Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_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: 11700749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 24 of 50
Found at i:6039307 original size:81 final size:81
Alignment explanation
Indices: 6039172--6039334 Score: 317
Period size: 81 Copynumber: 2.0 Consensus size: 81
6039162 ATGTTTTATT
6039172 CAGTTTGCCTGTGATATTAAGAGTTACTTCTATTGTCTTCGAAAGTATGATTGTTTTGCTAAGAG
1 CAGTTTGCCTGTGATATTAAGAGTTACTTCTATTGTCTTCGAAAGTATGATTGTTTTGCTAAGAG
6039237 GTTTAAACTCGAACTG
66 GTTTAAACTCGAACTG
*
6039253 CAGTTTGCCTGTTATATTAAGAGTTACTTCTATTGTCTTCGAAAGTATGATTGTTTTGCTAAGAG
1 CAGTTTGCCTGTGATATTAAGAGTTACTTCTATTGTCTTCGAAAGTATGATTGTTTTGCTAAGAG
6039318 GTTTAAACTCGAACTG
66 GTTTAAACTCGAACTG
6039334 C
1 C
6039335 CTGCACCTTT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (81 bp):
CAGTTTGCCTGTGATATTAAGAGTTACTTCTATTGTCTTCGAAAGTATGATTGTTTTGCTAAGAG
GTTTAAACTCGAACTG
Found at i:6040267 original size:16 final size:16
Alignment explanation
Indices: 6040242--6040275 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6040232 TATTTAACTT
*
6040242 ATTAATATATGTTTTA
1 ATTAAGATATGTTTTA
6040258 ATTAAGATATGTTTTA
1 ATTAAGATATGTTTTA
6040274 AT
1 AT
6040276 ATTTTACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (16 bp):
ATTAAGATATGTTTTA
Found at i:6051975 original size:21 final size:20
Alignment explanation
Indices: 6051951--6052008 Score: 53
Period size: 23 Copynumber: 2.7 Consensus size: 20
6051941 ATCCTCGCTA
6051951 TGTATTGATACACTATAAATG
1 TGTATTGATACACT-TAAATG
* * *
6051972 TGTACTGATATATTCCTTGAATG
1 TGTATTGATACA---CTTAAATG
6051995 TGTATTGATACACT
1 TGTATTGATACACT
6052009 CAAGAGTGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
20 2 0.07
21 10 0.34
23 15 0.52
24 2 0.07
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (20 bp):
TGTATTGATACACTTAAATG
Found at i:6053111 original size:15 final size:15
Alignment explanation
Indices: 6053091--6053119 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6053081 TAACACCTTT
6053091 GGTTTAGATAACGAG
1 GGTTTAGATAACGAG
6053106 GGTTTAGATAACGA
1 GGTTTAGATAACGA
6053120 AAAAGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.28
Consensus pattern (15 bp):
GGTTTAGATAACGAG
Found at i:6054282 original size:13 final size:13
Alignment explanation
Indices: 6054260--6054293 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
6054250 AGTGGGAGTA
*
6054260 ATTTTCAAAATTG
1 ATTTTCAAAAATG
6054273 A-TTTCAAAAATG
1 ATTTTCAAAAATG
6054285 ATTTTCAAA
1 ATTTTCAAA
6054294 GAAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:6055472 original size:33 final size:35
Alignment explanation
Indices: 6055429--6055497 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 35
6055419 TTTATAATTT
*
6055429 TAATTATATAATAATCT-TATTTTAATAAAAAATA
1 TAATTATATAATAATCTCTATTTAAATAAAAAATA
* *
6055463 TAATT-TATAATAATTTCTATTTAAATAAAATATA
1 TAATTATATAATAATCTCTATTTAAATAAAAAATA
6055497 T
1 T
6055498 TAATCTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 10 0.32
34 21 0.68
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (35 bp):
TAATTATATAATAATCTCTATTTAAATAAAAAATA
Found at i:6055517 original size:33 final size:34
Alignment explanation
Indices: 6055429--6055518 Score: 89
Period size: 34 Copynumber: 2.7 Consensus size: 34
6055419 TTTATAATTT
* *
6055429 TAATTATATAATAA-TCTTATTTTAATAAAAAATA
1 TAATT-TATAATAATTTTTATTTAAATAAAAAATA
* *
6055463 TAATTTATAATAATTTCTATTTAAATAAAATATA
1 TAATTTATAATAATTTTTATTTAAATAAAAAATA
6055497 TTAATCTT-T-AT-ATTTTTATTTA
1 -TAAT-TTATAATAATTTTTATTTA
6055519 TAAAATTATA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
33 18 0.38
34 23 0.48
35 5 0.10
36 2 0.04
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (34 bp):
TAATTTATAATAATTTTTATTTAAATAAAAAATA
Found at i:6061338 original size:194 final size:194
Alignment explanation
Indices: 6061075--6061497 Score: 614
Period size: 194 Copynumber: 2.2 Consensus size: 194
6061065 GAAATTTGTA
* * * * *
6061075 TTTTCTAAGTATATGCACCAAATTATCGATACTTTAGGATTTTAAAAAAATTGCAATAATAGCGC
1 TTTTATAAGTATATGTATCATATTATCGATACTTTAGGAATTTAAAAAAATTGCAATAATAGCGC
* * * **
6061140 CTATAAAGTATTGATACTTTATAAACATGTATCAATACATGACAATATATCTTGTAAAAATATGA
66 CTATAAAGTATCGATACTTTAGAAACATGTATCAATACATGACAATATAACAAGTAAAAATATGA
* * * *
6061205 CAAAATCGGTTTCAATATGACAAAACC-AGTAAAGAGCTACCAGATATGTTGAAGGTATCGATAC
131 AAAAACCGATTTCAATATGACAAAACCGA-TAAAGAGCTACCAAATATGTTGAAGGTATCGATAC
* * * *
6061269 TTTTATAAGTATATGTATCATAGTATCGATACTTTAGGAATTTAAAAGAATTGCAATAGTAGTGC
1 TTTTATAAGTATATGTATCATATTATCGATACTTTAGGAATTTAAAAAAATTGCAATAATAGCGC
* *
6061334 CTATAAAGTATCGATACTTTAGAAACATTTATCAATACATGACAATATAACAAGTTAAAATATGA
66 CTATAAAGTATCGATACTTTAGAAACATGTATCAATACATGACAATATAACAAGTAAAAATATGA
* *
6061399 AAAAACCGATTTTAATATGACAAAACCGATAAAGCGCTACCAAATATGTTGAAGGTATCGATAC
131 AAAAACCGATTTCAATATGACAAAACCGATAAAGAGCTACCAAATATGTTGAAGGTATCGATAC
* *
6061463 TTTAATAAGCATATGTATCATATTATCGATACTTT
1 TTTTATAAGTATATGTATCATATTATCGATACTTT
6061498 TAAAAGAAAA
Statistics
Matches: 203, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
194 202 1.00
195 1 0.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (194 bp):
TTTTATAAGTATATGTATCATATTATCGATACTTTAGGAATTTAAAAAAATTGCAATAATAGCGC
CTATAAAGTATCGATACTTTAGAAACATGTATCAATACATGACAATATAACAAGTAAAAATATGA
AAAAACCGATTTCAATATGACAAAACCGATAAAGAGCTACCAAATATGTTGAAGGTATCGATAC
Found at i:6061925 original size:19 final size:19
Alignment explanation
Indices: 6061864--6061926 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
6061854 TTAGAAAGTG
6061864 ATATTATAGGTAGAAAATAA
1 ATATTATAGGTAGAAAAT-A
* * * *
6061884 ATATTAATA-TTTGTATATA
1 ATATT-ATAGGTAGAAAATA
*
6061903 ATATTATAGGTAGAAAATG
1 ATATTATAGGTAGAAAATA
6061922 ATATT
1 ATATT
6061927 GTAAGTTGTA
Statistics
Matches: 32, Mismatches: 9, Indels: 5
0.70 0.20 0.11
Matches are distributed among these distances:
18 3 0.09
19 16 0.50
20 10 0.31
21 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.40
Consensus pattern (19 bp):
ATATTATAGGTAGAAAATA
Found at i:6061936 original size:38 final size:38
Alignment explanation
Indices: 6061864--6061943 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 38
6061854 TTAGAAAGTG
*
6061864 ATATTATAGGTAGAAAATAAATATTAATATTTGTATATA
1 ATATTATAGGTAGAAAATAAATATTAATAGTTGTATA-A
* *
6061903 ATATTATAGGTAGAAAAT-GATATT-GTAAGTTGTATAA
1 ATATTATAGGTAGAAAATAAATATTAAT-AGTTGTATAA
6061940 ATAT
1 ATAT
6061944 ACCGATACTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 6 0.16
38 13 0.35
39 18 0.49
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.40
Consensus pattern (38 bp):
ATATTATAGGTAGAAAATAAATATTAATAGTTGTATAA
Found at i:6062216 original size:229 final size:230
Alignment explanation
Indices: 6061803--6062216 Score: 670
Period size: 229 Copynumber: 1.8 Consensus size: 230
6061793 AAATAGGGGT
* *
6061803 TTTATGGGTTTGGGGATTTCGAATCAAATAAGGATTTGGGACCGATTAGAGTTAGAAAGTGATAT
1 TTTATGGGTTTGGGGATTTCGAATCAAAGAAGGATTTGGGACCGATTAGAGTTAGAAAGCGATAT
* *
6061868 TATAGGTAGAAAATAAATATTAATATTTGTATATAATATTATAGGTAGAAAATGATATTGTAAGT
66 TATAGGTAGAAAATAAATATCAATACTTGTATATAATATTATAGGTAGAAAATGATATTGTAAGT
6061933 TGTATAAATATACCGATACTTGTAGTAGAGAGTATTCTCATTCGTTTGAAGGAAATCCTAGTTTT
131 TGTATAAATATACCGATACTTGTAGTAGAGAGTATTCTCATTCGTTTGAAGGAAATCCTAGTTTT
6061998 TTTAGTATTATAGTAATCGAAAATAGGGATTAGGG
196 TTTAGTATTATAGTAATCGAAAATAGGGATTAGGG
* *
6062033 TTTATGGGTTT-GGGATTTCGAAGT-AAAGAATGATTTGGGACTGATTAGAGTTAGAAAGCGATA
1 TTTATGGGTTTGGGGATTTCGAA-TCAAAGAAGGATTTGGGACCGATTAGAGTTAGAAAGCGATA
* * *
6062096 TTATAGGTAGAAAATAAATATCGATACTTGTGTATAATATTATAGGTAGAAAATGATATTGTAGG
65 TTATAGGTAGAAAATAAATATCAATACTTGTATATAATATTATAGGTAGAAAATGATATTGTAAG
* * * * * *
6062161 TTTTATAAATGTATCGATATTTGTAGTAGAGAGTATTCTGATTCTTTTGAAGGAAA
130 TTGTATAAATATACCGATACTTGTAGTAGAGAGTATTCTCATTCGTTTGAAGGAAA
6062217 CCATTTTACT
Statistics
Matches: 168, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
229 156 0.93
230 12 0.07
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (230 bp):
TTTATGGGTTTGGGGATTTCGAATCAAAGAAGGATTTGGGACCGATTAGAGTTAGAAAGCGATAT
TATAGGTAGAAAATAAATATCAATACTTGTATATAATATTATAGGTAGAAAATGATATTGTAAGT
TGTATAAATATACCGATACTTGTAGTAGAGAGTATTCTCATTCGTTTGAAGGAAATCCTAGTTTT
TTTAGTATTATAGTAATCGAAAATAGGGATTAGGG
Found at i:6065481 original size:64 final size:64
Alignment explanation
Indices: 6065420--6065541 Score: 147
Period size: 64 Copynumber: 1.9 Consensus size: 64
6065410 GTAAAATCGG
*
6065420 GTACAGG-TAAAGTCAGGTAAATTTGACACCATATCCAGATCGGGTTCAGGTCAAGTCAAATCA
1 GTACAGGTTAAAGTCAGGTAAATTTGACACCAGATCCAGATCGGGTTCAGGTCAAGTCAAATCA
* * *** ** * *
6065483 GTTCGGGTTATTTTCAGGTTGATTTGACACCAGATCTAGATCGGGTTCAGGTCAGGTCA
1 GTACAGGTTAAAGTCAGGTAAATTTGACACCAGATCCAGATCGGGTTCAGGTCAAGTCA
6065542 TTTTCAGTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
63 5 0.10
64 43 0.90
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (64 bp):
GTACAGGTTAAAGTCAGGTAAATTTGACACCAGATCCAGATCGGGTTCAGGTCAAGTCAAATCA
Found at i:6066220 original size:217 final size:217
Alignment explanation
Indices: 6065845--6066882 Score: 1594
Period size: 217 Copynumber: 4.8 Consensus size: 217
6065835 ATTTAAGAAT
*
6065845 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATTAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
*
6065910 GGATCAAATTGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* *
6065975 CCATTTAAAAAGTTATGGGTCAATTAAAAAAATAGAATTAAGTAATAAGTATGGATCAATTTCAT
131 TCATTTAAAAAGTTATGGGCCAATTAAAAAAATAGAATTAAGTAATAAGTATGGATCAATTTCAT
*
6066040 ATGCAAATAAAATTCGGAGGAC
196 ATGCAAATAAAATTTGGAGGAC
*
6066062 TAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
*
6066127 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAATACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
6066192 TCATTTAAAAAGTTATGGGCCAATTAAAAAAATAGAATTAAGTAATAAGTATGGATCAATTTCAT
131 TCATTTAAAAAGTTATGGGCCAATTAAAAAAATAGAATTAAGTAATAAGTATGGATCAATTTCAT
**
6066257 ATAAAAATAAAATTTGGAGGAC
196 ATGCAAATAAAATTTGGAGGAC
6066279 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* *
6066344 GGATCAAATCGAAATAATTTTAAATTTTGATGTTGAAATTAATACAAAAAAGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * * * *
6066409 ACATTTAAAAAGTTATGGGCCAA-TATAAAAATAGAAATAAGTAATAAGTAAGGGTCAATTTCAT
131 TCATTTAAAAAGTTATGGGCCAATTAAAAAAATAGAATTAAGTAATAAGTATGGATCAATTTCAT
6066473 ATGCAAATAAAATTTGGAGGAC
196 ATGCAAATAAAATTTGGAGGAC
* *
6066495 TAAATTGAATAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* * * * *
6066560 GGATCAAATCAAAATAGTTTTAAATTGTGATGTTAAAATTAATACAAAAATGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * * *
6066625 -CATTTAAAAAGTTATGGGCCAATT-TAAAAATAGAAATAAGTAATAAGTATGGGTCAATTTCAG
131 TCATTTAAAAAGTTATGGGCCAATTAAAAAAATAGAATTAAGTAATAAGTATGGATCAATTTCAT
* *
6066688 GTGCAAATAAAATTTGGATGAC
196 ATGCAAATAAAATTTGGAGGAC
* * * *
6066710 TAAATTGAATAAATATGAAATTATAAATAAAAAATTAAATATATTAAACAACACA-A---A--AG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* * * * * *
6066769 GGATCAAATCGAAATAATGTTAAATTTTAAGGTTGAAATTGATATAAAAATGTACTAAATTATAC
66 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
* * ** *
6066834 TCATTTTAAAAGCTATGGATCAATT-AATAAATAGAAATT-AGTAATAAGT
131 TCATTTAAAAAGTTATGGGCCAATTAAAAAAATAG-AATTAAGTAATAAGT
6066883 TGAGAAAAAA
Statistics
Matches: 769, Mismatches: 49, Indels: 13
0.93 0.06 0.02
Matches are distributed among these distances:
209 58 0.08
210 37 0.05
211 4 0.01
214 1 0.00
215 132 0.17
216 181 0.24
217 356 0.46
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (217 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATAC
TCATTTAAAAAGTTATGGGCCAATTAAAAAAATAGAATTAAGTAATAAGTATGGATCAATTTCAT
ATGCAAATAAAATTTGGAGGAC
Found at i:6066620 original size:433 final size:430
Alignment explanation
Indices: 6065802--6066882 Score: 1620
Period size: 433 Copynumber: 2.5 Consensus size: 430
6065792 TAAGAATATA
* * * * * *
6065802 AATAAGCATGGTTCAATTTTATA-AAAAATACAAATTT-AAGAATTAAATTGAACAAATATGAAA
1 AATAAGTATGGATCAATTTCATATAAAAATA-AAATTTGGAGGACTAAATTGAACAAATATGAAA
*
6065865 TTACAAATAAAAATTTAAATAAATTAAACAACACACATTGATTAGGGATCAAATTGAAATAATTT
65 TTACAAATAAAAATTTAAATAAATTAAACAACACACATTGA-TAGGGATCAAATCGAAATAATTT
* *
6065930 TAAATTGTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACCCATTTAAAAAGTTATGGGT
129 TAAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACACATTTAAAAAGTTATGGGT
* * *
6065995 CAATTAAAAAAATAGAATTAAGTAATAAGTATGGATCAATTTCATATGCAAATAAAATTCGGAGG
194 CAA-TATAAAAATAGAAATAAGTAATAAGTAAGGATCAATTTCATATGCAAATAAAATTCGGAGG
6066060 ACTAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACACATTGATG
258 ACTAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACACATTGATG
* *
6066125 AGGGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAATACTAAATTAT
323 AGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTAAAATTAATACAAAAAAATACTAAATTAT
*
6066190 ACTCATTTAAAAAGTTATGGGCCAATTAAAAAAATAGAATTAAGT
388 AC-CATTTAAAAAGTTATGGGCCAATT-AAAAAATAGAAATAAGT
6066235 AATAAGTATGGATCAATTTCATATAAAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAAT
1 AATAAGTATGGATCAATTTCATATAAAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAAT
6066300 TACAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAGGGATCAAATCGAAATAATTTT
66 TACAAATAAAAATTTAAATAAATTAAACAACACACATTGAT-AGGGATCAAATCGAAATAATTTT
* *
6066365 AAATTTTGATGTTGAAATTAATACAAAAAAGTACTAAATTATACACATTTAAAAAGTTATGGGCC
130 AAATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACACATTTAAAAAGTTATGGGTC
* *
6066430 AATATAAAAATAGAAATAAGTAATAAGTAAGGGTCAATTTCATATGCAAATAAAATTTGGAGGAC
195 AATATAAAAATAGAAATAAGTAATAAGTAAGGATCAATTTCATATGCAAATAAAATTCGGAGGAC
* * *
6066495 TAAATTGAATAAATATGAAATTACAAATAAAAATTTAAATATATTAAACAACACACATTGATGAG
260 TAAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAG
* * **
6066560 GGATCAAATCAAAATAGTTTTAAATTGTGATGTTAAAATTAATACAAAAATGTACTAAATTATAC
325 GGATCAAATCAAAATAATTTTAAATTGTGAGGTTAAAATTAATACAAAAAAATACTAAATTATAC
*
6066625 CATTTAAAAAGTTATGGGCCAATTTAAAAATAGAAATAAGT
390 CATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGT
* ** ** * *
6066666 AATAAGTATGGGTCAATTTCAGGTGCAAATAAAATTTGGATGACTAAATTGAATAAATATGAAAT
1 AATAAGTATGGATCAATTTCATATAAAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAAT
* * * *
6066731 TATAAATAAAAAATTAAATATATTAAACAACACA-A---A-AGGGATCAAATCGAAATAATGTTA
66 TACAAATAAAAATTTAAATAAATTAAACAACACACATTGATAGGGATCAAATCGAAATAATTTTA
* * * * * * * *
6066791 AATTTTAAGGTTGAAATTGATATAAAAATGTACTAAATTATACTCATTTTAAAAGCTATGGATCA
131 AATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACACATTTAAAAAGTTATGGGTCA
*
6066856 AT-TAATAAATAGAAATTAGTAATAAGT
196 ATATAA-AAATAGAAATAAGTAATAAGT
6066883 TGAGAAAAAA
Statistics
Matches: 595, Mismatches: 49, Indels: 16
0.90 0.07 0.02
Matches are distributed among these distances:
424 3 0.01
425 100 0.17
427 1 0.00
430 1 0.00
431 104 0.17
432 24 0.04
433 206 0.35
434 156 0.26
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (430 bp):
AATAAGTATGGATCAATTTCATATAAAAATAAAATTTGGAGGACTAAATTGAACAAATATGAAAT
TACAAATAAAAATTTAAATAAATTAAACAACACACATTGATAGGGATCAAATCGAAATAATTTTA
AATTTTGAGGTTGAAATTAATACAAAAAAGTACTAAATTATACACATTTAAAAAGTTATGGGTCA
ATATAAAAATAGAAATAAGTAATAAGTAAGGATCAATTTCATATGCAAATAAAATTCGGAGGACT
AAATTGAACAAATATGAAATTAAAAATAAAAATTTAAATAAATTAAACAACACACATTGATGAGG
GATCAAATCAAAATAATTTTAAATTGTGAGGTTAAAATTAATACAAAAAAATACTAAATTATACC
ATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAGT
Found at i:6066948 original size:27 final size:28
Alignment explanation
Indices: 6066909--6066977 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
6066899 ACAACTAATA
** *
6066909 TATATATA-TATATATATTATGTATAAAG
1 TATA-ATACTATATATACCATGTATAAAC
6066937 TATAA-ACTATATATACCATGTATAAAC
1 TATAATACTATATATACCATGTATAAAC
6066964 TATAATACTATATA
1 TATAATACTATATA
6066978 GTTTATATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 23 0.64
28 12 0.33
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (28 bp):
TATAATACTATATATACCATGTATAAAC
Found at i:6067033 original size:11 final size:11
Alignment explanation
Indices: 6067019--6067137 Score: 66
Period size: 11 Copynumber: 10.6 Consensus size: 11
6067009 ACTACATAGT
6067019 TTATATATAAA
1 TTATATATAAA
*
6067030 TTATATATGAA
1 TTATATATAAA
6067041 TTATATATAAA
1 TTATATATAAA
* * *
6067052 --CTATACAAT
1 TTATATATAAA
*
6067061 TTATATTTATATA
1 TTATA--TATAAA
*
6067074 TTATGTAT-AA
1 TTATATATAAA
*
6067084 TTATAAATAATA
1 TTATATATAA-A
*
6067096 TATATTGTATAAA
1 T-TA-TATATAAA
**
6067109 TTATATAGTTTA
1 TTATATA-TAAA
6067121 TTA-ATATAAA
1 TTATATATAAA
6067131 TTATATA
1 TTATATA
6067138 GTTTTTTATA
Statistics
Matches: 78, Mismatches: 20, Indels: 20
0.66 0.17 0.17
Matches are distributed among these distances:
9 6 0.08
10 12 0.15
11 35 0.45
12 9 0.12
13 11 0.14
14 5 0.06
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (11 bp):
TTATATATAAA
Found at i:6067064 original size:20 final size:20
Alignment explanation
Indices: 6066964--6067066 Score: 75
Period size: 20 Copynumber: 5.0 Consensus size: 20
6066954 ATGTATAAAC
*
6066964 TATAATACTATATAGTTTATA
1 TATAA-ACTATATAATTTATA
* *
6066985 TATGAACTAT-TGAA-CTATA
1 TATAAACTATAT-AATTTATA
* * *
6067004 TAGAAACTACATAGTTTATA
1 TATAAACTATATAATTTATA
* *
6067024 TATAAATTATATATGAATTATA
1 TATAAACTATATA--ATTTATA
*
6067046 TATAAACTATACAATTTATA
1 TATAAACTATATAATTTATA
6067066 T
1 T
6067067 TTATATATTA
Statistics
Matches: 61, Mismatches: 16, Indels: 11
0.69 0.18 0.12
Matches are distributed among these distances:
19 13 0.21
20 28 0.46
21 4 0.07
22 16 0.26
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.42
Consensus pattern (20 bp):
TATAAACTATATAATTTATA
Found at i:6067064 original size:42 final size:43
Alignment explanation
Indices: 6066995--6067093 Score: 103
Period size: 42 Copynumber: 2.3 Consensus size: 43
6066985 TATGAACTAT
* * * *
6066995 TGAACTATATAGAAACTACATAGTTTATA-TATAAATTATATA
1 TGAATTATATATAAACTACACAATTTATATTATAAATTATATA
* * *
6067037 TGAATTATATATAAACTATACAATTTATATTTATATATTATGTA
1 TGAATTATATATAAACTACACAATTTATA-TTATAAATTATATA
*
6067081 T-AATTATAAATAA
1 TGAATTATATATAA
6067094 TATATATTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
42 24 0.51
43 11 0.23
44 12 0.26
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (43 bp):
TGAATTATATATAAACTACACAATTTATATTATAAATTATATA
Found at i:6067082 original size:17 final size:17
Alignment explanation
Indices: 6067062--6067115 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
6067052 CTATACAATT
* *
6067062 TATATTTATATATTATG
1 TATATTTATAAATTATA
* *
6067079 TATAATTATAAATAATA
1 TATATTTATAAATTATA
6067096 TATATTGTATAAATTATA
1 TATATT-TATAAATTATA
6067114 TA
1 TA
6067116 GTTTATTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (17 bp):
TATATTTATAAATTATA
Found at i:6067131 original size:22 final size:23
Alignment explanation
Indices: 6067103--6067151 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 23
6067093 ATATATATTG
6067103 TATAAATTATATAGTTTATTA-A
1 TATAAATTATATAGTTTATTATA
*
6067125 TATAAATTATATAGTTTTTTATA
1 TATAAATTATATAGTTTATTATA
6067148 TATA
1 TATA
6067152 TATAGTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (23 bp):
TATAAATTATATAGTTTATTATA
Found at i:6067269 original size:33 final size:32
Alignment explanation
Indices: 6067223--6067314 Score: 98
Period size: 33 Copynumber: 2.9 Consensus size: 32
6067213 ATGTATATAC
*
6067223 TATATTTTATACTATTTACATAAACTATAGTT
1 TATATTTTATACTATATACATAAACTATAGTT
* *
6067255 TATATTTATATACTATATATATGAACTATAGTT
1 TATATTT-TATACTATATACATAAACTATAGTT
* * * *
6067288 TACATATGA-ACTATATATATAAA-TATA
1 TATATTTTATACTATATACATAAACTATA
6067315 TATATACTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
30 4 0.08
31 13 0.25
32 8 0.15
33 27 0.52
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (32 bp):
TATATTTTATACTATATACATAAACTATAGTT
Found at i:6067271 original size:20 final size:20
Alignment explanation
Indices: 6067199--6067407 Score: 66
Period size: 20 Copynumber: 10.4 Consensus size: 20
6067189 TATAAACTAC
* *
6067199 ATACTATAATTTATATGTAT
1 ATACTATAGTTTATATTTAT
*
6067219 ATACTATATTTTATACTATTTACAT
1 ATACTATA-GTT-TA-TATTT--AT
*
6067244 AAACTATAGTTTATATTTAT
1 ATACTATAGTTTATATTTAT
*
6067264 ATACTATA---TATA--T-G
1 ATACTATAGTTTATATTTAT
**
6067278 A-ACTATAGTTTACATATGAACT
1 ATACTATAGTTT--ATATTTA-T
** *
6067300 ATA-TATA-TAAATATATAT
1 ATACTATAGTTTATATTTAT
*
6067318 ATACTA-AGGTTGATATTTATAT
1 ATACTATA-GTTTATA-TT-TAT
*
6067340 ATGAACTATAGTTTACA--TAT
1 AT--ACTATAGTTTATATTTAT
*
6067360 AAACTATAGTTTATATTTAT
1 ATACTATAGTTTATATTTAT
*
6067380 ATACTATA-TATTATATATAT
1 ATACTATAGT-TTATATTTAT
*
6067400 ATATTATA
1 ATACTATA
6067408 TATACCATAT
Statistics
Matches: 141, Mismatches: 22, Indels: 52
0.66 0.10 0.24
Matches are distributed among these distances:
13 6 0.04
14 1 0.01
15 1 0.01
16 1 0.01
17 4 0.03
18 20 0.14
19 8 0.06
20 51 0.36
21 4 0.03
22 17 0.12
23 7 0.05
24 11 0.08
25 10 0.07
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (20 bp):
ATACTATAGTTTATATTTAT
Found at i:6067354 original size:18 final size:18
Alignment explanation
Indices: 6067333--6067398 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
6067323 AAGGTTGATA
*
6067333 TTTATATATGAACTATAG
1 TTTATATATAAACTATAG
*
6067351 TTTACATATAAACTATAG
1 TTTATATATAAACTATAG
*
6067369 TTTATATTTATATACTATA-
1 TTTATA--TATAAACTATAG
6067388 TATTATATATA
1 T-TTATATATA
6067399 TATATTATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
18 25 0.61
19 1 0.02
20 15 0.37
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (18 bp):
TTTATATATAAACTATAG
Found at i:6067387 original size:13 final size:13
Alignment explanation
Indices: 6067371--6067411 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
6067361 AACTATAGTT
6067371 TATAT-TTATATA
1 TATATATTATATA
6067383 CTATATATTATATA
1 -TATATATTATATA
6067397 TATATATTATATA
1 TATATATTATATA
6067410 TA
1 TA
6067412 CCATATAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 20 0.74
14 7 0.26
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATTATATA
Found at i:6067389 original size:2 final size:2
Alignment explanation
Indices: 6067371--6067411 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
6067361 AACTATAGTT
*
6067371 TA TA TT TA TA TA CTA TA TA T- TA TA TA TA TA TA T- TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6067412 CCATATAGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 2 0.06
2 30 0.88
3 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:6067400 original size:18 final size:17
Alignment explanation
Indices: 6067330--6067411 Score: 64
Period size: 18 Copynumber: 4.8 Consensus size: 17
6067320 ACTAAGGTTG
6067330 ATATTTATATATGA-ACT
1 ATATTTATATAT-ATACT
* *
6067347 ATAGTTTACATATAAACT
1 ATA-TTTATATATATACT
6067365 ATAGTTTATATTTATATACT
1 ATA-TTTATA--TATATACT
*
6067385 ATATAT-TATATATA-T
1 ATATTTATATATATACT
6067400 ATA-TTATATATA
1 ATATTTATATATA
6067412 CCATATAGTA
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
14 1 0.02
15 10 0.18
16 6 0.11
17 4 0.07
18 22 0.40
19 2 0.04
20 10 0.18
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.49
Consensus pattern (17 bp):
ATATTTATATATATACT
Found at i:6067408 original size:20 final size:20
Alignment explanation
Indices: 6067356--6067410 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
6067346 TATAGTTTAC
*
6067356 ATATAAACTATAGT-TTATAT
1 ATATATACTATA-TATTATAT
*
6067376 TTATATACTATATATTATAT
1 ATATATACTATATATTATAT
*
6067396 ATATATATTATATAT
1 ATATATACTATATAT
6067411 ACCATATAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (20 bp):
ATATATACTATATATTATAT
Found at i:6067424 original size:7 final size:7
Alignment explanation
Indices: 6067370--6067410 Score: 59
Period size: 7 Copynumber: 6.1 Consensus size: 7
6067360 AAACTATAGT
6067370 TTATAT-
1 TTATATA
6067376 TTATATA
1 TTATATA
*
6067383 CTATATA
1 TTATATA
6067390 TTATATA
1 TTATATA
6067397 -TATATA
1 TTATATA
6067403 TTATATA
1 TTATATA
6067410 T
1 T
6067411 ACCATATAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
6 12 0.39
7 19 0.61
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (7 bp):
TTATATA
Found at i:6067507 original size:33 final size:33
Alignment explanation
Indices: 6067468--6067675 Score: 200
Period size: 33 Copynumber: 6.4 Consensus size: 33
6067458 CCTAAACCCC
*
6067468 AAACTATACATTATATAGTTTATTAGTATATAT
1 AAACTATACATTATATAGTTCATTAGTATATAT
* * *
6067501 AAACTATATGATATATATAGAAT-ATATGGTATATAT
1 AAACTATA-CAT-TATATAG-TTCAT-TAGTATATAT
6067537 AAACTATACATTATATATAGTTCATTAGTATATAT
1 AAACTATACA-T-TATATAGTTCATTAGTATATAT
* *
6067572 AAACTATATACTATATAGTTCATTAGTATATAT
1 AAACTATACATTATATAGTTCATTAGTATATAT
* * *
6067605 AAACTAT--A-TA-GTA--T-A-TGGTATATAC
1 AAACTATACATTATATAGTTCATTAGTATATAT
*
6067630 AAACTATATATTATATAGTTCATTAGTATATAT
1 AAACTATACATTATATAGTTCATTAGTATATAT
*
6067663 AAACTATATATTA
1 AAACTATACATTA
6067676 ATTTATTAAT
Statistics
Matches: 147, Mismatches: 14, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
25 15 0.10
26 1 0.01
27 2 0.01
28 2 0.01
29 4 0.03
30 2 0.01
31 2 0.01
32 1 0.01
33 58 0.39
34 2 0.01
35 29 0.20
36 29 0.20
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (33 bp):
AAACTATACATTATATAGTTCATTAGTATATAT
Found at i:6067570 original size:17 final size:17
Alignment explanation
Indices: 6067548--6067605 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
6067538 AACTATACAT
6067548 TATATATAGTTCATTAG
1 TATATATAGTTCATTAG
**
6067565 TATATATA-AAC-TATA-
1 TATATATAGTTCAT-TAG
6067580 TACTATATAGTTCATTAG
1 TA-TATATAGTTCATTAG
6067598 TATATATA
1 TATATATA
6067606 AACTATATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 3 0.09
16 9 0.28
17 17 0.53
18 3 0.09
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (17 bp):
TATATATAGTTCATTAG
Found at i:6067573 original size:71 final size:66
Alignment explanation
Indices: 6067468--6067675 Score: 209
Period size: 58 Copynumber: 3.2 Consensus size: 66
6067458 CCTAAACCCC
* *
6067468 AAACTATACATTATATAGTTTATTAGTATATATAAACTATATGATATATATAGAAT-ATATGGTA
1 AAACTATACATTATATAGTTCATTAGTATATATAAACTATAT-A-ATATATAG-ATCAT-TAGTA
6067532 TATAT
62 TATAT
* *
6067537 AAACTATACATTATATATAGTTCATTAGTATATATAAACTATATACTATATAGTTCATTAGTATA
1 AAACTATACA-T-TATATAGTTCATTAGTATATATAAACTATATAATATATAGATCATTAGTATA
6067602 TAT
64 TAT
* * * * *
6067605 AAACTAT--A-TA-GTA--T-A-TGGTATATACAAACTATATATTATATAGTTCATTAGTATATA
1 AAACTATACATTATATAGTTCATTAGTATATATAAACTATATAATATATAGATCATTAGTATATA
6067662 T
66 T
*
6067663 AAACTATATATTA
1 AAACTATACATTA
6067676 ATTTATTAAT
Statistics
Matches: 125, Mismatches: 8, Indels: 20
0.82 0.05 0.13
Matches are distributed among these distances:
58 47 0.38
59 1 0.01
60 2 0.02
61 2 0.02
62 2 0.02
63 2 0.02
66 1 0.01
68 17 0.14
69 19 0.15
70 2 0.02
71 30 0.24
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (66 bp):
AAACTATACATTATATAGTTCATTAGTATATATAAACTATATAATATATAGATCATTAGTATATA
T
Found at i:6067588 original size:18 final size:18
Alignment explanation
Indices: 6067491--6067620 Score: 105
Period size: 18 Copynumber: 7.4 Consensus size: 18
6067481 TATAGTTTAT
6067491 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
6067509 T-GATATATATAGAA-TATA
1 TAG-TATATATA-AACTATA
*
6067527 TGGTATATATAAACTATA
1 TAGTATATATAAACTATA
* * **
6067545 CATTATATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
6067562 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* *
6067580 TACTATATAGT--TC-AT-
1 TAGTATATA-TAAACTATA
6067595 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
6067613 TAGTATAT
1 TAGTATAT
6067621 GGTATATACA
Statistics
Matches: 87, Mismatches: 13, Indels: 24
0.70 0.10 0.19
Matches are distributed among these distances:
14 1 0.01
15 8 0.09
16 3 0.03
17 18 0.21
18 53 0.61
19 4 0.05
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:6067633 original size:25 final size:25
Alignment explanation
Indices: 6067597--6067645 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
6067587 TAGTTCATTA
*
6067597 GTATATATAAACTATATAGTATATG
1 GTATATACAAACTATATAGTATATG
*
6067622 GTATATACAAACTATATATTATAT
1 GTATATACAAACTATATAGTATAT
6067646 AGTTCATTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (25 bp):
GTATATACAAACTATATAGTATATG
Found at i:6067807 original size:50 final size:50
Alignment explanation
Indices: 6067732--6067836 Score: 149
Period size: 50 Copynumber: 2.1 Consensus size: 50
6067722 TATAATGATC
* * * *
6067732 AAATTGAACAAATTTTAAATATGAAGCTTAAATTAATAAATTGTAA-CATT
1 AAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATAAATT-AAATCATT
*
6067782 AAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATATATTAAATCATT
1 AAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATAAATTAAATCATT
6067832 AAATT
1 AAATT
6067837 TGAACTAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
49 2 0.04
50 47 0.96
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (50 bp):
AAATTGAAAAAAGTTGAAATATGAAGCTTAAATTAATAAATTAAATCATT
Found at i:6069155 original size:19 final size:19
Alignment explanation
Indices: 6069131--6069229 Score: 73
Period size: 18 Copynumber: 5.2 Consensus size: 19
6069121 ACCTAAAAAA
6069131 ATAAAATAA-AATAAGTAAT
1 ATAAAATAATAATAA-TAAT
*
6069150 ATAAAA-AATAATAATAGT
1 ATAAAATAATAATAATAAT
6069168 AATAATAAATAATAATAATAAT
1 -AT-A-AAATAATAATAATAAT
* *
6069190 A-ACAATAACAATAATAA-
1 ATAAAATAATAATAATAAT
*
6069207 AT-AAATAAAAACTATATAAT
1 ATAAAATAATAA-TA-ATAAT
6069227 ATA
1 ATA
6069230 CATTTTTAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
17 8 0.12
18 20 0.31
19 18 0.28
20 3 0.05
21 4 0.06
22 11 0.17
ACGTcount: A:0.68, C:0.03, G:0.02, T:0.27
Consensus pattern (19 bp):
ATAAAATAATAATAATAAT
Found at i:6069164 original size:3 final size:3
Alignment explanation
Indices: 6069130--6069206 Score: 74
Period size: 3 Copynumber: 26.7 Consensus size: 3
6069120 GACCTAAAAA
*
6069130 AAT AA- AAT AA- AAT AAGT AAT -AT AA- AA- AAT AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
6069171 AAT AAAT AAT AAT AAT AAT AAC AAT AAC AAT AAT AA
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6069207 ATAAATAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
2 10 0.16
3 46 0.74
4 6 0.10
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:6069349 original size:30 final size:31
Alignment explanation
Indices: 6069267--6069353 Score: 113
Period size: 32 Copynumber: 2.7 Consensus size: 31
6069257 CTATATATTA
* *
6069267 TATATAAATTTTTAAAAATATTTTTAGAAAAC
1 TATAT-AATTTTAAAAAATGTTTTTAGAAAAC
6069299 TATATAATTTTTAAAAAAATGTTTTTA-AAAAC
1 TATATAA-TTTT-AAAAAATGTTTTTAGAAAAC
*
6069331 TATATAATTTTCAAAAATGTTTT
1 TATATAATTTTAAAAAATGTTTT
6069354 AAAGTTTATA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
30 11 0.22
31 6 0.12
32 21 0.42
33 12 0.24
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (31 bp):
TATATAATTTTAAAAAATGTTTTTAGAAAAC
Found at i:6069384 original size:36 final size:36
Alignment explanation
Indices: 6069331--6069531 Score: 208
Period size: 36 Copynumber: 5.5 Consensus size: 36
6069321 TTTTAAAAAC
***
6069331 TATATA-ATTTTCAAAAATGTTTTAAAGTTTATATAA
1 TATATATATTTTC-AAAATGTTTTAAAAACTATATAA
* * *
6069367 TATATATATATTCAAAATATTTTTCAAAAACTATATAT
1 TATATATATTTTCAAAAT-GTTTT-AAAAACTATATAA
* * *
6069405 TATATTTATTTTCAAAAACGTTTT-TAAACTATATAA
1 TATATATATTTTC-AAAATGTTTTAAAAACTATATAA
* *
6069441 TATATAAATGTTTTCAAAATGTTTTAAAAACTATATAT
1 TATAT--ATATTTTCAAAATGTTTTAAAAACTATATAA
*
6069479 TATATATATATTCAAAATGTTTTAAAAACTATATAA
1 TATATATATTTTCAAAATGTTTTAAAAACTATATAA
* *
6069515 TATATATGTTTTAAAAA
1 TATATATATTTTCAAAA
6069532 CTATATATCA
Statistics
Matches: 135, Mismatches: 23, Indels: 14
0.78 0.13 0.08
Matches are distributed among these distances:
36 68 0.50
37 18 0.13
38 45 0.33
39 4 0.03
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.45
Consensus pattern (36 bp):
TATATATATTTTCAAAATGTTTTAAAAACTATATAA
Found at i:6069409 original size:74 final size:70
Alignment explanation
Indices: 6069331--6069521 Score: 213
Period size: 74 Copynumber: 2.6 Consensus size: 70
6069321 TTTTAAAAAC
* *
6069331 TATATAATTTTCAAAAATGTTTTAAAGTTTATATAATATATATATATTCAAAATATTTTTCAAAA
1 TATATAATTTTCAAAAATGTTTTAAA--CTATATAATATATATATATTCAAAAT-GTTTT-AAAA
6069396 ACTATATAT
62 ACTATATAT
* * * *
6069405 TATATTTATTTTCAAAAACGTTTTTAAACTATATAATATATAAATGTTTTCAAAATGTTTTAAAA
1 TATA-TAATTTTCAAAAATG-TTTTAAACTATATAATATAT--ATATATTCAAAATGTTTTAAAA
6069470 ACTATATAT
62 ACTATATAT
*
6069479 TATATATATATTC-AAAATGTTTTAAAAACTATATAATATATAT
1 TATATA-ATTTTCAAAAATGTTTT--AAACTATATAATATATAT
6069522 GTTTTAAAAA
Statistics
Matches: 101, Mismatches: 9, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
72 6 0.06
73 6 0.06
74 54 0.53
75 17 0.17
76 18 0.18
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (70 bp):
TATATAATTTTCAAAAATGTTTTAAACTATATAATATATATATATTCAAAATGTTTTAAAAACTA
TATAT
Found at i:6069511 original size:25 final size:25
Alignment explanation
Indices: 6069483--6069557 Score: 80
Period size: 25 Copynumber: 2.9 Consensus size: 25
6069473 ATATATTATA
6069483 TATATATTCA-AAATGTTTTAAAAAC
1 TATATATT-ATAAATGTTTTAAAAAC
* *
6069508 TATATAATATATATGTTTTAAAAAC
1 TATATATTATAAATGTTTTAAAAAC
* *
6069533 TATATATCATATATATTTTTTAAAA
1 TATATAT--TATAAATGTTTTAAAA
6069558 TATTTTTCAC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.02
25 27 0.63
27 15 0.35
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (25 bp):
TATATATTATAAATGTTTTAAAAAC
Found at i:6069538 original size:27 final size:25
Alignment explanation
Indices: 6069495--6069557 Score: 99
Period size: 25 Copynumber: 2.4 Consensus size: 25
6069485 TATATTCAAA
6069495 ATGTTTTAAAAACTATATAATATAT
1 ATGTTTTAAAAACTATATAATATAT
6069520 ATGTTTTAAAAACTATATATCATATAT
1 ATGTTTTAAAAACTATATA--ATATAT
*
6069547 ATTTTTTAAAA
1 ATGTTTTAAAA
6069558 TATTTTTCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
25 19 0.54
27 16 0.46
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (25 bp):
ATGTTTTAAAAACTATATAATATAT
Found at i:6074051 original size:31 final size:31
Alignment explanation
Indices: 6073986--6074138 Score: 93
Period size: 31 Copynumber: 5.1 Consensus size: 31
6073976 TTGAATACGT
* * *
6073986 TTTGG-CCTCTAACTTTGGTTTTCAAATGCGA
1 TTTGGTCC-CTAACTTTGGTTTTGATATGCAA
*
6074017 TTTGGTCCCTAACTTTGGTTTTGATATGTAA
1 TTTGGTCCCTAACTTTGGTTTTGATATGCAA
** * *
6074048 TTTGGTCATTGACTTTTGTTTTG--ATGCAA
1 TTTGGTCCCTAACTTTGGTTTTGATATGCAA
* * * *
6074077 TTTGGGCTCTAAATTTGAG-TTAGATA--CAA
1 TTTGGTCCCTAACTTTG-GTTTTGATATGCAA
* * ***
6074106 TTTGGCCCCTCACTTTAACTTTGATATGCAA
1 TTTGGTCCCTAACTTTGGTTTTGATATGCAA
6074137 TT
1 TT
6074139 GGGCCCTTGA
Statistics
Matches: 92, Mismatches: 23, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
29 40 0.43
30 1 0.01
31 49 0.53
32 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (31 bp):
TTTGGTCCCTAACTTTGGTTTTGATATGCAA
Found at i:6074144 original size:31 final size:31
Alignment explanation
Indices: 6074103--6074169 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
6074093 GAGTTAGATA
*
6074103 CAATTTGGCCCCTCACTTTAACTTTGATATG
1 CAATTGGGCCCCTCACTTTAACTTTGATATG
* * * *
6074134 CAATTGGGCCCTTGATTTTAGCTTTGATATG
1 CAATTGGGCCCCTCACTTTAACTTTGATATG
*
6074165 TAATT
1 CAATT
6074170 TTACCTAACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.42
Consensus pattern (31 bp):
CAATTGGGCCCCTCACTTTAACTTTGATATG
Found at i:6074771 original size:19 final size:19
Alignment explanation
Indices: 6074747--6074792 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
6074737 AAATTTGATT
*
6074747 TTTATATTAATTCCAATTC
1 TTTATATTAATTACAATTC
* *
6074766 TTTATATTATTTATAATTC
1 TTTATATTAATTACAATTC
6074785 -TTATATTA
1 TTTATATTA
6074793 TAAATTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTATATTAATTACAATTC
Found at i:6074806 original size:13 final size:14
Alignment explanation
Indices: 6074772--6074808 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
6074762 ATTCTTTATA
6074772 TTATTTAT-AATTC
1 TTATTTATAAATTC
6074785 TTATATTATAAATT-
1 TTAT-TTATAAATTC
6074799 TTATTTATAA
1 TTATTTATAA
6074809 TCATTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTTATAAATTC
Found at i:6077849 original size:6 final size:6
Alignment explanation
Indices: 6077838--6078006 Score: 88
Period size: 6 Copynumber: 28.3 Consensus size: 6
6077828 ATAGTTTGGA
* * *** * * *
6077838 TTCGGG TTCGGG TTCGGG TTCAGA TTCAAA TTTGGG TTTGGA TT-GGG
1 TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG
* * * ** * * * *
6077885 TTTGGG TTTGGA TTCGGG TTTAGG TTCGTG TTTGGG TTCAGG TTTGGG
1 TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG
* * ** *
6077933 TTCGGG TTTGGT TTCACG TTCGGG TTCGTG TTCGGG TTCGGG TTCGGG
1 TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG TTCGGG
* * * * *
6077981 TTTGGT TTCAGG TTTGGG TTTGGG TT
1 TTCGGG TTCGGG TTCGGG TTCGGG TT
6078007 TTGATTAGGG
Statistics
Matches: 121, Mismatches: 41, Indels: 2
0.74 0.25 0.01
Matches are distributed among these distances:
5 4 0.03
6 117 0.97
ACGTcount: A:0.07, C:0.10, G:0.40, T:0.43
Consensus pattern (6 bp):
TTCGGG
Found at i:6077855 original size:12 final size:12
Alignment explanation
Indices: 6077831--6078030 Score: 114
Period size: 12 Copynumber: 16.2 Consensus size: 12
6077821 GTTTTGAATA
*
6077831 GTTTGGATTCGG
1 GTTTGGGTTCGG
*
6077843 GTTCGGGTTCGG
1 GTTTGGGTTCGG
** * **
6077855 GTTCAGATTCAA
1 GTTTGGGTTCGG
* *
6077867 ATTTGGGTT-TG
1 GTTTGGGTTCGG
* *
6077878 GATTGGGTTTGG
1 GTTTGGGTTCGG
*
6077890 GTTTGGATTCGG
1 GTTTGGGTTCGG
* *
6077902 GTTTAGGTTCGT
1 GTTTGGGTTCGG
*
6077914 GTTTGGGTTCAG
1 GTTTGGGTTCGG
6077926 GTTTGGGTTCGG
1 GTTTGGGTTCGG
6077938 GTTTGGTTTCACGTTCGG
1 GTTTGG------GTTCGG
* *
6077956 GTTCGTGTTCGG
1 GTTTGGGTTCGG
*
6077968 GTTCGGGTTCGG
1 GTTTGGGTTCGG
* *
6077980 GTTTGGTTTCAG
1 GTTTGGGTTCGG
*
6077992 GTTTGGGTTTGG
1 GTTTGGGTTCGG
* * *
6078004 GTTTTGATTAGG
1 GTTTGGGTTCGG
*
6078016 GTTTGGGTTTGG
1 GTTTGGGTTCGG
6078028 GTT
1 GTT
6078031 AGGAGATAGA
Statistics
Matches: 141, Mismatches: 40, Indels: 14
0.72 0.21 0.07
Matches are distributed among these distances:
11 7 0.05
12 124 0.88
18 10 0.07
ACGTcount: A:0.07, C:0.09, G:0.41, T:0.44
Consensus pattern (12 bp):
GTTTGGGTTCGG
Found at i:6078009 original size:7 final size:6
Alignment explanation
Indices: 6077868--6078030 Score: 98
Period size: 6 Copynumber: 27.3 Consensus size: 6
6077858 CAGATTCAAA
* * * * * *
6077868 TTTGGG TTT-GG ATTGGG TTTGGG TTTGGA TTCGGG TTTAGG TTCGTG
1 TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG
** * ** * * *
6077915 TTTGGG TTCAGG TTTGGG TTCGGG TTT-GG TTTCACG TTCGGG TTCGTG
1 TTTGGG TTTGGG TTTGGG TTTGGG TTTGGG TTT-GGG TTTGGG TTTGGG
* * * * * *
6077963 TTCGGG TTCGGG TTCGGG TTT-GG TTTCAGG TTTGGG TTTGGG TTTTGA
1 TTTGGG TTTGGG TTTGGG TTTGGG TTT-GGG TTTGGG TTTGGG TTTGGG
*
6078011 TTAGGG TTTGGG TTTGGG TT
1 TTTGGG TTTGGG TTTGGG TT
6078031 AGGAGATAGA
Statistics
Matches: 120, Mismatches: 32, Indels: 10
0.74 0.20 0.06
Matches are distributed among these distances:
5 14 0.12
6 98 0.82
7 8 0.07
ACGTcount: A:0.05, C:0.07, G:0.42, T:0.46
Consensus pattern (6 bp):
TTTGGG
Found at i:6078534 original size:104 final size:103
Alignment explanation
Indices: 6078227--6078536 Score: 352
Period size: 104 Copynumber: 3.0 Consensus size: 103
6078217 AAGAACATAA
* * *
6078227 ATGAACACGGATGAACAATAGATGAACTTTTGGGTGTTTGATCGAAAAAAATAAGAATGGGTTTA
1 ATGAACACGGATGAACAATGGATGAAATTTTGGGTGTTTGATCGAAAAAAACAAGAAT-GGTTTA
** * * *
6078292 GGTTTTTATGTTTCTGAAGATCAAATAATGG-TTTGGGG
65 GGTTTTGGTGTTTCTGAAGATCAAATGAGGGTTTTTGGG
* ** ** * *
6078330 AAGAACTGGGATGAACACGGGATGAAGTTTTGGGTGTTTGATCGAAAAAAAACACGAAATGGTTT
1 ATGAACACGGATGAACAATGGATGAAATTTTGGGTGTTTGATCG-AAAAAAACAAG-AATGGTTT
* *
6078395 TGGTTTTGGTGTTTTTGAAGATCAAATGAGGGTTTTTGGG
64 AGGTTTTGGTGTTTCTGAAGATCAAATGAGGGTTTTTGGG
* * * * * * *
6078435 ATGAACACGGATGAACAATGGTTGAAAATATGGGTGTTTGATTGAAAAAACCATGATATGGTTTG
1 ATGAACACGGATGAACAATGGATGAAATTTTGGGTGTTTGATCGAAAAAAACAAGA-ATGGTTTA
*
6078500 GGTTTTGGTGTTTGTGAAGATCAAATGAGGGTTTTTG
65 GGTTTTGGTGTTTCTGAAGATCAAATGAGGGTTTTTG
6078537 AATTTATATA
Statistics
Matches: 173, Mismatches: 30, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
103 38 0.22
104 92 0.53
105 43 0.25
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.33
Consensus pattern (103 bp):
ATGAACACGGATGAACAATGGATGAAATTTTGGGTGTTTGATCGAAAAAAACAAGAATGGTTTAG
GTTTTGGTGTTTCTGAAGATCAAATGAGGGTTTTTGGG
Found at i:6078564 original size:15 final size:14
Alignment explanation
Indices: 6078540--6078574 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
6078530 GTTTTTGAAT
6078540 TTATATAGTATAAA
1 TTATATAGTATAAA
6078554 TTATATAAGTATAAA
1 TTATAT-AGTATAAA
6078569 TTATAT
1 TTATAT
6078575 TATATAGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (14 bp):
TTATATAGTATAAA
Found at i:6078585 original size:27 final size:27
Alignment explanation
Indices: 6078543--6078659 Score: 121
Period size: 27 Copynumber: 4.4 Consensus size: 27
6078533 TTTGAATTTA
* * * *
6078543 TATAGTATAAATTATATAAGTATAAAT
1 TATAGTATATAGTATATAAATATAAAC
* *
6078570 TATATTATATAGTATATAAATATCAAC
1 TATAGTATATAGTATATAAATATAAAC
* *
6078597 TATAGTATATACTATATAAATATCAAC
1 TATAGTATATAGTATATAAATATAAAC
* *
6078624 TATAGTATATAGT-T-TATATATAAAA
1 TATAGTATATAGTATATAAATATAAAC
*
6078649 TATAGTTTATA
1 TATAGTATATA
6078660 TAGTTTTTAT
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
25 18 0.23
26 1 0.01
27 58 0.75
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (27 bp):
TATAGTATATAGTATATAAATATAAAC
Found at i:6078675 original size:47 final size:48
Alignment explanation
Indices: 6078624--6078735 Score: 124
Period size: 47 Copynumber: 2.4 Consensus size: 48
6078614 AAATATCAAC
* * *
6078624 TATAGTATATAGTTTATA-TATAAAATATAGTTTATATAGTTTTTATA
1 TATAGTATATAGTATATATTATAAAATATAGTATATATAGTGTTTATA
**
6078671 TATAGT-TCATATGTA-A-ATTATACTATATAGTATATATAGTGTTTATA
1 TATAGTAT-ATA-GTATATATTATAAAATATAGTATATATAGTGTTTATA
*
6078718 TATAATATATAGTATATA
1 TATAGTATATAGTATATA
6078736 AATATCAACT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
46 5 0.09
47 44 0.83
48 4 0.08
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (48 bp):
TATAGTATATAGTATATATTATAAAATATAGTATATATAGTGTTTATA
Found at i:6078740 original size:20 final size:20
Alignment explanation
Indices: 6078702--6078806 Score: 68
Period size: 20 Copynumber: 4.9 Consensus size: 20
6078692 ACTATATAGT
* * *
6078702 ATATATAGTGTTTATATATA
1 ATATATAGTATATAAATATA
6078722 ATATATAGTATATAAATATCAA
1 ATATATAGTATATAAATAT--A
6078744 CTATAGTATGTAGTATATAAATATA
1 --ATA-TA--TAGTATATAAATATA
* *
6078769 A-ACTATAGTTTATATATATA
1 ATA-TATAGTATATAAATATA
* *
6078789 GTATATACTATATAAATA
1 ATATATAGTATATAAATA
6078807 GTTTATATAG
Statistics
Matches: 67, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
20 41 0.61
21 1 0.01
22 4 0.06
23 1 0.01
24 3 0.04
25 3 0.04
27 14 0.21
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.42
Consensus pattern (20 bp):
ATATATAGTATATAAATATA
Found at i:6078748 original size:27 final size:27
Alignment explanation
Indices: 6078718--6079094 Score: 130
Period size: 27 Copynumber: 14.5 Consensus size: 27
6078708 AGTGTTTATA
* *
6078718 TATAATATATAGTATATAAATATCAAC
1 TATAGTATATAGTATATAAATATAAAC
*
6078745 TATAGTATGTAGTATATAAATATAAAC
1 TATAGTATATAGTATATAAATATAAAC
* * *
6078772 TATAGTTTATA-TATAT-AGTATATAC
1 TATAGTATATAGTATATAAATATAAAC
* *
6078797 TATA-TAAATAGTTTATATAGTTCACTAATAAAC
1 TATAGTATATAG--TATATA----AAT-ATAAAC
** *
6078830 TATA-TATATA--AT-TCATTTGTAAAC
1 TATAGTATATAGTATAT-AAATATAAAC
* *
6078854 TATAGT-T-CA-TATATAAA-CT--A-
1 TATAGTATATAGTATATAAATATAAAC
*
6078874 TATAGT-T-TA-TATATAAATATCAAC
1 TATAGTATATAGTATATAAATATAAAC
6078898 TATAGTATATAGT-T-T--ATATAAAC
1 TATAGTATATAGTATATAAATATAAAC
* * * **
6078921 TATAGTTTATATAGTTTTTATATAT-AGT
1 TATAG--TATATAGTATATAAATATAAAC
* * *
6078949 TCATATGTA-A-ATTATACTATATAGTATA-
1 T-ATA-GTATATAGTATA-TAAATA-TAAAC
* *
6078977 TATAGTTTATA-TATAT-AATATATAC
1 TATAGTATATAGTATATAAATATAAAC
* *
6079002 TATATACTATATACTATATAAATATAAAC
1 --TATAGTATATAGTATATAAATATAAAC
*
6079031 TATAGTATGTAGTATATAAATATAAAC
1 TATAGTATATAGTATATAAATATAAAC
* *
6079058 TATAGTTTATA-TATAT-AATATATAC
1 TATAGTATATAGTATATAAATATAAAC
*
6079083 TATA-TAAATAGT
1 TATAGTATATAGT
6079095 TGATATAGTT
Statistics
Matches: 269, Mismatches: 42, Indels: 80
0.69 0.11 0.20
Matches are distributed among these distances:
20 16 0.06
21 2 0.01
23 15 0.06
24 31 0.12
25 40 0.15
26 20 0.07
27 97 0.36
28 13 0.05
29 18 0.07
30 1 0.00
32 2 0.01
33 14 0.05
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (27 bp):
TATAGTATATAGTATATAAATATAAAC
Found at i:6078862 original size:18 final size:18
Alignment explanation
Indices: 6078836--6078890 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
6078826 AAACTATATA
* *
6078836 TATAATTCATTTGTAAAC
1 TATAATTCATATATAAAC
*
6078854 TATAGTTCATATATAAAC
1 TATAATTCATATATAAAC
*
6078872 TATATAGTTTATATATAAA
1 TATA-A-TTCATATATAAA
6078891 TATCAACTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 19 0.63
20 11 0.37
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (18 bp):
TATAATTCATATATAAAC
Found at i:6078909 original size:51 final size:48
Alignment explanation
Indices: 6078730--6079101 Score: 151
Period size: 51 Copynumber: 7.7 Consensus size: 48
6078720 TAATATATAG
*
6078730 TATATA-AATATCAACTATAGTATGTAGTATATAAATATAAACTATAGTTTA
1 TATATATAATATCAACTATA-TATATAGT-TAT--ATATAAACTATAGTTTA
* * ** ***
6078781 TATATATAGTAT-ATACTATATAAATAGTTTATATAGTTCACTAATAAACTA
1 TATATATAATATCA-ACTATATATATAG-TTATATA-TAAACT-ATAGTTTA
** * *
6078832 TATATATAAT-TCATTTGTAAACTATAGTTCATATATAAACTATATAGTTTA
1 TATATATAATATCAACTATATA-TATAGTT-ATATATAAAC--TATAGTTTA
6078883 TATATA-AATATCAACTATAGTATATAGTT-TATATAAACTATAGTTTA
1 TATATATAATATCAACTATA-TATATAGTTATATATAAACTATAGTTTA
* * * *
6078930 TATA-GT--T-T----T-TATATATAGTTCATATGTAAATTATA--CTA
1 TATATATAATATCAACTATATATATAGTT-ATATATAAACTATAGTTTA
** * *
6078968 TATAGTAT-ATAT-AGTTTATATATATAATATATACTATATACTATA---TA
1 TATA-TATAATATCA-ACTATATATATAGT-TATA-TATAAACTATAGTTTA
* *
6079015 CTATATA-AATATAAACTATAGTATGTAGTATATAAATATAAACTATAGTTTA
1 -TATATATAATATCAACTATA-TATATAGT-TAT--ATATAAACTATAGTTTA
*
6079067 TATATATAATAT-ATACTATATAAATAGTTGATATA
1 TATATATAATATCA-ACTATATATATAGTT-ATATA
6079102 GTTCACTAAT
Statistics
Matches: 244, Mismatches: 39, Indels: 78
0.68 0.11 0.22
Matches are distributed among these distances:
38 15 0.06
39 2 0.01
40 13 0.05
41 1 0.00
42 1 0.00
44 1 0.00
45 1 0.00
46 1 0.00
47 37 0.15
48 24 0.10
49 25 0.10
50 19 0.08
51 78 0.32
52 26 0.11
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (48 bp):
TATATATAATATCAACTATATATATAGTTATATATAAACTATAGTTTA
Found at i:6078976 original size:7 final size:6
Alignment explanation
Indices: 6078961--6079088 Score: 71
Period size: 7 Copynumber: 19.7 Consensus size: 6
6078951 ATATGTAAAT
*
6078961 TATACTA TATAGTA TATATA GTTTATA TATATA -ATATA TACTATA TACTATA
1 TATA-TA TATA-TA TATATA -TATATA TATATA TATATA TA-TATA TA-TATA
* * * * * *
6079013 TACTATA TAAATA TAAACTA TAGTATG TAGTATA TAAATA TAAACTA TAGTTTA
1 TA-TATA TATATA TATA-TA TA-TATA TA-TATA TATATA TATA-TA TA-TATA
6079067 TATATA TA-ATA TATACTA TATA
1 TATATA TATATA TATA-TA TATA
6079089 AATAGTTGAT
Statistics
Matches: 101, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
5 10 0.10
6 28 0.28
7 62 0.61
8 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (6 bp):
TATATA
Found at i:6078978 original size:2 final size:2
Alignment explanation
Indices: 6078961--6079088 Score: 71
Period size: 2 Copynumber: 59.0 Consensus size: 2
6078951 ATATGTAAAT
*
6078961 TA TA CTA TA TA GTA TA TA TA GTT TA TA TA TA TA -A TA TA TA CTA
1 TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
* * *
6079004 TA TA CTA TA TA CTA TA TA AA TA TA AA CTA TA GTA TG TA GTA TA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA -TA TA -TA TA TA -TA TA TA
* * *
6079049 AA TA TA AA CTA TA GTT TA TA TA TA TA -A TA TA TA CTA TA TA
1 TA TA TA TA -TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA
6079089 AATAGTTGAT
Statistics
Matches: 98, Mismatches: 14, Indels: 28
0.70 0.10 0.20
Matches are distributed among these distances:
1 2 0.02
2 76 0.78
3 20 0.20
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (2 bp):
TA
Found at i:6078980 original size:9 final size:8
Alignment explanation
Indices: 6078961--6079088 Score: 71
Period size: 9 Copynumber: 14.8 Consensus size: 8
6078951 ATATGTAAAT
6078961 TATACTATA
1 TATA-TATA
6078970 TAGTATATA
1 TA-TATATA
*
6078979 TAGTTTATA
1 TA-TATATA
6078988 TATATA-A
1 TATATATA
6078995 TATATACTA
1 TATATA-TA
6079004 TATACTATA
1 TATA-TATA
6079013 TACTATATA
1 TA-TATATA
* *
6079022 AATATAAA
1 TATATATA
*
6079030 CTATAGTATG
1 -TATA-TATA
6079040 TAGTATATA
1 TA-TATATA
* *
6079049 AATATAAA
1 TATATATA
*
6079057 CTATAGTTTA
1 -TATA-TATA
6079067 TATATATA
1 TATATATA
6079075 -ATATATA
1 TATATATA
6079082 CTATATA
1 -TATATA
6079089 AATAGTTGAT
Statistics
Matches: 93, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
7 14 0.15
8 16 0.17
9 51 0.55
10 12 0.13
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (8 bp):
TATATATA
Found at i:6079124 original size:24 final size:24
Alignment explanation
Indices: 6079097--6079150 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
6079087 TAAATAGTTG
6079097 ATATAGTTCACTA-ATAAACTATAT
1 ATATAGTTCA-TACATAAACTATAT
*
6079121 ATATAGTTCATACGTAAACTATAT
1 ATATAGTTCATACATAAACTATAT
6079145 AGTATA
1 A-TATA
6079151 TATAGTTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 2 0.07
24 21 0.78
25 4 0.15
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.37
Consensus pattern (24 bp):
ATATAGTTCATACATAAACTATAT
Found at i:6079266 original size:286 final size:284
Alignment explanation
Indices: 6078716--6079286 Score: 687
Period size: 286 Copynumber: 2.0 Consensus size: 284
6078706 ATAGTGTTTA
* *
6078716 TATATAATATATAGTATATAAATATCAACTATAGTATGTAGTATATAAATATAAACTATAGTTTA
1 TATATAATATATACTATATAAATATAAACTATAGTATGTAGTATATAAATATAAACTATAGTTTA
* *
6078781 TATATATAGTATATACTATATAAATAGTTTATATAGTTCACTAATAAACTATATATATAATTCAT
66 TATATATAATATATACTATATAAATAGTTGATATAGTTCACTAATAAACTATATATATAATTCAT
** *
6078846 TTGTAAACTATAGTTCATATATAAACTATATAGTTTATATATAAATATCAACTATAGTATATAGT
131 ACGTAAACTATAGTTCATATATAAACTATATAGTTAATATATAAATATCAACTATAGTATATAGT
*** * * * * **
6078911 TTATATAAACTATAGTTTATATAGTTTTTATATATAGTTCATATGTAAATTATACTATATAGTAT
196 TTATATAAACTATAAACTATATAG-TTTTATATATAATTCACA-GTAAATTATACCATAAACCAT
* *
6078976 ATATAGTTTATATATATAA-TATATAC
259 ATATACTATATATATA-AACTATATAC
*
6079002 TATATACTATATACTATATAAATATAAACTATAGTATGTAGTATATAAATATAAACTATAGTTTA
1 TATATAATATATACTATATAAATATAAACTATAGTATGTAGTATATAAATATAAACTATAGTTTA
*
6079067 TATATATAATATATACTATATAAATAGTTGATATAGTTCACTAATAAACTATATATATAGTTCAT
66 TATATATAATATATACTATATAAATAGTTGATATAGTTCACTAATAAACTATATATATAATTCAT
** * * *
6079132 ACGTAAACTATATAGTAT-ATATAGTTTAC-ATATAGTATAAGT-TAGTATATAT-TA-TTTA-T
131 ACGTAAAC--TATAGT-TCATATA-TAAACTATATAGT-TAA-TATA-TAAATATCAACTATAGT
*
6079191 ATATAGTTTGAATACTACTATCTATAAACTATATAG-TTTATATATAATTC-CA-TAAATTA-AC
189 ATATAGTTT--ATA-TA--AACTATAAACTATATAGTTTTATATATAATTCACAGTAAATTATAC
*
6079252 CCTAAACCATATATACTATATATATAAACTATATA
249 CATAAACCATATATACTATATATATAAACTATATA
6079287 GTGTTGAGTT
Statistics
Matches: 245, Mismatches: 27, Indels: 26
0.82 0.09 0.09
Matches are distributed among these distances:
285 2 0.01
286 157 0.64
287 17 0.07
288 21 0.09
289 13 0.05
290 22 0.09
292 13 0.05
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.42
Consensus pattern (284 bp):
TATATAATATATACTATATAAATATAAACTATAGTATGTAGTATATAAATATAAACTATAGTTTA
TATATATAATATATACTATATAAATAGTTGATATAGTTCACTAATAAACTATATATATAATTCAT
ACGTAAACTATAGTTCATATATAAACTATATAGTTAATATATAAATATCAACTATAGTATATAGT
TTATATAAACTATAAACTATATAGTTTTATATATAATTCACAGTAAATTATACCATAAACCATAT
ATACTATATATATAAACTATATAC
Found at i:6080015 original size:19 final size:19
Alignment explanation
Indices: 6079991--6080042 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
6079981 TTGGACCCTT
6079991 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
6080010 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
*
6080029 AGTGCATCGATGCA
1 AGTGCATCGGTGCA
6080043 TGAAATGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (19 bp):
AGTGCATCGGTGCACTAAG
Found at i:6082373 original size:13 final size:13
Alignment explanation
Indices: 6082355--6082399 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
6082345 TTGAAAACTA
6082355 TTTGAAAATAATT
1 TTTGAAAATAATT
6082368 TTTGAAAACT-A--
1 TTTGAAAA-TAATT
6082379 TTTGAAAATAATT
1 TTTGAAAATAATT
6082392 TTTGAAAA
1 TTTGAAAA
6082400 ATCATAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 1 0.04
11 9 0.32
13 17 0.61
14 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (13 bp):
TTTGAAAATAATT
Found at i:6082374 original size:24 final size:24
Alignment explanation
Indices: 6082343--6082399 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
6082333 ATGGGCAAGG
6082343 TTTTGAAAACTATTTGAAAATAAT
1 TTTTGAAAACTATTTGAAAATAAT
6082367 TTTTGAAAACTATTTGAAAATAAT
1 TTTTGAAAACTATTTGAAAATAAT
6082391 TTTTGAAAA
1 TTTTGAAAA
6082400 ATCATAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.42
Consensus pattern (24 bp):
TTTTGAAAACTATTTGAAAATAAT
Found at i:6082392 original size:11 final size:11
Alignment explanation
Indices: 6082344--6082386 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
6082334 TGGGCAAGGT
6082344 TTTGAAAACTA
1 TTTGAAAACTA
6082355 TTTGAAAA-TAA
1 TTTGAAAACT-A
6082366 TTTTTGAAAACTA
1 --TTTGAAAACTA
6082379 TTTGAAAA
1 TTTGAAAA
6082387 TAATTTTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 1 0.04
11 17 0.61
13 9 0.32
14 1 0.04
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (11 bp):
TTTGAAAACTA
Found at i:6082989 original size:20 final size:20
Alignment explanation
Indices: 6082964--6083012 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
6082954 AAAGGGATGC
*
6082964 ATCGATGCACTGTTAAGTGT
1 ATCGATGCACTATTAAGTGT
6082984 ATCGATGCACTATTAAGTGT
1 ATCGATGCACTATTAAGTGT
*
6083004 ATCAATGCA
1 ATCGATGCA
6083013 TGAAGCACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (20 bp):
ATCGATGCACTATTAAGTGT
Found at i:6088669 original size:19 final size:19
Alignment explanation
Indices: 6088625--6088676 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
6088615 TTGGACCCTT
* *
6088625 AGTGCACCGGTTCACTAAG
1 AGTGCATCGGTGCACTAAG
6088644 AGTGCATCGGTGCACTAAG
1 AGTGCATCGGTGCACTAAG
*
6088663 AGTGCATCGATGCA
1 AGTGCATCGGTGCA
6088677 TCAAATGCAT
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:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (19 bp):
AGTGCATCGGTGCACTAAG
Found at i:6089067 original size:11 final size:11
Alignment explanation
Indices: 6089053--6089124 Score: 55
Period size: 11 Copynumber: 6.8 Consensus size: 11
6089043 AATGTTTTCA
*
6089053 ATATATAGTTT
1 ATATATAATTT
**
6089064 ATAT-TAATAA
1 ATATATAATTT
*
6089074 ACTATATAATTC
1 A-TATATAATTT
6089086 ATATATAATTT
1 ATATATAATTT
6089097 ATATATAA---
1 ATATATAATTT
6089105 ACTATATAATTT
1 A-TATATAATTT
6089117 ATAT-TAAT
1 ATATATAAT
6089125 AAACTATGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
8 1 0.02
9 7 0.14
10 8 0.16
11 27 0.55
12 6 0.12
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (11 bp):
ATATATAATTT
Found at i:6089105 original size:31 final size:33
Alignment explanation
Indices: 6089053--6089124 Score: 105
Period size: 31 Copynumber: 2.3 Consensus size: 33
6089043 AATGTTTTCA
*
6089053 ATATATAGTTTATATTAATAAACTATATAATTC
1 ATATATAATTTATATTAATAAACTATATAATTC
*
6089086 ATATATAATTTATA-T-ATAAACTATATAATTT
1 ATATATAATTTATATTAATAAACTATATAATTC
6089117 ATAT-TAAT
1 ATATATAAT
6089125 AAACTATGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 4 0.11
31 19 0.51
32 1 0.03
33 13 0.35
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (33 bp):
ATATATAATTTATATTAATAAACTATATAATTC
Found at i:6089126 original size:22 final size:21
Alignment explanation
Indices: 6089087--6089142 Score: 78
Period size: 22 Copynumber: 2.7 Consensus size: 21
6089077 ATATAATTCA
6089087 TATATAATTTATA-TATAAAC
1 TATATAATTTATATTATAAAC
6089107 TATATAATTTATATTAATAAAC
1 TATATAATTTATATT-ATAAAC
* *
6089129 TATGTAGTTTATAT
1 TATATAATTTATAT
6089143 ATAGTTCAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 13 0.41
21 1 0.03
22 18 0.56
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (21 bp):
TATATAATTTATATTATAAAC
Found at i:6089201 original size:2 final size:2
Alignment explanation
Indices: 6089194--6089236 Score: 52
Period size: 2 Copynumber: 21.5 Consensus size: 2
6089184 TTATACATGG
* *
6089194 TA TA TA TA GTT TA TA CA TA -A TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6089236 T
1 T
6089237 TATTGTTGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
1 1 0.03
2 33 0.94
3 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6089203 original size:20 final size:20
Alignment explanation
Indices: 6089178--6089221 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
6089168 TATATATTAT
**
6089178 TATAGTTTATACATGGTATA
1 TATAGTTTATACATAATATA
6089198 TATAGTTTATACATAATATA
1 TATAGTTTATACATAATATA
6089218 TATA
1 TATA
6089222 TATATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (20 bp):
TATAGTTTATACATAATATA
Found at i:6090931 original size:18 final size:18
Alignment explanation
Indices: 6090905--6090939 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6090895 ATAAATATAT
6090905 AATTAAATTAAAAAGTTG
1 AATTAAATTAAAAAGTTG
* *
6090923 AATTGAATTTAAAAGTT
1 AATTAAATTAAAAAGTT
6090940 AAAGTGACTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.37
Consensus pattern (18 bp):
AATTAAATTAAAAAGTTG
Found at i:6101937 original size:20 final size:20
Alignment explanation
Indices: 6101909--6101946 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6101899 ATCCTATTTC
6101909 CTGGCAATCTTACATTCCCA
1 CTGGCAATCTTACATTCCCA
*
6101929 CTGGTAATCTTACATTCC
1 CTGGCAATCTTACATTCC
6101947 GTGAACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.32, G:0.11, T:0.34
Consensus pattern (20 bp):
CTGGCAATCTTACATTCCCA
Found at i:6105295 original size:22 final size:22
Alignment explanation
Indices: 6105280--6105323 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
6105270 CATTTATATT
6105280 CATTCACATATACATTAACATA
1 CATTCACATATACATTAACATA
*
6105302 CATTCATATATATCATGTAACA
1 CATTCACATATA-CAT-TAACA
6105324 GATGCAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 3 0.16
24 5 0.26
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.34
Consensus pattern (22 bp):
CATTCACATATACATTAACATA
Found at i:6105532 original size:23 final size:23
Alignment explanation
Indices: 6105514--6105574 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
6105504 CTCGTATAAA
*
6105514 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
6105537 TGCACCGTAGTGCCACGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAT
6105560 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
6105575 TACAAGATTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACGTAGAAT
Found at i:6107253 original size:19 final size:19
Alignment explanation
Indices: 6107229--6107298 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
6107219 TTTTAGGGGG
6107229 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
* **
6107248 TGCATCGATGAACT-AAT-
1 TGCATCGATGCACTCCTTA
6107265 TGCATTCGATGCACTCCTTA
1 TGCA-TCGATGCACTCCTTA
6107285 TGCATCGATGCACT
1 TGCATCGATGCACT
6107299 AATTGCATTC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
17 4 0.10
18 10 0.24
19 24 0.57
20 4 0.10
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (19 bp):
TGCATCGATGCACTCCTTA
Found at i:6107275 original size:18 final size:17
Alignment explanation
Indices: 6107229--6107312 Score: 69
Period size: 19 Copynumber: 4.6 Consensus size: 17
6107219 TTTTAGGGGG
**
6107229 TGCATCGATGCACTCCTT
1 TGCATCGATGCACT-AAT
*
6107247 ATGCATCGATGAACTAAT
1 -TGCATCGATGCACTAAT
**
6107265 TGCATTCGATGCACTCCTT
1 TGCA-TCGATGCACT-AAT
6107284 ATGCATCGATGCACTAAT
1 -TGCATCGATGCACTAAT
6107302 TGCATTCGATG
1 TGCA-TCGATG
6107313 TTCATTTATT
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
17 8 0.15
18 17 0.32
19 24 0.45
20 4 0.08
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (17 bp):
TGCATCGATGCACTAAT
Found at i:6107278 original size:37 final size:37
Alignment explanation
Indices: 6107229--6107312 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
6107219 TTTTAGGGGG
6107229 TGCA-TCGATGCACTCCTTATGCATCGATGAACTAAT
1 TGCATTCGATGCACTCCTTATGCATCGATGAACTAAT
*
6107265 TGCATTCGATGCACTCCTTATGCATCGATGCACTAAT
1 TGCATTCGATGCACTCCTTATGCATCGATGAACTAAT
6107302 TGCATTCGATG
1 TGCATTCGATG
6107313 TTCATTTATT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
36 4 0.09
37 42 0.91
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (37 bp):
TGCATTCGATGCACTCCTTATGCATCGATGAACTAAT
Found at i:6117787 original size:46 final size:47
Alignment explanation
Indices: 6117698--6117794 Score: 142
Period size: 46 Copynumber: 2.0 Consensus size: 47
6117688 AAATGCTATG
*
6117698 GTAATATGACAAGTATAGAAGAATATGAAATGTTGTGGAAAACAATAGA
1 GTAACATGACAAGTAT--AAGAATATGAAATGTTGTGGAAAACAATAGA
* *
6117747 GTAACATGACAAGTAT-AGAATGTGAAATGTTGTGGCAAACAATAGA
1 GTAACATGACAAGTATAAGAATATGAAATGTTGTGGAAAACAATAGA
6117793 GT
1 GT
6117795 GACAAGTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
46 30 0.67
49 15 0.33
ACGTcount: A:0.45, C:0.06, G:0.24, T:0.25
Consensus pattern (47 bp):
GTAACATGACAAGTATAAGAATATGAAATGTTGTGGAAAACAATAGA
Found at i:6117798 original size:41 final size:42
Alignment explanation
Indices: 6117703--6117809 Score: 110
Period size: 46 Copynumber: 2.4 Consensus size: 42
6117693 CTATGGTAAT
6117703 ATGACAAGTATAGAAGAATATGAAATGTTGTGGAAAACAATAGAG
1 ATGACAAGTAT---AGAATATGAAATGTTGTGGAAAACAATAGAG
* *
6117748 TAACATGACAAGTATAGAATGTGAAATGTTGTGGCAAACAATAGAG
1 ----ATGACAAGTATAGAATATGAAATGTTGTGGAAAACAATAGAG
6117794 -TGACAAGT-TAAGAATA
1 ATGACAAGTAT-AGAATA
6117810 CTATGGTAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
40 1 0.02
41 13 0.24
46 29 0.54
49 11 0.20
ACGTcount: A:0.47, C:0.07, G:0.23, T:0.23
Consensus pattern (42 bp):
ATGACAAGTATAGAATATGAAATGTTGTGGAAAACAATAGAG
Found at i:6124834 original size:10 final size:10
Alignment explanation
Indices: 6124819--6124893 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
6124809 CATTTAATAA
6124819 ATAAACGAAC
1 ATAAACGAAC
6124829 ATAAACGAAC
1 ATAAACGAAC
6124839 ----ACGAAC
1 ATAAACGAAC
6124845 ATAAACGAAC
1 ATAAACGAAC
** *
6124855 ACGAAC-ATAA
1 ATAAACGA-AC
*
6124865 ATGAACACGAAT
1 AT-AA-ACGAAC
6124877 ATAAACGAAC
1 ATAAACGAAC
6124887 ATAAACG
1 ATAAACG
6124894 TTGGAGACCC
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 34 0.68
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.20, G:0.12, T:0.11
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:6124844 original size:16 final size:16
Alignment explanation
Indices: 6124823--6124887 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
6124813 TAATAAATAA
6124823 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
6124839 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
6124855 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
*
6124871 ACGAATATAAACGAAC
1 ACGAACATAAACGAAC
6124887 A
1 A
6124888 TAAACGTTGG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.57, C:0.22, G:0.12, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:6125655 original size:14 final size:14
Alignment explanation
Indices: 6125638--6125707 Score: 94
Period size: 14 Copynumber: 5.3 Consensus size: 14
6125628 GATGAACATA
6125638 AACGAACATTACCG
1 AACGAACATTACCG
6125652 AACGAACATTACCG
1 AACGAACATTACCG
6125666 AACGAACA-TA---
1 AACGAACATTACCG
*
6125676 AACGAACATAACCG
1 AACGAACATTACCG
*
6125690 AACGAACATAACCG
1 AACGAACATTACCG
6125704 AACG
1 AACG
6125708 TTCATGAACA
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
10 8 0.16
11 1 0.02
13 2 0.04
14 40 0.78
ACGTcount: A:0.49, C:0.27, G:0.14, T:0.10
Consensus pattern (14 bp):
AACGAACATTACCG
Found at i:6125673 original size:38 final size:38
Alignment explanation
Indices: 6125631--6125707 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
6125621 ATAAATGGAT
* *
6125631 GAACATAAACGAACATTACCGAACGAACATTACCGAAC
1 GAACATAAACGAACATAACCGAACGAACATAACCGAAC
6125669 GAACATAAACGAACATAACCGAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAACGAACATAACCGAAC
6125707 G
1 G
6125708 TTCATGAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.49, C:0.26, G:0.14, T:0.10
Consensus pattern (38 bp):
GAACATAAACGAACATAACCGAACGAACATAACCGAAC
Found at i:6125679 original size:24 final size:24
Alignment explanation
Indices: 6125652--6125706 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
6125642 AACATTACCG
*
6125652 AACGAACATTACCGAACGAACATA
1 AACGAACATAACCGAACGAACATA
6125676 AACGAACATAACCGAACGAACATA
1 AACGAACATAACCGAACGAACATA
*
6125700 ACCGAAC
1 AACGAAC
6125707 GTTCATGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.51, C:0.27, G:0.13, T:0.09
Consensus pattern (24 bp):
AACGAACATAACCGAACGAACATA
Found at i:6131334 original size:19 final size:18
Alignment explanation
Indices: 6131310--6131376 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 18
6131300 GAATAGCAAG
*
6131310 TTAAAATTAAGCATCAAAA
1 TTAAAATTATG-ATCAAAA
*
6131329 TTAAAATTGATGATCAATA
1 TTAAAATT-ATGATCAAAA
*
6131348 CTAAAATTTATGTATCAAAA
1 TTAAAA-TTATG-ATCAAAA
*
6131368 TTAATATTA
1 TTAAAATTA
6131377 CCATGATTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 25 0.64
20 14 0.36
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.36
Consensus pattern (18 bp):
TTAAAATTATGATCAAAA
Found at i:6132861 original size:38 final size:38
Alignment explanation
Indices: 6132819--6132926 Score: 123
Period size: 38 Copynumber: 2.9 Consensus size: 38
6132809 CTCATATAAA
**
6132819 CTGTGTCCCGGAGGACCTATCATCCAAAAGGATGTCAT
1 CTGTGTCCCAAAGGACCTATCATCCAAAAGGATGTCAT
**
6132857 CTGTGTCCCAAAGGACCTATCATCCCGAAGGATGT-A-
1 CTGTGTCCCAAAGGACCTATCATCCAAAAGGATGTCAT
* * * *
6132893 -TGTGTCCCAAATGACCTATAATCCCAAATGATGT
1 CTGTGTCCCAAAGGACCTATCATCCAAAAGGATGT
6132927 ATGTGTCCCG
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
35 30 0.48
37 1 0.02
38 31 0.50
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (38 bp):
CTGTGTCCCAAAGGACCTATCATCCAAAAGGATGTCAT
Found at i:6132909 original size:35 final size:35
Alignment explanation
Indices: 6132832--6132945 Score: 147
Period size: 35 Copynumber: 3.2 Consensus size: 35
6132822 TGTCCCGGAG
* *
6132832 GACCTATCATCCAAAAGGATGTCATCTGTGTCCCAAAG
1 GACCTATCATCCCAAAGGATGT-A--TGTGTCCCAAAT
*
6132870 GACCTATCATCCCGAAGGATGTATGTGTCCCAAAT
1 GACCTATCATCCCAAAGGATGTATGTGTCCCAAAT
* * *
6132905 GACCTATAATCCCAAATGATGTATGTGTCCCGAAT
1 GACCTATCATCCCAAAGGATGTATGTGTCCCAAAT
6132940 GACCTA
1 GACCTA
6132946 CCATATGTCC
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
35 48 0.70
37 1 0.01
38 20 0.29
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (35 bp):
GACCTATCATCCCAAAGGATGTATGTGTCCCAAAT
Found at i:6132940 original size:18 final size:18
Alignment explanation
Indices: 6132887--6132941 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
6132877 CATCCCGAAG
6132887 GATGTATGTGTCCCAAAT
1 GATGTATGTGTCCCAAAT
** **
6132905 GACCTAT-AATCCCAAAT
1 GATGTATGTGTCCCAAAT
*
6132922 GATGTATGTGTCCCGAAT
1 GATGTATGTGTCCCAAAT
6132940 GA
1 GA
6132942 CCTACCATAT
Statistics
Matches: 27, Mismatches: 9, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (18 bp):
GATGTATGTGTCCCAAAT
Found at i:6133148 original size:33 final size:33
Alignment explanation
Indices: 6133101--6133165 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
6133091 ATCATGTAGC
6133101 TTGTATAACATTCTTGTATGATCTCATAGATCA
1 TTGTATAACATTCTTGTATGATCTCATAGATCA
* *
6133134 TTGTGTAACATTCTTGTATTATCTCATAGATC
1 TTGTATAACATTCTTGTATGATCTCATAGATC
6133166 CCTTTTCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (33 bp):
TTGTATAACATTCTTGTATGATCTCATAGATCA
Found at i:6133226 original size:27 final size:26
Alignment explanation
Indices: 6133182--6133236 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 26
6133172 CATATAACCC
*
6133182 ATATCACATAGGTTCATATCATATCATAT
1 ATATCACATA-GTGCATAT-A-ATCATAT
6133211 ATATCACAT-GTGCATATAATCATAT
1 ATATCACATAGTGCATATAATCATAT
6133236 A
1 A
6133237 GATCGTATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 8 0.32
26 1 0.04
27 7 0.28
29 9 0.36
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.36
Consensus pattern (26 bp):
ATATCACATAGTGCATATAATCATAT
Found at i:6136553 original size:11 final size:11
Alignment explanation
Indices: 6136537--6136581 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
6136527 AGCATCTCTC
6136537 ATTCATTTTTT
1 ATTCATTTTTT
6136548 ATTCATTTTTT
1 ATTCATTTTTT
6136559 ACTTC-TTTTTT
1 A-TTCATTTTTT
*
6136570 TTTCTATTTTTT
1 ATTC-ATTTTTT
6136582 TCTTCTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 3 0.10
11 18 0.60
12 9 0.30
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (11 bp):
ATTCATTTTTT
Found at i:6136568 original size:23 final size:23
Alignment explanation
Indices: 6136542--6136591 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
6136532 CTCTCATTCA
*
6136542 TTTTTTATTC-ATTTTTTACTTC
1 TTTTTTTTTCTATTTTTTACTTC
*
6136564 TTTTTTTTTCTATTTTTTTCTTC
1 TTTTTTTTTCTATTTTTTACTTC
6136587 TTTTT
1 TTTTT
6136592 CTTCTTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 9 0.36
23 16 0.64
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTTTTTCTATTTTTTACTTC
Found at i:6136569 original size:13 final size:12
Alignment explanation
Indices: 6136542--6136606 Score: 62
Period size: 12 Copynumber: 5.4 Consensus size: 12
6136532 CTCTCATTCA
* *
6136542 TTTTTTATTCAT
1 TTTTTTCTTCTT
*
6136554 TTTTTACTTC-T
1 TTTTTTCTTCTT
6136565 TTTTTT-TTCTAT
1 TTTTTTCTTCT-T
6136577 TTTTTTCTTCTT
1 TTTTTTCTTCTT
*
6136589 TTTCTTCTTTCTT
1 TTTTTTC-TTCTT
6136602 TTTTT
1 TTTTT
6136607 AGCTCTTATG
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
10 3 0.07
11 6 0.14
12 22 0.50
13 13 0.30
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTCTTCTT
Found at i:6136603 original size:23 final size:24
Alignment explanation
Indices: 6136553--6136605 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 24
6136543 TTTTTATTCA
*
6136553 TTTTTTACTTCTTTTTTTTTCTAT
1 TTTTTTACTTCTTTTTTCTTCTAT
*
6136577 TTTTTT-CTTC-TTTTTCTTCTTT
1 TTTTTTACTTCTTTTTTCTTCTAT
6136599 CTTTTTT
1 -TTTTTT
6136606 TAGCTCTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 10 0.38
23 10 0.38
24 6 0.23
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTTTACTTCTTTTTTCTTCTAT
Found at i:6139791 original size:17 final size:17
Alignment explanation
Indices: 6139769--6139830 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
6139759 GTCATCTGTG
6139769 TCCCGAAGGACCTATCA
1 TCCCGAAGGACCTATCA
* * *
6139786 TCCCGAAGGATGTCTGT-G
1 TCCCGAAGGA--CCTATCA
6139804 TCCCGAAGGACCTATCA
1 TCCCGAAGGACCTATCA
6139821 TCCCGAAGGA
1 TCCCGAAGGA
6139831 TATCTTTGTC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
16 3 0.08
17 20 0.56
18 10 0.28
19 3 0.08
ACGTcount: A:0.26, C:0.31, G:0.24, T:0.19
Consensus pattern (17 bp):
TCCCGAAGGACCTATCA
Found at i:6139809 original size:35 final size:35
Alignment explanation
Indices: 6139726--6139856 Score: 181
Period size: 35 Copynumber: 3.7 Consensus size: 35
6139716 CTTATATAAA
** *
6139726 CTGTGTCCCGAAGGACCTATCATCCAAAAGAATGTCAT
1 CTGTGTCCCGAAGGACCTATCATCCCGAAGGATG---T
6139764 CTGTGTCCCGAAGGACCTATCATCCCGAAGGATGT
1 CTGTGTCCCGAAGGACCTATCATCCCGAAGGATGT
*
6139799 CTGTGTCCCGAAGGACCTATCATCCCGAAGGATAT
1 CTGTGTCCCGAAGGACCTATCATCCCGAAGGATGT
* *
6139834 CTTTGTCCCGAAAGACCTATCAT
1 CTGTGTCCCGAAGGACCTATCAT
6139857 ATGTCCCAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
35 56 0.64
38 31 0.36
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (35 bp):
CTGTGTCCCGAAGGACCTATCATCCCGAAGGATGT
Found at i:6139844 original size:18 final size:17
Alignment explanation
Indices: 6139786--6139845 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
6139776 GGACCTATCA
*
6139786 TCCCGAAGGATGTCTGTG
1 TCCCGAAGGATATCT-TG
*
6139804 TCCCGAAGGACCTATC--A
1 TCCCGAAGGA--TATCTTG
6139821 TCCCGAAGGATATCTTTG
1 TCCCGAAGGATATC-TTG
6139839 TCCCGAA
1 TCCCGAA
6139846 AGACCTATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
15 4 0.12
17 10 0.29
18 17 0.50
20 3 0.09
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (17 bp):
TCCCGAAGGATATCTTG
Found at i:6140055 original size:33 final size:33
Alignment explanation
Indices: 6140008--6140072 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
6139998 ATCATGTAGC
6140008 TTGTATAACATTCTTGTATGATCTCATAGATCA
1 TTGTATAACATTCTTGTATGATCTCATAGATCA
*
6140041 TTGTGTAACATTCTTGTATGATCTCATAGATC
1 TTGTATAACATTCTTGTATGATCTCATAGATC
6140073 CCTTTTCATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (33 bp):
TTGTATAACATTCTTGTATGATCTCATAGATCA
Found at i:6151081 original size:13 final size:13
Alignment explanation
Indices: 6151056--6151091 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
6151046 ATGAGACCTC
*
6151056 AAACAGATATTTA
1 AAACAGTTATTTA
*
6151069 AAATAGTTATTTA
1 AAACAGTTATTTA
6151082 AAACAGTTAT
1 AAACAGTTAT
6151092 ATTGTACACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (13 bp):
AAACAGTTATTTA
Found at i:6151514 original size:17 final size:17
Alignment explanation
Indices: 6151488--6151520 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6151478 CGAAAAACAT
6151488 AAAATATGACTTTTCAA
1 AAAATATGACTTTTCAA
*
6151505 AAAATTTGACTTTTCA
1 AAAATATGACTTTTCA
6151521 TGTCAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.12, G:0.06, T:0.39
Consensus pattern (17 bp):
AAAATATGACTTTTCAA
Found at i:6155583 original size:59 final size:59
Alignment explanation
Indices: 6155501--6155931 Score: 515
Period size: 59 Copynumber: 7.3 Consensus size: 59
6155491 TAAATTCAAT
* * * * * * * *
6155501 TGGAATTTCATACAAACAATATGACTTCCTTATCATTTTAGCACATAGAGTGCCCTATC
1 TGGAAATTCATACACATAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
* * * * **
6155560 TGGAAAATCATACACTTAGTATGATTTTCTTACTC-TTTTAGTACACAAAGTGCCCTAGA
1 TGGAAATTCATACACATAGTATGATTTCCTTAC-CATTTTAGCACACAAAGTGCCCTATC
* * * * * *
6155619 TTGAAATTCATACACTTAGTATAATTTCCTTACCATTTTAGAACACAAATTGCCCTATA
1 TGGAAATTCATACACATAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
* * *
6155678 TGGATATTCATACACATAGTATGATTTCCTTACCATTTTAGCACACAAATTGTCCTATC
1 TGGAAATTCATACACATAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
* *
6155737 TGGAAATTCATACACATATTATGATTTCCTTATCATTTTAGCACAC-AAGTGCCCTATC
1 TGGAAATTCATACACATAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
* * *
6155795 TGGAAATTCATACACATAGTATGATTTCTTTACCATTTTACCACACAAAGTACCCTATC
1 TGGAAATTCATACACATAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
* * * ** *
6155854 TAGATATTCATACATATAGTATGATTTTATTACCATTTTAGCACACAAAGTGCCCTTTC
1 TGGAAATTCATACACATAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
*
6155913 TGGAAATTCACTATACATA
1 TGGAAATTCA-TACACATA
6155932 CATCAATAAA
Statistics
Matches: 318, Mismatches: 50, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
58 53 0.17
59 258 0.81
60 7 0.02
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (59 bp):
TGGAAATTCATACACATAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
Found at i:6155875 original size:176 final size:177
Alignment explanation
Indices: 6155520--6155931 Score: 540
Period size: 176 Copynumber: 2.3 Consensus size: 177
6155510 ATACAAACAA
* * * * * *
6155520 TATGACTTCCTTATCATTTTAGCACATAGAGTGCCCTATCTGGAAAATCATACACTTAGTATGAT
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACATAGTATGAT
* * * *
6155585 TTTCTTACTCTTTTAGTACACAAAGTGCCCTAGATTGAAATTCATACACTTAGTATAATTTCCTT
66 TTCCTTACTCTTTTAGCACACAAAGTGCCCTAGATGGAAATTCATACACATAGTATAATTTCCTT
* * * *
6155650 ACCATTTTAGAACACAAATTGCCCTATATGGATATTCATACACATAG
131 ACCATTTTACAACACAAAGTACCCTATATAGATATTCATACACATAG
* * *
6155697 TATGATTTCCTTACCATTTTAGCACACAAATTGTCCTATCTGGAAATTCATACACATATTATGAT
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACATAGTATGAT
** * *
6155762 TTCCTTA-TCATTTTAGCACAC-AAGTGCCCTATCTGGAAATTCATACACATAGTATGATTTCTT
66 TTCCTTACTC-TTTTAGCACACAAAGTGCCCTAGATGGAAATTCATACACATAGTATAATTTCCT
* * *
6155825 TACCATTTTACCACACAAAGTACCCTATCTAGATATTCATACATATAG
130 TACCATTTTACAACACAAAGTACCCTATATAGATATTCATACACATAG
** * *
6155873 TATGATTTTATTACCATTTTAGCACACAAAGTGCCCTTTCTGGAAATTCACTATACATA
1 TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCA-TACACATA
6155932 CATCAATAAA
Statistics
Matches: 203, Mismatches: 30, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
176 124 0.61
177 79 0.39
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.36
Consensus pattern (177 bp):
TATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACATAGTATGAT
TTCCTTACTCTTTTAGCACACAAAGTGCCCTAGATGGAAATTCATACACATAGTATAATTTCCTT
ACCATTTTACAACACAAAGTACCCTATATAGATATTCATACACATAG
Found at i:6156374 original size:19 final size:21
Alignment explanation
Indices: 6156324--6156378 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 21
6156314 GAAGTAAACC
6156324 TGGTATCGATA-CCCCTAAGCTA
1 TGGTATCGATACCCCCT-A-CTA
*
6156346 TGGTACCGATACCCCCT-CTA
1 TGGTATCGATACCCCCTACTA
6156366 -GGTATCGATACCC
1 TGGTATCGATACCC
6156379 AAATTAGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 12 0.40
20 3 0.10
22 10 0.33
23 5 0.17
ACGTcount: A:0.24, C:0.33, G:0.18, T:0.25
Consensus pattern (21 bp):
TGGTATCGATACCCCCTACTA
Found at i:6162572 original size:59 final size:59
Alignment explanation
Indices: 6162509--6162856 Score: 511
Period size: 59 Copynumber: 5.9 Consensus size: 59
6162499 TCATACAAAC
* * * * * *
6162509 AGTATGACTTCCTTATCATTTTAGCACATAGAGTGCCCTATCTGGAAAATCATACGCTT
1 AGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTT
* *
6162568 AGTATGATTTTCTTACTC-TTTTAGCACACAAAGTGCCCTAGCTGGAAATTCATACACTT
1 AGTATGATTTCCTTAC-CATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTT
* *
6162627 AGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTAGAAATTCATACACAT
1 AGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTT
* * *
6162686 AGTATTAGTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACAT
1 AGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTT
6162745 AGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACA-TAT
1 AGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACT-T
* * * *
6162804 AGTATGATTTCCTTACCATTTTAGCACATAGAGTGCCCTTTTTGGAAATTCAT
1 AGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCAT
6162857 TATATATACA
Statistics
Matches: 264, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
58 1 0.00
59 262 0.99
60 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.34
Consensus pattern (59 bp):
AGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATCTGGAAATTCATACACTT
Found at i:6163189 original size:21 final size:20
Alignment explanation
Indices: 6163165--6163221 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 20
6163155 TGGCCCTTAA
* *
6163165 GTATCGATACCCCTGCTTATG
1 GTATCGATACCCCT-ATTAGG
6163186 GTATCGATACTTCCCTATTAGG
1 GTATCGATAC--CCCTATTAGG
6163208 GTATCGATACCCCT
1 GTATCGATACCCCT
6163222 TCATGTATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 4 0.12
21 10 0.31
22 14 0.44
23 4 0.12
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (20 bp):
GTATCGATACCCCTATTAGG
Found at i:6167650 original size:21 final size:21
Alignment explanation
Indices: 6167602--6167654 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
6167592 TTCGGTTGAG
* *
6167602 CGCTACCAAAAATGTTATTTT
1 CGCTACCATAAATGTTAATTT
***
6167623 TTATACCATAAATGTTAATTT
1 CGCTACCATAAATGTTAATTT
6167644 CGCTACC-TAAA
1 CGCTACCATAAA
6167655 ATGAATATTT
Statistics
Matches: 24, Mismatches: 8, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.38
Consensus pattern (21 bp):
CGCTACCATAAATGTTAATTT
Found at i:6169526 original size:12 final size:12
Alignment explanation
Indices: 6169509--6169537 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
6169499 AGAAATAAGA
6169509 AAGAAGAAAAAC
1 AAGAAGAAAAAC
6169521 AAGAAGAAAAAC
1 AAGAAGAAAAAC
6169533 AAGAA
1 AAGAA
6169538 TGAGGTGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.76, C:0.07, G:0.17, T:0.00
Consensus pattern (12 bp):
AAGAAGAAAAAC
Found at i:6173039 original size:42 final size:39
Alignment explanation
Indices: 6172972--6173081 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 39
6172962 TTTTTTATTT
* * *
6172972 TTTTATAATTAAAGCCCTAATTTTTTATATCTAATTTTTTA
1 TTTTATAATTGAGGCCCTAA-TTTTTA-ATCCAATTTTTTA
6173013 TTTATATAATTGAGGCTCCTAATTTTTAATCCAACTTTTTTA
1 TTT-TATAATTGAGGC-CCTAATTTTTAATCCAA-TTTTTTA
6173055 TATTTATAATTGAGGCCTCTAATTTTT
1 T-TTTATAATTGAGGCC-CTAATTTTT
6173082 TTCAATATCA
Statistics
Matches: 61, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
41 9 0.15
42 45 0.74
43 7 0.11
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (39 bp):
TTTTATAATTGAGGCCCTAATTTTTAATCCAATTTTTTA
Found at i:6173107 original size:86 final size:86
Alignment explanation
Indices: 6173017--6173506 Score: 438
Period size: 86 Copynumber: 5.7 Consensus size: 86
6173007 TTTTTATTTA
**
6173017 TATAATTGAGGCTCCTAA-TTTTT-AATC-CAACTTTTTTATATTTATAATTGAGGCCTCTAATT
1 TATAATTGAGGC-CCTAATTTTTTCAATCTC-AC-TTTTTACCTTTATAATTGAGGCCTCTAATT
*
6173079 TTTTTCAATATCACTTTCTACCTT
63 TTTTTCAATCTCACTTTCTACCTT
* * * * * *
6173103 TATAATTGAAGCCCTTAACTTTTT-AATCTTACTTTTTACCTTTATAATCGATGCCTCTGATTTT
1 TATAATTGAGGCCC-TAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCCTCTAATTTT
* * * *
6173167 GTTCAATCTCGCTTTATATCTT
65 TTTCAATCTCACTTTCTACCTT
* * * * *
6173189 TATAATTG-GAGCCTATAATTTTTTTCAATCTCACATTCTACCTTTATGATTGAAGCACT-TAAT
1 TATAATTGAG-GCC-CTAA-TTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGC-CTCTAAT
* *
6173252 TTTTTT-AATCTCAGTTTTTACCTT
62 TTTTTTCAATCTCACTTTCTACCTT
6173276 TATAATTGAGGCCTCTAATTTTTTTCAATCTCACTTTTTACCTTTATAATTGAGG-CTCCTAA-T
1 TATAATTGAGGCC-CTAA-TTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCCT-CTAATT
* *
6173339 TTTTT-AATCTCACTTTTTACATT
63 TTTTTCAATCTCACTTTCTACCTT
* * * * *
6173362 TATAATTGAGG---T-CTTTTTTCAATCTCACTTTTTACTTTTATAATTAAGGTCACTAA-TTTT
1 TATAATTGAGGCCCTAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCCTCTAATTTTT
6173422 TTCAATCTCAC--TCTACCTT
66 TTCAATCTCACTTTCTACCTT
* * * *
6173441 TGTAATTGAAGCCCCAATTTTTTTTTTTAAATCTCACTTTTTACCTTTATAATTGAGGCCTCTAA
1 TATAATTGAGGCCCTAA-----TTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCCTCTAA
6173506 T
61 T
6173507 ATTTCCAACC
Statistics
Matches: 332, Mismatches: 49, Indels: 43
0.78 0.12 0.10
Matches are distributed among these distances:
79 15 0.05
80 44 0.13
81 9 0.03
82 1 0.00
85 4 0.01
86 105 0.32
87 81 0.24
88 71 0.21
89 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.08, T:0.49
Consensus pattern (86 bp):
TATAATTGAGGCCCTAATTTTTTCAATCTCACTTTTTACCTTTATAATTGAGGCCTCTAATTTTT
TTCAATCTCACTTTCTACCTT
Found at i:6173149 original size:42 final size:42
Alignment explanation
Indices: 6172973--6173496 Score: 355
Period size: 44 Copynumber: 12.3 Consensus size: 42
6172963 TTTTTATTTT
* * * *
6172973 TTTATAATTAAAGCCC-TAATTTTTTATATCTAATTTTTTA-T
1 TTTATAATTGAAGCCCTTAATTTTTTA-ATCTCACTTTTTACC
* **
6173014 TTATATAATTGAGGCTCC-TAA-TTTTTAATC-CAACTTTTTTATA
1 TT-TATAATTGAAGC-CCTTAATTTTTTAATCTC-AC-TTTTTACC
* * *
6173057 TTTATAATTG-AGGCCTCTAATTTTTTTCAATATCACTTTCTACC
1 TTTATAATTGAAGCCCT-TAA-TTTTTT-AATCTCACTTTTTACC
* *
6173101 TTTATAATTGAAGCCCTTAACTTTTTAATCTTACTTTTTACC
1 TTTATAATTGAAGCCCTTAATTTTTTAATCTCACTTTTTACC
* * * * * *
6173143 TTTATAATCGATG-CCTCTGATTTTGTTCAATCTCGCTTTATATC
1 TTTATAATTGAAGCCCT-TAATTTT-TT-AATCTCACTTTTTACC
* * *
6173187 TTTATAATTGGAG-CCTATAATTTTTTTCAATCTCACATTCTACC
1 TTTATAATTGAAGCCCT-TAA-TTTTTT-AATCTCACTTTTTACC
* * *
6173231 TTTATGATTGAAGCACTTAATTTTTTTAATCTCAGTTTTTACC
1 TTTATAATTGAAGCCCTTAA-TTTTTTAATCTCACTTTTTACC
*
6173274 TTTATAATTG-AGGCCTCTAATTTTTTTCAATCTCACTTTTTACC
1 TTTATAATTGAAGCCCT-TAA-TTTTTT-AATCTCACTTTTTACC
* *
6173318 TTTATAATTGAGGCTCC-TAATTTTTTAATCTCACTTTTTACA
1 TTTATAATTGAAGC-CCTTAATTTTTTAATCTCACTTTTTACC
** * *
6173360 TTTATAATTG-AGGTC-T--TTTTTCAATCTCACTTTTTACT
1 TTTATAATTGAAGCCCTTAATTTTTTAATCTCACTTTTTACC
* *
6173398 TTTATAATT-AAGGTCAC-TAATTTTTTCAATCTCAC--TCTACC
1 TTTATAATTGAA-G-CCCTTAATTTTTT-AATCTCACTTTTTACC
* **
6173439 TTTGTAATTGAAGCCCCAATTTTTTTTTTTAAATCTCACTTTTTACC
1 TTTATAATTGAAG-CCC---TTAATTTTTT-AATCTCACTTTTTACC
6173486 TTTATAATTGA
1 TTTATAATTGA
6173497 GGCCTCTAAT
Statistics
Matches: 385, Mismatches: 64, Indels: 62
0.75 0.13 0.12
Matches are distributed among these distances:
38 30 0.08
39 1 0.00
40 6 0.02
41 26 0.07
42 98 0.25
43 60 0.16
44 114 0.30
45 32 0.08
46 3 0.01
47 15 0.04
ACGTcount: A:0.26, C:0.17, G:0.07, T:0.50
Consensus pattern (42 bp):
TTTATAATTGAAGCCCTTAATTTTTTAATCTCACTTTTTACC
Found at i:6174359 original size:17 final size:17
Alignment explanation
Indices: 6174329--6174405 Score: 136
Period size: 17 Copynumber: 4.4 Consensus size: 17
6174319 TGACCGGTCA
6174329 CGACCCGCACCGTTGACC
1 CGACCCG-ACCGTTGACC
6174347 CGACCCGACCGTTGACC
1 CGACCCGACCGTTGACC
6174364 CGACCCGACCCGTTGACC
1 CGACCCGA-CCGTTGACC
6174382 CGACCCGACCGTTGACC
1 CGACCCGACCGTTGACC
6174399 CGACCCG
1 CGACCCG
6174406 TTGACTGGTG
Statistics
Matches: 58, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
17 34 0.59
18 24 0.41
ACGTcount: A:0.17, C:0.49, G:0.23, T:0.10
Consensus pattern (17 bp):
CGACCCGACCGTTGACC
Found at i:6174368 original size:35 final size:35
Alignment explanation
Indices: 6174329--6174405 Score: 138
Period size: 35 Copynumber: 2.2 Consensus size: 35
6174319 TGACCGGTCA
6174329 CGACCCG-CACCGTTGACCCGACCCGACCGTTGACC
1 CGACCCGAC-CCGTTGACCCGACCCGACCGTTGACC
6174364 CGACCCGACCCGTTGACCCGACCCGACCGTTGACC
1 CGACCCGACCCGTTGACCCGACCCGACCGTTGACC
6174399 CGACCCG
1 CGACCCG
6174406 TTGACTGGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 40 0.98
36 1 0.02
ACGTcount: A:0.17, C:0.49, G:0.23, T:0.10
Consensus pattern (35 bp):
CGACCCGACCCGTTGACCCGACCCGACCGTTGACC
Found at i:6174400 original size:12 final size:13
Alignment explanation
Indices: 6174365--6174410 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 13
6174355 CCGTTGACCC
6174365 GACCCGACCCGTT
1 GACCCGACCCGTT
6174378 GACCCGACCCGACCGTT
1 GACCCGA--C--CCGTT
6174395 GACCCGACCCGTT
1 GACCCGACCCGTT
6174408 GAC
1 GAC
6174411 TGGTGCTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 15 0.52
15 2 0.07
17 12 0.41
ACGTcount: A:0.17, C:0.46, G:0.24, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:6181561 original size:3 final size:3
Alignment explanation
Indices: 6181553--6181610 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
6181543 CTGTTGAGCA
6181553 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6181601 ATT ATT ATT A
1 ATT ATT ATT A
6181611 ACATCATCAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6183738 original size:16 final size:16
Alignment explanation
Indices: 6183704--6183744 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
6183694 GTTTACTTTA
*
6183704 GAATGATT-AAGTATT
1 GAATGATTCAAATATT
*
6183719 GAATGATTCAAATGTT
1 GAATGATTCAAATATT
6183735 GAATGATTCA
1 GAATGATTCA
6183745 GAGTCTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.37
Consensus pattern (16 bp):
GAATGATTCAAATATT
Found at i:6194991 original size:16 final size:16
Alignment explanation
Indices: 6194970--6195007 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6194960 GGCTCATTAC
6194970 TCATTTCAGGATT-AGA
1 TCATTTC-GGATTCAGA
*
6194986 TCATTTCGGATTCAGG
1 TCATTTCGGATTCAGA
6195002 TCATTT
1 TCATTT
6195008 GACATGATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (16 bp):
TCATTTCGGATTCAGA
Found at i:6198469 original size:305 final size:312
Alignment explanation
Indices: 6198016--6198632 Score: 951
Period size: 305 Copynumber: 2.0 Consensus size: 312
6198006 GCTACCACGA
* * *
6198016 TGCAATAACTGAGCATTGAAAATTAGCTGAAACAATGAATAATTTGACCTGTTTTAAATACACAT
1 TGCAATAACTGAGCACTGAAAAGTAACTGAAACAATGAATAATTTGACCTGTTTTAAATACACAT
6198081 TTTTTTTTATTTGAAGTGATAATTCAACACTTAAAAGTTTTTTTATTTGAGTTCATATTTCACTA
66 TTTTTTTTATTTGAAGTGATAATTCAACAC-TAAAAGTTTTTTTATTTGAGTTCATATTTCACTA
*
6198146 AACAATAACTGGAAGGGTGCATTATTTTGCCTGAGTTAAAAACACGTTGTCTGATTTGTGTT-A-
130 AACAATAACTGGAAGGGTGCATTATTTTGCCTGAGTTAAAAACACGTTGTCTGATTTGAGTTGAT
* *
6198209 ATATCACTGAAAAGTTGCCGAAGATGATAATGCACCACTATTTCTCCCGTTTTCT-AAAAAGTTA
195 ATATCACTGAAAAGTTGCCGAAGATGATAATGCACCACTATTTCACCCATTTTCTGAAAAAGTTA
*
6198273 CTTGAATTCTACAGTAAATGACCAACAAAATAAACCAACTGTTGCATTATTGC
260 CTTGAATTCTACAGTAAATGACCAACAAAATAAACCAAATGTTGCATTATTGC
* * * *
6198326 TGCATTAATTGAGCACTGAAAAGTAACTGAACCAATGAATAATTTGGCCTGTTTTAAATACA-A-
1 TGCAATAACTGAGCACTGAAAAGTAACTGAAACAATGAATAATTTGACCTGTTTTAAATACACAT
* * *
6198389 TTTTTTTTATTTGAAGTGATAATTCAACAC-CAAA-TTTTTTTATTTGAGTTCGTATTTCACTGA
66 TTTTTTTTATTTGAAGTGATAATTCAACACTAAAAGTTTTTTTATTTGAGTTCATATTTCACTAA
* **
6198452 ACGATAGTTGGAAGGGTGCATTATTTTGCCTGAGTTAAAAACACGTTGTCTGATTTGAGTTGATA
131 ACAATAACTGGAAGGGTGCATTATTTTGCCTGAGTTAAAAACACGTTGTCTGATTTGAGTTGATA
**
6198517 TATCACTGAAAAGTTGCCGAAGATGATAATGCACCACTATTTCACCCATTTTCTGAAAAAGTTGT
196 TATCACTGAAAAGTTGCCGAAGATGATAATGCACCACTATTTCACCCATTTTCTGAAAAAGTTAC
* ** * * *
6198582 TTGAATTTTGTAGTAAATGACTAACCAAATAATCCAAATGTTGCATTATTG
261 TTGAATTCTACAGTAAATGACCAACAAAATAAACCAAATGTTGCATTATTG
6198633 TTGTAACAAA
Statistics
Matches: 279, Mismatches: 25, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
305 84 0.30
306 4 0.01
307 53 0.19
308 82 0.29
309 1 0.00
310 55 0.20
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.36
Consensus pattern (312 bp):
TGCAATAACTGAGCACTGAAAAGTAACTGAAACAATGAATAATTTGACCTGTTTTAAATACACAT
TTTTTTTTATTTGAAGTGATAATTCAACACTAAAAGTTTTTTTATTTGAGTTCATATTTCACTAA
ACAATAACTGGAAGGGTGCATTATTTTGCCTGAGTTAAAAACACGTTGTCTGATTTGAGTTGATA
TATCACTGAAAAGTTGCCGAAGATGATAATGCACCACTATTTCACCCATTTTCTGAAAAAGTTAC
TTGAATTCTACAGTAAATGACCAACAAAATAAACCAAATGTTGCATTATTGC
Found at i:6198658 original size:308 final size:309
Alignment explanation
Indices: 6198042--6198658 Score: 911
Period size: 308 Copynumber: 2.0 Consensus size: 309
6198032 TGAAAATTAG
6198042 CTGAAACAATGAATAATTTGACCTGTTTTAAATACACATTTTTTTTTATTTGAAGTGATAATTCA
1 CTGAAACAATGAATAATTTGACCTGTTTTAAATACACATTTTTTTTTATTTGAAGTGATAATTCA
6198107 ACACTTAAAAGTTTTTTTATTTGAGTTCATATTTCACTAAACAATAACTGGAAGGGTGCATTATT
66 ACAC-TAAAAGTTTTTTTATTTGAGTTCATATTTCACTAAACAATAACTGGAAGGGTGCATTATT
*
6198172 TTGCCTGAGTTAAAAACACGTTGTCTGATTTGTGTTAATATCACTGAAAAGTTGCCGAAGATGAT
130 TTGCCTGAGTTAAAAACACGTTGTCTGATTTGAGTTAATATCACTGAAAAGTTGCCGAAGATGAT
* *
6198237 AATGCACCACTATTTCTCCCGTTTTCTAAAAAGTTACTTGAATTCTACAGTAAATGACCAACAAA
195 AATGCACCACTATTTCACCCATTTTCTAAAAAGTTACTTGAATTCTACAGTAAATGACCAACAAA
* ** * *
6198302 ATAAACCAACTGTTGCATTATTGCTGCATTAATTGAGCACTGAAAAGTAA
260 ATAAACCAAATGTTGCATTATTGCTGCAACAAATGAGCACTAAAAAGTAA
* *
6198352 CTGAACCAATGAATAATTTGGCCTGTTTTAAATACA-A-TTTTTTTTATTTGAAGTGATAATTCA
1 CTGAAACAATGAATAATTTGACCTGTTTTAAATACACATTTTTTTTTATTTGAAGTGATAATTCA
* * * * **
6198415 ACAC-CAAA-TTTTTTTATTTGAGTTCGTATTTCACTGAACGATAGTTGGAAGGGTGCATTATTT
66 ACACTAAAAGTTTTTTTATTTGAGTTCATATTTCACTAAACAATAACTGGAAGGGTGCATTATTT
6198478 TGCCTGAGTTAAAAACACGTTGTCTGATTTGAGTTGATATATCACTGAAAAGTTGCCGAAGATGA
131 TGCCTGAGTTAAAAACACGTTGTCTGATTTGAGTT-A-ATATCACTGAAAAGTTGCCGAAGATGA
** * ** * *
6198543 TAATGCACCACTATTTCACCCATTTTCTGAAAAAGTTGTTTGAATTTTGTAGTAAATGACTAACC
194 TAATGCACCACTATTTCACCCATTTTCT-AAAAAGTTACTTGAATTCTACAGTAAATGACCAACA
* * * *
6198608 AAATAATCCAAATGTTGCATTATTGTTGTAACAAATGA-TATCTAAAAAGTA
258 AAATAAACCAAATGTTGCATTATTGCTGCAACAAATGAGCA-CTAAAAAGTA
6198659 GCTAACATAG
Statistics
Matches: 276, Mismatches: 27, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
305 84 0.30
306 4 0.01
307 54 0.20
308 99 0.36
309 1 0.00
310 34 0.12
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.36
Consensus pattern (309 bp):
CTGAAACAATGAATAATTTGACCTGTTTTAAATACACATTTTTTTTTATTTGAAGTGATAATTCA
ACACTAAAAGTTTTTTTATTTGAGTTCATATTTCACTAAACAATAACTGGAAGGGTGCATTATTT
TGCCTGAGTTAAAAACACGTTGTCTGATTTGAGTTAATATCACTGAAAAGTTGCCGAAGATGATA
ATGCACCACTATTTCACCCATTTTCTAAAAAGTTACTTGAATTCTACAGTAAATGACCAACAAAA
TAAACCAAATGTTGCATTATTGCTGCAACAAATGAGCACTAAAAAGTAA
Done.