Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 227 of 290
Found at i:78503336 original size:54 final size:54
Alignment explanation
Indices: 78503248--78503410 Score: 222
Period size: 54 Copynumber: 3.0 Consensus size: 54
78503238 CCCTAGTTTA
** *
78503248 TAAAATTACCAAAATACCCCTG-ATTTGT-GAAATTACTGAAATACCTCTGTAGGG
1 TAAAATTACCAAAATACCCCTGTA-GGGTAG-AATTACTGAAATACCCCTGTAGGG
* *
78503302 TAAAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGA
1 TAAAATTACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGG
* **
78503356 TAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGG
1 TAAAATTACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGG
78503410 T
1 T
78503411 GGTGGAATTA
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
54 95 0.98
55 2 0.02
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (54 bp):
TAAAATTACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGG
Found at i:78504128 original size:27 final size:27
Alignment explanation
Indices: 78504098--78504199 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
78504088 ATTCTGTTAA
* *
78504098 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
78504125 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
78504152 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
78504179 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
78504200 ATAACTGAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 8 0.12
27 52 0.78
28 7 0.10
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:78504369 original size:19 final size:19
Alignment explanation
Indices: 78504347--78504404 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
78504337 TTCTGATTTT
78504347 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
*
78504366 TGATTCTG--A--T--T-T
1 TGATTCTGTTACCTGATAC
78504378 TGATTCTGTTACCTGATAC
1 TGATTCTGTTACCTGATAC
78504397 TGATTCTG
1 TGATTCTG
78504405 ATTCTGATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 1 0.03
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 16 0.53
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (19 bp):
TGATTCTGTTACCTGATAC
Found at i:78504374 original size:6 final size:6
Alignment explanation
Indices: 78504336--78504416 Score: 67
Period size: 6 Copynumber: 13.0 Consensus size: 6
78504326 TTGCATTCAC
* * *
78504336 ATTCTG ATTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG A-TTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
78504386 -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
78504417 TNNNNNNNNN
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
5 4 0.07
6 43 0.72
7 11 0.18
8 2 0.03
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:78504382 original size:31 final size:31
Alignment explanation
Indices: 78504336--78504417 Score: 146
Period size: 31 Copynumber: 2.6 Consensus size: 31
78504326 TTGCATTCAC
78504336 ATTCTGATTTTTGATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
78504368 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
78504399 ATTCTGATTCTGATTCTGT
1 ATTCTGATTTTGATTCTGT
78504418 NNNNNNNNNN
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 42 0.86
32 7 0.14
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:78515170 original size:40 final size:40
Alignment explanation
Indices: 78515126--78515387 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
78515116 GCTCCTCGTT
* *
78515126 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
78515166 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
78515206 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
78515245 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
78515284 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
78515323 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
78515364 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
78515388 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:78517066 original size:27 final size:26
Alignment explanation
Indices: 78517006--78517070 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 26
78516996 AGTGGCTTTT
* *
78517006 CCACATTATCTGTTCTAGTGGCTCGG
1 CCACAATATCTGTTCTAGTGACTCGG
* *
78517032 CCACAATATCTGTATCTGGTGACTCTG
1 CCACAATATCTGT-TCTAGTGACTCGG
*
78517059 TCACAATATCTG
1 CCACAATATCTG
78517071 ATAATTAAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
26 12 0.36
27 21 0.64
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (26 bp):
CCACAATATCTGTTCTAGTGACTCGG
Found at i:78517250 original size:31 final size:31
Alignment explanation
Indices: 78517210--78517315 Score: 140
Period size: 31 Copynumber: 3.4 Consensus size: 31
78517200 ATTCACATTT
*
78517210 TGATTTTGATTCTGTTACCTGATACTGATTC
1 TGATTCTGATTCTGTTACCTGATACTGATTC
* * *
78517241 TAATTTTGATTCTGTTACCAGATACTGATTC
1 TGATTCTGATTCTGTTACCTGATACTGATTC
* * * *
78517272 TGATTCTAATTCTATCACCTGATTCTGATTC
1 TGATTCTGATTCTGTTACCTGATACTGATTC
78517303 TGATTCTGATTCT
1 TGATTCTGATTCT
78517316 AGTTCTGATA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (31 bp):
TGATTCTGATTCTGTTACCTGATACTGATTC
Found at i:78517276 original size:6 final size:6
Alignment explanation
Indices: 78517210--78517324 Score: 67
Period size: 6 Copynumber: 18.7 Consensus size: 6
78517200 ATTCACATTT
* * * *
78517210 TGATTT TGATTC TG-TTACC TGATAC TGATTC TAATTT TGATTC TG-TTACC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC TGATT--C
* * * *
78517260 AGATAC TGATTC TGATTC TAATTC T-ATCACC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC
78517309 TGATTC T-AGTTC TGAT
1 TGATTC TGA-TTC TGAT
78517325 AATGTTTCTT
Statistics
Matches: 84, Mismatches: 14, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
5 7 0.08
6 65 0.77
7 8 0.10
8 4 0.05
ACGTcount: A:0.22, C:0.17, G:0.14, T:0.47
Consensus pattern (6 bp):
TGATTC
Found at i:78518289 original size:18 final size:17
Alignment explanation
Indices: 78518256--78518289 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
78518246 GTAATCTTCA
*
78518256 TGGGCCCACGAGCCCAT
1 TGGGCCCACCAGCCCAT
78518273 TGGGCCCACACAGCCCA
1 TGGGCCCAC-CAGCCCA
78518290 ACGAGACCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.44, G:0.26, T:0.09
Consensus pattern (17 bp):
TGGGCCCACCAGCCCAT
Found at i:78525585 original size:27 final size:27
Alignment explanation
Indices: 78525561--78525616 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
78525551 AGAAAAGCTG
78525561 CCAATAACAGTAAATGTGGCAAAGCCA
1 CCAATAACAGTAAATGTGGCAAAGCCA
* ** *
78525588 CCAGTAACAGTAGTTGTGGCAGAG-CA
1 CCAATAACAGTAAATGTGGCAAAGCCA
78525614 CCA
1 CCA
78525617 GTATAGTACT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAATAACAGTAAATGTGGCAAAGCCA
Found at i:78529547 original size:17 final size:18
Alignment explanation
Indices: 78529525--78529558 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78529515 TCCTAGGCTA
78529525 TGTGGGC-CACACGGGCG
1 TGTGGGCTCACACGGGCG
*
78529542 TGTGGGCTCACATGGGC
1 TGTGGGCTCACACGGGC
78529559 CCCGTATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.12, C:0.26, G:0.44, T:0.18
Consensus pattern (18 bp):
TGTGGGCTCACACGGGCG
Found at i:78530818 original size:47 final size:47
Alignment explanation
Indices: 78530760--78530881 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
78530750 GCATTGGCAC
*
78530760 TAAGACAAGGATACCCTGTAAGACCATGTTTGGAACATGGAATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
*
78530807 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
* *
78530854 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
78530882 CTAAGGCATG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGAATTTGG
Found at i:78530989 original size:55 final size:54
Alignment explanation
Indices: 78530860--78531054 Score: 234
Period size: 54 Copynumber: 3.6 Consensus size: 54
78530850 TTGGTAAGAT
* * *
78530860 AAGGATATCATGTAAGACCATG-CTAAGGCATGGCATTGATGAGTTTTATAAGGA
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCATTGATGAGTTCTATAAGGA
* * *
78530914 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGG-A
* * * * *
78530970 AAGG-TCCCATGTAAGACCATGTCAAGGCATGGTATTGGTGAGTTC-ATAAGGT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGA
*
78531022 AAGGATACCACGTAAGACCATGTCAAGACATGG
1 AAGGATACCATGTAAGACCATGTCAAGACATGG
78531055 AAATGGTAAG
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
52 4 0.03
53 31 0.25
54 41 0.34
55 41 0.34
56 5 0.04
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGA
Found at i:78531042 original size:53 final size:53
Alignment explanation
Indices: 78530860--78531054 Score: 223
Period size: 55 Copynumber: 3.6 Consensus size: 53
78530850 TTGGTAAGAT
* * *
78530860 AAGGATATCATGTAAGACCATG-CTAAGGCATGGCATTGATGAGTTTTATAAGGA
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCATTGATGAG-TTCATAAGGA
* * *
78530914 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATGAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-C-ATAAGG-A
* * * * *
78530970 AAGG-TCCCATGTAAGACCATGTCAAGGCATGGTATTGGTGAGTTCATAAGGT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCATAAGGA
*
78531022 AAGGATACCACGTAAGACCATGTCAAGACATGG
1 AAGGATACCATGTAAGACCATGTCAAGACATGG
78531055 AAATGGTAAG
Statistics
Matches: 121, Mismatches: 15, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
52 4 0.03
53 33 0.27
54 39 0.32
55 40 0.33
56 5 0.04
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCATAAGGA
Found at i:78531082 original size:108 final size:109
Alignment explanation
Indices: 78530868--78531078 Score: 259
Period size: 108 Copynumber: 2.0 Consensus size: 109
78530858 ATAAGGATAT
* * *
78530868 CATGTAAGACCATGCTAAGGCATGGCATTGATGAGTTTTATAAGGAAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCTAAGGCATGGCATTGATGAGTTTCATAAGGAAAGGAAACCACGTAAGACC
* * * * *
78530933 ATGTCAAGACATGACATTGATGAGTTACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGACAATGATAAGTTACAAAAAGGAAAAGGTCC
* * * *
78530977 CATGTAAGACCATG-TCAAGGCATGGTATTGGTGAG-TTCATAAGGTAAGGATACCACGTAAGAC
1 CATGTAAGACCATGCT-AAGGCATGGCATTGATGAGTTTCATAAGGAAAGGAAACCACGTAAGAC
*
78531040 CATGTCAAGACATGGA-AATGGTAAGTT-CAAAAAGGAAAA
65 CATGTCAAGACAT-GACAATGATAAGTTACAAAAAGGAAAA
78531079 AGGTTCCCTA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
107 9 0.10
108 45 0.52
109 33 0.38
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (109 bp):
CATGTAAGACCATGCTAAGGCATGGCATTGATGAGTTTCATAAGGAAAGGAAACCACGTAAGACC
ATGTCAAGACATGACAATGATAAGTTACAAAAAGGAAAAGGTCC
Found at i:78544066 original size:99 final size:99
Alignment explanation
Indices: 78543895--78544092 Score: 369
Period size: 99 Copynumber: 2.0 Consensus size: 99
78543885 CTGTCGATTT
* *
78543895 GGGCATGTGGCTCTAAGGGTTTTTAACTGACATTTTCTGTCAATGATTAGTGTCTTCTTAAGTGT
1 GGGCATGTGGCTCTAAGGGCTTTTAACTGACATTTTCTGTCAATGATTAGTGTCTTCTGAAGTGT
78543960 TGGATTGAAGGCGTGGGTTGTTGGAGCAATCGGA
66 TGGATTGAAGGCGTGGGTTGTTGGAGCAATCGGA
*
78543994 GGGCATGTGGCTCTAAGGGCTTTTAACTGACGTTTTCTGTCAATGATTAGTGTCTTCTGAAGTGT
1 GGGCATGTGGCTCTAAGGGCTTTTAACTGACATTTTCTGTCAATGATTAGTGTCTTCTGAAGTGT
78544059 TGGATTGAAGGCGTGGGTTGTTGGAGCAATCGGA
66 TGGATTGAAGGCGTGGGTTGTTGGAGCAATCGGA
78544093 TTCGGAGCTA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 96 1.00
ACGTcount: A:0.20, C:0.13, G:0.32, T:0.35
Consensus pattern (99 bp):
GGGCATGTGGCTCTAAGGGCTTTTAACTGACATTTTCTGTCAATGATTAGTGTCTTCTGAAGTGT
TGGATTGAAGGCGTGGGTTGTTGGAGCAATCGGA
Found at i:78560416 original size:19 final size:19
Alignment explanation
Indices: 78560392--78560445 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
78560382 GAAAATGTGT
78560392 AAGTTATGCCTATAAAATA
1 AAGTTATGCCTATAAAATA
78560411 AAGTTATGCCTATAAAATA
1 AAGTTATGCCTATAAAATA
*
78560430 AAGTTATGCCTGTAAA
1 AAGTTATGCCTATAAA
78560446 TCTATGAGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (19 bp):
AAGTTATGCCTATAAAATA
Found at i:78561682 original size:15 final size:15
Alignment explanation
Indices: 78561662--78561696 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
78561652 AGGGGAAAGG
78561662 GGTATTACATTTAGT
1 GGTATTACATTTAGT
78561677 GGTATTACATTTAGT
1 GGTATTACATTTAGT
78561692 GGTAT
1 GGTAT
78561697 CAGAGCTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.46
Consensus pattern (15 bp):
GGTATTACATTTAGT
Found at i:78564282 original size:40 final size:40
Alignment explanation
Indices: 78564198--78564333 Score: 164
Period size: 41 Copynumber: 3.4 Consensus size: 40
78564188 TTTGAAACAA
* * * *
78564198 AAAACGCCACTAAAAACTGAGTAATAGTGGCGTTTTCATCC
1 AAAACGCCGCAAAAAACTGAGAAATAGTGGCGTTTT-ATTC
*
78564239 AAAACGCCGTAAAAAACTGAGAAATAGTGGCGTTTTATTC
1 AAAACGCCGCAAAAAACTGAGAAATAGTGGCGTTTTATTC
* * *
78564279 AAAACGCCGCAAAAAACTGAGATATAGTGGCACTTTTGTTC
1 AAAACGCCGCAAAAAACTGAGAAATAGTGGC-GTTTTATTC
* *
78564320 CAAACGCCACAAAA
1 AAAACGCCGCAAAA
78564334 GGTTGAGCTA
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
40 32 0.39
41 51 0.61
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.22
Consensus pattern (40 bp):
AAAACGCCGCAAAAAACTGAGAAATAGTGGCGTTTTATTC
Found at i:78564325 original size:41 final size:40
Alignment explanation
Indices: 78564199--78564355 Score: 156
Period size: 41 Copynumber: 3.9 Consensus size: 40
78564189 TTGAAACAAA
*
78564199 AAACGCCACTAAAAACTGAG-TAATAGTGGCGTTTTCA-TCC
1 AAACGCCACAAAAAACTGAGAT-ATAGTGGCGTTTT-ATTCC
** * *
78564239 AAAACGCCGTAAAAAACTGAGAAATAGTGGCGTTTTATTCA
1 -AAACGCCACAAAAAACTGAGATATAGTGGCGTTTTATTCC
* * *
78564280 AAACGCCGCAAAAAACTGAGATATAGTGGCACTTTTGTTCC
1 AAACGCCACAAAAAACTGAGATATAGTGGC-GTTTTATTCC
*** *
78564321 AAACGCCACAAAAGGTTGAGCTATAGTGGCGTTTT
1 AAACGCCACAAAAAACTGAGATATAGTGGCGTTTT
78564356 TGTAAAAGCG
Statistics
Matches: 97, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
40 33 0.34
41 64 0.66
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (40 bp):
AAACGCCACAAAAAACTGAGATATAGTGGCGTTTTATTCC
Found at i:78564908 original size:14 final size:14
Alignment explanation
Indices: 78564891--78564939 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
78564881 ATATGAAGCC
78564891 TAACCCCTAAATCA
1 TAACCCCTAAATCA
* * * *
78564905 TAACCCATGACTGCC
1 TAACCCCTAAAT-CA
78564920 TAACCCCTAAATCA
1 TAACCCCTAAATCA
78564934 TAACCC
1 TAACCC
78564940 ATGATCTAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.37, C:0.39, G:0.04, T:0.20
Consensus pattern (14 bp):
TAACCCCTAAATCA
Found at i:78564924 original size:29 final size:29
Alignment explanation
Indices: 78564888--78564943 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
78564878 AAAATATGAA
78564888 GCCTAACCCCTAAATCATAACCCATGACT
1 GCCTAACCCCTAAATCATAACCCATGACT
78564917 GCCTAACCCCTAAATCATAACCCATGA
1 GCCTAACCCCTAAATCATAACCCATGA
78564944 TCTAAACTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.36, C:0.38, G:0.07, T:0.20
Consensus pattern (29 bp):
GCCTAACCCCTAAATCATAACCCATGACT
Found at i:78564955 original size:26 final size:28
Alignment explanation
Indices: 78564889--78564956 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 28
78564879 AAATATGAAG
*
78564889 CCTAACCCCTAAATCATAACCCATGACT
1 CCTAAACCCTAAATCATAACCCATGACT
*
78564917 GCCTAACCCCTAAATCATAACCCATGA-T
1 -CCTAAACCCTAAATCATAACCCATGACT
*
78564945 -CTAAACTCTAAA
1 CCTAAACCCTAAA
78564957 CCTTTTAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 10 0.27
28 1 0.03
29 26 0.70
ACGTcount: A:0.38, C:0.35, G:0.04, T:0.22
Consensus pattern (28 bp):
CCTAAACCCTAAATCATAACCCATGACT
Found at i:78566274 original size:20 final size:19
Alignment explanation
Indices: 78566230--78566274 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
78566220 CCCACCCAAG
* *
78566230 TTTCCCCAAATCCTTAACT
1 TTTCCCCAAATCCCTAAAT
*
78566249 TTTCCCCTAATCCCTAAAT
1 TTTCCCCAAATCCCTAAAT
78566268 ATTTCCC
1 -TTTCCC
78566275 TGAATTACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.24, C:0.38, G:0.00, T:0.38
Consensus pattern (19 bp):
TTTCCCCAAATCCCTAAAT
Found at i:78567602 original size:24 final size:24
Alignment explanation
Indices: 78567571--78567620 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
78567561 ATTTCGAGAA
78567571 CTAATAATGGCATAAAATAAGTAG
1 CTAATAATGGCATAAAATAAGTAG
78567595 CTAATAATGGCATAAAATAAGTAG
1 CTAATAATGGCATAAAATAAGTAG
78567619 CT
1 CT
78567621 TTAGATGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (24 bp):
CTAATAATGGCATAAAATAAGTAG
Found at i:78568962 original size:24 final size:24
Alignment explanation
Indices: 78568935--78569005 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
78568925 ATTATTATTG
*
78568935 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
78568959 AAATATTATTGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
78568983 AAATATTATCGTCTGTTTTATCA
1 AAATATTATCGTCCGTTTTATCA
78569006 TTTAAGTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.28, C:0.18, G:0.08, T:0.45
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:78569211 original size:29 final size:29
Alignment explanation
Indices: 78569179--78569252 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
78569169 AACGACATGT
* *
78569179 ATATTATTTAATTAAAATAATTTTTTTTA
1 ATATTATTTAATTAAAATAATTTTTATAA
78569208 ATATTATTTAATTAAAATAATTTTTATAA
1 ATATTATTTAATTAAAATAATTTTTATAA
78569237 ATATTATTTAATTAAA
1 ATATTATTTAATTAAA
78569253 TATTATTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
ATATTATTTAATTAAAATAATTTTTATAA
Found at i:78569252 original size:15 final size:15
Alignment explanation
Indices: 78569179--78569264 Score: 90
Period size: 15 Copynumber: 5.9 Consensus size: 15
78569169 AACGACATGT
78569179 ATATTATTTAATTAA
1 ATATTATTTAATTAA
* ** *
78569194 A-ATAATTTTTTTTA
1 ATATTATTTAATTAA
78569208 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
78569224 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
78569237 ATATTATTTAATTAA
1 ATATTATTTAATTAA
78569252 ATATTATTTAATT
1 ATATTATTTAATT
78569265 TGCAACTTAC
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
12 3 0.05
13 7 0.12
14 12 0.21
15 26 0.46
16 6 0.11
17 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:78569383 original size:9 final size:9
Alignment explanation
Indices: 78569369--78569725 Score: 388
Period size: 9 Copynumber: 40.4 Consensus size: 9
78569359 AATATTTAAC
78569369 ATAACTTAT
1 ATAACTTAT
78569378 ATAACTTAT
1 ATAACTTAT
*
78569387 ATAGCTTAT
1 ATAACTTAT
*
78569396 ATAACTTAG
1 ATAACTTAT
*
78569405 ATAA-ATAT
1 ATAACTTAT
78569413 ATAACTTAT
1 ATAACTTAT
*
78569422 ATAACTTAC
1 ATAACTTAT
78569431 ATAACTTAT
1 ATAACTTAT
78569440 ATAACTT-T
1 ATAACTTAT
*
78569448 GATAA-ATAT
1 -ATAACTTAT
*
78569457 ATAACTTAC
1 ATAACTTAT
*
78569466 ATAACTTAC
1 ATAACTTAT
*
78569475 ATAACTTAG
1 ATAACTTAT
78569484 ATAACTTAT
1 ATAACTTAT
* *
78569493 ATAACCTAG
1 ATAACTTAT
*
78569502 ATAA-ATAT
1 ATAACTTAT
78569510 ATAACTTAT
1 ATAACTTAT
*
78569519 ATAACTTAC
1 ATAACTTAT
78569528 ATAACTTAT
1 ATAACTTAT
*
78569537 ATAACTTAG
1 ATAACTTAT
*
78569546 ATAA-ATAT
1 ATAACTTAT
*
78569554 ATAACTTAC
1 ATAACTTAT
*
78569563 ATAACTTAC
1 ATAACTTAT
78569572 ATAACTTAT
1 ATAACTTAT
*
78569581 ATAACTTAG
1 ATAACTTAT
*
78569590 ATAA-ATAT
1 ATAACTTAT
*
78569598 ATAACTTAC
1 ATAACTTAT
*
78569607 ATAACTTAC
1 ATAACTTAT
78569616 ATAACTTAT
1 ATAACTTAT
*
78569625 ATAACTTAG
1 ATAACTTAT
*
78569634 ATAA-ATAT
1 ATAACTTAT
*
78569642 ATAACTTAC
1 ATAACTTAT
*
78569651 ATAACTTAC
1 ATAACTTAT
78569660 ATAACTTAT
1 ATAACTTAT
*
78569669 ATAACTTAG
1 ATAACTTAT
78569678 ATAACTTAT
1 ATAACTTAT
* *
78569687 ATAACCTAG
1 ATAACTTAT
*
78569696 ATAA-ATAT
1 ATAACTTAT
78569704 ATAACTTAT
1 ATAACTTAT
*
78569713 ATAACTTAC
1 ATAACTTAT
78569722 ATAA
1 ATAA
78569726 NNNNNNNNNN
Statistics
Matches: 293, Mismatches: 46, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
8 42 0.14
9 251 0.86
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (9 bp):
ATAACTTAT
Found at i:78569417 original size:44 final size:44
Alignment explanation
Indices: 78569369--78569725 Score: 500
Period size: 44 Copynumber: 7.9 Consensus size: 44
78569359 AATATTTAAC
* * *
78569369 ATAACTTATATAACTTATATAGCTTATATAACTTAGATAAATAT
1 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATAT
* *
78569413 ATAACTTATATAACTTACATAACTTATATAACTTTGATAAATAT
1 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATAT
*
78569457 ATAACTTACATAACTTACATAACTTAGATAACTTATATAACCTAGATAAATAT
1 ATAACTTACATAAC-T---T-AC----ATAACTTATATAACTTAGATAAATAT
*
78569510 ATAACTTATATAACTTACATAACTTATATAACTTAGATAAATAT
1 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATAT
78569554 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATAT
1 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATAT
78569598 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATAT
1 ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATAT
*
78569642 ATAACTTACATAACTTACATAACTTATATAACTTAGATAACTTAT
1 ATAACTTACATAACTTACATAACTTATATAACTTAGATAA-ATAT
* * * * *
78569687 ATAACCTAGATAA-ATATATAACTTATATAACTTACATAA
1 ATAACTTACATAACTTACATAACTTATATAACTTAGATAA
78569726 NNNNNNNNNN
Statistics
Matches: 288, Mismatches: 15, Indels: 20
0.89 0.05 0.06
Matches are distributed among these distances:
44 229 0.80
45 15 0.05
48 3 0.01
49 3 0.01
52 1 0.00
53 37 0.13
ACGTcount: A:0.47, C:0.13, G:0.03, T:0.37
Consensus pattern (44 bp):
ATAACTTACATAACTTACATAACTTATATAACTTAGATAAATAT
Found at i:78576669 original size:29 final size:29
Alignment explanation
Indices: 78576637--78576710 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
78576627 AACAACATGT
* *
78576637 ATATTATTTAATTAAAATAATTTTTTTCA
1 ATATTATTTAATTAAAATAATTTTTATAA
78576666 ATATTATTTAATTAAAATAATTTTTATAA
1 ATATTATTTAATTAAAATAATTTTTATAA
78576695 ATATTATTTAATTAAA
1 ATATTATTTAATTAAA
78576711 TATTATTTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (29 bp):
ATATTATTTAATTAAAATAATTTTTATAA
Found at i:78576710 original size:15 final size:15
Alignment explanation
Indices: 78576637--78576722 Score: 90
Period size: 15 Copynumber: 5.9 Consensus size: 15
78576627 AACAACATGT
78576637 ATATTATTTAATTAA
1 ATATTATTTAATTAA
* ** *
78576652 A-ATAATTTTTTTCA
1 ATATTATTTAATTAA
78576666 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
78576682 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
78576695 ATATTATTTAATTAA
1 ATATTATTTAATTAA
78576710 ATATTATTTAATT
1 ATATTATTTAATT
78576723 TGCAACTTAC
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
12 3 0.05
13 7 0.12
14 12 0.21
15 26 0.46
16 6 0.11
17 3 0.05
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:78576841 original size:9 final size:9
Alignment explanation
Indices: 78576827--78577460 Score: 709
Period size: 9 Copynumber: 71.4 Consensus size: 9
78576817 AATATTTAAC
78576827 ATAACTTAT
1 ATAACTTAT
78576836 ATAACTTAT
1 ATAACTTAT
*
78576845 ATAGCTTAT
1 ATAACTTAT
*
78576854 ATAACTTAG
1 ATAACTTAT
*
78576863 ATAA-ATAT
1 ATAACTTAT
78576871 ATAACTTAT
1 ATAACTTAT
*
78576880 ATAACTTAC
1 ATAACTTAT
78576889 ATAACTTAT
1 ATAACTTAT
78576898 ATAACTT-T
1 ATAACTTAT
*
78576906 GATAA-ATAT
1 -ATAACTTAT
*
78576915 ATAACTTAC
1 ATAACTTAT
*
78576924 ATAACTTAC
1 ATAACTTAT
*
78576933 ATAACTTAG
1 ATAACTTAT
78576942 ATAACTTAT
1 ATAACTTAT
* *
78576951 ATAACCTAG
1 ATAACTTAT
*
78576960 ATAA-ATAT
1 ATAACTTAT
78576968 ATAACTTAT
1 ATAACTTAT
*
78576977 ATAACTTAC
1 ATAACTTAT
78576986 ATAACTTAT
1 ATAACTTAT
*
78576995 ATAACTTAG
1 ATAACTTAT
*
78577004 ATAA-ATAT
1 ATAACTTAT
78577012 ATAACTTAT
1 ATAACTTAT
*
78577021 ATAACTTAC
1 ATAACTTAT
78577030 ATAACTTAT
1 ATAACTTAT
78577039 ATAACTTAT
1 ATAACTTAT
*
78577048 ATAACTTAG
1 ATAACTTAT
*
78577057 ATAA-ATAT
1 ATAACTTAT
78577065 ATAACTTAT
1 ATAACTTAT
*
78577074 ATAACTTAC
1 ATAACTTAT
78577083 ATAACTTAT
1 ATAACTTAT
78577092 ATAACTTAT
1 ATAACTTAT
*
78577101 ATAACTTAG
1 ATAACTTAT
*
78577110 ATAA-ATAT
1 ATAACTTAT
78577118 ATAACTTAT
1 ATAACTTAT
*
78577127 ATAACTTAC
1 ATAACTTAT
*
78577136 ATCACTTAT
1 ATAACTTAT
*
78577145 ATAACTTAC
1 ATAACTTAT
*
78577154 ATAACTTAC
1 ATAACTTAT
78577163 ATAACTTAT
1 ATAACTTAT
*
78577172 ATAACTTAG
1 ATAACTTAT
78577181 ATAACTTAT
1 ATAACTTAT
* *
78577190 ATAACCTAG
1 ATAACTTAT
*
78577199 ATAA-ATAT
1 ATAACTTAT
78577207 ATAACTTAT
1 ATAACTTAT
*
78577216 ATAACTTAC
1 ATAACTTAT
*
78577225 ATAAATTAT
1 ATAACTTAT
78577234 ATAACTTAT
1 ATAACTTAT
*
78577243 ATAACTTAG
1 ATAACTTAT
*
78577252 ATAA-ATAT
1 ATAACTTAT
78577260 ATAACTTAT
1 ATAACTTAT
*
78577269 ATAACTTAC
1 ATAACTTAT
78577278 ATAACTTAT
1 ATAACTTAT
78577287 ATAACTTAT
1 ATAACTTAT
*
78577296 ATAACTTAG
1 ATAACTTAT
*
78577305 ATAA-ATAT
1 ATAACTTAT
*
78577313 ATAACTTAC
1 ATAACTTAT
*
78577322 ATAACTTAC
1 ATAACTTAT
78577331 ATAACTTATAT
1 ATAAC-T-TAT
78577342 ATAACTTAT
1 ATAACTTAT
*
78577351 ATAACTTAG
1 ATAACTTAT
*
78577360 ATAA-ATAT
1 ATAACTTAT
78577368 ATAACTTAT
1 ATAACTTAT
78577377 ATAACTTAT
1 ATAACTTAT
*
78577386 ATAACTTAC
1 ATAACTTAT
78577395 ATAACTTAT
1 ATAACTTAT
*
78577404 ATAACTTAG
1 ATAACTTAT
*
78577413 ATAA-ATAT
1 ATAACTTAT
* *
78577421 ATATCTTAC
1 ATAACTTAT
*
78577430 ATAA-ATAT
1 ATAACTTAT
* *
78577438 ATATCATAT
1 ATAACTTAT
*
78577447 CATAACTTAC
1 -ATAACTTAT
78577457 ATAA
1 ATAA
78577461 TTTACATAAT
Statistics
Matches: 524, Mismatches: 84, Indels: 34
0.82 0.13 0.05
Matches are distributed among these distances:
8 70 0.13
9 439 0.84
10 8 0.02
11 7 0.01
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (9 bp):
ATAACTTAT
Found at i:78576893 original size:53 final size:53
Alignment explanation
Indices: 78576827--78577469 Score: 666
Period size: 53 Copynumber: 12.2 Consensus size: 53
78576817 AATATTTAAC
* *
78576827 ATAACTTATATAACTTATATAGCTTATATAACTTAGATAAATATATAACTTAT
1 ATAACTTACATAACTTATATAACTTATATAACTTAGATAAATATATAACTTAT
*
78576880 ATAACTTACATAACTTATATAAC-----T---TT-GATAAATATATAACTTAC
1 ATAACTTACATAACTTATATAACTTATATAACTTAGATAAATATATAACTTAT
* *
78576924 ATAACTTACATAACTTAGATAACTTATATAACCTAGATAAATATATAACTTAT
1 ATAACTTACATAACTTATATAACTTATATAACTTAGATAAATATATAACTTAT
78576977 ATAAC-T---T-AC----ATAACTTATATAACTTAGATAAATATATAACTTAT
1 ATAACTTACATAACTTATATAACTTATATAACTTAGATAAATATATAACTTAT
78577021 ATAACTTACATAACTTATATAACTTATATAACTTAGATAAATATATAACTTAT
1 ATAACTTACATAACTTATATAACTTATATAACTTAGATAAATATATAACTTAT
78577074 ATAACTTACATAACTTATATAACTTATATAACTTAGATAAATATATAACTTAT
1 ATAACTTACATAACTTATATAACTTATATAACTTAGATAAATATATAACTTAT
* * * * *
78577127 ATAACTTACATCACTTATATAACTTACATAACTTACATAACTTATATAACTTAG
1 ATAACTTACATAACTTATATAACTTATATAACTTAGATAA-ATATATAACTTAT
* *
78577181 ATAACTTATATAACCTAGATAAATATATAACTTATATAACTTACATAAATTATATAACTTAT
1 ATAACTTACATAA-C----T---TATATAACTTATATAACTTAGATAAA-TATATAACTTAT
* * * *
78577243 ATAACTTAGATAA-ATATATAACTTATATAACTTACATAACTTATATAACTTAT
1 ATAACTTACATAACTTATATAACTTATATAACTTAGATAA-ATATATAACTTAT
* * * *
78577296 ATAACTTAGATAA-ATATATAACTTACATAACTTACATAACTTATATATAACTTAT
1 ATAACTTACATAACTTATATAACTTATATAACTTAGATAA---ATATATAACTTAT
* * * * *
78577351 ATAACTTAGATAA-ATATATAACTTATATAACTTATATAACTTACATAACTTAT
1 ATAACTTACATAACTTATATAACTTATATAACTTAGATAA-ATATATAACTTAT
* * * * * * * *
78577404 ATAACTTAGATAA-ATATATATCTTACATAA-ATATATATCATATCATAACTTAC
1 ATAACTTACATAACTTATATAACTTATATAACTTAGATA-AATAT-ATAACTTAT
*
78577457 ATAATTTACATAA
1 ATAACTTACATAA
78577470 TACTTAAATA
Statistics
Matches: 520, Mismatches: 37, Indels: 66
0.83 0.06 0.11
Matches are distributed among these distances:
44 78 0.15
45 3 0.01
48 4 0.01
49 4 0.01
52 10 0.02
53 301 0.58
54 22 0.04
55 50 0.10
59 1 0.00
62 47 0.09
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (53 bp):
ATAACTTACATAACTTATATAACTTATATAACTTAGATAAATATATAACTTAT
Found at i:78577422 original size:44 final size:45
Alignment explanation
Indices: 78576828--78577469 Score: 671
Period size: 44 Copynumber: 14.5 Consensus size: 45
78576818 ATATTTAACA
* * * *
78576828 TAACTTATATAACTTATATAGCTTATATAACTTAGATAA-ATATA
1 TAACTTATATAACTTATATAACTTACATAACTTATATAACTTATA
* * *
78576872 TAACTTATATAACTTACATAACTTATATAACTT-TGATAA-ATATA
1 TAACTTATATAACTTATATAACTTACATAACTTAT-ATAACTTATA
* * * * *
78576916 TAACTTACATAACTTACATAACTTAGATAACTTATATAACCTAGA
1 TAACTTATATAACTTATATAACTTACATAACTTATATAACTTATA
* *
78576961 TAA-ATATATAACTTATATAACTTACATAACTTATATAACTTAGA
1 TAACTTATATAACTTATATAACTTACATAACTTATATAACTTATA
*
78577005 TAA-ATATATAACTTATATAACTTACATAACTTATATAACTTATA
1 TAACTTATATAACTTATATAACTTACATAACTTATATAACTTATA
* * * *
78577049 TAACTTAGATAA-ATATATAACTTATATAACTTACATAACTTATA
1 TAACTTATATAACTTATATAACTTACATAACTTATATAACTTATA
* * * *
78577093 TAACTTATATAACTTAGATAA-ATATATAACTTATATAACTTACA
1 TAACTTATATAACTTATATAACTTACATAACTTATATAACTTATA
* * *
78577137 TCACTTATATAACTTACATAACTTACATAACTTATATAACTTAGA
1 TAACTTATATAACTTATATAACTTACATAACTTATATAACTTATA
* * * * *
78577182 TAACTTATATAACCTAGATAA-ATATATAACTTATATAACTTACA
1 TAACTTATATAACTTATATAACTTACATAACTTATATAACTTATA
* * *
78577226 TAAATTATATAACTTATATAACTTAGATAA-ATATATAACTTATA
1 TAACTTATATAACTTATATAACTTACATAACTTATATAACTTATA
* * * *
78577270 TAACTTACATAACTTATATAACTTATATAACTTAGATAA-ATATA
1 TAACTTATATAACTTATATAACTTACATAACTTATATAACTTATA
* * * *
78577314 TAACTTACATAACTTACATAACTTATATATAACTTATATAACTTAGA
1 TAACTTATATAACTTATATAAC-T-TACATAACTTATATAACTTATA
* * *
78577361 TAA-ATATATAACTTATATAACTTATATAACTTACATAACTTATA
1 TAACTTATATAACTTATATAACTTACATAACTTATATAACTTATA
* * * * * *
78577405 TAACTTAGATAA-ATATATATCTTACATAA-ATATATATCATATCA
1 TAACTTATATAACTTATATAACTTACATAACTTATATAACTTAT-A
* * *
78577449 TAACTTACATAATTTACATAA
1 TAACTTATATAACTTATATAA
78577470 TACTTAAATA
Statistics
Matches: 514, Mismatches: 70, Indels: 27
0.84 0.11 0.04
Matches are distributed among these distances:
43 9 0.02
44 387 0.75
45 82 0.16
46 30 0.06
47 6 0.01
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (45 bp):
TAACTTATATAACTTATATAACTTACATAACTTATATAACTTATA
Found at i:78580906 original size:27 final size:27
Alignment explanation
Indices: 78580858--78580962 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
78580848 GCGAGCCTGC
* *
78580858 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
78580885 CAAATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
78580911 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
78580938 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
78580963 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 7 0.10
27 59 0.86
28 3 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:78582601 original size:26 final size:26
Alignment explanation
Indices: 78582570--78582677 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
78582560 TGAAATTCCC
*
78582570 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
78582596 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
78582622 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
78582648 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
78582674 ATCA
1 ATCA
78582678 ATTTGTACCA
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:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:78591366 original size:40 final size:41
Alignment explanation
Indices: 78591281--78591382 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 41
78591271 ATACCAGCTC
* * *
78591281 ATAGCCTGCGGGTCTCT-AGCCCGGATAGCAGTCTAGCACG
1 ATAGCCTGCGGGTCTTTAAGCCCGGATAACAGTCCAGCACG
* *
78591321 A-AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCA-T
1 ATAGCCTGCGGGTCTTTAAGCCCGGATAACAGTCCAGCACG
*
78591360 ATAGCCTACGGGTCTTTAAGCCC
1 ATAGCCTGCGGGTCTTTAAGCCC
78591383 AAATACAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
39 15 0.28
40 39 0.72
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (41 bp):
ATAGCCTGCGGGTCTTTAAGCCCGGATAACAGTCCAGCACG
Found at i:78596062 original size:29 final size:28
Alignment explanation
Indices: 78596026--78596103 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
78596016 TCATGAGATT
78596026 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
78596056 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
78596083 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
78596104 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:78596321 original size:174 final size:174
Alignment explanation
Indices: 78596056--78596383 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
78596046 AAATTGTACA
78596056 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
78596121 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
78596186 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * *
78596230 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
78596295 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
78596360 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
78596384 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:78604309 original size:39 final size:39
Alignment explanation
Indices: 78604214--78604389 Score: 252
Period size: 39 Copynumber: 4.5 Consensus size: 39
78604204 TTGAATGATG
*
78604214 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
78604252 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
78604293 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
78604332 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
78604371 TCCGGGCTAAGCCCGAAGG
1 TCCGGGCTAAGCCCGAAGG
78604390 ATCCCATTTC
Statistics
Matches: 127, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
39 103 0.81
40 12 0.09
41 11 0.09
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.22
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:78606667 original size:33 final size:33
Alignment explanation
Indices: 78606625--78606687 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
78606615 TTATCTTTGA
*
78606625 AAAATTTATGGTGAATTTCCAAAGTCAGAACAT
1 AAAATTTATGGTGAATTTACAAAGTCAGAACAT
78606658 AAAATTTATGGTGAATTTACAAAGTCAGAA
1 AAAATTTATGGTGAATTTACAAAGTCAGAA
78606688 AAGGGGATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (33 bp):
AAAATTTATGGTGAATTTACAAAGTCAGAACAT
Found at i:78607652 original size:93 final size:93
Alignment explanation
Indices: 78607540--78607710 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
78607530 GCCCATAAGT
78607540 GAACTCGGACTCAACTCAACGAGGTC-GAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGGTCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
78607604 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
78607633 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCTATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGGTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
78607698 CGAGTTCGGATGC
66 CGAGCTCGGATGC
78607711 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGGTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:78607707 original size:46 final size:47
Alignment explanation
Indices: 78607534--78607707 Score: 216
Period size: 46 Copynumber: 3.7 Consensus size: 47
78607524 TAACCCGCCC
* *
78607534 ATAAGTGAACTCGGACTCAACTCAACGAGGTC-GAGCATTCGCATCC
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCT
* *
78607580 ATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCATCT
* *
78607630 CT---CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCATCT
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCT
78607673 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
78607708 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 7 0.06
44 1 0.01
46 60 0.55
47 30 0.27
48 1 0.01
49 1 0.01
50 6 0.05
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (47 bp):
ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCATCT
Found at i:78609058 original size:160 final size:160
Alignment explanation
Indices: 78608877--78609196 Score: 604
Period size: 160 Copynumber: 2.0 Consensus size: 160
78608867 AATTTCTTCA
*
78608877 CGAAATTTTCACACTATCATACAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTT
1 CGAAATTTTCACACAATCATACAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTT
78608942 TATCTCGAATTTTGTGGTCACGAAACCACTATTCCGACTAGGCCCAAAATCAGGATATTACATAC
66 TATCTCGAATTTTGTGGTCACGAAACCACTATTCCGACTAGGCCCAAAATCAGGATATTACATAC
* *
78609007 TGATTTAAGCTTCTTTTCTGATTCTTTACT
131 TAATTCAAGCTTCTTTTCTGATTCTTTACT
78609037 CGAAATTTTCACACAATCATACAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTT
1 CGAAATTTTCACACAATCATACAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTT
*
78609102 TATCTCGAATTTTGTGGTCACGAAACCACTATTCTGACTAGGCCCAAAATCAGGATATTACATAC
66 TATCTCGAATTTTGTGGTCACGAAACCACTATTCCGACTAGGCCCAAAATCAGGATATTACATAC
78609167 TAATTCAAGCTTCTTTTCTGATTCTTTACT
131 TAATTCAAGCTTCTTTTCTGATTCTTTACT
78609197 ATCAAGTACG
Statistics
Matches: 156, Mismatches: 4, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
160 156 1.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (160 bp):
CGAAATTTTCACACAATCATACAATCATATCATAGACCTCAAAATAATCATAAAATAATTATTTT
TATCTCGAATTTTGTGGTCACGAAACCACTATTCCGACTAGGCCCAAAATCAGGATATTACATAC
TAATTCAAGCTTCTTTTCTGATTCTTTACT
Found at i:78612016 original size:40 final size:40
Alignment explanation
Indices: 78611969--78612058 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 40
78611959 GTAGGTCTCT
* *
78611969 AGCCCGGATAGCAGTCTAGCACGA-AGCCTGCGGGTCTTTA
1 AGCCCGGATAACAGTCCAGCA-GATAGCCTGCGGGTCTTTA
* * *
78612009 AGCCCGGATAACATTCCAGCATATAGCCTGCGGGTCTTTC
1 AGCCCGGATAACAGTCCAGCAGATAGCCTGCGGGTCTTTA
*
78612049 AGCCCAGATA
1 AGCCCGGATA
78612059 CAATTCTTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 1 0.02
40 42 0.98
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (40 bp):
AGCCCGGATAACAGTCCAGCAGATAGCCTGCGGGTCTTTA
Found at i:78615418 original size:27 final size:26
Alignment explanation
Indices: 78615370--78615430 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
78615360 GCGAGGTTTC
*
78615370 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
78615397 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
*
78615423 CAAATATT
1 CAGATATT
78615431 TATATATGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:78616178 original size:27 final size:27
Alignment explanation
Indices: 78616148--78616292 Score: 182
Period size: 27 Copynumber: 5.4 Consensus size: 27
78616138 GGGCAAAATA
* * * *
78616148 GTAATTTTACCCCATAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
78616175 GTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
78616202 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
78616229 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
* *
78616256 GTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCG
78616283 GTAATTCTAC
1 GTAATTCTAC
78616293 AACTTATCCA
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 102 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCG
Found at i:78625293 original size:44 final size:43
Alignment explanation
Indices: 78625230--78625388 Score: 125
Period size: 44 Copynumber: 3.7 Consensus size: 43
78625220 TATGTGTTCT
*
78625230 CGTGTAAGACCACGCCTGGGACGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TTATGATTTA
* * *
78625274 CGTGTAAGACCATGTCTGGGACATTGGCGTCGTATT-TGATTTCA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTATGATTT-A
* *
78625318 C--GAAAGACC-CTGTCTGGGACAG-TGACATC-ATTATTTGA-TTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATTA--TGATTTA
* * *
78625359 CATGTAAGACCACGTCTAGGATGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
78625389 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 13, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
40 3 0.03
41 2 0.02
42 24 0.26
43 28 0.31
44 33 0.36
45 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.30
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTATGATTTA
Found at i:78626193 original size:22 final size:22
Alignment explanation
Indices: 78626155--78626197 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
78626145 TTGGCATGAT
78626155 TTTGGTATGGTTATAATCATGGA
1 TTTGGTATGGTTATAAT-ATGGA
*
78626178 TTTGGT-TGTTTATAATATGG
1 TTTGGTATGGTTATAATATGG
78626198 TATGAATGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 9 0.47
23 6 0.32
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.49
Consensus pattern (22 bp):
TTTGGTATGGTTATAATATGGA
Found at i:78631249 original size:40 final size:40
Alignment explanation
Indices: 78631194--78631423 Score: 180
Period size: 40 Copynumber: 5.5 Consensus size: 40
78631184 CGGATGATAA
* *
78631194 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTGACTATA-T
*
78631234 CCGGGCTAAGCCCCGAAGGAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGCCCCGAA-G--G---C------ATTTGTGCGAGTGACTATA-T
* * *
78631286 TCGGGCTAAGCCCCGAAGACATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTGACTATAT
* * *
78631326 CCGGGCTAAGGCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTGACTATAT
* *
78631366 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT-AGCTATAT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTGA-CTATAT
**
78631406 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGCCCCGAAGG
78631424 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 13, Indels: 29
0.80 0.06 0.14
Matches are distributed among these distances:
39 16 0.10
40 105 0.64
41 2 0.01
43 1 0.01
46 2 0.01
51 1 0.01
52 36 0.22
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTGACTATAT
Found at i:78631263 original size:52 final size:52
Alignment explanation
Indices: 78631201--78631303 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
78631191 TAACCGGGCT
78631201 AAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCCGAAGG
1 AAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCCGAAGG
*
78631253 AAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCCGAAG
1 AAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCCGAAG
78631304 ACATTTGTGC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.22
Consensus pattern (52 bp):
AAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCCGAAGG
Found at i:78631390 original size:80 final size:79
Alignment explanation
Indices: 78631257--78631423 Score: 212
Period size: 80 Copynumber: 2.1 Consensus size: 79
78631247 CGAAGGAAGT
* ** *
78631257 CCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCCGAAGACATTTGTGCGAGTTA-C
1 CCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCCGAAGACATTTGAGCGAG-TAGC
*
78631321 TATATCCGGGCTAAGG
65 TATATCC-GGCTAAAG
* * *
78631337 CCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGC
1 CCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAGCCCCGAAGACATTTGAGCGAGTAGC
*
78631401 TATATCCGGCTAAAT
65 TATATCCGGCTAAAG
78631416 CCCGAAGG
1 CCCGAAGG
78631424 TACTTGGTTT
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
CCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCCGAAGACATTTGAGCGAGTAGCT
ATATCCGGCTAAAG
Found at i:78639242 original size:40 final size:40
Alignment explanation
Indices: 78639186--78639363 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
78639176 CGGATGATAA
* *
78639186 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * *
78639226 TCGGGCTAAGCCCCGAAGACATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
78639266 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
78639306 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
78639346 CC-GGCTAAATCCCAAAGG
1 CCGGGCTAAGTCCCGAAGG
78639364 TACTTGGTTT
Statistics
Matches: 123, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
39 16 0.13
40 106 0.86
41 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:78640774 original size:42 final size:43
Alignment explanation
Indices: 78640715--78640824 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
78640705 AGGTGTTACA
* * * *
78640715 AAGACCATGTCTGGGACATTGGTATCG-TATTTGATTTCGTGT
1 AAGACCATGTCTGGGACAGTGGCATCGATATTTGATTACATGT
*
78640757 AAGACCTTGTCTGGGACAGTGGCATCGATATTTGATTACATGT
1 AAGACCATGTCTGGGACAGTGGCATCGATATTTGATTACATGT
* *
78640800 AAGACCACGACTGGGAC-GTTGGCAT
1 AAGACCATGTCTGGGACAG-TGGCAT
78640825 TGTACAAGCT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 25 0.43
43 33 0.57
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
AAGACCATGTCTGGGACAGTGGCATCGATATTTGATTACATGT
Found at i:78643736 original size:40 final size:40
Alignment explanation
Indices: 78643681--78644058 Score: 688
Period size: 40 Copynumber: 9.5 Consensus size: 40
78643671 CGGATGATAA
78643681 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
78643721 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
78643761 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
78643801 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
78643841 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
78643881 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
78643921 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
78643961 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
78644001 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
78644041 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
78644059 TACTTGGTTT
Statistics
Matches: 331, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
39 15 0.05
40 316 0.95
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:78646154 original size:40 final size:40
Alignment explanation
Indices: 78645882--78646142 Score: 407
Period size: 40 Copynumber: 6.5 Consensus size: 40
78645872 AGTTGTATAG
*
78645882 CCGGGCTAAGTCCCGAAGAGCATTCGAGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
78645922 CCGGGTTAAGTCCC-AAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
78645961 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
78646001 CCGGGTTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* *
78646041 CCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* ** * * *
78646081 CCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
78646121 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
78646143 ATCATGCTGG
Statistics
Matches: 203, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 37 0.18
40 166 0.82
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
Found at i:78646368 original size:25 final size:25
Alignment explanation
Indices: 78646318--78646368 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
78646308 TGTGTAACAA
* *
78646318 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
78646343 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
78646368 C
1 C
78646369 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:78651378 original size:40 final size:39
Alignment explanation
Indices: 78651334--78651410 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 39
78651324 AGTGACCATA
*
78651334 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
78651374 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTA
78651411 TAACCGGGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 24 0.71
40 10 0.29
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:78651395 original size:39 final size:40
Alignment explanation
Indices: 78651294--78651457 Score: 160
Period size: 40 Copynumber: 4.1 Consensus size: 40
78651284 TTGAATGATG
* *
78651294 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
78651334 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
78651373 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * * **
78651413 ACCGGGCTATGTCTCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATA-CTATA
78651453 TCCGG
1 TCCGG
78651458 TTAAATTCCG
Statistics
Matches: 105, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 36 0.34
40 58 0.55
41 10 0.10
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:78651457 original size:79 final size:80
Alignment explanation
Indices: 78651294--78651444 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
78651284 TTGAATGATG
*
78651294 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
78651359 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
78651374 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCTCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGATC-CGAAGGCAT
78651436 TTGAACGAG
64 TTGAACGAG
78651445 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 41 0.67
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:78659165 original size:28 final size:27
Alignment explanation
Indices: 78659108--78659204 Score: 140
Period size: 27 Copynumber: 3.6 Consensus size: 27
78659098 TAAATTGTGC
*
78659108 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGAATATGT
*
78659135 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGAATATGT
* *
78659163 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGAATATGT
*
78659190 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
78659205 GACTTAATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 38 0.59
28 26 0.41
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGAATATGT
Found at i:78668319 original size:40 final size:41
Alignment explanation
Indices: 78668169--78668319 Score: 154
Period size: 40 Copynumber: 3.8 Consensus size: 41
78668159 TTCTAGCACC
** * * * *
78668169 AGCCTGCGGGAATTTAAACCCGG-TATAATACCAGCTCG-T
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAT
* *
78668208 AGCCTGCGGGTCTCT-AGCCCGGATAGC-ATTCTAGCACGA-
1 AGCCTGCGGGTCTTTAAGCCCGGATA-CAATTCCAGCACGAT
*
78668247 AGCCTGCGGGTCTTTAAGCCCGGATA-ACATTCCAGCA-TAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACA-ATTCCAGCACGAT
78668287 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCC
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCC
78668320 TCAAGTATGA
Statistics
Matches: 93, Mismatches: 11, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
38 6 0.06
39 37 0.40
40 49 0.53
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (41 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAT
Found at i:78673081 original size:40 final size:40
Alignment explanation
Indices: 78673010--78673155 Score: 206
Period size: 40 Copynumber: 3.7 Consensus size: 40
78673000 TACCAGCTCG
* * * *
78673010 TAGCCTGCGGGTCTCT-ATCCCGGATAGCATTCTAGCACGA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCTAGCA-TA
78673050 -AGCCTGCGGGTCTTTAAGCCCGGATAACATTCTAGCATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCTAGCATA
*
78673089 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCTAGCATA
* *
78673129 TAGCCTGCAGGTCTTTAAGCTCGGATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATA
78673156 CAATTCCTCA
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
39 15 0.15
40 82 0.85
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCTAGCATA
Found at i:78678658 original size:42 final size:42
Alignment explanation
Indices: 78678570--78678752 Score: 210
Period size: 42 Copynumber: 4.3 Consensus size: 42
78678560 ACCACATCTA
* *
78678570 GGACGTTGGCATCG-ACTTATGATTTACATGTAAGACCTTGTCTG
1 GGACATTGGCATCGTA-TT-TGATTT-CATGTAAGACCCTGTCTG
* *
78678614 GGACATTGGCATCGTATTTGATTTCGTGTAGGACCCTGTCTG
1 GGACATTGGCATCGTATTTGATTTCATGTAAGACCCTGTCTG
* * *
78678656 GGACAGTGGCATCGTATTTGATTTCGTGTAGGACCCTGTCTG
1 GGACATTGGCATCGTATTTGATTTCATGTAAGACCCTGTCTG
* *
78678698 GGACAGTGGCATCGATATTTGATTACATGTAAGACCAC-GT-TAG
1 GGACATTGGCATCG-TATTTGATTTCATGTAAGACC-CTGTCT-G
78678741 GGACATTGGCAT
1 GGACATTGGCAT
78678753 TGTACGAGCT
Statistics
Matches: 126, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
42 71 0.56
43 38 0.30
44 16 0.13
45 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (42 bp):
GGACATTGGCATCGTATTTGATTTCATGTAAGACCCTGTCTG
Found at i:78678744 original size:85 final size:87
Alignment explanation
Indices: 78678554--78678752 Score: 225
Period size: 85 Copynumber: 2.3 Consensus size: 87
78678544 TGTGTTATCG
* *
78678554 TGTAAGACCACATCTA-GGAC-GTTGGCATCGACTTATGATTTACATGTAAGACCTTGTCTGGGA
1 TGTAAGACCACGTCTAGGGACAG-TGGCATCGACTTATGATTTACATGTAAGACCCTGTCTGGGA
* * *
78678617 CATTGGCATCGTATTTGATTTCG
65 CAGTGGCATCGTATTTGATTACA
* * *
78678640 TGTAGGACC-CTGTCT-GGGACAGTGGCATCGTA-TT-TGATTT-CGTGTAGGACCCTGTCTGGG
1 TGTAAGACCAC-GTCTAGGGACAGTGGCATCG-ACTTATGATTTACATGTAAGACCCTGTCTGGG
78678700 ACAGTGGCATCGATATTTGATTACA
64 ACAGTGGCATCG-TATTTGATTACA
*
78678725 TGTAAGACCACGT-TAGGGACATTGGCAT
1 TGTAAGACCACGTCTAGGGACAGTGGCAT
78678753 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 10, Indels: 15
0.79 0.08 0.12
Matches are distributed among these distances:
84 29 0.30
85 39 0.41
86 26 0.27
87 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.32
Consensus pattern (87 bp):
TGTAAGACCACGTCTAGGGACAGTGGCATCGACTTATGATTTACATGTAAGACCCTGTCTGGGAC
AGTGGCATCGTATTTGATTACA
Found at i:78683597 original size:50 final size:49
Alignment explanation
Indices: 78683511--78683708 Score: 227
Period size: 50 Copynumber: 4.0 Consensus size: 49
78683501 CGATTATAGA
* * *
78683511 AAATCAAATATAATATCACATATGTGCATACCTATATGGCCGAATATAC
1 AAATCAAATATAACATCAAATATGTACATACCTATATGGCCGAATATAC
* * * *
78683560 AAGATCAAATTTAACATCAAATATGTACTTACTTATATGGCTGAATATAC
1 AA-ATCAAATATAACATCAAATATGTACATACCTATATGGCCGAATATAC
* * * *
78683610 AAATTCAAATATAATATCAAATTTGTGCATACCT-TCATGGCCGAATATTC
1 AAA-TCAAATATAACATCAAATATGTACATACCTAT-ATGGCCGAATATAC
* * *
78683660 AAAATCCAATATAACATCACATATGTACATACCTATGTGGCCGAATATA
1 -AAATCAAATATAACATCAAATATGTACATACCTATATGGCCGAATATA
78683709 TACAAGGTCA
Statistics
Matches: 122, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 4 0.03
50 114 0.93
51 4 0.03
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (49 bp):
AAATCAAATATAACATCAAATATGTACATACCTATATGGCCGAATATAC
Found at i:78683626 original size:100 final size:100
Alignment explanation
Indices: 78683505--78683708 Score: 275
Period size: 100 Copynumber: 2.0 Consensus size: 100
78683495 TTTGGTCGAT
* * *
78683505 TATAGAAAATCAAATATAATATCACATATGTGCATACCTAT-ATGGCCGAATATACAAGATCAAA
1 TATACAAAATCAAATATAATATCAAATATGTGCATACCT-TCATGGCCGAATATACAAAATCAAA
* * * *
78683569 TTTAACATCAAATATGTACTTACTTATATGGCTGAA
65 TATAACATCAAATATGTACATACCTATATGGCCGAA
* * * *
78683605 TATACAAATTCAAATATAATATCAAATTTGTGCATACCTTCATGGCCGAATATTCAAAATCCAAT
1 TATACAAAATCAAATATAATATCAAATATGTGCATACCTTCATGGCCGAATATACAAAATCAAAT
* *
78683670 ATAACATCACATATGTACATACCTATGTGGCCGAA
66 ATAACATCAAATATGTACATACCTATATGGCCGAA
78683705 TATA
1 TATA
78683709 TACAAGGTCA
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 1 0.01
100 89 0.99
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (100 bp):
TATACAAAATCAAATATAATATCAAATATGTGCATACCTTCATGGCCGAATATACAAAATCAAAT
ATAACATCAAATATGTACATACCTATATGGCCGAA
Found at i:78683912 original size:41 final size:41
Alignment explanation
Indices: 78683867--78683944 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
78683857 GTCTGATACT
* *
78683867 ATTCACCGGCA-ATAAGCCTGCTTGGCAT-AAAGCCCGATTAC
1 ATTCACCAGCATA-AAGCCTGCTAGGC-TCAAAGCCCGATTAC
*
78683908 ATTCACCAGCATAAAGCTTGCTAGGCTCAAAGCCCGA
1 ATTCACCAGCATAAAGCCTGCTAGGCTCAAAGCCCGA
78683945 ATATCACTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 1 0.03
41 30 0.94
42 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (41 bp):
ATTCACCAGCATAAAGCCTGCTAGGCTCAAAGCCCGATTAC
Found at i:78693050 original size:12 final size:12
Alignment explanation
Indices: 78693033--78693059 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
78693023 AGAATTTCAA
78693033 AAATGAAAATGG
1 AAATGAAAATGG
78693045 AAATGAAAATGG
1 AAATGAAAATGG
78693057 AAA
1 AAA
78693060 CTTGAAATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.15
Consensus pattern (12 bp):
AAATGAAAATGG
Found at i:78698009 original size:36 final size:35
Alignment explanation
Indices: 78697942--78698009 Score: 82
Period size: 36 Copynumber: 1.9 Consensus size: 35
78697932 TTAGGCTAGA
* ** *
78697942 ATGAGATGAGGATTAAAATGTTTAAATTTCAATTT
1 ATGAGATAAGGATTAAAATGTGAAAAGTTCAATTT
*
78697977 ATGAGCATAAGGATTAAATTGTGAAAAGTTCAA
1 ATGAG-ATAAGGATTAAAATGTGAAAAGTTCAA
78698010 ATGTTAGAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
35 5 0.19
36 22 0.81
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (35 bp):
ATGAGATAAGGATTAAAATGTGAAAAGTTCAATTT
Found at i:78700250 original size:28 final size:28
Alignment explanation
Indices: 78700180--78700301 Score: 118
Period size: 28 Copynumber: 4.3 Consensus size: 28
78700170 GTACAACTTT
* * * * *
78700180 AAAGGCTCACACATAGCAGAATTAGCCAT
1 AAAGGCTCACATATAACAAAATCA-CCAC
78700209 AAAGGCTCACATATAACAAAATCACCAC
1 AAAGGCTCACATATAACAAAATCACCAC
* * *
78700237 AAAGGCTCATATATAACAAAAACAACAC
1 AAAGGCTCACATATAACAAAATCACCAC
* * * *
78700265 AAAGGCCCACATATAATAGAATTAGCCAC
1 AAAGGCTCACATATAACAAAATCA-CCAC
78700294 AAAGGCTC
1 AAAGGCTC
78700302 CTACAATTCA
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
28 46 0.61
29 30 0.39
ACGTcount: A:0.48, C:0.25, G:0.12, T:0.16
Consensus pattern (28 bp):
AAAGGCTCACATATAACAAAATCACCAC
Found at i:78700505 original size:55 final size:53
Alignment explanation
Indices: 78700405--78700516 Score: 147
Period size: 55 Copynumber: 2.1 Consensus size: 53
78700395 GTCCTTGTCA
*
78700405 TCTTTTCTCCATATGATGCCATAGTCCCAACTAGGTCTTACACTATGTGGTCT
1 TCTTTTCTCCATATGATGCCATAGTCCCAACTAGGTCTTACACTATATGGTCT
* *
78700458 TCTTTTC-CCATATGATGCCATAG-CCACTATGACTAGGTTTTACACTATATTGTCT
1 TCTTTTCTCCATATGATGCCATAGTCC-C-A--ACTAGGTCTTACACTATATGGTCT
78700513 TCTT
1 TCTT
78700517 GCCATGGTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
51 2 0.04
52 17 0.33
53 8 0.15
55 25 0.48
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.40
Consensus pattern (53 bp):
TCTTTTCTCCATATGATGCCATAGTCCCAACTAGGTCTTACACTATATGGTCT
Found at i:78700962 original size:19 final size:19
Alignment explanation
Indices: 78700938--78700989 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
78700928 AATTCAAGTA
78700938 CATGAAATTCAAGTCTCTG
1 CATGAAATTCAAGTCTCTG
78700957 CATGAAATTCAAGTCTCTG
1 CATGAAATTCAAGTCTCTG
78700976 CATGAAATTCAAGT
1 CATGAAATTCAAGT
78700990 ACATGAGTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (19 bp):
CATGAAATTCAAGTCTCTG
Found at i:78703166 original size:35 final size:35
Alignment explanation
Indices: 78703120--78703190 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
78703110 TATGACCGAA
78703120 ATTTTTGACAAAATGAACACCTCTATTCGGTCAAC
1 ATTTTTGACAAAATGAACACCTCTATTCGGTCAAC
*
78703155 ATTTTTGACAAAATGAACACCTCTATTTGGTCAAC
1 ATTTTTGACAAAATGAACACCTCTATTCGGTCAAC
78703190 A
1 A
78703191 ACCTAACACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.32
Consensus pattern (35 bp):
ATTTTTGACAAAATGAACACCTCTATTCGGTCAAC
Found at i:78705190 original size:35 final size:35
Alignment explanation
Indices: 78705144--78705214 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
78705134 TATGACCGAA
78705144 ATTTTTGACAAAATGAACACCTCTATTCGGTCAAC
1 ATTTTTGACAAAATGAACACCTCTATTCGGTCAAC
*
78705179 ATTTTTGACAAAATGAACACCTCTATTTGGTCAAC
1 ATTTTTGACAAAATGAACACCTCTATTCGGTCAAC
78705214 A
1 A
78705215 ACCTAACACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.32
Consensus pattern (35 bp):
ATTTTTGACAAAATGAACACCTCTATTCGGTCAAC
Found at i:78708216 original size:35 final size:35
Alignment explanation
Indices: 78708170--78708240 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
78708160 TATGACCGAA
78708170 ATTTTTGACAAAATGAACACCTCTATTCGGTCAAC
1 ATTTTTGACAAAATGAACACCTCTATTCGGTCAAC
*
78708205 ATTTTTGACAAAATGAACACCTCTATTTGGTCAAC
1 ATTTTTGACAAAATGAACACCTCTATTCGGTCAAC
78708240 A
1 A
78708241 ACCTAACACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.32
Consensus pattern (35 bp):
ATTTTTGACAAAATGAACACCTCTATTCGGTCAAC
Found at i:78714076 original size:46 final size:46
Alignment explanation
Indices: 78713913--78714134 Score: 252
Period size: 46 Copynumber: 4.7 Consensus size: 46
78713903 TTAAGATACT
* * *
78713913 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCAGTGTC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTC--TCAATGTC
* * * *
78713963 GATGCCATGTCCCAGACAGGTCTTACACTTGCT-T-GTAT-ATCGTGATGC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCA--ATG-T-C
*
78714011 TGATGCATGTCCCAGACATGTCTTAAACTAGCTCTCGTCTCAATGTC
1 -GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTC
*
78714058 GATGCATGTCCCAGACATGTCTTAAACTAGCTCTCGTCTCAATGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTC
78714104 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
78714135 ACACAAATTA
Statistics
Matches: 154, Mismatches: 10, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 79 0.51
47 3 0.02
48 28 0.18
49 20 0.13
50 21 0.14
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTC
Found at i:78717354 original size:6 final size:6
Alignment explanation
Indices: 78717337--78717370 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
78717327 AATCTAATAT
* *
78717337 TACTTC TACTCC TGCTCC TACTCC TACTCC TACT
1 TACTCC TACTCC TACTCC TACTCC TACTCC TACT
78717371 AGCTCAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.44, G:0.03, T:0.38
Consensus pattern (6 bp):
TACTCC
Found at i:78724218 original size:24 final size:24
Alignment explanation
Indices: 78724104--78724216 Score: 174
Period size: 24 Copynumber: 4.8 Consensus size: 24
78724094 GAAATGACTT
78724104 TGGCACTATGTGTGCGGACTTGTA
1 TGGCACTATGTGTGCGGACTTGTA
*
78724128 TGGCACTATGTGTGCAGACTTGTA
1 TGGCACTATGTGTGCGGACTTGTA
*
78724152 TGGCACTATGTGTGCGGAATTGTA
1 TGGCACTATGTGTGCGGACTTGTA
* *
78724176 TGGCACTAT-TGTGCGGATTTATA
1 TGGCACTATGTGTGCGGACTTGTA
*
78724199 TGGCACTATGCGTGCGGA
1 TGGCACTATGTGTGCGGA
78724217 TTGGAATGTC
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
23 21 0.26
24 61 0.74
ACGTcount: A:0.19, C:0.16, G:0.32, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGACTTGTA
Found at i:78729108 original size:24 final size:24
Alignment explanation
Indices: 78728994--78729106 Score: 165
Period size: 24 Copynumber: 4.8 Consensus size: 24
78728984 GAAATGACTT
*
78728994 TGGCACTATTTGTGCGGACTTGTA
1 TGGCACTATGTGTGCGGACTTGTA
*
78729018 TGGCACTATGTGTGCAGACTTGTA
1 TGGCACTATGTGTGCGGACTTGTA
*
78729042 TGGCACTATGTGTGCGGAATTGTA
1 TGGCACTATGTGTGCGGACTTGTA
* *
78729066 TGGCACTAT-TGTGCGGATTTATA
1 TGGCACTATGTGTGCGGACTTGTA
*
78729089 TGGCACTATGCGTGCGGA
1 TGGCACTATGTGTGCGGA
78729107 TTGGAATGTC
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
23 21 0.26
24 60 0.74
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.34
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGACTTGTA
Found at i:78729123 original size:71 final size:71
Alignment explanation
Indices: 78728994--78729170 Score: 187
Period size: 71 Copynumber: 2.5 Consensus size: 71
78728984 GAAATGACTT
* * * * *
78728994 TGGCACTATTTGTGCGGACTTGTATGGCACTATGTGTGCAGACTTGTATGGCACTATGTGTGCGG
1 TGGCACTA-TTGTGCGGACTTATATGGCACTATGCGTGCAGACTTGAATGGCAATATGTATG-GG
78729059 AATTG-TA
64 AATTGCTA
* * * *
78729066 TGGCACTATTGTGCGGATTTATATGGCACTATGCGTGCGGA-TTGGAATGTCAATATGTATGTGA
1 TGGCACTATTGTGCGGACTTATATGGCACTATGCGTGCAGACTT-GAATGGCAATATGTATGGGA
78729130 ATTGCTA
65 ATTGCTA
* * * *
78729137 AGGCACTATGTGTGCGGGCTAACATGGCACTATG
1 TGGCACTAT-TGTGCGGACTTATATGGCACTATG
78729171 GGTATGAATT
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
70 8 0.09
71 52 0.59
72 28 0.32
ACGTcount: A:0.22, C:0.15, G:0.30, T:0.33
Consensus pattern (71 bp):
TGGCACTATTGTGCGGACTTATATGGCACTATGCGTGCAGACTTGAATGGCAATATGTATGGGAA
TTGCTA
Found at i:78732426 original size:42 final size:42
Alignment explanation
Indices: 78732364--78732534 Score: 252
Period size: 42 Copynumber: 4.1 Consensus size: 42
78732354 TTAAGCCCGG
* * * *
78732364 ATATAGTACCAGTACTAAGCCTGCGGGATTTAACCTGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
78732406 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
* * *
78732448 ATATTTTACCAGCACGAAGCCTGCGGAATTTAACCCAGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
* * *
78732490 ATATATTACCAGTACGGAGCCTGCGAGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
78732532 ATA
1 ATA
78732535 ATATATCAAG
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 116 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (42 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
Found at i:78738753 original size:42 final size:42
Alignment explanation
Indices: 78738700--78738868 Score: 252
Period size: 42 Copynumber: 4.1 Consensus size: 42
78738690 TTAAGCCCGG
* * ** *
78738700 ATATAGTACCAGCACTAAGCCTATGGGATTTAACCTGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
78738742 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGG--AT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
* * *
78738782 ATATATTACTAGCATGAAGCTTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
78738824 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
78738866 ATA
1 ATA
78738869 ATATATCGAG
Statistics
Matches: 114, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 37 0.32
42 77 0.68
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
Found at i:78738786 original size:82 final size:82
Alignment explanation
Indices: 78738700--78738868 Score: 268
Period size: 82 Copynumber: 2.1 Consensus size: 82
78738690 TTAAGCCCGG
* *
78738700 ATATAGTACCAGCACT-AAGCCTATGGGATTTAACCTGGATATATATATTACCAGCACGAAGCCT
1 ATATAGTACCAGCA-TGAAGCCTACGGGATTTAACCCGGATATATATATTACCAGCACGAAGCCT
78738764 GCGGGATTTAACCCGGAT
65 GCGGGATTTAACCCGGAT
* * * *
78738782 ATATATTACTAGCATGAAGCTTGCGGGATTTAACCCGGATATATATATTACCAGCACGAAGCCTG
1 ATATAGTACCAGCATGAAGCCTACGGGATTTAACCCGGATATATATATTACCAGCACGAAGCCTG
78738847 CGGGATTTAACCCGGAT
66 CGGGATTTAACCCGGAT
78738864 ATATA
1 ATATA
78738869 ATATATCGAG
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
81 1 0.01
82 79 0.99
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (82 bp):
ATATAGTACCAGCATGAAGCCTACGGGATTTAACCCGGATATATATATTACCAGCACGAAGCCTG
CGGGATTTAACCCGGAT
Found at i:78746667 original size:64 final size:64
Alignment explanation
Indices: 78746509--78746889 Score: 437
Period size: 64 Copynumber: 5.9 Consensus size: 64
78746499 ATACAGATGG
* * * ** *
78746509 TATGTAGCTAGGTCACATGTGTAATAC-GGGATGTATACCATGT-GTACAAGAGAGCTACGAGAC
1 TATGTAGCTAGGTCGCATGGGTGATACTATG-TGTACACCATGTAG-ACAAGAGAGCTACGAG--
78746572 ATTA
62 A-TA
*
78746576 TGAGGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
1 T-ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
78746641 TATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
1 TATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
*
78746705 TATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAAGAGATA
1 TATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * * * * *
78746769 AATGTAGCTAGGTTGCATGTGTGGTTCCAGGTGAAGGACACCATGTAAACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCGCATGGGTGATACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
78746834 TA
63 TA
* * * * * *
78746836 -AAGTGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
78746890 CAAAATTATG
Statistics
Matches: 276, Mismatches: 31, Indels: 18
0.85 0.10 0.06
Matches are distributed among these distances:
63 19 0.07
64 149 0.54
65 3 0.01
66 24 0.09
67 30 0.11
68 49 0.18
69 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.24
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:78750222 original size:21 final size:21
Alignment explanation
Indices: 78750198--78750240 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
78750188 AATCAAATAT
78750198 GAAAGTTTGTGCGGTTGTATG
1 GAAAGTTTGTGCGGTTGTATG
78750219 GAAAGTTTGTGCGGTTGTATG
1 GAAAGTTTGTGCGGTTGTATG
78750240 G
1 G
78750241 CCAACTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.05, G:0.40, T:0.37
Consensus pattern (21 bp):
GAAAGTTTGTGCGGTTGTATG
Found at i:78750820 original size:27 final size:27
Alignment explanation
Indices: 78750755--78750810 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
78750745 ACAATCATAC
* * *
78750755 ATCACATAGGGGCCTAATAGTTATTTT
1 ATCACATAGGGGCATAACAGTCATTTT
78750782 ATCACATAGGGGCATAACAGTCATTTT
1 ATCACATAGGGGCATAACAGTCATTTT
78750809 AT
1 AT
78750811 TAATTAGGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (27 bp):
ATCACATAGGGGCATAACAGTCATTTT
Found at i:78757297 original size:27 final size:27
Alignment explanation
Indices: 78757243--78757300 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
78757233 ACAATCATAC
* * * *
78757243 ATCACATAGGGGCATAACAGTTATTTT
1 ATCACATAGGGCCATAACAATCAATTT
78757270 ATCACATAGGGCCATAACAATCAATTT
1 ATCACATAGGGCCATAACAATCAATTT
78757297 ATCA
1 ATCA
78757301 ATTAAGGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (27 bp):
ATCACATAGGGCCATAACAATCAATTT
Found at i:78757446 original size:17 final size:18
Alignment explanation
Indices: 78757416--78757449 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
78757406 ATATTACGGG
78757416 CCCATGTGGGCCCACACA
1 CCCATGTGGGCCCACACA
78757434 CCCATGT-GGCCCACAC
1 CCCATGTGGGCCCACAC
78757450 GGCCCATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.21, C:0.47, G:0.21, T:0.12
Consensus pattern (18 bp):
CCCATGTGGGCCCACACA
Found at i:78757455 original size:18 final size:19
Alignment explanation
Indices: 78757414--78757456 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
78757404 CCATATTACG
78757414 GGCCCATGTGGGCCCACAC
1 GGCCCATGTGGGCCCACAC
*
78757433 -ACCCATGT-GGCCCACAC
1 GGCCCATGTGGGCCCACAC
78757450 GGCCCAT
1 GGCCCAT
78757457 AATGGCCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.19, C:0.44, G:0.26, T:0.12
Consensus pattern (19 bp):
GGCCCATGTGGGCCCACAC
Found at i:78758029 original size:44 final size:44
Alignment explanation
Indices: 78757972--78758061 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
78757962 TTAATAACCT
78757972 AAACCATTATTGATCACACCAATAGTTTGAACCAACCGAATAAC
1 AAACCATTATTGATCACACCAATAGTTTGAACCAACCGAATAAC
78758016 AAACCATTATTGATCACACCAATAGTTTGAACCAACCGAATAAC
1 AAACCATTATTGATCACACCAATAGTTTGAACCAACCGAATAAC
78758060 AA
1 AA
78758062 CTTACCAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.44, C:0.24, G:0.09, T:0.22
Consensus pattern (44 bp):
AAACCATTATTGATCACACCAATAGTTTGAACCAACCGAATAAC
Found at i:78759269 original size:11 final size:11
Alignment explanation
Indices: 78759253--78759278 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
78759243 TAATCATCCC
78759253 TCATCCCTCAA
1 TCATCCCTCAA
78759264 TCATCCCTCAA
1 TCATCCCTCAA
78759275 TCAT
1 TCAT
78759279 TCATCATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.42, G:0.00, T:0.31
Consensus pattern (11 bp):
TCATCCCTCAA
Found at i:78761732 original size:26 final size:26
Alignment explanation
Indices: 78761703--78761840 Score: 127
Period size: 27 Copynumber: 5.2 Consensus size: 26
78761693 TTAGTTTACC
*
78761703 AAATTACTGAAATACCCCCAGTTGTA
1 AAATTACTCAAATACCCCCAGTTGTA
*
78761729 AAATTAC-CAAAGTACCCCCAGTTATA
1 AAATTACTCAAA-TACCCCCAGTTGTA
* * * *
78761755 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTCAAATA-CCCCCAGTTGTA
*
78761782 AAATTA-TCGAAATACCCTCAGTTTGTA
1 AAATTACTC-AAATACCCCCAG-TTGTA
* * **
78761809 AAATTACTAAAATACCCTCACATGTA
1 AAATTACTCAAATACCCCCAGTTGTA
78761835 AAATTA
1 AAATTA
78761841 ACAAAGTACC
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
25 3 0.03
26 43 0.47
27 45 0.49
28 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (26 bp):
AAATTACTCAAATACCCCCAGTTGTA
Found at i:78761747 original size:27 final size:25
Alignment explanation
Indices: 78761703--78761851 Score: 118
Period size: 26 Copynumber: 5.6 Consensus size: 25
78761693 TTAGTTTACC
*
78761703 AAATTACTGAAATACCCCCAGTTGTA
1 AAATTAC-CAAATACCCCCAGTTGTA
*
78761729 AAATTACCAAAGTACCCCCAGTTATA
1 AAATTACCAAA-TACCCCCAGTTGTA
* * *
78761755 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATA-CCCCCAGTTGTA
* *
78761782 AAATTATCGAAATACCCTCAGTTTGTA
1 AAATTA-CCAAATACCCCCAG-TTGTA
* * **
78761809 AAATTACTAAAATACCCTCACATGTA
1 AAATTAC-CAAATACCCCCAGTTGTA
*
78761835 AAATTAACAAAGTACCC
1 AAATTACCAAA-TACCC
78761852 TCGAATTAAA
Statistics
Matches: 100, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
25 6 0.06
26 47 0.47
27 47 0.47
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.28
Consensus pattern (25 bp):
AAATTACCAAATACCCCCAGTTGTA
Found at i:78761835 original size:53 final size:51
Alignment explanation
Indices: 78761703--78761871 Score: 151
Period size: 53 Copynumber: 3.2 Consensus size: 51
78761693 TTAGTTTACC
* * * *
78761703 AAATTACTGAAATACCCCCAGTTGTAAAATTACCAAAGTACCCCCAGTTATA
1 AAATTACTAAAATACCCTCACTTGTAAAATTA-CAAAGTACCCTCAGTTATA
** * * *
78761755 AAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAA-TACCCTCAGTTTGTA
1 AAATTACTAAAATACCCTC-ACTTGTAAAATTA-C-AAAGTACCCTCAG-TTATA
* * *
78761809 AAATTACTAAAATACCCTCACATGTAAAATTAACAAAGTACCCTCGAATTAAAA
1 AAATTACTAAAATACCCTCACTTGTAAAATT-ACAAAGTACCCTC-AGTT-ATA
78761863 AAATTACTA
1 AAATTACTA
78761872 TTTTACCCTC
Statistics
Matches: 94, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
52 18 0.19
53 41 0.44
54 35 0.37
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (51 bp):
AAATTACTAAAATACCCTCACTTGTAAAATTACAAAGTACCCTCAGTTATA
Found at i:78761895 original size:81 final size:80
Alignment explanation
Indices: 78761810--78762049 Score: 196
Period size: 81 Copynumber: 3.0 Consensus size: 80
78761800 CAGTTTGTAA
*
78761810 AATTACTAAAATACCCTCACA-TGTAAAATTAACAAAGTACCCTCGAATTAAAAAAATTA-CTAT
1 AATTACTAAAATACCCTCA-ATTATAAAATTAACAAAGTACCCTCG-ATTAAAAAAATTATC-AT
78761873 TTTACCCTCGATTTATAG
63 TTTACCCTCGATTTATAG
**** * *** * *
78761891 AATTACTGTTTTACCCTCAATTTATAAAATTACCATTTTACCCTCGATTTACAAAATTATCATTT
1 AATTACTAAAATACCCTCAA-TTATAAAATTAACAAAGTACCCTCGATTAAAAAAATTATCATTT
78761956 TACCCTCGATTTATAG
65 TACCCTCGATTTATAG
* *** * * * *** * * * *
78761972 AATTATTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTT
1 AATTACTAAAATACCCTC-AATTATAAAATTAACAAAGTACCCTCGATTAAAAAAATTATCATTT
78762037 TACCCTCGATTTA
65 TACCCTCGATTTA
78762050 CAAAATTATT
Statistics
Matches: 138, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
80 1 0.01
81 116 0.84
82 21 0.15
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (80 bp):
AATTACTAAAATACCCTCAATTATAAAATTAACAAAGTACCCTCGATTAAAAAAATTATCATTTT
ACCCTCGATTTATAG
Found at i:78761902 original size:27 final size:27
Alignment explanation
Indices: 78761847--78762095 Score: 284
Period size: 27 Copynumber: 9.2 Consensus size: 27
78761837 ATTAACAAAG
* *
78761847 TACCCTCGAATTAAAAAAATTACTATTT
1 TACCCTCG-ATTTACAAAATTACTATTT
* * *
78761875 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
78761902 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
78761929 TACCCTCGATTTACAAAATTA-TCATTT
1 TACCCTCGATTTACAAAATTACT-ATTT
* * *
78761956 TACCCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
78761983 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
**
78762010 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
78762037 TACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
78762064 TACACTTGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
78762091 TACCC
1 TACCC
78762096 CTAGGGTGTT
Statistics
Matches: 193, Mismatches: 26, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
27 184 0.95
28 9 0.05
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:78762057 original size:81 final size:81
Alignment explanation
Indices: 78761847--78762095 Score: 363
Period size: 81 Copynumber: 3.1 Consensus size: 81
78761837 ATTAACAAAG
* * * * *
78761847 TACCCTCGAATTAAAAAAATTACTATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCAAT
1 TACCCTCG-ATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTATTGTTTTACCCTCGAT
78761912 TTATAAAATTACCATTT
65 TTATAAAATTACCATTT
* *
78761929 TACCCTCGATTTACAAAATTATCATTTTACCCTCGATTTATAGAATTATTATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTATTGTTTTACCCTCGATT
*
78761994 TATAGAATTACCATTT
66 TATAAAATTACCATTT
* * * * *
78762010 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTATTGTTTTACACTTGATT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTATTGTTTTACCCTCGATT
*
78762075 TACAAAATTACCATTT
66 TATAAAATTACCATTT
78762091 TACCC
1 TACCC
78762096 CTAGGGTGTT
Statistics
Matches: 150, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
81 142 0.95
82 8 0.05
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTATAGAATTATTGTTTTACCCTCGATT
TATAAAATTACCATTT
Found at i:78762382 original size:27 final size:26
Alignment explanation
Indices: 78762338--78762389 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
78762328 CTCGCTGCAA
*
78762338 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
78762365 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
78762390 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:78762634 original size:6 final size:6
Alignment explanation
Indices: 78762623--78762681 Score: 93
Period size: 6 Copynumber: 9.8 Consensus size: 6
78762613 NNNNNNNNNN
*
78762623 CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT TTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT
78762671 CT-AGTT CTGAT
1 CTGA-TT CTGAT
78762682 AATGTTTCTT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
5 1 0.02
6 47 0.96
7 1 0.02
ACGTcount: A:0.17, C:0.15, G:0.17, T:0.51
Consensus pattern (6 bp):
CTGATT
Found at i:78764703 original size:27 final size:26
Alignment explanation
Indices: 78764668--78764781 Score: 113
Period size: 27 Copynumber: 4.3 Consensus size: 26
78764658 GAAATAACTG
78764668 AAATACCCCCAG-TTGTAAAATTACC
1 AAATACCCCCAGTTTGTAAAATTACC
* *
78764693 AAAGTACCCCCGGTTTATAAAATTACCC
1 AAA-TACCCCCAGTTTGTAAAATTA-CC
* * *
78764721 AAATATCCTCGGTTTGTAAAATTACC
1 AAATACCCCCAGTTTGTAAAATTACC
* * *
78764747 AAAATACCCTCAGTTTGCAAAATTACT
1 -AAATACCCCCAGTTTGTAAAATTACC
*
78764774 GAATACCC
1 AAATACCC
78764782 TCGACATGTA
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
25 3 0.04
26 17 0.23
27 50 0.67
28 5 0.07
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.27
Consensus pattern (26 bp):
AAATACCCCCAGTTTGTAAAATTACC
Found at i:78764852 original size:81 final size:80
Alignment explanation
Indices: 78764767--78765015 Score: 187
Period size: 81 Copynumber: 3.1 Consensus size: 80
78764757 CAGTTTGCAA
* * *
78764767 AATTACTGA-ATACCCTCGACATGTAAAATTATCAAAGTACCATCGAATTACAAAAATTATTATT
1 AATTACT-ATATACCCTCGACATATAAAATTACCAAAGTACCATCGAATTAC-AAAATTATCATT
78764831 TTACCCTCGATTTACAG
64 TTACCCTCGATTTACAG
* ** **** * * *
78764848 AATTACTATTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAAAATTATCGTTT
1 AATTACTA-TATACCCTCGACATATAAAATTACCAAAGTACCATCGAATTACAAAATTATCATTT
*
78764913 TACCCTCGATTTATAG
65 TACCCTCGATTTACAG
* * * ** * ***** * * *
78764929 AATTATTGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAAAATTA-CTGTT
1 AATTACT-ATATACCCTCGACATATAAAATTACCAAAGTACCATCGAATTACAAAATTATC-ATT
78764993 TTACCCTCGATTTACAG
64 TTACCCTCGATTTACAG
78765010 AATTAC
1 AATTAC
78765016 CATTTTACCA
Statistics
Matches: 144, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
80 2 0.01
81 111 0.77
82 31 0.22
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (80 bp):
AATTACTATATACCCTCGACATATAAAATTACCAAAGTACCATCGAATTACAAAATTATCATTTT
ACCCTCGATTTACAG
Found at i:78764859 original size:27 final size:27
Alignment explanation
Indices: 78764804--78765052 Score: 293
Period size: 27 Copynumber: 9.2 Consensus size: 27
78764794 ATTATCAAAG
* * * *
78764804 TACCATCGAATTACAAAAATTATTATTT
1 TACCCTCGATTTAC-AAAATTACTGTTT
* *
78764832 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
78764859 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
78764886 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* * *
78764913 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
78764940 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
78764967 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* **
78764994 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * **
78765021 TACCATCAATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
78765048 TACCC
1 TACCC
78765053 CTAGGGTGTT
Statistics
Matches: 197, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
27 184 0.93
28 13 0.07
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:78765022 original size:81 final size:80
Alignment explanation
Indices: 78764804--78765052 Score: 345
Period size: 81 Copynumber: 3.1 Consensus size: 80
78764794 ATTATCAAAG
* * *
78764804 TACCATCGAATTACAAAAATTATTATTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGAT
1 TACCCTCGATTTAC-AAAATTA-TGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGAT
78764869 TTATAAAATTACCGTTT
64 TTATAAAATTACCGTTT
* * *
78764886 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTATTGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTAT-GTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
* *
78764951 TATAGAATTACTGTTT
65 TATAAAATTACCGTTT
* * *
78764967 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAGAATTACCATTTTACCATCAATT
1 TACCCTCGATTTACAAAATTA-TGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
* *
78765032 TACAAAATTACCATTT
65 TATAAAATTACCGTTT
78765048 TACCC
1 TACCC
78765053 CTAGGGTGTT
Statistics
Matches: 147, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
80 1 0.01
81 133 0.90
82 13 0.09
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTATGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTT
ATAAAATTACCGTTT
Found at i:78765338 original size:27 final size:26
Alignment explanation
Indices: 78765294--78765345 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
78765284 CTCGCTGCAA
*
78765294 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
78765321 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
78765346 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:78765413 original size:26 final size:27
Alignment explanation
Indices: 78765384--78765443 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
78765374 CCACATATAT
*
78765384 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
78765410 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
78765437 ATATCTG
1 ATATCTG
78765444 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:78765595 original size:19 final size:19
Alignment explanation
Indices: 78765589--78765671 Score: 86
Period size: 19 Copynumber: 4.5 Consensus size: 19
78765579 TTACCTGATA
78765589 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
*
78765608 CT-ATTTCTTATTCTGGTT--
1 CTGA-TTCTGATTCT-GTTAC
78765626 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
*
78765645 CTGATACTGATTCTGATT--
1 CTGATTCTGATTCTG-TTAC
78765663 CTGATTCTG
1 CTGATTCTG
78765672 TCACCTAATT
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
17 3 0.06
18 20 0.37
19 26 0.48
20 5 0.09
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.49
Consensus pattern (19 bp):
CTGATTCTGATTCTGTTAC
Found at i:78765598 original size:6 final size:6
Alignment explanation
Indices: 78765561--78765710 Score: 87
Period size: 6 Copynumber: 24.3 Consensus size: 6
78765551 TTGCATTCAC
* * *
78765561 ATTCTG GTTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * *
78765610 ATTTCTT ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG
1 A-TTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * *
78765660 ATTCTG ATTCTG -TCACCTA ATTCTG ATCCTG ATTCTG ATTCT- AGTTCTG
1 ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
78765709 AT
1 AT
78765711 AATGTTTCTT
Statistics
Matches: 111, Mismatches: 17, Indels: 32
0.69 0.11 0.20
Matches are distributed among these distances:
5 8 0.07
6 86 0.77
7 12 0.11
8 5 0.05
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:78765605 original size:25 final size:25
Alignment explanation
Indices: 78765561--78765696 Score: 103
Period size: 25 Copynumber: 5.7 Consensus size: 25
78765551 TTGCATTCAC
* *
78765561 ATTCTGGTTTTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTG
*
78765586 ATACTGATTCTGATTCTGTTACCT-
1 ATTCTGATTCTGATTCTGTTACCTG
*
78765610 A---T--TTCTTATTCTGGTT--CTG
1 ATTCTGATTCTGATTCT-GTTACCTG
*
78765629 ATTCTGATTCTG-TTACCTGATA-CTG
1 ATTCTGATTCTGATT--CTGTTACCTG
* *
78765654 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTTACCTG
*
78765679 ATTCTGATCCTGATTCTG
1 ATTCTGATTCTGATTCTG
78765697 ATTCTAGTTC
Statistics
Matches: 89, Mismatches: 10, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
18 2 0.02
19 10 0.11
20 3 0.03
21 1 0.01
22 1 0.01
23 2 0.02
24 11 0.12
25 57 0.64
26 2 0.02
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.48
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTG
Found at i:78765659 original size:31 final size:31
Alignment explanation
Indices: 78765561--78765726 Score: 151
Period size: 31 Copynumber: 5.4 Consensus size: 31
78765551 TTGCATTCAC
* *
78765561 ATTCTGGTTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * * *
78765592 ATTCTGATTCTG-TTACCTATT-TCTTATTCTG
1 ATTCTGATTCTGATT--CTGTTACCTGATACTG
*
78765623 GTTCTGATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * *
78765654 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* *
78765685 ATCCTGATTCTGATTCTAGTT--CTGATAATG
1 ATTCTGATTCTGATTCT-GTTACCTGATACTG
* *
78765715 TTTCTTATTCTG
1 ATTCTGATTCTG
78765727 TAATGGGTTA
Statistics
Matches: 107, Mismatches: 23, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
30 21 0.20
31 78 0.73
32 8 0.07
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:78765686 original size:37 final size:36
Alignment explanation
Indices: 78765573--78765701 Score: 124
Period size: 37 Copynumber: 3.6 Consensus size: 36
78765563 TCTGGTTTTG
* *
78765573 ATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTA
1 ATTCTGATA-CTGATTCTGATTCTGATTCTG-TACCTA
* * * *
78765611 TTTCTTATTCTGGTTCTGATTCTGATTCTGT---T-
1 ATTCTGATACTGATTCTGATTCTGATTCTGTACCTA
*
78765643 A-CCTGATACTGATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATACTGATTCTGATTCTGATTCTGT-ACCTA
*
78765679 ATTCTGATCCTGATTCTGATTCT
1 ATTCTGATACTGATTCTGATTCT
78765702 AGTTCTGATA
Statistics
Matches: 72, Mismatches: 13, Indels: 13
0.73 0.13 0.13
Matches are distributed among these distances:
31 25 0.35
33 1 0.01
35 1 0.01
36 2 0.03
37 38 0.53
38 5 0.07
ACGTcount: A:0.18, C:0.21, G:0.14, T:0.47
Consensus pattern (36 bp):
ATTCTGATACTGATTCTGATTCTGATTCTGTACCTA
Found at i:78775067 original size:30 final size:30
Alignment explanation
Indices: 78775033--78775093 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
78775023 TCCTTAACTC
78775033 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
78775063 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
78775093 A
1 A
78775094 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:78782384 original size:8 final size:8
Alignment explanation
Indices: 78782367--78782402 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
78782357 ACTTAAGTAT
78782367 ATAATATA
1 ATAATATA
*
78782375 ATAATTTA
1 ATAATATA
*
78782383 ATAATTTA
1 ATAATATA
78782391 ATAATATA
1 ATAATATA
78782399 ATAA
1 ATAA
78782403 AGCATAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
ATAATATA
Found at i:78787620 original size:30 final size:30
Alignment explanation
Indices: 78787586--78787646 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
78787576 TCCTTAACTC
78787586 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
78787616 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
78787646 A
1 A
78787647 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:78792067 original size:30 final size:30
Alignment explanation
Indices: 78792033--78792093 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
78792023 TCCTTAACTC
78792033 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
78792063 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
78792093 A
1 A
78792094 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:78794075 original size:39 final size:39
Alignment explanation
Indices: 78794008--78794152 Score: 182
Period size: 39 Copynumber: 3.7 Consensus size: 39
78793998 ACTAGCACAA
* * * * **
78794008 AGCCTTCGAGACTTTAAGCCCGGATATATTTCCAGCACGT
1 AGCCTGCG-GACTTTAAGTCCGAATATATTTCCCGCATAT
* * * *
78794048 AGCCTGTGGACCTGAAGTCCGGATATATTTCCCGCATAT
1 AGCCTGCGGACTTTAAGTCCGAATATATTTCCCGCATAT
*
78794087 AGCCTGCGGACTTTAAGTCCAAATATATTTCCCGCATAT
1 AGCCTGCGGACTTTAAGTCCGAATATATTTCCCGCATAT
78794126 AGCCTGCGGACTTTAAGTCCGAATATA
1 AGCCTGCGGACTTTAAGTCCGAATATA
78794153 ATTTTCAAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 85 0.93
40 6 0.07
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (39 bp):
AGCCTGCGGACTTTAAGTCCGAATATATTTCCCGCATAT
Found at i:78800966 original size:40 final size:40
Alignment explanation
Indices: 78800868--78801170 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
78800858 TCCTCGTTCA
* * * * *
78800868 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
78800907 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
78800947 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
78800987 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
78801027 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
78801067 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
78801107 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
78801147 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
78801171 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 39 0.16
40 193 0.80
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:78816415 original size:16 final size:17
Alignment explanation
Indices: 78816393--78816432 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
78816383 TAATGTAACG
*
78816393 TCCCAAAAATCCCGAAA
1 TCCCAAAAATCCCAAAA
78816410 -CCCAAAAATCCCAAAA
1 TCCCAAAAATCCCAAAA
78816426 TCCCAAA
1 TCCCAAA
78816433 CTTACTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.50, C:0.38, G:0.03, T:0.10
Consensus pattern (17 bp):
TCCCAAAAATCCCAAAA
Done.