Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
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: 7920512
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 39
Found at i:3409863 original size:15 final size:16
Alignment explanation
Indices: 3409839--3409877 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
3409829 AACTATATAT
*
3409839 TATATGTTTT-AAAAA
1 TATATATTTTCAAAAA
3409854 TATATATTTTCAAAAA
1 TATATATTTTCAAAAA
3409870 TATATATT
1 TATATATT
3409878 ATATATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (16 bp):
TATATATTTTCAAAAA
Found at i:3414650 original size:28 final size:28
Alignment explanation
Indices: 3414619--3414681 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
3414609 TGCGGATAAA
* *
3414619 AATTTATAGAG-TTCGAAGATTATGATAT
1 AATTTATAGAGTTTAGAA-ATTATGACAT
*
3414647 AATTTATAGAGTTTAGAATTTATGACAT
1 AATTTATAGAGTTTAGAAATTATGACAT
3414675 AATTTAT
1 AATTTAT
3414682 CGGGTTTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 26 0.84
29 5 0.16
ACGTcount: A:0.40, C:0.03, G:0.14, T:0.43
Consensus pattern (28 bp):
AATTTATAGAGTTTAGAAATTATGACAT
Found at i:3418866 original size:18 final size:18
Alignment explanation
Indices: 3418843--3418878 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3418833 ACGGCGGTGG
*
3418843 CATCATATATGGATGCGA
1 CATCATAAATGGATGCGA
*
3418861 CATCATAAATGGCTGCGA
1 CATCATAAATGGATGCGA
3418879 TGGCTACTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (18 bp):
CATCATAAATGGATGCGA
Found at i:3420578 original size:18 final size:18
Alignment explanation
Indices: 3420555--3420596 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
3420545 AAATTATATT
3420555 AGTAAAATGATTAAATAA
1 AGTAAAATGATTAAATAA
*
3420573 AGTAAAATGCTTAAATAA
1 AGTAAAATGATTAAATAA
*
3420591 ATTAAA
1 AGTAAA
3420597 TACATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (18 bp):
AGTAAAATGATTAAATAA
Found at i:3420855 original size:51 final size:51
Alignment explanation
Indices: 3420790--3420889 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
3420780 TATCGCAGAT
* ** *
3420790 CAGGGGGCGCGCTATACT-CACGTGTAAGCCATGTCAGCGTATAGCGCGGTA
1 CAGGAGGCGCGCTATACTCCACGTG-AAGCCAAATCAGCATATAGCGCGGTA
*
3420841 CAGGAGGCGCGCTATACTCCACGTGACGCCAAATCAGCATATAGCGCGG
1 CAGGAGGCGCGCTATACTCCACGTGAAGCCAAATCAGCATATAGCGCGG
3420890 GGCAGGGAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 37 0.86
52 6 0.14
ACGTcount: A:0.24, C:0.28, G:0.31, T:0.17
Consensus pattern (51 bp):
CAGGAGGCGCGCTATACTCCACGTGAAGCCAAATCAGCATATAGCGCGGTA
Found at i:3420902 original size:51 final size:51
Alignment explanation
Indices: 3420790--3420909 Score: 136
Period size: 51 Copynumber: 2.4 Consensus size: 51
3420780 TATCGCAGAT
* ** * *
3420790 CAGGGGGCGCGCTATACTCACGTGTAAGCCATGTCAGCGTATAGCGCGGTA
1 CAGGGAGCGCGCTATACTCACGTGTAAGCCAAATCAGCATATAGCGCGGGA
* *
3420841 CA-GGAGGCGCGCTATACTCCACGTG-ACGCCAAATCAGCATATAGCGCGGGG
1 CAGGGA-GCGCGCTATACT-CACGTGTAAGCCAAATCAGCATATAGCGCGGGA
*
3420892 CAGGGAGCGCGCTTTACT
1 CAGGGAGCGCGCTATACT
3420910 ACTACGAGTG
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
50 2 0.03
51 47 0.81
52 9 0.16
ACGTcount: A:0.23, C:0.28, G:0.33, T:0.17
Consensus pattern (51 bp):
CAGGGAGCGCGCTATACTCACGTGTAAGCCAAATCAGCATATAGCGCGGGA
Found at i:3425286 original size:15 final size:15
Alignment explanation
Indices: 3425268--3425302 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
3425258 ACGATCAAAT
3425268 AATAAAAATTCAATG
1 AATAAAAATTCAATG
3425283 AAT-AAAATTCAATG
1 AATAAAAATTCAATG
*
3425297 ATTAAA
1 AATAAA
3425303 TTAAAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (15 bp):
AATAAAAATTCAATG
Found at i:3431546 original size:30 final size:30
Alignment explanation
Indices: 3431511--3431569 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
3431501 AAAATAAATA
**
3431511 AAAAACAAAAGGTTAAAGGATCAAAATAGC
1 AAAAACAAAAACTTAAAGGATCAAAATAGC
**
3431541 AAAAACAAAAACTTAAAGTCTCAAAATAG
1 AAAAACAAAAACTTAAAGGATCAAAATAG
3431570 TAATTATAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.61, C:0.12, G:0.12, T:0.15
Consensus pattern (30 bp):
AAAAACAAAAACTTAAAGGATCAAAATAGC
Found at i:3433303 original size:82 final size:80
Alignment explanation
Indices: 3433199--3433949 Score: 750
Period size: 82 Copynumber: 9.2 Consensus size: 80
3433189 AGCTGAGTGG
* * * *
3433199 AATC-AACTCGAAAGTTTTTGTTGACAGATAACCTTCTTGCCTTGAGCTATGCTGTAAATTTGAT
1 AATCGAACTCGAAGGTTTTTGTTGGCAGATAACCTTCTCGCCTTGAGCTATGCTGCAAA--TGAT
* *
3433263 TTGCCTCTGAG-TGTGT
64 GTGCCTTTGAGCTGTGT
* * *
3433279 AATCGAACTCGAAGGTATTTTGTTGACAG-TAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGA-
1 AATCGAACTCGAAGGT-TTTTGTTGGCAGATA-ACCTTCTCGCCTTGAGCTATGCTGCAAATGAT
3433342 -TGCCTTTGAGCTAAGTGT
64 GTGCCTTTGAGCT--GTGT
* * * ** * *
3433360 AATCGAACTCGAAGGTCTTTGTTGGCATATAACCCTTTTTACCTTGAACTATG-TGTAAATGATG
1 AATCGAACTCGAAGGTTTTTGTTGGCAGATAA-CCTTCTCGCCTTGAGCTATGCTGCAAATGATG
*
3433424 TGTCTTTGAGCTGAGTGT
65 TGCCTTTGAGCT--GTGT
* * * **
3433442 AATCGAACTCGAAGGTCTTTGTTGCCAGATAGCCTTCTCGCCTTGAGCTATGCTATAAATGATGT
1 AATCGAACTCGAAGGTTTTTGTTGGCAGATAACCTTCTCGCCTTGAGCTATGCTGCAAATGATGT
*
3433507 GCCTTTGAGCAGAGTGT
66 GCCTTTGAGC--TGTGT
*
3433524 AATCGAACTCGAAGGTCTTTTCTTGGC--ATAACCCTTCTCGCCTTGAGCTATGCTGCAAATGAT
1 AATCGAACTCGAAGGT-TTTTGTTGGCAGATAA-CCTTCTCGCCTTGAGCTATGCTGCAAATGAT
*
3433587 GTGCCTTTGAGTTGAGTGT
64 GTGCCTTTGAGCT--GTGT
*
3433606 AATCGAACTCGAAGGTCTTTT-TTGGCAGATAGCCCTTCTCGCCTTGAGCTATG-TGCAAATGAT
1 AATCGAACTCGAAGGT-TTTTGTTGGCAGATA-ACCTTCTCGCCTTGAGCTATGCTGCAAATGAT
3433669 GTGCCTTTGAGCTGAGTGT
64 GTGCCTTTGAGCT--GTGT
* * * *
3433688 AATCAAACTCGAAGG--TCT-TTGGTA-A-AACCCTTCTCGCCTTGAGCTATGCTGCAAATG-TA
1 AATCGAACTCGAAGGTTTTTGTTGGCAGATAA-CCTTCTCGCCTTGAGCTATGCTGCAAATGATG
*
3433747 TGCCTTTGAACTGAGTGT
65 TGCCTTTGAGCT--GTGT
* *
3433765 AATCGAACTCGAAGGTCTTTTATTGGCAGATAACCCTGCTCGCCTTGAGCTATG-TGCAAATGAT
1 AATCGAACTCGAAGGT-TTTTGTTGGCAGATAA-CCTTCTCGCCTTGAGCTATGCTGCAAATGAT
3433829 GTG-CTTTGA-CTGAGTGT
64 GTGCCTTTGAGCT--GTGT
* * *
3433846 AATCGAACTCGAAGGTTTTTCTTGGCAGATAGCCCTTCTCGCCTTGAGCTATG-TGTAAATGATG
1 AATCGAACTCGAAGGTTTTTGTTGGCAGATA-ACCTTCTCGCCTTGAGCTATGCTGCAAATGATG
*
3433910 TGCCTTTGAGTTGAACTGT
65 TGCCTTTGAGCTG---TGT
3433929 AATCGAACTCGAAGGTCTTTT
1 AATCGAACTCGAAGGT-TTTT
3433950 TTGAAGGTGC
Statistics
Matches: 585, Mismatches: 50, Indels: 68
0.83 0.07 0.10
Matches are distributed among these distances:
77 53 0.09
78 18 0.03
79 8 0.01
80 72 0.12
81 110 0.19
82 246 0.42
83 74 0.13
84 4 0.01
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (80 bp):
AATCGAACTCGAAGGTTTTTGTTGGCAGATAACCTTCTCGCCTTGAGCTATGCTGCAAATGATGT
GCCTTTGAGCTGTGT
Found at i:3433586 original size:164 final size:164
Alignment explanation
Indices: 3433188--3433948 Score: 932
Period size: 164 Copynumber: 4.7 Consensus size: 164
3433178 GATGGTCATC
* * * * * * *
3433188 GAGCTGAGTGGAATC-AACTCGAAAGTTTTTGTTGACAGATAA-CCTTCTTGCCTTGAGCTATGC
1 GAGCAGAGTGTAATCGAACTCGAAGGTCTTTCTTGGCA-ATAACCCTTCTCGCCTTGAGCTATGC
* * * *
3433251 TGTAAATTTGATTTGCCTCTGAG-T--GTGTAATCGAACTCGAAGGTATTTTGTTGACAG-TAGC
65 TGTAAA--TGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGT-CTTTGTTGGCAGATAGC
*
3433312 CCTTCTTGCCTTGAGCTATGCTGCAAATGA--TGCCTTT
127 CCTTCTCGCCTTGAGCTATG-TGCAAATGATGTGCCTTT
* * ** *
3433349 GAGCTA-AGTGTAATCGAACTCGAAGGTCTTTGTTGGCATATAACCCTTTTTACCTTGAACTATG
1 GAGC-AGAGTGTAATCGAACTCGAAGGTCTTTCTTGGCA-ATAACCCTTCTCGCCTTGAGCTATG
* *
3433413 -TGTAAATGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGCCAGATAG-CC
64 CTGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAGCCC
**
3433476 TTCTCGCCTTGAGCTATGCTATAAATGATGTGCCTTT
129 TTCTCGCCTTGAGCTATG-TGCAAATGATGTGCCTTT
3433513 GAGCAGAGTGTAATCGAACTCGAAGGTCTTTTCTTGGC-ATAACCCTTCTCGCCTTGAGCTATGC
1 GAGCAGAGTGTAATCGAACTCGAAGGTC-TTTCTTGGCAATAACCCTTCTCGCCTTGAGCTATGC
* * *
3433577 TGCAAATGATGTGCCTTTGAGTTGAGTGTAATCGAACTCGAAGGTCTTTTTTGGCAGATAGCCCT
65 TGTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAGCCCT
3433642 TCTCGCCTTGAGCTATGTGCAAATGATGTGCCTTT
130 TCTCGCCTTGAGCTATGTGCAAATGATGTGCCTTT
* * *
3433677 GAGCTGAGTGTAATCAAACTCGAAGGTC--T-TTGGTAA-AACCCTTCTCGCCTTGAGCTATGCT
1 GAGCAGAGTGTAATCGAACTCGAAGGTCTTTCTTGGCAATAACCCTTCTCGCCTTGAGCTATGCT
* * * * *
3433738 GCAAATG-TATGCCTTTGAACTGAGTGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAACCCT
66 GTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGGCAGATAGCCCT
*
3433802 GCTCGCCTTGAGCTATGTGCAAATGATGTG-CTTT
130 TCTCGCCTTGAGCTATGTGCAAATGATGTGCCTTT
* * *
3433836 GA-CTGAGTGTAATCGAACTCGAAGGTTTTTCTTGGCAGATAGCCCTTCTCGCCTTGAGCTATG-
1 GAGCAGAGTGTAATCGAACTCGAAGGTCTTTCTTGGCA-ATAACCCTTCTCGCCTTGAGCTATGC
* *
3433899 TGTAAATGATGTGCCTTTGAGTTGAACTGTAATCGAACTCGAAGGTCTTT
65 TGTAAATGATGTGCCTTTGAGCTG-AGTGTAATCGAACTCGAAGGTCTTT
3433949 TTTGAAGGTG
Statistics
Matches: 531, Mismatches: 47, Indels: 42
0.86 0.08 0.07
Matches are distributed among these distances:
158 23 0.04
159 40 0.08
160 95 0.18
161 20 0.04
162 74 0.14
163 99 0.19
164 152 0.29
165 28 0.05
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (164 bp):
GAGCAGAGTGTAATCGAACTCGAAGGTCTTTCTTGGCAATAACCCTTCTCGCCTTGAGCTATGCT
GTAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAGCCCTT
CTCGCCTTGAGCTATGTGCAAATGATGTGCCTTT
Found at i:3435222 original size:30 final size:29
Alignment explanation
Indices: 3435186--3435318 Score: 123
Period size: 30 Copynumber: 4.4 Consensus size: 29
3435176 CTTTATTTGA
3435186 TCGGGTCGGTCGGTTATTTAAGTGTGATAT
1 TCGGGTCGGTCGGTT-TTTAAGTGTGATAT
3435216 TCGGGTC-G--GGTTTTT-A-TGTGATAT
1 TCGGGTCGGTCGGTTTTTAAGTGTGATAT
3435240 TCGGGTCGAGTCGGTCGGGTTTTTAAGTGTGATAT
1 TC--G--G-GTCGGTC-GGTTTTTAAGTGTGATAT
* *
3435275 TCGGTTGGGTCGGGTTTTTAAGTGTGATAT
1 TCGGGTCGGTC-GGTTTTTAAGTGTGATAT
*
3435305 TCGAGTCGGGTCGG
1 TCGGGTC-GGTCGG
3435319 GTTCGGGTTT
Statistics
Matches: 86, Mismatches: 5, Indels: 24
0.75 0.04 0.21
Matches are distributed among these distances:
24 10 0.12
25 1 0.01
26 4 0.05
27 4 0.05
28 1 0.01
29 4 0.05
30 38 0.44
31 5 0.06
33 8 0.09
34 1 0.01
35 10 0.12
ACGTcount: A:0.14, C:0.11, G:0.37, T:0.39
Consensus pattern (29 bp):
TCGGGTCGGTCGGTTTTTAAGTGTGATAT
Found at i:3435231 original size:26 final size:25
Alignment explanation
Indices: 3435193--3435247 Score: 78
Period size: 24 Copynumber: 2.2 Consensus size: 25
3435183 TGATCGGGTC
3435193 GGTC-GGTTATTTAAGTGTGATATTCG
1 GGTCGGGTTATTT-A-TGTGATATTCG
3435219 GGTCGGGTT-TTTATGTGATATTCG
1 GGTCGGGTTATTTATGTGATATTCG
3435243 GGTCG
1 GGTCG
3435248 AGTCGGTCGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 16 0.57
25 1 0.04
26 7 0.25
27 4 0.14
ACGTcount: A:0.15, C:0.09, G:0.35, T:0.42
Consensus pattern (25 bp):
GGTCGGGTTATTTATGTGATATTCG
Found at i:3435267 original size:59 final size:62
Alignment explanation
Indices: 3435190--3435328 Score: 178
Period size: 59 Copynumber: 2.2 Consensus size: 62
3435180 ATTTGATCGG
*
3435190 GTCGGTC-GGTTATTTAAGTGTGATATTC-GGGTCGGGTTTTT-A-TGTGATATTCGGGTCGA
1 GTCGGTCGGGTT-TTTAAGTGTGATATTCGGGGTCGGGTTTTTAAGTGTGATATTCGAGTCGA
*
3435249 GTCGGTCGGGTTTTTAAGTGTGATATTCGGTTGGGTCGGGTTTTTAAGTGTGATATTCGAGTCGG
1 GTCGGTCGGGTTTTTAAGTGTGATATTC-G--GGGTCGGGTTTTTAAGTGTGATATTCGAGTCGA
3435314 GTCGGGTTCGGGTTT
1 GTC-GG-TCGGGTTT
3435329 AGGGTGAAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
59 23 0.33
60 4 0.06
63 13 0.19
64 1 0.01
65 18 0.26
66 2 0.03
67 8 0.12
ACGTcount: A:0.13, C:0.10, G:0.37, T:0.40
Consensus pattern (62 bp):
GTCGGTCGGGTTTTTAAGTGTGATATTCGGGGTCGGGTTTTTAAGTGTGATATTCGAGTCGA
Found at i:3435886 original size:17 final size:18
Alignment explanation
Indices: 3435861--3435907 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
3435851 TATGGAATTG
*
3435861 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
*
3435878 GATTTCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
3435896 GATTCCAATTCC
1 GATTCCAATTCC
3435908 CTCAGAAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:3440101 original size:2 final size:2
Alignment explanation
Indices: 3440094--3440156 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
3440084 AATTAAAAGA
3440094 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3440136 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
3440157 ATAAAAAAAC
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3441670 original size:22 final size:23
Alignment explanation
Indices: 3441643--3441696 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
3441633 AAACGATTGA
*
3441643 AAAACGTGTCA-AAAGATAGAAG
1 AAAACGTGTCATAAAAATAGAAG
* *
3441665 AAAACGAGTCATAAAAATAGATG
1 AAAACGTGTCATAAAAATAGAAG
*
3441688 AAAATGTGT
1 AAAACGTGT
3441697 TATACAAGCA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.54, C:0.07, G:0.20, T:0.19
Consensus pattern (23 bp):
AAAACGTGTCATAAAAATAGAAG
Found at i:3443669 original size:35 final size:35
Alignment explanation
Indices: 3443623--3443692 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
3443613 TTAATTTTCT
3443623 GTATGGTTACAGTTTCTTTTCTATAATGGTTGCTA
1 GTATGGTTACAGTTTCTTTTCTATAATGGTTGCTA
*
3443658 GTATGGTTACAGTTTCTTTTCTATAGTGGTTGCTA
1 GTATGGTTACAGTTTCTTTTCTATAATGGTTGCTA
3443693 TGTTGCTTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.19, C:0.11, G:0.21, T:0.49
Consensus pattern (35 bp):
GTATGGTTACAGTTTCTTTTCTATAATGGTTGCTA
Found at i:3448847 original size:16 final size:15
Alignment explanation
Indices: 3448821--3448850 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
3448811 TGTTGTGGCC
3448821 GGTCATCCCGAGATG
1 GGTCATCCCGAGATG
3448836 GGTCAGTCCCGAGAT
1 GGTCA-TCCCGAGAT
3448851 TTTCGGCTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.20, C:0.27, G:0.33, T:0.20
Consensus pattern (15 bp):
GGTCATCCCGAGATG
Found at i:3449090 original size:14 final size:14
Alignment explanation
Indices: 3449071--3449100 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
3449061 AATGAAAGTA
3449071 AAATAAAAATAAAT
1 AAATAAAAATAAAT
3449085 AAATAAAAATAAAT
1 AAATAAAAATAAAT
3449099 AA
1 AA
3449101 CAACGATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:3449184 original size:33 final size:36
Alignment explanation
Indices: 3449140--3449214 Score: 104
Period size: 33 Copynumber: 2.2 Consensus size: 36
3449130 TTCTACAAAC
3449140 TATATAATATATA-TTTTC-AAAA-GTATTTT-AAAT
1 TATATAATATATATTTTTCTAAAACGT-TTTTAAAAT
*
3449173 TATATATTATATATTTTTCTAAAACGTTTTTAAAAT
1 TATATAATATATATTTTTCTAAAACGTTTTTAAAAT
3449209 TATATA
1 TATATA
3449215 GTTTTCAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
33 12 0.32
34 5 0.14
35 8 0.22
36 12 0.32
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.51
Consensus pattern (36 bp):
TATATAATATATATTTTTCTAAAACGTTTTTAAAAT
Found at i:3449186 original size:35 final size:36
Alignment explanation
Indices: 3449140--3449214 Score: 102
Period size: 35 Copynumber: 2.1 Consensus size: 36
3449130 TTCTACAAAC
3449140 TATATAATATATATTTTC-AAAA-GTATTTT-AAATTA
1 TATATAATATAT-TTTTCTAAAACGT-TTTTAAAATTA
*
3449175 TATATTATATATTTTTCTAAAACGTTTTTAAAATTA
1 TATATAATATATTTTTCTAAAACGTTTTTAAAATTA
3449211 TATA
1 TATA
3449215 GTTTTCAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
34 5 0.14
35 19 0.53
36 12 0.33
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.51
Consensus pattern (36 bp):
TATATAATATATTTTTCTAAAACGTTTTTAAAATTA
Found at i:3449211 original size:29 final size:30
Alignment explanation
Indices: 3449178--3449246 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
3449168 TAAATTATAT
* *
3449178 ATTATATATTTTTCTAAAA-CGTTTTTAAA
1 ATTATATATTTTTCAAAAATAGTTTTTAAA
* *
3449207 ATTATATAGTTTTCAAAAATATTTTTTAAA
1 ATTATATATTTTTCAAAAATAGTTTTTAAA
*
3449237 ACTATATATT
1 ATTATATATT
3449247 ATAAGTTTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.51
Consensus pattern (30 bp):
ATTATATATTTTTCAAAAATAGTTTTTAAA
Found at i:3449277 original size:34 final size:33
Alignment explanation
Indices: 3449122--3449454 Score: 154
Period size: 34 Copynumber: 9.7 Consensus size: 33
3449112 ATAATAATAT
* *
3449122 AAAATATTTTCTACAAACTATATAATATATATTTTC
1 AAAATGTTTTC-A-AAACTATATATTATA-ATTTTC
* *
3449158 AAAA-GTATTT-TAAATTATATATTATATATTTTTC
1 AAAATGT-TTTCAAAACTATATATTATA-A-TTTTC
* * *
3449192 TAAAACGTTTT-TAAA--AT-TA-TATAGTTTTC
1 -AAAATGTTTTCAAAACTATATATTATAATTTTC
* *
3449221 AAAAATATTTTTTAAAACTATATATTATAAGTTTTC
1 -AAAAT-GTTTTCAAAACTATATATTATAA-TTTTC
*
3449257 AAAATGATTTCAAAACTATATAATATATATATGTTTTC
1 AAAATGTTTTCAAAACTATAT-AT-TATA-A--TTTTC
* * *
3449295 AAAATGTTTCTTTTTAAAAAT-TATATT-T-ATTTTA
1 AAAATG----TTTTCAAAACTATATATTATAATTTTC
* * *
3449329 AAAATGTTTTTAAAACCATATAATATATATTTTC
1 AAAATGTTTTCAAAACTATATATTATA-ATTTTC
* *
3449363 AAAAACGTTTT-AAAAAT-TATATT-T-ATTTTC
1 -AAAATGTTTTCAAAACTATATATTATAATTTTC
* *
3449393 AAAGTGTTTTAAAAACTATATAATATATAAATGTTTC
1 AAAATGTTTTCAAAACTATAT-AT-TAT-AAT-TTTC
3449430 AAATATGTTTTCAAAACTATATATT
1 AAA-ATGTTTTCAAAACTATATATT
3449455 GTATACATAT
Statistics
Matches: 234, Mismatches: 30, Indels: 66
0.71 0.09 0.20
Matches are distributed among these distances:
29 17 0.07
30 24 0.10
31 15 0.06
32 6 0.03
33 25 0.11
34 40 0.17
35 32 0.14
36 22 0.09
37 10 0.04
38 29 0.12
39 1 0.00
40 2 0.01
41 3 0.01
42 8 0.03
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.47
Consensus pattern (33 bp):
AAAATGTTTTCAAAACTATATATTATAATTTTC
Found at i:3449277 original size:64 final size:62
Alignment explanation
Indices: 3449147--3449278 Score: 151
Period size: 64 Copynumber: 2.1 Consensus size: 62
3449137 AACTATATAA
* * * * * *
3449147 TATATATTTTCAAAAGTATTTTAAATTATATATTATATATTTTTCTAAAACGTTTTTAAAAT
1 TATATATTTTCAAAAATATTTTAAACTATATATTATATAGTTTTCTAAAACGATTTCAAAAC
*
3449209 TATATAGTTTTCAAAAATATTTTTTAAAACTATATATTATA-AGTTTTC-AAAATGATTTCAAAA
1 TATATA-TTTTCAAAAATA--TTTT-AAACTATATATTATATAGTTTTCTAAAACGATTTCAAAA
3449272 C
62 C
3449273 TATATA
1 TATATA
3449279 ATATATATAT
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
62 6 0.10
63 11 0.19
64 18 0.31
65 10 0.17
66 14 0.24
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (62 bp):
TATATATTTTCAAAAATATTTTAAACTATATATTATATAGTTTTCTAAAACGATTTCAAAAC
Found at i:3450219 original size:84 final size:84
Alignment explanation
Indices: 3450112--3450814 Score: 738
Period size: 84 Copynumber: 8.5 Consensus size: 84
3450102 TCGGGGGTCT
* * *
3450112 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAGCTGATCGTAGT
3450177 CGAACTCAAAGGTCTTTTG
66 CGAACTCAAAGGTCTTTTG
* * * * * *
3450196 TTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTT-GAGCTGATCGTAG
* *
3450260 TCGAACTCGAAGGTCTTTGG
65 TCGAACTCAAAGGTCTTTTG
*
3450280 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGT-GTA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTG-AGCTGA-TCGTA
* ***
3450344 ATCGAACTCGGGGGTC---T-
64 GTCGAACTCAAAGGTCTTTTG
* * *
3450361 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAGCTGATCGTAGT
*
3450426 TGAACTCAAAGGTCTTTTG
66 CGAACTCAAAGGTCTTTTG
* * * * * *
3450445 TTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTT-GAGCTGATCGTAG
* *
3450509 TCGAACTCGAAGGTCTTTGG
65 TCGAACTCAAAGGTCTTTTG
*
3450529 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGT-GTA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTG-AGCTGA-TCGTA
* **
3450593 ATCGAACTCAGGGGTC---T-
64 GTCGAACTCAAAGGTCTTTTG
* * * * *
3450610 TTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGTCGTTGAGCTGATCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAGCTGATCGTAGT
3450675 CGAACTCAAAGGTCTTTTG
66 CGAACTCAAAGGTCTTTTG
* ** * * * * * *
3450694 GTCACAGATAACCTTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGT-GTA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTG-AGCTGA-TCGTA
* **
3450758 ATCGAACTCAGGGGTC---T-
64 GTCGAACTCAAAGGTCTTTTG
* * * *
3450775 TTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTACAAAT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
3450815 AGTTTGTTTA
Statistics
Matches: 509, Mismatches: 90, Indels: 43
0.79 0.14 0.07
Matches are distributed among these distances:
79 2 0.00
80 42 0.08
81 124 0.24
82 1 0.00
83 8 0.02
84 260 0.51
85 71 0.14
86 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (84 bp):
TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTTGAGCTGATCGTAGT
CGAACTCAAAGGTCTTTTG
Found at i:3450348 original size:249 final size:249
Alignment explanation
Indices: 3450056--3450814 Score: 1204
Period size: 249 Copynumber: 3.1 Consensus size: 249
3450046 TATTGCCTTG
* * * * *
3450056 AGTTATGTTGTAAATGATATGACCTCGAAGTTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGAT
1 AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGAT
3450121 AGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAA
66 AGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAA
3450186 AGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGC
131 AGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGC
3450251 TGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
196 TGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
3450305 AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGAT
1 AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGAT
*
3450370 AGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTTGAACTCAA
66 AGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAA
3450435 AGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGC
131 AGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGC
3450500 TGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
196 TGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
* *
3450554 AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCAGGGGTCTTTAGCAGAT
1 AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGAT
*
3450619 AGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGTCGTTGAGCTGATCGTAGTCGAACTCAA
66 AGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAA
* ** * * * * * * * * * *
3450684 AGGTCTTTTGGTCACAGATAACCTTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAG
131 AGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATG-CCTTGGAG
* * * * *
3450749 CTGAGTGTAATCGAACTC-AGGGGTC--T--TTGGCAGATAGCCCTTCTAGACTTA
195 CTGAGCGTAGTCGAACTCGA-AGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
* *
3450800 AGCTATGCTACAAAT
1 AGTTATGCTGCAAAT
3450815 AGTTTGTTTA
Statistics
Matches: 478, Mismatches: 30, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
246 36 0.08
248 1 0.00
249 415 0.87
250 26 0.05
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (249 bp):
AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGAT
AGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGATCGTAGTCGAACTCAA
AGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGC
TGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
Found at i:3450450 original size:165 final size:165
Alignment explanation
Indices: 3450112--3450814 Score: 700
Period size: 165 Copynumber: 4.2 Consensus size: 165
3450102 TCGGGGGTCT
* *
3450112 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCGTTGAGCTGA-TCGTAG
1 TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGAGCTGAGT-GTAG
* * * * * *
3450176 TCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATAT
65 TCGAACTCGAAGGTC--TTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * *
3450241 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
128 GCCTT-GAGCTGATCGTAGTCGAACTCAAAGGTCTTTTG
* * *
3450280 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTG-AGCTGAGTGTAG
** * *
3450345 TCGAACTCGGGGGTC-T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGC
65 TCGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
*
3450408 CGTTGAGCTGATCGTAGTTGAACTCAAAGGTCTTTTG
130 C-TTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTG
* * * * * * *
3450445 TTGGCAGACAACCCTTGTAGACTTAAGTTGTGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAG
1 TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTT-GAGCTGAGTGTAG
3450509 TCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
65 TCGAACTCGAAGGTC-TT-GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
* * **
3450574 GCCCTCGAAGCTGAGT-GTAATCGAACTCAGGGGTC---T-
128 G-CCTTG-AGCTGA-TCGTAGTCGAACTCAAAGGTCTTTTG
* * * *
3450610 TTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGTCGTTGAGCTGA-TCGTAG
1 TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGAGCTGAGT-GTAG
* * * * * *
3450674 TCGAACTCAAAGGTCTT-TTGGTCACAGATAACCTTTCTAGCCTTGAGTTATGCTGTAAATGATG
65 TCGAACTCGAAGGTCTTGTTGG---CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
* * **
3450738 TGCCCTCGAAGCTGAGT-GTAATCGAACTCAGGGGTC---T-
127 TG-CCTTG-AGCTGA-TCGTAGTCGAACTCAAAGGTCTTTTG
* * *
3450775 TTGGCAGATAGCCCTTCTAGACTTAAGCTATGCTACAAAT
1 TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAAT
3450815 AGTTTGTTTA
Statistics
Matches: 464, Mismatches: 55, Indels: 35
0.84 0.10 0.06
Matches are distributed among these distances:
162 4 0.01
164 28 0.06
165 284 0.61
166 8 0.02
168 94 0.20
169 44 0.09
170 2 0.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (165 bp):
TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCCTTGAGCTGAGTGTAGT
CGAACTCGAAGGTCTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
TTGAGCTGATCGTAGTCGAACTCAAAGGTCTTTTG
Found at i:3454242 original size:18 final size:19
Alignment explanation
Indices: 3454202--3454246 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
3454192 AGTTAATGTG
3454202 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
3454221 AATGCAAAGAAAATAA-AA
1 AATGCAAAGAAAATAACAA
3454239 AATGCAAA
1 AATGCAAA
3454247 ATGTCTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.69, C:0.09, G:0.11, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:3454882 original size:15 final size:16
Alignment explanation
Indices: 3454856--3454885 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3454846 TGCAAACGAT
3454856 GAACACAAATAAAAGA
1 GAACACAAATAAAAGA
3454872 GAACA-AAATAAAAG
1 GAACACAAATAAAAG
3454886 GGTTAGTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.70, C:0.10, G:0.13, T:0.07
Consensus pattern (16 bp):
GAACACAAATAAAAGA
Found at i:3455934 original size:26 final size:26
Alignment explanation
Indices: 3455899--3455965 Score: 125
Period size: 26 Copynumber: 2.5 Consensus size: 26
3455889 AAAAAGTCAA
3455899 AAATGTTAGAAAATATAATAATAGAC
1 AAATGTTAGAAAATATAATAATAGAC
3455925 AAATGTTAGAAAATATAATAATAGAC
1 AAATGTTAGAAAATATAATAATAGAC
3455951 AAATGTTAGATAAAT
1 AAATGTTAGA-AAAT
3455966 CAAAAAACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 36 0.90
27 4 0.10
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (26 bp):
AAATGTTAGAAAATATAATAATAGAC
Found at i:3457308 original size:36 final size:36
Alignment explanation
Indices: 3457267--3457344 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
3457257 TTCTACAAAC
*
3457267 TATATAATATATATATTTTC-AAAA-GTATTTTAAAAT
1 TATATAATATATAT-TTTTCTAAAACGT-TTTCAAAAT
*
3457303 TATATATTATATATTTTTCTAAAACGTTTTCAAAAT
1 TATATAATATATATTTTTCTAAAACGTTTTCAAAAT
3457339 TATATA
1 TATATA
3457345 GTTTTCAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
35 5 0.13
36 31 0.82
37 2 0.05
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (36 bp):
TATATAATATATATTTTTCTAAAACGTTTTCAAAAT
Found at i:3457360 original size:64 final size:62
Alignment explanation
Indices: 3457276--3457408 Score: 169
Period size: 64 Copynumber: 2.1 Consensus size: 62
3457266 CTATATAATA
* * * * *
3457276 TATATATTTTCAAAAGTA-TTTTAAAATTATATATTATATATTTTTCTAAAACGTTTTCAAAAT
1 TATATATTTTCAAAAATATTTTTAAAACTATATATTATA-AGTTTTC-AAAACGATTTCAAAAC
*
3457339 TATATAGTTTTCAAAAATATTTTTTAAAACTATATATTATAAGTTTTCAAAATGATTTCAAAAC
1 TATATA-TTTTCAAAAATA-TTTTTAAAACTATATATTATAAGTTTTCAAAACGATTTCAAAAC
3457403 TATATA
1 TATATA
3457409 ATATATATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
63 6 0.10
64 30 0.49
65 6 0.10
66 19 0.31
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.47
Consensus pattern (62 bp):
TATATATTTTCAAAAATATTTTTAAAACTATATATTATAAGTTTTCAAAACGATTTCAAAAC
Found at i:3457385 original size:36 final size:34
Alignment explanation
Indices: 3457249--3457587 Score: 151
Period size: 34 Copynumber: 9.8 Consensus size: 34
3457239 ATAATAATAT
*
3457249 AAAATATTTTCTACAAACTATATAATATATATATTTTC
1 AAAATATTTTTTA-AAACTATAT-AT-TATA-ATTTTC
*
3457287 AAAAGTA--TTTTAAAATTATATATTATATATTTTTC
1 AAAA-TATTTTTTAAAACTATATATTATA-A-TTTTC
* ** * *
3457322 TAAA-ACGTTTTCAAA--AT-TA-TATAGTTTTC
1 AAAATATTTTTTAAAACTATATATTATAATTTTC
3457351 AAAAATATTTTTTAAAACTATATATTATAAGTTTTC
1 -AAAATATTTTTTAAAACTATATATTATAA-TTTTC
*
3457387 AAAATGA--TTTCAAAACTATATAATATATATATGTTTTC
1 AAAAT-ATTTTTTAAAACTATAT-AT-TATA-A--TTTTC
*
3457425 AAAATATTTCTTTTTAAAAAT-TATATT-T-ATTTT-
1 AAAATA--T-TTTTTAAAACTATATATTATAATTTTC
* *
3457458 AAAA-ATGTTTTTAAAACCATATAATATATATTTTC
1 AAAATAT-TTTTTAAAACTATATATTATA-ATTTTC
** *
3457493 AAAA-ACGTTTTAAAAAT-TATATT-T-ATTTTC
1 AAAATATTTTTTAAAACTATATATTATAATTTTC
* * *
3457523 AAAGT-GTTTTAAAAACTATATAATATATAAATGTTTC
1 AAAATATTTTTTAAAACTATAT-AT-TAT-AAT-TTTC
*
3457560 -AAATATGTTTTCAAAACTATATATTATA
1 AAAATAT-TTTTTAAAACTATATATTATA
3457588 TACATATATA
Statistics
Matches: 235, Mismatches: 30, Indels: 75
0.69 0.09 0.22
Matches are distributed among these distances:
29 5 0.02
30 30 0.13
31 20 0.09
32 7 0.03
33 15 0.06
34 39 0.17
35 34 0.14
36 27 0.11
37 12 0.05
38 30 0.13
39 3 0.01
40 2 0.01
41 3 0.01
42 8 0.03
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.46
Consensus pattern (34 bp):
AAAATATTTTTTAAAACTATATATTATAATTTTC
Found at i:3457468 original size:136 final size:136
Alignment explanation
Indices: 3457263--3457562 Score: 291
Period size: 136 Copynumber: 2.2 Consensus size: 136
3457253 TATTTTCTAC
* *
3457263 AAACTATATAATATATATA--TTTTCAAAAGTATTTTAAAATTATATATTATATATTTTTCTAAA
1 AAACTATATAATATATATATGTTTTCAAAAGTATTTT-AAATTAAAAATTATATATTTTTCTAAA
* * ** *
3457326 ACG-TTTTCAAA-AT-T-ATATA-GTTTTCAAAAATATTTTTTAAAACTATATATTATAAGTTTT
65 ACGTTTTTAAAACATATAATATATATTTTC-AAAA-ACGTTTTAAAAAT-TATATT-T-A-TTTT
*
3457386 CAAAATGATTTCA
124 CAAAATGATTTAA
**
3457399 AAACTATATAATATATATATGTTTTCAAAA-TATTTCT-TTTTAAAAATTATAT-TTATTT-TAA
1 AAACTATATAATATATATATGTTTTCAAAAGTATTT-TAAATTAAAAATTATATATT-TTTCT-A
*
3457460 AAATGTTTTTAAAACCATATAATATATATTTTCAAAAACGTTTTAAAAATTATATTTATTTTCAA
63 AAACGTTTTTAAAA-CATATAATATATATTTTCAAAAACGTTTTAAAAATTATATTTATTTTCAA
* *
3457525 AGTGTTTTAA
127 AATGATTTAA
*
3457535 AAACTATATAATATATAAATG-TTTCAAA
1 AAACTATATAATATATATATGTTTTCAAA
3457563 TATGTTTTCA
Statistics
Matches: 139, Mismatches: 14, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
135 10 0.07
136 72 0.52
137 13 0.09
138 11 0.08
139 8 0.06
140 11 0.08
141 9 0.06
142 5 0.04
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (136 bp):
AAACTATATAATATATATATGTTTTCAAAAGTATTTTAAATTAAAAATTATATATTTTTCTAAAA
CGTTTTTAAAACATATAATATATATTTTCAAAAACGTTTTAAAAATTATATTTATTTTCAAAATG
ATTTAA
Found at i:3462598 original size:24 final size:25
Alignment explanation
Indices: 3462552--3462599 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
3462542 AATATCATAC
* * *
3462552 AAAATATAATATAATTATTTTAAAA
1 AAAATATAATAAAAATATATTAAAA
3462577 AAAAT-TAATAAAAATATATTAAA
1 AAAATATAATAAAAATATATTAAA
3462600 TATGAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AAAATATAATAAAAATATATTAAAA
Found at i:3462777 original size:60 final size:61
Alignment explanation
Indices: 3462721--3462835 Score: 180
Period size: 60 Copynumber: 1.9 Consensus size: 61
3462711 ATTATGATTA
* *
3462721 TCATTCTAAATGAGTCCTCAAAC-TTTTGAACATTTCAATTTCATCCTCAAACTATGACCT
1 TCATTCTAAATGAGTCCCCAAACTTTTTGAACATTCCAATTTCATCCTCAAACTATGACCT
* *
3462781 TCATTCTAAATTAGTCCCCAAACTTTTTGAACATTCCAATTCCATCC-CAAACTAT
1 TCATTCTAAATGAGTCCCCAAACTTTTTGAACATTCCAATTTCATCCTCAAACTAT
3462836 ACATATATAC
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
60 29 0.58
61 21 0.42
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (61 bp):
TCATTCTAAATGAGTCCCCAAACTTTTTGAACATTCCAATTTCATCCTCAAACTATGACCT
Found at i:3463062 original size:60 final size:59
Alignment explanation
Indices: 3462977--3463144 Score: 144
Period size: 60 Copynumber: 2.8 Consensus size: 59
3462967 TAAAACTGGG
** * * * *
3462977 ATATTCAAAAGTTTGGGGACCAATTTAGAA-AGAGTTTCATAGTTTTGGGATGAAATTAAA
1 ATATTCAAAAGTTTAAGAACCAATTTAGAAGAAAG-TT-ATAATTATGGGATGAAATTAAA
* **
3463037 ATATTCAAAAGTTTAAGAACTAATTTAGAATGAAAGTTATAATTATGGGATGAAATTTGA
1 ATATTCAAAAGTTTAAGAACCAATTTAGAA-GAAAGTTATAATTATGGGATGAAATTAAA
* * ** *
3463097 ATATTTAAAAGTTAAAGGGCCAATTTAAAATGAGAA-TTATAATT-TGGG
1 ATATTCAAAAGTTTAAGAACCAATTTAGAA-GA-AAGTTATAATTATGGG
3463145 GATATGATGC
Statistics
Matches: 90, Mismatches: 15, Indels: 7
0.80 0.13 0.06
Matches are distributed among these distances:
59 4 0.04
60 79 0.88
61 4 0.04
62 3 0.03
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.34
Consensus pattern (59 bp):
ATATTCAAAAGTTTAAGAACCAATTTAGAAGAAAGTTATAATTATGGGATGAAATTAAA
Found at i:3463147 original size:60 final size:60
Alignment explanation
Indices: 3463022--3463144 Score: 151
Period size: 60 Copynumber: 2.1 Consensus size: 60
3463012 TTCATAGTTT
* * *
3463022 TGGGATGAAATTAAAATATTCAAAAGTTTAAGAACTAATTTAGAATGAAAGTTATAATTA
1 TGGGATGAAATTAAAATATTCAAAAGTTAAAGAACCAATTTAAAATGAAAGTTATAATTA
** * **
3463082 TGGGATGAAATTTGAATATTTAAAAGTTAAAGGGCCAATTTAAAATGAGAA-TTATAATT-
1 TGGGATGAAATTAAAATATTCAAAAGTTAAAGAACCAATTTAAAATGA-AAGTTATAATTA
3463141 TGGG
1 TGGG
3463145 GATATGATGC
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 4 0.07
60 48 0.89
61 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.33
Consensus pattern (60 bp):
TGGGATGAAATTAAAATATTCAAAAGTTAAAGAACCAATTTAAAATGAAAGTTATAATTA
Found at i:3467103 original size:2 final size:2
Alignment explanation
Indices: 3467096--3467128 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3467086 TTTGATCCTA
*
3467096 AT AT AT AT AT AT AT GT 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 A
3467129 ATTGGCGCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3467976 original size:20 final size:20
Alignment explanation
Indices: 3467951--3468000 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
3467941 GTTCCATGTA
3467951 TGTATGTACGAATATTTATG
1 TGTATGTACGAATATTTATG
3467971 TGTATGTACGAATATTTATG
1 TGTATGTACGAATATTTATG
*
3467991 TGTATATACG
1 TGTATGTACG
3468001 TGTATATATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (20 bp):
TGTATGTACGAATATTTATG
Found at i:3468010 original size:20 final size:20
Alignment explanation
Indices: 3467951--3468011 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
3467941 GTTCCATGTA
* *
3467951 TGTATGTACGAATATTTATG
1 TGTATATACGAATATATATG
* *
3467971 TGTATGTACGAATATTTATG
1 TGTATATACGAATATATATG
**
3467991 TGTATATACGTGTATATATG
1 TGTATATACGAATATATATG
3468011 T
1 T
3468012 ATGTGATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.46
Consensus pattern (20 bp):
TGTATATACGAATATATATG
Found at i:3469033 original size:29 final size:29
Alignment explanation
Indices: 3468991--3469064 Score: 148
Period size: 29 Copynumber: 2.6 Consensus size: 29
3468981 TTATCAACAC
3468991 TAGTGGAATAACCTAATTTGAGCATAGAT
1 TAGTGGAATAACCTAATTTGAGCATAGAT
3469020 TAGTGGAATAACCTAATTTGAGCATAGAT
1 TAGTGGAATAACCTAATTTGAGCATAGAT
3469049 TAGTGGAATAACCTAA
1 TAGTGGAATAACCTAA
3469065 CTAGCATATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (29 bp):
TAGTGGAATAACCTAATTTGAGCATAGAT
Found at i:3469682 original size:31 final size:31
Alignment explanation
Indices: 3469647--3469709 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
3469637 AATTTGGTAA
3469647 ATTCAATATGTCCTTCTCACTAGGAACTCCC
1 ATTCAATATGTCCTTCTCACTAGGAACTCCC
3469678 ATTCAATATGTCCTTCTCACTAGGAACTCCC
1 ATTCAATATGTCCTTCTCACTAGGAACTCCC
3469709 A
1 A
3469710 AACTCTTGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.32
Consensus pattern (31 bp):
ATTCAATATGTCCTTCTCACTAGGAACTCCC
Found at i:3472364 original size:30 final size:30
Alignment explanation
Indices: 3472328--3472520 Score: 350
Period size: 30 Copynumber: 6.4 Consensus size: 30
3472318 TCCGAAGGAC
*
3472328 CTATCCAGAGGTCATAAAGATCTTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
3472358 CTATCCAGAGGTCATAAAGATCCTCAGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
3472388 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
3472418 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
3472448 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
3472478 CTATCCAGAGGTCATAAAGATCCTCAGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
3472508 CTATCCATAGGTC
1 CTATCCAGAGGTC
3472521 CAGAAGAACC
Statistics
Matches: 158, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 158 1.00
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:3472537 original size:90 final size:90
Alignment explanation
Indices: 3472328--3472545 Score: 330
Period size: 90 Copynumber: 2.4 Consensus size: 90
3472318 TCCGAAGGAC
* * *
3472328 CTATCCAGAGGTCATAAAGATCTTCGGTAACTATCCAGAGGTCATAAAGATCCTCAGTAACTATC
1 CTATCCAGAGGTCATAAAGAACCTAGGTAACTATCCAGAGGTCATAAAGATCCTCAGTAACTATC
*
3472393 CAGAGGTCATAAAGATCCTCGGTAA
66 CAGAGGTCATAAAGATCCTCAGTAA
* * *
3472418 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
1 CTATCCAGAGGTCATAAAGAACCTAGGTAACTATCCAGAGGTCATAAAGATCCTCAGTAACTATC
3472483 CAGAGGTCATAAAGATCCTCAGTAA
66 CAGAGGTCATAAAGATCCTCAGTAA
* *
3472508 CTATCCATAGGTCCA-GAAGAACCTAGGTAAACTATCCA
1 CTATCCAGAGGT-CATAAAGAACCTAGGT-AACTATCCA
3472546 TATGTTCCTT
Statistics
Matches: 119, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
90 108 0.91
91 11 0.09
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (90 bp):
CTATCCAGAGGTCATAAAGAACCTAGGTAACTATCCAGAGGTCATAAAGATCCTCAGTAACTATC
CAGAGGTCATAAAGATCCTCAGTAA
Found at i:3472544 original size:31 final size:31
Alignment explanation
Indices: 3472506--3472598 Score: 93
Period size: 31 Copynumber: 3.0 Consensus size: 31
3472496 GATCCTCAGT
*
3472506 AACTATCCATA-GGTCCAGAAGAACCTAGGTA
1 AACTATCCATATGGTCC-GAAGAACATAGGTA
* **
3472537 AACTATCCATATGTTCCTTAGAACATAGGTA
1 AACTATCCATATGGTCCGAAGAACATAGGTA
*
3472568 TACTATCCATAT-GTCTCGAA-AGACATAGGTA
1 AACTATCCATATGGTC-CGAAGA-ACATAGGTA
3472599 GTTCTTTGAC
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
30 3 0.06
31 44 0.86
32 4 0.08
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (31 bp):
AACTATCCATATGGTCCGAAGAACATAGGTA
Found at i:3472762 original size:4 final size:4
Alignment explanation
Indices: 3472753--3472798 Score: 78
Period size: 4 Copynumber: 12.0 Consensus size: 4
3472743 CTTATTACCT
3472753 ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3472799 TTATTACATA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
4 38 0.95
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:3472781 original size:22 final size:22
Alignment explanation
Indices: 3472755--3472798 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
3472745 TATTACCTAT
3472755 ACATACATACATACATACATAC
1 ACATACATACATACATACATAC
3472777 ACATACATACATACATACATAC
1 ACATACATACATACATACATAC
3472799 TTATTACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (22 bp):
ACATACATACATACATACATAC
Found at i:3472782 original size:18 final size:18
Alignment explanation
Indices: 3472759--3472795 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
3472749 ACCTATACAT
3472759 ACATACATACATACATAC
1 ACATACATACATACATAC
3472777 ACATACATACATACATAC
1 ACATACATACATACATAC
3472795 A
1 A
3472796 TACTTATTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.27, G:0.00, T:0.22
Consensus pattern (18 bp):
ACATACATACATACATAC
Found at i:3472851 original size:128 final size:128
Alignment explanation
Indices: 3472669--3472919 Score: 484
Period size: 128 Copynumber: 2.0 Consensus size: 128
3472659 TTGTCTTTTA
3472669 ACTTATTACATATTCACATATCATATCACATTTTTCTTTTTCTATAGCTCTTTATCACATGTTCA
1 ACTTATTACATATTCACATATCATATCACATTTTTCTTTTTCTATAGCTCTTTATCACATGTTCA
* *
3472734 TATGATCATCTTATTACCTATACATACATACATACATACATACACATACATACATACATACAT
66 TATGATCATCTTATTACCTATACATACATACATACACACATACACATACACACATACATACAT
3472797 ACTTATTACATATTCACATATCATATCACATTTTTCTTTTTCTATAGCTCTTTATCACATGTTCA
1 ACTTATTACATATTCACATATCATATCACATTTTTCTTTTTCTATAGCTCTTTATCACATGTTCA
3472862 TATGATCATCTTATTACCTATACATACATACATACACACATACACATACACACATACA
66 TATGATCATCTTATTACCTATACATACATACATACACACATACACATACACACATACA
3472920 CACACACAAC
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 121 1.00
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (128 bp):
ACTTATTACATATTCACATATCATATCACATTTTTCTTTTTCTATAGCTCTTTATCACATGTTCA
TATGATCATCTTATTACCTATACATACATACATACACACATACACATACACACATACATACAT
Found at i:3472890 original size:4 final size:4
Alignment explanation
Indices: 3472881--3474441 Score: 2242
Period size: 4 Copynumber: 395.5 Consensus size: 4
3472871 CTTATTACCT
* * * *
3472881 ATAC ATAC ATAC ATAC ACAC ATAC --AC ATAC ACAC ATAC ACAC ACAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
3472927 AACAC ACAC ATAC ACAC ACAC ATAC ACAC ATAC ACAC ATAC ACAC ATAC
1 -ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
3472976 ACAC ATAC ACAC ATAC ACAC ATAC ACAC ATAC ACAC ATAC ACAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
3473024 ACAC ATAC ACAC ATAC ACAC ATAC ACAC ATAC ACAC ATAC ACAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
3473072 ACAC ATAC ACAC ATAC --AC ATAC ACAC A-AC ATAC ACAC ATAC --AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * *
3473115 ATAC ACAC ATAC ACAC -TAC ACAC ATAC ACAC ATAC --AC ACAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * * * *
3473160 ACAC ATAC ACA- ATAC ACAC ATAC ACAC ACAC ACAC ACAC ACACC ACAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC
* * * *
3473208 ACAC ACAC ACAC ACAC ATAC ATAC ATAC ATAC ATAC ATA- ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3473255 A-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3473301 ATAC ATAC ATAC ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3473348 ATAC ATAC ATAC ATAC ATAC -TAC A-AC ATAC ATAC ATACC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC
3473395 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3473441 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3473489 ATAC ATAC ATAC ATAC ATAC ATAAC ATAC ATAC ATAC TATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC AT-AC ATAC ATAC ATAC -ATAC ATAC ATAC
3473539 ATAC ATAC ATAC ATAC ATAGAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC AT--AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3473589 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3473637 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3473685 --AC ATAC ATAC ATAC ATA- ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3473730 ATAC ATAC ATAC ATAC ATA- ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3473777 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3473825 ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3473871 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3473919 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3473967 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3474015 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-AC ATA-
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3474061 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
3474109 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
3474157 ATAC ATAC ATAC ATAC ATAC AGA- ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
3474204 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACAC ATAC AGAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
3474252 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
3474300 ATAC ACAC ATAC ACAC ATAC ACAC ATAC ACAC ATAC ACAC ATAC ACAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * * *
3474348 ATAC ACAC ATAC AGAC ACAC AGAC ACAC ATAA ACAC ATAC ACAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
3474396 ACAC ATAC ACAC ATAC ACAC ATAC ACAC ATAC ACAC ATAC ACAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
3474442 GTCATCATTT
Statistics
Matches: 1415, Mismatches: 107, Indels: 70
0.89 0.07 0.04
Matches are distributed among these distances:
2 14 0.01
3 39 0.03
4 1338 0.95
5 20 0.01
6 4 0.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.20
Consensus pattern (4 bp):
ATAC
Found at i:3472914 original size:2 final size:2
Alignment explanation
Indices: 3472895--3473224 Score: 326
Period size: 2 Copynumber: 166.5 Consensus size: 2
3472885 ATACATACAT
* * *
3472895 AC AC AC AT AC AC AT AC AC AC AT AC AC AC AC AC A- AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* * * * *
3472936 AT AC AC AC AC AC AT AC AC AC AT AC AC AC AT AC AC AC AT AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* * * * *
3472978 AC AT AC AC AC AT AC AC AC AT AC AC AC AT AC AC AC AT AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* * * * * *
3473020 AT AC AC AC AT AC AC AC AT AC AC AC AT AC AC AC AT AC AC AC AT
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* * * * *
3473062 AC AC AC AT AC AC AC AT AC AC AC AT AC AC AT AC AC AC A- AC AT
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* * * *
3473103 AC AC AC AT AC AC AT AC AC AC AT AC AC AC TAC AC AC AT AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC -AC AC AC AC AC AC AC
* * * * *
3473146 AT AC AC AC AC AT AC AC AC AT AC AC A- AT AC AC AC AT AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
3473187 AC AC AC AC AC AC AC AC -C AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
3473225 TACATACATA
Statistics
Matches: 258, Mismatches: 65, Indels: 10
0.77 0.20 0.03
Matches are distributed among these distances:
1 4 0.02
2 252 0.98
3 2 0.01
ACGTcount: A:0.50, C:0.39, G:0.00, T:0.10
Consensus pattern (2 bp):
AC
Found at i:3475332 original size:18 final size:18
Alignment explanation
Indices: 3475305--3475340 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3475295 TTTTTCATTA
*
3475305 GGGGGAATCGGTTCCCCT
1 GGGGGAATCGATTCCCCT
*
3475323 GGGGGTATCGATTCCCCT
1 GGGGGAATCGATTCCCCT
3475341 CTAGCATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.28, G:0.36, T:0.25
Consensus pattern (18 bp):
GGGGGAATCGATTCCCCT
Found at i:3475391 original size:21 final size:21
Alignment explanation
Indices: 3475367--3475409 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3475357 TCATATTCGT
*
3475367 TTGAGGGGGGATCGATTCCCC
1 TTGAAGGGGGATCGATTCCCC
* *
3475388 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGGATCGATTCCCC
3475409 T
1 T
3475410 AGCCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.23, G:0.30, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGGATCGATTCCCC
Found at i:3478942 original size:30 final size:30
Alignment explanation
Indices: 3478733--3478925 Score: 359
Period size: 30 Copynumber: 6.4 Consensus size: 30
3478723 TCCGAAGGAC
*
3478733 CTATCCAGAGGTCATAAAGATCTTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
3478763 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
3478793 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
3478823 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
3478853 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
3478883 CTATCTAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
3478913 CTATCCATAGGTC
1 CTATCCAGAGGTC
3478926 CCGAAGAACC
Statistics
Matches: 159, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 159 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:3478942 original size:90 final size:90
Alignment explanation
Indices: 3478733--3478947 Score: 322
Period size: 90 Copynumber: 2.4 Consensus size: 90
3478723 TCCGAAGGAC
* * * *
3478733 CTATCCAGAGGTCATAAAGATCTTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
1 CTATCCAGAGGTCACAAAGAACCTAGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
3478798 CAGAGGTCATAAAGATCCTCGGTAA
66 CAGAGGTCATAAAGATCCTCGGTAA
* * *
3478823 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
1 CTATCCAGAGGTCACAAAGAACCTAGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
*
3478888 TAGAGGTCATAAAGATCCTCGGTAA
66 CAGAGGTCATAAAGATCCTCGGTAA
* * *
3478913 CTATCCATAGGTCCCGAAGAACCTAGGTAAACTAT
1 CTATCCAGAGGTCACAAAGAACCTAGGT-AACTAT
3478948 TCATATGTTC
Statistics
Matches: 116, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
90 110 0.95
91 6 0.05
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (90 bp):
CTATCCAGAGGTCACAAAGAACCTAGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTATC
CAGAGGTCATAAAGATCCTCGGTAA
Found at i:3478999 original size:31 final size:30
Alignment explanation
Indices: 3478908--3479003 Score: 88
Period size: 31 Copynumber: 3.1 Consensus size: 30
3478898 AAAGATCCTC
* * *
3478908 GGTAACTATCCATAGGTCCCGAAGAACCTA
1 GGTAACTATCCATATGTCTCGAAGAACATA
* **
3478938 GGTAAACTATTCATATGT-TCCTTAGAACATA
1 GGT-AACTATCCATATGTCT-CGAAGAACATA
3478969 GGTATACTATCCATATGTCTCGAA-AGACATA
1 GGTA-ACTATCCATATGTCTCGAAGA-ACATA
3479000 GGTA
1 GGTA
3479004 GTTCTTTGAC
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
30 5 0.10
31 46 0.88
32 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (30 bp):
GGTAACTATCCATATGTCTCGAAGAACATA
Found at i:3479187 original size:4 final size:4
Alignment explanation
Indices: 3479178--3479818 Score: 1226
Period size: 4 Copynumber: 162.2 Consensus size: 4
3479168 ATATAACCCT
3479178 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3479226 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3479274 TACA TACA TACA TACA TACA TACA TACA TACA TACA -ACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3479321 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3479369 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3479417 T--A TACA TACA TACA TACA TACA TACA TACA -ACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3479462 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3479510 TACA TACA TA-A TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3479557 TA-A TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3479604 TACA TACA TACA TACA TACA TAC- TACA TACA TAC- TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3479650 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3479698 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3479746 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
3479794 TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA T
3479819 GTCATCATTT
Statistics
Matches: 629, Mismatches: 0, Indels: 16
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.00
3 18 0.03
4 609 0.97
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
TACA
Found at i:3480164 original size:2 final size:2
Alignment explanation
Indices: 3480157--3480225 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
3480147 TACACAACTC
3480157 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3480199 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
3480226 CTGTAACATG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3480769 original size:18 final size:19
Alignment explanation
Indices: 3480732--3480768 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3480722 TTTTTCATTA
*
3480732 TGGGGGAATCGGTTCCCCC
1 TGGGGGAATCGATTCCCCC
*
3480751 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
3480769 TCTAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.30, G:0.35, T:0.24
Consensus pattern (19 bp):
TGGGGGAATCGATTCCCCC
Found at i:3480820 original size:21 final size:21
Alignment explanation
Indices: 3480796--3480838 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
3480786 TCATATTCGT
* *
3480796 TTGAGGGGGGATCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
* *
3480817 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGGACCGATTCCCC
3480838 T
1 T
3480839 AGCCCAGAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (21 bp):
TTGAAGGGGGACCGATTCCCC
Found at i:3481694 original size:31 final size:31
Alignment explanation
Indices: 3481659--3481718 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
3481649 AATTCGGTGA
*
3481659 ATTCAATATGTCCTTATCACTAGTAACTCCC
1 ATTCAATATGTCCTTATCACTAGGAACTCCC
*
3481690 ATTCAATATGTCCTTCTCACTAGGAACTC
1 ATTCAATATGTCCTTATCACTAGGAACTC
3481719 TCAAACTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.28, G:0.08, T:0.35
Consensus pattern (31 bp):
ATTCAATATGTCCTTATCACTAGGAACTCCC
Found at i:3487569 original size:17 final size:16
Alignment explanation
Indices: 3487555--3487584 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3487545 GGGTAAATAA
3487555 AATTA-ATAAAAAAAT
1 AATTATATAAAAAAAT
3487570 AATTATATAAAAAAA
1 AATTATATAAAAAAA
3487585 ATTCAGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AATTATATAAAAAAAT
Found at i:3490080 original size:18 final size:18
Alignment explanation
Indices: 3490038--3490081 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
3490028 AACGATTATG
*
3490038 TATTTCAATTATGTATTT
1 TATTTCAATTATGTATTC
*
3490056 TAGTTCAATTATTGT-TTC
1 TATTTCAATTA-TGTATTC
3490074 TATTTCAA
1 TATTTCAA
3490082 AAAATGAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.27, C:0.09, G:0.07, T:0.57
Consensus pattern (18 bp):
TATTTCAATTATGTATTC
Found at i:3493971 original size:16 final size:17
Alignment explanation
Indices: 3493950--3493981 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3493940 GTTGTGGAAA
3493950 TGAA-TTTGAGATGTAT
1 TGAATTTTGAGATGTAT
3493966 TGAATTTTGAGATGTA
1 TGAATTTTGAGATGTA
3493982 AAAAAGTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (17 bp):
TGAATTTTGAGATGTAT
Found at i:3503649 original size:58 final size:57
Alignment explanation
Indices: 3503448--3503669 Score: 250
Period size: 57 Copynumber: 3.9 Consensus size: 57
3503438 GTGTACGTGA
* *
3503448 ATATGTTTTATGAGAATAAATGATAATTTGAATAATGTTATATGAAACACTATGAGT
1 ATATGTTTTATGTGAATAAATGATAATTTGAATAATGTTATATGAAATACTATGAGT
* * * * * *
3503505 ATATGGTTTATGTGAATAAATGATAA-ATCAAGTAATGCTATATGAAATGCTATGATT
1 ATATGTTTTATGTGAATAAATGATAATTTGAA-TAATGTTATATGAAATACTATGAGT
* * ** *
3503562 A-ATTGTTCTATGTGAATAAATAATAAATTTGGGTAATGTTATGTGAAATACTATGAGT
1 ATA-TGTTTTATGTGAATAAATGAT-AATTTGAATAATGTTATATGAAATACTATGAGT
* * *
3503620 ATATGTTTTTATGTGAACAAATGATAATTTGAATAATGTAATGTGAAATA
1 ATATG-TTTTATGTGAATAAATGATAATTTGAATAATGTTATATGAAATA
3503670 ATTATATGGT
Statistics
Matches: 134, Mismatches: 25, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
56 4 0.03
57 64 0.48
58 48 0.36
59 18 0.13
ACGTcount: A:0.41, C:0.04, G:0.17, T:0.39
Consensus pattern (57 bp):
ATATGTTTTATGTGAATAAATGATAATTTGAATAATGTTATATGAAATACTATGAGT
Found at i:3503799 original size:24 final size:23
Alignment explanation
Indices: 3503740--3503802 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
3503730 GAGTCGAGGG
* *
3503740 TTCTACGCGGTCATTCGGGATAA
1 TTCTACGCGGTCCTTCGAGATAA
* *
3503763 TTCTATGTGGTCCTTCGAGATAAA
1 TTCTACGCGGTCCTTCGAGAT-AA
*
3503787 TTCTACGCAGTCCTTC
1 TTCTACGCGGTCCTTC
3503803 TGGACAAATC
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 17 0.53
24 15 0.47
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (23 bp):
TTCTACGCGGTCCTTCGAGATAA
Found at i:3503838 original size:24 final size:24
Alignment explanation
Indices: 3503807--3503864 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
3503797 TCCTTCTGGA
*
3503807 CAAA-TCTATGTGACACTTCAGTG
1 CAAATTCTACGTGACACTTCAGTG
* *
3503830 CATATTCTACGTGACACTTCGGTG
1 CAAATTCTACGTGACACTTCAGTG
3503854 CAAATTCTACG
1 CAAATTCTACG
3503865 CATCAGTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 3 0.10
24 27 0.90
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (24 bp):
CAAATTCTACGTGACACTTCAGTG
Found at i:3504978 original size:12 final size:12
Alignment explanation
Indices: 3504961--3504986 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3504951 AGTATGAGTC
3504961 TTGAAATAATTT
1 TTGAAATAATTT
3504973 TTGAAATAATTT
1 TTGAAATAATTT
3504985 TT
1 TT
3504987 ACAAAGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (12 bp):
TTGAAATAATTT
Found at i:3511888 original size:22 final size:20
Alignment explanation
Indices: 3511844--3511901 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
3511834 TTCCTTGAAT
* *
3511844 GTGTATCGATATACTCAAGA
1 GTGTACCGATATACTCAAAA
3511864 GTGTACCGATATACACTCAAAA
1 GTGTACCGATAT--ACTCAAAA
* *
3511886 GTGTACTGATACACTC
1 GTGTACCGATATACTC
3511902 GTAGGGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 15 0.47
22 17 0.53
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (20 bp):
GTGTACCGATATACTCAAAA
Found at i:3519312 original size:2 final size:2
Alignment explanation
Indices: 3519305--3519334 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3519295 AAGGGGATAG
3519305 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3519335 CAAGGAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3525482 original size:24 final size:24
Alignment explanation
Indices: 3525420--3525483 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
3525410 GTTTGATATA
* *
3525420 ATAATCATTTTGATCCATATATTT
1 ATAAACATTTTGATTCATATATTT
* *
3525444 TTAAACATTTCGATTCATATATTT
1 ATAAACATTTTGATTCATATATTT
3525468 ATAAACATTTTGATTC
1 ATAAACATTTTGATTC
3525484 TCAATTTTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.48
Consensus pattern (24 bp):
ATAAACATTTTGATTCATATATTT
Found at i:3527042 original size:24 final size:24
Alignment explanation
Indices: 3527015--3527065 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3527005 TATATAATTT
* *
3527015 ATTTTTTGTGATTAGAATTTGATC
1 ATTTTTTATGACTAGAATTTGATC
* *
3527039 ATTTTTTATTACTAGAATTTTATC
1 ATTTTTTATGACTAGAATTTGATC
3527063 ATT
1 ATT
3527066 AAATAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.57
Consensus pattern (24 bp):
ATTTTTTATGACTAGAATTTGATC
Found at i:3540980 original size:54 final size:54
Alignment explanation
Indices: 3540868--3541011 Score: 143
Period size: 54 Copynumber: 2.7 Consensus size: 54
3540858 CATTAGGGTA
* * *
3540868 GTATCGATACC-TGAAGGATGGTATCGATACCCTTAAAATATCGAATGCCAAATGG
1 GTATCGATACCTTG-AGGA-GGTATCGATACCCTTGAAATATCGAACGCCAAATCG
* * *
3540923 GTATCGGTACCTTGAGGAGGTATCGATACCCTTGCAATATCGAACG-TAAATTCG
1 GTATCGATACCTTGAGGAGGTATCGATACCCTTGAAATATCGAACGCCAAA-TCG
* * *
3540977 GTATCGTTA--TATGTGGAGGTATCAATACCCTTGAA
1 GTATCGATACCT-TGAGGAGGTATCGATACCCTTGAA
3541012 GGGTTGTATC
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
52 1 0.01
53 24 0.32
54 35 0.46
55 14 0.18
56 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (54 bp):
GTATCGATACCTTGAGGAGGTATCGATACCCTTGAAATATCGAACGCCAAATCG
Found at i:3541671 original size:21 final size:21
Alignment explanation
Indices: 3541646--3541686 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3541636 CGGTGTAAAC
3541646 TATGTGGTCA-TTCGGGACAAT
1 TATGT-GTCACTTCGGGACAAT
*
3541667 TATGTGTCACTTCGGTACAA
1 TATGTGTCACTTCGGGACAA
3541687 ATTACGAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TATGTGTCACTTCGGGACAAT
Found at i:3546261 original size:18 final size:18
Alignment explanation
Indices: 3546215--3546262 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
3546205 TTATCCTTAT
*
3546215 TATTACTC-TTATAATCA
1 TATTACTCTTTTTAATCA
* *
3546232 TCATTAATCTTTTTTATCA
1 T-ATTACTCTTTTTAATCA
3546251 TATTACTCTTTT
1 TATTACTCTTTT
3546263 ATCTTACCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 1 0.04
18 16 0.64
19 8 0.32
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTACTCTTTTTAATCA
Found at i:3546785 original size:18 final size:19
Alignment explanation
Indices: 3546759--3546794 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
3546749 ATATGTTTTT
3546759 CATAAACCACAT-ATATCA
1 CATAAACCACATAATATCA
*
3546777 CATATACCACATAATATC
1 CATAAACCACATAATATC
3546795 TCTTATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (19 bp):
CATAAACCACATAATATCA
Found at i:3550396 original size:54 final size:53
Alignment explanation
Indices: 3550332--3550456 Score: 135
Period size: 54 Copynumber: 2.3 Consensus size: 53
3550322 CCTGAATGAT
* * * * * *
3550332 GGTAACGATACCCTTAAAATATCGAATGTCAAA-TGGGTATTGGTACCTTGAGGA
1 GGTATCGATACCCTTAAAACATCAAACGT-AAATTCGGTATTGGTA-CATGAGGA
** *
3550386 GGTATCGATACCCTTGCAACATCAAACGTAAATTCGGTATTGGTACATGTGGA
1 GGTATCGATACCCTTAAAACATCAAACGTAAATTCGGTATTGGTACATGAGGA
*
3550439 GTTATCGATACCCTTAAA
1 GGTATCGATACCCTTAAA
3550457 GGGTGGTATC
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
53 24 0.41
54 34 0.59
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (53 bp):
GGTATCGATACCCTTAAAACATCAAACGTAAATTCGGTATTGGTACATGAGGA
Found at i:3550481 original size:20 final size:21
Alignment explanation
Indices: 3550441--3550492 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
3550431 CATGTGGAGT
3550441 TATCGATACCCTTAAAGGGTGG
1 TATCGATACCCTT-AAGGGTGG
*
3550463 TATCGGTACCCTT-AGGGTGG
1 TATCGATACCCTTAAGGGTGG
*
3550483 TACCGATACC
1 TATCGATACC
3550493 TCCAAGCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 15 0.56
22 12 0.44
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (21 bp):
TATCGATACCCTTAAGGGTGG
Found at i:3551119 original size:22 final size:23
Alignment explanation
Indices: 3551050--3551120 Score: 108
Period size: 23 Copynumber: 3.1 Consensus size: 23
3551040 AACAAGTATG
*
3551050 TGGCACTTCGTTGCAACCCTATA
1 TGGCACTTCGGTGCAACCCTATA
*
3551073 TGACACTTCGGTGCAACCCTATA
1 TGGCACTTCGGTGCAACCCTATA
*
3551096 TGGCACTTCGGTGCAA-ACTATA
1 TGGCACTTCGGTGCAACCCTATA
3551118 TGG
1 TGG
3551121 TCCTTCGAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
22 8 0.18
23 36 0.82
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (23 bp):
TGGCACTTCGGTGCAACCCTATA
Found at i:3552669 original size:54 final size:55
Alignment explanation
Indices: 3552606--3552728 Score: 205
Period size: 54 Copynumber: 2.3 Consensus size: 55
3552596 TCATAACTGT
*
3552606 GGGTATCGATACACTCCTCAGTGTACCGATACACAAGTTG-TATTCGATG-TTTGA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACAA-ATGATATTCGATGTTTTGA
3552660 GGGTATCGATACACTCCTCAGTGTACCGATACACAAATGATATTCGATGTTTTGA
1 GGGTATCGATACACTCCTCAGTGTACCGATACACAAATGATATTCGATGTTTTGA
*
3552715 GTGTATCGATACAC
1 GGGTATCGATACAC
3552729 ACTCATACAA
Statistics
Matches: 65, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
53 2 0.03
54 45 0.69
55 18 0.28
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (55 bp):
GGGTATCGATACACTCCTCAGTGTACCGATACACAAATGATATTCGATGTTTTGA
Found at i:3555954 original size:29 final size:29
Alignment explanation
Indices: 3555893--3556026 Score: 166
Period size: 29 Copynumber: 4.7 Consensus size: 29
3555883 TCCACATTCG
*
3555893 AAAATTCCCA-AATTGTCA-TTTTTTCACA
1 AAAATTCCCAGAA-TGTCACCTTTTTCACA
* *
3555921 AAAATTCCCAGAATGTCACCTTTTCCATA
1 AAAATTCCCAGAATGTCACCTTTTTCACA
* * * *
3555950 AAAATTCCCAGAATATAACTTTTTTCATA
1 AAAATTCCCAGAATGTCACCTTTTTCACA
3555979 AAAATTCCCAGAAT-TACACCTTTTTCACA
1 AAAATTCCCAGAATGT-CACCTTTTTCACA
3556008 AAAATTCCCAGAATGTCAC
1 AAAATTCCCAGAATGTCAC
3556027 TAGGTCAGGT
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
28 16 0.17
29 75 0.82
30 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (29 bp):
AAAATTCCCAGAATGTCACCTTTTTCACA
Found at i:3563425 original size:28 final size:29
Alignment explanation
Indices: 3563366--3563496 Score: 155
Period size: 28 Copynumber: 4.7 Consensus size: 29
3563356 TCCACATTCG
3563366 AAAATTCCCA-AATTGTCA--TTTTTCACA
1 AAAATTCCCAGAA-TGTCACCTTTTTCACA
*
3563393 AAAATTCCCAGAATGTCACCTTTTCCAC-
1 AAAATTCCCAGAATGTCACCTTTTTCACA
*
3563421 AAAATTCCTAGAATGTCA-CTTTTTCACA
1 AAAATTCCCAGAATGTCACCTTTTTCACA
* * * *
3563449 AAAATTCCCATACTGTTACATTTTTCACA
1 AAAATTCCCAGAATGTCACCTTTTTCACA
*
3563478 AAAATTTCCAGAATGTCAC
1 AAAATTCCCAGAATGTCAC
3563497 TGGGTCGGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
27 23 0.26
28 33 0.38
29 31 0.36
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (29 bp):
AAAATTCCCAGAATGTCACCTTTTTCACA
Found at i:3563524 original size:17 final size:17
Alignment explanation
Indices: 3563498--3563538 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
3563488 GAATGTCACT
*
3563498 GGGTCGGTCAACGGGTC
1 GGGTCAGTCAACGGGTC
3563515 GGGTCAGTCAACGGGTC
1 GGGTCAGTCAACGGGTC
*
3563532 GGTTCAG
1 GGGTCAG
3563539 ACCGGTCAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.22, G:0.44, T:0.20
Consensus pattern (17 bp):
GGGTCAGTCAACGGGTC
Found at i:3579032 original size:17 final size:17
Alignment explanation
Indices: 3579010--3579044 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
3579000 CACTTCGGCA
3579010 TGCCACCACCCTCGCCG
1 TGCCACCACCCTCGCCG
3579027 TGCCACCACCCTCGCCG
1 TGCCACCACCCTCGCCG
3579044 T
1 T
3579045 CTCCGCCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.57, G:0.17, T:0.14
Consensus pattern (17 bp):
TGCCACCACCCTCGCCG
Found at i:3580355 original size:2 final size:2
Alignment explanation
Indices: 3580348--3580375 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3580338 GTAACCCATA
3580348 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3580376 GAACTAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3589452 original size:12 final size:12
Alignment explanation
Indices: 3589423--3589457 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
3589413 ATAATATGAT
*
3589423 TTTTCAAACATTG
1 TTTTCAAA-ATAG
3589436 TTTTCAAAATAG
1 TTTTCAAAATAG
3589448 TTTTCAAAAT
1 TTTTCAAAAT
3589458 TTTCCCATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (12 bp):
TTTTCAAAATAG
Found at i:3590887 original size:24 final size:23
Alignment explanation
Indices: 3590839--3590888 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 23
3590829 TGTTAAAACA
3590839 TTTTGGATGTTTTTGGATTTATG
1 TTTTGGATGTTTTTGGATTTATG
3590862 TTTTGGATG-TTTTGGATATTTATG
1 TTTTGGATGTTTTTGG--ATTTATG
3590886 TTT
1 TTT
3590889 GAATGGTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 6 0.24
23 9 0.36
24 10 0.40
ACGTcount: A:0.14, C:0.00, G:0.24, T:0.62
Consensus pattern (23 bp):
TTTTGGATGTTTTTGGATTTATG
Found at i:3590906 original size:23 final size:24
Alignment explanation
Indices: 3590855--3590906 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
3590845 ATGTTTTTGG
* * *
3590855 ATTTATGTTTTGGATGTTTTGGAT
1 ATTTATGTTTTGAATGGTTTGAAT
3590879 ATTTATG-TTTGAATGGTTTGAAT
1 ATTTATGTTTTGAATGGTTTGAAT
*
3590902 TTTTA
1 ATTTA
3590907 ATTATAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (24 bp):
ATTTATGTTTTGAATGGTTTGAAT
Found at i:3591069 original size:30 final size:30
Alignment explanation
Indices: 3590996--3591056 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
3590986 ACACATTATT
*
3590996 TATGAATATTGACTATGAACTAATGGCTAA
1 TATGAATATTGATTATGAACTAATGGCTAA
3591026 TATGAATATTGATTATGAACTAATGGCTAA
1 TATGAATATTGATTATGAACTAATGGCTAA
3591056 T
1 T
3591057 CTTTCTCTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.36
Consensus pattern (30 bp):
TATGAATATTGATTATGAACTAATGGCTAA
Found at i:3595812 original size:15 final size:15
Alignment explanation
Indices: 3595792--3595822 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3595782 CAACAAATAG
3595792 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
3595807 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
3595822 A
1 A
3595823 TTTAGAATTT
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:3597128 original size:490 final size:489
Alignment explanation
Indices: 3596229--3597164 Score: 1479
Period size: 490 Copynumber: 1.9 Consensus size: 489
3596219 AGAAAACCTT
* *
3596229 AAACATCAAGTTTGAGCAATTCAAGCCAATTTTCATTCAATATTCATTTTGCTTTCAAGAACACT
1 AAACATCAAGTTTGAGCAATTCAAGCCAATTTTCATTCAATATTCATTATGCTTTCAAGAACACC
* *
3596294 ACTTGTACTCAATTGTATTCATTCTTGAGTGTTCTTTCTTTGTTCTAGAATTGTGCAAACATCTT
66 ACTTGTACTCAATTATATTCATTCTTGAGTGTTCTTTCTTTGTTCTAGAATTGAGCAAACATCTT
*
3596359 GCATAGTGAGGTTTTTCTGTAAGTTTGCGAAATTTGTGATATTCTCTTTGGGAGAGAGTGTTCTC
131 ACATAGTGAGGTTTTTCTGTAAGTTTGCGAAATTTGTGATATTCTCTTTGGGAGAGAGTGTTCTC
*
3596424 AAGAATTTAGGGTATAATTCTTGAGGGAGTTGTAAGGTTACTCTTTGTCCTCAAAAGAAATAACA
196 AAGAATTTAGGGTATAATTCTTGAGGGAGTTGTAAGGTTACTCTTTGTCCTCAAAAGAAAGAACA
3596489 AATTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAAGGTAGTGAACGTAGACTTTGGTT
261 AATTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAAGGTAGTGAACGTAGACTTTGGTT
* *
3596554 CAGAAAGTCGAACTACTCTAAATCGCTGTGCAAATATTTTATATTTTCTGCAAAAGCTTCCACCA
326 CAGAAAGTCGAACCACTCTAAATCGATGTGCAAATATTTTATATTTTCTGCAAAAGCTTCCACCA
** *
3596619 AAATTTTAATTGTCAATTCACCCCCTAC-TGG-CTATTTCATCGATCGATTAACTCAATAACAAG
391 AAATTTTAATTACCAATTCACCCCCT-CTTGGCCTA-TTAATCGATCGATTAACTCAATAACAAG
3596682 AAACAAGAATCAAGAGAGAATCAAAGAGAAAGTATC
454 AAACAAGAATCAAGAGAGAATCAAAGAGAAAGTATC
* * *
3596718 AAACCTCAAGTTTGAGCATTTCAAGCCTATTTTCATTCAATATTCATTATGCTTTCAAGAACACC
1 AAACATCAAGTTTGAGCAATTCAAGCCAATTTTCATTCAATATTCATTATGCTTTCAAGAACACC
* * * *
3596783 ATTTGTACTCAATTATATTTATTCTTGGGTGTTCTTTCTTTGTTCTAGAATTGAGTAAACAATC-
66 ACTTGTACTCAATTATATTCATTCTTGAGTGTTCTTTCTTTGTTCTAGAATTGAGCAAAC-ATCT
* * *
3596847 TACCTCGTGAGGTTTTTCTGTAAAGTTTGCGAAATTTGT-ATTCTTCTCTTTGGGAGAGAGTGTT
130 TACATAGTGAGGTTTTTCTGT-AAGTTTGCGAAATTTGTGA-TATTCTCTTTGGGAGAGAGTGTT
* *
3596911 CTCAAGAATTTGGGGTATAATTCTTGAGGGAGTTGTAAGGTTACTCTTTGTCCTCACAAGAAAGA
193 CTCAAGAATTTAGGGTATAATTCTTGAGGGAGTTGTAAGGTTACTCTTTGTCCTCAAAAGAAAGA
* *
3596976 ACAAATTAGTGAATTTGTTGGAAAATCCTTATTGTGGATAGCTAAGGTAGTGGACGTAGACTTTG
258 ACAAATTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAAGGTAGTGAACGTAGACTTTG
* * * * *
3597041 GTTGAGAAAGTCGAACCACTCTAAATC-AT-TGTAATTTTTTTTTCAATTTTCTGCAAAAGCTTC
323 GTTCAGAAAGTCGAACCACTCTAAATCGATGTGCAAATATTTTAT--ATTTTCTGCAAAAGCTTC
* *
3597104 CATCAAAATTTTTATTACCAATTCACCCCCTCTTGGCCTATTAATCGATCGATTAACTCAA
386 CACCAAAATTTTAATTACCAATTCACCCCCTCTTGGCCTATTAATCGATCGATTAACTCAA
3597165 CACACATAGT
Statistics
Matches: 408, Mismatches: 32, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
488 10 0.02
489 135 0.33
490 260 0.64
491 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.36
Consensus pattern (489 bp):
AAACATCAAGTTTGAGCAATTCAAGCCAATTTTCATTCAATATTCATTATGCTTTCAAGAACACC
ACTTGTACTCAATTATATTCATTCTTGAGTGTTCTTTCTTTGTTCTAGAATTGAGCAAACATCTT
ACATAGTGAGGTTTTTCTGTAAGTTTGCGAAATTTGTGATATTCTCTTTGGGAGAGAGTGTTCTC
AAGAATTTAGGGTATAATTCTTGAGGGAGTTGTAAGGTTACTCTTTGTCCTCAAAAGAAAGAACA
AATTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAAGGTAGTGAACGTAGACTTTGGTT
CAGAAAGTCGAACCACTCTAAATCGATGTGCAAATATTTTATATTTTCTGCAAAAGCTTCCACCA
AAATTTTAATTACCAATTCACCCCCTCTTGGCCTATTAATCGATCGATTAACTCAATAACAAGAA
ACAAGAATCAAGAGAGAATCAAAGAGAAAGTATC
Found at i:3598412 original size:16 final size:17
Alignment explanation
Indices: 3598386--3598421 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
3598376 TCCTTCAAAA
*
3598386 TTTTCTCTTTCTTTTGT
1 TTTTCTCTTTCTTTTCT
3598403 TTTTCT-TTTCTTTTCT
1 TTTTCTCTTTCTTTTCT
3598419 TTT
1 TTT
3598422 CATTTGACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.81
Consensus pattern (17 bp):
TTTTCTCTTTCTTTTCT
Found at i:3602417 original size:30 final size:30
Alignment explanation
Indices: 3602359--3602417 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
3602349 CATTTCTTGG
3602359 TTCTGGGTTTTCGTATTTTCCATTTTGTTT
1 TTCTGGGTTTTCGTATTTTCCATTTTGTTT
*
3602389 TTCTGGGTTTTTGTATTTTCCATTTTGTT
1 TTCTGGGTTTTCGTATTTTCCATTTTGTT
3602418 CATTGCTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.07, C:0.12, G:0.17, T:0.64
Consensus pattern (30 bp):
TTCTGGGTTTTCGTATTTTCCATTTTGTTT
Found at i:3605104 original size:24 final size:22
Alignment explanation
Indices: 3605077--3605169 Score: 64
Period size: 24 Copynumber: 3.9 Consensus size: 22
3605067 ACAAATAACT
3605077 AAAGTATATAGTAATAAAATATTA
1 AAAGTATATA-TAATAAAATA-TA
* *
3605101 AAAGTACATATAGATAATA-ATA
1 AAAGTATATATA-ATAAAATATA
3605123 AAA-TATAGTAGTAATATAGAATATA
1 AAAGTATA-TA-TAATA-A-AATATA
*
3605148 AACATGTATATATATTAAAATA
1 AA-A-GTATATATAATAAAATA
3605170 CCGAATGGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
21 3 0.05
22 10 0.18
23 6 0.11
24 19 0.35
25 6 0.11
26 5 0.09
27 2 0.04
28 4 0.07
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (22 bp):
AAAGTATATATAATAAAATATA
Found at i:3607129 original size:106 final size:106
Alignment explanation
Indices: 3606771--3607408 Score: 920
Period size: 106 Copynumber: 6.0 Consensus size: 106
3606761 AGTATTGTTC
* * * * *
3606771 CGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGTTCTGGAAA-TGGGAAATTGTATATTGAC
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-AAAACTGGGAAATTGTTTGTTGAC
* *
3606835 AACCAGTGGTCCCTTCGTCGTGAAG-TGAACTTGTGCTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
* *
3606876 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAACTGGGAAATTGTTTGTTGACA
* *
3606941 ACCAGCCGTCCCTTCGTTGTGAAGTTTGAACTTGTGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAG-TTGAACTTGTGTTGTCT
* * * *
3606983 CGAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTAAAACTAGAAAATTATTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAACTGGGAAATTGTTTGTTGACA
* * *
3607048 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGCCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
* *
3607089 CGAGCCCAATATCTTTCGCTGTGAAGTTGAAATTGGCTCTAAAACTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAACTGGGAAATTGTTTGTTGACA
* *
3607154 ACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGTGTTGCCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
* * *
3607195 CAAGCCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAACTGGGAAATTGTTTGTTGAAA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAACTGGGAAATTGTTTGTTGACA
* * * *
3607260 ACCAACGGTCCCTTCATCGTGAAGTTAAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
* * * * * *
3607301 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAACTGGGAAATTGTTTGTTGACA
*
3607366 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
3607407 CG
1 CG
3607409 CTTCGAACTA
Statistics
Matches: 488, Mismatches: 42, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
104 4 0.01
105 77 0.16
106 309 0.63
107 98 0.20
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTAAAACTGGGAAATTGTTTGTTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCT
Found at i:3607525 original size:37 final size:37
Alignment explanation
Indices: 3607475--3607580 Score: 169
Period size: 37 Copynumber: 2.9 Consensus size: 37
3607465 TTGCTTCGAG
3607475 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCCAAA
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCCAAA
*
3607512 AGAAACTGTCTCAAGGGAGACAAAACTTAG-TTCCAAA
1 AGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCCAAA
* *
3607549 AGAAACTATCTCAAGGGAGACGAAATTTGTTT
1 AGAAACTGTCTCAAGGGAGACAAAATTTGTTT
3607581 TAAGGAAAAC
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
36 3 0.05
37 57 0.90
38 3 0.05
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.24
Consensus pattern (37 bp):
AGAAACTGTCTCAAGGGAGACAAAATTTGTTTCCAAA
Found at i:3607679 original size:89 final size:87
Alignment explanation
Indices: 3607522--3607702 Score: 274
Period size: 89 Copynumber: 2.1 Consensus size: 87
3607512 AGAAACTGTC
* *
3607522 TCAAGGGAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGGGAGACGAAATTTGTTTTAAGGA
1 TCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGGGAGACGAAATTAGTTTTAAGGA
3607587 AAACATATTCAAAGATTTTTTGTT
66 AAACATATTCAAAGA--TTTTGTT
* * * *
3607611 TCAAGAGAGACAAAACTTTGTTCTAAAAGAAACTGTCTCAAGGGAGACGAAATTAG-TTTAATGT
1 TCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGGGAGACGAAATTAGTTTTAA-GG
3607675 AAAACATATTCAAAGATTTTGTT
65 AAAACATATTCAAAGATTTTGTT
3607698 TCAAG
1 TCAAG
3607703 GGAAACTGTT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
87 12 0.14
88 5 0.06
89 68 0.80
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (87 bp):
TCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGGGAGACGAAATTAGTTTTAAGGA
AAACATATTCAAAGATTTTGTT
Found at i:3607719 original size:30 final size:30
Alignment explanation
Indices: 3607683--3607741 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
3607673 GTAAAACATA
* *
3607683 TTCAAAGATTT-TGTTTCAAGGGAAACTGTT
1 TTCAAAG-TTTATGTCTCAAGAGAAACTGTT
3607713 TTCAAAGTTTATGTCTCAAGAGAAACTGT
1 TTCAAAGTTTATGTCTCAAGAGAAACTGT
3607742 CTCAAGGGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (30 bp):
TTCAAAGTTTATGTCTCAAGAGAAACTGTT
Found at i:3607775 original size:36 final size:36
Alignment explanation
Indices: 3607728--3607869 Score: 131
Period size: 36 Copynumber: 3.7 Consensus size: 36
3607718 AGTTTATGTC
* * *
3607728 TCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTT
1 TCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTT
**
3607764 TCAAGGGAAACTATCTCAAGAGAGACAAAATTCATT
1 TCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTT
* *
3607800 TCAAGGGAAATGTTTTCAATGTCTCAAGGGAGACAAAATTTTGTT
1 TCAAGGGAAA------C--TATCTCAAGAGAGACAAAA-TTTGTT
*
3607845 TCAAGGAAAACTATCTCAAGAGAGA
1 TCAAGGGAAACTATCTCAAGAGAGA
3607870 AAGAAAAAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 17
0.75 0.11 0.15
Matches are distributed among these distances:
36 41 0.48
37 12 0.14
39 1 0.01
42 1 0.01
44 17 0.20
45 13 0.15
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.25
Consensus pattern (36 bp):
TCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTT
Found at i:3607831 original size:80 final size:85
Alignment explanation
Indices: 3607739--3607909 Score: 262
Period size: 88 Copynumber: 2.0 Consensus size: 85
3607729 CAAGAGAAAC
* *
3607739 TGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTATCTC-A-AGAG-AG-ACAAAATTCAT
1 TGTCTCAAGGGAGACAAAATTTTGTTTCAAGGAAAACTATCTCAAGAGAGAAGAAAAAAATTCAT
3607799 TTCAAGGGAAATGTTTTCAA
66 TTCAAGGGAAATGTTTTCAA
3607819 TGTCTCAAGGGAGACAAAATTTTGTTTCAAGGAAAACTATCTCAAGAGAGAAAGAAAAAAAAATT
1 TGTCTCAAGGGAGACAAAATTTTGTTTCAAGGAAAACTATCTCAAGAGAG-AAG--AAAAAAATT
3607884 CATTTCAAGGGAAATGTTTTCAA
63 CATTTCAAGGGAAATGTTTTCAA
3607907 TGT
1 TGT
3607910 TTATGTTTCA
Statistics
Matches: 81, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
80 19 0.23
81 22 0.27
82 1 0.01
83 4 0.05
85 2 0.02
88 33 0.41
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.27
Consensus pattern (85 bp):
TGTCTCAAGGGAGACAAAATTTTGTTTCAAGGAAAACTATCTCAAGAGAGAAGAAAAAAATTCAT
TTCAAGGGAAATGTTTTCAA
Found at i:3609548 original size:183 final size:183
Alignment explanation
Indices: 3609240--3609593 Score: 613
Period size: 183 Copynumber: 1.9 Consensus size: 183
3609230 ATCAGGTTTA
*
3609240 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTAGCAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTAGCAAAAGCAGTGGAGCAAACACCGAATT
* **
3609305 GCCAAGTGTCCGAGCTATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCTATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
*
3609370 TCCTCTATAACCAATTGCCTTAGTGGAATATCTCAGCTTTAGAGGGATAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGATAAATC
*
3609423 ACTGAAGGGTTCGTCTCATCACAAAGTCTTTGACCT-GACAAAAGCAGTGGAGCAAACACCGAAT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTAG-CAAAAGCAGTGGAGCAAACACCGAAT
*
3609487 TGCCAAGTGTCCGAGC-AGTGTCATAGTTTGAACATAATCTATTCATAAAGTCAGGGCTTTCGAG
65 TGCCAAGTGTCCGAGCTA-TGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAG
3609551 TTTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
129 TTTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
3609594 CGGATTTAAT
Statistics
Matches: 162, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
182 2 0.01
183 160 0.99
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTAGCAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCTATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGATAAATC
Found at i:3613619 original size:21 final size:20
Alignment explanation
Indices: 3613586--3613627 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
3613576 ACATAAAGAA
3613586 AATAAAATAAAGAAGAAAAAG
1 AATAAAATAAAG-AGAAAAAG
*
3613607 AATAAAA-ACAAGATAAAAAG
1 AATAAAATA-AAGAGAAAAAG
3613627 A
1 A
3613628 GCAAAGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (20 bp):
AATAAAATAAAGAGAAAAAG
Found at i:3613894 original size:24 final size:22
Alignment explanation
Indices: 3613867--3613959 Score: 64
Period size: 24 Copynumber: 3.9 Consensus size: 22
3613857 ACAAATAACT
3613867 AAAGTATATAGTAATAAAATATTA
1 AAAGTATATA-TAATAAAATA-TA
* *
3613891 AAAGTACATATAGATAATA-ATA
1 AAAGTATATATA-ATAAAATATA
3613913 AAA-TATAGTAGTAATATAGAATATA
1 AAAGTATA-TA-TAATA-A-AATATA
*
3613938 AACATGTATATATATTAAAATA
1 AA-A-GTATATATAATAAAATA
3613960 CCGAATGGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
21 3 0.05
22 10 0.18
23 6 0.11
24 19 0.35
25 6 0.11
26 5 0.09
27 2 0.04
28 4 0.07
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (22 bp):
AAAGTATATATAATAAAATATA
Found at i:3625573 original size:273 final size:274
Alignment explanation
Indices: 3625086--3625630 Score: 1083
Period size: 273 Copynumber: 2.0 Consensus size: 274
3625076 TTTAATGTCA
3625086 AACTGTTGCAAATTCCATCCCTGAATAGCTACTAAGGACAGTAGGACTCTCACTGTGTTCATCTT
1 AACTGTTGCAAATTCCATCCCTGAATAGCTACTAAGGACAGTAGGACTCTCACTGTGTTCATCTT
3625151 TGCAACATGGGCAAATGTCTCAAGGTAATCTATCCCATAGGTTTGAAAGTACCCCTTTGCCACCA
66 TGCAACATGGGCAAATGTCTCAAGGTAATCTATCCCATAGGTTTGAAAGTACCCCTTTGCCACCA
3625216 ACCTTACTTTGTACCTTTCTAAAGAGCCATCTGAGTTATACTTGACTGTGAACACCCATCTGCAT
131 ACCTTACTTTGTACCTTTCTAAAGAGCCATCTGAGTTATACTTGACTGTGAACACCCATCTGCAT
3625281 CCCACTGTTTTCTTCCCTTCTGACAGCTATACTAAGTCTCATGTTTTATT-TTTTCCAGCGCTTC
196 CCCACTGTTTTCTTCCCTTCTGACAGCTATACTAAGTCTCATGTTTTATTCTTTTCCAGCGCTTC
3625345 CATTTCATCTTTGT
261 CATTTCATCTTTGT
3625359 AACTGTTGCAAATTCCATCCCTGAATAGCTACTAAGGACAGTAGGACTCTCACTGTGTTCATCTT
1 AACTGTTGCAAATTCCATCCCTGAATAGCTACTAAGGACAGTAGGACTCTCACTGTGTTCATCTT
3625424 TGCAACATGGGCAAATGTCTCAAGGTAATCTATCCCATAGGTTTGAAAGTACCCCTTTGCCACCA
66 TGCAACATGGGCAAATGTCTCAAGGTAATCTATCCCATAGGTTTGAAAGTACCCCTTTGCCACCA
3625489 ACCTTACTTTGTACCTTTCTAAAGAGCCATCTGAGTTATACTTGACTGTGAACACCCATCTGCAT
131 ACCTTACTTTGTACCTTTCTAAAGAGCCATCTGAGTTATACTTGACTGTGAACACCCATCTGCAT
3625554 CCCACTGTTTTCTTCCCTTCTGACAGCTATACTAAGTCTCATGTTTTATTCTTTTCCAGCGCTTC
196 CCCACTGTTTTCTTCCCTTCTGACAGCTATACTAAGTCTCATGTTTTATTCTTTTCCAGCGCTTC
3625619 CATTTCATCTTT
261 CATTTCATCTTT
3625631 CATAGCCTTT
Statistics
Matches: 271, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
273 245 0.90
274 26 0.10
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (274 bp):
AACTGTTGCAAATTCCATCCCTGAATAGCTACTAAGGACAGTAGGACTCTCACTGTGTTCATCTT
TGCAACATGGGCAAATGTCTCAAGGTAATCTATCCCATAGGTTTGAAAGTACCCCTTTGCCACCA
ACCTTACTTTGTACCTTTCTAAAGAGCCATCTGAGTTATACTTGACTGTGAACACCCATCTGCAT
CCCACTGTTTTCTTCCCTTCTGACAGCTATACTAAGTCTCATGTTTTATTCTTTTCCAGCGCTTC
CATTTCATCTTTGT
Found at i:3628860 original size:12 final size:12
Alignment explanation
Indices: 3628843--3628867 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3628833 TTAATCATAT
3628843 GGTATGTGGGTA
1 GGTATGTGGGTA
3628855 GGTATGTGGGTA
1 GGTATGTGGGTA
3628867 G
1 G
3628868 AAGACCCCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (12 bp):
GGTATGTGGGTA
Found at i:3633107 original size:21 final size:21
Alignment explanation
Indices: 3633083--3633129 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
3633073 TGGGGGTGGG
*
3633083 GGTGGTGATGGAGATGATGAA
1 GGTGGGGATGGAGATGATGAA
* * *
3633104 GGTGGGGGTGGAGGTGGTGAA
1 GGTGGGGATGGAGATGATGAA
3633125 GGTGG
1 GGTGG
3633130 CAAAGGTGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.60, T:0.21
Consensus pattern (21 bp):
GGTGGGGATGGAGATGATGAA
Found at i:3643122 original size:23 final size:23
Alignment explanation
Indices: 3643096--3643162 Score: 116
Period size: 23 Copynumber: 2.9 Consensus size: 23
3643086 ATTGAACATA
* *
3643096 TAAACGAACATGTCCATGAATGC
1 TAAAGGAACATGTTCATGAATGC
3643119 TAAAGGAACATGTTCATGAATGC
1 TAAAGGAACATGTTCATGAATGC
3643142 TAAAGGAACATGTTCATGAAT
1 TAAAGGAACATGTTCATGAAT
3643163 ATGTTCGTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.25
Consensus pattern (23 bp):
TAAAGGAACATGTTCATGAATGC
Found at i:3643187 original size:24 final size:23
Alignment explanation
Indices: 3643160--3643204 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
3643150 CATGTTCATG
* *
3643160 AATATGTTCGTGAACATATAAACA
1 AATACGTTAGTGAACAT-TAAACA
3643184 AATACGTTAGTGAACATTAAA
1 AATACGTTAGTGAACATTAAA
3643205 TGAACACGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (23 bp):
AATACGTTAGTGAACATTAAACA
Found at i:3643213 original size:23 final size:25
Alignment explanation
Indices: 3643165--3643227 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 25
3643155 TCATGAATAT
*
3643165 GTTC-GTGAACATATAAACAAATAC
1 GTTCAGTGAACATATAAACAAACAC
**
3643189 GTT-AGTGAACAT-TAAATGAACAC
1 GTTCAGTGAACATATAAACAAACAC
3643212 GTTCA-TGAACAATATA
1 GTTCAGTGAAC-ATATA
3643228 TAAAGGAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 16 0.50
24 14 0.44
25 2 0.06
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.27
Consensus pattern (25 bp):
GTTCAGTGAACATATAAACAAACAC
Found at i:3643254 original size:23 final size:23
Alignment explanation
Indices: 3643227--3643294 Score: 127
Period size: 23 Copynumber: 3.0 Consensus size: 23
3643217 TGAACAATAT
3643227 ATAAAGGAACATGTTCATGAATG
1 ATAAAGGAACATGTTCATGAATG
*
3643250 CTAAAGGAACATGTTCATGAATG
1 ATAAAGGAACATGTTCATGAATG
3643273 ATAAAGGAACATGTTCATGAAT
1 ATAAAGGAACATGTTCATGAAT
3643295 ATGTTCGTGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (23 bp):
ATAAAGGAACATGTTCATGAATG
Found at i:3643323 original size:109 final size:109
Alignment explanation
Indices: 3643119--3643331 Score: 268
Period size: 109 Copynumber: 2.0 Consensus size: 109
3643109 CCATGAATGC
***
3643119 TAAAGGAACATGTTCATGAATGCTAAAGGAACATGTTCATGAATATGTTCGTGAACATATAAACA
1 TAAAGGAACATGTTCATGAATGCTAAAGGAACATGTTCATGAATATGAAAGTGAACATATAAACA
**
3643184 AATACGTTAGTGAACATTAAATGAACACGTTCATGAACAATATA
66 AATACGTTAGTGAACATTAAACAAACACGTTCATGAACAATATA
* ** *
3643228 TAAAGGAACATGTTCATGAATGCTAAAGGAACATGTTCATGAATGAT-AAAG-GAACATGTTCAT
1 TAAAGGAACATGTTCATGAATGCTAAAGGAACATGTTCATGAAT-ATGAAAGTGAACATATAAAC
* * * * *
3643291 GAATATGTTCGTGAACATATAAACAAATACGTTCGTGAACA
65 AAATACGTTAGTGAACAT-TAAACAAACACGTTCATGAACA
3643332 TTAAATGAAC
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
108 23 0.26
109 63 0.72
110 2 0.02
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (109 bp):
TAAAGGAACATGTTCATGAATGCTAAAGGAACATGTTCATGAATATGAAAGTGAACATATAAACA
AATACGTTAGTGAACATTAAACAAACACGTTCATGAACAATATA
Found at i:3643330 original size:132 final size:132
Alignment explanation
Indices: 3643093--3643369 Score: 509
Period size: 132 Copynumber: 2.1 Consensus size: 132
3643083 AAAATTGAAC
*
3643093 ATATAAACGAACATGTCCATGAATGCTAAAGGAACATGTTCATGAATGCTAAAGGAACATGTTCA
1 ATATAAACGAACATGTCCATGAATGCTAAAGGAACATGTTCATGAATGATAAAGGAACATGTTCA
3643158 TGAATATGTTCGTGAACATATAAACAAATACGTTAGTGAACATTAAATGAACACGTTCATGAACA
66 TGAATATGTTCGTGAACATATAAACAAATACGTTAGTGAACATTAAATGAACACGTTCATGAACA
3643223 AT
131 AT
* *
3643225 ATATAAAGGAACATGTTCATGAATGCTAAAGGAACATGTTCATGAATGATAAAGGAACATGTTCA
1 ATATAAACGAACATGTCCATGAATGCTAAAGGAACATGTTCATGAATGATAAAGGAACATGTTCA
*
3643290 TGAATATGTTCGTGAACATATAAACAAATACGTTCGTGAACATTAAATGAACACGTTCATGAACA
66 TGAATATGTTCGTGAACATATAAACAAATACGTTAGTGAACATTAAATGAACACGTTCATGAACA
3643355 AT
131 AT
*
3643357 AAATAAACGAACA
1 ATATAAACGAACA
3643370 CAATATTAGA
Statistics
Matches: 139, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 139 1.00
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.26
Consensus pattern (132 bp):
ATATAAACGAACATGTCCATGAATGCTAAAGGAACATGTTCATGAATGATAAAGGAACATGTTCA
TGAATATGTTCGTGAACATATAAACAAATACGTTAGTGAACATTAAATGAACACGTTCATGAACA
AT
Found at i:3643345 original size:23 final size:23
Alignment explanation
Indices: 3643297--3643364 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
3643287 TCATGAATAT
* *
3643297 GTTCGTGAACATATAAACAAATAC
1 GTTCGTGAACAT-TAAATAAACAC
*
3643321 GTTCGTGAACATTAAATGAACAC
1 GTTCGTGAACATTAAATAAACAC
* *
3643344 GTTCATGAACAATAAATAAAC
1 GTTCGTGAACATTAAATAAAC
3643365 GAACACAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
23 26 0.68
24 12 0.32
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (23 bp):
GTTCGTGAACATTAAATAAACAC
Found at i:3645255 original size:16 final size:18
Alignment explanation
Indices: 3645234--3645271 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
3645224 ACGTTTTTTT
3645234 AAAACAATTT-TAAGA-A
1 AAAACAATTTATAAGACA
*
3645250 AAAACATTTTATAAGACA
1 AAAACAATTTATAAGACA
3645268 AAAA
1 AAAA
3645272 TTGGTTTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 5 0.26
18 5 0.26
ACGTcount: A:0.63, C:0.08, G:0.05, T:0.24
Consensus pattern (18 bp):
AAAACAATTTATAAGACA
Found at i:3647227 original size:14 final size:14
Alignment explanation
Indices: 3647208--3647248 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
3647198 CTGCAAAATG
3647208 TAATAATAATTTAA
1 TAATAATAATTTAA
* *
3647222 TAATAATAATATAC
1 TAATAATAATTTAA
3647236 TAATAATATATTT
1 TAATAATA-ATTT
3647249 GTAGACCCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 20 0.87
15 3 0.13
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (14 bp):
TAATAATAATTTAA
Found at i:3647534 original size:21 final size:21
Alignment explanation
Indices: 3647508--3647549 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
3647498 CTCCGCGATA
*
3647508 AAGACGGTTGGTTGTTTAGGG
1 AAGACGATTGGTTGTTTAGGG
3647529 AAGACGATTGGTTGTTTAGGG
1 AAGACGATTGGTTGTTTAGGG
3647550 GTGACACGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.40, T:0.33
Consensus pattern (21 bp):
AAGACGATTGGTTGTTTAGGG
Found at i:3648075 original size:2 final size:2
Alignment explanation
Indices: 3648068--3648094 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3648058 CACAAATATA
3648068 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
3648095 TACATATATA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3650479 original size:66 final size:65
Alignment explanation
Indices: 3650324--3650528 Score: 175
Period size: 66 Copynumber: 3.1 Consensus size: 65
3650314 CTTTAGGGAT
* * * *
3650324 TTGTTTCAAGGGAAACATACTCAAAGATGATGCTTCAAGAA-AAGTTTTCTCAAGAGAGACAAAA
1 TTGTTTCAAGGGAAACAT-CTCAAAGATGGTGTTTCAAGAAGAAATTATCTCAAGAGAGACAAAA
3650388 -
65 C
* ** * * * *
3650388 TTCATTTTGAGGGTAACGATATCAAAGATAGGTGTTTCAA-AAGAAACTATCTCAAGGGAGACAA
1 TT-GTTTCAAGGGAAAC-ATCTCAAAGAT-GGTGTTTCAAGAAGAAATTATCTCAAGAGAGACAA
3650452 AAC
63 AAC
* * **
3650455 TTGTTTCAAGGGAAACAATCTCAAATGTTGGT-TTTTAATTAGAAATTATCTCAAGAGAGACAAA
1 TTGTTTCAAGGGAAAC-ATCTCAAA-GATGGTGTTTCAAGAAGAAATTATCTCAAGAGAGAC-AA
3650519 AAC
63 AAC
3650522 TTTGTTT
1 -TTGTTT
3650529 TGAGTAAAAA
Statistics
Matches: 110, Mismatches: 22, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
64 2 0.02
65 25 0.23
66 68 0.62
67 9 0.08
68 6 0.05
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.29
Consensus pattern (65 bp):
TTGTTTCAAGGGAAACATCTCAAAGATGGTGTTTCAAGAAGAAATTATCTCAAGAGAGACAAAAC
Found at i:3654315 original size:2 final size:2
Alignment explanation
Indices: 3654308--3654349 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
3654298 GCATCCAAAC
3654308 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
3654350 CATACATATT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.