Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 50 of 59
Found at i:18017055 original size:29 final size:29
Alignment explanation
Indices: 18017022--18017081 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
18017012 TGATTGAAAA
18017022 CTCTGACGGGTTCTAGTTGGATTAAGAAG
1 CTCTGACGGGTTCTAGTTGGATTAAGAAG
18017051 CTCTGACGGGTTCTAGTTGGATTAAGAAG
1 CTCTGACGGGTTCTAGTTGGATTAAGAAG
18017080 CT
1 CT
18017082 AAGCCTAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (29 bp):
CTCTGACGGGTTCTAGTTGGATTAAGAAG
Found at i:18028035 original size:21 final size:21
Alignment explanation
Indices: 18027993--18028043 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
18027983 ACAATGTAGG
18027993 TAATGTTTAAATTTATCCATTT
1 TAAT-TTTAAATTTATCCATTT
**
18028015 T-ATTTTAAATGTTATTTATTT
1 TAATTTTAAAT-TTATCCATTT
18028036 TAATTTTA
1 TAATTTTA
18028044 TTTTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 7 0.28
21 11 0.44
22 7 0.28
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (21 bp):
TAATTTTAAATTTATCCATTT
Found at i:18028614 original size:22 final size:21
Alignment explanation
Indices: 18028589--18028632 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
18028579 TTGAAAATAT
18028589 AAATTCAAATATTTTTT-CTTTA
1 AAATT-AAAT-TTTTTTACTTTA
*
18028611 AAATTAGATTTTTTTACTTTA
1 AAATTAAATTTTTTTACTTTA
18028632 A
1 A
18028633 TTGACCCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 6 0.30
21 9 0.45
22 5 0.25
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (21 bp):
AAATTAAATTTTTTTACTTTA
Found at i:18028863 original size:294 final size:295
Alignment explanation
Indices: 18028510--18029049 Score: 725
Period size: 294 Copynumber: 1.8 Consensus size: 295
18028500 ACTTTTACCC
*
18028510 ATAATTATTTTTTTCTTTATTATTTTTTAATTTAAAATTAAAATTTATATATCATTAAATACTTT
1 ATAATTATTTTTTTCTCTATTATTTTTTAATTTAAAATTAAAATTTATATATCATTAAATACTTT
* *
18028575 TAATTTGAAAATATAAATTCAAATATTT-TTTCTTTA-AAATTAG-ATTTTTTTACTTTAATTGA
66 TAATATGAAAATATAAATTCAAATATTTGTTT-TTTATAAA-CAGTATTTTTTTAC-TTAATTGA
* * * *
18028637 CCCGTTGTGTTAACTCTCATATATTTACGTTAAAAATTT-AATATTACTTATTCTACTTTTATA-
128 CCCGTTATGATAACTCTCACATATTTACGTTAAAAATTTAAAT-TTACCTATTCTACTTTTATAT
** *
18028700 AGTTTTTATTTCAATTTTTACAACTTTACATCAAAACTTTTCAATAGTAACTTTTAAAAATATTA
192 A-TTTTTACGTCAATTTTTACAACTTTACATCAAAACTTTTCAATAATAACTTTTAAAAATATTA
18028765 GGTTAAGGCTTTTCAACGGCAACTTTAAATTACATGAACT
256 GGTTAAGGCTTTTCAACGGCAACTTTAAATTACATGAACT
* *
18028805 ATAATTATTTTTTT-TCCTATTA-TTTTTATTTTAAAATTAAAATTTTTATATCATTAAATACTT
1 ATAATTATTTTTTTCT-CTATTATTTTTTAATTTAAAATTAAAATTTATATATCATTAAATACTT
* * * * * *
18028868 TTAGTATGAAAATATAAATTTAAGTGTTTGTTTTTTATTAACAGTATTTTTTTACTTAATTGACT
65 TTAATATGAAAATATAAATTCAAATATTTGTTTTTTATAAACAGTATTTTTTTACTTAATTGACC
* * ** * * *
18028933 TGTTATGATAACTCTTACATATTTACGTTAGGATTTTAAATTTGCCTGTTCTACTTTTATATATT
130 CGTTATGATAACTCTCACATATTTACGTTAAAAATTTAAATTTACCTATTCTACTTTTATATATT
* * *
18028998 TTTACGTCAATTTTTACAACTTTACGTCAAGACTTTTTAATAATAACTTTTA
195 TTTACGTCAATTTTTACAACTTTACATCAAAACTTTTCAATAATAACTTTTA
18029050 CCTATATTTC
Statistics
Matches: 211, Mismatches: 28, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
294 173 0.82
295 38 0.18
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (295 bp):
ATAATTATTTTTTTCTCTATTATTTTTTAATTTAAAATTAAAATTTATATATCATTAAATACTTT
TAATATGAAAATATAAATTCAAATATTTGTTTTTTATAAACAGTATTTTTTTACTTAATTGACCC
GTTATGATAACTCTCACATATTTACGTTAAAAATTTAAATTTACCTATTCTACTTTTATATATTT
TTACGTCAATTTTTACAACTTTACATCAAAACTTTTCAATAATAACTTTTAAAAATATTAGGTTA
AGGCTTTTCAACGGCAACTTTAAATTACATGAACT
Found at i:18029380 original size:245 final size:245
Alignment explanation
Indices: 18028801--18029400 Score: 604
Period size: 240 Copynumber: 2.5 Consensus size: 245
18028791 AAATTACATG
* *
18028801 AACTATAATTATTTTTTTTCC-TATTATTTTTATTTTAAAATTAAAATTTTTATATCA-TTAAAT
1 AACTATAATTA-ATTTTTTCCTTATTATTTTTATTTTAAAATTAAAA-TTTGATAT-AGTTAAAT
* * * * * * *
18028864 ACTTTTAG-TATGAAAATATAAATTTAAGTGTTTGTTTTTTATT--AA-CAGTATTTTTTTACTT
63 ACTTTTAGCTA-AAAAATATAAATTTAAATATTTG-TTTTTATTAAAATTAGAATTTTCTGACTT
* * * *
18028925 AATTGACTTGTTATGATAACTCTTACATATTTACGTTAGGATTTTAAATTTGCCTGTTCTACTTT
126 AATTGACTTATTACGATAACTCTCACACA-TTA---TAGGATTTTAAATTTGCCTGTTCTACTTT
* * *
18028990 TATATATTTTTACGTCAATTTTTACAACTTTACGTCAAGACTTTTTAATAATAACTTTT
187 TATATATTTTTACATCAACTTTTACAACTTTACATCAAGACTTTTTAATAATAACTTTT
* ** * * *
18029049 ACCTAT-ATTTCTTTTTTTCTTATTA-TTTT-TTTT-AAATTAAAATTTGTATATTGTTAAATAA
1 AACTATAATTAATTTTTTCCTTATTATTTTTATTTTAAAATTAAAATTTG-ATATAGTTAAATAC
*
18029110 TTTTAGCTAAAGAATATAAATTTAAATATTTGATTTTTATTAAAATTAGAATTTTCTGACTTAAT
65 TTTTAGCTAAAAAATATAAATTTAAATATTTG-TTTTTATTAAAATTAGAATTTTCTGACTTAAT
* ** **
18029175 TGACTTATTACGTTATTTCTCACACA-TA-A-GATTTTAAATTTGTTTGCTTC-ACTTTTATGA-
129 TGACTTATTACGATAACTCTCACACATTATAGGATTTTAAATTTGCCTG-TTCTACTTTTAT-AT
* * * **
18029235 GTTTTTACATCAACTTTTACAATTTTACATCAAG-GTTTTTCAATGGTAACTTTT
192 ATTTTTACATCAACTTTTACAACTTTACATCAAGACTTTTT-AATAATAACTTTT
* *
18029289 AATTATAATTAATTTTATCCTTATTATTTTTTATTTTAAAATTAAAATTTAGATATAGTTAAATA
1 AACTATAATTAATTTTTTCCTTATTA-TTTTTATTTTAAAATTAAAATTT-GATATAGTTAAATA
* *
18029354 CTTTTAGCTAAAAAATATAAATTTAAATAATT-TTTTAATTAAAATTA
64 CTTTTAGCTAAAAAATATAAATTTAAATATTTGTTTTTATTAAAATTA
18029401 ATTATTTTTA
Statistics
Matches: 292, Mismatches: 44, Indels: 37
0.78 0.12 0.10
Matches are distributed among these distances:
239 5 0.02
240 67 0.23
241 20 0.07
243 21 0.07
244 57 0.20
245 61 0.21
246 14 0.05
247 42 0.14
248 5 0.02
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (245 bp):
AACTATAATTAATTTTTTCCTTATTATTTTTATTTTAAAATTAAAATTTGATATAGTTAAATACT
TTTAGCTAAAAAATATAAATTTAAATATTTGTTTTTATTAAAATTAGAATTTTCTGACTTAATTG
ACTTATTACGATAACTCTCACACATTATAGGATTTTAAATTTGCCTGTTCTACTTTTATATATTT
TTACATCAACTTTTACAACTTTACATCAAGACTTTTTAATAATAACTTTT
Found at i:18033230 original size:2 final size:2
Alignment explanation
Indices: 18033225--18033258 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
18033215 CCACACATAG
*
18033225 AT AT AT AT AT AC 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
18033259 GTTTATTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18042727 original size:3 final size:3
Alignment explanation
Indices: 18042721--18042754 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
18042711 AATATTAATG
18042721 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18042755 GAGATGAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:18044311 original size:252 final size:250
Alignment explanation
Indices: 18043961--18044711 Score: 976
Period size: 249 Copynumber: 3.0 Consensus size: 250
18043951 TTAAAAAAAT
* * * * *
18043961 TTAACATAAAAAATTAT-AAAGATGAAACAAGTACTGTCAAAACATTGACATAAATATGTAAGAT
1 TTAACGTAAAAAATTATAAAAG-TGAAACAAGTATTGTCAAAATATTGACATAAATGTGTGAGAT
* * *
18044025 TTAATTTAAAAGTCAATTAAGTCAAATAAATATAATTTTTTAAAAAAATTAAACATATAAATTTA
65 TTAACTTAAAAGTCAATTAAGTTAAATAAATATAATTTTTT--AAAAATTAAACATTTAAATTTA
* * *
18044090 TATTCTCAAATTTAAAGTATTTAGTAGTTTACGAATTTT-ATCAATAAATAAATAATGGTAAGAA
128 TATTCTCAAATTTAAAGTATTTAATAGTTTAAGAATTTTAATCAATAAATGAATAATGGTAAGAA
* *
18044154 TAAAAATAATTATAGTAAAAATTAATAATTGAAAAACTTTGATGTAAACCT-ATAAGA
193 TAAAAATAATTATAGTAAAAATTAGTAATTGAAAAACTTTGATGTAAACCTGAAAAGA
* * * *
18044211 GTTAATGTAAAATATTATAAAAGTGAAACAAATATTGTCAAAATATTGACATAAATGTATGAGAT
1 -TTAACGTAAAAAATTATAAAAGTGAAACAAGTATTGTCAAAATATTGACATAAATGTGTGAGAT
* * * * *
18044276 TTAACATAACAAATTAATTAAGTTAAATAAATATAATTTTTT-AAAATTAAATATTTATATTTAT
65 TTAACTTAA-AAGTCAATTAAGTTAAATAAATATAATTTTTTAAAAATTAAACATTTAAATTTAT
* * *
18044340 ATTTTTAAATTTAAAGTATTTAATAGTTTATA-AATTTTAATCAATAAATGAATAATAGTAAGAA
129 ATTCTCAAATTTAAAGTATTTAATAGTTTA-AGAATTTTAATCAATAAATGAATAATGGTAAGAA
* * ** * *
18044404 T-AAAGTAATTATAGTGAAAATTAGTAATTGAAAAACTTTGACATAAACTTGAAAATA
193 TAAAAATAATTATAGTAAAAATTAGTAATTGAAAAACTTTGATGTAAACCTGAAAAGA
* * *
18044461 TTAACGCAAAAAATTATAAAAGT-AGAACAAGTATTATCAAAATATTGACGTAAATGTGTGAGAT
1 TTAACGTAAAAAATTATAAAAGTGA-AACAAGTATTGTCAAAATATTGACATAAATGTGTGAGAT
18044525 TTAACTTAATAAGTCAATTAAGTTAAATAAATATAAGTTTTTTGAAAAATTAAACATTTAAATTT
65 TTAACTTAA-AAGTCAATTAAGTTAAATAAATATAA-TTTTTT-AAAAATTAAACATTTAAATTT
* * * * *
18044590 ACATTCTCAAGTTTAAACTATTTAATGGTTTAAGAATTTTAATCAATAAATGAATAATGATAAAG
127 ATATTCTCAAATTTAAAGTATTTAATAGTTTAAGAATTTTAATCAATAAATGAATAATGGT-AAG
* * *
18044655 GATAAAAATAATTATAGTAAAAATTAGCAATTGAAAAACTTTGATGTAAACTTGAAA
191 AATAAAAATAATTATAGTAAAAATTAGTAATTGAAAAACTTTGATGTAAACCTGAAA
18044712 GAATTAAACA
Statistics
Matches: 430, Mismatches: 58, Indels: 21
0.84 0.11 0.04
Matches are distributed among these distances:
248 1 0.00
249 182 0.42
250 34 0.08
251 58 0.13
252 102 0.24
253 5 0.01
254 48 0.11
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.35
Consensus pattern (250 bp):
TTAACGTAAAAAATTATAAAAGTGAAACAAGTATTGTCAAAATATTGACATAAATGTGTGAGATT
TAACTTAAAAGTCAATTAAGTTAAATAAATATAATTTTTTAAAAATTAAACATTTAAATTTATAT
TCTCAAATTTAAAGTATTTAATAGTTTAAGAATTTTAATCAATAAATGAATAATGGTAAGAATAA
AAATAATTATAGTAAAAATTAGTAATTGAAAAACTTTGATGTAAACCTGAAAAGA
Found at i:18044332 original size:14 final size:14
Alignment explanation
Indices: 18044315--18044362 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
18044305 AATATAATTT
*
18044315 TTTAAAATTAAATA
1 TTTAAATTTAAATA
* * *
18044329 TTTATATTTATATT
1 TTTAAATTTAAATA
18044343 TTTAAATTTAAAGTA
1 TTTAAATTTAAA-TA
18044358 TTTAA
1 TTTAA
18044363 TAGTTTATAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 20 0.77
15 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (14 bp):
TTTAAATTTAAATA
Found at i:18044353 original size:28 final size:31
Alignment explanation
Indices: 18044313--18044371 Score: 88
Period size: 28 Copynumber: 2.0 Consensus size: 31
18044303 TAAATATAAT
18044313 TTTTTAAAATTAAA-TATTT-ATA-TTTATA
1 TTTTTAAAATTAAAGTATTTAATAGTTTATA
*
18044341 TTTTTAAATTTAAAGTATTTAATAGTTTATA
1 TTTTTAAAATTAAAGTATTTAATAGTTTATA
18044372 AATTTTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 13 0.48
29 5 0.19
30 3 0.11
31 6 0.22
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (31 bp):
TTTTTAAAATTAAAGTATTTAATAGTTTATA
Found at i:18044763 original size:238 final size:235
Alignment explanation
Indices: 18044219--18044774 Score: 593
Period size: 252 Copynumber: 2.3 Consensus size: 235
18044209 GAGTTAATGT
* * * * * *
18044219 AAAATATTATAAAAGTGAAACAAATATTGTCAAAATATTGACATAAATGTATGAGATTTAACATA
1 AAAATATTA-AAAAATTATACAAACATTATCAAAATATTGACGTAAATGTATGAGATTTAACATA
* * * * * *
18044284 ACAAATTAATTAAGTTAAATAAATATAATTTTTTAAAATTAAATATTTATATTTATATTTTTAAA
65 ACAAATCAATTAAGTTAAATAAATATAATTTTTTAAAATTAAACATTTAAATTTACATTCTCAAA
* *
18044349 TTTAAAGTATTTAATAGTTTATAAATTTTAATCAATAAATGAATAATAGTAAGAATAAAGTAATT
130 TTTAAACTATTTAATAGTTTATAAATTTTAATCAATAAATGAATAATAGTAAGAATAAAATAATT
* *
18044414 ATAGTGAAAATTAGTAATTGAAAAACTTTGACATAAACTTG
195 ATAGTAAAAATTAGCAATTGAAAAACTTTGACATAAACTTG
* *
18044455 AAAATATTAACGCAAAAAATTATAAAAGTAGAACAAGTATTATCAAAATATTGACGTAAATGTGT
1 AAAATATT-----AAAAAATTAT---A-CA-AAC----ATTATCAAAATATTGACGTAAATGTAT
* * *
18044520 GAGATTTAACTTAATAAGTCAATTAAGTTAAATAAATATAAGTTTTTTGAAAAATTAAACATTTA
52 GAGATTTAACATAACAAATCAATTAAGTTAAATAAATATAA-TTTTTT--AAAATTAAACATTTA
* *
18044585 AATTTACATTCTCAAGTTTAAACTATTTAATGGTTTA-AGAATTTTAATCAATAAATGAATAAT-
114 AATTTACATTCTCAAATTTAAACTATTTAATAGTTTATA-AATTTTAATCAATAAATGAATAATA
* **
18044648 GATAAAGGATAAAAATAATTATAGTAAAAATTAGCAATTGAAAAACTTTGATGTAAACTTG
178 G-T-AAGAAT-AAAATAATTATAGTAAAAATTAGCAATTGAAAAACTTTGACATAAACTTG
* * *
18044709 AAAGA-ATT-AAACATTAT-CAAACATTATCAAAATATTGACGTAAATACT-TGAGATTTAAAAT
1 AAA-ATATTAAAAAATTATACAAACATTATCAAAATATTGACGTAAAT-GTATGAGATTTAACAT
18044770 AACAA
64 AACAA
18044775 GTTATAATAA
Statistics
Matches: 265, Mismatches: 32, Indels: 44
0.78 0.09 0.13
Matches are distributed among these distances:
236 8 0.03
238 38 0.14
239 1 0.00
240 6 0.02
241 1 0.00
242 3 0.01
243 2 0.01
244 1 0.00
245 2 0.01
248 8 0.03
249 61 0.23
250 6 0.02
251 2 0.01
252 69 0.26
253 5 0.02
254 51 0.19
255 1 0.00
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (235 bp):
AAAATATTAAAAAATTATACAAACATTATCAAAATATTGACGTAAATGTATGAGATTTAACATAA
CAAATCAATTAAGTTAAATAAATATAATTTTTTAAAATTAAACATTTAAATTTACATTCTCAAAT
TTAAACTATTTAATAGTTTATAAATTTTAATCAATAAATGAATAATAGTAAGAATAAAATAATTA
TAGTAAAAATTAGCAATTGAAAAACTTTGACATAAACTTG
Found at i:18044933 original size:17 final size:17
Alignment explanation
Indices: 18044911--18044943 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
18044901 AATGGATAAA
*
18044911 TTTAAAAATTACTTATG
1 TTTAAAAATTAATTATG
18044928 TTTAAAAATTAATTAT
1 TTTAAAAATTAATTAT
18044944 ATTGTACTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (17 bp):
TTTAAAAATTAATTATG
Found at i:18045333 original size:17 final size:17
Alignment explanation
Indices: 18045288--18045335 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
18045278 CTCTATTAAT
* *
18045288 TTTTTATTAATTCTTTTC
1 TTTTTATTTATT-TTTTA
*
18045306 TTTTTA-ATATTTTTTA
1 TTTTTATTTATTTTTTA
18045322 TTTTTATTTATTTT
1 TTTTTATTTATTTT
18045336 GGGTTATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 10 0.40
17 9 0.36
18 6 0.24
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTATTTATTTTTTA
Found at i:18049788 original size:12 final size:12
Alignment explanation
Indices: 18049748--18049810 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
18049738 CATACGTAAG
* *
18049748 TATATGTGTCTA
1 TATATATGTATA
* *
18049760 TATACATATATA
1 TATATATGTATA
18049772 TATATATGTATA
1 TATATATGTATA
*
18049784 TATATGTATGTATG
1 TATA--TATGTATA
*
18049798 TATGTATGTATA
1 TATATATGTATA
18049810 T
1 T
18049811 TTAGAGAGAG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
12 30 0.75
14 10 0.25
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.49
Consensus pattern (12 bp):
TATATATGTATA
Found at i:18049895 original size:12 final size:12
Alignment explanation
Indices: 18049877--18049910 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
18049867 ACCTACATAC
*
18049877 ATATGTATTTAT
1 ATATGTATGTAT
*
18049889 GTATGTATGTAT
1 ATATGTATGTAT
18049901 ATATGTATGT
1 ATATGTATGT
18049911 GCGCGCGTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (12 bp):
ATATGTATGTAT
Found at i:18058795 original size:78 final size:77
Alignment explanation
Indices: 18058690--18058838 Score: 192
Period size: 78 Copynumber: 1.9 Consensus size: 77
18058680 CCCTCCATCC
* *
18058690 ATCTCCAAAAGCTGAAATTCAAGTTGCCAATTGTT-TACAAAATGCATCAATTAAAGTGCCTTCT
1 ATCTCCAAAAGCTGAAATTCAACTTGCCAATTCTTCTACAAAAT-CATCAATTAAAGTGCCTTCT
*
18058754 TCAATGCTAAATG
65 TAAATGCTAAATG
* * * ** *
18058767 ATCTCCATAAGGCTGAAATTCAACTTGCCATTTCTTCTTCAAGGTCATCAATTAAATTGCCTTCT
1 ATCTCCA-AAAGCTGAAATTCAACTTGCCAATTCTTCTACAAAATCATCAATTAAAGTGCCTTCT
18058832 TAAATGC
65 TAAATGC
18058839 CGATAGAAGA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
77 7 0.11
78 49 0.80
79 5 0.08
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (77 bp):
ATCTCCAAAAGCTGAAATTCAACTTGCCAATTCTTCTACAAAATCATCAATTAAAGTGCCTTCTT
AAATGCTAAATG
Found at i:18061858 original size:67 final size:65
Alignment explanation
Indices: 18061736--18061868 Score: 232
Period size: 67 Copynumber: 2.0 Consensus size: 65
18061726 TGACAAAGGG
18061736 AATGTATAATGAGATGGGAAGTTGTTTTTTCCTTTTTTCTTTTTTTTTTTTTTGCTTTTTCCCTA
1 AATGTATAATGAGATGGGAAGTTGTTTTTTCCTTTTTTCTTTTTTTTTTTTTTGCTTTTTCCCTA
18061801 NAATGTATAATGAGATGGGTAAGTTTGTTTTTTCCTTTTTTC-TTTTTTTTTTTTTGCTTTTTCC
1 -AATGTATAATGAGATGGG-AAG-TTGTTTTTTCCTTTTTTCTTTTTTTTTTTTTTGCTTTTTCC
18061865 CTA
63 CTA
18061868 A
1 A
18061869 TTTTTGTGTT
Statistics
Matches: 65, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
66 19 0.29
67 28 0.43
68 18 0.28
ACGTcount: A:0.16, C:0.11, G:0.14, T:0.59
Consensus pattern (65 bp):
AATGTATAATGAGATGGGAAGTTGTTTTTTCCTTTTTTCTTTTTTTTTTTTTTGCTTTTTCCCTA
Found at i:18082865 original size:30 final size:29
Alignment explanation
Indices: 18082829--18082898 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
18082819 TATCAGTTAT
*
18082829 AAAATTTATTTGATGTAAAATAAAA-ATATA
1 AAAATTTATTTGA-ATAAAATAAAAGA-ATA
*
18082859 AAAATTTGA-TTGAATATAATAAAAGAATA
1 AAAATTT-ATTTGAATAAAATAAAAGAATA
*
18082888 AGAATTTATTT
1 AAAATTTATTT
18082899 AAATTTGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
28 1 0.03
29 20 0.59
30 12 0.35
31 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (29 bp):
AAAATTTATTTGAATAAAATAAAAGAATA
Found at i:18085854 original size:2 final size:2
Alignment explanation
Indices: 18085849--18085888 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
18085839 TCTCTCTCTC
18085849 TA TA TA TA TA TA TA TA TA TA TA T- TA TA -A GTA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
18085889 GGTTCCCCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
1 3 0.09
2 30 0.88
3 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:18089091 original size:22 final size:22
Alignment explanation
Indices: 18089063--18089111 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
18089053 TTAGTAAAAG
18089063 TGCAAGAGATCATAATAAGATA
1 TGCAAGAGATCATAATAAGATA
18089085 TGCAAGAGATCATAATAAGATA
1 TGCAAGAGATCATAATAAGATA
18089107 TGCAA
1 TGCAA
18089112 ATCTTGGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.49, C:0.10, G:0.18, T:0.22
Consensus pattern (22 bp):
TGCAAGAGATCATAATAAGATA
Found at i:18089158 original size:22 final size:22
Alignment explanation
Indices: 18089130--18089174 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
18089120 TATAAAGTCC
18089130 TACTGCTATATAACTATTTTAG
1 TACTGCTATATAACTATTTTAG
*
18089152 TACTGCTATATAATTATTTTAG
1 TACTGCTATATAACTATTTTAG
18089174 T
1 T
18089175 TAACATTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (22 bp):
TACTGCTATATAACTATTTTAG
Found at i:18095889 original size:2 final size:2
Alignment explanation
Indices: 18095882--18095911 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18095872 TAATAACTGG
*
18095882 TA TA TA TA TA TG 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
18095912 CACACACACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18098903 original size:120 final size:119
Alignment explanation
Indices: 18098763--18099262 Score: 707
Period size: 120 Copynumber: 4.2 Consensus size: 119
18098753 TCATGTAAAA
*
18098763 TTTCTCCAACT-CTTGATGATGAATCATCGGAGTTTGTTCTTCCACTTACAAAACTTCCATCATT
1 TTTCTCCAACTCCTT--TGATGAATCATCGGAGTTTGTTCTTCCACTTGCAAAACTTCCATCATT
**
18098827 TGATGAACCGTTGGAGTTACTTTGGATTTGATTTGACGAATGATGATTGTGAGAGT
64 TGATGAACCGTTGGAGTTACTTTGGATTTGATTTGACGAATGATGATCATGAGAGT
* *
18098883 TTTCTCCAACTCCGTTTGATGAATCATTGGAGTTTGTTCTTCCATTTGCAAAACTTCCATCATTT
1 TTTCTCCAACTCC-TTTGATGAATCATCGGAGTTTGTTCTTCCACTTGCAAAACTTCCATCATTT
* *
18098948 GATGAACTGTTGGAGTTACTTTGGATTTGATTTGATGAATGATGATCATGAGAGT
65 GATGAACCGTTGGAGTTACTTTGGATTTGATTTGACGAATGATGATCATGAGAGT
* * * * *
18099003 TTTCTCCAACTCTGTTTGATGAATCATTGGAGCTTGTTCTTCCACTTGCAAACCTTCCCTCATTT
1 TTTCTCCAACTC-CTTTGATGAATCATCGGAGTTTGTTCTTCCACTTGCAAAACTTCCATCATTT
* * *
18099068 GATGAACCATTAGAGTTACTTTGGATTTGGTTTGACGAATGATGATCATGAGAGT
65 GATGAACCGTTGGAGTTACTTTGGATTTGATTTGACGAATGATGATCATGAGAGT
* * * * *
18099123 TTTCTCCAACTCCATCTGATGAATCATCAGAATTTGTTCCTCCACTTGCAAAACCTCCGA-CATT
1 TTTCTCCAACTCC-TTTGATGAATCATCGGAGTTTGTTCTTCCACTTGCAAAACTTCC-ATCATT
* * **
18099187 TGATGAACTGTTGGAGTTACTTTGGATTTGATTAGACGAATGATGGCCATGAGAGT
64 TGATGAACCGTTGGAGTTACTTTGGATTTGATTTGACGAATGATGATCATGAGAGT
18099243 TTTCTCCAACTCTCTTTGAT
1 TTTCTCCAACTC-CTTTGAT
18099263 AAACCGTTGG
Statistics
Matches: 339, Mismatches: 35, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
120 335 0.99
121 2 0.01
122 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.38
Consensus pattern (119 bp):
TTTCTCCAACTCCTTTGATGAATCATCGGAGTTTGTTCTTCCACTTGCAAAACTTCCATCATTTG
ATGAACCGTTGGAGTTACTTTGGATTTGATTTGACGAATGATGATCATGAGAGT
Found at i:18102112 original size:13 final size:13
Alignment explanation
Indices: 18102094--18102120 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
18102084 TCTGTTGCTT
18102094 CTAGTATTCTACA
1 CTAGTATTCTACA
18102107 CTAGTATTCTACA
1 CTAGTATTCTACA
18102120 C
1 C
18102121 CATTCAAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (13 bp):
CTAGTATTCTACA
Found at i:18103342 original size:18 final size:18
Alignment explanation
Indices: 18103319--18103360 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
18103309 GTATACATGT
18103319 TTGTTACTGTTT-TAATG
1 TTGTTACTGTTTATAATG
* *
18103336 CTTGTTATTTTTTATAATG
1 -TTGTTACTGTTTATAATG
18103355 TTGTTA
1 TTGTTA
18103361 TATATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.19, C:0.05, G:0.14, T:0.62
Consensus pattern (18 bp):
TTGTTACTGTTTATAATG
Found at i:18104998 original size:18 final size:17
Alignment explanation
Indices: 18104977--18105012 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18104967 AGTAAAAAAC
18104977 AAAAACAAAAAAAAATGG
1 AAAAA-AAAAAAAAATGG
*
18104995 AAAAAAANAAAAAATGG
1 AAAAAAAAAAAAAATGG
18105012 A
1 A
18105013 GATAGATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.78, C:0.03, G:0.11, T:0.06
Consensus pattern (17 bp):
AAAAAAAAAAAAAATGG
Found at i:18105040 original size:2 final size:2
Alignment explanation
Indices: 18105033--18105075 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
18105023 AATATAGGAG
18105033 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
18105075 T
1 T
18105076 TTAAATGTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18105837 original size:17 final size:18
Alignment explanation
Indices: 18105816--18105890 Score: 75
Period size: 17 Copynumber: 4.2 Consensus size: 18
18105806 ATTGTTTATG
18105816 AAAAAATATA-ATAATAAT
1 AAAAAATATAGATAAT-AT
18105834 AAAAAATATAGA-AATAT
1 AAAAAATATAGATAATAT
* *
18105851 AAAAAATATATATATTTAT
1 AAAAAATATAGATA-ATAT
* *
18105870 ACAAAATATA-AAAATAT
1 AAAAAATATAGATAATAT
18105887 AAAA
1 AAAA
18105891 TAAAATAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
17 19 0.40
18 16 0.33
19 13 0.27
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (18 bp):
AAAAAATATAGATAATAT
Found at i:18105876 original size:36 final size:35
Alignment explanation
Indices: 18105816--18105913 Score: 106
Period size: 36 Copynumber: 2.7 Consensus size: 35
18105806 ATTGTTTATG
*
18105816 AAAAAATATAATAATAATAAAAAATATAGAAATAT
1 AAAAAATATAATAATAATAAAAAATATAAAAATAT
* * *
18105851 AAAAAATATATATATTTATACAAAATATAAAAATAT
1 AAAAAATATA-ATAATAATAAAAAATATAAAAATAT
* * *
18105887 AAAATAAAATAAAAAAAATAATAAAAT
1 AAAA-AATATAATAATAATAA-AAAAT
18105914 TTTTGTTCAC
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
35 10 0.20
36 30 0.60
37 10 0.20
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.27
Consensus pattern (35 bp):
AAAAAATATAATAATAATAAAAAATATAAAAATAT
Found at i:18110275 original size:39 final size:39
Alignment explanation
Indices: 18110218--18110305 Score: 122
Period size: 39 Copynumber: 2.3 Consensus size: 39
18110208 TATCATTGGA
* * * *
18110218 ATTGTTCTCTGCTGGATCCTTATCATGGTTTTCTAATGT
1 ATTGTTCTCTACTAGATCCCTATCATGATTTTCTAATGT
* *
18110257 ATTGTTCTTTACTAGATCCCTATCATGATTTTCTGATGT
1 ATTGTTCTCTACTAGATCCCTATCATGATTTTCTAATGT
18110296 ATTGTTCTCT
1 ATTGTTCTCT
18110306 GTTGGGAGCT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.17, C:0.18, G:0.15, T:0.50
Consensus pattern (39 bp):
ATTGTTCTCTACTAGATCCCTATCATGATTTTCTAATGT
Found at i:18111358 original size:2 final size:2
Alignment explanation
Indices: 18111346--18111465 Score: 222
Period size: 2 Copynumber: 59.0 Consensus size: 2
18111336 ATATTTTGGA
18111346 AT AT CAT 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 AT AT AT
18111389 AT AT ANT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18111432 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
18111466 GTACTTCATA
Statistics
Matches: 116, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
2 112 0.97
3 4 0.03
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18112292 original size:30 final size:30
Alignment explanation
Indices: 18112258--18112317 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
18112248 TAAGTCTTCC
*
18112258 CATTGTGACACTTATTGTTCTTTAAATTCT
1 CATTGTAACACTTATTGTTCTTTAAATTCT
18112288 CATTGTAACACTTATTGTTCTTTAAATTCT
1 CATTGTAACACTTATTGTTCTTTAAATTCT
18112318 TCATCCTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.50
Consensus pattern (30 bp):
CATTGTAACACTTATTGTTCTTTAAATTCT
Found at i:18112915 original size:16 final size:17
Alignment explanation
Indices: 18112879--18112912 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
18112869 GTGAGGAGCC
18112879 AATA-TCCAACCAGCAA
1 AATATTCCAACCAGCAA
18112895 AATATTCCAACCAGCAA
1 AATATTCCAACCAGCAA
18112912 A
1 A
18112913 TATAGTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.50, C:0.29, G:0.06, T:0.15
Consensus pattern (17 bp):
AATATTCCAACCAGCAA
Found at i:18117996 original size:33 final size:33
Alignment explanation
Indices: 18117959--18118056 Score: 108
Period size: 33 Copynumber: 3.0 Consensus size: 33
18117949 AATCTTGTTT
* *
18117959 AGAATC-TCGGGAGTTGTTTTGAATTCCGTTTGA
1 AGAATCAT-GGGAGTTGTTTTGAACTCCATTTGA
* * *
18117992 AGAATCATGGTAGTTGTTTTGGACTCCATTTGG
1 AGAATCATGGGAGTTGTTTTGAACTCCATTTGA
* * *
18118025 GGAATCATGGGAGTTGTTTAGGACTCCATTTG
1 AGAATCATGGGAGTTGTTTTGAACTCCATTTG
18118057 GCAAATCATG
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
33 55 0.98
34 1 0.02
ACGTcount: A:0.21, C:0.12, G:0.29, T:0.38
Consensus pattern (33 bp):
AGAATCATGGGAGTTGTTTTGAACTCCATTTGA
Found at i:18118057 original size:33 final size:33
Alignment explanation
Indices: 18117993--18118066 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
18117983 TCCGTTTGAA
* * *
18117993 GAATCATGGTAGTTGTTTTGGACTCCATTTGGG
1 GAATCATGGGAGTTGTTTAGGACTCCATTTGGC
18118026 GAATCATGGGAGTTGTTTAGGACTCCATTTGGC
1 GAATCATGGGAGTTGTTTAGGACTCCATTTGGC
*
18118059 AAATCATG
1 GAATCATG
18118067 AGACTTTTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (33 bp):
GAATCATGGGAGTTGTTTAGGACTCCATTTGGC
Found at i:18120603 original size:120 final size:120
Alignment explanation
Indices: 18120469--18121087 Score: 925
Period size: 120 Copynumber: 5.2 Consensus size: 120
18120459 AAAATTTTTT
*
18120469 CAACTCC-TTCTGATGAATCATCAGAGTTTGTTCTTCCACTTGCAAAACTTCCATCATTTGATGA
1 CAACTCCGTT-TGATGAATCATCGGAGTTTGTTCTTCCACTTGCAAAACTTCCATCATTTGATGA
18120533 ACCGTTGGAGTTACTTTGGATTTGATTTGATGAATGACGATCATGAGAGTTTTCTC
65 ACCGTTGGAGTTACTTTGGATTTGATTTGATGAATGACGATCATGAGAGTTTTCTC
* * *
18120589 CAACTCCGTTTGATGAATTATCTGAGTTTGTTCTTCCACTTGCAAAACTTTCATCATTTGATGAA
1 CAACTCCGTTTGATGAATCATCGGAGTTTGTTCTTCCACTTGCAAAACTTCCATCATTTGATGAA
*
18120654 CCGTTGGAGTTATTTTGGATTTGATTTGATGAATGACGATCATGAGAGTTTTCTC
66 CCGTTGGAGTTACTTTGGATTTGATTTGATGAATGACGATCATGAGAGTTTTCTC
* * * * *
18120709 CAACTCCATTTGATGAATCACCGGAGTTTGTTCTCCCACTTGTAAAACTTCTATCATTTGATGAA
1 CAACTCCGTTTGATGAATCATCGGAGTTTGTTCTTCCACTTGCAAAACTTCCATCATTTGATGAA
* *
18120774 CCGTTGGAGTTACTTTGGATTTGATTTGACGAATGACGATCATGAGAGTTTTCTT
66 CCGTTGGAGTTACTTTGGATTTGATTTGATGAATGACGATCATGAGAGTTTTCTC
* *
18120829 CAATTCCGTTTGATGAATCATTGGAGTTTGTTCTTCCACTTGCAAAACTTCCATCATTTGATGAA
1 CAACTCCGTTTGATGAATCATCGGAGTTTGTTCTTCCACTTGCAAAACTTCCATCATTTGATGAA
* * * * *
18120894 CCATTAGAGTTACTTTGGATTTGATTTGAAGAATGATGATCATGAGAGTTTTCTT
66 CCGTTGGAGTTACTTTGGATTTGATTTGATGAATGACGATCATGAGAGTTTTCTC
* * * * ** * *
18120949 CAACTCCATTTGATAAATCATCGGAATTTGTTCTTCCACTTACAAAACCGCCAACATTTGATAAA
1 CAACTCCGTTTGATGAATCATCGGAGTTTGTTCTTCCACTTGCAAAACTTCCATCATTTGATGAA
* * * * *
18121014 CTGTTGGAGTTACTTAGGATTTGATTAGAGGAATGATGATCATGAGAGTTTTCTC
66 CCGTTGGAGTTACTTTGGATTTGATTTGATGAATGACGATCATGAGAGTTTTCTC
*
18121069 CAACTCCGTTTGATAAATC
1 CAACTCCGTTTGATGAATC
18121088 GTTGGACTCT
Statistics
Matches: 454, Mismatches: 44, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
120 452 1.00
121 2 0.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.38
Consensus pattern (120 bp):
CAACTCCGTTTGATGAATCATCGGAGTTTGTTCTTCCACTTGCAAAACTTCCATCATTTGATGAA
CCGTTGGAGTTACTTTGGATTTGATTTGATGAATGACGATCATGAGAGTTTTCTC
Found at i:18126754 original size:19 final size:20
Alignment explanation
Indices: 18126722--18126760 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
18126712 TAATATTTGA
* *
18126722 AAAAAATTTTAAATTAATTT
1 AAAAAATTTCAAATAAATTT
18126742 AAAAAA-TTCAAATAAATTT
1 AAAAAATTTCAAATAAATTT
18126761 TTATTTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAAATTTCAAATAAATTT
Found at i:18130535 original size:2 final size:2
Alignment explanation
Indices: 18130528--18130601 Score: 116
Period size: 2 Copynumber: 38.0 Consensus size: 2
18130518 CCAAGTCTTT
* *
18130528 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TN TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18130569 T- 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
18130602 GAAAACTAAT
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
1 2 0.03
2 65 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18142460 original size:5 final size:5
Alignment explanation
Indices: 18142450--18142474 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18142440 AAAATTTAAA
18142450 AAATC AAATC AAATC AAATC AAATC
1 AAATC AAATC AAATC AAATC AAATC
18142475 CATAATCAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATC
Found at i:18143274 original size:33 final size:32
Alignment explanation
Indices: 18143187--18143274 Score: 86
Period size: 33 Copynumber: 2.7 Consensus size: 32
18143177 TATGTTGACT
* * *
18143187 TGACATACTAATATTTTATAATTGATGATGACA
1 TGACATACTAAT-TTATATAATTGATAATAACA
** **
18143220 TGACATGTTAAGGTATCATAATTGATAATAACA
1 TGACATACTAATTTAT-ATAATTGATAATAACA
18143253 TGACATACTAATTTAGTATAAT
1 TGACATACTAATTTA-TATAAT
18143275 AATATGATTT
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
32 2 0.05
33 39 0.93
34 1 0.02
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (32 bp):
TGACATACTAATTTATATAATTGATAATAACA
Found at i:18154998 original size:22 final size:22
Alignment explanation
Indices: 18154973--18155021 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
18154963 CATAACAATA
18154973 AGTCATGCAATACATAAAAACT
1 AGTCATGCAATACATAAAAACT
* * * *
18154995 AGTCATGGAATGCCTAAAAAGT
1 AGTCATGCAATACATAAAAACT
18155017 AGTCA
1 AGTCA
18155022 AGAAATGTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.22
Consensus pattern (22 bp):
AGTCATGCAATACATAAAAACT
Found at i:18155028 original size:22 final size:22
Alignment explanation
Indices: 18154987--18155028 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18154977 ATGCAATACA
* *
18154987 TAAAAACTAGTCATGGAATGCC
1 TAAAAACTAGTCAAGAAATGCC
*
18155009 TAAAAAGTAGTCAAGAAATG
1 TAAAAACTAGTCAAGAAATG
18155029 TCTCAACACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (22 bp):
TAAAAACTAGTCAAGAAATGCC
Found at i:18155191 original size:22 final size:21
Alignment explanation
Indices: 18155166--18155229 Score: 92
Period size: 22 Copynumber: 3.0 Consensus size: 21
18155156 CTAGACACTT
* *
18155166 AATGCCTAATATCCATTCAGA
1 AATGCATAATATCCATTCACA
18155187 CAATGCATAATATCCATTCACA
1 -AATGCATAATATCCATTCACA
18155209 AACTGCATAATATCCATTCAC
1 AA-TGCATAATATCCATTCAC
18155230 TTAATGCCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
21 2 0.05
22 37 0.95
ACGTcount: A:0.39, C:0.27, G:0.06, T:0.28
Consensus pattern (21 bp):
AATGCATAATATCCATTCACA
Found at i:18156303 original size:73 final size:73
Alignment explanation
Indices: 18156187--18156357 Score: 193
Period size: 73 Copynumber: 2.3 Consensus size: 73
18156177 CTAACTTCCT
** *
18156187 TCTTGGTCGACTAAGTTGGTTCTGTCTTCTGGTCTCAAATTCTGGCAGAAAGCGT-TGAGTCGAC
1 TCTTGGTCGACTAAGTTGGTTCTGTCTTCAAGTCTCAAATTCTGGC-GAAAGCGTCTGAGTCAAC
* *
18156251 TAACTTATA
65 TAACTCACA
* * * ** * *
18156260 TTTTGGTCGACTAAGTTGGTTCTGTCTTGAAGTC-CAGATTTCTGGCGGTAGCTTCTTAGTCAAC
1 TCTTGGTCGACTAAGTTGGTTCTGTCTTCAAGTCTCA-AATTCTGGCGAAAGCGTCTGAGTCAAC
18156324 TAACTCACA
65 TAACTCACA
*
18156333 TCTTGGTCGACTAAGTCGGTTCTGT
1 TCTTGGTCGACTAAGTTGGTTCTGT
18156358 TTCTCAATAC
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
72 7 0.09
73 75 0.91
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (73 bp):
TCTTGGTCGACTAAGTTGGTTCTGTCTTCAAGTCTCAAATTCTGGCGAAAGCGTCTGAGTCAACT
AACTCACA
Found at i:18175097 original size:14 final size:14
Alignment explanation
Indices: 18175080--18175106 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18175070 ATTTTCTTCA
18175080 TTTTCTTTTCCTTG
1 TTTTCTTTTCCTTG
18175094 TTTTCTTTTCCTT
1 TTTTCTTTTCCTT
18175107 TCCTTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.22, G:0.04, T:0.74
Consensus pattern (14 bp):
TTTTCTTTTCCTTG
Found at i:18176131 original size:55 final size:55
Alignment explanation
Indices: 18176057--18176269 Score: 338
Period size: 55 Copynumber: 3.9 Consensus size: 55
18176047 TGATGATGGG
* * * *
18176057 TGATTCCAGTTATGTGCGGTGTGGGAGTGCACATGAGCTGATGATCTGG-GGGTGA
1 TGATTCCAGCTATATGCGGTGTGGGAGTGCACATGAGCTGATGA-CCGGAGGATGA
*
18176112 TGATTCCAGCTATACGCGGTGTGGGAGTGCACATGAGCTGATGACCGGAGGATGA
1 TGATTCCAGCTATATGCGGTGTGGGAGTGCACATGAGCTGATGACCGGAGGATGA
* *
18176167 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGTTGATGACCGGAGGATGA
1 TGATTCCAGCTATATGCGGTGTGGGAGTGCACATGAGCTGATGACCGGAGGATGA
*
18176222 TGATTCCAGCTATATGCGGTGTGAGAGTGCACATGAGCTGATGACCGG
1 TGATTCCAGCTATATGCGGTGTGGGAGTGCACATGAGCTGATGACCGG
18176270 TGTTTGTACA
Statistics
Matches: 146, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
54 3 0.02
55 143 0.98
ACGTcount: A:0.22, C:0.16, G:0.37, T:0.25
Consensus pattern (55 bp):
TGATTCCAGCTATATGCGGTGTGGGAGTGCACATGAGCTGATGACCGGAGGATGA
Found at i:18186081 original size:18 final size:18
Alignment explanation
Indices: 18186045--18186082 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
18186035 GTGCAAGATC
*
18186045 ATATTTTATTTAATTCTA
1 ATATTTTATTTAATGCTA
18186063 ATATTTTAATTT-ATGCTA
1 ATATTTT-ATTTAATGCTA
18186081 AT
1 AT
18186083 GAGAAATGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (18 bp):
ATATTTTATTTAATGCTA
Found at i:18190424 original size:5 final size:5
Alignment explanation
Indices: 18190414--18190438 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
18190404 AAACCAATGC
18190414 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
18190439 CAATATCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:18192452 original size:27 final size:27
Alignment explanation
Indices: 18192414--18192466 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
18192404 ACAAGTGTCA
**
18192414 TGGGGGGCAAAATTACTGTTTTGCCCT
1 TGGGGGGCAAAATTACCATTTTGCCCT
*
18192441 TGGGGGGTAAAATTACCATTTTGCCC
1 TGGGGGGCAAAATTACCATTTTGCCC
18192467 ATATGCTCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (27 bp):
TGGGGGGCAAAATTACCATTTTGCCCT
Found at i:18192980 original size:19 final size:19
Alignment explanation
Indices: 18192953--18192999 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
18192943 TATTTTAATA
*
18192953 TTATTTTATTCTAAAAATT
1 TTATCTTATTCTAAAAATT
18192972 TTATCTTATTCTAAAAATT
1 TTATCTTATTCTAAAAATT
18192991 TTATCTTAT
1 TTATCTTAT
18193000 CTCTTTGGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATCTTATTCTAAAAATT
Found at i:18196016 original size:13 final size:13
Alignment explanation
Indices: 18195998--18196022 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18195988 TTTCAGAAAA
18195998 TTTATAAAATCAT
1 TTTATAAAATCAT
18196011 TTTATAAAATCA
1 TTTATAAAATCA
18196023 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:18201127 original size:16 final size:16
Alignment explanation
Indices: 18201097--18201137 Score: 68
Period size: 15 Copynumber: 2.7 Consensus size: 16
18201087 CCTTAAAACA
18201097 ACTTTAAAA-CCAAAG
1 ACTTTAAAATCCAAAG
18201112 ACTTTAAAATCCAAAG
1 ACTTTAAAATCCAAAG
18201128 -CTTTAAAATC
1 ACTTTAAAATC
18201138 AAAATATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.27
Consensus pattern (16 bp):
ACTTTAAAATCCAAAG
Found at i:18203211 original size:20 final size:20
Alignment explanation
Indices: 18203183--18203222 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
18203173 ACCTAGCTTG
18203183 TTTCCTTG-ATTTCTTCACTT
1 TTTCCTTGAATTT-TTCACTT
*
18203203 TTTCTTTGAATTTTTCACTT
1 TTTCCTTGAATTTTTCACTT
18203223 AGGTTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.12, C:0.20, G:0.05, T:0.62
Consensus pattern (20 bp):
TTTCCTTGAATTTTTCACTT
Found at i:18203600 original size:20 final size:20
Alignment explanation
Indices: 18203583--18203620 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
18203573 CCTCAAATCT
18203583 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
*
18203603 TACTCTAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
18203621 GGGGCCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:18207754 original size:23 final size:23
Alignment explanation
Indices: 18207720--18207766 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
18207710 GTTATGAAAA
18207720 ATAACTTAAAAGAACAAATAAAG
1 ATAACTTAAAAGAACAAATAAAG
* * *
18207743 ATAACTTGAAAGAATAATTAAAG
1 ATAACTTAAAAGAACAAATAAAG
18207766 A
1 A
18207767 GAAGAAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.62, C:0.06, G:0.11, T:0.21
Consensus pattern (23 bp):
ATAACTTAAAAGAACAAATAAAG
Found at i:18209242 original size:23 final size:24
Alignment explanation
Indices: 18209199--18209245 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
18209189 TGGCTAGAAA
18209199 AAAAAATGAATTAATAAAATATTC
1 AAAAAATGAATTAATAAAATATTC
* *
18209223 AAAATATGAATTAA-ATAATATTC
1 AAAAAATGAATTAATAAAATATTC
18209246 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (24 bp):
AAAAAATGAATTAATAAAATATTC
Found at i:18211584 original size:15 final size:15
Alignment explanation
Indices: 18211566--18211595 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
18211556 GATCAAAGAA
18211566 TTTGGTTTTAAAGTT
1 TTTGGTTTTAAAGTT
18211581 TTTGGTTTTAAAGTT
1 TTTGGTTTTAAAGTT
18211596 GTTTTAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (15 bp):
TTTGGTTTTAAAGTT
Found at i:18221067 original size:70 final size:71
Alignment explanation
Indices: 18220958--18221096 Score: 253
Period size: 70 Copynumber: 2.0 Consensus size: 71
18220948 TCTTGACACT
* *
18220958 ATGGTAGAATGCAAGAAAAAATTTGAAGGAAGCATTGAAAACTCGACTATAGAGAAGCAATACTC
1 ATGGCAGAATGCAAGAAAAAATTTGAAGGAAGCATTGAAAACTCAACTATAGAGAAGCAATACTC
18221023 GACCCC
66 GACCCC
18221029 ATGGCAGAATGCAAGAAAAAA-TTGAAGGAAGCATTGAAAACTCAACTATAGAGAAGCAATACTC
1 ATGGCAGAATGCAAGAAAAAATTTGAAGGAAGCATTGAAAACTCAACTATAGAGAAGCAATACTC
18221093 GACC
66 GACC
18221097 TTAAAGTAGA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
70 46 0.70
71 20 0.30
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (71 bp):
ATGGCAGAATGCAAGAAAAAATTTGAAGGAAGCATTGAAAACTCAACTATAGAGAAGCAATACTC
GACCCC
Found at i:18221633 original size:34 final size:34
Alignment explanation
Indices: 18221595--18221680 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
18221585 AAAGTTAGTG
* **
18221595 TGGGTTGTGCTTACTCTTGTGAAAAGGCAAATTT
1 TGGGTTGTGCTTGCTCTCATGAAAAGGCAAATTT
*
18221629 TGGGTTGTGCTTGCTCCCATGAAAAGGCAAATTT
1 TGGGTTGTGCTTGCTCTCATGAAAAGGCAAATTT
*
18221663 TGGGTTATGCTTGCTCTC
1 TGGGTTGTGCTTGCTCTC
18221681 GTTAAAAAGC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.20, C:0.16, G:0.27, T:0.37
Consensus pattern (34 bp):
TGGGTTGTGCTTGCTCTCATGAAAAGGCAAATTT
Found at i:18223349 original size:24 final size:25
Alignment explanation
Indices: 18223302--18223371 Score: 76
Period size: 24 Copynumber: 2.9 Consensus size: 25
18223292 AATATGTTTA
18223302 AAATATTAAAAATTAAATTATAAAT
1 AAATATTAAAAATTAAATTATAAAT
* *
18223327 AAATATT-AATATTTAATTATAAAT
1 AAATATTAAAAATTAAATTATAAAT
*
18223351 ---TAGTAATAAATTAAATTATAA
1 AAATATTAA-AAATTAAATTATAA
18223372 TTTATTCCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 3 0.08
22 1 0.03
23 12 0.32
24 15 0.39
25 7 0.18
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (25 bp):
AAATATTAAAAATTAAATTATAAAT
Found at i:18223352 original size:36 final size:40
Alignment explanation
Indices: 18223261--18223343 Score: 109
Period size: 42 Copynumber: 2.1 Consensus size: 40
18223251 CTTTTAATAA
*
18223261 AATATT-AATATTAAATTATAAATAAAATATTAATATGTTT
1 AATATTAAAAATTAAATTATAAATAAAATATTAATA-GTTT
18223301 AAAATATTAAAAATTAAATTATAAAT-AAATATTAATA-TTT
1 --AATATTAAAAATTAAATTATAAATAAAATATTAATAGTTT
18223341 AAT
1 AAT
18223344 TATAAATTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
38 3 0.08
40 3 0.08
42 17 0.44
43 16 0.41
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (40 bp):
AATATTAAAAATTAAATTATAAATAAAATATTAATAGTTT
Found at i:18225111 original size:349 final size:337
Alignment explanation
Indices: 18224472--18225254 Score: 1079
Period size: 349 Copynumber: 2.3 Consensus size: 337
18224462 NNNNNNNNNN
*
18224472 TTATTTAAATTAATTTAGAGTTTAGGGAATTAATTACATAATTAAACTAATTATAAAGAATCATT
1 TTATTTAAATTAATTTAGAGTTTA-GGAATTAATTACATAATTAAACTAATTATAAAGAATCATG
* *
18224537 TATTAGTAATTAATCAATTAATTAAATTAGTAAATTTAGGTTTTTTAATTTTAAATTAATTAAGG
65 TATTAGTAATTAATCAATTAATTAAATTAGTAAATTTAGGTTTTTAAAATTTAAATTAATTAAGG
* * * *
18224602 TTTTATAAATTAATTAAATAATTTAACTAATCAAATGAAAAAATGTTTTAGTTAATAAGCAATTA
130 CTTTATAAATTAATTAAAGAATTTAACTAATCAAATGAAAAAAGGTTTTAGTTAACAAGCAATTA
* * *
18224667 ATTAAATTGGTAATATTATTCAATTTAATAAATATTTAAAGCAAATAAGGTGCCAATGAGTTAAT
195 ATTAAATTAGTAATATTATTCAATTTAAGAAATATTTAAAGCAAATAAGCTG---ATGAGTTAAT
*
18224732 TAAAAATATTATTTAATTAAGGTTTAGTAATGTGTTATAATTAAGTAATTAGCAATTAATTAAAT
257 AAAAAATATTATTTAATTAAGGTTTAGTAATGTGTTATAA-T---T-A--AGCAATTAATTAAAT
*
18224797 TAGTAAATTAATATAATATCTTAT
315 TAGGAAATTAATAT-ATATCTTAT
* * *
18224821 TTATTTAAATTAATTTAGGGTTTAGGAAATTAATTACATAATTAAAGTAATTGTAAAGAATCATG
1 TTATTTAAATTAATTTAGAGTTTAGG-AATTAATTACATAATTAAACTAATTATAAAGAATCATG
* *
18224886 TGTTAGTAATTAATCAATTAATTAAATTAGTGAATTTAGGGTTTTTAAACCATTTAAATTAATTA
65 TATTAGTAATTAATCAATTAATTAAATTAGTAAATTTA-GGTTTTTAAA--ATTTAAATTAATTA
* *
18224951 AGGGCTTTATTAAATTAATTACAGAATTTTACTAATCAAATGAAAAAAGGTTTTAGTTAACAAGC
127 A-GGCTTTA-TAAATTAATTAAAGAATTTAACTAATCAAATGAAAAAAGGTTTTAGTTAACAAGC
* * * * ** *
18225016 AATTAATTAAATTATTAATATTGTTTAATTTAGGAAA-ATTTAAATTAATTAAGCTG-TGAGTTA
190 AATTAATTAAATTAGTAATATTATTCAATTTAAGAAATATTTAAAGCAAATAAGCTGATGAGTTA
* * *
18225079 CTAAAAAATATTATTTGATTAGGGTTTAGTAATGTGTTATAATTAAGCAATTAATTAAATTAGGA
255 ATAAAAAATATTATTTAATTAAGGTTTAGTAATGTGTTATAATTAAGCAATTAATTAAATTAGGA
*
18225144 ATTTAATATATATCTTAT
320 AATTAATATATATCTTAT
*
18225162 TTATTTAAATTAATTTAGCA-TTTATGGAATTAATTACAAAATT-AACTAATTATAAAGAATCAT
1 TTATTTAAATTAATTTAG-AGTTTA-GGAATTAATTACATAATTAAACTAATTATAAAGAATCAT
18225225 GTATTAGTAATTAATCAATTAATTAAATTA
64 GTATTAGTAATTAATCAATTAATTAAATTA
18225255 ACAAATTTTT
Statistics
Matches: 391, Mismatches: 35, Indels: 25
0.87 0.08 0.06
Matches are distributed among these distances:
340 47 0.12
341 46 0.12
342 29 0.07
344 1 0.00
345 1 0.00
348 3 0.01
349 139 0.36
350 9 0.02
352 14 0.04
353 21 0.05
354 81 0.21
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (337 bp):
TTATTTAAATTAATTTAGAGTTTAGGAATTAATTACATAATTAAACTAATTATAAAGAATCATGT
ATTAGTAATTAATCAATTAATTAAATTAGTAAATTTAGGTTTTTAAAATTTAAATTAATTAAGGC
TTTATAAATTAATTAAAGAATTTAACTAATCAAATGAAAAAAGGTTTTAGTTAACAAGCAATTAA
TTAAATTAGTAATATTATTCAATTTAAGAAATATTTAAAGCAAATAAGCTGATGAGTTAATAAAA
AATATTATTTAATTAAGGTTTAGTAATGTGTTATAATTAAGCAATTAATTAAATTAGGAAATTAA
TATATATCTTAT
Found at i:18229967 original size:363 final size:359
Alignment explanation
Indices: 18229250--18230266 Score: 1384
Period size: 363 Copynumber: 2.8 Consensus size: 359
18229240 CACATTAAGT
** * * *
18229250 TCCAAAATAGTTAAGAC-GTGCAGCAATAAATAAGTAAAGAACGGGCAAAATCAAATAGAAAACC
1 TCCAAAATAGTTAAGACAG-GCAGTGATAAATAA-TAAA-AAAGGGTAAAATCAAATAGAAATCC
**
18229314 TAACCAAAAAAATACTGCCTCCTAGTCTGTTACATTTTTTAGTCCATCTCGTTCTTTCCTTACTA
63 TAACCAAAAAAATACTGCCTCCTAGTCTGTTACATTTTTTAGTCCATCTTATTCTTTCCTTACTA
* *
18229379 AATAGCCATAAAGAAAAGAGGATTATATAATTTAAGGAACACCTTTGTTTTTTACATCTTCTCCT
128 AATAGCCAAAAAGAAAAGAGGATTATATAATTTAAGGAATACCTTTGTTTTTTACATCTTCTCCT
**
18229444 TCACCGATTTTCTCTTC-CGGTTGCATCATCAAGGTGGACTCCAGCTCAACTGCATTTCATATGT
193 TCACCGATTTTCTCTTCAC-GTTGCATCATCAAGGTGGACTCTGGCTCAACTGCATTTCATATGT
18229508 CAAAGAAATTTAAAGTAATTGAACAAACTAAGGCAACAAAACAAAAAAGAAATGAAATGAAATTA
257 CAAAGAAATTTAAAGTAATTGAACAAACTAAGGCAACAAAACAAAAAAGAAATGAAATGAAATTA
* *
18229573 TATGACAGTCGGAAGGCTTTCATTGTTGGGGTTTCAGG
322 TATGACAATCGGAAGGATTTCATTGTTGGGGTTTCAGG
*
18229611 TCCAAAATAGTTAAGACAGGCAGTGATAAATAATTAAAAAAAGGGTAAAATCAAATAGACATCC-
1 TCCAAAATAGTTAAGACAGGCAGTGATAAATAA-T-AAAAAAGGGTAAAATCAAATAGAAATCCT
*
18229675 AGACCAAAAAAAATACTGCCTCTTAGTCTGTTACATTTTTTAGTCCATCTTATTCTTTCCTTACT
64 A-ACC-AAAAAAATACTGCCTCCTAGTCTGTTACATTTTTTAGTCCATCTTATTCTTTCCTTACT
* *
18229740 AAATAGCCAAAAAGAAAAAAGGAATATATAATTTAAGGAATACCTTTGTTTTTTACATCTTTCTC
127 AAATAGCCAAAAAGAAAAGAGGATTATATAATTTAAGGAATACCTTTGTTTTTTACATC-TTCTC
* * * * * *
18229805 CTTCACTGAGTTTATCTTCACATTGCATCATCAAGGTAGACTCTGGCTCAACTGCATTTCACATG
191 CTTCACCGATTTTCTCTTCACGTTGCATCATCAAGGTGGACTCTGGCTCAACTGCATTTCATATG
* *
18229870 TCAAAGAAATCTT-AAGAAATTGAACAAACTAAGACAACAAAACAAAACAA-AAATGAAATGAAA
256 TCAAAGAAAT-TTAAAGTAATTGAACAAACTAAGGCAACAAAACAAAA-AAGAAATGAAATGAAA
** * * *
18229933 TTATATGACAATTTGAAGGATTTTATTTTTGGGGTTTCAGT
319 TTATATGACAATCGGAAGGATTTCATTGTTGGGGTTTCAGG
* *
18229974 TCCAAAATAGTTTAAGACAAGCAGTGAT--A-AAT----AA--GTAAAATCGAATAGAAATCCTA
1 TCCAAAATAG-TTAAGACAGGCAGTGATAAATAATAAAAAAGGGTAAAATCAAATAGAAATCCTA
* ** *
18230030 ACCAAAAAAATACTGCCTCGTAGTCCATTACAATTTTTAGTCCATCTTATTCTTTCCTTACTAAA
65 ACCAAAAAAATACTGCCTCCTAGTCTGTTACATTTTTTAGTCCATCTTATTCTTTCCTTACTAAA
* * * *
18230095 TAGTCAAAAAGAAAAGATGATTATATCATTTAAGGAATACCTTTGCTTTTTACATC-T-T-CTTC
130 TAGCCAAAAAGAAAAGAGGATTATATAATTTAAGGAATACCTTTGTTTTTTACATCTTCTCCTTC
* * *
18230157 ACCGATTTTCTCTTCAGGTTGCATCATCAAGGTGGACTCTGGCTCAATTGCATTTCATATGACAA
195 ACCGATTTTCTCTTCACGTTGCATCATCAAGGTGGACTCTGGCTCAACTGCATTTCATATGTCAA
* * * *
18230222 AGAAATTTCAATTAATTGAACAAACTAGGGCAACAAAATAAAAAA
260 AGAAATTTAAAGTAATTGAACAAACTAAGGCAACAAAACAAAAAA
18230267 CAAAACAAAA
Statistics
Matches: 587, Mismatches: 58, Indels: 36
0.86 0.09 0.05
Matches are distributed among these distances:
347 4 0.01
348 95 0.16
349 1 0.00
350 1 0.00
352 108 0.18
353 21 0.04
354 1 0.00
355 2 0.00
360 2 0.00
361 56 0.10
362 116 0.20
363 159 0.27
364 21 0.04
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (359 bp):
TCCAAAATAGTTAAGACAGGCAGTGATAAATAATAAAAAAGGGTAAAATCAAATAGAAATCCTAA
CCAAAAAAATACTGCCTCCTAGTCTGTTACATTTTTTAGTCCATCTTATTCTTTCCTTACTAAAT
AGCCAAAAAGAAAAGAGGATTATATAATTTAAGGAATACCTTTGTTTTTTACATCTTCTCCTTCA
CCGATTTTCTCTTCACGTTGCATCATCAAGGTGGACTCTGGCTCAACTGCATTTCATATGTCAAA
GAAATTTAAAGTAATTGAACAAACTAAGGCAACAAAACAAAAAAGAAATGAAATGAAATTATATG
ACAATCGGAAGGATTTCATTGTTGGGGTTTCAGG
Found at i:18232143 original size:249 final size:248
Alignment explanation
Indices: 18231854--18232358 Score: 922
Period size: 249 Copynumber: 2.0 Consensus size: 248
18231844 TAAGTATCAC
18231854 ATAAAATAAAGATAATATAATAATATAATAGAAACTCTAAATTAAAATAAAAAAATCTGTAAAAC
1 ATAAAA-AAAGATAATATAATAATATAATAGAAACTCTAAATTAAAATAAAAAAATCTGTAAAAC
18231919 TAGAACAATAGTAACTAAATATTGAATGCTTATTATAAATCGTAAATGAGGTTCACAACTTTATA
65 TAGAACAATAGTAACTAAATATTGAATGCTTATTATAAATCGTAAATGAGGTTCACAACTTTATA
18231984 ATAATAATAACATAACAAACTTCTTTCGTATTTTTTAGAGGAAATATGAAGTTAAAAGAA-AAAA
130 ATAATAATAACATAACAAACTTCTTTCGTATTTTTTAGAGGAAATATGAAGTTAAAAGAAGAAAA
*
18232048 GAGCAAATGACGGAAGAAAAATTCAAGAATAGATATTATAAATTGAAAAAAAAAA
195 GAGCAAATGACAGAAG-AAAATTCAAGAATAGATATTATAAATTGAAAAAAAAAA
18232103 ATAAAAANAAGATAATATAATAATATAATAGAAACTCTAAATTAAAATAAAAAAATCTGTAAAAC
1 ATAAAAA-AAGATAATATAATAATATAATAGAAACTCTAAATTAAAATAAAAAAATCTGTAAAAC
18232168 TAGAACAATAGTAACTAAATATTGAATGCTTATTATAAATCGTAAATGAGGTTCACAACTTTATA
65 TAGAACAATAGTAACTAAATATTGAATGCTTATTATAAATCGTAAATGAGGTTCACAACTTTATA
18232233 ATAATAATAACATAACAAACTTCTTTCGTATTTTTTAGAGGAAATATGAAGTTAAAAGAAGAAAA
130 ATAATAATAACATAACAAACTTCTTTCGTATTTTTTAGAGGAAATATGAAGTTAAAAGAAGAAAA
* * * *
18232298 GAGCAAATGATAGAAGAAAATTCAAGAGTGGATATTATAAATTGAAAAAAATAA
195 GAGCAAATGACAGAAGAAAATTCAAGAATAGATATTATAAATTGAAAAAAAAAA
*
18232352 TTAAAAA
1 ATAAAAA
18232359 GTCATAAAAA
Statistics
Matches: 248, Mismatches: 6, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
248 1 0.00
249 229 0.92
250 18 0.07
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.28
Consensus pattern (248 bp):
ATAAAAAAAGATAATATAATAATATAATAGAAACTCTAAATTAAAATAAAAAAATCTGTAAAACT
AGAACAATAGTAACTAAATATTGAATGCTTATTATAAATCGTAAATGAGGTTCACAACTTTATAA
TAATAATAACATAACAAACTTCTTTCGTATTTTTTAGAGGAAATATGAAGTTAAAAGAAGAAAAG
AGCAAATGACAGAAGAAAATTCAAGAATAGATATTATAAATTGAAAAAAAAAA
Found at i:18235148 original size:19 final size:19
Alignment explanation
Indices: 18235111--18235148 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18235101 CCATTTAACT
* *
18235111 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATCTGAG
18235130 TATTGGAGTATAATCTGAG
1 TATTGGAGTATAATCTGAG
18235149 GGTTTGGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.29, T:0.39
Consensus pattern (19 bp):
TATTGGAGTATAATCTGAG
Found at i:18236626 original size:13 final size:13
Alignment explanation
Indices: 18236608--18236632 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18236598 AGAGAAATTG
18236608 TGATTTTATAAAA
1 TGATTTTATAAAA
18236621 TGATTTTATAAA
1 TGATTTTATAAA
18236633 TTTTCTGAAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:18243757 original size:27 final size:24
Alignment explanation
Indices: 18243727--18243792 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 24
18243717 AATTTAAAAA
18243727 AATTAATTATTAAGGTGTTGATAGAGT
1 AATTAATTATTAA---GTTGATAGAGT
* *
18243754 AATTAAATAATTAAGTTGATTGAGT
1 AATT-AATTATTAAGTTGATAGAGT
18243779 AATGTAATGTATTA
1 AAT-TAAT-TATTA
18243793 TACGTATTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 16 0.48
26 5 0.15
27 4 0.12
28 8 0.24
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (24 bp):
AATTAATTATTAAGTTGATAGAGT
Found at i:18243951 original size:19 final size:20
Alignment explanation
Indices: 18243921--18243958 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
18243911 ACTTGGAGCT
18243921 TACAATAAAATAAATCCAAA
1 TACAATAAAATAAATCCAAA
*
18243941 TACAA-AAAATAACTCCAA
1 TACAATAAAATAAATCCAA
18243959 TAAAATGCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.63, C:0.18, G:0.00, T:0.18
Consensus pattern (20 bp):
TACAATAAAATAAATCCAAA
Found at i:18245107 original size:34 final size:34
Alignment explanation
Indices: 18245048--18245126 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
18245038 ATGTTATACA
*
18245048 CCAAAACTTCAGCAACAAATATTACACT-CCAAGG
1 CCAAAGCTTCAGCAACAAATATTACA-TGCCAAGG
* * * *
18245082 TCAAAGCTTTAGCATCAAATGTTACATGCCAAGG
1 CCAAAGCTTCAGCAACAAATATTACATGCCAAGG
18245116 CCAAAGCTTCA
1 CCAAAGCTTCA
18245127 TCACTAGATG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
33 1 0.03
34 36 0.97
ACGTcount: A:0.39, C:0.27, G:0.13, T:0.22
Consensus pattern (34 bp):
CCAAAGCTTCAGCAACAAATATTACATGCCAAGG
Found at i:18245346 original size:34 final size:34
Alignment explanation
Indices: 18245308--18245390 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
18245298 AAACTAGAAG
*** ** *
18245308 ATGTTACATGCCAAGGTCAAAGCTTCAGTATCAA
1 ATGTTACATGCCAAAACCAAAGCTTCAACACCAA
*
18245342 ATGTTACATGCTAAAACCAAAGCTTCAACACCAA
1 ATGTTACATGCCAAAACCAAAGCTTCAACACCAA
*
18245376 ATGTTACACGCCAAA
1 ATGTTACATGCCAAA
18245391 GCTTCCTTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.40, C:0.24, G:0.13, T:0.23
Consensus pattern (34 bp):
ATGTTACATGCCAAAACCAAAGCTTCAACACCAA
Found at i:18251675 original size:13 final size:13
Alignment explanation
Indices: 18251657--18251682 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18251647 TATAAGCCTA
18251657 TAATGTGTGGGAT
1 TAATGTGTGGGAT
18251670 TAATGTGTGGGAT
1 TAATGTGTGGGAT
18251683 ACATGGTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.38
Consensus pattern (13 bp):
TAATGTGTGGGAT
Found at i:18253157 original size:210 final size:211
Alignment explanation
Indices: 18252784--18253176 Score: 535
Period size: 210 Copynumber: 1.9 Consensus size: 211
18252774 AAAAAAGCAC
***
18252784 AAAGAAAGGACAAAAAGTTATAGAAGCTATAAACAAAGGGGGCAGAGAAATCAAAGAGTAAAAGA
1 AAAGAAAGGACAAAAAGTTATAGAAGCTATAAACAAAGGCAACAGAGAAATCAAAGAGTAAAAGA
* * * *
18252849 ATATTAAAGAGAAAAGACAAAAAAAGATAGAAAAATTAGGCAAAACTTAGTCCTAATAATACTCT
66 ATAGTAAAGAGAAAAGACAAAAAAAGATAGAAAAATGAGACAAAACTGAGTCCTAATAATACTCT
* * *
18252914 CAGTCATATAACAATCAGAGCACCACATGTCAACACCAATTGCTCTCAACAACATAGCACCACAT
131 CAGTCAAATAACAATCACACCACCACATGTCAACACCAATTGCTCTCAACAACATAGCACCACAT
18252979 GTCAACACCCATTACT
196 GTCAACACCCATTACT
* ** * *
18252995 AAAGAAAGGAGAGCAAGTTTTAGAGGCTATAAACAAA-GCAACAGAGAAATCAAAGAG-AAGAAG
1 AAAGAAAGGACAAAAAGTTATAGAAGCTATAAACAAAGGCAACAGAGAAATCAAAGAGTAA-AAG
* * *
18253058 AATAGTGAAGAGAAAAGACCAAAAAAGATTGAAAAATGAGACAAAACTCGA-TCCTAATACA-AC
65 AATAGTAAAGAGAAAAGACAAAAAAAGATAGAAAAATGAGACAAAACT-GAGTCCTAATA-ATAC
* *
18253121 TCTCAGTCAAATAACAATCACACCACCA-AGTGTCAACACCCATTTCTCTCAACAAC
128 TCTCAGTCAAATAACAATCACACCACCACA-TGTCAACACCAATTGCTCTCAACAAC
18253177 TCTCAGTCAA
Statistics
Matches: 158, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
209 3 0.02
210 121 0.77
211 34 0.22
ACGTcount: A:0.49, C:0.19, G:0.15, T:0.17
Consensus pattern (211 bp):
AAAGAAAGGACAAAAAGTTATAGAAGCTATAAACAAAGGCAACAGAGAAATCAAAGAGTAAAAGA
ATAGTAAAGAGAAAAGACAAAAAAAGATAGAAAAATGAGACAAAACTGAGTCCTAATAATACTCT
CAGTCAAATAACAATCACACCACCACATGTCAACACCAATTGCTCTCAACAACATAGCACCACAT
GTCAACACCCATTACT
Found at i:18253204 original size:56 final size:56
Alignment explanation
Indices: 18253116--18253232 Score: 153
Period size: 56 Copynumber: 2.1 Consensus size: 56
18253106 CGATCCTAAT
* *
18253116 ACAACTCTCAGTCAAATAACAATCACACCACCAAGTGTCAACACCCATTTCTCTCA
1 ACAACTCTCAGTCAAATAACAATCACACCACCAAGTCTCAACACCCATTGCTCTCA
* * * ** * *
18253172 ACAACTCTCAGTCAAGTAACAATCAGAGCACCACTTCTTAACACCCCTTGCTCTCA
1 ACAACTCTCAGTCAAATAACAATCACACCACCAAGTCTCAACACCCATTGCTCTCA
18253228 ACAAC
1 ACAAC
18253233 ATAGCAGCAC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.36, C:0.36, G:0.07, T:0.21
Consensus pattern (56 bp):
ACAACTCTCAGTCAAATAACAATCACACCACCAAGTCTCAACACCCATTGCTCTCA
Found at i:18253385 original size:266 final size:265
Alignment explanation
Indices: 18252909--18253413 Score: 685
Period size: 266 Copynumber: 1.9 Consensus size: 265
18252899 TCCTAATAAT
*
18252909 ACTCTCAGTCATATAACAATCAGAGCACCACATGTCAACACCAATTGCTCTCAACAACATAGCAC
1 ACTCTCAGTCATATAACAATCAGAGCACCACATCTCAACACCAATTGCTCTCAACAACATAGCAC
* * **
18252974 CACATGTCAACACCCATTACTAAAGAAAGGAGAGCAAGTTTTAGAGGCTATAAACAAAGCAACAG
66 CACATATCAACACCCATTACTAAAGAAAGGAGAGAAAGTTGAAGAGGCTATAAACAAAGCAACAG
* * * *
18253039 AGAAATCAAAGAGAAGAAGAATAGTGAAGAGAAAAGACCAAAAAAGATTGAAAAATGAGACAAAA
131 AGAAATCAAAGAGAAAAAGAAGAGTCAAGAGAAAAGACCAAAAAAGATAGAAAAATGAGACAAAA
* * * *
18253104 CTCGATCCTAATACAACTCTCAGTCAAATAACAATCACACCACCAAGTGTCAACACCCATTTCTC
196 CCCAATCCCAATACAACTCTCAATCAAATAACAATCA-ACCACCAAGTGTCAACACCCATTTCTC
18253169 TCAACA
260 TCAACA
* * **
18253175 ACTCTCAGTCA-AGTAACAATCAGAGCACCACTTCTTAACACCCCTTGCTCTCAACAACATAGCA
1 ACTCTCAGTCATA-TAACAATCAGAGCACCACATCTCAACACCAATTGCTCTCAACAACATAGCA
* * * * * *
18253239 GCACGTATTAACACCCATTGCTAAAGGAAA-GAGAGAAAGTTGGAAG-GGTTATAACCAAAAG-A
65 CCACATATCAACACCCATTACTAAA-GAAAGGAGAGAAAGTT-GAAGAGGCTATAAAC-AAAGCA
* * * * *
18253301 ACAGAGAATTCAAAGAGAAAAAGAAGAGTCAAGATAAAAGACCAAACATGATAGAAAAGTGAGAC
127 ACAGAGAAATCAAAGAGAAAAAGAAGAGTCAAGAGAAAAGACCAAAAAAGATAGAAAAATGAGAC
18253366 AAAACCCAATCCCAATACAACTCTCAATCAAATAACAATCAACCACCA
192 AAAACCCAATCCCAATACAACTCTCAATCAAATAACAATCAACCACCA
18253414 TGTGAATACT
Statistics
Matches: 207, Mismatches: 28, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
265 8 0.04
266 189 0.91
267 10 0.05
ACGTcount: A:0.46, C:0.23, G:0.14, T:0.17
Consensus pattern (265 bp):
ACTCTCAGTCATATAACAATCAGAGCACCACATCTCAACACCAATTGCTCTCAACAACATAGCAC
CACATATCAACACCCATTACTAAAGAAAGGAGAGAAAGTTGAAGAGGCTATAAACAAAGCAACAG
AGAAATCAAAGAGAAAAAGAAGAGTCAAGAGAAAAGACCAAAAAAGATAGAAAAATGAGACAAAA
CCCAATCCCAATACAACTCTCAATCAAATAACAATCAACCACCAAGTGTCAACACCCATTTCTCT
CAACA
Found at i:18256908 original size:30 final size:30
Alignment explanation
Indices: 18256842--18256911 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
18256832 AATTATCCTT
* *
18256842 TTATAAAAAAATTTGAAAAATTTTTCTAAA
1 TTATATAAAAATTTGAAAAATTTTTCAAAA
* **
18256872 TAATATAAAAATTTGAAATGCTTTTT-AAAA
1 TTATATAAAAATTTGAAA-AATTTTTCAAAA
18256902 TTATATAAAA
1 TTATATAAAA
18256912 TAATATAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
30 28 0.85
31 5 0.15
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (30 bp):
TTATATAAAAATTTGAAAAATTTTTCAAAA
Found at i:18257529 original size:108 final size:107
Alignment explanation
Indices: 18257411--18257619 Score: 328
Period size: 108 Copynumber: 1.9 Consensus size: 107
18257401 TATAAGAAAT
* * * *
18257411 TTTGAGTAAATTTAAATAATAGGCAAATTGGGTAAGAGTTGAATAATTTCAAAAGAATGTGTATT
1 TTTGAGTAAATTTAAATAAAAGGCAAATTGGGAAAAAGTTGAATAATTTCAAAAGAATGTATATT
*
18257476 TATAAATTGTGAAAGTTATAGCTAAATCAACATATTTGGCTAA
66 TATAAATTGTGAAAGTTATAACT-AATCAACATATTTGGCTAA
* *
18257519 TTTGAGTAAATTTAAATAAAAGGTAAATTGGGAAAAAGTTGATTAATTTCAAAAGAATGTATATT
1 TTTGAGTAAATTTAAATAAAAGGCAAATTGGGAAAAAGTTGAATAATTTCAAAAGAATGTATATT
* *
18257584 TGTAAATTGTGAAAGTTGTAACTAATCAACATATTT
66 TATAAATTGTGAAAGTTATAACTAATCAACATATTT
18257620 AGTCATTTTA
Statistics
Matches: 92, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
107 13 0.14
108 79 0.86
ACGTcount: A:0.43, C:0.05, G:0.17, T:0.36
Consensus pattern (107 bp):
TTTGAGTAAATTTAAATAAAAGGCAAATTGGGAAAAAGTTGAATAATTTCAAAAGAATGTATATT
TATAAATTGTGAAAGTTATAACTAATCAACATATTTGGCTAA
Found at i:18257994 original size:14 final size:14
Alignment explanation
Indices: 18257975--18258001 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18257965 TATGACGTAG
18257975 TAGAATTTTTTTTT
1 TAGAATTTTTTTTT
18257989 TAGAATTTTTTTT
1 TAGAATTTTTTTT
18258002 GATACGCCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (14 bp):
TAGAATTTTTTTTT
Found at i:18263206 original size:13 final size:13
Alignment explanation
Indices: 18263188--18263212 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18263178 AGAGAAATTG
18263188 TGATTTTATAAAA
1 TGATTTTATAAAA
18263201 TGATTTTATAAA
1 TGATTTTATAAA
18263213 TTTTCTAGAA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:18264631 original size:15 final size:15
Alignment explanation
Indices: 18264611--18264648 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
18264601 AAGATATTTT
18264611 GATTTTAAAGCTTTG
1 GATTTTAAAGCTTTG
* *
18264626 GATTTTAAAGTTTTT
1 GATTTTAAAGCTTTG
18264641 GATTTTAA
1 GATTTTAA
18264649 GGTTGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.53
Consensus pattern (15 bp):
GATTTTAAAGCTTTG
Found at i:18264734 original size:5 final size:5
Alignment explanation
Indices: 18264694--18264733 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
18264684 CCCCAAGTCC
* *
18264694 AGTTA AGTTA AGATA AGTTA AGTTA AGTTA AGTTA GGTTA
1 AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA
18264734 GATTGAATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.38
Consensus pattern (5 bp):
AGTTA
Found at i:18268916 original size:20 final size:20
Alignment explanation
Indices: 18268871--18268908 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
18268861 TTTTGGCTCC
18268871 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
18268891 ATTTGACTTATTTGAGTA
1 ATTTGACTTATTGGAGTA
18268909 AGATTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.47
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:18276450 original size:92 final size:91
Alignment explanation
Indices: 18276275--18276550 Score: 308
Period size: 91 Copynumber: 3.0 Consensus size: 91
18276265 CTCCCATATC
* * * * * *
18276275 ATTTTTCAATGTTAAATGTAATTAATGTAAAATGATGCATATCACCTAGATAAATATAAGGTTTT
1 ATTTTTCAATGTTAAATGTAACTAATATAAAGTGGTGCATATCAACTAGATAAAGATAAGG-TTT
18276340 GAGAGAGATTAAGTTACTACATATTCT
65 GAGAGAGATTAAGTTACTACATATTCT
* * * *
18276367 ATTTTTCAAGTGTTAAATATAACTACTATAAAGTGGTGCATATCAGCTAGCTAAAGATAAGGTTT
1 ATTTTTCAA-TGTTAAATGTAACTAATATAAAGTGGTGCATATCAACTAGATAAAGATAAGGTTT
* *
18276432 GAGAGAGATTAAGCTACTAGATATTCT
65 GAGAGAGATTAAGTTACTACATATTCT
* * * *
18276459 ATTTTTCACTATTAAATGTAACTAATGA-AAAGTGGTG--TAGTCAACTAGTTAAAGATAGAGTT
1 ATTTTTCAATGTTAAATGTAACTAAT-ATAAAGTGGTGCATA-TCAACTAGATAAAGATA-AGGT
* *
18276521 TTAAG-GTAGATTGAGTTACTACATATTCT
63 TTGAGAG-AGATTAAGTTACTACATATTCT
18276550 A
1 A
18276551 CTGTAAATTT
Statistics
Matches: 157, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
89 2 0.01
90 16 0.10
91 50 0.32
92 46 0.29
93 43 0.27
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (91 bp):
ATTTTTCAATGTTAAATGTAACTAATATAAAGTGGTGCATATCAACTAGATAAAGATAAGGTTTG
AGAGAGATTAAGTTACTACATATTCT
Found at i:18278088 original size:19 final size:19
Alignment explanation
Indices: 18278061--18278098 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18278051 CCATTTGACT
18278061 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
18278080 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
18278099 GTTAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:18279049 original size:30 final size:28
Alignment explanation
Indices: 18278990--18279049 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
18278980 GTCTATGGGC
**
18278990 AATTTTTCAGTTTTTTGGGCAAAAATGT
1 AATTTTTCAGTTTTCGGGGCAAAAATGT
*
18279018 AATTTTTCAGTTTTACGGGGACAAAAGTGT
1 AATTTTTCAGTTTT-CGGGG-CAAAAATGT
18279048 AA
1 AA
18279050 ATTTCAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 14 0.52
29 3 0.11
30 10 0.37
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (28 bp):
AATTTTTCAGTTTTCGGGGCAAAAATGT
Found at i:18291132 original size:62 final size:65
Alignment explanation
Indices: 18291055--18291237 Score: 198
Period size: 62 Copynumber: 2.8 Consensus size: 65
18291045 CAATGGTGCT
*
18291055 GAACAGAGCTGCAGCGTTGAGAACTTGGTGCTGCAGCGCTGTAAGTTCTGTTTGGTA-AG-GG-G
1 GAACAGCGCTGCAGCGTTGAGAACTTGGTGCTGCAGCGCTGTAAGTTCTGTTTGGTACAGTGGAG
* * * ** *
18291117 GAACAGCGCTGCAGCGTTGAGAACTTGAG-GCTGCAGCACTG-ATGTTACGGCCTCGTAGCAGTG
1 GAACAGCGCTGCAGCGTTGAGAACTTG-GTGCTGCAGCGCTGTAAGTT-CTGTTTGGTA-CAGTG
*
18291180 GTACT
63 G-A-G
*
18291185 AAACAGCGCTGCAGCGTTGAGAACTT-GTGCTGCAGCGCTGTAAGTTCTGTTTG
1 GAACAGCGCTGCAGCGTTGAGAACTTGGTGCTGCAGCGCTGTAAGTTCTGTTTG
18291238 TGAACTGCTT
Statistics
Matches: 96, Mismatches: 15, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
61 4 0.04
62 43 0.45
63 1 0.01
64 2 0.02
65 2 0.02
66 1 0.01
67 14 0.15
68 29 0.30
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.25
Consensus pattern (65 bp):
GAACAGCGCTGCAGCGTTGAGAACTTGGTGCTGCAGCGCTGTAAGTTCTGTTTGGTACAGTGGAG
Found at i:18304375 original size:9 final size:9
Alignment explanation
Indices: 18304349--18304390 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
18304339 TACATTTTAC
18304349 AAAA-AAAT
1 AAAATAAAT
*
18304357 AAAAAAAAT
1 AAAATAAAT
*
18304366 AAAATGAAT
1 AAAATAAAT
18304375 -AAATAAAT
1 AAAATAAAT
18304383 AAAATAAA
1 AAAATAAA
18304391 GAAATTAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
8 11 0.38
9 18 0.62
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (9 bp):
AAAATAAAT
Found at i:18304395 original size:17 final size:17
Alignment explanation
Indices: 18304362--18304395 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18304352 AAAATAAAAA
* *
18304362 AAATAAAATGAATAAAT
1 AAATAAAATAAAGAAAT
18304379 AAATAAAATAAAGAAAT
1 AAATAAAATAAAGAAAT
18304396 TAATGAAGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
AAATAAAATAAAGAAAT
Found at i:18304724 original size:42 final size:43
Alignment explanation
Indices: 18304655--18304740 Score: 131
Period size: 42 Copynumber: 2.0 Consensus size: 43
18304645 TTCTCTTTTT
18304655 GACAAACCAAAAATCTCCAACATCTATGAGAATCAAATCCAAA
1 GACAAACCAAAAATCTCCAACATCTATGAGAATCAAATCCAAA
* *
18304698 GACAAACC-AAAATGTACC-ACGTCTATGAGAATCAAATCCAAA
1 GACAAACCAAAAATCT-CCAACATCTATGAGAATCAAATCCAAA
18304740 G
1 G
18304741 GCCAATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
42 30 0.75
43 10 0.25
ACGTcount: A:0.49, C:0.24, G:0.10, T:0.16
Consensus pattern (43 bp):
GACAAACCAAAAATCTCCAACATCTATGAGAATCAAATCCAAA
Found at i:18310090 original size:2 final size:2
Alignment explanation
Indices: 18310083--18310188 Score: 149
Period size: 2 Copynumber: 52.5 Consensus size: 2
18310073 CTATACATGC
18310083 AT AT AT 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 AT AT AT
** ** * *
18310125 AT AT NNN NN NT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18310168 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
18310189 GTTTTTTTTA
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
2 97 1.00
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18322839 original size:28 final size:30
Alignment explanation
Indices: 18322793--18322855 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
18322783 GCTCTTTTAT
*
18322793 TTTTTTAAATTAATAAAAAATAAAAGTA-A
1 TTTTTAAAATTAATAAAAAATAAAAGTATA
*
18322822 TTTTTAAAATTAATAAAAAATAAAATTATA
1 TTTTTAAAATTAATAAAAAATAAAAGTATA
18322852 TTTT
1 TTTT
18322856 CAATATTGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 26 0.84
30 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (30 bp):
TTTTTAAAATTAATAAAAAATAAAAGTATA
Found at i:18322953 original size:19 final size:18
Alignment explanation
Indices: 18322921--18322956 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
18322911 ACCTATATGT
*
18322921 CAAAGATTTTTTTTGAAG
1 CAAAGATTTATTTTGAAG
18322939 CAAAGTATTTATTTTGAA
1 CAAAG-ATTTATTTTGAA
18322957 AACTAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (18 bp):
CAAAGATTTATTTTGAAG
Found at i:18336154 original size:15 final size:15
Alignment explanation
Indices: 18336134--18336169 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
18336124 TCAAGGAATG
18336134 GGTGAGGTCTCTTCA
1 GGTGAGGTCTCTTCA
18336149 GGTGAGGTCTCTTCA
1 GGTGAGGTCTCTTCA
18336164 GGTGAG
1 GGTGAG
18336170 TTTCTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.14, C:0.17, G:0.39, T:0.31
Consensus pattern (15 bp):
GGTGAGGTCTCTTCA
Found at i:18359277 original size:62 final size:62
Alignment explanation
Indices: 18359180--18359426 Score: 440
Period size: 62 Copynumber: 4.0 Consensus size: 62
18359170 NNNNNNNNNA
18359180 AAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTG
1 AAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTG
* * *
18359242 AAATTCTTAGACTTAATCTAGGCTCAACCTATCTCACAACAAGTTCGATTTAAACAAAATTG
1 AAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTG
* * *
18359304 AAACTCCTAGACTTAATCTAGGCTCGATCTATCTCACAACAGGTTCGATTTAAACAAAATTA
1 AAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTG
18359366 AAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATT
1 AAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATT
18359427 AATGATAACT
Statistics
Matches: 174, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 174 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (62 bp):
AAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTG
Found at i:18371746 original size:10 final size:11
Alignment explanation
Indices: 18371721--18371772 Score: 63
Period size: 10 Copynumber: 4.6 Consensus size: 11
18371711 GTTCCAATTA
18371721 TATTATTTATTGT
1 TATTATTTA-T-T
18371734 TATTATTTA-T
1 TATTATTTATT
18371744 TATTATTTATT
1 TATTATTTATT
18371755 TATT-TTTCATT
1 TATTATTT-ATT
18371766 TATTATT
1 TATTATT
18371773 ATTATTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
10 13 0.36
11 12 0.33
12 2 0.06
13 9 0.25
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (11 bp):
TATTATTTATT
Found at i:18371748 original size:28 final size:26
Alignment explanation
Indices: 18371717--18371783 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
18371707 ATTTGTTCCA
*
18371717 ATTATATTATTTATTGTTATTATTTATT
1 ATTATATTATTTATT-TT-TCATTTATT
18371745 ATTAT-TTATTTATTTTTCATTTATT
1 ATTATATTATTTATTTTTCATTTATT
*
18371770 ATTATTATTTTTTA
1 ATTA-TATTATTTA
18371784 AAAAAAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 12 0.34
26 3 0.09
27 15 0.43
28 5 0.14
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (26 bp):
ATTATATTATTTATTTTTCATTTATT
Found at i:18374176 original size:2 final size:2
Alignment explanation
Indices: 18374169--18374196 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18374159 GATAAAAAGA
18374169 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
18374197 CTAAAAGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18375629 original size:68 final size:68
Alignment explanation
Indices: 18375545--18375770 Score: 236
Period size: 75 Copynumber: 3.3 Consensus size: 68
18375535 TATCTATTAT
*
18375545 TAATATTTTAAATAAATAATCAATTATTAAT-TTTCAAAAATAAAATAAAATAAAATAATTGATC
1 TAATATTTTAAATAAATAATCAATTATTAATATTTTAAAAATAAAATAAAATAAAATAATT-ATC
*
18375609 ATCA
65 ATAA
*
18375613 TAATA-TTTAAATTAAATAA--AA-TATTAATATTTTAAAAA-ATAAATAAATATTAATATTGAA
1 TAATATTTTAAA-TAAATAATCAATTATTAATATTTTAAAAATA-AAATAAA-A-TAA-AAT--A
*
18375673 ATTATCAATTAT
59 ATTATC-A-TAA
*
18375685 TAATATTTTAAATAAATTATCAATTATTAATATTTTAAAAATAAAATAAAAT-AAA-AATTAATC
1 TAATATTTTAAATAAATAATCAATTATTAATATTTTAAAAATAAAATAAAATAAAATAATT-ATC
18375748 ATAA
65 ATAA
18375752 TAATA-TTTAAATTAAATAA
1 TAATATTTTAAA-TAAATAA
18375771 ATGTTAATAT
Statistics
Matches: 133, Mismatches: 8, Indels: 35
0.76 0.05 0.20
Matches are distributed among these distances:
65 8 0.06
66 23 0.17
67 20 0.15
68 20 0.15
69 5 0.04
70 3 0.02
71 6 0.05
72 13 0.10
73 7 0.05
74 3 0.02
75 24 0.18
76 1 0.01
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (68 bp):
TAATATTTTAAATAAATAATCAATTATTAATATTTTAAAAATAAAATAAAATAAAATAATTATCA
TAA
Found at i:18375659 original size:27 final size:26
Alignment explanation
Indices: 18375613--18375737 Score: 88
Period size: 27 Copynumber: 5.0 Consensus size: 26
18375603 TTGATCATCA
*
18375613 TAATA-TTT-AAATTAAATAAAATAT
1 TAATATTTTAAAAATAAATAAAATAT
18375637 TAATATTTTAAAAAATAAAT-AAATAT
1 TAATATTTT-AAAAATAAATAAAATAT
* * * *
18375663 TAATA--TT-GAAAT-TATCAATTAT
1 TAATATTTTAAAAATAAATAAAATAT
*
18375685 TAATATTTT--AAATAAATTATCAATTAT
1 TAATATTTTAAAAATAAA-TA--AAATAT
18375712 TAATATTTTAAAAATAAAATAAAATA
1 TAATATTTTAAAAAT-AAATAAAATA
18375738 AAAATTAATC
Statistics
Matches: 81, Mismatches: 7, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
21 2 0.02
22 14 0.17
23 4 0.05
24 10 0.12
25 4 0.05
26 11 0.14
27 27 0.33
29 6 0.07
30 3 0.04
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.42
Consensus pattern (26 bp):
TAATATTTTAAAAATAAATAAAATAT
Found at i:18375716 original size:75 final size:73
Alignment explanation
Indices: 18375507--18375734 Score: 253
Period size: 75 Copynumber: 3.2 Consensus size: 73
18375497 TCCCTNATTT
* *
18375507 AAATTAAATAAAATATTAATATTTAAATTATCTATTATTAATATTTTAAATAAATAATCAATTAT
1 AAATAAAAT-AAATATTAATA-TTAAATTATC-ATTATTAATATTTTAAATAAATTATCAATTAT
*
18375572 TAAT-TTTCAA
63 TAATATTTTAA
* * *
18375582 AAATAAAATAAA-A-TAA-AAT-AATTGATCATCA-TAATA-TTTAAATTAAA-TA--AAATATT
1 AAATAAAATAAATATTAATATTAAATT-ATCATTATTAATATTTTAAA-TAAATTATCAATTATT
18375638 AATATTTTAA
64 AATATTTTAA
18375648 AAA-ATAAATAAATATTAATATTGAAATTATCAATTATTAATATTTTAAATAAATTATCAATTAT
1 AAATA-AAATAAATATTAATATT-AAATTATC-ATTATTAATATTTTAAATAAATTATCAATTAT
18375712 TAATATTTTAA
63 TAATATTTTAA
18375723 AAATAAAATAAA
1 AAATAAAATAAA
18375735 ATAAAAATTA
Statistics
Matches: 128, Mismatches: 9, Indels: 32
0.76 0.05 0.19
Matches are distributed among these distances:
65 10 0.08
66 15 0.12
67 8 0.06
68 12 0.09
69 9 0.07
70 7 0.05
71 8 0.06
72 12 0.09
73 9 0.07
74 3 0.02
75 34 0.27
76 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (73 bp):
AAATAAAATAAATATTAATATTAAATTATCATTATTAATATTTTAAATAAATTATCAATTATTAA
TATTTTAA
Found at i:18385239 original size:2 final size:2
Alignment explanation
Indices: 18385234--18385260 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18385224 CAGCCTATAT
18385234 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
18385261 TGTTAACCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:18402610 original size:2 final size:2
Alignment explanation
Indices: 18402603--18402645 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
18402593 TGGTAAAAGC
18402603 AT AT AT 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 AT AT AT
18402645 A
1 A
18402646 ATTAATGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18414286 original size:17 final size:18
Alignment explanation
Indices: 18414264--18414304 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
18414254 TAGATGTTAA
*
18414264 TTAATTTAAATT-TATCT
1 TTAATTTAAATTATATAT
*
18414281 TTAA-TTCAATTATATAT
1 TTAATTTAAATTATATAT
18414298 TTAATTT
1 TTAATTT
18414305 TTTATGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 6 0.30
17 12 0.60
18 2 0.10
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAATTTAAATTATATAT
Found at i:18427767 original size:34 final size:34
Alignment explanation
Indices: 18427724--18427814 Score: 173
Period size: 34 Copynumber: 2.7 Consensus size: 34
18427714 ATGAGAAGGC
*
18427724 TAGCAAAGGATAAAGCGTTCATGCTTTGTTTGAA
1 TAGCAAAGGATAAAGCGTTCATGATTTGTTTGAA
18427758 TAGCAAAGGATAAAGCGTTCATGATTTGTTTGAA
1 TAGCAAAGGATAAAGCGTTCATGATTTGTTTGAA
18427792 TAGCAAAGGATAAAGCGTTCATG
1 TAGCAAAGGATAAAGCGTTCATG
18427815 TTTTACATTT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (34 bp):
TAGCAAAGGATAAAGCGTTCATGATTTGTTTGAA
Found at i:18432143 original size:19 final size:20
Alignment explanation
Indices: 18432098--18432148 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
18432088 TTAATATTTT
18432098 AATATTATTTTA-TTAATAA
1 AATATTATTTTATTTAATAA
18432117 AATATTATTTTATTCTAA-AA
1 AATATTATTTTATT-TAATAA
*
18432137 AAT-TTATCTTAT
1 AATATTATTTTAT
18432149 CTCTTTGGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 20 0.69
20 6 0.21
21 3 0.10
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
AATATTATTTTATTTAATAA
Found at i:18435743 original size:5 final size:5
Alignment explanation
Indices: 18435735--18435773 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
18435725 AACCTAACCA
* *
18435735 AACTT AACTT AACTT AACTT AACTT ATCTT AACCT AACT
1 AACTT AACTT AACTT AACTT AACTT AACTT AACTT AACT
18435774 GGACTTGGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (5 bp):
AACTT
Found at i:18435842 original size:21 final size:22
Alignment explanation
Indices: 18435800--18435841 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
18435790 TAACACTGTA
18435800 AATTTTAAAACAACTTTAAAAC
1 AATTTTAAAACAACTTTAAAAC
*
18435822 AATTTTAAACCAACTTTAAA
1 AATTTTAAAACAACTTTAAA
18435842 CCCAAAGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTTTAAAACAACTTTAAAAC
Found at i:18435843 original size:11 final size:11
Alignment explanation
Indices: 18435803--18435841 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
18435793 CACTGTAAAT
18435803 TTTAAAACAAC
1 TTTAAAACAAC
*
18435814 TTTAAAACAAT
1 TTTAAAACAAC
*
18435825 TTTAAACCAAC
1 TTTAAAACAAC
18435836 TTTAAA
1 TTTAAA
18435842 CCCAAAGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.33
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:18446581 original size:2 final size:2
Alignment explanation
Indices: 18446569--18446616 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
18446559 TACGTATAAG
*
18446569 TA TA CA 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
18446611 TA TA TA
1 TA TA TA
18446617 ACTNNNNNNN
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:18449924 original size:39 final size:39
Alignment explanation
Indices: 18449858--18449934 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
18449848 TTGTGGAAGT
** *
18449858 CTTTTATTGAAACGGTGTGCATCATCTGTCTGCTTGTGG
1 CTTTTATTGAAACGGTGCACATCATCTGTCTACTTGTGG
* * *
18449897 CTTTTATTGAAACGGTGCATATTATCTGTTTACTTGTG
1 CTTTTATTGAAACGGTGCACATCATCTGTCTACTTGTG
18449935 CCTTCTCTCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.18, C:0.16, G:0.22, T:0.44
Consensus pattern (39 bp):
CTTTTATTGAAACGGTGCACATCATCTGTCTACTTGTGG
Found at i:18452283 original size:13 final size:13
Alignment explanation
Indices: 18452265--18452303 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
18452255 TAGCTCCTTT
*
18452265 AAACCCTTCATGA
1 AAACCCCTCATGA
18452278 AAACCCCTCATGA
1 AAACCCCTCATGA
* *
18452291 AAGCCCCACATGA
1 AAACCCCTCATGA
18452304 GTAAATCACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.38, C:0.36, G:0.10, T:0.15
Consensus pattern (13 bp):
AAACCCCTCATGA
Found at i:18452786 original size:38 final size:39
Alignment explanation
Indices: 18452684--18452786 Score: 120
Period size: 38 Copynumber: 2.6 Consensus size: 39
18452674 ACCCGGCTCA
* *
18452684 TGTACATCCCCCCACATCGTGCACATAGCCGGCACCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCAGG-ACCACCG
* ** *
18452724 TGTGCATCCCCCCACATCAAGCACA-ATCAGTG-CCACCG
1 TGTACATCCCCCCACATCGTGCACATAGCAG-GACCACCG
18452762 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
18452787 CGGGCACTAT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
38 27 0.51
39 3 0.06
40 23 0.43
ACGTcount: A:0.24, C:0.43, G:0.16, T:0.17
Consensus pattern (39 bp):
TGTACATCCCCCCACATCGTGCACATAGCAGGACCACCG
Found at i:18453121 original size:2 final size:2
Alignment explanation
Indices: 18453110--18453142 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
18453100 ATTCATCATG
18453110 CA CA -A CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
18453143 TATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:18458132 original size:39 final size:39
Alignment explanation
Indices: 18458086--18458162 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
18458076 TTGTGGAAGT
18458086 CTTTTATTGAAACGGTGTGCATCATCTGTCTGCTTGTGG
1 CTTTTATTGAAACGGTGTGCATCATCTGTCTGCTTGTGG
* *
18458125 CTTTTATTGAAACGGTGTGTATTATCTGTCTGCTTGTG
1 CTTTTATTGAAACGGTGTGCATCATCTGTCTGCTTGTG
18458163 CCTTCTCTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.16, C:0.16, G:0.25, T:0.44
Consensus pattern (39 bp):
CTTTTATTGAAACGGTGTGCATCATCTGTCTGCTTGTGG
Found at i:18459097 original size:72 final size:72
Alignment explanation
Indices: 18459021--18459175 Score: 256
Period size: 72 Copynumber: 2.2 Consensus size: 72
18459011 TTTTCCTGCA
* *
18459021 GAAGCAGGGATTCGGCCAGAAAGTATGTTATCAGCCACATCGAGATTGGATAAGCTGGTCAAGTT
1 GAAGCAGGGATTCGGCCAGAAAGTATGTTATAAGCCACATCGAGATTAGATAAGCTGGTCAAGTT
18459086 TCCTATG
66 TCCTATG
* * * *
18459093 GAAGCAGGGATTTGGCCAGAAAGTATGTTATAAGCCACATTGAGATTAGATAGGTTGGTCAAGTT
1 GAAGCAGGGATTCGGCCAGAAAGTATGTTATAAGCCACATCGAGATTAGATAAGCTGGTCAAGTT
18459158 TCCTATG
66 TCCTATG
18459165 GAAGCAGGGAT
1 GAAGCAGGGAT
18459176 GACACCGGTG
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 77 1.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (72 bp):
GAAGCAGGGATTCGGCCAGAAAGTATGTTATAAGCCACATCGAGATTAGATAAGCTGGTCAAGTT
TCCTATG
Found at i:18459904 original size:144 final size:144
Alignment explanation
Indices: 18459647--18459906 Score: 369
Period size: 144 Copynumber: 1.8 Consensus size: 144
18459637 CAAGCCTCAA
* *
18459647 TAAATTATGCAAGCTTCCTATAGAGGCAGGGATTGAACCACTTAAATTGTTTTCACGAAATAAGA
1 TAAATTATGCAAGCTTCCAATAGAGGCAGGGATTGAACCACTTAAATTGTTATCACGAAATAAGA
* * * **
18459712 TCACAGTAGCTGAACTCAGCCTTCGTATTTTTTGTGGAATGGAACCACTGAGCTTATTTCTGGAC
66 TCACAGAAGCTGAACTCAGCCTTCCTATTTCTTGTGGAAAAGAACCACTGAGCTTATTTCTGGAC
18459777 AAGTCAAGCACGGT
131 AAGTCAAGCACGGT
* * * * *
18459791 TAAATTATGCAAGCTTCCAATAGAGGTAGGGATTGGACCACTTAGATTGTTATCATTGACAT-AG
1 TAAATTATGCAAGCTTCCAATAGAGGCAGGGATTGAACCACTTAAATTGTTATCA-CGAAATAAG
* * *
18459855 ATCTCAGAATCTGAACTCAGCCTTCCTATTTCTTGTGGAAAAGAGCCACTGA
65 ATCACAGAAGCTGAACTCAGCCTTCCTATTTCTTGTGGAAAAGAACCACTGA
18459907 TCATATTATT
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
144 96 0.96
145 4 0.04
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (144 bp):
TAAATTATGCAAGCTTCCAATAGAGGCAGGGATTGAACCACTTAAATTGTTATCACGAAATAAGA
TCACAGAAGCTGAACTCAGCCTTCCTATTTCTTGTGGAAAAGAACCACTGAGCTTATTTCTGGAC
AAGTCAAGCACGGT
Found at i:18463495 original size:26 final size:25
Alignment explanation
Indices: 18463466--18463546 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 25
18463456 TTTTACTACC
18463466 AGAATTGGCTAGATAATTTTGCCATT
1 AGAA-TGGCTAGATAATTTTGCCATT
* * * *
18463492 AGAAGTGGATGGATAATTTTACCATC
1 AGAA-TGGCTAGATAATTTTGCCATT
*
18463518 AGAAT--CTAAAGATAATTTTGCCACT
1 AGAATGGCT--AGATAATTTTGCCATT
18463543 AGAA
1 AGAA
18463547 GTGGATGGAT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
23 1 0.02
25 17 0.40
26 25 0.58
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (25 bp):
AGAATGGCTAGATAATTTTGCCATT
Found at i:18463546 original size:25 final size:25
Alignment explanation
Indices: 18463476--18463548 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
18463466 AGAATTGGCT
* *
18463476 AGATAATTTTGCCATTAGAAGTGGAT
1 AGATAATTTTGCCA-TAGAAGTCGAA
* * *
18463502 GGATAATTTTACCATCAGAA-TCTAA
1 AGATAATTTTGCCAT-AGAAGTCGAA
18463527 AGATAATTTTGCCACTAGAAGT
1 AGATAATTTTGCCA-TAGAAGT
18463549 GGATGGATGT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
25 19 0.51
26 18 0.49
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (25 bp):
AGATAATTTTGCCATAGAAGTCGAA
Found at i:18465743 original size:10 final size:10
Alignment explanation
Indices: 18465715--18465743 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
18465705 TAAATCCATT
18465715 TTTCATAAAA
1 TTTCATAAAA
18465725 TTT-ATAAAA
1 TTTCATAAAA
18465734 TTTCATAAAA
1 TTTCATAAAA
18465744 ACTACCTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (10 bp):
TTTCATAAAA
Found at i:18471092 original size:21 final size:19
Alignment explanation
Indices: 18471075--18471110 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
18471065 ATTTTCTTAC
18471075 TTCCTCTAAATACTTTC-T
1 TTCCTCTAAATACTTTCTT
*
18471093 TTCTTCTAAATACTTTCT
1 TTCCTCTAAATACTTTCT
18471111 CTTATATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.25, G:0.00, T:0.53
Consensus pattern (19 bp):
TTCCTCTAAATACTTTCTT
Found at i:18472543 original size:19 final size:17
Alignment explanation
Indices: 18472504--18472547 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
18472494 AGTTACGGGT
18472504 AATAAAA-ATATTTTAA
1 AATAAAATATATTTTAA
18472520 AATAAAATATTATTTTATA
1 AATAAAATA-TATTTTA-A
18472539 AATAAAATA
1 AATAAAATA
18472548 ATACTTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.28
17 1 0.04
18 7 0.28
19 10 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATAAAATATATTTTAA
Done.