Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008324.1 Hibiscus syriacus cultivar Beakdansim tig00111028_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: 430640
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
File 1 of 3
Found at i:1131 original size:19 final size:19
Alignment explanation
Indices: 1107--1154 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
1097 AATGTAGGGT
1107 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1126 TAA-TTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
1144 TATTTTTGTAT
1 TAATTTTGTAT
1155 GTGAATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:2069 original size:197 final size:198
Alignment explanation
Indices: 1278--2744 Score: 2662
Period size: 197 Copynumber: 7.5 Consensus size: 198
1268 GGCCAAAAGG
*
1278 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
1343 TGTCGACACTAATATAGTTTGTGTCGATA-TTATTTCCAGAATGAATGGAAACCAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCC
1407 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
1472 AAT
196 AAT
* *
1475 ATGTAATTTTTCAATCTAACCGGTATAATTATATCGG-TTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
* *
1539 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCAAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATA-TTTATTTCCAGAATGAATGGAAAACAGGGTGCACC
1604 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
130 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
1669 TAAT
195 TAAT
1673 ATGTAATTTTTTCAATCTAACC-GTACAATTATACCGGTTTTTATGTGAGAATATGTCTAAATAA
1 ATGTAA-TTTTTCAATCTAACCGGTACAATTATACCGG-TTTTATGTGAGAATATGTCTAAATAA
1737 TGTGTCGACACT-ATATAGTTTGTGTCGATATTT-TTTCCAG-ATGAATGGAAAACAGGGTG---
64 TGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCAC
1796 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
129 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
1861 GTAAT
194 GTAAT
*
1866 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1931 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCA-CC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCC
1995 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
2060 AAT
196 AAT
2063 ATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
2127 TGT-GACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTT-CCAGAATGAATGGAAAACAGGGTGCACC
2191 CATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAATG
130 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
2254 TAAT
195 TAAT
*
2258 ATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
2322 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCATAATGAATGGAAAACAGGGTGCA-CC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCC
2386 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
2451 AAT
196 AAT
2454 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
* *
2519 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCGGAATGAATGGAAAACAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCC
2584 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
2649 -AT
196 AAT
2651 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
2716 TGTCGACACTAATAGAGTTTGTGTCGATA
66 TGTCGACACTAATATAGTTTGTGTCGATA
2745 CTAATTTAAA
Statistics
Matches: 1232, Mismatches: 20, Indels: 36
0.96 0.02 0.03
Matches are distributed among these distances:
192 52 0.04
193 112 0.09
194 30 0.02
195 186 0.15
196 242 0.20
197 351 0.28
198 189 0.15
199 33 0.03
200 37 0.03
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (198 bp):
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCC
ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AAT
Found at i:2174 original size:391 final size:392
Alignment explanation
Indices: 1278--2744 Score: 2632
Period size: 391 Copynumber: 3.7 Consensus size: 392
1268 GGCCAAAAGG
*
1278 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
* *
1343 TGTCGACACTAATATAGTTTGTGTCGATATTATTTCCAGAATGAATGGAAACCAGGGTGCACCCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATGGAAAACAGGGTG--CCCA
1408 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
129 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
* * *
1473 ATATGTAATTTTTCAATCTAACCGGTATAATTATATCGG-TTTATGTGAGAATATGTCTAAATAA
194 ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAA
* *
1537 TGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCAAGAATGAATGGAAAACAGGGTGCA
259 TGTGTCGACACTAATATAGTTTGTGTCGATA-TTTATTTCCAGAATGAATGGAAAACAGGGTGCA
1602 CCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
323 -CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
1667 TGTAAT
387 TGTAAT
1673 ATGTAATTTTTTCAATCTAACC-GTACAATTATACCGGTTTTTATGTGAGAATATGTCTAAATAA
1 ATGTAA-TTTTTCAATCTAACCGGTACAATTATACCGG-TTTTATGTGAGAATATGTCTAAATAA
1737 TGTGTCGACACT-ATATAGTTTGTGTCGATATTTTTTCCAG-ATGAATGGAAAACAGGGTG-CCA
64 TGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATGGAAAACAGGGTGCCCA
1799 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
129 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
1864 ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAA
194 ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAA
1929 TGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCAC
259 TGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCAC
1994 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
324 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
2059 TAAT
389 TAAT
2063 ATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
2127 TGT-GACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTT-CCAGAATGAATGGAAAACAGGGTG--CC
2191 CATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAATG
127 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
2254 TAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
192 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
*
2318 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCATAATGAATGGAAAACAGGGTGC
257 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGC
2383 ACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
322 ACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
2448 TGTAAT
387 TGTAAT
2454 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
2519 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCGGAATGAATGGAAAACAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCAGAATGAATGGAAAACAGGGTG--CCC
2584 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
128 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
*
2649 -ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATA
193 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATA
*
2713 ATGTGTCGACACTAATAGAGTTTGTGTCGATA
258 ATGTGTCGACACTAATATAGTTTGTGTCGATA
2745 CTAATTTAAA
Statistics
Matches: 1044, Mismatches: 12, Indels: 33
0.96 0.01 0.03
Matches are distributed among these distances:
387 6 0.01
388 63 0.06
389 21 0.02
390 80 0.08
391 350 0.34
392 186 0.18
393 100 0.10
394 138 0.13
395 48 0.05
396 52 0.05
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (392 bp):
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATGGAAAACAGGGTGCCCATA
AAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAAT
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
AT
Found at i:2394 original size:588 final size:589
Alignment explanation
Indices: 1278--2744 Score: 2702
Period size: 588 Copynumber: 2.5 Consensus size: 589
1268 GGCCAAAAGG
1278 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
*
1343 TGTCGACACTAATATAGTTTGTGTCGATA-TTATTTCCAGAATGAATGGAAACCAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCC
1407 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
* *
1472 AATATGTAATTTTTCAATCTAACCGGTATAATTATATCGG-TTTATGTGAGAATATGTCTAAATA
196 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATA
*
1536 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCAAGAATGAATGGAAAACAGGGTGC
261 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAAGAATGAATGGAAAACAGGGTGC
1601 ACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
326 ACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
*
1666 ATGTAATATGTAATTTTTTCAATCTAACCGTACAATTATACCGGTTTTTATGTGAGAATATGTCT
391 ATGTAATATGTAA-TTTTTCAATCTAACCGTACAATTATACCGGTTTTTATGAGAGAATATGTCT
*
1731 AAATAATGTGTCGACACTATATAGTTTGTGTCGATATTTTTTCCAGATGAATGGAAAACAGGGTG
455 AAATAATGTGTCGACACTATATAGTTTGTGTCGATATTTTTTCCAAATGAATGGAAAACAGGGTG
1796 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
520 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
1861 GTAAT
585 GTAAT
1866 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
1931 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCA-CC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCC
1995 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
2060 AATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATA
196 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATA
*
2124 ATGTGT-GACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATGGAAAACAGGGTGC
261 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAAGAATGAATGGAAAACAGGGTGC
2188 ACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATA
326 ACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
2251 ATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGG-TTTTATGAGAGAATATGTCT
391 ATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTTATGAGAGAATATGTCT
2314 AAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCATAATGAATGGAAAACAGG
455 AAATAATGTGTCGACACT-ATATAGTTTGTGTCGATATTT-TTTCCA-AATGAATGGAAAACAGG
2379 GTGCACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
517 GTG--CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGT
2444 ATAATGTAAT
580 ATAATGTAAT
*
2454 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
* *
2519 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCGGAATGAATGGAAAACAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCC
2584 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
131 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
2649 -ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATA
196 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATA
*
2713 ATGTGTCGACACTAATAGAGTTTGTGTCGATA
261 ATGTGTCGACACTAATATAGTTTGTGTCGATA
2745 CTAATTTAAA
Statistics
Matches: 857, Mismatches: 11, Indels: 20
0.97 0.01 0.02
Matches are distributed among these distances:
583 51 0.06
584 36 0.04
585 27 0.03
586 49 0.06
587 109 0.13
588 402 0.47
589 159 0.19
590 24 0.03
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (589 bp):
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCC
ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATA
ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAAGAATGAATGGAAAACAGGGTGC
ACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
ATGTAATATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTTATGAGAGAATATGTCTA
AATAATGTGTCGACACTATATAGTTTGTGTCGATATTTTTTCCAAATGAATGGAAAACAGGGTGC
CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAAT
Found at i:4218 original size:6 final size:6
Alignment explanation
Indices: 4194--4267 Score: 58
Period size: 6 Copynumber: 12.3 Consensus size: 6
4184 AGCGGTCGCA
* * * * **
4194 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GAAGCT GGCGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* * * *
4242 GATGAC GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GA
4268 TGATCCAAAC
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.38, C:0.08, G:0.35, T:0.19
Consensus pattern (6 bp):
GAAGAT
Found at i:4225 original size:24 final size:24
Alignment explanation
Indices: 4197--4267 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
4187 GGTCGCAGAA
4197 GATGAAGCTGACGATGAAGATGAC
1 GATGAAGCTGACGATGAAGATGAC
* *
4221 GATGAAGCTGGCGATGAAGATGAT
1 GATGAAGCTGACGATGAAGATGAC
* * * *
4245 GACGATGATGATGATGAAGATGA
1 GATGAAGCTGACGATGAAGATGA
4268 TGATCCAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.20
Consensus pattern (24 bp):
GATGAAGCTGACGATGAAGATGAC
Found at i:4254 original size:3 final size:3
Alignment explanation
Indices: 4233--4271 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
4223 TGAAGCTGGC
* * *
4233 GAT GAA GAT GAT GAC GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
4272 CCAAACAAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.38, C:0.03, G:0.33, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:4271 original size:12 final size:12
Alignment explanation
Indices: 4197--4267 Score: 79
Period size: 12 Copynumber: 5.9 Consensus size: 12
4187 GGTCGCAGAA
*
4197 GATGAAGCTGAC
1 GATGAAGATGAC
4209 GATGAAGATGAC
1 GATGAAGATGAC
* *
4221 GATGAAGCTGGC
1 GATGAAGATGAC
*
4233 GATGAAGATGAT
1 GATGAAGATGAC
* * *
4245 GACGATGATGAT
1 GATGAAGATGAC
4257 GATGAAGATGA
1 GATGAAGATGA
4268 TGATCCAAAC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 49 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.20
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:6111 original size:182 final size:182
Alignment explanation
Indices: 5721--6200 Score: 881
Period size: 182 Copynumber: 2.6 Consensus size: 182
5711 CTTTCAACAT
** * *
5721 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGAT-AATTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
5786 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
65 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
5851 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
130 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCAGAACCCATA
5904 ATTATAATGTAATAGATAATTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
1 ATTATAATGTAATAGATAATTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
5969 GTCTACAACCTATATCGACAC-TTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
66 GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
6033 ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCAGAACCCATA
131 ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCAGAACCCATA
*
6085 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAA-TTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
6150 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTC
65 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTC
6201 TAAAATATGT
Statistics
Matches: 289, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
181 113 0.39
182 134 0.46
183 42 0.15
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (182 bp):
ATTATAATGTAATAGATAATTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATAG
GTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAA
ATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCAGAACCCATA
Found at i:8730 original size:25 final size:25
Alignment explanation
Indices: 8696--8755 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
8686 TTATCATTAA
8696 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
8721 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
8746 ATTTAGGTAT
1 ATTTAGGTAT
8756 ACATCTTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:9087 original size:21 final size:23
Alignment explanation
Indices: 9040--9087 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
9030 AAATTACATA
9040 ACTTTTAAAAAAAAGTATCGATC
1 ACTTTTAAAAAAAAGTATCGATC
* *
9063 -CTTTT-ATAAAAAGTATGGA-C
1 ACTTTTAAAAAAAAGTATCGATC
9083 ACTTT
1 ACTTT
9088 CAATATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.05
21 16 0.73
22 5 0.23
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (23 bp):
ACTTTTAAAAAAAAGTATCGATC
Found at i:9136 original size:23 final size:23
Alignment explanation
Indices: 9105--9168 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
9095 ATAGGTAAAC
*
9105 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
9128 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
9151 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
9169 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:9175 original size:23 final size:23
Alignment explanation
Indices: 9105--9177 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
9095 ATAGGTAAAC
* **
9105 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
9128 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
9151 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
9174 ATAT
1 ATAT
9178 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:9861 original size:332 final size:331
Alignment explanation
Indices: 9219--9882 Score: 1251
Period size: 332 Copynumber: 2.0 Consensus size: 331
9209 CCATACTTTT
*
9219 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
1 TCACTGCGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
9284 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATTATTATTAAATTAAAAATTCTAAAT
66 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATTATTATTAAATTAAAAATTCTAAAT
*
9349 ATTATTTTATAAAATATCAAAACAATCAAATAATTTTTGTGCAAATGAAATTATTAAATTAATAT
131 AATATTTTATAAAATATCAAAACAATCAAATAATTTTTGTGCAAATGAAATTATTAAATTAATAT
9414 TGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAA
196 TGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAA
*
9479 GTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAATTTG
261 ATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAATTTG
9544 CAATGC
326 CAATGC
*
9550 TCACTGCGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGTTATTAATTTAGTAAT
1 TCACTGCGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
9615 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATT-AAAATTCTAA
66 TATAGGCGTCTAATGATTTATTTTTTACGTTACG--ATATATTATTATTAAATTAAAAATTCTAA
9679 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTGTGCAAATG-AATTATTAAATTAAT
129 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTGTGCAAATGAAATTATTAAATTAAT
9743 ATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAA
194 ATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAA
9808 GAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAAT
258 GAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAAT
9873 TTGCAATGC
323 TTGCAATGC
9882 T
1 T
9883 ATCGGTATAA
Statistics
Matches: 326, Mismatches: 4, Indels: 5
0.97 0.01 0.01
Matches are distributed among these distances:
331 141 0.43
332 167 0.51
333 18 0.06
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.38
Consensus pattern (331 bp):
TCACTGCGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATTATTATTAAATTAAAAATTCTAAAT
AATATTTTATAAAATATCAAAACAATCAAATAATTTTTGTGCAAATGAAATTATTAAATTAATAT
TGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAA
ATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAATTTG
CAATGC
Found at i:14036 original size:18 final size:19
Alignment explanation
Indices: 14010--14046 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
14000 TAATTATTTA
14010 TAAAAAAAATT-AAATAAT
1 TAAAAAAAATTAAAATAAT
*
14028 TAAATAAAATTAAAATAAT
1 TAAAAAAAATTAAAATAAT
14047 AATTAGATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
TAAAAAAAATTAAAATAAT
Found at i:17709 original size:2 final size:2
Alignment explanation
Indices: 17702--17746 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
17692 CTATTTACGA
17702 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17744 AT A
1 AT A
17747 GGCCACGCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19332 original size:21 final size:21
Alignment explanation
Indices: 19307--19350 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
19297 ATCCAAAGTG
19307 CAACACTTTCTTCCAATTTGA
1 CAACACTTTCTTCCAATTTGA
19328 CAACACTTTCTTCCAATTTGA
1 CAACACTTTCTTCCAATTTGA
19349 CA
1 CA
19351 CCTTAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.05, T:0.36
Consensus pattern (21 bp):
CAACACTTTCTTCCAATTTGA
Found at i:22720 original size:3 final size:3
Alignment explanation
Indices: 22712--22738 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22702 GGGAATTGGG
22712 TGT TGT TGT TGT TGT TGT TGT TGT TGT
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT
22739 ATCGTTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TGT
Found at i:22952 original size:3 final size:3
Alignment explanation
Indices: 22944--22979 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
22934 ACTTTCTTGT
22944 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22980 GTAATTAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:25274 original size:21 final size:21
Alignment explanation
Indices: 25248--25294 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
25238 TGATTGATTT
25248 AATAAAAATAAATAAAACAAC
1 AATAAAAATAAATAAAACAAC
* * **
25269 AATAAAATTAACTTGAACAAC
1 AATAAAAATAAATAAAACAAC
25290 AATAA
1 AATAA
25295 TAGTTACTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.68, C:0.11, G:0.02, T:0.19
Consensus pattern (21 bp):
AATAAAAATAAATAAAACAAC
Found at i:25880 original size:43 final size:43
Alignment explanation
Indices: 25825--26177 Score: 268
Period size: 43 Copynumber: 8.2 Consensus size: 43
25815 TGTGATATAA
* *
25825 AAACGCCGCAAAAAGTCAAGATATATAGCGGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTGGAAC
* * ** * * * *
25868 AAACGTCACAAAAGGTTGAGATTTATAGCGACATTTTTAGAAC
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTGGAAC
*** * *
25911 AAACGTTACAAAAGGTCGAGATCTATAGCGGCATTTTTGGATAC
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTGGA-AC
* * * * *
25955 AAACGCCGCAAAATGTCAAGTTCTCTAGCGACGTTTTTGCCAA-
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTG-GAAC
* * * ** * *
25998 AAATGCCGCAAAAGGGT--ATATATATAATGGTGTTGTTGGATAC
1 AAACGCCGCAAAA-GGTCAAGATCTATAGCGGCGTTTTTGGA-AC
* *
26041 AAACGCCGTAAAAGGTCAAGATCTATAGCGG-GTTTTTGGAAA
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTGGAAC
* * * *
26083 AAATGCCGTAAAAGGT-TAGATATATAGCGGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTGGA-AC
** * * *
26126 AAACGCTACAAAAGGTC-AGATCTATAGCGACATTTTTGGATAT
1 AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTGGA-AC
26169 AAACGCCGC
1 AAACGCCGC
26178 TAATTACCAT
Statistics
Matches: 242, Mismatches: 58, Indels: 20
0.76 0.18 0.06
Matches are distributed among these distances:
41 13 0.05
42 41 0.17
43 143 0.59
44 44 0.18
45 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTCAAGATCTATAGCGGCGTTTTTGGAAC
Found at i:26164 original size:85 final size:86
Alignment explanation
Indices: 25823--26165 Score: 332
Period size: 86 Copynumber: 4.0 Consensus size: 86
25813 TTTGTGATAT
* * * * **
25823 AAAAACGCCGCAAAAAGTCAAGATATATAGCGGCGTTTTTGGA-ACAAACGTCACAAAAGGTTGA
1 AAAAATGCCGCAAAAGGT-TAGATATATAGCGGCGTTTTTGGATACAAACGCCACAAAAGGTCAA
* *
25887 GATTTATAGCGACATTTTTAGA
65 GATCTATAGCGACATTTTTGGA
* * *** * * * * *
25909 ACAAACGTTACAAAAGGTCGAGATCTATAGCGGCATTTTTGGATACAAACGCCGCAAAATGTCAA
1 AAAAATGCCGCAAAAGGT-TAGATATATAGCGGCGTTTTTGGATACAAACGCCACAAAAGGTCAA
* * * **
25974 GTTCTCTAGCGACGTTTTTGCC
65 GATCTATAGCGACATTTTTGGA
* * ** * * **
25996 AAAAATGCCGCAAAAGGGTATATATATAATGGTGTTGTTGGATACAAACGCCGTAAAAGGTCAAG
1 AAAAATGCCGCAAAAGGTTAGATATATAGCGGCGTTTTTGGATACAAACGCCACAAAAGGTCAAG
**
26061 ATCTATAGCG-GGTTTTTGGA
66 ATCTATAGCGACATTTTTGGA
* *
26081 AAAAATGCCGTAAAAGGTTAGATATATAGCGGCGTTTTTGGATACAAACGCTACAAAAGGTC-AG
1 AAAAATGCCGCAAAAGGTTAGATATATAGCGGCGTTTTTGGATACAAACGCCACAAAAGGTCAAG
26145 ATCTATAGCGACATTTTTGGA
66 ATCTATAGCGACATTTTTGGA
26166 TATAAACGCC
Statistics
Matches: 202, Mismatches: 53, Indels: 5
0.78 0.20 0.02
Matches are distributed among these distances:
84 12 0.06
85 67 0.33
86 80 0.40
87 43 0.21
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (86 bp):
AAAAATGCCGCAAAAGGTTAGATATATAGCGGCGTTTTTGGATACAAACGCCACAAAAGGTCAAG
ATCTATAGCGACATTTTTGGA
Found at i:30518 original size:122 final size:119
Alignment explanation
Indices: 30310--30580 Score: 296
Period size: 122 Copynumber: 2.2 Consensus size: 119
30300 CTAAACGTTA
* * * *
30310 ACCCTATTA-CGGCGTTTTTAGTTACAAACGCCACTAAGTACACTATATGCGGCGTTTGTTGAAA
1 ACCCTA-TAGCGGCGTTTTTA--TAAAAACGCCACTAAGTACACTACATGCGACGTTTATTGAAA
* * * ** *
30374 AATACCACTATGGATAACCCTATTGCGGTGTTTGTA-CGAAACGCCGCTAAAATGCT
63 AACACCACTATAGATAACCCTATTACGGTGTTTGTATAAAAACGCCGCTAAAATGAT
** *
30430 ACTTTATAGCGGCGTTTTTATAAAAACGCCTCTAAAGTACTACTCACATTGCGACGTTTATTGAA
1 ACCCTATAGCGGCGTTTTTATAAAAACGCCACT-AAGTAC-ACT-ACA-TGCGACGTTTATTGAA
* *
30495 AAACGCCACTATAGATGAA-CCTATTACGGTGTTTGTATAAAAACGCCGCTAAAGTGAT
62 AAACACCACTATAGAT-AACCCTATTACGGTGTTTGTATAAAAACGCCGCTAAAATGAT
* *
30553 ACCCTATCGCGGTGTTTTTATAAAAACG
1 ACCCTATAGCGGCGTTTTTATAAAAACG
30581 TCGTTGAAAT
Statistics
Matches: 125, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
118 11 0.09
119 8 0.06
120 18 0.14
121 2 0.02
122 44 0.35
123 42 0.34
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (119 bp):
ACCCTATAGCGGCGTTTTTATAAAAACGCCACTAAGTACACTACATGCGACGTTTATTGAAAAAC
ACCACTATAGATAACCCTATTACGGTGTTTGTATAAAAACGCCGCTAAAATGAT
Found at i:30541 original size:40 final size:41
Alignment explanation
Indices: 30493--30580 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
30483 ACGTTTATTG
* *
30493 AAAAACGCCACTATAGATGA-A-CCTATTACGGTGTTTGTAT
1 AAAAACGCCACTAAAG-TGATACCCTATCACGGTGTTTGTAT
* * *
30533 AAAAACGCCGCTAAAGTGATACCCTATCGCGGTGTTTTTAT
1 AAAAACGCCACTAAAGTGATACCCTATCACGGTGTTTGTAT
30574 AAAAACG
1 AAAAACG
30581 TCGTTGAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 3 0.07
40 15 0.37
41 23 0.56
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (41 bp):
AAAAACGCCACTAAAGTGATACCCTATCACGGTGTTTGTAT
Found at i:30566 original size:41 final size:41
Alignment explanation
Indices: 30390--30580 Score: 133
Period size: 40 Copynumber: 4.7 Consensus size: 41
30380 ACTATGGATA
** * *
30390 ACCCTATTGCGGTGTTTGTA-CGAAACGCCGCTAAAATGCT
1 ACCCTATTGCGGTGTTTGTATAAAAACGCCGCTAAAGTGAT
** * * * *
30430 ACTTTATAGCGGCGTTTTTATAAAAACGCCTCTAAAGT-ACT
1 ACCCTATTGCGGTGTTTGTATAAAAACGCCGCTAAAGTGA-T
** * * *
30471 ACTCAC-ATTGCGACGTTTAT-TGAAAAACGCCACTATAGATGA-
1 AC-C-CTATTGCGGTGTTTGTAT-AAAAACGCCGCTAAAG-TGAT
*
30513 A-CCTATTACGGTGTTTGTATAAAAACGCCGCTAAAGTGAT
1 ACCCTATTGCGGTGTTTGTATAAAAACGCCGCTAAAGTGAT
* *
30553 ACCCTATCGCGGTGTTTTTATAAAAACG
1 ACCCTATTGCGGTGTTTGTATAAAAACG
30581 TCGTTGAAAT
Statistics
Matches: 114, Mismatches: 26, Indels: 21
0.71 0.16 0.13
Matches are distributed among these distances:
39 4 0.04
40 41 0.36
41 41 0.36
42 26 0.23
43 1 0.01
44 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (41 bp):
ACCCTATTGCGGTGTTTGTATAAAAACGCCGCTAAAGTGAT
Found at i:32346 original size:60 final size:60
Alignment explanation
Indices: 32212--32326 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
32202 AGTCTTGTGG
* *
32212 CCATTTTATAACTTTTAATAGTTAGGGGACTCAACAAAACAACGCTCTATAGTTGAGGAA
1 CCATTTTGTAACTTTTAATAATTAGGGGACTCAACAAAACAACGCTCTATAGTTGAGGAA
* * * * *
32272 CCCTTTTGTAACTTTTAATAATT-GGGAGACTTAATAAAGCAGCGCTCTATAGTTG
1 CCATTTTGTAACTTTTAATAATTAGGG-GACTCAACAAAACAACGCTCTATAGTTG
32327 GTGGATCATT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
59 3 0.06
60 44 0.94
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (60 bp):
CCATTTTGTAACTTTTAATAATTAGGGGACTCAACAAAACAACGCTCTATAGTTGAGGAA
Found at i:33942 original size:17 final size:18
Alignment explanation
Indices: 33904--33943 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
33894 TCAAACATGT
33904 CATATATATACATACATA
1 CATATATATACATACATA
*
33922 -ATATATATACGTACA-A
1 CATATATATACATACATA
33938 CATATA
1 CATATA
33944 AGCATAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.33
Consensus pattern (18 bp):
CATATATATACATACATA
Found at i:35294 original size:15 final size:15
Alignment explanation
Indices: 35273--35335 Score: 90
Period size: 15 Copynumber: 4.1 Consensus size: 15
35263 TCGTTTAAAT
35273 AAATCTCGAGTTTAA
1 AAATCTCGAGTTTAA
*
35288 TAATCTCGAGTTTAA
1 AAATCTCGAGTTTAA
* *
35303 CAATCTCGGGTTTAA
1 AAATCTCGAGTTTAA
35318 CAAATCTCGAGTTTAA
1 -AAATCTCGAGTTTAA
35334 AA
1 AA
35336 CTTTGTTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
15 29 0.69
16 13 0.31
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (15 bp):
AAATCTCGAGTTTAA
Found at i:35327 original size:31 final size:30
Alignment explanation
Indices: 35274--35333 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
35264 CGTTTAAATA
*
35274 AATCTCGAGTTTAATAATCTCGAGTTTAAC
1 AATCTCGAGTTTAAAAATCTCGAGTTTAAC
*
35304 AATCTCGGGTTTAACAAATCTCGAGTTTAA
1 AATCTCGAGTTTAA-AAATCTCGAGTTTAA
35334 AACTTTGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (30 bp):
AATCTCGAGTTTAAAAATCTCGAGTTTAAC
Found at i:36092 original size:18 final size:18
Alignment explanation
Indices: 36071--36120 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
36061 GTCGGGTTGA
* *
36071 GGGTGTGGGTATGGATGC
1 GGGTATGGGTATGGATAC
* * *
36089 GGGTATGGATATTGATAT
1 GGGTATGGGTATGGATAC
36107 GGGTATGGGTATGG
1 GGGTATGGGTATGG
36121 TGGTGGCATG
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.18, C:0.02, G:0.48, T:0.32
Consensus pattern (18 bp):
GGGTATGGGTATGGATAC
Found at i:36911 original size:15 final size:16
Alignment explanation
Indices: 36892--36930 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
36882 CGAGATCACA
36892 ATCATCATCCA-AATC
1 ATCATCATCCATAATC
*
36907 GTCATCAT-CATAATC
1 ATCATCATCCATAATC
36922 ATCATCATC
1 ATCATCATC
36931 ACTCAAAGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.36, C:0.31, G:0.03, T:0.31
Consensus pattern (16 bp):
ATCATCATCCATAATC
Found at i:42684 original size:17 final size:18
Alignment explanation
Indices: 42648--42686 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
42638 ACTAAACCCG
* *
42648 ATAAAATACTTAATAATA
1 ATAAAATACATAAAAATA
42666 ATAAAAT-CATAAAAATA
1 ATAAAATACATAAAAATA
42683 ATAA
1 ATAA
42687 TATTTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (18 bp):
ATAAAATACATAAAAATA
Found at i:45812 original size:2 final size:2
Alignment explanation
Indices: 45805--45829 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45795 ATGCAAGCTT
45805 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
45830 CTAGGGAGTG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:52469 original size:26 final size:26
Alignment explanation
Indices: 52440--52529 Score: 65
Period size: 26 Copynumber: 3.2 Consensus size: 26
52430 AAAGCTAAGT
52440 AGTTAAAATGATTAAAGTTATTTAAA
1 AGTTAAAATGATTAAAGTTATTTAAA
* * **
52466 AGTTATTAATAAAATAAATTAAAGTCATTTATTT
1 AG----T--TAAAAT-GATTAAAGTTATTTA-AA
52500 A-TTAAAATGATTAAAGTTATTTAAA
1 AGTTAAAATGATTAAAGTTATTTAAA
52525 AGTTA
1 AGTTA
52530 TTAATAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 18
0.64 0.11 0.25
Matches are distributed among these distances:
25 1 0.02
26 18 0.38
27 6 0.13
29 1 0.02
30 1 0.02
32 6 0.13
33 13 0.28
34 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.41
Consensus pattern (26 bp):
AGTTAAAATGATTAAAGTTATTTAAA
Found at i:52490 original size:33 final size:33
Alignment explanation
Indices: 52450--52547 Score: 120
Period size: 33 Copynumber: 3.2 Consensus size: 33
52440 AGTTAAAATG
52450 ATTAAAGTTATTTAAAAGTTATTAATAAAATAA
1 ATTAAAGTTATTTAAAAGTTATTAATAAAATAA
* * *
52483 ATTAAAGTCATTT---A--T-TTATTAAAAT-G
1 ATTAAAGTTATTTAAAAGTTATTAATAAAATAA
52509 ATTAAAGTTATTTAAAAGTTATTAATAAAATAA
1 ATTAAAGTTATTTAAAAGTTATTAATAAAATAA
52542 ATTAAA
1 ATTAAA
52548 ATGATTAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
26 12 0.23
27 9 0.17
28 1 0.02
29 1 0.02
30 1 0.02
31 1 0.02
32 9 0.17
33 18 0.35
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.41
Consensus pattern (33 bp):
ATTAAAGTTATTTAAAAGTTATTAATAAAATAA
Found at i:52575 original size:59 final size:58
Alignment explanation
Indices: 52444--52576 Score: 151
Period size: 59 Copynumber: 2.2 Consensus size: 58
52434 CTAAGTAGTT
* * *** **
52444 AAAATGATTAAAGTTATTTAAAAGTTATTAATAAAATAAATTAAAGTCATTTATTTATT
1 AAAAT-ATTAAAGTTATTTAAAAGTTATTAATAAAATAAATTAAAATCATTAAAACAAG
*
52503 AAAATGATTAAAGTTATTTAAAAGTTATTAATAAAATAAATTAAAATGATTAAAACAAG
1 AAAAT-ATTAAAGTTATTTAAAAGTTATTAATAAAATAAATTAAAATCATTAAAACAAG
52562 AACAAT-TTGAAAGTT
1 AA-AATATT-AAAGTT
52577 GAGTAGTTAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
58 2 0.03
59 59 0.92
60 3 0.05
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (58 bp):
AAAATATTAAAGTTATTTAAAAGTTATTAATAAAATAAATTAAAATCATTAAAACAAG
Found at i:56304 original size:21 final size:20
Alignment explanation
Indices: 56258--56349 Score: 89
Period size: 21 Copynumber: 4.5 Consensus size: 20
56248 TTTTCCCAAT
56258 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAG-AAA
* **
56278 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATTAAGAAA
*
56298 TTCGCAATGCGAA-TAAGTAA
1 -TCGCAATGCGAATTAAGAAA
* *
56318 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAATTAAG-AAA
56339 TCGCAATGCGA
1 TCGCAATGCGA
56350 TACTGACCTA
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
19 11 0.19
20 21 0.37
21 25 0.44
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATTAAGAAA
Found at i:56331 original size:40 final size:41
Alignment explanation
Indices: 56255--56349 Score: 165
Period size: 40 Copynumber: 2.3 Consensus size: 41
56245 CGATTTTCCC
*
56255 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
56296 AATTCGCAATGCGAATAAGT-AATCGCAACGCGAATTGAGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
56336 AAATCGCAATGCGA
1 AATTCGCAATGCGA
56350 TACTGACCTA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
40 32 0.62
41 20 0.38
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
Found at i:56362 original size:21 final size:20
Alignment explanation
Indices: 56338--56433 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
56328 AATTGAGAAA
*
56338 ATCGCAATGCGATACTGACCT
1 ATCGCAACGCGATACTGA-CT
* * * **
56359 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
56380 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
56400 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
56420 TTCGCAACGCGATA
1 ATCGCAACGCGATA
56434 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
20 32 0.52
21 28 0.46
22 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:56381 original size:42 final size:41
Alignment explanation
Indices: 56317--56413 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 41
56307 CGAATAAGTA
* * * *
56317 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACCT
1 ATCGCAACGCGATAAT-AAAAAATCGCAACGAGATACTGA-CT
* *
56359 ATCGCAATGCGATAATAAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGATAATAAAAAATCGCAACGAGATACTGACT
*
56400 TTCGCAACGCGATA
1 ATCGCAACGCGATA
56414 CTGACTTTCG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
41 14 0.30
42 30 0.65
43 2 0.04
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.21
Consensus pattern (41 bp):
ATCGCAACGCGATAATAAAAAATCGCAACGAGATACTGACT
Found at i:56406 original size:20 final size:20
Alignment explanation
Indices: 56381--56433 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
56371 TAATAAAAAA
* *
56381 TCGCAACGAGATACTTACTT
1 TCGCAACGCGATACTGACTT
56401 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
56421 TCGCAACGCGATA
1 TCGCAACGCGATA
56434 ATACATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:56447 original size:21 final size:22
Alignment explanation
Indices: 56315--56453 Score: 78
Period size: 21 Copynumber: 6.7 Consensus size: 22
56305 TGCGAATAAG
* *
56315 TAATCGCAACGCGA-ATTGAGA
1 TAATCGCAACGCGATAATGACA
* * * *
56336 AAATCGCAATGCGATACTGACC
1 TAATCGCAACGCGATAATGACA
* *
56358 T-ATCGCAATGCGATAAT-AAA
1 TAATCGCAACGCGATAATGACA
* * * *
56378 AAATCGCAACGAGATACTTAC-
1 TAATCGCAACGCGATAATGACA
* *
56399 T-TTCGCAACGCGATACTGAC-
1 TAATCGCAACGCGATAATGACA
*
56419 T-TTCGCAACGCGATAAT-ACA
1 TAATCGCAACGCGATAATGACA
*
56439 TAATCGCAATGCGAT
1 TAATCGCAACGCGAT
56454 TTTCAAAGCG
Statistics
Matches: 92, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.02
20 34 0.37
21 51 0.55
22 5 0.05
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (22 bp):
TAATCGCAACGCGATAATGACA
Found at i:59074 original size:20 final size:21
Alignment explanation
Indices: 59051--59108 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
59041 CAAAATATTA
*
59051 AAAAATTTA-ATGTTTTAAAT
1 AAAAATTTATATATTTTAAAT
*
59071 AAAAA-TAATATATTTTAAAT
1 AAAAATTTATATATTTTAAAT
*
59091 AAAATTTTAT-TAATTTTA
1 AAAAATTTATAT-ATTTTA
59109 TTATTTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 2 0.06
20 20 0.65
21 9 0.29
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
AAAAATTTATATATTTTAAAT
Found at i:59192 original size:86 final size:87
Alignment explanation
Indices: 59066--59242 Score: 322
Period size: 86 Copynumber: 2.0 Consensus size: 87
59056 TTTAATGTTT
59066 TAAATAAAAATAATATATTTTAAATAAAATTTTATTAATTTTATTATTTAAATAATAAAAAAACT
1 TAAATAAAAATAATATATTTTAAATAAAATTTTATTAATTTTATTATTTAAATAATAAAAAAACT
*
59131 AAATATTAAAAATGCCGCCCCG
66 AAATATTAAAAATGCCGCACCG
59153 TAAAT-AAAA-AATAATATTTTAAATAAAATTTTATTAATTTTATTATTTAAATAATAAAAAAAC
1 TAAATAAAAATAAT-ATATTTTAAATAAAATTTTATTAATTTTATTATTTAAATAATAAAAAAAC
59216 TAAATATTAAAAATGCCGCACCG
65 TAAATATTAAAAATGCCGCACCG
59239 TAAA
1 TAAA
59243 AATTCATATT
Statistics
Matches: 88, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
85 3 0.03
86 80 0.91
87 5 0.06
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.36
Consensus pattern (87 bp):
TAAATAAAAATAATATATTTTAAATAAAATTTTATTAATTTTATTATTTAAATAATAAAAAAACT
AAATATTAAAAATGCCGCACCG
Found at i:59380 original size:15 final size:16
Alignment explanation
Indices: 59357--59390 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
59347 TAATTTAATT
59357 TTAAATTATAC-TAAA
1 TTAAATTATACTTAAA
*
59372 TTAATTTATACTTAAA
1 TTAAATTATACTTAAA
59388 TTA
1 TTA
59391 CAGTGAAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAATTATACTTAAA
Found at i:59411 original size:107 final size:113
Alignment explanation
Indices: 59294--59523 Score: 302
Period size: 111 Copynumber: 2.1 Consensus size: 113
59284 CTGTTATAAT
* *
59294 TTTTTA-ATGTTTAATAAGTAAATAACTATTA-TACCGTACCTATTTA-TGA-A-ATTTA-ATTT
1 TTTTTAGATGTTTAATAAGTAAATAACTATTAGGA-CGTAACTATTTATTGATATATTTATATTT
59353 AATTTT-AAATTATACTAAATTAATTTATACTTAAATTAC-AGTG-AAGA
65 AATTTTAAAATTATACT-AATTAATTTATACTTAAATTACAAGTGAAAGA
* * *
59400 TTTTTAGATGTTTAATAAGTAAATAACTATTAGGACTTAACTATTTATTGATATTTTTATTTTTA
1 TTTTTAGATGTTTAATAAGTAAATAACTATTAGGACGTAACTATTTATTGATATATTTATATTTA
* *
59465 TTTTTAAAATTATACTAATTAATTTATACTTAATTTACAAGTGAAAGA
66 ATTTTAAAATTATACTAATTAATTTATACTTAAATTACAAGTGAAAGA
59513 --TTTAGATGTTT
1 TTTTTAGATGTTT
59524 TATTTTTGTA
Statistics
Matches: 108, Mismatches: 7, Indels: 13
0.84 0.05 0.10
Matches are distributed among these distances:
106 6 0.06
107 35 0.32
108 4 0.04
109 1 0.01
110 4 0.04
111 40 0.37
112 14 0.13
113 4 0.04
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (113 bp):
TTTTTAGATGTTTAATAAGTAAATAACTATTAGGACGTAACTATTTATTGATATATTTATATTTA
ATTTTAAAATTATACTAATTAATTTATACTTAAATTACAAGTGAAAGA
Found at i:63018 original size:24 final size:24
Alignment explanation
Indices: 62947--63018 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 24
62937 TCTAAACCCC
62947 AAATTCCAAAGTAATTCAATTT--
1 AAATTCCAAAGTAATTCAATTTCA
* *
62969 -TATTCTAAATAGTAAATTC-ATGTTCA
1 AAATTC-CAA-AGT-AATTCAAT-TTCA
62995 AAATTCCAAAGTAATTCAATTTCA
1 AAATTCCAAAGTAATTCAATTTCA
63019 TTTTAAATCC
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
21 4 0.11
22 2 0.05
23 5 0.13
24 16 0.42
25 5 0.13
26 2 0.05
27 4 0.11
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.38
Consensus pattern (24 bp):
AAATTCCAAAGTAATTCAATTTCA
Found at i:63090 original size:21 final size:21
Alignment explanation
Indices: 63066--63108 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
63056 CTAAACCTTA
63066 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
* *
63087 AATTGAATTATTTTGGAATTT
1 AATTGAAGTATTTTAGAATTT
63108 A
1 A
63109 GGGTTTAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:63126 original size:35 final size:35
Alignment explanation
Indices: 63077--63162 Score: 118
Period size: 35 Copynumber: 2.5 Consensus size: 35
63067 ATTGAAGTAT
** * *
63077 TTTAGAATTTAATTGAATTATTTTGGAATTTAGGG
1 TTTAGAATAAAATTGAATTACTTTAGAATTTAGGG
*
63112 TTTAGAATAAAATTGAATTACTTTAGAATTTGGGG
1 TTTAGAATAAAATTGAATTACTTTAGAATTTAGGG
*
63147 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
63163 GGACTGTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.36, C:0.01, G:0.20, T:0.43
Consensus pattern (35 bp):
TTTAGAATAAAATTGAATTACTTTAGAATTTAGGG
Found at i:67921 original size:19 final size:19
Alignment explanation
Indices: 67897--67939 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
67887 ACGTGGAGAT
67897 TTTTCTGTTCCACTGAACA
1 TTTTCTGTTCCACTGAACA
67916 TTTTCTGTTCCACTGAACA
1 TTTTCTGTTCCACTGAACA
67935 TTTTC
1 TTTTC
67940 AGTACCCCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.19, C:0.26, G:0.09, T:0.47
Consensus pattern (19 bp):
TTTTCTGTTCCACTGAACA
Found at i:69323 original size:16 final size:16
Alignment explanation
Indices: 69304--69349 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
69294 AAGATTACTT
* *
69304 TCTTAGTAGATAAGAA
1 TCTTTGTAGATAAAAA
69320 TCTTTGTAGATAAAAA
1 TCTTTGTAGATAAAAA
69336 TCTTTGTAGATAAA
1 TCTTTGTAGATAAA
69350 GTTTTTAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (16 bp):
TCTTTGTAGATAAAAA
Found at i:71008 original size:69 final size:69
Alignment explanation
Indices: 70926--71067 Score: 284
Period size: 69 Copynumber: 2.1 Consensus size: 69
70916 ATGCAACATC
70926 TTTTTATTTCATGTTCTGTCGCTTGGAAACTCTGGAATAAGATTATCAGTTTTTGGGATTTATCT
1 TTTTTATTTCATGTTCTGTCGCTTGGAAACTCTGGAATAAGATTATCAGTTTTTGGGATTTATCT
70991 ATAG
66 ATAG
70995 TTTTTATTTCATGTTCTGTCGCTTGGAAACTCTGGAATAAGATTATCAGTTTTTGGGATTTATCT
1 TTTTTATTTCATGTTCTGTCGCTTGGAAACTCTGGAATAAGATTATCAGTTTTTGGGATTTATCT
71060 ATAG
66 ATAG
71064 TTTT
1 TTTT
71068 GCCAAAGGAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 73 1.00
ACGTcount: A:0.23, C:0.11, G:0.18, T:0.48
Consensus pattern (69 bp):
TTTTTATTTCATGTTCTGTCGCTTGGAAACTCTGGAATAAGATTATCAGTTTTTGGGATTTATCT
ATAG
Found at i:75032 original size:203 final size:203
Alignment explanation
Indices: 74683--75292 Score: 1220
Period size: 203 Copynumber: 3.0 Consensus size: 203
74673 CTTCAAAGAG
74683 AATTTTCAAAATGCCAGGTGACCCTTCGCATTTTACACTGTGTTATAAGTCAGCTTTTATTGATC
1 AATTTTCAAAATGCCAGGTGACCCTTCGCATTTTACACTGTGTTATAAGTCAGCTTTTATTGATC
74748 GTATTGACACTTAAAACTTAAATATATAGGGATCCATAATTCAACACTAGGACCAAAAATATTTA
66 GTATTGACACTTAAAACTTAAATATATAGGGATCCATAATTCAACACTAGGACCAAAAATATTTA
74813 TTGCTTTCAAGCAAGTCGTCCCACCCACCATATTCAAAAGTAGGTACTAAATTTTTTAGATGTCA
131 TTGCTTTCAAGCAAGTCGTCCCACCCACCATATTCAAAAGTAGGTACTAAATTTTTTAGATGTCA
74878 TATTTGGT
196 TATTTGGT
74886 AATTTTCAAAATGCCAGGTGACCCTTCGCATTTTACACTGTGTTATAAGTCAGCTTTTATTGATC
1 AATTTTCAAAATGCCAGGTGACCCTTCGCATTTTACACTGTGTTATAAGTCAGCTTTTATTGATC
74951 GTATTGACACTTAAAACTTAAATATATAGGGATCCATAATTCAACACTAGGACCAAAAATATTTA
66 GTATTGACACTTAAAACTTAAATATATAGGGATCCATAATTCAACACTAGGACCAAAAATATTTA
75016 TTGCTTTCAAGCAAGTCGTCCCACCCACCATATTCAAAAGTAGGTACTAAATTTTTTAGATGTCA
131 TTGCTTTCAAGCAAGTCGTCCCACCCACCATATTCAAAAGTAGGTACTAAATTTTTTAGATGTCA
75081 TATTTGGT
196 TATTTGGT
75089 AATTTTCAAAATGCCAGGTGACCCTTCGCATTTTACACTGTGTTATAAGTCAGCTTTTATTGATC
1 AATTTTCAAAATGCCAGGTGACCCTTCGCATTTTACACTGTGTTATAAGTCAGCTTTTATTGATC
75154 GTATTGACACTTAAAACTTAAATATATAGGGATCCATAATTCAACACTAGGACCAAAAATATTTA
66 GTATTGACACTTAAAACTTAAATATATAGGGATCCATAATTCAACACTAGGACCAAAAATATTTA
75219 TTGCTTTCAAGCAAGTCGTCCCACCCACCATATTCAAAAGTAGGTACTAAATTTTTTAGATGTCA
131 TTGCTTTCAAGCAAGTCGTCCCACCCACCATATTCAAAAGTAGGTACTAAATTTTTTAGATGTCA
75284 TATTTGGT
196 TATTTGGT
75292 A
1 A
75293 GTATTTATGT
Statistics
Matches: 407, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
203 407 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (203 bp):
AATTTTCAAAATGCCAGGTGACCCTTCGCATTTTACACTGTGTTATAAGTCAGCTTTTATTGATC
GTATTGACACTTAAAACTTAAATATATAGGGATCCATAATTCAACACTAGGACCAAAAATATTTA
TTGCTTTCAAGCAAGTCGTCCCACCCACCATATTCAAAAGTAGGTACTAAATTTTTTAGATGTCA
TATTTGGT
Found at i:76581 original size:18 final size:18
Alignment explanation
Indices: 76558--76592 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
76548 AACTTGCAGA
76558 ATGGTCTCTATATTCTTC
1 ATGGTCTCTATATTCTTC
76576 ATGGTCTCTATATTCTT
1 ATGGTCTCTATATTCTT
76593 GTGTTGACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.11, T:0.51
Consensus pattern (18 bp):
ATGGTCTCTATATTCTTC
Found at i:91696 original size:15 final size:15
Alignment explanation
Indices: 91676--91706 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
91666 ACGCGTGGTA
91676 TTTGATCCCAGATAT
1 TTTGATCCCAGATAT
91691 TTTGATCCCAGATAT
1 TTTGATCCCAGATAT
91706 T
1 T
91707 AAGTCTGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (15 bp):
TTTGATCCCAGATAT
Found at i:91753 original size:20 final size:20
Alignment explanation
Indices: 91728--91767 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
91718 TGGTTCACGG
91728 AATGTAAGATTATCAGTGAA
1 AATGTAAGATTATCAGTGAA
91748 AATGTAAGATTATCAGTGAA
1 AATGTAAGATTATCAGTGAA
91768 TAAGATTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (20 bp):
AATGTAAGATTATCAGTGAA
Found at i:91773 original size:16 final size:18
Alignment explanation
Indices: 91731--91775 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
91721 TTCACGGAAT
91731 GTAAGATTATCAGTGAAAA
1 GTAAGATTATCAGTG-AAA
91750 TGTAAGATTATCAGTG-AA
1 -GTAAGATTATCAGTGAAA
91768 -TAAGATTA
1 GTAAGATTA
91776 CTGAGAATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.32
18 2 0.08
20 15 0.60
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.31
Consensus pattern (18 bp):
GTAAGATTATCAGTGAAA
Found at i:91993 original size:37 final size:37
Alignment explanation
Indices: 91920--91994 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
91910 GTTGAAAAAT
* *
91920 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
91957 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
91994 A
1 A
91995 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:100420 original size:185 final size:184
Alignment explanation
Indices: 100085--100455 Score: 609
Period size: 185 Copynumber: 2.0 Consensus size: 184
100075 AAATTAAATG
* * * *
100085 TTTTTAATTCAAAAAAGGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAATTTCAG
1 TTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATATCAG
100150 ATAAATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGGATCTTAAATTATTAATT
66 ATAAATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGGATCTTAAATTATTAATT
* *
100215 GAGTTTTAAATTGTTTGGGCTTAGCCCAAATGATATATATAATATATTTAATAT
131 GAGTTTTAAATGGTTTGGGCTGAGCCCAAATGATATATATAATATATTTAATAT
100269 TTTTTAATTAAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAAATAT-
1 TTTTTAATTAAAAAAA-AGTTTACAATTAATTTAAATAATATATAATTATAAAAT-AAAAATATC
* * *
100333 ATATATATTTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAA
64 AGATAAATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGGATCTTAAATTATTAA
* * *
100398 TTGGGTTTTAAATGGTTTGGGCTGAGCCCATATGTTATATATAATATATTTAATAT
129 TTGAGTTTTAAATGGTTTGGGCTGAGCCCAAATGATATATATAATATATTTAATAT
100454 TT
1 TT
100456 AAAATTTAAT
Statistics
Matches: 173, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
184 15 0.09
185 151 0.87
186 7 0.04
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (184 bp):
TTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATATCAG
ATAAATTTTTTAATTAATTAATATTGATTTAGATTTAAAAGTTATTGGATCTTAAATTATTAATT
GAGTTTTAAATGGTTTGGGCTGAGCCCAAATGATATATATAATATATTTAATAT
Found at i:113846 original size:87 final size:87
Alignment explanation
Indices: 113698--113872 Score: 323
Period size: 87 Copynumber: 2.0 Consensus size: 87
113688 ACGCAAGTTT
*
113698 CTTGCAAGGAAAGCATACAAGAATTTGTACCTCGCATCTGTTTCCATTCAAACAGGGATCCGGGG
1 CTTGCAAGGAAAGCATACAAGAATTTGTACCTCGCATCTGTTTCCATTCAAACAGGCATCCGGGG
113763 GATGACTGATCGTAAACAACTC
66 GATGACTGATCGTAAACAACTC
*
113785 CTTGCAAGGAAAGCATACAAGAATTTGTACCTCGCATCTGTTTCCATTCAAACAGGCATCCGTGG
1 CTTGCAAGGAAAGCATACAAGAATTTGTACCTCGCATCTGTTTCCATTCAAACAGGCATCCGGGG
*
113850 GATGACTGCTCGTAAACAACTC
66 GATGACTGATCGTAAACAACTC
113872 C
1 C
113873 GGTTCAAGAA
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (87 bp):
CTTGCAAGGAAAGCATACAAGAATTTGTACCTCGCATCTGTTTCCATTCAAACAGGCATCCGGGG
GATGACTGATCGTAAACAACTC
Found at i:131663 original size:13 final size:13
Alignment explanation
Indices: 131627--131668 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
131617 TCTGGCACTG
131627 ATTAAAA-AT-AA
1 ATTAAAATATAAA
131638 ATTAAAATGATAAA
1 ATTAAAAT-ATAAA
131652 ATTAAAATATAAA
1 ATTAAAATATAAA
131665 ATTA
1 ATTA
131669 CTCCAATATC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 7 0.25
13 11 0.39
14 10 0.36
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (13 bp):
ATTAAAATATAAA
Found at i:132763 original size:270 final size:262
Alignment explanation
Indices: 132290--132816 Score: 964
Period size: 270 Copynumber: 2.0 Consensus size: 262
132280 ATATAAAATA
132290 TATAATATTTCTAGAAAGTTTACTTAAATTTATTAAAAATTGTAAAATTTTAAAAGATTTGTTAT
1 TATAATATTTCTAGAAAGTTTACTTAAATTTATTAAAAATTGTAAAATTTTAAAAGATTTGTTAT
*
132355 ATTTTGCTTTTTAAATATTTACTAGAAACATATAAAATATAAAATATATTTTATAATTATTTTTT
66 ATTTTGCTTTTTAAATATTTACTAGAAACATATAAAATATAAAATATATTTTAAAATTATTTTTT
132420 GAAAAAAAAATTAATGTTTAGGAAATTTTTCTAATTGTAATTGTTTCATTTTATAAGATTTATGT
131 GAAAAAAAAATTAATGTTTAGGAAATTTTTCTAATTGTAATTGTTTCATTTTATAAGATTTATGT
132485 ATTTTTACTTAATATTTTTATTTATTTTCATTTTGATCTTGGATGACATCAACATTAAAGAATCT
196 ATTTTTACTTAATATTTTTATTTATTTTCATTTTGATCTTGGATGACATCAACATTAAAGAATCT
132550 TT
261 TT
132552 TATAATATTTCTAGAAAGTTTACTTAAATTTATTAAAAATTGTAAAATTATAAAATTTTAAAAGA
1 TATAATATTTCTAGAAAGTTTACTTAAATTTATTAAAAATTG--------TAAAATTTTAAAAGA
132617 TTTGTTATATTTTGCTTTTTAAATATTTACTAGAAACATATAAAATATAAAATATATTTTAAAAT
58 TTTGTTATATTTTGCTTTTTAAATATTTACTAGAAACATATAAAATATAAAATATATTTTAAAAT
*
132682 TTTTTTTTGAAAAAAAAATTAATGTTTAGGAAATTTTTCTAATTGTAATTGTTTCATTTTATAAG
123 TATTTTTTGAAAAAAAAATTAATGTTTAGGAAATTTTTCTAATTGTAATTGTTTCATTTTATAAG
132747 ATTTATGTATTTTTACTTAATATTTTTATTTATTTTCATTTTGATCTTGGATGACATCAACATTA
188 ATTTATGTATTTTTACTTAATATTTTTATTTATTTTCATTTTGATCTTGGATGACATCAACATTA
132812 AAGAA
253 AAGAA
132817 ATAACTCATG
Statistics
Matches: 255, Mismatches: 2, Indels: 8
0.96 0.01 0.03
Matches are distributed among these distances:
262 42 0.16
270 213 0.84
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (262 bp):
TATAATATTTCTAGAAAGTTTACTTAAATTTATTAAAAATTGTAAAATTTTAAAAGATTTGTTAT
ATTTTGCTTTTTAAATATTTACTAGAAACATATAAAATATAAAATATATTTTAAAATTATTTTTT
GAAAAAAAAATTAATGTTTAGGAAATTTTTCTAATTGTAATTGTTTCATTTTATAAGATTTATGT
ATTTTTACTTAATATTTTTATTTATTTTCATTTTGATCTTGGATGACATCAACATTAAAGAATCT
TT
Found at i:132947 original size:18 final size:19
Alignment explanation
Indices: 132913--132950 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
132903 CTTATCTAAC
132913 AGAAATAGATGTCATTTTG
1 AGAAATAGATGTCATTTTG
*
132932 AGAAATA-ATGTTATTTTG
1 AGAAATAGATGTCATTTTG
132950 A
1 A
132951 TAATTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.39
Consensus pattern (19 bp):
AGAAATAGATGTCATTTTG
Found at i:135830 original size:30 final size:30
Alignment explanation
Indices: 135732--135830 Score: 71
Period size: 30 Copynumber: 3.3 Consensus size: 30
135722 GGTCGGTTGA
*
135732 CGGTTAATGATTTTTTTCAAACTT-GGTTAT
1 CGGTTAATGA-TTTTTTCAAACTTCGATTAT
* ***
135762 TGGTTAAT--TCGGTTCAAAATCTGTCGATTAAT
1 CGGTTAATGATTTTTTC-AAA-CT-TCGATT-AT
*
135794 -GATTAATGATTTTTTCAAACTTCGATTAT
1 CGGTTAATGATTTTTTCAAACTTCGATTAT
135823 CGGTTAAT
1 CGGTTAAT
135831 TTGATTCAAA
Statistics
Matches: 51, Mismatches: 10, Indels: 16
0.66 0.13 0.21
Matches are distributed among these distances:
27 4 0.08
28 3 0.06
29 4 0.08
30 20 0.39
31 11 0.22
32 5 0.10
33 4 0.08
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.45
Consensus pattern (30 bp):
CGGTTAATGATTTTTTCAAACTTCGATTAT
Found at i:147457 original size:33 final size:33
Alignment explanation
Indices: 147412--147474 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
147402 GCTAGGGGGC
* *
147412 GAACTTCTAAAATTTTAGGGGAGTGAAAACCGA
1 GAACTTCTAAAATTCTAGAGGAGTGAAAACCGA
147445 GAACTT-TAAAAATTCTAGAGGAGTGAAAAC
1 GAACTTCT-AAAATTCTAGAGGAGTGAAAAC
147475 ATATTTTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 1 0.04
33 26 0.96
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (33 bp):
GAACTTCTAAAATTCTAGAGGAGTGAAAACCGA
Found at i:151199 original size:20 final size:20
Alignment explanation
Indices: 151170--151218 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 20
151160 ATAGAGAAAG
*
151170 AAGACGAAAAACATGTCACA
1 AAGACAAAAAACATGTCACA
151190 AAGACAAAAAAACATGTCACA
1 AAGAC-AAAAAACATGTCACA
151211 AA-ACAAAA
1 AAGACAAAA
151219 TTATTCTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 4 0.15
20 7 0.26
21 16 0.59
ACGTcount: A:0.63, C:0.18, G:0.10, T:0.08
Consensus pattern (20 bp):
AAGACAAAAAACATGTCACA
Found at i:151202 original size:21 final size:20
Alignment explanation
Indices: 151176--151218 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
151166 AAAGAAGACG
151176 AAAAACATGTCACAAAGACAA
1 AAAAACATGTCACAAA-ACAA
151197 AAAAACATGTCACAAAACAA
1 AAAAACATGTCACAAAACAA
151217 AA
1 AA
151219 TTATTCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.65, C:0.19, G:0.07, T:0.09
Consensus pattern (20 bp):
AAAAACATGTCACAAAACAA
Found at i:154557 original size:28 final size:28
Alignment explanation
Indices: 154516--154571 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
154506 AACTCTATTT
* *
154516 ATATTATGTCGTCGAGTCAGTGTTTGAA
1 ATATTATGTCGTCGAGCCAGTGCTTGAA
*
154544 ATATTATGTTGTCGAGCCAGTGCTTGAA
1 ATATTATGTCGTCGAGCCAGTGCTTGAA
154572 TGCAAGGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (28 bp):
ATATTATGTCGTCGAGCCAGTGCTTGAA
Found at i:157124 original size:15 final size:15
Alignment explanation
Indices: 157100--157136 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
157090 GCACCATTAA
*
157100 ATTAATTTATAAAAT
1 ATTAAATTATAAAAT
157115 ATTAAATTATAAAAT
1 ATTAAATTATAAAAT
157130 ATTAAAT
1 ATTAAAT
157137 ATACAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTAAATTATAAAAT
Found at i:157144 original size:22 final size:23
Alignment explanation
Indices: 157111--157158 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
157101 TTAATTTATA
157111 AAATATTAAATTATAAAAT-ATT
1 AAATATTAAATTATAAAATAATT
*
157133 AAATA-TACAATTATAAATTAATT
1 AAATATTA-AATTATAAAATAATT
157156 AAA
1 AAA
157159 AATCTAAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 2 0.09
22 15 0.65
23 6 0.26
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATATTAAATTATAAAATAATT
Found at i:160603 original size:27 final size:27
Alignment explanation
Indices: 160573--160636 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
160563 AGACTGTTCG
160573 GGTTGTTCTTCTGCTGTA-TCTCCAGGT
1 GGTTGTTCTTCTGCTGTAGT-TCCAGGT
*
160600 GGTTGTTCTACTGCTGTAGTTCCAGGT
1 GGTTGTTCTTCTGCTGTAGTTCCAGGT
*
160627 GGTTGATCTT
1 GGTTGTTCTT
160637 GTTGTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.09, C:0.19, G:0.28, T:0.44
Consensus pattern (27 bp):
GGTTGTTCTTCTGCTGTAGTTCCAGGT
Found at i:163632 original size:2 final size:2
Alignment explanation
Indices: 163627--163657 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
163617 TTTACATTAT
163627 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
163658 GTCCACCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:164601 original size:22 final size:23
Alignment explanation
Indices: 164555--164599 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
164545 TTTATTTAAA
164555 AAAAATAAAATATTATTTTTTTT
1 AAAAATAAAATATTATTTTTTTT
164578 AAAAATAAAATATTATTTTTTT
1 AAAAATAAAATATTATTTTTTT
164600 AAGTTTCTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AAAAATAAAATATTATTTTTTTT
Found at i:167835 original size:22 final size:22
Alignment explanation
Indices: 167803--167854 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
167793 GCGGTTCTTC
* *
167803 GGACATATACAGAGGTCTTTCG
1 GGACAAATACAGAGGTCATTCG
* *
167825 GGATAAATACATAGGTCATTCG
1 GGACAAATACAGAGGTCATTCG
167847 GGACAAAT
1 GGACAAAT
167855 TTCACATGCC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (22 bp):
GGACAAATACAGAGGTCATTCG
Found at i:169447 original size:20 final size:20
Alignment explanation
Indices: 169422--169460 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
169412 AGATCCGGGG
*
169422 TCACATAACATCGGGAACAA
1 TCACATAACATCAGGAACAA
169442 TCACATAACATCAGGAACA
1 TCACATAACATCAGGAACA
169461 CACACCCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (20 bp):
TCACATAACATCAGGAACAA
Found at i:170255 original size:45 final size:46
Alignment explanation
Indices: 170163--170266 Score: 142
Period size: 45 Copynumber: 2.3 Consensus size: 46
170153 ACATACTATA
*
170163 CATCGATGCACTCAGAGTTTTATGAAAACATCGAACGGATTTGATG
1 CATCGATGCACTCAGAGTTTTATGAAAACATCGAACGCATTTGATG
* *
170209 CATCGATGCACTCAG-GCTATTT-TG-AAACATCGAATGCATTTTATG
1 CATCGATGCACTCAGAG-T-TTTATGAAAACATCGAACGCATTTGATG
170254 CATCGATGCACTC
1 CATCGATGCACTC
170267 TTAGTGCACC
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
45 32 0.60
46 18 0.34
47 3 0.06
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (46 bp):
CATCGATGCACTCAGAGTTTTATGAAAACATCGAACGCATTTGATG
Found at i:173090 original size:21 final size:20
Alignment explanation
Indices: 173047--173095 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
173037 TTTTCCCAAT
*
173047 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
**
173067 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
173088 TCGCAATG
1 TCGCAATG
173096 TGATACTGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:173112 original size:20 final size:20
Alignment explanation
Indices: 173087--173241 Score: 141
Period size: 20 Copynumber: 7.7 Consensus size: 20
173077 AATTTGGAAA
* *
173087 ATCGCAATGTGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
173107 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
173128 ATCGCAACGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
173148 TTTGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
173168 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* * *
173188 TTTGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* * *
173208 TTCGCAACGAGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
173228 ATCGCAACGAGATA
1 ATCGCAACGCGATA
173242 ATACAGAATC
Statistics
Matches: 116, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
19 2 0.02
20 97 0.84
21 15 0.13
22 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:173129 original size:41 final size:41
Alignment explanation
Indices: 173084--173261 Score: 130
Period size: 40 Copynumber: 4.4 Consensus size: 41
173074 GCGAATTTGG
* *
173084 AAAATCGCAATGTGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * *
173125 AAAATCGCAACGCGATACTTACTTTTGCAACGCGATACTGAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAAT-AC
** * * * **
173167 --TTTCGCAACGCGATTCTGACTTTTGCAACGCGATTCTGAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAAT-AC
** * * *
173207 --TTTCGCAACGAGATTCTGACTATCGCAACGAGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* *
173246 AGAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
173262 TTTCAAAGTT
Statistics
Matches: 113, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 2 0.02
40 66 0.58
41 43 0.38
42 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:173189 original size:40 final size:40
Alignment explanation
Indices: 173129--173241 Score: 163
Period size: 40 Copynumber: 2.8 Consensus size: 40
173119 TAATACAAAA
* *
173129 TCGCAACGCGATACTTACTTTTGCAACGCGATACTGACTT
1 TCGCAACGCGATTCTGACTTTTGCAACGCGATACTGACTT
*
173169 TCGCAACGCGATTCTGACTTTTGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTTTTGCAACGCGATACTGACTT
* * * *
173209 TCGCAACGAGATTCTGACTATCGCAACGAGATA
1 TCGCAACGCGATTCTGACTTTTGCAACGCGATA
173242 ATACAGAATC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (40 bp):
TCGCAACGCGATTCTGACTTTTGCAACGCGATACTGACTT
Found at i:173414 original size:12 final size:12
Alignment explanation
Indices: 173395--173428 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
173385 CTCTCCGGCG
173395 ACATCCATTCCT
1 ACATCCATTCCT
*
173407 ATATCCATTCCT
1 ACATCCATTCCT
173419 ACATCC-TTCC
1 ACATCCATTCC
173429 CCATCTGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.24, C:0.41, G:0.00, T:0.35
Consensus pattern (12 bp):
ACATCCATTCCT
Found at i:174227 original size:12 final size:12
Alignment explanation
Indices: 174210--174234 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
174200 ATATAATCCT
174210 GAAGAAGAAAAA
1 GAAGAAGAAAAA
174222 GAAGAAGAAAAA
1 GAAGAAGAAAAA
174234 G
1 G
174235 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:176582 original size:19 final size:18
Alignment explanation
Indices: 176560--176657 Score: 77
Period size: 19 Copynumber: 5.7 Consensus size: 18
176550 GGAAATAACT
176560 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
176579 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
176593 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
**
176612 ATCGCAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
176626 ATCGCAAAGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
176645 ATCGCAACGCGAA
1 ATCGCAA-GCGAA
176658 TTTAGTTTCG
Statistics
Matches: 62, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
14 17 0.27
15 4 0.06
16 4 0.06
17 4 0.06
18 4 0.06
19 29 0.47
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.11
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:176602 original size:33 final size:33
Alignment explanation
Indices: 176560--176653 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
176550 GGAAATAACT
176560 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
176593 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
176626 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
176654 CGAATTTAGT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:176706 original size:19 final size:19
Alignment explanation
Indices: 176682--176720 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
176672 GCGATTTTGT
176682 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
176701 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
176720 C
1 C
176721 ATTACGATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:176728 original size:19 final size:19
Alignment explanation
Indices: 176687--176728 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
176677 TTTGTCGTTG
* *
176687 CGATTTTCATTTCGCGTTG
1 CGATTTTCATTTCGCATTA
176706 CGATTTTCATTTCGCATTA
1 CGATTTTCATTTCGCATTA
176725 CGAT
1 CGAT
176729 AGTCATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (19 bp):
CGATTTTCATTTCGCATTA
Found at i:176734 original size:19 final size:19
Alignment explanation
Indices: 176693--176736 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
176683 GTTGCGATTT
* * **
176693 TCATTTCGCGTTGCGATTT
1 TCATTTCGCATTACGATAG
176712 TCATTTCGCATTACGATAG
1 TCATTTCGCATTACGATAG
176731 TCATTT
1 TCATTT
176737 TTGCCTTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (19 bp):
TCATTTCGCATTACGATAG
Found at i:176854 original size:14 final size:14
Alignment explanation
Indices: 176835--176871 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
176825 CATCAATTAA
176835 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
176849 ACAAATCATCTTTT
1 ACAAATCAACTTTT
176863 ACAAATCAA
1 ACAAATCAA
176872 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:178732 original size:91 final size:91
Alignment explanation
Indices: 178562--178747 Score: 277
Period size: 91 Copynumber: 2.0 Consensus size: 91
178552 GTTTCAAACT
* *
178562 TTCAACCAAAAGATAAAACAAAGACAAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAG
1 TTCAACCAAAAGACAAAACAAAGACAAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAG
178627 CAGAATTGGCAGCAACCAAATAAATTTAC
63 CAGAATTGGCAGCAACCAAATAAATTTAC
178656 TTCAACCAAAAGACAAAACAAAAAGAC-AAATACTAACTTCACAGTGTT-AATAAACAGTTTAGC
1 TTCAACCAAAAGACAAAAC--AAAGACAAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGC
* *
178719 AGTATTGGCAGCAACCGAATAAATTTAC
64 AGAATTGGCAGCAACCAAATAAATTTAC
178747 T
1 T
178748 AAGCAATCTA
Statistics
Matches: 86, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
91 41 0.48
94 18 0.21
95 21 0.24
96 6 0.07
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (91 bp):
TTCAACCAAAAGACAAAACAAAGACAAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAG
AATTGGCAGCAACCAAATAAATTTAC
Found at i:180520 original size:19 final size:19
Alignment explanation
Indices: 180435--180565 Score: 137
Period size: 19 Copynumber: 7.1 Consensus size: 19
180425 CTTTTGGTTT
* *
180435 AAATGAAAATCACAACGAG
1 AAATGAAAATCGCAACGCG
180454 ATAATGAAAATCGCAACGCGG
1 A-AATGAAAATCGCAACGC-G
** *
180475 AAATGACTATCGCAA--TG
1 AAATGAAAATCGCAACGCG
*
180492 --A-GAGAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
180508 AAATGAAAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
*
180527 AAATGAAAATCGCAACCCG
1 AAATGAAAATCGCAACGCG
*
180546 AAATGAAAATCGCAATGCG
1 AAATGAAAATCGCAACGCG
180565 A
1 A
180566 TTTTGGTTTC
Statistics
Matches: 93, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
14 9 0.10
15 1 0.01
16 1 0.01
17 1 0.01
18 1 0.01
19 51 0.55
20 27 0.29
21 2 0.02
ACGTcount: A:0.47, C:0.20, G:0.21, T:0.13
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Found at i:180609 original size:33 final size:33
Alignment explanation
Indices: 180561--180653 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
180551 AAAATCGCAA
** *
180561 TGCGATTTTGGTTTCGTGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
*
180594 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
*
180627 TGCGATAGTT-ATTTCCGCGTTGCGATT
1 TGCGAT-TTTCATTT-CGCGTTGCGATT
180654 TTCATTCTCG
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
33 39 0.74
34 14 0.26
ACGTcount: A:0.11, C:0.19, G:0.25, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:180615 original size:19 final size:19
Alignment explanation
Indices: 180591--180659 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 19
180581 GCGATTATCT
180591 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
180610 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
180624 CGTTGCGATAGTT-ATTTCCG
1 CGTTGCGAT-TTTCATTT-CG
180644 CGTTGCGATTTTCATT
1 CGTTGCGATTTTCATT
180660 CTCGAAACTA
Statistics
Matches: 39, Mismatches: 3, Indels: 15
0.68 0.05 0.26
Matches are distributed among these distances:
14 10 0.26
17 5 0.13
19 11 0.28
20 13 0.33
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:181022 original size:22 final size:22
Alignment explanation
Indices: 180966--181024 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
180956 TGGTTGTGAG
**
180966 GGATTTCGCCGGCGATGGGGAC
1 GGATTTCGCCGTAGATGGGGAC
** **
180988 GGAAATCTTCGTAGATGGGGAC
1 GGATTTCGCCGTAGATGGGGAC
181010 GGATTTCGCCGTAGA
1 GGATTTCGCCGTAGA
181025 GAGTGAGAGA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.19, G:0.39, T:0.22
Consensus pattern (22 bp):
GGATTTCGCCGTAGATGGGGAC
Found at i:181201 original size:20 final size:20
Alignment explanation
Indices: 181176--181287 Score: 82
Period size: 20 Copynumber: 5.5 Consensus size: 20
181166 GCTATGTAAA
181176 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-GTAAGTAT
* *
181196 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
* ***
181216 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATGTAAGT-AT
* ** *
181237 TCGCATTGCGATTTACTTAA
1 TCGCATTGCGATGTAAGTAT
* * *
181257 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
181277 TCGCATTGCGA
1 TCGCATTGCGA
181288 ATTATGAAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
19 3 0.04
20 58 0.73
21 18 0.23
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATGTAAGTAT
Found at i:181300 original size:41 final size:41
Alignment explanation
Indices: 181168--181425 Score: 163
Period size: 41 Copynumber: 6.3 Consensus size: 41
181158 CGAATGGAGC
* * * *
181168 TATGTAAATCGCATTGCGATAGTAAG-ATTCGCATTGCGATT
1 TATGAAAATCGCATTGCGAT-TTACGTATTCGCATTGCGAAT
* * * * * *
181209 TACG-TATTCGCATTGCGATTTTCCTAATTCGCATTGCGATT
1 TATGAAAATCGCATTGCGATTTACGT-ATTCGCATTGCGAAT
* *
181250 TACT--TAATCGCGTTGCGATTTACGTATTCGCATTGCGAAT
1 TA-TGAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
** * * *
181290 TATGAAAATCGCAACGCGA-ATACGTAAATCGCAATGCGAAT
1 TATGAAAATCGCATTGCGATTTACGT-ATTCGCATTGCGAAT
* * * *
181331 TAGGAAAATTGCATTGCGATAGT-CAGTA-TCGCATTACG-AT
1 TATGAAAATCGCATTGCGAT-TTAC-GTATTCGCATTGCGAAT
* * * *
181371 TTTCCAAATTCGCATTGCGATTTACTTATTCGCATTGCGAAT
1 TAT-GAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
*
181413 TAGGAAAATCGCA
1 TATGAAAATCGCA
181426 ACGCGAAATT
Statistics
Matches: 165, Mismatches: 39, Indels: 26
0.72 0.17 0.11
Matches are distributed among these distances:
39 2 0.01
40 40 0.24
41 115 0.70
42 5 0.03
43 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (41 bp):
TATGAAAATCGCATTGCGATTTACGTATTCGCATTGCGAAT
Found at i:181302 original size:61 final size:60
Alignment explanation
Indices: 181173--181425 Score: 183
Period size: 61 Copynumber: 4.1 Consensus size: 60
181163 GGAGCTATGT
* * *
181173 AAATCGCATTGCGA--TAGTAAGATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCT
1 AAATCGCATTGCGATTTACTAA-A-TCGCATTGCGATTTACGTATTCGCATTGCGATTAT-CA
* * * *
181234 AATTCGCATTGCGATTTACTTAATCGCGTTGCGATTTACGTATTCGCATTGCGAATTATGA
1 AAATCGCATTGCGATTTACTAAATCGCATTGCGATTTACGTATTCGCATTGCG-ATTATCA
** * * * * *
181295 AAATCGCAACGCGA-ATACGTAAATCGCAATGCGAATTAGGAAAATT-GCATTGCGA-TAGTCA
1 AAATCGCATTGCGATTTAC-TAAATCGCATTGCGATTTACG--TATTCGCATTGCGATTA-TCA
** * * * * **
181356 GTATCGCATTACGATTTTCCAAATTCGCATTGCGATTTACTTATTCGCATTGCGAATTAGGA
1 AAATCGCATTGCGATTTACTAAA-TCGCATTGCGATTTACGTATTCGCATTGCG-ATTATCA
181418 AAATCGCA
1 AAATCGCA
181426 ACGCGAAATT
Statistics
Matches: 145, Mismatches: 35, Indels: 23
0.71 0.17 0.11
Matches are distributed among these distances:
60 8 0.06
61 92 0.63
62 36 0.25
63 9 0.06
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (60 bp):
AAATCGCATTGCGATTTACTAAATCGCATTGCGATTTACGTATTCGCATTGCGATTATCA
Found at i:181308 original size:21 final size:21
Alignment explanation
Indices: 181284--181339 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
181274 TATTCGCATT
*
181284 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* *
181305 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
181325 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
181340 TGCATTGCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:181348 original size:21 final size:21
Alignment explanation
Indices: 181277--181349 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
181267 ATTTACGTAT
* *
181277 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
181298 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
181318 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
181339 TTGCATTGCGA
1 TCGCAATGCGA
181350 TAGTCAGTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:181452 original size:21 final size:22
Alignment explanation
Indices: 181400--181452 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
181390 ATTTACTTAT
181400 TCGCATTGCG-AATTAGGAAAA
1 TCGCATTGCGAAATTAGGAAAA
**
181421 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTAGGAAAA
181442 TCGCATTGCGA
1 TCGCATTGCGA
181453 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTAGGAAAA
Found at i:185354 original size:25 final size:25
Alignment explanation
Indices: 185324--185372 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
185314 AATAATAAAT
185324 AAAACA-AGAAAAAATGAAAAATAAC
1 AAAACACAGAAAAAAT-AAAAATAAC
*
185349 AAAACACATAAAAAATAAAAATAA
1 AAAACACAGAAAAAATAAAAATAA
185373 AAATAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.78, C:0.08, G:0.04, T:0.10
Consensus pattern (25 bp):
AAAACACAGAAAAAATAAAAATAAC
Found at i:185541 original size:32 final size:33
Alignment explanation
Indices: 185505--185569 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 33
185495 AAAGTAGTTT
*
185505 TACTAA-AAAA-AATAAAAAAAATAAATATATAA
1 TACTAAGAAAACAA-AAAAAAAATAAAGATATAA
*
185537 TACTAAGTAAAACAAATAAAAAATAAAGATATA
1 TACTAAG-AAAACAAAAAAAAAATAAAGATATA
185570 CATGATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 6 0.21
34 20 0.71
35 2 0.07
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.22
Consensus pattern (33 bp):
TACTAAGAAAACAAAAAAAAAATAAAGATATAA
Found at i:185590 original size:36 final size:35
Alignment explanation
Indices: 185510--185637 Score: 90
Period size: 36 Copynumber: 3.6 Consensus size: 35
185500 AGTTTTACTA
*
185510 AAAAAAATAAAAAAAATAAATATATAATACTAAGT
1 AAAAAAATAAAAAAAATAAATACATAATACTAAGT
* *
185545 AAAACAAATAAAAAATAA-AGATATACATGATATTAAG-
1 AAAA-AAATAAAAAA-AATA-A-ATACATAATACTAAGT
185582 AAAAAAATAATAGAAAAA-AAATA-A-AATA--AAGT
1 AAAAAAATAA-A-AAAAATAAATACATAATACTAAGT
* *
185614 AAAAATATAATATATAAATAAATA
1 AAAAAAATAA-A-AAAAATAAATA
185638 AAAAAATAGA
Statistics
Matches: 78, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
31 3 0.04
32 15 0.19
33 8 0.10
34 1 0.01
35 7 0.09
36 18 0.23
37 11 0.14
38 15 0.19
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (35 bp):
AAAAAAATAAAAAAAATAAATACATAATACTAAGT
Found at i:185624 original size:32 final size:31
Alignment explanation
Indices: 185582--185655 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 31
185572 TGATATTAAG
*
185582 AAAAAAATAATAGA-AAAAAAATAAAATAAAGT
1 AAAAATATAATAGATAAAAAAATAAAA-AAA-T
* *
185614 AAAAATATAATATATAAATAAATAAAAAAAT
1 AAAAATATAATAGATAAAAAAATAAAAAAAT
*
185645 -AGAATATAATA
1 AAAAATATAATA
185656 AAACGAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 10 0.27
31 1 0.03
32 15 0.41
33 11 0.30
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (31 bp):
AAAAATATAATAGATAAAAAAATAAAAAAAT
Found at i:185633 original size:24 final size:24
Alignment explanation
Indices: 185605--185675 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 24
185595 AAAAAAAATA
185605 AAATAAAGTAAAAATATAATATAT
1 AAATAAAGTAAAAATATAATATAT
*
185629 AAATAAA-TAAAAAAATAGA-ATAT
1 AAATAAAGTAAAAATATA-ATATAT
*
185652 -AATAAAACGAATAAAATATAATAT
1 AAAT-AAA-GTA-AAAATATAATAT
185676 TAAGAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
22 3 0.08
23 16 0.42
24 8 0.21
25 2 0.05
26 9 0.24
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.25
Consensus pattern (24 bp):
AAATAAAGTAAAAATATAATATAT
Found at i:185664 original size:19 final size:18
Alignment explanation
Indices: 185596--185674 Score: 61
Period size: 18 Copynumber: 4.1 Consensus size: 18
185586 AAATAATAGA
185596 AAAAAAATAAAATA-AAGT
1 AAAAAAATAAAATATAA-T
*
185614 AAAAATATAATATATAAATAAAT
1 AAAAAAATAA-A-AT--AT-AAT
*
185637 AAAAAAATAGAATATAAT
1 AAAAAAATAAAATATAAT
*
185655 AAAACGAATAAAATATAAT
1 AAAA-AAATAAAATATAAT
185674 A
1 A
185675 TTAAGAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
18 16 0.33
19 16 0.33
20 2 0.04
21 2 0.04
22 2 0.04
23 9 0.18
24 2 0.04
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAAAAATAAAATATAAT
Found at i:185683 original size:25 final size:23
Alignment explanation
Indices: 185614--185683 Score: 61
Period size: 25 Copynumber: 2.9 Consensus size: 23
185604 AAAATAAAGT
*
185614 AAAAATATAATATATAAATAAATAA
1 AAAAATATAATAT-TAAA-AAAGAA
*
185639 AAAAATAGAATA-TAATAAAACGAA
1 AAAAATATAATATTAA-AAAA-GAA
*
185663 TAAAATATAATATTAAGAAAA
1 AAAAATATAATATTAA-AAAA
185684 AATATATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
23 6 0.16
24 13 0.35
25 18 0.49
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.24
Consensus pattern (23 bp):
AAAAATATAATATTAAAAAAGAA
Found at i:185747 original size:13 final size:12
Alignment explanation
Indices: 185729--185769 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
185719 ATCTATACAT
185729 ATATATATATAA
1 ATATATATATAA
185741 GATATATATAATAA
1 -ATATATAT-ATAA
*
185755 AAATATATATAA
1 ATATATATATAA
185767 ATA
1 ATA
185770 AAAAGGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 6 0.24
13 15 0.60
14 4 0.16
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (12 bp):
ATATATATATAA
Found at i:185747 original size:15 final size:14
Alignment explanation
Indices: 185722--185769 Score: 57
Period size: 15 Copynumber: 3.6 Consensus size: 14
185712 TTAATACATC
*
185722 TATACATATATATA
1 TATAAATATATATA
185736 TATAAGATATATATA
1 TATAA-ATATATATA
185751 -ATAAA-A-ATATA
1 TATAAATATATATA
185762 TATAAATA
1 TATAAATA
185770 AAAAGGAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
11 5 0.17
12 6 0.20
13 2 0.07
14 8 0.27
15 9 0.30
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (14 bp):
TATAAATATATATA
Found at i:185772 original size:15 final size:15
Alignment explanation
Indices: 185727--185772 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
185717 ACATCTATAC
* *
185727 ATATATATATATAAG
1 ATATATATAAATAAA
185742 ATATATAT-AATAAAA
1 ATATATATAAAT-AAA
185757 ATATATATAAATAAA
1 ATATATATAAATAAA
185772 A
1 A
185773 AGGAATATAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 2 0.07
15 22 0.81
16 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (15 bp):
ATATATATAAATAAA
Found at i:185799 original size:20 final size:19
Alignment explanation
Indices: 185750--185801 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
185740 AGATATATAT
185750 AATAAAAATATATATAAATA
1 AATAAAAA-ATATATAAATA
**
185770 AA-AAGGAATATAGTAAATA
1 AATAAAAAATATA-TAAATA
185789 AATAAAAAATATA
1 AATAAAAAATATA
185802 ATTAAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 5 0.19
19 11 0.42
20 10 0.38
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (19 bp):
AATAAAAAATATATAAATA
Found at i:185851 original size:12 final size:12
Alignment explanation
Indices: 185834--185873 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
185824 GGAATTAATA
185834 TAAAAGGTAAAT
1 TAAAAGGTAAAT
185846 TAAAAGGTAAAT
1 TAAAAGGTAAAT
**
185858 TTCAAGGTAAAT
1 TAAAAGGTAAAT
185870 TAAA
1 TAAA
185874 GATTAGATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.55, C:0.03, G:0.15, T:0.28
Consensus pattern (12 bp):
TAAAAGGTAAAT
Found at i:187348 original size:110 final size:107
Alignment explanation
Indices: 187123--187381 Score: 353
Period size: 110 Copynumber: 2.4 Consensus size: 107
187113 AGTATTGTTC
* *
187123 CGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTG--GAACTAGGAAATTGTTTGTTGA
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAGAACTAGAAAATTGTTTGTTGA
* * *
187186 CAGCCAGTCGCCCTTCGATGTGAAGTTGAGCTTGTGTTGTCT
66 CAACCAGTCACCATTCGATGTGAAGTTGAGCTTGTGTTGTCT
* * *
187228 CGAGTTCAATATCCTTCGTTATGAAGTTGAAATTGACTCTGAATGAAACT-GAAAAATTGTTTGT
1 CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA-G-AACTAG-AAAATTGTTTGT
* *
187292 TGACAATCAGTCACTCATTCGTTGTGAAGTTGAGCTTGTGTTGTCT
63 TGACAACCAGTCAC-CATTCGATGTGAAGTTGAGCTTGTGTTGTCT
*
187338 TGAGTCCAATATCCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA
1 CGAGTCCAATAT-CCTTCGTTGTGAAGTTGAAATTGGCTCTGAA
187382 ACTGGGAAGC
Statistics
Matches: 133, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
105 37 0.28
108 2 0.02
109 26 0.20
110 39 0.29
111 29 0.22
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (107 bp):
CGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAGAACTAGAAAATTGTTTGTTGA
CAACCAGTCACCATTCGATGTGAAGTTGAGCTTGTGTTGTCT
Found at i:188227 original size:67 final size:65
Alignment explanation
Indices: 188110--188276 Score: 219
Period size: 65 Copynumber: 2.5 Consensus size: 65
188100 ATGGAAAAAG
* **
188110 GTCTCAAGGGAAACAAAATTTTGTTTTAAGG-GAAATAAATTTGAAGATTTTATGTTTCAAGAGA
1 GTCTCAAGGGAGACAAAA-TTTGTTTT-AGGAGAAATAAATTCAAAGA-TTT-TGTTTCAAGAGA
188174 AACT
62 AACT
*
188178 GTCTCAAGGGAGACAAAATTTGTTTTAGGAGAAATAAATTCAAAGATTTTGTTTCAAGGGAAACT
1 GTCTCAAGGGAGACAAAATTTGTTTTAGGAGAAATAAATTCAAAGATTTTGTTTCAAGAGAAACT
* * * *
188243 GTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAA
1 GTCTCAAGGGAGACAAAATTTGTTTTAGGAGAAA
188277 CTGTCTCAAG
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
65 45 0.50
66 6 0.07
67 22 0.24
68 17 0.19
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.31
Consensus pattern (65 bp):
GTCTCAAGGGAGACAAAATTTGTTTTAGGAGAAATAAATTCAAAGATTTTGTTTCAAGAGAAACT
Found at i:188256 original size:65 final size:67
Alignment explanation
Indices: 188110--188407 Score: 207
Period size: 65 Copynumber: 4.4 Consensus size: 67
188100 ATGGAAAAAG
* * * **
188110 GTCTCAAGGGAAACAAAATTTTGTTTTAAGG-GAAATA-A-ATTTGAAGATTTTATGTTTCAAGA
1 GTCTCAAGAGAGACAAAA-TTTG-TTTCAGGAGAAATACAGATTCAAAGA-TTT-TGTTTCAAGA
188172 GAAACT
62 GAAACT
* * *
188178 GTCTCAAGGGAGACAAAATTTGTTTTAGGAGAAATA-A-ATTCAAAGATTTTGTTTCAAGGGAAA
1 GTCTCAAGAGAGACAAAATTTGTTTCAGGAGAAATACAGATTCAAAGATTTTGTTTCAAGAGAAA
188241 CT
66 CT
* * * ** * * *
188243 GTCTCAAGAGAGACGAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA-ACTTAGTTCCA
1 GTCTCAAGAGAGACAAAATTTGTTTCAGGAGAAA-----T--ACAGATTCAAAGATTTTGTTTCA
* *
188307 AAAGAAATT
59 AGAGAAACT
* * * * * * * *
188316 GTCTTAAGAGATACGAAATTTGTTTCA-AATAAA-ACATATTCAAATATTTTGTTTCAAGGGAAA
1 GTCTCAAGAGAGACAAAATTTGTTTCAGGAGAAATACAGATTCAAAGATTTTGTTTCAAGAGAAA
188379 CT
66 CT
188381 GTCTCAAGAGAGACAAAATTTGTTTCA
1 GTCTCAAGAGAGACAAAATTTGTTTCA
188408 AGGGAAACTG
Statistics
Matches: 185, Mismatches: 34, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
64 7 0.04
65 83 0.45
66 9 0.05
67 18 0.10
68 17 0.09
70 1 0.01
72 5 0.03
73 40 0.22
74 5 0.03
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.31
Consensus pattern (67 bp):
GTCTCAAGAGAGACAAAATTTGTTTCAGGAGAAATACAGATTCAAAGATTTTGTTTCAAGAGAAA
CT
Found at i:188277 original size:36 final size:36
Alignment explanation
Indices: 188225--188616 Score: 271
Period size: 36 Copynumber: 11.0 Consensus size: 36
188215 ATTCAAAGAT
*
188225 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
188261 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** * * * *
188297 CTTAGTTCCAAAAGAAATTGTCTTAAGAGATACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*** * * *
188334 TTTGTTTCAAATAAAACATAT-TC-----A-A-ATAT
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
188363 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
188399 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
188435 TTT-TATTCAAGGGAAA-TGTTTTC-A-A-TG-----T
1 TTTGT-TTCAAGGGAAACTG-TCTCAAGAGAGACAAAA
* * *
188463 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAA
1 TT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
188500 TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAA---A
* * *
188541 TTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAT
1 --TT-TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
** * *
188580 TTTGTTTCAAGGGAAACTACCTCAAGCGAGATAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
188616 T
1 T
188617 CTTATTTTTT
Statistics
Matches: 279, Mismatches: 47, Indels: 60
0.72 0.12 0.16
Matches are distributed among these distances:
28 4 0.01
29 31 0.11
30 5 0.02
31 1 0.00
32 1 0.00
33 1 0.00
34 2 0.01
35 5 0.02
36 131 0.47
37 59 0.21
38 5 0.02
41 1 0.00
42 6 0.02
43 27 0.10
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:188473 original size:101 final size:102
Alignment explanation
Indices: 188261--188538 Score: 337
Period size: 101 Copynumber: 2.7 Consensus size: 102
188251 AGAGACGAAA
* * ** * *
188261 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAATTGTCTTAAGAG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAG
* * *
188326 ATACGAAATTTGTTTCAAATAAAACATATTCAAATAT
66 AGACAAAATTTGTTTCAAAGAAAACATATTCAAATAT
*
188363 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGGGAAACTGTCTCAAGAG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAG
* * ** * *
188427 AGACAAAATTT-TATTCAAGGGAAATGTTTTC-AATGT
66 AGACAAAATTTGT-TTCAAAGAAAACATATTCAAATAT
* * * *
188463 TTATGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTTTGTTTCAAGGGAAACTATCTCAAGA
1 TT-TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGA
188528 GAGACAAAATT
65 GAGACAAAATT
188539 CATTTTATGT
Statistics
Matches: 153, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
100 7 0.05
101 74 0.48
102 72 0.47
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAG
AGACAAAATTTGTTTCAAAGAAAACATATTCAAATAT
Found at i:188517 original size:37 final size:37
Alignment explanation
Indices: 188466--188616 Score: 160
Period size: 37 Copynumber: 3.9 Consensus size: 37
188456 TCAATGTTTA
*
188466 TGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * *
188503 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAA---A-TTT
188545 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* ** * *
188582 TGTTTCAAGGGAAACTACCTCAAGCGAGATAAAAT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT
188617 CTTATTTTTT
Statistics
Matches: 95, Mismatches: 12, Indels: 14
0.79 0.10 0.12
Matches are distributed among these distances:
36 25 0.26
37 33 0.35
38 4 0.04
41 3 0.03
42 3 0.03
43 27 0.28
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (37 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:188624 original size:80 final size:80
Alignment explanation
Indices: 188462--188616 Score: 267
Period size: 79 Copynumber: 1.9 Consensus size: 80
188452 GTTTTCAATG
* *
188462 TTTATGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTTTGTTTCAAGGGAAACTATCTCAAG
1 TTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTACCTCAAG
188527 AGAGACAAAATTCAT
66 AGAGACAAAATTCAT
188542 TTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAATTTTGTTTCAAGGGAAACTACCTCAAG
1 TTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTACCTCAAG
* *
188606 CGAGATAAAAT
66 AGAGACAAAAT
188617 CTTATTTTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
79 38 0.54
80 33 0.46
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.28
Consensus pattern (80 bp):
TTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTACCTCAAG
AGAGACAAAATTCAT
Found at i:190188 original size:68 final size:69
Alignment explanation
Indices: 190072--190205 Score: 216
Period size: 68 Copynumber: 2.0 Consensus size: 69
190062 TTCTCTCTTA
* *
190072 ATGCTATATGATCTTCGAGTGGAGTGATTCAGTGATTCATAAATGATTGTGCTTGATCAATCTCA
1 ATGCTATATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATCTCA
190137 TTTG
66 TTTG
* * *
190141 ATGCTCTATGATCTTCGAGTGAAGTG-TTCAGTGATTCGGAAATGATTGTGTTTGATCAATCTCA
1 ATGCTATATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATCTCA
190205 T
66 T
190206 AGTTTGAATC
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
68 36 0.60
69 24 0.40
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.39
Consensus pattern (69 bp):
ATGCTATATGATCTTCGAGTGAAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATCTCA
TTTG
Found at i:190283 original size:13 final size:13
Alignment explanation
Indices: 190262--190310 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
190252 TTTTCTTCAA
190262 TTTTC-CTTTGTT
1 TTTTCTCTTTGTT
190274 TTTTCTCTTT-TT
1 TTTTCTCTTTGTT
190286 ATTTTCTCTTTGCTT
1 -TTTTCTCTTTG-TT
*
190301 TGTTCTCTTT
1 TTTTCTCTTT
190311 TTGTTCTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 7 0.22
13 14 0.44
14 9 0.28
15 2 0.06
ACGTcount: A:0.02, C:0.18, G:0.06, T:0.73
Consensus pattern (13 bp):
TTTTCTCTTTGTT
Done.