Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008071.1 Hibiscus syriacus cultivar Beakdansim tig00110569_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: 1969971
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 2 of 8
Found at i:164705 original size:65 final size:65
Alignment explanation
Indices: 164601--164781 Score: 308
Period size: 65 Copynumber: 2.8 Consensus size: 65
164591 GACAAAATTT
*
164601 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
164666 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* **
164731 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTCATTTCAAGGGAAA
164782 ATATCTCAAG
Statistics
Matches: 109, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
65 95 0.87
66 14 0.13
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:164762 original size:270 final size:264
Alignment explanation
Indices: 164461--165037 Score: 662
Period size: 270 Copynumber: 2.1 Consensus size: 264
164451 AGACGAAAAT
* * *
164461 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTGTCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATATCTCAAGAGAG
* **
164526 ACGAAATTTGTTTCAAAGAAAACATATTCAAATATTT-TGTTTCAAGAGAAAACTGTCTCAAGGG
66 ACAAAATTCATTTCAAAGAAAACATATTC-AATATTTATGTTTCAAGAG-AAACTGTCTCAAGGG
* * *
164590 AGACAAAATTTTGTTTCAAGAGAAACTG-TCTCAA-G-A-G-AGACGAAATTCATTTCAAGGGAA
129 AGACAAAATTTTGTTCCAAGAGAAA-TGTTCTCAATGTATGTAGA-GAAACT-ATCTCAAGGG--
* **
164650 ATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAA
189 A-G---ACAAAATTT-TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAA
164715 ATGTTTTCAATGTTTA
249 ATGTTTTCAATGTTTA
* * * * **
164731 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAAATATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATATCTCAAGAGAG
* * ** * *
164796 ACAAAATTCATTTCAAGGGAAATGTTTTCAATATTTATGTTTCAAGAGAAACTGTCTCAATGGAG
66 ACAAAATTCATTTCAAAGAAAACATATTCAATATTTATGTTTCAAGAGAAACTGTCTCAAGGGAG
** * * *
164861 ACGGAATTTTGTTCCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGA
131 ACAAAATTTTGTTCCAAGAGAAATGTTCTCAATG--TATG--T--AGAGAAACTATCTCAAGGGA
*
164926 GACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTT
190 GACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTT
164991 TCAATGTTTA
255 TCAATGTTTA
* *
165001 TGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAACTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
165038 TCTGTTTCGA
Statistics
Matches: 262, Mismatches: 33, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
268 2 0.01
269 47 0.18
270 187 0.71
271 6 0.02
273 1 0.00
274 2 0.01
275 1 0.00
277 8 0.03
278 5 0.02
279 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (264 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAAATATCTCAAGAGAG
ACAAAATTCATTTCAAAGAAAACATATTCAATATTTATGTTTCAAGAGAAACTGTCTCAAGGGAG
ACAAAATTTTGTTCCAAGAGAAATGTTCTCAATGTATGTAGAGAAACTATCTCAAGGGAGACAAA
ATTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATG
TTTA
Found at i:164772 original size:102 final size:102
Alignment explanation
Indices: 164666--164883 Score: 373
Period size: 102 Copynumber: 2.1 Consensus size: 102
164656 TCAATGTTTA
* * *
164666 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAAATATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATATTTA
164731 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
164768 TGTTTCAAGGGAAAATATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATATTTA
1 TGTTTCAAGGGAAAATATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATATTTA
* **
164833 TGTTTCAAGAGAAACTGTCTCAATGGAGACGGAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
164870 TGTTCCAAGGGAAA
1 TGTTTCAAGGGAAA
164884 TGTTTTCAAT
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 109 1.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGGGAAAATATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATATTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:164899 original size:66 final size:66
Alignment explanation
Indices: 164764--164949 Score: 252
Period size: 66 Copynumber: 2.8 Consensus size: 66
164754 GGGAGACAAA
* * * * *
164764 ATTT-TGTTTCAAGGGAAAATATCTCAAGAGAGACAAAATTCAT-TT-CAAGGGAAATGTTTTCA
1 ATTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT-TTGTTCCAAGGGAAATGTTTTCA
164826 AT
65 AT
* **
164828 ATTTATGTTTCAAGAGAAACTGTCTCAATGGAGACGGAATTTTGTTCCAAGGGAAATGTTTTCAA
1 ATTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAATGTTTTCAA
164893 T
66 T
* *
164894 GTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
1 ATTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAA
164950 CTATCTCAAG
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
64 5 0.05
65 31 0.29
66 70 0.66
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.33
Consensus pattern (66 bp):
ATTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAATGTTTTCAA
T
Found at i:164906 original size:168 final size:165
Alignment explanation
Indices: 164507--165030 Score: 791
Period size: 168 Copynumber: 3.1 Consensus size: 165
164497 TAGTTCCAAA
* * * ** * *
164507 AGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATTT-TGTTTCAA
1 AGAAACTGTCTCAA-GGAGACGAATTTTG-TTCAAGGGAAATGTTTTC-AATGTTTATGTTTCAA
* * *
164571 GAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAAT
63 GAG-AAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
164636 TCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
127 TCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
* * *
164675 AGAAACTATCTCAAGAGAGACAAAATTCAT-TTCAAGGGAAATGTTTTCAATGTTTATGTTTCAA
1 AGAAACTGTCTCAAG-GAGAC-GAATT-TTGTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAA
*
164739 GAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAAATATCTCAAGAGAGACAAAATT
63 GAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
*
164804 CATTTCAAGGGAAATGTTTTCAATATTTATGTTTCAAG
128 CATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
164842 AGAAACTGTCTCAATGGAGACGGAATTTTGTTCCAAGGGAAATGTTTTCAATGTTTATGTTTCAA
1 AGAAACTGTCTCAA-GGAGAC-GAATTTTGTT-CAAGGGAAATGTTTTCAATGTTTATGTTTCAA
164907 GAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
63 GAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
*
164972 CATTTCAAGGGAAATGTTTTCAATGTTTATGTTTAAAG
128 CATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
165010 AGAAACTGTCTCAAGTGAGAC
1 AGAAACTGTCTCAAG-GAGAC
165031 AAAACTTTCT
Statistics
Matches: 326, Mismatches: 22, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
166 1 0.00
167 127 0.39
168 194 0.60
169 3 0.01
170 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (165 bp):
AGAAACTGTCTCAAGGAGACGAATTTTGTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAG
AAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT
TTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAG
Found at i:164950 original size:37 final size:36
Alignment explanation
Indices: 164899--164985 Score: 120
Period size: 37 Copynumber: 2.4 Consensus size: 36
164889 TCAATGTTTA
* * *
164899 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TT
164936 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
**
164972 CATTTCAAGGGAAA
1 TGTTTCAAGGGAAA
164986 TGTTTTCAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 14 0.31
37 31 0.69
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
Found at i:165011 original size:102 final size:104
Alignment explanation
Indices: 164875--165074 Score: 341
Period size: 102 Copynumber: 1.9 Consensus size: 104
164865 AATTTTGTTC
*
164875 CAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTT-TG
1 CAAGGGAAATGTTTTCAATGTTTATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTCTG
164938 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTT
66 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTT
*
164977 CAAGGGAAATGTTTTCAATGTTTATGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAACTTTCTG
1 CAAGGGAAATGTTTTCAATGTTTATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTCTG
* * *
165042 TTTCGAGGGAAACTATCTCAAGCGAGATAAAAT
66 TTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
165075 ATTGTTTTAA
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
102 56 0.62
103 3 0.03
104 32 0.35
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (104 bp):
CAAGGGAAATGTTTTCAATGTTTATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTCTG
TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTT
Found at i:166580 original size:183 final size:183
Alignment explanation
Indices: 166272--166621 Score: 646
Period size: 183 Copynumber: 1.9 Consensus size: 183
166262 GGTTTAACTA
166272 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
1 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
* * **
166337 AGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
66 AGTGTCCAAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
166402 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTG
131 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTG
*
166455 AAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
1 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
*
166520 AGTGTCCAAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
66 AGTGTCCAAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
166585 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
166622 CGGATTTAAT
Statistics
Matches: 161, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 161 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (183 bp):
AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
AGTGTCCAAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTG
Found at i:170603 original size:37 final size:36
Alignment explanation
Indices: 170560--170661 Score: 163
Period size: 34 Copynumber: 2.9 Consensus size: 36
170550 ATAGTATAAC
170560 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT
*
170597 TTTATCCTATTTTTAGGAGTTTGAATCCT--AAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
*
170631 TCTATCATATTTTTAGGAGTTTGAATCCTAG
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
170662 TAGGACGAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
34 32 0.53
37 28 0.47
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.44
Consensus pattern (36 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
Found at i:191019 original size:19 final size:20
Alignment explanation
Indices: 190991--191029 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
190981 TATTTGAAAG
190991 CAAAATTG-AATTTTGAAAAA
1 CAAAATTGAAATTTT-AAAAA
191011 CAAAA-TGAAATTTTAAAAA
1 CAAAATTGAAATTTTAAAAA
191030 ATGGTTTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.28
Consensus pattern (20 bp):
CAAAATTGAAATTTTAAAAA
Found at i:191818 original size:202 final size:202
Alignment explanation
Indices: 191472--191876 Score: 774
Period size: 202 Copynumber: 2.0 Consensus size: 202
191462 CTATCTCATG
*
191472 TATGTTAAAAAGTGTTGTGATGAACATTTTCTAAAGTTTTAATGATTTTTCATAAATGTTTGTTC
1 TATGTTAAAAAGTGTTGTGATGAACATTTTCTAAAATTTTAATGATTTTTCATAAATGTTTGTTC
*
191537 ATCATAATGAATTTTGGTCAAAATATGTTTTAATGCTTTGTTTTTACAAATTTTAATTTTTGACC
66 ATCATAATGAATTTTGGTCAAAATATGTTTTAATGCTTTGTTTTTACAAATTTTAATTTTTGACA
*
191602 TTAATTTAAATGTTTATGCATGTGATTTATTGCAAATGATATCTTTCTAACAATTGATATCAATT
131 TTAATTTAAATGTTTATGCATGTGATTTATTGCAAATGATATCTCTCTAACAATTGATATCAATT
191667 TTTCAAA
196 TTTCAAA
191674 TATGTTAAAAAGTGTTGTGATGAACATTTTCTAAAATTTTAATGATTTTTCATAAATGTTTGTTC
1 TATGTTAAAAAGTGTTGTGATGAACATTTTCTAAAATTTTAATGATTTTTCATAAATGTTTGTTC
*
191739 ATCATAATGAATTTTGGTGAAAATATGTTTTAATGCTTTGTTTTTACAAATTTTAATTTTTGACA
66 ATCATAATGAATTTTGGTCAAAATATGTTTTAATGCTTTGTTTTTACAAATTTTAATTTTTGACA
191804 TTAATTTAAATGTTTATGCATGTGATTTATTGCAAATGATATCTCTCTAACAATTGATATCAATT
131 TTAATTTAAATGTTTATGCATGTGATTTATTGCAAATGATATCTCTCTAACAATTGATATCAATT
191869 TTTCAAA
196 TTTCAAA
191876 T
1 T
191877 GCATAACATT
Statistics
Matches: 199, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
202 199 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (202 bp):
TATGTTAAAAAGTGTTGTGATGAACATTTTCTAAAATTTTAATGATTTTTCATAAATGTTTGTTC
ATCATAATGAATTTTGGTCAAAATATGTTTTAATGCTTTGTTTTTACAAATTTTAATTTTTGACA
TTAATTTAAATGTTTATGCATGTGATTTATTGCAAATGATATCTCTCTAACAATTGATATCAATT
TTTCAAA
Found at i:192487 original size:20 final size:20
Alignment explanation
Indices: 192462--192507 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
192452 TTTGACCAGA
192462 AGTTTCGAAACT-TCTACAAG
1 AGTTTCGAAACTATCT-CAAG
192482 AGTTTCGAAACTATCTCAAG
1 AGTTTCGAAACTATCTCAAG
192502 AGTTTC
1 AGTTTC
192508 AGAAGCTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 22 0.88
21 3 0.12
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (20 bp):
AGTTTCGAAACTATCTCAAG
Found at i:194015 original size:20 final size:20
Alignment explanation
Indices: 193978--194020 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
193968 GCTTAACGCG
*
193978 TTTAGTATCTAAAATATCAGT
1 TTTAGTATATAAAATATCA-T
*
193999 TTTAGTATAT-AACTATCAT
1 TTTAGTATATAAAATATCAT
194018 TTT
1 TTT
194021 TTTTCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 7 0.35
21 9 0.45
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (20 bp):
TTTAGTATATAAAATATCAT
Found at i:195921 original size:182 final size:184
Alignment explanation
Indices: 195606--195991 Score: 573
Period size: 182 Copynumber: 2.1 Consensus size: 184
195596 ATTAAATTTT
* *
195606 AAATATTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACAATTTAAAACCCAATTAATAA
* *
195671 TTTAAGATCCAATAACTTTTAAATTTAAATCAATATTAATTAATTAAAAAAAGTATATAATTTTT
66 TTTAAGATCCAATAACTTTTAAATCTAAATCAATATTAATTAATTAAAAAAAGTATATAATATTT
* *
195736 TTATTTTATAATTATATATTATTTAAATTAATTGT-AA-TTTTTTTTAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
* * **
195788 AAATATTATATATATTATATATAACATTTGGGCTAAGCCCAAACAATTTAAAATTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACAATTTAAAACCCAATTAATAA
* * ** *
195853 TTTAAGATCTAATAACTTTTAAATCTAAATCAATATTTATTAATTAAAAAATTTATCTGAA-ATT
66 TTTAAGATCCAATAACTTTTAAATCTAAATCAATATTAATTAATTAAAAAAAGTATAT-AATATT
195917 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
130 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
* * *
195972 AAACATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
195992 AATTAGAAAA
Statistics
Matches: 182, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
182 148 0.81
183 12 0.07
184 22 0.12
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.44
Consensus pattern (184 bp):
AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACAATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAATCTAAATCAATATTAATTAATTAAAAAAAGTATATAATATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
Found at i:197815 original size:32 final size:32
Alignment explanation
Indices: 197779--197839 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
197769 TATTAAAAAA
*
197779 TATTTTATAATAATTAGAT-ATAATTTAATGAT
1 TATTTTAAAATAATTAGATGA-AATTTAATGAT
197811 TATTTTAAAATAATTAGATGAAATTTAAT
1 TATTTTAAAATAATTAGATGAAATTTAAT
197840 AAAAAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (32 bp):
TATTTTAAAATAATTAGATGAAATTTAATGAT
Found at i:205963 original size:27 final size:30
Alignment explanation
Indices: 205929--205983 Score: 80
Period size: 27 Copynumber: 1.9 Consensus size: 30
205919 AAAATTCATT
205929 TTTACTGAT-T-AAAGATCC-TCTTTTTCA
1 TTTACTGATATGAAAGATCCTTCTTTTTCA
*
205956 TTTACTGATATGAAAGTTCCTTCTTTTT
1 TTTACTGATATGAAAGATCCTTCTTTTT
205984 GGTGGAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 9 0.38
28 1 0.04
29 7 0.29
30 7 0.29
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (30 bp):
TTTACTGATATGAAAGATCCTTCTTTTTCA
Found at i:209757 original size:244 final size:241
Alignment explanation
Indices: 209172--209758 Score: 748
Period size: 238 Copynumber: 2.4 Consensus size: 241
209162 CTTATTCATA
*
209172 TATTGAATAAAAATATTTTTTTTATTATTTC-G-GGTCGGGTTTCTAATTCATATATTCGGGTCG
1 TATTGAATAAAAATA-TTTTTTTATTATTTCGGTGGTCGGGTTTCTAATTCATATATTTGGGTCG
209235 GGTCAGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGAG
65 GGTC-GGTGAAACTTTATTTTGGTCGGGTC--G--GGTTTTTTTAAGTGTGATATTCGGGTC-AG
* * * * *
209300 TTCGGAATTAGGGTGAAAAATACTCGTCTCAAAAATATATATAATTTTACCTTATATATTTAGGA
124 -T-GGAATTAGGGTGAAAAATACCCGACCCAAAAAAATATATAATTTTACCTTATATATTTAGAA
* * * * *
209365 ATAATTATAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCATTGTTTT
187 ATAATTACAATAATACACATATATATATAATTTTTCTCAATTAAGTCATTGTTTT
* * *
209420 TATTGAATAAAAATAATTTTTTTTATTATTTCGGGTCGGGTCGGATTTCTAATTTATATATTCGG
1 TATTGAATAAAAAT-A-TTTTTTTATTATTTC-GGT--GGTCGGGTTTCTAATTCATATATTTGG
209485 GTC--G--GGTGAAA-TTTATTTTGGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTC-G-G
61 GTCGGGTCGGTGAAACTTTATTTTGGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCAGTG
* *
209543 G-TTTAGGGTGAAAAATACCCGACCCGACCCAAAAAATATATAATTTTACCTTTTATATTTAGAA
126 GAATTAGGGTGAAAAATACCCGACCC-A---AAAAAATATATAATTTTACCTTATATATTTAGAA
209607 ATAATTACAATAATACACATATATATAT-ATTTTTCTCAATTAAGTCATTGTTTT
187 ATAATTACAATAATACACATATATATATAATTTTTCTCAATTAAGTCATTGTTTT
209661 TATTGAATAAAAATA-TTTTTTATTATTTCGGATTGGATCGGGTTTCTAATTCATATATTTGGGT
1 TATTGAATAAAAATATTTTTTTATTATTTCGG--TGG-TCGGGTTTCTAATTCATATATTTGGGT
209725 CGGGTCGGTTGAAACTTTATTTTGGTCGGGTCGG
63 CGGGTCGG-TGAAACTTTATTTTGGTCGGGTCGG
209759 ATCTCGGATA
Statistics
Matches: 303, Mismatches: 17, Indels: 42
0.84 0.05 0.12
Matches are distributed among these distances:
237 4 0.01
238 59 0.19
239 4 0.01
240 2 0.01
241 39 0.13
242 58 0.19
243 5 0.02
244 46 0.15
246 1 0.00
248 31 0.10
249 24 0.08
251 1 0.00
252 1 0.00
254 28 0.09
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (241 bp):
TATTGAATAAAAATATTTTTTTATTATTTCGGTGGTCGGGTTTCTAATTCATATATTTGGGTCGG
GTCGGTGAAACTTTATTTTGGTCGGGTCGGGTTTTTTTAAGTGTGATATTCGGGTCAGTGGAATT
AGGGTGAAAAATACCCGACCCAAAAAAATATATAATTTTACCTTATATATTTAGAAATAATTACA
ATAATACACATATATATATAATTTTTCTCAATTAAGTCATTGTTTT
Found at i:210098 original size:18 final size:17
Alignment explanation
Indices: 210053--210101 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
210043 AATATGGAAT
* *
210053 TAGATTCTAATTCCTGA
1 TAGATTCCAATTCCTCA
* *
210070 CAGATTTCAATTCCTTCA
1 TAGATTCCAATTCC-TCA
210088 TAGATTCCAATTCC
1 TAGATTCCAATTCC
210102 CTCACAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.39
Consensus pattern (17 bp):
TAGATTCCAATTCCTCA
Found at i:212039 original size:13 final size:13
Alignment explanation
Indices: 212021--212047 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
212011 TATAGTTGAA
212021 CAGTCTTCATATG
1 CAGTCTTCATATG
212034 CAGTCTTCATATG
1 CAGTCTTCATATG
212047 C
1 C
212048 GCGTCAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (13 bp):
CAGTCTTCATATG
Found at i:218829 original size:16 final size:15
Alignment explanation
Indices: 218808--218839 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
218798 TTAAATACAT
218808 ATATCGTATAATGTAA
1 ATATCGTATAAT-TAA
218824 ATATCGTATAATTAA
1 ATATCGTATAATTAA
218839 A
1 A
218840 CCGATCCAAT
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:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (15 bp):
ATATCGTATAATTAA
Found at i:220186 original size:29 final size:29
Alignment explanation
Indices: 220128--220186 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
220118 ATTATTATAT
* * *
220128 TTATAAAAAAAACTCTAATTTCTCTTAAA
1 TTATAAAAAAAACTCAAAATTCTCTAAAA
220157 TTATAAAAAAAAACTCAAAATTCT-TAAAA
1 TTAT-AAAAAAAACTCAAAATTCTCTAAAA
220186 T
1 T
220187 CATCAAATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (29 bp):
TTATAAAAAAAACTCAAAATTCTCTAAAA
Found at i:233036 original size:7 final size:7
Alignment explanation
Indices: 233024--233056 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
233014 TTAGTTTTGT
233024 GGTTTAG
1 GGTTTAG
*
233031 GATTTAG
1 GGTTTAG
233038 GGTTTAG
1 GGTTTAG
233045 GGTTTAG
1 GGTTTAG
233052 GGTTT
1 GGTTT
233057 TAATTTACAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.15, C:0.00, G:0.39, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:233444 original size:61 final size:60
Alignment explanation
Indices: 233367--233486 Score: 152
Period size: 61 Copynumber: 2.0 Consensus size: 60
233357 TTTTAGATTG
* * *
233367 GTCCTTAAACTTTTAAATATTCTAATTTCATCTCCAAAAATATGACTC-TCATTCTAAATTA
1 GTCCTTAAACTTTTAAACACTCCAATTTCAT-TCCAAAAATATGAC-CATCATTCTAAATTA
* * * *
233428 GTCCTTTAATTTTTAAACACTCCAATTTCATTCCTAAACTATGACCATCATTCTAAATT
1 GTCCTTAAACTTTTAAACACTCCAATTTCATTCCAAAAATATGACCATCATTCTAAATT
233487 GGCCCCCAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 1 0.02
60 24 0.47
61 26 0.51
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.41
Consensus pattern (60 bp):
GTCCTTAAACTTTTAAACACTCCAATTTCATTCCAAAAATATGACCATCATTCTAAATTA
Found at i:233775 original size:61 final size:60
Alignment explanation
Indices: 233663--233777 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 60
233653 TTTGGGATAA
* * *
233663 AATTGGAATGTTCAAAAAGTTTGGGACTAATTTAGAATGAAGGTTATAGTTTAGGGATGC
1 AATTGAAATGTTCAAAAAGTTTGGGACTAATTTAGAATGAAGGTCAAAGTTTAGGGATGC
233723 AATTGAAATGTTCAAAATA-TTTGAGGACTAATTTAGAATGATA-GTCAAAGTTTAG
1 AATTGAAATGTTCAAAA-AGTTTG-GGACTAATTTAGAATGA-AGGTCAAAGTTTAG
233778 AGATATAATT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
60 20 0.41
61 28 0.57
62 1 0.02
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (60 bp):
AATTGAAATGTTCAAAAAGTTTGGGACTAATTTAGAATGAAGGTCAAAGTTTAGGGATGC
Found at i:235714 original size:19 final size:19
Alignment explanation
Indices: 235690--235750 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
235680 AAACCGAAAC
235690 CGGTTTTTTCGGTTCGGTT
1 CGGTTTTTTCGGTTCGGTT
*
235709 CGGTTTTTT---TAACGGTT
1 CGGTTTTTTCGGT-TCGGTT
235726 CGAG-TTTTTCGGTTCGGTT
1 CG-GTTTTTTCGGTTCGGTT
235745 CGGTTT
1 CGGTTT
235751 ATCGGGTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
16 1 0.03
17 12 0.35
18 2 0.06
19 18 0.53
20 1 0.03
ACGTcount: A:0.05, C:0.15, G:0.30, T:0.51
Consensus pattern (19 bp):
CGGTTTTTTCGGTTCGGTT
Found at i:235750 original size:18 final size:18
Alignment explanation
Indices: 235694--235755 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
235684 CGAAACCGGT
235694 TTTTTCGGTTCGGTTCGG
1 TTTTTCGGTTCGGTTCGG
235712 TTTTT---TTAACGGTTCGAG
1 TTTTTCGGTT--CGGTTCG-G
235730 TTTTTCGGTTCGGTTCGG
1 TTTTTCGGTTCGGTTCGG
*
235748 TTTATCGG
1 TTTTTCGG
235756 GTTTTCAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
15 2 0.05
17 7 0.19
18 19 0.51
19 7 0.19
21 2 0.05
ACGTcount: A:0.06, C:0.15, G:0.29, T:0.50
Consensus pattern (18 bp):
TTTTTCGGTTCGGTTCGG
Found at i:235904 original size:12 final size:12
Alignment explanation
Indices: 235883--235917 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
235873 TGAAGCCTTT
235883 AAACCGAACCGA
1 AAACCGAACCGA
*
235895 AAATCGAACCGA
1 AAACCGAACCGA
235907 AAACCGAACCG
1 AAACCGAACCG
235918 TTTAAAGCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.49, C:0.31, G:0.17, T:0.03
Consensus pattern (12 bp):
AAACCGAACCGA
Found at i:239248 original size:5 final size:5
Alignment explanation
Indices: 239238--239276 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
239228 TAATATTTTA
* *
239238 ATTTG ATTTG ATTAG ATTTG ATTTG ATTAG ATTTG ATTT
1 ATTTG ATTTG ATTTG ATTTG ATTTG ATTTG ATTTG ATTT
239277 ATATATATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (5 bp):
ATTTG
Found at i:239258 original size:15 final size:15
Alignment explanation
Indices: 239238--239276 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
239228 TAATATTTTA
239238 ATTTGATTTGATTAG
1 ATTTGATTTGATTAG
239253 ATTTGATTTGATTAG
1 ATTTGATTTGATTAG
239268 ATTTGATTT
1 ATTTGATTT
239277 ATATATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (15 bp):
ATTTGATTTGATTAG
Found at i:241292 original size:26 final size:26
Alignment explanation
Indices: 241234--241285 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
241224 TACTTCTAAT
* **
241234 ATCTTATGATATGTATAATATAATTG
1 ATCTTATGACATGTATAATATAATAC
241260 ATCTTATGACATGTATAATAT-ATAC
1 ATCTTATGACATGTATAATATAATAC
241285 A
1 A
241286 CTTTTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (26 bp):
ATCTTATGACATGTATAATATAATAC
Found at i:246046 original size:13 final size:15
Alignment explanation
Indices: 246016--246052 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
246006 ATATACATAT
246016 AATAATAATAACATG
1 AATAATAATAACATG
246031 AATAATAA-AA-ATG
1 AATAATAATAACATG
246044 AATAA-AATA
1 AATAATAATA
246053 TCCATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 2 0.10
13 9 0.43
14 2 0.10
15 8 0.38
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (15 bp):
AATAATAATAACATG
Found at i:247392 original size:105 final size:105
Alignment explanation
Indices: 247205--247922 Score: 1182
Period size: 105 Copynumber: 6.9 Consensus size: 105
247195 GCATTGTTCA
* * **
247205 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
247265 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
247305 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
247370 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** *
247410 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
247475 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
247515 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
247580 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
247620 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGTTCTGAAATTGAGAA---GTTGTTGACAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
247682 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
247722 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
247787 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
247827 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAA
* ** *
247892 CCAGTTGTCCCTTCGTTGTGAAGTTGAACTT
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
247923 CGAGCTAGAT
Statistics
Matches: 585, Mismatches: 24, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
100 36 0.06
101 1 0.00
102 102 0.17
103 2 0.00
104 2 0.00
105 405 0.69
106 37 0.06
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:247723 original size:207 final size:208
Alignment explanation
Indices: 247205--247922 Score: 1174
Period size: 207 Copynumber: 3.4 Consensus size: 208
247195 GCATTGTTCA
* * ** *
247205 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTG-AA-TGA-AATTTTGTTGACAAGCA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
*
247267 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTT
* *
247332 GAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
*
247397 CTTGCATTGTCTG
196 CTTGCGTTGTCTG
** *
247410 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA--TGTTGTTGACAAG
247475 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAG
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAG
247540 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
129 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
247605 AACTTGCGTTGTCTG
194 AACTTGCGTTGTCTG
* * * *
247620 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGTTCTGAAATTGAGAA-GTTGTTGACAGGCA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
*
247684 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTT
247749 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
247814 CTTGCGTTGTCTG
196 CTTGCGTTGTCTG
247827 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA--TG-TTGTTGACAA
* ** *
247892 CCAGTTGTCCCTTCGTTGTGAAGTTGAACTT
63 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
247923 CGAGCTAGAT
Statistics
Matches: 477, Mismatches: 27, Indels: 12
0.92 0.05 0.02
Matches are distributed among these distances:
205 36 0.08
206 1 0.00
207 204 0.43
208 2 0.00
210 198 0.42
211 36 0.08
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (208 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAGTT
GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
CTTGCGTTGTCTG
Found at i:247822 original size:312 final size:313
Alignment explanation
Indices: 247206--247922 Score: 1176
Period size: 312 Copynumber: 2.3 Consensus size: 313
247196 CATTGTTCAG
* * **
247206 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* *
247266 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGT
* *
247331 TGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
131 TGAAATTGGCTCTGAAATTGAGAA--TGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
* * ** *
247396 ACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAG
194 ACTTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG
247461 TTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
259 TTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
247516 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
247581 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGT
* *
247646 TGAAATTGGTTCTGAAATTGAGAA-GTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
131 TGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
247710 TTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
196 TTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
*
247775 GTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
261 GTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
*
247828 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
** *
247893 CAGTTGTCCCTTCGTTGTGAAGTTGAACTT
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTT
247923 CGAGCTAGAT
Statistics
Matches: 380, Mismatches: 21, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
310 35 0.09
311 2 0.01
312 206 0.54
313 39 0.10
314 2 0.01
315 96 0.25
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (313 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGT
TGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
TTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
GTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
Found at i:248540 original size:65 final size:66
Alignment explanation
Indices: 248338--248690 Score: 237
Period size: 65 Copynumber: 5.2 Consensus size: 66
248328 AAAGAGATAG
* * * * * *
248338 AATTCGTTTCAAGGGAAAT-GATCTCAAAGATATATGTTGTTTCATGAGAAACGGTCTCAAGGGA
1 AATTTGTTTTAAGGGAAATAAAT-TCAAAGAT-T-T-TTGTTTCAAGAGAAACTGTCTCAAGAGA
* *
248402 AACAA
62 GACGA
** *
248407 AATTATGTTTTAAGGGAAATAAATTTGAAGATTTTGTGTTTCAAGAGTAACTGTCTCAAGAGAGA
1 AATT-TGTTTTAAGGGAAATAAATTCAAAGATTTT-TGTTTCAAGAGAAACTGTCTCAAGAGAGA
248472 CGA
64 CGA
* * *
248475 AATTTGTTTTAGGGGAAATAAATTCAAAGA-TTTTGTTTCAAGGGAAACTGTCTCAAGATAGACG
1 AATTTGTTTTAAGGGAAATAAATTCAAAGATTTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACG
248539 A
66 A
* * *** * ** * * * *
248540 AATTTGTTTCAAGAGAAACTGTCTTAAGAGAGACAAAACTTAGTTCCAAGGGAAACTATCTCAAG
1 AATTTGTTTTAAGGGAAA-TAAATTCA-A-AG----ATTTTTGTTTCAAGAGAAACTGTCTCAAG
248605 AGAGACGA
59 AGAGACGA
* * * * *** * *
248613 AATTTATTTCAACGAAAATGTTTTCAATG-TTTATGTTTCAAGAGAAACTGTCTCAAGAGAGAC-
1 AATTTGTTTTAAGGGAAATAAATTCAAAGATTTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACG
248676 A
66 A
248677 AATCTTGTTTTAAG
1 AAT-TTGTTTTAAG
248691 AAAAATAATC
Statistics
Matches: 226, Mismatches: 46, Indels: 28
0.75 0.15 0.09
Matches are distributed among these distances:
64 4 0.02
65 78 0.35
66 7 0.03
67 25 0.11
68 33 0.15
69 5 0.02
70 20 0.09
71 3 0.01
72 7 0.03
73 44 0.19
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (66 bp):
AATTTGTTTTAAGGGAAATAAATTCAAAGATTTTTGTTTCAAGAGAAACTGTCTCAAGAGAGACG
A
Found at i:248558 original size:36 final size:36
Alignment explanation
Indices: 248506--248624 Score: 157
Period size: 36 Copynumber: 3.3 Consensus size: 36
248496 ATTCAAAGAT
*
248506 TTTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* * *
248542 TTTGTTTCAAGAGAAACTGTCTTAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
* * *
248578 CTTAGTTCCAAGGGAAACTATCTCAAGAGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
*
248615 TTTATTTCAA
1 TTTGTTTCAA
248625 CGAAAATGTT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
36 39 0.57
37 30 0.43
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
Found at i:248606 original size:37 final size:36
Alignment explanation
Indices: 248513--248616 Score: 127
Period size: 37 Copynumber: 2.9 Consensus size: 36
248503 GATTTTGTTT
* * * *
248513 CAAGGGAAACTGTCTCAAGATAGACGAAATTTGTTT
1 CAAGGGAAACTGTCTCAAGAGAGACAAAATTAGTTC
* *
248549 CAAGAGAAACTGTCTTAAGAGAGACAAAACTTAGTTC
1 CAAGGGAAACTGTCTCAAGAGAGACAAAA-TTAGTTC
* *
248586 CAAGGGAAACTATCTCAAGAGAGACGAAATT
1 CAAGGGAAACTGTCTCAAGAGAGACAAAATT
248617 TATTTCAACG
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 27 0.47
37 30 0.53
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.22
Consensus pattern (36 bp):
CAAGGGAAACTGTCTCAAGAGAGACAAAATTAGTTC
Found at i:249151 original size:18 final size:18
Alignment explanation
Indices: 249124--249159 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
249114 TGTTGAATCC
*
249124 CCAAAGATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
249142 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
249160 TTGATGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.33, G:0.08, T:0.17
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:249621 original size:22 final size:22
Alignment explanation
Indices: 249596--249639 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
249586 CATTTTTGTT
249596 CATTTGATGCT-AAATGGTTTGA
1 CATTTGATGCTCAAA-GGTTTGA
249618 CATTTGATGCTCAAAGGTTTGA
1 CATTTGATGCTCAAAGGTTTGA
249640 TGGGGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (22 bp):
CATTTGATGCTCAAAGGTTTGA
Found at i:250266 original size:18 final size:18
Alignment explanation
Indices: 250240--250294 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 18
250230 TTTTGTCCCT
250240 TTTTCTTTTTCCTTTTTG-
1 TTTT-TTTTTCCTTTTTGC
*
250258 TTCTTTTTTTGCTTTTTTGC
1 TT-TTTTTTT-CCTTTTTGC
250278 TTTTTTTTT-CTTTTTGC
1 TTTTTTTTTCCTTTTTGC
250295 CCTTTTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
17 7 0.22
18 7 0.22
19 16 0.50
20 2 0.06
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (18 bp):
TTTTTTTTTCCTTTTTGC
Found at i:250293 original size:25 final size:26
Alignment explanation
Indices: 250238--250294 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
250228 TTTTTTGTCC
250238 CTTTTT-CTTTTTCCTTTTTGTTCTT
1 CTTTTTGCTTTTTCCTTTTTGTTCTT
*
250263 -TTTTTGCTTTTTTGCTTTTT-TT-TT
1 CTTTTTGC-TTTTTCCTTTTTGTTCTT
250287 CTTTTTGC
1 CTTTTTGC
250295 CCTTTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
24 7 0.25
25 10 0.36
26 11 0.39
ACGTcount: A:0.00, C:0.16, G:0.07, T:0.77
Consensus pattern (26 bp):
CTTTTTGCTTTTTCCTTTTTGTTCTT
Found at i:250300 original size:17 final size:17
Alignment explanation
Indices: 250245--250306 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
250235 TCCCTTTTTC
* *
250245 TTTTTCCTTTTTGTTCT
1 TTTTTTCTTTTTGCTCT
*
250262 TTTTTTGCTTTTTTGCTTT
1 TTTTTT-C-TTTTTGCTCT
*
250281 TTTTTTCTTTTTGCCCT
1 TTTTTTCTTTTTGCTCT
250298 TTTTATTCT
1 TTTT-TTCT
250307 GATTAAATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
17 17 0.46
18 6 0.16
19 14 0.38
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTTTCTTTTTGCTCT
Found at i:250300 original size:18 final size:17
Alignment explanation
Indices: 250245--250306 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 17
250235 TCCCTTTTTC
* *
250245 TTTTTCCTTTTTGTTCTT
1 TTTTTTCTTTTTG-CCTT
* *
250263 TTTTTGCTTTTTTGCTTT
1 TTTTTTC-TTTTTGCCTT
250281 TTTTTTCTTTTTGCCCTT
1 TTTTTTCTTTTTG-CCTT
*
250299 TTTATTCT
1 TTTTTTCT
250307 GATTAAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 6 0.17
18 24 0.67
19 6 0.17
ACGTcount: A:0.02, C:0.16, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTTTCTTTTTGCCTT
Found at i:253438 original size:2 final size:2
Alignment explanation
Indices: 253433--253478 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
253423 GGAAAAAGAA
253433 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
253475 AT AT
1 AT AT
253479 CAAAGTATTA
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):
AT
Found at i:254006 original size:14 final size:15
Alignment explanation
Indices: 253975--254012 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
253965 ATATACATAT
*
253975 AATAATAATAACATG
1 AATAATAATAAAATG
253990 AATAATAA-AAAATG
1 AATAATAATAAAATG
254004 AATAA-AATA
1 AATAATAATA
254013 TCCATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 8 0.38
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (15 bp):
AATAATAATAAAATG
Found at i:256144 original size:20 final size:21
Alignment explanation
Indices: 256115--256161 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
256105 TTAATATATT
*
256115 AAATACAATA-TAAATTTATA
1 AAATACAATATTAAATTTAAA
* *
256135 AAATATAATATTATATTTAAA
1 AAATACAATATTAAATTTAAA
256156 AAATAC
1 AAATAC
256162 TTTAAGAGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATACAATATTAAATTTAAA
Found at i:256481 original size:155 final size:153
Alignment explanation
Indices: 256318--256680 Score: 446
Period size: 157 Copynumber: 2.3 Consensus size: 153
256308 GAACATCTGA
** *
256318 TTCAAATTTAATAAAAAAACTTAAAATGAAGGATAAATTGAAGAAATAAGTAGATTAT-AAAAAT
1 TTCAAATTTAATAAAAAAACTTAAAATGAAGGATAAATTGAAGAAATAAAAAAATTATGAAAAAT
*
256382 TCGAGAGACTAAACTGAAAAATAAAAAAGTTATTATCAAAATAA-AGAATTGAAAGTACATATAT
66 T-GAGAGACTAAA-TGAAAAATAAAAAAATTATTATCAAAATAAGA-AATTGAAAGTACATATAT
*
256446 ATTCTACGAT-GATTTAAGAGCATGTGG
128 -TTCTACGATAG-TTTAAGAGCATATGG
* * *
256473 TTCAAATTTAATAAAAAAATACCTAAAATAAAGGATGAATT-AGAGAAATAAAAAAATTATGAAA
1 TTCAAATTTAAT-AAAAAA-ACTTAAAATGAAGGATAAATTGA-AGAAATAAAAAAATTATGAAA
* * * *
256537 AATTGAGGGACTAAATTAAAAATAAAAAAATTATTATCAAAATGAGAAATTGAAAGTACATATGT
63 AATTGAGAGACTAAATGAAAAATAAAAAAATTATTATCAAAATAAGAAATTGAAAGTACATATAT
*
256602 TTCTACGATAGTTTAGGAGCATATGG
128 TTCTACGATAGTTTAAGAGCATATGG
* * *
256628 TTCAAATTTGATAGAAAAATGAACTTAAAATGAATGAGAAATTGAAGAAATAA
1 TTCAAATTT-A-ATAAAAA--AACTTAAAATGAAGGATAAATTGAAGAAATAA
256681 TGAAATTAGG
Statistics
Matches: 178, Mismatches: 19, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
155 43 0.24
156 58 0.33
157 68 0.38
158 9 0.05
ACGTcount: A:0.52, C:0.06, G:0.14, T:0.28
Consensus pattern (153 bp):
TTCAAATTTAATAAAAAAACTTAAAATGAAGGATAAATTGAAGAAATAAAAAAATTATGAAAAAT
TGAGAGACTAAATGAAAAATAAAAAAATTATTATCAAAATAAGAAATTGAAAGTACATATATTTC
TACGATAGTTTAAGAGCATATGG
Found at i:256539 original size:38 final size:38
Alignment explanation
Indices: 256497--256570 Score: 89
Period size: 38 Copynumber: 1.9 Consensus size: 38
256487 AAAAATACCT
*
256497 AAAA-TAAAGGA-TGAATTAGAGAAATAAAAAAATTATGA
1 AAAATTAAAGGACTAAATTA-A-AAATAAAAAAATTATGA
* *
256535 AAAATTGAGGGACTAAATTAAAAATAAAAAAATTAT
1 AAAATTAAAGGACTAAATTAAAAATAAAAAAATTAT
256571 TATCAAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
38 19 0.61
39 6 0.19
40 6 0.19
ACGTcount: A:0.62, C:0.01, G:0.14, T:0.23
Consensus pattern (38 bp):
AAAATTAAAGGACTAAATTAAAAATAAAAAAATTATGA
Found at i:263791 original size:27 final size:26
Alignment explanation
Indices: 263752--263838 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 26
263742 AATATAGAAT
*
263752 ATAAAAAGAATATATATGATGGTAATA
1 ATAAAAAG-ATATATATAATGGTAATA
* * * *
263779 ATAATAAAGATATAAACAATGGGAAAA
1 ATAA-AAAGATATATATAATGGTAATA
*
263806 AT-AAAAGATATATATAATAGTAATAA
1 ATAAAAAGATATATATAATGGTAAT-A
263832 ATAAAAA
1 ATAAAAA
263839 ACTAAAATAA
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
25 16 0.34
26 4 0.09
27 23 0.49
28 4 0.09
ACGTcount: A:0.62, C:0.01, G:0.11, T:0.25
Consensus pattern (26 bp):
ATAAAAAGATATATATAATGGTAATA
Found at i:263849 original size:17 final size:17
Alignment explanation
Indices: 263827--263869 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
263817 ATATAATAGT
263827 AATAAATAAAAAACTAA
1 AATAAATAAAAAACTAA
* *
263844 AATAAATAAATAACTAT
1 AATAAATAAAAAACTAA
263861 AATCAAATA
1 AAT-AAATA
263870 TGTACATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (17 bp):
AATAAATAAAAAACTAA
Found at i:264262 original size:138 final size:137
Alignment explanation
Indices: 263983--264233 Score: 393
Period size: 138 Copynumber: 1.8 Consensus size: 137
263973 AATATATTAT
*
263983 TAAATAAAACAAATGAATAAAA-AT--A-AATATACAGATAATAATAAAAGAAAAAAATATATGT
1 TAAATAAAATAAATGAA-AAAATATAAAGAATATACAGATAATAATAAAAGAAAAAAATATATGT
* *
264044 TTATATACGCTATCAATAATACTTAAAATAATAAAATTAACGATGGTTATGTATAGAGATAAATA
65 TTATATACGCTATCAATAATACTTAAAATAATAAAAATAACGATGATTATGTATAGAGATAAATA
264109 AAAATAAA
130 AAAATAAA
* * * *
264117 TACATAAAGTAAATGAAAAAATATAAAGAATATACATATAATAATAAAAGGAAAATAATATATGT
1 TAAATAAAATAAATGAAAAAATATAAAGAATATACAGATAATAATAAAA-GAAAAAAATATATGT
264182 TTATATACGCTATCAATAATACTTAAAATAATAAAAATAACGATGATTATGT
65 TTATATACGCTATCAATAATACTTAAAATAATAAAAATAACGATGATTATGT
264234 GTATATATAT
Statistics
Matches: 105, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
133 4 0.04
134 16 0.15
136 1 0.01
137 20 0.19
138 64 0.61
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.29
Consensus pattern (137 bp):
TAAATAAAATAAATGAAAAAATATAAAGAATATACAGATAATAATAAAAGAAAAAAATATATGTT
TATATACGCTATCAATAATACTTAAAATAATAAAAATAACGATGATTATGTATAGAGATAAATAA
AAATAAA
Found at i:265940 original size:105 final size:105
Alignment explanation
Indices: 265820--266383 Score: 1038
Period size: 105 Copynumber: 5.4 Consensus size: 105
265810 GTATTGTTCC
* * *
265820 GAGTCCGATATCCTTCGTTGTGAAGTGGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTAGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
265885 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
265925 GAGTCCAATATCCTTCGTTGTGAAGTGGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTAGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
265990 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
266030 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTAGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
*
266095 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTATG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
266135 GAGTCCAATATCCTTCGTTGTGAAGTAGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTAGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
266200 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
266240 GAGTCCAATATCCTTCGTTGTGAAGTAAAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTAGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
266305 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
266345 GAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGCTCT
1 GAGTCCAATATCCTTCGTTGTGAAGTAGAAATTGGCTCT
266384 TGGGTAAAAC
Statistics
Matches: 449, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 449 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTAGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:276694 original size:10 final size:10
Alignment explanation
Indices: 276669--276702 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
276659 AAGGTTAGTA
*
276669 AAATAGAAAT
1 AAATAAAAAT
*
276679 AGATAAAAAT
1 AAATAAAAAT
276689 AAATAAAAAT
1 AAATAAAAAT
276699 AAAT
1 AAAT
276703 GGTAAATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:277711 original size:27 final size:26
Alignment explanation
Indices: 277672--277758 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 26
277662 AATATAGAAT
*
277672 ATAAAAAGAATATATATGATGGTAATA
1 ATAAAAAG-ATATATATAATGGTAATA
* * * *
277699 ATAATAAAGATATAAACAATGGGAAAA
1 ATAA-AAAGATATATATAATGGTAATA
*
277726 AT-AAAAGATATATATAATAGTAATAA
1 ATAAAAAGATATATATAATGGTAAT-A
277752 ATAAAAA
1 ATAAAAA
277759 ACTAAAAAAC
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
25 16 0.34
26 4 0.09
27 23 0.49
28 4 0.09
ACGTcount: A:0.62, C:0.01, G:0.11, T:0.25
Consensus pattern (26 bp):
ATAAAAAGATATATATAATGGTAATA
Found at i:278183 original size:2 final size:2
Alignment explanation
Indices: 278176--278255 Score: 69
Period size: 2 Copynumber: 42.0 Consensus size: 2
278166 TGATTATGTG
* * * * *
278176 TA TA TA TA TA TA TA TG TA TA -A TA -A AA TA -A AA TA AA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
278215 TA CA TA -A AA 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
278256 AATAAAGGAA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
1 4 0.06
2 61 0.94
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (2 bp):
TA
Found at i:278222 original size:138 final size:136
Alignment explanation
Indices: 277926--278174 Score: 396
Period size: 138 Copynumber: 1.8 Consensus size: 136
277916 ATATTATTAA
* *
277926 ATAAAACAAATGAATAAAA-AT--AAATATACAGATAATAATAAAAGAAAAAAAATATATGTTTA
1 ATAAAATAAATGAA-AAAATATAAAAATATACATATAATAATAAAAGAAAAAAAATATATGTTTA
* *
277988 TATACGCTATCAATAATACTTAAAATAATAAAATTAACGATGGTTATGTATAGAGATAAATAAAA
65 TATACGCTATCAATAATACTTAAAATAATAAAAATAACGATGATTATGTATA-AGATAAATAAAA
278053 ATAAATAC
129 ATAAATAC
* *
278061 ATAAAGTAAATGAAAAAATATAAAGAATATACATATAATAATAAAAGGAAAAAAATATATGTTTA
1 ATAAAATAAATGAAAAAATATAAA-AATATACATATAATAATAAAAGAAAAAAAATATATGTTTA
278126 TATACGCTATCAATAATACTTAAAATAATAAAAATAACGATGATTATGT
65 TATACGCTATCAATAATACTTAAAATAATAAAAATAACGATGATTATGT
278175 GTATATATAT
Statistics
Matches: 104, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
134 4 0.04
135 14 0.13
137 1 0.01
138 85 0.82
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.28
Consensus pattern (136 bp):
ATAAAATAAATGAAAAAATATAAAAATATACATATAATAATAAAAGAAAAAAAATATATGTTTAT
ATACGCTATCAATAATACTTAAAATAATAAAAATAACGATGATTATGTATAAGATAAATAAAAAT
AAATAC
Found at i:280252 original size:21 final size:21
Alignment explanation
Indices: 280220--280294 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
280210 ATTCTAACTA
*
280220 TCGCATTACGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
280241 TCGCGTTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCAAAT
* ** *
280262 TCGCAATGCGATAGTCCAAAA
1 TCGCATTGCGATTTTCCAAAT
280283 TCGCATTGCGAT
1 TCGCATTGCGAT
280295 AGCACTATTC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:280312 original size:21 final size:21
Alignment explanation
Indices: 280288--280348 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
280278 CAAAATCGCA
* *
280288 TTGCGATAGCACTATTCACTG
1 TTGCGATAGCACTGTTCACCG
*
280309 TTGCGATAGCAATGTTCACCG
1 TTGCGATAGCACTGTTCACCG
*
280330 TTGCGGTAGCACTGTTCAC
1 TTGCGATAGCACTGTTCAC
280349 ATTGCGAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (21 bp):
TTGCGATAGCACTGTTCACCG
Found at i:281054 original size:21 final size:21
Alignment explanation
Indices: 281028--281141 Score: 183
Period size: 21 Copynumber: 5.4 Consensus size: 21
281018 ATTTTGATCA
*
281028 CTATCGCAATGGTGAACAGTG
1 CTATCGCAACGGTGAACAGTG
281049 CTATCGCAACGGTGAACAGTG
1 CTATCGCAACGGTGAACAGTG
* *
281070 CTATCACAACTGTGAACAGTG
1 CTATCGCAACGGTGAACAGTG
* *
281091 CTATCACAACAGTGAACAGTG
1 CTATCGCAACGGTGAACAGTG
281112 CTATCGCAACGGTGAACAGTG
1 CTATCGCAACGGTGAACAGTG
281133 CTATCGCAA
1 CTATCGCAA
281142 TGCGATTTTG
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 87 1.00
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.21
Consensus pattern (21 bp):
CTATCGCAACGGTGAACAGTG
Found at i:281157 original size:21 final size:21
Alignment explanation
Indices: 281133--281189 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
281123 GTGAACAGTG
281133 CTATCGCAATGCGATTTTGGA
1 CTATCGCAATGCGATTTTGGA
* *
281154 CTATCGCATTGCGAATTTGGA
1 CTATCGCAATGCGATTTTGGA
**
281175 AAATCGCAATGCGAT
1 CTATCGCAATGCGAT
281190 AGTCAGAATC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (21 bp):
CTATCGCAATGCGATTTTGGA
Found at i:284384 original size:13 final size:13
Alignment explanation
Indices: 284366--284390 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
284356 ACCCCAGAAG
284366 ACGCCGCCGCCGA
1 ACGCCGCCGCCGA
284379 ACGCCGCCGCCG
1 ACGCCGCCGCCG
284391 CAAGCGTCGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.56, G:0.32, T:0.00
Consensus pattern (13 bp):
ACGCCGCCGCCGA
Found at i:291162 original size:18 final size:20
Alignment explanation
Indices: 291127--291164 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
291117 CACGGAATGT
291127 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGTGGGAATAA
291147 AAGATTACC-G-GGGAATAA
1 AAGATTACCAGTGGGAATAA
291165 GATTACTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 1 0.06
20 9 0.50
ACGTcount: A:0.45, C:0.11, G:0.26, T:0.18
Consensus pattern (20 bp):
AAGATTACCAGTGGGAATAA
Found at i:293811 original size:22 final size:22
Alignment explanation
Indices: 293786--293839 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
293776 TAACAATAAT
293786 AGAAGTTTAATTTTGAAATTAA
1 AGAAGTTTAATTTTGAAATTAA
293808 AGAAGTTTAATTTTGAAATTAA
1 AGAAGTTTAATTTTGAAATTAA
*
293830 AGAATTTTAA
1 AGAAGTTTAA
293840 AGGGTCGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (22 bp):
AGAAGTTTAATTTTGAAATTAA
Found at i:296714 original size:16 final size:16
Alignment explanation
Indices: 296693--296726 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
296683 GCACTAGTAA
296693 AACACAGAATAAGTGC
1 AACACAGAATAAGTGC
296709 AACACAGAATAAGTGC
1 AACACAGAATAAGTGC
296725 AA
1 AA
296727 GCGTGATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.18, G:0.18, T:0.12
Consensus pattern (16 bp):
AACACAGAATAAGTGC
Found at i:298603 original size:22 final size:22
Alignment explanation
Indices: 298577--298621 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
298567 ATGAAGTCTG
298577 AATAAA-AAGAATG-AACGAATAA
1 AATAAATAA-AATGAAAC-AATAA
298599 AATAAATAAAATGAAACAATAA
1 AATAAATAAAATGAAACAATAA
298621 A
1 A
298622 CTTTCCTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.71, C:0.04, G:0.09, T:0.16
Consensus pattern (22 bp):
AATAAATAAAATGAAACAATAA
Found at i:301644 original size:59 final size:59
Alignment explanation
Indices: 301545--301676 Score: 162
Period size: 59 Copynumber: 2.2 Consensus size: 59
301535 AATATAGAGT
** * * * *
301545 AAAG-TATATAAATGGTCCCCGATTATATGATATTATTTTTTTAAGTCCTCAT-ATTATTA
1 AAAGTTATA-AAATGGTCCCCGACCATAAGACATTATTTTTTTAAATCCAC-TGATTATTA
301604 AAAGTTATAAAATGGTCCCCCGACCATAAGACATTA-TTTTTTAAATCCACTGATTATTA
1 AAAGTTATAAAATGGT-CCCCGACCATAAGACATTATTTTTTTAAATCCACTGATTATTA
301663 AAAGTTATAAAATG
1 AAAGTTATAAAATG
301677 ATACTCGACT
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
58 1 0.02
59 44 0.69
60 19 0.30
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (59 bp):
AAAGTTATAAAATGGTCCCCGACCATAAGACATTATTTTTTTAAATCCACTGATTATTA
Found at i:302872 original size:16 final size:16
Alignment explanation
Indices: 302816--302877 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
302806 TTCGATTCAA
302816 TTAATTTCGGATT-GGG
1 TTAATTTCGG-TTCGGG
* * *
302832 TTAAATTCAGTTCGAG
1 TTAATTTCGGTTCGGG
*
302848 -TAGTTTCGGTTCGGG
1 TTAATTTCGGTTCGGG
*
302863 TTAATTTCGGCTCGG
1 TTAATTTCGGTTCGG
302878 ATTGTTTTCG
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
15 13 0.37
16 22 0.63
ACGTcount: A:0.18, C:0.13, G:0.29, T:0.40
Consensus pattern (16 bp):
TTAATTTCGGTTCGGG
Found at i:309914 original size:23 final size:24
Alignment explanation
Indices: 309888--309991 Score: 104
Period size: 23 Copynumber: 4.4 Consensus size: 24
309878 TTTCCAGTTA
309888 TGTTCGTTTACGTTCGTTTA-TTG
1 TGTTCGTTTACGTTCGTTTACTTG
*
309911 TGTTCGTTTACGTTCGTTTA-TTA
1 TGTTCGTTTACGTTCGTTTACTTG
* * * *
309934 TGTTTGTTTATGTTCGTTTACATC
1 TGTTCGTTTACGTTCGTTTACTTG
* * * * *
309958 CGTTCGTTTATGTTTGTTCATTTG
1 TGTTCGTTTACGTTCGTTTACTTG
309982 TGTTCGTTTA
1 TGTTCGTTTA
309992 TCATTTAAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
23 40 0.60
24 27 0.40
ACGTcount: A:0.11, C:0.12, G:0.19, T:0.58
Consensus pattern (24 bp):
TGTTCGTTTACGTTCGTTTACTTG
Found at i:309944 original size:10 final size:10
Alignment explanation
Indices: 309856--309953 Score: 58
Period size: 10 Copynumber: 9.2 Consensus size: 10
309846 CATTCGGTAA
309856 TATGTTCGTT
1 TATGTTCGTT
309866 TATGTGT-GTT
1 TATGT-TCGTT
*
309876 CAT-TTCCAG-T
1 TATGTT-C-GTT
309886 TATGTTCGTT
1 TATGTTCGTT
*
309896 TACGTTCGTT
1 TATGTTCGTT
309906 TATTGTGTTCGTT
1 TA---TGTTCGTT
*
309919 TACGTTCGTTTAT
1 TATGTTCG--T-T
*
309932 TATGTTTGTT
1 TATGTTCGTT
309942 TATGTTCGTT
1 TATGTTCGTT
309952 TA
1 TA
309954 CATCCGTTCG
Statistics
Matches: 68, Mismatches: 8, Indels: 24
0.68 0.08 0.24
Matches are distributed among these distances:
8 1 0.01
9 2 0.03
10 43 0.63
11 5 0.07
12 1 0.01
13 16 0.24
ACGTcount: A:0.12, C:0.11, G:0.19, T:0.57
Consensus pattern (10 bp):
TATGTTCGTT
Found at i:316378 original size:19 final size:20
Alignment explanation
Indices: 316356--316393 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
316346 AAGTTCAGTG
316356 AATAAATT-AAAAAAATAAA
1 AATAAATTGAAAAAAATAAA
* *
316375 AATATATTGAATAAAATAA
1 AATAAATTGAAAAAAATAA
316394 GAGAGAAACG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (20 bp):
AATAAATTGAAAAAAATAAA
Found at i:328306 original size:33 final size:33
Alignment explanation
Indices: 328253--328363 Score: 168
Period size: 33 Copynumber: 3.3 Consensus size: 33
328243 GAACAAAGAA
* * *
328253 AGGAGCATGGATGATCTAGTGCATTGCAAGGCG
1 AGGAGCACGGGTGATTTAGTGCATTGCAAGGCG
* *
328286 AGGAGAACGGGTGATTTAGTGCATTTCAAGGCG
1 AGGAGCACGGGTGATTTAGTGCATTGCAAGGCG
328319 AGGAGCACGGGGTGATTTAGTGCATTGCAAGGCG
1 AGGAGCAC-GGGTGATTTAGTGCATTGCAAGGCG
328353 AGGAGCACGGG
1 AGGAGCACGGG
328364 GACGAACAGG
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
33 38 0.54
34 32 0.46
ACGTcount: A:0.26, C:0.14, G:0.40, T:0.20
Consensus pattern (33 bp):
AGGAGCACGGGTGATTTAGTGCATTGCAAGGCG
Found at i:328337 original size:34 final size:34
Alignment explanation
Indices: 328264--328364 Score: 168
Period size: 34 Copynumber: 3.0 Consensus size: 34
328254 GGAGCATGGA
* *
328264 TGATCTAGTGCATTGCAAGGCGAGGAGAAC-GGG
1 TGATTTAGTGCATTGCAAGGCGAGGAGCACGGGG
*
328297 TGATTTAGTGCATTTCAAGGCGAGGAGCACGGGG
1 TGATTTAGTGCATTGCAAGGCGAGGAGCACGGGG
328331 TGATTTAGTGCATTGCAAGGCGAGGAGCACGGGG
1 TGATTTAGTGCATTGCAAGGCGAGGAGCACGGGG
328365 ACGAACAGGT
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
33 27 0.43
34 36 0.57
ACGTcount: A:0.25, C:0.15, G:0.40, T:0.21
Consensus pattern (34 bp):
TGATTTAGTGCATTGCAAGGCGAGGAGCACGGGG
Found at i:331822 original size:22 final size:21
Alignment explanation
Indices: 331796--331839 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
331786 TTTCTCCTTT
* *
331796 TCTAAAACTTATAAAAGTATAA
1 TCTAAAACTCAGAAAAGT-TAA
331818 TCTAAAACTCAGAAAAGTTAA
1 TCTAAAACTCAGAAAAGTTAA
331839 T
1 T
331840 TAAGTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (21 bp):
TCTAAAACTCAGAAAAGTTAA
Found at i:332097 original size:2 final size:2
Alignment explanation
Indices: 332085--332113 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
332075 AGAGTGAAAA
332085 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
332114 CAAATTTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:332722 original size:14 final size:14
Alignment explanation
Indices: 332703--332729 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
332693 TTATAAACTC
332703 TAATTTAGAGTTTA
1 TAATTTAGAGTTTA
332717 TAATTTAGAGTTT
1 TAATTTAGAGTTT
332730 TAAGTTAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (14 bp):
TAATTTAGAGTTTA
Found at i:333026 original size:36 final size:37
Alignment explanation
Indices: 332958--333044 Score: 133
Period size: 36 Copynumber: 2.4 Consensus size: 37
332948 AAATGGGTGT
332958 CCCACGTGTCCTTTTCTTTTTAATTTCTTGTTCATAG
1 CCCACGTGTCCTTTTCTTTTTAATTTCTTGTTCATAG
*
332995 CCCACGTGTCCTTTTC-TTTTAATTT-TCTGTTCATAT
1 CCCACGTGTCCTTTTCTTTTTAATTTCT-TGTTCATAG
*
333031 CCCACGTGTACTTT
1 CCCACGTGTCCTTT
333045 CGGTGTGGTC
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
35 1 0.02
36 30 0.64
37 16 0.34
ACGTcount: A:0.14, C:0.26, G:0.10, T:0.49
Consensus pattern (37 bp):
CCCACGTGTCCTTTTCTTTTTAATTTCTTGTTCATAG
Found at i:336970 original size:35 final size:35
Alignment explanation
Indices: 336924--337015 Score: 139
Period size: 35 Copynumber: 2.6 Consensus size: 35
336914 CACATCCGCT
* * * **
336924 ACTAACCTTTAGCCAAGTAAACGCACACGTCTGTG
1 ACTAACCTTTAGCCAAGTAAACGCAAAAGCCTGCA
336959 ACTAACCTTTAGCCAAGTAAACGCAAAAGCCTGCA
1 ACTAACCTTTAGCCAAGTAAACGCAAAAGCCTGCA
336994 ACTAACCTTTAGCCAAGTAAAC
1 ACTAACCTTTAGCCAAGTAAAC
337016 ACGTGAATCG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.37, C:0.28, G:0.14, T:0.21
Consensus pattern (35 bp):
ACTAACCTTTAGCCAAGTAAACGCAAAAGCCTGCA
Found at i:337315 original size:6 final size:6
Alignment explanation
Indices: 337281--337312 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
337271 CAGCCCCTCC
*
337281 AGGAGT AGGAGT AGGAGT AGGAGT AGAAGT AG
1 AGGAGT AGGAGT AGGAGT AGGAGT AGGAGT AG
337313 AAGCCGCAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.47, T:0.16
Consensus pattern (6 bp):
AGGAGT
Found at i:338954 original size:25 final size:25
Alignment explanation
Indices: 338925--338988 Score: 119
Period size: 25 Copynumber: 2.6 Consensus size: 25
338915 GTTGATTTAC
*
338925 GTCTGAGTTAATCCAAATTAAATGT
1 GTCTGAGTTAATCCAAACTAAATGT
338950 GTCTGAGTTAATCCAAACTAAATGT
1 GTCTGAGTTAATCCAAACTAAATGT
338975 GTCTGAGTTAATCC
1 GTCTGAGTTAATCC
338989 GAATACCCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (25 bp):
GTCTGAGTTAATCCAAACTAAATGT
Found at i:339633 original size:60 final size:59
Alignment explanation
Indices: 339518--339646 Score: 141
Period size: 60 Copynumber: 2.2 Consensus size: 59
339508 AATAGTTGGG
* ** *
339518 TGACCATTTTGTAACTTTTAATAGTCAATGGACTCAACAAAGCAATACTCCATAGTCAGA
1 TGACCATTTTATAACTTTTAATAGTCAATAAACTCAACAAAGCAACACTCCATAGTC-GA
* * * * * * *
339578 TGACTATTTTATAATTTTTAATAGTCGATAAACTTAATAAAGCAACATTCTATAGTCGA
1 TGACCATTTTATAACTTTTAATAGTCAATAAACTCAACAAAGCAACACTCCATAGTCGA
339637 TGGACCATTT
1 T-GACCATTT
339647 GTGTACTCTA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
59 3 0.05
60 53 0.95
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (59 bp):
TGACCATTTTATAACTTTTAATAGTCAATAAACTCAACAAAGCAACACTCCATAGTCGA
Found at i:346269 original size:41 final size:41
Alignment explanation
Indices: 346212--346294 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
346202 ATTAAGGATA
*
346212 GATAATTCGAAACCAAATGGAGCATTGAGCATATCAGTGGC
1 GATAATTCGAAACCAAATGGAGCATTGAGCACATCAGTGGC
*
346253 GATAATTCGAAACCAAATGGAGCATTGTGCACATCAGTGGC
1 GATAATTCGAAACCAAATGGAGCATTGAGCACATCAGTGGC
346294 G
1 G
346295 GCTGCACAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (41 bp):
GATAATTCGAAACCAAATGGAGCATTGAGCACATCAGTGGC
Found at i:352487 original size:36 final size:37
Alignment explanation
Indices: 352412--352565 Score: 240
Period size: 36 Copynumber: 4.2 Consensus size: 37
352402 AACTCGAACT
*
352412 CGACCCGACCCGACCCGAATATCACATTTTAAAAAACC
1 CGACCCGACTCGACCCGAATATCACA-TTTAAAAAACC
352450 CGACCCGACTCGACCCGAATATCACA-TTAAAAAACC
1 CGACCCGACTCGACCCGAATATCACATTTAAAAAACC
*
352486 CGACCCGACTCGACCCGAATATCACATTTAAAAAA-A
1 CGACCCGACTCGACCCGAATATCACATTTAAAAAACC
* * *
352522 CGACCCGACTCGACCCGAATATCGCACTTAAAAACCC
1 CGACCCGACTCGACCCGAATATCACATTTAAAAAACC
352559 CGACCCG
1 CGACCCG
352566 TACAAAATAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
36 68 0.63
37 15 0.14
38 25 0.23
ACGTcount: A:0.36, C:0.37, G:0.12, T:0.14
Consensus pattern (37 bp):
CGACCCGACTCGACCCGAATATCACATTTAAAAAACC
Found at i:353707 original size:2 final size:2
Alignment explanation
Indices: 353700--353734 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
353690 CCGATTAGTT
353700 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
353735 CCCGTCGTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:354017 original size:19 final size:19
Alignment explanation
Indices: 353993--354029 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
353983 AAAAACATGT
353993 TGTTGCAATAGTGAAAAAG
1 TGTTGCAATAGTGAAAAAG
*
354012 TGTTGCGATAGTGAAAAA
1 TGTTGCAATAGTGAAAAA
354030 TCCAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (19 bp):
TGTTGCAATAGTGAAAAAG
Found at i:354468 original size:20 final size:20
Alignment explanation
Indices: 354443--354495 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
354433 ATTTTGTATT
*
354443 ATCGCGTTGCGATAGTCATA
1 ATCGCGTTGCGATAGTCAGA
354463 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
354483 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
354496 TGTTGCGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGA
Found at i:354635 original size:19 final size:19
Alignment explanation
Indices: 354611--354647 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
354601 TGCGATACTG
*
354611 GAGATCGCGTTACGATTTA
1 GAGATCGCATTACGATTTA
*
354630 GAGATCGCATTGCGATTT
1 GAGATCGCATTACGATTT
354648 TATTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
GAGATCGCATTACGATTTA
Found at i:355000 original size:16 final size:16
Alignment explanation
Indices: 354976--355006 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
354966 ACCGACTATA
354976 ATATAATGAATTATTT
1 ATATAATGAATTATTT
*
354992 ATATTATGAATTATT
1 ATATAATGAATTATT
355007 AGATTTTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
ATATAATGAATTATTT
Found at i:355334 original size:18 final size:18
Alignment explanation
Indices: 355311--355375 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
355301 TAATGGTAAC
355311 TTAAACTAATTAAATAAT
1 TTAAACTAATTAAATAAT
* *
355329 TTAAACTAAGT--ATTA-
1 TTAAACTAATTAAATAAT
* *
355344 TTAGTATTAATTAAATAAT
1 TTA-AACTAATTAAATAAT
*
355363 TTAAATTAATTAA
1 TTAAACTAATTAA
355376 TGTTAACTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 8
0.71 0.14 0.16
Matches are distributed among these distances:
15 3 0.08
16 8 0.22
18 22 0.61
19 3 0.08
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (18 bp):
TTAAACTAATTAAATAAT
Found at i:355371 original size:14 final size:14
Alignment explanation
Indices: 355352--355394 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
355342 TATTAGTATT
355352 AATTAAATAATTTA
1 AATTAAATAATTTA
*
355366 AATTAATTAATGTTA
1 AATTAAATAAT-TTA
*
355381 ACTTAAAT-ATTTA
1 AATTAAATAATTTA
355394 A
1 A
355395 TAATGCGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 4 0.16
14 12 0.48
15 9 0.36
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (14 bp):
AATTAAATAATTTA
Found at i:356967 original size:28 final size:29
Alignment explanation
Indices: 356911--356969 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
356901 ATTTTCTATT
* *
356911 TAAGTATCTAAAATATTTTTTTATCAAAA
1 TAAGTACCTAAAATATTTTTATATCAAAA
*
356940 TAAGTACCTAAAATA-TTTTATGTCAAAA
1 TAAGTACCTAAAATATTTTTATATCAAAA
356968 TA
1 TA
356970 TTTACTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (29 bp):
TAAGTACCTAAAATATTTTTATATCAAAA
Found at i:357054 original size:16 final size:16
Alignment explanation
Indices: 357035--357078 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
357025 TAATTAAGCG
357035 CTGAATGATTTAAATA
1 CTGAATGATTTAAATA
* *
357051 CTGAATTATTCAAATA
1 CTGAATGATTTAAATA
357067 CTGAATGATTTA
1 CTGAATGATTTA
357079 GAGGCTCTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (16 bp):
CTGAATGATTTAAATA
Found at i:357393 original size:28 final size:29
Alignment explanation
Indices: 357361--357453 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 29
357351 AAAAATCAAT
*
357361 TACTTTAAGTA-TTATTTTAATAAAAAAA
1 TACTTTAAGTACTTATTTTGATAAAAAAA
* *
357389 TACTTT-AGATATTTATTTTGACAAAAAAA
1 TACTTTAAG-TACTTATTTTGATAAAAAAA
* * *
357418 TAATTTCAAATACTTATTTTGATCAAAAAA
1 TACTTT-AAGTACTTATTTTGATAAAAAAA
357448 TA-TTTA
1 TACTTTA
357454 TATTTTAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.04
28 9 0.17
29 23 0.43
30 19 0.35
31 1 0.02
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.43
Consensus pattern (29 bp):
TACTTTAAGTACTTATTTTGATAAAAAAA
Found at i:357467 original size:35 final size:30
Alignment explanation
Indices: 357364--357468 Score: 88
Period size: 29 Copynumber: 3.4 Consensus size: 30
357354 AATCAATTAC
* * * *
357364 TTTAAGTA-TTATTTTAATAAAAAAAT-AC
1 TTTAAATACTTATTTTGACAAAAAAATAAT
* *
357392 TTTAGATATTTATTTTGACAAAAAAATAAT
1 TTTAAATACTTATTTTGACAAAAAAATAAT
*
357422 TTCAAATACTTATTTTGATCAAAAAATATTTATAT
1 TTTAAATACTTATTTTGA-CAAAAAA-A--TA-AT
357457 TTTAAATACTTA
1 TTTAAATACTTA
357469 AAAAAACATA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
28 6 0.10
29 16 0.26
30 16 0.26
31 7 0.11
32 1 0.02
34 2 0.03
35 13 0.21
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.45
Consensus pattern (30 bp):
TTTAAATACTTATTTTGACAAAAAAATAAT
Found at i:363172 original size:43 final size:43
Alignment explanation
Indices: 363111--363199 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
363101 AGTTGCTCAC
363111 ATCTCTAATACTCAAACCCAAAACTTACTGTAATTCATTTATT
1 ATCTCTAATACTCAAACCCAAAACTTACTGTAATTCATTTATT
363154 ATCTCTAATACTCAAACCCAAAACTTACTGTAATTCATTTATT
1 ATCTCTAATACTCAAACCCAAAACTTACTGTAATTCATTTATT
363197 ATC
1 ATC
363200 GAGATCGTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (43 bp):
ATCTCTAATACTCAAACCCAAAACTTACTGTAATTCATTTATT
Found at i:370500 original size:24 final size:24
Alignment explanation
Indices: 370471--370599 Score: 154
Period size: 24 Copynumber: 5.4 Consensus size: 24
370461 ACTTCCAGTT
*
370471 GAACCAAAGGCTGGGGTGCTTGTA
1 GAACCAAAGGCAGGGGTGCTTGTA
* * *
370495 GCACCAAAGGAAGGGGTGCTTGTG
1 GAACCAAAGGCAGGGGTGCTTGTA
*
370519 GAACCAAAGGCAGGGGTGCTCG-A
1 GAACCAAAGGCAGGGGTGCTTGTA
*
370542 GGAACCAAAGGCAGGGGTGCTCG-A
1 -GAACCAAAGGCAGGGGTGCTTGTA
*
370566 GGAACCAAAGGCAGGGGTGCTTGTG
1 -GAACCAAAGGCAGGGGTGCTTGTA
*
370591 GCACCAAAG
1 GAACCAAAG
370600 CTACCAAATG
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
24 92 1.00
ACGTcount: A:0.28, C:0.19, G:0.40, T:0.13
Consensus pattern (24 bp):
GAACCAAAGGCAGGGGTGCTTGTA
Found at i:370527 original size:48 final size:48
Alignment explanation
Indices: 370471--370599 Score: 179
Period size: 48 Copynumber: 2.7 Consensus size: 48
370461 ACTTCCAGTT
* * *
370471 GAACCAAAGGCTGGGGTGCTTGTAGCACCAAAGGAAGGGGTGCTTGTG
1 GAACCAAAGGCAGGGGTGCTTGTAGCACCAAAGGAAGGGGTGCTCGAG
* * *
370519 GAACCAAAGGCAGGGGTGCTCG-AGGAACCAAAGGCAGGGGTGCTCGAG
1 GAACCAAAGGCAGGGGTGCTTGTA-GCACCAAAGGAAGGGGTGCTCGAG
*
370567 GAACCAAAGGCAGGGGTGCTTGTGGCACCAAAG
1 GAACCAAAGGCAGGGGTGCTTGTAGCACCAAAG
370600 CTACCAAATG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
47 1 0.01
48 69 0.99
ACGTcount: A:0.28, C:0.19, G:0.40, T:0.13
Consensus pattern (48 bp):
GAACCAAAGGCAGGGGTGCTTGTAGCACCAAAGGAAGGGGTGCTCGAG
Found at i:370717 original size:24 final size:24
Alignment explanation
Indices: 370663--370718 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
370653 AGTTGAAGAT
370663 GCTCCAAAAGCAGGAGTGCTGGAA
1 GCTCCAAAAGCAGGAGTGCTGGAA
* * * *
370687 G-TGCCAAAAGCTGGTGTGCTTGAC
1 GCT-CCAAAAGCAGGAGTGCTGGAA
370711 GCTCCAAA
1 GCTCCAAA
370719 TGTACCTCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.04
24 24 0.92
25 1 0.04
ACGTcount: A:0.29, C:0.23, G:0.30, T:0.18
Consensus pattern (24 bp):
GCTCCAAAAGCAGGAGTGCTGGAA
Found at i:370781 original size:24 final size:23
Alignment explanation
Indices: 370754--370946 Score: 233
Period size: 24 Copynumber: 8.0 Consensus size: 23
370744 GCATTAGAGA
* *
370754 CACCAAATGCAGGAGTTCTCGTGG
1 CACCAAA-GCAGGGGTGCTCGTGG
*
370778 CACCAAAGGCAGGGGTACTCGTGG
1 CACCAAA-GCAGGGGTGCTCGTGG
*
370802 CACCAAAGGCAGGGGTACTCGTGG
1 CACCAAA-GCAGGGGTGCTCGTGG
*
370826 CACCAAATGCAGGGGTGCTGGTGG
1 CACCAAA-GCAGGGGTGCTCGTGG
370850 CACCAAAAGCAGGGGTGCTCGTGG
1 CACC-AAAGCAGGGGTGCTCGTGG
* *
370874 TACCGAAAGCAGGGGTGCTGGTGG
1 CACC-AAAGCAGGGGTGCTCGTGG
*
370898 CACCGAAAGCAGGGGTGCTGGTGG
1 CACC-AAAGCAGGGGTGCTCGTGG
*
370922 CACCGAAAGCAGGGGTGCTGGTGG
1 CACC-AAAGCAGGGGTGCTCGTGG
370946 C
1 C
370947 GCCGAATGCA
Statistics
Matches: 157, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
24 154 0.98
25 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.40, T:0.15
Consensus pattern (23 bp):
CACCAAAGCAGGGGTGCTCGTGG
Found at i:370951 original size:24 final size:24
Alignment explanation
Indices: 370774--370957 Score: 239
Period size: 24 Copynumber: 7.7 Consensus size: 24
370764 AGGAGTTCTC
* *
370774 GTGGCACC-AAAGGCAGGGGTACTC
1 GTGGCACCGAAA-GCAGGGGTGCTG
* *
370798 GTGGCACC-AAAGGCAGGGGTACTC
1 GTGGCACCGAAA-GCAGGGGTGCTG
370822 GTGGCACC-AAATGCAGGGGTGCTG
1 GTGGCACCGAAA-GCAGGGGTGCTG
* *
370846 GTGGCACCAAAAGCAGGGGTGCTC
1 GTGGCACCGAAAGCAGGGGTGCTG
*
370870 GTGGTACCGAAAGCAGGGGTGCTG
1 GTGGCACCGAAAGCAGGGGTGCTG
370894 GTGGCACCGAAAGCAGGGGTGCTG
1 GTGGCACCGAAAGCAGGGGTGCTG
370918 GTGGCACCGAAAGCAGGGGTGCTG
1 GTGGCACCGAAAGCAGGGGTGCTG
* *
370942 GTGGCGCCGAATGCAG
1 GTGGCACCGAAAGCAG
370958 ACTGAGTTGA
Statistics
Matches: 149, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
24 146 0.98
25 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.42, T:0.14
Consensus pattern (24 bp):
GTGGCACCGAAAGCAGGGGTGCTG
Found at i:373796 original size:29 final size:30
Alignment explanation
Indices: 373764--373825 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 30
373754 GAGTAGGGAA
373764 AAAAACTCAAAAATTGGATG--AAAAAAAT
1 AAAAACTCAAAAATTGGATGACAAAAAAAT
* * **
373792 TAAAATTTTAAAATTGGATGACAAAAAAAT
1 AAAAACTCAAAAATTGGATGACAAAAAAAT
373822 AAAA
1 AAAA
373826 GCAAAGTTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
28 16 0.59
30 11 0.41
ACGTcount: A:0.63, C:0.05, G:0.10, T:0.23
Consensus pattern (30 bp):
AAAAACTCAAAAATTGGATGACAAAAAAAT
Found at i:374248 original size:33 final size:33
Alignment explanation
Indices: 374211--374277 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
374201 CAAGTTCGAA
*
374211 TTAGCATCTAAAACTC-AAAATTGATGATTAGAT
1 TTAGCATCTAAAACTCGAAAA-TGACGATTAGAT
374244 TTAGCATCTAAAACTCGAAAATGACGATTAGAT
1 TTAGCATCTAAAACTCGAAAATGACGATTAGAT
374277 T
1 T
374278 GATCATCAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.88
34 4 0.12
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (33 bp):
TTAGCATCTAAAACTCGAAAATGACGATTAGAT
Found at i:374363 original size:167 final size:167
Alignment explanation
Indices: 374077--374411 Score: 519
Period size: 167 Copynumber: 2.0 Consensus size: 167
374067 ACAGTTCGAA
* * * *
374077 TTAGCATCTAAAAATCAAAATTGATGATTAGATTGATTATCAGCCATAAGTCAAATACCATACAA
1 TTAGCATCTAAAAATCAAAATTGACGATTAGATTGATCATCAACCATAAGTCAAACACCATACAA
*
374142 ACATGTATCAAGATCTACATTCGGGATTTCTAATGAATTTCTACGTAAAATAAACACATCAAGTT
66 ACATGTATCAAGATCTACATTCGGGATTTCTAATGAATTTATACGTAAAATAAACACATCAAGTT
* *
374207 CGAATTAGCATCTAAAACTCAAAATTGATGATTAGAT
131 CGAATTAGCATCTAAAACTCAAAATTAACGATTAGAT
* * *
374244 TTAGCATCTAAAACTCGAAAA-TGACGATTAGATTGATCATCAACCATAAGTCGAACACGATACA
1 TTAGCATCTAAAAATC-AAAATTGACGATTAGATTGATCATCAACCATAAGTCAAACACCATACA
* * * *
374308 AACATGTATCAAGATCTACATTCGGTATTTCTAATGAATTTATGCGTACAATAAACACTTCAAGT
65 AACATGTATCAAGATCTACATTCGGGATTTCTAATGAATTTATACGTAAAATAAACACATCAAGT
*
374373 TCGAATTAGCATCTAAAACTCGAAATTAACGATTAGAT
130 TCGAATTAGCATCTAAAACTCAAAATTAACGATTAGAT
374411 T
1 T
374412 GATCATCAAC
Statistics
Matches: 152, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
167 148 0.97
168 4 0.03
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (167 bp):
TTAGCATCTAAAAATCAAAATTGACGATTAGATTGATCATCAACCATAAGTCAAACACCATACAA
ACATGTATCAAGATCTACATTCGGGATTTCTAATGAATTTATACGTAAAATAAACACATCAAGTT
CGAATTAGCATCTAAAACTCAAAATTAACGATTAGAT
Found at i:374416 original size:134 final size:134
Alignment explanation
Indices: 374244--374884 Score: 1201
Period size: 134 Copynumber: 4.8 Consensus size: 134
374234 ATGATTAGAT
*
374244 TTAGCATCTAAAACTCGAAAATGACGATTAGATTGATCATCAACCATAAGTCGAACACGATACAA
1 TTAGCATCTAAAACTCGAAATTGACGATTAGATTGATCATCAACCATAAGTCGAACACGATACAA
374309 ACATGTATCAAGATCTACATTCGGTATTTCTAATGAATTTATGCGTACAATAAACACTTCAAGTT
66 ACATGTATCAAGATCTACATTCGGTATTTCTAATGAATTTATGCGTACAATAAACACTTCAAGTT
374374 CGAA
131 CGAA
*
374378 TTAGCATCTAAAACTCGAAATTAACGATTAGATTGATCATCAACCATAAGTCGAACACGATACAA
1 TTAGCATCTAAAACTCGAAATTGACGATTAGATTGATCATCAACCATAAGTCGAACACGATACAA
*
374443 ACATGTATCAAGATCTACATTCGGTATTTCTAATGAATTTATGTGTACAATAAACACTTCAAGTT
66 ACATGTATCAAGATCTACATTCGGTATTTCTAATGAATTTATGCGTACAATAAACACTTCAAGTT
*
374508 TGAA
131 CGAA
374512 TTAGCATCTAAAACTCGAAATTGACGATTAGATTGATCATCAACCATAAGTCGAACACGATACAA
1 TTAGCATCTAAAACTCGAAATTGACGATTAGATTGATCATCAACCATAAGTCGAACACGATACAA
374577 ACATGTATCAAGATCTACATTCGGTATTTCTAATGAATTTATGCGTACAATAAACACTTCAAGTT
66 ACATGTATCAAGATCTACATTCGGTATTTCTAATGAATTTATGCGTACAATAAACACTTCAAGTT
374642 CGAA
131 CGAA
* *
374646 TTAGCATCTAAAACTCGAAATTGATGATTAGATTGATCATCAACCATAAGTTGAACACGATACAA
1 TTAGCATCTAAAACTCGAAATTGACGATTAGATTGATCATCAACCATAAGTCGAACACGATACAA
374711 ACATGTATCAAGATCTACATTCGGTATTTCTAATGAATTTATGCGTACAATAAACACTTCAAGTT
66 ACATGTATCAAGATCTACATTCGGTATTTCTAATGAATTTATGCGTACAATAAACACTTCAAGTT
374776 CGAA
131 CGAA
* *
374780 TTAGCATCTAAAACTCGAAATTGATGATTAGATTGATCATCAACCATAAGTTGAACACGATACAA
1 TTAGCATCTAAAACTCGAAATTGACGATTAGATTGATCATCAACCATAAGTCGAACACGATACAA
*
374845 ACATGTATCAAGATCTACATTCGGGATTTCTAATGAATTT
66 ACATGTATCAAGATCTACATTCGGTATTTCTAATGAATTT
374885 CTTACTCTTG
Statistics
Matches: 497, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 497 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (134 bp):
TTAGCATCTAAAACTCGAAATTGACGATTAGATTGATCATCAACCATAAGTCGAACACGATACAA
ACATGTATCAAGATCTACATTCGGTATTTCTAATGAATTTATGCGTACAATAAACACTTCAAGTT
CGAA
Found at i:377830 original size:11 final size:11
Alignment explanation
Indices: 377816--377841 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
377806 TTTTCACAAA
377816 TTTTAAATAAT
1 TTTTAAATAAT
377827 TTTTAAATAAT
1 TTTTAAATAAT
377838 TTTT
1 TTTT
377842 TCAAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAATAAT
Found at i:378743 original size:22 final size:21
Alignment explanation
Indices: 378723--378778 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 21
378713 ACTTTTATTG
378723 GTTTTTTAAAAAAAAT-ATAT
1 GTTTTTTAAAAAAAATAATAT
* *
378743 -TTTTTTAATAAATATAATAAT
1 GTTTTTTAAAAAAAATAAT-AT
378764 GTTTTTTAAAAAAAA
1 GTTTTTTAAAAAAAA
378779 ATTCAGAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 13 0.45
20 2 0.07
21 2 0.07
22 12 0.41
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (21 bp):
GTTTTTTAAAAAAAATAATAT
Found at i:385817 original size:20 final size:21
Alignment explanation
Indices: 385792--385836 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
385782 TTCTTTTTTA
* *
385792 AAAATTTAT-TTAGAAAACAT
1 AAAATTAATATTAAAAAACAT
*
385812 AAAATTAATATTAAAAAACTT
1 AAAATTAATATTAAAAAACAT
385833 AAAA
1 AAAA
385837 AGTTTGGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAATTAATATTAAAAAACAT
Found at i:387206 original size:33 final size:32
Alignment explanation
Indices: 387148--387232 Score: 143
Period size: 33 Copynumber: 2.6 Consensus size: 32
387138 CTTTATTTTG
387148 TTCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
*
387180 TTCGGGTCGGGTCGGATTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGG-GTTTTTTAAGTGTGATA
387213 TTCGGGTCGGGTTCGGGTTT
1 TTCGGGTCGGG-TCGGGTTT
387233 AGGGTGAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
32 15 0.31
33 30 0.61
34 4 0.08
ACGTcount: A:0.11, C:0.11, G:0.38, T:0.41
Consensus pattern (32 bp):
TTCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
Found at i:387422 original size:37 final size:37
Alignment explanation
Indices: 387372--387459 Score: 149
Period size: 37 Copynumber: 2.4 Consensus size: 37
387362 TTTATTTTGT
*
387372 TCGGGTTGGGTTTTTTAAGTGTGATATTCGGGTCGAG
1 TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGAG
*
387409 TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGGG
1 TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGAG
387446 TCGGGTTCGGGTTT
1 TCGGG-TCGGGTTT
387460 AGGGTGAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
37 40 0.83
38 8 0.17
ACGTcount: A:0.10, C:0.10, G:0.40, T:0.40
Consensus pattern (37 bp):
TCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGAG
Found at i:387891 original size:10 final size:10
Alignment explanation
Indices: 387876--387909 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
387866 ATGTAAGTTG
387876 TAAAATAAAC
1 TAAAATAAAC
*
387886 TAAAATAAAG
1 TAAAATAAAC
387896 T-AAATAAAC
1 TAAAATAAAC
387905 TAAAA
1 TAAAA
387910 CAAAAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.21
Consensus pattern (10 bp):
TAAAATAAAC
Found at i:388037 original size:38 final size:38
Alignment explanation
Indices: 387981--388058 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
387971 TCTGACATGT
*
387981 CTGCGAACCAAACAGAATATGGAATTGGATTCCAATTC
1 CTGCCAACCAAACAGAATATGGAATTGGATTCCAATTC
388019 CTGCCAACCAAACAGAATATGGAATTGGATTCCAATTC
1 CTGCCAACCAAACAGAATATGGAATTGGATTCCAATTC
388057 CT
1 CT
388059 ACAGATTCCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (38 bp):
CTGCCAACCAAACAGAATATGGAATTGGATTCCAATTC
Found at i:388082 original size:18 final size:18
Alignment explanation
Indices: 388046--388095 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
388036 TATGGAATTG
388046 GATTCCAATTCC-T-ACA
1 GATTCCAATTCCTTCACA
388062 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
*
388080 GATTCTAATTCCTTCA
1 GATTCCAATTCCTTCA
388096 TAAACATTCC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 12 0.39
17 1 0.03
18 18 0.58
ACGTcount: A:0.28, C:0.30, G:0.06, T:0.36
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:392947 original size:2 final size:2
Alignment explanation
Indices: 392942--392971 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
392932 TAAAAAAATA
392942 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
392972 TTGATTAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:396764 original size:26 final size:28
Alignment explanation
Indices: 396735--396792 Score: 77
Period size: 26 Copynumber: 2.1 Consensus size: 28
396725 TTAAAATATT
*
396735 AAAAATATT-ATTATAT-TT-ATTTATAA
1 AAAAATATTAATT-TATCTTAAATTATAA
396761 AAAAATATTAATTTATCTTAAATTATAA
1 AAAAATATTAATTTATCTTAAATTATAA
396789 AAAA
1 AAAA
396793 GTCTCAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 12 0.43
27 5 0.18
28 11 0.39
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (28 bp):
AAAAATATTAATTTATCTTAAATTATAA
Found at i:413810 original size:143 final size:143
Alignment explanation
Indices: 413552--413841 Score: 454
Period size: 143 Copynumber: 2.0 Consensus size: 143
413542 AAGACATTAG
* * * *
413552 ATATCTTAAGTAAGGTTAACGATTCAAATTCTGACGATTGCGAATGGACCAAACTGGGTTGGTGA
1 ATATCTTAAGTAAGGTTAAAGATTCAAATCCTGACGATTGCGAATGAACCAAACTGAGTTGGTGA
* *
413617 CATGATATTATACTTGGTCGGGTTTGTATGAGCAAAAATTTTAATTTGACCCGACTCAGGATCAT
66 CATGATATTATACTTGGACGGGTTTGTATGAGCAAAAAATTTAATTTGACCCGACTCAGGATCAT
413682 CCCTATTAATATT
131 CCCTATTAATATT
* ** * *
413695 ATATCTTAAGTAAGGTTAAAGATTCAAATCCTGGCGATTGCGAATGAAGTAAATTGAGTTGGTGG
1 ATATCTTAAGTAAGGTTAAAGATTCAAATCCTGACGATTGCGAATGAACCAAACTGAGTTGGTGA
* *
413760 CATGATATTATATTTGGACGGGTTTGTATGAGCAAAAAATTTAATTTGACCCGACTCGGGATCAT
66 CATGATATTATACTTGGACGGGTTTGTATGAGCAAAAAATTTAATTTGACCCGACTCAGGATCAT
*
413825 CCCTCTTAATATT
131 CCCTATTAATATT
413838 ATAT
1 ATAT
413842 GAAAAATATT
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
143 133 1.00
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (143 bp):
ATATCTTAAGTAAGGTTAAAGATTCAAATCCTGACGATTGCGAATGAACCAAACTGAGTTGGTGA
CATGATATTATACTTGGACGGGTTTGTATGAGCAAAAAATTTAATTTGACCCGACTCAGGATCAT
CCCTATTAATATT
Found at i:438139 original size:34 final size:34
Alignment explanation
Indices: 438096--438166 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
438086 AAGCAAACTA
*
438096 CTTGGCCAGTAGATGGGATGCTAAATTTTAAAGG
1 CTTGGCCAGTAGACGGGATGCTAAATTTTAAAGG
438130 CTTGGCCAGTAGACGGGATGCTAAATTTTAAAGG
1 CTTGGCCAGTAGACGGGATGCTAAATTTTAAAGG
438164 CTT
1 CTT
438167 ATTGTAATCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (34 bp):
CTTGGCCAGTAGACGGGATGCTAAATTTTAAAGG
Found at i:455712 original size:21 final size:20
Alignment explanation
Indices: 455626--455783 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
455616 AAATGACCAA
**
455626 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
455645 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
455665 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
455685 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
455706 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
455727 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
455747 CAAGAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
455768 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
455784 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 42 0.40
21 46 0.44
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:455812 original size:20 final size:20
Alignment explanation
Indices: 455751--455960 Score: 210
Period size: 20 Copynumber: 10.5 Consensus size: 20
455741 GATTTTCAAG
* ** *
455751 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
455771 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
455791 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
455811 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
455831 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
455851 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
455871 TATCGCAACACGCATCCGTA
1 AATCGCAACGCGTATCCGTA
*
455891 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
455911 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
455931 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
455951 AATCGCAACG
1 AATCGCAACG
455961 AGAATCTATA
Statistics
Matches: 157, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
19 1 0.01
20 154 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:457995 original size:19 final size:19
Alignment explanation
Indices: 457973--458090 Score: 121
Period size: 19 Copynumber: 6.7 Consensus size: 19
457963 GCAACGAGAG
*
457973 AATCGCAATGCAAAATGAA
1 AATCGCAATGCGAAATGAA
*
457992 AATCGCAA--CG--A-GAT
1 AATCGCAATGCGAAATGAA
458006 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
458025 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
458039 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
458059 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
458078 AATCGCATTGCGA
1 AATCGCAATGCGA
458091 TTCTCTCGTT
Statistics
Matches: 82, Mismatches: 6, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
14 20 0.24
15 2 0.02
16 3 0.04
17 4 0.05
18 1 0.01
19 39 0.48
20 13 0.16
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:457998 original size:33 final size:33
Alignment explanation
Indices: 457959--458066 Score: 189
Period size: 33 Copynumber: 3.2 Consensus size: 33
457949 CGGAAATTAC
*
457959 AATCGCAACGAGAGAATCGCAATGCAAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
*
457992 AATCGCAACGAGATAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
458025 AATCGCAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAA
458059 AATCGCAA
1 AATCGCAA
458067 TGCGAAATGA
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
33 55 0.77
34 16 0.23
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (33 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:458009 original size:14 final size:14
Alignment explanation
Indices: 457989--458046 Score: 53
Period size: 14 Copynumber: 3.8 Consensus size: 14
457979 AATGCAAAAT
457989 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
458003 GATAATCGCAATGCGAAA
1 GAAAATCGCAA--CG--A
458021 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
*
458036 GAGAATCGCAA
1 GAAAATCGCAA
458047 TGCGGAAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (14 bp):
GAAAATCGCAACGA
Done.