATATATA
1 ATAAATATATATA
4170341 TATACACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
ATAAATATATATAA
Found at i:4170335 original size:4 final size:4
Alignment explanation
Indices: 4170298--4170344 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
4170288 ATACCTAAAA
* * * *
4170298 ATAT AAAT ATAT ATAA ATAA ATAT ATAT AAAT ATAT ATAT ATAT ATA
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATA
4170345 CACAAATCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (4 bp):
ATAT
Found at i:4171009 original size:2 final size:2
Alignment explanation
Indices: 4171002--4171028 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4170992 TTAATTCAAA
4171002 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4171029 AATACTAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4171930 original size:17 final size:17
Alignment explanation
Indices: 4171908--4171940 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4171898 CTTTAAATTC
4171908 ATAATTTAAA-ATAAAAT
1 ATAA-TTAAATATAAAAT
4171925 ATAATTAAATATAAAA
1 ATAATTAAATATAAAA
4171941 AAACTAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAATTAAATATAAAAT
Found at i:4173181 original size:2 final size:2
Alignment explanation
Indices: 4173174--4173203 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4173164 CTTGAGTGAA
*
4173174 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4173204 TTACATTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4174481 original size:23 final size:26
Alignment explanation
Indices: 4174433--4174487 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 26
4174423 ATAATTATTT
4174433 TTAAAA-AATTATATATATTTATATA
1 TTAAAATAATTATATATATTTATATA
4174458 TTAAAATAATTATAT-T-TTTA-ATA
1 TTAAAATAATTATATATATTTATATA
*
4174481 TAAAAAT
1 TTAAAAT
4174488 TAAATATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 9 0.32
24 4 0.14
25 7 0.25
26 8 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TTAAAATAATTATATATATTTATATA
Found at i:4174484 original size:22 final size:25
Alignment explanation
Indices: 4174433--4174494 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
4174423 ATAATTATTT
4174433 TTAAAAAATTATATATATTTATATA
1 TTAAAAAATTATATATATTTATATA
4174458 TTAAAATAATTATAT-T-TTTA-ATA
1 TTAAAA-AATTATATATATTTATATA
*
4174481 -T-AAAAATTAAATAT
1 TTAAAAAATTATATAT
4174495 TTCAGATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
20 7 0.21
21 4 0.12
22 1 0.03
23 3 0.09
24 4 0.12
25 7 0.21
26 8 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
TTAAAAAATTATATATATTTATATA
Found at i:4174495 original size:22 final size:23
Alignment explanation
Indices: 4174436--4174496 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
4174426 ATTATTTTTA
* *
4174436 AAAAATTATATATATTTATATAT
1 AAAAATTAAATATTTTTATATAT
*
4174459 TAAAA-TAATTATATTTTTA-ATAT
1 AAAAATTAA--ATATTTTTATATAT
4174482 AAAAATTAAATATTT
1 AAAAATTAAATATTT
4174497 CAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
22 8 0.26
23 12 0.39
24 11 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AAAAATTAAATATTTTTATATAT
Found at i:4175158 original size:17 final size:19
Alignment explanation
Indices: 4175138--4175177 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
4175128 TTAAATTTAT
4175138 AAATATTT-AATAT-AAAA
1 AAATATTTAAATATCAAAA
*
4175155 AAAT-TTTAAATATCAAAT
1 AAATATTTAAATATCAAAA
4175173 AAATA
1 AAATA
4175178 AAATAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
16 3 0.16
17 9 0.47
18 7 0.37
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATTTAAATATCAAAA
Found at i:4175173 original size:24 final size:24
Alignment explanation
Indices: 4175130--4175181 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
4175120 TATCAATTTT
**
4175130 AAATTTATAAATATTTAATATAAAA
1 AAATTTATAAATATCAAATA-AAAA
*
4175155 AAATTT-TAAATATCAAATAAATA
1 AAATTTATAAATATCAAATAAAAA
4175178 AAAT
1 AAAT
4175182 AAATATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 7 0.29
24 11 0.46
25 6 0.25
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AAATTTATAAATATCAAATAAAAA
Found at i:4176728 original size:29 final size:29
Alignment explanation
Indices: 4176664--4176738 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 29
4176654 TTAAATATAT
4176664 ATTAAAAATTTATTTAGATGTAATTTAAAA
1 ATTAAAAATTTATTTAGATGTAA-TTAAAA
4176694 ATTAAAAATTTATTT-GAATGTAA-TAAAA
1 ATTAAAAATTTATTTAG-ATGTAATTAAAA
*
4176722 ATATAAAAACTTATTTA
1 AT-TAAAAATTTATTTA
4176739 AATAAAATGA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
28 7 0.17
29 13 0.32
30 21 0.51
ACGTcount: A:0.52, C:0.01, G:0.05, T:0.41
Consensus pattern (29 bp):
ATTAAAAATTTATTTAGATGTAATTAAAA
Done.