Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 68 of 378
Found at i:17805125 original size:2 final size:2
Alignment explanation
Indices: 17805118--17805150 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
17805108 CAATACATGT
17805118 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17805151 CTTTGTATGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17808657 original size:15 final size:15
Alignment explanation
Indices: 17808621--17808670 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
17808611 GATATTCTTT
17808621 TTTGCAT-TCATACA
1 TTTGCATCTCATACA
17808635 TTTGCATCTCATAGCA
1 TTTGCATCTCATA-CA
*
17808651 TTT-CATCACAT-CA
1 TTTGCATCTCATACA
17808664 TTTGCAT
1 TTTGCAT
17808671 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 12 0.38
16 5 0.16
ACGTcount: A:0.26, C:0.24, G:0.08, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATACA
Found at i:17816150 original size:26 final size:26
Alignment explanation
Indices: 17816114--17816164 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
17816104 TAGAAGATAG
17816114 GCTAGCAGATTAATTCCCTTTTGTAA
1 GCTAGCAGATTAATTCCCTTTTGTAA
17816140 GCTAGCAGATTAATTCCCTTTTGTA
1 GCTAGCAGATTAATTCCCTTTTGTA
17816165 TCTTTTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (26 bp):
GCTAGCAGATTAATTCCCTTTTGTAA
Found at i:17816817 original size:31 final size:31
Alignment explanation
Indices: 17816782--17816843 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
17816772 TTCGGAGGGG
*
17816782 AGCAGATCGAAGATATAGCTGATTTGACTTT
1 AGCAGATCAAAGATATAGCTGATTTGACTTT
17816813 AGCAGATCAAAGATATAGCTGATTTGACTTT
1 AGCAGATCAAAGATATAGCTGATTTGACTTT
17816844 CACGTGTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (31 bp):
AGCAGATCAAAGATATAGCTGATTTGACTTT
Found at i:17817190 original size:210 final size:208
Alignment explanation
Indices: 17816813--17817537 Score: 919
Period size: 210 Copynumber: 3.5 Consensus size: 208
17816803 ATTTGACTTT
* * *
17816813 AGCAGATCAAAGATATAGCTGATTTGACTTTCACGTGTTTACGGTGAAGCAAATCTAAGATGATT
1 AGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATT
* *
17816878 TGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCATTTCAACTTTGATGGAAGGCAAAC
66 TGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCAACTTCGATGGAAGGCAAAC
* * * *
17816943 ACATAGCAGACCTCACCTTTAGAAGTTTATACTGAAGCAGATCCAAGATGACAGATCTTATCTCT
131 ACATAGCAGATCTCACCTTCAGATGTTTA-GCTGAAGCAGATCCAAGATGACAGATCTTATCTCT
17817008 CTGTATTCGGTGAGG
195 CTGTATTCGG-GAGG
* * *
17817023 AGCAGATCGAAGAAATAGCTAATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATT
1 AGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATT
* *
17817088 TGTCGTCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATTTCCACTTCGATGGAAGGCAAAC
66 TGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCAACTTCGATGGAAGGCAAAC
*
17817153 ATATAGCAGATCTCACCTTCAGATGTTTACGCTGAAGCAGATCCAAGATGACAGATCTTATCTCT
131 ACATAGCAGATCTCACCTTCAGATGTTTA-GCTGAAGCAGATCCAAGATGACAGATCTTATCTCT
*
17817218 CTGTATTCGGCGGGG
195 CTGTATTCGG-GAGG
* * * *
17817233 AGCATATCGAAGATATAGCTTATTTGACTTTCACGTGTTTACGATGAAGCAAATATAAGATGATT
1 AGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATT
* * * * *
17817298 TGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTCAATAG-AGAGCAGA
66 TGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCAACTTCGATGGAAG-GCAAA
* * * * ** *
17817362 TACATAGCAGATCTGACCTTCAGATGATTAGACTGAAACAAGATCCAAGATGATTTG-GC--ATC
130 CACATAGCAGATCTCACCTTCAGATGTTTAG-CTGAAGC-AGATCCAAGATGA-CAGATCTTATC
* *
17817424 -CT-TGTGCTTAC--AAGG
192 TCTCTGT-ATT-CGGGAGG
* * * * *
17817439 AGCAAATCGAAGACATAGCTGATTT-AGTTTTCACGAGCTTATGATGAAGCAAATCTAAGATGAT
1 AGCAGATCGAAGATATAGCTGATTTGA-CTTTCACGTGCTTACGATGAAGCAAATCTAAGATGAT
* *
17817503 TTGTCATCTCTGCATTGTCAGAGAACAAATCGAAG
65 TTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAG
17817538 AAGCAGATTT
Statistics
Matches: 457, Mismatches: 51, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
205 1 0.00
206 89 0.19
207 3 0.01
208 4 0.01
209 7 0.02
210 338 0.74
211 14 0.03
212 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (208 bp):
AGCAGATCGAAGATATAGCTGATTTGACTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATT
TGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATTTCAACTTCGATGGAAGGCAAAC
ACATAGCAGATCTCACCTTCAGATGTTTAGCTGAAGCAGATCCAAGATGACAGATCTTATCTCTC
TGTATTCGGGAGG
Found at i:17819246 original size:13 final size:13
Alignment explanation
Indices: 17819228--17819262 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
17819218 ACAAATTATT
17819228 ATTATTATTTTAC
1 ATTATTATTTTAC
*
17819241 ATTATTATTTTAT
1 ATTATTATTTTAC
17819254 ATTATTATT
1 ATTATTATT
17819263 ATATCTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTATTATTTTAC
Found at i:17819260 original size:16 final size:17
Alignment explanation
Indices: 17819171--17819264 Score: 63
Period size: 16 Copynumber: 5.6 Consensus size: 17
17819161 ACATTATAAA
*
17819171 ATTATT-TTACTATATAT
1 ATTATTATTATTAT-TAT
17819188 ATTATTATTATTTATTAT
1 ATTATTATTA-TTATTAT
* * * *
17819206 A-TCTTATTGTTCA-CAA
1 ATTATTATTATT-ATTAT
*
17819222 ATTATTATTATTATTTT
1 ATTATTATTATTATTAT
*
17819239 A-CATTATTATT-TTAT
1 ATTATTATTATTATTAT
17819254 ATTATTATTAT
1 ATTATTATTAT
17819265 ATCTTACTTG
Statistics
Matches: 58, Mismatches: 13, Indels: 13
0.69 0.15 0.15
Matches are distributed among these distances:
15 4 0.07
16 22 0.38
17 22 0.38
18 7 0.12
19 3 0.05
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (17 bp):
ATTATTATTATTATTAT
Found at i:17819789 original size:2 final size:2
Alignment explanation
Indices: 17819736--17819780 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
17819726 CATTTCATTT
17819736 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17819778 TA T
1 TA T
17819781 TGCATATATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17819929 original size:32 final size:29
Alignment explanation
Indices: 17819866--17819922 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
17819856 GTAGTACTCT
*
17819866 TTTTTGTATGTCATGCATTATTTTATTAC
1 TTTTTGTATATCATGCATTATTTTATTAC
*
17819895 TTTTTGTATATCATGCATTATTTAATTA
1 TTTTTGTATATCATGCATTATTTTATTA
17819923 TTACTTTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.58
Consensus pattern (29 bp):
TTTTTGTATATCATGCATTATTTTATTAC
Found at i:17819978 original size:2 final size:2
Alignment explanation
Indices: 17819971--17820001 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
17819961 CAATACATGT
17819971 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
17820002 CTTTGTATGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17820872 original size:41 final size:41
Alignment explanation
Indices: 17820785--17820926 Score: 178
Period size: 41 Copynumber: 3.4 Consensus size: 41
17820775 ACACTCGATA
*** * *
17820785 TCTCGCACACTAAGTGCCAAAGCATAGTCGAAGCTATTATAA
1 TCTCGCACACTAAGTGCC-TTTCATAGTCGAAGCTATCATAG
17820827 TCTCGCACACTAAGTGCCTTTCATAGTCGAAGCTATCATAG
1 TCTCGCACACTAAGTGCCTTTCATAGTCGAAGCTATCATAG
* *
17820868 TCTCGCACACTAAGTGCCTTTCATAGCCGAAGGTATC-TCAG
1 TCTCGCACACTAAGTGCCTTTCATAGTCGAAGCTATCAT-AG
* *
17820909 TCTCACCCACTAAGTGCC
1 TCTCGCACACTAAGTGCC
17820927 ATATATAGCC
Statistics
Matches: 90, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 1 0.01
41 71 0.79
42 18 0.20
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (41 bp):
TCTCGCACACTAAGTGCCTTTCATAGTCGAAGCTATCATAG
Found at i:17820935 original size:41 final size:41
Alignment explanation
Indices: 17820807--17821005 Score: 155
Period size: 41 Copynumber: 4.9 Consensus size: 41
17820797 AGTGCCAAAG
* * * *
17820807 CATAGTCGAAGCTATTATAATCTCGCACACTAAGTGCCTTT
1 CATAGCCGAAGCTATCATAGTCTCACACACTAAGTGCCTTT
* *
17820848 CATAGTCGAAGCTATCATAGTCTCGCACACTAAGTGCCTTT
1 CATAGCCGAAGCTATCATAGTCTCACACACTAAGTGCCTTT
* * *
17820889 CATAGCCGAAGGTATC-TCAGTCTCACCCACTAAGTGCCATAT
1 CATAGCCGAAGCTATCAT-AGTCTCACACACTAAGTGCC-TTT
*
17820931 -ATAGCCGAA-CTATTC-T-GAT-TCGCACACTAAGTG-CTTT
1 CATAGCCGAAGCTA-TCATAG-TCTCACACACTAAGTGCCTTT
* * * *
17820968 ATATAGCTGAAGCTATC-TCGAT-ACACACACTAAGTGCC
1 -CATAGCCGAAGCTATCATAG-TCTCACACACTAAGTGCC
17821006 AAACATAGTC
Statistics
Matches: 135, Mismatches: 14, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
37 2 0.01
38 1 0.01
39 24 0.18
40 22 0.16
41 84 0.62
42 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (41 bp):
CATAGCCGAAGCTATCATAGTCTCACACACTAAGTGCCTTT
Found at i:17820971 original size:39 final size:40
Alignment explanation
Indices: 17820873--17821006 Score: 123
Period size: 39 Copynumber: 3.4 Consensus size: 40
17820863 CATAGTCTCG
* * *
17820873 CACACTAAGTGCC-TTTCATAGCCGAAGGTATCTC-AGTCTCA
1 CACACTAAGTGCCATAT-ATAGCCGAAGCTATCTCGA-T-ACA
* * *
17820914 CCCACTAAGTGCCATATATAGCCGAA-CTAT-TCTGATTCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTC-GATACA
** *
17820953 CACACTAAGTGCTTTATATAGCTGAAGCTATCTCGATACA
1 CACACTAAGTGCCATATATAGCCGAAGCTATCTCGATACA
17820993 CACACTAAGTGCCA
1 CACACTAAGTGCCA
17821007 AACATAGTCG
Statistics
Matches: 76, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
39 26 0.34
40 24 0.32
41 24 0.32
42 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.27
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATCTCGATACA
Found at i:17821474 original size:29 final size:29
Alignment explanation
Indices: 17821410--17821475 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
17821400 CTTTCCTTTA
* *
17821410 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATATACACT
* * *
17821439 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTCAATATACACT
17821467 TTTACTCAA
1 TTT-CTCAA
17821476 AATCGCTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATATACACT
Found at i:17825262 original size:40 final size:40
Alignment explanation
Indices: 17825177--17825327 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
17825167 AATTGATTGA
* * * *
17825177 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
17825217 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
17825258 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
17825297 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
17825328 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:17825341 original size:40 final size:40
Alignment explanation
Indices: 17825214--17825343 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
17825204 ATGCTGGAAA
* * *
17825214 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
17825254 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
17825294 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
17825334 TTATATCCGG
1 TTATATCCGG
17825344 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:17825342 original size:80 final size:80
Alignment explanation
Indices: 17825176--17825343 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
17825166 AAATTGATTG
* *
17825176 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
17825241 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
17825256 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
17825319 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
17825336 ATATCCGG
1 ATATCCGG
17825344 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:17827256 original size:43 final size:43
Alignment explanation
Indices: 17827201--17827326 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
17827191 GTTAGACAAT
* *
17827201 TATTATAGGATATTATCTTTTAGCAATTTGATTTCTAATTAGA
1 TATTATAAGATATTATCTTTTAGCAATTTGATTTCTAATAAGA
* * *
17827244 TGTTATAAGATATTATCTCTTAGCAATTTGATTCCTAATAAGA
1 TATTATAAGATATTATCTTTTAGCAATTTGATTTCTAATAAGA
* * **
17827287 TATTATTATGAAATATTATATTTTAGTTATTTGATTTCTA
1 TATTA-TA--AGATATTATCTTTTAGCAATTTGATTTCTA
17827327 CGCAACTACT
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
43 42 0.62
44 2 0.03
46 24 0.35
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.49
Consensus pattern (43 bp):
TATTATAAGATATTATCTTTTAGCAATTTGATTTCTAATAAGA
Found at i:17827426 original size:41 final size:42
Alignment explanation
Indices: 17827378--17827458 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 42
17827368 AAGAACTATA
* *
17827378 TATTATATTATACTATAGCAAGGAATGC-TAGAATGATTATT
1 TATTATATTATACAATAGCAAGAAATGCATAGAATGATTATT
* *
17827419 TATTATATTATACAATGGCATGAAATGCATAGAATGATTA
1 TATTATATTATACAATAGCAAGAAATGCATAGAATGATTA
17827459 ATCATTATGC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 24 0.69
42 11 0.31
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (42 bp):
TATTATATTATACAATAGCAAGAAATGCATAGAATGATTATT
Found at i:17828004 original size:19 final size:20
Alignment explanation
Indices: 17827964--17828008 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
17827954 TTTTGAGTTT
*
17827964 AAAAGTACTTTTAAACTAAA
1 AAAAGGACTTTTAAACTAAA
17827984 AAAAGGACTTTTAAACTAAA
1 AAAAGGACTTTTAAACTAAA
17828004 AAAAG
1 AAAAG
17828009 TATTTGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.24
Consensus pattern (20 bp):
AAAAGGACTTTTAAACTAAA
Found at i:17829288 original size:12 final size:12
Alignment explanation
Indices: 17829242--17829291 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
17829232 ACTTAATCAC
17829242 TTTAATATTAAA
1 TTTAATATTAAA
17829254 -TTAATATGATAAA
1 TTTAATAT--TAAA
*
17829267 TATT-AGATTAAA
1 T-TTAATATTAAA
17829279 TTTAATATTAAA
1 TTTAATATTAAA
17829291 T
1 T
17829292 CTTATTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
11 9 0.29
12 13 0.42
13 4 0.13
14 3 0.10
15 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:17829334 original size:60 final size:60
Alignment explanation
Indices: 17829261--17829410 Score: 228
Period size: 60 Copynumber: 2.5 Consensus size: 60
17829251 AAATTAATAT
* ***
17829261 GATAAATATTAGATTAAATTTAATATTAAATCTTATTAAAACAATAGAATGTTTATCTTG
1 GATAAACATTAGATTAAATTTAATATTAAATCTTATTAAAACAATAGAATGTTTATCCAA
* *
17829321 GATAAACATTAGATTAAATTTAATATTAAATCTTATTAAAATAATATAATGTTTATCCAA
1 GATAAACATTAGATTAAATTTAATATTAAATCTTATTAAAACAATAGAATGTTTATCCAA
* *
17829381 GATAAACATTAAATTAAATTAAATATTAAA
1 GATAAACATTAGATTAAATTTAATATTAAA
17829411 ATAATCACTT
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 82 1.00
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.39
Consensus pattern (60 bp):
GATAAACATTAGATTAAATTTAATATTAAATCTTATTAAAACAATAGAATGTTTATCCAA
Found at i:17831822 original size:46 final size:46
Alignment explanation
Indices: 17831721--17831850 Score: 203
Period size: 43 Copynumber: 2.9 Consensus size: 46
17831711 TAAATATTGC
**
17831721 TAGGATATTATTATGAGATATTATCTTTTAGCAATTTGATTTCTAA
1 TAGGATATTATTATGAGATATTATCTTTTAGCAATTTGATTAATAA
* *
17831767 TAAGATATTA-TA-GA-ATATTATCTCTTAGCAATTTGATTAATAA
1 TAGGATATTATTATGAGATATTATCTTTTAGCAATTTGATTAATAA
17831810 TAGGATATTATTATGAGATATTATCTTTTAGCAATTTGATT
1 TAGGATATTATTATGAGATATTATCTTTTAGCAATTTGATT
17831851 TCTACGTAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
43 35 0.47
44 4 0.05
45 4 0.05
46 32 0.43
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.46
Consensus pattern (46 bp):
TAGGATATTATTATGAGATATTATCTTTTAGCAATTTGATTAATAA
Found at i:17831876 original size:2 final size:2
Alignment explanation
Indices: 17831869--17831912 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
17831859 ACTATTACTG
17831869 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17831911 TA
1 TA
17831913 ACCTTGAGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:17840242 original size:26 final size:26
Alignment explanation
Indices: 17840213--17840346 Score: 241
Period size: 26 Copynumber: 5.2 Consensus size: 26
17840203 TGATACAAAT
17840213 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
17840239 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17840265 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17840291 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
17840317 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
17840343 TGAT
1 TGAT
17840347 GGGAATTTCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:17848130 original size:27 final size:27
Alignment explanation
Indices: 17848067--17848130 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
17848057 TAATTTATCG
* *
17848067 TAAAATATATAATATATAATAAATTTA
1 TAAACTATATAATATATAATAAATATA
*
17848094 TAAACAATAT-ATATAT-ATATAATGATA
1 TAAACTATATAATATATAATA-AAT-ATA
17848121 TAAACTATAT
1 TAAACTATAT
17848131 GATAGATCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 3 0.10
26 9 0.29
27 19 0.61
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (27 bp):
TAAACTATATAATATATAATAAATATA
Found at i:17848236 original size:23 final size:22
Alignment explanation
Indices: 17848184--17848237 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
17848174 TTTACATATA
*
17848184 AAAATGTAGTAAAATAATTAAT
1 AAAATATAGTAAAATAATTAAT
*
17848206 ATATATATAGTAAAA-ATATATAAT
1 A-AAATATAGTAAAATA-AT-TAAT
17848230 AAAATATA
1 AAAATATA
17848238 AATGGAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 19 0.73
24 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (22 bp):
AAAATATAGTAAAATAATTAAT
Found at i:17848270 original size:42 final size:42
Alignment explanation
Indices: 17848218--17848312 Score: 104
Period size: 42 Copynumber: 2.2 Consensus size: 42
17848208 ATATATAGTA
*
17848218 AAAATATATAATAAA-ATATA-AATGGAATAAATAACATATAAT
1 AAAATATATAA-AAATATATATAATAGAATAAATAACATA-AAT
* ** *
17848260 AAAATTTATAAAAATATATATAATATTATTAATAACATAAAT
1 AAAATATATAAAAATATATATAATAGAATAAATAACATAAAT
17848302 AAAATAATATA
1 AAAAT-ATATA
17848313 TTATTATATA
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 3 0.07
42 23 0.52
43 18 0.41
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (42 bp):
AAAATATATAAAAATATATATAATAGAATAAATAACATAAAT
Found at i:17848810 original size:13 final size:13
Alignment explanation
Indices: 17848792--17848816 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17848782 AAAAAAAAAC
17848792 TTTAAACATTCAT
1 TTTAAACATTCAT
17848805 TTTAAACATTCA
1 TTTAAACATTCA
17848817 ACAAAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTAAACATTCAT
Found at i:17849360 original size:74 final size:74
Alignment explanation
Indices: 17849239--17849386 Score: 260
Period size: 74 Copynumber: 2.0 Consensus size: 74
17849229 TAGTTTCGAT
* *
17849239 TCTGTGCTGTTTTCCTTCCTTTTGCAGGTCTATACGTGATGATTGCGATGGAGACGAGGGCATGC
1 TCTGTGCTGTTTTCCTTCCTTTTGCAGGTCTATACGTGACGATTGCGATGGAGACGAGCGCATGC
17849304 TGACTTAGG
66 TGACTTAGG
*
17849313 TCTGTGCTGTTTTCCTTCCTTTTGCAGGTCTATACGTGACGATTGCGATGGAGTCGAGCGCATGC
1 TCTGTGCTGTTTTCCTTCCTTTTGCAGGTCTATACGTGACGATTGCGATGGAGACGAGCGCATGC
*
17849378 TGATTTAGG
66 TGACTTAGG
17849387 CCTTTGATTG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.16, C:0.20, G:0.29, T:0.36
Consensus pattern (74 bp):
TCTGTGCTGTTTTCCTTCCTTTTGCAGGTCTATACGTGACGATTGCGATGGAGACGAGCGCATGC
TGACTTAGG
Found at i:17849722 original size:18 final size:18
Alignment explanation
Indices: 17849687--17849725 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17849677 TTAAATGGAC
*
17849687 TGTTTAATTTTATTTTTT
1 TGTTTAATTTTATATTTT
17849705 TGTTTAATTTT-TAATTTT
1 TGTTTAATTTTAT-ATTTT
17849723 TGT
1 TGT
17849726 AAGCCCGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (18 bp):
TGTTTAATTTTATATTTT
Found at i:17853730 original size:26 final size:26
Alignment explanation
Indices: 17853692--17853827 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
17853682 TGATACAAAT
*
17853692 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
**
17853718 TGATAATCTGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
17853744 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATGGGTTAGGTAAATGTTTCA
**
17853770 TGATAATGTATTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
17853796 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
17853822 TGATAA
1 TGATAA
17853828 GAATTTCATG
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 100 1.00
ACGTcount: A:0.33, C:0.04, G:0.23, T:0.40
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:17856806 original size:69 final size:70
Alignment explanation
Indices: 17856730--17856872 Score: 216
Period size: 69 Copynumber: 2.0 Consensus size: 70
17856720 ACGATTTTAC
* * * *
17856730 TTGTTACCATTTATTAATTTATATTTTTAAGTAGGCCTTTATTTTTGTAAGTCTCAATAA-TAAC
1 TTGTTACCATCTATTAACTAATATTTTTAAATAGGCCTTTATTTTTGTAAGTCTCAATAACTAAC
17856794 AATGA
66 AATGA
* *
17856799 TTGTTACCATCTATTAACTAATATTTTTAAATAGGTCTTTATTTTTGTAAGTCTCGATAACCTAA
1 TTGTTACCATCTATTAACTAATATTTTTAAATAGGCCTTTATTTTTGTAAGTCTCAATAA-CTAA
17856864 CAATGA
65 CAATGA
17856870 TTG
1 TTG
17856873 ATAAAAAGAA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
69 54 0.82
71 12 0.18
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.46
Consensus pattern (70 bp):
TTGTTACCATCTATTAACTAATATTTTTAAATAGGCCTTTATTTTTGTAAGTCTCAATAACTAAC
AATGA
Found at i:17860043 original size:26 final size:26
Alignment explanation
Indices: 17860012--17860145 Score: 214
Period size: 26 Copynumber: 5.2 Consensus size: 26
17860002 CGAAATGCCC
*
17860012 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
17860038 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
17860064 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
17860090 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
17860116 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
17860142 ATCA
1 ATCA
17860146 ATTTGTACCA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:17861561 original size:19 final size:20
Alignment explanation
Indices: 17861528--17861574 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
17861518 CCGAAAAATA
17861528 ATTTCTGGAAAATGATTTAC
1 ATTTCTGGAAAATGATTTAC
* *
17861548 TTTTCTGG-AAATGATTTGC
1 ATTTCTGGAAAATGATTTAC
17861567 ATTTCTGG
1 ATTTCTGG
17861575 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.45
Consensus pattern (20 bp):
ATTTCTGGAAAATGATTTAC
Found at i:17861917 original size:6 final size:7
Alignment explanation
Indices: 17861902--17861930 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
17861892 GCCTTAAACT
17861902 AAAATAA
1 AAAATAA
17861909 AAAATAA
1 AAAATAA
17861916 AAAAT-A
1 AAAATAA
17861922 AAAATAA
1 AAAATAA
17861929 AA
1 AA
17861931 CAAAGTCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:17861924 original size:13 final size:14
Alignment explanation
Indices: 17861902--17861930 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17861892 GCCTTAAACT
17861902 AAAATAAAAAATAA
1 AAAATAAAAAATAA
17861916 AAAAT-AAAAATAA
1 AAAATAAAAAATAA
17861929 AA
1 AA
17861931 CAAAGTCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAATAAAAAATAA
Found at i:17862077 original size:19 final size:19
Alignment explanation
Indices: 17862053--17862150 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
17862043 AATCTTTAAG
17862053 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
17862072 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
17862091 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
17862108 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
17862127 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
17862148 GAT
1 GAT
17862151 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:17862083 original size:36 final size:35
Alignment explanation
Indices: 17862043--17862150 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
17862033 ATGGAAATAT
17862043 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
17862079 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
17862115 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
17862151 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:17865256 original size:16 final size:16
Alignment explanation
Indices: 17865237--17865274 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
17865227 AGTTATTAAA
17865237 AGAGAAAGAA-AAAGAG
1 AGAGAAA-AAGAAAGAG
*
17865253 AGAGAAAAAGAGAGAG
1 AGAGAAAAAGAAAGAG
17865269 AGAGAA
1 AGAGAA
17865275 GAGGGTCACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (16 bp):
AGAGAAAAAGAAAGAG
Found at i:17865266 original size:12 final size:12
Alignment explanation
Indices: 17865234--17865269 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
17865224 TAAAGTTATT
*
17865234 AAAAGAGAAAGA
1 AAAAGAGAGAGA
17865246 AAAAGAGAGAGA
1 AAAAGAGAGAGA
17865258 AAAAGAGAGAGA
1 AAAAGAGAGAGA
17865270 GAGAAGAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (12 bp):
AAAAGAGAGAGA
Found at i:17865266 original size:14 final size:14
Alignment explanation
Indices: 17865234--17865274 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
17865224 TAAAGTTATT
17865234 AAAAGAGA-A-AGA
1 AAAAGAGAGAGAGA
17865246 AAAAGAGAGAGA-A
1 AAAAGAGAGAGAGA
17865259 AAAGAGAGAGAGAGA
1 AAA-AGAGAGAGAGA
17865274 A
1 A
17865275 GAGGGTCACG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 8 0.32
13 5 0.20
14 10 0.40
15 2 0.08
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (14 bp):
AAAAGAGAGAGAGA
Found at i:17870332 original size:27 final size:28
Alignment explanation
Indices: 17870276--17870345 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
17870266 AAATTTGTAC
17870276 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
17870304 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
17870331 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
17870346 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:17870356 original size:27 final size:27
Alignment explanation
Indices: 17870276--17870357 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
17870266 AAATTTGTAC
* *
17870276 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
17870304 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
17870331 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
17870358 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:17878158 original size:27 final size:28
Alignment explanation
Indices: 17878102--17878171 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
17878092 AAATTTGTAC
17878102 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
17878130 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
17878157 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
17878172 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:17878182 original size:27 final size:27
Alignment explanation
Indices: 17878102--17878183 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
17878092 AAATTTGTAC
* *
17878102 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
17878130 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
17878157 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
17878184 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:17879740 original size:84 final size:84
Alignment explanation
Indices: 17879599--17880227 Score: 903
Period size: 84 Copynumber: 7.5 Consensus size: 84
17879589 GGGTGTTACA
17879599 AGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
1 AGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
17879664 TCTTATCTCCCTAAGCAGT
66 TCTTATCTCCCTAAGCAGT
* * *
17879683 AGTGGAGTAGATCGAAGACTTGCCTTAATCCTCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
1 AGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
17879748 TCTTATCTCCCTAAGCAGT
66 TCTTATCTCCCTAAGCAGT
* * * * *
17879767 GGTGGAGCAGATCGAAAATTCGCCTTAATCCCCTAAGCAGTAGAGTAACAGGTTAAATTTGCAAA
1 AGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
*
17879832 TTTTATCTCCCTAAGCAGT
66 TCTTATCTCCCTAAGCAGT
* *
17879851 AGTGGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGA
1 AGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
*
17879916 TCTTATCTCCTTAAGCAGT
66 TCTTATCTCCCTAAGCAGT
* * *
17879935 AGTGGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAGGGTAACA-G-T---TTCGCGGA
1 AGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
17879995 TCTTATCTCCCTAAGCAGT
66 TCTTATCTCCCTAAGCAGT
* * *
17880014 AGCGGAGCAGATCGACGATGACTCGCCTTAATCCCCTTAGCAGTAGGGTAACAGATTAAATTTGC
1 AGTGGAGCAGATCGA--A-GACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGC
17880079 AGATCTTATCTCCCTAAGCAGT
63 AGATCTTATCTCCCTAAGCAGT
* * * * *
17880101 AGTGGAGTAGATCGAACACCCGCCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAATTTGCAAA
1 AGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
*
17880166 TCTTA--TCCCTAAGCAAT
66 TCTTATCTCCCTAAGCAGT
** * *
17880183 AGCAGAGCAGATCGAAGACAATGCACCTTAACCCCCTAAGCAGTA
1 AGTGGAGCAGATCGAAGAC--T-CGCCTTAATCCCCTAAGCAGTA
17880228 AAGTCCAAGA
Statistics
Matches: 486, Mismatches: 48, Indels: 21
0.88 0.09 0.04
Matches are distributed among these distances:
79 38 0.08
81 1 0.00
82 59 0.12
83 1 0.00
84 329 0.68
85 20 0.04
87 38 0.08
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (84 bp):
AGTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGA
TCTTATCTCCCTAAGCAGT
Found at i:17879805 original size:41 final size:42
Alignment explanation
Indices: 17879600--17879978 Score: 137
Period size: 41 Copynumber: 9.0 Consensus size: 42
17879590 GGTGTTACAA
* *
17879600 GTGGAGCAGATCGAAGACTCGCCTTAATCCCCTAAGCAGTAG
1 GTGGAGCAGATCGAAAATTCGCCTTAATCCCCTAAGCAGTAG
* * * * * *
17879642 G-GTAACAGGT-TAAATTTGCAGATCTT-ATCTCCCTAAGCAGTA-
1 GTGGAGCAGATCGAAAATT-C-G-CCTTAATC-CCCTAAGCAGTAG
* * *
17879684 GTGGAGTAGATCGAAGACTT-GCCTTAATCCTCTAAGCAGTAG
1 GTGGAGCAGATCGAA-AATTCGCCTTAATCCCCTAAGCAGTAG
* * * * * *
17879726 G-GTAACAGGT-TAAATTTGCAGATCTT-ATCTCCCTAAGCAGT-G
1 GTGGAGCAGATCGAAAATT-C-G-CCTTAATC-CCCTAAGCAGTAG
17879768 GTGGAGCAGATCGAAAATTCGCCTTAATCCCCTAAGCAGTAG
1 GTGGAGCAGATCGAAAATTCGCCTTAATCCCCTAAGCAGTAG
* * * * * *
17879810 AGT--AACAGGT--TAAATTTGCAAATTTTATCTCCCTAAGCAGTA-
1 -GTGGAGCAGATCGAAAATTCGC---CTTAATC-CCCTAAGCAGTAG
* * * *
17879852 GTGGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCGGTAG
1 GTGGAGCAGATCGAAAATTCGCCTTAATCCCCTAAGCAGTAG
* * * * * * *
17879894 G-GTAACAGGT-TAAATTTGCAGATCTT-ATCTCCTTAAGCAGTA-
1 GTGGAGCAGATCGAAAATT-C-G-CCTTAATC-CCCTAAGCAGTAG
* * *
17879936 GTGGAGCAGATCGAAGACTCACCTTAATCCCCTAAGCAGTAG
1 GTGGAGCAGATCGAAAATTCGCCTTAATCCCCTAAGCAGTAG
17879978 G
1 G
17879979 GTAACAGTTT
Statistics
Matches: 234, Mismatches: 67, Indels: 72
0.63 0.18 0.19
Matches are distributed among these distances:
39 10 0.04
40 8 0.03
41 79 0.34
42 41 0.18
43 79 0.34
44 10 0.04
45 7 0.03
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (42 bp):
GTGGAGCAGATCGAAAATTCGCCTTAATCCCCTAAGCAGTAG
Found at i:17879848 original size:43 final size:42
Alignment explanation
Indices: 17879629--17879936 Score: 163
Period size: 43 Copynumber: 7.3 Consensus size: 42
17879619 CGCCTTAATC
*
17879629 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCA-ATTTTATCT
** * * * * *
17879672 CCCTAAGCAGTAGTGG-AGTAGATCGAAGACTTGC--CTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAATTTTATCT
* *
17879713 CTCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCA-ATTTTATCT
* * * * * * *
17879756 CCCTAAGCAGT-GGTGGAGCAGATCGAAAATTCGC--CTTAATC-
1 CCCTAAGCAGTAGG-GTAACAGGT--TAAATTTGCAATTTTATCT
*
17879797 CCCTAAGCAGTAGAGTAACAGGTTAAATTTGCAAATTTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGC-AATTTTATCT
* * * * ** *
17879840 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA-CT-CACCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGT-TAA-ATTTGCAATTTTATCT
* *
17879881 CCCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCA-ATTTTATCT
*
17879924 CCTTAAGCAGTAG
1 CCCTAAGCAGTAG
17879937 TGGAGCAGAT
Statistics
Matches: 188, Mismatches: 53, Indels: 48
0.65 0.18 0.17
Matches are distributed among these distances:
39 13 0.07
40 9 0.05
41 52 0.28
42 30 0.16
43 63 0.34
44 8 0.04
45 13 0.07
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAATTTTATCT
Found at i:17880945 original size:14 final size:15
Alignment explanation
Indices: 17880926--17880963 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
17880916 AATCTTTAAG
17880926 GATATG-CAATCTTA
1 GATATGACAATCTTA
17880940 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
17880957 GATATGA
1 GATATGA
17880964 TATGCAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:17880967 original size:36 final size:38
Alignment explanation
Indices: 17880926--17881004 Score: 117
Period size: 36 Copynumber: 2.1 Consensus size: 38
17880916 AATCTTTAAG
*
17880926 GATATGCAATCTTAGATATGATA-CAATCTT-AGATAT
1 GATATGCAATCCTAGATATGATAGCAATCTTAAGATAT
17880962 GATATGCAATCCTAGATATGATATGCAATCTTGAAGATAT
1 GATATGCAATCCTAGATATGATA-GCAATCTT-AAGATAT
17881002 GAT
1 GAT
17881005 CTTGTAATCT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
36 22 0.58
38 7 0.18
40 9 0.24
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (38 bp):
GATATGCAATCCTAGATATGATAGCAATCTTAAGATAT
Found at i:17880977 original size:19 final size:19
Alignment explanation
Indices: 17880926--17881004 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
17880916 AATCTTTAAG
17880926 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
17880945 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
17880962 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
17880981 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
17881002 GAT
1 GAT
17881005 CTTGTAATCT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 17 0.31
19 28 0.52
21 9 0.17
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:17883565 original size:32 final size:32
Alignment explanation
Indices: 17883529--17883605 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
17883519 CAATCATTTT
*
17883529 AATATCCAACAAGATT-AAAACATAATAAATTC
1 AATATCTAACAA-ATTCAAAACATAATAAATTC
* *
17883561 AATATCTAACAAATTCAAGACATAATAATTTC
1 AATATCTAACAAATTCAAAACATAATAAATTC
*
17883593 AAAATCTAACAAA
1 AATATCTAACAAA
17883606 CTAATTTCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 3 0.08
32 37 0.93
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.26
Consensus pattern (32 bp):
AATATCTAACAAATTCAAAACATAATAAATTC
Found at i:17883576 original size:16 final size:16
Alignment explanation
Indices: 17883555--17883605 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
17883545 AAAACATAAT
*
17883555 AAATTCAATATCTAAC
1 AAATTCAAAATCTAAC
* *
17883571 AAATTCAAGA-CATAAT
1 AAATTCAAAATC-TAAC
*
17883587 AATTTCAAAATCTAAC
1 AAATTCAAAATCTAAC
17883603 AAA
1 AAA
17883606 CTAATTTCAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
15 1 0.04
16 25 0.93
17 1 0.04
ACGTcount: A:0.55, C:0.16, G:0.02, T:0.27
Consensus pattern (16 bp):
AAATTCAAAATCTAAC
Found at i:17887687 original size:18 final size:18
Alignment explanation
Indices: 17887651--17887837 Score: 202
Period size: 18 Copynumber: 10.9 Consensus size: 18
17887641 AATCATATCT
*
17887651 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
17887670 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
17887688 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
17887705 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
17887723 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
17887740 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
17887758 TCTAATATTGCAATC--A
1 TCTAAGATTGCAATCATA
17887774 --T---A---CAATCATA
1 TCTAAGATTGCAATCATA
*
17887784 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
*
17887801 TCTAAGATTGCGTATCATA
1 TCTAAGATTGC-AATCATA
17887820 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
17887838 TGAAGATTAT
Statistics
Matches: 145, Mismatches: 8, Indels: 30
0.79 0.04 0.16
Matches are distributed among these distances:
8 5 0.03
10 1 0.01
11 1 0.01
12 1 0.01
14 1 0.01
15 1 0.01
16 1 0.01
17 48 0.33
18 52 0.36
19 34 0.23
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:17887704 original size:17 final size:18
Alignment explanation
Indices: 17887651--17887837 Score: 209
Period size: 17 Copynumber: 9.9 Consensus size: 18
17887641 AATCATATCT
*
17887651 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
17887670 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
17887688 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
17887705 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
17887723 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
17887740 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
*
17887758 TCTAATATTGCAATCATACAATCATA
1 TCTAAGATTG----C-T---ATCATA
17887784 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
17887801 TCTAAGATTGCGTATCATA
1 TCTAAGATTGC-TATCATA
17887820 TCTAAGATTGCATATCAT
1 TCTAAGATTGC-TATCAT
17887838 TGAAGATTAT
Statistics
Matches: 146, Mismatches: 10, Indels: 24
0.81 0.06 0.13
Matches are distributed among these distances:
17 48 0.33
18 47 0.32
19 34 0.23
20 1 0.01
22 1 0.01
26 15 0.10
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:17887709 original size:35 final size:35
Alignment explanation
Indices: 17887651--17887829 Score: 241
Period size: 35 Copynumber: 5.3 Consensus size: 35
17887641 AATCATATCT
17887651 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
17887688 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
17887723 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
17887758 TCTAATATTG---CA-ATC----A-TACAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
17887784 TCTAAGATTGTATCATATCTAAGATTGCGTATCATA
1 TCTAAGATTGTATCATATCTAAGATTGC-AATCATA
17887820 TCTAAGATTG
1 TCTAAGATTG
17887830 CATATCATTG
Statistics
Matches: 127, Mismatches: 5, Indels: 21
0.83 0.03 0.14
Matches are distributed among these distances:
26 18 0.14
27 1 0.01
29 2 0.02
30 3 0.02
31 3 0.02
32 2 0.02
34 1 0.01
35 71 0.56
36 16 0.13
37 10 0.08
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:17887810 original size:61 final size:63
Alignment explanation
Indices: 17887651--17887837 Score: 236
Period size: 61 Copynumber: 2.9 Consensus size: 63
17887641 AATCATATCT
*
17887651 TCTAAGATTGTATATCATATCTAAGATTGC-AATCATATCTAAGATTGTATCATATCTAAGATTG
1 TCTAAGATTG--TATCATATCTAAGATTGCGAATCATATCTAAGATTG---CATATC----A-TA
17887715 CAATCATA
56 CAATCATA
*
17887723 TCTAAGATTGTATCATATCTAAGATTGC-AATCATATCTAATATTGCA-ATCATACAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCGAATCATATCTAAGATTGCATATCATACAATCATA
*
17887784 TCTAAGATTGTATCATATCTAAGATTGCGTATCATATCTAAGATTGCATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCGAATCATATCTAAGATTGCATATCAT
17887838 TGAAGATTAT
Statistics
Matches: 109, Mismatches: 4, Indels: 13
0.87 0.03 0.10
Matches are distributed among these distances:
61 37 0.34
62 18 0.17
63 5 0.05
66 3 0.03
67 2 0.02
70 34 0.31
72 10 0.09
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (63 bp):
TCTAAGATTGTATCATATCTAAGATTGCGAATCATATCTAAGATTGCATATCATACAATCATA
Found at i:17888718 original size:83 final size:83
Alignment explanation
Indices: 17888604--17889072 Score: 751
Period size: 83 Copynumber: 5.7 Consensus size: 83
17888594 ACGTGAAAGC
* * * *
17888604 CAAATCAGCTATGT-CTCGATTTGTTCCTTGTAAGTACAAGGATGCCAAATCATCTTGAGTTTGT
1 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGT
17888668 TTGAGAACATCTGAGAGT
66 TTGAGAACATCTGAGAGT
** * * *
17888686 CAAATCTGCTATGTCCTCGATTTGTTTTTTGTAAACACAAGAATGCCAAATCATCTTGAGTCTGT
1 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGT
17888751 TTGAGAACATCTGAGAGT
66 TTGAGAACATCTGAGAGT
*
17888769 CAAATCTGCTATGTGCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGT
1 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGT
17888834 TTGAGAACATCTGAGAGT
66 TTGAGAACATCTGAGAGT
* * * * * *
17888852 CTAATCTGCTATGTCCTCGATTTTTTCATTGTAAGTACAAGAATGCCAAACCATCTTGAGTTTGT
1 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGT
17888917 TTGAGAACATCTGAGAGT
66 TTGAGAACATCTGAGAGT
* *
17888935 CTAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGACGCCAAACCATCTTGAGTCTGT
1 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGT
17889000 TTGAGAACATCTGAGAGT
66 TTGAGAACATCTGAGAGT
* *
17889018 CTAATCTGCTATGTCCTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATC
1 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATC
17889073 CTGGATCTAC
Statistics
Matches: 358, Mismatches: 28, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
82 13 0.04
83 345 0.96
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (83 bp):
CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGT
TTGAGAACATCTGAGAGT
Found at i:17889449 original size:206 final size:202
Alignment explanation
Indices: 17888920--17889457 Score: 501
Period size: 206 Copynumber: 2.6 Consensus size: 202
17888910 AGTTTGTTTG
* * *
17888920 AGAACATCTGAGAGTCTAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGACGCCAAA
1 AGAACATCTGAGAGTC-AATATGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGGATGCCAAA
* * * * *
17888985 CCATCTTGAGTCTG-TT-TGAGAACATCTG-AGAGTCTAATCTGCTATGTCCTCAATTTGTTCCT
65 TCATCTTGA-TCTGCTTCAGAAAACATCTGAAG-GT-TAATCTGCTATGTCTTCGATTTGTTCCT
*
17889047 TGTAAGCACAAGGATGCCAAACCATCCTGGATCTACTTCAGTATAAACATCTAAAGGTTAGATCT
127 TGTAAGCACAAGGATACCAAACCATCCTGGATCTACTTCAGTATAAACATCTAAAGGTTAGATCT
17889112 GCTATGTGTCT
192 GCTATGTGTCT
* * * * ** * *
17889123 --ACCCTCCG-TAG--AATATGAAGATGTCAAACTTTGATTTGTT-CTCTG-ACAATAC-AGAGA
1 AGAACATCTGAGAGTCAATATG-CTATGTC---C-TCGATTTGTTCCT-TGTA-AACACAAG-GA
* * *** *
17889180 TGCCAAATCATCTTAGA-CTTGCTTCAACGCAAACATGTGAAAGCCAAATCAGCTATGTCTTCGA
58 TGCCAAATCATCTT-GATC-TGCTTC-A-GAAAACATCTG-AAGGTTAATCTGCTATGTCTTCGA
* * * *
17889244 TTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTCTAATCATCTAAAG
118 TTTGTTCCTTGTAAGCACAAGGATACCAAACCATCCTGGATCTACTTCAGTATAAACATCTAAAG
17889309 GTTAGATCTGCTATGTGTCT
183 GTTAGATCTGCTATGTGTCT
*
17889329 AAGAACATCTGAGAGTCAAATTTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGGATGCCAA
1 -AGAACATCTGAGAGTC-AATATGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGGATGCCAA
* *
17889394 ATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTG-T-TATCTTCGATCTGTTC
64 ATCATCTT-GATCTGCTTCAG-A-AAACATCTGAAGGTTA-ATCTGCTATGTCTTCGATTTGTTC
17889457 C
125 C
17889458 CTATAAACAG
Statistics
Matches: 260, Mismatches: 45, Indels: 57
0.72 0.12 0.16
Matches are distributed among these distances:
197 5 0.02
198 5 0.02
200 2 0.01
201 12 0.05
202 30 0.12
203 4 0.02
206 119 0.46
207 6 0.02
208 53 0.20
209 12 0.05
210 2 0.01
212 5 0.02
213 5 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (202 bp):
AGAACATCTGAGAGTCAATATGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGGATGCCAAAT
CATCTTGATCTGCTTCAGAAAACATCTGAAGGTTAATCTGCTATGTCTTCGATTTGTTCCTTGTA
AGCACAAGGATACCAAACCATCCTGGATCTACTTCAGTATAAACATCTAAAGGTTAGATCTGCTA
TGTGTCT
Found at i:17889628 original size:44 final size:45
Alignment explanation
Indices: 17889435--17889614 Score: 181
Period size: 44 Copynumber: 4.1 Consensus size: 45
17889425 TGAAGGTTAG
* *
17889435 ATCTGTTATCTTCGATCT-GTTCCCTATAAACAGAGGGATGCCAA
1 ATCTGCTATCTTCGATCTAGTTCCCTATAAACACAGGGATGCCAA
* * *
17889479 ATCTGCTATCTTC-AACTCGTTCCCTATGAACACAGGGATGCC--
1 ATCTGCTATCTTCGATCTAGTTCCCTATAAACACAGGGATGCCAA
** * * * * * ** *
17889521 ATGCTGAAATCTTCAATCTACTTCGCTATAAGCACAGGAATGTTAG
1 AT-CTGCTATCTTCGATCTAGTTCCCTATAAACACAGGGATGCCAA
17889567 ATCTGCTATCTTCGATCT-GTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTAGTTCCCTATAAACACAGGGATGCCAA
17889611 ATCT
1 ATCT
17889615 TGTTTCTTTG
Statistics
Matches: 106, Mismatches: 25, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
42 2 0.02
43 12 0.11
44 77 0.73
45 13 0.12
46 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTAGTTCCCTATAAACACAGGGATGCCAA
Found at i:17890543 original size:7 final size:7
Alignment explanation
Indices: 17890527--17890574 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
17890517 GGCCTCTCCA
17890527 TTTTTC-
1 TTTTTCT
17890533 TTTTTCT
1 TTTTTCT
17890540 TTTTTCTT
1 TTTTTC-T
*
17890548 TTTTTTT
1 TTTTTCT
*
17890555 CTTTTTCC
1 -TTTTTCT
17890563 TTTTTCT
1 TTTTTCT
17890570 TTTTT
1 TTTTT
17890575 TCCTTTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
6 6 0.17
7 18 0.51
8 11 0.31
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:17890554 original size:23 final size:23
Alignment explanation
Indices: 17890527--17890575 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
17890517 GGCCTCTCCA
*
17890527 TTTTTCTTTTTCTTTTTTCTTTT
1 TTTTTCTTTTTCCTTTTTCTTTT
17890550 TTTTTCTTTTTCCTTTTTCTTTT
1 TTTTTCTTTTTCCTTTTTCTTTT
17890573 TTT
1 TTT
17890576 CCTTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (23 bp):
TTTTTCTTTTTCCTTTTTCTTTT
Found at i:17890582 original size:7 final size:6
Alignment explanation
Indices: 17890527--17890573 Score: 62
Period size: 6 Copynumber: 7.8 Consensus size: 6
17890517 GGCCTCTCCA
17890527 TTTTTC TTTTTC TTTTT- TCTTTT- TTTTTC TTTTTCC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC TTTTT-C TTTTTC TTTTT
17890574 TTCCTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.13
6 27 0.71
7 6 0.16
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:17890583 original size:23 final size:23
Alignment explanation
Indices: 17890527--17890582 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
17890517 GGCCTCTCCA
*
17890527 TTTT-TCTTTTTCTTTTTTCTTT
1 TTTTCTCTTTTTCCTTTTTCTTT
*
17890549 TTTTTTCTTTTTCCTTTTTCTTT
1 TTTTCTCTTTTTCCTTTTTCTTT
17890572 TTTTC-CTTTTT
1 TTTTCTCTTTTT
17890583 TTTTGAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 10 0.32
23 21 0.68
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTCTCTTTTTCCTTTTTCTTT
Found at i:17896983 original size:18 final size:18
Alignment explanation
Indices: 17896947--17897125 Score: 256
Period size: 18 Copynumber: 9.9 Consensus size: 18
17896937 AATCATATCT
*
17896947 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
17896966 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
17896984 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
17897001 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
17897019 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
17897036 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
17897054 TCTAATATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
17897072 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
*
17897089 TCTAAGATTGCGTATCATA
1 TCTAAGATTGC-AATCATA
17897108 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
17897126 TGAAGATTAT
Statistics
Matches: 146, Mismatches: 9, Indels: 10
0.88 0.05 0.06
Matches are distributed among these distances:
17 48 0.33
18 64 0.44
19 34 0.23
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:17897005 original size:35 final size:35
Alignment explanation
Indices: 17896947--17897125 Score: 270
Period size: 35 Copynumber: 5.0 Consensus size: 35
17896937 AATCATATCT
17896947 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
17896984 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
17897019 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* * *
17897054 TCTAATATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
17897089 TCTAAGATTGCGTATCATATCTAAGATTGCATATCAT
1 TCTAAGATT--GTATCATATCTAAGATTGCA-ATCAT
17897126 TGAAGATTAT
Statistics
Matches: 131, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
35 83 0.63
36 32 0.24
37 11 0.08
38 5 0.04
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:17897133 original size:53 final size:54
Alignment explanation
Indices: 17896947--17897125 Score: 274
Period size: 53 Copynumber: 3.3 Consensus size: 54
17896937 AATCATATCT
* *
17896947 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATT--GTATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTG-TATCATATCTAAGATTGCGTATCATA
*
17897001 TCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGC-AATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCGTATCATA
*
17897054 TCTAATATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCGTATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCGTATCATA
17897108 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
17897126 TGAAGATTAT
Statistics
Matches: 115, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
52 15 0.13
53 67 0.58
54 28 0.24
55 5 0.04
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (54 bp):
TCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTGCGTATCATA
Found at i:17898006 original size:83 final size:83
Alignment explanation
Indices: 17897891--17898361 Score: 739
Period size: 83 Copynumber: 5.7 Consensus size: 83
17897881 ACGTGAAAGC
* * *
17897891 CAAATCAGCTATGT-CTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGAGTTTGT
1 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGT
17897955 TTGAGAACATCTGAGAGT
66 TTGAGAACATCTGAGAGT
** * * *
17897973 CAAATCTGCTATGTCCTCGATTTGTTTTTTGTAAACACAAGAATGCCAAATCATCTTGAGTCTGT
1 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGT
17898038 TTGAGAACATCTGAGAGT
66 TTGAGAACATCTGAGAGT
** *
17898056 CAAATCTGCTATGTGGTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCGTCTTGAGTCTGT
1 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGT
17898121 TTGAGAACATCTGAGAGT
66 TTGAGAACATCTGAGAGT
* * * * * *
17898139 CTAATCTGCTATGTCCTCGATTTGGTCATTGTAAGCACAAGAATGCCAAACCAACTTGAGTCAGT
1 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGT
17898204 TTGAGAACATCTGAGAGT
66 TTGAGAACATCTGAGAGT
* *
17898222 CTAATCTGCTATGTCCTC-ATTTGTTCCTTGTAAGCACAAGGACGCCAAACCATCTTGAGTCTGT
1 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGT
17898286 TTGAGAACATCTGAGAGT
66 TTGAGAACATCTGAGAGT
* *
17898304 CTAATCTGCTATGTCCTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
1 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
17898362 GATCTACTTC
Statistics
Matches: 357, Mismatches: 30, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
82 89 0.25
83 268 0.75
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (83 bp):
CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGT
TTGAGAACATCTGAGAGT
Found at i:17898736 original size:206 final size:203
Alignment explanation
Indices: 17898207--17898725 Score: 494
Period size: 206 Copynumber: 2.5 Consensus size: 203
17898197 AGTCAGTTTG
* * *
17898207 AGAACATCTGAGAGTCTAATCTGCTATGTCCTC-ATTTGTTCCTTGTAAGCACAAGGACGCCAAA
1 AGAACATCTGAGAGTC-AATATGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGGATGCCAAA
* * * * *
17898271 CCATCTTGAGTCTG-TT-TGA-GAACATCTG-AGAGTCTAATCTGCTATGTCCTCAATTTGTTCC
65 TCATCTTGA-TCTGCTTCAGATAAACATCTGAAG-GT-TAATCTGCTATGTCTTCGATTTGTTCC
*
17898332 TTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATC
127 TTGTAAGCACAAGGATACCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATC
17898397 TGCTATGTGTCT
192 TGCTATGTGTCT
* * * * * * *
17898409 -G-CCCTCCG-TAG--AATATG-TAGATGTCAAACTTCGTTTTGTT-C-TCT-AACAATACAGAG
1 AGAACATCTGAGAGTCAATATGCT--ATGTC---C-TCGATTTGTTCCTTGTAAAC-ACA-AG-G
* *** *
17898465 ATGCCAAATCATCTTAGA-CTTGCTTCA-ACGTAAACATGTGAAAGCCAAATCAGCTATGTCTTC
57 ATGCCAAATCATCTT-GATC-TGCTTCAGA--TAAACATCTG-AAGGTTAATCTGCTATGTCTTC
* * *
17898528 GATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTCTAATCATCTGA
117 GATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTACTTCAGTATAAACATCTGA
17898593 AGGTTAGATCTGCTATGTGTCT
182 AGGTTAGATCTGCTATGTGTCT
*
17898615 AAGAACATCTGAGAGTCAAATTTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGGATGCCAA
1 -AGAACATCTGAGAGTC-AATATGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGGATGCCAA
17898680 ATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTG
64 ATCATCTT-GATCTGCTTCAG-ATAAACATCTGAAGGTTA-ATCTG
17898726 TTATCTTCGA
Statistics
Matches: 245, Mismatches: 38, Indels: 62
0.71 0.11 0.18
Matches are distributed among these distances:
195 1 0.00
196 5 0.02
197 5 0.02
199 4 0.02
200 9 0.04
201 7 0.03
202 22 0.09
203 5 0.02
206 103 0.42
207 4 0.02
208 50 0.20
209 9 0.04
210 7 0.03
211 3 0.01
212 5 0.02
213 5 0.02
214 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (203 bp):
AGAACATCTGAGAGTCAATATGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGGATGCCAAAT
CATCTTGATCTGCTTCAGATAAACATCTGAAGGTTAATCTGCTATGTCTTCGATTTGTTCCTTGT
AAGCACAAGGATACCAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCT
ATGTGTCT
Found at i:17898769 original size:44 final size:44
Alignment explanation
Indices: 17898721--17898900 Score: 168
Period size: 44 Copynumber: 4.1 Consensus size: 44
17898711 TGAAGGTTAG
*
17898721 ATCTGTTATCTTCGATCTATTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTATTCCCTATAAACACAGGGATGCCAA
* * *
17898765 ATCTGCTATCTTC-AACTCGTTCCCTATGAACACAGGGATGCC--
1 ATCTGCTATCTTCGATCT-ATTCCCTATAAACACAGGGATGCCAA
** * * * * * ** *
17898807 ATGCTGAAATCTTCAATCTACTTCGCTGTAAGCACAGGAATGTTAG
1 AT-CTGCTATCTTCGATCTA-TTCCCTATAAACACAGGGATGCCAA
* *
17898853 ATCTGCTATCTTCGATCTGTTCCCTATAAACAAAGGGATGCCAA
1 ATCTGCTATCTTCGATCTATTCCCTATAAACACAGGGATGCCAA
17898897 ATCT
1 ATCT
17898901 TGTTTCTTTG
Statistics
Matches: 103, Mismatches: 27, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
42 2 0.02
43 12 0.12
44 74 0.72
45 13 0.13
46 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTATTCCCTATAAACACAGGGATGCCAA
Found at i:17899841 original size:24 final size:24
Alignment explanation
Indices: 17899813--17899862 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
17899803 GGCCTCTCCA
*
17899813 TTTTTCTTTTTCTTTTTTCTTTTT
1 TTTTTCTTTTTCCTTTTTCTTTTT
17899837 TTTTTCTTTTTCCTTTTTCTTTTT
1 TTTTTCTTTTTCCTTTTTCTTTTT
17899861 TT
1 TT
17899863 CCTTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (24 bp):
TTTTTCTTTTTCCTTTTTCTTTTT
Found at i:17899869 original size:7 final size:6
Alignment explanation
Indices: 17899813--17899860 Score: 71
Period size: 6 Copynumber: 7.8 Consensus size: 6
17899803 GGCCTCTCCA
17899813 TTTTTC TTTTTC TTTTTTC TTTTT- TTTTTC TTTTTCC TTTTTC TTTTT
1 TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC TTTTT-C TTTTTC TTTTT
17899861 TTCCTTTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.13
6 22 0.56
7 12 0.31
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:17899870 original size:24 final size:24
Alignment explanation
Indices: 17899816--17899872 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
17899806 CTCTCCATTT
* *
17899816 TTCTTTTTCTTTTTTCTTTTTTTT
1 TTCTTTTTCCTTTTTCTTTTTTTC
17899840 TTCTTTTTCCTTTTTCTTTTTTTCC
1 TTCTTTTTCCTTTTTCTTTTTTT-C
*
17899865 TTTTTTTT
1 TTCTTTTT
17899873 TGAAATAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 22 0.76
25 7 0.24
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (24 bp):
TTCTTTTTCCTTTTTCTTTTTTTC
Found at i:17905418 original size:22 final size:21
Alignment explanation
Indices: 17905393--17905440 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
17905383 TACAAATTAA
17905393 ATCTCCAAGATTATAAAATCAT
1 ATCTCCAAGATTAT-AAATCAT
* * *
17905415 ATCTTCTAAGATTGTATATCAT
1 ATC-TCCAAGATTATAAATCAT
17905437 ATCT
1 ATCT
17905441 AAGATTGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.05
22 12 0.55
23 9 0.41
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.40
Consensus pattern (21 bp):
ATCTCCAAGATTATAAATCAT
Found at i:17905455 original size:18 final size:18
Alignment explanation
Indices: 17905419--17905597 Score: 256
Period size: 18 Copynumber: 9.9 Consensus size: 18
17905409 AATCATATCT
*
17905419 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
17905438 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
17905456 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
*
17905473 TCTATGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
17905491 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
17905508 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
17905526 TTTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
17905544 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
17905561 TCTAAGATTGCATATCATA
1 TCTAAGATTGCA-ATCATA
17905580 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
17905598 TGAAGATTAT
Statistics
Matches: 145, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
17 47 0.32
18 63 0.43
19 35 0.24
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:17905482 original size:35 final size:36
Alignment explanation
Indices: 17905419--17905597 Score: 267
Period size: 35 Copynumber: 5.0 Consensus size: 36
17905409 AATCATATCT
17905419 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
*
17905456 TCTAAGATTG-TATCATATCTATGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
17905491 TCTAAGATTG-TATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATA
* *
17905526 TTTAAGATTGCA-ATCATATCTAAGATTG-TATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATA
17905561 TCTAAGATTGCATATCATATCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
17905598 TGAAGATTAT
Statistics
Matches: 131, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
35 84 0.64
36 32 0.24
37 10 0.08
38 5 0.04
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (36 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATA
Found at i:17905605 original size:53 final size:54
Alignment explanation
Indices: 17905412--17905597 Score: 274
Period size: 53 Copynumber: 3.5 Consensus size: 54
17905402 ATTATAAAAT
* *
17905412 CATATC-T-TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
*
17905466 --TATCATATCTATGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTG
*
17905518 CA-ATCATATTTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTG
17905571 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTGCA-ATCAT
17905598 TGAAGATTAT
Statistics
Matches: 120, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
52 20 0.17
53 68 0.57
54 27 0.22
55 5 0.04
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (54 bp):
CATATCATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTG
Found at i:17906822 original size:27 final size:28
Alignment explanation
Indices: 17906792--17906845 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
17906782 GAGAGGCAGA
17906792 GGCTGATG-GACAGAGAG-GAAGGAGAAT
1 GGCTGATGTGA-AGAGAGTGAAGGAGAAT
*
17906819 GGCTGTTGTGAAGAGAGTGAAGGAGAA
1 GGCTGATGTGAAGAGAGTGAAGGAGAA
17906846 CAATAATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.35, C:0.06, G:0.44, T:0.15
Consensus pattern (28 bp):
GGCTGATGTGAAGAGAGTGAAGGAGAAT
Found at i:17917341 original size:28 final size:28
Alignment explanation
Indices: 17917301--17917366 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
17917291 GATGTGCTAA
*
17917301 TATACCCCTATGTATGCAAAATTACCAT
1 TATACCCCTATGTATGCAAAATGACCAT
*
17917329 TATACCCCTATGTATGCAAAATGACCTT
1 TATACCCCTATGTATGCAAAATGACCAT
17917357 TATACCCCTA
1 TATACCCCTA
17917367 GGGTTAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.32
Consensus pattern (28 bp):
TATACCCCTATGTATGCAAAATGACCAT
Found at i:17917524 original size:26 final size:27
Alignment explanation
Indices: 17917471--17917559 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
17917461 AGGAAGCGTC
17917471 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
*
17917499 CTGGTGGC-CTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
17917525 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
17917554 CTGGTG
1 CTGGTG
17917560 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
26 16 0.29
27 15 0.27
28 17 0.31
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:17917570 original size:29 final size:27
Alignment explanation
Indices: 17917471--17917559 Score: 117
Period size: 26 Copynumber: 3.2 Consensus size: 27
17917461 AGGAAGCGTC
* *
17917471 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGC-CTGCCACAAAATATCTGTT
*
17917499 CTGGTGGCCTGCCAC-ATATATCTGTT
1 CTGGTGGCCTGCCACAAAATATCTGTT
17917525 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGC-CTGCCACAAAATATCTGT-T
17917554 CTGGTG
1 CTGGTG
17917560 ACTCTGTCAC
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 17 0.31
27 13 0.24
28 17 0.31
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (27 bp):
CTGGTGGCCTGCCACAAAATATCTGTT
Found at i:17918044 original size:19 final size:19
Alignment explanation
Indices: 17918020--17918058 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
17918010 TTAATTGTTT
* *
17918020 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
17918039 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
17918058 T
1 T
17918059 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:17918665 original size:11 final size:10
Alignment explanation
Indices: 17918637--17918670 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
17918627 AGCCTGTAAG
17918637 TATTCTGAAT
1 TATTCTGAAT
*
17918647 TTTTCTGAAT
1 TATTCTGAAT
17918657 ATATTCTGAAT
1 -TATTCTGAAT
17918668 TAT
1 TAT
17918671 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:17925109 original size:28 final size:28
Alignment explanation
Indices: 17925069--17925133 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
17925059 GATGTACTAA
*
17925069 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
17925097 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
17925125 ATACCCCTA
1 ATACCCCTA
17925134 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:17925297 original size:27 final size:27
Alignment explanation
Indices: 17925239--17925328 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
17925229 AGGAAGCGTC
17925239 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
17925267 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
17925294 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
17925323 CTGGTG
1 CTGGTG
17925329 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:17925347 original size:55 final size:56
Alignment explanation
Indices: 17925239--17925353 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
17925229 AGGAAGCGTC
* *
17925239 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
17925294 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
17925350 CTGG
1 CTGG
17925354 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:17925815 original size:19 final size:19
Alignment explanation
Indices: 17925791--17925829 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
17925781 TTTTAATTAT
* *
17925791 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
17925810 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
17925829 T
1 T
17925830 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:17928660 original size:29 final size:29
Alignment explanation
Indices: 17928627--17928757 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
17928617 GTGACGAGAT
17928627 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
17928656 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
17928685 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
17928714 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
17928743 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
17928758 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:17941303 original size:39 final size:39
Alignment explanation
Indices: 17941222--17941432 Score: 334
Period size: 39 Copynumber: 5.4 Consensus size: 39
17941212 TATGGTAACC
* *
17941222 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
17941262 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
17941301 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
17941339 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
17941378 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
17941417 CGCACAATTGCCTTCG
1 CGCACAATTGCCTTCG
17941433 CATCTTTGTT
Statistics
Matches: 163, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
38 38 0.23
39 108 0.66
40 17 0.10
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:17941349 original size:77 final size:78
Alignment explanation
Indices: 17941222--17941432 Score: 334
Period size: 77 Copynumber: 2.7 Consensus size: 78
17941212 TATGGTAACC
* *
17941222 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
* *
17941287 CGGATATCATAGCT
65 CGGATATCACAACT
* *
17941301 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
*
17941365 GGATATCACAATT
66 GGATATCACAACT
*
17941378 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTGCCTTCG
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCG
17941433 CATCTTTGTT
Statistics
Matches: 121, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
77 69 0.57
78 38 0.31
79 14 0.12
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (78 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGATATCACAACT
Found at i:17941387 original size:116 final size:117
Alignment explanation
Indices: 17941222--17941432 Score: 361
Period size: 116 Copynumber: 1.8 Consensus size: 117
17941212 TATGGTAACC
17941222 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
* *
17941287 CGGATATCATAGCTCGCACAATTGCCTTCGGCTTAGCCCGGATATCATAGCT
66 CGGATATCACAACTCGCACAATTGCCTTCGGCTTAGCCCGGATATCATAGCT
* * *
17941339 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
*
17941403 CGGATATCACAATTCGCACAATTGCCTTCG
66 CGGATATCACAACTCGCACAATTGCCTTCG
17941433 CATCTTTGTT
Statistics
Matches: 88, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
116 71 0.81
117 17 0.19
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (117 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
CGGATATCACAACTCGCACAATTGCCTTCGGCTTAGCCCGGATATCATAGCT
Found at i:17944813 original size:42 final size:42
Alignment explanation
Indices: 17944766--17944850 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
17944756 TGTCATGGTG
17944766 TTAAATTACAAATTTAACAAAATTCAGGGATTAATAGTGAAT
1 TTAAATTACAAATTTAACAAAATTCAGGGATTAATAGTGAAT
* *
17944808 TTAAATTACAAATTTAACAAAATTCAGGTATTGATAGTGAAT
1 TTAAATTACAAATTTAACAAAATTCAGGGATTAATAGTGAAT
17944850 T
1 T
17944851 ATATGTATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (42 bp):
TTAAATTACAAATTTAACAAAATTCAGGGATTAATAGTGAAT
Found at i:17945618 original size:75 final size:75
Alignment explanation
Indices: 17945514--17945654 Score: 185
Period size: 75 Copynumber: 1.9 Consensus size: 75
17945504 CTATTATCGA
* * * *
17945514 TTATCCAACTAGCGATGGGCACAATCTTTTTTTA-TTTATCCGACTAGTGCTGGGCACACCATTA
1 TTATCCAACTAGCGATGGGCACAA-CCTTTTTCAGTTTATCCAACTAGTGCTAGGCACACCATTA
17945578 TACTTGTCAAT
65 TACTTGTCAAT
* ** **
17945589 TTATCCAACTAGCGTTGGGTGCAACCTTTTTCAGTTTATTTAACTAGTGCTAGGCACACCATTAT
1 TTATCCAACTAGCGATGGGCACAACCTTTTTCAGTTTATCCAACTAGTGCTAGGCACACCATTAT
17945654 A
66 A
17945655 TTTTTCGGTT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
74 7 0.12
75 49 0.88
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (75 bp):
TTATCCAACTAGCGATGGGCACAACCTTTTTCAGTTTATCCAACTAGTGCTAGGCACACCATTAT
ACTTGTCAAT
Found at i:17946899 original size:105 final size:105
Alignment explanation
Indices: 17946772--17946994 Score: 329
Period size: 105 Copynumber: 2.1 Consensus size: 105
17946762 ATGGCTTGCG
* *
17946772 ACACGGCCGTGTGACCCAACATTGAATGCAGACACGGGCAGACACACGGGCTGGGACACGACCGT
1 ACACGGCCGTGTGACCCAACATTGAATGCACACACGGGCAGACACACGGGCTGAGACACGACCGT
* *
17946837 GTGTCCAAATTTTAAATGTCTACACGGTCTGGGTTGTGAC
66 GTGTCCAAATTTTAAATATCTACACGGTCTGGGCTGTGAC
* * ** *
17946877 ACACGGCCGTGTGACCCGACATTGAATGCACACATGGGTGGACACACGGTCTGAGACACGACCGT
1 ACACGGCCGTGTGACCCAACATTGAATGCACACACGGGCAGACACACGGGCTGAGACACGACCGT
***
17946942 GTGTTTGAATTTTAAATATCTACACGGTCTGGGCTGTGAC
66 GTGTCCAAATTTTAAATATCTACACGGTCTGGGCTGTGAC
*
17946982 ACAGGGCCGTGTG
1 ACACGGCCGTGTG
17946995 TCCTCTATTT
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.22
Consensus pattern (105 bp):
ACACGGCCGTGTGACCCAACATTGAATGCACACACGGGCAGACACACGGGCTGAGACACGACCGT
GTGTCCAAATTTTAAATATCTACACGGTCTGGGCTGTGAC
Found at i:17950470 original size:2 final size:2
Alignment explanation
Indices: 17950463--17950498 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
17950453 GCTCTTGCAC
17950463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17950499 GTTTGCACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17951301 original size:40 final size:40
Alignment explanation
Indices: 17951202--17951392 Score: 244
Period size: 40 Copynumber: 4.8 Consensus size: 40
17951192 TGGATGATAA
* * * **
17951202 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGT-CTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-TACTAAAT
17951242 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
17951281 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
17951321 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* * *
17951361 CCGGGCTATGTCGCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
17951393 AGCTATATCC
Statistics
Matches: 135, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 31 0.23
40 101 0.75
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:17977886 original size:46 final size:46
Alignment explanation
Indices: 17977732--17977947 Score: 190
Period size: 46 Copynumber: 4.6 Consensus size: 46
17977722 ATCTAAGTGT
* * *
17977732 GAGCTAGTGTAAGACATGTCTAGGACATGCATTGGCCAT--ATTATGA
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATTGGCC-TCGA-GACGA
** * *
17977778 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCT-GTATTGAGACAA
1 GAGCCAGTGTAAGA-CATGTCTAGGACAT-GCAT-TGGCCTCGAGACGA
*
17977826 GAGCTAGTGTAAGACATGTCTAGGACATGCATTGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATTGGCCTCGAGACG-A
* * * *
17977873 -AGCCAGTGTAAGACATTTCTGGGACATGCATCGG-CTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTAGGACATGCATTGGCCT-CGAGACGA
* * *
17977918 TAGTCAGTGTAAGACCATGTCTGGGACATG
1 GAGCCAGTGTAAGA-CATGTCTAGGACATG
17977948 GCATCGACTT
Statistics
Matches: 142, Mismatches: 18, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
45 4 0.03
46 72 0.51
47 44 0.31
48 20 0.14
49 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTAGGACATGCATTGGCCTCGAGACGA
Found at i:17977962 original size:47 final size:48
Alignment explanation
Indices: 17977779--17978000 Score: 194
Period size: 47 Copynumber: 4.7 Consensus size: 48
17977769 ATATTATGAG
* *
17977779 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCTGTA-TTGAGAC-A-A
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTCGAGACGATA
* * * *
17977826 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATTGGCCTCGAGACG-TA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCA-TCGACTCGAGACGATA
* * *
17977873 AGCCAGTGTAAGA-CATTTCTGGGACAT-GCATCGGCTACGAGATGAT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGACGATA
* * * *
17977919 AGTCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGA-TATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGACGATA
* *
17977966 AGCCAGTGTAAGACCATGTTTGGGACATGACATCG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
17978001 GCACCTTATC
Statistics
Matches: 147, Mismatches: 18, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
45 4 0.03
46 57 0.39
47 66 0.45
48 20 0.14
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGACGATA
Found at i:17977984 original size:140 final size:140
Alignment explanation
Indices: 17977737--17977994 Score: 342
Period size: 140 Copynumber: 1.8 Consensus size: 140
17977727 AGTGTGAGCT
* * *
17977737 AGTGTAAGACATGTCTAGGACATGCATTGGCCATATTATGAGAGCCAGTGTAAGACCATGTCTAG
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCAGATGATGAGAGCCAGTGTAAGACCATGTCTAG
*
17977802 GACATGGCATCTGTATTGAGACAAGAGCTAGTGTAAGACATGTCTAGGACATGCATTGGCCTCGA
66 GACATGGCATCTGTATTGAGACAAGAGCCAGTGTAAGACATGTCTAGGACATGCATTGGCCTCGA
17977867 GACGTAAGCC
131 GACGTAAGCC
* * * * * *
17977877 AGTGTAAGACATTTCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCA-GATGATGAGAGCCAGTGTAAGACCATGTCTA
* * * *
17977941 GGACATGGCATC-G-ACTTGAGATATGAGCCAGTGTAAGACCATGTTTGGGACATG
65 GGACATGGCATCTGTA-TTGAGACAAGAGCCAGTGTAAGA-CATGTCTAGGACATG
17977995 ACATCGGCAC
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
138 1 0.01
139 21 0.21
140 78 0.77
141 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (140 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCAGATGATGAGAGCCAGTGTAAGACCATGTCTAG
GACATGGCATCTGTATTGAGACAAGAGCCAGTGTAAGACATGTCTAGGACATGCATTGGCCTCGA
GACGTAAGCC
Found at i:17984504 original size:51 final size:51
Alignment explanation
Indices: 17984427--17984567 Score: 232
Period size: 51 Copynumber: 2.8 Consensus size: 51
17984417 ACGGTGGTCC
17984427 TCACATAGTACCATC-CTTGTAG-CCAAAGCTATTTTATTCACAAAGTGGCCT
1 TCACATAGTACCA-CACTTGT-GTCCAAAGCTATTTTATTCACAAAGTGGCCT
*
17984478 TCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAGTGGCCT
1 TCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGGCCT
*
17984529 TTACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 TCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
17984568 CTAAGGTTCA
Statistics
Matches: 85, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
50 2 0.02
51 83 0.98
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
TCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAAGTGGCCT
Found at i:17984693 original size:28 final size:28
Alignment explanation
Indices: 17984591--17984691 Score: 129
Period size: 28 Copynumber: 3.8 Consensus size: 28
17984581 GGGAAATTTC
*
17984591 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCACATTGCCATGGACTTATT
*
17984619 TCACTTAGCACATTGCCAAGGACTTATT
1 TCACTTAGCACATTGCCATGGACTTATT
* * *
17984647 TCACTTAG---A-TGCCATGGTCGTACT
1 TCACTTAGCACATTGCCATGGACTTATT
17984671 TCACTTAGCACATTGCCATGG
1 TCACTTAGCACATTGCCATGG
17984692 TCTAACCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
24 19 0.30
25 1 0.02
27 1 0.02
28 42 0.67
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (28 bp):
TCACTTAGCACATTGCCATGGACTTATT
Found at i:17996003 original size:27 final size:26
Alignment explanation
Indices: 17995955--17996006 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
17995945 GCGAGGCTAC
*
17995955 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
17995981 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
17996007 TTGCAGCGAG
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:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:17996670 original size:39 final size:41
Alignment explanation
Indices: 17996590--17996673 Score: 111
Period size: 39 Copynumber: 2.1 Consensus size: 41
17996580 ACTAACCCAA
*
17996590 TCATCACAAAGTTAGTCATTTACGCACGAGGACTAACATAG
1 TCATCACAAAGTTAGTCATTTACGCACGAGGACTAAAATAG
* *
17996631 TCATCAC-AAGTTA-TCATTTGCGCACGAGGGGC-AAAATAG
1 TCATCACAAAGTTAGTCATTTACGCACGA-GGACTAAAATAG
17996670 TCAT
1 TCAT
17996674 TTTACCCTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
39 23 0.59
40 9 0.23
41 7 0.18
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (41 bp):
TCATCACAAAGTTAGTCATTTACGCACGAGGACTAAAATAG
Found at i:18000044 original size:63 final size:63
Alignment explanation
Indices: 17999944--18000069 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 63
17999934 TCGACAGTGG
* * *
17999944 GTACCTATTCTTAATCGTCAGTTTGTTCAACTGCTGATAATCGATGCACATCCGTATTGACCT
1 GTACCTATTCTTAATCATCAGTTTGTTCAACTACTGATAATCGATGCACATCCGCATTGACCT
* *
18000007 GTACCTGTTCTTAATCATCAGTTTGTTCAACTACTGATAATCGATGCACATCTGCATTGACCT
1 GTACCTATTCTTAATCATCAGTTTGTTCAACTACTGATAATCGATGCACATCCGCATTGACCT
18000070 ATCTTTCTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.37
Consensus pattern (63 bp):
GTACCTATTCTTAATCATCAGTTTGTTCAACTACTGATAATCGATGCACATCCGCATTGACCT
Found at i:18003308 original size:16 final size:16
Alignment explanation
Indices: 18003287--18003319 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18003277 CCCATGTCCC
18003287 ATGCAACA-AAAATAAT
1 ATGCAACAGAAAA-AAT
18003303 ATGCAACAGAAAAAAT
1 ATGCAACAGAAAAAAT
18003319 A
1 A
18003320 ACCCTAGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.64, C:0.12, G:0.09, T:0.15
Consensus pattern (16 bp):
ATGCAACAGAAAAAAT
Found at i:18006319 original size:75 final size:74
Alignment explanation
Indices: 18006166--18006304 Score: 206
Period size: 75 Copynumber: 1.9 Consensus size: 74
18006156 AACAAAAAAA
* * * * **
18006166 ATCAATTTAAAATATAAAAATAAATATTAAATTTTAATATAATCCACTAATAATTAGTCAAAAGA
1 ATCAAATTAAAATATAAAAATAAATATTAAAATTTAACATAATCCACTAATAATAACCCAAAAGA
18006231 AAAATATAT
66 AAAATATAT
*
18006240 ATCAAATTAAAATATAAAAAATAAATATTAAAATTTAACATAGTCCACTAATAATAACCCAAAAG
1 ATCAAATTAAAATAT-AAAAATAAATATTAAAATTTAACATAATCCACTAATAATAACCCAAAAG
18006305 CTAATCTTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
74 14 0.25
75 43 0.75
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (74 bp):
ATCAAATTAAAATATAAAAATAAATATTAAAATTTAACATAATCCACTAATAATAACCCAAAAGA
AAAATATAT
Found at i:18006532 original size:159 final size:160
Alignment explanation
Indices: 18006237--18006557 Score: 590
Period size: 159 Copynumber: 2.0 Consensus size: 160
18006227 AAGAAAAATA
*
18006237 TATATCAAATTAAAATATAAAAAATAAATATTAAAATTTAACATAGTCCACTAATAATAACCCAA
1 TATAGCAAATTAAAATATAAAAAATAAATATTAAAATTTAACATAGTCCACTAATAATAACCCAA
* *
18006302 AAGCTAATCTTTTATCAACAATCCTTTCATGAAAAGCAATGGGTAGAAAGTTTTCTACAAATTGC
66 AAGCTAATCTTTTATCAACAATCATTTCATGAAAAGCAATGGGTAGAAAATTTTCTACAAATTGC
18006367 CCACCATTCACCTTTCCTTGTTTGTTTTGT
131 CCACCATTCACCTTTCCTTGTTTGTTTTGT
*
18006397 TATAGCAAATTAAAATATAAAAAATAAATATTAAAATTTAACATAGTCCACTAATAATAA-TCAA
1 TATAGCAAATTAAAATATAAAAAATAAATATTAAAATTTAACATAGTCCACTAATAATAACCCAA
*
18006461 AAGTTAATCTTTTATCAACAATCATTTCATGAAAAGCAATGGGTAGAAAATTTTCTACAAATTGC
66 AAGCTAATCTTTTATCAACAATCATTTCATGAAAAGCAATGGGTAGAAAATTTTCTACAAATTGC
18006526 CCACCATTCACCTTTCCTTGTTTGTTTTGT
131 CCACCATTCACCTTTCCTTGTTTGTTTTGT
18006556 TA
1 TA
18006558 GGTGGGGAAA
Statistics
Matches: 156, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
159 97 0.62
160 59 0.38
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (160 bp):
TATAGCAAATTAAAATATAAAAAATAAATATTAAAATTTAACATAGTCCACTAATAATAACCCAA
AAGCTAATCTTTTATCAACAATCATTTCATGAAAAGCAATGGGTAGAAAATTTTCTACAAATTGC
CCACCATTCACCTTTCCTTGTTTGTTTTGT
Found at i:18007929 original size:18 final size:17
Alignment explanation
Indices: 18007902--18007951 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
18007892 ATAAAGGAGT
*
18007902 ATTATAATAATAATAATC
1 ATTATTATAATAATAA-C
18007920 ATTATTATAATAATAAC
1 ATTATTATAATAATAAC
*
18007937 ATTAATATTAATAAT
1 ATTATTA-TAATAAT
18007952 TATATCATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.24
18 22 0.76
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTATTATAATAATAAC
Found at i:18008061 original size:21 final size:20
Alignment explanation
Indices: 18008037--18008097 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 20
18008027 AATAAACATG
18008037 AAAATATAAAAAATAATAAAT
1 AAAATA-AAAAAATAATAAAT
*
18008058 AAAATAAAGAGAATAATAAA-
1 AAAATAAA-AAAATAATAAAT
*
18008078 ATAATAAAATAATATAATAA
1 AAAATAAAA-AA-ATAATAA
18008098 CGATAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.03
20 10 0.29
21 23 0.68
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (20 bp):
AAAATAAAAAAATAATAAAT
Found at i:18008082 original size:8 final size:8
Alignment explanation
Indices: 18008037--18008097 Score: 58
Period size: 8 Copynumber: 7.9 Consensus size: 8
18008027 AATAAACATG
18008037 AAAAT-AT
1 AAAATAAT
18008044 AAAA-AAT
1 AAAATAAT
*
18008051 AATA-AAT
1 AAAATAAT
18008058 AAAATAA-
1 AAAATAAT
18008065 AGAGAATAAT
1 A-A-AATAAT
18008075 AAAATAAT
1 AAAATAAT
18008083 AAAATAAT
1 AAAATAAT
*
18008091 ATAATAA
1 AAAATAA
18008098 CGATAATAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
7 16 0.35
8 23 0.50
9 6 0.13
10 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (8 bp):
AAAATAAT
Found at i:18009317 original size:2 final size:2
Alignment explanation
Indices: 18009310--18009339 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
18009300 CCGATTTTAC
18009310 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18009340 TCTACTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18011687 original size:29 final size:28
Alignment explanation
Indices: 18011617--18011691 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
18011607 ATACTCGATT
* *
18011617 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
18011645 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
18011674 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
18011692 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:18011708 original size:29 final size:29
Alignment explanation
Indices: 18011675--18011748 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
18011665 CCTTCGAGCT
18011675 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
18011704 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
18011733 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
18011749 ATCTCGTCAC
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:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:18019556 original size:29 final size:28
Alignment explanation
Indices: 18019486--18019560 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
18019476 ATACTCGATT
* *
18019486 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
18019514 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
18019543 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
18019561 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:18019577 original size:29 final size:29
Alignment explanation
Indices: 18019544--18019617 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
18019534 CCTTCGAGCT
18019544 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
18019573 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
18019602 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
18019618 ATCTCGTCAC
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:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:18028790 original size:3 final size:3
Alignment explanation
Indices: 18028782--18028810 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
18028772 TGGCCTCACC
18028782 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
18028811 TATTATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:18028815 original size:3 final size:3
Alignment explanation
Indices: 18028809--18028868 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
18028799 AATAATAATA
18028809 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18028857 ATT ATT ATT ATT
1 ATT ATT ATT ATT
18028869 TCTTTACCTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:18032159 original size:71 final size:71
Alignment explanation
Indices: 18032075--18032238 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
18032065 CGATTTGTCT
18032075 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
18032140 CTTTCA
66 CTTTCA
* *
18032146 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
18032211 CTTTCA
66 CTTTCA
18032217 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
18032239 GATACATCTC
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.19, C:0.29, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:18032276 original size:71 final size:70
Alignment explanation
Indices: 18032075--18032272 Score: 249
Period size: 71 Copynumber: 2.8 Consensus size: 70
18032065 CGATTTGTCT
* * * * *
18032075 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18032140 CTTTCA
65 CTTTCA
* * * *
18032146 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
18032211 CTTTCA
65 CTTTCA
* *
18032217 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
18032273 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 94 0.80
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Done.