Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 35 of 135
Found at i:13876180 original size:20 final size:20
Alignment explanation
Indices: 13876155--13876199 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
13876145 AGGCTTAAAT
* *
13876155 ATTTTCGGGTAATTCGGGTC
1 ATTTTCGAGTAATTCGGGTA
13876175 ATTTTCGAGTAATTCGGGTA
1 ATTTTCGAGTAATTCGGGTA
13876195 ATTTT
1 ATTTT
13876200 TAACCAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.11, G:0.24, T:0.44
Consensus pattern (20 bp):
ATTTTCGAGTAATTCGGGTA
Found at i:13877912 original size:5 final size:5
Alignment explanation
Indices: 13877902--13877943 Score: 84
Period size: 5 Copynumber: 8.4 Consensus size: 5
13877892 AAACCCAAGT
13877902 ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA AC
1 ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA AC
13877944 TACCCAACTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.40, C:0.60, G:0.00, T:0.00
Consensus pattern (5 bp):
ACCCA
Found at i:13878002 original size:6 final size:6
Alignment explanation
Indices: 13877992--13878035 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
13877982 AATAAAAATA
*
13877992 AAAATCT AAATCT AAAACT AAAACT AAAAGTCT AAAACT AAAAC
1 AAAA-CT AAAACT AAAACT AAAACT AAAA--CT AAAACT AAAAC
13878036 ATAGACATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
6 24 0.73
7 3 0.09
8 6 0.18
ACGTcount: A:0.61, C:0.16, G:0.02, T:0.20
Consensus pattern (6 bp):
AAAACT
Found at i:13878007 original size:14 final size:14
Alignment explanation
Indices: 13877984--13878034 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 14
13877974 ATTTAATAAA
*
13877984 TAAAAATAAAAATC
1 TAAAACTAAAAATC
*
13877998 TAAATCT-AAAA-C
1 TAAAACTAAAAATC
*
13878010 TAAAACTAAAAGTC
1 TAAAACTAAAAATC
13878024 TAAAACTAAAA
1 TAAAACTAAAA
13878035 CATAGACATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 7 0.23
13 7 0.23
14 17 0.55
ACGTcount: A:0.65, C:0.12, G:0.02, T:0.22
Consensus pattern (14 bp):
TAAAACTAAAAATC
Found at i:13878013 original size:20 final size:21
Alignment explanation
Indices: 13877984--13878034 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
13877974 ATTTAATAAA
*
13877984 TAAAAATAAAAATCT-AAA-TC
1 TAAAACTAAAAA-CTAAAAGTC
13878004 TAAAACT-AAAACTAAAAGTC
1 TAAAACTAAAAACTAAAAGTC
13878024 TAAAACTAAAA
1 TAAAACTAAAA
13878035 CATAGACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.07
19 7 0.26
20 15 0.56
21 3 0.11
ACGTcount: A:0.65, C:0.12, G:0.02, T:0.22
Consensus pattern (21 bp):
TAAAACTAAAAACTAAAAGTC
Found at i:13878013 original size:26 final size:26
Alignment explanation
Indices: 13877984--13878035 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
13877974 ATTTAATAAA
*
13877984 TAAAAATAAAAATCTAAATCTAAAAC
1 TAAAAATAAAAATCTAAAACTAAAAC
* *
13878010 TAAAACTAAAAGTCTAAAACTAAAAC
1 TAAAAATAAAAATCTAAAACTAAAAC
13878036 ATAGACATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.63, C:0.13, G:0.02, T:0.21
Consensus pattern (26 bp):
TAAAAATAAAAATCTAAAACTAAAAC
Found at i:13881982 original size:9 final size:9
Alignment explanation
Indices: 13881968--13882000 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
13881958 ATTCAATGCT
13881968 TTAATTCGG
1 TTAATTCGG
*
13881977 TTAATTTGG
1 TTAATTCGG
13881986 TTAATTCGG
1 TTAATTCGG
13881995 TTAATT
1 TTAATT
13882001 TTTATACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.52
Consensus pattern (9 bp):
TTAATTCGG
Found at i:13882422 original size:93 final size:94
Alignment explanation
Indices: 13882263--13882449 Score: 351
Period size: 93 Copynumber: 2.0 Consensus size: 94
13882253 TTTAATATTT
13882263 AATTAACTTTTTAAATATTGTATTTTCAATTGCAATAATTAACTTAAAATAATTTTTTTATTTGA
1 AATTAACTTTTTAAATATTGTATTTTCAATTGCAATAATTAACTTAAAATAATTTTTTTATTTGA
13882328 ATTATTT-ATATTAATT-AACTATATTAAC
66 ATTATTTAATA-TAATTAAACTATATTAAC
13882356 AATTAACTTTTTAAATATTGTATTTTCAATTGCAATAATTAACTTAAAATAATTTTTTTATTTGA
1 AATTAACTTTTTAAATATTGTATTTTCAATTGCAATAATTAACTTAAAATAATTTTTTTATTTGA
13882421 ATTATTTAATATAATTAAACTATATTAAC
66 ATTATTTAATATAATTAAACTATATTAAC
13882450 TTATCAATTC
Statistics
Matches: 92, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
93 77 0.84
94 15 0.16
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (94 bp):
AATTAACTTTTTAAATATTGTATTTTCAATTGCAATAATTAACTTAAAATAATTTTTTTATTTGA
ATTATTTAATATAATTAAACTATATTAAC
Found at i:13882499 original size:93 final size:92
Alignment explanation
Indices: 13882290--13882479 Score: 249
Period size: 93 Copynumber: 2.0 Consensus size: 92
13882280 TTGTATTTTC
13882290 AATTGCAATAATTAACTTAAAATAATTTTTTTATTTGAATTATTTATATTAATTAACTATATTAA
1 AATTGCAATAATTAACTTAAAATAATTTTTTTATTTGAATTATTTATATTAATTAACTATATTAA
** * * ****
13882355 CAATTAACTTTTTAAATATTGTATTTTC
66 C-ATTAACAATTCAAATATTATATAGAA
13882383 AATTGCAATAATTAACTTAAAATAATTTTTTTATTTGAATTATTTA-ATATAATTAAACTATATT
1 AATTGCAATAATTAACTTAAAATAATTTTTTTATTTGAATTATTTATAT-TAATT-AACTATATT
*
13882447 AAC-TTATCAATTCAAATATTATAATAGAA
64 AACATTAACAATTCAAATATTAT-ATAGAA
13882476 AATT
1 AATT
13882480 TTCAAATCAT
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
92 16 0.19
93 57 0.67
94 12 0.14
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.47
Consensus pattern (92 bp):
AATTGCAATAATTAACTTAAAATAATTTTTTTATTTGAATTATTTATATTAATTAACTATATTAA
CATTAACAATTCAAATATTATATAGAA
Found at i:13887224 original size:25 final size:25
Alignment explanation
Indices: 13887182--13887366 Score: 142
Period size: 25 Copynumber: 7.4 Consensus size: 25
13887172 AGTTGTATAA
* * * *
13887182 CGGGAAACTTATACGAGCCAATTAT
1 CGGGAAGCTCATAAGAGCCAAATAT
* * **
13887207 CTGGAAGCTCAAAAGAGCC-GTTAAT
1 CGGGAAGCTCATAAGAGCCAAAT-AT
* *
13887232 CGGGAAGCTCATGAGAGACAAATAT
1 CGGGAAGCTCATAAGAGCCAAATAT
13887257 CGGGAAGCTCATGAA-AGCCAAATAT
1 CGGGAAGCTCAT-AAGAGCCAAATAT
* * *
13887282 CAGGATGCTCATAAGAGCTAAATAAT
1 CGGGAAGCTCATAAGAGCCAAAT-AT
* *
13887308 -GGGAAGCTCGTGAGAGCCAAATAT
1 CGGGAAGCTCATAAGAGCCAAATAT
* * * *
13887332 CGGGATGCTCATAAGCGCTAAATAA
1 CGGGAAGCTCATAAGAGCCAAATAT
*
13887357 CGGAAAGCTC
1 CGGGAAGCTC
13887367 GTGAGAGCTA
Statistics
Matches: 124, Mismatches: 30, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
24 6 0.05
25 114 0.92
26 4 0.03
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (25 bp):
CGGGAAGCTCATAAGAGCCAAATAT
Found at i:13887261 original size:75 final size:75
Alignment explanation
Indices: 13887197--13887336 Score: 174
Period size: 75 Copynumber: 1.9 Consensus size: 75
13887187 AACTTATACG
* * ***
13887197 AGCCAATTATCTGGAAGCTCAAAAGAGC-CGTTAATCGGGAAGCTCATGAGAGACAAATATCGGG
1 AGCCAAATATCAGGAAGCTCAAAAGAGCTAAATAAT-GGGAAGCTCATGAGAGACAAATATCGGG
*
13887261 AAGCTCATGAA
65 AAACTCATGAA
* * * *
13887272 AGCCAAATATCAGGATGCTCATAAGAGCTAAATAATGGGAAGCTCGTGAGAGCCAAATATCGGGA
1 AGCCAAATATCAGGAAGCTCAAAAGAGCTAAATAATGGGAAGCTCATGAGAGACAAATATCGGGA
13887337 TGCTCATAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
75 51 0.93
76 4 0.07
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.19
Consensus pattern (75 bp):
AGCCAAATATCAGGAAGCTCAAAAGAGCTAAATAATGGGAAGCTCATGAGAGACAAATATCGGGA
AACTCATGAA
Found at i:13887367 original size:50 final size:50
Alignment explanation
Indices: 13887238--13887374 Score: 186
Period size: 50 Copynumber: 2.7 Consensus size: 50
13887228 TAATCGGGAA
* * * *
13887238 GCTCATGAGAGAC-AAATATCGGGAAGCTCATGAAAGCCAAATATCAGGAT
1 GCTCATAAGAG-CTAAATAACGGGAAGCTCGTGAGAGCCAAATATCAGGAT
* *
13887288 GCTCATAAGAGCTAAATAATGGGAAGCTCGTGAGAGCCAAATATCGGGAT
1 GCTCATAAGAGCTAAATAACGGGAAGCTCGTGAGAGCCAAATATCAGGAT
* *
13887338 GCTCATAAGCGCTAAATAACGGAAAGCTCGTGAGAGC
1 GCTCATAAGAGCTAAATAACGGGAAGCTCGTGAGAGC
13887375 TATGGTATGT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
49 1 0.01
50 76 0.99
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.18
Consensus pattern (50 bp):
GCTCATAAGAGCTAAATAACGGGAAGCTCGTGAGAGCCAAATATCAGGAT
Found at i:13887374 original size:75 final size:75
Alignment explanation
Indices: 13887228--13887376 Score: 178
Period size: 75 Copynumber: 2.0 Consensus size: 75
13887218 AAAGAGCCGT
* *
13887228 TAATCGGGAAGCTCATGAGAGACAAATATCGGGAAGCTCATGAAAGCCAAATATCAGGATGCTCA
1 TAATCGGGAAGCTCATGAGAGACAAATATCGGGAAGCTCAT-AAAGCCAAATAACAGGAAGCTCA
13887293 TAAGAGCTAAA
65 TAAGAGCTAAA
* * *
13887304 TAAT-GGGAAGCTCGTGAGAGCCAAATATCGGGATGCTCAT-AAGCGCTAAATAAC-GGAAAGCT
1 TAATCGGGAAGCTCATGAGAGACAAATATCGGGAAGCTCATAAAGC-C-AAATAACAGG-AAGCT
* *
13887366 CGTGAGAGCTA
63 CATAAGAGCTA
13887377 TGGTATGTCC
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
73 4 0.06
74 3 0.05
75 52 0.83
76 4 0.06
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (75 bp):
TAATCGGGAAGCTCATGAGAGACAAATATCGGGAAGCTCATAAAGCCAAATAACAGGAAGCTCAT
AAGAGCTAAA
Found at i:13893421 original size:75 final size:75
Alignment explanation
Indices: 13893357--13893503 Score: 181
Period size: 75 Copynumber: 2.0 Consensus size: 75
13893347 AGCTTATATG
* *** *
13893357 AGCCAATTATCTAGAA-GCTCAAAAGAGC-CGTTAATCGGGAAGCTCATGAGAGCCAAATATCGG
1 AGCCAAATATC-AGAATGCTCAAAAGAGCTAAATAAT-GGAAAGCTCATGAGAGCCAAATATCGG
13893420 GAAGCTCATGAA
64 GAAGCTCATGAA
* * *
13893432 AGCCAAATATCGGAATGCTCATAAGAGCTAAATAATGGAAAGCTCGTGAGAGCCAAATATCGGGA
1 AGCCAAATATCAGAATGCTCAAAAGAGCTAAATAATGGAAAGCTCATGAGAGCCAAATATCGGGA
*
13893497 TGCTCAT
66 AGCTCAT
13893504 AAGAGCTAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
74 3 0.05
75 54 0.89
76 4 0.07
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (75 bp):
AGCCAAATATCAGAATGCTCAAAAGAGCTAAATAATGGAAAGCTCATGAGAGCCAAATATCGGGA
AGCTCATGAA
Found at i:13893515 original size:75 final size:75
Alignment explanation
Indices: 13893395--13893559 Score: 210
Period size: 75 Copynumber: 2.2 Consensus size: 75
13893385 CGTTAATCGG
* *
13893395 GAAGCTCATGAGAGCCAAATATCGGGAAGCTCATGAAAGCCAAATATC-GGAATGCTCATAAGAG
1 GAAGCTCGTGAGAGCCAAATATCGGGAAGCTCATGAAAGCCAAATAACGGGAA-GCTCATAAGAG
**
13893459 CTAAATAATGGA
65 CTAAAT-ATCAA
* * * *
13893471 -AAGCTCGTGAGAGCCAAATATCGGGATGCTCAT-AAGAGCTAAATAACGGGAAGCTCGTGAGAG
1 GAAGCTCGTGAGAGCCAAATATCGGGAAGCTCATGAA-AGCCAAATAACGGGAAGCTCATAAGAG
13893534 CTAAATATCAA
65 CTAAATATCAA
13893545 GAAGCTCGTGAGAGC
1 GAAGCTCGTGAGAGC
13893560 TATAGTGTGT
Statistics
Matches: 78, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
74 5 0.06
75 69 0.88
76 4 0.05
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (75 bp):
GAAGCTCGTGAGAGCCAAATATCGGGAAGCTCATGAAAGCCAAATAACGGGAAGCTCATAAGAGC
TAAATATCAA
Found at i:13893560 original size:25 final size:25
Alignment explanation
Indices: 13893390--13893561 Score: 186
Period size: 25 Copynumber: 6.9 Consensus size: 25
13893380 AGAGCCGTTA
*
13893390 ATCGGGAAGCTCATGAGAGCCAAAT
1 ATCGGGAAGCTCATGAGAGCTAAAT
* *
13893415 ATCGGGAAGCTCATGAAAGCCAAAT
1 ATCGGGAAGCTCATGAGAGCTAAAT
*
13893440 ATC-GGAATGCTCATAAGAGCTAAAT
1 ATCGGGAA-GCTCATGAGAGCTAAAT
* * *
13893465 AAT-GGAAAGCTCGTGAGAGCCAAAT
1 -ATCGGGAAGCTCATGAGAGCTAAAT
* *
13893490 ATCGGGATGCTCATAAGAGCTAAAT
1 ATCGGGAAGCTCATGAGAGCTAAAT
* *
13893515 AACGGGAAGCTCGTGAGAGCTAAAT
1 ATCGGGAAGCTCATGAGAGCTAAAT
** *
13893540 ATCAAGAAGCTCGTGAGAGCTA
1 ATCGGGAAGCTCATGAGAGCTA
13893562 TAGTGTGTTC
Statistics
Matches: 123, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
24 6 0.05
25 112 0.91
26 5 0.04
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (25 bp):
ATCGGGAAGCTCATGAGAGCTAAAT
Found at i:13902258 original size:3 final size:3
Alignment explanation
Indices: 13902250--13902339 Score: 87
Period size: 3 Copynumber: 30.0 Consensus size: 3
13902240 AGAATAACAT
* * * *
13902250 TAA TAA TAA TGA TGA TAA TGA TAA TAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
13902298 CAA TAA TAA TCAA -AA CTAA TTAA T-A TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA T-AA TAA -TAA -TAA TAA TAA TAA TAA TAA TAA TAA
13902340 GTAAATAAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
2 6 0.08
3 60 0.82
4 7 0.10
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:13904286 original size:5 final size:5
Alignment explanation
Indices: 13904278--13904314 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
13904268 AAAAATCTTG
13904278 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA
13904315 TATGATGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:13923964 original size:89 final size:90
Alignment explanation
Indices: 13923813--13923993 Score: 355
Period size: 89 Copynumber: 2.0 Consensus size: 90
13923803 CAGATATGTA
13923813 TACATATGATAATACCTACTCAAATCTAATATAATATTACCACAAATGGCACTTTTAATCTATTA
1 TACATATGATAATACCTACTCAAATCTAATATAATATTACCACAAATGGCACTTTTAATCTATTA
13923878 CCACATCATTGATA-TTTTAAAAAT
66 CCACATCATTGATATTTTTAAAAAT
13923902 TACATATGATAATACCTACTCAAATCTAATATAATATTACCACAAATGGCACTTTTAATCTATTA
1 TACATATGATAATACCTACTCAAATCTAATATAATATTACCACAAATGGCACTTTTAATCTATTA
13923967 CCACATCATTGATATTTTTAAAAAT
66 CCACATCATTGATATTTTTAAAAAT
13923992 TA
1 TA
13923994 AAAAAATAAA
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 79 0.87
90 12 0.13
ACGTcount: A:0.41, C:0.18, G:0.04, T:0.36
Consensus pattern (90 bp):
TACATATGATAATACCTACTCAAATCTAATATAATATTACCACAAATGGCACTTTTAATCTATTA
CCACATCATTGATATTTTTAAAAAT
Found at i:13928131 original size:13 final size:13
Alignment explanation
Indices: 13928113--13928139 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13928103 TTTCGGTTTA
13928113 ATTTAAACAATAT
1 ATTTAAACAATAT
13928126 ATTTAAACAATAT
1 ATTTAAACAATAT
13928139 A
1 A
13928140 GTTGTTTTTA
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:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTTAAACAATAT
Found at i:13928390 original size:97 final size:97
Alignment explanation
Indices: 13928224--13928459 Score: 472
Period size: 97 Copynumber: 2.4 Consensus size: 97
13928214 TTAAATTATG
13928224 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATGTCCAAATTTAAGATTAAATCTG
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATGTCCAAATTTAAGATTAAATCTG
13928289 CATATTTTAATTAAAATATAATTCGGTACTTA
66 CATATTTTAATTAAAATATAATTCGGTACTTA
13928321 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATGTCCAAATTTAAGATTAAATCTG
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATGTCCAAATTTAAGATTAAATCTG
13928386 CATATTTTAATTAAAATATAATTCGGTACTTA
66 CATATTTTAATTAAAATATAATTCGGTACTTA
13928418 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAAT
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAAT
13928460 TGTTATTAAA
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 139 1.00
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (97 bp):
TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATGTCCAAATTTAAGATTAAATCTG
CATATTTTAATTAAAATATAATTCGGTACTTA
Found at i:13928532 original size:23 final size:23
Alignment explanation
Indices: 13928497--13928541 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13928487 CCTTATTTAA
**
13928497 TTCAAATTGATTAT-AATATTATT
1 TTCAAATAAATTATCAA-ATTATT
13928520 TTCAAATAAATTATCAAATTAT
1 TTCAAATAAATTATCAAATTAT
13928542 AAAATGACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (23 bp):
TTCAAATAAATTATCAAATTATT
Found at i:13931565 original size:16 final size:16
Alignment explanation
Indices: 13931540--13931575 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
13931530 GATTTGCTAT
*
13931540 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
13931556 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
13931572 TACA
1 TACA
13931576 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:13933170 original size:26 final size:26
Alignment explanation
Indices: 13933141--13933192 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
13933131 AAAATGTACG
13933141 TGGATGAGTACAAGAGAGAGTTTATT
1 TGGATGAGTACAAGAGAGAGTTTATT
13933167 TGGATGAGTACAAGAGAGAGTTTATT
1 TGGATGAGTACAAGAGAGAGTTTATT
13933193 AGACTTAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.31, T:0.31
Consensus pattern (26 bp):
TGGATGAGTACAAGAGAGAGTTTATT
Found at i:13936705 original size:16 final size:16
Alignment explanation
Indices: 13936665--13936706 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
13936655 TTTTAAATCG
*
13936665 CAAAAATCCACTAAAT
1 CAAAAATTCACTAAAT
*
13936681 CACAAAATTCACTAATT
1 CA-AAAATTCACTAAAT
13936698 CAAAAATTC
1 CAAAAATTC
13936707 TTCTAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (16 bp):
CAAAAATTCACTAAAT
Found at i:13941260 original size:19 final size:19
Alignment explanation
Indices: 13941236--13941277 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
13941226 CGAAATTTGG
13941236 AATAAATAAATAATAAA-AT
1 AATAAA-AAATAATAAATAT
*
13941255 AATAAAACATAATAAATAT
1 AATAAAAAATAATAAATAT
13941274 AATA
1 AATA
13941278 TTGGACTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAAAAAATAATAAATAT
Found at i:13941653 original size:24 final size:24
Alignment explanation
Indices: 13941621--13941668 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
13941611 ATCAAAATAG
13941621 AATGATTTTCATTCTCATCTTCTT
1 AATGATTTTCATTCTCATCTTCTT
13941645 AATGATTTTCATTCTCATCTTCTT
1 AATGATTTTCATTCTCATCTTCTT
13941669 CTCTGAAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.04, T:0.54
Consensus pattern (24 bp):
AATGATTTTCATTCTCATCTTCTT
Found at i:13942806 original size:19 final size:19
Alignment explanation
Indices: 13942784--13942825 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
13942774 AATTCATGAA
13942784 CATTTAACTAA-TATCATAT
1 CATTTAACTAATTATCA-AT
* *
13942803 CATTTCAGTAATTATCAAT
1 CATTTAACTAATTATCAAT
13942822 CATT
1 CATT
13942826 CATATTCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.43
Consensus pattern (19 bp):
CATTTAACTAATTATCAAT
Found at i:13943457 original size:15 final size:16
Alignment explanation
Indices: 13943437--13943468 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13943427 TACTTTAACA
13943437 CCCATTT-CCCCATTT
1 CCCATTTCCCCCATTT
13943452 CCCATTTCCCCCATTT
1 CCCATTTCCCCCATTT
13943468 C
1 C
13943469 TCGTTTACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.12, C:0.50, G:0.00, T:0.38
Consensus pattern (16 bp):
CCCATTTCCCCCATTT
Found at i:13943566 original size:17 final size:17
Alignment explanation
Indices: 13943544--13943583 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 17
13943534 CCTTCACCTT
13943544 CACCTCCGGCACCAATC
1 CACCTCCGGCACCAATC
*
13943561 CACCT-C--CACCGATC
1 CACCTCCGGCACCAATC
13943575 CACCTCCGG
1 CACCTCCGG
13943584 TCCTCCACGG
Statistics
Matches: 19, Mismatches: 1, Indels: 6
0.73 0.04 0.23
Matches are distributed among these distances:
14 12 0.63
15 1 0.05
16 1 0.05
17 5 0.26
ACGTcount: A:0.20, C:0.55, G:0.12, T:0.12
Consensus pattern (17 bp):
CACCTCCGGCACCAATC
Found at i:13945638 original size:24 final size:24
Alignment explanation
Indices: 13945611--13945658 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
13945601 GGAATTTTAA
*
13945611 GTTTTAAATTGTTTAAACTGAATT
1 GTTTTAAATTGTTTAAACTCAATT
13945635 GTTTTAAATTGTTTAAACTCAATT
1 GTTTTAAATTGTTTAAACTCAATT
13945659 TTTAAGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.50
Consensus pattern (24 bp):
GTTTTAAATTGTTTAAACTCAATT
Found at i:13954549 original size:16 final size:17
Alignment explanation
Indices: 13954528--13954563 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
13954518 ATAAAAATAG
13954528 AAATATCTT-TACATTT
1 AAATATCTTATACATTT
*
13954544 AAATATTTTATACATTT
1 AAATATCTTATACATTT
13954561 AAA
1 AAA
13954564 AAAAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATATCTTATACATTT
Found at i:13959104 original size:15 final size:14
Alignment explanation
Indices: 13959075--13959138 Score: 58
Period size: 15 Copynumber: 4.5 Consensus size: 14
13959065 ATATAAAATA
*
13959075 GGTTCACAC-GAAG
1 GGTTCACACATAAG
13959088 GGTTCACACATACAG
1 GGTTCACACATA-AG
* *
13959103 GGTTCTCACATATG
1 GGTTCACACATAAG
* *
13959117 GGTTCTCACATGTAG
1 GGTTCACACAT-AAG
13959132 GGTTCAC
1 GGTTCAC
13959139 TGTAACACTC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
13 9 0.21
14 13 0.31
15 20 0.48
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (14 bp):
GGTTCACACATAAG
Found at i:13959121 original size:14 final size:15
Alignment explanation
Indices: 13959086--13959127 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
13959076 GTTCACACGA
*
13959086 AGGGTTCACACATAC
1 AGGGTTCTCACATAC
13959101 AGGGTTCTCACATA-
1 AGGGTTCTCACATAC
*
13959115 TGGGTTCTCACAT
1 AGGGTTCTCACAT
13959128 GTAGGGTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (15 bp):
AGGGTTCTCACATAC
Found at i:13961067 original size:15 final size:15
Alignment explanation
Indices: 13961047--13961085 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
13961037 CATTGACACT
*
13961047 TATAGGGTT-TGCACG
1 TATAGGGTTAT-CACA
13961062 TATAGGGTTATCACA
1 TATAGGGTTATCACA
13961077 TATAGGGTT
1 TATAGGGTT
13961086 CGAATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 21 0.95
16 1 0.05
ACGTcount: A:0.26, C:0.10, G:0.28, T:0.36
Consensus pattern (15 bp):
TATAGGGTTATCACA
Found at i:13961172 original size:16 final size:16
Alignment explanation
Indices: 13961153--13961235 Score: 64
Period size: 16 Copynumber: 5.4 Consensus size: 16
13961143 TCGCATTCAT
*
13961153 GGGTTCGCATGTAAGG
1 GGGTTCGCATGCAAGG
* *
13961169 GGGTTCACAT--ATGG
1 GGGTTCGCATGCAAGG
* *
13961183 GGGTCCGCATGCAAGA
1 GGGTTCGCATGCAAGG
* *
13961199 GGGTTCACTTGCAAGG
1 GGGTTCGCATGCAAGG
* *
13961215 GGGTTCGC-TACAAGA
1 GGGTTCGCATGCAAGG
13961230 GGGTTC
1 GGGTTC
13961236 ACATATGGGA
Statistics
Matches: 52, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
14 11 0.21
15 11 0.21
16 30 0.58
ACGTcount: A:0.20, C:0.18, G:0.39, T:0.23
Consensus pattern (16 bp):
GGGTTCGCATGCAAGG
Found at i:13961233 original size:15 final size:16
Alignment explanation
Indices: 13961194--13961237 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
13961184 GGTCCGCATG
*
13961194 CAAGAGGGTTCACTTG
1 CAAGAGGGTTCACTTA
* *
13961210 CAAGGGGGTTCGC-TA
1 CAAGAGGGTTCACTTA
13961225 CAAGAGGGTTCAC
1 CAAGAGGGTTCAC
13961238 ATATGGGAGT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.20
Consensus pattern (16 bp):
CAAGAGGGTTCACTTA
Found at i:13962759 original size:16 final size:17
Alignment explanation
Indices: 13962729--13962761 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13962719 TAGAAAATAT
13962729 TTTTATTATACTAATTA
1 TTTTATTATACTAATTA
*
13962746 TTTT-TTATAGTAATTA
1 TTTTATTATACTAATTA
13962762 ATATTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTTATTATACTAATTA
Found at i:13967680 original size:79 final size:77
Alignment explanation
Indices: 13967542--13967697 Score: 240
Period size: 79 Copynumber: 2.0 Consensus size: 77
13967532 ATGGAAATTA
* *
13967542 ATATTATTTTGGAAAGAATATATTTCATTTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAA
1 ATATTATTTTGGAAAAAATATATTCCATTTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAA
13967607 GGGAATAATCCT
66 GGGAATAATCCT
* * * *
13967619 ATATTCTTTTGGAAAAAATATAATTCCTTTTTTTTTCTAGCTTTTCATTTGCCTTCTCTATTAAT
1 ATATTATTTTGGAAAAAATAT-ATTCC-ATTTTTTTCTAACTTTCCATTTGCCTTCTCTATTAAT
13967684 AAGGGAATAATCCT
64 AAGGGAATAATCCT
13967698 GATTTTCCCT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
77 19 0.27
78 4 0.06
79 48 0.68
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (77 bp):
ATATTATTTTGGAAAAAATATATTCCATTTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAA
GGGAATAATCCT
Found at i:13979358 original size:49 final size:50
Alignment explanation
Indices: 13979292--13979390 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 50
13979282 TGAGATTTCA
13979292 CTACGAACGTAATATAATACCATAGAAATTAAATAAATATTAAAATAATAT
1 CTACGAACG-AATATAATACCATAGAAATTAAATAAATATTAAAATAATAT
13979343 CTACGAAC-AATATAATACCATAGAAATTAAATAAATATTAAAATAATA
1 CTACGAACGAATATAATACCATAGAAATTAAATAAATATTAAAATAATA
13979391 ATTTACTCAT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
49 40 0.83
51 8 0.17
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (50 bp):
CTACGAACGAATATAATACCATAGAAATTAAATAAATATTAAAATAATAT
Found at i:13980754 original size:10 final size:11
Alignment explanation
Indices: 13980734--13980759 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13980724 CTAAATAAAA
13980734 TTTTTCTTTTT
1 TTTTTCTTTTT
13980745 TTTTTCTTTTT
1 TTTTTCTTTTT
13980756 TTTT
1 TTTT
13980760 AACCTTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:13986343 original size:43 final size:43
Alignment explanation
Indices: 13986277--13986431 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 43
13986267 AACTCGTACA
13986277 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCATATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCATATATCG
* ** * *
13986320 ATGCCACTGTCCCAGACAG-GGTCTTACA-CAAATGAAATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCATATATCG
* * *
13986361 ATGCCAATGTCCCAGACATGGTCTTTCATGTCCA-CATA-AGTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACATGT-AATCATATA-TCG
*
13986404 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
13986432 CGAAAACACA
Statistics
Matches: 90, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
41 27 0.30
42 9 0.10
43 53 0.59
44 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCATATATCG
Found at i:13986375 original size:41 final size:43
Alignment explanation
Indices: 13986277--13986385 Score: 134
Period size: 41 Copynumber: 2.6 Consensus size: 43
13986267 AACTCGTACA
** *
13986277 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCATATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATCAAATCAAATATCG
* *
13986320 ATGCCACTGTCCCAGACAGGGTCTTACA-CAAATGAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACATCAAATCAAATATCG
*
13986361 ATGCCAATGTCCCAGACATGGTCTT
1 ATGCCAATGTCCCAGACAGGGTCTT
13986386 TCATGTCCAC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 25 0.43
42 7 0.12
43 25 0.43
44 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATCAAATCAAATATCG
Found at i:13986418 original size:84 final size:84
Alignment explanation
Indices: 13986277--13986432 Score: 221
Period size: 84 Copynumber: 1.9 Consensus size: 84
13986267 AACTCGTACA
*
13986277 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCATATATCGATGCCACTGTCCCAGACAG-GG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCATATATCGATGCCACTGTCCCAGAC-GTGG
13986341 TCTTACACAAATGAAATACG
65 TCTTACACAAATGAAATACG
* *
13986361 ATGCCAATGTCCCAGACATGGTCTTTCATGTCCA-CATA-AGTCGATGCCAAC-GTCCCAGACGT
1 ATGCCAATGTCCCAGACATGGTCTTACATGT-AATCATATA-TCGATGCC-ACTGTCCCAGACGT
13986423 GGTCTTACAC
63 GGTCTTACAC
13986433 GAAAACACAG
Statistics
Matches: 65, Mismatches: 3, Indels: 8
0.86 0.04 0.11
Matches are distributed among these distances:
83 2 0.03
84 60 0.92
85 3 0.05
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (84 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCATATATCGATGCCACTGTCCCAGACGTGGT
CTTACACAAATGAAATACG
Found at i:13987604 original size:14 final size:15
Alignment explanation
Indices: 13987585--13987613 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13987575 TCATGAAACT
13987585 TTCACACAT-ATAAA
1 TTCACACATAATAAA
13987599 TTCACACATAATAAA
1 TTCACACATAATAAA
13987614 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:13993816 original size:27 final size:26
Alignment explanation
Indices: 13993773--13993847 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
13993763 TCATCCCAAA
*
13993773 TTTA-CCCCAGTAAAATTTTTGACGAT
1 TTTACCCCCAATAAAA-TTTTGACGAT
* *
13993799 TTTACCCCCAATATAATTTTGATGAT
1 TTTACCCCCAATAAAATTTTGACGAT
* *
13993825 TTTACCCCTCGATAAAGTTTTGA
1 TTTACCCC-CAATAAAATTTTGA
13993848 GAAAATTCAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 21 0.51
27 20 0.49
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (26 bp):
TTTACCCCCAATAAAATTTTGACGAT
Found at i:14005154 original size:32 final size:32
Alignment explanation
Indices: 14005118--14005178 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
14005108 AATGAAATGT
14005118 ATGGGCTGCTATGAACATATATGATATTCAGA
1 ATGGGCTGCTATGAACATATATGATATTCAGA
14005150 ATGGGCTGCTATGAACATATATGATATTC
1 ATGGGCTGCTATGAACATATATGATATTC
14005179 GGATAGGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (32 bp):
ATGGGCTGCTATGAACATATATGATATTCAGA
Found at i:14008414 original size:38 final size:37
Alignment explanation
Indices: 14008372--14008473 Score: 123
Period size: 37 Copynumber: 2.7 Consensus size: 37
14008362 ACAATCTACT
* ** *
14008372 TTAAGATTTCTACCTAAGATTTTAAGATCGTAACTCCC
1 TTAAGGTTTCTACCTAA-ACCTTAAGATCGCAACTCCC
* * *
14008410 TTAAGGTTTCTACCCAAACCTTAAGATTGCAACTTCC
1 TTAAGGTTTCTACCTAAACCTTAAGATCGCAACTCCC
*
14008447 TTATGGTTTCTACCTAAACCTTAAGAT
1 TTAAGGTTTCTACCTAAACCTTAAGAT
14008474 ACAACCCTCT
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
37 40 0.73
38 15 0.27
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (37 bp):
TTAAGGTTTCTACCTAAACCTTAAGATCGCAACTCCC
Found at i:14009502 original size:11 final size:11
Alignment explanation
Indices: 14009486--14009512 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
14009476 TAGAATTTTC
14009486 AAAAATTATAA
1 AAAAATTATAA
14009497 AAAAATTATAA
1 AAAAATTATAA
14009508 AAAAA
1 AAAAA
14009513 ACAACAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:14011981 original size:30 final size:31
Alignment explanation
Indices: 14011936--14011995 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
14011926 AGAGGTGGGA
*
14011936 TGGGAAGGGAATAAAAGTTTTAGG-GGAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGAGGAAAAG
*
14011967 TGGG-AGGGAGTAAAAATTTTGGAGGAAAA
1 TGGGAAGGGAATAAAAATTTTGGAGGAAAA
14011996 TAAAATGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 2 0.08
30 20 0.77
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGAGGAAAAG
Found at i:14018288 original size:22 final size:22
Alignment explanation
Indices: 14018263--14018308 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
14018253 GTTGTTTCTT
14018263 TTAGTCCTATGTTCAAGCTTTG
1 TTAGTCCTATGTTCAAGCTTTG
*
14018285 TTAGTCCTATGTTCGAGCTTTG
1 TTAGTCCTATGTTCAAGCTTTG
14018307 TT
1 TT
14018309 GTACGTAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.17, G:0.20, T:0.48
Consensus pattern (22 bp):
TTAGTCCTATGTTCAAGCTTTG
Found at i:14024488 original size:20 final size:19
Alignment explanation
Indices: 14024444--14024487 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
14024434 GTAACAATCG
14024444 TTTTTTATTATTTTTTTAA
1 TTTTTTATTATTTTTTTAA
*
14024463 ATTTTTATTTATTTTTTT-A
1 TTTTTTA-TTATTTTTTTAA
14024482 TTTTTT
1 TTTTTT
14024488 TTCCAAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTTATTATTTTTTTAA
Found at i:14036130 original size:114 final size:114
Alignment explanation
Indices: 14035918--14036147 Score: 415
Period size: 114 Copynumber: 2.0 Consensus size: 114
14035908 CTATAATTAG
14035918 TCATTTCTACAATTTAGCCAAGTAAGTTCATAGTGATTTGTTATTTAATATAATTCACTTGTGAT
1 TCATTTCTACAATTTAGCCAAGTAAGTTCATAGTGATTTGTTATTTAATATAATTCACTTGTGAT
*
14035983 TATTATTTTTTCTCTAATTATTTGATTTATATATATGTGAAATTACTTC
66 TATTATTTTTTCTCTAATTAATTGATTTATATATATGTGAAATTACTTC
* *
14036032 TCATTTCTACAATTTAGCTAGGTAAGTTCATAGTGATTTGTTATTTAATATAATTCACTTGTGAT
1 TCATTTCTACAATTTAGCCAAGTAAGTTCATAGTGATTTGTTATTTAATATAATTCACTTGTGAT
14036097 TATTATTTTTGTTCTCTAATTAATTGATTTATATATATGTGAAATTACTTC
66 TATTA-TTTT-TTCTCTAATTAATTGATTTATATATATGTGAAATTACTTC
14036148 GGTTATTTAT
Statistics
Matches: 111, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
114 68 0.61
115 4 0.04
116 39 0.35
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (114 bp):
TCATTTCTACAATTTAGCCAAGTAAGTTCATAGTGATTTGTTATTTAATATAATTCACTTGTGAT
TATTATTTTTTCTCTAATTAATTGATTTATATATATGTGAAATTACTTC
Found at i:14036364 original size:20 final size:20
Alignment explanation
Indices: 14036313--14036417 Score: 60
Period size: 20 Copynumber: 5.2 Consensus size: 20
14036303 TACTTCGGTA
*
14036313 CCCCTGAATGCACATTTG-TG
1 CCCCTGAATGCAC-TTCGATG
* **
14036333 CCCTTGTTTGCACTTCGATG
1 CCCCTGAATGCACTTCGATG
14036353 CCCCTGAATGCACATAT-G-TG
1 CCCCTGAATGCAC-T-TCGATG
*
14036373 CCCCT-AATTGCA-TTTGAATG
1 CCCCTGAA-TGCACTTCG-ATG
*
14036393 CCCCTGATTGCACTTC-AGTG
1 CCCCTGAATGCACTTCGA-TG
14036413 CCCCT
1 CCCCT
14036418 ATTATACATC
Statistics
Matches: 66, Mismatches: 9, Indels: 20
0.69 0.09 0.21
Matches are distributed among these distances:
17 1 0.02
18 2 0.03
19 6 0.09
20 51 0.77
21 5 0.08
22 1 0.02
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.31
Consensus pattern (20 bp):
CCCCTGAATGCACTTCGATG
Found at i:14036384 original size:40 final size:40
Alignment explanation
Indices: 14036290--14036420 Score: 131
Period size: 40 Copynumber: 3.3 Consensus size: 40
14036280 AAATGAAGAA
* * * * *
14036290 GTGCCCCTGTTTGTACTTCGGTACCCCTGAATGCACATTT
1 GTGCCCCTATTTGCACTTCGATGCCCCTGAATGCACATAT
* *
14036330 GTGCCCTTGTTTGCACTTCGATGCCCCTGAATGCACATAT
1 GTGCCCCTATTTGCACTTCGATGCCCCTGAATGCACATAT
* * * *
14036370 GTGCCCCTAATTGCA-TTTGAATGCCCCTGATTGCACTTCA-
1 GTGCCCCTATTTGCACTTCG-ATGCCCCTGAATGCACAT-AT
14036410 GTGCCCCTATT
1 GTGCCCCTATT
14036421 ATACATCTAT
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.95
41 1 0.01
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.34
Consensus pattern (40 bp):
GTGCCCCTATTTGCACTTCGATGCCCCTGAATGCACATAT
Found at i:14037307 original size:33 final size:33
Alignment explanation
Indices: 14037267--14037374 Score: 216
Period size: 33 Copynumber: 3.3 Consensus size: 33
14037257 TGATGCCTTG
14037267 ATGGTTGGTATGCTTTTGGCACTTTGATACTTA
1 ATGGTTGGTATGCTTTTGGCACTTTGATACTTA
14037300 ATGGTTGGTATGCTTTTGGCACTTTGATACTTA
1 ATGGTTGGTATGCTTTTGGCACTTTGATACTTA
14037333 ATGGTTGGTATGCTTTTGGCACTTTGATACTTA
1 ATGGTTGGTATGCTTTTGGCACTTTGATACTTA
14037366 ATGGTTGGT
1 ATGGTTGGT
14037375 GTTGTATGGT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 75 1.00
ACGTcount: A:0.18, C:0.11, G:0.26, T:0.45
Consensus pattern (33 bp):
ATGGTTGGTATGCTTTTGGCACTTTGATACTTA
Found at i:14041365 original size:67 final size:65
Alignment explanation
Indices: 14041239--14041531 Score: 253
Period size: 67 Copynumber: 4.4 Consensus size: 65
14041229 ATAGGCTGTA
** * * * *****
14041239 ATGGGGTATAATGTGTAAGACCATAGCTCAGCTATGGTAGCAGAGAGAGTTTGTTAGAACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTC-GCTATGACAACATAG-GAATCCACCAGAACATTAA
14041304 AC
64 AC
* * *
14041306 ATGGGGTATAATGTGTAAGACCATAGCTATGCTACGATAACATAGCGAATCCACCAGAACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCT-CGCTATGACAACATAG-GAATCCACCAGAACATTAA
14041371 AC
64 AC
* * * * * *
14041373 ATGGGGTATAATGCGTAAGACCATAGCTCGGCTATGGCAACATAGAAAGTCCGCTAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTC-GCTATGACAACATAGGAA-TCCACCAGAACATTAA
*
14041438 AT
64 AC
* * * ** *
14041440 ATCGGGTATAAAGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTCTTCCAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCG-CTATGACAACATAG-GAATCCACCAGAACATTAA
14041505 AC
64 AC
* * *
14041507 ATGGGGTATGATGAGTAAAACCATA
1 ATGGGGTATAATGTGTAAGACCATA
14041532 ACTTAGTGAT
Statistics
Matches: 184, Mismatches: 37, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
66 3 0.02
67 180 0.98
68 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (65 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCGCTATGACAACATAGGAATCCACCAGAACATTAAAC
Found at i:14041482 original size:134 final size:134
Alignment explanation
Indices: 14041239--14041531 Score: 354
Period size: 134 Copynumber: 2.2 Consensus size: 134
14041229 ATAGGCTGTA
* * * * ** *
14041239 ATGGGGTATAATGTGTAAGACCATAGCTCAGCTATGGTAGCAGAGAGAGTTTGTTAGAACATTAA
1 ATGGGGTATAATGAGTAAGACCATAGCTCAGCTATGGCAACAGAGAAAGTCCGCTAGAACATTAA
* * * * *
14041304 ACATGGGGTATAATGTGTAAGACCATAGCTATGCTACGATAACATAGCGAATCCACCAGAACATT
66 ACATCGGGTATAAAGTGTAAGACCATAGCTACGCTACGACAACATAGAGAATCCACCAGAACATT
14041369 AAAC
131 AAAC
* * * *
14041373 ATGGGGTATAATGCGTAAGACCATAGCTCGGCTATGGCAACATAGAAAGTCCGCTAGGACATTAA
1 ATGGGGTATAATGAGTAAGACCATAGCTCAGCTATGGCAACAGAGAAAGTCCGCTAGAACATTAA
* * * ** *
14041438 ATATCGGGTATAAAGTGTAAGACCATAGCT-CGACTATGACAACATAGAGAGTCTTCCAGGACAT
66 ACATCGGGTATAAAGTGTAAGACCATAGCTACG-CTACGACAACATAGAGAATCCACCAGAACAT
14041502 TAAAC
130 TAAAC
* *
14041507 ATGGGGTATGATGAGTAAAACCATA
1 ATGGGGTATAATGAGTAAGACCATA
14041532 ACTTAGTGAT
Statistics
Matches: 134, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
133 1 0.01
134 133 0.99
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (134 bp):
ATGGGGTATAATGAGTAAGACCATAGCTCAGCTATGGCAACAGAGAAAGTCCGCTAGAACATTAA
ACATCGGGTATAAAGTGTAAGACCATAGCTACGCTACGACAACATAGAGAATCCACCAGAACATT
AAAC
Found at i:14041558 original size:134 final size:134
Alignment explanation
Indices: 14041239--14041572 Score: 321
Period size: 134 Copynumber: 2.5 Consensus size: 134
14041229 ATAGGCTGTA
* * * * * * * **** *
14041239 ATGGGGTATAATGTGTAAGACCATAGCTCAGCTATGGTAGCAGAGAGAGTTTGTTAGAACATTAA
1 ATGGGGTATAATGAGTAAAACCATAACTCAGCTATGGCAACATAGAAAGTCCACTAGGACATTAA
* * * * *
14041304 ACATGGGGTATAATGTGTAAGACCATAGCTATGCTACGATAACATAGCGAATCCACCAGAACATT
66 ACATCGGGTATAAAGTGTAAGACCATAGCTACGCTACGACAACATAGAGAATCCACCAGAACATT
14041369 AAAC
131 AAAC
* * * * *
14041373 ATGGGGTATAATGCGTAAGACCATAGCTCGGCTATGGCAACATAGAAAGTCCGCTAGGACATTAA
1 ATGGGGTATAATGAGTAAAACCATAACTCAGCTATGGCAACATAGAAAGTCCACTAGGACATTAA
* * * ** *
14041438 ATATCGGGTATAAAGTGTAAGACCATAGCT-CGACTATGACAACATAGAGAGTCTTCCAGGACAT
66 ACATCGGGTATAAAGTGTAAGACCATAGCTACG-CTACGACAACATAGAGAATCCACCAGAACAT
14041502 TAAAC
130 TAAAC
* * * * * *
14041507 ATGGGGTATGATGAGTAAAACCATAACTTAG-TGATGGCAGCATATAGAGTCCACTGGGACAATT
1 ATGGGGTATAATGAGTAAAACCATAACTCAGCT-ATGGCAACATAGAAAGTCCACTAGGAC-ATT
14041571 AA
64 AA
14041573 CGCAGGGTAG
Statistics
Matches: 165, Mismatches: 32, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
133 2 0.01
134 158 0.96
135 5 0.03
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (134 bp):
ATGGGGTATAATGAGTAAAACCATAACTCAGCTATGGCAACATAGAAAGTCCACTAGGACATTAA
ACATCGGGTATAAAGTGTAAGACCATAGCTACGCTACGACAACATAGAGAATCCACCAGAACATT
AAAC
Found at i:14045237 original size:21 final size:22
Alignment explanation
Indices: 14045186--14045237 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
14045176 TATGAAGATA
* *
14045186 AATATTTAATTTAATTTAATATT
1 AATATTT-ATTAAAATTAATATT
*
14045209 AAT-CTTATTAAAATTAATA-T
1 AATATTTATTAAAATTAATATT
14045229 AATATTTAT
1 AATATTTAT
14045238 CTACAAGATA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
20 4 0.17
21 15 0.62
22 2 0.08
23 3 0.12
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
AATATTTATTAAAATTAATATT
Found at i:14045268 original size:62 final size:59
Alignment explanation
Indices: 14045155--14045272 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 59
14045145 ATCACTTTAA
* * * * *
14045155 TATTAAATTTAATCTAATATTTATGAAGATAAATATTTAATTTAATTTAATATTAATCT
1 TATTAAAATTAATATAATATTTATCAAGATAAACATTAAATTTAATTTAATATTAATCT
14045214 TATTAAAATTAATATAATATTTATCTACAAGATAAACATTAAATTTAATTTAATATTAA
1 TATTAAAATTAATATAATATTTA--T-CAAGATAAACATTAAATTTAATTTAATATTAA
14045273 GATAATCACT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
59 21 0.41
61 1 0.02
62 29 0.57
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (59 bp):
TATTAAAATTAATATAATATTTATCAAGATAAACATTAAATTTAATTTAATATTAATCT
Found at i:14051544 original size:24 final size:23
Alignment explanation
Indices: 14051500--14051544 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
14051490 GGGCCGAGAG
* *
14051500 CAGGTTATAAAAACAATGCGTAT
1 CAGGTTAAAAAAACAAAGCGTAT
*
14051523 CAGGTTAAATAAAATAAAGCGT
1 CAGGTTAAA-AAAACAAAGCGT
14051545 TTCATAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 8 0.44
24 10 0.56
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (23 bp):
CAGGTTAAAAAAACAAAGCGTAT
Found at i:14058787 original size:21 final size:21
Alignment explanation
Indices: 14058754--14058797 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
14058744 CACTCATTTC
* * *
14058754 TTTTTTCAGAATTAATTTTAT
1 TTTTTTAAAAATTAATTTCAT
*
14058775 TTTTTTAAAAATTGATTTCAT
1 TTTTTTAAAAATTAATTTCAT
14058796 TT
1 TT
14058798 ACGAAAAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (21 bp):
TTTTTTAAAAATTAATTTCAT
Found at i:14059038 original size:22 final size:22
Alignment explanation
Indices: 14059004--14059045 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14058994 AATTTTTCTA
14059004 TAAAAATCTAAATAATTCCATG
1 TAAAAATCTAAATAATTCCATG
*
14059026 TAAAACATC-AAATTATTCCA
1 TAAAA-ATCTAAATAATTCCA
14059046 CAAAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAAATCTAAATAATTCCATG
Found at i:14071928 original size:2 final size:2
Alignment explanation
Indices: 14071921--14071958 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
14071911 CGTCGTGGAG
14071921 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
14071959 GATTGTTGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14072740 original size:28 final size:28
Alignment explanation
Indices: 14072685--14072740 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
14072675 TTCATAGGTA
* *
14072685 AAGAGGGAAGTCCATCAAGGAATCTCTT
1 AAGAAGGAAGTCCATCAAGGAATATCTT
* * *
14072713 AAGAAGGAAGTCCGTCGAGGACTATCTT
1 AAGAAGGAAGTCCATCAAGGAATATCTT
14072741 GGGTAGAAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (28 bp):
AAGAAGGAAGTCCATCAAGGAATATCTT
Found at i:14074587 original size:18 final size:19
Alignment explanation
Indices: 14074561--14074597 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
14074551 ATTGAAATAG
*
14074561 TTATTATTATTTT-GATTC
1 TTATAATTATTTTAGATTC
14074579 TTATAATTATTTTAGATTC
1 TTATAATTATTTTAGATTC
14074598 ACATGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATAATTATTTTAGATTC
Found at i:14076087 original size:43 final size:43
Alignment explanation
Indices: 14076035--14076261 Score: 226
Period size: 43 Copynumber: 5.3 Consensus size: 43
14076025 CTTTAGAAAT
*
14076035 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATCACCTTTAGCGGCGCTTTTCCCAC
* ** *
14076078 AAATGCCGCTATGGGTCATCACTTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATCACCTTTAGCGGCGCTTTTCCCAC
* * * *
14076121 AAACGCCGCTATAGGTCATCACTTTTAGCAGCGTTTTTCCCAC
1 AAACGCCGCTAAAGGTCATCACCTTTAGCGGCGCTTTTCCCAC
** * * * **
14076164 AAACGCCGCTATAA-AACA-GATCTTTAGCGACGCTTTTTCGTAC
1 AAACGCCGCTA-AAGGTCATCACCTTTAGCGGCGC-TTTTCCCAC
* * * * *
14076207 AAACGCCGCTATAGGACA-AACCTTTAGCTGCGCTTTTCACAC
1 AAACGCCGCTAAAGGTCATCACCTTTAGCGGCGCTTTTCCCAC
14076249 AAACGCCGCTAAA
1 AAACGCCGCTAAA
14076262 AGCATATCTT
Statistics
Matches: 152, Mismatches: 29, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
42 29 0.19
43 122 0.80
44 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATCACCTTTAGCGGCGCTTTTCCCAC
Found at i:14076125 original size:86 final size:86
Alignment explanation
Indices: 14076035--14076273 Score: 252
Period size: 86 Copynumber: 2.8 Consensus size: 86
14076025 CTTTAGAAAT
* * * * ****
14076035 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAATGCCGCTATGGGTCATCA-
1 AAACGCCGCTATAGGTCATAACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTATAAAACA-CAT
*
14076099 CTTTTAGCGGCGC-TTTTCCCAC
65 C-TTTAGCGACGCTTTTTCCCAC
* * * *
14076121 AAACGCCGCTATAGGTCATCACTTTTAGCAGCGTTTTTCCCACAAACGCCGCTATAAAACAGATC
1 AAACGCCGCTATAGGTCATAACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTATAAAACACATC
**
14076186 TTTAGCGACGCTTTTTCGTAC
66 TTTAGCGACGCTTTTTCCCAC
* * * * *
14076207 AAACGCCGCTATAGGACA-AACCTTTAGCTGCGCTTTTCACACAAACGCCGCTA-AAAGCATATC
1 AAACGCCGCTATAGGTCATAACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTATAAAACACATC
14076270 TTTA
66 TTTA
14076274 AAAAAATAAT
Statistics
Matches: 129, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
84 12 0.09
85 41 0.32
86 76 0.59
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (86 bp):
AAACGCCGCTATAGGTCATAACCTTTAGCAGCGCTTTTCCCACAAACGCCGCTATAAAACACATC
TTTAGCGACGCTTTTTCCCAC
Found at i:14076251 original size:85 final size:84
Alignment explanation
Indices: 14076101--14076273 Score: 222
Period size: 85 Copynumber: 2.0 Consensus size: 84
14076091 GGTCATCACT
* * * * * *
14076101 TTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGGTCATCACTTTTAGCAGCGTTTTTCCCACAA
1 TTTAGCGACGCTTTTCCCACAAACGCCGCTATAGGACATAACCTTTAGCAGCGCTTTTCACACAA
14076166 ACGCCGCTATAAAACAGATC
66 ACGCCGCTA-AAAACAGATC
** *
14076186 TTTAGCGACGCTTTTTCGTACAAACGCCGCTATAGGACA-AACCTTTAGCTGCGCTTTTCACACA
1 TTTAGCGACGC-TTTTCCCACAAACGCCGCTATAGGACATAACCTTTAGCAGCGCTTTTCACACA
* *
14076250 AACGCCGCTAAAAGCATATC
65 AACGCCGCTAAAAACAGATC
14076270 TTTA
1 TTTA
14076274 AAAAAATAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
84 12 0.16
85 40 0.53
86 24 0.32
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (84 bp):
TTTAGCGACGCTTTTCCCACAAACGCCGCTATAGGACATAACCTTTAGCAGCGCTTTTCACACAA
ACGCCGCTAAAAACAGATC
Found at i:14076606 original size:43 final size:43
Alignment explanation
Indices: 14076529--14076612 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 43
14076519 ACATATGCAA
* * ** *
14076529 GGTAATAAAACATACAATGCATTTTCTTGGTCAAGTAAATCTT
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
* *
14076572 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATC
1 GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATC
14076613 GTGTAATGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (43 bp):
GGTAATAAAACATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:14079077 original size:3 final size:3
Alignment explanation
Indices: 14079069--14079106 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
14079059 AAAGTATCGC
14079069 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14079107 TTAGTGTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14079851 original size:20 final size:21
Alignment explanation
Indices: 14079803--14079855 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
14079793 GGGGGTTTCA
*
14079803 AGGGGGAAAATTAGGGATTTT
1 AGGGGGAAAATTAGGGATATT
* *
14079824 AGGGGGAAAGTTGGGGATATT
1 AGGGGGAAAATTAGGGATATT
14079845 A-GGGGAAAATT
1 AGGGGGAAAATT
14079856 TATAAAATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.34, C:0.00, G:0.42, T:0.25
Consensus pattern (21 bp):
AGGGGGAAAATTAGGGATATT
Found at i:14080790 original size:20 final size:21
Alignment explanation
Indices: 14080752--14080792 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14080742 CCTAACCCCT
*
14080752 AACCCCTAAACCTTAAATCTC
1 AACCCCTAAACCATAAATCTC
*
14080773 AACCCTTAAACCAT-AATCTC
1 AACCCCTAAACCATAAATCTC
14080793 TAGTCCATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (21 bp):
AACCCCTAAACCATAAATCTC
Found at i:14080953 original size:297 final size:302
Alignment explanation
Indices: 14080603--14081209 Score: 931
Period size: 311 Copynumber: 2.0 Consensus size: 302
14080593 CAATATATTT
*
14080603 AATTTATTATTATCTCTTTTACAATTATATAAGAACATGTTTAAAATATAAATTAAAAAAATAAT
1 AATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAAT
* *
14080668 TAATTTAAACCCAAAACCCTAACCCGACCCCTGAATCCCTAAACCTTAAATCCCTAGCTCTTAAC
66 TAATCTAAACCCAAAACCCTAACCCGACCCCTGAATCCCTAAACCCTAAATCCCTAGCTCTTAAC
* *
14080733 CCCTAA-C-A-T-C-CTAACCCCTAACCCCTAAACCTTAAATCTCAACCCTTAAACCATAAT-CT
131 CCCTAACCAACTACACTAACCCCTAACCCCTAAACCTTAAAACCCAACCCTTAAACCATAATCCT
* *
14080792 CTAGTCCATAATCCCTAAATCCATACCCCCTAAACCTTAAAATA-TGAACTCCTAAACCGGCCTT
196 -TAATCCATAATCCCTAAATCCATACCCCCTAAACCTTAAAATAGT-AACTCCTAAACCGACCTT
*
14080856 AAATCTTAAATTAATCATATAACCTAAACTAAAAACCCTAAACA
259 AAATCTTAAATAAATCATATAACCTAAACTAAAAACCCTAAACA
*
14080900 AATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTGAAATATAAATTAAAAAAATAAT
1 AATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAAT
**
14080965 TAATCTAAACCCAAAACCCTAACTTGACCCCTGAATCCCTAAACCCTAAATCCCTAGCTCTTAAC
66 TAATCTAAACCCAAAACCCTAACCCGACCCCTGAATCCCTAAACCCTAAATCCCTAGCTCTTAAC
*
14081030 CCCTAACGTCTAACCCCTAAACCACTAACCCCTAACCCCTAAACCTTAAAACCCAGCCCTTAAAC
131 CCCTAAC--C-AA---CT--A-CACTAACCCCTAACCCCTAAACCTTAAAACCCAACCCTTAAAC
* *
14081095 CATAATCCTTAATCCATAATCCCTAAATCCATACTCCCTAAACCTTAAACTAGTAACTCCTAAAC
187 CATAATCCTTAATCCATAATCCCTAAATCCATACCCCCTAAACCTTAAAATAGTAACTCCTAAAC
*
14081160 CGACCTTAAATCTTAAATAAATCATATACCCTAAACTAAAAACCCTAAAC
252 CGACCTTAAATCTTAAATAAATCATATAACCTAAACTAAAAACCCTAAAC
14081210 TATAGTGATA
Statistics
Matches: 279, Mismatches: 15, Indels: 18
0.89 0.05 0.06
Matches are distributed among these distances:
297 130 0.47
300 1 0.00
302 1 0.00
306 1 0.00
310 1 0.00
311 142 0.51
312 3 0.01
ACGTcount: A:0.41, C:0.29, G:0.03, T:0.27
Consensus pattern (302 bp):
AATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAAATAAT
TAATCTAAACCCAAAACCCTAACCCGACCCCTGAATCCCTAAACCCTAAATCCCTAGCTCTTAAC
CCCTAACCAACTACACTAACCCCTAACCCCTAAACCTTAAAACCCAACCCTTAAACCATAATCCT
TAATCCATAATCCCTAAATCCATACCCCCTAAACCTTAAAATAGTAACTCCTAAACCGACCTTAA
ATCTTAAATAAATCATATAACCTAAACTAAAAACCCTAAACA
Found at i:14081049 original size:7 final size:7
Alignment explanation
Indices: 14081026--14081071 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
14081016 CCCTAGCTCT
14081026 TAACCCC
1 TAACCCC
**
14081033 TAACGTC
1 TAACCCC
14081040 TAACCCC
1 TAACCCC
*
14081047 TAAACCAC
1 T-AACCCC
14081055 TAACCCC
1 TAACCCC
14081062 TAACCCC
1 TAACCCC
14081069 TAA
1 TAA
14081072 ACCTTAAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
7 26 0.81
8 6 0.19
ACGTcount: A:0.35, C:0.46, G:0.02, T:0.17
Consensus pattern (7 bp):
TAACCCC
Found at i:14081059 original size:15 final size:15
Alignment explanation
Indices: 14081026--14081064 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
14081016 CCCTAGCTCT
**
14081026 TAACCCCT-AACGTC
1 TAACCCCTAAACCAC
14081040 TAACCCCTAAACCAC
1 TAACCCCTAAACCAC
14081055 TAACCCCTAA
1 TAACCCCTAA
14081065 CCCCTAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.36, C:0.44, G:0.03, T:0.18
Consensus pattern (15 bp):
TAACCCCTAAACCAC
Found at i:14081104 original size:14 final size:14
Alignment explanation
Indices: 14081090--14081138 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
14081080 ACCCAGCCCT
*
14081090 TAAACCATAATCCT
1 TAAACCATAATCCC
*
14081104 TAATCCATAATCCC
1 TAAACCATAATCCC
*
14081118 TAAATCCATACTCCC
1 TAAA-CCATAATCCC
14081133 TAAACC
1 TAAACC
14081139 TTAAACTAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.39, C:0.35, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:14081125 original size:15 final size:15
Alignment explanation
Indices: 14081090--14081136 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
14081080 ACCCAGCCCT
14081090 TAAA-CCATAAT-CC
1 TAAATCCATAATCCC
*
14081103 TTAATCCATAATCCC
1 TAAATCCATAATCCC
*
14081118 TAAATCCATACTCCC
1 TAAATCCATAATCCC
14081133 TAAA
1 TAAA
14081137 CCTTAAACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 3 0.10
14 7 0.24
15 19 0.66
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:14081370 original size:23 final size:25
Alignment explanation
Indices: 14081343--14081397 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
14081333 TAAATAATAG
*
14081343 TATTTTAATT-TTTCCATGTGTT-T
1 TATTTTAATTATTTCCACGTGTTAT
* *
14081366 TATTTCAAATTATTTCTACGTGTTAT
1 TATTT-TAATTATTTCCACGTGTTAT
14081392 TATTTT
1 TATTTT
14081398 TTCTGAAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 5 0.20
24 4 0.16
25 10 0.40
26 6 0.24
ACGTcount: A:0.22, C:0.09, G:0.07, T:0.62
Consensus pattern (25 bp):
TATTTTAATTATTTCCACGTGTTAT
Found at i:14081526 original size:41 final size:41
Alignment explanation
Indices: 14081481--14081799 Score: 350
Period size: 41 Copynumber: 7.8 Consensus size: 41
14081471 TAAAATGTTT
* *
14081481 TTAGCGGCTCTTTTTCAAAAACGCTGCTAAAACCCCGAGCA
1 TTAGCGGCACTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
* ** *
14081522 TTAGCGGCACTTTTTTAAAAAATACCGCTAAAATCCCGAGCA
1 TTAGCGGCAC-TTTTTCAAAAACGCCGCTAAAACCCCGAGCA
** * *
14081564 TTAGCGGTGCTTTTTAAAAAACGCCGCTAAAACACCGAGCA
1 TTAGCGGCACTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
* * * *
14081605 TTAGCGACACTTTTTCAAAAACGCCGCTAAAGCCCCCAACA
1 TTAGCGGCACTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
* *
14081646 TTAGCGGCACCTTTTCAAAAACGCCGCTAAAACCCCAAGCA
1 TTAGCGGCACTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
* * * ** * *
14081687 CTAGCGGCGCTTTTTAAAAAATACCGCTAAAACACCGAACA
1 TTAGCGGCACTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
* ** * *
14081728 TTAGTGGTGCTTTTTCAAAAGCGCCGCTAAAACCCCAAGCA
1 TTAGCGGCACTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
* * *
14081769 TTAGCGGCGCATTTTCAAAAACGTCGCTAAA
1 TTAGCGGCACTTTTTCAAAAACGCCGCTAAA
14081800 GCCCTGAAAG
Statistics
Matches: 228, Mismatches: 49, Indels: 2
0.82 0.18 0.01
Matches are distributed among these distances:
41 194 0.85
42 34 0.15
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (41 bp):
TTAGCGGCACTTTTTCAAAAACGCCGCTAAAACCCCGAGCA
Found at i:14081730 original size:123 final size:122
Alignment explanation
Indices: 14081481--14081799 Score: 386
Period size: 123 Copynumber: 2.6 Consensus size: 122
14081471 TAAAATGTTT
* * * * * * **
14081481 TTAGCGGCTCTTTTTCAAAAACGCTGCTAAAACCCCGAGCATTAGCGGCACTTTTTTAAAAAATA
1 TTAGCGGCACTTTTTCAAAAACGCCGCT-AAACCCCCAACATTAGCGGCAC-ATTTTCAAAAACG
* * * * * *
14081546 CCGCTAAAATCCCGAGCATTAGCGGTGCTTTTTAAAAAACGCCGCTAAAACACCGAGCA
64 CCGCTAAAACCCCAAGCACTAGCGGCGCTTTTTAAAAAACACCGCTAAAACACCGAACA
* *
14081605 TTAGCGACACTTTTTCAAAAACGCCGCTAAAGCCCCCAACATTAGCGGCACCTTTTCAAAAACGC
1 TTAGCGGCACTTTTTCAAAAACGCCGCTAAA-CCCCCAACATTAGCGGCACATTTTCAAAAACGC
*
14081670 CGCTAAAACCCCAAGCACTAGCGGCGCTTTTTAAAAAATACCGCTAAAACACCGAACA
65 CGCTAAAACCCCAAGCACTAGCGGCGCTTTTTAAAAAACACCGCTAAAACACCGAACA
* ** * * * *
14081728 TTAGTGGTGCTTTTTCAAAAGCGCCGCTAAAACCCCAAGCATTAGCGGCGCATTTTCAAAAACGT
1 TTAGCGGCACTTTTTCAAAAACGCCGCTAAACCCCCAA-CATTAGCGGCACATTTTCAAAAACGC
14081793 CGCTAAA
65 CGCTAAA
14081800 GCCCTGAAAG
Statistics
Matches: 168, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
122 6 0.04
123 120 0.71
124 42 0.25
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (122 bp):
TTAGCGGCACTTTTTCAAAAACGCCGCTAAACCCCCAACATTAGCGGCACATTTTCAAAAACGCC
GCTAAAACCCCAAGCACTAGCGGCGCTTTTTAAAAAACACCGCTAAAACACCGAACA
Found at i:14081901 original size:39 final size:40
Alignment explanation
Indices: 14081838--14081916 Score: 115
Period size: 39 Copynumber: 2.0 Consensus size: 40
14081828 TGGGCTTTGG
* *
14081838 TTTTTTGCGGCGTTTTTCTGAAAAACGCCGCGAATGCTCA
1 TTTTTAGCGGCGTTTTTCTAAAAAACGCCGCGAATGCTCA
* *
14081878 TTTTTAGCGGTGTTTTTC-AAAAAACGCCGCTAATGCTCA
1 TTTTTAGCGGCGTTTTTCTAAAAAACGCCGCGAATGCTCA
14081917 ATCTTTACTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 19 0.54
40 16 0.46
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTCTAAAAAACGCCGCGAATGCTCA
Found at i:14085308 original size:36 final size:35
Alignment explanation
Indices: 14085228--14085347 Score: 134
Period size: 36 Copynumber: 3.4 Consensus size: 35
14085218 ACTCTCTATT
* * *
14085228 TGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCATC
1 TGGTGTGTTTTGGATGGATTAGCTCTT-TGAGCATC
* *
14085264 -AGTGTGTTTTGGATGGATTGGCTCGTTTGAGCATC
1 TGGTGTGTTTTGGATGGATTAGCTC-TTTGAGCATC
* * *
14085299 TGGTGTGTTTTGGAGGGATTAGCTCATGTGATCATC
1 TGGTGTGTTTTGGATGGATTAGCTC-TTTGAGCATC
14085335 TGGTGTGTTTTGG
1 TGGTGTGTTTTGG
14085348 TTGATCTGAC
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
35 27 0.38
36 44 0.62
ACGTcount: A:0.13, C:0.12, G:0.34, T:0.41
Consensus pattern (35 bp):
TGGTGTGTTTTGGATGGATTAGCTCTTTGAGCATC
Found at i:14085994 original size:22 final size:22
Alignment explanation
Indices: 14085947--14085991 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
14085937 ATGCAATCTT
*
14085947 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATCGTAGA
* *
14085969 AGATATGATTTTGTAATCGTAGA
1 AGATATGA-TATGCAATCGTAGA
14085992 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.36
Consensus pattern (22 bp):
AGATATGATATGCAATCGTAGA
Found at i:14094652 original size:19 final size:18
Alignment explanation
Indices: 14094606--14094654 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
14094596 GATAGAATTT
*
14094606 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
14094625 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
14094643 TTGTATTAAAAT
1 TTGTA-TAAAAT
14094655 TTTGAACATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:14098674 original size:35 final size:36
Alignment explanation
Indices: 14098634--14098786 Score: 146
Period size: 36 Copynumber: 4.3 Consensus size: 36
14098624 ACTTTATGTT
** *
14098634 TGGTGTGTTTCGGTTGGACTAGCTCTTATGAGCATC
1 TGGTGTGTTTCGGAGGGACTAGCTCGTATGAGCATC
* * * *
14098670 -GGTGTGTTTTGGAGGGATTGGCTCGTGTGAGCATC
1 TGGTGTGTTTCGGAGGGACTAGCTCGTATGAGCATC
** * * *
14098705 TGGTGTGTTTTAGAGGGATTGGCTCGTGTGAGCATC
1 TGGTGTGTTTCGGAGGGACTAGCTCGTATGAGCATC
* * * * *
14098741 TGGTGTGTTTTGGAGGGATTGGCTCGTGTGATCATC
1 TGGTGTGTTTCGGAGGGACTAGCTCGTATGAGCATC
14098777 TGGTGTGTTT
1 TGGTGTGTTT
14098787 TGGTTGATTT
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
35 28 0.26
36 78 0.74
ACGTcount: A:0.12, C:0.12, G:0.38, T:0.39
Consensus pattern (36 bp):
TGGTGTGTTTCGGAGGGACTAGCTCGTATGAGCATC
Found at i:14098713 original size:36 final size:36
Alignment explanation
Indices: 14098662--14098789 Score: 231
Period size: 36 Copynumber: 3.6 Consensus size: 36
14098652 CTAGCTCTTA
14098662 TGAGCATC-GGTGTGTTTTGGAGGGATTGGCTCGTG
1 TGAGCATCTGGTGTGTTTTGGAGGGATTGGCTCGTG
*
14098697 TGAGCATCTGGTGTGTTTTAGAGGGATTGGCTCGTG
1 TGAGCATCTGGTGTGTTTTGGAGGGATTGGCTCGTG
14098733 TGAGCATCTGGTGTGTTTTGGAGGGATTGGCTCGTG
1 TGAGCATCTGGTGTGTTTTGGAGGGATTGGCTCGTG
*
14098769 TGATCATCTGGTGTGTTTTGG
1 TGAGCATCTGGTGTGTTTTGG
14098790 TTGATTTGAC
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
35 8 0.09
36 81 0.91
ACGTcount: A:0.12, C:0.11, G:0.40, T:0.38
Consensus pattern (36 bp):
TGAGCATCTGGTGTGTTTTGGAGGGATTGGCTCGTG
Found at i:14099474 original size:92 final size:92
Alignment explanation
Indices: 14099368--14099551 Score: 350
Period size: 92 Copynumber: 2.0 Consensus size: 92
14099358 GATGAGCTGA
14099368 ATTGATGTTTATTTTGATGCTTAATTATATATACTTGTGGTACCAATGAGGGTACATTGGTTAGG
1 ATTGATGTTTATTTTGATGCTTAATTATATATACTTGTGGTACCAATGAGGGTACATTGGTTAGG
14099433 CAGTTAATAGGTTGATTTTAGTGTGTG
66 CAGTTAATAGGTTGATTTTAGTGTGTG
* *
14099460 ATTGATTTTTATTTTGATGTTTAATTATATATACTTGTGGTACCAATGAGGGTACATTGGTTAGG
1 ATTGATGTTTATTTTGATGCTTAATTATATATACTTGTGGTACCAATGAGGGTACATTGGTTAGG
14099525 CAGTTAATAGGTTGATTTTAGTGTGTG
66 CAGTTAATAGGTTGATTTTAGTGTGTG
14099552 TTTAGCTTGA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.25, C:0.06, G:0.24, T:0.45
Consensus pattern (92 bp):
ATTGATGTTTATTTTGATGCTTAATTATATATACTTGTGGTACCAATGAGGGTACATTGGTTAGG
CAGTTAATAGGTTGATTTTAGTGTGTG
Found at i:14113765 original size:30 final size:31
Alignment explanation
Indices: 14113731--14113798 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 31
14113721 TTTGAGGGGA
*
14113731 TGAAAATCAAATTATATAT-TTTTATTATAG
1 TGAAAATCAAATTATATATATTTCATTATAG
*
14113761 TGAAAATTAAATTATATATATTTCATTATAG
1 TGAAAATCAAATTATATATATTTCATTATAG
*
14113792 TAAAAAT
1 TGAAAAT
14113799 ATAGTTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 18 0.53
31 16 0.47
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (31 bp):
TGAAAATCAAATTATATATATTTCATTATAG
Found at i:14128389 original size:44 final size:43
Alignment explanation
Indices: 14128341--14128890 Score: 217
Period size: 44 Copynumber: 12.3 Consensus size: 43
14128331 AATAGATCAG
*
14128341 TGAAGCTACAAATTC-TATACCCTTGAAGTTGCAGTGGGTTAGAT
1 TGAAGCTACAAATTCTTAT-CCCCTGAAGTTGCAGTGGG-TAGAT
* * *
14128385 TGAAG-TCACCATAACGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGAT
1 TGAAGCT-A-C--AA--ATTCTTATC-CCCTGAAGTTGCAGTGG-GTAGAT
* * *
14128435 CGAAGCTACAAA-TCTTATCCCCTAAAGTTGCAGTAGAGTAGAT
1 TGAAGCTACAAATTCTTATCCCCTGAAGTTGCAGT-GGGTAGAT
* * * * *
14128478 TGAAGCTAC-AAGTCCTACACCCCTGAAGTTGCAGTGGGATGGAC
1 TGAAGCTACAAATTCTTA-TCCCCTGAAGTTGCAGTGGG-TAGAT
* * * *
14128522 TGAATCTACCATAGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
1 TGAAGCTA-CA-A---ATTCTTATC-CCCTGAAGTTGCAGTGG-GTAGAT
* ** * * **
14128572 CGAAGCTATGAA-TCTTATCTCCCTAAAGTTGTAGTGGACCAGAT
1 TGAAGCTACAAATTCTTATC-CCCTGAAGTTGCAGTGG-GTAGAT
* * * **
14128616 TGAAACTACAAA-TCTTATGTCCCTGAAGTTACAGTGAAATAGAT
1 TGAAGCTACAAATTCTTAT-CCCCTGAAGTTGCAGTG-GGTAGAT
* * *
14128660 TAAAGCTACAAA-TCTTATCTCCTTGAAGTTGCAGTGGAGCAGAT
1 TGAAGCTACAAATTCTTATC-CCCTGAAGTTGCAGTGG-GTAGAT
* * * * *
14128704 TGAAGCTACAAA-TCGTATCTCTCTAAAGTTGTAGTGGAGCAGAT
1 TGAAGCTACAAATTCTTATC-CCCTGAAGTTGCAGTGG-GTAGAT
* * *
14128748 TGAAG-TA-ATAAATCTTATCTCCTTGAAGTTGTAGTGGAGTAAGA-
1 TGAAGCTACA-AATTCTTATC-CCCTGAAGTTGCAGTGG-GT-AGAT
* * * *
14128792 TGAAGCTACAACTCCTATAT-CCCTAAAGTTGCAGTGGATCAGAT
1 TGAAGCTACAAATTCT-TATCCCCTGAAGTTGCAGTGGGT-AGAT
* * * * * * * * *
14128836 TAAAACTA-TAATTCCTATACCCCTGAGGTTACAATGGGTTAAAA
1 TGAAGCTACAAATTCTTAT-CCCCTGAAGTTGCAGTGGG-TAGAT
14128880 TGAAGCTACAA
1 TGAAGCTACAA
14128891 CAATAAATTT
Statistics
Matches: 385, Mismatches: 84, Indels: 73
0.71 0.15 0.13
Matches are distributed among these distances:
42 6 0.02
43 44 0.11
44 246 0.64
45 14 0.04
46 4 0.01
47 5 0.01
48 1 0.00
49 6 0.02
50 56 0.15
51 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (43 bp):
TGAAGCTACAAATTCTTATCCCCTGAAGTTGCAGTGGGTAGAT
Found at i:14128587 original size:137 final size:135
Alignment explanation
Indices: 14128341--14128752 Score: 490
Period size: 137 Copynumber: 3.0 Consensus size: 135
14128331 AATAGATCAG
* * *
14128341 TGAAGCTACAAATTCTATACCCTTGAAGTTGCAGTGGGTTAGATTGAAGTCACCATAACGAATCT
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGATAGA-TGAA-TCACCAT-ACGAATCT
* * *
14128406 TATCTCCCTGAAGTTGTAGTGGAGCAGATCGAAGCTACAAATCTTATC-CCCTAAAGTTGCAGTA
63 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACAAATCTTATCTCCCTAAAGTTGTAGTG
*
14128470 GAGTAGAT
128 GAGCAGAT
* * *
14128478 TGAAGCTACAAGTCCTACACCCCTGAAGTTGCAGTGGGATGGACTGAATCTACCATAGCGAATCT
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGATAGA-TGAATC-ACCATA-CGAATCT
* **
14128543 TATCTCCCTAAAGTTGCAGTGGAGCAGATCGAAGCTATGAATCTTATCTCCCTAAAGTTGTAGTG
63 TATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACAAATCTTATCTCCCTAAAGTTGTAGTG
*
14128608 GACCAGAT
128 GAGCAGAT
* * ** * ** * * *
14128616 TGAAACTACAAATCTTATGTCCCTGAAGTTACAGTGAAATAGATTAA--AGC-TACAAATCTTAT
1 TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGATAGATGAATCACCATACGAATCTTAT
* * * *
14128678 CTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCGTATCTCTCTAAAGTTGTAGTGGAG
66 CTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACAAATCTTATCTCCCTAAAGTTGTAGTGGAG
14128743 CAGAT
131 CAGAT
14128748 TGAAG
1 TGAAG
14128753 TAATAAATCT
Statistics
Matches: 235, Mismatches: 37, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
132 75 0.32
133 2 0.01
134 2 0.01
136 3 0.01
137 100 0.43
138 53 0.23
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (135 bp):
TGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTGGGATAGATGAATCACCATACGAATCTTAT
CTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCTACAAATCTTATCTCCCTAAAGTTGTAGTGGAG
CAGAT
Found at i:14128666 original size:88 final size:88
Alignment explanation
Indices: 14128401--14128846 Score: 380
Period size: 88 Copynumber: 5.0 Consensus size: 88
14128391 CACCATAACG
* * * *
14128401 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATCGAAGCTACAAATCTTATC-CCCTAAAGTTG
1 AATCTTATCTCCTTGAAGTTGTAGTGGACCAGATTGAAACTACAAATCTTATCTCCCTAAAGTTG
* * *
14128465 CAGTAGAGTAGATTGAAGCTACA
66 CAGTGGAGCAGATTGAAGCTATA
* * * * * ** * *
14128488 AGTCCTA-CACCCCTGAAGTTGCAGTGGGA-TGGACTGAATCTACCATAGCGAATCTTATCTCCC
1 AATCTTATC-TCCTTGAAGTTGTAGT-GGACCAGATTGAA---A-C-TA-CAAATCTTATCTCCC
* *
14128551 TAAAGTTGCAGTGGAGCAGATCGAAGCTATG
58 TAAAGTTGCAGTGGAGCAGATTGAAGCTATA
* * * * *
14128582 AATCTTATCTCCCTAAAGTTGTAGTGGACCAGATTGAAACTACAAATCTTATGTCCCTGAAGTTA
1 AATCTTATCTCCTTGAAGTTGTAGTGGACCAGATTGAAACTACAAATCTTATCTCCCTAAAGTTG
* ** * *
14128647 CAGTGAAATAGATTAAAGCTACA
66 CAGTGGAGCAGATTGAAGCTATA
* * * * *
14128670 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCGTATCTCTCTAAAGTTG
1 AATCTTATCTCCTTGAAGTTGTAGTGGACCAGATTGAAACTACAAATCTTATCTCCCTAAAGTTG
*
14128735 TAGTGGAGCAGATTGAAG-TAATA
66 CAGTGGAGCAGATTGAAGCT-ATA
** * * * *
14128758 AATCTTATCTCCTTGAAGTTGTAGTGGAGTAAGA-TGAAGCTACAACTCCTATATCCCTAAAGTT
1 AATCTTATCTCCTTGAAGTTGTAGTGGA-CCAGATTGAAACTACAAATCTTATCTCCCTAAAGTT
* * *
14128822 GCAGTGGATCAGATTAAAACTATA
65 GCAGTGGAGCAGATTGAAGCTATA
14128846 A
1 A
14128847 TTCCTATACC
Statistics
Matches: 284, Mismatches: 61, Indels: 27
0.76 0.16 0.07
Matches are distributed among these distances:
86 1 0.00
87 25 0.09
88 180 0.63
89 6 0.02
90 1 0.00
91 2 0.01
92 2 0.01
93 13 0.05
94 53 0.19
95 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (88 bp):
AATCTTATCTCCTTGAAGTTGTAGTGGACCAGATTGAAACTACAAATCTTATCTCCCTAAAGTTG
CAGTGGAGCAGATTGAAGCTATA
Found at i:14128723 original size:132 final size:132
Alignment explanation
Indices: 14128401--14128835 Score: 444
Period size: 132 Copynumber: 3.3 Consensus size: 132
14128391 CACCATAACG
* *
14128401 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATCGAAGCTACAAATCTTATC-CCCTAAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCGAAGCTACAAATCTTATCTCCCTAAAGTTG
* * * * * * * * * * *
14128465 CAGTAGAGTAGATTGAAGCTACAAGTCCTACACCCCTGAAGTTGCAGTGGGATGGACTGAATCTA
66 TAGTGGAGCAGATTGAAACTACAAATCTTATATCCCTGAAGTTGCAGTGGAATAGA-TTAA---A
* *
14128530 CCATAGCG
127 GC-TA-CA
**
14128538 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCGAAGCTATGAATCTTATCTCCCTAAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCGAAGCTACAAATCTTATCTCCCTAAAGTTG
* * * *
14128603 TAGTGGACCAGATTGAAACTACAAATCTTATGTCCCTGAAGTTACAGTGAAATAGATTAAAGCTA
66 TAGTGGAGCAGATTGAAACTACAAATCTTATATCCCTGAAGTTGCAGTGGAATAGATTAAAGCTA
14128668 CA
131 CA
* * * * *
14128670 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCGTATCTCTCTAAAGTTG
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCGAAGCTACAAATCTTATCTCCCTAAAGTTG
* * * * * * *
14128735 TAGTGGAGCAGATTG-AAGTAATAAATCTTATCTCCTTGAAGTTGTAGTGGAGTAAGA-TGAAGC
66 TAGTGGAGCAGATTGAAACT-ACAAATCTTATATCCCTGAAGTTGCAGTGGAAT-AGATTAAAGC
14128798 TACA
129 TACA
* * * *
14128802 ACTCCTATATCCCTAAAGTTGCAGTGGATCAGAT
1 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGAT
14128836 TAAAACTATA
Statistics
Matches: 251, Mismatches: 44, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
131 3 0.01
132 136 0.54
133 5 0.02
134 2 0.01
137 52 0.21
138 53 0.21
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (132 bp):
AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATCGAAGCTACAAATCTTATCTCCCTAAAGTTG
TAGTGGAGCAGATTGAAACTACAAATCTTATATCCCTGAAGTTGCAGTGGAATAGATTAAAGCTA
CA
Found at i:14133962 original size:21 final size:20
Alignment explanation
Indices: 14133924--14133962 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
14133914 TTGAAATGGA
*
14133924 AAATTGGACTCTATAATAAT
1 AAATTGGACTCTAAAATAAT
*
14133944 AAATTGGATTTCTAAAATA
1 AAATTGGA-CTCTAAAATA
14133963 TTTCCAATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (20 bp):
AAATTGGACTCTAAAATAAT
Found at i:14142743 original size:16 final size:18
Alignment explanation
Indices: 14142717--14142749 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14142707 TAGAATTGAG
14142717 TTGAGAAAATTA-TTTAA
1 TTGAGAAAATTAGTTTAA
14142734 TTGA-AAAATTAGTTTA
1 TTGAGAAAATTAGTTTA
14142750 TCTAATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAGTTTAA
Found at i:14144368 original size:62 final size:62
Alignment explanation
Indices: 14144271--14144397 Score: 236
Period size: 62 Copynumber: 2.0 Consensus size: 62
14144261 ATAGGGTCAA
*
14144271 TTTCACGACACAGGAAATTGGGGGTCCAACACTGACTGATGTCACGACATTGAGCTTCTGAT
1 TTTCACGACACAGGAAATTGGGGGTCCAACACTGACTGATGTCACGACATTGAGCTTCTAAT
*
14144333 TTTCATGACACAGGAAATTGGGGGTCCAACACTGACTGATGTCACGACATTGAGCTTCTAAT
1 TTTCACGACACAGGAAATTGGGGGTCCAACACTGACTGATGTCACGACATTGAGCTTCTAAT
14144395 TTT
1 TTT
14144398 GTGACGCCAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (62 bp):
TTTCACGACACAGGAAATTGGGGGTCCAACACTGACTGATGTCACGACATTGAGCTTCTAAT
Found at i:14146217 original size:39 final size:40
Alignment explanation
Indices: 14146155--14146240 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 40
14146145 CACTTAATAA
*
14146155 TTATAAAAAATTTGGAATAAAAAAATAAAATAAAAAGAGC
1 TTATAAAAAATTTGCAATAAAAAAATAAAATAAAAAGAGC
14146195 TTATAAAAAATTTGCAAT-AAAAAATAAAATAAAAAGAGC
1 TTATAAAAAATTTGCAATAAAAAAATAAAATAAAAAGAGC
14146234 TTATAAA
1 TTATAAA
14146241 TACAATATTG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 28 0.62
40 17 0.38
ACGTcount: A:0.64, C:0.03, G:0.08, T:0.24
Consensus pattern (40 bp):
TTATAAAAAATTTGCAATAAAAAAATAAAATAAAAAGAGC
Found at i:14148115 original size:15 final size:15
Alignment explanation
Indices: 14148097--14148130 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
14148087 AGAAATGTCG
14148097 CAATAACAAATACAA
1 CAATAACAAATACAA
*
14148112 CAATAATAAATACAA
1 CAATAACAAATACAA
14148127 CAAT
1 CAAT
14148131 GGCATAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.65, C:0.18, G:0.00, T:0.18
Consensus pattern (15 bp):
CAATAACAAATACAA
Found at i:14148156 original size:13 final size:14
Alignment explanation
Indices: 14148137--14148174 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
14148127 CAATGGCATA
14148137 GAAATAATATAAAC
1 GAAATAATATAAAC
14148151 -AAATAA-ATAAAC
1 GAAATAATATAAAC
14148163 GAAACTAATATA
1 GAAA-TAATATA
14148175 CATAAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.29
13 9 0.43
14 3 0.14
15 3 0.14
ACGTcount: A:0.66, C:0.08, G:0.05, T:0.21
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:14149941 original size:63 final size:63
Alignment explanation
Indices: 14149852--14149977 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
14149842 GAAAACAAAG
* *
14149852 AAAATAAATCACTACCTTTAATCTCTATTTTGTTTTTCTCTGCTTGATATTGTGAAAATACTC
1 AAAACAAATAACTACCTTTAATCTCTATTTTGTTTTTCTCTGCTTGATATTGTGAAAATACTC
14149915 AAAACAAATAACTACCTTTAATCTCTATTTTGTTTTTCTCTGCTTGATATTGTGAAAATACTC
1 AAAACAAATAACTACCTTTAATCTCTATTTTGTTTTTCTCTGCTTGATATTGTGAAAATACTC
14149978 GTTTTTTTAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.44
Consensus pattern (63 bp):
AAAACAAATAACTACCTTTAATCTCTATTTTGTTTTTCTCTGCTTGATATTGTGAAAATACTC
Found at i:14152561 original size:195 final size:197
Alignment explanation
Indices: 14152221--14152618 Score: 674
Period size: 195 Copynumber: 2.0 Consensus size: 197
14152211 ATAATGTAAC
* *
14152221 AATTTATCTAATCATCATTTTGTTTAATTCACATCTCGTCAATTCAATTCATTGTTCAAATCATC
1 AATTTATCCAATCATCATTTTGTTTAATTCACATCTCATCAATTCAATTCATTG-----AT-ATC
*
14152286 AAATCATCACATAGCAAATTTTATTTCAACCCAATTCAAAGTTAATTCCATAATTTCATCGAATT
60 AAATCATCACATAGCAAATTTTATTTCAACCCAATTCAAAGTCAATTCCATAATTTCATCGAATT
*
14152351 TCACTATTTTCAATTCTATTTAATTTACTCCTCCATCTCAAAAATTAAACATTTAGATACTAATT
125 TCACTATTTTCAATTCTATTTAATTTACTCCTCCATCTCAAAAATTAAACATTTAGATACCAATT
14152416 CAATTCAA
190 CAATTCAA
14152424 AATTTATCCAATCATCATTTTGTTTAATTCACATCTCATCAATTCAATTCATTG-T-TCAAATCA
1 AATTTATCCAATCATCATTTTGTTTAATTCACATCTCATCAATTCAATTCATTGATATCAAATCA
14152487 TCACATAGCAAATTTTATTTCAACCCAATTCAAAGTCAATTCCATAATTTCATCGAATTTCACTA
66 TCACATAGCAAATTTTATTTCAACCCAATTCAAAGTCAATTCCATAATTTCATCGAATTTCACTA
* *
14152552 TTTTCAATTCTATTTAATTTAGTTCTCCATCTCAAAAATTAAACATTTAGATACCAATTCAATTC
131 TTTTCAATTCTATTTAATTTACTCCTCCATCTCAAAAATTAAACATTTAGATACCAATTCAATTC
14152617 AA
196 AA
14152619 CTAATCAATC
Statistics
Matches: 189, Mismatches: 6, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
195 136 0.72
197 1 0.01
203 52 0.28
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (197 bp):
AATTTATCCAATCATCATTTTGTTTAATTCACATCTCATCAATTCAATTCATTGATATCAAATCA
TCACATAGCAAATTTTATTTCAACCCAATTCAAAGTCAATTCCATAATTTCATCGAATTTCACTA
TTTTCAATTCTATTTAATTTACTCCTCCATCTCAAAAATTAAACATTTAGATACCAATTCAATTC
AA
Found at i:14156741 original size:15 final size:13
Alignment explanation
Indices: 14156707--14156779 Score: 55
Period size: 14 Copynumber: 5.7 Consensus size: 13
14156697 AGTATTTTAC
*
14156707 AATATTAAAATAT
1 AATATTTAAATAT
14156720 AATATTTAAATAGT
1 AATATTTAAATA-T
14156734 ACATATTT---TAT
1 A-ATATTTAAATAT
*
14156745 AATATTT-TATAT
1 AATATTTAAATAT
*
14156757 AGTATTTAGAATAT
1 AATATTTA-AATAT
*
14156771 ATTATTTAA
1 AATATTTAA
14156780 TATTATTTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.12
11 2 0.04
12 11 0.22
13 12 0.24
14 13 0.26
15 6 0.12
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (13 bp):
AATATTTAAATAT
Found at i:14156781 original size:12 final size:12
Alignment explanation
Indices: 14156715--14156782 Score: 50
Period size: 12 Copynumber: 5.4 Consensus size: 12
14156705 ACAATATTAA
14156715 AATATAATATTT
1 AATATAATATTT
14156727 AAATAGTACATATTT
1 -AATA-TA-ATATTT
14156742 --TATAATATTT
1 AATATAATATTT
* *
14156752 TATATAGTATTT
1 AATATAATATTT
*
14156764 AGAATATATTATTT
1 --AATATAATATTT
14156778 AATAT
1 AATAT
14156783 TATTTGTGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
10 6 0.13
11 2 0.04
12 16 0.35
13 4 0.09
14 12 0.26
15 6 0.13
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (12 bp):
AATATAATATTT
Found at i:14156783 original size:21 final size:21
Alignment explanation
Indices: 14156740--14156783 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
14156730 TAGTACATAT
* * *
14156740 TTTATAATATTTTATATAGTA
1 TTTAGAATATATTATATAATA
*
14156761 TTTAGAATATATTATTTAATA
1 TTTAGAATATATTATATAATA
14156782 TT
1 TT
14156784 ATTTGTGAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTAGAATATATTATATAATA
Found at i:14161234 original size:28 final size:30
Alignment explanation
Indices: 14161202--14161262 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 30
14161192 TGATATTGAT
14161202 TTAGTTA-TTGATTAATATG-TTATGTT-TG
1 TTAGTTAGTTG-TTAATATGATTATGTTATG
* *
14161230 TTAGTTAGTTGTTTATATGATTTTGTTATG
1 TTAGTTAGTTGTTAATATGATTATGTTATG
14161260 TTA
1 TTA
14161263 TATTTGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 14 0.50
29 9 0.32
30 5 0.18
ACGTcount: A:0.23, C:0.00, G:0.18, T:0.59
Consensus pattern (30 bp):
TTAGTTAGTTGTTAATATGATTATGTTATG
Found at i:14162229 original size:45 final size:44
Alignment explanation
Indices: 14162161--14162333 Score: 147
Period size: 45 Copynumber: 3.9 Consensus size: 44
14162151 ATTGATTTGA
* *
14162161 GAAAAGGGAAAGACCATGATTGAAAGATA-TCATGGCATTATAATT
1 GAAAAGGAAAAGACCATGATTGAAAGATACT-ATGGCATTA-AATC
* *
14162206 GAAAAGGAAAAGAGCATGGTTGAAAGATACTATGGCATTAAATC
1 GAAAAGGAAAAGACCATGATTGAAAGATACTATGGCATTAAATC
* ** * * * *
14162250 GAAACGGGTAAGACCCT-AGTTGAAAGATACTACGGCACTATATC
1 GAAAAGGAAAAGACCATGA-TTGAAAGATACTATGGCATTAAATC
*
14162294 GAAAAACGATCAAA-ACCAT-AGTTGAAAGATACTATGGCAT
1 G-AAAAGGA--AAAGACCATGA-TTGAAAGATACTATGGCAT
14162334 CACTTTGGGA
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
44 38 0.37
45 39 0.38
46 24 0.23
47 2 0.02
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.21
Consensus pattern (44 bp):
GAAAAGGAAAAGACCATGATTGAAAGATACTATGGCATTAAATC
Found at i:14162279 original size:44 final size:44
Alignment explanation
Indices: 14162170--14162333 Score: 154
Period size: 44 Copynumber: 3.7 Consensus size: 44
14162160 AGAAAAGGGA
* * *
14162170 AAGACCAT-GATTGAAAGATA-TCATGGCATTATAATTGAAAAGGAA
1 AAGACCATAG-TTGAAAGATACT-ATGGCATTA-AATCGAAACGGAT
* * *
14162215 AAGAGCATGGTTGAAAGATACTATGGCATTAAATCGAAACGGGT
1 AAGACCATAGTTGAAAGATACTATGGCATTAAATCGAAACGGAT
* * * *
14162259 AAGACCCTAGTTGAAAGATACTACGGCACTATATCGAAAAAC-GAT
1 AAGACCATAGTTGAAAGATACTATGGCATTAAATCG--AAACGGAT
*
14162304 CAAAACCATAGTTGAAAGATACTATGGCAT
1 -AAGACCATAGTTGAAAGATACTATGGCAT
14162334 CACTTTGGGA
Statistics
Matches: 98, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
44 39 0.40
45 28 0.29
46 31 0.32
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.23
Consensus pattern (44 bp):
AAGACCATAGTTGAAAGATACTATGGCATTAAATCGAAACGGAT
Found at i:14177458 original size:14 final size:13
Alignment explanation
Indices: 14177441--14177470 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
14177431 TTAGTCTTTT
14177441 CTTCCAAAATTTCA
1 CTTCCAAAATTT-A
14177455 CTTCCAAAATTTA
1 CTTCCAAAATTTA
14177468 CTT
1 CTT
14177471 TATTGATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (13 bp):
CTTCCAAAATTTA
Found at i:14177984 original size:86 final size:86
Alignment explanation
Indices: 14177866--14178029 Score: 240
Period size: 86 Copynumber: 1.9 Consensus size: 86
14177856 CCTCTTTTTT
* * * * *
14177866 TTTTTTGCACTCAGTTGAGTACTTGAATTTTCAAAATCCATCAAAAAGGCCCTCAAACTTCTT-C
1 TTTTTTCCACTCAATTGAGTACTTGAACTTTCAAAATCCATCAAAAAGACCCTCAAAATT-TTCC
14177930 AAAAAAGCAATTAATCCCCTGC
65 AAAAAAGCAATTAATCCCCTGC
* * *
14177952 TTTTTTCCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTTAAAATTTTCCA
1 TTTTTTCCACTCAATTGAGTACTTGAACTTTCAAAATCCATCAAAAAGACCCTCAAAATTTTCCA
14178017 AAAAAGCAATTAA
66 AAAAAGCAATTAA
14178030 GTCCTTACTC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
85 2 0.03
86 67 0.97
ACGTcount: A:0.37, C:0.22, G:0.10, T:0.32
Consensus pattern (86 bp):
TTTTTTCCACTCAATTGAGTACTTGAACTTTCAAAATCCATCAAAAAGACCCTCAAAATTTTCCA
AAAAAGCAATTAATCCCCTGC
Found at i:14178644 original size:91 final size:89
Alignment explanation
Indices: 14178491--14178687 Score: 288
Period size: 91 Copynumber: 2.2 Consensus size: 89
14178481 AATTTTAAAT
* * * *
14178491 AAAAGCAGGGGCTTACTTCCTTTTTTTTTAAAAAGTTTGAGGGTCTTTTTGATGCATTTTGAAAG
1 AAAAGAAGGGGCTTAATTCCTTTTTTTTTAAAAAGTTTGAGGGCCTTTTTAATGCATTTTGAAAG
* *
14178556 TTCAAGTACTCAATTGAGTGCAAA
66 TTCAAGTACCCAAATGAGTGCAAA
* *
14178580 AAAAGTAGGGGCTTAATTGCTCTTTTTTTTAAAAAGGTTTGAGGGCCTTTTTAATGCATTTTGAA
1 AAAAGAAGGGGCTTAATTCCT-TTTTTTTTAAAAA-GTTTGAGGGCCTTTTTAATGCATTTTGAA
*
14178645 AGTTTAAGTACCCAAATGAGTGCAAA
64 AGTTCAAGTACCCAAATGAGTGCAAA
14178671 AAAA-AAGGGGCTTAATT
1 AAAAGAAGGGGCTTAATT
14178688 TATTGGTACA
Statistics
Matches: 97, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
89 18 0.19
90 25 0.26
91 54 0.56
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (89 bp):
AAAAGAAGGGGCTTAATTCCTTTTTTTTTAAAAAGTTTGAGGGCCTTTTTAATGCATTTTGAAAG
TTCAAGTACCCAAATGAGTGCAAA
Found at i:14179494 original size:23 final size:23
Alignment explanation
Indices: 14179442--14179495 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
14179432 ACCAAAATGT
*
14179442 AAACTT-ACTAATAGTTAAATAA
1 AAACTTAACTAATAGTTAAAAAA
**
14179464 AATTTTAACTAATAGTTAAAAAA
1 AAACTTAACTAATAGTTAAAAAA
14179487 AAACTTAAC
1 AAACTTAAC
14179496 AATTCAATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.56, C:0.09, G:0.04, T:0.31
Consensus pattern (23 bp):
AAACTTAACTAATAGTTAAAAAA
Found at i:14179757 original size:21 final size:22
Alignment explanation
Indices: 14179708--14179758 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
14179698 ACCAAAATGT
14179708 AAACTT-ACTAATAGTTAAATA
1 AAACTTAACTAATAGTTAAATA
* *
14179729 AAATTTAATTAATAGTTAAA-A
1 AAACTTAACTAATAGTTAAATA
14179750 AAACTTAAC
1 AAACTTAAC
14179759 AGTTCAATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (22 bp):
AAACTTAACTAATAGTTAAATA
Found at i:14179893 original size:266 final size:265
Alignment explanation
Indices: 14179357--14179885 Score: 990
Period size: 263 Copynumber: 2.0 Consensus size: 265
14179347 CTAAGGTTGA
14179357 TTCAATTTTAGGATTAAACCGAGCCTGTGAGTCAAGTCTAGATATACATGCCATATAGGAGAGCA
1 TTCAATTTTAGGATTAAACCGAGCCTGTGAGTCAAGTCTAGATATACATGCCATATAGGAGAGCA
14179422 AAGGTGAGTGACCAAAATGTAAACTTACTAATAGTTAAATAAAATTTTAACTAATAGTTAAAAAA
66 AAGGTGAGTGACCAAAATGTAAACTTACTAATAGTTAAATAAAATTTTAACTAATAGTT-AAAAA
14179487 AAACTTAACAATTCAATGACTTAAATAAAAGCTTTCGAATAGTTCAATAGCTTAAGTGAAAATTT
130 AAACTTAACAATTCAATGACTTAAATAAAAGCTTTCGAATAGTTCAATAGCTTAAGTGAAAATTT
*
14179552 TCAATTAGGTTTATTTAAAATAAGAATATTAAATTTGTAATGACCTGATTTTTAGTGGTACTAGA
195 TCAATTAGGTTTATTTAAAATAAGAATATTAAATTTGTAATGACCCGATTTTTAGTGGTACTAGA
14179617 AAATGT
260 AAATGT
*
14179623 TTCAATTTTAGGATTAAACCGAGCCTGTGAGTCAAGTCTAGATATACATGCCATGTAGGAGAGCA
1 TTCAATTTTAGGATTAAACCGAGCCTGTGAGTCAAGTCTAGATATACATGCCATATAGGAGAGCA
* *
14179688 AAGGTGATTGACCAAAATGTAAACTTACTAATAGTTAAATAAAA-TTTAATTAATAGTT-AAAAA
66 AAGGTGAGTGACCAAAATGTAAACTTACTAATAGTTAAATAAAATTTTAACTAATAGTTAAAAAA
*
14179751 AACTTAACAGTTCAATGACTTAAATAAAAGCTTTCGAATAGTTCAATAGCTTAAGTGAAAATTTT
131 AACTTAACAATTCAATGACTTAAATAAAAGCTTTCGAATAGTTCAATAGCTTAAGTGAAAATTTT
14179816 CAATTAGGTTTATTTAAAATAAGAATATTAAATTTGTAATGACCCGATTTTTAGTGGTACTAGAA
196 CAATTAGGTTTATTTAAAATAAGAATATTAAATTTGTAATGACCCGATTTTTAGTGGTACTAGAA
14179881 AATGT
261 AATGT
14179886 GGTTTCAAAA
Statistics
Matches: 258, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
263 138 0.53
265 13 0.05
266 107 0.41
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (265 bp):
TTCAATTTTAGGATTAAACCGAGCCTGTGAGTCAAGTCTAGATATACATGCCATATAGGAGAGCA
AAGGTGAGTGACCAAAATGTAAACTTACTAATAGTTAAATAAAATTTTAACTAATAGTTAAAAAA
AACTTAACAATTCAATGACTTAAATAAAAGCTTTCGAATAGTTCAATAGCTTAAGTGAAAATTTT
CAATTAGGTTTATTTAAAATAAGAATATTAAATTTGTAATGACCCGATTTTTAGTGGTACTAGAA
AATGT
Found at i:14183207 original size:19 final size:19
Alignment explanation
Indices: 14183152--14183209 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
14183142 ATATTTAAAT
* *
14183152 ATTTAATATTATAATTTT-
1 ATTTAATATTTTTATTTTA
*
14183170 -TTTTATATTTTTTACTTTTA
1 ATTTAATA-TTTTTA-TTTTA
14183190 ATTTAATATTTTTATTTTA
1 ATTTAATATTTTTATTTTA
14183209 A
1 A
14183210 ATAAACTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
17 6 0.19
18 4 0.12
19 10 0.31
20 6 0.19
21 6 0.19
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTAATATTTTTATTTTA
Found at i:14183787 original size:20 final size:18
Alignment explanation
Indices: 14183755--14183793 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
14183745 TAAAAAATTT
14183755 AATTTTTTTATTTTCAAA
1 AATTTTTTTATTTTCAAA
*
14183773 AATTCTTTTTCATTTTTAAA
1 AATT-TTTTT-ATTTTCAAA
14183793 A
1 A
14183794 GGTTTTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 5 0.28
20 9 0.50
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (18 bp):
AATTTTTTTATTTTCAAA
Found at i:14189275 original size:106 final size:107
Alignment explanation
Indices: 14189144--14189356 Score: 419
Period size: 106 Copynumber: 2.0 Consensus size: 107
14189134 AAAAATGAAC
14189144 TTACAATAATTTATTTTTAAGATTATTACACCAAATTAAGCAATAAATTTTTATTTTAAAATATT
1 TTACAATAATTTATTTTTAAGATTATTACACCAAATTAAGCAATAAATTTTTATTTTAAAATATT
14189209 ATGATACTCATATTTTAAATAATTTACCTATAAATGCATATA
66 ATGATACTCATATTTTAAATAATTTACCTATAAATGCATATA
14189251 TTACAATAA-TTATTTTTAAGATTATTACACCAAATTAAGCAATAAATTTTTATTTTAAAATATT
1 TTACAATAATTTATTTTTAAGATTATTACACCAAATTAAGCAATAAATTTTTATTTTAAAATATT
14189315 ATGATACTCATATTTTAAATAATTTACCTATAAATGCATATA
66 ATGATACTCATATTTTAAATAATTTACCTATAAATGCATATA
14189357 GAAAAATTAA
Statistics
Matches: 106, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
106 97 0.92
107 9 0.08
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (107 bp):
TTACAATAATTTATTTTTAAGATTATTACACCAAATTAAGCAATAAATTTTTATTTTAAAATATT
ATGATACTCATATTTTAAATAATTTACCTATAAATGCATATA
Found at i:14189349 original size:52 final size:52
Alignment explanation
Indices: 14189186--14189349 Score: 154
Period size: 52 Copynumber: 3.1 Consensus size: 52
14189176 AAATTAAGCA
14189186 ATAAATTTTTATTTTAAAATATTATGATACTCATATTTTAAATAATTTACCT
1 ATAAATTTTTATTTTAAAATATTATGATACTCATATTTTAAATAATTTACCT
*** * * ** * * * * *
14189238 ATAAATGCATATATTACAATAATTAT--TTTTAAGATTATTACACCA-AATTAAGCA
1 ATAAATTTTTATTTTAAAAT-ATTATGATACTCATATT-TTA-A--ATAATTTACCT
14189292 ATAAATTTTTATTTTAAAATATTATGATACTCATATTTTAAATAATTTACCT
1 ATAAATTTTTATTTTAAAATATTATGATACTCATATTTTAAATAATTTACCT
14189344 ATAAAT
1 ATAAAT
14189350 GCATATAGAA
Statistics
Matches: 80, Mismatches: 24, Indels: 16
0.67 0.20 0.13
Matches are distributed among these distances:
51 7 0.09
52 30 0.38
53 12 0.15
54 24 0.30
55 7 0.09
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (52 bp):
ATAAATTTTTATTTTAAAATATTATGATACTCATATTTTAAATAATTTACCT
Found at i:14197090 original size:25 final size:24
Alignment explanation
Indices: 14197057--14197110 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
14197047 ATATACCCGT
* *
14197057 ATATGGATATTGTAATAATT-TATTA
1 ATATTGATATTAT-ATAATTATA-TA
14197082 ATATTGATATTATATAATTATATA
1 ATATTGATATTATATAATTATATA
14197106 ATATT
1 ATATT
14197111 TAATTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (24 bp):
ATATTGATATTATATAATTATATA
Found at i:14197485 original size:12 final size:13
Alignment explanation
Indices: 14197467--14197506 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
14197457 TAAAAATCAT
14197467 AAAAA-TTATAAA
1 AAAAAGTTATAAA
* *
14197479 CAAAATTTATAAA
1 AAAAAGTTATAAA
14197492 AAAAAGTTATAAA
1 AAAAAGTTATAAA
14197505 AA
1 AA
14197507 TTTTAAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (13 bp):
AAAAAGTTATAAA
Done.