Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 263 of 279
Found at i:85665996 original size:93 final size:97
Alignment explanation
Indices: 85665833--85666040 Score: 237
Period size: 93 Copynumber: 2.1 Consensus size: 97
85665823 TGTGATTTCC
* * *
85665833 GTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGCTTCCGTATAAGACCATA
1 GTATAAGACCATAGCTGGGATATGGCATC-GAG--ATGTGATATGTGCATCCGTATAAGACCATA
*
85665898 TCTGGGATATGGCATCGG-TGTGATATGTG-CTACT
63 GCTGGGATATGGCATCGGATGTGATATGTGACTA-T
* * *
85665932 GTATAAGACCATATCTGGGATATGGCATC-AG-TGTGATATGTG-ATCCGTGTAAGACCATGGCT
1 GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATCCGTATAAGACCATAGCT
* *
85665994 GGGCTATGGCCTCGGTATGTGATATGTGACTAT
66 GGGATATGGCATCGG-ATGTGATATGTGACTAT
**
85666027 GTGCAAGACCATAG
1 GTATAAGACCATAG
85666041 TTTTACTATG
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
93 29 0.31
94 11 0.12
95 23 0.24
96 3 0.03
97 2 0.02
99 26 0.28
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (97 bp):
GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATCCGTATAAGACCATAGCT
GGGATATGGCATCGGATGTGATATGTGACTAT
Found at i:85676139 original size:18 final size:18
Alignment explanation
Indices: 85676097--85676141 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
85676087 TCAGGTTATA
* *
85676097 TCAGAACAGGAGCTTGAG
1 TCAGAATAGGAGCCTGAG
*
85676115 TCAGAATAGGAGCCTGAT
1 TCAGAATAGGAGCCTGAG
85676133 TCAGAATAG
1 TCAGAATAG
85676142 TCTTAAGCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.20
Consensus pattern (18 bp):
TCAGAATAGGAGCCTGAG
Found at i:85676682 original size:13 final size:13
Alignment explanation
Indices: 85676664--85676697 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
85676654 GAGTTAGTAT
85676664 GTATGAAAGTTTC
1 GTATGAAAGTTTC
85676677 GTATGAAAGTTTC
1 GTATGAAAGTTTC
*
85676690 GTACGAAA
1 GTATGAAA
85676698 ATTTAATCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.32
Consensus pattern (13 bp):
GTATGAAAGTTTC
Found at i:85685709 original size:18 final size:18
Alignment explanation
Indices: 85685682--85685718 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
85685672 TAGCATAAGG
85685682 AAGGGGGTATGTGGGAAA
1 AAGGGGGTATGTGGGAAA
* *
85685700 AAGGGTGTATGTGTGAAA
1 AAGGGGGTATGTGGGAAA
85685718 A
1 A
85685719 TATTAGTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.43, T:0.22
Consensus pattern (18 bp):
AAGGGGGTATGTGGGAAA
Found at i:85685959 original size:37 final size:37
Alignment explanation
Indices: 85685917--85685987 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
85685907 CTAACTCCAT
85685917 CACCCTACTAAACCATCCACTACCACCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCACCATCACCCCCA
* *
85685954 CACCCTATTAAACCATCCACTACCTCCATCACCC
1 CACCCTACTAAACCATCCACTACCACCATCACCC
85685988 TACTTGTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.31, C:0.52, G:0.00, T:0.17
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCACCATCACCCCCA
Found at i:85686397 original size:19 final size:18
Alignment explanation
Indices: 85686373--85686409 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
85686363 TTATGTTTCA
85686373 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
85686392 TATTATTATATATTTATT
1 TATTATTATATATTTATT
85686410 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:85686400 original size:63 final size:64
Alignment explanation
Indices: 85686261--85686400 Score: 155
Period size: 63 Copynumber: 2.2 Consensus size: 64
85686251 TTTAACCCTT
* * * *
85686261 TTTTTATTTTTGTTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTTG
1 TTTTTATTATTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTATTATATTTG
* *
85686326 TTTTT-TTATTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATATTAT
1 TTTTTATTATTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTATTATATT-T
85686387 -
64 G
85686387 TTATTTATTATTAT
1 TT-TTTATTATTAT
85686401 ATATTTATTA
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
61 17 0.26
62 8 0.12
63 27 0.42
64 8 0.12
65 5 0.08
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (64 bp):
TTTTTATTATTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTATTATATTTG
Found at i:85686408 original size:11 final size:12
Alignment explanation
Indices: 85686373--85686430 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 12
85686363 TTATGTTTCA
85686373 TATTAT-TATAT
1 TATTATATATAT
*
85686384 TATT-TATTTAT
1 TATTATATATAT
85686395 TATTATATAT-T
1 TATTATATATAT
* *
85686406 TATTATGTA-AA
1 TATTATATATAT
85686417 TATATATATATAT
1 TAT-TATATATAT
85686430 T
1 T
85686431 TTTAAGCGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
10 1 0.03
11 24 0.67
12 9 0.25
13 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (12 bp):
TATTATATATAT
Found at i:85686421 original size:17 final size:14
Alignment explanation
Indices: 85686381--85686411 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
85686371 CATATTATTA
*
85686381 TATTATTTATTTAT
1 TATTATATATTTAT
85686395 TATTATATATTTAT
1 TATTATATATTTAT
85686409 TAT
1 TAT
85686412 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:85705524 original size:13 final size:13
Alignment explanation
Indices: 85705506--85705530 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85705496 TTCACTTTTC
85705506 TTTTTTTTTTTGT
1 TTTTTTTTTTTGT
85705519 TTTTTTTTTTTG
1 TTTTTTTTTTTG
85705531 GGGAGGGGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTTTTTTTTGT
Found at i:85711647 original size:23 final size:23
Alignment explanation
Indices: 85711617--85711663 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
85711607 AGAAGTAAAT
*
85711617 TAAAAATGGCATTACTTATGCTA
1 TAAAAATGGCATTACTTACGCTA
85711640 TAAAAATGGCATTACTTACGCTA
1 TAAAAATGGCATTACTTACGCTA
85711663 T
1 T
85711664 CCTTTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (23 bp):
TAAAAATGGCATTACTTACGCTA
Found at i:85714510 original size:20 final size:20
Alignment explanation
Indices: 85714487--85714529 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
85714477 TGTAAATTTG
* *
85714487 TAATAATTTATGTAATTGAA
1 TAATAATTTATATAATTAAA
*
85714507 TAATATTTTATATAATTAAA
1 TAATAATTTATATAATTAAA
85714527 TAA
1 TAA
85714530 GATATTGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TAATAATTTATATAATTAAA
Found at i:85714753 original size:30 final size:27
Alignment explanation
Indices: 85714715--85714791 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 27
85714705 GTAATTTAAT
85714715 TATTATATTTAAACCTTAGAGTAAATTTA
1 TATTATATTTAAACCTTAGAGTAAA--TA
* *
85714744 TATATATATTTAAA-ATT--TG-AAATA
1 TAT-TATATTTAAACCTTAGAGTAAATA
85714768 TATTATATTTAAACCTTAGAGTAA
1 TATTATATTTAAACCTTAGAGTAA
85714792 TCAAGCTGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
23 10 0.26
24 7 0.18
26 4 0.10
27 3 0.08
29 5 0.13
30 10 0.26
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (27 bp):
TATTATATTTAAACCTTAGAGTAAATA
Found at i:85716004 original size:13 final size:13
Alignment explanation
Indices: 85715988--85716015 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
85715978 CTACTAGAGT
85715988 CTTTTGATAGAAC
1 CTTTTGATAGAAC
85716001 CTTTTGATAGAAC
1 CTTTTGATAGAAC
85716014 CT
1 CT
85716016 GTACATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (13 bp):
CTTTTGATAGAAC
Found at i:85727264 original size:13 final size:14
Alignment explanation
Indices: 85727236--85727273 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
85727226 TTTAAGTGAG
85727236 AAATTAATTTAGTT
1 AAATTAATTTAGTT
*
85727250 AATTTAATTTA-TT
1 AAATTAATTTAGTT
85727263 AAATTAATTTA
1 AAATTAATTTA
85727274 ATAACTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
AAATTAATTTAGTT
Found at i:85730239 original size:79 final size:79
Alignment explanation
Indices: 85730118--85730351 Score: 341
Period size: 79 Copynumber: 3.0 Consensus size: 79
85730108 CCTTCGGAGT
85730118 TTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACA
1 TTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACA
*
85730183 ATTGCCTTCGGGAC
66 AATGCCTTCGGGAC
85730197 TTAGACCGG-TATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCAC
1 TTA-ACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCAC
85730261 AAATGCCTTCGGGAC
65 AAATGCCTTCGGGAC
* ** * * *
85730276 TTAACCCGGATTTAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGC
1 TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCGC
85730338 ACAAATGCCTTCGG
63 ACAAATGCCTTCGG
85730352 ATCTTAGTCC
Statistics
Matches: 143, Mismatches: 7, Indels: 10
0.89 0.04 0.06
Matches are distributed among these distances:
78 2 0.01
79 113 0.79
80 28 0.20
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
TTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACA
AATGCCTTCGGGAC
Found at i:85730343 original size:119 final size:121
Alignment explanation
Indices: 85730141--85730404 Score: 335
Period size: 119 Copynumber: 2.2 Consensus size: 121
85730131 GCTACTCGTT
* *
85730141 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGACTTAGACCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAGACCG
* ** * *
85730205 GTATAGCTACTCGTTCAAATGCCTTCGGGA-CATAGCCCGGTTATAGTAAC-TCGCA
66 GAATAGCTACTCGCACAAATGCCTTC-GGATCATAGCCCGGATATAGTAACTTAGCA
* *
85730260 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAGACCG
* * * *
85730323 GAATTAG-TATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
66 GAA-TAGCTA-CTCGCACAAATGCCTTCGGATCATAGCCCGGATATAGTAACTTAGCA
85730380 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
85730405 CATCATTCAA
Statistics
Matches: 126, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
118 15 0.12
119 101 0.80
120 10 0.08
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAGACCG
GAATAGCTACTCGCACAAATGCCTTCGGATCATAGCCCGGATATAGTAACTTAGCA
Found at i:85730364 original size:79 final size:79
Alignment explanation
Indices: 85730121--85730403 Score: 335
Period size: 79 Copynumber: 3.6 Consensus size: 79
85730111 TCGGAGTTTA
** *
85730121 ACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATT
1 ACCGGATATAG-TACTCGCACAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAAT
85730186 GCCTTCGGGACTTAG
65 GCCTTCGGGACTTAG
**
85730201 ACCGG-TATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAAT
1 ACCGGATATAG-TACTCGCACAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAAT
85730265 GCCTTCGGGACTTA-
65 GCCTTCGGGACTTAG
* * * *
85730279 ACCCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCACAA
1 A-CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCACAA
85730342 ATGCCTTC-GGATCTTAG
63 ATGCCTTCGGGA-CTTAG
* * * *
85730359 TCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGG
1 ACCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACATAGCCCGG
85730404 ACATCATTCA
Statistics
Matches: 183, Mismatches: 12, Indels: 16
0.87 0.06 0.08
Matches are distributed among these distances:
78 5 0.03
79 132 0.72
80 46 0.25
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
ACCGGATATAGTACTCGCACAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATG
CCTTCGGGACTTAG
Found at i:85730404 original size:40 final size:40
Alignment explanation
Indices: 85730122--85730404 Score: 319
Period size: 40 Copynumber: 7.1 Consensus size: 40
85730112 CGGAGTTTAA
** *
85730122 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
85730162 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAGA
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** *
85730202 CCGG-TATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
85730241 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
85730281 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
85730320 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
85730360 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
85730400 CCGGA
1 CCGGA
85730405 CATCATTCAA
Statistics
Matches: 207, Mismatches: 26, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 66 0.32
40 127 0.61
41 12 0.06
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:85732142 original size:101 final size:101
Alignment explanation
Indices: 85732007--85732263 Score: 366
Period size: 101 Copynumber: 2.6 Consensus size: 101
85731997 GGGCTGTCAC
*
85732007 AATGCCATAGCCCATCTATGGTCTTACATATAAACACTGCCATGGTCCAACCATGATCTTACCTC
1 AATGCCATAGCCCATCTATGGTCTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACCTC
*
85732072 CATAGTACCATAACCCAGTTATGGTCTTATCATCAG
66 CATAGTACCATAACCCAGTTATGGTCTTATCATCAA
* * *
85732108 AATGCCATAGCCCAACTATGGTCTTACATATAAACACTACCATGGTCCAACCATGGTCTTACGTC
1 AATGCCATAGCCCATCTATGGTCTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACCTC
* * * *
85732173 CATAGTGCCATAACTCAGTTTTGGTCTTGTCATCAA
66 CATAGTACCATAACCCAGTTATGGTCTTATCATCAA
* *
85732209 AATTCCATAG--C-TC-A--G-CTTACATATAAACACTGCCATCGTCCAACCATGGTCTTAC
1 AATGCCATAGCCCATCTATGGTCTTACATATAAACACTGCCATGGTCCAACCATGGTCTTAC
85732264 GTGCGAATGC
Statistics
Matches: 143, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
94 38 0.27
95 1 0.01
97 1 0.01
98 1 0.01
99 1 0.01
101 101 0.71
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (101 bp):
AATGCCATAGCCCATCTATGGTCTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACCTC
CATAGTACCATAACCCAGTTATGGTCTTATCATCAA
Found at i:85734285 original size:17 final size:18
Alignment explanation
Indices: 85734263--85734296 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
85734253 AACGCCTCTG
85734263 TTCTTC-TACTTCTTCAC
1 TTCTTCTTACTTCTTCAC
*
85734280 TTCTTCTTATTTCTTCA
1 TTCTTCTTACTTCTTCA
85734297 AATCAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.29, G:0.00, T:0.59
Consensus pattern (18 bp):
TTCTTCTTACTTCTTCAC
Found at i:85736114 original size:13 final size:13
Alignment explanation
Indices: 85736096--85736120 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85736086 TTTTTTAAAT
85736096 TTAATTTACTAAC
1 TTAATTTACTAAC
85736109 TTAATTTACTAA
1 TTAATTTACTAA
85736121 TTGTTACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAATTTACTAAC
Found at i:85738186 original size:6 final size:6
Alignment explanation
Indices: 85738175--85738217 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
85738165 TCCAAAACTA
* * * *
85738175 GAAATG GAAATG GTAATG GTAATG GTAATG TAAATG GAAATG G
1 GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG G
85738218 TCCATTTGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.26
Consensus pattern (6 bp):
GAAATG
Found at i:85738397 original size:26 final size:26
Alignment explanation
Indices: 85738361--85738410 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
85738351 ACCTTTTTTC
85738361 TCAAAATTTTA-TCAGGGGTAAAATCG
1 TCAAAATTTTACT-AGGGGTAAAATCG
85738387 TCAAAATTTTACTAGGGGTAAAAT
1 TCAAAATTTTACTAGGGGTAAAAT
85738411 AGGAATGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATCG
Found at i:85742688 original size:29 final size:29
Alignment explanation
Indices: 85742649--85742727 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
85742639 CTTAATAATC
*
85742649 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
85742679 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
85742708 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
85742728 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:85746577 original size:55 final size:53
Alignment explanation
Indices: 85746516--85746653 Score: 161
Period size: 55 Copynumber: 2.6 Consensus size: 53
85746506 GTGAGGTTTC
*
85746516 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTTACTA
1 TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGAT-C-A
* * * * * * * *
85746571 TGAGGCAAAGG-TCCCATGTAAGACCAGGCCAAGGCATGGCATTGGTGAGATCA
1 TAAGGC-AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGATCA
85746624 TAAGGCAAGGATACCATGTAAGACCATGTC
1 TAAGGCAAGGATACCATGTAAGACCATGTC
85746654 GGGACATGGC
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
52 4 0.06
53 22 0.32
54 1 0.01
55 37 0.54
56 4 0.06
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (53 bp):
TAAGGCAAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGATCA
Found at i:85746673 original size:108 final size:110
Alignment explanation
Indices: 85746474--85746674 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
85746464 TTTAAGGATA
* * * *
85746474 CCATGTGAGATCATGCCAAGGCATGGCAATTGGTGAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCAGGCCAAGGCATGGCAATTGGTGAGGTATCTAAGGCAAGGATACCATGTAAGA
*
85746539 CCATGTCAAGACATGACATTGATAAGTTACTATGAGGCAAAGGTC
66 CCATGTCAAGACATGACAATGATAAGTTACTATGAGGCAAAGGTC
85746584 CCATGTAAGACCAGGCCAAGGCATGGC-ATTGGTGA-G-ATCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCAGGCCAAGGCATGGCAATTGGTGAGGTATC-TAAGGCAAGGATACCATGTAAG
** * *
85746646 ACCATGTCGGGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGACAATGATAAGTT
85746675 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 2 0.02
108 47 0.58
109 8 0.10
110 24 0.30
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCAGGCCAAGGCATGGCAATTGGTGAGGTATCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGACAATGATAAGTTACTATGAGGCAAAGGTC
Found at i:85751264 original size:14 final size:13
Alignment explanation
Indices: 85751243--85751304 Score: 58
Period size: 14 Copynumber: 4.8 Consensus size: 13
85751233 TAGGGGAGAA
*
85751243 AAGAA-AAACAAG
1 AAGAAGAAAAAAG
85751255 AAGAAGAAAAATAG
1 AAGAAGAAAAA-AG
*
85751269 AAGAAGAGAAAATG
1 AAGAAGA-AAAAAG
85751283 AA-AA-AAAAAAG
1 AAGAAGAAAAAAG
*
85751294 AAAAAGAAAAA
1 AAGAAGAAAAA
85751305 TATAAATTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
11 7 0.17
12 8 0.19
13 11 0.26
14 12 0.29
15 4 0.10
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.03
Consensus pattern (13 bp):
AAGAAGAAAAAAG
Found at i:85751291 original size:11 final size:12
Alignment explanation
Indices: 85751241--85751304 Score: 51
Period size: 11 Copynumber: 5.3 Consensus size: 12
85751231 TATAGGGGAG
*
85751241 AAAAGAAAAACA
1 AAAAGAAAAAGA
* *
85751253 AGAAGAAGAA-A
1 AAAAGAAAAAGA
*
85751264 AATAGAAGAAGAGA
1 AAAAGAA-AA-AGA
*
85751278 AAATGAAAAA-A
1 AAAAGAAAAAGA
85751289 AAAAGAAAAAGA
1 AAAAGAAAAAGA
85751301 AAAA
1 AAAA
85751305 TATAAATTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
11 16 0.40
12 15 0.38
13 3 0.08
14 6 0.15
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (12 bp):
AAAAGAAAAAGA
Found at i:85751292 original size:6 final size:6
Alignment explanation
Indices: 85751241--85751304 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
85751231 TATAGGGGAG
* * * * *
85751241 AAAAGA AAAACA AGAAGA AGAA-A AATAGA AGAAGAGA AAATGA AAAA-A
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA A-AA-AGA AAAAGA AAAAGA
85751289 AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAA
85751305 TATAAATTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
5 8 0.17
6 31 0.67
7 3 0.07
8 4 0.09
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:85753247 original size:40 final size:40
Alignment explanation
Indices: 85753192--85753413 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
85753182 TATTCGGATG
*
85753192 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
85753232 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
85753272 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
85753312 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
85753352 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
85753392 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
85753414 TACTTGGGTT
Statistics
Matches: 168, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 14 0.08
40 152 0.90
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:85753852 original size:3 final size:3
Alignment explanation
Indices: 85753844--85753882 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
85753834 AAACATACTA
85753844 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
85753883 TAAAACATCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:85761614 original size:32 final size:31
Alignment explanation
Indices: 85761571--85761633 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 31
85761561 GGCCATGTCC
*
85761571 CTACCCGGCCTGGACACACGGTCGTGTCCCT
1 CTACACGGCCTGGACACACGGTCGTGTCCCT
85761602 NCTACACGGCCTGGACACACGGTCGTGTCCCT
1 -CTACACGGCCTGGACACACGGTCGTGTCCCT
85761634 GACCGTGTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.14, C:0.40, G:0.25, T:0.19
Consensus pattern (31 bp):
CTACACGGCCTGGACACACGGTCGTGTCCCT
Found at i:85762543 original size:14 final size:13
Alignment explanation
Indices: 85762520--85762561 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
85762510 TTTTCTTTCA
85762520 TTTT-TTATTACTT
1 TTTTATTATTA-TT
85762533 TTTTATTATTATT
1 TTTTATTATTATT
85762546 TCTTTATTATTATT
1 T-TTTATTATTATT
85762560 TT
1 TT
85762562 ACTTTGTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 8 0.30
14 19 0.70
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTATTATTATT
Found at i:85762550 original size:17 final size:17
Alignment explanation
Indices: 85762524--85762566 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
85762514 CTTTCATTTT
*
85762524 TTATTACTTTTTTATTA
1 TTATTACTTTATTATTA
*
85762541 TTATTTCTTTATTATTA
1 TTATTACTTTATTATTA
85762558 TT-TTACTTT
1 TTATTACTTT
85762567 GTTTCTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTACTTTATTATTA
Found at i:85764282 original size:6 final size:6
Alignment explanation
Indices: 85764267--85764331 Score: 94
Period size: 6 Copynumber: 10.8 Consensus size: 6
85764257 ATTGAGTCCA
* * *
85764267 TTTATC TTTATG TTTATG TTTATG TTTATT TTTATG TTTATG TTTATT
1 TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG
*
85764315 TTTATT TTTATG TTTAT
1 TTTATG TTTATG TTTAT
85764332 TTTGTCTTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.17, C:0.02, G:0.09, T:0.72
Consensus pattern (6 bp):
TTTATG
Found at i:85764294 original size:18 final size:18
Alignment explanation
Indices: 85764267--85764334 Score: 109
Period size: 18 Copynumber: 3.8 Consensus size: 18
85764257 ATTGAGTCCA
* *
85764267 TTTATCTTTATGTTTATG
1 TTTATGTTTATTTTTATG
85764285 TTTATGTTTATTTTTATG
1 TTTATGTTTATTTTTATG
*
85764303 TTTATGTTTATTTTTATT
1 TTTATGTTTATTTTTATG
85764321 TTTATGTTTATTTT
1 TTTATGTTTATTTT
85764335 GTCTTTATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.16, C:0.01, G:0.09, T:0.74
Consensus pattern (18 bp):
TTTATGTTTATTTTTATG
Found at i:85770597 original size:41 final size:41
Alignment explanation
Indices: 85770546--85770654 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 41
85770536 CACTGACTCA
*
85770546 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCC
* * * * * * * * *
85770587 GAAGGCCCTTCAAAACTAGGTTCGG-GTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCC
85770627 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
85770655 TAAACCCCAA
Statistics
Matches: 49, Mismatches: 18, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
40 30 0.61
41 19 0.39
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCCC
Found at i:85778861 original size:40 final size:41
Alignment explanation
Indices: 85778772--85778921 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
85778762 CGCTGACTCA
* *
85778772 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
85778813 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
85778853 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
85778894 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
85778922 TAAACCCCGA
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 32 0.34
41 62 0.66
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:85787483 original size:17 final size:17
Alignment explanation
Indices: 85787454--85787486 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
85787444 CAGAATCGGG
85787454 TTGAGAAAATTATTTAC
1 TTGAGAAAATTATTTAC
85787471 TTGA-AAAAGTTATTTA
1 TTGAGAAAA-TTATTTA
85787487 TTTATATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (17 bp):
TTGAGAAAATTATTTAC
Found at i:85788510 original size:13 final size:13
Alignment explanation
Indices: 85788492--85788516 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85788482 TAAATGAAAA
85788492 ATTATTTATTTTT
1 ATTATTTATTTTT
85788505 ATTATTTATTTT
1 ATTATTTATTTT
85788517 CTAAGATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTATTTATTTTT
Found at i:85792132 original size:51 final size:49
Alignment explanation
Indices: 85792082--85792264 Score: 195
Period size: 50 Copynumber: 3.7 Consensus size: 49
85792072 CTGGTACGTA
* *
85792082 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
** ** * *
85792131 TAGTAGCCTGCACTTAGTACTACACACGTTACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * ***
85792181 TGGTAGCCTGCACTTAGTACTACACACGTGATCACAATTTTCGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATTATCCGGTACACG
*
85792232 TAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
85792265 TCACAATAGA
Statistics
Matches: 110, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
49 30 0.27
50 42 0.38
51 37 0.34
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:85795785 original size:46 final size:45
Alignment explanation
Indices: 85795735--85796096 Score: 355
Period size: 46 Copynumber: 7.8 Consensus size: 45
85795725 TGGTTGAGCA
85795735 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
85795781 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATTGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TA-TG-GA-T-GCGAAG
85795828 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
85795874 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATTGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TA-TG-GA-T-GCGAAG
85795921 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
85795967 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATTGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TA-TG-GA-T-GCGAAG
85796014 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
85796060 CCCGAGCTCGTTGATTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85796097 GCGGGTTACA
Statistics
Matches: 262, Mismatches: 27, Indels: 54
0.76 0.08 0.16
Matches are distributed among these distances:
43 3 0.01
44 9 0.03
45 6 0.02
46 130 0.50
47 96 0.37
48 6 0.02
49 9 0.03
50 3 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:85795850 original size:47 final size:47
Alignment explanation
Indices: 85795781--85796042 Score: 310
Period size: 47 Copynumber: 5.6 Consensus size: 47
85795771 GATGCGAATG
85795781 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAATTGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAATTGTAACTAGGCA
* * * *
85795828 TCCGAACTCGTTGAGTTGAGTCCGAGTTC---ACTTATGGA-T-GCGAA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAATTGT-AACTAG-GCA
85795872 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAATTGTAACTAGGCA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAATTGTAACTAGGCA
* * * *
85795921 TCCGAACTCGTTGAGTTGAGTCCGAGTTC---ACTTATGGA-T-GCGAA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAATTGT-AACTAG-GCA
85795965 TGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAATTGTAACTAGGCA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAATTGTAACTAGGCA
85796014 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
85796043 ACTTATGGAT
Statistics
Matches: 181, Mismatches: 16, Indels: 36
0.78 0.07 0.15
Matches are distributed among these distances:
43 2 0.01
44 14 0.08
45 2 0.01
46 58 0.32
47 87 0.48
48 2 0.01
49 14 0.08
50 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAATTGTAACTAGGCA
Found at i:85795891 original size:93 final size:93
Alignment explanation
Indices: 85795732--85796088 Score: 678
Period size: 93 Copynumber: 3.8 Consensus size: 93
85795722 GGATGGTTGA
85795732 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
85795797 TGAGTCCGAGTTCGTGAATTGTAACTAG
66 TGAGTCCGAGTTCGTGAATTGTAACTAG
85795825 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
85795890 TGAGTCCGAGTTCGTGAATTGTAACTAG
66 TGAGTCCGAGTTCGTGAATTGTAACTAG
85795918 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
85795983 TGAGTCCGAGTTCGTGAATTGTAACTAG
66 TGAGTCCGAGTTCGTGAATTGTAACTAG
* * * *
85796011 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGATT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
85796076 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
85796089 ACTTATGGGC
Statistics
Matches: 260, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 260 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAATTGTAACTAG
Found at i:85801539 original size:24 final size:23
Alignment explanation
Indices: 85801510--85801578 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 23
85801500 AAATGATTAA
85801510 GACTATAGTTGAAAGACACTATG
1 GACTATAGTTGAAAGACACTATG
* * * * *
85801533 GTACTATACTGGAAATA-AATA-A
1 G-ACTATAGTTGAAAGACACTATG
*
85801555 GACCATAGTTGAAAGACACTATG
1 GACTATAGTTGAAAGACACTATG
85801578 G
1 G
85801579 CACCATACTA
Statistics
Matches: 32, Mismatches: 11, Indels: 6
0.65 0.22 0.12
Matches are distributed among these distances:
21 11 0.34
22 4 0.12
23 5 0.16
24 12 0.38
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (23 bp):
GACTATAGTTGAAAGACACTATG
Found at i:85801563 original size:45 final size:45
Alignment explanation
Indices: 85801498--85801854 Score: 217
Period size: 45 Copynumber: 7.9 Consensus size: 45
85801488 TTGGCTTGAA
* * * *
85801498 GGAAATGATTAAGACTATAGTTGAAAGACACTATGGTACTATACT
1 GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCATACT
*
85801543 GGAAATAAATAAGACCATAGTTGAAAGACACTATGGCACCATACT
1 GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCATACT
* * * * * ** * *
85801588 AGAAACGAGTAAGACCATAGCTAAAAGACGTTATGGCATCACGA-T
1 GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCA-TACT
*** * *
85801633 -TTTATCAAGTAAGACCATAGCTGAAAGACACTATGGCATCACGA-AC-
1 GGAAATGAA-TAAGACCATAGTTGAAAGACACTATGGCA-C-C-ATACT
* ** * * * *
85801679 -CAAACCAATAAGACCATAGTTGACAGATACTATGGCAACACGAC-
1 GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCA-TACT
* * *
85801723 GGAAAATGAAAAAGACCATAGTTGAAAGAAACTATGGCAACATGA-T
1 GG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCACCAT-ACT
* * * * *
85801769 GGAAAATGAATAAGACTATGGTTGAAAGACATTATGGCATCA-AGT
1 GG-AAATGAATAAGACCATAGTTGAAAGACACTATGGCACCATACT
* * ** *
85801814 CGAGAATAAATAAGACCACGGTTGAAAGACACCATGGCACC
1 GGA-AATGAATAAGACCATAGTTGAAAGACACTATGGCACC
85801855 CTCCGATCAT
Statistics
Matches: 245, Mismatches: 53, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 6 0.02
45 158 0.64
46 77 0.31
47 1 0.00
48 1 0.00
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (45 bp):
GGAAATGAATAAGACCATAGTTGAAAGACACTATGGCACCATACT
Found at i:85801747 original size:46 final size:46
Alignment explanation
Indices: 85801643--85801807 Score: 163
Period size: 46 Copynumber: 3.6 Consensus size: 46
85801633 TTTATCAAGT
* * * * ** *
85801643 AAGACCATAGCTGAAAGACACTATGGCATCACGAAC--CAAACCAAT
1 AAGACCATAGTTGAAAGAAACTATGGCAACACG-ACGGAAAATGAAA
* *
85801688 AAGACCATAGTTGACAGATACTATGGCAACACGACGGAAAATGAAA
1 AAGACCATAGTTGAAAGAAACTATGGCAACACGACGGAAAATGAAA
* * *
85801734 AAGACCATAGTTGAAAGAAACTATGGCAACATGATGGAAAATGAAT
1 AAGACCATAGTTGAAAGAAACTATGGCAACACGACGGAAAATGAAA
* * * *
85801780 AAGACTATGGTTGAAAGACATTATGGCA
1 AAGACCATAGTTGAAAGAAACTATGGCA
85801808 TCAAGTCGAG
Statistics
Matches: 101, Mismatches: 17, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
44 2 0.02
45 29 0.29
46 70 0.69
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.18
Consensus pattern (46 bp):
AAGACCATAGTTGAAAGAAACTATGGCAACACGACGGAAAATGAAA
Found at i:85803855 original size:8 final size:8
Alignment explanation
Indices: 85803842--85803866 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
85803832 CATATTTATG
85803842 CAAAATTA
1 CAAAATTA
85803850 CAAAATTA
1 CAAAATTA
85803858 CAAAATTA
1 CAAAATTA
85803866 C
1 C
85803867 CCCTAATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (8 bp):
CAAAATTA
Found at i:85807045 original size:40 final size:40
Alignment explanation
Indices: 85807008--85807912 Score: 1674
Period size: 40 Copynumber: 22.6 Consensus size: 40
85806998 GCTACTCGTT
* *
85807008 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
85807048 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807088 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807128 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807168 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807208 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807248 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807288 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807328 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807368 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807408 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807448 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807488 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807528 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807568 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807608 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807648 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807688 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807728 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807768 CAAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
85807807 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
85807847 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
85807888 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
85807913 CATCATTCAA
Statistics
Matches: 851, Mismatches: 9, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
39 42 0.05
40 796 0.94
41 13 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:85815753 original size:48 final size:48
Alignment explanation
Indices: 85815623--85815801 Score: 180
Period size: 48 Copynumber: 3.7 Consensus size: 48
85815613 ATTTATGAGA
* * * * * *
85815623 GCCAGTGTAAGACCATGTCTGAGACATGGCATCGACATGGATATGAGA
1 GCCAGTGTAAGACCATATCTGGGACATGGCATCGGCATCGATATGTGT
* * **
85815671 GCCAGTATAAGACCATGTCTGGGACATAACATCGGCATCGATATGTGT
1 GCCAGTGTAAGACCATATCTGGGACATGGCATCGGCATCGATATGTGT
* * * * *
85815719 GCCAGTGTAAGACCATATCTAGGATATGGCATCGGCCTTGGTATGTGAT
1 GCCAGTGTAAGACCATATCTGGGACATGGCATCGGCATCGATATGTG-T
** *
85815768 TTCA-TGTAAGACCATATCTGGGATATGGCATCGG
1 GCCAGTGTAAGACCATATCTGGGACATGGCATCGG
85815802 TATGTAGACC
Statistics
Matches: 110, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 107 0.97
49 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (48 bp):
GCCAGTGTAAGACCATATCTGGGACATGGCATCGGCATCGATATGTGT
Found at i:85818427 original size:45 final size:45
Alignment explanation
Indices: 85818377--85818464 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
85818367 CCAAAACATG
* *
85818377 TGTCACATGCATTATGAACTCAGACCACAACTCAATGAGTTCAAA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAAA
*
85818422 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCA
85818465 GATCGCATAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAAA
Found at i:85818465 original size:21 final size:21
Alignment explanation
Indices: 85818396--85818466 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
85818386 CATTATGAAC
85818396 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
* * * **
85818417 TCAAATGTCACATATATC-ATGAAC
1 TCAGA--CCACA-A-CTCAATGAGT
85818441 TCAGACCACAACTCAATGAGT
1 TCAGACCACAACTCAATGAGT
85818462 TCAGA
1 TCAGA
85818467 TCGCATAGTT
Statistics
Matches: 35, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
20 2 0.06
21 14 0.40
22 4 0.11
23 4 0.11
24 9 0.26
25 2 0.06
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.23
Consensus pattern (21 bp):
TCAGACCACAACTCAATGAGT
Found at i:85820090 original size:31 final size:31
Alignment explanation
Indices: 85820052--85820130 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
85820042 TTTAACGGTT
85820052 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
85820083 ACTGGGCCGAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
85820114 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
85820131 ACTGTAAACG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:85823393 original size:26 final size:26
Alignment explanation
Indices: 85823364--85823471 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
85823354 TGGTACAAAT
85823364 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
85823390 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85823416 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
85823442 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85823468 TGAT
1 TGAT
85823472 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:85827216 original size:27 final size:26
Alignment explanation
Indices: 85827153--85827238 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 26
85827143 AGCATGACTG
* * *
85827153 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGATCAGATAATGTGGCAGAGCCA
*
85827179 CCAAATACAGATAATCGTGGCAGAGCCA
1 CCAGAT-CAGATAAT-GTGGCAGAGCCA
* *
85827207 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGATCAGATA-ATGTGGCAGAGCCA
85827234 CCAGA
1 CCAGA
85827239 ACGCTTCCTC
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
26 4 0.08
27 30 0.60
28 16 0.32
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGATCAGATAATGTGGCAGAGCCA
Found at i:85828895 original size:26 final size:26
Alignment explanation
Indices: 85828857--85828966 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
85828847 CATGAAATTC
*
85828857 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
85828883 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
85828909 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
* *
85828935 TTATCATTGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
85828961 TTATCA
1 TTATCA
85828967 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:85831258 original size:20 final size:18
Alignment explanation
Indices: 85831229--85831273 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
85831219 AACGAAAAGC
85831229 AGGG-AAAGAAAGAAAGAA
1 AGGGAAAAGAAAG-AAGAA
85831247 AGGAGAAAAGAAAGAAGAA
1 AGG-GAAAAGAAAGAAGAA
85831266 AGGGAAAA
1 AGGGAAAA
85831274 TTGAATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 9 0.36
20 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AGGGAAAAGAAAGAAGAA
Found at i:85832584 original size:42 final size:42
Alignment explanation
Indices: 85832538--85832648 Score: 152
Period size: 42 Copynumber: 2.6 Consensus size: 42
85832528 CATAGTTCAA
*
85832538 CTATGGTCTTACACATCTTCACATAAT-GATGCCATAACCCAG
1 CTATGGTCTTACACATATTCACAT-ATCGATGCCATAACCCAG
* **
85832580 CTATGGTCTTACACATATTCATATATCGATGCCATAGTCCAG
1 CTATGGTCTTACACATATTCACATATCGATGCCATAACCCAG
* *
85832622 CTATGGTCTTACACGTAATCACATATC
1 CTATGGTCTTACACATATTCACATATC
85832649 ACATATCGAT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 2 0.03
42 59 0.97
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (42 bp):
CTATGGTCTTACACATATTCACATATCGATGCCATAACCCAG
Found at i:85832684 original size:48 final size:48
Alignment explanation
Indices: 85832591--85832779 Score: 169
Period size: 47 Copynumber: 4.0 Consensus size: 48
85832581 TATGGTCTTA
*
85832591 CACATATTCATATATCGATGCCATAGTCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGTCCAGCTATGGTCTTACACG-AAT
*
85832641 CACATATCACATATCGATGCCATAGT-CAGCTATGGTTTTACACGAAT
1 CACATATCACATATCGATGCCATAGTCCAGCTATGGTCTTACACGAAT
* * * * *
85832688 CACATATCTCA-CT-GATGCCATA-TCCCAGATATGGTCATATACA-GTAG
1 CACATATCACATATCGATGCCATAGT-CCAGCTATGGTC-T-TACACGAAT
* * * *
85832735 CATATATCACA-CT-GATGCCATA-TCCCAGATATGGTCTTATACGAA
1 CACATATCACATATCGATGCCATAGT-CCAGCTATGGTCTTACACGAA
85832780 AATCACTTGT
Statistics
Matches: 122, Mismatches: 12, Indels: 14
0.82 0.08 0.09
Matches are distributed among these distances:
44 1 0.01
45 12 0.10
46 13 0.11
47 50 0.41
48 21 0.17
49 19 0.16
50 6 0.05
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGTCCAGCTATGGTCTTACACGAAT
Found at i:85832830 original size:31 final size:31
Alignment explanation
Indices: 85832795--85832912 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
85832785 CTTGTCACTT
*
85832795 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
85832826 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
85832857 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
85832888 GTAGCCGAAGCTACCACTTCTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
85832913 TGTCATTTGT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 79 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:85832993 original size:50 final size:51
Alignment explanation
Indices: 85832888--85833016 Score: 206
Period size: 50 Copynumber: 2.5 Consensus size: 51
85832878 CACTGATCAG
* * *
85832888 GTAGCCGAAGCTACCACTTCTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
*
85832939 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
*
85832989 GTAGCCGAAGCTATTACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
85833017 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 47 0.65
51 25 0.35
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
Found at i:85835398 original size:18 final size:19
Alignment explanation
Indices: 85835364--85835400 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
85835354 TAATGTAAAG
*
85835364 TGAATTGAAATATATATAT
1 TGAACTGAAATATATATAT
85835383 TGAACTGAAA-ATATATAT
1 TGAACTGAAATATATATAT
85835401 GATTAGCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.38
Consensus pattern (19 bp):
TGAACTGAAATATATATAT
Found at i:85835639 original size:51 final size:53
Alignment explanation
Indices: 85835557--85835668 Score: 133
Period size: 51 Copynumber: 2.1 Consensus size: 53
85835547 TGTCGCCTTC
* *
85835557 CTGTTACTGTTCCGGATTCGTTCCGAAGAGGTA-TTT-TATAC-CTTACTGTTA
1 CTGTTACTGTTCCGAATTCGTTCCCAAGAGGTACTTTGTATACTC-TACTGTTA
* *
85835608 CTGTTACTGTTCCGAATTTG-TCCCAATGAGGTACTTTGTGTACTGCTACTGTTA
1 CTGTTACTGTTCCGAATTCGTTCCCAA-GAGGTACTTTGTATACT-CTACTGTTA
85835662 CTGTTAC
1 CTGTTAC
85835669 CGTTACTGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
50 5 0.10
51 24 0.46
52 3 0.06
53 4 0.08
54 15 0.29
55 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.41
Consensus pattern (53 bp):
CTGTTACTGTTCCGAATTCGTTCCCAAGAGGTACTTTGTATACTCTACTGTTA
Found at i:85835663 original size:6 final size:6
Alignment explanation
Indices: 85835648--85835682 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
85835638 GTACTTTGTG
* *
85835648 TACTGC TACTGT TACTGT TACCGT TACTGT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG
85835683 ATACAGTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (6 bp):
TACTGT
Found at i:85835817 original size:18 final size:18
Alignment explanation
Indices: 85835794--85835857 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
85835784 TAAATAAATG
*
85835794 TACTGAATAATTGACTAT
1 TACTGAATAATTGACTGT
*
85835812 TACTGAA-AGACTGACTGT
1 TACTGAATA-ATTGACTGT
* *
85835830 TACCGAATAATTGACCGT
1 TACTGAATAATTGACTGT
85835848 TACTGAATAA
1 TACTGAATAA
85835858 CCAATTGCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
17 1 0.03
18 36 0.95
19 1 0.03
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (18 bp):
TACTGAATAATTGACTGT
Found at i:85837653 original size:33 final size:33
Alignment explanation
Indices: 85837616--85837693 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
85837606 TGCCGCTGAC
* *
85837616 ATGGTCTTACACTC-GTAATGCCATAACCTAGTT
1 ATGGTCTTACACTCAG-AATGCCATAACCCAGCT
* *
85837649 ATGGTCTTATCA-TCAGGATGCCATAGCCCAGCT
1 ATGGTCTTA-CACTCAGAATGCCATAACCCAGCT
85837682 ATGGTCTTACAC
1 ATGGTCTTACAC
85837694 ATATACATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
32 2 0.05
33 33 0.87
34 3 0.08
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (33 bp):
ATGGTCTTACACTCAGAATGCCATAACCCAGCT
Found at i:85838916 original size:15 final size:16
Alignment explanation
Indices: 85838884--85838916 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
85838874 ATTAACAAGT
85838884 TTTAGACCTTTTTCAA
1 TTTAGACCTTTTTCAA
*
85838900 TTTAGTCCTTTTT-AA
1 TTTAGACCTTTTTCAA
85838915 TT
1 TT
85838917 AATTAACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.21, C:0.15, G:0.06, T:0.58
Consensus pattern (16 bp):
TTTAGACCTTTTTCAA
Found at i:85844056 original size:21 final size:21
Alignment explanation
Indices: 85844030--85844071 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
85844020 AGGCCGTGTG
85844030 TCACACACAGCTAAGACACAT
1 TCACACACAGCTAAGACACAT
85844051 TCACACACAGCTAAGACACAT
1 TCACACACAGCTAAGACACAT
85844072 GCCCGTGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.33, G:0.10, T:0.14
Consensus pattern (21 bp):
TCACACACAGCTAAGACACAT
Found at i:85849376 original size:3 final size:3
Alignment explanation
Indices: 85849368--85849409 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
85849358 CATTAAGGTT
85849368 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
85849410 ATGCTCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:85856248 original size:40 final size:39
Alignment explanation
Indices: 85856193--85856270 Score: 129
Period size: 40 Copynumber: 2.0 Consensus size: 39
85856183 AAAATAGGGG
* *
85856193 ACAATAAAGGTTTACGCAATTTAGTTTCCCTCCATCTAA
1 ACAATAAAGGTTTACGCAATTTAGTCTCCCTACATCTAA
85856232 NACAATAAAGGTTTACGCAATTTAGTCTCCCTACATCTA
1 -ACAATAAAGGTTTACGCAATTTAGTCTCCCTACATCTA
85856271 CGGAGTCTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.32
Consensus pattern (39 bp):
ACAATAAAGGTTTACGCAATTTAGTCTCCCTACATCTAA
Found at i:85857121 original size:20 final size:19
Alignment explanation
Indices: 85856976--85857143 Score: 77
Period size: 20 Copynumber: 8.8 Consensus size: 19
85856966 AAATCATTCG
*
85856976 AAAATCATAAAAATAT-TTA
1 AAAATTATAAAAAT-TGTTA
* *
85856995 AAAATGAAAAAAATTG-TA
1 AAAATTATAAAAATTGTTA
**
85857013 AAAATTAT-AAAATT-TCC
1 AAAATTATAAAAATTGTTA
85857030 AAAATTATTTAGAAAA-T-TTA
1 AAAATTA--TA-AAAATTGTTA
* * *
85857050 AAATTTATTTAAAAATATATAA
1 AAAATTA--TAAAAAT-TGTTA
*
85857072 AAAATT-T--AAGTTGTTTA
1 AAAATTATAAAAATTG-TTA
85857089 AAAATTA-AAAAATTGTTA
1 AAAATTATAAAAATTGTTA
*
85857107 AAAATTTATAAAAATTGTAAA
1 AAAA-TTATAAAAATTGT-TA
85857128 AAAATTATAATAAATT
1 AAAATTATAA-AAATT
85857144 TAAAATATAA
Statistics
Matches: 116, Mismatches: 16, Indels: 32
0.71 0.10 0.20
Matches are distributed among these distances:
16 1 0.01
17 24 0.21
18 16 0.14
19 26 0.22
20 27 0.23
21 15 0.13
22 7 0.06
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (19 bp):
AAAATTATAAAAATTGTTA
Found at i:85857130 original size:10 final size:9
Alignment explanation
Indices: 85856983--85857148 Score: 63
Period size: 9 Copynumber: 17.6 Consensus size: 9
85856973 TCGAAAATCA
85856983 TAAAAATATT
1 TAAAAA-ATT
*
85856993 T-AAAAATG
1 TAAAAAATT
*
85857001 AAAAAAATT
1 TAAAAAATT
85857010 GT-AAAAA-T
1 -TAAAAAATT
*
85857018 TATAAAATT
1 TAAAAAATT
*
85857027 TCCAAAATTATT
1 T--AAAA-AATT
*
85857039 TAGAAAATT
1 TAAAAAATT
*
85857048 TAAAATTTATT
1 TAAAA--AATT
*
85857059 TAAAAATATA
1 TAAAAA-ATT
85857069 TAAAAAATT
1 TAAAAAATT
****
85857078 TAAGTTGTT
1 TAAAAAATT
85857087 T-AAAAA-T
1 TAAAAAATT
85857094 TAAAAAATT
1 TAAAAAATT
*
85857103 GTTAAAAATT
1 -TAAAAAATT
85857113 TATAAAAATT
1 TA-AAAAATT
85857123 GTAAAAAAATT
1 -T-AAAAAATT
*
85857134 ATAATAAATT
1 -TAAAAAATT
85857144 TAAAA
1 TAAAA
85857149 TATAAAAAAT
Statistics
Matches: 113, Mismatches: 27, Indels: 33
0.65 0.16 0.19
Matches are distributed among these distances:
7 3 0.03
8 13 0.12
9 38 0.34
10 34 0.30
11 20 0.18
12 5 0.04
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.36
Consensus pattern (9 bp):
TAAAAAATT
Found at i:85857147 original size:20 final size:20
Alignment explanation
Indices: 85857088--85857148 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
85857078 TAAGTTGTTT
*
85857088 AAAAATTA-AAAAATTGTTA
1 AAAAATTATAAAAATTGTAA
*
85857107 AAAATTTATAAAAATTGTAA
1 AAAAATTATAAAAATTGTAA
85857127 AAAAATTATAATAAATT-TAA
1 AAAAATTATAA-AAATTGTAA
85857147 AA
1 AA
85857149 TATAAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.19
20 25 0.68
21 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAAATTATAAAAATTGTAA
Found at i:85868273 original size:47 final size:47
Alignment explanation
Indices: 85868099--85868415 Score: 481
Period size: 47 Copynumber: 6.6 Consensus size: 47
85868089 CCCTTCGGGA
* * * * * *
85868099 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-C
85868147 CTGTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85868197 CTTATCACACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
85868246 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85868293 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
85868340 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
85868389 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
85868416 TATTCAAATA
Statistics
Matches: 252, Mismatches: 10, Indels: 15
0.91 0.04 0.05
Matches are distributed among these distances:
47 114 0.45
48 2 0.01
49 98 0.39
50 3 0.01
51 35 0.14
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:85868361 original size:143 final size:146
Alignment explanation
Indices: 85868099--85868415 Score: 514
Period size: 143 Copynumber: 2.2 Consensus size: 146
85868089 CCCTTCGGGA
* * * * *
85868099 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTATCACATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTGTATCACA-ATATAT
85868164 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATATACACTTTCACATTCAT
65 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATATACACTTTCACATTCAT
85868229 CACATCGGCCATTAGGC
130 CACATCGGCCATTAGGC
* *
85868246 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGG-CCT-TATCAC-ATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTGTATCACAATATATA
*
85868308 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
66 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATATACACTTTCACATTCATC
* *
85868373 ACATTGGCCATTCGGC
131 ACATCGGCCATTAGGC
85868389 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
85868416 TATTCAAATA
Statistics
Matches: 160, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
143 112 0.70
145 6 0.04
146 3 0.02
147 39 0.24
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (146 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCCTGTATCACAATATATA
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATATACACTTTCACATTCATC
ACATCGGCCATTAGGC
Found at i:85879557 original size:41 final size:41
Alignment explanation
Indices: 85879446--85879718 Score: 371
Period size: 41 Copynumber: 6.8 Consensus size: 41
85879436 AAATAGGGCT
*
85879446 TTAGCGGCGCTTTTAGTAAAACGCCGCTAAAAGACAGAGCA
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGACAGAGCA
*
85879487 CTAGCGGCGCTTTTGG---AA---CGCTAAAAGACAGAGCA
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGACAGAGCA
* * *
85879522 TTAGCAGTGCTTTTGGTAAAACGCCACTAAAAGACAGAG-A
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGACAGAGCA
*
85879562 CGTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGACAGAGCA
1 -TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGACAGAGCA
*
85879604 TTAGCGGCGCTTTTGGTAAAACGCTGCTAAAAGACAGAGCA
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGACAGAGCA
* * * *
85879645 GTAGCGACACTTTTGGTAAAACGCCACTAAAAGACAGAGCA
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGACAGAGCA
* *
85879686 TTAGCGACGCTTTTGGTAAAACACCGCTAAAAG
1 TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAG
85879719 TCATATAACT
Statistics
Matches: 203, Mismatches: 21, Indels: 16
0.85 0.09 0.07
Matches are distributed among these distances:
35 30 0.15
38 4 0.02
40 1 0.00
41 167 0.82
42 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGACAGAGCA
Found at i:85879752 original size:16 final size:16
Alignment explanation
Indices: 85879731--85879772 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
85879721 ATATAACTCT
85879731 TAAAATCTTAAACCCC
1 TAAAATCTTAAACCCC
**
85879747 TAAAATAGTAAACCCC
1 TAAAATCTTAAACCCC
85879763 T-AAATCTTAA
1 TAAAATCTTAA
85879773 CAAGCCATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.48, C:0.24, G:0.02, T:0.26
Consensus pattern (16 bp):
TAAAATCTTAAACCCC
Found at i:85880318 original size:24 final size:24
Alignment explanation
Indices: 85880288--85880337 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
85880278 CGTATATTTA
*
85880288 TTAAAAGTTTATAAAAAAATTAAT
1 TTAAAAGTCTATAAAAAAATTAAT
*
85880312 TTAAAAGTCTATATAAAAATTAAT
1 TTAAAAGTCTATAAAAAAATTAAT
85880336 TT
1 TT
85880338 TTATTTTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (24 bp):
TTAAAAGTCTATAAAAAAATTAAT
Found at i:85880651 original size:22 final size:21
Alignment explanation
Indices: 85880626--85880676 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
85880616 ACTATTTTAA
85880626 GGTTTATGAATTATGGATTAT
1 GGTTTATGAATTATGGATTAT
* *
85880647 GGGTTTATGGATTATGGTTTAT
1 -GGTTTATGAATTATGGATTAT
*
85880669 AGTTTATG
1 GGTTTATG
85880677 GTTTAAGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (21 bp):
GGTTTATGAATTATGGATTAT
Found at i:85880673 original size:7 final size:7
Alignment explanation
Indices: 85880621--85880766 Score: 62
Period size: 7 Copynumber: 20.6 Consensus size: 7
85880611 GAGTTACTAT
*
85880621 TTTAAGG
1 TTTATGG
*
85880628 TTTATGA
1 TTTATGG
*
85880635 ATTATGG
1 TTTATGG
*
85880642 ATTATGGG
1 TTTAT-GG
85880650 TTTATGG
1 TTTATGG
*
85880657 ATTATGG
1 TTTATGG
*
85880664 TTTATAG
1 TTTATGG
85880671 TTTATGG
1 TTTATGG
*
85880678 TTTAAGG
1 TTTATGG
* **
85880685 GTTGGGG
1 TTTATGG
*
85880692 TTTAAGG
1 TTTATGG
85880699 TTTA-GG
1 TTTATGG
*
85880705 TGTTAGGG
1 T-TTATGG
* *
85880713 ATTAGGG
1 TTTATGG
*
85880720 GTTATGG
1 TTTATGG
*
85880727 GTTATGGG
1 TTTAT-GG
*
85880735 TTTAAGG
1 TTTATGG
*
85880742 GTTAT-G
1 TTTATGG
*
85880748 TTGTATGA
1 TT-TATGG
*
85880756 TTTAGGG
1 TTTATGG
85880763 TTTA
1 TTTA
85880767 GGAGATAAAA
Statistics
Matches: 106, Mismatches: 27, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
6 5 0.05
7 86 0.81
8 15 0.14
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (7 bp):
TTTATGG
Found at i:85882830 original size:25 final size:25
Alignment explanation
Indices: 85882795--85882867 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
85882785 TGCATCATCG
*
85882795 TCGGCAGCCCTCTGCTACTTCTCCA
1 TCGGCATCCCTCTGCTACTTCTCCA
* ** * *
85882820 TTGGCATCCCTCTTTTACATCTCCG
1 TCGGCATCCCTCTGCTACTTCTCCA
*
85882845 TCGGCATCCCTCTGCTGCTTCTC
1 TCGGCATCCCTCTGCTACTTCTC
85882868 TAGTTTTCTG
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.10, C:0.41, G:0.15, T:0.34
Consensus pattern (25 bp):
TCGGCATCCCTCTGCTACTTCTCCA
Found at i:85885336 original size:240 final size:241
Alignment explanation
Indices: 85884911--85885344 Score: 789
Period size: 240 Copynumber: 1.8 Consensus size: 241
85884901 ATGAATTAAT
* *
85884911 TTTATTACCATGTAGCTTTCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACTTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAC-TA
85884976 TTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGA
65 TTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGA
** *
85885041 GCTGTAAGATATAATGGATCCTCCCTAGGTGTTACAACGCCATGTATGATGAATCTTAAAAAATT
130 GCTGTAAGATATAATGGATCCTCCCTAGGTGCAACAACGCCACGTATGATGAATCTTAAAAAATT
85885106 CAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
195 CAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
85885153 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAAC-AT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACTAT
*
85885217 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGTTGGAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
85885282 CTGTAAGATATAATGGATCCTCCTTAGGTGCAACAACGCCACGTATGATGAATCTTAAAAAAT
131 CTGTAAGATATAATGGATCCTCCCTAGGTGCAACAACGCCACGTATGATGAATCTTAAAAAAT
85885345 AACTTACATA
Statistics
Matches: 185, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
240 124 0.67
242 61 0.33
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACTAT
TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGCAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:85885357 original size:9 final size:9
Alignment explanation
Indices: 85885343--85885401 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
85885333 ATCTTAAAAA
85885343 ATAACTTAC
1 ATAACTTAC
*
85885352 ATAACTCAC
1 ATAACTTAC
85885361 ATAACTTAC
1 ATAACTTAC
*
85885370 ATAATTTAC
1 ATAACTTAC
*
85885379 ATAACTCAC
1 ATAACTTAC
*
85885388 ATAACGTAC
1 ATAACTTAC
85885397 ATAAC
1 ATAAC
85885402 AACTGACGGA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.29
Consensus pattern (9 bp):
ATAACTTAC
Found at i:85885381 original size:27 final size:27
Alignment explanation
Indices: 85885343--85885401 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
85885333 ATCTTAAAAA
*
85885343 ATAACTTACATAACTCACATAACTTAC
1 ATAACTTACATAACTCACATAACGTAC
*
85885370 ATAATTTACATAACTCACATAACGTAC
1 ATAACTTACATAACTCACATAACGTAC
85885397 ATAAC
1 ATAAC
85885402 AACTGACGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.29
Consensus pattern (27 bp):
ATAACTTACATAACTCACATAACGTAC
Found at i:85891454 original size:43 final size:42
Alignment explanation
Indices: 85891406--85891583 Score: 108
Period size: 43 Copynumber: 4.1 Consensus size: 42
85891396 TCTGTTAAAA
* *
85891406 TTAGCGGCG-TTTGTGGGAAAAGCGCCGCTAAAAGCCATG-ACTT
1 TTAGCGGCGCTTTGTAGG--AAGCGCCGCTAAAAGACA-GCACTT
* *
85891449 TTAGCGGCGCTTTTTTAGGAATCGCCGCTAAAAGACAGCACTT
1 TTAGCGGCGC-TTTGTAGGAAGCGCCGCTAAAAGACAGCACTT
** * * * * * *
85891492 TTAGCGGCATTTTTTAGCAAACGACGCTAAAAAGCCTGCACTT
1 TTAGCGGCGCTTTGTAGGAAGCGCCGCT-AAAAGACAGCACTT
* * * ** * * *
85891535 TTAGCTGTGCTTTTTTAACAAACGTCGCTAAAAGCCAGCACTT
1 TTAGCGGCGC-TTTGTAGGAAGCGCCGCTAAAAGACAGCACTT
85891578 TTAGCG
1 TTAGCG
85891584 ACATTTTTTT
Statistics
Matches: 111, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
42 16 0.14
43 73 0.66
44 16 0.14
45 6 0.05
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (42 bp):
TTAGCGGCGCTTTGTAGGAAGCGCCGCTAAAAGACAGCACTT
Found at i:85891551 original size:86 final size:85
Alignment explanation
Indices: 85891431--85891592 Score: 227
Period size: 86 Copynumber: 1.9 Consensus size: 85
85891421 GGAAAAGCGC
** *
85891431 CGCTAAAAGCCATGACTTTTAGCGGCGCTTTTTTAGGAATCGCCGCTAAAAGACAGCACTTTTAG
1 CGCTAAAAGCCATGACTTTTAGCGGCGCTTTTTTAACAAACGCCGCTAAAAGACAGCACTTTTAG
*
85891496 CGGCATTTTTTAGCAAACGA
66 CGACATTTTTTAGCAAACGA
* * * *
85891516 CGCTAAAAAGCC-TGCACTTTTAGCTGTGCTTTTTTAACAAACGTCGCTAAAAGCCAGCACTTTT
1 CGCT-AAAAGCCATG-ACTTTTAGCGGCGCTTTTTTAACAAACGCCGCTAAAAGACAGCACTTTT
85891580 AGCGACATTTTTT
64 AGCGACATTTTTT
85891593 TAATAAACGT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
85 6 0.09
86 61 0.91
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (85 bp):
CGCTAAAAGCCATGACTTTTAGCGGCGCTTTTTTAACAAACGCCGCTAAAAGACAGCACTTTTAG
CGACATTTTTTAGCAAACGA
Found at i:85891592 original size:43 final size:42
Alignment explanation
Indices: 85891431--85891602 Score: 177
Period size: 43 Copynumber: 4.0 Consensus size: 42
85891421 GGAAAAGCGC
* ** * *
85891431 CGCTAAAAGCCATG-ACTTTTAGCGGCGCTTTTTTAGGAATCGC
1 CGCTAAAAGCCA-GCACTTTTAGCGGC-ATTTTTTAACAAACGT
* * *
85891474 CGCTAAAAGACAGCACTTTTAGCGGCATTTTTTAGCAAACGA
1 CGCTAAAAGCCAGCACTTTTAGCGGCATTTTTTAACAAACGT
*
85891516 CGCTAAAAAGCCTGCACTTTTAGCTGTGC-TTTTTTAACAAACGT
1 CGCT-AAAAGCCAGCACTTTTAGC-G-GCATTTTTTAACAAACGT
* *
85891560 CGCTAAAAGCCAGCACTTTTAGCGACATTTTTTTAATAAACGT
1 CGCTAAAAGCCAGCACTTTTAGCGGCA-TTTTTTAACAAACGT
85891603 TTGTGGCGTT
Statistics
Matches: 111, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.01
42 18 0.16
43 72 0.65
44 18 0.16
45 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (42 bp):
CGCTAAAAGCCAGCACTTTTAGCGGCATTTTTTAACAAACGT
Found at i:85895615 original size:23 final size:23
Alignment explanation
Indices: 85895589--85895663 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
85895579 AGGCACTTTA
85895589 TGTGTCGTATTTTAGGCACCTCG
1 TGTGTCGTATTTTAGGCACCTCG
*
85895612 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTTAGGCACCTCG
* **
85895633 TGTGTCG--TTTTAGGCACTTTA
1 TGTGTCGTATTTTAGGCACCTCG
85895654 TGTGTCGTAT
1 TGTGTCGTAT
85895664 ACTGATCAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 33 0.77
23 10 0.23
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (23 bp):
TGTGTCGTATTTTAGGCACCTCG
Found at i:85903490 original size:23 final size:23
Alignment explanation
Indices: 85903460--85903546 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
85903450 GCTTTACTGA
* *
85903460 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
85903483 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
85903504 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
85903526 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
85903547 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:85905057 original size:40 final size:40
Alignment explanation
Indices: 85905002--85905204 Score: 210
Period size: 40 Copynumber: 5.1 Consensus size: 40
85904992 TTATACTCTT
85905002 TATTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTC
1 TATTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTC
* *
85905042 TATTTGGCGTGTTTCGATTGGATCAGCTCTTATGAGCTTT
1 TATTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTC
* * ** * *
85905082 TGTTTGGTGTGTTTTTGTTGGATCAGCCCTTATGAGTTTC
1 TATTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTC
* * * *
85905122 TGTTTGGGGTGTTTCGATTGGATCAACTCTTATGAGGCTT-
1 TATTTGGCGTGTTTCGGTTGGATCAGCTCTTATGA-GCTTC
* * * * * * * *
85905162 TTTTTCGTGTGTTTCAGATGTATTAGCTCTTACGAGCTTC
1 TATTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTC
85905202 TAT
1 TAT
85905205 CTGGTCTGTT
Statistics
Matches: 133, Mismatches: 28, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
39 4 0.03
40 126 0.95
41 3 0.02
ACGTcount: A:0.14, C:0.15, G:0.26, T:0.46
Consensus pattern (40 bp):
TATTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTC
Found at i:85905137 original size:80 final size:80
Alignment explanation
Indices: 85904999--85905204 Score: 252
Period size: 80 Copynumber: 2.6 Consensus size: 80
85904989 GTGTTATACT
* * *
85904999 CTTTATTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTCTATTTGGCGTGTTTCGATTGGA
1 CTTTTTTTGGTGTGTTTCGGTTGGATCAGCCCTTATGAGCTTCTATTTGGCGTGTTTCGATTGGA
*
85905064 TCAGCTCTTATGA-G
66 TCAACTCTTATGAGG
** * * *
85905078 CTTTTGTTTGGTGTGTTTTTGTTGGATCAGCCCTTATGAGTTTCTGTTTGGGGTGTTTCGATTGG
1 CTTTT-TTTGGTGTGTTTCGGTTGGATCAGCCCTTATGAGCTTCTATTTGGCGTGTTTCGATTGG
85905143 ATCAACTCTTATGAGG
65 ATCAACTCTTATGAGG
* * * * * * *
85905159 CTTTTTTTCGTGTGTTTCAGATGTATTAGCTCTTACGAGCTTCTAT
1 CTTTTTTTGGTGTGTTTCGGTTGGATCAGCCCTTATGAGCTTCTAT
85905205 CTGGTCTGTT
Statistics
Matches: 106, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
79 4 0.04
80 96 0.91
81 6 0.06
ACGTcount: A:0.14, C:0.15, G:0.25, T:0.46
Consensus pattern (80 bp):
CTTTTTTTGGTGTGTTTCGGTTGGATCAGCCCTTATGAGCTTCTATTTGGCGTGTTTCGATTGGA
TCAACTCTTATGAGG
Found at i:85910468 original size:37 final size:37
Alignment explanation
Indices: 85910427--85910524 Score: 151
Period size: 37 Copynumber: 2.6 Consensus size: 37
85910417 AACGTGAATT
85910427 CGATGAGGCACTGGGTGTCAATTTGCTTCAGTTTAAC
1 CGATGAGGCACTGGGTGTCAATTTGCTTCAGTTTAAC
* *
85910464 CGATGAGGCACTGGGTATCAATTTGCTTCCGTTTAAC
1 CGATGAGGCACTGGGTGTCAATTTGCTTCAGTTTAAC
* * *
85910501 TGATGAGACACTAGGTGTCAATTT
1 CGATGAGGCACTGGGTGTCAATTT
85910525 ATATAGCGCT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (37 bp):
CGATGAGGCACTGGGTGTCAATTTGCTTCAGTTTAAC
Found at i:85918075 original size:18 final size:17
Alignment explanation
Indices: 85918033--85918090 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 17
85918023 AGCCCGAAAA
85918033 CCACATGCCCGTGT-G-
1 CCACATGCCCGTGTAGC
* *
85918048 --ACATGGCCGTGTGGTC
1 CCACATGCCCGTGTAG-C
85918064 CCACATGCCCGTGTAGC
1 CCACATGCCCGTGTAGC
*
85918081 CTACATGCCC
1 CCACATGCCC
85918091 AACTTGGCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
13 11 0.32
14 1 0.03
17 10 0.29
18 12 0.35
ACGTcount: A:0.16, C:0.38, G:0.26, T:0.21
Consensus pattern (17 bp):
CCACATGCCCGTGTAGC
Found at i:85937732 original size:47 final size:46
Alignment explanation
Indices: 85937650--85937742 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 46
85937640 TGTCTACCCA
*
85937650 TATGGACAAAAACAAGGCTATTTACCAAGCCATTTTGTCACCCTTC
1 TATGCACAAAAACAAGGCTATTTACCAAGCCATTTTGTCACCCTTC
*
85937696 TATGCACATAAAATAAGGCTATTTACCAAGCCATTTTGTCACCCTTC
1 TATGCACA-AAAACAAGGCTATTTACCAAGCCATTTTGTCACCCTTC
85937743 CGTTCACATA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 7 0.16
47 37 0.84
ACGTcount: A:0.32, C:0.26, G:0.12, T:0.30
Consensus pattern (46 bp):
TATGCACAAAAACAAGGCTATTTACCAAGCCATTTTGTCACCCTTC
Found at i:85937751 original size:47 final size:47
Alignment explanation
Indices: 85937658--85937752 Score: 154
Period size: 47 Copynumber: 2.0 Consensus size: 47
85937648 CATATGGACA
*
85937658 AAAACAAGGCTATTTACCAAGCCATTTTGTCACCCTTCTATGCACAT
1 AAAACAAGGCTATTTACCAAGCCATTTTGTCACCCTTCCATGCACAT
* * *
85937705 AAAATAAGGCTATTTACCAAGCCATTTTGTCACCCTTCCGTTCACAT
1 AAAACAAGGCTATTTACCAAGCCATTTTGTCACCCTTCCATGCACAT
85937752 A
1 A
85937753 CCTACACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.31
Consensus pattern (47 bp):
AAAACAAGGCTATTTACCAAGCCATTTTGTCACCCTTCCATGCACAT
Found at i:85938599 original size:42 final size:42
Alignment explanation
Indices: 85938484--85938605 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
85938474 TACCATACCA
* * *
85938484 ATGCCATATCCCAGATATGGTCTTACATG-GGATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATATCG
* * *
85938526 ATGCCAATAGCCCAGCTATGGTCTTATACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
* *
85938569 ATGTCATATCCCAAATATGGTCTTACACGAAGTCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCA
85938606 ATAACCCTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 33 0.49
43 33 0.49
44 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:85942945 original size:43 final size:43
Alignment explanation
Indices: 85942823--85942975 Score: 150
Period size: 43 Copynumber: 3.6 Consensus size: 43
85942813 ATATCATATT
* * * * *
85942823 CCAGATATGGTCTTACATGTTATCAC-ATATCGATGCCACTGTC
1 CCAGACATGGTCTTACATATAATCTCAATA-CGATGCCAATGTC
* * * *
85942866 CCAGACAGGGTCTTACACAAAATCGATTAAT--GATGCCAATGTC
1 CCAGACATGGTCTTACATATAATC--TCAATACGATGCCAATGTC
* *
85942909 CCAGACATGGTCTTACATGTAATCTCAATACAATGCCAATGTC
1 CCAGACATGGTCTTACATATAATCTCAATACGATGCCAATGTC
*
85942952 CCAAACATGGTCTTACATATAATC
1 CCAGACATGGTCTTACATATAATC
85942976 ACATATCGAT
Statistics
Matches: 88, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
41 4 0.05
43 82 0.93
46 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (43 bp):
CCAGACATGGTCTTACATATAATCTCAATACGATGCCAATGTC
Found at i:85948257 original size:22 final size:22
Alignment explanation
Indices: 85948227--85948269 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
85948217 ACACCAAAAC
*
85948227 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
85948249 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
85948270 AGCGCCACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:85948461 original size:42 final size:43
Alignment explanation
Indices: 85948341--85948519 Score: 216
Period size: 43 Copynumber: 4.2 Consensus size: 43
85948331 GCGTCGCTAA
* * *
85948341 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCACTTTTCCCACAAACGCCGCTATAGATCAGGAC
* *
85948384 CTTTAGCGACACTTTTCCCACAAATGCCGCTATAGATCAGGAC
1 CTTTAGCGGCACTTTTCCCACAAACGCCGCTATAGATCAGGAC
* *
85948427 CTTTAGCGGCACTTTT-ACACAAACGCCGCTATAGATCAAGAC
1 CTTTAGCGGCACTTTTCCCACAAACGCCGCTATAGATCAGGAC
* *** * * *
85948469 CTTTAGCGGCGCTTTTTTTATAAATGCCGCTATAGATCATGAC
1 CTTTAGCGGCACTTTTCCCACAAACGCCGCTATAGATCAGGAC
*
85948512 TTTTAGCG
1 CTTTAGCG
85948520 ACGTTTTTTT
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 38 0.32
43 81 0.68
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCACTTTTCCCACAAACGCCGCTATAGATCAGGAC
Found at i:85948470 original size:85 final size:86
Alignment explanation
Indices: 85948341--85948519 Score: 234
Period size: 85 Copynumber: 2.1 Consensus size: 86
85948331 GCGTCGCTAA
* * *
85948341 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGACCTTTAGCGACACTTTTCCCACA
1 CTTTAGCGGCACTTTTCACACAAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCACA
85948406 AATGCCGCTATAGATCAGGAC
66 AATGCCGCTATAGATCAGGAC
* * * * *** *
85948427 CTTTAGCGGCACTTTT-ACACAAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTTTATA
1 CTTTAGCGGCACTTTTCACACAAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCACA
*
85948491 AATGCCGCTATAGATCATGAC
66 AATGCCGCTATAGATCAGGAC
*
85948512 TTTTAGCG
1 CTTTAGCG
85948520 ACGTTTTTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
85 65 0.81
86 15 0.19
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (86 bp):
CTTTAGCGGCACTTTTCACACAAACGCCGCTAAAGACCAAGACCTTTAGCGACACTTTTCCCACA
AATGCCGCTATAGATCAGGAC
Found at i:85948528 original size:43 final size:43
Alignment explanation
Indices: 85948341--85948543 Score: 176
Period size: 43 Copynumber: 4.7 Consensus size: 43
85948331 GCGTCGCTAA
* ** * * * *
85948341 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAGGAC
1 CTTTAGCGGCGATTTTTTCACAAATGCCGCTATAGATCAAGAC
* ** *
85948384 CTTTAGCGAC-ACTTTTCCCACAAATGCCGCTATAGATCAGGAC
1 CTTTAGCGGCGA-TTTTTTCACAAATGCCGCTATAGATCAAGAC
* * *
85948427 CTTTAGCGGC-ACTTTTACACAAACGCCGCTATAGATCAAGAC
1 CTTTAGCGGCGATTTTTTCACAAATGCCGCTATAGATCAAGAC
* * * *
85948469 CTTTAGCGGCGCTTTTTTTATAAATGCCGCTATAGATCATGAC
1 CTTTAGCGGCGATTTTTTCACAAATGCCGCTATAGATCAAGAC
* * * * *
85948512 TTTTAGCGACGTTTTTTTCGCAAACGCCGCTA
1 CTTTAGCGGCGATTTTTTCACAAATGCCGCTA
85948544 AAAGTGCCAT
Statistics
Matches: 133, Mismatches: 25, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
42 36 0.27
43 97 0.73
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (43 bp):
CTTTAGCGGCGATTTTTTCACAAATGCCGCTATAGATCAAGAC
Found at i:85953126 original size:21 final size:21
Alignment explanation
Indices: 85953102--85953142 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
85953092 AACCCTAAAT
85953102 CCCTAACTCTTAACCCCTAAC
1 CCCTAACTCTTAACCCCTAAC
*
85953123 CCCTAACTCTTAATCCCTAA
1 CCCTAACTCTTAACCCCTAA
85953143 ACCTTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.44, G:0.00, T:0.27
Consensus pattern (21 bp):
CCCTAACTCTTAACCCCTAAC
Found at i:85953379 original size:23 final size:24
Alignment explanation
Indices: 85953340--85953393 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 24
85953330 TATATGAAAT
*
85953340 TATTTAATATATAAATTAAAAAAA
1 TATTTAATAAATAAATTAAAAAAA
85953364 TATTTAA-AAATAAATT-AAAAAA
1 TATTTAATAAATAAATTAAAAAAA
*
85953386 TAATTAAT
1 TATTTAAT
85953394 CTAAACCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 12 0.44
23 8 0.30
24 7 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TATTTAATAAATAAATTAAAAAAA
Found at i:85953458 original size:22 final size:22
Alignment explanation
Indices: 85953423--85953485 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
85953413 TTGACCCATG
* *
85953423 AACTCATAAACCCTAAATCCCT
1 AACTCATAACCCCTAAACCCCT
*
85953445 AACTCTTAACCCCTAAACCCCT
1 AACTCATAACCCCTAAACCCCT
85953467 AAC-CACTAACCCCTAAACC
1 AACTCA-TAACCCCTAAACC
85953486 TTAAATCTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 1 0.03
22 35 0.97
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (22 bp):
AACTCATAACCCCTAAACCCCT
Found at i:85953534 original size:15 final size:15
Alignment explanation
Indices: 85953498--85953538 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
85953488 AAATCTCAAC
85953498 CCTTAAA-CCATAAT
1 CCTTAAATCCATAAT
*
85953512 CCCT-AATCCATAAT
1 CCTTAAATCCATAAT
85953526 CCTTAAATCCATA
1 CCTTAAATCCATA
85953539 CTCCATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 2 0.09
14 13 0.57
15 8 0.35
ACGTcount: A:0.39, C:0.32, G:0.00, T:0.29
Consensus pattern (15 bp):
CCTTAAATCCATAAT
Found at i:85953547 original size:15 final size:15
Alignment explanation
Indices: 85953501--85953547 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
85953491 TCTCAACCCT
*
85953501 TAAA-CCATAATCCC
1 TAAATCCATAATCCA
*
85953515 T-AATCCATAATCCT
1 TAAATCCATAATCCA
*
85953529 TAAATCCATACTCCA
1 TAAATCCATAATCCA
85953544 TAAA
1 TAAA
85953548 CCTTAAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCA
Found at i:85953831 original size:41 final size:40
Alignment explanation
Indices: 85953771--85953886 Score: 162
Period size: 41 Copynumber: 2.8 Consensus size: 40
85953761 TAAAATGTTT
85953771 TTAGCGGCGCTTTATCAAAAACGCCGCTAAAGCCCCTA-CCA
1 TTAGCGGCGCTTT-TCAAAAACGCCGCTAAAGCCCC-AGCCA
* *
85953812 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGACCCAGGCA
1 TTAGCGGCGCTTTT-CAAAAACGCCGCTAAAGCCCCAGCCA
*
85953853 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGCC
1 TTAGCGGCGC-TTTTCAAAAACGCCGCTAAAGCC
85953887 ACGAAATGTT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
40 2 0.03
41 62 0.91
42 4 0.06
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (40 bp):
TTAGCGGCGCTTTTCAAAAACGCCGCTAAAGCCCCAGCCA
Found at i:85953966 original size:39 final size:39
Alignment explanation
Indices: 85953922--85954000 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
85953912 TGGGCTAAGG
* * * *
85953922 TTTTTTGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA
1 TTTTTAGCGGCATTTTTTT-AAAAACACCACTAATGCTCA
85953962 TTTTTAGCGGCATTTTTTTAAAAACACCACTAATGCTCA
1 TTTTTAGCGGCATTTTTTTAAAAACACCACTAATGCTCA
85954001 ATCTTTAGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 18 0.51
40 17 0.49
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.39
Consensus pattern (39 bp):
TTTTTAGCGGCATTTTTTTAAAAACACCACTAATGCTCA
Found at i:85953972 original size:40 final size:40
Alignment explanation
Indices: 85953922--85954059 Score: 127
Period size: 40 Copynumber: 3.5 Consensus size: 40
85953912 TGGGCTAAGG
*
85953922 TTTTTTGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA
1 TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA
* * *
85953962 TTTTTAGCGGCATTTTTTT-AAAAACACCACTAATGCTCAA
1 TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTC-A
* * * *** * *
85954002 TCTTTAGTGGCGATTTCCAG-AAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGC-TCA
*
85954042 TTTTTACCGGCGTTTTTT
1 TTTTTAGCGGCGTTTTTT
85954060 GTCCAAACGC
Statistics
Matches: 74, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
39 17 0.23
40 56 0.76
41 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.39
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTTTGAAAAACGCCGCTAATGCTCA
Found at i:85957137 original size:23 final size:24
Alignment explanation
Indices: 85957090--85957138 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
85957080 ATAAATTAGA
85957090 TCGTCAGAGCTTACTGATTTCAGC
1 TCGTCAGAGCTTACTGATTTCAGC
85957114 TCGTCAGAGCTTA-TCG-TTTCAGC
1 TCGTCAGAGCTTACT-GATTTCAGC
85957137 TC
1 TC
85957139 AATTGAGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (24 bp):
TCGTCAGAGCTTACTGATTTCAGC
Found at i:85961352 original size:23 final size:23
Alignment explanation
Indices: 85961322--85961378 Score: 114
Period size: 23 Copynumber: 2.5 Consensus size: 23
85961312 TGGTGACACT
85961322 ATTTATACGGAGAAAAGTGTCAC
1 ATTTATACGGAGAAAAGTGTCAC
85961345 ATTTATACGGAGAAAAGTGTCAC
1 ATTTATACGGAGAAAAGTGTCAC
85961368 ATTTATACGGA
1 ATTTATACGGA
85961379 TCACAAAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (23 bp):
ATTTATACGGAGAAAAGTGTCAC
Found at i:85964359 original size:23 final size:24
Alignment explanation
Indices: 85964333--85964378 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
85964323 TCAGCTCGTC
85964333 AGAGCTTACCGTT-TCAGCTCAAT
1 AGAGCTTACCGTTATCAGCTCAAT
*
85964356 AGAGCTTACTGTTCATCAGCTCA
1 AGAGCTTACCGTT-ATCAGCTCA
85964379 GGAGGAGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
25 8 0.40
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (24 bp):
AGAGCTTACCGTTATCAGCTCAAT
Found at i:85977533 original size:26 final size:26
Alignment explanation
Indices: 85977504--85977611 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
85977494 TGATACAAAT
85977504 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
85977530 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85977556 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
85977582 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85977608 TGAT
1 TGAT
85977612 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:85981030 original size:6 final size:6
Alignment explanation
Indices: 85981019--85981044 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
85981009 TTGATTTATT
85981019 AAAACC AAAACC AAAACC AAAACC AA
1 AAAACC AAAACC AAAACC AAAACC AA
85981045 TAATATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACC
Found at i:85993173 original size:40 final size:39
Alignment explanation
Indices: 85993089--85993273 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
85993079 TTGAATGATG
* * * *
85993089 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
85993129 TCCGGACTAAGATCCGAAGGCATTTGTGCAAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
85993169 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
85993208 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
85993249 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
85993274 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 33 0.27
40 81 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:85993225 original size:79 final size:81
Alignment explanation
Indices: 85993089--85993271 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
85993079 TTGAATGATG
* *
85993089 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
85993153 TGTGCAAGATACTA-A
66 TGTGCAAGATACTATA
* * * **
85993168 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
85993230 TTTGTGCGAGTTACTATA
64 TTTGTGCAAGATACTATA
* *
85993248 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
85993272 TGAACGAGGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCAAGATACTATA
Found at i:85993295 original size:79 final size:79
Alignment explanation
Indices: 85993142--85993306 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
85993132 GGACTAAGAT
* ** *
85993142 CCGAAGGCATTTGTGCAAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
*
85993207 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
85993221 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCAAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-C
* *
85993284 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
85993300 CCGAAGG
1 CCGAAGG
85993307 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:85996381 original size:64 final size:65
Alignment explanation
Indices: 85996276--85996451 Score: 180
Period size: 67 Copynumber: 2.6 Consensus size: 65
85996266 CATCATGTGT
* *
85996276 ACAAGAGAGCTATGAGACATTATGATGTAGCTAGGTCGCATGGGTGTTACCA-TG-TGTACACCA
1 ACAAGAGAGCTATGAG--A-TAT-ATGTAGCTAGGTCGCATGGGTGTT-CCAGTGAAGGACACCA
85996339 TGCAA
61 TGCAA
* *
85996344 ACAAGAGAGCTATGAGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTATGAGATATATGTAGCTAGGTCGCATGGGT-GTTCCA-GTGAAGGACACCATGC
*
85996409 AG
64 AA
* * *
85996411 ACAAGAGAGCTACGAGATA-A-GCTGGCTAGGTCACATGGGTG
1 ACAAGAGAGCTATGAGATATATG-TAGCTAGGTCGCATGGGTG
85996452 GTAGTAAGTG
Statistics
Matches: 94, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
64 23 0.24
65 8 0.09
66 19 0.20
67 28 0.30
68 16 0.17
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (65 bp):
ACAAGAGAGCTATGAGATATATGTAGCTAGGTCGCATGGGTGTTCCAGTGAAGGACACCATGCAA
Found at i:86002895 original size:11 final size:12
Alignment explanation
Indices: 86002879--86002907 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
86002869 TTATTAATGA
86002879 TGAATG-ATATT
1 TGAATGAATATT
86002890 TGAATGAATATT
1 TGAATGAATATT
86002902 TGAATG
1 TGAATG
86002908 TTCTTATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (12 bp):
TGAATGAATATT
Done.