Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 73
Found at i:360170 original size:22 final size:22
Alignment explanation
Indices: 360145--360195 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
360135 GATACCTGGA
360145 ATGAACTCCTTGTAGCTCAATT
1 ATGAACTCCTTGTAGCTCAATT
360167 ATGAACTCCTTGTAGCTCAATT
1 ATGAACTCCTTGTAGCTCAATT
360189 ATGAACT
1 ATGAACT
360196 TTGTTATACG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (22 bp):
ATGAACTCCTTGTAGCTCAATT
Found at i:371247 original size:3 final size:3
Alignment explanation
Indices: 371239--371306 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
371229 TAATTTAAGG
371239 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
371287 TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TT
371307 ATTTTTCCTG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:372639 original size:2 final size:2
Alignment explanation
Indices: 372632--372665 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
372622 TTCATGTCAC
*
372632 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
372666 CAGATGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:376598 original size:28 final size:29
Alignment explanation
Indices: 376534--376626 Score: 100
Period size: 29 Copynumber: 3.0 Consensus size: 29
376524 TATATATTTC
376534 TCTTATTTTAAATTAAAAAATATATAATATTTAAT
1 TCTTATTTTAAATT--AAAA-ATAT-AT-TTT-AT
*
376569 TCTTATCTTT-ACTT-AAAATATATTTTAT
1 TCTTAT-TTTAAATTAAAAATATATTTTAT
376597 TCTTATTTTAAATTAAAAATATATTTTAT
1 TCTTATTTTAAATTAAAAATATATTTTAT
376626 T
1 T
376627 ATCATCTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
27 3 0.06
28 11 0.21
29 18 0.34
30 2 0.04
31 4 0.08
32 3 0.06
35 9 0.17
36 3 0.06
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (29 bp):
TCTTATTTTAAATTAAAAATATATTTTAT
Found at i:376798 original size:2 final size:2
Alignment explanation
Indices: 376791--376830 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
376781 GATAAAGATA
376791 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
376831 TACATTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:376886 original size:29 final size:30
Alignment explanation
Indices: 376834--376909 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 30
376824 TATATATTAC
* *
376834 ATTAAAATAAAAACAAAATATATTTAATAA
1 ATTAAAACAAAAATAAAATATATTTAATAA
*
376864 ATTAAGACAAAAATAAAA-ATATTTAATAA
1 ATTAAAACAAAAATAAAATATATTTAATAA
* *
376893 GTTAAAATAAAAATAAA
1 ATTAAAACAAAAATAAA
376910 GAGATAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 25 0.62
30 15 0.38
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (30 bp):
ATTAAAACAAAAATAAAATATATTTAATAA
Found at i:377830 original size:23 final size:24
Alignment explanation
Indices: 377777--377830 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
377767 AAGAATAAAA
*
377777 ATAAGTAAAAAAATAAAAGGAAAT
1 ATAAATAAAAAAATAAAAGGAAAT
* *
377801 ATAAATAAATAAAT-AAATGAAAT
1 ATAAATAAAAAAATAAAAGGAAAT
*
377824 ATTAATA
1 ATAAATA
377831 TATATATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (24 bp):
ATAAATAAAAAAATAAAAGGAAAT
Found at i:377852 original size:29 final size:29
Alignment explanation
Indices: 377798--377853 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
377788 AATAAAAGGA
*
377798 AATATAAATAAATAAATAAATGAAATATT
1 AATATAAATAAATAAATAAATAAAATATT
* *
377827 AATATATATATATAAA-AAAGTAAAATA
1 AATATAAATAAATAAATAAA-TAAAATA
377854 GAAAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (29 bp):
AATATAAATAAATAAATAAATAAAATATT
Found at i:378138 original size:19 final size:21
Alignment explanation
Indices: 378105--378179 Score: 66
Period size: 22 Copynumber: 3.6 Consensus size: 21
378095 GTATATATAT
*
378105 ATATATATATATAAATAATAA
1 ATATATATATATAAAAAATAA
378126 ATATA-ATAT-TAAAAAATAA
1 ATATATATATATAAAAAATAA
** * *
378145 CCAAATGA-ATATAAATAAATAT
1 ATATAT-ATATATAAA-AAATAA
378167 ATATATATATATA
1 ATATATATATATA
378180 TAATAATATA
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
19 11 0.27
20 6 0.15
21 11 0.27
22 13 0.32
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (21 bp):
ATATATATATATAAAAAATAA
Found at i:378696 original size:37 final size:37
Alignment explanation
Indices: 378655--378762 Score: 144
Period size: 37 Copynumber: 2.9 Consensus size: 37
378645 GTGCTTGCGG
* *
378655 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
* * * *
378692 ATCCTATTTTTAGGAGTTTTAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
* *
378729 ATCATATTTTTAGGAGTTTGAATCCTAGTAGAAC
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAAC
378763 GAAAAGATGT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
Found at i:379722 original size:106 final size:106
Alignment explanation
Indices: 379413--380140 Score: 999
Period size: 106 Copynumber: 6.9 Consensus size: 106
379403 AGCATTGTTC
* ***
379413 TGAGTCCAATATCC-TC-CATCGTGAAGTTGAAATTGGCTCTGGAACCAGGAAATTATTTGTTGA
1 TGAGTCCAATATCCTTCGC-T-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGA
* * *
379476 CAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
64 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
379519 CGAGTCCAATATCTTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAAA-T-TTTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACA
* * * * *
379578 ATCAGCACG-CCCTTCGTCGTAAAGTTGATCTTGTGTTGTCT
66 ACCAGC-GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * * *
379619 TGGGTCCAAGATCCTTCGATGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACA
379684 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
379725 TGAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACA
*
379790 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * * * * *
379831 GGAGTTCAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTAAAATTGAGAAGTTATTTGTTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACA
379896 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
379937 GGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAAGTTGTTTATTGAC
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-TTATTTGTTGAC
*
380001 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
65 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* *
380043 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGATA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACA
*
380108 ACCAGCGGTCCCTTCGTCGTGAATTTGAACTTG
66 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
380141 TTTGAAATTG
Statistics
Matches: 557, Mismatches: 53, Indels: 24
0.88 0.08 0.04
Matches are distributed among these distances:
100 78 0.14
101 5 0.01
102 5 0.01
104 3 0.01
105 7 0.01
106 450 0.81
107 8 0.01
108 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (106 bp):
TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTGTTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:380021 original size:318 final size:313
Alignment explanation
Indices: 379413--380936 Score: 1284
Period size: 318 Copynumber: 4.7 Consensus size: 313
379403 AGCATTGTTC
*** *
379413 TGAGTCCAATATCC-TC-CATCGTGAAGTTGAAATTGGCTCTGGAACCAGGAAATTATTTGTTGA
1 TGAGTCCAATATCCTTCGC-T-GTGAAGTTGAAATTGGCTCT-GAAATTGGAAATTGTTTGTTGA
* * * * *
379476 CAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCTTTCGCTGT
63 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG-TGT
* * * *
379541 GAAGTTGAAATTGACTCTGAA-TGA-AA--TTTTGTTGACAATCAGCACG-CCCTTCGTCGTAAA
127 GAAGTTGAAATTG-CTCTAAATTGAGAAGTTTTTGTTGACAACCAGC-GGTCCCTTCGTCGTGAA
* * * * *
379601 GTTGATCTTGTGTTGTCTTGG-GTCCAAGATCCTTCGATGAGAAGTTGAAATTGGCTCTGAAATT
190 GTTGAACTTGCGTTGTC-TGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT
*
379665 GGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
254 GGAAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * *
379725 TGAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAATTGTTTGTTGACA
* *
379790 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTTCAATATCCTTCGTTGTGA
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG-TGTGA
379855 AGTTGAAATTAGCTCTAAAATTGAGAAGTTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
129 AGTTGAAATT-GCTCT-AAATTGAGAAGTT-TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
379920 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
191 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG
*
379985 AAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCT
256 AAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
380043 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGATA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAATTGTTTGTTGACA
* * * * ** *
380108 ACCAGCGGTCCCTTCGTCGTGAATTTGAACTTGTTTGAAATTGGCTCTGAATTGGAAGT-T-GTT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG--CG---TT-G-TCTGGAGTCCAA-TATCCTT
* ** *** * * * ** ***
380171 TGT-TGAAACCAGCGGTCCCTT-CGTCGTGAAGTT--GAACTTGCGTTGTCTGA-GTCCA-ATAT
122 CGTGTG--A--AGTTG-AAATTGC-TC-T-AAATTGAGAAGTT--TTTGT-TGACAACCAGCGGT
* * *
380230 -CCTTCG-CTGTGAAGTTGAAATTG-GCTCTGAAAT-TGGGAAGTTATTTATTGACAACCAGCGG
176 CCCTTCGTC-GTGAAGTTGAACTTGCG-T-TG---TCT-GG-AG--------T-CCAA-TA----
*
380291 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAGTCCAATAT-CCTACGTGAAGTTGAAATTG
219 T-CCTTCG-C-T---G-TGAA--------GT-TGA----AAT-TGGCT-C-------TGAAATT-
*
380355 GCTCTGAAATTAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
254 G----G--A--AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
380420 TCT
311 TCT
* * * *
380423 GGAGTCCAGTATCCTTCGTTGT-AAGTTGAAATTGGCTCTGAAATT-GAAGTTGTTTGTTGACAA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAATTGTTTGTTGACAA
*
380486 CCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCT-GAGTCCAATATCCTTCGTGTGAAG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTGTGAAG
* *
380550 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
131 TTGAAATT-GCTCT-AAATTGAGAAGTT-TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
380615 GAACTTGCGTTGTCT-GAGTCCAATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAAATT--AA
193 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAA
380676 A-TTGTTTATTGACAACCAGCGGTCCCTTCGT--TGAAGTTGAACTTGCGTTGTCT
258 AGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
* * * *
380729 GGAGTCCAATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAAATTAGAAGTCGTTTGTTGACAA
1 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAATTGTTTGTTGACAA
*
380793 CCAGCGGTCCCTTCAT--TGAAGTTGAACTT-CGTTGTCTGGAGTCCAATATCCTTCGTGTGAAG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTGTGAAG
* * * ** *
380855 TTGAAATTGGCT-GAAATTGAGAAATTTTTATTGACAACCAGCGGTCCCTTAATTGTGAAGTTGA
131 TTGAAATT-GCTCTAAATTGAGAAGTTTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
* *
380919 ACTTGTGTTGTCTTGAGT
195 ACTTGCGTTGTCTGGAGT
380937 GGCACGATAT
Statistics
Matches: 1004, Mismatches: 101, Indels: 223
0.76 0.08 0.17
Matches are distributed among these distances:
302 47 0.05
303 15 0.01
304 8 0.01
305 52 0.05
306 62 0.06
307 32 0.03
308 30 0.03
309 2 0.00
311 4 0.00
312 122 0.12
313 5 0.00
314 4 0.00
315 2 0.00
317 5 0.00
318 234 0.23
320 7 0.01
322 2 0.00
323 5 0.00
324 26 0.03
325 18 0.02
326 13 0.01
327 13 0.01
328 8 0.01
329 2 0.00
332 3 0.00
333 2 0.00
337 1 0.00
338 3 0.00
339 1 0.00
341 4 0.00
342 1 0.00
343 1 0.00
344 6 0.01
345 2 0.00
346 1 0.00
348 6 0.01
349 2 0.00
350 4 0.00
353 1 0.00
354 3 0.00
355 1 0.00
358 2 0.00
359 3 0.00
363 7 0.01
364 3 0.00
365 1 0.00
366 12 0.01
367 11 0.01
368 10 0.01
369 27 0.03
370 9 0.01
371 10 0.01
372 3 0.00
375 1 0.00
376 1 0.00
377 46 0.05
378 1 0.00
379 23 0.02
380 74 0.07
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (313 bp):
TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTGTGAAG
TTGAAATTGCTCTAAATTGAGAAGTTTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAGT
TGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
Found at i:380193 original size:70 final size:73
Alignment explanation
Indices: 380069--380210 Score: 245
Period size: 70 Copynumber: 2.0 Consensus size: 73
380059 CGCTGTGAAG
*
380069 TTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGATAACCAGCGGTCCCTTCGTCGTGAATTT
1 TTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGATAACCAGCGGTCCCTTCGTCGTGAAGTT
380134 GAACTTGT
66 GAACTTGT
*
380142 TTGAAATTGGCTCTG-AATT-GGAAGTTGTTTGTTGA-AACCAGCGGTCCCTTCGTCGTGAAGTT
1 TTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGATAACCAGCGGTCCCTTCGTCGTGAAGTT
380204 GAACTTG
66 GAACTTG
380211 CGTTGTCTGA
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
70 33 0.49
71 15 0.22
72 4 0.06
73 15 0.22
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (73 bp):
TTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGATAACCAGCGGTCCCTTCGTCGTGAAGTT
GAACTTGT
Found at i:380258 original size:175 final size:178
Alignment explanation
Indices: 379962--380517 Score: 676
Period size: 175 Copynumber: 3.0 Consensus size: 178
379952 TCGCTGTGAA
*
379962 GTTGAAATTGGCTCTGAAATTGGAAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGT
1 GTTGAAATTGGCTCTG-AATTGG-AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
380027 TGAACTTGCATTGTCTTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
64 TGAACTTGCGTTGTC-TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGG
* * *
380092 AAATTGTTTGTTGATAACCAGCGGTCCCTTCGTCGTGAATTTGAACTTG-T
128 AAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTT
380142 -TTGAAATTGGCTCTGAATTGGAAGTTGTTTGTTGA-AACCAGCGGTCCCTTCGTCGTGAAGTTG
1 GTTGAAATTGGCTCTGAATTGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
380205 AACTTGCGTTGTCTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
66 AACTTGCGTTGTCTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
* *
380270 TTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
131 TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT--GTT
* *
380320 GTCTGAGTCCAATAT-CCTACGTGAAGTTGAAATTGGCTCTGAAATTAAATTGTTTATTGACAAC
1 GT-TGA----AAT-TGGCT-C-TGAA-TTGGAA---G-T-TG----T---TTG----TTGACAAC
* *
380384 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAGTATCCTTCGTTGT-AAG
41 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GAGTCCAATATCCTTCGCTGTGAAG
*
380448 TTGAAATTGGCTCTGAAATT--GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTT
105 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
380511 GAACTTG
170 GAACTTG
380518 CGTTGTCTGA
Statistics
Matches: 331, Mismatches: 14, Indels: 42
0.86 0.04 0.11
Matches are distributed among these distances:
175 92 0.28
176 40 0.12
177 14 0.04
178 7 0.02
179 16 0.05
180 3 0.01
184 5 0.02
185 2 0.01
186 4 0.01
187 5 0.02
190 1 0.00
191 1 0.00
192 2 0.01
196 1 0.00
199 3 0.01
200 1 0.00
202 46 0.14
203 4 0.01
204 65 0.20
205 19 0.06
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (178 bp):
GTTGAAATTGGCTCTGAATTGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
AACTTGCGTTGTCTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
TTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTT
Found at i:380458 original size:102 final size:102
Alignment explanation
Indices: 380142--380936 Score: 1197
Period size: 102 Copynumber: 7.8 Consensus size: 102
380132 TTGAACTTGT
* *
380142 TTGAAATTGGCTCTG-AATTGGAAGTTGTTTGTTGA-AACCAGCGGTCCCTTCGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATT-GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
380205 AACTTGCGTTGTCTGAGTCCAATATCCTTCGCTGTGAAG
65 AACTTGCGTTGTCTGAGTCCAATATCCTTCG-TGTGAAG
* *
380244 TTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
1 TTGAAATTGGCTCTGAAATT--GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
380309 GAACTTGCGTTGTCTGAGTCCAATATCCTAC--GTGAAG
64 GAACTTGCGTTGTCTGAGTCCAATATCCTTCGTGTGAAG
380346 TTGAAATTGGCTCTGAAATT-AAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
1 TTGAAATTGGCTCTGAAATTGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
*
380410 ACTTGCGTTGTCTGGAGTCCAGTATCCTTCGT-TGTAAG
66 ACTTGCGTTGTCT-GAGTCCAATATCCTTCGTGTG-AAG
* * *
380448 TTGAAATTGGCTCTGAAATTGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGA
1 TTGAAATTGGCTCTGAAATTGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
380513 ACTTGCGTTGTCTGAGTCCAATATCCTTCGTGTGAAG
66 ACTTGCGTTGTCTGAGTCCAATATCCTTCGTGTGAAG
*
380550 TTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
1 TTGAAATTGGCTCTGAAATT--GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
380615 GAACTTGCGTTGTCTGAGTCCAATATCCTTCGTGTGAAG
64 GAACTTGCGTTGTCTGAGTCCAATATCCTTCGTGTGAAG
380654 TTGAAATTGGCTCTGAAATT-AAATTGTTTATTGACAACCAGCGGTCCCTTCGT--TGAAGTTGA
1 TTGAAATTGGCTCTGAAATTGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
380716 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTGTGAAG
66 ACTTGCGTTGTCT-GAGTCCAATATCCTTCGTGTGAAG
* * * *
380754 TTGAAATTGGCTCTGAAATTAGAAGTCGTTTGTTGACAACCAGCGGTCCCTTCAT--TGAAGTTG
1 TTGAAATTGGCTCTGAAATT-GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTG
380817 AACTT-CGTTGTCTGGAGTCCAATATCCTTCGTGTGAAG
65 AACTTGCGTTGTCT-GAGTCCAATATCCTTCGTGTGAAG
** *
380855 TTGAAATTGG--CTGAAATTGAGAAATT-TTTATTGACAACCAGCGGTCCCTTAATTGTGAAGTT
1 TTGAAATTGGCTCTGAAATT--GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
*
380917 GAACTTGTGTTGTCTTGAGT
64 GAACTTGCGTTGTC-TGAGT
380937 GGCACGATAT
Statistics
Matches: 651, Mismatches: 23, Indels: 38
0.91 0.03 0.05
Matches are distributed among these distances:
99 110 0.17
100 63 0.10
101 90 0.14
102 156 0.24
103 61 0.09
104 114 0.18
105 57 0.09
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (102 bp):
TTGAAATTGGCTCTGAAATTGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
ACTTGCGTTGTCTGAGTCCAATATCCTTCGTGTGAAG
Found at i:380713 original size:306 final size:304
Alignment explanation
Indices: 380142--380936 Score: 1329
Period size: 306 Copynumber: 2.6 Consensus size: 304
380132 TTGAACTTGT
*
380142 TTGAAATTGGCTCTG-AATTGGAAGTTGTTTGTTGA-AACCAGCGGTCCCTTCGTCGTGAAGTTG
1 TTGAAATTGGCTCTGAAATTAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC-TGAAGTTG
380205 AACTTGCGTTGTCTGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
65 AACTTGCGTTGTCTGAGTCCAATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
380270 TTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAGTCCAATAT
129 TT-TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAGTCCAATAT
380335 CCTACGTGAAGTTGAAATTGGCTCTGAAATTAAATTGTTTATTGACAACCAGCGGTCCCTTCGTC
193 CCTACGTGAAGTTGAAATTGGCTCTGAAATTAAATTGTTTATTGACAACCAGCGGTCCCTTCGTC
*
380400 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAGTATCCTTCGT-TGTAAG
258 -TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTGTG-AAG
380448 TTGAAATTGGCTCTGAAATT-GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTG
1 TTGAAATTGGCTCTGAAATTAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTC-TGAAGTTG
380512 AACTTGCGTTGTCTGAGTCCAATATCCTTCGTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
65 AACTTGCGTTGTCTGAGTCCAATATCCTTCGTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
380577 TGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAGTCCAATATC
130 T-TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAGTCCAATATC
*
380642 CTTCGTGTGAAGTTGAAATTGGCTCTGAAATTAAATTGTTTATTGACAACCAGCGGTCCCTTCGT
194 CTAC--GTGAAGTTGAAATTGGCTCTGAAATTAAATTGTTTATTGACAACCAGCGGTCCCTTCGT
380707 -TGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTGTGAAG
257 CTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTGTGAAG
* *
380754 TTGAAATTGGCTCTGAAATTAGAAGTCGTTTGTTGACAACCAGCGGTCCCTTCAT-TGAAGTTGA
1 TTGAAATTGGCTCTGAAATTAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCTGAAGTTGA
* *
380818 ACTT-CGTTGTCTGGAGTCCAATATCCTTCGTGTGAAGTTGAAATTGG--CTGAAATTGAGAAAT
66 ACTTGCGTTGTCT-GAGTCCAATATCCTTCGTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
** * *
380880 TTTTATTGACAACCAGCGGTCCCTTAATTGTGAAGTTGAACTTGTGTTGTCTTGAGT
130 TTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGAGT
380937 GGCACGATAT
Statistics
Matches: 469, Mismatches: 12, Indels: 19
0.94 0.02 0.04
Matches are distributed among these distances:
302 46 0.10
303 19 0.04
304 8 0.02
305 47 0.10
306 194 0.41
307 96 0.20
308 59 0.13
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (304 bp):
TTGAAATTGGCTCTGAAATTAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCTGAAGTTGA
ACTTGCGTTGTCTGAGTCCAATATCCTTCGTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTT
TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAGTCCAATATCCT
ACGTGAAGTTGAAATTGGCTCTGAAATTAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCTGA
AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTGTGAAG
Found at i:381767 original size:22 final size:22
Alignment explanation
Indices: 381741--381839 Score: 153
Period size: 22 Copynumber: 4.5 Consensus size: 22
381731 TTATGTTTGG
* *
381741 TCAAAGGTTTGGTATTTTATGC
1 TCAAAGGTTTGGCATTTGATGC
381763 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
381785 TCATAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
381807 TCATAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
381829 TCAACGGTTTG
1 TCAAAGGTTTG
381840 ATGGGGTAGC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 72 1.00
ACGTcount: A:0.20, C:0.13, G:0.26, T:0.40
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:382529 original size:172 final size:173
Alignment explanation
Indices: 382235--382581 Score: 601
Period size: 172 Copynumber: 2.0 Consensus size: 173
382225 TAAATAGGCC
*
382235 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTCTGATGCCTTCAATCATGTCCTG
1 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGCCTTCAA-CA-GTCCTG
382300 CTCAAAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATG
64 CTCAAAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATG
382365 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
129 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
* *
382410 CAAACAAGTGTTTCAGGTTGTTGAACCAAGGATCAATTCATTATGATGTCTTC-A-A-TCCTGCT
1 CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGCCTTCAACAGTCCTGCT
382472 CAAAATGTTTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATG
66 CAAAATG--TCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATG
*
382537 ATTGTGCTTGATCAATCTCATAGTTTGAAGTTTGATGTGCCATTT
129 ATTGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
382582 TTTTAGGGAA
Statistics
Matches: 166, Mismatches: 4, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
170 14 0.08
172 101 0.61
174 1 0.01
175 50 0.30
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (173 bp):
CAAACAAGTGTTTCAGGGTGTTGAACCAAGGATCAATTCATTATGATGCCTTCAACAGTCCTGCT
CAAAATGTCTCTCTCTTGATGCTCTATGATCTTCGAGTGAAGTGATTCAGTGATTCGGGAATGAT
TGTGCTTGATCAATCTCATAGTTTGAAGCTTGATGTGCCATTT
Found at i:387243 original size:8 final size:8
Alignment explanation
Indices: 387230--387256 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
387220 GTGTCAGAGG
387230 GAAAAAAT
1 GAAAAAAT
387238 GAAAAAAT
1 GAAAAAAT
387246 GAAAAAAT
1 GAAAAAAT
387254 GAA
1 GAA
387257 GAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.11
Consensus pattern (8 bp):
GAAAAAAT
Found at i:387323 original size:2 final size:2
Alignment explanation
Indices: 387316--387341 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
387306 ATGAAATTTA
387316 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
387342 GAGTAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:387405 original size:18 final size:18
Alignment explanation
Indices: 387356--387409 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 18
387346 AAAATAGAAA
*
387356 AATAATAATCATAACAATAAT
1 AATAGTAAT-ATAA-AAT-AT
387377 AATAGTAATATGAAAATAT
1 AATAGTAATAT-AAAATAT
387396 AATA-TAATATAAAA
1 AATAGTAATATAAAA
387410 AAACCAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 6 0.19
19 6 0.19
20 5 0.16
21 10 0.32
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (18 bp):
AATAGTAATATAAAATAT
Found at i:387410 original size:18 final size:19
Alignment explanation
Indices: 387360--387410 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
387350 TAGAAAAATA
*
387360 ATAATCATAACAATAATAAT
1 ATAAT-ATAAAAATAATAAT
*
387380 AGTAATATGAAAAT-ATAAT
1 A-TAATATAAAAATAATAAT
387399 ATAATATAAAAA
1 ATAATATAAAAA
387411 AACCAAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.37
19 6 0.22
20 7 0.26
21 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (19 bp):
ATAATATAAAAATAATAAT
Found at i:387427 original size:33 final size:33
Alignment explanation
Indices: 387389--387471 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 33
387379 TAGTAATATG
387389 AAAATATAATATAATATAAAAAAACCAAAAACA
1 AAAATATAATATAATATAAAAAAACCAAAAACA
* * *
387422 AAAATA-AATA-AATAT--ATAAACCAAATATA
1 AAAATATAATATAATATAAAAAAACCAAAAACA
*
387451 AAAGTATACATATAATGATAA
1 AAAATATA-ATATAAT-ATAA
387472 TTGGCTTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
29 16 0.40
30 1 0.03
31 8 0.20
32 7 0.17
33 8 0.20
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.23
Consensus pattern (33 bp):
AAAATATAATATAATATAAAAAAACCAAAAACA
Found at i:387652 original size:19 final size:19
Alignment explanation
Indices: 387628--387716 Score: 76
Period size: 19 Copynumber: 4.6 Consensus size: 19
387618 AAGTGTATAT
387628 ATATATATATAAATAATAA
1 ATATATATATAAATAATAA
* *
387647 ATATATATAAAAAATAACCAA
1 ATATATAT-ATAAATAA-TAA
*
387668 ATGAATATAAATAAATAA-AA
1 AT--ATATATATAAATAATAA
*
387688 TATATATATATAGATAAT-A
1 -ATATATATATAAATAATAA
387707 ATA-ATATATA
1 ATATATATATA
387717 GTGTAAAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
17 7 0.12
18 3 0.05
19 21 0.36
20 9 0.16
21 6 0.10
22 7 0.12
23 5 0.09
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
ATATATATATAAATAATAA
Found at i:388228 original size:37 final size:37
Alignment explanation
Indices: 388187--388294 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
388177 GTGTTTGTGG
* * *
388187 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
388224 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
388261 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAAC
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAAC
388295 GAAAAAGTGT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:389894 original size:16 final size:16
Alignment explanation
Indices: 389873--389907 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
389863 ATTGGATTGT
389873 AATACTTCGACCAAGC
1 AATACTTCGACCAAGC
*
389889 AATACTTCGATCAAGC
1 AATACTTCGACCAAGC
389905 AAT
1 AAT
389908 GATTTCCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (16 bp):
AATACTTCGACCAAGC
Found at i:392593 original size:40 final size:40
Alignment explanation
Indices: 392495--392604 Score: 116
Period size: 40 Copynumber: 2.6 Consensus size: 40
392485 GGTGATAACT
*
392495 CGGTTCCTACGCGATGAGGAAGGCTGGTTATCTAGGGGTGACA
1 CGGTTCCTACGTGATGAGG-AGGCTGG-T-TCTAGGGGTGACA
* * *
392538 CGGCTCATACATGATGAGGAGGTCTGG-TC-AGGGGATGACA
1 CGGTTCCTACGTGATGAGGAGG-CTGGTTCTAGGGG-TGACA
392578 CGGTTCCTACGTGATGAGGACGGCTGG
1 CGGTTCCTACGTGATGAGGA-GGCTGG
392605 CCATCTATAG
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
39 5 0.09
40 28 0.49
41 2 0.04
42 3 0.05
43 19 0.33
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.22
Consensus pattern (40 bp):
CGGTTCCTACGTGATGAGGAGGCTGGTTCTAGGGGTGACA
Found at i:392610 original size:134 final size:133
Alignment explanation
Indices: 392146--392610 Score: 524
Period size: 134 Copynumber: 3.5 Consensus size: 133
392136 CGATTCCTAT
* ** ** * * * *
392146 GTGATGAGGAGATCTGGTCAGGTAATGACACGACTCATACATGATGAAGAGATC--CTTGCCATA
1 GTGATGAGGAGGTCTGGTCAGGGGATGACACGGTTCCTACGTGATG-AG-GA-CGGCTGGCCATC
* * * * *
392209 TTTAGGTAGGGTGATAACACAGTTCCTACACGATGAGGACGGCTGGTTATCTAGGGGTGGCATGA
63 TTTAGG-AGGGTGATAACTCGGTTCCTACGCGATGAGGACGGCTGGTTATCTAGGGGTGACATGG
*
392274 CTCTTAC
127 CTCATAC
*
392281 GTGATGAGGAGGT-TTGTCAGGGGATGACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTTT
1 GTGATGAGGAGGTCTGGTCAGGGGATGACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTTT
* * * * *
392345 AAGAGTTGTGATAACTCGGTTCCTACGTGATGAGGACGACTAGTTATCTAGGGGTGACATGGCTC
66 AGGAG-GGTGATAACTCGGTTCCTACGCGATGAGGACGGCTGGTTATCTAGGGGTGACATGGCTC
392410 ATAC
130 ATAC
** * * * * * * * * *
392414 GTGATGAAAAGATCTGGTCAGGGGATGATACGGCTCATACATAATGAAGA-GTTCTGGTCATCTT
1 GTGATGAGGAGGTCTGGTCAGGGGATGACACGGTTCCTACGTGATGAGGACG-GCTGGCCATCTT
* *
392478 TAGGAAGGGTGATAACTCGGTTCCTACGCGATGAGGAAGGCTGGTTATCTAGGGGTGACACGGCT
65 TAGG-AGGGTGATAACTCGGTTCCTACGCGATGAGGACGGCTGGTTATCTAGGGGTGACATGGCT
392543 CATAC
129 CATAC
*
392548 ATGATGAGGAGGTCTGGTCAGGGGATGACACGGTTCCTACGTGATGAGGACGGCTGGCCATCT
1 GTGATGAGGAGGTCTGGTCAGGGGATGACACGGTTCCTACGTGATGAGGACGGCTGGCCATCT
392611 ATAGTGATTA
Statistics
Matches: 271, Mismatches: 52, Indels: 15
0.80 0.15 0.04
Matches are distributed among these distances:
131 1 0.00
132 4 0.01
133 78 0.29
134 173 0.64
135 15 0.06
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (133 bp):
GTGATGAGGAGGTCTGGTCAGGGGATGACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTTT
AGGAGGGTGATAACTCGGTTCCTACGCGATGAGGACGGCTGGTTATCTAGGGGTGACATGGCTCA
TAC
Found at i:392663 original size:28 final size:28
Alignment explanation
Indices: 392623--392705 Score: 103
Period size: 28 Copynumber: 2.9 Consensus size: 28
392613 AGTGATTATG
** *
392623 GTTTCAAGGGAAACTGACTCAAAGATTT
1 GTTTCAAAAGAAACAGACTCAAAGATTT
392651 GTTTCAAAAGAAACAGACTCAAAGATTT
1 GTTTCAAAAGAAACAGACTCAAAGATTT
* * *
392679 GTTTCAAGAAAAAAAAAACTCAAAGAT
1 GTTTCAA-AAGAAACAGACTCAAAGAT
392706 GATGTGTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 32 0.67
29 16 0.33
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (28 bp):
GTTTCAAAAGAAACAGACTCAAAGATTT
Found at i:392962 original size:28 final size:28
Alignment explanation
Indices: 392927--393020 Score: 136
Period size: 28 Copynumber: 3.4 Consensus size: 28
392917 AGGGAAACCG
* *
392927 ACTCAAAGATTTGTTT-AAAAAGAAACAG
1 ACTCAAAGATTTGTTTCAAGAA-AAACAA
* *
392955 ACTTAAAGATTTGTTTCAAGTAAAACAA
1 ACTCAAAGATTTGTTTCAAGAAAAACAA
392983 ACTCAAAGATTTGTTTCAAGAAAAACAA
1 ACTCAAAGATTTGTTTCAAGAAAAACAA
393011 ACTCAAAGAT
1 ACTCAAAGAT
393021 GGTAAATTTT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 56 0.95
29 3 0.05
ACGTcount: A:0.49, C:0.13, G:0.12, T:0.27
Consensus pattern (28 bp):
ACTCAAAGATTTGTTTCAAGAAAAACAA
Found at i:393139 original size:37 final size:38
Alignment explanation
Indices: 393091--393162 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
393081 AAGAGACAAA
* *
393091 ATTTTGTTTTCAAAG-AAAACAGATTCAAAGATTTTTTC
1 ATTTTGTTTTC-AAGTAAAACAAACTCAAAGATTTTTTC
*
393129 ATTTTG-TTTCAAGTGAAACAAACTCAAAGATTTT
1 ATTTTGTTTTCAAGTAAAACAAACTCAAAGATTTT
393163 GTGTTTCCAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
36 3 0.10
37 21 0.70
38 6 0.20
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (38 bp):
ATTTTGTTTTCAAGTAAAACAAACTCAAAGATTTTTTC
Found at i:393263 original size:30 final size:30
Alignment explanation
Indices: 393229--393315 Score: 97
Period size: 30 Copynumber: 2.9 Consensus size: 30
393219 TCAAATGTGG
*
393229 GTGTTTCAAGAGAAACTAACTCAAAGATAT
1 GTGTTTCAAAAGAAACTAACTCAAAGATAT
* *
393259 GTGTTTCCAAAAGAAA-TGACTCAAAGATTT
1 GTGTTT-CAAAAGAAACTAACTCAAAGATAT
* * *
393289 TTGTTTTAAAAGAAAC-AACTCGAAGAT
1 GTGTTTCAAAAGAAACTAACTCAAAGAT
393316 TTTTTTACGA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
29 17 0.35
30 23 0.48
31 8 0.17
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.29
Consensus pattern (30 bp):
GTGTTTCAAAAGAAACTAACTCAAAGATAT
Found at i:393309 original size:29 final size:29
Alignment explanation
Indices: 393230--393424 Score: 103
Period size: 29 Copynumber: 6.5 Consensus size: 29
393220 CAAATGTGGG
* * *
393230 TGTTTCAAGAGAAACTAACTCAAAGATATG
1 TGTTTCAAAAGAAAC-AACTCAAAGATTTT
**
393260 TGTTTCCAAAAGAAATGACTCAAAGATTTT
1 TGTTT-CAAAAGAAACAACTCAAAGATTTT
* *
393290 TGTTTTAAAAGAAACAACTCGAAGATTTT
1 TGTTTCAAAAGAAACAACTCAAAGATTTT
* * ** **
393319 T-TTAC-GAA-AAACTGTCTCAAGCGAGACAAAACTT
1 TGTTTCAAAAGAAAC-AACTCAA---AG----ATTTT
*
393353 TGTTTCAAACGAAACAGACTC--AGATTGTT
1 TGTTTCAAAAGAAACA-ACTCAAAGATT-TT
*
393382 TTTTTCAAAAGAAACAACTCAAAGATTTT
1 TGTTTCAAAAGAAACAACTCAAAGATTTT
*
393411 TATTTCAAAAGAAA
1 TGTTTCAAAAGAAA
393425 TGACTCACAG
Statistics
Matches: 122, Mismatches: 27, Indels: 33
0.67 0.15 0.18
Matches are distributed among these distances:
26 4 0.03
27 6 0.05
28 7 0.06
29 52 0.43
30 28 0.23
31 8 0.07
32 2 0.02
34 4 0.03
35 3 0.02
36 1 0.01
37 7 0.06
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.30
Consensus pattern (29 bp):
TGTTTCAAAAGAAACAACTCAAAGATTTT
Found at i:393436 original size:29 final size:30
Alignment explanation
Indices: 393355--393436 Score: 89
Period size: 29 Copynumber: 2.8 Consensus size: 30
393345 CAAAACTTTG
* *
393355 TTTCAAACGAAACAGACT--CAGATTGTTTT
1 TTTCAAAAGAAACA-ACTCACAGATTGTTTA
*
393384 TTTCAAAAGAAACAACTCAAAGATT-TTTA
1 TTTCAAAAGAAACAACTCACAGATTGTTTA
**
393413 TTTCAAAAGAAATGACTCACAGAT
1 TTTCAAAAGAAACAACTCACAGAT
393437 GAATTTTGTC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.07
29 37 0.82
30 5 0.11
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (30 bp):
TTTCAAAAGAAACAACTCACAGATTGTTTA
Found at i:393965 original size:106 final size:105
Alignment explanation
Indices: 393775--393975 Score: 314
Period size: 106 Copynumber: 1.9 Consensus size: 105
393765 CGGTTTTGAA
* * * *
393775 AATCTCAAGTGAGATTAATTTTGTTTCAAGTACAATAAATTTAAATTTGTATTTCAGAGAAAAAA
1 AATCTCAAGTGAGATTAATTTTATTTCAAGTACAAGAAATTAAAATTTGTATCTCAGAGAAAAAA
*
393840 ATGTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAAC
66 ATGTCTCAAGCGAGACGAAATTTATTTTGAAAGAAACAAC
*
393880 AATCTCAAGTGAGATTAATTTTATTTCAAGTGA-AGGAAATTCAAAATTTGTATCTCAGAGAAAA
1 AATCTCAAGTGAGATTAATTTTATTTCAAGT-ACAAGAAATT-AAAATTTGTATCTCAGAGAAAA
*
393944 AAATTTCTCAAGCGAGACGAAATTTATTTTGA
64 AAATGTCTCAAGCGAGACGAAATTTATTTTGA
393976 GAAAAATTGT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
105 36 0.41
106 51 0.59
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (105 bp):
AATCTCAAGTGAGATTAATTTTATTTCAAGTACAAGAAATTAAAATTTGTATCTCAGAGAAAAAA
ATGTCTCAAGCGAGACGAAATTTATTTTGAAAGAAACAAC
Found at i:394004 original size:37 final size:35
Alignment explanation
Indices: 393942--394010 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
393932 TCTCAGAGAA
* *
393942 AAAAATTTCTCAAGCGAGACGAAATTTATTTTGAG
1 AAAAATTTCTCAAGCAAGACAAAATTTATTTTGAG
*
393977 AAAAATTGTCTCAAGCAAGACAAAAATTTGTTTT
1 AAAAATT-TCTCAAGCAAGAC-AAAATTTATTTT
394011 AAAATTCTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 7 0.24
36 12 0.41
37 10 0.34
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (35 bp):
AAAAATTTCTCAAGCAAGACAAAATTTATTTTGAG
Found at i:394369 original size:10 final size:10
Alignment explanation
Indices: 394344--394389 Score: 56
Period size: 10 Copynumber: 4.3 Consensus size: 10
394334 TGATGCAAAT
394344 TTTATGTATCA
1 TTTATGTAT-A
394355 TTTATGTATA
1 TTTATGTATA
394365 TTTATGTATA
1 TTTATGTATA
*
394375 TACATATGTATA
1 T--TTATGTATA
394387 TTT
1 TTT
394390 GTATGTTTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 13 0.42
11 9 0.29
12 9 0.29
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (10 bp):
TTTATGTATA
Found at i:396125 original size:64 final size:63
Alignment explanation
Indices: 396057--396302 Score: 226
Period size: 65 Copynumber: 3.8 Consensus size: 63
396047 TTGGAACACT
* ***
396057 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * **
396121 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * * * *
396185 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAAT-TC
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAA--AATAGC
*
396248 A
63 C
* * * * *
396249 TCGATGCAGCGATGCATGTACTGATGCATCGGTGCATGGAATGCATTCGATGTT
1 T-GATGCATCGATGCATGGAGTG-TGCATCGATGCATGAAATGCATTCGATGTT
396303 CAATTAATTC
Statistics
Matches: 151, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
63 4 0.03
64 68 0.45
65 78 0.52
66 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:396209 original size:19 final size:19
Alignment explanation
Indices: 396185--396235 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
396175 GAAAATATTC
396185 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
396204 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
396223 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
396236 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:396277 original size:65 final size:65
Alignment explanation
Indices: 396208--396351 Score: 270
Period size: 65 Copynumber: 2.2 Consensus size: 65
396198 GCATGGAGAG
*
396208 TGCATCGGTGCATGGAATGCATTCGATGTTCAATTAATTCATCGATGCAGCGATGCATGTACTGA
1 TGCATCGGTGCATGGAATGCATTCGATGTTCAATTAATTCATCGATGCAGCGATACATGTACTGA
*
396273 TGCATCGGTGCATGGAATGCATTCGATGTTCAATTAATTCATCGATGCATCGATACATGTACTGA
1 TGCATCGGTGCATGGAATGCATTCGATGTTCAATTAATTCATCGATGCAGCGATACATGTACTGA
396338 TGCATCGGTGCATG
1 TGCATCGGTGCATG
396352 CCTTTGAATA
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 77 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (65 bp):
TGCATCGGTGCATGGAATGCATTCGATGTTCAATTAATTCATCGATGCAGCGATACATGTACTGA
Found at i:401922 original size:22 final size:21
Alignment explanation
Indices: 401880--401919 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
401870 GAGTTTGTTT
*
401880 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
401901 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
401920 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:403917 original size:64 final size:63
Alignment explanation
Indices: 403846--404026 Score: 209
Period size: 64 Copynumber: 2.8 Consensus size: 63
403836 TTGGAACACT
* ***
403846 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
** * * **
403910 TGATGCATCGATGCATGGCTTGTGCATCAATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * *
403974 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
404027 CAATTAATTC
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
64 53 0.55
65 44 0.45
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:403998 original size:19 final size:19
Alignment explanation
Indices: 403974--404024 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
403964 GAAAATATTC
403974 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
403993 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
404012 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
404025 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:404000 original size:65 final size:65
Alignment explanation
Indices: 403867--404026 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 65
403857 TGCACCAAGT
* ***
403867 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* * **
403931 GTGCATCAATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
403995 A
65 A
* *
403996 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
404027 CAATTAATTC
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.44
65 46 0.56
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:404473 original size:33 final size:34
Alignment explanation
Indices: 404418--404492 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 34
404408 ATTGTCTGTG
* * *
404418 CTCTTTGTCATCTTTTTTTTTCTTT-TATTCTTTTT
1 CTCTTTGTCATCTTTGTCTTTCTTTGT-TT-ATTTT
404453 CTCTTTG-C-TCTTTGTCTTTCTTTGTTTATTTT
1 CTCTTTGTCATCTTTGTCTTTCTTTGTTTATTTT
404485 CTCTTTGT
1 CTCTTTGT
404493 TTTAATTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
32 11 0.31
33 15 0.43
34 2 0.06
35 7 0.20
ACGTcount: A:0.04, C:0.19, G:0.07, T:0.71
Consensus pattern (34 bp):
CTCTTTGTCATCTTTGTCTTTCTTTGTTTATTTT
Found at i:406583 original size:30 final size:30
Alignment explanation
Indices: 406547--406604 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
406537 ATGAAAAATG
406547 ACACAAACAA-ATGAGAAAAATGAGTTAGTA
1 ACACAAACAACA-GAGAAAAATGAGTTAGTA
406577 ACACAAACAACAGAGAAAAATGAGTTAG
1 ACACAAACAACAGAGAAAAATGAGTTAG
406605 CATAAATAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.57, C:0.12, G:0.17, T:0.14
Consensus pattern (30 bp):
ACACAAACAACAGAGAAAAATGAGTTAGTA
Found at i:408247 original size:16 final size:16
Alignment explanation
Indices: 408226--408258 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
408216 GTATTGGATT
408226 GCAATACTTCGACCAA
1 GCAATACTTCGACCAA
*
408242 GCAATACTTCGATCAA
1 GCAATACTTCGACCAA
408258 G
1 G
408259 TAATGCTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.21
Consensus pattern (16 bp):
GCAATACTTCGACCAA
Found at i:408471 original size:4 final size:4
Alignment explanation
Indices: 408462--408493 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
408452 GTCCTTTATG
408462 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
408494 GAGATCAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:413675 original size:12 final size:12
Alignment explanation
Indices: 413649--413692 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
413639 AAGTCGAATG
*
413649 TTTTCCCTTTT-
1 TTTTTCCTTTTC
*
413660 TTTTTCTTTTTC
1 TTTTTCCTTTTC
413672 TTTTTCCTTTTC
1 TTTTTCCTTTTC
*
413684 CTTTTCCTT
1 TTTTTCCTT
413693 CCCACAAGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 9 0.32
12 19 0.68
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTCCTTTTC
Found at i:414824 original size:84 final size:84
Alignment explanation
Indices: 414699--414868 Score: 200
Period size: 84 Copynumber: 2.0 Consensus size: 84
414689 TGTAGTGGTG
* * * * **
414699 TTTTCAATAAACGCCGCAATAAATTGGTACTTTTGCAGCGTTTTTATACAAACGTCGTAATAGGA
1 TTTTCAATAAACGCCGCAACAAATTAGTAATTTTGCAGCGTTTTTACACAAACACCGTAATA-GA
**
414764 TTA-ACCTATAGTGGCATTT
65 GGACACCTATAGTGGCATTT
* * *
414783 TTTTCAATAAACGCCGTAACATATTAG-AATTTTAGCGGCGTTTTTACACAAACACCGTAATAGA
1 TTTTCAATAAACGCCGCAACAAATTAGTAATTTT-GCAGCGTTTTTACACAAACACCGTAATAGA
*
414847 GGACACCTATAGTGGCGTTT
65 GGACACCTATAGTGGCATTT
414867 TT
1 TT
414869 CTCACGAACG
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
83 8 0.11
84 64 0.89
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (84 bp):
TTTTCAATAAACGCCGCAACAAATTAGTAATTTTGCAGCGTTTTTACACAAACACCGTAATAGAG
GACACCTATAGTGGCATTT
Found at i:418507 original size:21 final size:21
Alignment explanation
Indices: 418481--418534 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
418471 TATTAATATA
*
418481 AATTTCAAGTTTCTTGTTATG
1 AATTTCAAGTTTCATGTTATG
*
418502 AATTTCAAGTTTGATGTTATG
1 AATTTCAAGTTTCATGTTATG
*
418523 AATGTCAAGTTT
1 AATTTCAAGTTT
418535 ATTGAATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (21 bp):
AATTTCAAGTTTCATGTTATG
Found at i:418695 original size:42 final size:42
Alignment explanation
Indices: 418631--418825 Score: 219
Period size: 42 Copynumber: 4.6 Consensus size: 42
418621 GTATACAAAC
*
418631 GCCGCTATAGATATGACCTTTTGCGGCGTTTGTTCCAAAAAT
1 GCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCCAAAAAT
* * ** * *
418673 GCCGCTATAGATCTGGCTTTTTGCGATGTTTGTATCCAGAAAC
1 GCCGCTATAGATCTGACCTTTTGCGGCGTTTGT-TCCAAAAAT
* *
418716 GCCGCTATAGATATGACCTTTTACGGCGTTTGTTCCAAAAAT
1 GCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCCAAAAAT
* * * * ***
418758 GACGCTATCGATCTGACCTTTTGCGGTGTTTATTATGAAAAT
1 GCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCCAAAAAT
*
418800 GCCGCTATATATCTTGACCTTTTGCG
1 GCCGCTATAGATC-TGACCTTTTGCG
418826 ACGCTTTTTG
Statistics
Matches: 124, Mismatches: 27, Indels: 3
0.81 0.18 0.02
Matches are distributed among these distances:
42 78 0.63
43 46 0.37
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (42 bp):
GCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCCAAAAAT
Found at i:418822 original size:85 final size:85
Alignment explanation
Indices: 418627--418788 Score: 270
Period size: 85 Copynumber: 1.9 Consensus size: 85
418617 CGGCGTATAC
* * * *
418627 AAACGCCGCTATAGATATGACCTTTTGCGGCGTTTGTTCCAAAAATGCCGCTATAGATCTGGCTT
1 AAACGCCGCTATAGATATGACCTTTTACGGCGTTTGTTCCAAAAATGACGCTATAGATCTGACCT
418692 TTTGCGATGTTTGTATCCAG
66 TTTGCGATGTTTGTATCCAG
*
418712 AAACGCCGCTATAGATATGACCTTTTACGGCGTTTGTTCCAAAAATGACGCTATCGATCTGACCT
1 AAACGCCGCTATAGATATGACCTTTTACGGCGTTTGTTCCAAAAATGACGCTATAGATCTGACCT
*
418777 TTTGCGGTGTTT
66 TTTGCGATGTTT
418789 ATTATGAAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (85 bp):
AAACGCCGCTATAGATATGACCTTTTACGGCGTTTGTTCCAAAAATGACGCTATAGATCTGACCT
TTTGCGATGTTTGTATCCAG
Found at i:419637 original size:30 final size:31
Alignment explanation
Indices: 419595--419657 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
419585 CTTTTTCATT
*
419595 TAAGTATCTAAAG-TATTTTTTTAGTCAAAA
1 TAAGTATCTAAAGATATGTTTTTAGTCAAAA
*
419625 TAAGTA-CTTAAAGATATGTTTTTAGTTAAAA
1 TAAGTATC-TAAAGATATGTTTTTAGTCAAAA
419656 TA
1 TA
419658 GGAGTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 1 0.03
30 11 0.38
31 17 0.59
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (31 bp):
TAAGTATCTAAAGATATGTTTTTAGTCAAAA
Found at i:419803 original size:28 final size:27
Alignment explanation
Indices: 419772--419829 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
419762 GAAAATGTTT
* * *
419772 AAATAGTTTAGGTACCTATTGTGACATA
1 AAATACTTTAGATACATATTGTGAC-TA
*
419800 AAATACTTTAGATACATATTTTGACTA
1 AAATACTTTAGATACATATTGTGACTA
419827 AAA
1 AAA
419830 AGATAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.36
Consensus pattern (27 bp):
AAATACTTTAGATACATATTGTGACTA
Found at i:419830 original size:28 final size:27
Alignment explanation
Indices: 419772--419871 Score: 65
Period size: 31 Copynumber: 3.4 Consensus size: 27
419762 GAAAATGTTT
* * * *
419772 AAATAGTTTAGGTACCTATTGTGACATA
1 AAATAATTTAGATACATATTTTGACA-A
*
419800 AAATACTTTAGATACATATTTTGACTAAA
1 AAATAATTTAGATACATATTTTGAC--AA
**
419829 AAGATAAATTTAGATATTTATTTTGATCAAA
1 AA-AT-AATTTAGATACATATTTTGA-C-AA
*
419860 AAATATTTTAGA
1 AAATAATTTAGA
419872 CACTTAAATG
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
28 21 0.36
29 10 0.17
30 5 0.08
31 22 0.37
32 1 0.02
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (27 bp):
AAATAATTTAGATACATATTTTGACAA
Found at i:421847 original size:16 final size:15
Alignment explanation
Indices: 421816--421898 Score: 51
Period size: 15 Copynumber: 5.3 Consensus size: 15
421806 TTTAAAATTT
* *
421816 TAAAAATTTTACATA
1 TAAAAATATTAAATA
*
421831 TAAAAATATTGGAATA
1 TAAAAATATT-AAATA
421847 TTCAAAAA-ATTAAATA
1 -T-AAAAATATTAAATA
*
421863 TAAAAATACTAAAAATA
1 TAAAAATA-T-TAAATA
* * *
421880 TCAAATTATTAAAAA
1 TAAAAATATTAAATA
421895 TAAA
1 TAAA
421899 TACATATATT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
14 5 0.10
15 18 0.35
16 9 0.17
17 15 0.29
18 5 0.10
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.31
Consensus pattern (15 bp):
TAAAAATATTAAATA
Found at i:421880 original size:17 final size:17
Alignment explanation
Indices: 421858--421896 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
421848 TCAAAAAATT
421858 AAATATAAAAATACTAA
1 AAATATAAAAATACTAA
* * *
421875 AAATATCAAATTATTAA
1 AAATATAAAAATACTAA
421892 AAATA
1 AAATA
421897 AATACATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (17 bp):
AAATATAAAAATACTAA
Found at i:421915 original size:47 final size:45
Alignment explanation
Indices: 421863--422010 Score: 126
Period size: 49 Copynumber: 3.1 Consensus size: 45
421853 AAATTAAATA
421863 TAAAAATACTAAAAATATCAAATTATTAAAAATAAATACATATATTT
1 TAAAAATACTAAAAATAT-AAATTATTAAAAATAAATA-ATATATTT
* * *
421910 TAAAAATACTAAATGTTAATAAAAATTA-AAAAAATAAATATATATCATAAAT
1 TAAAAATACTAAA----AATATAAATTATTAAAAATAAATA-ATAT-AT--TT
421962 TATAAAATGA-T-AAAATATAAATTATTAAAAATAAA-AATAT-TTT
1 TA-AAAAT-ACTAAAAATATAAATTATTAAAAATAAATAATATATTT
422005 TAAAAA
1 TAAAAA
422011 CATATATTAT
Statistics
Matches: 84, Mismatches: 7, Indels: 25
0.72 0.06 0.22
Matches are distributed among these distances:
42 4 0.05
43 3 0.04
45 1 0.01
47 17 0.20
48 11 0.13
49 24 0.29
50 8 0.10
51 4 0.05
52 5 0.06
53 6 0.07
54 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.33
Consensus pattern (45 bp):
TAAAAATACTAAAAATATAAATTATTAAAAATAAATAATATATTT
Found at i:422002 original size:15 final size:16
Alignment explanation
Indices: 421928--422002 Score: 50
Period size: 15 Copynumber: 4.6 Consensus size: 16
421918 CTAAATGTTA
*
421928 ATAAAA-ATTAAAAAA
1 ATAAAATATTAAAAAT
*
421943 ATAAATATATATCATAAATT
1 ATAAA-ATAT-T-A-AAAAT
421963 ATAAAATGA-T-AAAAT
1 ATAAAAT-ATTAAAAAT
*
421978 ATAAATTATTAAAAAT
1 ATAAAATATTAAAAAT
421994 A-AAAATATT
1 ATAAAATATT
422003 TTTAAAAACA
Statistics
Matches: 47, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
14 1 0.02
15 23 0.49
16 7 0.15
17 2 0.04
18 2 0.04
19 3 0.06
20 9 0.19
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (16 bp):
ATAAAATATTAAAAAT
Found at i:422543 original size:66 final size:64
Alignment explanation
Indices: 422464--422624 Score: 216
Period size: 66 Copynumber: 2.5 Consensus size: 64
422454 GAATAAATTG
* * * *
422464 AACATCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTC-CGTTTTTTTATG
1 AACATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCTAG-CTTGTT-TG
422528 AA
64 -A
* *
422530 AACATTGAATGCATTTTATGCATCAATGCACAGACCATGCATCGATGCACTCTAGCTTGTTTGA
1 AACATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCTAGCTTGTTTGA
* *
422594 AACATCGAATGCACTTCATGCATCGATGCAC
1 AACATCGAATGCATTTTATGCATCGATGCAC
422625 TAAGGGTCTA
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
64 28 0.33
65 2 0.02
66 53 0.63
67 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTCTAGCTTGTTTGA
Found at i:436494 original size:19 final size:19
Alignment explanation
Indices: 436470--436521 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
436460 AATGCATTTT
*
436470 ATGCATCGATGCACATACC
1 ATGCATCGATGCACAAACC
*
436489 ATGCATTGATGCACAAACC
1 ATGCATCGATGCACAAACC
436508 ATGCATCGATGCAC
1 ATGCATCGATGCAC
436522 TCTGGCTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (19 bp):
ATGCATCGATGCACAAACC
Found at i:437971 original size:21 final size:22
Alignment explanation
Indices: 437947--438004 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 22
437937 CCTTTGAATA
437947 TGCATCGAT-ACACCATGAAGG
1 TGCATCGATCACACCATGAAGG
* * * *
437968 TGCACCGATGCACTCCTTGAATG
1 TGCATCGAT-CACACCATGAAGG
437991 TGCATCGATGCACA
1 TGCATCGAT-CACA
438005 AGGCCATGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
21 8 0.28
23 21 0.72
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (22 bp):
TGCATCGATCACACCATGAAGG
Found at i:439664 original size:304 final size:303
Alignment explanation
Indices: 439108--439716 Score: 959
Period size: 304 Copynumber: 2.0 Consensus size: 303
439098 ATTGCTAGGC
*
439108 AATTTGGGCTAGATGACAATGGTCTATACAATGAGAAAGAAAATGTGGAATATCCCTATATTCCT
1 AATTTGGGCTAGATGACAATGGTCTATACAATGAGAAAGAAAATCTGGAATATCCCTATATTCCT
*
439173 AATGCTAGTGTCAGTACCTTACATACTCATCACGATCATTTTCTATATTTAATGATCTCTTGGTG
66 AATGCTAGTGTCAGTACCTTACATACTCATCACGATCATTTTCTACATTTAATGATCTCTTGGTG
* **
439238 GTTTCAACCATCCGGAGGAAGGTACTCCACTCTCCATGTCAGGGATTTATGGTGGATGAACTGTA
131 GTTTCAACCATCCAGAGGAAGGTACTCCACTCTCCATACCAGGGATTTATGGTGGATGAACTGTA
* * * *
439303 TCAAGAATAAAAACAAAATCAATTTGCCACATATTATTTTTAGTGAATTATTAGATACCATAAAT
196 TCAAG-ATAAAAAAAAAATAAATTTCCCACATATTATTTTTAGTGAATTAGTAGATACCATAAAT
**
439368 GTTGTCCCTTCTAAAAATGTTGAAACTTTAGTTTATAGGTGTCT
260 GTTGTCCCTTCTAAAAATGTCAAAACTTTAGTTTATAGGTGTCT
* * * * *
439412 AATTTGGGTTAGATGACATTGGTTTATACAATGAGAAAGAAATTCTGGCATATCCCTATATTCCT
1 AATTTGGGCTAGATGACAATGGTCTATACAATGAGAAAGAAAATCTGGAATATCCCTATATTCCT
* *
439477 AATGCTAGTGTCAGTACCTTACGTACTCATCACGATCGTTTTCTACATTTAATGATCTCTTGGTG
66 AATGCTAGTGTCAGTACCTTACATACTCATCACGATCATTTTCTACATTTAATGATCTCTTGGTG
* * * * *
439542 GTTTCGACCATCCAGAGGAAGGTACTCCACTCTTCGTACCAGGGATTTATGGTGGATGTATTGTA
131 GTTTCAACCATCCAGAGGAAGGTACTCCACTCTCCATACCAGGGATTTATGGTGGATGAACTGTA
*
439607 TCCAG-TAAAATAGAAAAATAAATTTCCCACATATTATTTTTAGTGAATTAGTAGATACCATAAA
196 TCAAGATAAAA-A-AAAAATAAATTTCCCACATATTATTTTTAGTGAATTAGTAGATACCATAAA
*
439671 TGTTGTCCCTTCTAAAAATGTCAAAACTTTAGTTTATGGGTGTCT
259 TGTTGTCCCTTCTAAAAATGTCAAAACTTTAGTTTATAGGTGTCT
439716 A
1 A
439717 CTTAGTAACC
Statistics
Matches: 278, Mismatches: 25, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
302 5 0.02
303 1 0.00
304 272 0.98
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (303 bp):
AATTTGGGCTAGATGACAATGGTCTATACAATGAGAAAGAAAATCTGGAATATCCCTATATTCCT
AATGCTAGTGTCAGTACCTTACATACTCATCACGATCATTTTCTACATTTAATGATCTCTTGGTG
GTTTCAACCATCCAGAGGAAGGTACTCCACTCTCCATACCAGGGATTTATGGTGGATGAACTGTA
TCAAGATAAAAAAAAAATAAATTTCCCACATATTATTTTTAGTGAATTAGTAGATACCATAAATG
TTGTCCCTTCTAAAAATGTCAAAACTTTAGTTTATAGGTGTCT
Found at i:439901 original size:21 final size:21
Alignment explanation
Indices: 439877--439920 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
439867 ACTCCGGGAG
*
439877 CTAGTTCTTCACGGGCTCCTC
1 CTAGCTCTTCACGGGCTCCTC
* *
439898 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGGGCTCCTC
439919 CT
1 CT
439921 CCGGCACCGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.41, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGGGCTCCTC
Found at i:440534 original size:2 final size:2
Alignment explanation
Indices: 440527--440556 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
440517 GCAGCTTAAG
440527 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
440557 TTTAAATCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:441373 original size:10 final size:10
Alignment explanation
Indices: 441358--441385 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
441348 GCCATTGATC
441358 AACAACAAGA
1 AACAACAAGA
441368 AACAACAAGA
1 AACAACAAGA
441378 AACAACAA
1 AACAACAA
441386 TCAACAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.21, G:0.07, T:0.00
Consensus pattern (10 bp):
AACAACAAGA
Found at i:442137 original size:14 final size:15
Alignment explanation
Indices: 442104--442134 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
442094 TTTTTATAAC
442104 TTATAAGTTACCATT
1 TTATAAGTTACCATT
*
442119 TTATAAGTTACTATT
1 TTATAAGTTACCATT
442134 T
1 T
442135 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (15 bp):
TTATAAGTTACCATT
Found at i:442788 original size:15 final size:15
Alignment explanation
Indices: 442769--442827 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
442759 ATTGACTTTT
*
442769 TGGAAAATGAATTAT
1 TGGAAAATGAATTAC
**
442784 TGGAATTTGAATTAC
1 TGGAAAATGAATTAC
**
442799 TGGAATTTGAATT-C
1 TGGAAAATGAATTAC
442813 TGGAAAATGAATTAC
1 TGGAAAATGAATTAC
442828 ATTTATGGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
14 12 0.32
15 26 0.68
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (15 bp):
TGGAAAATGAATTAC
Found at i:442817 original size:14 final size:15
Alignment explanation
Indices: 442776--442827 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
442766 TTTTGGAAAA
*
442776 TGAATTATTGGAATT
1 TGAATTACTGGAATT
442791 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
442806 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
442820 TGAATTAC
1 TGAATTAC
442828 ATTTATGGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
14 12 0.36
15 21 0.64
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:443194 original size:23 final size:23
Alignment explanation
Indices: 443145--443195 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
443135 GTGTTATATT
**
443145 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
443168 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
443191 ATATT
1 ATATT
443196 ATTATATTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:443221 original size:29 final size:30
Alignment explanation
Indices: 443187--443280 Score: 90
Period size: 29 Copynumber: 3.3 Consensus size: 30
443177 ATATCTTTAT
* *
443187 TAAAATATTATTATATTAATATTACATATA
1 TAAAATATTATTATATCAATATTAAATATA
* *
443217 T-AAATAATATTATA-CATTATTAAATATA
1 TAAAATATTATTATATCAATATTAAATATA
* *
443245 TAAAAAATTATTATAT-ATTTATTAAA-ATA
1 TAAAATATTATTATATCA-ATATTAAATATA
443274 -AAAATAT
1 TAAAATAT
443281 AATATCTTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
28 18 0.33
29 27 0.50
30 9 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
TAAAATATTATTATATCAATATTAAATATA
Found at i:443246 original size:28 final size:30
Alignment explanation
Indices: 443206--443279 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 30
443196 ATTATATTAA
*
443206 TATTACATATATAAATAA-TATTATACA-T
1 TATTAAATATATAAATAATTATTATACATT
* *
443234 TATTAAATATATAAAAAATTATTATATATT
1 TATTAAATATATAAATAATTATTATACATT
*
443264 TATTAAA-ATAAAAATA
1 TATTAAATATATAAATA
443280 TAATATCTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 16 0.41
29 15 0.38
30 8 0.21
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (30 bp):
TATTAAATATATAAATAATTATTATACATT
Found at i:443312 original size:18 final size:19
Alignment explanation
Indices: 443278--443324 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
443268 AAAATAAAAA
*
443278 TATAATAT-CTTATATTAT
1 TATAATATAATTATATTAT
443296 TATAATATAATTA-ATTAT
1 TATAATATAATTATATTAT
* *
443314 TTTATTATAAT
1 TATAATATAAT
443325 ATTAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 22 0.88
19 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TATAATATAATTATATTAT
Found at i:443328 original size:31 final size:32
Alignment explanation
Indices: 443287--443382 Score: 90
Period size: 31 Copynumber: 3.0 Consensus size: 32
443277 ATATAATATC
*
443287 TTATATTATT-ATAATATAATTAATTATTTTA
1 TTATAATATTAATAATATAATTAATTATTTTA
* *
443318 TTATAATATTAAAAATATAA-T-ATTATATTA
1 TTATAATATTAATAATATAATTAATTATTTTA
* * *
443348 TTAGAAATATTAATAAATATATTTTAAATATTTTA
1 TTA-TAATATTAAT-AATATA-ATTAATTATTTTA
443383 ATAATGAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
30 11 0.22
31 18 0.35
32 14 0.27
34 1 0.02
35 7 0.14
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (32 bp):
TTATAATATTAATAATATAATTAATTATTTTA
Found at i:443344 original size:22 final size:23
Alignment explanation
Indices: 443316--443362 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
443306 TTAATTATTT
443316 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
443338 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
443361 TA
1 TA
443363 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:443367 original size:22 final size:22
Alignment explanation
Indices: 443324--443367 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
443314 TTTATTATAA
*
443324 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
443346 TATTAGAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
443368 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:443564 original size:22 final size:22
Alignment explanation
Indices: 443534--443575 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
443524 CAGAAAACAC
*
443534 AAAAGAAATTATGTTGACCAGG
1 AAAAGAAATTACGTTGACCAGG
*
443556 AAAATAAATTACGTTGACCA
1 AAAAGAAATTACGTTGACCA
443576 ACCAGTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.24
Consensus pattern (22 bp):
AAAAGAAATTACGTTGACCAGG
Found at i:443640 original size:42 final size:42
Alignment explanation
Indices: 443593--443681 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
443583 TTCCTCCAAC
*
443593 CAAACACTGA-AAAACATTTTTCAAAAAACGAATTACGAAAAA
1 CAAACAC-GAGAAAACATTTTTCAAAAAACAAATTACGAAAAA
* **
443635 CAAACACGAGAAAACATTTTTCAAAAAATAAATTACTTAAAA
1 CAAACACGAGAAAACATTTTTCAAAAAACAAATTACGAAAAA
443677 CAAAC
1 CAAAC
443682 GCAAAATTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 2 0.05
42 40 0.95
ACGTcount: A:0.57, C:0.17, G:0.06, T:0.20
Consensus pattern (42 bp):
CAAACACGAGAAAACATTTTTCAAAAAACAAATTACGAAAAA
Found at i:445616 original size:21 final size:21
Alignment explanation
Indices: 445591--445635 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
445581 GAAAGAAGGG
445591 AATGATAAGAA-TGATGATGTA
1 AATGAT-AGAATTGATGATGTA
445612 AATGATAGAATTGATGATGTA
1 AATGATAGAATTGATGATGTA
445633 AAT
1 AAT
445636 ATGGTGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.47, C:0.00, G:0.22, T:0.31
Consensus pattern (21 bp):
AATGATAGAATTGATGATGTA
Found at i:445706 original size:150 final size:150
Alignment explanation
Indices: 445456--445759 Score: 509
Period size: 150 Copynumber: 2.0 Consensus size: 150
445446 GGATAAGAAA
* *
445456 GATGTAAATGATAGAATTGATGATGTACATATGGTGAACACTGCAGAAAAAGCTTCTAAAGCAGG
1 GATGTAAATGATAGAATTGATGATGTAAATATGGTGAACACTGCAGAAAAAGCTTCAAAAGCAGG
*
445521 TGAAGATGATGAAAAGGAGGGTTTTTTCCGTAAACTTTTCAAGGATAAATCGGAGGAAAAGAAAG
66 TGAAGATGATGAAAAGGAGGGTTTTTTCCGAAAACTTTTCAAGGATAAATCGGAGGAAAAGAAAG
445586 AAGGGAATGATAAGAATGAT
131 AAGGGAATGATAAGAATGAT
** * * *
445606 GATGTAAATGATAGAATTGATGATGTAAATATGGTGAATTCTGCTGAAAAGGCTTCAAAATCAGG
1 GATGTAAATGATAGAATTGATGATGTAAATATGGTGAACACTGCAGAAAAAGCTTCAAAAGCAGG
* *
445671 TGAATATGATGAAAAGGAGGGTTTTTTCCGAAAACTTTTCAAGGATAAATCTGAGGAAAAGAAAG
66 TGAAGATGATGAAAAGGAGGGTTTTTTCCGAAAACTTTTCAAGGATAAATCGGAGGAAAAGAAAG
*
445736 ACGGGAATGATAAGAATGAT
131 AAGGGAATGATAAGAATGAT
445756 GATG
1 GATG
445760 GTGAGGAAGA
Statistics
Matches: 143, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
150 143 1.00
ACGTcount: A:0.41, C:0.08, G:0.26, T:0.25
Consensus pattern (150 bp):
GATGTAAATGATAGAATTGATGATGTAAATATGGTGAACACTGCAGAAAAAGCTTCAAAAGCAGG
TGAAGATGATGAAAAGGAGGGTTTTTTCCGAAAACTTTTCAAGGATAAATCGGAGGAAAAGAAAG
AAGGGAATGATAAGAATGAT
Found at i:450844 original size:76 final size:76
Alignment explanation
Indices: 450759--450912 Score: 308
Period size: 76 Copynumber: 2.0 Consensus size: 76
450749 ACGTTATAGA
450759 TATACTTTTCTTCAGCATTTGTTGTAGCAATGTTGTTTTTTCAATTGGCTTGACGAGGAGGGTCT
1 TATACTTTTCTTCAGCATTTGTTGTAGCAATGTTGTTTTTTCAATTGGCTTGACGAGGAGGGTCT
450824 TTTTCCAAGGT
66 TTTTCCAAGGT
450835 TATACTTTTCTTCAGCATTTGTTGTAGCAATGTTGTTTTTTCAATTGGCTTGACGAGGAGGGTCT
1 TATACTTTTCTTCAGCATTTGTTGTAGCAATGTTGTTTTTTCAATTGGCTTGACGAGGAGGGTCT
450900 TTTTCCAAGGT
66 TTTTCCAAGGT
450911 TA
1 TA
450913 AGGATTGCTT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.19, C:0.14, G:0.22, T:0.45
Consensus pattern (76 bp):
TATACTTTTCTTCAGCATTTGTTGTAGCAATGTTGTTTTTTCAATTGGCTTGACGAGGAGGGTCT
TTTTCCAAGGT
Found at i:462198 original size:30 final size:30
Alignment explanation
Indices: 462123--462198 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
462113 TTGAAAAGTC
* *
462123 ACAAATCAGTCACTAATGTTATCATTTGTT
1 ACAAATTAGTCACTAACGTTATCATTTGTT
* * *
462153 ACAAATT-GATTACTAACGTTATCGTTTTTT
1 ACAAATTAG-TCACTAACGTTATCATTTGTT
*
462183 ATAAATTAGTCACTAA
1 ACAAATTAGTCACTAA
462199 AAAATCGTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
29 1 0.03
30 35 0.95
31 1 0.03
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (30 bp):
ACAAATTAGTCACTAACGTTATCATTTGTT
Found at i:463073 original size:3 final size:3
Alignment explanation
Indices: 463065--463096 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
463055 AACATGGGTT
*
463065 GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
463097 GTCAAATAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:464609 original size:199 final size:196
Alignment explanation
Indices: 464195--464723 Score: 681
Period size: 199 Copynumber: 2.7 Consensus size: 196
464185 TAAGTAGAGC
* * *
464195 TTATATTGACCTATTTTCTAAGTAAACCGGTATATTTATACCGGTAACATTGCAAATTTACCTAT
1 TTATATTGACCTATTTTCTAA-TAAAACGGTATATTTATACAGGT-ACATTGTAAATTTACCTAT
* *
464260 TGCATTATAATTATCGGTTTCGATGATTTTTGGATCGATA-TAATTT--TAAATGTATCGACACT
64 TACATTATAATTATCGGTTTCGATG-TTTTGGGATCGATACT--TTTAATAAATGTATCGACACT
* * *
464322 TTATGCATGCACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCGACACAAAATTAAAAAGTGTC
126 TTATGCATGCACCCCGTTGGACATTCATTATGGAAAAAAGTATCGACACAAAATTAAAAAGTGTC
464387 GATACA
191 GATACA
* * *
464393 TTAT-TTAGACCTATTTTCTCATAAAATCGGTATATTTATGTCGGGTACATTGTAAATTTACCTA
1 TTATATT-GACCTATTTTCTAATAAAA-CGGTATATTTAT-ACAGGTACATTGTAAATTTACCTA
* * *
464457 TCACATTGTAATTATCGGTTTCTATGTTTGTGGGATCGATACTTTTAATAAATGTATCGACACTT
63 TTACATTATAATTATCGGTTTCGATGTTT-TGGGATCGATACTTTTAATAAATGTATCGACACTT
* * * **
464522 TATGCGTGCACCCCGTT-GACATTCATTATGGACAAAAAGTTTCGACACAAATTTAAATGGTGTC
127 TATGCATGCACCCCGTTGGACATTCATTATGGA-AAAAAGTATCGACACAAAATTAAAAAGTGTC
*
464586 GATACT
191 GATACA
* * *
464592 TTATACTGACCTATTTTCTTATAAAACTGGTATATTTATACTAGTTACATTGTAAATTTACCTAT
1 TTATATTGACCTATTTTCTAATAAAAC-GGTATATTTATAC-AGGTACATTGTAAATTTACCTAT
* *
464657 TACATTATAATTATCAGTTTCGATGTTATTGGGATCGATACTTTTAATAAATGTATCGACAGTTT
64 TACATTATAATTATCGGTTTCGATGTT-TTGGGATCGATACTTTTAATAAATGTATCGACACTTT
464722 AT
128 AT
464724 ATTCTGGACA
Statistics
Matches: 290, Mismatches: 29, Indels: 23
0.85 0.08 0.07
Matches are distributed among these distances:
197 12 0.04
198 93 0.32
199 183 0.63
200 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (196 bp):
TTATATTGACCTATTTTCTAATAAAACGGTATATTTATACAGGTACATTGTAAATTTACCTATTA
CATTATAATTATCGGTTTCGATGTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATG
CATGCACCCCGTTGGACATTCATTATGGAAAAAAGTATCGACACAAAATTAAAAAGTGTCGATAC
A
Found at i:464834 original size:20 final size:19
Alignment explanation
Indices: 464806--464844 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
464796 GGTATATTTA
464806 TACCGATTACATTATTAATT
1 TACCGATTACATTA-TAATT
*
464826 TACCTATTACATTATAATT
1 TACCGATTACATTATAATT
464845 ATTGGTTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.36, C:0.15, G:0.03, T:0.46
Consensus pattern (19 bp):
TACCGATTACATTATAATT
Found at i:464846 original size:176 final size:178
Alignment explanation
Indices: 464550--464893 Score: 489
Period size: 176 Copynumber: 1.9 Consensus size: 178
464540 ACATTCATTA
* *** * *
464550 TGGACAAAAAGTTTCGACACAAATTTAAATGGTGTCGATACTTTATACTGACCTATTTTCTTATA
1 TGGACAAAAAGTATCGACACAAATTTAAAAAATGTCGATACATTATACTGACCTATTTTCTAATA
* * *
464615 AAACTGGTATATTTATACTAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGA
66 AAACCGGTATATTTATACGAGTTACATTATAAATTTACCTATTACATTATAATTATCAGTTTCGA
464680 TGTTATTGGGATCGATACTTTTA-ATAAATGTATCGACAGTTTATATTC
131 TGTTATTGGGATCGATACTTTTAGA-AAATGTATCGACAGTTTATATTC
* **
464728 TGGACAATAAGTATCGACACAAA-TTAAAAAATGTCGATACATTATGTTGACCTATTTTCTAAT-
1 TGGACAAAAAGTATCGACACAAATTTAAAAAATGTCGATACATTATACTGACCTATTTTCTAATA
* * **
464791 TAACCGGTATATTTATACCGA-TTACATTATTAATTTACCTATTACATTATAATTATTGGTTTCG
66 AAACCGGTATATTTATA-CGAGTTACATTATAAATTTACCTATTACATTATAATTATCAGTTTCG
*
464855 ATGTTTTTGGGATCGATACTTTTAGAAAATGTATCGACA
130 ATGTTATTGGGATCGATACTTTTAGAAAATGTATCGACA
464894 CCTATTTAGC
Statistics
Matches: 147, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
176 90 0.61
177 36 0.24
178 21 0.14
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (178 bp):
TGGACAAAAAGTATCGACACAAATTTAAAAAATGTCGATACATTATACTGACCTATTTTCTAATA
AAACCGGTATATTTATACGAGTTACATTATAAATTTACCTATTACATTATAATTATCAGTTTCGA
TGTTATTGGGATCGATACTTTTAGAAAATGTATCGACAGTTTATATTC
Found at i:467418 original size:19 final size:19
Alignment explanation
Indices: 467373--467421 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
467363 TTACATTCAC
467373 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
** *
467392 ATGTAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
467411 ATACAAAATTA
1 ATACAAAATTA
467422 ACCCTACATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:469378 original size:201 final size:197
Alignment explanation
Indices: 468939--469449 Score: 677
Period size: 201 Copynumber: 2.6 Consensus size: 197
468929 CACGTTATTT
*
468939 AAAAAGTATCGACACAAATTTAAAAGTGTCGATACATTATGTTGACCTATTCTCTTATAAAACCG
1 AAAAAGTATCGACACAAA-TTAAAAGTGTCGATACATTATGTTGACCTATTCTCTCATAAAACCG
* * * * *
469004 ATATATTTATACCGGTTACATTGTAAA-TTACCTATTACGTTATAATTATCGGTTTTGATGTTTT
65 GTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATAATCGATTTCGATGTTTT
* *
469068 TGAAATCGATACTTTTAATAAATGTATCGACACTTTTTGCATGCACCCGTTTGACATTCATTCTG
130 TGAAATCGATACTTTTAATAAATGTATCGACACTTTATGCATGCACCCGTTTGACATTCATTCTA
469133 GAC
195 GAC
* * * *
469136 AAAATGTATCGATACAAATCTAAAACGTGTCGATACATTATGTTCACCTATT-TGCTCATAAAAT
1 AAAAAGTATCGACACAAAT-TAAAA-GTGTCGATACATTATGTTGACCTATTCT-CTCATAAAAC
* *
469200 CGGTAAATTTATACTGGTTACATTGTAAATTTACCTATTACATTATAATAATCGATTTCGATGTT
63 CGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATAATCGATTTCGATGTT
** * * *
469265 TTTGGGGATCGATACTTTTTAA-AAATGTATCGACACTTTATGCGTGCAACCCTTTTGGCATTCA
128 TTT-GAAATCGATAC-TTTTAATAAATGTATCGACACTTTATGCATGC-ACCCGTTTGACATTCA
*
469329 TTTTAGAC
190 TTCTAGAC
* * * *
469337 AAAAAGTACCAACACAAATTACATAAGTGTCGATACATTATGTAGACATATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAATTA-A-AAGTGTCGATACATTATGTTGACCTATTCTCTCATAAAACC
* * *
469402 GGTATAGTTATACCGATTACATTGTAAATTTACCTACTACATTATAAT
64 GGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAAT
469450 TATGTGTTTC
Statistics
Matches: 271, Mismatches: 33, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
196 1 0.00
197 22 0.08
198 59 0.22
199 34 0.13
200 34 0.13
201 118 0.44
202 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (197 bp):
AAAAAGTATCGACACAAATTAAAAGTGTCGATACATTATGTTGACCTATTCTCTCATAAAACCGG
TATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATAATCGATTTCGATGTTTTT
GAAATCGATACTTTTAATAAATGTATCGACACTTTATGCATGCACCCGTTTGACATTCATTCTAG
AC
Found at i:469913 original size:24 final size:24
Alignment explanation
Indices: 469886--469946 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
469876 GTTCGTGAAT
*
469886 GTTCGGTTATGTTCGTTTATGTTC
1 GTTCAGTTATGTTCGTTTATGTTC
469910 GTTCAGTTATGTTCGTTTATGTTC
1 GTTCAGTTATGTTCGTTTATGTTC
* *
469934 ATTCATTTATGTT
1 GTTCAGTTATGTT
469947 TAACCCAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.13, C:0.11, G:0.20, T:0.56
Consensus pattern (24 bp):
GTTCAGTTATGTTCGTTTATGTTC
Found at i:469913 original size:34 final size:34
Alignment explanation
Indices: 469862--469942 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
469852 CATAGGTCTC
469862 GTTCGTTCATTTACGTTC-GTGAATGTTCGGTTAT
1 GTTCGTTCATTTACGTTCAGT-AATGTTCGGTTAT
* * *
469896 GTTCGTTTATGTT-CGTTCAGTTATGTTCGTTTAT
1 GTTCGTTCAT-TTACGTTCAGTAATGTTCGGTTAT
*
469930 GTTCATTCATTTA
1 GTTCGTTCATTTA
469943 TGTTTAACCC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
33 2 0.05
34 33 0.85
35 4 0.10
ACGTcount: A:0.15, C:0.14, G:0.20, T:0.52
Consensus pattern (34 bp):
GTTCGTTCATTTACGTTCAGTAATGTTCGGTTAT
Found at i:471047 original size:16 final size:16
Alignment explanation
Indices: 471026--471084 Score: 84
Period size: 16 Copynumber: 3.7 Consensus size: 16
471016 GTCTCTAACG
471026 TTTATGTTCGTGTTCA
1 TTTATGTTCGTGTTCA
*
471042 TTTATGTTCGTGGTT-G
1 TTTATGTTCGT-GTTCA
*
471058 TTTATGTTCGTGGTCA
1 TTTATGTTCGTGTTCA
471074 TTTATGTTCGT
1 TTTATGTTCGT
471085 TTTTTATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 2 0.05
16 33 0.87
17 3 0.08
ACGTcount: A:0.10, C:0.10, G:0.24, T:0.56
Consensus pattern (16 bp):
TTTATGTTCGTGTTCA
Found at i:471366 original size:65 final size:64
Alignment explanation
Indices: 471295--471475 Score: 244
Period size: 65 Copynumber: 2.8 Consensus size: 64
471285 GAATAAATTG
**
471295 AACATCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGGGT-TTTATGA
1 AACATCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGACTATTT-T-A
471359 A
64 A
* *
471360 AACATCGAATACATTTTATGCATCGATGCACA-AGTCATGCATCGATGCACTCAGACTATTTTAA
1 AACATCGAATGCATTTTATGCATCGATGCACATA-CCATGCATCGATGCACTCAGACTATTTTAA
*
471424 AACATCGAATGCATTTTATGCATCGATGCAC-T-CTTAGTGCATCGATGCACTC
1 AACATCGAATGCATTTTATGCATCGATGCACATAC-CA-TGCATCGATGCACTC
471476 TTAGTGCATC
Statistics
Matches: 104, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
63 1 0.01
64 48 0.46
65 52 0.50
66 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (64 bp):
AACATCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGACTATTTTAA
Found at i:471466 original size:19 final size:19
Alignment explanation
Indices: 471442--471493 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
471432 ATGCATTTTA
471442 TGCATCGATGCACTCTTAG
1 TGCATCGATGCACTCTTAG
471461 TGCATCGATGCACTCTTAG
1 TGCATCGATGCACTCTTAG
471480 TGCATCGATGCACT
1 TGCATCGATGCACT
471494 AAGGGTCCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (19 bp):
TGCATCGATGCACTCTTAG
Found at i:482909 original size:21 final size:21
Alignment explanation
Indices: 482867--482910 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
482857 ACTCCGGGAG
* *
482867 CTAGTTCTTCACGGGCTGCTC
1 CTAGCTCTTCACGGGCTCCTC
* *
482888 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGGGCTCCTC
482909 CT
1 CT
482911 TCGGCACCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.07, C:0.39, G:0.18, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGGGCTCCTC
Found at i:484821 original size:200 final size:200
Alignment explanation
Indices: 484468--484921 Score: 578
Period size: 200 Copynumber: 2.3 Consensus size: 200
484458 TTAACTCAAC
* * * * * *
484468 AGTTTCGATGTTTCTGGGATTGATACTTTTTATAAATGTATTGACACTTTATGCGTTCACCATTT
1 AGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGGGTGCACCAGTT
* * *
484533 TGGGATTTATTTTGGACAAAAAGTATCGACATAAAATTCAAAAGTGTCGACACATTATGTAGACC
66 TGGCATTCATTTTGGACAAAAAGTATCGACATAAAATTCAAAAGTGTCAACACATTATGTAGACC
* * *
484598 TATTCTCACATAAAACTGGTATATTTATACCGGTTATA-TGAGAAAATTACATATTACATTATAA
131 TATTCTCACAAAAAACTGGTATATTTATACCAGTTACATTG-GAAAATTACATATTACATTATAA
484662 TTAT-G
195 TTATCG
* * *
484667 AGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATTTATCGACAATGTATGGGTGCACCACGT
1 AGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGGGTGCACCA-GT
* * * *
484732 TTGGCATTCATTTTGGACAAAAAGTATCGACA-CAAATTCCACAAGTGTCAATACATTATGTATA
65 TTGGCATTCATTTTGGACAAAAAGTATCGACATAAAATT-CAAAAGTGTCAACACATTATGTAGA
* * * * * *
484796 TCTATTTTCTCAAAAAA-TCGGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTAT
129 CCTATTCTCACAAAAAACT-GGTATATTTATACCAGTTACATTGGAAAATTACATATTACATTAT
*
484860 AATTTTCG
193 AATTATCG
*
484868 -GTTTCGATATTTTTGGGATCGATACTTTTTA-AACATGTATCGACACTTTATGGG
1 AGTTTCGATGTTTTTGGGATCGATACTTTTTATAA-ATGTATCGACACTTTATGGG
484922 AAACTTTATG
Statistics
Matches: 219, Mismatches: 30, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
199 62 0.28
200 154 0.70
201 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (200 bp):
AGTTTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACTTTATGGGTGCACCAGTT
TGGCATTCATTTTGGACAAAAAGTATCGACATAAAATTCAAAAGTGTCAACACATTATGTAGACC
TATTCTCACAAAAAACTGGTATATTTATACCAGTTACATTGGAAAATTACATATTACATTATAAT
TATCG
Found at i:485281 original size:30 final size:30
Alignment explanation
Indices: 485212--485292 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
485202 TAGTGGGGCC
* * *
485212 GAAATTTATATTGAAACTCAAACTCAAATT
1 GAAATTGAAATTGAAATTCAAACTCAAATT
*
485242 GAAATTGAAATTGAAATTCAAACTCCAATT
1 GAAATTGAAATTGAAATTCAAACTCAAATT
* *
485272 -ACATATGAAA-TGAATTTCAAA
1 GAAAT-TGAAATTGAAATTCAAA
485293 TGCAGTGTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 13 0.30
30 31 0.70
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (30 bp):
GAAATTGAAATTGAAATTCAAACTCAAATT
Found at i:488300 original size:18 final size:18
Alignment explanation
Indices: 488277--488333 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
488267 TCCTCCTTAT
*
488277 TTCCTCCATGTTTTCTTC
1 TTCCTCCATCTTTTCTTC
*
488295 TTCCTCCATCTTTTATTC
1 TTCCTCCATCTTTTCTTC
488313 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
488331 TTC
1 TTC
488334 ATATTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.07, C:0.35, G:0.02, T:0.56
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:488554 original size:33 final size:33
Alignment explanation
Indices: 488517--488616 Score: 182
Period size: 33 Copynumber: 3.0 Consensus size: 33
488507 TCATCTTAAG
*
488517 TTCACACCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
*
488550 TTCACCCCTCAACACCTCAACTTCTTTCACCAA
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
488583 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
488616 T
1 T
488617 CCATCTATTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.26, C:0.46, G:0.00, T:0.28
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAACTTCTTTCACCAC
Found at i:488702 original size:21 final size:21
Alignment explanation
Indices: 488650--488693 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
488640 CCCTTTATGC
*
488650 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTCTCTCTTCGACT
488671 CTCTCAAGTCTCTCTTCGACT
1 CTCTCAAGTCTCTCTTCGACT
488692 CT
1 CT
488694 TGATTGTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.36, G:0.11, T:0.39
Consensus pattern (21 bp):
CTCTCAAGTCTCTCTTCGACT
Found at i:491067 original size:173 final size:176
Alignment explanation
Indices: 490748--491326 Score: 742
Period size: 173 Copynumber: 3.3 Consensus size: 176
490738 TTTATTACGC
* * * * *
490748 ATACTTATTAAAGTATCGTCACTTTAAATATATCCGGTACCGCT-T-TACCGGTTTTGTCATTTC
1 ATACTTATTAAAGTATCGACACTTTAAATATAT-CTGT--CGCTCTATACCGGATTTGTCCTTTA
* *
490811 GAGACCGATTTTGTCATATTTTTACCTGTTATATCGTTGTGGACCGATACATTGTTATAAAGTAT
63 GAGACCGATTTTATCATA-TTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTAT
*
490876 CGACA-TTTAT-AGGCGCTAAACTGCTTCTCTTTTAAATTCACAAGTGTAG
127 CGACACTTTATGA-GCGCTAAACTGCTTCTCTTTTAAATTCACAAGTGTCG
*
490925 ATACTTATATTAAGTATCGACACTTT-AATATATCCTGTCGCTCTATACCGGATTTGTCCTTT-G
1 ATACTTAT-TAAAGTATCGACACTTTAAATATAT-CTGTCGCTCTATACCGGATTTGTCCTTTAG
*
490988 AGA-CG-TTTTATCATATTTTACCTGTTATATCGTTTTGGATCGATACA-TGTTATAAAGTATCG
64 AGACCGATTTTATCATATTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCG
* *
491050 ACACTTTATGAGCGCTAAAACTGCTTTTC-TTTAAATTCACAA-AGTCG
129 ACACTTTATGAGCGCT-AAACTGCTTCTCTTTTAAATTCACAAGTGTCG
* * *
491097 ATA-TTATTAAAG--TCGACACTTT-CA-ATATCTGATCGCTCTATACTGGTTTTGTCCTTTAGA
1 ATACTTATTAAAGTATCGACACTTTAAATATATCTG-TCGCTCTATACCGGATTTGTCCTTTAGA
*
491157 GACCGATTTTTTCATATTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGA
65 GACCGATTTTATCATATTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGA
* *
491222 CACTTTATGGGCGCTAATTCTGCTTCTCTTTTAAATTCACAAAGTGTCG
130 CACTTTATGAGCGCTAA-ACTGCTTCTCTTTTAAATTCAC-AAGTGTCG
*
491271 ATACTTATATTAAAGTATCGACACTTTCAATATATCTGGTCGCTCTATACC-GATTT
1 ATAC-T-TATTAAAGTATCGACACTTTAAATATATCT-GTCGCTCTATACCGGATTT
491327 TGTCATATTT
Statistics
Matches: 355, Mismatches: 24, Indels: 43
0.84 0.06 0.10
Matches are distributed among these distances:
166 3 0.01
167 27 0.08
168 15 0.04
169 2 0.01
170 46 0.13
171 42 0.12
172 35 0.10
173 55 0.15
174 28 0.08
175 6 0.02
176 6 0.02
177 42 0.12
178 15 0.04
179 10 0.03
180 5 0.01
181 17 0.05
182 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (176 bp):
ATACTTATTAAAGTATCGACACTTTAAATATATCTGTCGCTCTATACCGGATTTGTCCTTTAGAG
ACCGATTTTATCATATTTTACCTGTTATATCGTTGTGGATCGATACATTGTTATAAAGTATCGAC
ACTTTATGAGCGCTAAACTGCTTCTCTTTTAAATTCACAAGTGTCG
Found at i:492288 original size:15 final size:16
Alignment explanation
Indices: 492268--492301 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
492258 TTATGCATGT
*
492268 AAAAAATC-TCTATTA
1 AAAAAATCATCTATCA
492283 AAAAAATCATCTATCA
1 AAAAAATCATCTATCA
492299 AAA
1 AAA
492302 TCAAGTGTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAATCATCTATCA
Found at i:493221 original size:20 final size:21
Alignment explanation
Indices: 493196--493247 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
493186 TTTTCCCAAT
*
493196 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
493216 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
493237 TCGCAATGCGA
1 TCGCAATGCGA
493248 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:493261 original size:20 final size:20
Alignment explanation
Indices: 493236--493330 Score: 93
Period size: 20 Copynumber: 4.7 Consensus size: 20
493226 AATTGGGAAA
*
493236 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
493256 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
493277 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
493297 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
493317 TTCGCAACGCGATA
1 ATCGCAACGCGATA
493331 ATACATAATC
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.03
20 45 0.73
21 13 0.21
22 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:495142 original size:18 final size:18
Alignment explanation
Indices: 495121--495165 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
495111 TCCACTTCGG
*
495121 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
495139 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
495157 GAGCCATCA
1 GAGCCATCA
495166 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:495689 original size:19 final size:20
Alignment explanation
Indices: 495635--495701 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
495625 TAGTTTACTT
* *
495635 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
495655 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
495675 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
495694 TCGCAACG
1 TCGCAACG
495702 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:495709 original size:14 final size:14
Alignment explanation
Indices: 495690--495747 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
495680 ATGCGAAATG
495690 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
495704 AAAATCGCAATGCAAA
1 AAAATCGCAA--CGAC
495720 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
495736 AAAATCGCAACG
1 AAAATCGCAACG
495748 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 21 0.58
16 6 0.17
18 9 0.25
ACGTcount: A:0.50, C:0.24, G:0.16, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:495732 original size:32 final size:33
Alignment explanation
Indices: 495674--495764 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
495664 GGAAATGGCT
495674 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
495707 ATCGCAATGCAAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
495739 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
495765 TGCGATTTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:495758 original size:19 final size:19
Alignment explanation
Indices: 495635--495769 Score: 67
Period size: 19 Copynumber: 7.6 Consensus size: 19
495625 TAGTTTACTT
* **
495635 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
495655 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
495675 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
495694 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
* *
495708 TCGCAATGCAAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
495726 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
495740 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
495759 TCGCAATGCGA
1 TCGCAACGCGA
495770 TTTGTGTTTC
Statistics
Matches: 90, Mismatches: 13, Indels: 25
0.70 0.10 0.20
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 4 0.04
17 2 0.02
18 11 0.12
19 27 0.30
20 24 0.27
21 1 0.01
ACGTcount: A:0.44, C:0.23, G:0.20, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:495800 original size:14 final size:14
Alignment explanation
Indices: 495781--495871 Score: 74
Period size: 14 Copynumber: 5.9 Consensus size: 14
495771 TTGTGTTTCG
495781 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
495795 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
495811 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
495827 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
*
495844 CACATTGCGATTTTGT
1 --CGTTGCGATTTTGT
495860 CGTTGCGATTTT
1 CGTTGCGATTTT
495872 CATTTCGCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
14 28 0.45
15 3 0.05
16 10 0.16
17 2 0.03
18 12 0.19
19 7 0.11
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:495850 original size:33 final size:33
Alignment explanation
Indices: 495776--495887 Score: 199
Period size: 33 Copynumber: 3.4 Consensus size: 33
495766 GCGATTTGTG
*
495776 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
495808 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
495841 TTTCACATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
495874 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
495888 AGCCATTTCC
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 26 0.34
33 50 0.66
ACGTcount: A:0.12, C:0.19, G:0.21, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:495906 original size:20 final size:19
Alignment explanation
Indices: 495872--495927 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
495862 TTGCGATTTT
* *
495872 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAAC
*
495891 CATTTCCGCGTTGCGATAAT
1 CATTT-CGCGTTGCGATAAC
495911 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
495928 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 24 0.75
21 3 0.09
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAAC
Found at i:497802 original size:14 final size:14
Alignment explanation
Indices: 497783--497818 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
497773 ATTGTTTAAT
497783 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
497797 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
497811 TGATTTGT
1 TGATTTGT
497819 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:497964 original size:14 final size:14
Alignment explanation
Indices: 497945--497998 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
497935 GAAACTGACT
497945 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
497959 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
497978 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
497992 ATCGCAA
1 ATCGCAA
497999 TGCGATTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.31
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:498047 original size:20 final size:20
Alignment explanation
Indices: 498022--498097 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
498012 TCGCATTGCG
*
498022 ATTTTCTAGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
** ***
498042 ATTTTCTCGTTGCGATTTTTC
1 ATTTTCGAGTTGCGA-TAGCC
*
498063 A-TTTCGAATTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
*
498082 ATTTTCGCGTTGCGAT
1 ATTTTCGAGTTGCGAT
498098 TTCCCCGTTG
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
19 3 0.07
20 36 0.86
21 3 0.07
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.43
Consensus pattern (20 bp):
ATTTTCGAGTTGCGATAGCC
Found at i:498336 original size:20 final size:20
Alignment explanation
Indices: 498311--498356 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
498301 TTGAAGATGA
*
498311 TTGCGAAAGTCAGAATCTTG
1 TTGCGAAAGTCAGAATCTCG
498331 TTGCGAAAGTCAGAATCTCG
1 TTGCGAAAGTCAGAATCTCG
498351 TTGCGA
1 TTGCGA
498357 TTTTGTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (20 bp):
TTGCGAAAGTCAGAATCTCG
Found at i:498411 original size:21 final size:21
Alignment explanation
Indices: 498387--498459 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
498377 ATAGTCAGTA
*
498387 TCGCATTACGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
498408 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* **
498429 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCAAAT
498449 TCGCATTGCGA
1 TCGCATTGCGA
498460 ATTAGGAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
20 17 0.35
21 31 0.65
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:498675 original size:12 final size:12
Alignment explanation
Indices: 498656--498689 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
498646 CTCTCCGGCG
498656 ACATCCGTTCCT
1 ACATCCGTTCCT
*
498668 ATATCCGTTCCT
1 ACATCCGTTCCT
498680 ACATCC-TTCC
1 ACATCCGTTCC
498690 CCATCCGACA
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:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:499294 original size:24 final size:24
Alignment explanation
Indices: 499243--499296 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
499233 GTATTCGAAA
* *
499243 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCAGAC
* *
499267 TTTGATATTGGTCAATACTCAGAT
1 TTTGATATTGGTCAATACCCAGAC
499291 TTTGAT
1 TTTGAT
499297 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCAGAC
Found at i:501565 original size:18 final size:18
Alignment explanation
Indices: 501542--501590 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
501532 AAAGGCAATC
*
501542 AAAATCACAATCATCTTT
1 AAAATCCCAATCATCTTT
501560 AAAATCCCAATCATCTTT
1 AAAATCCCAATCATCTTT
501578 AAAATCCCAATCA
1 AAAATCCCAATCA
501591 CAACTGGCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAATCCCAATCATCTTT
Done.