Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008110.1 Hibiscus syriacus cultivar Beakdansim tig00110646_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: 844371
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 2 of 5
Found at i:211136 original size:165 final size:167
Alignment explanation
Indices: 210848--211325 Score: 622
Period size: 165 Copynumber: 2.8 Consensus size: 167
210838 ATATCAAAAT
* * *
210848 TTTAAGGCAAGAAGGGCTATCTATCAACAAAAACCTTCGAGTTCGATTCCATTCAACTCAAGGGC
1 TTTAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATT-CA-T-AGCTCAAGGGC
* * * * * *
210913 ATATCAAATTTACAGTATAGCTCAAGGCGAAAATGAATATCTATCAACGAAAACCTTCGAGTTTG
63 ATATCAAATTTACAGTATAGCTCAAGGCGAGAAGGGATATATGTCAACAAAAACCTTCGAGTTTG
*
210978 ATTACATTCAGCTCAAGGGCATATCAAATTTACAGCATAG
128 ATTCCATTCAGCTCAAGGGCATATCAAATTTACAGCATAG
211018 TTTAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATT-A-AGCTCAAGGGCATA
1 TTTAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCATAGCTCAAGGGCATA
* * * *
211081 TCAAATTTACAGCATAGCTCAAGGCTAGAAGGGTTATATGTCAACAAAAACCTTCGAGCTTGATT
66 TCAAATTTACAGTATAGCTCAAGGCGAGAAGGGATATATGTCAACAAAAACCTTCGAGTTTGATT
211146 CCATTCAGCTCAAGGGCATATCAAATTTACAGCATAG
131 CCATTCAGCTCAAGGGCATATCAAATTTACAGCATAG
* * * * * * * * * *
211183 TTCAAGGTGAGAAGGGTTATATGTCAAAAAAAACTTTCGATTTCGATTCCATTCAGCTCGATGAC
1 TTTAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATT-CA-T-AGCTCAAGGGC
* *
211248 ATGTCAAATTTACAGTATA-CTCAAGGCGAGAAGGGATATATGTCAACAAAAACCTTTGA-TTTC
63 ATATCAAATTTACAGTATAGCTCAAGGCGAGAAGGGATATATGTCAACAAAAACCTTCGAGTTT-
*
211311 AATTCCATTCAGCTC
127 GATTCCATTCAGCTC
211326 GATGACATAT
Statistics
Matches: 271, Mismatches: 31, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
165 145 0.54
167 1 0.00
168 3 0.01
169 51 0.19
170 71 0.26
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (167 bp):
TTTAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCATAGCTCAAGGGCATA
TCAAATTTACAGTATAGCTCAAGGCGAGAAGGGATATATGTCAACAAAAACCTTCGAGTTTGATT
CCATTCAGCTCAAGGGCATATCAAATTTACAGCATAG
Found at i:212165 original size:21 final size:19
Alignment explanation
Indices: 212129--212167 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
212119 AGTATAAACG
*
212129 TATTATATGATTATATATT
1 TATTATATGATAATATATT
212148 TATTATAGTGTATAATATAT
1 TATTATA-TG-ATAATATAT
212168 ATGTATATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 2 0.12
21 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TATTATATGATAATATATT
Found at i:212182 original size:29 final size:29
Alignment explanation
Indices: 212142--212197 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
212132 TATATGATTA
*
212142 TATATTTATTATAGTGTATAATATATATG
1 TATATTTATTATAGTATATAATATATATG
* *
212171 TATATTGT-TTATATTATATAGTATATA
1 TATATT-TATTATAGTATATAATATATA
212198 CATATTATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 22 0.96
30 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.54
Consensus pattern (29 bp):
TATATTTATTATAGTATATAATATATATG
Found at i:212196 original size:52 final size:52
Alignment explanation
Indices: 212129--212239 Score: 120
Period size: 52 Copynumber: 2.1 Consensus size: 52
212119 AGTATAAACG
* ** *
212129 TATTATATGATTATATATTTATTATAG-TGTATAATATATATGTATAT-TGTTTA
1 TATTATATGAGTATATACATATTAT-GTTGTATAATATA-AT-TATATATGTATA
*
212182 TATTATAT-AGTATATACATATTATGTTGTATACTATAATTATATAGTGTATA
1 TATTATATGAGTATATACATATTATGTTGTATAATATAATTATATA-TGTATA
212234 TATTAT
1 TATTAT
212240 GTTGTTACAC
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
50 5 0.10
51 3 0.06
52 34 0.68
53 8 0.16
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (52 bp):
TATTATATGAGTATATACATATTATGTTGTATAATATAATTATATATGTATA
Found at i:212275 original size:2 final size:2
Alignment explanation
Indices: 212268--212331 Score: 105
Period size: 2 Copynumber: 32.5 Consensus size: 2
212258 ATTACATAGC
212268 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
212310 AT AT AT AT AT -T AT CAT -T AT AT A
1 AT AT AT AT AT AT AT -AT AT AT AT A
212332 CACATTATAT
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.03
2 55 0.93
3 2 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:212348 original size:15 final size:16
Alignment explanation
Indices: 212303--212355 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
212293 TATATATATA
* *
212303 TATATATATATATATAT
1 TATAT-TATATACACAT
212320 TATCATTATATACACAT
1 TAT-ATTATATACACAT
*
212337 TATATTAT-TACATAT
1 TATATTATATACACAT
212352 TATA
1 TATA
212356 CATATACATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 10 0.31
16 5 0.16
17 15 0.47
18 2 0.06
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (16 bp):
TATATTATATACACAT
Found at i:212363 original size:6 final size:6
Alignment explanation
Indices: 212355--214120 Score: 3346
Period size: 6 Copynumber: 295.8 Consensus size: 6
212345 TACATATTAT
* *
212355 ACATAT ACATAT ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
212403 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
212451 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
212499 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
212547 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
212595 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
212643 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
212691 ACATAC ACATAC ACATAC ACATAC ACATAC -CATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
212738 ACATAC ACATAC ACATAC ACAT-- ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
212784 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
212832 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
212880 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
*
212928 ACACAC ATACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC --ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
212978 ACATAC ACATAC ACATAC ACATAC ACAT-- ACATAC -CATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213023 ACATAC ACATAC ACATAC ACATAC ACATAC ATACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC --ACATAC ACATAC ACATAC
213073 ACATAC AC--A- ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213118 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213166 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213214 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213262 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213310 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213358 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213406 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213454 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213502 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213550 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213598 ACATAC ACATAC ACATAC ACATAC ACATAC ACATACAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACAT--AC ACATAC ACATAC
213648 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213696 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213744 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213792 ACATAC ACATAC AC--AC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213838 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213886 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213934 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
213982 ACATAC ACATAC ACATAC ACATAC ACAT-- ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
214028 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC
214076 ACATAC ACATAC ACAT-- ACATAC ACATAC ACATAC ACATAC ACATA
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATAC ACATA
214121 TATATATGTA
Statistics
Matches: 1736, Mismatches: 3, Indels: 42
0.97 0.00 0.02
Matches are distributed among these distances:
3 2 0.00
4 21 0.01
5 11 0.01
6 1685 0.97
8 17 0.01
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (6 bp):
ACATAC
Found at i:214132 original size:4 final size:4
Alignment explanation
Indices: 214125--214628 Score: 1001
Period size: 4 Copynumber: 126.2 Consensus size: 4
214115 CACATATATA
214125 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
214173 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
214221 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
214269 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
214317 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
214365 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
214413 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
214461 TATG TATG TATG T-TG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
214508 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
214556 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
214604 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
214629 TTCTTTCCTT
Statistics
Matches: 499, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
3 3 0.01
4 496 0.99
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:216634 original size:79 final size:79
Alignment explanation
Indices: 216515--216674 Score: 311
Period size: 79 Copynumber: 2.0 Consensus size: 79
216505 TTTATGAATT
*
216515 TAATTTTTTTAAAGAAAATATATAAATATTTTCCAACCTGTTTAAAAAACAAATATATAATAAGG
1 TAATTTTTTTAAAGAAAATATATAAATATTTTCCAACCTGTTAAAAAAACAAATATATAATAAGG
216580 ACAATTTGGTCAAA
66 ACAATTTGGTCAAA
216594 TAATTTTTTTAAAGAAAATATATAAATATTTTCCAACCTGTTAAAAAAACAAATATATAATAAGG
1 TAATTTTTTTAAAGAAAATATATAAATATTTTCCAACCTGTTAAAAAAACAAATATATAATAAGG
216659 ACAATTTGGTCAAA
66 ACAATTTGGTCAAA
216673 TA
1 TA
216675 TACATTTTAA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (79 bp):
TAATTTTTTTAAAGAAAATATATAAATATTTTCCAACCTGTTAAAAAAACAAATATATAATAAGG
ACAATTTGGTCAAA
Found at i:219028 original size:183 final size:184
Alignment explanation
Indices: 218733--219106 Score: 592
Period size: 183 Copynumber: 2.0 Consensus size: 184
218723 ATAAAAATTA
* * * *
218733 AATATTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATATATAATTATAAAATACAAAT
1 AATATTTTTTAATTCAAAAAAAGTTTACAAATAATTTAAATAATATATAATTATAAAATAAAAAA
218798 TTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATTAT
66 TTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATTAT
* **
218863 TAATTAGGTTTTAAATGGTTTGGGCTT-AACCCATATGTTATATATAATATATAT
131 TAATTAGGTTTTAAATGATTTAAG-TTGAACCCATATGTTATATATAATATATAT
218917 AATATTTTTTAATT-AAAAAACAGTTTACAAATAATTTAAATAATATATAATTATAAAATAAAAA
1 AATATTTTTTAATTCAAAAAA-AGTTTACAAATAATTTAAATAATATATAATTATAAAATAAAAA
*
218981 ATTTATAT-AATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATTA
65 ATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATTA
* ** *
219045 TTAATTGGGTTTTAAATGATTTAAGTTGAGTCCATATGTTATATATAATATATTT
130 TTAATTAGGTTTTAAATGATTTAAGTTGAACCCATATGTTATATATAATATATAT
*
219100 AAAATTT
1 AATATTT
219107 AAAATTTAAT
Statistics
Matches: 175, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
182 2 0.01
183 113 0.65
184 60 0.34
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (184 bp):
AATATTTTTTAATTCAAAAAAAGTTTACAAATAATTTAAATAATATATAATTATAAAATAAAAAA
TTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATTGGATCTTAAATTAT
TAATTAGGTTTTAAATGATTTAAGTTGAACCCATATGTTATATATAATATATAT
Found at i:223263 original size:3 final size:3
Alignment explanation
Indices: 223257--223334 Score: 66
Period size: 3 Copynumber: 25.7 Consensus size: 3
223247 CATTTTAATG
* * * * * *
223257 TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TAA TTA TAA TAA TAA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
223305 TAA TAA TTA TTA TTA TTA ATA TATA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TT
223335 TAATATTACA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
3 63 0.95
4 3 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (3 bp):
TTA
Found at i:224656 original size:13 final size:13
Alignment explanation
Indices: 224640--224679 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
224630 ATAATAAATA
224640 AATATTTATTTTT
1 AATATTTATTTTT
*
224653 AATAAATTATTTTT
1 AAT-ATTTATTTTT
*
224667 AACATTTATTTTT
1 AATATTTATTTTT
224680 TTAATATCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (13 bp):
AATATTTATTTTT
Found at i:224858 original size:11 final size:11
Alignment explanation
Indices: 224842--224873 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
224832 TTTTCTGATA
224842 TTTCTAAATAT
1 TTTCTAAATAT
224853 TTTCTAAATAT
1 TTTCTAAATAT
*
224864 TTTTTAAATA
1 TTTCTAAATA
224874 ATATGATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTCTAAATAT
Found at i:228709 original size:15 final size:15
Alignment explanation
Indices: 228689--228720 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
228679 ATCAATACCT
228689 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
228704 TTTTGCATACATTCA
1 TTTTGCATACATGCA
228719 TT
1 TT
228721 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:233874 original size:11 final size:11
Alignment explanation
Indices: 233858--233891 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
233848 GCTTGAAGAG
233858 AAAAAGAAAAA
1 AAAAAGAAAAA
*
233869 AAAAAG-AAAG
1 AAAAAGAAAAA
233879 AAAAAGAAAAA
1 AAAAAGAAAAA
233890 AA
1 AA
233892 GGGGGTCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:233880 original size:15 final size:16
Alignment explanation
Indices: 233860--233889 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
233850 TTGAAGAGAA
233860 AAAGAAAAA-AAAAAG
1 AAAGAAAAAGAAAAAG
233875 AAAGAAAAAGAAAAA
1 AAAGAAAAAGAAAAA
233890 AAGGGGGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAGAAAAAG
Found at i:235177 original size:83 final size:83
Alignment explanation
Indices: 235038--235670 Score: 1067
Period size: 83 Copynumber: 7.6 Consensus size: 83
235028 AACAAATGCC
*
235038 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCCATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
*
235103 ATTGAATTTGGAAGAAT-A
66 ATTGAATTTGAAAG-ATGA
*
235121 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAATCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
235186 ATTGAATTT-AGAAGAAT-A
66 ATTGAATTTGA-AAG-ATGA
235204 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
*
235269 ATTGAATTTGGAAGAAT-A
66 ATTGAATTTGAAAG-ATGA
*
235287 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
*
235352 ATTGAAATTGAAAGATGA
66 ATTGAATTTGAAAGATGA
* *
235370 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
*
235435 ATTGAAATTGAAAGATGA
66 ATTGAATTTGAAAGATGA
*
235453 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGAACCAATC
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
*
235518 ATTGAAATTGAAAGATGA
66 ATTGAATTTGAAAGATGA
* *
235536 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAGTT
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
235601 ATTGAATTTGAAAGATGA
66 ATTGAATTTGAAAGATGA
* *
235619 ATGTGTTCATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
235671 AGTAGGAACC
Statistics
Matches: 531, Mismatches: 16, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
82 2 0.00
83 529 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (83 bp):
ATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAATC
ATTGAATTTGAAAGATGA
Found at i:236600 original size:113 final size:113
Alignment explanation
Indices: 236402--237185 Score: 1351
Period size: 113 Copynumber: 7.0 Consensus size: 113
236392 GCAAAGATTT
* *
236402 AAATCCGTCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
236467 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
236515 AAATCTATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
236580 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
236628 AAATCCATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
*
236693 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
236741 AAATCCATAACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
*
236806 AAGGAAGAAGAAGTTCATGATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
236854 AAATCCATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
*
236919 AAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
236967 AAATCCATAACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
* *
237032 AAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTTGCTC
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * ***
237080 AAATCCATCACTTGATGGATCAACTTTTCTAGAAGGAGTTCATAATGAGAAGAACTCATC---AG
1 AAATCCATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
* * ** *
237142 GA-GAAGAAGAAGTTCATAATAAGAAGAGCTTATTCAACCTTTTG
66 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
237186 AATGACTCTA
Statistics
Matches: 644, Mismatches: 27, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
109 38 0.06
110 3 0.00
113 603 0.94
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.30
Consensus pattern (113 bp):
AAATCCATCACTTGATGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
Found at i:237414 original size:3 final size:3
Alignment explanation
Indices: 237408--237485 Score: 120
Period size: 3 Copynumber: 25.7 Consensus size: 3
237398 CATTTTAATG
* *
237408 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA TAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
237456 TTA TTA TTA TTA TTA TTA ATA TATA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TT
237486 TAATATTACA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
3 65 0.96
4 3 0.04
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:239016 original size:11 final size:11
Alignment explanation
Indices: 239000--239031 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
238990 TTTTCTGATA
239000 TTTCTAAATAT
1 TTTCTAAATAT
239011 TTTCTAAATAT
1 TTTCTAAATAT
*
239022 TTTTTAAATA
1 TTTCTAAATA
239032 ATATGATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTCTAAATAT
Found at i:242499 original size:20 final size:20
Alignment explanation
Indices: 242474--242527 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
242464 GTTTGTGAGG
242474 AGGGTATTGATACTTCTTCA
1 AGGGTATTGATACTTCTTCA
** * *
242494 AGGGTATCAATAC-TGTTCG
1 AGGGTATTGATACTTCTTCA
242513 AGTGGTATTGATACT
1 AG-GGTATTGATACT
242528 CACGAAACAT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (20 bp):
AGGGTATTGATACTTCTTCA
Found at i:253715 original size:33 final size:33
Alignment explanation
Indices: 253638--253715 Score: 97
Period size: 32 Copynumber: 2.4 Consensus size: 33
253628 ACTGTGATTA
**
253638 TTGTGCATTATCTAAATGTGATACTAACACTCT
1 TTGTGCATTATCTAAATGCAATACTAACACTCT
**
253671 TT-TGCATTATCTAAATGCAATACT-TGACTCT
1 TTGTGCATTATCTAAATGCAATACTAACACTCT
253702 GTTGTGCATTATCT
1 -TTGTGCATTATCT
253716 GAACGCATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 5 0.13
32 22 0.56
33 12 0.31
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (33 bp):
TTGTGCATTATCTAAATGCAATACTAACACTCT
Found at i:253728 original size:33 final size:31
Alignment explanation
Indices: 253666--253728 Score: 81
Period size: 33 Copynumber: 2.0 Consensus size: 31
253656 TGATACTAAC
*
253666 ACTCTTTTGCATTATCTAAATGCAATACTTG
1 ACTCTTTTGCATTATCTAAACGCAATACTTG
* *
253697 ACTCTGTTGTGCATTATCTGAACGCATTACTT
1 ACTCT-TT-TGCATTATCTAAACGCAATACTT
253729 AACTAGTATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 5 0.19
32 2 0.07
33 20 0.74
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (31 bp):
ACTCTTTTGCATTATCTAAACGCAATACTTG
Found at i:256844 original size:11 final size:11
Alignment explanation
Indices: 256824--256859 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
256814 CAAAAGTACT
256824 ATTATTTTTTA
1 ATTATTTTTTA
* *
256835 TTTCTTTTTTA
1 ATTATTTTTTA
256846 ATTATTTTTTA
1 ATTATTTTTTA
256857 ATT
1 ATT
256860 CATCCTAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (11 bp):
ATTATTTTTTA
Found at i:264875 original size:31 final size:31
Alignment explanation
Indices: 264840--264907 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
264830 CGGGTTGAGC
264840 TATCTTTGGGGTTCTATCGAAATGTTATGGA
1 TATCTTTGGGGTTCTATCGAAATGTTATGGA
*
264871 TATCTTTGGGGTTCTATCGAAATGTTATGGC
1 TATCTTTGGGGTTCTATCGAAATGTTATGGA
264902 TATCTT
1 TATCTT
264908 CAAGGTTGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.44
Consensus pattern (31 bp):
TATCTTTGGGGTTCTATCGAAATGTTATGGA
Found at i:272931 original size:30 final size:30
Alignment explanation
Indices: 272897--272957 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
272887 TCTTTAATCT
*
272897 TTAATTGGTAGTATCCTGATCGAATGTCTA
1 TTAATTGGTAGTATCCTGACCGAATGTCTA
*
272927 TTAATTGGTGGTATCCTGACCGAATGTCTA
1 TTAATTGGTAGTATCCTGACCGAATGTCTA
272957 T
1 T
272958 CTTAGATAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.39
Consensus pattern (30 bp):
TTAATTGGTAGTATCCTGACCGAATGTCTA
Found at i:282479 original size:29 final size:31
Alignment explanation
Indices: 282413--282482 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
282403 TTAAAATTAC
282413 ATTTTGGTCCCTAAACTTTTCTCAAAGTTTAT
1 ATTTTGGTCCCTAAAC-TTTCTCAAAGTTTAT
* * * *
282445 ACTTTGGTCTCTAAAC-TT-TCAAATTTTGT
1 ATTTTGGTCCCTAAACTTTCTCAAAGTTTAT
282474 ATTTTGGTC
1 ATTTTGGTC
282483 ACTATCTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 17 0.52
30 2 0.06
32 14 0.42
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (31 bp):
ATTTTGGTCCCTAAACTTTCTCAAAGTTTAT
Found at i:282835 original size:29 final size:31
Alignment explanation
Indices: 282768--282837 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
282758 TAAAATTACC
282768 ATTTTGGTCCCTAAACTTTTCCCAAAGTTTAT
1 ATTTTGGTCCCTAAACTTTT-CCAAAGTTTAT
* * * *
282800 ACTTTGGTCTCTAAAC-TTT-CAAATTTTGT
1 ATTTTGGTCCCTAAACTTTTCCAAAGTTTAT
282829 ATTTTGGTC
1 ATTTTGGTC
282838 ACTATCTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 16 0.48
31 3 0.09
32 14 0.42
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.47
Consensus pattern (31 bp):
ATTTTGGTCCCTAAACTTTTCCAAAGTTTAT
Found at i:283053 original size:357 final size:355
Alignment explanation
Indices: 282375--283090 Score: 1266
Period size: 357 Copynumber: 2.0 Consensus size: 355
282365 AGATAAACTA
*
282375 TTTATTTACGAGGCCAAAATGTAAGTTTTTAAAATTACATTTTGGTCCCTAAACTTTTCTCAAAG
1 TTTATTTACGAGGCCAAAATGTAAGTTTTTAAAATTACATTTTGGTCCCTAAACTTTTCCCAAAG
282440 TTTATACTTTGGTCTCTAAACTTTCAAATTTTGTATTTTGGTCACTATCTAAATTTTGGGTATTA
66 TTTATACTTTGGTCTCTAAACTTTCAAATTTTGTATTTTGGTCACTATCTAAATTTTGGGTATTA
282505 TACATTCAACCAGAAAAATTCCATTTGCATCACATGCTTACTCATTAAATGGAACTTGGAGATTT
131 TACATTCAACCAGAAAAATTCCATTTGCATCACATGCTTACTCATTAAATGGAACTTGGAGATTT
282570 TTTGTGGGTTATAGTAAAATTGTCTTTCCATGCTTACTCATTAAATGAAACTTTGAGATTTTTTG
196 TTTGTGGGTTATAGTAAAATTGTCTTTCCATGCTTACTCATTAAATGAAACTTTGAGATTTTTTG
282635 TGGATTATAGGAAATTAAATAACATGGCAGTGAATAACAAATTTCCTATACCAGTGGTGGAGGA-
261 TGGATTATAGGAAATTAAATAACATGGCAGTGAATAACAAATTTCCTATACCAGTGGTGGAGGAC
*
282699 TATTAGATGATATTTATGGAGCTGAATTTT
326 TATTAGATGATATTTATGGAGCTAAATTTT
282729 TTTATTTACGAGGCCAAAATGTAAGTTTTTAAAATTACCATTTTGGTCCCTAAACTTTTCCCAAA
1 TTTATTTACGAGGCCAAAATGTAAGTTTTTAAAATTA-CATTTTGGTCCCTAAACTTTTCCCAAA
282794 GTTTATACTTTGGTCTCTAAACTTTCAAATTTTGTATTTTGGTCACTATCTAAAATTTTGGGTA-
65 GTTTATACTTTGGTCTCTAAACTTTCAAATTTTGTATTTTGGTCACTATCT-AAATTTTGGGTAT
282858 TATACA-TCAACCAG-AAAATTCCATTTGCATCACCATGCTTACTCATTAAATGGAACTTGGAGA
129 TATACATTCAACCAGAAAAATTCCATTTGCATCA-CATGCTTACTCATTAAATGGAACTTGGAGA
*
282921 TTTTTTGTGGG-T-TAGTAAAATT-TCTTTCCATCACCATGGTTACTCATTAAATGAAACTTTGA
193 TTTTTTGTGGGTTATAGTAAAATTGTC-TT---T--CCATGCTTACTCATTAAATGAAACTTTGA
282983 GATTTTTTGTGGATTATAGGAAATTAAATAACATGGCAGTGAATAACAAATTTCCTATACCAGTG
252 GATTTTTTGTGGATTATAGGAAATTAAATAACATGGCAGTGAATAACAAATTTCCTATACCAGTG
283048 GTGGAGGATCTATTAGATGATATTTATGGAGCTAAATTTT
317 GTGGAGGA-CTATTAGATGATATTTATGGAGCTAAATTTT
283088 TTT
1 TTT
283091 CAAGAATTGA
Statistics
Matches: 348, Mismatches: 3, Indels: 17
0.95 0.01 0.05
Matches are distributed among these distances:
351 2 0.01
352 12 0.03
353 19 0.05
354 86 0.25
355 84 0.24
356 12 0.03
357 101 0.29
359 32 0.09
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.40
Consensus pattern (355 bp):
TTTATTTACGAGGCCAAAATGTAAGTTTTTAAAATTACATTTTGGTCCCTAAACTTTTCCCAAAG
TTTATACTTTGGTCTCTAAACTTTCAAATTTTGTATTTTGGTCACTATCTAAATTTTGGGTATTA
TACATTCAACCAGAAAAATTCCATTTGCATCACATGCTTACTCATTAAATGGAACTTGGAGATTT
TTTGTGGGTTATAGTAAAATTGTCTTTCCATGCTTACTCATTAAATGAAACTTTGAGATTTTTTG
TGGATTATAGGAAATTAAATAACATGGCAGTGAATAACAAATTTCCTATACCAGTGGTGGAGGAC
TATTAGATGATATTTATGGAGCTAAATTTT
Found at i:283620 original size:115 final size:117
Alignment explanation
Indices: 283394--283627 Score: 445
Period size: 115 Copynumber: 2.0 Consensus size: 117
283384 TTTAAATATT
283394 TCATTGGATAAAAATTGGTGGAATATCTTGGTCCTATAATTTCTGCTATAGAGGTATCTACTGAT
1 TCATTGGATAAAAATTGGTGGAATATCTTGGTCCTATAATTTCTGCTATAGAGGTATCTACTGAT
*
283459 CCTAAAAAGGTGATTTCTATGAAAATTGGCCCTTACCTATGAGTATTAAATC
66 CCTAAAAAGGTGATTTCTATGAAAAATGGCCCTTACCTATGAGTATTAAATC
283511 TCATTGGATAAAAATTGGTGGAATATCTTGGTCCTATAATTT-TGCTATAGAGGTATCTACTGAT
1 TCATTGGATAAAAATTGGTGGAATATCTTGGTCCTATAATTTCTGCTATAGAGGTATCTACTGAT
283575 CCT-AAAAGGTGATTTCTATGAAAAATGGCCCTTACCTATGAGTATTAAATC
66 CCTAAAAAGGTGATTTCTATGAAAAATGGCCCTTACCTATGAGTATTAAATC
283626 TC
1 TC
283628 TTATGGGATT
Statistics
Matches: 116, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
115 49 0.42
116 25 0.22
117 42 0.36
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.36
Consensus pattern (117 bp):
TCATTGGATAAAAATTGGTGGAATATCTTGGTCCTATAATTTCTGCTATAGAGGTATCTACTGAT
CCTAAAAAGGTGATTTCTATGAAAAATGGCCCTTACCTATGAGTATTAAATC
Found at i:286024 original size:29 final size:29
Alignment explanation
Indices: 285960--286017 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
285950 CAATAGACTT
285960 AAATAAATACAACATACAAATTAGAAACC
1 AAATAAATACAACATACAAATTAGAAACC
*
285989 AAATAAATACAAGATACAAATTAGAAACC
1 AAATAAATACAACATACAAATTAGAAACC
286018 GATTAAACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.62, C:0.16, G:0.05, T:0.17
Consensus pattern (29 bp):
AAATAAATACAACATACAAATTAGAAACC
Found at i:287034 original size:85 final size:84
Alignment explanation
Indices: 286876--287039 Score: 197
Period size: 85 Copynumber: 1.9 Consensus size: 84
286866 TAATTGTGCA
* * *
286876 TCATAAATTTATGACGCGCATTTATGACGCTCATTGCGCATCATTGAAGCCCCCGCCATAAATGA
1 TCATAAATTTATGACACGCATTTATGACGCTCATTGCGCATCATTGAAGCACACGCCATAAA-GA
286941 AGACGACACACATTTATGTG
65 AGACGACACACATTTATGTG
* * ** *
286961 TCATAAATTTATGACATGCATTTATGAC-TTACATTGCGTGTCATTGAAGCACACGTCATTAGAA
1 TCATAAATTTATGACACGCATTTATGACGCT-CATTGCGCATCATTGAAGCACACGCCA-TA-AA
*
287025 -AAGATGACACACATT
63 GAAGACGACACACATT
287040 CGTGTGTCGA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
84 1 0.01
85 62 0.93
86 2 0.03
87 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (84 bp):
TCATAAATTTATGACACGCATTTATGACGCTCATTGCGCATCATTGAAGCACACGCCATAAAGAA
GACGACACACATTTATGTG
Found at i:290222 original size:15 final size:15
Alignment explanation
Indices: 290202--290230 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
290192 AGAGAATGAA
290202 GACAAACTTAATTGT
1 GACAAACTTAATTGT
290217 GACAAACTTAATTG
1 GACAAACTTAATTG
290231 GCATTCCTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (15 bp):
GACAAACTTAATTGT
Found at i:291162 original size:17 final size:17
Alignment explanation
Indices: 291140--291176 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
291130 TCCACCAACA
291140 GAAGTATAGATTAATGT
1 GAAGTATAGATTAATGT
291157 GAAGTATAGATTAATGT
1 GAAGTATAGATTAATGT
291174 GAA
1 GAA
291177 AGATAAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.24, T:0.32
Consensus pattern (17 bp):
GAAGTATAGATTAATGT
Found at i:292058 original size:8 final size:8
Alignment explanation
Indices: 292045--292076 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
292035 TGTTTTGGAC
292045 AAAGGGAA
1 AAAGGGAA
292053 AAAGGGAA
1 AAAGGGAA
*
292061 AAAGAGAA
1 AAAGGGAA
292069 AAAGGGAA
1 AAAGGGAA
292077 GCATGCGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (8 bp):
AAAGGGAA
Found at i:303544 original size:29 final size:29
Alignment explanation
Indices: 303480--303537 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
303470 CAATAGACTG
303480 AAATAAATACAACATACAAATTAGAAACC
1 AAATAAATACAACATACAAATTAGAAACC
*
303509 AAATAAATACAATATACAAATTAGAAACC
1 AAATAAATACAACATACAAATTAGAAACC
303538 GATTAAACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.62, C:0.16, G:0.03, T:0.19
Consensus pattern (29 bp):
AAATAAATACAACATACAAATTAGAAACC
Found at i:305401 original size:13 final size:13
Alignment explanation
Indices: 305369--305401 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
305359 TTTTAATATT
305369 TATT-GGGTCGGG
1 TATTCGGGTCGGG
305381 TA-TCGGGTCGGG
1 TATTCGGGTCGGG
305393 TATTCGGGT
1 TATTCGGGT
305402 AATCGGGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.05
12 12 0.63
13 6 0.32
ACGTcount: A:0.09, C:0.12, G:0.45, T:0.33
Consensus pattern (13 bp):
TATTCGGGTCGGG
Found at i:308086 original size:180 final size:182
Alignment explanation
Indices: 307594--308518 Score: 1437
Period size: 182 Copynumber: 5.1 Consensus size: 182
307584 CGATACAAAT
* * * *
307594 AAAAATGTATCGATC-CATAGCAATATAACAGGTAAAAATATGACAAAATCGGTCTCAAAATGAC
1 AAAAATGTATCGA-CACTTAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGAC
* *
307658 CAAACCGGTAAAGCGTTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTT
65 AAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTT
*
307723 TTAGAATTTAAAAGACAAGCAGTCATAGCGCCTATAAAGTGTCGATACTTT-A
130 TTGGAATTTAAAAGACAAGCAGTCATAGCGCCTATAAAGTGTCGATACTTTAA
* * *
307775 AAAAATGTATCGACACTTAAAAATATAACAGGTAAAAATATAATAAAATCGGTCTCAAAATGACA
1 AAAAATGTATCGACACTTAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACA
* * * * *
307840 AAACCGGTAAAGAGCTACTGGATATGTTGAAATTGTCTATACTTTATTATAAGTGTCGACACTTT
66 AAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTT
*
307905 TGGAATTTAAAAGACAAGCAGTCATAGCGCTTATAAAGTGTCGATACTTTAA
131 TGGAATTTAAAAGACAAGCAGTCATAGCGCCTATAAAGTGTCGATACTTTAA
*
307957 AAAAATGTATCGACACTTAACAATATAACAGGTAAAAATATGATAAAACCGGTCTC-AAAT-TCA
1 AAAAATGTATCGACACTTAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACA
* * * *
308020 AAACCGATAAAGAGCTACCGGATATGTTGAAAGTGTCGATATTTTATTATAAGTGTCGACACTTT
66 AAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTT
*
308085 TGGAATTTAAAAGACAAGCAGTCATAGCACCTATAAAGTGTCGATACTTTAA
131 TGGAATTTAAAAGACAAGCAGTCATAGCGCCTATAAAGTGTCGATACTTTAA
* * *
308137 AAAAATATATCGACACTTAAAAATATAACAGGTGAAAATATGATAAAACCGGTCTCAAAATGACA
1 AAAAATGTATCGACACTTAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACA
* * *
308202 AAACCGGTAAAGCGCCACCGGATATGTT-ATTAGTGTCGATACTTTATTATAAGTATCGACATTT
66 AAACCGGTAAAGCGCTACCGGATATGTTGA-AAGTGTCGATACTTTATTATAAGTATCGACACTT
* *
308266 TTGGAATTTAAAAGACAAGCAGTAATAGCGCCTAAAAAGTGTCGATACTTTAA
130 TTGGAATTTAAAAGACAAGCAGTCATAGCGCCTATAAAGTGTCGATACTTTAA
*
308319 AAAAATGTATCGACACTTAACTATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACA
1 AAAAATGTATCGACACTTAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACA
* * * * *
308384 AAACCGGTAAAGCGCCACCAGATATGTTGAAAGTGTCGAAATTTTATTATAAGTATCGATACTTT
66 AAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTT
* * * *
308449 TGAAATTCAAAAGACAAGCAGTAATAGCGTCTATAAAGTGTCGATACTTTAA
131 TGGAATTTAAAAGACAAGCAGTCATAGCGCCTATAAAGTGTCGATACTTTAA
308501 AAAAATGTATCGACACTT
1 AAAAATGTATCGACACTT
308519 GGGTTATTGT
Statistics
Matches: 685, Mismatches: 53, Indels: 11
0.91 0.07 0.01
Matches are distributed among these distances:
180 166 0.24
181 173 0.25
182 345 0.50
183 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (182 bp):
AAAAATGTATCGACACTTAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACA
AAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTT
TGGAATTTAAAAGACAAGCAGTCATAGCGCCTATAAAGTGTCGATACTTTAA
Found at i:308254 original size:362 final size:364
Alignment explanation
Indices: 307594--308518 Score: 1464
Period size: 362 Copynumber: 2.5 Consensus size: 364
307584 CGATACAAAT
* * * *
307594 AAAAATGTATCGATC-CATAGCAATATAACAGGTAAAAATATGACAAAATCGGTCTCAAAATGAC
1 AAAAATGTATCGA-CACTTAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGAC
* * *
307658 CAAACCGGTAAAGCGTTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTT
65 AAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATATTTTATTATAAGTATCGACACTT
*
307723 TTAGAATTTAAAAGACAAGCAGTCATAGCGCCTATAAAGTGTCGATACTTT-AAAAAATGTATCG
130 TTGGAATTTAAAAGACAAGCAGTCATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATGTATCG
*
307787 ACACTTAAAAATATAACAGGTAAAAATATAATAAAATCGGTCTCAAAATGACAAAACCGGTAAAG
195 ACACTTAAAAATATAACAGGTAAAAATATAATAAAACCGGTCTCAAAATGACAAAACCGGTAAAG
* * * * *
307852 AGCTACTGGATATGTTGAAATTGTCTATACTTTATTATAAGTGTCGACACTTTTGGAATTTAAAA
260 AGCCACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTTTGGAATTTAAAA
* * *
307917 GACAAGCAGTCATAGCGCTTATAAAGTGTCGATACTTTAA
325 GACAAGCAGTAATAGCGCCTAAAAAGTGTCGATACTTTAA
*
307957 AAAAATGTATCGACACTTAACAATATAACAGGTAAAAATATGATAAAACCGGTCTC-AAAT-TCA
1 AAAAATGTATCGACACTTAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACA
* * *
308020 AAACCGATAAAGAGCTACCGGATATGTTGAAAGTGTCGATATTTTATTATAAGTGTCGACACTTT
66 AAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATATTTTATTATAAGTATCGACACTTT
* *
308085 TGGAATTTAAAAGACAAGCAGTCATAGCACCTATAAAGTGTCGATACTTTAAAAAAATATATCGA
131 TGGAATTTAAAAGACAAGCAGTCATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATGTATCGA
* * *
308150 CACTTAAAAATATAACAGGTGAAAATATGATAAAACCGGTCTCAAAATGACAAAACCGGTAAAGC
196 CACTTAAAAATATAACAGGTAAAAATATAATAAAACCGGTCTCAAAATGACAAAACCGGTAAAGA
* *
308215 GCCACCGGATATGTT-ATTAGTGTCGATACTTTATTATAAGTATCGACATTTTTGGAATTTAAAA
261 GCCACCGGATATGTTGA-AAGTGTCGATACTTTATTATAAGTATCGACACTTTTGGAATTTAAAA
308279 GACAAGCAGTAATAGCGCCTAAAAAGTGTCGATACTTTAA
325 GACAAGCAGTAATAGCGCCTAAAAAGTGTCGATACTTTAA
*
308319 AAAAATGTATCGACACTTAACTATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACA
1 AAAAATGTATCGACACTTAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACA
* * * *
308384 AAACCGGTAAAGCGCCACCAGATATGTTGAAAGTGTCGAAATTTTATTATAAGTATCGATACTTT
66 AAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATATTTTATTATAAGTATCGACACTTT
* * * *
308449 TGAAATTCAAAAGACAAGCAGTAATAGCGTCTATAAAGTGTCGATACTTTAAAAAAATGTATCGA
131 TGGAATTTAAAAGACAAGCAGTCATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATGTATCGA
308514 CACTT
196 CACTT
308519 GGGTTATTGT
Statistics
Matches: 514, Mismatches: 43, Indels: 9
0.91 0.08 0.02
Matches are distributed among these distances:
361 110 0.21
362 226 0.44
363 54 0.11
364 124 0.24
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (364 bp):
AAAAATGTATCGACACTTAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACA
AAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATATTTTATTATAAGTATCGACACTTT
TGGAATTTAAAAGACAAGCAGTCATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATGTATCGA
CACTTAAAAATATAACAGGTAAAAATATAATAAAACCGGTCTCAAAATGACAAAACCGGTAAAGA
GCCACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGACACTTTTGGAATTTAAAAG
ACAAGCAGTAATAGCGCCTAAAAAGTGTCGATACTTTAA
Found at i:309768 original size:19 final size:19
Alignment explanation
Indices: 309720--309760 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
309710 ATACAAAATA
*
309720 TATAAGATTTATAATTTTG
1 TATACGATTTATAATTTTG
309739 TATACGATTTATAATTTTG
1 TATACGATTTATAATTTTG
309758 TAT
1 TAT
309761 GTGATTTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (19 bp):
TATACGATTTATAATTTTG
Found at i:309834 original size:19 final size:19
Alignment explanation
Indices: 309810--309858 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
309800 AATGTAGGGT
309810 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
* *
309829 TAATTTTTTATACGATTTA
1 TAATTTTGTATAAGATTTA
309848 TAATTTTGTAT
1 TAATTTTGTAT
309859 GTGAATGTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:310648 original size:201 final size:201
Alignment explanation
Indices: 310283--311259 Score: 1374
Period size: 201 Copynumber: 4.9 Consensus size: 201
310273 GAGAGAATAG
310283 ACACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATT
1 ACACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATT
* * * * *
310348 ATAATATAATAAGTAATTTTTCAATGTAACTGATATAAATATACCGGTTTTATGAGAGAATAGGT
66 ATAATGTAATAGGTAATTTTTCAATGTAACCGATATAAATTTACCGGTTTTATGAGAAAATAGGT
*
310413 CTACATAATATATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA
131 CTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA
310478 AGGGGT
196 AGGGGT
* * * * *
310484 ACACACATAAAATATCGATACATTTATAAAAAGTATCGATCCTAAAAACATCGAAACCCATAAGT
1 ACACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATT
* * * * *
310549 ATAATGTAATATGTAATTTTTCAATGTAACCGATATAAATATATCAGTTTTATGAGAGAATAGGT
66 ATAATGTAATAGGTAATTTTTCAATGTAACCGATATAAATTTACCGGTTTTATGAGAAAATAGGT
*
310614 CTACATAATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA
131 CTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA
*
310679 ACGGGT
196 AGGGGT
* * *
310685 GCACGCATAAAGTGTCGATACATTTATAAAAAGTATCAATCCTAAAAACATCGAAACCCATAATT
1 ACACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATT
* * * * * * *
310750 ATAATGTAATAGGTAAGTTTACAATCTAACTGGTATAAATTTATCGG-TTTATGAGAAAACAGGT
66 ATAATGTAATAGGTAATTTTTCAATGTAACCGATATAAATTTACCGGTTTTATGAGAAAATAGGT
*
310814 TTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA
131 CTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA
310879 AGGGTGT
196 AGGG-GT
* *
310886 --ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAAACCCTTAATT
1 ACACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATT
* * * *
310949 ATAATGTAATAGGTAAATTTACAATGTAACCTG-TAGAAATTTACCGG-TTTATGAGAAAATATG
66 ATAATGTAATAGGTAATTTTTCAATGTAACC-GATATAAATTTACCGGTTTTATGAGAAAATAGG
* * * *
311012 TCTACATAATATATCGACACTTGTGGAACTTGTGTCGATATTTTTTTGTCTAGAATGAATGTCCA
130 TCTACATAATGTATCGACACTTGTGGAACTTGTGTCGATA-CTTTTTGTCCAGAATGAATGCCCA
*
311077 AAA-AGGT
194 AAAGGGGT
* * * * * *
311084 GCACGCATAAAGTGTCGATACATTTATAAAATGTATCGATTCCAAACACATTGAAACCCTTAATT
1 ACACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATT
* * * *
311149 ATAATGTAATAGGTAAATTTAT-AATGTAACCGGTAGAAATTTACCGGTTTTATGAGAAAATATG
66 ATAATGTAATAGGT-AATTTTTCAATGTAACCGATATAAATTTACCGGTTTTATGAGAAAATAGG
* ** *
311213 TCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACCTTTTT
130 TCTACATAATGTATCGACACTTGTGGAACTTGTGTCGATA-CTTTTT
311260 AAATTCTGCA
Statistics
Matches: 704, Mismatches: 64, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
198 2 0.00
199 153 0.22
200 201 0.29
201 348 0.49
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.32
Consensus pattern (201 bp):
ACACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATT
ATAATGTAATAGGTAATTTTTCAATGTAACCGATATAAATTTACCGGTTTTATGAGAAAATAGGT
CTACATAATGTATCGACACTTGTGGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAA
AGGGGT
Found at i:314203 original size:24 final size:24
Alignment explanation
Indices: 314152--314204 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
314142 TTTCATATGT
* * *
314152 AATTGGAGTTTGAATATAAATTTC
1 AATTTGAGTTTGAATATAAATATA
* *
314176 AATTTGAGTTTGAATTTTAATATA
1 AATTTGAGTTTGAATATAAATATA
314200 AATTT
1 AATTT
314205 CAACTCCACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATATAAATATA
Found at i:315932 original size:200 final size:199
Alignment explanation
Indices: 315454--316844 Score: 1758
Period size: 199 Copynumber: 7.0 Consensus size: 199
315444 TTCAGTAATC
* * * *
315454 TCCAGAAT-AATTGCCCAACCGAGGTGCATGAATAAAGTGTCAATATATTTATTAAAAA-TATCG
1 TCCAGAATGAA-TGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTTA-TAAAAAGTATCG
* * * *
315517 ATCCCAAAAACATCGAATGAGATAATTATAATGTAATAGGTAAATTTACAATGTAACCAGTAGAT
64 ATCCCAAAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAA
* *
315582 ATATA-TCGGTTAATTAGAAAATAGGTTTACATAATGTATCGACACTTTTTA-AATTGTGTCGAT
129 ATATACT-GGTTAATTAGAAAATAGGTCTACATAATGTATCGACAC-TTGTAGAATTGTGTCGAT
*
315645 -GTATTTTG
192 ACT-TTTTG
*
315653 TCCAGAATGAATGACCAACCGAGGAGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
1 TCCAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* *
315718 CCCAAAAACATCGAATAAAATAATTATAATGTAATAGGAAAATTTACAATGTAACCGGTAGAAAT
66 CCCAAAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
*
315783 ATACTGGTTAATTAGAGAATAGGTCTACATAATGTATCGACACTTGTAGAATTTGTGTCGATACT
131 ATACTGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTGTAGAA-TTGTGTCGATACT
315848 TTTTG
195 TTTTG
*
315853 TCCAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAATTATCGAT
1 TCCAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* **
315918 CCCATAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCAATAGAAAT
66 CCCAAAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
* * * * * *
315983 TTAAC-GGTTTATGAGAAAACT-GGTCTACATAATGTATCGAGACTTGTGGAACTTGTGTCAATA
131 AT-ACTGGTTAATTAGAAAA-TAGGTCTACATAATGTATCGACACTTGTAGAA-TTGTGTCGATA
316046 CTTTTTG
193 CTTTTTG
** *
316053 TCCAGAATGAATG-CCTAAAAG-GGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGA
1 TCCAGAATGAATGACC-AACCGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGA
*
316116 TCCCAAAAACATCGAA-ACCCT-TAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGA
65 TCCCAAAAACATCGAATA--ATATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGA
* * * * * *
316179 AATTTACCGGTTTATGAGAAAACA-GTCTACATAATGTATCGACACTTGTGGAACTTGTGTCGAT
128 AATATACTGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTGTAGAA-TTGTGTCGAT
316243 ACTTTTTTG
192 AC-TTTTTG
* * *
316252 TCCAGAATGAATGACCAATCGGGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCAAT
1 TCCAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * * * * *
316317 CCCATAAACATTGAATAATATAATTATAATGTAATAGGTCAATTTCCAATCTAACAGGTAGAAAT
66 CCCAAAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
* * * *
316382 ATACCGGTTAATTAGATAATAGGTCTTCATCATGTATCGACACTTGTAGAATTTGTGTCGATACT
131 ATACTGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTGTAGAA-TTGTGTCGATACT
316447 TTTTG
195 TTTTG
** ** ** *
316452 TCCAGAATGAATTCCCAAAAG-GGTGCACTCATAAAGTGTCGATACATTTATAAAAAATATCGAT
1 TCCAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * **
316516 CCCAAAAACATCGAA-ACCTATAATTATAATGTAATATGTAAATTTACAATGTAAATGGTAGAAA
66 CCCAAAAACATCGAATA-ATATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAA
* * *
316580 TATACTGGTTAATTTA-AAAATAGGTCTACATAATGTATTGACATTTTTTA-AATTGTGTCGATA
130 TATACTGGTTAA-TTAGAAAATAGGTCTACATAATGTATCGACA-CTTGTAGAATTGTGTCGATA
*
316643 CTTTTTT
193 CTTTTTG
* * * *
316650 TCCAGAATGAATGACCAACTGGGGTGCACGAATAAAGTGTCGATACTTTTAT-AAAAGTATCGAC
1 TCCAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * * *
316714 CCCATATACATCGAATAATATAATTATAATGTAATAGGTCAATTTCCAATGTAACCGGTAGAAAT
66 CCCAAAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
* * * * * * *
316779 ATACCT-GTAAATTCGAAAATATGTATGCATAATGTTTCGACACTTTTTA-AAGTTGTGTCGATA
131 ATA-CTGGTTAATTAGAAAATAGGTCTACATAATGTATCGACAC-TTGTAGAA-TTGTGTCGATA
316842 CTT
193 CTT
316845 GTTTAAATTA
Statistics
Matches: 1054, Mismatches: 110, Indels: 56
0.86 0.09 0.05
Matches are distributed among these distances:
197 2 0.00
198 189 0.18
199 462 0.44
200 358 0.34
201 43 0.04
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (199 bp):
TCCAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
CCCAAAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
ATACTGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTGTAGAATTGTGTCGATACTT
TTTG
Found at i:316252 original size:399 final size:398
Alignment explanation
Indices: 315454--316844 Score: 1854
Period size: 399 Copynumber: 3.5 Consensus size: 398
315444 TTCAGTAATC
* * * *
315454 TCCAGAAT-AATTGCCCAACCGAGGTGCATGAATAAAGTGTCAATATATTTATTAAAAA-TATCG
1 TCCAGAATGAA-TGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTTA-TAAAAAGTATCG
* * * *
315517 ATCCCAAAAACATCGAATGAGATAATTATAATGTAATAGGTAAATTTACAATGTAACCAGTAGAT
64 ATCCCATAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCAGTAGAA
* * **
315582 ATATATCGGTTAATTAGAAAATAGGTTTACATAATGTATCGACACTT-TTTAAATTGTGTCGAT-
129 ATATAACGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTGTAGAAATTGTGTCGATA
* ** * *
315645 GTATTTTGTCCAGAATGAATGACCAACCGAGGAGCACGAATAAAGTGTCGATACATTTATAAAAA
194 CT-TTTTGTCCAGAATGAATG-CCAAAAG-GGTGCACGCATAAAGTGTCGATACATTTATAAAAA
*** *
315710 GTATCGATCCCAAAAACATCGAATAAAATAATTATAATGTAATAGGAAAATTTACAATGTAACCG
256 GTATCGATCCCAAAAACATCGAA-ACCTTAATTATAATGTAATAGGTAAATTTACAATGTAACCG
* *
315775 GTAGAAATATACTGGTTAATTAGAGAATAGGTCTACATAATGTATCGACACTTGTAGAATTTGTG
320 GTAGAAATATACTGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTGTAGAAATTGTG
315840 TCGATAC-TTTTTG
385 TCGATACTTTTTTG
*
315853 TCCAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAATTATCGAT
1 TCCAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
*
315918 CCCATAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCAATAGAAAT
66 CCCATAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCAGTAGAAAT
* * * * * * *
315983 TTAACGGTTTATGAGAAAACT-GGTCTACATAATGTATCGAGACTTGTGGAACTTGTGTCAATAC
131 ATAACGGTTAATTAGAAAA-TAGGTCTACATAATGTATCGACACTTGTAGAAATTGTGTCGATAC
316047 TTTTTGTCCAGAATGAATGCCTAAAAGGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTA
195 TTTTTGTCCAGAATGAATGCC-AAAAGGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTA
316112 TCGATCCCAAAAACATCGAAACCCTTAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTA
259 TCGATCCCAAAAACATCGAAA-CCTTAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTA
* * * * * * *
316177 GAAATTTACCGGTTTATGAGAAAACA-GTCTACATAATGTATCGACACTTGTGGAACTTGTGTCG
323 GAAATATACTGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTGTAGAAATTGTGTCG
316241 ATACTTTTTTG
388 ATACTTTTTTG
* * *
316252 TCCAGAATGAATGACCAATCGGGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCAAT
1 TCCAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * * *
316317 CCCATAAACATTGAATAATATAATTATAATGTAATAGGTCAATTTCCAATCTAA-CAGGTAGAAA
66 CCCATAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCA-GTAGAAA
* * * * *
316381 TATACCGGTTAATTAGATAATAGGTCTTCATCATGTATCGACACTTGTAGAATTTGTGTCGATAC
130 TATAACGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTGTAGAAATTGTGTCGATAC
* * *
316446 TTTTTGTCCAGAATGAATTCCCAAAAGGGTGCACTCATAAAGTGTCGATACATTTATAAAAAATA
195 TTTTTGTCCAGAATGAA-TGCCAAAAGGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTA
* **
316511 TCGATCCCAAAAACATCGAAACCTATAATTATAATGTAATATGTAAATTTACAATGTAAATGGTA
259 TCGATCCCAAAAACATCGAAACCT-TAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTA
* * **
316576 GAAATATACTGGTTAATTTA-AAAATAGGTCTACATAATGTATTGACA-TTTTTTAAATTGTGTC
323 GAAATATACTGGTTAA-TTAGAAAATAGGTCTACATAATGTATCGACACTTGTAGAAATTGTGTC
316639 GATACTTTTTT-
387 GATACTTTTTTG
* * * *
316650 TCCAGAATGAATGACCAACTGGGGTGCACGAATAAAGTGTCGATACTTTTAT-AAAAGTATCGAC
1 TCCAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * * *
316714 CCCATATACATCGAATAATATAATTATAATGTAATAGGTCAATTTCCAATGTAACCGGTAGAAAT
66 CCCATAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCAGTAGAAAT
* * * * * * * * * *
316779 ATACCTGTAAATTCGAAAATATGTATGCATAATGTTTCGACACTTTTTA-AAGTTGTGTCGATAC
131 ATAACGGTTAATTAGAAAATAGGTCTACATAATGTATCGACAC-TTGTAGAAATTGTGTCGATAC
316843 TT
195 TT
316845 GTTTAAATTA
Statistics
Matches: 884, Mismatches: 92, Indels: 34
0.88 0.09 0.03
Matches are distributed among these distances:
397 119 0.13
398 107 0.12
399 597 0.68
400 60 0.07
401 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (398 bp):
TCCAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
CCCATAAACATCGAATAATATAATTATAATGTAATAGGTAAATTTACAATGTAACCAGTAGAAAT
ATAACGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTGTAGAAATTGTGTCGATACT
TTTTGTCCAGAATGAATGCCAAAAGGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATC
GATCCCAAAAACATCGAAACCTTAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAA
ATATACTGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTGTAGAAATTGTGTCGATA
CTTTTTTG
Found at i:318170 original size:19 final size:19
Alignment explanation
Indices: 318146--318193 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
318136 AAGTAGGGGA
318146 AATTTTGTATACGATTCAT
1 AATTTTGTATACGATTCAT
*
318165 AATTTTGTATACGATTTAT
1 AATTTTGTATACGATTCAT
318184 AATTTTGTAT
1 AATTTTGTAT
318194 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.52
Consensus pattern (19 bp):
AATTTTGTATACGATTCAT
Found at i:321028 original size:200 final size:200
Alignment explanation
Indices: 320679--321357 Score: 911
Period size: 200 Copynumber: 3.4 Consensus size: 200
320669 ACCTAAATAT
* * *
320679 GTGTCGATACATTTATAAAAAGTATCGATCCCTAAAATATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * *
320744 GGTAAATTTACAATGTAACCGGTATAAATTTACCAGTTTTACGAGAAAATAGGTCTACATAATGT
66 GGTAAATTTACAATGTAACCGGTAGAAATTTACCAGTTTTATGAGAAAATAGGTTTACATAATGT
* * * * *
320809 ATCGACACTTGTGGAACTTGTGTCGATACTTGTTGTCCAGAATGAATTCCCAAAAG-GGTGCACG
131 ATCGACACTTGTTGAACTTGTGTCGATACTTTTTGTCCAGAATGAA-TGCCAAACGAGGTGTACG
320873 CATAAA
195 CATAAA
* * *
320879 GTGTCGATACATTTATAAAAAGTATCGATCTCAAAAACATCGAAACCTATAATTATAATGTCATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* *
320944 TGTAAATTTACAATGTAACCGGTAGAAATTTACC-GATTTTATGAAAAAATAGGTTTACATAATG
66 GGTAAATTTACAATGTAACCGGTAGAAATTTACCAG-TTTTATGAGAAAATAGGTTTACATAATG
* *
321008 TATCGACACTTGTTGAACTTGTATCAATACTTTTTGTCCAGAATGAATGCCAAACGAGGTGTACG
130 TATCGACACTTGTTGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGAGGTGTACG
321073 CATAAA
195 CATAAA
* * *
321079 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATTGAAACCGATAATTACAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * * *
321144 TGTAAATTTACAATGTACCCGATAGAAATATATCAGTTTTATGAGAAAATA-GTTCTACATAATG
66 GGTAAATTTACAATGTAACCGGTAGAAATTTACCAGTTTTATGAGAAAATAGGTT-TACATAATG
* * * * * ** *
321208 TATCAACACTT-TTTAAGTTTGTGTCGATACTTTTTAT-TAGAATGAATGCTTAACGAGGTGTAT
130 TATCGACACTTGTTGAA-CTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGAGGTGTAC
*
321271 GCATAAT
194 GCATAAA
** * *
321278 GTGTCGATACATTTA-AAATTGTATCGATCCCAAAAATATCGAAACCGATATTTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* *
321342 GGTAACTTTGCAATGT
66 GGTAAATTTACAATGT
321358 TACTGGTATA
Statistics
Matches: 425, Mismatches: 49, Indels: 12
0.87 0.10 0.02
Matches are distributed among these distances:
198 55 0.13
199 58 0.14
200 311 0.73
201 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (200 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGGTAGAAATTTACCAGTTTTATGAGAAAATAGGTTTACATAATGT
ATCGACACTTGTTGAACTTGTGTCGATACTTTTTGTCCAGAATGAATGCCAAACGAGGTGTACGC
ATAAA
Found at i:321544 original size:87 final size:87
Alignment explanation
Indices: 321398--321560 Score: 272
Period size: 87 Copynumber: 1.9 Consensus size: 87
321388 AAATAAGTCA
*
321398 ATATAAACGCTACCTATTACATTATATAAACGATACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAACGATACCTATTACATTATATAAACGATACCTAATATGTTATTGTACTTGATAATATTT
321463 CCGATTAAATGCCTATTTTATT
66 CCGATTAAATGCCTATTTTATT
* * * *
321485 ATATAAACGATACTTATTACATTATATAAGCGCTACCTAATTTGTTATTGTACTTGATAATATTT
1 ATATAAACGATACCTATTACATTATATAAACGATACCTAATATGTTATTGTACTTGATAATATTT
*
321550 CCGGTTAAATG
66 CCGATTAAATG
321561 ATATAACATA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (87 bp):
ATATAAACGATACCTATTACATTATATAAACGATACCTAATATGTTATTGTACTTGATAATATTT
CCGATTAAATGCCTATTTTATT
Found at i:322887 original size:18 final size:19
Alignment explanation
Indices: 322866--322906 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
322856 CTACAAGATA
322866 ACAAACTATTCTAGAACT-
1 ACAAACTATTCTAGAACTC
322884 ACAAACTATTCTAGAACTC
1 ACAAACTATTCTAGAACTC
322903 ACAA
1 ACAA
322907 CATATCCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.46, C:0.24, G:0.05, T:0.24
Consensus pattern (19 bp):
ACAAACTATTCTAGAACTC
Found at i:324871 original size:18 final size:19
Alignment explanation
Indices: 324850--324890 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
324840 CTACAATATA
324850 ACAAACTATTCTAGAACT-
1 ACAAACTATTCTAGAACTC
324868 ACAAACTATTCTAGAACTC
1 ACAAACTATTCTAGAACTC
324887 ACAA
1 ACAA
324891 CATATCCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.46, C:0.24, G:0.05, T:0.24
Consensus pattern (19 bp):
ACAAACTATTCTAGAACTC
Found at i:326246 original size:20 final size:22
Alignment explanation
Indices: 326207--326251 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
326197 ATTTTTTAAA
*
326207 TAATCTTCATATTTTTTATTAT
1 TAATCTTCATATTATTTATTAT
*
326229 TAATCTT-A-ATTATTTATTTT
1 TAATCTTCATATTATTTATTAT
326249 TAA
1 TAA
326252 ATTTGAGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 1 0.05
22 7 0.33
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (22 bp):
TAATCTTCATATTATTTATTAT
Found at i:329701 original size:96 final size:96
Alignment explanation
Indices: 329537--329727 Score: 267
Period size: 96 Copynumber: 2.0 Consensus size: 96
329527 TTGACACATA
* * * *
329537 TCACTTAACGGGAAAAACTAATGGCGTTGACGACTTAGACACCTAAAAGGGTAAAGTTTGTAATG
1 TCACTTAACGGGAAAAACTAATGGCGTTGACGACCTAGACACCTAAAAGGATAAAGATTGTAACG
* *
329602 TTATGCACTCAG-ATGTGCCAAAAACACCGTG
66 TTATGCAC-CAGAATGGGCCAAAAAAACCGTG
* * * *
329633 TCACTTAACGGGGAAAACTAATGGTGTTGACGACCTGGACACCTAAAAGGATAACGATTGTAACG
1 TCACTTAACGGGAAAAACTAATGGCGTTGACGACCTAGACACCTAAAAGGATAAAGATTGTAACG
*
329698 TTATGCACCCGAATGGGCCAAAAAAACCGT
66 TTATGCACCAGAATGGGCCAAAAAAACCGT
329728 AAGCACTTAT
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
95 2 0.02
96 81 0.98
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.22
Consensus pattern (96 bp):
TCACTTAACGGGAAAAACTAATGGCGTTGACGACCTAGACACCTAAAAGGATAAAGATTGTAACG
TTATGCACCAGAATGGGCCAAAAAAACCGTG
Found at i:330291 original size:22 final size:22
Alignment explanation
Indices: 330243--330332 Score: 54
Period size: 25 Copynumber: 3.7 Consensus size: 22
330233 AAATACAATA
* *
330243 AATAATATTATTTATAATAAAACTT
1 AATATTATTATTT-TAA-AATA-TT
330268 AATATTATTATTTTAAAATATT
1 AATATTATTATTTTAAAATATT
330290 AAAATAATTTATTTATTATTAAAATATT
1 --AAT-A-TTA-TTATT-TTAAAATATT
* * *
330318 ATTTTTATAATTTTA
1 AATATTATTATTTTA
330333 TTAATAAAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
22 5 0.09
23 7 0.13
24 9 0.17
25 13 0.24
26 5 0.09
27 5 0.09
28 10 0.19
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (22 bp):
AATATTATTATTTTAAAATATT
Found at i:330465 original size:23 final size:23
Alignment explanation
Indices: 330421--330493 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
330411 AGTGTTATAT
* *
330421 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAATATATTAATTAA
* *
330444 TATATTTTAAATATCTTTATTAA
1 TATATTTTAAATATATTAATTAA
*
330467 AATATTATTAAAT-TATTATATTAA
1 TATATT-TTAAATATATTA-ATTAA
330491 TAT
1 TAT
330494 TAAATATATA
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
23 27 0.68
24 13 0.32
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (23 bp):
TATATTTTAAATATATTAATTAA
Found at i:330488 original size:24 final size:23
Alignment explanation
Indices: 330445--330490 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
330435 ATTAATTAGT
*
330445 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAATATCTATATTAAA
330468 ATATTATTAAATTAT-TATATTAA
1 ATATT-TTAAA-TATCTATATTAA
330491 TATTAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 12 0.60
25 3 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
ATATTTTAAATATCTATATTAAA
Found at i:330691 original size:21 final size:21
Alignment explanation
Indices: 330641--330700 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
330631 GATATTTTAT
330641 TAAA-ATATTAAAAA-A-TAA
1 TAAATATATTAAAAATATTAA
*
330659 TATTATATTATTAAAAATATTAA
1 TA-AATA-TATTAAAAATATTAA
**
330682 TAAATATATTTTAAATATT
1 TAAATATATTAAAAATATT
330701 TTAATAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
18 2 0.06
19 1 0.03
20 1 0.03
21 20 0.61
22 4 0.12
23 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TAAATATATTAAAAATATTAA
Found at i:330695 original size:23 final size:23
Alignment explanation
Indices: 330662--330717 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 23
330652 AAAATAATAT
330662 TATATTATTAAAAATATTAATAAA
1 TATATT-TTAAAAATATTAATAAA
* * *
330686 TATATTTTAAATATTTTAATAAT
1 TATATTTTAAAAATATTAATAAA
330709 TAATATTTT
1 T-ATATTTT
330718 GATTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATAAA
Found at i:330748 original size:21 final size:21
Alignment explanation
Indices: 330636--330748 Score: 53
Period size: 21 Copynumber: 5.5 Consensus size: 21
330626 TAATTGATAT
*
330636 TTTATTAA-AATATTAAAAAA
1 TTTATTAATAATATTAAAATA
* *
330656 TAATATT-ATATTATTAAAAATA
1 T-TTATTAATAATATT-AAAATA
* * *
330678 TTAATAAAT-ATATTTTAAATA
1 TTTATTAATAATA-TTAAAATA
*
330699 -TT-TTAAT-A-ATTAATAT-
1 TTTATTAATAATATTAAAATA
330715 TTTGATTAAAATAATATTAAAATA
1 TTT-ATT--AATAATATTAAAATA
330739 TTTATTAATA
1 TTTATTAATA
330749 TTAAATTCAT
Statistics
Matches: 67, Mismatches: 13, Indels: 25
0.64 0.12 0.24
Matches are distributed among these distances:
17 7 0.10
18 1 0.01
19 7 0.10
20 3 0.04
21 25 0.37
22 11 0.16
23 10 0.15
24 3 0.04
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (21 bp):
TTTATTAATAATATTAAAATA
Found at i:332305 original size:59 final size:59
Alignment explanation
Indices: 332181--332318 Score: 156
Period size: 59 Copynumber: 2.3 Consensus size: 59
332171 GAATAGGCAG
* * * **
332181 GTGACCATTTTGTAACTTTTAATAGTCGAGAGACTAAAACAACAAAATATTATAATTGA
1 GTGACCATTTTGTAACTTTAAATAGTCAAGAGACTAAAACAACAAAATACTATAATCAA
* * *
332240 GTGACCATTTTGTAACTTTAAATAGTCAAGAGACTTAATAA-AACAACATCCTATAGTCAA
1 GTGACCATTTTGTAACTTTAAATAGTCAAGAGAC-TAA-AACAACAAAATACTATAATCAA
332300 G-GACCATTTTTGT-ACTTTA
1 GTGACCA-TTTTGTAACTTTA
332319 CCCAAAAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
59 43 0.63
60 23 0.34
61 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.33
Consensus pattern (59 bp):
GTGACCATTTTGTAACTTTAAATAGTCAAGAGACTAAAACAACAAAATACTATAATCAA
Found at i:334651 original size:16 final size:17
Alignment explanation
Indices: 334626--334669 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
334616 AACATTCCCA
*
334626 GTAATTTTATTCC-CTG
1 GTAATCTTATTCCACTG
334642 GTAATCTTATATTCCACTG
1 GTAATC-T-TATTCCACTG
334661 GTAATCTTA
1 GTAATCTTA
334670 CATTCCATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 5 0.21
17 3 0.12
18 7 0.29
19 9 0.38
ACGTcount: A:0.25, C:0.18, G:0.11, T:0.45
Consensus pattern (17 bp):
GTAATCTTATTCCACTG
Found at i:334663 original size:19 final size:19
Alignment explanation
Indices: 334633--334676 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
334623 CCAGTAATTT
334633 TATTCC-CTGGTAATCTTA
1 TATTCCACTGGTAATCTTA
334651 TATTCCACTGGTAATCTTA
1 TATTCCACTGGTAATCTTA
*
334670 CATTCCA
1 TATTCCA
334677 TTAAGGAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.41
Consensus pattern (19 bp):
TATTCCACTGGTAATCTTA
Found at i:335468 original size:21 final size:21
Alignment explanation
Indices: 335444--335485 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
335434 AGTTTATTTT
335444 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
* *
335465 TAAATTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
335486 AACTTGTAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:335523 original size:33 final size:33
Alignment explanation
Indices: 335480--335583 Score: 165
Period size: 33 Copynumber: 3.2 Consensus size: 33
335470 TTTGTTTCAA
*
335480 TTATCGAACTTGTAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
*
335513 TTATCTAACTTGAAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
* *
335546 TTATCGAACTTGGAAGTTTTTAAGTATTTCAA-
1 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
335578 TTATCG
1 TTATCG
335584 TAAATTTTGT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
32 6 0.09
33 60 0.91
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.47
Consensus pattern (33 bp):
TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
Found at i:335752 original size:15 final size:16
Alignment explanation
Indices: 335723--335752 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
335713 TTAGAATCTG
335723 AACCGATTATTTTATA
1 AACCGATTATTTTATA
335739 AACCGATT-TTTTAT
1 AACCGATTATTTTAT
335753 CTATAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (16 bp):
AACCGATTATTTTATA
Found at i:343173 original size:17 final size:19
Alignment explanation
Indices: 343151--343187 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
343141 TTTAAGGACT
343151 TAATC-TAA-AAGATAAAA
1 TAATCTTAATAAGATAAAA
343168 TAATCTTAATTAAGATAAAA
1 TAATCTTAA-TAAGATAAAA
343188 ATATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.29
18 3 0.18
20 9 0.53
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (19 bp):
TAATCTTAATAAGATAAAA
Found at i:346080 original size:42 final size:41
Alignment explanation
Indices: 345978--346084 Score: 124
Period size: 42 Copynumber: 2.6 Consensus size: 41
345968 ACCCAAAGGT
*
345978 CTTACAGATGGCCCGAAGGACTTATCATCTTGCTCGAAACC
1 CTTACAGATGGCCCGAAGGACTTATCATCATGCTCGAAACC
* * * * **
346019 CTGACAGATGACCCGAAGGATTTAATTATCATGCTCGAAATG
1 CTTACAGATGGCCCGAAGGACTT-ATCATCATGCTCGAAACC
* *
346061 CTTACTGATGGCCCAAAGGACTTA
1 CTTACAGATGGCCCGAAGGACTTA
346085 CCAATTTGGA
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 21 0.40
42 32 0.60
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (41 bp):
CTTACAGATGGCCCGAAGGACTTATCATCATGCTCGAAACC
Found at i:346536 original size:41 final size:41
Alignment explanation
Indices: 346491--346594 Score: 127
Period size: 42 Copynumber: 2.5 Consensus size: 41
346481 AAGGTCTTAT
* *
346491 AGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGCCTGAC
1 AGATGGCCCAAAGGACTTATCATCATGCTCGAAAGACTGAC
* * * *
346532 AGATGACCCAAATGATTTAATCATCATGCTCGAAAGACTTAC
1 AGATGGCCCAAAGGACTT-ATCATCATGCTCGAAAGACTGAC
* *
346574 TGATGGCCCGAAGGACTTATC
1 AGATGGCCCAAAGGACTTATC
346595 GATTTTGGAA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 18 0.35
42 33 0.65
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (41 bp):
AGATGGCCCAAAGGACTTATCATCATGCTCGAAAGACTGAC
Found at i:346848 original size:42 final size:42
Alignment explanation
Indices: 346743--346849 Score: 135
Period size: 42 Copynumber: 2.6 Consensus size: 42
346733 GCCCAAAGGT
* *
346743 CTTATAGATGGCCCGAAGGACTT-ATCATCTTGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGATTTAATCATCATGCTCGAAAGA
* * * * *
346784 CTTACAGATGACCTGAATGATTTAATCATCATGCTCGAAAGC
1 CTTATAGATGGCCCGAAGGATTTAATCATCATGCTCGAAAGA
*
346826 CTTATTGATGGCCCGAAGGATTTA
1 CTTATAGATGGCCCGAAGGATTTA
346850 CTAAGTAATA
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 18 0.34
42 35 0.66
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (42 bp):
CTTATAGATGGCCCGAAGGATTTAATCATCATGCTCGAAAGA
Found at i:349910 original size:25 final size:25
Alignment explanation
Indices: 349850--349930 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
349840 CCATATTAAA
*
349850 ACTATATACTAGCATATTAAAAA-A-
1 ACTA-ATACTAACATATTAAAAACAT
* *
349874 ACTAATAGTAACATGTTAAAAACAT
1 ACTAATACTAACATATTAAAAACAT
* *
349899 AATAATACTAACATTTTAAAAACAT
1 ACTAATACTAACATATTAAAAACAT
349924 ACTAATA
1 ACTAATA
349931 TTATAAAAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 15 0.31
24 5 0.10
25 28 0.58
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (25 bp):
ACTAATACTAACATATTAAAAACAT
Found at i:349927 original size:19 final size:19
Alignment explanation
Indices: 349903--349940 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
349893 AAACATAATA
*
349903 ATACTAACATTTTAAAAAC
1 ATACTAACATTATAAAAAC
*
349922 ATACTAATATTATAAAAAC
1 ATACTAACATTATAAAAAC
349941 CATGTGTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
ATACTAACATTATAAAAAC
Found at i:352450 original size:173 final size:178
Alignment explanation
Indices: 352116--352470 Score: 639
Period size: 173 Copynumber: 2.0 Consensus size: 178
352106 CTCACATATA
352116 TTTAGTTCTCAGTAATGTACCATGGGCAAATAAATAAAAGATATAAAACGAATTTACATTTCATA
1 TTTAGTTCTCAGTAATGTACCATGGGCAAATAAATAAAAGATATAAAAC-AATTTACATTTCATA
352181 AGGTGATATGTTATTGGTTCAATGCATGATCATATATGTCTTGCTGATATGAGATGTAATGCTTA
65 AGGTGATATGTTATTGGTTCAATGCATGATCATATATGTCTTGCTGATATGAGA-GTAATGCTTA
*
352246 TTGTACATCATGAAAGTATGAGATTGCATGTGTCATTATTTTATTAATTT
129 TTGTACATCATGAAACTATGAGATTGCATGTGTCATTATTTTATTAATTT
352296 TTTAGTTCTCAGTAATGTACCATGGGCAAATAAAT-AAAGATATAAAA-AATTTACATTTCATAA
1 TTTAGTTCTCAGTAATGTACCATGGGCAAATAAATAAAAGATATAAAACAATTTACATTTCATAA
*
352359 GGTGATATGTTATTGGTT-AATGTATGATCATATATGTCTTGCTGATATGAGA-T-ATGCTTATT
66 GGTGATATGTTATTGGTTCAATGCATGATCATATATGTCTTGCTGATATGAGAGTAATGCTTATT
352421 GTACATCATGAAACTATGAGATTGCATGTGTCATTATTTTATTAATTT
131 GTACATCATGAAACTATGAGATTGCATGTGTCATTATTTTATTAATTT
352469 TT
1 TT
352471 ATATGTCTCA
Statistics
Matches: 173, Mismatches: 2, Indels: 7
0.95 0.01 0.04
Matches are distributed among these distances:
173 58 0.34
174 1 0.01
176 33 0.19
177 34 0.20
179 12 0.07
180 35 0.20
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.40
Consensus pattern (178 bp):
TTTAGTTCTCAGTAATGTACCATGGGCAAATAAATAAAAGATATAAAACAATTTACATTTCATAA
GGTGATATGTTATTGGTTCAATGCATGATCATATATGTCTTGCTGATATGAGAGTAATGCTTATT
GTACATCATGAAACTATGAGATTGCATGTGTCATTATTTTATTAATTT
Found at i:355325 original size:52 final size:48
Alignment explanation
Indices: 355268--355394 Score: 128
Period size: 48 Copynumber: 2.6 Consensus size: 48
355258 ACAAGTAAGC
* *
355268 CAGTGACTAAAATAAAATGAAATAAACGATCACTAGCTAAATCAGAAATAAA
1 CAGTGACTAAAAT-AAATAAAATAAAAGAT--C-AGCTAAATCAGAAATAAA
* **
355320 CAGTGACTAGAATGCATAAAATAAAAGATCAGCTAAATCAGAAATAAA
1 CAGTGACTAAAATAAATAAAATAAAAGATCAGCTAAATCAGAAATAAA
* * ** *
355368 CAGTTACTAGAATGCATAGAATAAAAG
1 CAGTGACTAAAATAAATAAAATAAAAG
355395 TTTAGCACCA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
48 43 0.63
49 1 0.01
51 12 0.18
52 12 0.18
ACGTcount: A:0.54, C:0.13, G:0.14, T:0.20
Consensus pattern (48 bp):
CAGTGACTAAAATAAATAAAATAAAAGATCAGCTAAATCAGAAATAAA
Found at i:355328 original size:26 final size:26
Alignment explanation
Indices: 355286--355377 Score: 65
Period size: 26 Copynumber: 3.7 Consensus size: 26
355276 AAAATAAAAT
*
355286 GAAATAAAC-GATCACTAGCTAAATCA
1 GAAATAAACAG-TGACTAGCTAAATCA
355312 GAAATAAACAGTGACTAG---AATGCA
1 GAAATAAACAGTGACTAGCTAAAT-CA
*
355336 TAAAATAAA-A--GA-TCAGCTAAATCA
1 -GAAATAAACAGTGACT-AGCTAAATCA
*
355360 GAAATAAACAGTTACTAG
1 GAAATAAACAGTGACTAG
355378 AATGCATAGA
Statistics
Matches: 51, Mismatches: 4, Indels: 22
0.66 0.05 0.29
Matches are distributed among these distances:
21 1 0.02
22 4 0.08
23 10 0.20
24 6 0.12
25 10 0.20
26 18 0.35
27 2 0.04
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.20
Consensus pattern (26 bp):
GAAATAAACAGTGACTAGCTAAATCA
Found at i:355361 original size:48 final size:48
Alignment explanation
Indices: 355302--355394 Score: 168
Period size: 48 Copynumber: 1.9 Consensus size: 48
355292 AACGATCACT
355302 AGCTAAATCAGAAATAAACAGTGACTAGAATGCATAAAATAAAAGATC
1 AGCTAAATCAGAAATAAACAGTGACTAGAATGCATAAAATAAAAGATC
* *
355350 AGCTAAATCAGAAATAAACAGTTACTAGAATGCATAGAATAAAAG
1 AGCTAAATCAGAAATAAACAGTGACTAGAATGCATAAAATAAAAG
355395 TTTAGCACCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.54, C:0.12, G:0.15, T:0.19
Consensus pattern (48 bp):
AGCTAAATCAGAAATAAACAGTGACTAGAATGCATAAAATAAAAGATC
Found at i:355391 original size:25 final size:23
Alignment explanation
Indices: 355313--355396 Score: 73
Period size: 25 Copynumber: 3.5 Consensus size: 23
355303 GCTAAATCAG
*
355313 AAATAAACAGTGACTAGAATGCAT
1 AAATAAA-AGTTACTAGAATGCAT
* *
355337 AAAATAAAAGATCAGCTA-AAT-CAG
1 -AAATAAAAG-TTA-CTAGAATGCAT
355361 AAATAAACAGTTACTAGAATGCAT
1 AAATAAA-AGTTACTAGAATGCAT
355385 AGAATAAAAGTT
1 A-AATAAAAGTT
355397 TAGCACCAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
22 3 0.06
23 12 0.24
24 13 0.27
25 18 0.37
26 3 0.06
ACGTcount: A:0.54, C:0.11, G:0.14, T:0.21
Consensus pattern (23 bp):
AAATAAAAGTTACTAGAATGCAT
Found at i:357418 original size:121 final size:123
Alignment explanation
Indices: 357259--357539 Score: 376
Period size: 121 Copynumber: 2.3 Consensus size: 123
357249 TGCTCATACT
*
357259 ATGAATCTT-GACCATCT-AAGGTGATAACACTGCTCATACTATGATAAGTCTTGGTTATCTAGG
1 ATGAATCTTGGA-CATCTAAAGGTGATAACACTGTTCATACTATGATAAGTCTTGGTTATCTAGG
* *
357322 ATTGACACGACTCCTACGTGTTGAGGAGTTCTGGTTGATGG-ATGACA-T-TCATAT-ATG
65 ATTGACACGACTCCTACGTGATGAGGAGTTCTGG-TCA-GGAATGACACTCTCATATGATG
357379 ATGAATCTTGGACATCTAAAGGTGATAACACTGTTCATACTATGATAAGTCTTGGTTATCTAGGA
1 ATGAATCTTGGACATCTAAAGGTGATAACACTGTTCATACTATGATAAGTCTTGGTTATCTAGGA
* * * * * *
357444 TTGACATGGCTCCTATGTGATGAGGAGTTCTGGTCAGGTAATGACACTGCTCATCTGTTT
66 TTGACACGACTCCTACGTGATGAGGAGTTCTGGTCAGG-AATGACACT-CTCATATGATG
* *
357504 ATGAGTCTTGGACATCTAAAGGTGATAACACAGTTC
1 ATGAATCTTGGACATCTAAAGGTGATAACACTGTTC
357540 CACTCTGATG
Statistics
Matches: 142, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
119 2 0.01
120 16 0.11
121 83 0.58
122 1 0.01
124 5 0.04
125 35 0.25
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (123 bp):
ATGAATCTTGGACATCTAAAGGTGATAACACTGTTCATACTATGATAAGTCTTGGTTATCTAGGA
TTGACACGACTCCTACGTGATGAGGAGTTCTGGTCAGGAATGACACTCTCATATGATG
Found at i:357625 original size:126 final size:126
Alignment explanation
Indices: 357463--357890 Score: 574
Period size: 125 Copynumber: 3.4 Consensus size: 126
357453 CTCCTATGTG
* * * * *
357463 ATGAGGAGTTCTGGTCAGGTAATGACACTGCTCATCTGTTTATGAGTCTTGGACATCTAAAGGTG
1 ATGAGGAGATCTGATCAGGTAATGACACTGCCCATCTGTTCATGAGTCTTGGCCATCTAAAGGTG
* * * *
357528 ATAACACAGTTCCACTCTGATGGGGATGGCTGGTTATCTGAGTTAATACAACTCCTACATA
66 ATAACACAGTTCCACTCTGATGGGGACGGCTGGTTATCTGAGTTGACACAACTTCTACATA
* * * * *
357589 ATGAGGAGATCTGATCATGTGATGACACTGCCCATCTGTTTATGAGTCTTGTCCATCTAAGGGTG
1 ATGAGGAGATCTGATCAGGTAATGACACTGCCCATCTGTTCATGAGTCTTGGCCATCTAAAGGTG
* * * *
357654 ATAACAC-GTTCCACTTTGATGGGGACGACTGGTTATCAGAGTTGACACGACTTCTACATA
66 ATAACACAGTTCCACTCTGATGGGGACGGCTGGTTATCTGAGTTGACACAACTTCTACATA
* * * * *
357714 ATGAGGATATCT-ATCATGTGATGACACTGCCCATTTGCTCATGAGTCTTGGCCATCT-AAGTGT
1 ATGAGGAGATCTGATCAGGTAATGACACTGCCCATCTGTTCATGAGTCTTGGCCATCTAAAG-GT
* *
357777 GATAACACAGTTCCACTCTGATGGGGACGGCTGGTTATCTTAGTTGACACAGCTTCTACATA
65 GATAACACAGTTCCACTCTGATGGGGACGGCTGGTTATCTGAGTTGACACAACTTCTACATA
* * *
357839 ATGAGGAGATCTGGTTAGGTAATGACACTGCTCATCTGTTCATGAGTCTTGG
1 ATGAGGAGATCTGATCAGGTAATGACACTGCCCATCTGTTCATGAGTCTTGG
357891 TCAGAGAATT
Statistics
Matches: 263, Mismatches: 36, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
123 2 0.01
124 51 0.19
125 114 0.43
126 96 0.37
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (126 bp):
ATGAGGAGATCTGATCAGGTAATGACACTGCCCATCTGTTCATGAGTCTTGGCCATCTAAAGGTG
ATAACACAGTTCCACTCTGATGGGGACGGCTGGTTATCTGAGTTGACACAACTTCTACATA
Found at i:363087 original size:63 final size:63
Alignment explanation
Indices: 362988--363114 Score: 200
Period size: 63 Copynumber: 2.0 Consensus size: 63
362978 ATTTATGATG
* * *
362988 ATCATGCAGAATGTGAAGATGCAATTGCAGATGCAAAAGCAATGATCCTCTGAAATGCAATGC
1 ATCATGCAGAATGCGAAGATGCAAATGCAGATGCAAAAGCAATGATCCTCTAAAATGCAATGC
***
363051 ATCATGCAGAATGCGAAGATGCAAATGCAGATGCAAAATTGATGATCCTCTAAAATGCAATGC
1 ATCATGCAGAATGCGAAGATGCAAATGCAGATGCAAAAGCAATGATCCTCTAAAATGCAATGC
363114 A
1 A
363115 ACAAGGGACG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.22
Consensus pattern (63 bp):
ATCATGCAGAATGCGAAGATGCAAATGCAGATGCAAAAGCAATGATCCTCTAAAATGCAATGC
Found at i:365031 original size:5 final size:5
Alignment explanation
Indices: 365021--365045 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
365011 GCTCAGTGAC
365021 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
365046 GATAACTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:365111 original size:51 final size:51
Alignment explanation
Indices: 365035--365146 Score: 163
Period size: 51 Copynumber: 2.2 Consensus size: 51
365025 ATAAAATAAA
* *
365035 ATAAAATAAAAGATAACTATCTAAATCAGAAATAAACAGTGACTAGAATGC
1 ATAAAATAAAAGATAACAATCTAAATCAGAAATAAAAAGTGACTAGAATGC
* *
365086 ATAAAATAAAAGATCACAAGT-TAAATCAGAAATAAAAAGTTACTAGAATGC
1 ATAAAATAAAAGATAACAA-TCTAAATCAGAAATAAAAAGTGACTAGAATGC
*
365137 ATAGAATAAA
1 ATAAAATAAA
365147 GTAACACCAA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 54 0.98
52 1 0.02
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.21
Consensus pattern (51 bp):
ATAAAATAAAAGATAACAATCTAAATCAGAAATAAAAAGTGACTAGAATGC
Found at i:365142 original size:26 final size:26
Alignment explanation
Indices: 365062--365146 Score: 61
Period size: 25 Copynumber: 3.3 Consensus size: 26
365052 TATCTAAATC
* *
365062 AGAAATAAACAGTGACTAGAATGCAT
1 AGAAATAAAAAGTCACTAGAATGCAT
* * **
365088 A-AAAT-AAAAGATCACAAG-TTAAAT
1 AGAAATAAAAAG-TCACTAGAATGCAT
*
365112 CAGAAATAAAAAGTTACTAGAATGCAT
1 -AGAAATAAAAAGTCACTAGAATGCAT
365139 AG-AATAAA
1 AGAAATAAA
365147 GTAACACCAA
Statistics
Matches: 43, Mismatches: 11, Indels: 11
0.66 0.17 0.17
Matches are distributed among these distances:
24 7 0.16
25 16 0.37
26 12 0.28
27 8 0.19
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.20
Consensus pattern (26 bp):
AGAAATAAAAAGTCACTAGAATGCAT
Found at i:367038 original size:3 final size:3
Alignment explanation
Indices: 367021--367076 Score: 59
Period size: 3 Copynumber: 20.0 Consensus size: 3
367011 TTTATTTCAT
*
367021 TTA TT- TTA TTTA TTA TTA TTA TTA TT- TTG TT- TTA TTA -TA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
367063 -TA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
367077 AATAATTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
2 10 0.21
3 34 0.72
4 3 0.06
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:368534 original size:12 final size:12
Alignment explanation
Indices: 368511--368548 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
368501 ATTACTTTTA
*
368511 TATTTCAATTAT
1 TATTTTAATTAT
*
368523 TGTTTTAATTAT
1 TATTTTAATTAT
368535 TATTTT-ATTAT
1 TATTTTAATTAT
368546 TAT
1 TAT
368549 CTTAGTCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:368852 original size:108 final size:108
Alignment explanation
Indices: 368665--368859 Score: 273
Period size: 108 Copynumber: 1.8 Consensus size: 108
368655 TATGTTTTAG
** * * * *
368665 TTATTTATTTATTTTTAAATATTGAAGGAAAGAGCTGTCTTAAAACAACTAGAAGCCCTTTTCTA
1 TTATTTATTTATTTTTAAATATCAAAAGAAAGAGCTATCTTAAAACAACTAAAAGCACTTTTCTA
*
368730 ATATTTTTAAATAAATAAATATCTTACTATATTAAAATAACTT
66 ATATTTCTAAATAAATAAATATCTTACTATATTAAAATAACTT
** ** * *
368773 TTATTTATTTATTTTTTTATATCAAAAGAAAGAGCTATCTTAAAGTACCTAAAAGCACTTTTCTG
1 TTATTTATTTATTTTTAAATATCAAAAGAAAGAGCTATCTTAAAACAACTAAAAGCACTTTTCTA
368838 ATATTTCTAAATAAATAAATAT
66 ATATTTCTAAATAAATAAATAT
368860 GTTATTTAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
108 74 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (108 bp):
TTATTTATTTATTTTTAAATATCAAAAGAAAGAGCTATCTTAAAACAACTAAAAGCACTTTTCTA
ATATTTCTAAATAAATAAATATCTTACTATATTAAAATAACTT
Found at i:368876 original size:2 final size:2
Alignment explanation
Indices: 368869--368910 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
368859 TGTTATTTAA
368869 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
368909 AT
1 AT
368911 TTTCTTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:373834 original size:2 final size:2
Alignment explanation
Indices: 373827--373864 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
373817 ATCCTTTTAA
373827 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
373865 CCTTTGTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:374195 original size:19 final size:19
Alignment explanation
Indices: 374163--374214 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
374153 TCCAGCAAAG
*
374163 AAAGAAGAAGGAAAAAACAA
1 AAAG-AGAAAGAAAAAACAA
374183 AAAGAGAAAGAAAAAACAA
1 AAAGAGAAAGAAAAAACAA
374202 AAAG-GAAA-AAAAA
1 AAAGAGAAAGAAAAA
374215 GGAAAATTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 5 0.16
18 4 0.13
19 18 0.58
20 4 0.13
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAGAGAAAGAAAAAACAA
Found at i:374533 original size:31 final size:31
Alignment explanation
Indices: 374466--374525 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
374456 CAATTTAAGG
*
374466 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
374497 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
374526 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:374644 original size:21 final size:21
Alignment explanation
Indices: 374618--374659 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
374608 ATTTGAATAT
*
374618 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
374639 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
374660 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:374721 original size:21 final size:21
Alignment explanation
Indices: 374688--374727 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
374678 TTTTTGCAGA
*
374688 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
374710 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
374728 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:375895 original size:19 final size:20
Alignment explanation
Indices: 375871--375918 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
375861 AATGATTTTC
*
375871 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
375890 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
375910 TTTTGAAAA
1 TTTTGAAAA
375919 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:377204 original size:31 final size:31
Alignment explanation
Indices: 377137--377196 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
377127 CAATTTAAGG
*
377137 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
377168 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
377197 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:377421 original size:21 final size:21
Alignment explanation
Indices: 377395--377436 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
377385 ATTTGAATAT
*
377395 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
377416 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
377437 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:377498 original size:21 final size:21
Alignment explanation
Indices: 377465--377504 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
377455 TTTTTGCAGA
*
377465 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
377487 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
377505 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:377758 original size:34 final size:32
Alignment explanation
Indices: 377719--377788 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
377709 TTTTGTAAAG
* *
377719 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
377753 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
377785 GGGA
1 GGGA
377789 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:383888 original size:113 final size:113
Alignment explanation
Indices: 383497--384161 Score: 937
Period size: 113 Copynumber: 5.9 Consensus size: 113
383487 TTTTTCTTAA
* * *
383497 AACATTTCCAGA-AGGGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAAT
1 AACATTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * *
383561 GAGAAGAACTTGTTCAACTTTTTGCTCGAATTCATCACTCGATAGATC
66 GAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATC
* * *
383609 AGCATTGCCAG-GTCGAGTTCATAATAAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCATAA
1 AACATTGCCAGAG-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
* * *
383672 TAATAAGAACTTGTTCAACTTTTTGCTTGAATTCATCACTCGATGGATC
65 TGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATC
*
383721 AACATTGCCGGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 AACATTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* ** *
383785 GAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCATCACTCGATGGATC
66 GAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATC
* * * *
383833 AGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 AACATTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * * ** *
383898 GAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCTTTTGATGGATC
66 GAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATC
* *
383946 AACATTGCCA-AGTAGAGTTCATAATGAGAAGAACTCGTCTGAAGAAGGAAGAAGAAATTCATAA
1 AACATTGCCAGAG-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
* * *
384010 TGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCGATGGATC
65 TGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATC
* * *
384059 AACTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAAT
1 AACATTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
*
384124 GAGAAGAACTTGTTCAACCTTTTGCATG-ATTCTATCAC
66 GAGAAGAACTTGTTCAACCTTTTGCTTGAATTC-ATCAC
384162 AGAAGGAGAT
Statistics
Matches: 491, Mismatches: 54, Indels: 15
0.88 0.10 0.03
Matches are distributed among these distances:
111 33 0.07
112 149 0.30
113 307 0.63
114 2 0.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (113 bp):
AACATTGCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATC
Found at i:384481 original size:3 final size:3
Alignment explanation
Indices: 384464--384516 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
384454 TTTATTTCAT
*
384464 TTA TT- TTA TTTA TTA TTA TTA TT- TTG TT- TTA TTA -TA TTA -TA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
384505 TTA TTA TTA TTA
1 TTA TTA TTA TTA
384517 AATAATTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
2 10 0.23
3 31 0.70
4 3 0.07
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:384487 original size:13 final size:13
Alignment explanation
Indices: 384464--384516 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
384454 TTTATTTCAT
384464 TTATT-TTATTTA
1 TTATTATTATTTA
384476 TTATTATTATTT-
1 TTATTATTATTTA
*
384488 TGTTTTATTATATTA
1 T-TATTATTAT-TTA
384503 -TATTATTA-TTA
1 TTATTATTATTTA
384514 TTA
1 TTA
384517 AATAATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
11 3 0.09
12 8 0.24
13 21 0.62
14 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:386330 original size:2 final size:2
Alignment explanation
Indices: 386323--386364 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
386313 TGTTATTTAA
386323 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
386363 AT
1 AT
386365 TTTCTTTAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:388636 original size:24 final size:24
Alignment explanation
Indices: 388609--388660 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
388599 TGGCGAAGTT
388609 GTGGAGGAAGATTGTCATGAAGAG
1 GTGGAGGAAGATTGTCATGAAGAG
388633 GTGGAGGAAGATTGTCATGAAGAG
1 GTGGAGGAAGATTGTCATGAAGAG
388657 GTGG
1 GTGG
388661 CTCAGCCCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.31, C:0.04, G:0.44, T:0.21
Consensus pattern (24 bp):
GTGGAGGAAGATTGTCATGAAGAG
Found at i:391559 original size:9 final size:9
Alignment explanation
Indices: 391527--391551 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
391517 TAAAAGGGGA
391527 AAATAAAAT
1 AAATAAAAT
391536 AAATAAAAT
1 AAATAAAAT
391545 AAATAAA
1 AAATAAA
391552 TAAGATAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAATAAAAT
Found at i:391692 original size:38 final size:39
Alignment explanation
Indices: 391594--391693 Score: 109
Period size: 38 Copynumber: 2.6 Consensus size: 39
391584 TATATATAGT
** *
391594 AATATTTGAAAAAT-GAAAA-AAATATATATATACATCAA
1 AATATTT-AAAAATAGAAAAGCTATATATATATACAACAA
*
391632 AATATTAATAAAATA-AATAAGCTATATATATATACAAC-A
1 AATATTTA-AAAATAGAA-AAGCTATATATATATACAACAA
391671 AATATTTAAAAATAGAAAAGCTA
1 AATATTTAAAAATAGAAAAGCTA
391694 CCCTCTCACT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
37 1 0.02
38 25 0.48
39 12 0.23
40 14 0.27
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.29
Consensus pattern (39 bp):
AATATTTAAAAATAGAAAAGCTATATATATATACAACAA
Found at i:392144 original size:2 final size:2
Alignment explanation
Indices: 392139--392175 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
392129 AAATAATTTA
392139 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
392176 CGTATAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:392200 original size:18 final size:17
Alignment explanation
Indices: 392179--392221 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
392169 ATATATACGT
392179 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
392197 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
392214 ATAA-AATA
1 ATAATAATA
392222 TTCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:393697 original size:106 final size:106
Alignment explanation
Indices: 393512--394043 Score: 911
Period size: 106 Copynumber: 5.0 Consensus size: 106
393502 AGTATTGTTC
* * * *
393512 CGAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGACA
*
393577 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGGGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
393618 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGACA
*
393683 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
** *
393724 CGAGTCCAATGCCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGACA
393789 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* *
393830 CGAGTCCAATGTCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGATA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGACA
* *
393895 ACTAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * *
393936 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGACA
*
394001 ACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
394042 CG
1 CG
394044 GGTGGCGCGA
Statistics
Matches: 402, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 402 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.35
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:394742 original size:37 final size:37
Alignment explanation
Indices: 394660--394744 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 37
394650 GTTTCATGGG
* * * * **
394660 AAACGGTCTCAAGGGAGACAAAATTTTGTTTTAAGAA
1 AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAGAA
394697 AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAA-AA
1 AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAGAA
*
394733 GAAATTGTCTCA
1 -AAACTGTCTCA
394745 TGGGGAGATG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 2 0.05
37 38 0.95
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (37 bp):
AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAGAA
Found at i:395443 original size:18 final size:18
Alignment explanation
Indices: 395416--395451 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
395406 TGTTGAATCC
*
395416 CCAAAGATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
395434 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
395452 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:396540 original size:10 final size:10
Alignment explanation
Indices: 396527--396564 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
396517 TTTGCTTCTT
396527 TTCTTTTTTG
1 TTCTTTTTTG
396537 TTCTTGTTTT-
1 TTCTT-TTTTG
396547 TTCTTTTTTG
1 TTCTTTTTTG
396557 CTTCTTTT
1 -TTCTTTT
396565 CTTTTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 4 0.16
10 10 0.40
11 11 0.44
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (10 bp):
TTCTTTTTTG
Found at i:396566 original size:16 final size:16
Alignment explanation
Indices: 396515--396571 Score: 69
Period size: 16 Copynumber: 3.3 Consensus size: 16
396505 TTCCTTTTGA
396515 TTTTTGCTTCTTTTCT
1 TTTTTGCTTCTTTTCT
*
396531 TTTTTGTTCTTGTTTTTTCT
1 TTTTTG--C-T-TCTTTTCT
396551 TTTTTGCTTCTTTTCT
1 TTTTTGCTTCTTTTCT
396567 TTTTT
1 TTTTT
396572 ATTCTTGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
16 18 0.51
17 1 0.03
18 2 0.06
19 1 0.03
20 13 0.37
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (16 bp):
TTTTTGCTTCTTTTCT
Found at i:396571 original size:18 final size:18
Alignment explanation
Indices: 396515--396571 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
396505 TTCCTTTTGA
396515 TTTTTGCTTCTTTTCTTT
1 TTTTTGCTTCTTTTCTTT
*
396533 TTTGTT-CTTGTTTT-TTCT
1 TTT-TTGCTTCTTTTCTT-T
396551 TTTTTGCTTCTTTTCTTT
1 TTTTTGCTTCTTTTCTTT
396569 TTT
1 TTT
396572 ATTCTTGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
17 4 0.12
18 25 0.76
19 4 0.12
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (18 bp):
TTTTTGCTTCTTTTCTTT
Found at i:396576 original size:15 final size:16
Alignment explanation
Indices: 396545--396577 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
396535 TGTTCTTGTT
*
396545 TTTTCTTTTTTGCTTC
1 TTTTCTTTTTTGATTC
396561 TTTTCTTTTTT-ATTC
1 TTTTCTTTTTTGATTC
396576 TT
1 TT
396578 GATTGAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTCTTTTTTGATTC
Found at i:400046 original size:10 final size:10
Alignment explanation
Indices: 400027--400058 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
400017 ACAATTAGTA
400027 AAATAAAAAT
1 AAATAAAAAT
*
400037 AAATAGAAAT
1 AAATAAAAAT
400047 AAATAAAAAT
1 AAATAAAAAT
400057 AA
1 AA
400059 TAATGGCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:401190 original size:38 final size:40
Alignment explanation
Indices: 401125--401200 Score: 104
Period size: 38 Copynumber: 1.9 Consensus size: 40
401115 AAAAAAAATT
*
401125 TATATATACATCAAAATATTAATAAAATA-AATAAGCTATA
1 TATATATACAACAAAATATTAATAAAATAGAA-AAGCTATA
*
401165 TATATATACAAC-AAATATTTA-AAAATAGAAAAGCTA
1 TATATATACAACAAAATATTAATAAAATAGAAAAGCTA
401201 CCCTCTCACT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
38 12 0.36
39 10 0.30
40 11 0.33
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (40 bp):
TATATATACAACAAAATATTAATAAAATAGAAAAGCTATA
Found at i:401681 original size:18 final size:17
Alignment explanation
Indices: 401660--401702 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
401650 ATATATACGT
401660 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
401678 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
401695 ATAA-AATA
1 ATAATAATA
401703 TTCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:404121 original size:486 final size:485
Alignment explanation
Indices: 402769--404223 Score: 2569
Period size: 482 Copynumber: 3.0 Consensus size: 485
402759 CTTCTGTACT
*
402769 GGAGCTCTTCTTGCCTGCGGTCTTTACTGGTTCGTTTGCCTTTTAGGCCCGGCCAAGCAAAAGGG
1 GGAGCTCTTCTTGCCTGCGGTCTTTACTGGTTCGTTTGCCTTTTAGGCCCGACCAAGCAAAAGGG
*
402834 CAAGCATGCCGTTGATCTCTCCGGTGGTTCCATCTCCTCCGACAAAGTTCGGGACAACTACAAAC
66 CAAGCGTGCCGTTGATCTCTCCGGTGGTTCCATCTCCTCCGACAAAGTTCGGGACAACTACAAAC
402899 AGTATTGGTCTTTCTTCAGGCAACCAAAGGAGATCGAAACCGCCGAGAAGGTTCCAGACTTTGTC
131 AGTATTGGTCTTTCTTCAGGCAACCAAAGGAGATCGAAACCGCCGAGAAGGTTCCAGACTTTGTC
*
402964 GATACTTTCTACAACTTAGTCACCGATATTTAGGAATGGGGGTGGGGCCAATCCTTCCACTTCTC
196 GATACTTTCTACAACTTAGTCACCGATATTTACGAATGGGGGTGGGGCCAATCCTTCCACTTCTC
* *
403029 TCCTTCCA-TCTGCGGTAAATCTCACCGGGACGCAACGCGCCTCCACGAAGAGATGGCCGTTGAT
261 TCCTTCCATTC-GCGGTAAATCTCACCGGGACGCGACGCGCCTCCACGAAGAGATGGTCGTTGAT
* *
403093 CTCATCGAAGTCAAACCGGTAGACCGAATCCTGGACGTCGGATGTGGCGTTGGCGGGCCTATGCG
325 CTCATCGAAGTCAAACCGGGAGACCGAATCCTGGACGTCGGATGTGGCGTTGGCGGGCCCATGCG
403158 TGCTATTGCGGCTCACTCGCGGGCCAACGTCGTTGGCATTACCATCAACGAGTACCAAGTCAACC
390 TGCTATTGCGGCTCACTCGCGGGCCAACGTCGTTGGCATTACCATCAACGAGTACCAAGTCAACC
403223 GTGCTCGCCTTCACAAATAGAAAGCCGGGCTA
455 GTGC-CGCCTTCACAAATAGAAAGCCGGGCTA
*
403255 GGAGCTCTTCTTGCCTGCGGTCTTTACTGGTTTGTTTGCCTTTTAGGCCCGACCAAGCAAAAGGG
1 GGAGCTCTTCTTGCCTGCGGTCTTTACTGGTTCGTTTGCCTTTTAGGCCCGACCAAGCAAAAGGG
* * *
403320 CAAGCGTGTCGTTGATCTCTCCGGTGGTTCCATCTCTTCCGACAAAGTTCGAGACAACTACAAAC
66 CAAGCGTGCCGTTGATCTCTCCGGTGGTTCCATCTCCTCCGACAAAGTTCGGGACAACTACAAAC
* *
403385 AATATTGG----TCTTCAGACAACCAAAGGAGATCGAAACCGCCGAGAAGGTTCCAGACTTTGTC
131 AGTATTGGTCTTTCTTCAGGCAACCAAAGGAGATCGAAACCGCCGAGAAGGTTCCAGACTTTGTC
*
403446 GATACTTTCTACAACTTACTCACCGATATTTACGAATGGGGGTGGGGCCAATCCTTCCACTTCTC
196 GATACTTTCTACAACTTAGTCACCGATATTTACGAATGGGGGTGGGGCCAATCCTTCCACTTCTC
* * *
403511 TCCTTCCATCCGCGGCAAATCTCACCGGGACGCGACGCGCCTCCACGAAGAGATAGTCGTTGATC
261 TCCTTCCATTCGCGGTAAATCTCACCGGGACGCGACGCGCCTCCACGAAGAGATGGTCGTTGATC
* *
403576 TCATCGAAGTCAAACCGGGAGACCGAATTCTGGACGTCGGATGTGGCGTTGGCGGGCCCATGCAT
326 TCATCGAAGTCAAACCGGGAGACCGAATCCTGGACGTCGGATGTGGCGTTGGCGGGCCCATGCGT
403641 GCTATTGCGGCTCACTCGCGGGCCAACGTCGTTGGCATTACCATCAACGAGTACCAAGTCAACCG
391 GCTATTGCGGCTCACTCGCGGGCCAACGTCGTTGGCATTACCATCAACGAGTACCAAGTCAACCG
*
403706 TGCCGGCCTTCACAAATAGAAAGCTGGGCTA
456 TGCC-GCCTTCACAAATAGAAAGCCGGGCTA
403737 GGAGCTCTTCTTGCCTGCGGTCTTTACTGGTTCGTTTGCCTTTTAGGCCCGACCAAGCAAAAGGG
1 GGAGCTCTTCTTGCCTGCGGTCTTTACTGGTTCGTTTGCCTTTTAGGCCCGACCAAGCAAAAGGG
*
403802 CAAGCGTGCCGTTGATCTCTCCGGTGGTTCCATCTCCTCCGATAAAGTTCGGGACAACTACAAAC
66 CAAGCGTGCCGTTGATCTCTCCGGTGGTTCCATCTCCTCCGACAAAGTTCGGGACAACTACAAAC
403867 AGTATTGGTCTTTCTTCAGGCAACCAAAGGAGATCGAAACCGCCGAGAAGGTTCCAGACTTTGTC
131 AGTATTGGTCTTTCTTCAGGCAACCAAAGGAGATCGAAACCGCCGAGAAGGTTCCAGACTTTGTC
* *
403932 GATACTTTTTACAACTTAGTCACCGATATTTACGAATGGGGGTGGGGTCAATCCTTCCACTTCTC
196 GATACTTTCTACAACTTAGTCACCGATATTTACGAATGGGGGTGGGGCCAATCCTTCCACTTCTC
*
403997 TCCTTCAATTCGCGGTAAATCTCACCGGGACGCGACGCGCCTCCACGAAGAGATGGTCGTTGATC
261 TCCTTCCATTCGCGGTAAATCTCACCGGGACGCGACGCGCCTCCACGAAGAGATGGTCGTTGATC
* * *
404062 TAATCGAAGTCAAACCGGGAGACCGAATCCTGGACGTCGGATGTGGCGTTGGTGGGCCCATGTGT
326 TCATCGAAGTCAAACCGGGAGACCGAATCCTGGACGTCGGATGTGGCGTTGGCGGGCCCATGCGT
* * *
404127 TCTATTGTGGCTCACTCGCGGGCCAACGTCATTGGCATTACCATCAACGAGTACCAAGTCAACCG
391 GCTATTGCGGCTCACTCGCGGGCCAACGTCGTTGGCATTACCATCAACGAGTACCAAGTCAACCG
404192 TGCCCGCCTTCACAAATAGAAAGCCGGGCTA
456 TG-CCGCCTTCACAAATAGAAAGCCGGGCTA
404223 G
1 G
404224 ATTCGCTCTA
Statistics
Matches: 919, Mismatches: 43, Indels: 14
0.94 0.04 0.01
Matches are distributed among these distances:
481 1 0.00
482 459 0.50
483 1 0.00
486 456 0.50
487 2 0.00
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (485 bp):
GGAGCTCTTCTTGCCTGCGGTCTTTACTGGTTCGTTTGCCTTTTAGGCCCGACCAAGCAAAAGGG
CAAGCGTGCCGTTGATCTCTCCGGTGGTTCCATCTCCTCCGACAAAGTTCGGGACAACTACAAAC
AGTATTGGTCTTTCTTCAGGCAACCAAAGGAGATCGAAACCGCCGAGAAGGTTCCAGACTTTGTC
GATACTTTCTACAACTTAGTCACCGATATTTACGAATGGGGGTGGGGCCAATCCTTCCACTTCTC
TCCTTCCATTCGCGGTAAATCTCACCGGGACGCGACGCGCCTCCACGAAGAGATGGTCGTTGATC
TCATCGAAGTCAAACCGGGAGACCGAATCCTGGACGTCGGATGTGGCGTTGGCGGGCCCATGCGT
GCTATTGCGGCTCACTCGCGGGCCAACGTCGTTGGCATTACCATCAACGAGTACCAAGTCAACCG
TGCCGCCTTCACAAATAGAAAGCCGGGCTA
Found at i:412279 original size:33 final size:32
Alignment explanation
Indices: 412215--412299 Score: 91
Period size: 33 Copynumber: 2.6 Consensus size: 32
412205 ATCCAAAATC
* * * *
412215 AACCAGAACTGAAATTAACCCGAATTGAAAGT
1 AACCCGAACCGAATTTAACCCGAATTAAAAGT
*
412247 AACCTGAACCGAATTTTAACCCG-ATTCAAAAGT
1 AACCCGAACCGAA-TTTAACCCGAATT-AAAAGT
*
412280 AACCCGAATCGAATTTAACC
1 AACCCGAACCGAATTTAACC
412300 TGACACGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
32 21 0.47
33 24 0.53
ACGTcount: A:0.42, C:0.24, G:0.13, T:0.21
Consensus pattern (32 bp):
AACCCGAACCGAATTTAACCCGAATTAAAAGT
Found at i:412298 original size:16 final size:16
Alignment explanation
Indices: 412225--412299 Score: 60
Period size: 16 Copynumber: 4.6 Consensus size: 16
412215 AACCAGAACT
*
412225 GAAATTAACCCGAATT
1 GAAATTAACCCGAATC
* * *
412241 GAAAGTAACCTGAACC
1 GAAATTAACCCGAATC
* *
412257 GAATTTTAACCCGATTC
1 GAA-ATTAACCCGAATC
* *
412274 AAAAGTAACCCGAATC
1 GAAATTAACCCGAATC
*
412290 GAATTTAACC
1 GAAATTAACC
412300 TGACACGAAA
Statistics
Matches: 42, Mismatches: 16, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
16 32 0.76
17 10 0.24
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.23
Consensus pattern (16 bp):
GAAATTAACCCGAATC
Found at i:412518 original size:20 final size:20
Alignment explanation
Indices: 412490--412528 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
412480 TTTACTTATC
* *
412490 TTATTATAAAAATATTATAT
1 TTATAATAAAAATAATATAT
412510 TTATAATAAAAATAATATA
1 TTATAATAAAAATAATATA
412529 AAATTTACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATAATAAAAATAATATAT
Found at i:413564 original size:17 final size:18
Alignment explanation
Indices: 413531--413571 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
413521 ATATTATGTA
*
413531 TTTAATTTATTTAAATAT
1 TTTACTTTATTTAAATAT
413549 TTTACTTTATTT-AATAT
1 TTTACTTTATTTAAATAT
413566 TTTACT
1 TTTACT
413572 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAATAT
Found at i:421895 original size:38 final size:38
Alignment explanation
Indices: 421853--421927 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
421843 AAGCATTCAC
421853 ATCCGGATATTCATAATCAAAGTACAACAAATAATCTA
1 ATCCGGATATTCATAATCAAAGTACAACAAATAATCTA
*
421891 ATCCGGATATTCATAATCAAAGTACAGCAAATAATCT
1 ATCCGGATATTCATAATCAAAGTACAACAAATAATCT
421928 GAAGTGGAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.27
Consensus pattern (38 bp):
ATCCGGATATTCATAATCAAAGTACAACAAATAATCTA
Done.