Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007721.1 Hibiscus syriacus cultivar Beakdansim tig00109957_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: 3738426
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 16
Found at i:2172290 original size:25 final size:25
Alignment explanation
Indices: 2172249--2172311 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
2172239 AGTATTAAAT
2172249 AAAAATA-ATAATAGAAAAATA-AG
1 AAAAATATATAATAGAAAAATATAG
*
2172272 AAAAATATATATATAGAAACATATAG
1 AAAAATATATA-ATAGAAAAATATAG
2172298 AACAAA-ATATAATA
1 AA-AAATATATAATA
2172312 ACAAAACATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
23 7 0.20
24 3 0.09
25 13 0.37
26 9 0.26
27 3 0.09
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.22
Consensus pattern (25 bp):
AAAAATATATAATAGAAAAATATAG
Found at i:2174029 original size:106 final size:107
Alignment explanation
Indices: 2173846--2174077 Score: 340
Period size: 106 Copynumber: 2.2 Consensus size: 107
2173836 ATCTTCTGTC
* * * * **
2173846 GTGAAGTTGAAGTTGGTTCTGGAACTGGGAAATTGTTTTGTTGACAGTCAGCCGTCCCTTCGTTG
1 GTGAAGTTGAAATTGGCTCCGAAACTGGGAAATTGTTTTGTTGACAACCAGCCGTCCCTTCGTTG
*
2173911 TGAAGTTGAACTTGTGCTGTCTCGAGTCCAATGCCCTTCAAT
66 TGAAGTTGAACTTGTGCTGTCTCGAGTCCAATACCCTTCAAT
*
2173953 GTGAAGTTGAAATTGGCTCCGAAATTGGGAAATTG-TTTGTTGACAACCAGCCGTCCCTTCGTTG
1 GTGAAGTTGAAATTGGCTCCGAAACTGGGAAATTGTTTTGTTGACAACCAGCCGTCCCTTCGTTG
* * * **
2174017 TGAAGTTGAACTTGTGTTGTCTTGAGTCCAATATCCTTCGCT
66 TGAAGTTGAACTTGTGCTGTCTCGAGTCCAATACCCTTCAAT
2174059 GTGAAGTTGAAATTGGCTC
1 GTGAAGTTGAAATTGGCTC
2174078 TAGCTAAAAC
Statistics
Matches: 112, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
106 82 0.73
107 30 0.27
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.34
Consensus pattern (107 bp):
GTGAAGTTGAAATTGGCTCCGAAACTGGGAAATTGTTTTGTTGACAACCAGCCGTCCCTTCGTTG
TGAAGTTGAACTTGTGCTGTCTCGAGTCCAATACCCTTCAAT
Found at i:2174575 original size:67 final size:67
Alignment explanation
Indices: 2174391--2174583 Score: 260
Period size: 67 Copynumber: 2.8 Consensus size: 67
2174381 GTCTTAAAAA
* * * * *
2174391 AGACAAAATTCGTTTCAAGGGAAACGATCTTAAAGATATATGTTGTTTCATGAGAAACGGCCTCA
1 AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGAT-TTTG-TGTTTCAAGAGAAACGGCCTCA
2174456 AGGG
64 AGGG
* * * *
2174460 AGACAAAATTTTGTTTTAAGGGAAATAAACTCAAAGATTTTGTGTTTCAAGAGAAACTGCCTCAA
1 AGACAAAA-TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACGGCCTCAA
2174525 GGG
65 GGG
* *
2174528 AGACGAAATTTGTTTCAAGGGAAACAATCTCAAAGGTTTTGTGTTTCAAGAGAAAC
1 AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAAC
2174584 ATTTTCAAAG
Statistics
Matches: 109, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
67 44 0.40
68 31 0.28
69 11 0.10
70 23 0.21
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (67 bp):
AGACAAAATTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACGGCCTCAAG
GG
Found at i:2174643 original size:36 final size:33
Alignment explanation
Indices: 2174538--2174652 Score: 162
Period size: 33 Copynumber: 3.5 Consensus size: 33
2174528 AGACGAAATT
* *
2174538 TGTTTCAAGGGAAACAATCTCAAAGG--TTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
*
2174569 TGTTTCAAGAGAAACATTTTCAAAGGTTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
2174602 TGTTTCAAGAGAAACAATTTCAAAGGTTTCTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGG--T-TTTTTG
2174638 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
2174653 TGTATCAAGG
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
31 23 0.31
33 30 0.40
35 1 0.01
36 21 0.28
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.37
Consensus pattern (33 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
Found at i:2174793 original size:36 final size:36
Alignment explanation
Indices: 2174693--2175030 Score: 174
Period size: 36 Copynumber: 9.9 Consensus size: 36
2174683 CAAGGATTGA
*
2174693 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * *
2174730 TGTTTTAAGAAAAACATGTCTTAAGAGAGACAAAATT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
*
2174767 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
2174803 TGTTT-AATGTA-AAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATT
* * *
2174832 TGTTTCAAGGGAAACTGTTTTC-A-A-AG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
2174861 ATGTTTCAATAGAAACTGTCTCAA-ATGAGACAAAATT
1 -TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAATT
* *
2174898 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** * * * *
2174934 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* *
2174962 ATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
2175000 TGTTTCAAGGGAAACTATCTCAAGAGAGACA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACA
2175031 GTTTATTTCA
Statistics
Matches: 235, Mismatches: 36, Indels: 60
0.71 0.11 0.18
Matches are distributed among these distances:
28 3 0.01
29 34 0.14
30 28 0.12
32 3 0.01
33 3 0.01
34 2 0.01
35 5 0.02
36 77 0.33
37 61 0.26
38 19 0.08
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.31
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:2174857 original size:30 final size:30
Alignment explanation
Indices: 2174821--2174879 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
2174811 GTAAAACATA
*
2174821 TTCAAAGATTT-TGTTTCAAGGGAAACTGTT
1 TTCAAAG-TTTATGTTTCAAGAGAAACTGTT
*
2174851 TTCAAAGTTTATGTTTCAATAGAAACTGT
1 TTCAAAGTTTATGTTTCAAGAGAAACTGT
2174880 CTCAAATGAG
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:0.10, G:0.17, T:0.41
Consensus pattern (30 bp):
TTCAAAGTTTATGTTTCAAGAGAAACTGTT
Found at i:2175068 original size:100 final size:101
Alignment explanation
Indices: 2174834--2175113 Score: 438
Period size: 100 Copynumber: 2.8 Consensus size: 101
2174824 AAAGATTTTG
* * **
2174834 TTTCAAGGGAAACTGTTTTCAAAGTTTATGTTTCAATAGAAACTGTCTCAAATGAGACAAAA-TT
1 TTTCAAGGGAAA-TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
2174898 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
65 TGTTTCAAGGGAAACTATCTCAAGAGAGAC-AAATTCA
*
2174936 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
* *
2175001 GTTTCAAGGGAAACTATCTCAAGAGAGAC-AGTTTA
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAATTCA
*
2175036 TTTCAAGGGAAATGCTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
* *
2175101 GTTCCATGGGAAA
66 GTTTCAAGGGAAA
2175114 TGTTTTCAAT
Statistics
Matches: 166, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
100 78 0.47
101 44 0.27
102 44 0.27
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (101 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
GTTTCAAGGGAAACTATCTCAAGAGAGACAAATTCA
Found at i:2175134 original size:66 final size:65
Alignment explanation
Indices: 2175000--2175179 Score: 249
Period size: 66 Copynumber: 2.8 Consensus size: 65
2174990 GACAAAATTT
* * * *
2175000 TGTTTCAAGGGAAACTATCTCAAGAGAGAC--AGTTTAT-TTCAAGGGAAATGCTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT-TGTTCAAGGGAAATGCTTTCAATGTTT
2175062 A
65 A
* *
2175063 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCATGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTT-CAAGGGAAATGCTTTCAATGTTT
2175128 A
65 A
*
2175129 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAGATTTTGTTTCAAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTG-TTCAAGGGAAA
2175180 CTATCTCAAG
Statistics
Matches: 104, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
63 27 0.26
64 1 0.01
65 6 0.06
66 68 0.65
67 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCAAGGGAAATGCTTTCAATGTTTA
Found at i:2175134 original size:166 final size:166
Alignment explanation
Indices: 2174898--2175283 Score: 587
Period size: 166 Copynumber: 2.3 Consensus size: 166
2174888 AGACAAAATT
* * *
2174898 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT-TTCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT-TTGTTCAAGGGAAATGTTTTCAATGTTT
*
2174962 ATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
65 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
* *
2175027 GAC-AGTTTATTTCAAGGGAAATGCTTTCAATGTTTA
130 GACAAATTCATTTCAAGGGAAATGCTTTCAATGTTTA
* *
2175063 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCATGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTT-CAAGGGAAATGTTTTCAATGTTT
*
2175128 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAGATTTTGTTTCAAGGGAAACTATCTCAAGAGA
65 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
*
2175193 GACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
130 GAC-AAATTCATTTCAAGGGAAATGCTTTCAATGTTTA
* * *
2175231 TGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAACTTTCTGTTTCGAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTT-TG-TTCAAGGGAAA
2175284 CTATCTCAAG
Statistics
Matches: 200, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
164 1 0.00
165 35 0.17
166 88 0.44
168 62 0.31
169 3 0.01
170 9 0.05
171 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (166 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
ACAAATTCATTTCAAGGGAAATGCTTTCAATGTTTA
Found at i:2175200 original size:103 final size:104
Alignment explanation
Indices: 2175063--2175310 Score: 349
Period size: 102 Copynumber: 2.4 Consensus size: 104
2175053 TCAATGTTTA
* * * *
2175063 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCATGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTTGTT-CAAGGGAAATGTTTTCAATGTTT
* *
2175128 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAGA-TTT-
65 ATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTC
*
2175166 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT-TTCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT-TTGTTCAAGGGAAATGTTTTCAATGTTT
*
2175230 ATGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAACTTTC
65 ATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTC
* * * *
2175270 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTGTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTTGTT
2175311 TTAAGAAAAA
Statistics
Matches: 128, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
102 54 0.42
103 39 0.30
104 35 0.27
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (104 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTTGTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTC
Found at i:2175215 original size:36 final size:37
Alignment explanation
Indices: 2175131--2175215 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
2175121 AATGTTTATG
* * * * **
2175131 TTTCAAGAGAAACTGTCTCAAGGGAGACAAGATTTTG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAGAATTCA
2175168 TTTCAAGGGAAACTATCTCAAGAGAGACAA-AATTCA
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAGAATTCA
2175204 TTTCAAGGGAAA
1 TTTCAAGGGAAA
2175216 TGTTTTCAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 15 0.36
37 27 0.64
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (37 bp):
TTTCAAGGGAAACTATCTCAAGAGAGACAAGAATTCA
Found at i:2176813 original size:183 final size:183
Alignment explanation
Indices: 2176503--2176852 Score: 628
Period size: 183 Copynumber: 1.9 Consensus size: 183
2176493 GGTTTAACTA
*
2176503 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACTGAATTGCCA
1 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
* ** *
2176568 AGTGTCCGAGCAATGTCATGGTTTCAATGTAATCTATTCATAAAGCCAGGGCTTTTGAGTTTCCT
66 AGTGTCCGAGCAATGTCATAGTTTCAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
2176633 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTG
131 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTG
*
2176686 AAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
1 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
* *
2176751 AGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
66 AGTGTCCGAGCAATGTCATAGTTTCAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
2176816 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
2176853 CGGATTTAAT
Statistics
Matches: 159, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
183 159 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (183 bp):
AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
AGTGTCCGAGCAATGTCATAGTTTCAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTG
Found at i:2180853 original size:21 final size:21
Alignment explanation
Indices: 2180815--2180865 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
2180805 ACATAGTATT
2180815 AAATAA-AAATAATAATAGAA
1 AAATAAGAAATAATAATAGAA
2180835 AAATAAGAAAT-ATATATAGAA
1 AAATAAGAAATAATA-ATAGAA
*
2180856 ACATATAGAA
1 AAATA-AGAA
2180866 CAAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 9 0.33
21 14 0.52
22 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.22
Consensus pattern (21 bp):
AAATAAGAAATAATAATAGAA
Found at i:2181054 original size:2 final size:2
Alignment explanation
Indices: 2181047--2181077 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2181037 GTATACTTAA
2181047 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2181078 CTAATATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2186492 original size:21 final size:21
Alignment explanation
Indices: 2186466--2186506 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2186456 AAAATTTTAG
* *
2186466 TGCATCGGTGCATTGTAGCAA
1 TGCATCGGCGCACTGTAGCAA
2186487 TGCATCGGCGCACTGTAGCA
1 TGCATCGGCGCACTGTAGCA
2186507 TTGTTCTCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (21 bp):
TGCATCGGCGCACTGTAGCAA
Found at i:2188310 original size:10 final size:10
Alignment explanation
Indices: 2188295--2188325 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2188285 ATTTAGAACA
2188295 TATGGATTAT
1 TATGGATTAT
*
2188305 TATGGATGAT
1 TATGGATTAT
2188315 TATGGATTAT
1 TATGGATTAT
2188325 T
1 T
2188326 TTGTTTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (10 bp):
TATGGATTAT
Found at i:2190023 original size:18 final size:17
Alignment explanation
Indices: 2189970--2190020 Score: 75
Period size: 18 Copynumber: 2.9 Consensus size: 17
2189960 TTGTTTTAGG
*
2189970 ATAACTTAAACAAATTA
1 ATAATTTAAACAAATTA
*
2189987 ATAATTTAAACTTAATTA
1 ATAATTTAAAC-AAATTA
2190005 ATAATTTAAACAAATT
1 ATAATTTAAACAAATT
2190021 TAAAAAACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 14 0.47
18 16 0.53
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (17 bp):
ATAATTTAAACAAATTA
Found at i:2190099 original size:33 final size:33
Alignment explanation
Indices: 2190059--2190122 Score: 103
Period size: 33 Copynumber: 1.9 Consensus size: 33
2190049 TTATTTTTTA
2190059 AAAAGAAAATA-AAGTTCAATTAACTAAAAAAAG
1 AAAAGAAAATAGAA-TTCAATTAACTAAAAAAAG
*
2190092 AAAAGAAAATAGAATTCGATTAACTAAAAAA
1 AAAAGAAAATAGAATTCAATTAACTAAAAAA
2190123 TTACAAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.66, C:0.06, G:0.09, T:0.19
Consensus pattern (33 bp):
AAAAGAAAATAGAATTCAATTAACTAAAAAAAG
Found at i:2191730 original size:26 final size:26
Alignment explanation
Indices: 2191691--2191741 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
2191681 AATTTATCGT
2191691 CAAAAATTACAATAACATAAACTAAAA
1 CAAAAATTACAATAACATAAA-TAAAA
* *
2191718 CAAAATTTA-AATAATATAAATAAA
1 CAAAAATTACAATAACATAAATAAA
2191742 TAAATTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 4 0.18
26 10 0.45
27 8 0.36
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (26 bp):
CAAAAATTACAATAACATAAATAAAA
Found at i:2192216 original size:14 final size:15
Alignment explanation
Indices: 2192197--2192225 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2192187 GTTCATATCC
2192197 CTTC-AAATAAATAA
1 CTTCAAAATAAATAA
2192211 CTTCAAAATAAATAA
1 CTTCAAAATAAATAA
2192226 ATAAATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (15 bp):
CTTCAAAATAAATAA
Found at i:2192227 original size:23 final size:23
Alignment explanation
Indices: 2192201--2192279 Score: 90
Period size: 23 Copynumber: 3.5 Consensus size: 23
2192191 ATATCCCTTC
*
2192201 AAATAAATAACTTCAAAATAAAT
1 AAATAAATAAATTCAAAATAAAT
2192224 AAATAAATAAATTCAAAATAAAT
1 AAATAAATAAATTCAAAATAAAT
* * *
2192247 AAGTAAATCAAA--CAAAATTATT
1 AAATAAAT-AAATTCAAAATAAAT
*
2192269 AAAGAAATAAA
1 AAATAAATAAA
2192280 GTGTGCTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
21 3 0.06
22 14 0.29
23 29 0.59
24 3 0.06
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.24
Consensus pattern (23 bp):
AAATAAATAAATTCAAAATAAAT
Found at i:2192264 original size:18 final size:19
Alignment explanation
Indices: 2192220--2192258 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
2192210 ACTTCAAAAT
2192220 AAATAAATAAATAAATTCA
1 AAATAAATAAATAAATTCA
*
2192239 AAATAAATAAGTAAA-TCA
1 AAATAAATAAATAAATTCA
2192257 AA
1 AA
2192259 CAAAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (19 bp):
AAATAAATAAATAAATTCA
Found at i:2192326 original size:23 final size:23
Alignment explanation
Indices: 2192277--2192338 Score: 97
Period size: 23 Copynumber: 2.6 Consensus size: 23
2192267 TTAAAGAAAT
2192277 AAAGTGTGCTTATGAAATCAATTA
1 AAAGTGTGCTT-TGAAATCAATTA
2192301 AAAGTGTGCTTTGAAATCAATTA
1 AAAGTGTGCTTTGAAATCAATTA
*
2192324 AAAATGTGCTATTGA
1 AAAGTGTGCT-TTGA
2192339 GGTTTGGTGC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 21 0.58
24 15 0.42
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (23 bp):
AAAGTGTGCTTTGAAATCAATTA
Found at i:2193104 original size:9 final size:10
Alignment explanation
Indices: 2193075--2193111 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
2193065 ATCACATCAT
2193075 ATTCTCTCAA
1 ATTCTCTCAA
2193085 ATTCTCTCAA
1 ATTCTCTCAA
2193095 ATTC-CTCAA
1 ATTCTCTCAA
*
2193104 ATACTCTC
1 ATTCTCTC
2193112 TCTATTTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.38
Consensus pattern (10 bp):
ATTCTCTCAA
Found at i:2193189 original size:17 final size:18
Alignment explanation
Indices: 2193153--2193193 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
2193143 ATATTATGTA
*
2193153 TTTAATTTATTTAATCAT
1 TTTACTTTATTTAATCAT
2193171 TTTACTTTATTTAAT-AT
1 TTTACTTTATTTAATCAT
2193188 TTTACT
1 TTTACT
2193194 AATATAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAATCAT
Found at i:2197650 original size:83 final size:83
Alignment explanation
Indices: 2197481--2197643 Score: 254
Period size: 83 Copynumber: 2.0 Consensus size: 83
2197471 CTGCGCTAAA
* *
2197481 TATAATTCATACCTCAGGTATAGCGCTAAGCAGGGGCAGCGCTATACCCCTACGTGGCATATAGC
1 TATAATTCATACCCCAGGTATAGCGCTAAGCAGGGGCAGCGCTATACCCCTACATGGCATATAGC
*
2197546 GCGGATCAGGGGGCGCAC
66 GCGGATAAGGGGGCGCAC
* * * * *
2197564 TATAATTCATACCCCAGGTATAGCGCTGAGCAGGGGCGGCGTTATACCCTTACATGGCGTATAGC
1 TATAATTCATACCCCAGGTATAGCGCTAAGCAGGGGCAGCGCTATACCCCTACATGGCATATAGC
2197629 GCGGATAAGGGGGCG
66 GCGGATAAGGGGGCG
2197644 TGCTATACCC
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 72 1.00
ACGTcount: A:0.25, C:0.25, G:0.31, T:0.20
Consensus pattern (83 bp):
TATAATTCATACCCCAGGTATAGCGCTAAGCAGGGGCAGCGCTATACCCCTACATGGCATATAGC
GCGGATAAGGGGGCGCAC
Found at i:2199208 original size:19 final size:19
Alignment explanation
Indices: 2199150--2199208 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 19
2199140 ATATATATTC
* *
2199150 TTTCACATTATAATAT-TA
1 TTTCAAATTATAAAATATA
*
2199168 TTT--AATATATTAAATATAA
1 TTTCAAAT-TATAAAATAT-A
2199187 TTTCAAATTATAAAATATA
1 TTTCAAATTATAAAATATA
2199206 TTT
1 TTT
2199209 ATAATGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
16 2 0.06
17 6 0.19
18 4 0.12
19 8 0.25
20 9 0.28
21 3 0.09
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTCAAATTATAAAATATA
Found at i:2199682 original size:50 final size:50
Alignment explanation
Indices: 2199623--2199721 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
2199613 ACCAAGTCAG
2199623 TTTTCTTATTTTTTGAGTGATACGAAATTTTTAAACAATAATTTGAACTA
1 TTTTCTTATTTTTTGAGTGATACGAAATTTTTAAACAATAATTTGAACTA
* *
2199673 TTTTCTTATTTTTTGAGTGATATGAAATTTTTAAACTATAATTTGAACT
1 TTTTCTTATTTTTTGAGTGATACGAAATTTTTAAACAATAATTTGAACT
2199722 CAAAAATAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.51
Consensus pattern (50 bp):
TTTTCTTATTTTTTGAGTGATACGAAATTTTTAAACAATAATTTGAACTA
Found at i:2200951 original size:35 final size:32
Alignment explanation
Indices: 2200904--2201143 Score: 131
Period size: 30 Copynumber: 7.2 Consensus size: 32
2200894 GTTAGATAAC
2200904 AAAT-AAT-AAATAAATAAATAAATAAATAAATA
1 AAATAAATAAAATAAATAAA-AAA-AAATAAATA
*
2200936 AAATAAAGTAAAATAAATCAAAAAAAATGAAAATGA
1 AAATAAA-TAAAATAAATAAAAAAAAAT--AAAT-A
* *
2200972 AAATAGATAAAA-AAATAAAAAAATATAAA-A
1 AAATAAATAAAATAAATAAAAAAAAATAAATA
* *
2201002 AATATTAAAATGACAAT-AATAAAAAATAAAGATAAGTGA
1 AA-A-T-AAAT-AAAATAAAT-AAAAA-AAA-ATAAAT-A
* * * *
2201041 AATTAAGTAAAA-AAATAAAATAAAA-GAATA
1 AAATAAATAAAATAAATAAAAAAAAATAAATA
2201071 AAA-ATAATAAAA-AAATAAAAAAAAATAAA-A
1 AAATA-AATAAAATAAATAAAAAAAAATAAATA
* * *
2201101 AAATAAAAAAAACAAGATAGAAAATAAAAAAAATA
1 AAATAAATAAAATAA-ATA-AAAA-AAAATAAATA
2201136 ATAATAAA
1 A-AATAAA
2201144 AGGGTTAAAT
Statistics
Matches: 162, Mismatches: 20, Indels: 48
0.70 0.09 0.21
Matches are distributed among these distances:
29 1 0.01
30 34 0.21
31 8 0.05
32 12 0.07
33 16 0.10
34 33 0.20
35 32 0.20
36 18 0.11
37 5 0.03
39 3 0.02
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.18
Consensus pattern (32 bp):
AAATAAATAAAATAAATAAAAAAAAATAAATA
Found at i:2201003 original size:43 final size:42
Alignment explanation
Indices: 2200927--2201036 Score: 118
Period size: 43 Copynumber: 2.5 Consensus size: 42
2200917 ATAAATAAAT
2200927 AAATAAATAAAATAAAGTAAAATAAATCAAAAAAAATGAAAATGA
1 AAAT-AATAAAA-AAA-TAAAATAAATCAAAAAAAATGAAAATGA
*
2200972 AAATAGATAAAAAAATAAAA-AAAT-ATAAAAAATATTAAAATGA
1 AAATA-ATAAAAAAATAAAATAAATCA-AAAAAA-ATGAAAATGA
*
2201015 CAATAAT-AAAAAATAAAGATAA
1 AAATAATAAAAAAATAAA-ATAA
2201037 GTGAAATTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 12
0.81 0.03 0.17
Matches are distributed among these distances:
41 11 0.19
42 13 0.22
43 20 0.34
44 4 0.07
45 10 0.17
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (42 bp):
AAATAATAAAAAAATAAAATAAATCAAAAAAAATGAAAATGA
Found at i:2201026 original size:65 final size:61
Alignment explanation
Indices: 2200911--2201143 Score: 149
Period size: 61 Copynumber: 3.7 Consensus size: 61
2200901 AACAAATAAT
* * *
2200911 AAATAAATAAATAAATAAATAAATAAAATAAAGTAAAATAAATCAAAAAAAATGAAAATGA
1 AAATAAATAAAAAAATAAAAAAATAAAAAAAAGTAAAATAAATCAAAAAAAATGAAAATGA
* *
2200972 AAATAGATAAAAAAATAAAAAAATATAAAAAATATTAAAATGACAAT-AATAAAAAATAAAGATA
1 AAATAAATAAAAAAATAAAAAAATA-AAAAAA-AGTAAAAT-A-AATCAA-AAAAAAT---GA-A
*
2201036 AGTGA
57 AATGA
* * * * *
2201041 AATTAAGTAAAAAAATAAAATAAAAGAATAAAAATAATAAAA-AAATAAAAAAAAAT--AAA--A
1 AAATAAATAAAAAAAT-AAA-AAAATAA-AAAAA-AGTAAAATAAATCAAAAAAAATGAAAATGA
* *
2201101 AAATAAA-AAAAACAAGATAGAAAATAAAAAAAA-TAATAATAAA
1 AAATAAATAAAAA-AATA-AAAAAATAAAAAAAAGTAA-AATAAA
2201144 AGGGTTAAAT
Statistics
Matches: 138, Mismatches: 17, Indels: 37
0.72 0.09 0.19
Matches are distributed among these distances:
56 3 0.02
57 3 0.02
58 8 0.06
59 12 0.09
60 9 0.07
61 22 0.16
62 7 0.05
63 7 0.05
64 3 0.02
65 10 0.07
68 12 0.09
69 21 0.15
70 4 0.03
71 17 0.12
ACGTcount: A:0.76, C:0.01, G:0.05, T:0.18
Consensus pattern (61 bp):
AAATAAATAAAAAAATAAAAAAATAAAAAAAAGTAAAATAAATCAAAAAAAATGAAAATGA
Found at i:2201108 original size:8 final size:8
Alignment explanation
Indices: 2200908--2201111 Score: 112
Period size: 8 Copynumber: 24.2 Consensus size: 8
2200898 GATAACAAAT
*
2200908 AATAAATA
1 AATAAAAA
*
2200916 AATAAATA
1 AATAAAAA
*
2200924 AATAAATA
1 AATAAAAA
2200932 AATAAAATA
1 AATAAAA-A
2200941 AAGTAAAATA
1 AA-TAAAA-A
2200951 AATCAAAAA
1 AAT-AAAAA
**
2200960 AA-ATGAA
1 AATAAAAA
2200967 AATGAAAATA
1 AAT-AAAA-A
*
2200977 GATAAAAA
1 AATAAAAA
2200985 AATAAAAA
1 AATAAAAA
2200993 AATATAAAA
1 AATA-AAAA
**
2201002 AATATTAA
1 AATAAAAA
* *
2201010 AATGACAAT
1 AAT-AAAAA
2201019 AAT-AAAA
1 AATAAAAA
2201026 AATAAAGATA
1 AATAAA-A-A
* *
2201036 AGTGAAATTA
1 AAT-AAA-AA
*
2201046 AGTAAAAA
1 AATAAAAA
2201054 AAT---AA
1 AATAAAAA
*
2201059 AATAAAAG
1 AATAAAAA
2201067 AATAAAAA
1 AATAAAAA
2201075 TAATAAAAA
1 -AATAAAAA
2201084 AATAAAAAAA
1 AAT--AAAAA
2201094 AATAAAAA
1 AATAAAAA
2201102 AATAAAAA
1 AATAAAAA
2201110 AA
1 AA
2201112 ACAAGATAGA
Statistics
Matches: 157, Mismatches: 21, Indels: 36
0.73 0.10 0.17
Matches are distributed among these distances:
5 5 0.03
7 10 0.06
8 70 0.45
9 38 0.24
10 31 0.20
11 3 0.02
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.19
Consensus pattern (8 bp):
AATAAAAA
Found at i:2203403 original size:94 final size:94
Alignment explanation
Indices: 2203281--2204346 Score: 1538
Period size: 94 Copynumber: 11.0 Consensus size: 94
2203271 TGGAACTGGA
* * * * * *
2203281 AAATTATTTATTGACAACCAGCGGTCCCTTCATTGTGAAGTTGAACTTGTGTTGCCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
2203346 ATATCCTTCGTTGTGAAGTTGAAATAGGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGG
*
2203375 AAATTGTTTGTTGACAACCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
2203440 ATATCCTTCGCTGTGAAGTTGAAATTGGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGG
2203469 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
2203534 ATATCCTTCACTGTGAAGTTGAAATTGGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGG
2203563 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
2203628 ATGTCCTTCGTTGTGAAGTTGAAATTGGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGG
2203657 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
2203722 ATATCCTTCGCTGTGAAATTGAAATTGGC
66 ATATCCTTCGCTGTGAAGTTGAAATTGGG
2203751 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
2203816 ATATCATTCGCTGTGAAGTTGAAATTGGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGG
*
2203845 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
2203910 ATATCCTTCGCTGTGAAGTTGAAATTGGG
66 ATATCCTTCGCTGTGAAGTTGAAATTGGG
* * *
2203939 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTACGTTGTCCGGAGTCCA
1 AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
2204004 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTG
66 ATATCCTTCGCTGTGAAGTTGAAATT-G----G-----G
*
2204043 AGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
1 A-AA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
*
2204108 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTG
64 CAATATCCTTCGCTGTGAAGTTGAAATT-G----G-----G
* *
2204149 AGAAGTTGTTTATTAACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
1 A-AA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
*
2204214 CAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTG
64 CAATATCCTTCGCTGTGAAGTTGAAATT-G----G-----G
*
2204255 AGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
1 A-AA-TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
* * * *
2204320 CAATTTTCTTCGCTGCGAAGTAGAAAT
64 CAATATCCTTCGCTGTGAAGTTGAAAT
2204347 AGACTCTGAA
Statistics
Matches: 923, Mismatches: 37, Indels: 12
0.95 0.04 0.01
Matches are distributed among these distances:
94 629 0.68
95 1 0.00
99 1 0.00
104 2 0.00
105 2 0.00
106 288 0.31
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (94 bp):
AAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCCTTCGCTGTGAAGTTGAAATTGGG
Found at i:2204114 original size:106 final size:106
Alignment explanation
Indices: 2203929--2204356 Score: 730
Period size: 106 Copynumber: 4.0 Consensus size: 106
2203919 GCTGTGAAGT
* * * * *
2203929 TGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACTTACGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
2203994 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
2204035 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
2204100 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
2204141 TGAAATTGAGAAGTTGTTTATTAACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
2204206 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
2204247 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * * * * * *
2204312 CTGGAGTCCAATTTTCTTCGCTGCGAAGTAGAAATAGACTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
2204353 TGAA
1 TGAA
2204357 TGAAGTTGGA
Statistics
Matches: 307, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 307 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (106 bp):
TGAAATTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
Found at i:2208185 original size:4 final size:4
Alignment explanation
Indices: 2208172--2208217 Score: 58
Period size: 4 Copynumber: 11.0 Consensus size: 4
2208162 GTTAGATAAC
2208172 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AAAAT AAAGT AAAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAA-T -AAAT AAAT
2208218 CAAAAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
3 3 0.08
4 26 0.68
5 6 0.16
6 3 0.08
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:2208254 original size:19 final size:19
Alignment explanation
Indices: 2208232--2208271 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2208222 AAAAAAAATG
*
2208232 AAAATGAAAATAGATAAAA
1 AAAATGAAAAAAGATAAAA
* *
2208251 AAAATTAAAAAATATAAAA
1 AAAATGAAAAAAGATAAAA
2208270 AA
1 AA
2208272 TATTAAAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (19 bp):
AAAATGAAAAAAGATAAAA
Found at i:2208278 original size:10 final size:10
Alignment explanation
Indices: 2208246--2208279 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
2208236 TGAAAATAGA
*
2208246 TAAAAAAAAT
1 TAAAAAATAT
2208256 TAAAAAATA-
1 TAAAAAATAT
2208265 TAAAAAATAT
1 TAAAAAATAT
2208275 TAAAA
1 TAAAA
2208280 TGACAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (10 bp):
TAAAAAATAT
Found at i:2208338 original size:8 final size:7
Alignment explanation
Indices: 2208316--2208380 Score: 51
Period size: 9 Copynumber: 8.4 Consensus size: 7
2208306 TGAAATTAAG
2208316 TAAAAAA
1 TAAAAAA
*
2208323 -ATAAAA
1 TAAAAAA
2208329 TAAAAGAA
1 TAAAA-AA
2208337 TAAAAATAA
1 T-AAAA-AA
2208346 TAAAAAAA
1 T-AAAAAA
2208354 TTAAAAAA
1 -TAAAAAA
2208362 TAAAAAAAA
1 T--AAAAAA
2208371 TAAAAAA
1 TAAAAAA
2208378 TAA
1 TAA
2208381 GATAGAAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
6 5 0.10
7 13 0.27
8 11 0.22
9 20 0.41
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.17
Consensus pattern (7 bp):
TAAAAAA
Found at i:2208343 original size:19 final size:18
Alignment explanation
Indices: 2208319--2208408 Score: 71
Period size: 19 Copynumber: 4.9 Consensus size: 18
2208309 AATTAAGTAA
2208319 AAAAATAAAATAAAAGAAT
1 AAAAATAAAATAAAA-AAT
*
2208338 AAAAATAATAA-AAAAATT
1 AAAAATAA-AATAAAAAAT
*
2208356 AAAAA-ATAA-AAAAAAT
1 AAAAATAAAATAAAAAAT
* *
2208372 AAAAAATAAGATAGAAAAT
1 -AAAAATAAAATAAAAAAT
2208391 AAAAA-AATAATAATAAAA
1 AAAAATAA-AATAA-AAAA
2208409 GGGTTAAATT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
16 8 0.14
17 8 0.14
18 17 0.30
19 22 0.39
20 2 0.04
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAAATAAAATAAAAAAT
Found at i:2208351 original size:99 final size:99
Alignment explanation
Indices: 2208188--2208372 Score: 245
Period size: 99 Copynumber: 1.9 Consensus size: 99
2208178 TAAATAAATA
* *
2208188 AATAAATAAATAAAATAAAGTAAAATAAATCAAAAAAAAAAATGAAAATGAAAATAGATAAAAAA
1 AATAAATAAATAAAATAAAGTAAAATAAATCAAAAAAAAAAATAAAAATAAAAATAGATAAAAAA
*
2208253 AATTAAAAAATATAAAAAATATTAAAATGACAAT
66 AATTAAAAAATAAAAAAAATATTAAAATGACAAT
* *
2208287 AATAAA-AAATAAAGAT-AAGTGAAATTAAGT-AAAAAAATAAAATAAAAGAATAAAAATA-AT-
1 AATAAATAAATAAA-ATAAAGT-AAAATAAATCAAAAAAA-AAAAT-AAA-AATAAAAATAGATA
2208347 AAAAAAATTAAAAAATAAAAAAAATA
61 AAAAAAATTAAAAAATAAAAAAAATA
2208373 AAAAATAAGA
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
98 18 0.24
99 45 0.59
100 4 0.05
101 9 0.12
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.19
Consensus pattern (99 bp):
AATAAATAAATAAAATAAAGTAAAATAAATCAAAAAAAAAAATAAAAATAAAAATAGATAAAAAA
AATTAAAAAATAAAAAAAATATTAAAATGACAAT
Found at i:2225285 original size:20 final size:18
Alignment explanation
Indices: 2225244--2225287 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
2225234 ATTATGCTTA
*
2225244 AAAAATAAAAAAGAAAAG
1 AAAAAGAAAAAAGAAAAG
2225262 -AAAAGAAAAAATGAGAAAG
1 AAAAAGAAAAAA-GA-AAAG
2225281 AAAAAGA
1 AAAAAGA
2225288 GTAAAAAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 10 0.45
18 2 0.09
19 4 0.18
20 6 0.27
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.05
Consensus pattern (18 bp):
AAAAAGAAAAAAGAAAAG
Found at i:2238792 original size:414 final size:416
Alignment explanation
Indices: 2238012--2238849 Score: 1419
Period size: 414 Copynumber: 2.0 Consensus size: 416
2238002 GTGGCAATAC
* * * * *
2238012 CCCTCAGCGTAAACCGTAGTCTTTGCCTATCCTACTCATGTAGCTACCTCTTTTAGTCGAATAAA
1 CCCTTAGCGTAAACCGCAGTCTTTGCCTATCATACTCAAGTAGCTACATCTTTTAGTCGAATAAA
*
2238077 ACCCTCTCCTTATCTCTAAGGTGGATTAGAACCTCACCATCTCGGATTAGTTCTGTTGTTCACAT
66 ACCCTCTCCTTATCTCTAAGGTAGATTAGAA---CACCATCTCGGATTAGTTCTGTTGTTCACAT
*
2238142 AGATCTACCCTAACTCTCTTAATATTAGGCATCAATTACTAGAAAAATGGCAATACCTCGAAATC
128 AGATCTACCCTAACTCTCTCAATATTAGGCATCAATTACTAGAAAAATGGCAATACCTCGAAATC
* *
2238207 TCTTAAAAGTCTAGGAATTTTTTGCCAATGCACCAGGCAATCTCTCAAAAGCTCTTACAGTGTCA
193 TCTTAAAAGTCTAGGAATTTTTTGCCAAGGCACCAGACAATCTCTCAAAAGCTCTTACAGTGTCA
* *
2238272 AGGCAAAATATTAAAACAATGAACAAAACAACATTAAGCATAAGCAAACTTTATCATTCATTAAC
258 AGGCAAAATACTAAAACAATGAACAAAACAACATTAAGCATAAGCAAACTTCATCATTCATTAAC
* *
2238337 ACTCGAATAACGTTTCATCAAAATAATAATCAACACCAAGTAAAACAGTTAATGGTGTGACAAAT
323 ACTCGAATAACGTTTCATCAAAATAATAACCAACACCAAGTAAAACAGTTAATGGTGTGAAAAAT
*
2238402 ATTATCCAAAGGTAAACATTCAGTACAAA
388 ATCATCCAAAGGTAAACATTCAGTACAAA
* *
2238431 CCCTTAGCGTAAACCGCAGTTTTTGCCTATCATACTCAAGTAGCTATATCTTTTAGTCGAATAAA
1 CCCTTAGCGTAAACCGCAGTCTTTGCCTATCATACTCAAGTAGCTACATCTTTTAGTCGAATAAA
* * *
2238496 ACCCTCTCCTTATCTCTAAGGTAGATTAG-A-ACCATCTCGGATTAGTTTTTTTGTTCACGTAGA
66 ACCCTCTCCTTATCTCTAAGGTAGATTAGAACACCATCTCGGATTAGTTCTGTTGTTCACATAGA
* * *
2238559 TCTACCCTAACTCTCTCGATATTAGGCATCAATTACTAGAAAAATGGTAATATCTCGAAATCTCT
131 TCTACCCTAACTCTCTCAATATTAGGCATCAATTACTAGAAAAATGGCAATACCTCGAAATCTCT
2238624 TAAAAGTCTAGGAATTTTTTGCCAAGGCACCAGACAATCTCTCAAAAGCTCTTACAGTGTCAAGG
196 TAAAAGTCTAGGAATTTTTTGCCAAGGCACCAGACAATCTCTCAAAAGCTCTTACAGTGTCAAGG
*
2238689 CAAAATACTAAAACAATGAACAAAACAACATTAAGCATAAGCAAACTTCATCATTCATTAACATT
261 CAAAATACTAAAACAATGAACAAAACAACATTAAGCATAAGCAAACTTCATCATTCATTAACACT
*
2238754 CGAATAACGTTTCATCAAAATAATAACCAACACCAAGTAAAACAGTTCATGGTGTGAAAAATATC
326 CGAATAACGTTTCATCAAAATAATAACCAACACCAAGTAAAACAGTTAATGGTGTGAAAAATATC
2238819 ATCCAAAGGTAAACATTCAGTACAAA
391 ATCCAAAGGTAAACATTCAGTACAAA
2238845 CCCTT
1 CCCTT
2238850 TAAGCGAAAT
Statistics
Matches: 395, Mismatches: 24, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
414 308 0.78
418 1 0.00
419 86 0.22
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (416 bp):
CCCTTAGCGTAAACCGCAGTCTTTGCCTATCATACTCAAGTAGCTACATCTTTTAGTCGAATAAA
ACCCTCTCCTTATCTCTAAGGTAGATTAGAACACCATCTCGGATTAGTTCTGTTGTTCACATAGA
TCTACCCTAACTCTCTCAATATTAGGCATCAATTACTAGAAAAATGGCAATACCTCGAAATCTCT
TAAAAGTCTAGGAATTTTTTGCCAAGGCACCAGACAATCTCTCAAAAGCTCTTACAGTGTCAAGG
CAAAATACTAAAACAATGAACAAAACAACATTAAGCATAAGCAAACTTCATCATTCATTAACACT
CGAATAACGTTTCATCAAAATAATAACCAACACCAAGTAAAACAGTTAATGGTGTGAAAAATATC
ATCCAAAGGTAAACATTCAGTACAAA
Found at i:2243914 original size:23 final size:23
Alignment explanation
Indices: 2243888--2243931 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2243878 GGTTCTACGC
* *
2243888 GGTCCTTCGGGATATTTCTATAT
1 GGTCCTTCAGGACATTTCTATAT
2243911 GGTCCTTCAGGACATTTCTAT
1 GGTCCTTCAGGACATTTCTAT
2243932 GTGGCAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.41
Consensus pattern (23 bp):
GGTCCTTCAGGACATTTCTATAT
Found at i:2245815 original size:20 final size:20
Alignment explanation
Indices: 2245790--2245827 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2245780 AACAAGTTAA
2245790 AGAATGCATCGATGCACTAT
1 AGAATGCATCGATGCACTAT
2245810 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
2245828 TCCAGGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTAT
Found at i:2246579 original size:30 final size:30
Alignment explanation
Indices: 2246543--2246602 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
2246533 TATGGACAAT
2246543 TTACCGAGGATCTTTATGACCTCTGGATAG
1 TTACCGAGGATCTTTATGACCTCTGGATAG
2246573 TTACCGAGGATCTTTATGACCTCTGGATAG
1 TTACCGAGGATCTTTATGACCTCTGGATAG
2246603 GTCCTTCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (30 bp):
TTACCGAGGATCTTTATGACCTCTGGATAG
Found at i:2246860 original size:19 final size:19
Alignment explanation
Indices: 2246808--2246860 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
2246798 TGATTGTACA
**
2246808 AATGATAATTCTAAG-ATC
1 AATGATAATAATAAGAATC
2246826 ATATGATAA-AAT--GAATC
1 A-ATGATAATAATAAGAATC
2246843 AATGATAATAATAAGAAT
1 AATGATAATAATAAGAAT
2246861 GAAGATGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
16 8 0.29
17 7 0.25
18 2 0.07
19 11 0.39
ACGTcount: A:0.53, C:0.06, G:0.11, T:0.30
Consensus pattern (19 bp):
AATGATAATAATAAGAATC
Found at i:2247087 original size:4 final size:4
Alignment explanation
Indices: 2247080--2247149 Score: 131
Period size: 4 Copynumber: 17.5 Consensus size: 4
2247070 ATAAATAATA
*
2247080 ATGT ATGT ATGT ATGT ATAT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
2247128 ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT AT
2247150 ATATTTGTTA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 64 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:2248236 original size:30 final size:30
Alignment explanation
Indices: 2248202--2248283 Score: 155
Period size: 30 Copynumber: 2.7 Consensus size: 30
2248192 ATTTACCGAT
*
2248202 GATCTTTATGACCTCTGGATAGTTACCTAG
1 GATCTTTATGACCTCTGGATAGTTACCAAG
2248232 GATCTTTATGACCTCTGGATAGTTACCAAG
1 GATCTTTATGACCTCTGGATAGTTACCAAG
2248262 GATCTTTATGACCTCTGGATAG
1 GATCTTTATGACCTCTGGATAG
2248284 GTCCTTCGGG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (30 bp):
GATCTTTATGACCTCTGGATAGTTACCAAG
Found at i:2248775 original size:4 final size:4
Alignment explanation
Indices: 2248768--2248793 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2248758 TGATAATGAC
2248768 ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT AT
2248794 TTGTTACACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:2251297 original size:4 final size:4
Alignment explanation
Indices: 2251288--2251312 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2251278 TTATAATGAC
2251288 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
2251313 GGTTGAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:2256077 original size:15 final size:15
Alignment explanation
Indices: 2256057--2256086 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2256047 AAAAGAATAA
2256057 TTTAGTTGAAATGAG
1 TTTAGTTGAAATGAG
2256072 TTTAGTTGAAATGAG
1 TTTAGTTGAAATGAG
2256087 GTGAGTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (15 bp):
TTTAGTTGAAATGAG
Found at i:2256093 original size:15 final size:15
Alignment explanation
Indices: 2256060--2256095 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
2256050 AGAATAATTT
* *
2256060 AGTTGAAATGAGTTT
1 AGTTGAAATGAGGTG
2256075 AGTTGAAATGAGGTG
1 AGTTGAAATGAGGTG
2256090 AGTTGA
1 AGTTGA
2256096 TTTACTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (15 bp):
AGTTGAAATGAGGTG
Found at i:2279443 original size:20 final size:21
Alignment explanation
Indices: 2279420--2279487 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 21
2279410 TTGGTGCAGA
*
2279420 GGGAATCGATCCCCCCTTGA-
1 GGGAACCGATCCCCCCTTGAG
* *
2279440 GGGAACCGATTCCCCTTTGAAG
1 GGGAACCGATCCCCCCTTG-AG
*
2279462 GGGAACCGATTCCCCCCAT-AG
1 GGGAACCGA-TCCCCCCTTGAG
2279483 GGGAA
1 GGGAA
2279488 TCGAACCCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 16 0.41
21 8 0.21
22 9 0.23
23 6 0.15
ACGTcount: A:0.24, C:0.31, G:0.28, T:0.18
Consensus pattern (21 bp):
GGGAACCGATCCCCCCTTGAG
Found at i:2281947 original size:20 final size:20
Alignment explanation
Indices: 2281922--2281961 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2281912 TCTAAGTATA
2281922 TTCGATAGAATTATTCGAAT
1 TTCGATAGAATTATTCGAAT
2281942 TTCGATAGAATTATTCGAAT
1 TTCGATAGAATTATTCGAAT
2281962 ATCAAAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (20 bp):
TTCGATAGAATTATTCGAAT
Found at i:2283129 original size:54 final size:54
Alignment explanation
Indices: 2282984--2283491 Score: 608
Period size: 54 Copynumber: 9.3 Consensus size: 54
2282974 GTGTACTATT
* *
2282984 GGCACTAAGTGTGCAAAACCCACGAAATTCATAATATGTTTATG-ATGACCATATC
1 GGCACTAAGTGTGC--AACCCACGAAATTCATAATATGTTTATGAACGACCGTATC
* *
2283039 GACACTAAGTGTGCAAAACCCACGGAATTCATAATATGTTTATGAACGACCGTATC
1 GGCACTAAGTGTGC--AACCCACGAAATTCATAATATGTTTATGAACGACCGTATC
* * * * *
2283095 GGCACTAATTGTGCAACCCACGGAATTTATAATATGTTTATGAACAACTGTATC
1 GGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCGTATC
*
2283149 GACACTAAGTGTGCAACCCAC-AGAATTCATAATATGTTTATGAACGACCGTATC
1 GGCACTAAGTGTGCAACCCACGA-AATTCATAATATGTTTATGAACGACCGTATC
* * *
2283203 GGCACTAAGTGTGAAACCCACGAAATTCATAATATGTTTATGAACAACCGTCTC
1 GGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCGTATC
* * * * *
2283257 GACACTAAGTGTGCAAAACCCACAAAATTCATAATCTGTTTATTAACAACCGTATC
1 GGCACTAAGTGTGC--AACCCACGAAATTCATAATATGTTTATGAACGACCGTATC
* * * * *
2283313 GACACTAATTGTGAAAAACCCAAGAAATTCATAATATGTTTATAAACGACCGTATC
1 GGCACTAAGTGTG--CAACCCACGAAATTCATAATATGTTTATGAACGACCGTATC
*
2283369 GGCACTAAGTGTGCAACCCAC-AGAATTCATAATATGTTTATGAATGACCGTATC
1 GGCACTAAGTGTGCAACCCACGA-AATTCATAATATGTTTATGAACGACCGTATC
** * *** *
2283423 ATCACTTAGTGTGCAAAATAACGAAATTCATAATATGTTTATGAACAACCGTATC
1 GGCACTAAGTGTGC-AACCCACGAAATTCATAATATGTTTATGAACGACCGTATC
*
2283478 GGCACTATGTGTGC
1 GGCACTAAGTGTGC
2283492 GCCTCAAAGA
Statistics
Matches: 393, Mismatches: 50, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.00
54 190 0.48
55 86 0.22
56 116 0.30
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (54 bp):
GGCACTAAGTGTGCAACCCACGAAATTCATAATATGTTTATGAACGACCGTATC
Found at i:2283327 original size:110 final size:109
Alignment explanation
Indices: 2282986--2283491 Score: 662
Period size: 110 Copynumber: 4.6 Consensus size: 109
2282976 GTACTATTGG
** *
2282986 CACTAAGTGTGCAAAACCCACGAAATTCATAATATGTTTATG-ATGACCATATCGACACTAAGTG
1 CACTAAGTGTG-AAAACCCACGAAATTCATAATATGTTTATGAACAACCGTATCGACACTAAGTG
* *
2283050 TGCAAAACCCACGGAATTCATAATATGTTTATGAACGACCGTATCGG
65 TGC--AACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGA
* * * * *
2283097 CACTAATTGTG-CAACCCACGGAATTTATAATATGTTTATGAACAACTGTATCGACACTAAGTGT
1 CACTAAGTGTGAAAACCCACGAAATTCATAATATGTTTATGAACAACCGTATCGACACTAAGTGT
*
2283161 GCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGG
66 GCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGA
*
2283205 CACTAAGTGTG-AAACCCACGAAATTCATAATATGTTTATGAACAACCGTCTCGACACTAAGTGT
1 CACTAAGTGTGAAAACCCACGAAATTCATAATATGTTTATGAACAACCGTATCGACACTAAGTGT
* * * *
2283269 GCAAAACCCACAAAATTCATAATCTGTTTATTAACAACCGTATCGA
66 GC--AACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGA
* * * * *
2283315 CACTAATTGTGAAAAACCCAAGAAATTCATAATATGTTTATAAACGACCGTATCGGCACTAAGTG
1 CACTAAGTGTG-AAAACCCACGAAATTCATAATATGTTTATGAACAACCGTATCGACACTAAGTG
*
2283380 TGCAACCCACAGAATTCATAATATGTTTATGAATGACCGTATC-A
65 TGCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGA
* ** * *
2283424 TCACTTAGTGTGCAAAA-TAACGAAATTCATAATATGTTTATGAACAACCGTATCGGCACTATGT
1 -CACTAAGTGTG-AAAACCCACGAAATTCATAATATGTTTATGAACAACCGTATCGACACTAAGT
2283488 GTGC
64 GTGC
2283492 GCCTCAAAGA
Statistics
Matches: 349, Mismatches: 40, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
108 101 0.29
109 72 0.21
110 116 0.33
111 10 0.03
112 50 0.14
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (109 bp):
CACTAAGTGTGAAAACCCACGAAATTCATAATATGTTTATGAACAACCGTATCGACACTAAGTGT
GCAACCCACAGAATTCATAATATGTTTATGAACGACCGTATCGA
Found at i:2287804 original size:26 final size:27
Alignment explanation
Indices: 2287760--2287816 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
2287750 ATTATGCTTA
2287760 AAAATAAAAAAAAATAAAAAGAAAAAG
1 AAAATAAAAAAAAATAAAAAGAAAAAG
* * *
2287787 AAAATAAAAAATAA-AAAATGAGAAAG
1 AAAATAAAAAAAAATAAAAAGAAAAAG
2287813 AAAA
1 AAAA
2287817 AGAGAAAGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (27 bp):
AAAATAAAAAAAAATAAAAAGAAAAAG
Found at i:2287818 original size:6 final size:6
Alignment explanation
Indices: 2287765--2287837 Score: 51
Period size: 6 Copynumber: 11.7 Consensus size: 6
2287755 GCTTAAAAAT
* * *
2287765 AAAA-A AAAATA AAAAGA AAAAGA AAATA-A AAAATAA AAAATGA GAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAA-AGA AAAA-GA AAAA-GA AAAAGA
*
2287814 AAAAGA GAAAGAGA AAGAGA AAAA
1 AAAAGA -AAA-AGA AAAAGA AAAA
2287838 AGAGGAAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
5 5 0.09
6 32 0.57
7 16 0.29
8 3 0.05
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.05
Consensus pattern (6 bp):
AAAAGA
Found at i:2289266 original size:283 final size:283
Alignment explanation
Indices: 2288780--2289297 Score: 757
Period size: 283 Copynumber: 1.8 Consensus size: 283
2288770 AAGTAGCTGG
* * * * *
2288780 ATCAGCATTATCAATATGTTAGAATCCATCACAGAAGGAGGTGGACCAACATTTCTAATGAAGAC
1 ATCAGCATCATCAATATGTTAGAATCCATCAAAAAAGGAGGTGGACCAACATTTCCAATGAAGAA
* * * *
2288845 GTTCTTAATAAGAAAAACTTGTTCAACATTTCACTCGATTTCATCACATAAAGAGGTGGATCAAC
66 GTTCCTAATAAGAAAAACTTGTTCAACATTTAACTCGATTCCATCACAGAAAGAGGTGGATCAAC
* * * *
2288910 ATTTTCAAAGGAAGGGTTCGTAATGAGAAGAACTCATCCGATGAGGGAGAAAAAGATCATAATGA
131 ATTTTCAAAGAAAGGGTTCATAATGAGAAAAACTCATCCGATAAGGGAGAAAAAGATCATAATGA
* * **
2288975 GAAGAACTTTTTCAACCTTATCTTGATTCCATCAAATAAGAAGTTAGAATAACATCGTCTTTGAC
196 GAAGAACTTGTTCAACCTTAGCTCAATTCCATCAAATAAGAAGTTAGAATAACATCGTCTTTGAC
2289040 TCATCCATCGCATTAGGAGTTGA
261 TCATCCATCGCATTAGGAGTTGA
* * * * * *
2289063 ATCAGCATCATCACTTTGTTCGAATCCATCAAAAAATGAGGTGGATCAACATTTCCAATGAATAA
1 ATCAGCATCATCAATATGTTAGAATCCATCAAAAAAGGAGGTGGACCAACATTTCCAATGAAGAA
* * * *
2289128 GTTCCTAATGAGAAGAACTTGTTCAACATTTAACTTGATTCCATCACAGAAGGAGGTGGATCAAC
66 GTTCCTAATAAGAAAAACTTGTTCAACATTTAACTCGATTCCATCACAGAAAGAGGTGGATCAAC
* * *
2289193 ATTTTCAATGAAAGGGTTCATAATGAGAAAAACTCATCCGATAAGGGAGAACAAGTTCATAATGA
131 ATTTTCAAAGAAAGGGTTCATAATGAGAAAAACTCATCCGATAAGGGAGAAAAAGATCATAATGA
*
2289258 GAAGAACTTGTTCAACCTTAGCTCAATTCCATCACATAAG
196 GAAGAACTTGTTCAACCTTAGCTCAATTCCATCAAATAAG
2289298 GTGTTGTTAC
Statistics
Matches: 204, Mismatches: 31, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
283 204 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (283 bp):
ATCAGCATCATCAATATGTTAGAATCCATCAAAAAAGGAGGTGGACCAACATTTCCAATGAAGAA
GTTCCTAATAAGAAAAACTTGTTCAACATTTAACTCGATTCCATCACAGAAAGAGGTGGATCAAC
ATTTTCAAAGAAAGGGTTCATAATGAGAAAAACTCATCCGATAAGGGAGAAAAAGATCATAATGA
GAAGAACTTGTTCAACCTTAGCTCAATTCCATCAAATAAGAAGTTAGAATAACATCGTCTTTGAC
TCATCCATCGCATTAGGAGTTGA
Found at i:2289310 original size:34 final size:32
Alignment explanation
Indices: 2289272--2289335 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
2289262 AACTTGTTCA
* *
2289272 ACCTTAGCTCAATTCCATCACATAAGGTGTTGTT
1 ACCTTAGCTC-ATT-CAACACATAAGGAGTTGTT
*
2289306 ACCTTGGCTCATTCAACACATAAGGAGTTG
1 ACCTTAGCTCATTCAACACATAAGGAGTTG
2289336 GATCAGCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 15 0.56
33 3 0.11
34 9 0.33
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (32 bp):
ACCTTAGCTCATTCAACACATAAGGAGTTGTT
Found at i:2289374 original size:40 final size:40
Alignment explanation
Indices: 2289304--2289385 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
2289294 TAAGGTGTTG
* * *
2289304 TTACCTTGGCTCATTCAACACATAAGGAGTTGGATCAGCA
1 TTACCTTGGCTCATACAACACAGAAAGAGTTGGATCAGCA
* *
2289344 TTACCTTGGGTCA-ACAATCACAGAAAGAGTTGGGTCAGCA
1 TTACCTTGGCTCATACAA-CACAGAAAGAGTTGGATCAGCA
2289384 TT
1 TT
2289386 TTTGAGATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
39 3 0.08
40 33 0.92
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (40 bp):
TTACCTTGGCTCATACAACACAGAAAGAGTTGGATCAGCA
Found at i:2301087 original size:20 final size:20
Alignment explanation
Indices: 2301054--2301128 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
2301044 CAGAATATCA
* *
2301054 ACAGAGTATATATACTATAG
1 ACAGGGTATCTATACTATAG
** *
2301074 ACAGGAAATCTATACCATAG
1 ACAGGGTATCTATACTATAG
2301094 ACAGGGTATCTATA-TCATAG
1 ACAGGGTATCTATACT-ATAG
2301114 ACAGGGTATCTATAC
1 ACAGGGTATCTATAC
2301129 CTCAGTTAGG
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (20 bp):
ACAGGGTATCTATACTATAG
Found at i:2302039 original size:31 final size:30
Alignment explanation
Indices: 2301995--2302069 Score: 87
Period size: 31 Copynumber: 2.5 Consensus size: 30
2301985 AGAGTTGAGG
* *
2301995 GTTACCTATGTTCTAAGGAACATATGGACT
1 GTTACCTAGGTTCTAAGGAACATATGGACA
** *
2302025 GTTTACCTAGGTTCTTCGGAACCTATGGACA
1 G-TTACCTAGGTTCTAAGGAACATATGGACA
*
2302056 GTTACCGAGGTTCT
1 GTTACCTAGGTTCT
2302070 TTAAGACCTC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 13 0.34
31 25 0.66
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (30 bp):
GTTACCTAGGTTCTAAGGAACATATGGACA
Found at i:2302067 original size:30 final size:31
Alignment explanation
Indices: 2302011--2302070 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
2302001 TATGTTCTAA
* *
2302011 GGAACATATGGACTGTTTACCTAGGTTCTTC
1 GGAACATATGGACAGTTTACCGAGGTTCTTC
*
2302042 GGAACCTATGGACAG-TTACCGAGGTTCTT
1 GGAACATATGGACAGTTTACCGAGGTTCTT
2302071 TAAGACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (31 bp):
GGAACATATGGACAGTTTACCGAGGTTCTTC
Found at i:2306118 original size:20 final size:20
Alignment explanation
Indices: 2306093--2306168 Score: 118
Period size: 20 Copynumber: 3.8 Consensus size: 20
2306083 CAGAATATCA
2306093 ACAGGGTATCTATACTATAG
1 ACAGGGTATCTATACTATAG
* *
2306113 ACAGGGAATCTATACCATAG
1 ACAGGGTATCTATACTATAG
2306133 ACAGGGTATCTATA-TCATAG
1 ACAGGGTATCTATACT-ATAG
2306153 ACAGGGTATCTATACT
1 ACAGGGTATCTATACT
2306169 TCAGTTAGGG
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
20 49 0.98
21 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.28
Consensus pattern (20 bp):
ACAGGGTATCTATACTATAG
Found at i:2307116 original size:30 final size:31
Alignment explanation
Indices: 2307055--2307121 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
2307045 CTAATGAACA
* * **
2307055 TATGGACAGTTTACCTATGTTCTTCGGGACC
1 TATGGACAGTTTACCGAGGTTCTTCAAGACC
*
2307086 TATGGACAG-TTACCGAGGTTCTTTAAGACC
1 TATGGACAGTTTACCGAGGTTCTTCAAGACC
*
2307116 TCTGGA
1 TATGGA
2307122 TAGGTCCTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 21 0.70
31 9 0.30
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (31 bp):
TATGGACAGTTTACCGAGGTTCTTCAAGACC
Found at i:2310793 original size:15 final size:15
Alignment explanation
Indices: 2310773--2310804 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2310763 TGTCATCTAT
2310773 GAGAATAAGAAGTTA
1 GAGAATAAGAAGTTA
2310788 GAGAATAAGAAGTTA
1 GAGAATAAGAAGTTA
2310803 GA
1 GA
2310805 AGTGTTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.28, T:0.19
Consensus pattern (15 bp):
GAGAATAAGAAGTTA
Found at i:2311172 original size:20 final size:20
Alignment explanation
Indices: 2311147--2311222 Score: 118
Period size: 20 Copynumber: 3.8 Consensus size: 20
2311137 CAGAATATCA
2311147 ACAGGGTATCTATACTATAG
1 ACAGGGTATCTATACTATAG
* *
2311167 ACAGGGAATCTATACCATAG
1 ACAGGGTATCTATACTATAG
2311187 ACAGGGTATCTATA-TCATAG
1 ACAGGGTATCTATACT-ATAG
2311207 ACAGGGTATCTATACT
1 ACAGGGTATCTATACT
2311223 TCAGTTAGGG
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
20 49 0.98
21 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.28
Consensus pattern (20 bp):
ACAGGGTATCTATACTATAG
Found at i:2312170 original size:30 final size:31
Alignment explanation
Indices: 2312109--2312175 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
2312099 CTAATGAACA
* * **
2312109 TATGGACAGTTTACCTATGTTCTTCGGGACC
1 TATGGACAGTTTACCGAGGTTCTTCAAGACC
*
2312140 TATGGACAG-TTACCGAGGTTCTTTAAGACC
1 TATGGACAGTTTACCGAGGTTCTTCAAGACC
*
2312170 TCTGGA
1 TATGGA
2312176 TAGGTCCTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 21 0.70
31 9 0.30
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (31 bp):
TATGGACAGTTTACCGAGGTTCTTCAAGACC
Found at i:2316212 original size:20 final size:20
Alignment explanation
Indices: 2316187--2316261 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
2316177 CAGAATATCA
2316187 ACAGGGTATCTATACTATAG
1 ACAGGGTATCTATACTATAG
* *
2316207 ACAGGGAATCTATACCATAG
1 ACAGGGTATCTATACTATAG
2316227 ACAGGGTATCTATA-TCATAG
1 ACAGGGTATCTATACT-ATAG
2316247 ACAGGGTATCTATAC
1 ACAGGGTATCTATAC
2316262 CTCAGTTAGG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (20 bp):
ACAGGGTATCTATACTATAG
Found at i:2317211 original size:30 final size:31
Alignment explanation
Indices: 2317150--2317216 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
2317140 CTAAGGAACA
* **
2317150 TATGGACAGTTTACCTAGGTTCTTCGGGACC
1 TATGGACAGTTTACCGAGGTTCTTCAAGACC
*
2317181 TATGGACAG-TTACCGAGGTTCTTTAAGACC
1 TATGGACAGTTTACCGAGGTTCTTCAAGACC
*
2317211 TCTGGA
1 TATGGA
2317217 TAGGTCCTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (31 bp):
TATGGACAGTTTACCGAGGTTCTTCAAGACC
Found at i:2319004 original size:32 final size:32
Alignment explanation
Indices: 2318963--2319028 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
2318953 TGAAAAATGG
2318963 TGTTTTGTGTCTTTGCTCTATTCCAATTCCAC
1 TGTTTTGTGTCTTTGCTCTATTCCAATTCCAC
2318995 TGTTTTGTGTCTTTGCTCTATTCCAATTCCAC
1 TGTTTTGTGTCTTTGCTCTATTCCAATTCCAC
2319027 TG
1 TG
2319029 CAATAAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.12, C:0.24, G:0.14, T:0.50
Consensus pattern (32 bp):
TGTTTTGTGTCTTTGCTCTATTCCAATTCCAC
Found at i:2319521 original size:11 final size:11
Alignment explanation
Indices: 2319505--2319534 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
2319495 CCACTGACGC
2319505 ATCACCGGTTG
1 ATCACCGGTTG
*
2319516 ATCACCGCTTG
1 ATCACCGGTTG
2319527 ATCACCGG
1 ATCACCGG
2319535 CGAGTCACCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.20, C:0.33, G:0.23, T:0.23
Consensus pattern (11 bp):
ATCACCGGTTG
Found at i:2322832 original size:20 final size:19
Alignment explanation
Indices: 2322791--2322832 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2322781 TAATAGTGAC
* *
2322791 AATGATAAAATTTTTGATT
1 AATGATAAAATTTATCATT
2322810 AATGATAAAATATTATCATT
1 AATGATAAAAT-TTATCATT
2322830 AAT
1 AAT
2322833 ATACAAGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (19 bp):
AATGATAAAATTTATCATT
Found at i:2323125 original size:4 final size:4
Alignment explanation
Indices: 2323116--2327229 Score: 6550
Period size: 4 Copynumber: 1056.8 Consensus size: 4
2323106 CGAGAGATCT
2323116 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
2323164 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
2323212 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
*
2323260 ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC CTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2323306 ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2323353 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
2323401 ATA- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2323448 ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2323495 --AC ATAC ATAC ATAAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC
1 ATAC ATAC ATAC AT-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2323540 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2323587 ATAC --AC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2323632 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATTAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-TAC
2323679 ATAC --AC ATAC ATAC ATAC AATAC --AC ATAC ATAC ATA- ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC -ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
2323723 ATAC ATAC CTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
2323771 AT-C ATAC ATAC CTAC ATAC ATAC ATAC ATAC ATAC ATAAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-AC ATAC ATAC
2323819 ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2323866 AT-C ATAC A-AC ATAC ATAC ATAC ATAC ATAC ATA- ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
2323911 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACAC ATAC ATA-
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2323958 ATA- ATAC ATAC -TAC ATAC ATAC ATAAC ATAC -TAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC AT-AC ATAC ATAC ATAC ATAC ATAC
2324004 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
2324050 ATAC ATAC ATAC ATAC ATAC ATAC ATA- ATAC ATAC ATACC ACAC AT-C
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC
2324097 ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2324144 ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2324190 ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC -TAC A-AC A-AC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
2324234 ATAC ATAC A-AC ATAC ATAC ATAC ATAC A-AC ATAC ATAC ATAA ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2324280 --AC ATAC ATAC ATAC ATAC AATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC -ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2324327 ATAC -TAC -TAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2324372 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2324418 ATAC ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2324465 ATAC ATAC ATAC ATAC ATAC ATA- A-ACC ATAC ATAC ATA- ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC
2324511 ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATA- ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2324557 ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2324603 ATAC ATAC ATAC ATAC ATAC ATACC TATAC ATAC ATAC ATAC --AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATA-C -ATAC ATAC ATAC ATAC ATAC ATAC
*
2324651 CTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
2324698 ATA- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC CTAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2324745 ATAC ATAC ATAC AT-- ATAC ATAAC ATAC ATACC TATAC ATAC ATAC -TAC
1 ATAC ATAC ATAC ATAC ATAC AT-AC ATAC ATA-C -ATAC ATAC ATAC ATAC
2324793 ATAC ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC -TAC ATACC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C
* *
2324840 ATAC ATAC ATCC ATAC ATAC ATAC CTAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
2324888 ATAC ATAC AT-C ATAC ATAC ATAC ATAC -TAC CTAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
2324934 ATCC ATAC ATAC ATAC ATAC ATAC ATAC A-AC -TAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
2324980 ATAC ATAC ATAC ATAC ATAC ATAC CTAC ATAC ATAC ATAC --AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
2325026 ATAC ATAC ATAC CTAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
2325072 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC CTAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2325120 ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2325165 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATTAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-TAC ATAC ATAC
*
2325214 -TAC ATAC ATCC ATAC ATAC AT-C ATAC A-AC AT-C ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
2325258 ATAC ATAC ATAC ATAAC ATAC ATAC CTAC ATAC --AC ATAC A-AC ATAC
1 ATAC ATAC ATAC AT-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2325304 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
2325352 -TAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2325398 --AC 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
* *
2325443 ATAC ATAC -TAC CTAC ATAC ATAC ATAC ATAC ATAC AGAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
2325490 ATAC ATAC ATAC ATAC ATAC ATATC ATCC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC
* * *
2325539 AT-- ATAC ATAC ATAC ATAA ACAT ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2325585 ATAC ATAC ATAC ATAAC ATAC ATAC ATAC AT-- ATAC AT-C ATAC ATAC
1 ATAC ATAC ATAC AT-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2325631 ATAC ATAAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC
1 ATAC AT-AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
2325678 ATAC ATAC ATAC ATAC ATAC ATAC -TAC TATAC AT-C CTAT ATAC ATACC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC -ATAC ATAC ATAC ATAC ATA-C
2325726 ATAC ATAC ATACC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
2325775 ATAC ATAC ATAC ATAC ATCC ATAC ATAC ATAC ATAC ATAC CTAC ATA-
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
2325822 ATAC ATAC ATAC ATAC -TAC ATAC ATA- ATAC ATAC ATAC ATAC ATAGA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C
*
2325869 ATAC ATAC ATAC ATAC CTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2325917 ATAC ATA- ATAC AT-C -TAC ATAC ATAC ATAC ATAC ATAC ATAC AT-C
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2325961 ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT--
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
2326006 ATAC ATAT ATAC ATTAC ATAC ATAC -TAC ATAC ATA- ATAC ATAC ATCC
1 ATAC ATAC ATAC A-TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2326053 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
2326101 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2326148 ATAC -TAC ATAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2326193 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA- ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2326240 ATAC -TAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2326286 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
2326334 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
*
2326382 ATACC ATAC AATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC AACAC
1 ATA-C ATAC -ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -ATAC
* * *
2326432 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ACAT ACAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2326480 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-AC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
2326527 ATAC ATAC CTAC ATAC ATAC ATAC ATAC ATAC A-AC -TAC AGAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2326573 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
*
2326621 AGAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2326668 ATAC ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC --AC ATAC -TAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2326711 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2326757 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
* *
2326805 AT-C CTAC ATAC ATAC ATAC ATAC AACAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC -ATAC ATAC ATAC ATAC ATAC ATAC
2326853 -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2326900 ATAC A-AC ATAC ATAC ATAC AT-- ATAC ATA- ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
2326944 ATCC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC -TAC CTAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
2326990 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
2327038 --AC ATAC ATAC ATAC AGAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2327084 ATAC ATAC ATAC ATAC ATAC ATAAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC AT-AC ATAC ATAC ATAC ATAC ATAC ATAC
2327133 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-- ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
2327179 ATAC ATAA ATAT ACAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2327227 ATA
1 ATA
2327230 TACAAATCCA
Statistics
Matches: 3855, Mismatches: 87, Indels: 336
0.90 0.02 0.08
Matches are distributed among these distances:
2 60 0.02
3 237 0.06
4 3458 0.90
5 94 0.02
6 6 0.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:2327447 original size:11 final size:11
Alignment explanation
Indices: 2327421--2327458 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
2327411 AATCTAAATA
2327421 ATATATTTATAT
1 ATATATTTA-AT
*
2327433 ATATATTGAAT
1 ATATATTTAAT
2327444 ATATATTTAAT
1 ATATATTTAAT
2327455 ATAT
1 ATAT
2327459 TCTGTATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 16 0.67
12 8 0.33
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (11 bp):
ATATATTTAAT
Found at i:2346200 original size:25 final size:25
Alignment explanation
Indices: 2346140--2346200 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
2346130 ATGTTTTATG
*
2346140 TATTATGTATTTTTTTTACATATAT
1 TATTATGTATTTATTTTACATATAT
* *
2346165 TATCATGTATTTATTTTACGTATAT
1 TATTATGTATTTATTTTACATATAT
*
2346190 TATTATATATT
1 TATTATGTATT
2346201 ACATTGTGTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (25 bp):
TATTATGTATTTATTTTACATATAT
Found at i:2354295 original size:18 final size:19
Alignment explanation
Indices: 2354272--2354330 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 19
2354262 ATTTGGTGCA
*
2354272 GAGGGAATCGA-TCCCCCT
1 GAGGGAACCGATTCCCCCT
2354290 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCC--T
2354311 GAAGGGGAACCGATTCCCCC
1 G-A-GGGAACCGATTCCCCC
2354331 ACAGGGGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 10 0.29
19 6 0.17
21 2 0.06
22 1 0.03
23 16 0.46
ACGTcount: A:0.22, C:0.34, G:0.27, T:0.17
Consensus pattern (19 bp):
GAGGGAACCGATTCCCCCT
Found at i:2354356 original size:19 final size:20
Alignment explanation
Indices: 2354313--2354350 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2354303 CCCCCTTTGA
*
2354313 AGGGGAACCGATTCCCCCAC
1 AGGGGAACCGATACCCCCAC
*
2354333 AGGGGAATCGATACCCCC
1 AGGGGAACCGATACCCCC
2354351 CTGGGGTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.37, G:0.26, T:0.11
Consensus pattern (20 bp):
AGGGGAACCGATACCCCCAC
Found at i:2358675 original size:20 final size:21
Alignment explanation
Indices: 2358638--2358678 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2358628 GGATCAATTC
*
2358638 CATTGTTGCATTTACATTTTT
1 CATTGTTGCATTCACATTTTT
*
2358659 CATT-TTGCATTCCCATTTTT
1 CATTGTTGCATTCACATTTTT
2358679 TGCATCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.17, C:0.20, G:0.07, T:0.56
Consensus pattern (21 bp):
CATTGTTGCATTCACATTTTT
Found at i:2360128 original size:20 final size:19
Alignment explanation
Indices: 2360075--2360222 Score: 97
Period size: 18 Copynumber: 7.6 Consensus size: 19
2360065 GAAGAGATAT
*
2360075 AGAAAAAAAACACACACAAAG
1 AGAAAAAAAACA-A-AAAAAG
*
2360096 GGAAAGTAAAAACAGAAAAAAG
1 AGAAA--AAAAACA-AAAAAAG
* *
2360118 AGAAAAAAAACAAAGAGA-
1 AGAAAAAAAACAAAAAAAG
* *
2360136 AGAAAAGAAA-AAATAAAG
1 AGAAAAAAAACAAAAAAAG
* *
2360154 AGAAAACAAA-AGAAAAAG
1 AGAAAAAAAACAAAAAAAG
*
2360172 AGAAAAAGAA-AAAAAAAG
1 AGAAAAAAAACAAAAAAAG
* *
2360190 AGAGAAAAAATAAAAAGAAG
1 AGAAAAAAAACAAAAA-AAG
*
2360210 AAGAAAATAAACA
1 -AGAAAAAAAACA
2360223 GGTCCAACAC
Statistics
Matches: 101, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
17 5 0.05
18 47 0.47
19 9 0.09
20 10 0.10
21 13 0.13
22 9 0.09
23 8 0.08
ACGTcount: A:0.76, C:0.05, G:0.16, T:0.03
Consensus pattern (19 bp):
AGAAAAAAAACAAAAAAAG
Found at i:2360159 original size:36 final size:35
Alignment explanation
Indices: 2360111--2360216 Score: 126
Period size: 36 Copynumber: 2.9 Consensus size: 35
2360101 GTAAAAACAG
*
2360111 AAAAAAGAGAAAAAAAACAAAGAGAAGAAAAGAAA
1 AAAAAAGAGAAAAAAAAAAAAGAGAAGAAAAGAAA
2360146 AAATAAAGAGAAAACAAAAGAAAA-AG-AGAAAAAGAAA
1 AAA-AAAGAGAAAA-AAAA-AAAAGAGAAG-AAAAGAAA
2360183 AAAAAAGAGAGAAAAAATAAAAAGAAGAAGAAAA
1 AAAAAAGAGA-AAAAAA-AAAAAG-AGAAGAAAA
2360217 TAAACAGGTC
Statistics
Matches: 61, Mismatches: 1, Indels: 15
0.79 0.01 0.19
Matches are distributed among these distances:
35 3 0.05
36 26 0.43
37 21 0.34
38 9 0.15
39 2 0.03
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (35 bp):
AAAAAAGAGAAAAAAAAAAAAGAGAAGAAAAGAAA
Found at i:2362255 original size:54 final size:55
Alignment explanation
Indices: 2362117--2362478 Score: 328
Period size: 54 Copynumber: 6.7 Consensus size: 55
2362107 TTTTTTTAGG
* * *
2362117 AACTAA-TTCTGATTTAT-AGAAGTTTCTTGATGAGTTTTTAAATGAGCTTTCAAGGA
1 AACTAAGTTCTGATTT-TCAGAAGTTTCTTGATGA-TTTTTAAATGA-ATTTTAAAGA
* * *
2362173 AATTAAGTT-TGATTTTTAGAAGTTTCTTGATGATTTTTAATTGAATTTTAAAGA
1 AACTAAGTTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAATTTTAAAGA
* * * * *
2362227 AACTAAGTTC-GATATTCGGAAGTTTCTTGATTATTTTTAAACGAGCTTTTAAAGA
1 AACTAAGTTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGA-ATTTTAAAGA
* * ** * *
2362282 AACTAA-ATCTGATTTTTAGAAGTTTCTTGACAATTTTCAAATGAGTTTTAAAGA
1 AACTAAGTTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAATTTTAAAGA
* * *
2362336 AACCAAG-TCTGATTTTCAAAAGTTTCTTGATGATTTTTAAATGAATTTCAAAGA
1 AACTAAGTTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAATTTTAAAGA
** * * * ** *
2362390 AGTTTAG-CCTGCTTTTCAGGGGTTTCTTGATG-TTTTTAAATGAATTTGAAAGA
1 AACTAAGTTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAATTTTAAAGA
** ** *
2362443 AACTAAG-TCCAATTTTTGGAAGTTTCTTGATTATTT
1 AACTAAGTTCTGATTTTCAGAAGTTTCTTGATGATTT
2362479 GATCTTTCTA
Statistics
Matches: 247, Mismatches: 52, Indels: 16
0.78 0.17 0.05
Matches are distributed among these distances:
53 40 0.16
54 125 0.51
55 53 0.21
56 27 0.11
57 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (55 bp):
AACTAAGTTCTGATTTTCAGAAGTTTCTTGATGATTTTTAAATGAATTTTAAAGA
Found at i:2362309 original size:109 final size:109
Alignment explanation
Indices: 2362135--2362478 Score: 388
Period size: 109 Copynumber: 3.2 Consensus size: 109
2362125 CTGATTTATA
* *
2362135 GAAGTTTCTTGATGAGTTTTTAAATGAGCTTTCAAGGAAATTAAGTTTGATTTTTAGAAGTTTCT
1 GAAGTTTCTTGATGA-TTTTTAAATGAGCTTTCAAAGAAATTAAGTCTGATTTTTAGAAGTTTCT
* *
2362200 TGATGATTTTTAATTGAATTTTAAAGAAACTAAGTTCGATATTCG
65 TGATGATTTTTAAATGAATTTTAAAGAAACTAAGTTCGATTTTCG
* * * * *
2362245 GAAGTTTCTTGATTATTTTTAAACGAGCTTTTAAAGAAACTAAATCTGATTTTTAGAAGTTTCTT
1 GAAGTTTCTTGATGATTTTTAAATGAGCTTTCAAAGAAATTAAGTCTGATTTTTAGAAGTTTCTT
** * * * *
2362310 GACAATTTTCAAATGAGTTTTAAAGAAACCAAG-TCTGATTTTCA
66 GATGATTTTTAAATGAATTTTAAAGAAACTAAGTTC-GATTTTCG
* * * * * * * **
2362354 AAAGTTTCTTGATGATTTTTAAATGA-ATTTCAAAGAAGTTTAGCCTGCTTTTCAGGGGTTTCTT
1 GAAGTTTCTTGATGATTTTTAAATGAGCTTTCAAAGAAATTAAGTCTGATTTTTAGAAGTTTCTT
* * * *
2362418 GATG-TTTTTAAATGAATTTGAAAGAAACTAAGTCCAATTTTTG
66 GATGATTTTTAAATGAATTTTAAAGAAACTAAGTTCGATTTTCG
*
2362461 GAAGTTTCTTGATTATTT
1 GAAGTTTCTTGATGATTT
2362479 GATCTTTCTA
Statistics
Matches: 191, Mismatches: 41, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
107 45 0.24
108 32 0.17
109 100 0.52
110 14 0.07
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.43
Consensus pattern (109 bp):
GAAGTTTCTTGATGATTTTTAAATGAGCTTTCAAAGAAATTAAGTCTGATTTTTAGAAGTTTCTT
GATGATTTTTAAATGAATTTTAAAGAAACTAAGTTCGATTTTCG
Found at i:2362417 original size:163 final size:163
Alignment explanation
Indices: 2362117--2362473 Score: 389
Period size: 163 Copynumber: 2.2 Consensus size: 163
2362107 TTTTTTTAGG
* * * * * * ** *
2362117 AACTAATTCTGATTTATAGAAGTTTCTTGATGAGTTTTTAAATGAGCTTTCAAGGAAATTAAGTT
1 AACTAAATCTGATTTTTAGAAGTTTCTTGATCAATTTTCAAATGAGCTTTCAAAGAAACCAAGTC
* * * * *
2362182 TGATTTTTAGAAGTTTCTTGATGATTTTTAATTGAATTTTAAAGAAACTAAGTTCGATATTCGGA
66 TGATTTTCAAAAGTTTCTTGATGATTTTTAAATGAATTTCAAAGAAACTAAGCTCGATATTCGGA
* *
2362247 AGTTTCTTGATTATTTTTAAACGAGCTTTTAAAGA
131 AGTTTCTTGA-TATTTTTAAACGA-ATTTGAAAGA
*
2362282 AACTAAATCTGATTTTTAGAAGTTTCTTGA-CAATTTTCAAATGAG-TTTTAAAGAAACCAAGTC
1 AACTAAATCTGATTTTTAGAAGTTTCTTGATCAATTTTCAAATGAGCTTTCAAAGAAACCAAGTC
** * * *
2362345 TGATTTTCAAAAGTTTCTTGATGATTTTTAAATGAATTTCAAAGAAGTTTAGC-CTGCTTTTCAG
66 TGATTTTCAAAAGTTTCTTGATGATTTTTAAATGAATTTCAAAGAAACTAAGCTC-GATATTC-G
* * *
2362409 G-GGTTTCTTGATGTTTTTAAATGAATTTGAAAGA
129 GAAGTTTCTTGATATTTTTAAACGAATTTGAAAGA
* ** *
2362443 AACTAAGTCCAATTTTTGGAAGTTTCTTGAT
1 AACTAAATCTGATTTTTAGAAGTTTCTTGAT
2362474 TATTTGATCT
Statistics
Matches: 160, Mismatches: 29, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
161 34 0.21
162 12 0.08
163 72 0.45
164 14 0.09
165 28 0.17
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.42
Consensus pattern (163 bp):
AACTAAATCTGATTTTTAGAAGTTTCTTGATCAATTTTCAAATGAGCTTTCAAAGAAACCAAGTC
TGATTTTCAAAAGTTTCTTGATGATTTTTAAATGAATTTCAAAGAAACTAAGCTCGATATTCGGA
AGTTTCTTGATATTTTTAAACGAATTTGAAAGA
Found at i:2362551 original size:20 final size:20
Alignment explanation
Indices: 2362526--2362597 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
2362516 TCTTGATGAG
2362526 TAAGTCCTTCGAGCCATCTA
1 TAAGTCCTTCGAGCCATCTA
* * **
2362546 TAAGTCTTTCGAGCAAGATGA
1 TAAGTCCTTCGAGCCATCT-A
* * *
2362567 TAAGTCCTTCGGGACATCCA
1 TAAGTCCTTCGAGCCATCTA
*
2362587 TAAGACCTTCG
1 TAAGTCCTTCG
2362598 GGTAGGATGT
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
20 26 0.67
21 13 0.33
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (20 bp):
TAAGTCCTTCGAGCCATCTA
Found at i:2365249 original size:21 final size:22
Alignment explanation
Indices: 2365225--2365275 Score: 59
Period size: 24 Copynumber: 2.3 Consensus size: 22
2365215 ATGTTTGATG
2365225 TATTATGTATTTA-TTTAAGTA
1 TATTATGTATTTATTTTAAGTA
* *
2365246 TATTATCTGTTTTTATTTTACGTA
1 TATTA--TGTATTTATTTTAAGTA
2365270 TATTAT
1 TATTAT
2365276 ATATATTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
21 5 0.20
22 1 0.04
23 7 0.28
24 12 0.48
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.61
Consensus pattern (22 bp):
TATTATGTATTTATTTTAAGTA
Found at i:2365937 original size:62 final size:65
Alignment explanation
Indices: 2365867--2365994 Score: 235
Period size: 62 Copynumber: 2.0 Consensus size: 65
2365857 TAGGAAAGAG
2365867 AAATATTCGTCCTAAAGTATTTAGGGAGTA-TTT-TC-TCAATTGGAAATATAGGAATATTTTCT
1 AAATATTCGTCCTAAAGTATTTAGGGAGTATTTTCTCTTCAATTGGAAATATAGGAATATTTTCT
2365929 AAATATTCGTCCTAAAGTATTTAGGGAGTATTTTCTCTTCAATTGGAAATATAGGAATATTTTCT
1 AAATATTCGTCCTAAAGTATTTAGGGAGTATTTTCTCTTCAATTGGAAATATAGGAATATTTTCT
2365994 A
1 A
2365995 TTTTTCCTTA
Statistics
Matches: 63, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
62 30 0.48
63 3 0.05
64 2 0.03
65 28 0.44
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.41
Consensus pattern (65 bp):
AAATATTCGTCCTAAAGTATTTAGGGAGTATTTTCTCTTCAATTGGAAATATAGGAATATTTTCT
Found at i:2371311 original size:2 final size:2
Alignment explanation
Indices: 2371304--2371349 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
2371294 TAATTAAAAT
2371304 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2371346 TA TA
1 TA TA
2371350 AATTCTTCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2374306 original size:18 final size:18
Alignment explanation
Indices: 2374283--2374328 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
2374273 CTTTGTAATT
2374283 ATCTGATAACT-ATAAATC
1 ATCTGATAACTGA-AAATC
2374301 ATCTGATAACTGAAAATC
1 ATCTGATAACTGAAAATC
2374319 ATCTGATAAC
1 ATCTGATAAC
2374329 AGTAAACATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.30
Consensus pattern (18 bp):
ATCTGATAACTGAAAATC
Found at i:2377138 original size:30 final size:30
Alignment explanation
Indices: 2377104--2377192 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 30
2377094 TAAAATATAT
* * *
2377104 AACTTTTAAAAATTACAATTTTGGTCTCTA
1 AACTTTTAAAAATTACAATTTTAGCCACTA
** *
2377134 AACTTTTCAAAGTTTATAA-TTTAGCCACTA
1 AACTTTT-AAAAATTACAATTTTAGCCACTA
* *
2377164 AACTTTAAAAAATTAC-ATTTTAGTCACTA
1 AACTTTTAAAAATTACAATTTTAGCCACTA
2377193 GACAAAATTT
Statistics
Matches: 46, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
28 1 0.02
29 16 0.35
30 21 0.46
31 8 0.17
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.40
Consensus pattern (30 bp):
AACTTTTAAAAATTACAATTTTAGCCACTA
Found at i:2377191 original size:29 final size:29
Alignment explanation
Indices: 2377104--2377192 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 29
2377094 TAAAATATAT
* * *
2377104 AACTTTTAAAAATTACAATTTTGGTCTCTA
1 AACTTTAAAAAATTAC-ATTTTAGTCACTA
* ** * * *
2377134 AACTTTTCAAAGTTTATAATTTAGCCACTA
1 AAC-TTTAAAAAATTACATTTTAGTCACTA
2377164 AACTTTAAAAAATTACATTTTAGTCACTA
1 AACTTTAAAAAATTACATTTTAGTCACTA
2377193 GACAAAATTT
Statistics
Matches: 44, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
29 20 0.45
30 15 0.34
31 9 0.20
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.40
Consensus pattern (29 bp):
AACTTTAAAAAATTACATTTTAGTCACTA
Found at i:2379705 original size:17 final size:18
Alignment explanation
Indices: 2379672--2379705 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2379662 CAAATAATCA
2379672 ATAAAAAATTGAAAATTT
1 ATAAAAAATTGAAAATTT
*
2379690 ATAATAAATT-AAAATT
1 ATAAAAAATTGAAAATT
2379706 ATCATATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAAAAAATTGAAAATTT
Found at i:2380387 original size:37 final size:38
Alignment explanation
Indices: 2380335--2380532 Score: 229
Period size: 38 Copynumber: 5.3 Consensus size: 38
2380325 TAATATCAGT
* * *
2380335 GGAGATAAATTTAATGTTTCAAGGGAAACTATCTCAAG
1 GGAGATAAATGTGATGTTTCAAGGGAAACAATCTCAAG
* * * *
2380373 GGAGACAAA-CTAATGTTTCAAGGGAAACAATCTTAAG
1 GGAGATAAATGTGATGTTTCAAGGGAAACAATCTCAAG
* *
2380410 GGAGATAAATGTGGTGTTTCAAGGGAAACAATCTCGAG
1 GGAGATAAATGTGATGTTTCAAGGGAAACAATCTCAAG
* * *
2380448 AGAGATAAATGTGGTGTTTCAAGGGAAACTATCTCAAG
1 GGAGATAAATGTGATGTTTCAAGGGAAACAATCTCAAG
* * * * *
2380486 GGAGAAAAAT-TGATGTTTCAAGGGGAGCAATATTAAG
1 GGAGATAAATGTGATGTTTCAAGGGAAACAATCTCAAG
2380523 GGAGATAAAT
1 GGAGATAAAT
2380533 TTTTTTGTTT
Statistics
Matches: 137, Mismatches: 22, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
37 63 0.46
38 74 0.54
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.25
Consensus pattern (38 bp):
GGAGATAAATGTGATGTTTCAAGGGAAACAATCTCAAG
Found at i:2380543 original size:76 final size:76
Alignment explanation
Indices: 2380348--2380532 Score: 203
Period size: 75 Copynumber: 2.5 Consensus size: 76
2380338 GATAAATTTA
* * * * * ** *
2380348 ATGTTTCAAGGGAAACTATCTCAAGGGAGACAAA-CTAATGTTTCAAGGGAAACAATCTTAAGGG
1 ATGTTTCAAGGGAAACAATATCAAGAGAGATAAATGTGGTGTTTCAAGGGAAACAATCTCAAGGG
*
2380412 AGATAAATGTG
66 AGAAAAATGTG
* * * *
2380423 GTGTTTCAAGGGAAACAATCTCGAGAGAGATAAATGTGGTGTTTCAAGGGAAACTATCTCAAGGG
1 ATGTTTCAAGGGAAACAATATCAAGAGAGATAAATGTGGTGTTTCAAGGGAAACAATCTCAAGGG
2380488 AGAAAAAT-TG
66 AGAAAAATGTG
* * * *
2380498 ATGTTTCAAGGGGAGCAATATTAAGGGAGATAAAT
1 ATGTTTCAAGGGAAACAATATCAAGAGAGATAAAT
2380533 TTTTTTGTTT
Statistics
Matches: 91, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
75 59 0.65
76 32 0.35
ACGTcount: A:0.39, C:0.10, G:0.26, T:0.24
Consensus pattern (76 bp):
ATGTTTCAAGGGAAACAATATCAAGAGAGATAAATGTGGTGTTTCAAGGGAAACAATCTCAAGGG
AGAAAAATGTG
Found at i:2381897 original size:26 final size:27
Alignment explanation
Indices: 2381868--2381944 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 27
2381858 TGATATTATA
2381868 TATAATA-ATTTCAAAAATATATAGTG
1 TATAATAGATTTCAAAAATATATAGTG
* **
2381894 TAT-ATAGTTTTTGAAAATATATAGTG
1 TATAATAGATTTCAAAAATATATAGTG
* **
2381920 TAT-ATAGTTTTTGAAAATATATAGT
1 TATAATAGATTTCAAAAATATATAGT
2381945 ATAGTTTTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
25 3 0.06
26 44 0.94
ACGTcount: A:0.43, C:0.01, G:0.12, T:0.44
Consensus pattern (27 bp):
TATAATAGATTTCAAAAATATATAGTG
Found at i:2381923 original size:24 final size:25
Alignment explanation
Indices: 2381881--2381958 Score: 117
Period size: 26 Copynumber: 3.2 Consensus size: 25
2381871 AATAATTTCA
2381881 AAAATATATAGTGTATATAGTTTTTG
1 AAAATATATAGTG-ATATAGTTTTTG
2381907 AAAATATATAGTGTATATAGTTTTTG
1 AAAATATATAGTG-ATATAGTTTTTG
2381933 AAAATATATA--G-TATAGTTTTTG
1 AAAATATATAGTGATATAGTTTTTG
2381955 AAAA
1 AAAA
2381959 CACGATTTTG
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
22 15 0.29
24 1 0.02
26 36 0.69
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (25 bp):
AAAATATATAGTGATATAGTTTTTG
Found at i:2382047 original size:73 final size:74
Alignment explanation
Indices: 2381927--2382107 Score: 210
Period size: 73 Copynumber: 2.4 Consensus size: 74
2381917 GTGTATATAG
*
2381927 TTTTTGAAAATATATAGTATAGTTTTTGAAAACACGATTTTGAAAACATAT-ATAATATAGTCTT
1 TTTTTGAAAATATATAATATAGTTTTTGAAAACACGATTTTGAAAACATATAAT-ATATAGTCTT
*
2381991 TGAAAA-CGT
65 TAAAAATCGT
* *
2382000 ATTTTTGAAAATATATAATATA-TATTTT-AAAACA-GTTATTTGAAAACATATAATATATAGTT
1 -TTTTTGAAAATATATAATATAGT-TTTTGAAAACACGAT-TTTGAAAACATATAATATATAGTC
*
2382062 TTTAAAAATGGT
63 TTTAAAAATCGT
* *
2382074 TTTTGGAAAACATATATAATATTGTTTTTGAAAA
1 TTTTTG-AAA-ATATATAATATAGTTTTTGAAAA
2382108 TATATAGTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
72 2 0.02
73 39 0.42
74 31 0.34
75 15 0.16
76 5 0.05
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.42
Consensus pattern (74 bp):
TTTTTGAAAATATATAATATAGTTTTTGAAAACACGATTTTGAAAACATATAATATATAGTCTTT
AAAAATCGT
Found at i:2382106 original size:24 final size:24
Alignment explanation
Indices: 2382072--2382268 Score: 124
Period size: 22 Copynumber: 8.2 Consensus size: 24
2382062 TTTAAAAATG
*
2382072 GTTTTTGGAAAACATATATAATATT
1 GTTTTT-GAAAACATATATAATATA
*
2382097 GTTTTTG-AAA-ATATATAGTATA
1 GTTTTTGAAAACATATATAATATA
*
2382119 GTTTTTGAAAACATAT-TTATATA
1 GTTTTTGAAAACATATATAATATA
* * *
2382142 GATTTTAAAAATATATATAATATATA
1 GTTTTTGAAAACATATAT-A-ATATA
* *
2382168 GTTTCTG-AAA-ATATATAGTATA
1 GTTTTTGAAAACATATATAATATA
* * *
2382190 GTTTTTAAAAAACATATTGTTATATA
1 GTTTTT-GAAAACATA-TATAATATA
* *
2382216 -ATTTCGAAAACATAT-T-ATAT-
1 GTTTTTGAAAACATATATAATATA
* *
2382236 GATTTTGAAAATATAATATATTATATA
1 GTTTTTGAAAACAT-ATATA--ATATA
2382263 GTTTTT
1 GTTTTT
2382269 AAATATATTA
Statistics
Matches: 133, Mismatches: 23, Indels: 30
0.72 0.12 0.16
Matches are distributed among these distances:
21 15 0.11
22 29 0.22
23 27 0.20
24 23 0.17
25 15 0.11
26 19 0.14
27 5 0.04
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (24 bp):
GTTTTTGAAAACATATATAATATA
Found at i:2382108 original size:38 final size:37
Alignment explanation
Indices: 2381926--2382108 Score: 168
Period size: 38 Copynumber: 5.0 Consensus size: 37
2381916 AGTGTATATA
* *
2381926 GTTTTTG-AAA-ATATATAGTATAGTTTTTGAAAACAC
1 GTTTTTGAAAACATATATAATATAGTTTTTGAAAA-TC
* *
2381962 GATTTTGAAAACATATATAATATAGTCTTTGAAAA-C
1 GTTTTTGAAAACATATATAATATAGTTTTTGAAAATC
2381998 GTATTTTTG-AAA-ATATATAATATA-TATTTT-AAAA-C
1 G--TTTTTGAAAACATATATAATATAGT-TTTTGAAAATC
* *
2382033 AGTTATTTGAAAACATATA-ATATATAGTTTTTAAAAATG
1 -GTT-TTTGAAAACATATATA-ATATAGTTTTTGAAAATC
*
2382072 GTTTTTGGAAAACATATATAATATTGTTTTTGAAAAT
1 GTTTTT-GAAAACATATATAATATAGTTTTTGAAAAT
2382109 ATATAGTATA
Statistics
Matches: 124, Mismatches: 8, Indels: 28
0.77 0.05 0.17
Matches are distributed among these distances:
34 2 0.02
35 10 0.08
36 28 0.23
37 23 0.19
38 60 0.48
39 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.42
Consensus pattern (37 bp):
GTTTTTGAAAACATATATAATATAGTTTTTGAAAATC
Found at i:2382158 original size:47 final size:46
Alignment explanation
Indices: 2382072--2382268 Score: 120
Period size: 47 Copynumber: 4.1 Consensus size: 46
2382062 TTTAAAAATG
* * **
2382072 GTTTTTGGAAAACATATATAATATTG-TTTTTGAAAATATATAGTATA
1 GTTTTT-GAAAACATAT-TTATATAGATTTTAAAAAATATATAGTATA
*
2382119 GTTTTTGAAAACATATTTATATAGATTTTAAAAATATATATAATATATA
1 GTTTTTGAAAACATATTTATATAGATTTTAAAAA-ATATAT-A-GTATA
* * * * *
2382168 GTTTCTG-AAA-ATATATAGTATAGTTTTTAAAAAACATATTGTTATA
1 GTTTTTGAAAACATATTTA-TATAGATTTTAAAAAATATATAG-TATA
*
2382214 -TAATTTCGAAAACATA-TTATAT-GATTTTGAAAATATAATATATTA-TATA
1 GT--TTTTGAAAACATATTTATATAGATTTT--AAA-A-AATATA-TAGTATA
2382263 GTTTTT
1 GTTTTT
2382269 AAATATATTA
Statistics
Matches: 116, Mismatches: 18, Indels: 31
0.70 0.11 0.19
Matches are distributed among these distances:
45 7 0.06
46 26 0.22
47 29 0.25
48 29 0.25
49 18 0.16
50 6 0.05
51 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (46 bp):
GTTTTTGAAAACATATTTATATAGATTTTAAAAAATATATAGTATA
Found at i:2382235 original size:21 final size:21
Alignment explanation
Indices: 2382209--2382256 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2382199 AAACATATTG
2382209 TTATATAATTTCGAAAACATA
1 TTATATAATTTCGAAAACATA
* * *
2382230 TTATATGATTTTGAAAATATA
1 TTATATAATTTCGAAAACATA
*
2382251 ATATAT
1 TTATAT
2382257 TATATAGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (21 bp):
TTATATAATTTCGAAAACATA
Found at i:2382255 original size:71 final size:69
Alignment explanation
Indices: 2382079--2382250 Score: 208
Period size: 71 Copynumber: 2.5 Consensus size: 69
2382069 ATGGTTTTTG
* *
2382079 GAAAACATATATAATATTGTTTTTGAAAATATATAGTATAGTTTTT-GAAAACATATTTATATAG
1 GAAAACATATATAATA-TGATTTTGAAAATATATAGTATAGTTTTTAAAAAACATATTTATATAG
*
2382143 ATTTT
65 ATTTC
* * *
2382148 AAAAATATATATAATATATAGTTTCTGAAAATATATAGTATAGTTTTTAAAAAACATATTGTTAT
1 GAAAACATATATAATAT-GA-TTT-TGAAAATATATAGTATAGTTTTTAAAAAACATA-T-TTAT
2382213 ATA-ATTTC
61 ATAGATTTC
2382221 GAAAACATAT-T-ATATGATTTTGAAAATATA
1 GAAAACATATATAATATGATTTTGAAAATATA
2382251 ATATATTATA
Statistics
Matches: 88, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
68 11 0.12
69 17 0.19
70 4 0.05
71 27 0.31
72 9 0.10
73 13 0.15
74 7 0.08
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.42
Consensus pattern (69 bp):
GAAAACATATATAATATGATTTTGAAAATATATAGTATAGTTTTTAAAAAACATATTTATATAGA
TTTC
Found at i:2383796 original size:17 final size:17
Alignment explanation
Indices: 2383774--2383806 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2383764 TTAATCATTC
2383774 TTTAATATTTCTTTTAA
1 TTTAATATTTCTTTTAA
*
2383791 TTTAATATTTTTTTTA
1 TTTAATATTTCTTTTA
2383807 TTTTTTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTAATATTTCTTTTAA
Found at i:2393685 original size:68 final size:68
Alignment explanation
Indices: 2393599--2393740 Score: 257
Period size: 68 Copynumber: 2.1 Consensus size: 68
2393589 AGGAGATCAT
2393599 ATGTTGATATGGTTTACCAAAAAGAATCATTGCCGATAATGCAACAAATTTAAACAACAAGATAA
1 ATGTTGATATGGTTTACCAAAAAGAATCATTGCCGATAATGCAACAAATTTAAACAACAAGATAA
2393664 TGG
66 TGG
* * *
2393667 ATGTTGATATGGTTTACCAGAAAGAATCATTGCTGATAATGCAACAAATTTAAACAACAAGATGA
1 ATGTTGATATGGTTTACCAAAAAGAATCATTGCCGATAATGCAACAAATTTAAACAACAAGATAA
2393732 TGG
66 TGG
2393735 ATGTTG
1 ATGTTG
2393741 CGTGTGAACA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 71 1.00
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (68 bp):
ATGTTGATATGGTTTACCAAAAAGAATCATTGCCGATAATGCAACAAATTTAAACAACAAGATAA
TGG
Found at i:2395111 original size:25 final size:23
Alignment explanation
Indices: 2395083--2395129 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
2395073 CTTTCTGAAA
2395083 CAAAATCCCAGAGAGGATATCAGAT
1 CAAAA-CCCAGAGAGGA-ATCAGAT
**
2395108 CAAAACCCATTGAGGAATCAGA
1 CAAAACCCAGAGAGGAATCAGA
2395130 GAATACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 9 0.45
25 5 0.25
ACGTcount: A:0.45, C:0.21, G:0.19, T:0.15
Consensus pattern (23 bp):
CAAAACCCAGAGAGGAATCAGAT
Found at i:2396075 original size:26 final size:26
Alignment explanation
Indices: 2396046--2396101 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
2396036 TATGATATTA
2396046 TATATAATA-ATTTCAAAAATATATAG
1 TATAT-ATAGATTTCAAAAATATATAG
* **
2396072 TATATATAGTTTTTGAAAATATATAG
1 TATATATAGATTTCAAAAATATATAG
2396098 TATA
1 TATA
2396102 GTTTTTGACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 3 0.12
26 23 0.88
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (26 bp):
TATATATAGATTTCAAAAATATATAG
Found at i:2396095 original size:28 final size:29
Alignment explanation
Indices: 2396033--2396096 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
2396023 ATTATATAGC
*
2396033 ATATATGATATTATATATAATAATTTCAAA
1 ATATAT-ATAGTATATATAATAATTTCAAA
* * *
2396063 A-ATATATAGTATATATAGT-TTTTGAAA
1 ATATATATAGTATATATAATAATTTCAAA
2396090 ATATATA
1 ATATATA
2396097 GTATAGTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 7 0.24
28 17 0.59
29 4 0.14
30 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (29 bp):
ATATATATAGTATATATAATAATTTCAAA
Found at i:2396141 original size:38 final size:36
Alignment explanation
Indices: 2396082--2396301 Score: 191
Period size: 38 Copynumber: 5.9 Consensus size: 36
2396072 TATATATAGT
2396082 TTTTG-AAA-ATAT-ATAGTATAGTTTTTGACAACACGA
1 TTTTGAAAACATATAATA-TATAGTTTTTGA-AA-ACGA
* ****
2396118 TTTTGAAAACATATAATATATAGTTTTCT-TAATTTT
1 TTTTGAAAACATATAATATATAGTTTT-TGAAAACGA
*
2396154 TTTTGAAAACATATATATAATATAGTCTTTGAAAACGTA
1 TTTTGAAAACATATA-AT-ATATAGTTTTTGAAAACG-A
*
2396193 TTTTTGAAAACATATAATATATAGTTTTTTAAAACGA
1 -TTTTGAAAACATATAATATATAGTTTTTGAAAACGA
* * *
2396230 TTCTTTGAAAA-ATATAATATATAGTTTTTAAAAATGG
1 -T-TTTGAAAACATATAATATATAGTTTTTGAAAACGA
2396267 TTTCTGAAAAACATAT-ATAATATAGTTTTTGAAAA
1 TTT-TG-AAAACATATAAT-ATATAGTTTTTGAAAA
2396302 TATATAGTAT
Statistics
Matches: 153, Mismatches: 17, Indels: 26
0.78 0.09 0.13
Matches are distributed among these distances:
35 2 0.01
36 23 0.15
37 40 0.26
38 67 0.44
39 6 0.04
40 15 0.10
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.43
Consensus pattern (36 bp):
TTTTGAAAACATATAATATATAGTTTTTGAAAACGA
Found at i:2396290 original size:75 final size:78
Alignment explanation
Indices: 2396090--2396301 Score: 192
Period size: 75 Copynumber: 2.8 Consensus size: 78
2396080 GTTTTTGAAA
* * * *
2396090 ATATATAGTATAGTTTTTGACAACACG-ATTT-TGAAAACATATAATATATAGTTTTCT--TAA-
1 ATATATAATATAGTCTTT-A-AAAACGTATTTCTGAAAACATATAATATATAGTTTT-TGAAAAC
** *
2396150 TTTTTTTTGAAAACAT
63 GATTCTTTGAAAACAT
* * *
2396166 ATATATAATATAGTCTTTGAAAACGTATTTTTGAAAACATATAATATATAGTTTTTTAAAACGAT
1 ATATATAATATAGTCTTTAAAAACGTATTTCTGAAAACATATAATATATAGTTTTTGAAAACGAT
2396231 TCTTTGAAAA-AT
66 TCTTTGAAAACAT
* * *
2396243 ATA-AT-ATATAGTTTTTAAAAATG-GTTTCTGAAAAACATAT-ATAATATAGTTTTTGAAAA
1 ATATATAATATAGTCTTTAAAAACGTATTTCTG-AAAACATATAAT-ATATAGTTTTTGAAAA
2396302 TATATAGTAT
Statistics
Matches: 115, Mismatches: 14, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
74 12 0.10
75 44 0.38
76 42 0.37
77 7 0.06
78 10 0.09
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (78 bp):
ATATATAATATAGTCTTTAAAAACGTATTTCTGAAAACATATAATATATAGTTTTTGAAAACGAT
TCTTTGAAAACAT
Found at i:2396307 original size:22 final size:22
Alignment explanation
Indices: 2396279--2396391 Score: 129
Period size: 22 Copynumber: 5.0 Consensus size: 22
2396269 TCTGAAAAAC
2396279 ATATATAATATAGTTTTTGAAA
1 ATATATAATATAGTTTTTGAAA
*
2396301 ATATATAGTATAGTTTTTGAAA
1 ATATATAATATAGTTTTTGAAA
* * * *
2396323 ACATATTATAAAGTTTTTTTAAA
1 ATATATAATATAG-TTTTTGAAA
2396346 A-ATATAATATATAGTTTTTGAAA
1 ATATAT-A-ATATAGTTTTTGAAA
* *
2396369 ATATATAGTATAGTTTTTAAAA
1 ATATATAATATAGTTTTTGAAA
2396391 A
1 A
2396392 AACATATTGT
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
22 48 0.63
23 19 0.25
24 9 0.12
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.45
Consensus pattern (22 bp):
ATATATAATATAGTTTTTGAAA
Found at i:2396325 original size:46 final size:46
Alignment explanation
Indices: 2396274--2396391 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 46
2396264 TGGTTTCTGA
*
2396274 AAAACATATATAATATAGTTTTTGAAAATAT-ATAGTATAGTTTTTG
1 AAAACATATATAATATAGTTTTTAAAAATATAATA-TATAGTTTTTG
*
2396320 AAAACATATTATAA-AGT-TTTTTTAAAAATATAATATATAGTTTTTG
1 AAAACATA-TATAATA-TAGTTTTTAAAAATATAATATATAGTTTTTG
*
2396366 -AAA-ATATATAGTATAGTTTTTAAAAA
1 AAAACATATATAATATAGTTTTTAAAAA
2396392 AACATATTGT
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
43 5 0.08
44 14 0.22
45 3 0.05
46 32 0.51
47 9 0.14
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (46 bp):
AAAACATATATAATATAGTTTTTAAAAATATAATATATAGTTTTTG
Found at i:2397914 original size:15 final size:16
Alignment explanation
Indices: 2397896--2397927 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2397886 TACTTTTTTA
2397896 TTTA-TTTTTTCATTT
1 TTTATTTTTTTCATTT
2397911 TTTATTTTTTTCATTT
1 TTTATTTTTTTCATTT
2397927 T
1 T
2397928 ATTTTATCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTATTTTTTTCATTT
Found at i:2397927 original size:14 final size:15
Alignment explanation
Indices: 2397896--2397932 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
2397886 TACTTTTTTA
2397896 TTTA-TTTTTTCATTT
1 TTTATTTTTTTCA-TT
2397911 TTTATTTTTTTCA-T
1 TTTATTTTTTTCATT
2397925 TTTATTTT
1 TTTATTTT
2397933 ATCCTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 4 0.19
16 8 0.38
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTATTTTTTTCATT
Found at i:2397932 original size:19 final size:19
Alignment explanation
Indices: 2397891--2397934 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 19
2397881 TTTAATACTT
2397891 TTTTA-TTTA-TTTTTTCA
1 TTTTATTTTATTTTTTTCA
2397908 --TT-TTTTATTTTTTTCA
1 TTTTATTTTATTTTTTTCA
2397924 TTTTATTTTAT
1 TTTTATTTTAT
2397935 CCTATTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 8
0.73 0.00 0.27
Matches are distributed among these distances:
15 6 0.27
16 8 0.36
18 2 0.09
19 6 0.27
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTATTTTATTTTTTTCA
Found at i:2397941 original size:15 final size:15
Alignment explanation
Indices: 2397896--2397945 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
2397886 TACTTTTTTA
* *
2397896 TTTATTTTTTCATTT
1 TTTATTTTTTCCTAT
*
2397911 TTTATTTTTTTC-AT
1 TTTATTTTTTCCTAT
*
2397925 TTTATTTTATCCTAT
1 TTTATTTTTTCCTAT
2397940 TTTATT
1 TTTATT
2397946 ATTTAATATC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTTTTCCTAT
Found at i:2411601 original size:45 final size:45
Alignment explanation
Indices: 2411511--2411851 Score: 454
Period size: 45 Copynumber: 7.6 Consensus size: 45
2411501 CCTCCATTCT
* * * * *
2411511 TGTTTATAATGCA-CCATTATGTATTTTTAACTATATCATATTTTTC
1 TGTTGATAATGCACCCA-TATGCA-TTTCAACTATAGCATACTTTTC
*
2411557 TGTTGATAATGCACCCATATGCATTTCAACTATAACATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
*
2411602 TATTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
2411647 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
* *
2411692 TGATGATAATGCACCTATATGCATTTCAACTATAGCATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
* *
2411737 TGTTGATAATGCACCCATATGCATTTCAACTAT-GCCATAATTTTA
1 TGTTGATAATGCACCCATATGCATTTCAACTATAG-CATACTTTTC
* * * *
2411782 TGTTGATGATGCACCCATATGCATTTCAACAATTGCAT-CCTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
* * **
2411826 ATGCTAATAATAAACCCATATGCATT
1 -TGTTGATAATGCACCCATATGCATT
2411852 ATTATTTTCA
Statistics
Matches: 267, Mismatches: 24, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
44 4 0.01
45 242 0.91
46 18 0.07
47 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (45 bp):
TGTTGATAATGCACCCATATGCATTTCAACTATAGCATACTTTTC
Found at i:2418804 original size:18 final size:18
Alignment explanation
Indices: 2418781--2418817 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
2418771 TCATTAATGG
2418781 TTGATATTTTTTATTTTT
1 TTGATATTTTTTATTTTT
*
2418799 TTGATATTTTTTCTTTTT
1 TTGATATTTTTTATTTTT
2418817 T
1 T
2418818 CCCACTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.78
Consensus pattern (18 bp):
TTGATATTTTTTATTTTT
Found at i:2421117 original size:61 final size:58
Alignment explanation
Indices: 2421041--2421225 Score: 264
Period size: 61 Copynumber: 3.1 Consensus size: 58
2421031 GTTTTAAATG
*
2421041 TTTCTCAATTTTGGTTGTTAAGTAAAAGTGGTAAATGGTTTGTTTGTGCAGGTATAGTTA
1 TTTCTC-ATTTTGGTTATTAAGTAAAAGTGGTAAATGGTTTGTTTGTGCAGG-ATAGTTA
*
2421101 TTTTCTCATGTTTGGTTATTAAGTAAAAGTGGTAAATGGTTTGTTTGTGCAGGCATAGCTA
1 -TTTCTCAT-TTTGGTTATTAAGTAAAAGTGGTAAATGGTTTGTTTGTGCAGG-ATAGTTA
* *
2421162 CTT-TCATTTTTGGTTATTAAGTAAAAGTGGTAAATGGTTTGTTTGTGCAGGCTAGTTA
1 TTTCTCA-TTTTGGTTATTAAGTAAAAGTGGTAAATGGTTTGTTTGTGCAGGATAGTTA
2421220 CTTTCT
1 -TTTCT
2421226 GGGACTTTAT
Statistics
Matches: 113, Mismatches: 7, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
58 5 0.04
59 48 0.42
60 6 0.05
61 54 0.48
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.45
Consensus pattern (58 bp):
TTTCTCATTTTGGTTATTAAGTAAAAGTGGTAAATGGTTTGTTTGTGCAGGATAGTTA
Found at i:2421203 original size:59 final size:59
Alignment explanation
Indices: 2421049--2421224 Score: 282
Period size: 59 Copynumber: 3.0 Consensus size: 59
2421039 TGTTTCTCAA
* * *
2421049 TTTTGGTTGTTAAGTAAAAGTGGTAAATGGTTTGTTTGTGCAGGTATAGTTATTTTCTCAT
1 TTTTGGTTATTAAGTAAAAGTGGTAAATGGTTTGTTTGTGCAGGCATAGTTA-CTT-TCAT
* *
2421110 GTTTGGTTATTAAGTAAAAGTGGTAAATGGTTTGTTTGTGCAGGCATAGCTACTTTCAT
1 TTTTGGTTATTAAGTAAAAGTGGTAAATGGTTTGTTTGTGCAGGCATAGTTACTTTCAT
2421169 TTTTGGTTATTAAGTAAAAGTGGTAAATGGTTTGTTTGTGCAGGC-TAGTTACTTTC
1 TTTTGGTTATTAAGTAAAAGTGGTAAATGGTTTGTTTGTGCAGGCATAGTTACTTTC
2421225 TGGGACTTTA
Statistics
Matches: 108, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
58 10 0.09
59 48 0.44
60 2 0.02
61 48 0.44
ACGTcount: A:0.24, C:0.07, G:0.25, T:0.44
Consensus pattern (59 bp):
TTTTGGTTATTAAGTAAAAGTGGTAAATGGTTTGTTTGTGCAGGCATAGTTACTTTCAT
Done.