Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003836.1 Hibiscus syriacus cultivar Beakdansim tig00008222_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: 532632
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 3
Found at i:192928 original size:17 final size:18
Alignment explanation
Indices: 192868--192931 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 18
192858 CAATTTAAAC
192868 TATAATAAAA-ATATAAAT
1 TATAATAAAATATAT-AAT
192886 AATATAAATAAAATATATAAT
1 --TAT-AATAAAATATATAAT
*
192907 TATAATAAAATATAT-TT
1 TATAATAAAATATATAAT
192924 TATAATAA
1 TATAATAA
192932 CTAATTATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
17 9 0.22
18 12 0.29
19 3 0.07
20 3 0.07
21 10 0.24
22 4 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TATAATAAAATATATAAT
Found at i:193887 original size:30 final size:30
Alignment explanation
Indices: 193818--193887 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
193808 CCGAATTCAG
* * *
193818 GAGTCAAATTGATATTTTATCTGAAGTTTA
1 GAGTCAAATTGATATTTCACCTAAAGTTTA
* *
193848 -AGGTTAAATTTATATTTCACCTAAAGTTTA
1 GA-GTCAAATTGATATTTCACCTAAAGTTTA
193878 GAGTCAAATT
1 GAGTCAAATT
193888 AGTATTTTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
29 1 0.03
30 30 0.94
31 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (30 bp):
GAGTCAAATTGATATTTCACCTAAAGTTTA
Found at i:202415 original size:143 final size:145
Alignment explanation
Indices: 202188--202478 Score: 568
Period size: 144 Copynumber: 2.0 Consensus size: 145
202178 ATCAAAAAAA
202188 TCAAATAATTTTGTGTGTAAATGAAATTATTAAATTAATATTTGTAGGTGGAAAACATGAAACAC
1 TCAAATAATTTTGTGTGTAAATGAAATTATTAAATTAATATTTGTAGGTGGAAAACATGAAACAC
202253 TATTAAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAAGTATATATCATTTTTATAAAA
66 TATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATATATCATTTTTATAAAA
202317 GTGTCCATACTTATT
131 GTGTCCATACTTATT
202332 TCAAATAATTTTGTGTGTAAATGAAATTATTAAATTAATA-TTGTAGGTGGAAAACATGAAACAC
1 TCAAATAATTTTGTGTGTAAATGAAATTATTAAATTAATATTTGTAGGTGGAAAACATGAAACAC
202396 TATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATATATCATTTTTATAAAA
66 TATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATATATCATTTTTATAAAA
202461 GTGTCCATACTTATT
131 GTGTCCATACTTATT
202476 TCA
1 TCA
202479 CTGTGGAAAA
Statistics
Matches: 146, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
143 60 0.41
144 86 0.59
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.36
Consensus pattern (145 bp):
TCAAATAATTTTGTGTGTAAATGAAATTATTAAATTAATATTTGTAGGTGGAAAACATGAAACAC
TATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATATATCATTTTTATAAAA
GTGTCCATACTTATT
Found at i:202772 original size:20 final size:19
Alignment explanation
Indices: 202749--202795 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
202739 CGATATACCA
202749 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
202769 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
202789 GGTAAAA
1 GGTAAAA
202796 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:202949 original size:20 final size:19
Alignment explanation
Indices: 202921--202976 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
202911 GATCCACAAC
*
202921 GATATAACAGGTAAAAATAT
1 GATAAAACAGGTAAAAA-AT
*
202941 GATAAAACAGGTATCAAAAT
1 GATAAAACAGGTA-AAAAAT
*
202961 GATAAAACCGGTAAAA
1 GATAAAACAGGTAAAA
202977 TGATACCGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 2 0.06
20 26 0.84
21 3 0.10
ACGTcount: A:0.55, C:0.09, G:0.16, T:0.20
Consensus pattern (19 bp):
GATAAAACAGGTAAAAAAT
Found at i:205228 original size:21 final size:21
Alignment explanation
Indices: 205204--205247 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
205194 AAGACAATCA
205204 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
205225 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
205246 AG
1 AG
205248 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:205323 original size:33 final size:33
Alignment explanation
Indices: 205281--205346 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
205271 AAATAGATGG
205281 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
* * *
205314 AGTGGTGAAAGAAGTTGGGGTGTTTAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
205347 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.48, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
Found at i:207161 original size:19 final size:19
Alignment explanation
Indices: 207137--207185 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
207127 AATGTAGGGT
207137 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
207156 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
207175 TATTTTTGTAT
1 TAATTTTGTAT
207186 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:207645 original size:199 final size:199
Alignment explanation
Indices: 207304--208460 Score: 2094
Period size: 199 Copynumber: 5.9 Consensus size: 199
207294 CAATATGGCC
* *
207304 AACAGGGTGCAACCACAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
*
207369 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACTGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
207434 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
207499 TGGAA
195 TGGAA
207504 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
207569 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
207634 AATATGTCTAAATAATGTGTCGATACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
207699 GGAA
196 GGAA
207703 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
207768 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
207832 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
207897 GGAA
196 GGAA
207901 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
*
207966 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
208031 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
208096 GGAA
196 GGAA
208100 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
* *
208165 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAATATACCGGTTTTGTGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
208230 AATATGTCTAAATAATGTGTCGACACTATTTTA---------G----TTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
208282 GGAA
196 GGAA
*
208286 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
* *
208351 CAAAAGTATAATGTAATATGTAATTTTTTAATCTAACCAGTACAAGTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
208416 AATATGTCTAAA-AACTGTGTCGACACT-TTTTAGTTTGTGTCGATA
131 AATATGTCTAAATAA-TGTGTCGACACTATTTTAGTTTGTGTCGATA
208461 CTAATTTAAA
Statistics
Matches: 929, Mismatches: 14, Indels: 31
0.95 0.01 0.03
Matches are distributed among these distances:
185 7 0.01
186 171 0.18
190 1 0.00
194 1 0.00
198 197 0.21
199 492 0.53
200 60 0.06
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (199 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
GGAA
Found at i:208039 original size:397 final size:397
Alignment explanation
Indices: 207304--208460 Score: 2083
Period size: 397 Copynumber: 2.9 Consensus size: 397
207294 CAATATGGCC
*
207304 AACAGGGTGCAACCACAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG--AA
* *
207369 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACTGGTTTTATGAGA
64 CCCAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
207434 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
129 GAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
207499 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
194 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
207564 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTAT
259 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTAT
*
207629 GAGAGAATATGTCTAAATAATGTGTCGATACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAA
324 GAGAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAA
207694 TGAATGGAA
389 TGAATGGAA
207703 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
207768 CAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
66 CAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
207833 ATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
131 ATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
207898 GAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGA
196 GAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGA
*
207963 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
208028 GAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATG
208093 AATGGAA
391 AATGGAA
208100 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
* *
208165 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAATATACCGGTTTTGTGAGAG
66 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
208230 AATATGTCTAAATAATGTGTCGACACTATTTTA---------G----TTTTGTTCCAGAATGAAT
130 AATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
*
208282 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
195 GGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG
* *
208347 AACCCAAAAGTATAATGTAATATGTAATTTTTTAATCTAACCAGTACAAGTATACCGGTTTTATG
260 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATG
208412 AGAGAATATGTCTAAA-AACTGTGTCGACACT-TTTTAGTTTGTGTCGATA
325 AGAGAATATGTCTAAATAA-TGTGTCGACACTATTTTAGTTTGTGTCGATA
208461 CTAATTTAAA
Statistics
Matches: 745, Mismatches: 11, Indels: 19
0.96 0.01 0.02
Matches are distributed among these distances:
384 20 0.03
385 172 0.23
389 1 0.00
397 398 0.53
398 94 0.13
399 60 0.08
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (397 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
CAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAGA
ATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAATG
GAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGA
ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGTCGATATTTTTGTTCCAGAATG
AATGGAA
Found at i:208287 original size:186 final size:185
Alignment explanation
Indices: 208078--208451 Score: 678
Period size: 186 Copynumber: 2.0 Consensus size: 185
208068 GTGTCGATAT
208078 TTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTG
1 TTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTG
*
208143 TCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTAC
66 TCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTAC
*
208208 AAATATACCGGTTTTGTGAGAGAATATGTCTAAATAA-TGTGTCGACACTATTTTAG
131 AAATATACCGGTTTTATGAGAGAATATGTCTAAA-AACTGTGTCGACACT-TTTTAG
*
208264 TTTTGTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTG
1 TTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTG
*
208329 TCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTTAATCTAACCAGTAC
66 TCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTAC
*
208394 AAGTATACCGGTTTTATGAGAGAATATGTCTAAAAACTGTGTCGACACTTTTTAG
131 AAATATACCGGTTTTATGAGAGAATATGTCTAAAAACTGTGTCGACACTTTTTAG
208449 TTT
1 TTT
208452 GTGTCGATAC
Statistics
Matches: 182, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
185 11 0.06
186 171 0.94
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (185 bp):
TTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTG
TCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTAC
AAATATACCGGTTTTATGAGAGAATATGTCTAAAAACTGTGTCGACACTTTTTAG
Found at i:209949 original size:18 final size:18
Alignment explanation
Indices: 209928--209989 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
209918 AGCGGTCGCA
209928 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
209946 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
209964 GACGATGAAACTGACGAT
1 GAAGATGAAGCTGACGAT
209982 GAAGATGA
1 GAAGATGA
209990 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.40, C:0.10, G:0.32, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:209952 original size:6 final size:6
Alignment explanation
Indices: 209928--210019 Score: 69
Period size: 6 Copynumber: 15.3 Consensus size: 6
209918 AGCGGTCGCA
* * * * *
209928 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAA-ACT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGA-T
* * * * * *
209976 GACGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
210020 TGATCCAAAC
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
5 1 0.01
6 68 0.97
7 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.33, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:209978 original size:36 final size:36
Alignment explanation
Indices: 209931--210007 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
209921 GGTCGCAGAA
* *
209931 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAACTGACGATGAAGATGACGACGATGATGAC
* *
209967 GATGAAACTGACGATGAAGATGATGACGATGATGAT
1 GATGAAACTGACGATGAAGATGACGACGATGATGAC
210003 GATGA
1 GATGA
210008 TGATGAAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.09, G:0.32, T:0.21
Consensus pattern (36 bp):
GATGAAACTGACGATGAAGATGACGACGATGATGAC
Found at i:210011 original size:9 final size:9
Alignment explanation
Indices: 209943--210023 Score: 74
Period size: 9 Copynumber: 9.0 Consensus size: 9
209933 TGAAGCTGAC
*
209943 GATGAAGAT
1 GATGATGAT
*
209952 GACGATGAT
1 GATGATGAT
*
209961 GATGACGAT
1 GATGATGAT
* *
209970 GA-AACTGAC
1 GATGA-TGAT
*
209979 GATGAAGAT
1 GATGATGAT
*
209988 GATGACGAT
1 GATGATGAT
209997 GATGATGAT
1 GATGATGAT
*
210006 GATGATGAA
1 GATGATGAT
210015 GATGATGAT
1 GATGATGAT
210024 CCAAACAAGT
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
8 1 0.02
9 54 0.96
10 1 0.02
ACGTcount: A:0.38, C:0.06, G:0.32, T:0.23
Consensus pattern (9 bp):
GATGATGAT
Found at i:210023 original size:12 final size:12
Alignment explanation
Indices: 209931--210019 Score: 90
Period size: 12 Copynumber: 7.4 Consensus size: 12
209921 GGTCGCAGAA
*
209931 GATGAAGCTGAC
1 GATGAAGATGAC
209943 GATGAAGATGAC
1 GATGAAGATGAC
*
209955 GATGATGATGAC
1 GATGAAGATGAC
209967 GATGAA-ACTGAC
1 GATGAAGA-TGAC
*
209979 GATGAAGATGAT
1 GATGAAGATGAC
* * *
209991 GACGATGATGAT
1 GATGAAGATGAC
* *
210003 GATGATGATGAA
1 GATGAAGATGAC
210015 GATGA
1 GATGA
210020 TGATCCAAAC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
11 1 0.01
12 65 0.97
13 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:210023 original size:18 final size:18
Alignment explanation
Indices: 209928--210019 Score: 78
Period size: 18 Copynumber: 5.1 Consensus size: 18
209918 AGCGGTCGCA
* *
209928 GAAGATGAAGCTGACGAT
1 GAAGATGATGATGACGAT
* *
209946 GAAGATGACGATGATGAT
1 GAAGATGATGATGACGAT
* *
209964 GACGATGA-AACTGACGAT
1 GAAGATGATGA-TGACGAT
* *
209982 GAAGATGATGACGATGAT
1 GAAGATGATGATGACGAT
* *
210000 GATGATGATGATGAAGAT
1 GAAGATGATGATGACGAT
210018 GA
1 GA
210020 TGATCCAAAC
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
17 1 0.02
18 57 0.97
19 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.33, T:0.21
Consensus pattern (18 bp):
GAAGATGATGATGACGAT
Found at i:211248 original size:16 final size:16
Alignment explanation
Indices: 211216--211249 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
211206 TATCCACAAC
* *
211216 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
211232 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
211248 AA
1 AA
211250 TGTAATAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:211644 original size:23 final size:23
Alignment explanation
Indices: 211618--211682 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
211608 AAATATGATG
211618 TAATAGGTAGCGCTTATATAATA
1 TAATAGGTAGCGCTTATATAATA
* * *
211641 TAATAGGTATCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATA
* * *
211664 TAAGAGGTAGTGGTTATAT
1 TAATAGGTAGCGCTTATAT
211683 TGTAAAGTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATA
Found at i:212338 original size:183 final size:182
Alignment explanation
Indices: 212063--212555 Score: 862
Period size: 183 Copynumber: 2.7 Consensus size: 182
212053 GCAATGTTAT
*
212063 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCACGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
212128 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACA
* *
212193 TTTACACATTGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
*
212246 CGGTATAAATATACCAGTTTTATGCACGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCACGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
212311 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACA
*
212376 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* *
212429 TGGTATAAATATACCGGTTTTATG-AGCGAATAGGTCTACAACCTATATCGACACTTTCTAATAT
1 CGGTATAAATATACCGGTTTTATGCA-CGAATAGGTCTACAACCTATATCGACACTTTTTAATAT
*
212493 TGTGTCAGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
65 TGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
212556 GTAATTTTAA
Statistics
Matches: 297, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
182 1 0.00
183 292 0.98
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGCACGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACAT
TTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:215021 original size:25 final size:25
Alignment explanation
Indices: 214987--215051 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
214977 TTATCATTAA
214987 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
215012 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
215037 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
215052 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:215433 original size:23 final size:23
Alignment explanation
Indices: 215402--215474 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
215392 ATAGGTAAAC
*
215402 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
215425 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
215448 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
215471 ATAT
1 ATAT
215475 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:215776 original size:25 final size:25
Alignment explanation
Indices: 215742--215792 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
215732 ACAACAAATC
*
215742 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
215767 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
215792 A
1 A
215793 TTTGGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:216202 original size:18 final size:18
Alignment explanation
Indices: 216181--216217 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
216171 GTAATTGGAG
216181 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
216199 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
216217 T
1 T
216218 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:216225 original size:24 final size:24
Alignment explanation
Indices: 216173--216219 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
216163 TTTCATATGT
* *
216173 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
216197 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
216220 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:216519 original size:39 final size:39
Alignment explanation
Indices: 216476--216562 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
216466 TCCGATGCTC
*
216476 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
216515 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
216554 ACCAAAATC
1 ATCAAAATC
216563 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.48, C:0.22, G:0.14, T:0.16
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:216995 original size:23 final size:23
Alignment explanation
Indices: 216964--217036 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
216954 ATAGGTAAAA
*
216964 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
216987 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
217010 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
217033 ATAT
1 ATAT
217037 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:217426 original size:23 final size:23
Alignment explanation
Indices: 217395--217467 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
217385 ATAGGTAAAA
*
217395 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
217418 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
217441 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
217464 ATAT
1 ATAT
217468 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:217471 original size:431 final size:431
Alignment explanation
Indices: 216670--217818 Score: 2194
Period size: 431 Copynumber: 2.7 Consensus size: 431
216660 TCAAGTGTTC
*
216670 TTAAGGTTATCATTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA
1 TTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA
216735 -TTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATC
66 TTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATC
216799 AAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATG
131 AAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATG
* *
216864 AAACACTATT-AAAAAAATGGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTA
196 AAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTA
216928 TAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAA
261 TAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAA
*
216993 TGTAATATGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTT
326 TGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTT
217058 ATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAAT
391 ATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAAT
217099 TTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA
1 TTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA
217164 TTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATC
66 TTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATC
*
217229 AAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTTGGTGGAAAACATG
131 AAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATG
*
217294 AAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCTTTTTTA
196 AAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTA
217359 TAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAA
261 TAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAA
217424 TGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTT
326 TGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTT
*
217489 ATAAAAGTGTCTATACTTTTTTCACTGTGGAAAACATTAAT
391 ATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAAT
217530 TTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA
1 TTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA
217595 TTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATC
66 TTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATC
* *
217660 AAAATAATCAAATAATTTTTTGTGCAAATGGAATTATTAAATTAATATTGTAGGTGGAAAACATG
131 AAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATG
217725 AAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTA
196 AAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTA
*
217790 TAAAAAGTATGTACACTTTCAATATAATA
261 TAAAAAGTATGGACACTTTCAATATAATA
217819 TAATGTAATA
Statistics
Matches: 707, Mismatches: 11, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
429 64 0.09
430 138 0.20
431 505 0.71
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (431 bp):
TTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA
TTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATC
AAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATG
AAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCATTTTTA
TAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAA
TGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTT
ATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAAT
Found at i:218916 original size:4 final size:4
Alignment explanation
Indices: 218907--218934 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
218897 AACACTGCAA
218907 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
218935 GTTAAGGTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:219394 original size:123 final size:123
Alignment explanation
Indices: 219253--219495 Score: 450
Period size: 123 Copynumber: 2.0 Consensus size: 123
219243 TCAAGTTTCA
*
219253 TAACTTGAACAATTATTATAAAATAATTATTCAGAGAAAAATCACAATATTTATTCATACTATTA
1 TAACTTGAACAATTATTATAAAATAATTATTCAGAAAAAAATCACAATATTTATTCATACTATTA
219318 ATTATATTTAATACTAACTATTTTAAGAAATTTCAGACATTTCATTCTCGTATACATG
66 ATTATATTTAATACTAACTATTTTAAGAAATTTCAGACATTTCATTCTCGTATACATG
* *
219376 TAACTTGAACAATTATTATAAAATAATTATTCAGAAAAAAATCATAATATTTATTTATACTATTA
1 TAACTTGAACAATTATTATAAAATAATTATTCAGAAAAAAATCACAATATTTATTCATACTATTA
*
219441 ATTATATTTAATACTAACTATTTTAAGAAATTTCAGACATTTTATTCTCGTATAC
66 ATTATATTTAATACTAACTATTTTAAGAAATTTCAGACATTTCATTCTCGTATAC
219496 TTGTCAGATA
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 116 1.00
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (123 bp):
TAACTTGAACAATTATTATAAAATAATTATTCAGAAAAAAATCACAATATTTATTCATACTATTA
ATTATATTTAATACTAACTATTTTAAGAAATTTCAGACATTTCATTCTCGTATACATG
Found at i:224097 original size:24 final size:22
Alignment explanation
Indices: 224074--224145 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 22
224064 ACTATATATA
224074 ATATGTTTTTAAAACTACATTAT
1 ATAT-TTTTTAAAACTACATTAT
*
224097 ATATTTTTTCAAAAACTATATTAT
1 ATATTTTTT--AAAACTACATTAT
*
224121 ATA-TTTTTAAAA-TATATATAT
1 ATATTTTTTAAAACTACAT-TAT
224142 ATAT
1 ATAT
224146 ATATTATATA
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
20 5 0.11
21 10 0.23
22 5 0.11
23 9 0.20
24 15 0.34
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.50
Consensus pattern (22 bp):
ATATTTTTTAAAACTACATTAT
Found at i:224103 original size:21 final size:21
Alignment explanation
Indices: 224068--224145 Score: 86
Period size: 21 Copynumber: 3.6 Consensus size: 21
224058 ATATATACTA
* *
224068 TATATAATATGTTTTTAAAAC
1 TATATTATATATTTTTAAAAC
*
224089 TACATTATATATTTTTTCAAAAAC
1 TATATTATATA-TTTTT--AAAAC
224113 TATATTATATATTTTTAAAA-
1 TATATTATATATTTTTAAAAC
224133 TATATATATATAT
1 TATAT-TATATAT
224146 ATATTATATA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
20 5 0.10
21 19 0.39
22 5 0.10
23 5 0.10
24 15 0.31
ACGTcount: A:0.44, C:0.05, G:0.01, T:0.50
Consensus pattern (21 bp):
TATATTATATATTTTTAAAAC
Found at i:224121 original size:22 final size:23
Alignment explanation
Indices: 224066--224147 Score: 84
Period size: 23 Copynumber: 3.7 Consensus size: 23
224056 ATATATATAC
*
224066 TATATATA-ATATGTTTTTAAAA
1 TATATATATATATATTTTTAAAA
*
224088 CTACAT-TATATAT-TTTTTCAAAA
1 -TATATATATATATATTTTT-AAAA
224111 -ACTATAT-TATATATTTTTAAAA
1 TA-TATATATATATATTTTTAAAA
224133 TATATATATATATAT
1 TATATATATATATAT
224148 ATTATATATT
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
21 1 0.02
22 23 0.46
23 26 0.52
ACGTcount: A:0.44, C:0.05, G:0.01, T:0.50
Consensus pattern (23 bp):
TATATATATATATATTTTTAAAA
Found at i:224219 original size:12 final size:12
Alignment explanation
Indices: 224188--224220 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
224178 CAAAGACTAC
224188 ATATTATATATA
1 ATATTATATATA
224200 AT-TATATATATA
1 ATAT-TATATATA
224212 ATATTATAT
1 ATATTATAT
224221 TATTTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.05
12 17 0.89
13 1 0.05
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATATTATATATA
Found at i:229681 original size:7 final size:7
Alignment explanation
Indices: 229671--229709 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
229661 GTTATGTGAG
229671 ATGTTTT
1 ATGTTTT
229678 ATGTTTT
1 ATGTTTT
*
229685 ATGATTT
1 ATGTTTT
*
229692 ATGTTAT
1 ATGTTTT
229699 ATGTTTAT
1 ATGTTT-T
229707 ATG
1 ATG
229710 CCTCACTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
7 23 0.85
8 4 0.15
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (7 bp):
ATGTTTT
Found at i:230079 original size:20 final size:21
Alignment explanation
Indices: 230054--230095 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
230044 TGTAGCAATA
*
230054 CTGTAGCA-GGGTATCGGTAC
1 CTGTAGCAGGGGTATCGATAC
230074 CTGTAGCAGGGGTATCGATAC
1 CTGTAGCAGGGGTATCGATAC
230095 C
1 C
230096 CCTGAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.24
Consensus pattern (21 bp):
CTGTAGCAGGGGTATCGATAC
Found at i:231055 original size:72 final size:72
Alignment explanation
Indices: 230978--231263 Score: 252
Period size: 72 Copynumber: 3.9 Consensus size: 72
230968 AGACGATTCC
* ** **
230978 CCTTCACGATTTAAGTCGGTCTTTATTCTTTGGATGACTCTATTTTGTGGGAAAGCCAAATGAGA
1 CCTTCACGATTTAAGTCGGTCTTGATTCTTTGGATGACTCTCCTTTACGGGAAAGCCAAATGAGA
*
231043 TGAATTT
66 TGAATCT
* ** * * * *
231050 CCTTCAC-AGTTTAAGTCGATCTTGATTCTTTAAATGAGTCTCCTTTCCGAGAAAGCCGAATGAG
1 CCTTCACGA-TTTAAGTCGGTCTTGATTCTTTGGATGACTCTCCTTTACGGGAAAGCCAAATGAG
* * *
231114 ACGACTCC
65 ATGAATCT
* * * * **
231122 CCTTCACTG-TTTAAGTCGGTCATGATTCTTTGGATGATTCCCCTTCACGGGAAAGCCAGGTGAG
1 CCTTCAC-GATTTAAGTCGGTCTTGATTCTTTGGATGACTCTCCTTTACGGGAAAGCCAAATGAG
231186 ATGAATCT
65 ATGAATCT
* * * * * ** *
231194 CCTTCACAATTTAAGTCAGTTTTGATTATTTGGATGACTCCCCTTCGCGGGTATAAGTCAAATGA
1 CCTTCACGATTTAAGTCGGTCTTGATTCTTTGGATGACTCTCCTTTACGGG-A-AAGCCAAATGA
231259 GATGA
64 GATGA
231264 CTCGAGCTTG
Statistics
Matches: 168, Mismatches: 40, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
71 1 0.01
72 153 0.91
73 1 0.01
74 13 0.08
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (72 bp):
CCTTCACGATTTAAGTCGGTCTTGATTCTTTGGATGACTCTCCTTTACGGGAAAGCCAAATGAGA
TGAATCT
Found at i:234222 original size:23 final size:23
Alignment explanation
Indices: 234195--234247 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
234185 ATAATATAAC
234195 AGGTAGCGCTTATTTAACGTAAT
1 AGGTAGCGCTTATTTAACGTAAT
234218 AGGTAGCGCTTATTTAACGTAAT
1 AGGTAGCGCTTATTTAACGTAAT
234241 AGGTAGC
1 AGGTAGC
234248 ACATTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (23 bp):
AGGTAGCGCTTATTTAACGTAAT
Found at i:234256 original size:23 final size:23
Alignment explanation
Indices: 234195--234257 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
234185 ATAATATAAC
*
234195 AGGTAGCGCTTATTTAACGTAAT
1 AGGTAGCACTTATTTAACGTAAT
*
234218 AGGTAGCGCTTATTTAACGTAAT
1 AGGTAGCACTTATTTAACGTAAT
234241 AGGTAGCACATT-TTTAA
1 AGGTAGCAC-TTATTTAA
234258 AGCTGATGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
23 36 0.95
24 2 0.05
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.35
Consensus pattern (23 bp):
AGGTAGCACTTATTTAACGTAAT
Found at i:235008 original size:130 final size:131
Alignment explanation
Indices: 234556--235029 Score: 774
Period size: 131 Copynumber: 3.6 Consensus size: 131
234546 ATATTATCAA
* *
234556 GTACATTGTTAATTTACCTATTACTTTAAAGTAATAAGTTTCGAAATTATAAGTATTGATAC-TT
1 GTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTTT
* * * * *
234620 ATATGA-CAATATCGCTACTTGTACATTTACGCCTATTTTCATTATACCGGTAGAAACGTTTACC
66 ATAT-ATGAGTATCGATACTTGGACATTTACGCCTATTTTCATTATATCGGTAGAAACGTTTACC
234684 GT
130 GT
* * *
234686 GTATATTGTTAATTTACCTATTACTTTAAAGTAATATGTTTCAAAATTATAAGTATCGATACTTT
1 GTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTTT
*
234751 ATATGTGAGTATCGATACTTGGACATTTACGCCTATTTTCATTATATCGGTAGAAACGTTTACCG
66 ATATATGAGTATCGATACTTGGACATTTACGCCTATTTTCATTATATCGGTAGAAACGTTTACCG
234816 T
131 T
* *
234817 GTACATTGTTAATTTACCTATTAATTTAAAGTAATAGGTTTCGAAATTATAAGTATTGATACTTT
1 GTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTTT
*
234882 GTATATGAGTATCGATACTTGGACATTTACGCCTATTTTCATTATATCGGTAGAAACG-TTACCG
66 ATATATGAGTATCGATACTTGGACATTTACGCCTATTTTCATTATATCGGTAGAAACGTTTACCG
234946 T
131 T
*
234947 GTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTTGAAATTATAAGTATCGATACTTT
1 GTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTTT
*
235012 ATATATGTGTATCGATAC
66 ATATATGAGTATCGATAC
235030 ATTTTGCGTG
Statistics
Matches: 320, Mismatches: 22, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
130 143 0.45
131 177 0.55
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (131 bp):
GTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTTT
ATATATGAGTATCGATACTTGGACATTTACGCCTATTTTCATTATATCGGTAGAAACGTTTACCG
T
Found at i:235026 original size:261 final size:260
Alignment explanation
Indices: 234556--235029 Score: 790
Period size: 261 Copynumber: 1.8 Consensus size: 260
234546 ATATTATCAA
*
234556 GTACATTGTTAATTTACCTATTACTTTAAAGTAATAAGTTTCGAAATTATAAGTATTGATACTTA
1 GTACATTGTTAATTTACCTATTAATTTAAAGTAATAAGTTTCGAAATTATAAGTATTGATACTTA
* *
234621 TATGACAATATCGCTACTTGTACATTTACGCCTATTTTCATTATACCGGTAGAAACGTTTACCGT
66 TATGA-AATATCGATACTTGGACATTTACGCCTATTTTCATTATACCGGTAGAAACGTTTACCGT
* *
234686 GTATATTGTTAATTTACCTATTACTTTAAAGTAATATGTTTCAAAATTATAAGTATCGATACTTT
130 GTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGATACTTT
*
234751 ATATGTGAGTATCGATACTTGGACATTTACGCCTATTTTCATTATATCGGTAGAAACGTTTACCG
195 ATATATGAGTATCGATACTTGGACATTTACGCCTATTTTCATTATATCGGTAGAAACGTTTACCG
234816 T
260 T
*
234817 GTACATTGTTAATTTACCTATTAATTTAAAGTAATAGGTTTCGAAATTATAAGTATTGATACTTT
1 GTACATTGTTAATTTACCTATTAATTTAAAGTAATAAGTTTCGAAATTATAAGTATTGATAC--T
* *
234882 GTATATG-AGTATCGATACTTGGACATTTACGCCTATTTTCATTATATCGGTAGAAACG-TTACC
64 -TATATGAAATATCGATACTTGGACATTTACGCCTATTTTCATTATACCGGTAGAAACGTTTACC
**
234945 GTGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTTGAAATTATAAGTATCGATACT
128 GTGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGATACT
*
235010 TTATATATGTGTATCGATAC
193 TTATATATGAGTATCGATAC
235030 ATTTTGCGTG
Statistics
Matches: 198, Mismatches: 12, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
261 144 0.73
262 47 0.24
263 1 0.01
264 6 0.03
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (260 bp):
GTACATTGTTAATTTACCTATTAATTTAAAGTAATAAGTTTCGAAATTATAAGTATTGATACTTA
TATGAAATATCGATACTTGGACATTTACGCCTATTTTCATTATACCGGTAGAAACGTTTACCGTG
TACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCGATACTTTA
TATATGAGTATCGATACTTGGACATTTACGCCTATTTTCATTATATCGGTAGAAACGTTTACCGT
Found at i:235281 original size:199 final size:200
Alignment explanation
Indices: 234889--235298 Score: 628
Period size: 199 Copynumber: 2.0 Consensus size: 200
234879 TTTGTATATG
* * * *
234889 AGTATCGATACTTGGACATTTACGCCTATTTTCATTATATCGGTAGAAACGTTACCGTGTACATT
1 AGTATCGATACTTGGACATCTACGCCTATTATCAATATACCGGTAG-AACGTTACCGTGTACATT
* * *
234954 GTTAATTTACCTATTACTTTAAAGTAATAGGTTTTGAAATTATAAGTATCGATACTTTATATATG
65 GTTAATTAACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACATTATATATG
* * *
235019 TGTATCGATACATTTTGCGTGCAAATTGTTTGAGAAGTATATTGGAATAAAAGTATACATACCTA
130 TGTATCGATACATCTTGCGTGCAAATTGTTTGAGAAGCATACTGGAATAAAAGTATACATACCTA
235084 TAGAAA
195 TAGAAA
* * *
235090 AGTATCGATACTTGG-TATCTACGCCTATTATCAATATACCGGTAG-ACTTTTACCGTTTACATT
1 AGTATCGATACTTGGACATCTACGCCTATTATCAATATACCGGTAGAAC-GTTACCGTGTACATT
235153 GTTAATTAACCTATTACTTTAAAGTAATAGGTTTCGAAATT-TCAAGTATCGATACATTATATAT
65 GTTAATTAACCTATTACTTTAAAGTAATAGGTTTCGAAATTAT-AAGTATCGATACATTATATAT
*
235217 GTGTATCGATACATCTTGCGTGCAAATTGTTTGAGAAGCATACTGGAATAAAAGTATCCATACCT
129 GTGTATCGATACATCTTGCGTGCAAATTGTTTGAGAAGCATACTGGAATAAAAGTATACATACCT
*
235282 ATATAAA
194 ATAGAAA
*
235289 AGTATTGATA
1 AGTATCGATA
235299 TTTTATATTT
Statistics
Matches: 191, Mismatches: 16, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
198 3 0.02
199 148 0.77
200 25 0.13
201 15 0.08
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.37
Consensus pattern (200 bp):
AGTATCGATACTTGGACATCTACGCCTATTATCAATATACCGGTAGAACGTTACCGTGTACATTG
TTAATTAACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACATTATATATGT
GTATCGATACATCTTGCGTGCAAATTGTTTGAGAAGCATACTGGAATAAAAGTATACATACCTAT
AGAAA
Found at i:235461 original size:20 final size:20
Alignment explanation
Indices: 235436--235473 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
235426 CACAAATACC
235436 AAGTATCAATACTTTTATAT
1 AAGTATCAATACTTTTATAT
**
235456 AAGTATGGATACTTTTAT
1 AAGTATCAATACTTTTAT
235474 TTCAGTATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.45
Consensus pattern (20 bp):
AAGTATCAATACTTTTATAT
Found at i:235817 original size:20 final size:20
Alignment explanation
Indices: 235792--235834 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
235782 GTAGCTTTTT
235792 ACCGGTTTTGTCAAATTGAA
1 ACCGGTTTTGTCAAATTGAA
*
235812 ACCGGTTTTGTCAAATTTAA
1 ACCGGTTTTGTCAAATTGAA
235832 ACC
1 ACC
235835 TGTTATGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (20 bp):
ACCGGTTTTGTCAAATTGAA
Found at i:235894 original size:197 final size:195
Alignment explanation
Indices: 235530--236219 Score: 911
Period size: 197 Copynumber: 3.5 Consensus size: 195
235520 CATATATAAT
* * * * * * *
235530 GTACTGATACTTTGGTACATATAATTATAAACGTATTGAT-ACTTTCAACAATTCCGATAGCGTT
1 GTACCGATACTTTGGTACATATACTTATAAAAGTATCGATAAATTTCAACAATTCCGGTAGCTTT
* *
235594 TTACCGGTTTTGTCAAATTGAAACCAATTTTGTAAAATTTAAA-CTGTTATATTGTCATGTATCG
66 TTACCGGTTTTGTCAAATTGAAACCGATTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCG
* **
235658 ATACATGTGTCTAAGGTATCGATACTTTATAAG-CGCTATTATTTAAATTCTTTTAAATTCCTAA
131 ATACATGTGTATAAGGTATCGATACTTTAT-AGCCGCTATTATTGCAATTCTTTTAAATTCCTAA
235722 A
195 A
* * *
235723 GTATCGATACTTTGGTACATATACTTATAAAAGTATCAGCATAAATTTCAACCATTCTGGTAGCT
1 GTACCGATACTTTGGTACATATACTTATAAAAGTATC-G-ATAAATTTCAACAATTCCGGTAGCT
* *
235788 TTTTACCGGTTTTGTCAAATTGAAACCGGTTTTGTCAAATTTAAACCTGTTATGTTGTCATGTAT
64 TTTTACCGGTTTTGTCAAATTGAAACCGATTTTGTCAAATTTAAACCTGTTATATTGTCATGTAT
* ** *
235853 CGATATATGTGTATAAGGTATTAATACTTTATAGCCGCTATTATTGCAACTCTTTTAAATTCCTA
129 CGATACATGTGTATAAGGTATCGATACTTTATAGCCGCTATTATTGCAATTCTTTTAAATTCCTA
235918 AA
194 AA
* **
235920 GTACCGATACTTTGGTACATATACTTATAAACGTATCGATATAAATTTCAACAATTATGGTAGCT
1 GTACCGATACTTTGGTACATATACTTATAAAAGTATCG--ATAAATTTCAACAATTCCGGTAGCT
* ** * * *
235985 CTTTACCGGTTTTGTCAAATTGAAAAAGATTTTTTCAAATTTCAACATGTTATATTGTCATGTAT
64 TTTTACCGGTTTTGTCAAATTGAAACCGATTTTGTCAAATTTAAACCTGTTATATTGTCATGTAT
* * * * * ** *
236050 CAATACATGTGTGTACGATATCGATACTTTATATCTACTATTATTGCAATTCGTTTAAATTCCTA
129 CGATACATGTGTATAAGGTATCGATACTTTATAGCCGCTATTATTGCAATTCTTTTAAATTCCTA
236115 AA
194 AA
* *
236117 GTACCGATACTTTGGTGCATATACTTATAAACA-TATCGATACAAATTTCAATAATTCCGGTAGC
1 GTACCGATACTTTGGTACATATACTTATAAA-AGTATCGAT--AAATTTCAACAATTCCGGTAGC
*
236181 TTTTTACTGGTTTTGTCAAATTGAAACCGATTTTGTCAA
63 TTTTTACCGGTTTTGTCAAATTGAAACCGATTTTGTCAA
236220 TTTCCAATCG
Statistics
Matches: 432, Mismatches: 56, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
193 32 0.07
194 1 0.00
195 4 0.01
196 62 0.14
197 333 0.77
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (195 bp):
GTACCGATACTTTGGTACATATACTTATAAAAGTATCGATAAATTTCAACAATTCCGGTAGCTTT
TTACCGGTTTTGTCAAATTGAAACCGATTTTGTCAAATTTAAACCTGTTATATTGTCATGTATCG
ATACATGTGTATAAGGTATCGATACTTTATAGCCGCTATTATTGCAATTCTTTTAAATTCCTAAA
Found at i:236216 original size:20 final size:20
Alignment explanation
Indices: 236191--236243 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
236181 TTTTTACTGG
*
236191 TTTTGTCAAATTGAAACCGA
1 TTTTGTCAAATTCAAACCGA
* * *
236211 TTTTGTCAATTTCCAATCGA
1 TTTTGTCAAATTCAAACCGA
236231 TTTTGTCAAATTC
1 TTTTGTCAAATTC
236244 GTTACCTGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.43
Consensus pattern (20 bp):
TTTTGTCAAATTCAAACCGA
Found at i:236273 original size:20 final size:19
Alignment explanation
Indices: 236190--236269 Score: 56
Period size: 20 Copynumber: 4.0 Consensus size: 19
236180 CTTTTTACTG
**
236190 GTTTTGTCAAATTGAAACC
1 GTTTTGTCAAATTTCAACC
*
236209 GATTTTGTC-AATTTCCAATC
1 G-TTTTGTCAAATTT-CAACC
*
236229 GATTTTGTCAAA-TTCGTTACC
1 G-TTTTGTCAAATTTC--AACC
236250 TGTTTTGTCAAATTTCAACC
1 -GTTTTGTCAAATTTCAACC
236270 TGTTATATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
19 6 0.12
20 24 0.50
21 14 0.29
22 4 0.08
ACGTcount: A:0.26, C:0.19, G:0.12, T:0.42
Consensus pattern (19 bp):
GTTTTGTCAAATTTCAACC
Found at i:238050 original size:30 final size:30
Alignment explanation
Indices: 238014--238086 Score: 137
Period size: 30 Copynumber: 2.4 Consensus size: 30
238004 CGTATGTTCT
238014 TGGAGACCTATAAAGATCTCTGTGTGCTCC
1 TGGAGACCTATAAAGATCTCTGTGTGCTCC
*
238044 TGGAGACCTATAGAGATCTCTGTGTGCTCC
1 TGGAGACCTATAAAGATCTCTGTGTGCTCC
238074 TGGAGACCTATAA
1 TGGAGACCTATAA
238087 TAATTACTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (30 bp):
TGGAGACCTATAAAGATCTCTGTGTGCTCC
Found at i:242738 original size:21 final size:21
Alignment explanation
Indices: 242714--242769 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
242704 TGTCACCCTG
*
242714 AGTATTGATACTCCCTTTGGC
1 AGTATCGATACTCCCTTTGGC
242735 AGTATCGATACTCCCTTTGGC
1 AGTATCGATACTCCCTTTGGC
242756 AGTATCGATACTCC
1 AGTATCGATACTCC
242770 AACCCAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (21 bp):
AGTATCGATACTCCCTTTGGC
Found at i:245834 original size:36 final size:36
Alignment explanation
Indices: 245786--245888 Score: 127
Period size: 36 Copynumber: 2.9 Consensus size: 36
245776 CGATACATCT
* ** * *
245786 TTCCGTTTGATTTGAATCGGAACTGTTGATGCTTCC
1 TTCCGTTCGATTTGAATCGGAACTGCCGATGCCTCA
* *
245822 TTCCGTTCGATTTGACTCGGAAGTGCCGATGCCTCA
1 TTCCGTTCGATTTGAATCGGAACTGCCGATGCCTCA
*
245858 TTCCGTTCGATTTGAATCGGAAGTG-CGATGC
1 TTCCGTTCGATTTGAATCGGAACTGCCGATGC
245889 TTTCTTTCGT
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
35 6 0.10
36 53 0.90
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.35
Consensus pattern (36 bp):
TTCCGTTCGATTTGAATCGGAACTGCCGATGCCTCA
Found at i:251188 original size:7 final size:7
Alignment explanation
Indices: 251176--251206 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
251166 TCTCTTCATG
251176 TTTCCTC
1 TTTCCTC
251183 TTTCCTC
1 TTTCCTC
251190 TTTCCTC
1 TTTCCTC
251197 TTTCCTC
1 TTTCCTC
251204 TTT
1 TTT
251207 TAAATTTAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTCCTC
Found at i:255181 original size:32 final size:31
Alignment explanation
Indices: 255108--255204 Score: 149
Period size: 31 Copynumber: 3.1 Consensus size: 31
255098 GTCCCGAAGG
* * *
255108 ACCTATCCATATGTTCCGAAGAACATAGGTA
1 ACCTGTCCATATGTCCCGAAGGACATAGGTA
*
255139 ACCTGTCCATATGTCCCAAAGGACATAGGTA
1 ACCTGTCCATATGTCCCGAAGGACATAGGTA
255170 ATCCTGTCCATATGTCCCGAAGGACATAGGTA
1 A-CCTGTCCATATGTCCCGAAGGACATAGGTA
255202 ACC
1 ACC
255205 CTCGACTCTT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
31 30 0.50
32 30 0.50
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.24
Consensus pattern (31 bp):
ACCTGTCCATATGTCCCGAAGGACATAGGTA
Found at i:256181 original size:19 final size:22
Alignment explanation
Indices: 256131--256183 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 22
256121 CGACCCTTAC
*
256131 GGTATCGATACCTCTACGCTAG
1 GGTATCGATACCTCTACGCCAG
*
256153 GGTATTGATACC-CTAC-CCA-
1 GGTATCGATACCTCTACGCCAG
256172 GGTATCGATACC
1 GGTATCGATACC
256184 AAAATTAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 11 0.39
20 2 0.07
21 4 0.14
22 11 0.39
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (22 bp):
GGTATCGATACCTCTACGCCAG
Found at i:256247 original size:21 final size:22
Alignment explanation
Indices: 256208--256254 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
256198 TGTTCCCCTA
256208 TATCGATACCCTCCACATA-GG
1 TATCGATACCCTCCACATAGGG
*
256229 TATCGATACCTCTTC-CATAGGG
1 TATCGATACC-CTCCACATAGGG
256251 TATC
1 TATC
256255 TATATTGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (22 bp):
TATCGATACCCTCCACATAGGG
Found at i:261290 original size:3 final size:3
Alignment explanation
Indices: 261284--261315 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
261274 CAGGAGGAAG
*
261284 GAA GAA GAA GAA GAA GAG GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
261316 GAACTCTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:264498 original size:32 final size:31
Alignment explanation
Indices: 264418--264514 Score: 131
Period size: 31 Copynumber: 3.1 Consensus size: 31
264408 TGTCCGAAGG
* * *
264418 ACCTATCCATATATTCCGAAGAACATAGGTA
1 ACCTGTCCATATATCCCGAAGGACATAGGTA
*
264449 ACCTGTCCATATGTCCCGAAGGACATAGGTA
1 ACCTGTCCATATATCCCGAAGGACATAGGTA
**
264480 ATCCTGTTTATATATCCCGAAGGACATAGGTA
1 A-CCTGTCCATATATCCCGAAGGACATAGGTA
264512 ACC
1 ACC
264515 CTCAACTCTT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 30 0.52
32 28 0.48
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (31 bp):
ACCTGTCCATATATCCCGAAGGACATAGGTA
Found at i:271490 original size:19 final size:19
Alignment explanation
Indices: 271458--271505 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
271448 AATGATTTGG
*
271458 TTTTGAAAGCCAAAGATG-A
1 TTTTGAAAACCAAA-ATGAA
*
271477 TTTTGAAAATCAAAATGAAA
1 TTTTGAAAACCAAAATG-AA
271497 TTTTGAAAA
1 TTTTGAAAA
271506 ATGATTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.12
19 12 0.48
20 10 0.40
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (19 bp):
TTTTGAAAACCAAAATGAA
Found at i:276752 original size:34 final size:35
Alignment explanation
Indices: 276707--276812 Score: 110
Period size: 34 Copynumber: 3.1 Consensus size: 35
276697 AAAACATCAA
*
276707 ATATCTCTAAATATCTGATAAAC-GTAATAATCTG
1 ATATCTATAAATATCTGATAAACTGTAATAATCTG
* *
276741 ATATCTATAAATATCTTAT-AACTGTAATCATCTG
1 ATATCTATAAATATCTGATAAACTGTAATAATCTG
* * * **
276775 ATATTTTTAAATATTTGAT-AACTAAAAATAATCTG
1 ATATCTATAAATATCTGATAAACT-GTAATAATCTG
276810 ATA
1 ATA
276813 ACTGTAAACA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
33 3 0.05
34 46 0.77
35 11 0.18
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (35 bp):
ATATCTATAAATATCTGATAAACTGTAATAATCTG
Found at i:276756 original size:17 final size:18
Alignment explanation
Indices: 276732--276820 Score: 67
Period size: 17 Copynumber: 5.1 Consensus size: 18
276722 TGATAAACGT
*
276732 AATAATCTGATATCTATA
1 AATAATCTGATAACTATA
* *
276750 AAT-ATCTTATAACTGT-
1 AATAATCTGATAACTATA
* ** *
276766 AATCATCTGATATTTTTA
1 AATAATCTGATAACTATA
* *
276784 AAT-ATTTGATAACTAAA
1 AATAATCTGATAACTATA
*
276801 AATAATCTGATAACTGTA
1 AATAATCTGATAACTATA
276819 AA
1 AA
276821 CATTTAGATT
Statistics
Matches: 53, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
16 3 0.06
17 31 0.58
18 19 0.36
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (18 bp):
AATAATCTGATAACTATA
Found at i:276950 original size:20 final size:20
Alignment explanation
Indices: 276913--276950 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
276903 AGAAATATTC
*
276913 CATACTGAAAATTTATAAAT
1 CATACTGAAAATTAATAAAT
276933 CATACTGGAAAA-TAATAA
1 CATACT-GAAAATTAATAA
276951 GCTTTAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.29
Consensus pattern (20 bp):
CATACTGAAAATTAATAAAT
Found at i:282629 original size:32 final size:32
Alignment explanation
Indices: 282562--282646 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 32
282552 TTTGCTCCAA
* * *
282562 TATGCTTTATCTAAATGTC-ATGCTAACTCTGC
1 TATGCATTATCTAAATG-CAATACTAACTCTAC
282594 TATGCATTATCTAAATGCAATACTGAA-TCTAC
1 TATGCATTATCTAAATGCAATACT-AACTCTAC
* *
282626 TATGCATTATCTGAACGCAAT
1 TATGCATTATCTAAATGCAAT
282647 GATGACTCTA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
31 1 0.02
32 43 0.93
33 2 0.04
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (32 bp):
TATGCATTATCTAAATGCAATACTAACTCTAC
Found at i:289040 original size:21 final size:20
Alignment explanation
Indices: 289014--289054 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
289004 CAACTTATTT
*
289014 CAAAAATCAAAGTAAAAAGGA
1 CAAAAAT-AAAGAAAAAAGGA
*
289035 CAAAAATGAAGAAAAAAGGA
1 CAAAAATAAAGAAAAAAGGA
289055 TGAAAACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.68, C:0.07, G:0.17, T:0.07
Consensus pattern (20 bp):
CAAAAATAAAGAAAAAAGGA
Found at i:295774 original size:84 final size:85
Alignment explanation
Indices: 295661--295829 Score: 252
Period size: 84 Copynumber: 2.0 Consensus size: 85
295651 TTTAAAAATT
* *
295661 ATATTATTAAATGAAAATTATTTAGCAAACATACTTTTTAAAATTAATATAAAAATAAAAATACT
1 ATATTATTAAATGAAAATTATATAGCAAACATACTTTTTAAAATTAATATAAAAATAAAAATACC
*
295726 TTAATTTA-AAAAAAAATAA
66 TCAATTTAGAAAAAAAATAA
* * *
295745 ATATTATTAAAAT-AAAATTATATATCAAACATAGTTTTTAAAATTAATATAAAAGTAAAAATAC
1 ATATTATT-AAATGAAAATTATATAGCAAACATACTTTTTAAAATTAATATAAAAATAAAAATAC
*
295809 CTCAATTTAGGAAAAAAATAA
65 CTCAATTTAGAAAAAAAATAA
295830 TTTTTGAGAA
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
84 62 0.82
85 14 0.18
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (85 bp):
ATATTATTAAATGAAAATTATATAGCAAACATACTTTTTAAAATTAATATAAAAATAAAAATACC
TCAATTTAGAAAAAAAATAA
Found at i:298923 original size:28 final size:29
Alignment explanation
Indices: 298869--298924 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
298859 TTTAACCCAT
* *
298869 AACTTTTCAAAATTACTAAATAGGTCCCC
1 AACTTTTAAAAATTACAAAATAGGTCCCC
298898 AACTTTTAAAAATTACAAAAT-GGTCCC
1 AACTTTTAAAAATTACAAAATAGGTCCC
298925 AAAATTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.30
Consensus pattern (29 bp):
AACTTTTAAAAATTACAAAATAGGTCCCC
Found at i:298933 original size:29 final size:29
Alignment explanation
Indices: 298864--298932 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
298854 ATGCATTTAA
* *
298864 CCCATAACTTTTCAAAATTACTAAATAGGT
1 CCCA-AACTTTTAAAAATTACAAAATAGGT
*
298894 CCCCAACTTTTAAAAATTACAAAAT-GGT
1 CCCAAACTTTTAAAAATTACAAAATAGGT
*
298922 CCCAAAATTTT
1 CCCAAACTTTT
298933 TCTAAGGCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 12 0.35
29 19 0.56
30 3 0.09
ACGTcount: A:0.41, C:0.22, G:0.06, T:0.32
Consensus pattern (29 bp):
CCCAAACTTTTAAAAATTACAAAATAGGT
Found at i:307566 original size:22 final size:22
Alignment explanation
Indices: 307541--307596 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
307531 GTGCTATGGT
**
307541 ACTTTATTATTAGTGCGGATGC
1 ACTTTATTATTAGTGCAAATGC
*
307563 ACTTT-TGATTTAGTGCAAATGC
1 ACTTTATTA-TTAGTGCAAATGC
*
307585 ACTTTAGTATTA
1 ACTTTATTATTA
307597 TATCTATGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 2 0.07
22 24 0.89
23 1 0.04
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (22 bp):
ACTTTATTATTAGTGCAAATGC
Found at i:318115 original size:24 final size:23
Alignment explanation
Indices: 318023--318131 Score: 76
Period size: 24 Copynumber: 4.5 Consensus size: 23
318013 GAATATTTTA
*
318023 TCTGATTTCTGATTTGAATTATGT
1 TCTGATTT-TGATCTGAATTATGT
* * * *
318047 TTTGACATCTGATCTGAAATATGT
1 TCTGA-TTTTGATCTGAATTATGT
* * *
318071 TCTGATTCATAACCT-AGATTATGT
1 TCTGATT-TTGATCTGA-ATTATGT
318095 TCTGATATTTGATCTGAATTATGT
1 TCTGAT-TTTGATCTGAATTATGT
*
318119 TTTGATTTCTGAT
1 TCTGATTT-TGAT
318132 ATCTCCGTTT
Statistics
Matches: 64, Mismatches: 15, Indels: 12
0.70 0.16 0.13
Matches are distributed among these distances:
23 4 0.06
24 57 0.89
25 3 0.05
ACGTcount: A:0.25, C:0.11, G:0.16, T:0.49
Consensus pattern (23 bp):
TCTGATTTTGATCTGAATTATGT
Found at i:324395 original size:19 final size:19
Alignment explanation
Indices: 324354--324396 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
324344 TATAATTCGG
*
324354 AAAAATGATTTTTTAAAGG
1 AAAAATGATTTTTTAAAGA
*
324373 AAAAATGATTTTTTAGAGA
1 AAAAATGATTTTTTAAAGA
324392 AAAAA
1 AAAAA
324397 ATGGCCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (19 bp):
AAAAATGATTTTTTAAAGA
Found at i:333026 original size:18 final size:19
Alignment explanation
Indices: 332991--333028 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
332981 AATTTGAGTA
*
332991 TTTAAAAATTATTTTATATT
1 TTTAAAAATTA-TATATATT
333011 TTTAAAAATTA-ATATATT
1 TTTAAAAATTATATATATT
333029 AATTATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAAAAATTATATATATT
Found at i:334196 original size:2 final size:2
Alignment explanation
Indices: 334191--334219 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
334181 ATTAAGTGTA
334191 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
334220 TTTTATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:335998 original size:20 final size:20
Alignment explanation
Indices: 335970--336054 Score: 116
Period size: 20 Copynumber: 4.2 Consensus size: 20
335960 GGTCAAAGTC
*
335970 AACGATCAACATGTCAGGTA
1 AACGGTCAACATGTCAGGTA
* *
335990 AACGGTCAATATGTTAGGTA
1 AACGGTCAACATGTCAGGTA
* *
336010 AACGGTTAACATGTCAGGTC
1 AACGGTCAACATGTCAGGTA
*
336030 AACGGTCAACATGTCAGGTC
1 AACGGTCAACATGTCAGGTA
336050 AACGG
1 AACGG
336055 GTCGGGTCAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (20 bp):
AACGGTCAACATGTCAGGTA
Found at i:346785 original size:34 final size:35
Alignment explanation
Indices: 346747--346814 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 35
346737 GAATTAAAAT
346747 ATATTATTCAAATTTTAAAATAAAAA-TAAATTAC
1 ATATTATTCAAATTTTAAAATAAAAACTAAATTAC
346781 ATATTATTCAAATTTTAAAATAAAAACTAAATTA
1 ATATTATTCAAATTTTAAAATAAAAACTAAATTA
346815 TCTCGTTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 26 0.79
35 7 0.21
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (35 bp):
ATATTATTCAAATTTTAAAATAAAAACTAAATTAC
Found at i:348503 original size:24 final size:27
Alignment explanation
Indices: 348470--348518 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
348460 TTCAAATATT
348470 TTTTAATTC-AAT-T-TATATTTATGA
1 TTTTAATTCAAATATCTATATTTATGA
*
348494 TTTTATTTCAAATATCTATATTTAT
1 TTTTAATTCAAATATCTATATTTAT
348519 TATATGTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 1 0.05
27 9 0.43
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTTAATTCAAATATCTATATTTATGA
Found at i:351285 original size:23 final size:23
Alignment explanation
Indices: 351237--351288 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
351227 GTGCAACAAA
* *
351237 ACAAAGGCATAGATAAATGTGCC
1 ACAAAGGCATAGATAAACGTACC
*
351260 ACAAAGGCATAGATAAACGTATC
1 ACAAAGGCATAGATAAACGTACC
351283 ACAAAG
1 ACAAAG
351289 AAAAAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.48, C:0.17, G:0.19, T:0.15
Consensus pattern (23 bp):
ACAAAGGCATAGATAAACGTACC
Found at i:354531 original size:20 final size:21
Alignment explanation
Indices: 354506--354544 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
354496 TTTAGCTCTA
*
354506 ATTCAT-CCAGTATCGATATT
1 ATTCATCCCAATATCGATATT
354526 ATTCATCCCAATATCGATA
1 ATTCATCCCAATATCGATA
354545 CTCAAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (21 bp):
ATTCATCCCAATATCGATATT
Found at i:359463 original size:30 final size:30
Alignment explanation
Indices: 359427--359490 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
359417 GTTAATGAAC
359427 TCAATGTTAGAAATGAAAATCAACATATCA
1 TCAATGTTAGAAATGAAAATCAACATATCA
* * *
359457 TCAATGTTAGAACTGTAAATCAACATGTCA
1 TCAATGTTAGAAATGAAAATCAACATATCA
359487 TCAA
1 TCAA
359491 CATGCAGGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (30 bp):
TCAATGTTAGAAATGAAAATCAACATATCA
Found at i:362613 original size:21 final size:21
Alignment explanation
Indices: 362566--362682 Score: 138
Period size: 21 Copynumber: 5.9 Consensus size: 21
362556 AGTCGAGGGT
*
362566 TACAGTGGTCCTACGGGAC-A
1 TACAGTGGTCCTTCGGGACAA
362586 T--AGTGGTCCTTCGGGACAA
1 TACAGTGGTCCTTCGGGACAA
**
362605 TACAGTGGTCCTTCAAGACAA
1 TACAGTGGTCCTTCGGGACAA
362626 TACAGTGGTCCTTCGGGACAA
1 TACAGTGGTCCTTCGGGACAA
* *
362647 TACAGTAGTCCTACGGGAC-A
1 TACAGTGGTCCTTCGGGACAA
*
362667 T--TGTGGTCCTTCGGGA
1 TACAGTGGTCCTTCGGGA
362683 AAAATTTCAA
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
18 27 0.32
19 2 0.02
20 3 0.04
21 52 0.62
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (21 bp):
TACAGTGGTCCTTCGGGACAA
Found at i:363437 original size:22 final size:22
Alignment explanation
Indices: 363412--363457 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
363402 TGTAGCAGTA
363412 CTGTAGCAGGGGAATC-AGTTCC
1 CTGTAGCAGGGGAATCGA-TTCC
*
363434 CTGTAGTAGGGGAATCGATTCC
1 CTGTAGCAGGGGAATCGATTCC
363456 CT
1 CT
363458 ATTTGTAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (22 bp):
CTGTAGCAGGGGAATCGATTCC
Found at i:368870 original size:21 final size:20
Alignment explanation
Indices: 368753--368890 Score: 122
Period size: 21 Copynumber: 6.9 Consensus size: 20
368743 CAAGAGTTAC
*
368753 AGTGGTCCTACGGGAC-AT-
1 AGTGGTCCTTCGGGACAATA
* * *
368771 AGTGGTTCTTCAGAACAATA
1 AGTGGTCCTTCGGGACAATA
368791 CAGTGGTCCTTCGGGACAATA
1 -AGTGGTCCTTCGGGACAATA
* **
368812 ATGTGATCCTTCGGGATTATA
1 A-GTGGTCCTTCGGGACAATA
368833 ATGTGGTCCTTCGGGACAATA
1 A-GTGGTCCTTCGGGACAATA
* * *
368854 CAGTGGTCCTACAGGAC-GT-
1 -AGTGGTCCTTCGGGACAATA
368873 AGTGGTCCTTCGGGACAA
1 AGTGGTCCTTCGGGACAA
368891 ATTTCAGTGC
Statistics
Matches: 95, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
18 26 0.27
19 2 0.02
20 2 0.02
21 64 0.67
22 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (20 bp):
AGTGGTCCTTCGGGACAATA
Found at i:369712 original size:14 final size:14
Alignment explanation
Indices: 369693--369721 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
369683 TCTGTTCATC
369693 ACTGTTCATACCGT
1 ACTGTTCATACCGT
369707 ACTGTTCATACCGT
1 ACTGTTCATACCGT
369721 A
1 A
369722 TTTTATTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (14 bp):
ACTGTTCATACCGT
Found at i:373017 original size:39 final size:42
Alignment explanation
Indices: 372965--373044 Score: 94
Period size: 39 Copynumber: 2.0 Consensus size: 42
372955 GAAAATTTCA
372965 AAATTATAATTTTAAAAATA-TGTTTAT-AAT-TTTAAAAAT
1 AAATTATAATTTTAAAAATATTGTTTATAAATATTTAAAAAT
** * * *
373004 AAATTATTTTTTTAGAATTATTTTTTATAAATATTTAAAAA
1 AAATTATAATTTTAAAAATATTGTTTATAAATATTTAAAAA
373045 AATATTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
39 16 0.48
40 6 0.18
41 3 0.09
42 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (42 bp):
AAATTATAATTTTAAAAATATTGTTTATAAATATTTAAAAAT
Found at i:373038 original size:13 final size:14
Alignment explanation
Indices: 373002--373039 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
372992 AATTTTAAAA
373002 ATAAATTATTTTTT
1 ATAAATTATTTTTT
373016 -TAGAATTATTTTTT
1 ATA-AATTATTTTTT
373030 ATAAA-TATTT
1 ATAAATTATTT
373040 AAAAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.32
14 13 0.59
15 2 0.09
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (14 bp):
ATAAATTATTTTTT
Found at i:375425 original size:25 final size:25
Alignment explanation
Indices: 375377--375425 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
375367 TAGGCAACGG
*
375377 ATTTATAAAAATTTAAGATAAATAA
1 ATTTATAAAAATTTAAGAGAAATAA
375402 ATTTAT-AAAATTTAAGAGATAATA
1 ATTTATAAAAATTTAAGAGA-AATA
375426 TAAATGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (25 bp):
ATTTATAAAAATTTAAGAGAAATAA
Found at i:378195 original size:2 final size:2
Alignment explanation
Indices: 378183--378250 Score: 127
Period size: 2 Copynumber: 34.0 Consensus size: 2
378173 TAATGTTAGC
*
378183 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
378225 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
378251 ATAAAATAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:380427 original size:216 final size:216
Alignment explanation
Indices: 380134--380714 Score: 871
Period size: 216 Copynumber: 2.7 Consensus size: 216
380124 TGTATTGTTC
* * * * *
380134 TGAGTCTAATATCCTCCGACGTGAAGTTGAAATTGGCTATGGAACTGGGAAATTGTTTGTTGACA
1 TGAGTCTAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAACTGGGAAGTTGTTTGTTGACA
** * * *
380199 GCCAGCCACCCCTTCGTTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCTAATATCCTTCGCTGTGA
66 ATCAGTCACCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGA
*
380264 AGTTGAAATTGACTCTGAATGAAACTA-AAAAGTTGTTTGTTGACAATCAGCCGCCCTTTCATTG
131 AGTTGAAATTGACTCTGAATGAAAC-AGAAAAGTTGTTTGTTGACAATCAGCCGCCCCTTCATTG
*
380328 TGAAGTTGAGCTTGTGTTGTCT
195 TGAAGTTAAGCTTGTGTTGTCT
* * *
380350 TGAGTCTAATATCCTTCGGTGTGAAGTTAAAATTGACTCTGAAACTGGGAAGTTGTTTGTTGACA
1 TGAGTCTAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAACTGGGAAGTTGTTTGTTGACA
* *
380415 ATCAGTCACCCCTTCATTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCCATCGCTGTGA
66 ATCAGTCACCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGA
* *
380480 AGTTGAAATTGACTCTAAATGAAACAGAAAAGTTGTTTGTTGACAATCAGCCGCCCCTTCTTTGT
131 AGTTGAAATTGACTCTGAATGAAACAGAAAAGTTGTTTGTTGACAATCAGCCGCCCCTTCATTGT
380545 GAAGTTAAGCTTGTGTTGTCT
196 GAAGTTAAGCTTGTGTTGTCT
** * * * *
380566 TGAGT-TCAATATTTTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTTGTTGAC
1 TGAGTCT-AATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAACTGGGAAGTTGTTTGTTGAC
* *
380630 AATCAGTCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCCTTCGTTGTG
65 AATCAGTCACCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTG
380695 AAGTTGAAATTTG-CTCTGAA
130 AAGTTGAAA-TTGACTCTGAA
380715 ACTGGGAAGC
Statistics
Matches: 330, Mismatches: 32, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
215 2 0.01
216 325 0.98
217 3 0.01
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (216 bp):
TGAGTCTAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAACTGGGAAGTTGTTTGTTGACA
ATCAGTCACCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCCTTCGCTGTGA
AGTTGAAATTGACTCTGAATGAAACAGAAAAGTTGTTTGTTGACAATCAGCCGCCCCTTCATTGT
GAAGTTAAGCTTGTGTTGTCT
Found at i:380453 original size:106 final size:106
Alignment explanation
Indices: 380134--380723 Score: 736
Period size: 106 Copynumber: 5.5 Consensus size: 106
380124 TGTATTGTTC
* * * * *
380134 TGAGTCTAATATCCTCCGAC-GTGAAGTTGAAATTGGCTATGGAACTGGGAAATTGTTTGTTGAC
1 TGAGTCTAATATCCTTCG-CTGTGAAGTTGAAATTGACTCTGAAACTGGGAAGTTGTTTGTTGAC
** * * *
380198 AGCCAGCCACCCCTTCGTTGTGAAGTTGAGCTTGTGCTGTCT
65 AATCAGCCGCCCCTTCATTGTGAAGTTGAGCTTGTGTTGTCT
***
380240 TGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTAAAAAGTTGTTTGTT
1 TGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTC----TGAAACTGGGAAGTTGTTTGTT
*
380305 GACAATCAGCCGCCCTTTCATTGTGAAGTTGAGCTTGTGTTGTCT
62 GACAATCAGCCGCCCCTTCATTGTGAAGTTGAGCTTGTGTTGTCT
* *
380350 TGAGTCTAATATCCTTCGGTGTGAAGTTAAAATTGACTCTGAAACTGGGAAGTTGTTTGTTGACA
1 TGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAACTGGGAAGTTGTTTGTTGACA
* *
380415 ATCAGTCACCCCTTCATTGTGAAGTTGAGCTTGTGTTGTCT
66 ATCAGCCGCCCCTTCATTGTGAAGTTGAGCTTGTGTTGTCT
* * * **
380456 TGAGTCCAATATCCATCGCTGTGAAGTTGAAATTGACTCTAAATGAAACAGAAAAGTTGTTTGTT
1 TGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTC----TGAAACTGGGAAGTTGTTTGTT
* *
380521 GACAATCAGCCGCCCCTTCTTTGTGAAGTTAAGCTTGTGTTGTCT
62 GACAATCAGCCGCCCCTTCATTGTGAAGTTGAGCTTGTGTTGTCT
** * * * * *
380566 TGAGT-TCAATATTTTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTTGTTGAC
1 TGAGTCT-AATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAACTGGGAAGTTGTTTGTTGAC
* *
380630 AATCAGTCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCT
65 AATCAGCCGCCCCTTCATTGTGAAGTTGAGCTTGTGTTGTCT
* *
380672 TGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTTG-CTCTGAAACTGGGAAG
1 TGAGTCTAATATCCTTCGCTGTGAAGTTGAAA-TTGACTCTGAAACTGGGAAG
380724 CCCCTTTGTC
Statistics
Matches: 418, Mismatches: 54, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
105 1 0.00
106 230 0.55
107 3 0.01
110 184 0.44
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (106 bp):
TGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAACTGGGAAGTTGTTTGTTGACA
ATCAGCCGCCCCTTCATTGTGAAGTTGAGCTTGTGTTGTCT
Found at i:381868 original size:15 final size:14
Alignment explanation
Indices: 381845--381894 Score: 64
Period size: 15 Copynumber: 3.4 Consensus size: 14
381835 ACCCACCTTA
381845 TTTTTCTCTTTTTT
1 TTTTTCTCTTTTTT
*
381859 TTTGTTCTCTTTTCTC
1 TTT-TTCTCTTTT-TT
381875 TTTTTCTCTTTTTT
1 TTTTTCTCTTTTTT
381889 CTTTTT
1 -TTTTT
381895 TCAATTTAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 4 0.13
15 23 0.74
16 4 0.13
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTTTCTCTTTTTT
Found at i:381894 original size:7 final size:7
Alignment explanation
Indices: 381845--381896 Score: 52
Period size: 7 Copynumber: 7.0 Consensus size: 7
381835 ACCCACCTTA
381845 TTTTTCTC
1 TTTTT-TC
381853 TTTTTT-
1 TTTTTTC
381859 TTTGTTCTC
1 TTT-TT-TC
*
381868 TTTTCTC
1 TTTTTTC
381875 TTTTTCTC
1 TTTTT-TC
381883 TTTTTTC
1 TTTTTTC
381890 TTTTTTC
1 TTTTTTC
381897 AATTTAGGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
6 3 0.08
7 18 0.47
8 14 0.37
9 3 0.08
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (7 bp):
TTTTTTC
Found at i:381962 original size:14 final size:14
Alignment explanation
Indices: 381943--381982 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
381933 TTTTTCTCTC
* *
381943 TTTTTTGTTTTTGT
1 TTTTTTCTTTTTCT
381957 TTTTTTCTTTTTCT
1 TTTTTTCTTTTTCT
*
381971 TTTTCTCTTTTT
1 TTTTTTCTTTTT
381983 TCCAAACTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (14 bp):
TTTTTTCTTTTTCT
Found at i:381984 original size:21 final size:20
Alignment explanation
Indices: 381944--381984 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
381934 TTTTCTCTCT
* *
381944 TTTTTGTTTTTGTTTTTTTC
1 TTTTTCTTTTTCTTTTTTTC
381964 TTTTTCTTTTTCTCTTTTTTC
1 TTTTTCTTTTTCT-TTTTTTC
381985 CAAACTTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (20 bp):
TTTTTCTTTTTCTTTTTTTC
Found at i:391803 original size:17 final size:17
Alignment explanation
Indices: 391783--391815 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
391773 AAGTAAATGA
*
391783 AATAAATAAATAAAAAG
1 AATAAAAAAATAAAAAG
391800 AATAAAAAAATAAAAA
1 AATAAAAAAATAAAAA
391816 TAAAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (17 bp):
AATAAAAAAATAAAAAG
Found at i:391814 original size:8 final size:8
Alignment explanation
Indices: 391782--391815 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
391772 AAAGTAAATG
*
391782 AAATAAAT
1 AAATAAAA
391790 AAATAAAA
1 AAATAAAA
391798 AGAATAAAA
1 A-AATAAAA
391807 AAATAAAA
1 AAATAAAA
391815 A
1 A
391816 TAAAAATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (8 bp):
AAATAAAA
Found at i:391985 original size:17 final size:19
Alignment explanation
Indices: 391958--391992 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
391948 AATAAAATAT
391958 AAAAGTATAATA-ATAATG
1 AAAAGTATAATATATAATG
391976 AAAA-TATAATATATAAT
1 AAAAGTATAATATATAAT
391993 AATAGTAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (19 bp):
AAAAGTATAATATATAATG
Found at i:393659 original size:2 final size:2
Alignment explanation
Indices: 393648--393686 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
393638 GAGGAAAAAG
393648 GA GA -A GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
393687 CAAAGATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:394323 original size:41 final size:41
Alignment explanation
Indices: 394258--394541 Score: 193
Period size: 41 Copynumber: 6.9 Consensus size: 41
394248 TATACGCTTT
* *
394258 AGACTCGTACTTTAGTGTCATTTTTATACAAACACCACTAA
1 AGACTCGTACTTTAGTGGCGTTTTTATACAAACACCACTAA
* * **
394299 AGACTCGTACTTTAGTAGCGTTTTTTGTACAAACGA-TGCTAA
1 AGACTCGTACTTTAGTGGCG-TTTTTATACAAAC-ACCACTAA
* ** * *
394341 AGACTCGTACTTCAGTGGC-TTTTTATACAAATGTCGA-TAT
1 AGACTCGTACTTTAGTGGCGTTTTTATACAAA-CACCACTAA
* * * *
394381 A-ACTCGTACTTTAGTGGCTTTTTTATACAAACGCTGA-TAT
1 AGACTCGTACTTTAGTGGCGTTTTTATACAAACAC-CACTAA
* * * ** ** *
394421 GGACTCGTACTTTAGTGGCACTTTTGTTTACAAATGCCGTTAT
1 AGACTCGTACTTTAGTGGC-GTTTT-TATACAAACACCACTAA
* ** *
394464 AGACTCAT-CTTTAGTGGCGTTTTTATACAAACGTCGCTAA
1 AGACTCGTACTTTAGTGGCGTTTTTATACAAACACCACTAA
* *
394504 AGACTCGTACTTTAATGGCGTTTGTGTTTACAAACACC
1 AGACTCGTACTTTAGTGGCGTTT-T-TATACAAACACC
394542 GCAAATTTAC
Statistics
Matches: 194, Mismatches: 36, Indels: 24
0.76 0.14 0.09
Matches are distributed among these distances:
39 17 0.09
40 50 0.26
41 51 0.26
42 48 0.25
43 28 0.14
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (41 bp):
AGACTCGTACTTTAGTGGCGTTTTTATACAAACACCACTAA
Found at i:394404 original size:122 final size:123
Alignment explanation
Indices: 394258--394541 Score: 299
Period size: 122 Copynumber: 2.3 Consensus size: 123
394248 TATACGCTTT
* * *
394258 AGACTCGTACTTTAGTGTCATTTTTATACAAACACCACTAAAGACTCGTACTTTAGTAGC-GTTT
1 AGACTCGTACTTTAGTGGCTTTTTTATACAAACACCA-TAAAGACTCGTACTTTAGTAGCACTTT
* * * *
394322 T-TTGTACAAACGATGCTAAAGACTCGTACTTCAGTGGC-TTTTTATACAAATGTCGATAT
65 TGTT-TACAAACGACGCTAAAGACTCAT-CTTCAGTGGCGTTTTTATACAAACGTCGATAA
* * ** *
394381 A-ACTCGTACTTTAGTGGCTTTTTTATACAAACGCTGATATGGACTCGTACTTTAGTGGCACTTT
1 AGACTCGTACTTTAGTGGCTTTTTTATACAAACAC-CATAAAGACTCGTACTTTAGTAGCACTTT
* * * * * *
394445 TGTTTACAAATGCCGTTATAGACTCATCTTTAGTGGCGTTTTTATACAAACGTCGCTAA
65 TGTTTACAAACGACGCTAAAGACTCATCTTCAGTGGCGTTTTTATACAAACGTCGATAA
*
394504 AGACTCGTACTTTAATGGCGTTTGTGTT-TACAAACACC
1 AGACTCGTACTTTAGTGGC-TTT-T-TTATACAAACACC
394542 GCAAATTTAC
Statistics
Matches: 132, Mismatches: 21, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
122 58 0.44
123 42 0.32
124 18 0.14
125 3 0.02
126 9 0.07
127 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (123 bp):
AGACTCGTACTTTAGTGGCTTTTTTATACAAACACCATAAAGACTCGTACTTTAGTAGCACTTTT
GTTTACAAACGACGCTAAAGACTCATCTTCAGTGGCGTTTTTATACAAACGTCGATAA
Found at i:394489 original size:83 final size:81
Alignment explanation
Indices: 394258--394522 Score: 286
Period size: 83 Copynumber: 3.2 Consensus size: 81
394248 TATACGCTTT
* * ** * *
394258 AGACTCGTACTTTAGTGTCATTTTTATACAAACACC-ACTAAAGACTCGTACTTTAGTAGCGTTT
1 AGACTCGTACTTTAGTGGCCTTTTTATACAAATGCCGA-TATAGACTCGTACTTTAGTGGCG-TT
*
394322 TTTGTACAAACGATGCTAA
64 TTTATACAAACG-TGCTAA
* * *
394341 AGACTCGTACTTCAGTGG-CTTTTTATACAAATGTCGATATA-ACTCGTACTTTAGTGGCTTTTT
1 AGACTCGTACTTTAGTGGCCTTTTTATACAAATGCCGATATAGACTCGTACTTTAGTGGCGTTTT
* *
394404 TATACAAACGCTGATAT
66 TATACAAACG-TGCTAA
* * * *
394421 GGACTCGTACTTTAGTGGCACTTTTGTTTACAAATGCCGTTATAGACTCAT-CTTTAGTGGCGTT
1 AGACTCGTACTTTAGTGGC-CTTTT-TATACAAATGCCGATATAGACTCGTACTTTAGTGGCGTT
394485 TTTATACAAACGTCGCTAA
64 TTTATACAAACGT-GCTAA
*
394504 AGACTCGTACTTTAATGGC
1 AGACTCGTACTTTAGTGGC
394523 GTTTGTGTTT
Statistics
Matches: 152, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
80 33 0.22
81 16 0.11
82 22 0.14
83 76 0.50
84 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.37
Consensus pattern (81 bp):
AGACTCGTACTTTAGTGGCCTTTTTATACAAATGCCGATATAGACTCGTACTTTAGTGGCGTTTT
TATACAAACGTGCTAA
Found at i:396704 original size:43 final size:42
Alignment explanation
Indices: 396641--396752 Score: 154
Period size: 44 Copynumber: 2.6 Consensus size: 42
396631 AGCGGCGTGC
*
396641 GGTGTTGATATTTAGTGGCGTTTTTAGGATAAACGCCGCAAGA
1 GGTGTTGATATTTAGCGGCGTTTTTA-GATAAACGCCGCAAGA
*
396684 GGTGTTGATATTTAGCGGCGTTTTTTTAGATAAACGCCGCAATA
1 GGTGTTGATATTTAGCGGCG--TTTTTAGATAAACGCCGCAAGA
*
396728 GGT-TATGATGTTTAGCGGCGTTTTT
1 GGTGT-TGATATTTAGCGGCGTTTTT
396753 CTCTAAAACG
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
42 5 0.08
43 20 0.32
44 32 0.51
45 6 0.10
ACGTcount: A:0.22, C:0.12, G:0.29, T:0.38
Consensus pattern (42 bp):
GGTGTTGATATTTAGCGGCGTTTTTAGATAAACGCCGCAAGA
Found at i:396724 original size:44 final size:44
Alignment explanation
Indices: 396641--396838 Score: 183
Period size: 43 Copynumber: 4.6 Consensus size: 44
396631 AGCGGCGTGC
*
396641 GGTGTTGATATTTAGTGGCG-TTTT-TAGGATAAACGCCGCAAG-A
1 GGTGTTGATATTTAGCGGCGTTTTTCTA-GATAAACGCCGC-AGTA
* *
396684 GGTGTTGATATTTAGCGGCGTTTTTTTAGATAAACGCCGCAATA
1 GGTGTTGATATTTAGCGGCGTTTTTCTAGATAAACGCCGCAGTA
* ** *
396728 GGT-TATGATGTTTAGCGGCGTTTTTCTCTA-AAACGTCGCAGTA
1 GGTGT-TGATATTTAGCGGCGTTTTTCTAGATAAACGCCGCAGTA
* * * * * *
396771 GGTTTTGATGTTTTGTGGCGTTTTTCT-CACAAACGCCGCAGTA
1 GGTGTTGATATTTAGCGGCGTTTTTCTAGATAAACGCCGCAGTA
* * *
396814 GGTATTGATTTTTTGCGGCGTTTTT
1 GGTGTTGATATTTAGCGGCGTTTTT
396839 GCAAAAACAC
Statistics
Matches: 134, Mismatches: 15, Indels: 12
0.83 0.09 0.07
Matches are distributed among these distances:
42 1 0.01
43 89 0.66
44 42 0.31
45 2 0.01
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (44 bp):
GGTGTTGATATTTAGCGGCGTTTTTCTAGATAAACGCCGCAGTA
Found at i:397273 original size:21 final size:21
Alignment explanation
Indices: 397249--397342 Score: 107
Period size: 21 Copynumber: 4.5 Consensus size: 21
397239 TGCTGATATA
*
397249 CTGCTTCTCTCTGTGCTGCCG
1 CTGCTTCTCTCTGTGCTACCG
* *
397270 CTGCTTCTCTCTGTGTTACCA
1 CTGCTTCTCTCTGTGCTACCG
*
397291 CTGCTTCTCTCTGTGTTACCG
1 CTGCTTCTCTCTGTGCTACCG
* * * *
397312 CTGCTTTTTTCTCTGCTTCCG
1 CTGCTTCTCTCTGTGCTACCG
*
397333 CTGCTGCTCT
1 CTGCTTCTCT
397343 GGCTGCATCT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 61 1.00
ACGTcount: A:0.03, C:0.35, G:0.18, T:0.44
Consensus pattern (21 bp):
CTGCTTCTCTCTGTGCTACCG
Found at i:397378 original size:21 final size:21
Alignment explanation
Indices: 397321--397379 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
397311 GCTGCTTTTT
397321 TCTCTGCTTCCGC-TGCTGCTC
1 TCTCTGCTTCC-CTTGCTGCTC
** * **
397342 TGGCTGCATCTGTTGCTGCTC
1 TCTCTGCTTCCCTTGCTGCTC
397363 TCTCTGCTTCCCTTGCT
1 TCTCTGCTTCCCTTGCT
397380 TCATTTTCTG
Statistics
Matches: 27, Mismatches: 10, Indels: 2
0.69 0.26 0.05
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.37, G:0.20, T:0.41
Consensus pattern (21 bp):
TCTCTGCTTCCCTTGCTGCTC
Found at i:405793 original size:42 final size:42
Alignment explanation
Indices: 405738--405838 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
405728 GAGATTAATG
* * *
405738 AAACTTCTTCGGCGTTTATTACAA-AAACGCCCCTAAAGGACA
1 AAACTACTACGGCGTTTATTA-AAGAAACGCCACTAAAGGACA
*
405780 AAACTACTACGGCGTTTATTAAAGAAACGCCACTAAATGACA
1 AAACTACTACGGCGTTTATTAAAGAAACGCCACTAAAGGACA
* *
405822 AAACTATTGCGGCGTTT
1 AAACTACTACGGCGTTT
405839 TTTTATAAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 2 0.04
42 50 0.96
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.25
Consensus pattern (42 bp):
AAACTACTACGGCGTTTATTAAAGAAACGCCACTAAAGGACA
Found at i:405911 original size:41 final size:41
Alignment explanation
Indices: 405826--405933 Score: 121
Period size: 41 Copynumber: 2.6 Consensus size: 41
405816 ATGACAAAAC
* * * * *
405826 TATTGCGGCGTTTTTTTATAAACGCCGCTAAAGATTATGGA
1 TATTGCGGCATTTTTCTACAAACGCCGCTAAAGATCATGAA
*
405867 TATTACGGCATTTTTCTACAAACGCCGCTAAAG-TACATGAA
1 TATTGCGGCATTTTTCTACAAACGCCGCTAAAGAT-CATGAA
*
405908 TATTGCGGCATTTGATC-ACAAACGCC
1 TATTGCGGCATTT-TTCTACAAACGCC
405934 AAATAAGTAC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
40 1 0.02
41 54 0.95
42 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (41 bp):
TATTGCGGCATTTTTCTACAAACGCCGCTAAAGATCATGAA
Found at i:406341 original size:75 final size:73
Alignment explanation
Indices: 406212--406350 Score: 163
Period size: 75 Copynumber: 1.9 Consensus size: 73
406202 TCAATAGCGT
* * * *
406212 CGTTTGTTGAACAAATGACTCTATAAACAACACTATCGCGACGTTTGTTGTATAAAAACGCCGCT
1 CGTTTGTTGAAAAAACGACACTATAAACAACACTATCGCGACGTTTGTAGTAT--AAACGCCGCT
406277 ACTATTACGG
64 ACTATTACGG
* * * * *
406287 CGTTTGTTGAAAAAACGCCACTATAAGCAACTCTATTGCGTCGTTTG-AGCTATAAACGCCGCTA
1 CGTTTGTTGAAAAAACGACACTATAAACAACACTATCGCGACGTTTGTAG-TATAAACGCCGCTA
406351 AATTACCACT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
73 11 0.20
74 1 0.02
75 42 0.78
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (73 bp):
CGTTTGTTGAAAAAACGACACTATAAACAACACTATCGCGACGTTTGTAGTATAAACGCCGCTAC
TATTACGG
Found at i:407958 original size:21 final size:21
Alignment explanation
Indices: 407934--408003 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
407924 GTAAACTTTG
407934 ATTTATTATTATGGATTTCAA
1 ATTTATTATTATGGATTTCAA
407955 ATTTATTATTATGGATTTCAA
1 ATTTATTATTATGGATTTCAA
* * * * *
407976 GTTTGTTGTTATAGATGTCAA
1 ATTTATTATTATGGATTTCAA
407997 ATTTATT
1 ATTTATT
408004 GGATAATGCT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.30, C:0.04, G:0.13, T:0.53
Consensus pattern (21 bp):
ATTTATTATTATGGATTTCAA
Found at i:413332 original size:56 final size:57
Alignment explanation
Indices: 413246--413354 Score: 193
Period size: 56 Copynumber: 1.9 Consensus size: 57
413236 TGTTGATCAG
*
413246 TTTTATCATGAACTACTGCATATATTATGATTGTTGTTT-AAACATTAATTTTATCT
1 TTTTATCATGAACTACTCCATATATTATGATTGTTGTTTAAAACATTAATTTTATCT
*
413302 TTTTATCATGAACTACTCCATATATTATGATTGTTGTTTAAAACATTGATTTT
1 TTTTATCATGAACTACTCCATATATTATGATTGTTGTTTAAAACATTAATTTT
413355 GTCTAAAAGG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
56 38 0.76
57 12 0.24
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (57 bp):
TTTTATCATGAACTACTCCATATATTATGATTGTTGTTTAAAACATTAATTTTATCT
Found at i:416580 original size:100 final size:105
Alignment explanation
Indices: 416398--416589 Score: 243
Period size: 100 Copynumber: 1.9 Consensus size: 105
416388 CTGGAATTGG
* ** *
416398 ATATCCTTCGTCGTGAAGTTGAAATTGGTTCTGGAACTAGGAAATTGTTTGTTGACAGTCAGCCG
1 ATATCCTTCATCGTGAAGTTGAAATTGACTCTGGAACTA-GAAATTGTTTGTTGACAATCAGCCG
*
416463 CCCCTTCACTGTGAAGTTGAGTTTGTGCCGTCTCGAGTCTA
65 CCCCTTCACTGTGAAGTTGAGCTTGTGCCGTCTCGAGTCTA
* *
416504 ATATCCTTCATTGTGAAGTTGAAATTGACTCT-GAA-T-GAAA-T-TTTGTTGACAATCAGTCGC
1 ATATCCTTCATCGTGAAGTTGAAATTGACTCTGGAACTAGAAATTGTTTGTTGACAATCAGCCGC
* *
416564 CCCTTC-GTCGTTAAGTTGAGCTTGTG
66 CCCTTCACT-GTGAAGTTGAGCTTGTG
416590 TTGTCTTGGG
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
99 1 0.01
100 38 0.50
101 1 0.01
102 4 0.05
104 1 0.01
105 3 0.04
106 28 0.37
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.35
Consensus pattern (105 bp):
ATATCCTTCATCGTGAAGTTGAAATTGACTCTGGAACTAGAAATTGTTTGTTGACAATCAGCCGC
CCCTTCACTGTGAAGTTGAGCTTGTGCCGTCTCGAGTCTA
Found at i:417269 original size:14 final size:14
Alignment explanation
Indices: 417252--417283 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
417242 ATTTTTTTTC
*
417252 TTTCTCTTTTTCTT
1 TTTCTCTTTCTCTT
417266 TTTCTCTTTCTCTT
1 TTTCTCTTTCTCTT
417280 TTTC
1 TTTC
417284 AATTTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTCTCTTTCTCTT
Found at i:417273 original size:20 final size:20
Alignment explanation
Indices: 417244--417283 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
417234 CCCACCTTAT
*
417244 TTTTTTTCTTTCTCTTTTTC
1 TTTTTCTCTTTCTCTTTTTC
417264 TTTTTCTCTTTCTCTTTTTC
1 TTTTTCTCTTTCTCTTTTTC
417284 AATTTTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTCTCTTTCTCTTTTTC
Found at i:430151 original size:100 final size:105
Alignment explanation
Indices: 430032--430368 Score: 297
Period size: 106 Copynumber: 3.2 Consensus size: 105
430022 CTTCACTATG
* * ** *
430032 AAGTTGAGCTTGTGCTGTCTCGAGTCTAATATCCTTCATTGTGAAGTTGAAATTGAATATG-AA-
1 AAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGAACATGAAAT
430095 T-GAA-AT-TTTGTTGACAATCAACCGCCCCTTCATCGTT
66 TGGAAGATGTTTGTTGACAATCAACCGCCCCTTCATCGTT
* * * * ** *
430132 AAGTTGAGCTTGTGTTGTCTTGGGTCCAATATCCTTCGCTGGGAAATTGAAATTGGCCCTGAAAT
1 AAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGAACATGAAAT
* * ** * * *
430197 TGGGAAGTTGTTTGTTGACAGTCAATTGTCCCTTCGTTGTT
66 T-GGAAGATGTTTGTTGACAATCAACCGCCCCTTCATCGTT
* * **** *
430238 AAGTTGAACTTGTGTTGTCTCGAATCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTTTGAAAC
1 AAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGAACATGAAAT
* * * * * * * *
430303 TGGAAAATTGTTTATTGACAACCAGCCGTCCCTTCGTTGTG
66 TGGAAGA-TGTTTGTTGACAATCAACCGCCCCTTCATCGTT
* *
430344 AGGTTGAACTTGTGTTGTCTCGAGT
1 AAGTTGAGCTTGTGTTGTCTCGAGT
430369 GACACGATAT
Statistics
Matches: 190, Mismatches: 40, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
100 49 0.26
101 2 0.01
102 1 0.01
104 3 0.02
105 5 0.03
106 130 0.68
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (105 bp):
AAGTTGAGCTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGAACATGAAAT
TGGAAGATGTTTGTTGACAATCAACCGCCCCTTCATCGTT
Found at i:430250 original size:106 final size:106
Alignment explanation
Indices: 430101--430366 Score: 325
Period size: 106 Copynumber: 2.5 Consensus size: 106
430091 TGAATGAAAT
* * * * * **
430101 TTTGTTGACAATCAACCGCCCCTTCATCGTTAAGTTGAGCTTGTGTTGTCTTGGGTCCAATATCC
1 TTTGTTGACAATCAACCGTCCCTTCGTTGTTAAGTTGAACTTGTGTTGTCTCGAATCCAATATCC
* * *
430166 TTCGCTGGGAAATTGAAATTGGCCCTGAAATTGGGAAGTTG
66 TTCGCTGGGAAATTGAAATTGGCCCTGAAACTGGAAAATTG
* **
430207 TTTGTTGACAGTCAATTGTCCCTTCGTTGTTAAGTTGAACTTGTGTTGTCTCGAATCCAATATCC
1 TTTGTTGACAATCAACCGTCCCTTCGTTGTTAAGTTGAACTTGTGTTGTCTCGAATCCAATATCC
* * ***
430272 TTCGCTGTGAAGTTGAAATTGGTTTTGAAACTGGAAAATTG
66 TTCGCTGGGAAATTGAAATTGGCCCTGAAACTGGAAAATTG
* * * * *
430313 TTTATTGACAACCAGCCGTCCCTTCGTTGTGAGGTTGAACTTGTGTTGTCTCGA
1 TTTGTTGACAATCAACCGTCCCTTCGTTGTTAAGTTGAACTTGTGTTGTCTCGA
430367 GTGACACGAT
Statistics
Matches: 134, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
106 134 1.00
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (106 bp):
TTTGTTGACAATCAACCGTCCCTTCGTTGTTAAGTTGAACTTGTGTTGTCTCGAATCCAATATCC
TTCGCTGGGAAATTGAAATTGGCCCTGAAACTGGAAAATTG
Found at i:431397 original size:16 final size:17
Alignment explanation
Indices: 431376--431407 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
431366 ACCCACCTTA
431376 TTTTTTTTTCT-TTTTC
1 TTTTTTTTTCTCTTTTC
431392 TTTTTTTTTCTCTTTT
1 TTTTTTTTTCTCTTTT
431408 TCAATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTCTCTTTTC
Found at i:431415 original size:18 final size:18
Alignment explanation
Indices: 431375--431417 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
431365 AACCCACCTT
* *
431375 ATTTTTTTTTCTTTTTCT
1 ATTTTTTTCTCTTTTTCA
*
431393 TTTTTTTTCTCTTTTTCA
1 ATTTTTTTCTCTTTTTCA
431411 ATTTTTT
1 ATTTTTT
431418 CAATTTAGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (18 bp):
ATTTTTTTCTCTTTTTCA
Found at i:448100 original size:23 final size:23
Alignment explanation
Indices: 448074--448118 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
448064 GAAGTTTGCA
*
448074 CCTTT-ACAGCAGATGATGTTTTT
1 CCTTTGACAGCAGAGGA-GTTTTT
*
448097 CCTTTGATAGCAGAGGAGTTTT
1 CCTTTGACAGCAGAGGAGTTTT
448119 CTTGTGGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (23 bp):
CCTTTGACAGCAGAGGAGTTTTT
Found at i:449777 original size:26 final size:26
Alignment explanation
Indices: 449741--449807 Score: 125
Period size: 26 Copynumber: 2.5 Consensus size: 26
449731 ATGCTTGAAG
449741 ACCTTCATCCATTTTTCCTTCGAAAC
1 ACCTTCATCCATTTTTCCTTCGAAAC
449767 ACCTTCATCCATTTTTCCTTCGAAAC
1 ACCTTCATCCATTTTTCCTTCGAAAC
449793 ACCTTCATGCCATTT
1 ACCTTCAT-CCATTT
449808 CATAGTCATG
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 34 0.85
27 6 0.15
ACGTcount: A:0.22, C:0.34, G:0.04, T:0.39
Consensus pattern (26 bp):
ACCTTCATCCATTTTTCCTTCGAAAC
Found at i:451916 original size:2 final size:2
Alignment explanation
Indices: 451909--451933 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
451899 AATAAAAATA
451909 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 A
451934 ATGTTAGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:453523 original size:13 final size:13
Alignment explanation
Indices: 453501--453541 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
453491 ATTTAATAAA
*
453501 ATAATAATATTTAT
1 ATAAT-ATATATAT
453515 ATAATATATATAT
1 ATAATATATATAT
453528 ATAATATA-ATAT
1 ATAATATATATAT
453540 AT
1 AT
453542 GGTTATGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 6 0.23
13 15 0.58
14 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATAATATATATAT
Found at i:456641 original size:12 final size:12
Alignment explanation
Indices: 456626--456682 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
456616 AATTCTCTAA
456626 ATAATTTTTAAT
1 ATAATTTTTAAT
456638 ATAATGTTTTTAAT
1 ATAA--TTTTTAAT
*
456652 ATAATTTATAA-
1 ATAATTTTTAAT
* *
456663 ATTATTATTTAAA
1 ATAATT-TTTAAT
456676 ATAATTT
1 ATAATTT
456683 AAATAAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 5 0.14
12 15 0.41
13 5 0.14
14 12 0.32
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (12 bp):
ATAATTTTTAAT
Found at i:456649 original size:14 final size:14
Alignment explanation
Indices: 456630--456656 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
456620 CTCTAAATAA
456630 TTTTTAATATAATG
1 TTTTTAATATAATG
456644 TTTTTAATATAAT
1 TTTTTAATATAAT
456657 TTATAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
TTTTTAATATAATG
Done.