Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 50 of 235
Found at i:16610818 original size:26 final size:26
Alignment explanation
Indices: 16610782--16610865 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
16610772 TGATACAAAT
16610782 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16610808 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
16610834 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
16610860 TGATAA
1 TGATAA
16610866 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:16612382 original size:26 final size:26
Alignment explanation
Indices: 16612353--16612405 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
16612343 TTTACAATTT
16612353 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
16612379 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
16612405 T
1 T
16612406 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:16612822 original size:15 final size:15
Alignment explanation
Indices: 16612804--16612837 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16612794 TTAGTTTATG
*
16612804 TTTTCATTGTTTTCT
1 TTTTCATTCTTTTCT
*
16612819 TTTTTATTCTTTTCT
1 TTTTCATTCTTTTCT
16612834 TTTT
1 TTTT
16612838 GTTGTACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTCATTCTTTTCT
Found at i:16619220 original size:39 final size:39
Alignment explanation
Indices: 16619176--16619262 Score: 111
Period size: 39 Copynumber: 2.2 Consensus size: 39
16619166 CACTCCTCCA
** * *
16619176 CCTTCAACTTCACCACCACCTACAACTTCCGCACCGCCT
1 CCTTCAACAACACCACCACCTACAACTTCAGCACCACCT
* * *
16619215 CCTTCAACAACCCCTCCACCTACAACTTCAGCACCATCT
1 CCTTCAACAACACCACCACCTACAACTTCAGCACCACCT
16619254 CCTTCAACA
1 CCTTCAACA
16619263 GCAACGCCTC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.26, C:0.49, G:0.03, T:0.21
Consensus pattern (39 bp):
CCTTCAACAACACCACCACCTACAACTTCAGCACCACCT
Found at i:16622962 original size:30 final size:30
Alignment explanation
Indices: 16622928--16622996 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
16622918 GAGTATGGTC
16622928 GTGTGGGCCACAGGCTAGGCCAAGTTGGGT
1 GTGTGGGCCACAGGCTAGGCCAAGTTGGGT
*
16622958 GTGTGAGCCACAGGCTAGGCCAAGTTGGGT
1 GTGTGGGCCACAGGCTAGGCCAAGTTGGGT
16622988 GTGTGGGCC
1 GTGTGGGCC
16622997 CACACAGGCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.16, C:0.20, G:0.43, T:0.20
Consensus pattern (30 bp):
GTGTGGGCCACAGGCTAGGCCAAGTTGGGT
Found at i:16623395 original size:15 final size:15
Alignment explanation
Indices: 16623375--16623404 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16623365 ATATTCTGGC
16623375 AGGTTGGTTGCACAT
1 AGGTTGGTTGCACAT
16623390 AGGTTGGTTGCACAT
1 AGGTTGGTTGCACAT
16623405 TATCTGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.33, T:0.33
Consensus pattern (15 bp):
AGGTTGGTTGCACAT
Found at i:16623576 original size:6 final size:6
Alignment explanation
Indices: 16623562--16623592 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
16623552 AAATGACTTA
*
16623562 AATCTG AATCCG AATCTG AATCTG AATCTG A
1 AATCTG AATCTG AATCTG AATCTG AATCTG A
16623593 CTGTGTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.29
Consensus pattern (6 bp):
AATCTG
Found at i:16631481 original size:40 final size:40
Alignment explanation
Indices: 16631298--16631467 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
16631288 TCCTCGTTCA
* * * * *
16631298 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
16631337 AATGCCTTCGGGACGTAACTCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
16631377 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
16631417 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
16631457 AAGGCCTTCGG
1 AATGCCTTCGG
16631468 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 32 0.28
40 82 0.72
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:16638968 original size:6 final size:6
Alignment explanation
Indices: 16638957--16639005 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
16638947 CATATTTACT
* * * *
16638957 ATCTGA ATCTGA ATCTGA ATTTCA TATCTGA ATATGA ATCTGA AACTGA
1 ATCTGA ATCTGA ATCTGA ATCTGA -ATCTGA ATCTGA ATCTGA ATCTGA
16639006 GTCTATGTCT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
6 31 0.89
7 4 0.11
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (6 bp):
ATCTGA
Found at i:16647333 original size:6 final size:6
Alignment explanation
Indices: 16647322--16647370 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
16647312 CATATTTACT
* * * *
16647322 ATCTGA ATCTGA ATCTGA ATTTCA TATCTGA ATATGA ATCTGA AACTGA
1 ATCTGA ATCTGA ATCTGA ATCTGA -ATCTGA ATCTGA ATCTGA ATCTGA
16647371 GTCTATGTCT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
6 31 0.89
7 4 0.11
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (6 bp):
ATCTGA
Found at i:16660458 original size:27 final size:28
Alignment explanation
Indices: 16660419--16660485 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
16660409 AAACAATAGT
* * *
16660419 AATAATAATAATAACAGT-AAATGAATA
1 AATAATAAAAATAACAATAAAATAAATA
* *
16660446 AATACTAAAAATAAGAATAAAATAAATA
1 AATAATAAAAATAACAATAAAATAAATA
16660474 AATAAATAAAAA
1 AAT-AATAAAAA
16660486 GAAAAGGTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 14 0.44
28 11 0.34
29 7 0.22
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.22
Consensus pattern (28 bp):
AATAATAAAAATAACAATAAAATAAATA
Found at i:16660937 original size:19 final size:18
Alignment explanation
Indices: 16660891--16660934 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
16660881 TTATTGGGAG
*
16660891 AGGAAGAAGGCAAACAAA
1 AGGAAAAAGGCAAACAAA
16660909 AGGAAAAAGGCAAACAAA
1 AGGAAAAAGGCAAACAAA
16660927 AGGAAAAA
1 AGGAAAAA
16660935 AGGGCTAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.66, C:0.09, G:0.25, T:0.00
Consensus pattern (18 bp):
AGGAAAAAGGCAAACAAA
Found at i:16663347 original size:15 final size:15
Alignment explanation
Indices: 16663307--16663347 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
16663297 AATAATAATT
*
16663307 ATAAATAAAAATATA
1 ATAAATAAAAGTATA
16663322 AT-AATATAAAGTATA
1 ATAAATA-AAAGTATA
16663337 ATAAATAAAAG
1 ATAAATAAAAG
16663348 ACAAGTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 4 0.17
15 15 0.65
16 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (15 bp):
ATAAATAAAAGTATA
Found at i:16664555 original size:51 final size:52
Alignment explanation
Indices: 16664478--16664588 Score: 145
Period size: 51 Copynumber: 2.1 Consensus size: 52
16664468 GACTACTATG
*
16664478 ACTGTTCCGGATTCGTTCCGAAGAGGTACTC-TGTACCTG-AATGTTACTGTT
1 ACTGTTCCAGATTCGTTCCGAAGAGGTACTCATGTA-CTGCAATGTTACTGTT
* * *
16664529 ACTGTTCCAGATTTGTTCCGATGAGGTACTCTATGTACTGCTACTGTTACTGTT
1 ACTGTTCCAGATTCGTTCCGAAGAGGTACTC-ATGTACTGC-AATGTTACTGTT
16664583 ACTGTT
1 ACTGTT
16664589 TCCGTTACGG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
51 28 0.54
52 3 0.06
53 4 0.08
54 17 0.33
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.39
Consensus pattern (52 bp):
ACTGTTCCAGATTCGTTCCGAAGAGGTACTCATGTACTGCAATGTTACTGTT
Found at i:16664729 original size:18 final size:18
Alignment explanation
Indices: 16664706--16664769 Score: 101
Period size: 18 Copynumber: 3.6 Consensus size: 18
16664696 AAAATAAAGG
*
16664706 TACTGAATAACTGACTGT
1 TACTGAATAAATGACTGT
16664724 TACTGAATAAATGACTGT
1 TACTGAATAAATGACTGT
*
16664742 TACTGAATAAATGACTAT
1 TACTGAATAAATGACTGT
*
16664760 TACTAAATAA
1 TACTGAATAA
16664770 CTGATTAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (18 bp):
TACTGAATAAATGACTGT
Found at i:16664782 original size:36 final size:36
Alignment explanation
Indices: 16664706--16664783 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 36
16664696 AAAATAAAGG
* * * **
16664706 TACTGAATAACTGACTGTTACTGAATAAATGACTGT
1 TACTGAATAAATGACTATTACTAAATAAATGACTAA
* *
16664742 TACTGAATAAATGACTATTACTAAATAACTGATTAA
1 TACTGAATAAATGACTATTACTAAATAAATGACTAA
16664778 TACTGA
1 TACTGA
16664784 TGACTGACTG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (36 bp):
TACTGAATAAATGACTATTACTAAATAAATGACTAA
Found at i:16664975 original size:28 final size:28
Alignment explanation
Indices: 16664944--16664997 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
16664934 ATTAAAGAAT
* *
16664944 AATTGATTGTTACTGAACGATATTGATA
1 AATTGATTGATACTGAAAGATATTGATA
*
16664972 AATTGATTGATATTGAAAGATATTGA
1 AATTGATTGATACTGAAAGATATTGA
16664998 CTGATATAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.39
Consensus pattern (28 bp):
AATTGATTGATACTGAAAGATATTGATA
Found at i:16671355 original size:26 final size:26
Alignment explanation
Indices: 16671326--16671433 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
16671316 TGGTACAAAT
16671326 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGTTTAGGTAAATGTTCCA
* *
16671352 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGTTTAGGTAAATGTTCCA
*
16671378 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGTTTAGGTAAATGTTCCA
16671404 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGTTTAGGTAAATGTTCCA
16671430 TGAT
1 TGAT
16671434 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGTTTAGGTAAATGTTCCA
Found at i:16673130 original size:27 final size:27
Alignment explanation
Indices: 16673033--16673137 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
16673023 AGGACGTGTC
*
16673033 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
16673060 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
16673087 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
16673114 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
16673138 GCAGCCTCGC
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 9 0.13
27 61 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:16674309 original size:18 final size:18
Alignment explanation
Indices: 16674286--16674345 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
16674276 AAAATAAAGG
*
16674286 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTAT
* *
16674304 TACTGAATAAATAACTAT
1 TACTGAATAACTGACTAT
* *
16674322 TACTGAATAACTGATTAA
1 TACTGAATAACTGACTAT
16674340 TACTGA
1 TACTGA
16674346 TGAATGACCG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (18 bp):
TACTGAATAACTGACTAT
Found at i:16679211 original size:22 final size:23
Alignment explanation
Indices: 16679185--16679230 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
16679175 CAACCAAACC
16679185 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
16679207 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
16679230 A
1 A
16679231 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:16679236 original size:23 final size:23
Alignment explanation
Indices: 16679192--16679236 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
16679182 ACCAATTCAA
*
16679192 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
16679215 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
16679237 CACATACACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:16683302 original size:18 final size:18
Alignment explanation
Indices: 16683260--16683302 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
16683250 TAAATTCTTT
16683260 TAAATTCATAAAATTCTC
1 TAAATTCATAAAATTCTC
*
16683278 T-AATTCA-AAAATATTTC
1 TAAATTCATAAAAT-TCTC
16683295 TAAATTCA
1 TAAATTCA
16683303 CACTTGACTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.23
17 10 0.45
18 7 0.32
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATTCATAAAATTCTC
Found at i:16687202 original size:23 final size:23
Alignment explanation
Indices: 16687176--16687250 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
16687166 CGAATGGCCA
16687176 ATGTGATGAAAGTGAACATGTAT
1 ATGTGATGAAAGTGAACATGTAT
* *
16687199 ATGTG-TGATAAG-G-CCGAATGGCCA-
1 ATGTGATGA-AAGTGAAC--AT-G-TAT
16687223 ATGTGATGAAAGTGAACATGTAT
1 ATGTGATGAAAGTGAACATGTAT
16687246 ATGTG
1 ATGTG
16687251 TGATAAGGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
21 1 0.03
22 5 0.13
23 16 0.41
24 11 0.28
25 5 0.13
26 1 0.03
ACGTcount: A:0.35, C:0.08, G:0.29, T:0.28
Consensus pattern (23 bp):
ATGTGATGAAAGTGAACATGTAT
Found at i:16687206 original size:25 final size:25
Alignment explanation
Indices: 16687177--16687254 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
16687167 GAATGGCCAA
16687177 TGTGATGAAAGTGAACATGTATATG
1 TGTGATGAAAGTGAACATGTATATG
* * *** *
16687202 TGTGAT-AAGGCCG-A-ATGGCCA-A
1 TGTGATGAAAG-TGAACATGTATATG
16687224 TGTGATGAAAGTGAACATGTATATG
1 TGTGATGAAAGTGAACATGTATATG
16687249 TGTGAT
1 TGTGAT
16687255 AAGGCCGAAT
Statistics
Matches: 36, Mismatches: 12, Indels: 10
0.62 0.21 0.17
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 13 0.36
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (25 bp):
TGTGATGAAAGTGAACATGTATATG
Found at i:16687227 original size:47 final size:47
Alignment explanation
Indices: 16687146--16687312 Score: 307
Period size: 47 Copynumber: 3.5 Consensus size: 47
16687136 AATGTGAAAG
*
16687146 TGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
16687194 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
16687241 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
16687288 CGTATATGTGTGATAAGGCCGAATG
1 TGTATATGTGTGATAAGGCCGAATG
16687313 CATTCGTGCG
Statistics
Matches: 117, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
47 105 0.90
48 12 0.10
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.26
Consensus pattern (47 bp):
TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
Found at i:16687377 original size:39 final size:40
Alignment explanation
Indices: 16687306--16687395 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 40
16687296 TGTGATAAGG
* ** * *
16687306 CCGAATGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTATGTC
*
16687346 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTATGTC
16687385 CCGAAGGCATT
1 CCGAAGGCATT
16687396 TGAACGAGGA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.77
40 10 0.23
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTATGTC
Found at i:16716915 original size:27 final size:26
Alignment explanation
Indices: 16716884--16717061 Score: 142
Period size: 27 Copynumber: 6.6 Consensus size: 26
16716874 TAAATTGTAC
*
16716884 AGCACTAAGTGTGCGATTCTACTTTGT
1 AGCACTAAGTGTGCGATT-TACTATGT
* * * *
16716911 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTTACTATGT
* * *
16716937 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTTACTATGT
*
16716965 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTT-ACTATGT
* *
16716993 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTT-ACTATGT
* * *
16717020 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTTACTATGT
*
16717047 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16717062 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
26 1 0.01
27 100 0.80
28 24 0.19
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTTACTATGT
Found at i:16716945 original size:54 final size:54
Alignment explanation
Indices: 16716884--16717061 Score: 166
Period size: 54 Copynumber: 3.3 Consensus size: 54
16716874 TAAATTGTAC
* *
16716884 AGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATT-TACTTTGTAGCACTAAGTGTGCGAATTGAATATGAT
* ** ** * *
16716939 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCG-ATTTACTTTGTAGCACTAAGTGTGCGA-ATTGAATATGAT
* * *
16716993 AGCACTAAGTGTGCGATTTGA-TTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTT-ACTT-TGTAGCACTAAGTGTGCGAATTGAATATGAT
*
16717047 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16717062 GGCTCAATAT
Statistics
Matches: 100, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
54 59 0.59
55 41 0.41
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTACTTTGTAGCACTAAGTGTGCGAATTGAATATGAT
Found at i:16717008 original size:55 final size:54
Alignment explanation
Indices: 16716912--16717061 Score: 167
Period size: 55 Copynumber: 2.8 Consensus size: 54
16716902 CTACTTTGTT
** * *
16716912 GCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGAATATGTA-GCACTAAGTGTGCGAATTGACCACGCA
* * ** *
16716966 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAG-TTGAATATGTAGCACTAAGTGTGCGAATTGACCACGCA
* * *
16717021 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
16717062 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 37 0.45
55 44 0.54
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAATTGACCACGCA
Found at i:16717008 original size:82 final size:81
Alignment explanation
Indices: 16716885--16717040 Score: 208
Period size: 82 Copynumber: 1.9 Consensus size: 81
16716875 AAATTGTACA
* * *
16716885 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
16716949 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
16716966 GCACTAAGTGTGCGAGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGT
1 GCACTAAGTGTGCGA-TTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGT
*
16717030 GTGCGAGTTGA
64 GTGCGAATTGA
16717041 TTATATAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
81 16 0.25
82 48 0.74
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:16717052 original size:82 final size:81
Alignment explanation
Indices: 16716881--16717061 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
16716871 GATTAAATTG
* * *
16716881 TACAGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
16716946 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
16716962 TGCGGCACTAAGTGTGCGAGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCAC
* **
16717025 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
16717044 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
16717062 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 19 0.23
82 63 0.77
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:16717072 original size:27 final size:27
Alignment explanation
Indices: 16716966--16717072 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
16716956 TGACCATGCG
* * * *
16716966 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
16716994 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
16717021 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
16717048 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
16717073 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:16720375 original size:13 final size:13
Alignment explanation
Indices: 16720336--16720366 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
16720326 GCTCGGCAGG
16720336 GACACGCCCGTGT
1 GACACGCCCGTGT
16720349 GACACGCCCGTGT
1 GACACGCCCGTGT
16720362 GACAC
1 GACAC
16720367 ACCCATGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.39, G:0.29, T:0.13
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:16730635 original size:3 final size:3
Alignment explanation
Indices: 16730627--16730668 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
16730617 GTGTTTTTTA
16730627 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16730669 TTAAAGTATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16739738 original size:18 final size:17
Alignment explanation
Indices: 16739715--16739760 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
16739705 AAAATATGAA
16739715 GAAAAATAAATACAAAAT
1 GAAAAATAAATA-AAAAT
16739733 GAAAAATAAAAATAAAAAT
1 GAAAAAT--AAATAAAAAT
16739752 -AAAAATAAA
1 GAAAAATAAA
16739761 AATAAAGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 3 0.12
18 13 0.50
19 5 0.19
20 5 0.19
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.15
Consensus pattern (17 bp):
GAAAAATAAATAAAAAT
Found at i:16739743 original size:6 final size:6
Alignment explanation
Indices: 16739722--16739766 Score: 72
Period size: 6 Copynumber: 7.2 Consensus size: 6
16739712 GAAGAAAAAT
16739722 AAATACA AAATGAA AAATAA AAATAA AAATAA AAATAA AAATAA A
1 AAATA-A AAAT-AA AAATAA AAATAA AAATAA AAATAA AAATAA A
16739767 GATAGATGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
6 27 0.73
7 9 0.24
8 1 0.03
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:16741503 original size:15 final size:15
Alignment explanation
Indices: 16741469--16741513 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
16741459 AATGAGAATA
16741469 AGAAAAAAGTAA-AAT
1 AGAAAAAA-TAATAAT
16741484 A-AAAAAATAATAAT
1 AGAAAAAATAATAAT
16741498 AGAAAAAATAATAAT
1 AGAAAAAATAATAAT
16741513 A
1 A
16741514 AACAAATGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.11
14 10 0.36
15 15 0.54
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.18
Consensus pattern (15 bp):
AGAAAAAATAATAAT
Found at i:16743629 original size:40 final size:40
Alignment explanation
Indices: 16743592--16743777 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
16743582 GCTACTCGTT
*
16743592 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
16743632 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
16743672 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
16743712 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AACTCGCA
16743753 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16743778 CATCATTCAA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.87
41 14 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:16751766 original size:40 final size:40
Alignment explanation
Indices: 16751702--16751789 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
16751692 TTTTTCCCAA
*
16751702 GCCCGACCCAAATAAAAATGCTAAAAC-CTGAGCCCGGCCCG
1 GCCCG-CCCAAATAAAAATACTAAAACTC-GAGCCCGGCCCG
* * * *
16751743 GCCCGCCCAGATAAAAATACTAAAATTCGGGCCTGGCCCG
1 GCCCGCCCAAATAAAAATACTAAAACTCGAGCCCGGCCCG
16751783 GCCCGCC
1 GCCCGCC
16751790 TGTATTAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 35 0.85
41 6 0.15
ACGTcount: A:0.30, C:0.38, G:0.22, T:0.11
Consensus pattern (40 bp):
GCCCGCCCAAATAAAAATACTAAAACTCGAGCCCGGCCCG
Found at i:16751971 original size:30 final size:30
Alignment explanation
Indices: 16751937--16751996 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
16751927 ACTTAACAAG
16751937 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
** *
16751967 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
16751997 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:16755912 original size:30 final size:30
Alignment explanation
Indices: 16755878--16755937 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
16755868 ATTTAATACG
**
16755878 AACTTTGGAAAAATTACGTTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
16755908 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
16755938 GGCTCGAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.38
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:16759011 original size:21 final size:22
Alignment explanation
Indices: 16758978--16759019 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
16758968 ATAATGCCTG
*
16758978 ATTTAGTAAATGTTTATGTTAT
1 ATTTAGTAAATGTCTATGTTAT
*
16759000 ATTT-GTATATGTCTATGTTA
1 ATTTAGTAAATGTCTATGTTA
16759020 GTATCATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.29, C:0.02, G:0.14, T:0.55
Consensus pattern (22 bp):
ATTTAGTAAATGTCTATGTTAT
Found at i:16761506 original size:13 final size:13
Alignment explanation
Indices: 16761488--16761512 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16761478 AAGTTGAGTT
16761488 AATTTTATATTGG
1 AATTTTATATTGG
16761501 AATTTTATATTG
1 AATTTTATATTG
16761513 TAAAAAGTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
AATTTTATATTGG
Found at i:16784905 original size:80 final size:80
Alignment explanation
Indices: 16784772--16784919 Score: 251
Period size: 80 Copynumber: 1.9 Consensus size: 80
16784762 GCAAACACAT
* *
16784772 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAATTACCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCATAACCCGGACATATCAACTCGCATAATTACCTTCGGGTCTTAGCCCGGATA
16784837 TATCATCTCGCATAA
66 TATCATCTCGCATAA
* * *
16784852 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCATAACCCGGACATATCAACTCGCATAATTACCTTCGGGTCTTAGCCCGGATA
16784917 TAT
66 TAT
16784920 TCCAATGCTC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (80 bp):
TTGCCTTCGGGTCATAACCCGGACATATCAACTCGCATAATTACCTTCGGGTCTTAGCCCGGATA
TATCATCTCGCATAA
Found at i:16784920 original size:40 final size:40
Alignment explanation
Indices: 16784772--16784919 Score: 224
Period size: 40 Copynumber: 3.7 Consensus size: 40
16784762 GCAAACACAT
* *
16784772 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
* * *
16784812 TTACCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
* *
16784852 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
*
16784892 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGACATAT
16784920 TCCAATGCTC
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 96 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
Found at i:16794963 original size:38 final size:38
Alignment explanation
Indices: 16794881--16795032 Score: 142
Period size: 38 Copynumber: 3.9 Consensus size: 38
16794871 CGAACACAAC
** ***
16794881 ACCAGCACGAAGCCTATGGGACTTTAAACTTAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGATATAAT
* * * *
16794921 ACCAGCACTAGGCCTGTGGGATTTTACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
*
16794959 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATAGAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* ** *
16794997 TCCAGCATAAAGCCTGCGGGTCTTTAAGCCCGGATA
1 ACCAGCACGAAGCCTGCGGG-ATTTAA-CCCGGATA
16795033 CACATCAAAT
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
38 60 0.64
39 8 0.09
40 26 0.28
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.22
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:16801101 original size:41 final size:40
Alignment explanation
Indices: 16801056--16801136 Score: 144
Period size: 41 Copynumber: 2.0 Consensus size: 40
16801046 TGGATACGAA
*
16801056 GAAGATTGTTCGACACTCTATGGCAAGGCGTGCTGTAGGG
1 GAAGATTGTTCGACACTCTATGGCAAGGCGTGCTGCAGGG
16801096 NGAAGATTGTTCGACACTCTATGGCAAGGCGTGCTGCAGGG
1 -GAAGATTGTTCGACACTCTATGGCAAGGCGTGCTGCAGGG
16801137 AAAAAGGTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.22, C:0.19, G:0.35, T:0.23
Consensus pattern (40 bp):
GAAGATTGTTCGACACTCTATGGCAAGGCGTGCTGCAGGG
Found at i:16801902 original size:15 final size:14
Alignment explanation
Indices: 16801872--16801899 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16801862 AAAGATATTC
16801872 TTTTTCTAAATAAA
1 TTTTTCTAAATAAA
16801886 TTTTTCTAAATAAA
1 TTTTTCTAAATAAA
16801900 ATTAAGTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
TTTTTCTAAATAAA
Found at i:16803065 original size:10 final size:10
Alignment explanation
Indices: 16803050--16803074 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16803040 CATCTATTTC
16803050 AAAAAAAATA
1 AAAAAAAATA
16803060 AAAAAAAATA
1 AAAAAAAATA
16803070 AAAAA
1 AAAAA
16803075 GATTATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:16804563 original size:16 final size:15
Alignment explanation
Indices: 16804538--16804592 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
16804528 CTTCTATTTT
16804538 AAAAAAAAAGAAAAA
1 AAAAAAAAAGAAAAA
16804553 AAAAGAAAAAGAGAAAA
1 AAAA-AAAAAGA-AAAA
* *
16804570 AAATAAAGAGAAAAA
1 AAAAAAAAAGAAAAA
16804585 ATAAAAAA
1 A-AAAAAA
16804593 TGGAGAGGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 9 0.26
16 18 0.53
17 7 0.21
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.04
Consensus pattern (15 bp):
AAAAAAAAAGAAAAA
Found at i:16804569 original size:14 final size:14
Alignment explanation
Indices: 16804538--16804589 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
16804528 CTTCTATTTT
*
16804538 AAAAAA-AAAGAAAA
1 AAAAAATAAAG-AGA
*
16804552 AAAAAGAAAAAGAGA
1 AAAAA-ATAAAGAGA
16804567 AAAAAATAAAGAG-
1 AAAAAATAAAGAGA
16804580 AAAAAATAAA
1 AAAAAATAAA
16804590 AAATGGAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
13 10 0.29
14 12 0.35
15 8 0.24
16 4 0.12
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.04
Consensus pattern (14 bp):
AAAAAATAAAGAGA
Found at i:16805529 original size:44 final size:44
Alignment explanation
Indices: 16805470--16805646 Score: 171
Period size: 44 Copynumber: 4.0 Consensus size: 44
16805460 CAAGATTTGG
* * *
16805470 CATCCCTATGTTTATAGGGAACAGATCAAAGATAGTAGATCTGA
1 CATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGA
* * * * ** *
16805514 CATTCCTGTGCTTATAGCGAAACAGATTGAAGATTTCAG--CATGG
1 CATCCCTGTGTTTATAG-GGAACAGATCGAAGATAGCAGATC-TGA
* * * *
16805558 CATCCCTGTGTTTATAGGGAACAAGTTC-AAGATAGCAAATTTGG
1 CATCCCTGTGTTTATAGGGAAC-AGATCGAAGATAGCAGATCTGA
*
16805602 CATCCCTATGTTTATAGGGAACAGATCGAAGATAGCAGATCTGA
1 CATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGA
16805646 C
1 C
16805647 CTTCAGATGT
Statistics
Matches: 103, Mismatches: 24, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
43 16 0.16
44 72 0.70
45 15 0.15
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
CATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGA
Found at i:16805617 original size:88 final size:87
Alignment explanation
Indices: 16805467--16805634 Score: 212
Period size: 88 Copynumber: 1.9 Consensus size: 87
16805457 AAACAAGATT
* * * *
16805467 TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGTAGATCTGACATTCCTGTGCTTATAGC
1 TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAAATCTGACATCCCTATGCTTATAG-
*
16805532 GAAACAGATTGAAGATTTCAGCA
65 GAAACAGATCGAAGATTTCAGCA
* * * * *
16805555 TGGCATCCCTGTGTTTATAGGGAACAAGTTC-AAGATAGCAAATTTGGCATCCCTATGTTTATAG
1 TGGCATCCCTATGTTTATAGGGAAC-AGATCAAAGATAGCAAATCTGACATCCCTATGCTTATAG
*
16805619 GGAACAGATCGAAGAT
65 GAAACAGATCGAAGAT
16805635 AGCAGATCTG
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
87 14 0.21
88 50 0.74
89 4 0.06
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (87 bp):
TGGCATCCCTATGTTTATAGGGAACAGATCAAAGATAGCAAATCTGACATCCCTATGCTTATAGG
AAACAGATCGAAGATTTCAGCA
Found at i:16805841 original size:119 final size:119
Alignment explanation
Indices: 16805633--16806226 Score: 954
Period size: 119 Copynumber: 5.0 Consensus size: 119
16805623 CAGATCGAAG
*
16805633 ATAGCAGATCTGACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* *
16805698 TTACAAGGAACAAATCAAGGACATAGTAGATTTGACTCTCAGACGTTCTCAAAG
66 TTACAAGGAACAAATCAAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
16805752 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
*
16805817 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCAAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* *
16805871 ATAGCAGATTTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
*
16805936 TTACAAGGAACAAATCAAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAAT
66 TTACAAGGAACAAATCAAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * * * *
16805990 ATAACAGATTTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGTATTCTTATGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * * *
16806055 TTACAAGAAACAAATCGAGGTCATAGCAGATTTGACTCTCAGACGTTTTCAAAT
66 TTACAAGGAACAAATCAAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
* * * * * *
16806109 ATAGCAGATCTAAGCTTCAAATGTTTATACTGAAGCAGATCCAAGATGGTTTGACATCCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
* * * *
16806174 TTACAAGGAACAAATCAAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 TTACAAGGAACAAATCAAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAA
16806227 CATGACTCAA
Statistics
Matches: 440, Mismatches: 35, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
119 440 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (119 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
TTACAAGGAACAAATCAAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
Found at i:16806262 original size:85 final size:83
Alignment explanation
Indices: 16806150--16806331 Score: 292
Period size: 85 Copynumber: 2.2 Consensus size: 83
16806140 GAAGCAGATC
16806150 CAAGATGGTTTGACATCCTTGTGCTTACAAGGAACAAATCAAGGACATTGCAGATATGACTCTCA
1 CAAGATGGTTTGACATCCTTGTGCTTACAAGGAACAAATCAAGGACATTGCAGATATGACTCTCA
16806215 AATGTTCTCAAACATGACT
66 AATGTTCTCAAACA-GACT
* * * * *
16806234 CAAGATGGTTTAGGCATCCTTGTGCTTACAAGGAACAAGTCGAGGACCTTGCAGATATGATTCTC
1 CAAGATGGTTT-GACATCCTTGTGCTTACAAGGAACAAATCAAGGACATTGCAGATATGACTCTC
16806299 AAATGTTCTCAAACAGACT
65 AAATGTTCTCAAACAGACT
*
16806318 CAAGATGATTTGAC
1 CAAGATGGTTTGAC
16806332 GTCTTTACAA
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
83 2 0.02
84 25 0.28
85 63 0.70
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (83 bp):
CAAGATGGTTTGACATCCTTGTGCTTACAAGGAACAAATCAAGGACATTGCAGATATGACTCTCA
AATGTTCTCAAACAGACT
Found at i:16810209 original size:42 final size:42
Alignment explanation
Indices: 16810163--16810247 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
16810153 AACACATATA
*
16810163 AATCACATATTAACATGTATAATACATAACATCAACTCACAT
1 AATCACATATTAACATATATAATACATAACATCAACTCACAT
16810205 AATCACATATTAACATATATAATACATAACATCAACTCACAT
1 AATCACATATTAACATATATAATACATAACATCAACTCACAT
16810247 A
1 A
16810248 TTCATAACCC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.49, C:0.21, G:0.01, T:0.28
Consensus pattern (42 bp):
AATCACATATTAACATATATAATACATAACATCAACTCACAT
Found at i:16810929 original size:41 final size:41
Alignment explanation
Indices: 16810871--16810952 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
16810861 AATTCAACAT
*
16810871 CTAACTTCAATTCTACTTCTTAACATTTGTCAATTTAAAGA
1 CTAACTTCAATTCTACTTCCTAACATTTGTCAATTTAAAGA
*
16810912 CTAACTTCAATTTTACTTCCTAACATTTGTCAATTTAAAGA
1 CTAACTTCAATTCTACTTCCTAACATTTGTCAATTTAAAGA
16810953 GCGTCGTACT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (41 bp):
CTAACTTCAATTCTACTTCCTAACATTTGTCAATTTAAAGA
Found at i:16812974 original size:38 final size:38
Alignment explanation
Indices: 16812892--16813081 Score: 227
Period size: 38 Copynumber: 4.9 Consensus size: 38
16812882 CGAACACAAC
* *
16812892 ACCAGCACGAAGCCTACGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCAGATATAAT
* * *
16812932 ACCAGCACTAGGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
*
16812970 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
* *
16813008 ACCAGCACGAAGTCTGCAGGATTTAACCCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
* * ** *
16813046 TCCAACATAAAGCCTGCGGGTCTTTAAGCCCAGATA
1 ACCAGCACGAAGCCTGCGGG-ATTTAA-CCCAGATA
16813082 CACATCAAAT
Statistics
Matches: 131, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
38 95 0.73
39 10 0.08
40 26 0.20
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.21
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAAT
Found at i:16821324 original size:28 final size:28
Alignment explanation
Indices: 16821271--16821326 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
16821261 ATAGGGATTT
16821271 TCACACGGCCGAGCACACGTCTGTGTCCC
1 TCACACGGCCGAGCACACG-CTGTGTCCC
*
16821300 TCACACGGCCTAGACACAC-CTGTGTCC
1 TCACACGGCCGAG-CACACGCTGTGTCC
16821327 TCGCCCATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 8 0.32
29 12 0.48
30 5 0.20
ACGTcount: A:0.20, C:0.41, G:0.21, T:0.18
Consensus pattern (28 bp):
TCACACGGCCGAGCACACGCTGTGTCCC
Found at i:16822672 original size:51 final size:47
Alignment explanation
Indices: 16822615--16822755 Score: 146
Period size: 43 Copynumber: 3.0 Consensus size: 47
16822605 TAACATGCAA
*
16822615 CACATCCATAATGAACTCGGACCTCTCAACGAGCTTGGATGTTACATGAAT
1 CACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG-TACAT---T
* * * * *
16822666 CGCATCCATCATGAACTCGAACCACTCAATGAGCTCGGATG--C--T
1 CACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGTACATT
*
16822709 CACATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGCTACAT
1 CACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG-TACAT
16822756 ACCTCACGAA
Statistics
Matches: 73, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
43 36 0.49
46 1 0.01
48 1 0.01
51 35 0.48
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (47 bp):
CACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGTACATT
Found at i:16822737 original size:43 final size:42
Alignment explanation
Indices: 16822668--16822783 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 42
16822658 ACATGAATCG
*
16822668 CATCCATCATGAACTCGAACCACTCAATGAGCTCGGATGCTCA
1 CATCCATCATGAACTCGGACCACTCAATGAGCTCGGATGCT-A
* * * *
16822711 CATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGCTA
1 CATCCATCATGAACTCGGACCACTCAATGAGCTCGGATGCTA
*
16822753 CATACC-TCACGAACTCGGACCACTCAATGAG
1 CAT-CCATCATGAACTCGGACCACTCAATGAG
16822784 TTCAGACTTC
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 24 0.39
43 38 0.61
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (42 bp):
CATCCATCATGAACTCGGACCACTCAATGAGCTCGGATGCTA
Found at i:16825587 original size:155 final size:155
Alignment explanation
Indices: 16825305--16825621 Score: 508
Period size: 155 Copynumber: 2.0 Consensus size: 155
16825295 GAAGATGAGA
** * *
16825305 AACCAGATTGGTGAGTAGGAGACCATAGACCAAAAGGATGGAGCGACTCGGCAATGGGAGAAGAG
1 AACCAGATCAGTGAGTAGGAGACCATAGACCAAAAGGATGGAGCGACTAGGCAACGGGAGAAGAG
* * * *
16825370 ATGACTGGTTGAAAATTGGGGAATTGACAATATTTGGGGCTACCACCATGGCAAGTCGAGACTTG
66 ATGACCGGTTGAAAATTGGGGAATTGACAATATCTGGGGCGACCACCATGGCAAGCCGAGACTTG
16825435 TGATGAATAGAGTTGGTTGAGCCAG
131 TGATGAATAGAGTTGGTTGAGCCAG
* * * *
16825460 AACCAGATCAGTGAGTAGGAGACCGTAGGCTAAAAGGATGGAGTGACTAGGCAACGGGAGAAGAG
1 AACCAGATCAGTGAGTAGGAGACCATAGACCAAAAGGATGGAGCGACTAGGCAACGGGAGAAGAG
* *
16825525 ATGACCGGTTGAAAATTGGGGAATTGACAGTATCTGGGGCGACCACCATGGGAAGCCGAGACTTG
66 ATGACCGGTTGAAAATTGGGGAATTGACAATATCTGGGGCGACCACCATGGCAAGCCGAGACTTG
16825590 TGATGAATAGAGTTGGTTGAGCCAG
131 TGATGAATAGAGTTGGTTGAGCCAG
16825615 AACCAGA
1 AACCAGA
16825622 ATTTAATAAG
Statistics
Matches: 148, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
155 148 1.00
ACGTcount: A:0.32, C:0.15, G:0.34, T:0.19
Consensus pattern (155 bp):
AACCAGATCAGTGAGTAGGAGACCATAGACCAAAAGGATGGAGCGACTAGGCAACGGGAGAAGAG
ATGACCGGTTGAAAATTGGGGAATTGACAATATCTGGGGCGACCACCATGGCAAGCCGAGACTTG
TGATGAATAGAGTTGGTTGAGCCAG
Found at i:16830822 original size:46 final size:49
Alignment explanation
Indices: 16830586--16830953 Score: 267
Period size: 46 Copynumber: 7.7 Consensus size: 49
16830576 TAGGGCATAG
* * **
16830586 TGCCGATGCCATGTACCAGACATGGTCTTACACT-G-ACTATCGAAATCG-A
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTA-C-ATCTCGTA
* * *
16830635 GGCCGACGCCATGTCCCAGACATGTTCTTACACTAGCTCTCACATATCCG--
1 TGCCGATGCCATGTCCCAGACATG-TCTTACACTAGCTCT-ACATCT-CGTA
* * * * **
16830685 TGCGGATGCCATGTCCTAGACATGATCTTACACT-G-AC-ACCTCTATATA
1 TGCCGATGCCATGTCCCAGACATG-TCTTACACTAGCTCTACATCT-CGTA
*
16830733 TGCCGATGCCATGTCCCAGACATAGTCTTACACT-G-AC-ACATCTCGTA
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTACATCTCGTA
* *
16830780 -GCCGAT-ACATGTCCCAGACATGTCTTACACTGGCT-TACATCTCG-A
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGTA
* * * *
16830825 GGCCGATG-TATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTC-AA
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGTA
* *
16830871 TGTCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATAAT-GT-
1 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTACAT-CTCGTA
* *
16830919 GGCCGAT-ACATGTCCCAGACATGTCTTACACTAGC
1 TGCCGATGCCATGTCCCAGACATGTCTTACACTAGC
16830954 ACATAAATAA
Statistics
Matches: 265, Mismatches: 35, Indels: 41
0.78 0.10 0.12
Matches are distributed among these distances:
44 10 0.04
45 16 0.06
46 75 0.28
47 30 0.11
48 63 0.24
49 32 0.12
50 33 0.12
51 5 0.02
52 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (49 bp):
TGCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCGTA
Found at i:16830923 original size:94 final size:94
Alignment explanation
Indices: 16830589--16830953 Score: 335
Period size: 94 Copynumber: 3.9 Consensus size: 94
16830579 GGCATAGTGC
* * *
16830589 CGATGCCATGTACCAGACATGGTCTTACACTGACTATCGA-AATCGAGGCCGACGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTC-ATAATCGAGGCCGATGCCATGTCCCA
*
16830653 GACATGTTCTTACACTAGCTCTCACATATCCGTG
65 GACATG-TCTTACACTAGCTCT--CATCT-CGTG
* * * *
16830687 CGGATGCCATGTCCTAGACATGATCTTACACTGACACCTC-TATAT--ATGCCGATGCCATGTCC
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGAC-TCTCATA-ATCGAGGCCGATGCCATGTCC
* *
16830749 CAGACATAGTCTTACACT-G-ACACATCTCGTAG
63 CAGACAT-GTCTTACACTAGCTCTCATCTCGT-G
* * * *
16830781 CCGAT-ACATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGGCCGATG-TATGTCCC
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGACTCT-CATAATCGAGGCCGATGCCATGTCCC
* *
16830841 AGACATGTCTTACACTAGCTCTCGTCTCAATG
64 AGACATGTCTTACACTAGCTCTCATCTC-GTG
* *
16830873 TCGATGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCATAAT-GTGGCCGAT-ACATGTCCC
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCATAATCGAGGCCGATGCCATGTCCC
16830935 AGACATGTCTTACACTAGC
64 AGACATGTCTTACACTAGC
16830954 ACATAAATAA
Statistics
Matches: 219, Mismatches: 28, Indels: 44
0.75 0.10 0.15
Matches are distributed among these distances:
90 12 0.05
91 15 0.07
92 31 0.14
93 31 0.14
94 57 0.26
95 3 0.01
96 1 0.00
97 1 0.00
98 32 0.15
99 32 0.15
100 4 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (94 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATAATCGAGGCCGATGCCATGTCCCAG
ACATGTCTTACACTAGCTCTCATCTCGTG
Found at i:16833994 original size:245 final size:245
Alignment explanation
Indices: 16833559--16834046 Score: 692
Period size: 245 Copynumber: 2.0 Consensus size: 245
16833549 CTGCTAGTAG
* * *
16833559 TAATTGTATTCCAATTATTACTATCGTTTATATTTCTTCATTTCCATCTATGAAAAATGTCTTCA
1 TAATCGTATTCCAATTATTACTATCGGTGATATTTCTTCATTTCCATCTATGAAAAATGTCTTCA
* *
16833624 TTGCCCTTGATTTATCAACTAATCTACTTTCCATTGGACAACTAGTAGAGGATAATTGCAAAGTT
66 TTGCCCTAGATTTATCAACTAATCTACTTTCCATTGGACAACTAGTAAAGGATAATTGCAAAGTT
* * * * *
16833689 ACCTTTTATTCTTCTGGTTGTGTTATGCAGGAACTGGAATCAGGGAAGATAGTAGTTGAGGGACC
131 ACCTTTTATTCTTATGGTTATGTTATGCAAGAACTAGAATCAGGGAAGACAGTAGTTGAGGGACC
* * * *
16833754 TAAATGGGGTAGGCTCTTTCCTCTCCATTTCAATGAATCGGCCAAGCCTT
196 TAAATGGGGCAGACTCTTTCCTCTCCATTTCAAGGAATCAGCCAAGCCTT
* *
16833804 TAATCGTATTCCAATTATTGCTATTGGTGATATTTCTTC-TTCTCCATCTATGAAAAATGTCTTC
1 TAATCGTATTCCAATTATTACTATCGGTGATATTTCTTCATT-TCCATCTATGAAAAATGTCTTC
*** * *
16833868 ATTGCCCCTAG-TTTATTTGCTAATCTACTTTCCATTGGACAACTGGTAAATGATAATTGCAAAG
65 ATTG-CCCTAGATTTATCAACTAATCTACTTTCCATTGGACAACTAGTAAAGGATAATTGCAAAG
* * * **
16833932 TTACCTTTTCTTCTTATGGTTATGTTGTGCAAGAGCTAGCGTCAGGGAAGACAGTAGTTGAGGGA
129 TTACCTTTTATTCTTATGGTTATGTTATGCAAGAACTAGAATCAGGGAAGACAGTAGTTGAGGGA
* *
16833997 CCTAAATGGGGCAGACTCTTTCCTCTCCATTTTAAGGAATTAGCCAAGCC
194 CCTAAATGGGGCAGACTCTTTCCTCTCCATTTCAAGGAATCAGCCAAGCC
16834047 CATAAATGTG
Statistics
Matches: 213, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
244 2 0.01
245 206 0.97
246 5 0.02
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (245 bp):
TAATCGTATTCCAATTATTACTATCGGTGATATTTCTTCATTTCCATCTATGAAAAATGTCTTCA
TTGCCCTAGATTTATCAACTAATCTACTTTCCATTGGACAACTAGTAAAGGATAATTGCAAAGTT
ACCTTTTATTCTTATGGTTATGTTATGCAAGAACTAGAATCAGGGAAGACAGTAGTTGAGGGACC
TAAATGGGGCAGACTCTTTCCTCTCCATTTCAAGGAATCAGCCAAGCCTT
Found at i:16835968 original size:29 final size:29
Alignment explanation
Indices: 16835926--16836010 Score: 111
Period size: 29 Copynumber: 3.0 Consensus size: 29
16835916 GCATGACTAT
*
16835926 GAATGTGATTTGGGCCTAATGGTCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* *
16835955 GAATGTGATTTGGGCCTAATGGGGCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAC
*
16835984 GAA--TGATATTGGGCCTAGTGGGCCATA
1 GAATGTGAT-TTGGGCCTAATGGGCCATA
16836011 TACATGTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 4 0.08
28 17 0.34
29 29 0.58
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:16841117 original size:52 final size:49
Alignment explanation
Indices: 16840998--16841224 Score: 301
Period size: 49 Copynumber: 4.5 Consensus size: 49
16840988 CGGATACCCG
* * * * * * * *
16840998 GTGGCCTGCACATAGTACCACCCTTATAGTCAAAGCTACCTTATTTACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GACCAAGCTATC-TCTTCACAAA
*
16841049 GTAGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACC-AAGCTATC--TCTTCACAAA
*
16841101 GTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCACAAA
* *
16841150 GTGGCCTTCACATAGTACCACACTTGTCACCAAGCTATCTCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCACAAA
16841199 GTGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
16841225 AGTCACTAGT
Statistics
Matches: 162, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
49 83 0.51
50 2 0.01
51 38 0.23
52 39 0.24
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (49 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCACAAA
Found at i:16841163 original size:49 final size:49
Alignment explanation
Indices: 16841045--16841224 Score: 306
Period size: 49 Copynumber: 3.6 Consensus size: 49
16841035 ACCTTATTTA
* *
16841045 CAAAGTAGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCA
1 CAAAGTGGCCTTCACATAGTACCACACTTGTGACC-AAGCTATC--TCTTCT
16841097 CAAAGTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCT
1 CAAAGTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCT
*
16841146 CAAAGTGGCCTTCACATAGTACCACACTTGTCACCAAGCTATCTCTTCT
1 CAAAGTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCT
16841195 CAAAGTGGCCTTCACATAGTACCACACTTG
1 CAAAGTGGCCTTCACATAGTACCACACTTG
16841225 AGTCACTAGT
Statistics
Matches: 125, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
49 83 0.66
51 8 0.06
52 34 0.27
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (49 bp):
CAAAGTGGCCTTCACATAGTACCACACTTGTGACCAAGCTATCTCTTCT
Found at i:16842913 original size:27 final size:27
Alignment explanation
Indices: 16842883--16843026 Score: 130
Period size: 27 Copynumber: 5.3 Consensus size: 27
16842873 TACTGAAATG
** *
16842883 CCCTTGATTTGTAGAATTACCATTTTA
1 CCCTTGATTTACAAAATTACCATTTTA
* * * ** *
16842910 CCCTAGATTTATAGAATTACTGTTTCA
1 CCCTTGATTTACAAAATTACCATTTTA
*
16842937 CCCTCGATTTACAAAATTA-CAGTTTTA
1 CCCTTGATTTACAAAATTACCA-TTTTA
*
16842964 CCCTTAATTTACAAAATTACCATTTTA
1 CCCTTGATTTACAAAATTACCATTTTA
* *
16842991 CCC-TCAGTTTACAAAATTACCGTTTTA
1 CCCTTGA-TTTACAAAATTACCATTTTA
*
16843018 CCCTCGATT
1 CCCTTGATT
16843027 GTGAATTACT
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
26 2 0.02
27 91 0.95
28 3 0.03
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTTGATTTACAAAATTACCATTTTA
Found at i:16842955 original size:54 final size:54
Alignment explanation
Indices: 16842897--16843026 Score: 149
Period size: 54 Copynumber: 2.4 Consensus size: 54
16842887 TGATTTGTAG
* * **
16842897 AATTACCATTTTACCCTAGATTTATAGAATTACTGTTTCACCCTC-GATTTACAA
1 AATTACCATTTTACCCTAGATTTACAAAATTACCATTTCACCCTCAG-TTTACAA
*
16842951 AATTA-CAGTTTTACCCTTA-ATTTACAAAATTACCATTTTACCCTCAGTTTACAA
1 AATTACCA-TTTTACCC-TAGATTTACAAAATTACCATTTCACCCTCAGTTTACAA
* *
16843005 AATTACCGTTTTACCCTCGATT
1 AATTACCATTTTACCCTAGATT
16843027 GTGAATTACT
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
53 3 0.05
54 57 0.89
55 4 0.06
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (54 bp):
AATTACCATTTTACCCTAGATTTACAAAATTACCATTTCACCCTCAGTTTACAA
Found at i:16843105 original size:27 final size:27
Alignment explanation
Indices: 16843030--16843207 Score: 157
Period size: 27 Copynumber: 6.6 Consensus size: 27
16843020 CTCGATTGTG
* ** *
16843030 AATTACTAAAATACCCCT-GTAGGATAG
1 AATTACCAAAATACCCCTAGTTTG-TAA
16843057 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
16843084 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * * *
16843111 AATTATCGAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
16843138 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
* **
16843165 AACTT-CCAAAATA-CCCTTGATTTACAA
1 AA-TTACCAAAATACCCCTAG-TTTGTAA
*
16843192 AATTACAAAAATACCC
1 AATTACCAAAATACCC
16843208 TTGACTTTCT
Statistics
Matches: 125, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
26 5 0.04
27 113 0.90
28 7 0.06
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:16843204 original size:81 final size:81
Alignment explanation
Indices: 16843057--16843206 Score: 182
Period size: 81 Copynumber: 1.9 Consensus size: 81
16843047 TGTAGGATAG
* ** *
16843057 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTATCAAAA
16843122 TACCACTGGTTTGTGA
66 TACCACTGGTTTGTGA
* *
16843138 AATTACCGAAATA-CCCTCAATTTGTAAAACTT-CCAAAATA-CCCTTGATTTACAAAATTA-CA
1 AATTACCAAAATACCCCT-AATTTGTAAAA-TTACCAAAATACCCCTAG-TTTACAAAATTATC-
16843199 AAAATACC
62 AAAATACC
16843207 CTTGACTTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
80 10 0.17
81 47 0.80
82 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTATCAAAA
TACCACTGGTTTGTGA
Found at i:16843208 original size:27 final size:28
Alignment explanation
Indices: 16843172--16843266 Score: 88
Period size: 27 Copynumber: 3.4 Consensus size: 28
16843162 TAAAACTTCC
16843172 AAAATACCCTTGA-TTTACAAAATTACA
1 AAAATACCCTTGACTTTACAAAATTACA
*
16843199 AAAATACCCTTGACTTT-CTAAAAATTATA
1 AAAATACCCTTGACTTTAC--AAAATTACA
* * * * *
16843228 GAAATATCATT-AGTTTACAAAATTACT
1 AAAATACCCTTGACTTTACAAAATTACA
*
16843255 GAAATACCCTTG
1 AAAATACCCTTG
16843267 GTTTGTAGAT
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
27 30 0.56
28 7 0.13
29 17 0.31
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (28 bp):
AAAATACCCTTGACTTTACAAAATTACA
Found at i:16843353 original size:27 final size:27
Alignment explanation
Indices: 16843310--16843383 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
16843300 AAATGACTAA
*
16843310 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
16843337 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
16843364 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
16843384 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:16843387 original size:27 final size:27
Alignment explanation
Indices: 16843323--16843387 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
16843313 ACCCCTAATA
*
16843323 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
16843350 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
16843377 GGTAAAATGAC
1 GGTAAAATGAC
16843388 GAATATGCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:16844235 original size:25 final size:25
Alignment explanation
Indices: 16844197--16844263 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
16844187 AGGAAGTGCT
* * *
16844197 AAAAGGGCTATGCCCTAGTTTA-CTG
1 AAAAGGGCTTTGCCCCAGTTTATC-A
16844222 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
16844247 AAAAGGGCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
16844264 ATTATTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 37 0.97
26 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:16844268 original size:24 final size:25
Alignment explanation
Indices: 16844222--16844273 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
16844212 TAGTTTACTG
*
16844222 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGATTATCA
*
16844247 AAAAGGGCTTTGCCCCA-ATTATTA
1 AAAAGGGCTTTGCCCCAGATTATCA
16844271 AAA
1 AAA
16844274 GAGGCTAGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGATTATCA
Found at i:16844279 original size:24 final size:25
Alignment explanation
Indices: 16844222--16844279 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
16844212 TAGTTTACTG
*
16844222 AAAAG-GGCTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGCCCCAGATTATC
*
16844246 AAAA-AGGGCTTTGCCCCA-ATTATT
1 AAAAGA-GGCTTTGCCCCAGATTATC
16844270 AAAAGAGGCT
1 AAAAGAGGCT
16844280 AGGCCTCCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 16 0.55
25 13 0.45
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGATTATC
Found at i:16847528 original size:25 final size:25
Alignment explanation
Indices: 16847494--16847546 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
16847484 ATTGCATAAA
16847494 ATACAAAAGTTAAGTTATAGTAGCT
1 ATACAAAAGTTAAGTTATAGTAGCT
*
16847519 ATACAAAAGTTAAGTTCTAGTAGCT
1 ATACAAAAGTTAAGTTATAGTAGCT
16847544 ATA
1 ATA
16847547 GGTAGTAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.43, C:0.09, G:0.15, T:0.32
Consensus pattern (25 bp):
ATACAAAAGTTAAGTTATAGTAGCT
Found at i:16848807 original size:25 final size:26
Alignment explanation
Indices: 16848735--16848810 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 26
16848725 GTAGGCTCTT
16848735 CATGAGCTTCCCGTTATACA-GCTCGA
1 CATGAGCTTCCCGTTATA-AGGCTCGA
* * * *
16848761 -ATAAGCTTCCCGATACATGGCTC-A
1 CATGAGCTTCCCGTTATAAGGCTCGA
*
16848785 CATGAGCTTCCTGTTATAAGGCTCGA
1 CATGAGCTTCCCGTTATAAGGCTCGA
16848811 GAGTGTGGTT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
24 1 0.03
25 36 0.95
26 1 0.03
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (26 bp):
CATGAGCTTCCCGTTATAAGGCTCGA
Found at i:16871944 original size:49 final size:49
Alignment explanation
Indices: 16871891--16871993 Score: 179
Period size: 49 Copynumber: 2.1 Consensus size: 49
16871881 TCATGTCGTG
* *
16871891 ACATCCCTAGAAGACTACTCATGTCGTGACACAGGTTAGTGATGTCGCA
1 ACATCCCTAGAAGACTACTCATGTCATGACACAAGTTAGTGATGTCGCA
*
16871940 ACATCCCTAGAAGACTACTCATGTCATGACACAAGTTAGTGATGTCGCG
1 ACATCCCTAGAAGACTACTCATGTCATGACACAAGTTAGTGATGTCGCA
16871989 ACATC
1 ACATC
16871994 GGGTTGATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (49 bp):
ACATCCCTAGAAGACTACTCATGTCATGACACAAGTTAGTGATGTCGCA
Found at i:16885329 original size:48 final size:49
Alignment explanation
Indices: 16885255--16885350 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 49
16885245 GCACACGGGT
* * *
16885255 GTGTGCCTTGGCCGTGTGCCCTTAGATGGATGATGACATCATAAATAGC
1 GTGTGCCTAGGCCGTGTGCCCCTAGATGGATGACGACATCATAAATAGC
*
16885304 GTGTG-CTAGGCCGTGTGCCCCTAGATGGATGACGACGTCATAAATAG
1 GTGTGCCTAGGCCGTGTGCCCCTAGATGGATGACGACATCATAAATAG
16885351 AATGTCCAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 38 0.88
49 5 0.12
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (49 bp):
GTGTGCCTAGGCCGTGTGCCCCTAGATGGATGACGACATCATAAATAGC
Found at i:16885516 original size:20 final size:20
Alignment explanation
Indices: 16885491--16885528 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
16885481 CAGTTAAGGG
16885491 ACACGGGCGTGTCCCAATGC
1 ACACGGGCGTGTCCCAATGC
16885511 ACACGGGCGTGTCCCAAT
1 ACACGGGCGTGTCCCAAT
16885529 ACACCCAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.34, G:0.29, T:0.16
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAATGC
Found at i:16885542 original size:20 final size:20
Alignment explanation
Indices: 16885491--16885542 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
16885481 CAGTTAAGGG
* *
16885491 ACACGGGCGTGTCCCAATGC
1 ACACAGGCGTGTCCCAATAC
*
16885511 ACACGGGCGTGTCCCAATAC
1 ACACAGGCGTGTCCCAATAC
* *
16885531 ACCCAGGTGTGT
1 ACACAGGCGTGT
16885543 GCATTGCCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.21, C:0.33, G:0.29, T:0.17
Consensus pattern (20 bp):
ACACAGGCGTGTCCCAATAC
Found at i:16888425 original size:24 final size:24
Alignment explanation
Indices: 16888395--16888443 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
16888385 CAAATAAAAC
16888395 TCTAAAGTACACTGAAACTCTAAT
1 TCTAAAGTACACTGAAACTCTAAT
*
16888419 TCTAAAGTACACTGAAACTTTAAT
1 TCTAAAGTACACTGAAACTCTAAT
16888443 T
1 T
16888444 AATCTAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (24 bp):
TCTAAAGTACACTGAAACTCTAAT
Found at i:16891147 original size:29 final size:29
Alignment explanation
Indices: 16891084--16891146 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
16891074 TTTTAAATTT
*
16891084 TAAAAATGATAAGATTAAATTATTTAAAA
1 TAAAAATGATAAGATTAAATTATCTAAAA
16891113 TAAAAATAGA-AAGATTAAA-T-TCTAAATA
1 TAAAAAT-GATAAGATTAAATTATCTAAA-A
16891141 TAAAAA
1 TAAAAA
16891147 AAATACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
27 5 0.16
28 8 0.26
29 16 0.52
30 2 0.06
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (29 bp):
TAAAAATGATAAGATTAAATTATCTAAAA
Found at i:16892391 original size:69 final size:69
Alignment explanation
Indices: 16892280--16892486 Score: 405
Period size: 69 Copynumber: 3.0 Consensus size: 69
16892270 ACAACCATTC
16892280 CACCTAGATAACATCATATAATTTTTGTAAAAATGTGTAATTGCATAATTAGATGAATATTACAA
1 CACCTAGATAACATCATATAATTTTTGTAAAAATGTGTAATTGCATAATTAGATGAATATTACAA
16892345 ATTT
66 ATTT
16892349 CACCTAGATAACATCATATAATTTTTGTAAAAATGTGTAATTGCATAATTAGATGAATATTACAA
1 CACCTAGATAACATCATATAATTTTTGTAAAAATGTGTAATTGCATAATTAGATGAATATTACAA
16892414 ATTT
66 ATTT
*
16892418 CACCTAGATAACATCATATAATTTTTGTAAAAATGTGTAATTGCATGATTAGATGAATATTACAA
1 CACCTAGATAACATCATATAATTTTTGTAAAAATGTGTAATTGCATAATTAGATGAATATTACAA
16892483 ATTT
66 ATTT
16892487 GGTAATAAGT
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 137 1.00
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.38
Consensus pattern (69 bp):
CACCTAGATAACATCATATAATTTTTGTAAAAATGTGTAATTGCATAATTAGATGAATATTACAA
ATTT
Found at i:16908174 original size:43 final size:43
Alignment explanation
Indices: 16908126--16908227 Score: 163
Period size: 43 Copynumber: 2.4 Consensus size: 43
16908116 CCCAACTATG
16908126 GTCTTACACGA-AATCAAATAATGATGCCAATGTCCCAGACA-T
1 GTCTTACAC-ATAATCAAATAATGATGCCAATGTCCCAGACATT
*
16908168 GTTCTTACACATAATCAAATAATGATGCCAATGTCCTAGACATT
1 G-TCTTACACATAATCAAATAATGATGCCAATGTCCCAGACATT
16908212 GTCTTACACATAATCA
1 GTCTTACACATAATCA
16908228 CATCTTGCTA
Statistics
Matches: 56, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
42 2 0.04
43 52 0.93
44 2 0.04
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (43 bp):
GTCTTACACATAATCAAATAATGATGCCAATGTCCCAGACATT
Found at i:16910436 original size:49 final size:48
Alignment explanation
Indices: 16910365--16910491 Score: 157
Period size: 49 Copynumber: 2.6 Consensus size: 48
16910355 TGTTGTGTGT
*
16910365 CAGTGTAAGA-CTGTCTAGGACATGGCATCGACACCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTAGGACATGGCATCGAC-CCGATAGATGAAAGC
* * * * *
16910413 CAGTGTAAGACCTGTCTGGGACATGACATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTAGGACATGGCATCGACC-CGATAGATGAAAGC
* *
16910462 TAGTGTAAGACCTGTCTAGGATATGGCATC
1 CAGTGTAAGACCTGTCTAGGACATGGCATC
16910492 TACTTTGATG
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 11 0.16
49 56 0.84
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTAGGACATGGCATCGACCCGATAGATGAAAGC
Found at i:16910488 original size:141 final size:145
Alignment explanation
Indices: 16910224--16910536 Score: 351
Period size: 141 Copynumber: 2.2 Consensus size: 145
16910214 ACATTATGAG
* * * ** * * *
16910224 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCGTCGGCATTG--AGACGAGAACTAGTGTAAGACA
1 AGCCAGTGTAAGATCATGTCTAGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACA
* * * *
16910285 TGTTTGGGACATGCATCAGCCTGGAAATATACAAGTTAGTGTAATACTTGTCTAGGACATGGCAT
66 TGTCTGGGACATGCATCAGCCTCGAAATATACAAGTTAGTGTAAGACCTGTCTAGGACATGGCAT
*
16910350 -TAGC-TTGTTGTG-T
131 CTA-CTTTGATGTGTT
* *
16910363 -GTCAGTGTAAGA-C-TGTCTAGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACC
1 AGCCAGTGTAAGATCATGTCTAGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACA
* * *
16910425 TGTCTGGGACATGACATCGGCCTCGATATATGA-AAGTTAGTGTAAGACCTGTCTAGGATATGGC
66 TGTCTGGGACATG-CATCAGCCTCGAAATAT-ACAAGTTAGTGTAAGACCTGTCTAGGACATGGC
16910489 ATCTACTTTGATGTGTT
129 ATCTACTTTGATGTGTT
*
16910506 AGCCAGTGTAAGATCATGTCTGGGACATGGC
1 AGCCAGTGTAAGATCATGTCTAGGACATGGC
16910537 GTCGGCATCT
Statistics
Matches: 143, Mismatches: 20, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
137 11 0.08
138 20 0.14
140 30 0.21
141 45 0.31
142 10 0.07
143 1 0.01
144 11 0.08
145 1 0.01
146 14 0.10
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (145 bp):
AGCCAGTGTAAGATCATGTCTAGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAGACA
TGTCTGGGACATGCATCAGCCTCGAAATATACAAGTTAGTGTAAGACCTGTCTAGGACATGGCAT
CTACTTTGATGTGTT
Found at i:16912501 original size:20 final size:21
Alignment explanation
Indices: 16912476--16912514 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
16912466 GTGTCATGGA
16912476 AAAATTTTCTAA-GTTTTCCC
1 AAAATTTTCTAAGGTTTTCCC
16912496 AAAATTTTCTAAGGTTTTC
1 AAAATTTTCTAAGGTTTTC
16912515 AGTTTAGTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (21 bp):
AAAATTTTCTAAGGTTTTCCC
Found at i:16914363 original size:47 final size:47
Alignment explanation
Indices: 16914289--16914384 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
16914279 TTATTAAGAA
*
16914289 GACATAATGGTGACAATGAGATAAAATAGGGTTGTATTGAGTGAATG
1 GACACAATGGTGACAATGAGATAAAATAGGGTTGTATTGAGTGAATG
*
16914336 GACACAATGGTGGCAATGAGATAAAATAGGGTTGTATTGAGTGAATG
1 GACACAATGGTGACAATGAGATAAAATAGGGTTGTATTGAGTGAATG
16914383 GA
1 GA
16914385 TTTAACTCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.38, C:0.05, G:0.31, T:0.26
Consensus pattern (47 bp):
GACACAATGGTGACAATGAGATAAAATAGGGTTGTATTGAGTGAATG
Found at i:16927733 original size:48 final size:48
Alignment explanation
Indices: 16927670--16927799 Score: 206
Period size: 48 Copynumber: 2.7 Consensus size: 48
16927660 CGAGTCATAA
* * * *
16927670 CTTGATTTGGTTTCGGTCCATGGTATAGGTATTTCAGAGATGAGTTAC
1 CTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCAGAGATAAGTTAC
*
16927718 CTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCGGAGATAAGTTAC
1 CTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCAGAGATAAGTTAC
*
16927766 CTTGATTTTGCTTCGGGCCATGGTATAGGTACTT
1 CTTGATTTGGCTTCGGGCCATGGTATAGGTACTT
16927800 ATTGTGCGAG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 76 1.00
ACGTcount: A:0.19, C:0.15, G:0.28, T:0.38
Consensus pattern (48 bp):
CTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCAGAGATAAGTTAC
Found at i:16929443 original size:22 final size:23
Alignment explanation
Indices: 16929413--16929456 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
16929403 GATTTATGAG
*
16929413 AATGAATGCTTTATGTT-TGATA
1 AATGAATGCTATATGTTGTGATA
*
16929435 AATGTATGCTATATGTTGTGAT
1 AATGAATGCTATATGTTGTGAT
16929457 TTGATCAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (23 bp):
AATGAATGCTATATGTTGTGATA
Found at i:16934299 original size:48 final size:48
Alignment explanation
Indices: 16934233--16934361 Score: 204
Period size: 48 Copynumber: 2.7 Consensus size: 48
16934223 CGAGTCATAA
* * *
16934233 CTTGATTTGGCTTCGGGCCATGGTATAGGTATTTCGGAGATGAGTTAC
1 CTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCGGAGATAAGTTAC
*
16934281 CTTGATTTGGCTTTGGGCCATGGTATAGGTACTCCGGAGATAAGTTAC
1 CTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCGGAGATAAGTTAC
* *
16934329 CTTAATTTTGCTTCGGGCCATGGTATAGGTACT
1 CTTGATTTGGCTTCGGGCCATGGTATAGGTACT
16934362 TATTGTGTGA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.19, C:0.16, G:0.29, T:0.36
Consensus pattern (48 bp):
CTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCGGAGATAAGTTAC
Found at i:16938829 original size:22 final size:23
Alignment explanation
Indices: 16938799--16938842 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
16938789 GATTTATGAG
*
16938799 AATGAATGCTTTATGTT-TGATA
1 AATGAATGCTATATGTTGTGATA
*
16938821 AATGTATGCTATATGTTGTGAT
1 AATGAATGCTATATGTTGTGAT
16938843 TTGATCGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (23 bp):
AATGAATGCTATATGTTGTGATA
Found at i:16940554 original size:26 final size:26
Alignment explanation
Indices: 16940525--16940579 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
16940515 TTTGTGTAAT
16940525 CCAACTCAAACACAAGTGGATTAACA
1 CCAACTCAAACACAAGTGGATTAACA
* *
16940551 CCAACTTAAACACAAGTGGGTTAACA
1 CCAACTCAAACACAAGTGGATTAACA
16940577 CCA
1 CCA
16940580 TAAATAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.44, C:0.27, G:0.13, T:0.16
Consensus pattern (26 bp):
CCAACTCAAACACAAGTGGATTAACA
Found at i:16947817 original size:47 final size:48
Alignment explanation
Indices: 16947759--16947890 Score: 176
Period size: 47 Copynumber: 2.8 Consensus size: 48
16947749 CACAATCAAT
*
16947759 AAGTACTTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATC-CCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTCCG
* * * * * **
16947806 AAGTACCTATACTATAGCTCGTAGCCAAATCGAGGTAACTTCTCTTTG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTCCG
*
16947854 AAATACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
16947891 TCATTCGCAC
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 38 0.54
48 33 0.46
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.25
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTCCG
Found at i:16947880 original size:48 final size:47
Alignment explanation
Indices: 16947766--16947890 Score: 169
Period size: 48 Copynumber: 2.6 Consensus size: 47
16947756 AATAAGTACT
*
16947766 TATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGAAGTACC
1 TATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGAAATACC
* * * * * **
16947813 TATACTATAGCTCGTAGCCAAATCGAGGTAACTTCTCTTTGAAATACC
1 TATACCATGGCCCGTAGCCAAATCAAGGTAACTTATC-CCGAAATACC
16947861 TATACCATGGCCCGTAGCCAAATCAAGGTA
1 TATACCATGGCCCGTAGCCAAATCAAGGTA
16947891 TCATTCGCAC
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
47 32 0.49
48 33 0.51
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (47 bp):
TATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGAAATACC
Found at i:16957854 original size:26 final size:26
Alignment explanation
Indices: 16957822--16957872 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
16957812 ATTTTCTAAG
16957822 TCAGCATCTAGTTCAGGATTGGTTGA
1 TCAGCATCTAGTTCAGGATTGGTTGA
*
16957848 TCAGCATCTGGTTCAGGATTGGTTG
1 TCAGCATCTAGTTCAGGATTGGTTG
16957873 GTGACTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.35
Consensus pattern (26 bp):
TCAGCATCTAGTTCAGGATTGGTTGA
Found at i:16962088 original size:44 final size:43
Alignment explanation
Indices: 16961986--16962131 Score: 159
Period size: 43 Copynumber: 3.3 Consensus size: 43
16961976 GGCCTGATAT
* ** * *
16961986 CGAAAGCCCGAATAGTATCTCACCGGCATTATAGCATGCTAGGCT
1 CGAAGGCCCGAATAGTATC-CACCGGCAAGA-AGCCTGCTAGGCA
* *
16962031 CAAAGGCCCGAATAGTATTCCACCGGCACGAAGCCTGCTAGGCA
1 CGAAGGCCCGAATAGTA-TCCACCGGCAAGAAGCCTGCTAGGCA
* **
16962075 CGAAGGCCTGAATACACAT-CACCGGCAAGAAGCCTGCTAGGCA
1 CGAAGGCCCGAATA-GTATCCACCGGCAAGAAGCCTGCTAGGCA
16962118 CGAAGGCCCGAATA
1 CGAAGGCCCGAATA
16962132 TAATACCAGC
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
43 36 0.41
44 24 0.28
45 25 0.29
46 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.25, T:0.15
Consensus pattern (43 bp):
CGAAGGCCCGAATAGTATCCACCGGCAAGAAGCCTGCTAGGCA
Found at i:16967321 original size:39 final size:39
Alignment explanation
Indices: 16967278--16967396 Score: 193
Period size: 39 Copynumber: 3.1 Consensus size: 39
16967268 TGTGAATATA
* *
16967278 TATATGCGAGAATTATATTCGGACTTCATGTCCGCATGC
1 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
16967317 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
* * *
16967356 TATATGCGAGAATTATATCCGGACTTTAGGTCCACAGGC
1 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
16967395 TA
1 TA
16967397 CGTGCTGGAC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
Found at i:16974669 original size:64 final size:64
Alignment explanation
Indices: 16974591--16974720 Score: 242
Period size: 64 Copynumber: 2.0 Consensus size: 64
16974581 CATAATAATT
16974591 TATGGATTTGTGATAAATTTGAATGTTTTCGGTTTAGAGACTAAATTTTTTTAAAATATAAGTG
1 TATGGATTTGTGATAAATTTGAATGTTTTCGGTTTAGAGACTAAATTTTTTTAAAATATAAGTG
* *
16974655 TATGGATTTGTGATAAATTTGAATGTTTTCGGTTTAGAGACTAAATTTTTTTTAAATATAATTG
1 TATGGATTTGTGATAAATTTGAATGTTTTCGGTTTAGAGACTAAATTTTTTTAAAATATAAGTG
16974719 TA
1 TA
16974721 GGGAAAAAGT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (64 bp):
TATGGATTTGTGATAAATTTGAATGTTTTCGGTTTAGAGACTAAATTTTTTTAAAATATAAGTG
Found at i:16980587 original size:12 final size:11
Alignment explanation
Indices: 16980556--16980591 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
16980546 TTTTTAAAAA
16980556 AATTAAAAACT
1 AATTAAAAACT
16980567 AATTAAAAACT
1 AATTAAAAACT
*
16980578 AAGTTTAAAACT
1 AA-TTAAAAACT
16980590 AA
1 AA
16980592 AACATAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.28
Consensus pattern (11 bp):
AATTAAAAACT
Found at i:16985050 original size:40 final size:40
Alignment explanation
Indices: 16984967--16985229 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
16984957 TTGAATGCTG
* * * * * *
16984967 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
16985007 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
16985047 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
16985087 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
16985127 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
16985167 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
16985206 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
16985230 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:16985249 original size:79 final size:80
Alignment explanation
Indices: 16985006--16985264 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
16984996 AAGTGAATAT
* * * * * *
16985006 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
16985070 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
16985086 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
16985151 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
16985166 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
16985230 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
16985245 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
16985265 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:16993124 original size:39 final size:40
Alignment explanation
Indices: 16992920--16993142 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
16992910 TTGAATGCTG
* * * * * *
16992920 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
** * * *
16992960 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATATTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
16993000 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
16993040 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
16993080 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
16993119 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
16993143 TGAACGAGGA
Statistics
Matches: 162, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 119 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:16993162 original size:79 final size:80
Alignment explanation
Indices: 16992996--16993177 Score: 224
Period size: 79 Copynumber: 2.3 Consensus size: 80
16992986 TGCGAGATAT
* * *
16992996 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
** ** *
16993061 ATTCGTGCGAGTTGT
66 ATTCGAACGAGGAGC
* * *
16993076 TAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
*
16993140 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
* *
16993155 TATATCC-GGTTAAATCCCGAAGG
1 TAAATCCGGGTTAAGTCCCGAAGG
16993178 TACGTGATTT
Statistics
Matches: 87, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:16997530 original size:41 final size:41
Alignment explanation
Indices: 16997401--16997531 Score: 113
Period size: 43 Copynumber: 3.1 Consensus size: 41
16997391 TAAGATGCTA
* * *
16997401 ATGCCATATCCCAGATATGGTCTTACAAGAGATCACATATCA
1 ATGCCATGTCCCA-ACATGGTCTTACAAGAGATCACATATCG
* * * * *
16997443 ATGCCAATAG-CCTAGCTATGGTCTTACACGAGGTCTCATAAT-G
1 ATGCC-AT-GTCCCAAC-ATGGTCTTACAAGAGATCACAT-ATCG
* *
16997486 ATGCCATGTCCCAACATGGTCTTACATGAAATCACATATCG
1 ATGCCATGTCCCAACATGGTCTTACAAGAGATCACATATCG
16997527 ATGCC
1 ATGCC
16997532 GATGCCATGT
Statistics
Matches: 69, Mismatches: 14, Indels: 13
0.72 0.15 0.14
Matches are distributed among these distances:
40 2 0.03
41 25 0.36
42 11 0.16
43 29 0.42
44 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (41 bp):
ATGCCATGTCCCAACATGGTCTTACAAGAGATCACATATCG
Found at i:16997569 original size:48 final size:48
Alignment explanation
Indices: 16997485--16997703 Score: 237
Period size: 48 Copynumber: 4.6 Consensus size: 48
16997475 GTCTCATAAT
*
16997485 GATGCCATGTCCCA-ACATGGTCTTACA-TGAAATCACATATCGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTG-GATCACATATCGATGCC
* * ** *
16997532 GATGCCATGTCCCAGACATGGCCTTACACTGGCTCACACGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGATCACATATCGATGCC
* * *
16997580 GATGCCATGTCCCAGACATGGTCTTACACTAGCA-CACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-GGATCACATATCGATGCC
* * * * * * *
16997628 GATGCCATGTCCTAGACATGGCCTTATACAGGATCTCATCTTGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGATCACATATCGATGCC
* *
16997676 AATGCCATGTCCCAAACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
16997704 TGGGATCTCA
Statistics
Matches: 140, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
47 16 0.11
48 121 0.86
49 3 0.02
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGATCACATATCGATGCC
Found at i:16997618 original size:96 final size:95
Alignment explanation
Indices: 16997485--16997705 Score: 277
Period size: 96 Copynumber: 2.3 Consensus size: 95
16997475 GTCTCATAAT
* *
16997485 GATGCCATGTCCCAACATGGTCTTACATGAAATCACATATCGATGCCGATGCCATGTCCCAGACA
1 GATGCCATGTCCCAACATGGTCTTACATGAAATCACATATCAACGCCGATGCCATGTCCCAGACA
* *
16997550 TGGCCTTACACTGGCTCACA-CGTCGAGGCC
66 TGGCCTTACACAGGATCACATC-TCGAGGCC
* *
16997580 GATGCCATGTCCCAGACATGGTCTTACACT-AGCA-CACATATCAACGCCGATGCCATGTCCTAG
1 GATGCCATGTCCCA-ACATGGTCTTACA-TGA-AATCACATATCAACGCCGATGCCATGTCCCAG
* * * *
16997643 ACATGGCCTTATACAGGATCTCATCTTGATGCC
63 ACATGGCCTTACACAGGATCACATCTCGAGGCC
*
16997676 AATGCCATGTCCCAAACATGGTCTTACATG
1 GATGCCATGTCCC-AACATGGTCTTACATG
16997706 GGATCTCACA
Statistics
Matches: 109, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
95 15 0.14
96 90 0.83
97 4 0.04
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.24
Consensus pattern (95 bp):
GATGCCATGTCCCAACATGGTCTTACATGAAATCACATATCAACGCCGATGCCATGTCCCAGACA
TGGCCTTACACAGGATCACATCTCGAGGCC
Found at i:17003474 original size:40 final size:40
Alignment explanation
Indices: 17003350--17003574 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 40
17003340 TATTCGAATG
* * * *
17003350 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGATT
* * * * * * *
17003391 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-CGATT
* * *
17003431 ATATTCGAGCTAAGACCCGAAGGCATTTGTTCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
* * *
17003471 ATATCCGGGCTAAAACTCAAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
* * * **
17003511 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
* *
17003551 ACATTCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
17003575 CTTGTGCAAG
Statistics
Matches: 148, Mismatches: 34, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 118 0.80
41 29 0.20
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
Found at i:17003560 original size:80 final size:79
Alignment explanation
Indices: 17003350--17003610 Score: 233
Period size: 80 Copynumber: 3.3 Consensus size: 79
17003340 TATTCGAATG
* * *
17003350 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGA-TCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACT-CGAAGG
* * *
17003414 CATTCGTGCGAGTTG-CT
64 CATTTGTGCAAG--GATT
* * * * * * * *
17003431 ATATTCGAGCTAAGACCCGAAGGCATTTGTTCTAGCGATTATATCCGGGCTAAAACTCAAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACTCGAAGGCA
*
17003496 TTTGTGCTAGCGATT
66 TTTGTGCAAG-GATT
* * * * *
17003511 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATTCGGGCTAAGACCCGAAGGC-
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACTCGAAGGCA
* *
17003575 CTTGTGCAAGTAGTT
66 TTTGTGCAAGGA-TT
*
17003590 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
17003611 ATTACTTGAG
Statistics
Matches: 145, Mismatches: 32, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
78 15 0.10
79 17 0.12
80 83 0.57
81 30 0.21
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACTCGAAGGCA
TTTGTGCAAGGATT
Found at i:17005775 original size:54 final size:54
Alignment explanation
Indices: 17005693--17005831 Score: 278
Period size: 54 Copynumber: 2.6 Consensus size: 54
17005683 CAAGGTTCCA
17005693 TGATGTGTAAATGTTTCGAGGATGGGCTGAAGGAATGCATTTCTTCAGAAGCCG
1 TGATGTGTAAATGTTTCGAGGATGGGCTGAAGGAATGCATTTCTTCAGAAGCCG
17005747 TGATGTGTAAATGTTTCGAGGATGGGCTGAAGGAATGCATTTCTTCAGAAGCCG
1 TGATGTGTAAATGTTTCGAGGATGGGCTGAAGGAATGCATTTCTTCAGAAGCCG
17005801 TGATGTGTAAATGTTTCGAGGATGGGCTGAA
1 TGATGTGTAAATGTTTCGAGGATGGGCTGAA
17005832 TGATGATATG
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 85 1.00
ACGTcount: A:0.26, C:0.12, G:0.32, T:0.30
Consensus pattern (54 bp):
TGATGTGTAAATGTTTCGAGGATGGGCTGAAGGAATGCATTTCTTCAGAAGCCG
Found at i:17011590 original size:40 final size:40
Alignment explanation
Indices: 17011496--17011720 Score: 224
Period size: 40 Copynumber: 5.6 Consensus size: 40
17011486 TATTCGAATG
* *
17011496 ATATCTGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
17011537 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * * *
17011577 ATATCCGGGCTAAGACCCGAAGGCATTTGTTCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * * *
17011617 ATATTCGGGCTAA-AACTCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGTGACT
* *
17011657 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
*
17011697 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
17011721 CTTGTGCAAG
Statistics
Matches: 153, Mismatches: 24, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.02
40 120 0.78
41 29 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:17025529 original size:18 final size:18
Alignment explanation
Indices: 17025495--17025527 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17025485 TCCAAATAAT
17025495 TTAACTAATTTTGATATG
1 TTAACTAATTTTGATATG
17025513 TTAA-TAATTTT-ATAT
1 TTAACTAATTTTGATAT
17025528 ATCTTTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (18 bp):
TTAACTAATTTTGATATG
Found at i:17038081 original size:28 final size:29
Alignment explanation
Indices: 17038024--17038082 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
17038014 AACTATTAAT
*
17038024 AAATTTATAATTTAATCACTTAACTTCAA
1 AAATTTATAAATTAATCACTTAACTTCAA
* *
17038053 AAATTTATAAATTAGTCA-TTAAGTTCAA
1 AAATTTATAAATTAATCACTTAACTTCAA
17038081 AA
1 AA
17038083 GTTAGAAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.39
Consensus pattern (29 bp):
AAATTTATAAATTAATCACTTAACTTCAA
Found at i:17039395 original size:33 final size:35
Alignment explanation
Indices: 17039291--17039409 Score: 140
Period size: 36 Copynumber: 3.4 Consensus size: 35
17039281 TGGTAGGTGC
17039291 ATATATAATAT-TAATATGTGTGCATGGTTTTGT-TAT
1 ATATATAATATAT-ATATGTGTGCA-GGTTTTGTGT-T
* *
17039327 ATATATAATATAAATATGGGTGCATGGTTTT-TGTT
1 ATATATAATATATATATGTGTGCA-GGTTTTGTGTT
17039362 ATATATAATATATATATGTGTG-A-GTTTTGTGTT
1 ATATATAATATATATATGTGTGCAGGTTTTGTGTT
*
17039395 ATATGTAATATATAT
1 ATATATAATATATAT
17039410 TTGTATATGG
Statistics
Matches: 75, Mismatches: 5, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
32 5 0.07
33 18 0.24
34 1 0.01
35 22 0.29
36 29 0.39
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.49
Consensus pattern (35 bp):
ATATATAATATATATATGTGTGCAGGTTTTGTGTT
Found at i:17041344 original size:47 final size:47
Alignment explanation
Indices: 17041283--17041374 Score: 184
Period size: 47 Copynumber: 2.0 Consensus size: 47
17041273 GACAAGAATT
17041283 TAACCAGATTAAGTAAGAATGGGTATGAAAAAGTATATAAATTTTCA
1 TAACCAGATTAAGTAAGAATGGGTATGAAAAAGTATATAAATTTTCA
17041330 TAACCAGATTAAGTAAGAATGGGTATGAAAAAGTATATAAATTTT
1 TAACCAGATTAAGTAAGAATGGGTATGAAAAAGTATATAAATTTT
17041375 GTGTTTCCAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.47, C:0.05, G:0.17, T:0.30
Consensus pattern (47 bp):
TAACCAGATTAAGTAAGAATGGGTATGAAAAAGTATATAAATTTTCA
Done.