Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 277 of 290
Found at i:88735106 original size:15 final size:15
Alignment explanation
Indices: 88735076--88735126 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
88735066 TTAAATACTC
*
88735076 TTATTATTTTTA-TA
1 TTATTAATTTTATTA
88735090 TTATTAATTTTATTA
1 TTATTAATTTTATTA
*
88735105 TTATTAATATTATTA
1 TTATTAATTTTATTA
88735120 TGTATTA
1 T-TATTA
88735127 GTTTATGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.33
15 17 0.52
16 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTAATTTTATTA
Found at i:88735533 original size:25 final size:26
Alignment explanation
Indices: 88735466--88735565 Score: 71
Period size: 27 Copynumber: 3.8 Consensus size: 26
88735456 CACAATCTCA
* *
88735466 TATATTATGTACGTA--CTTCTCATAT
1 TATATTATGTACATATTCTT-TCACAT
*
88735491 TATTAGTTATGTATATATTCTTT-ACAT
1 TA-TA-TTATGTACATATTCTTTCACAT
* * *
88735518 TATCTTATGTACATATATTTTTCATAT
1 TATATTATGTACATAT-TCTTTCACAT
* *
88735545 TATATTATATACATATCCTTT
1 TATATTATGTACATATTCTTT
88735566 TGATACCATG
Statistics
Matches: 58, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
25 13 0.22
26 10 0.17
27 31 0.53
28 1 0.02
29 3 0.05
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (26 bp):
TATATTATGTACATATTCTTTCACAT
Found at i:88735533 original size:27 final size:27
Alignment explanation
Indices: 88735503--88735560 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
88735493 TTAGTTATGT
* *
88735503 ATATATTCTTT-ACATTATCTTATGTAC
1 ATATATT-TTTCACATTATATTATATAC
*
88735530 ATATATTTTTCATATTATATTATATAC
1 ATATATTTTTCACATTATATTATATAC
88735557 ATAT
1 ATAT
88735561 CCTTTTGATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.53
Consensus pattern (27 bp):
ATATATTTTTCACATTATATTATATAC
Found at i:88741957 original size:38 final size:38
Alignment explanation
Indices: 88741915--88742015 Score: 166
Period size: 38 Copynumber: 2.7 Consensus size: 38
88741905 TGTAATAGAA
**
88741915 CAATTCAACACTAGCAGTACTCATGCTTAACATGTATT
1 CAATTCAACACTAGCAGTAAACATGCTTAACATGTATT
88741953 CAATTCAACACTAGCAGTAAACATGCTTAACATGTATT
1 CAATTCAACACTAGCAGTAAACATGCTTAACATGTATT
* *
88741991 CAATTCAATACTAGCAATAAACATG
1 CAATTCAACACTAGCAGTAAACATG
88742016 TTCTATCATA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (38 bp):
CAATTCAACACTAGCAGTAAACATGCTTAACATGTATT
Found at i:88755638 original size:33 final size:33
Alignment explanation
Indices: 88755601--88755669 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
88755591 ATATTGTAAA
*
88755601 AGATCGCATAGACTACTGAATGGAGTAGTCTAG
1 AGATCGCATAGACGACTGAATGGAGTAGTCTAG
88755634 AGATCGCATAGACGACTGAATGGAGTAGTCTAG
1 AGATCGCATAGACGACTGAATGGAGTAGTCTAG
88755667 AGA
1 AGA
88755670 CTATGTGACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (33 bp):
AGATCGCATAGACGACTGAATGGAGTAGTCTAG
Found at i:88758844 original size:18 final size:16
Alignment explanation
Indices: 88758821--88758857 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
88758811 TAAGTTTATA
88758821 ATATATTATATTATATTT
1 ATATATTAT-TTA-ATTT
88758839 ATATATTATTTAATTT
1 ATATATTATTTAATTT
88758855 ATA
1 ATA
88758858 ACATAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 3 0.16
18 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATATTATTTAATTT
Found at i:88759402 original size:27 final size:27
Alignment explanation
Indices: 88759352--88759404 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
88759342 CAAATATTAG
** *
88759352 TCAAAATAAATGCTGATTACAAATAAT
1 TCAAAATAAATGAAGAGTACAAATAAT
*
88759379 TCAAAATAAATGAAGAGTAGAAATAA
1 TCAAAATAAATGAAGAGTACAAATAA
88759405 CATTGTCTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.57, C:0.08, G:0.11, T:0.25
Consensus pattern (27 bp):
TCAAAATAAATGAAGAGTACAAATAAT
Found at i:88761654 original size:352 final size:352
Alignment explanation
Indices: 88760950--88761995 Score: 1869
Period size: 352 Copynumber: 3.0 Consensus size: 352
88760940 TACCCTAATA
* *
88760950 GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTTGTTTCCTATTGCTGTAGCTATTT
1 GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTCGTTTCCTATTGCTGTAGCTAGTT
* *
88761015 TTGTTAATCAGACTCCATTAATTGTCAGAAACGGGTATACCTAAAGTTTTAACA--TA--T---A
66 TTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTATATCTAAAGTTTTAACATGTACTTGGAA
*
88761073 --TCCTTGAAAGGACAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGAT
131 GGTCCTTGAAAGGAAAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGAT
*
88761136 AGGTTAGCACCAATTTTTGCCATGCATCAACCAAGATTTCCAGCCTTAAGAATCTTTTGACATGG
196 AGGTTAGCACCAATTTTTGCCATGCATCAACCAAGATTTCCAACCTTAAGAATCTTTTGACATGG
*
88761201 CACCTCAAATTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATG
261 CACCTC-AACTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATG
88761266 TTTCTCAACTAAACCTTATATAGGGATG
325 TTTCTCAACTAAACCTTATATAGGGATG
* *
88761294 GA-TTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTCGTTTCCTACTGCCGTAGCTAGTT
1 GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTCGTTTCCTATTGCTGTAGCTAGTT
88761358 TTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTATATCTAAAGTTTTAACATGTACTTGGAA
66 TTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTATATCTAAAGTTTTAACATGTACTTGGAA
88761423 GGTCCTTGAAAGGAAAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGAT
131 GGTCCTTGAAAGGAAAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGAT
88761488 AGGTTAGCACCAATTTTTGCCATGCATCAACCAAGATTTCCAACCTTAAGAATCTTTTGACATGG
196 AGGTTAGCACCAATTTTTGCCATGCATCAACCAAGATTTCCAACCTTAAGAATCTTTTGACATGG
88761553 CACCTCAACTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATGT
261 CACCTCAACTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATGT
88761618 TTCTCAACTAAACCTTATATAGGGATG
326 TTCTCAACTAAACCTTATATAGGGATG
*
88761645 GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAGTGTCGTTTCCTATTGCTGTAGCTAGTT
1 GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTCGTTTCCTATTGCTGTAGCTAGTT
88761710 TTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTATATCTAAAGTTTTAACATGTACTTGGAA
66 TTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTATATCTAAAGTTTTAACATGTACTTGGAA
*
88761775 GGTCCTTGAAAGGAAAAACTTTATAGCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGAT
131 GGTCCTTGAAAGGAAAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGAT
* *
88761840 AGGTTAGCACCAATTTTTGCTAAGCATCAACCAAGATTTCCAACCTTAAGAATCTTTTGACATGG
196 AGGTTAGCACCAATTTTTGCCATGCATCAACCAAGATTTCCAACCTTAAGAATCTTTTGACATGG
* *
88761905 CACCTCAACTGGACATAAATTGCTGCCCCCAAAGAAAAAGGCAAGCAAATTTTAGTCTATGATGT
261 CACCTCAACTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATGT
*
88761970 TTCTCAACTAAACGTTATATAGGGAT
326 TTCTCAACTAAACCTTATATAGGGAT
88761996 TGCCATGGAT
Statistics
Matches: 674, Mismatches: 18, Indels: 12
0.96 0.03 0.02
Matches are distributed among these distances:
343 110 0.16
344 2 0.00
345 2 0.00
347 1 0.00
350 1 0.00
351 87 0.13
352 471 0.70
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (352 bp):
GACTTTAGCATTCAGCATTTAAAAGGGTTGATCACTAATGTCGTTTCCTATTGCTGTAGCTAGTT
TTGTTAATCAGACTCCATTAATTGTCGGAAACGGGTATATCTAAAGTTTTAACATGTACTTGGAA
GGTCCTTGAAAGGAAAAACTTTATACCATGTCCAACTAAAAAACTATATAAACTAGCTTAAAGAT
AGGTTAGCACCAATTTTTGCCATGCATCAACCAAGATTTCCAACCTTAAGAATCTTTTGACATGG
CACCTCAACTGGACATAAATTGCTCCCCCCAAAGAAAAAGGCAAACAAATTTTAGTCTATGATGT
TTCTCAACTAAACCTTATATAGGGATG
Found at i:88767902 original size:9 final size:9
Alignment explanation
Indices: 88767888--88767920 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
88767878 GTTAAACGAA
88767888 TCGAGTTAT
1 TCGAGTTAT
*
88767897 TCGAGTTAA
1 TCGAGTTAT
88767906 TCGAGTTAT
1 TCGAGTTAT
88767915 TCGAGT
1 TCGAGT
88767921 CAACTCGAAT
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:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:88767909 original size:18 final size:18
Alignment explanation
Indices: 88767886--88767920 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
88767876 GAGTTAAACG
88767886 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
88767904 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
88767921 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:88767999 original size:9 final size:9
Alignment explanation
Indices: 88767972--88768008 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
88767962 TGAGTTTTCA
88767972 AATTCGAAT
1 AATTCGAAT
* *
88767981 AACTCCAAT
1 AATTCGAAT
88767990 AATTCGAAT
1 AATTCGAAT
88767999 AATTCGAAT
1 AATTCGAAT
88768008 A
1 A
88768009 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:88768334 original size:19 final size:19
Alignment explanation
Indices: 88768310--88768381 Score: 99
Period size: 19 Copynumber: 3.6 Consensus size: 19
88768300 CGAAATCCAT
88768310 CCTCAATTTTTACTCCCCC
1 CCTCAATTTTTACTCCCCC
88768329 CCTCAATTTTTACTTCCCATCC
1 CCTCAATTTTTAC-TCCC--CC
*
88768351 CCTAAAATTTTTACTCCCCC
1 CCT-CAATTTTTACTCCCCC
88768371 CCTCAATTTTT
1 CCTCAATTTTT
88768382 TTTTAATATT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
19 20 0.43
20 9 0.19
22 9 0.19
23 9 0.19
ACGTcount: A:0.19, C:0.40, G:0.00, T:0.40
Consensus pattern (19 bp):
CCTCAATTTTTACTCCCCC
Found at i:88772327 original size:24 final size:26
Alignment explanation
Indices: 88772299--88772353 Score: 87
Period size: 24 Copynumber: 2.2 Consensus size: 26
88772289 CTATATATAA
88772299 AAAATAATGTATAA-TATAAATTTT-
1 AAAATAATGTATAAGTATAAATTTTG
88772323 AAAATAATGTATAATGTATAAATTTTG
1 AAAATAATGTATAA-GTATAAATTTTG
88772350 AAAA
1 AAAA
88772354 CAAAAATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 14 0.50
26 10 0.36
27 4 0.14
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (26 bp):
AAAATAATGTATAAGTATAAATTTTG
Found at i:88772389 original size:14 final size:16
Alignment explanation
Indices: 88772372--88772403 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
88772362 CATGTATAAA
88772372 AAATTTTA-A-AATAG
1 AAATTTTACATAATAG
88772386 AAATTTTACATAATAG
1 AAATTTTACATAATAG
88772402 AA
1 AA
88772404 CAATTTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.34
Consensus pattern (16 bp):
AAATTTTACATAATAG
Found at i:88772506 original size:22 final size:22
Alignment explanation
Indices: 88772481--88772522 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
88772471 TAAGATAATT
88772481 TTAAAAAACAAATG-ATAAAATC
1 TTAAAAAA-AAATGAATAAAATC
*
88772503 TTAAATAAAAATGAATAAAA
1 TTAAAAAAAAATGAATAAAA
88772523 ACATAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.24
Consensus pattern (22 bp):
TTAAAAAAAAATGAATAAAATC
Found at i:88772529 original size:22 final size:22
Alignment explanation
Indices: 88772490--88772536 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
88772480 TTTAAAAAAC
* *
88772490 AAATGATAAAATCTTAAA-TAA
1 AAATGATAAAAACATAAATTAA
88772511 AAATGAATAAAAACATAAATTAA
1 AAATG-ATAAAAACATAAATTAA
88772534 AAA
1 AAA
88772537 AACTCCATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 11 0.50
23 6 0.27
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (22 bp):
AAATGATAAAAACATAAATTAA
Found at i:88774279 original size:177 final size:176
Alignment explanation
Indices: 88774027--88774945 Score: 1215
Period size: 177 Copynumber: 5.2 Consensus size: 176
88774017 TTGATGACTT
* * ** *
88774027 AAATCTGTTCCATTGCCGATACATGGAGATAAGATTCGCTGTCTTCGATCTGCTCCACTATTGCT
1 AAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCT
*
88774092 TAGGGAGATAAGATCTTCAATCTCCAGTCTGCTTCCTTGCTACCTTAAGAAGATAAGACTACAAT
66 TAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTA-CTTAAGAAGATAAGACTACAAT
* * **
88774157 CACCAACCTGCTCTCTTGTTACCTCAGAGAGATAAGGCTAGTAACTA
130 CTCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTA
88774204 AAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCT
1 AAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCT
* * *
88774269 TAGGGAGATAAGATCTTCCATCTTCAGTCTGTTTCCCTGCTACTTCAAGAAGATAAGACTACAAT
66 TAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACTT-AAGAAGATAAGACTACAAT
* *
88774334 -TGCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGACTA
130 CT-CCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTA
* * * * *
88774381 AAATATGCTCCATTGTAGATACATAGAGATAAGATTCGCCA-CATTCGATCTGCTCCACCACTAC
1 AAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCATC-TTCGATCTGCTCCACTACTGC
* * * * * *
88774445 TTAGGGAGATAAGATCCTCAATCTTCAGTCTGTTTCC-TGCAACCTCAGGAAGATAAGACTACCA
65 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTA-CTTAAGAAGATAAGACTACAA
*
88774509 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTA
129 TCTCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTA
* * *
88774557 AAATTTGCTCCATTGTTGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCACTACTGCT
1 AAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCT
* * * * *
88774622 TAGGGAGATAAGATCTTCAATCCTCAGTCTGCTTCCTTACTACATCAGAAAGATAAGATTACAAT
66 TAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACTTAAG-AAGATAAGACTACAAT
* * * * *
88774687 CTCTAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGGTGGTGGCTT
130 CTCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTA
* * *
88774734 AAATCTGCTCCATTG-CTGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTTCACTACTGT
1 AAATCTGCTCCATTGTC-GATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGC
* * * * *
88774798 TTAGGGAGATAAGATCCTCAATCTTCAGTCTGCTTTCTTGCTACGTCAGAAATATAAGACT-CAA
65 TTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACTTAAG-AAGATAAGACTACAA
* *
88774862 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCT-GAT-GCTT
129 TCTCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAG-TGGCTA
* * *
88774909 AAACCTACTCCATT-TCCAATACATGGAGATAAGATTC
1 AAATCTGCTCCATTGT-CGATACATGGAGATAAGATTC
88774946 ACCGTCTTTG
Statistics
Matches: 662, Mismatches: 68, Indels: 26
0.88 0.09 0.03
Matches are distributed among these distances:
175 36 0.05
176 200 0.30
177 426 0.64
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (176 bp):
AAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCT
TAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACTTAAGAAGATAAGACTACAATC
TCCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTA
Found at i:88774898 original size:43 final size:44
Alignment explanation
Indices: 88774803--88774898 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 44
88774793 ACTGTTTAGG
** * *
88774803 GAGATAAGATCCTCAATCTTCAGTCTGCTTTCTTGCTACGTCAGA
1 GAGATAAGA-CCTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
* *
88774848 AATATAAGA-CTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
1 GAGATAAGACCTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
88774891 GAGATAAG
1 GAGATAAG
88774899 GCTGATGCTT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 36 0.84
45 7 0.16
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (44 bp):
GAGATAAGACCTCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
Found at i:88774987 original size:353 final size:353
Alignment explanation
Indices: 88774021--88774966 Score: 1273
Period size: 353 Copynumber: 2.7 Consensus size: 353
88774011 ACAAGGTTGA
* * **
88774021 TGACTTAAATCTGTTCCATTGCCGATACATGGAGATAAGATTCGCTGTCTTCGATCTGCTCCACT
1 TGACTTAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACT
* * * * *
88774086 ATTGCTTAGGGAGATAAGATCTTCAATCTCCAGTCTGCTTCCTTGCTACCTTA-AGAAGATAAGA
66 ACTGCTTAGGGAGATAAGATCCTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGA-AAGATAAGA
** * *
88774150 CTACAATCACCAACCTGCTCTCTTGTTACCTCAGAGAGATAAGGCTAGTAACTAAAATCTGCTCC
130 CTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTAGCTAAAATCTGCTCC
*
88774215 ATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAA
195 ATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCACTACT-CTTAGGGAGATAA
* * * * *
88774280 GATCTTCCATCTTCAGTCTGTTTCCCTGCTACTTCAAGAAGATAAGACTACAATTGCCAACCTGC
259 GATCTTCAATCCTCAGTCTGCTTCCCTACTACATCAAGAAGATAAGACTACAATTGCCAACCTGC
*
88774345 TCTCTTGCTACCTCAGAGAGATAAGGCCAG
324 TCTCTTGCTACCTCAAAGAGATAAGGCCAG
* * *
88774375 TGACTAAAATATGCTCCATTG-TAGATACATAGAGATAAGATTCGCCA-CATTCGATCTGCTCCA
1 TGACTTAAATCTGCTCCATTGCT-GATACATGGAGATAAGATTCGCCATC-TTCGATCTGCTCCA
* * * * *
88774438 CCACTACTTAGGGAGATAAGATCCTCAATCTTCAGTCTG-TTTCCTGCAACCTCAGGAAGATAAG
64 CTACTGCTTAGGGAGATAAGATCCTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAG
* * *
88774502 ACTACCATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATTTGCTC
129 ACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTAGCTAAAATCTGCTC
*
88774567 CATTGTTGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCACTACTGCTTAGGGAGATA
194 CATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCACTACT-CTTAGGGAGATA
* * *
88774632 AGATCTTCAATCCTCAGTCTGCTTCCTTACTACATC-AGAAAGATAAGATTACAATCT-CTAACC
258 AGATCTTCAATCCTCAGTCTGCTTCCCTACTACATCAAG-AAGATAAGACTACAAT-TGCCAACC
***
88774695 TGCTCTCTTGCTACCTCAAAGAGATAAGGGTGG
321 TGCTCTCTTGCTACCTCAAAGAGATAAGGCCAG
* * *
88774728 TGGCTTAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTTCACT
1 TGACTTAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACT
* * *
88774793 ACTGTTTAGGGAGATAAGATCCTCAATCTTCAGTCTGCTTTCTTGCTACGTCAGAAATATAAGAC
66 ACTGCTTAGGGAGATAAGATCCTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGAC
* * *
88774858 T-CAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCT-G-ATGCTTAAACCTACTCC
131 TACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTA-GCTAAAATCTGCTCC
* * * * *
88774920 ATT-TCCAATACATGGAGATAAGATTCACCGTCTTTGGTCTGTTCCAC
195 ATTGT-CGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCAC
88774967 CGTAACTTCA
Statistics
Matches: 518, Mismatches: 64, Indels: 22
0.86 0.11 0.04
Matches are distributed among these distances:
351 1 0.00
352 53 0.10
353 351 0.68
354 113 0.22
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (353 bp):
TGACTTAAATCTGCTCCATTGCTGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACT
ACTGCTTAGGGAGATAAGATCCTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGAC
TACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTAGCTAAAATCTGCTCCA
TTGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGTTCCACTACTCTTAGGGAGATAAGA
TCTTCAATCCTCAGTCTGCTTCCCTACTACATCAAGAAGATAAGACTACAATTGCCAACCTGCTC
TCTTGCTACCTCAAAGAGATAAGGCCAG
Found at i:88775248 original size:64 final size:64
Alignment explanation
Indices: 88775146--88775337 Score: 312
Period size: 64 Copynumber: 3.0 Consensus size: 64
88775136 TTCATGTATC
* *
88775146 ATGCTTATGCCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* ** * * *
88775210 ATGCTTATGTCAACTAATTAGGACACTATAATCGAAATGAATCAAATGTTCCTAACTAGATATG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
88775274 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
88775338 TTATGAATGA
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 114 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:88776423 original size:12 final size:12
Alignment explanation
Indices: 88776400--88776455 Score: 55
Period size: 10 Copynumber: 4.7 Consensus size: 12
88776390 TTGGCCTCTC
88776400 CTTTTCTTTTTAT
1 CTTTT-TTTTTAT
88776413 CTTTTTTTTTA-
1 CTTTTTTTTTAT
88776424 -TTTTTTTTTAT
1 CTTTTTTTTTAT
*
88776435 -TTTTTTATTGATT
1 CTTTTTT-TTTA-T
88776448 CTTTTTTT
1 CTTTTTTT
88776456 ATTTTTTCTC
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
10 10 0.26
11 6 0.16
12 9 0.24
13 7 0.18
14 6 0.16
ACGTcount: A:0.09, C:0.07, G:0.02, T:0.82
Consensus pattern (12 bp):
CTTTTTTTTTAT
Found at i:88776427 original size:9 final size:10
Alignment explanation
Indices: 88776414--88776462 Score: 71
Period size: 10 Copynumber: 4.6 Consensus size: 10
88776404 TCTTTTTATC
88776414 TTTTTTTTTA
1 TTTTTTTTTA
88776424 TTTTTTTTTA
1 TTTTTTTTTA
88776434 TTTTTTTATTGA
1 TTTTTTT-TT-A
88776446 TTCTTTTTTTA
1 TT-TTTTTTTA
88776457 TTTTTT
1 TTTTTT
88776463 CTCTCCTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
10 21 0.58
11 5 0.14
12 5 0.14
13 5 0.14
ACGTcount: A:0.10, C:0.02, G:0.02, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:88776434 original size:22 final size:22
Alignment explanation
Indices: 88776401--88776462 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 22
88776391 TGGCCTCTCC
*
88776401 TTTTCTTTTTATCTTTTTT-TTTA
1 TTTT-TTTTTAT-TTTTTTATTGA
88776424 TTTTTTTTTATTTTTTTATTGA
1 TTTTTTTTTATTTTTTTATTGA
88776446 TTCTTTTTTTATTTTTT
1 TT-TTTTTTTATTTTTT
88776463 CTCTCCTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
21 6 0.17
22 12 0.33
23 18 0.50
ACGTcount: A:0.10, C:0.05, G:0.02, T:0.84
Consensus pattern (22 bp):
TTTTTTTTTATTTTTTTATTGA
Found at i:88776474 original size:22 final size:21
Alignment explanation
Indices: 88776396--88776475 Score: 61
Period size: 23 Copynumber: 3.6 Consensus size: 21
88776386 CGCCTTGGCC
*
88776396 TCTCCTTTTCTTTTTATCTTTTT
1 TCTCATTTT-TTTTTAT-TTTTT
* *
88776419 TTTTATTTTTTTTTATTTTTT
1 TCTCATTTTTTTTTATTTTTT
* *
88776440 TATTGATTCTTTTTTTATTTTTT
1 T-CTCATT-TTTTTTTATTTTTT
*
88776463 CTCTCCTTTTTTT
1 -TCTCATTTTTTT
88776476 ATTTTAATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
21 6 0.13
22 17 0.36
23 23 0.49
24 1 0.02
ACGTcount: A:0.07, C:0.12, G:0.01, T:0.79
Consensus pattern (21 bp):
TCTCATTTTTTTTTATTTTTT
Found at i:88776500 original size:13 final size:14
Alignment explanation
Indices: 88776469--88776504 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
88776459 TTTTCTCTCC
*
88776469 TTTTTTTATTTTAA
1 TTTTTTTATTTCAA
*
88776483 TTTTTTTATTTCGA
1 TTTTTTTATTTCAA
88776497 TTTTTTTA
1 TTTTTTTA
88776505 AGGTCTCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (14 bp):
TTTTTTTATTTCAA
Found at i:88777544 original size:19 final size:18
Alignment explanation
Indices: 88777488--88777551 Score: 53
Period size: 20 Copynumber: 3.5 Consensus size: 18
88777478 TTACTCCCCA
*
88777488 TTTACTTTCCCTC-AAACT
1 TTTATTTTCCC-CAAAACT
88777506 TTTA--TTCCCCAAAACTT
1 TTTATTTTCCCCAAAAC-T
*
88777523 TTTATTTTCCTCCTAAACT
1 TTTATTTTCC-CCAAAACT
88777542 TTTACTTTTC
1 TTTA-TTTTC
88777552 ACCTTTTACT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 1 0.03
16 9 0.23
17 5 0.13
18 4 0.10
19 9 0.23
20 11 0.28
ACGTcount: A:0.22, C:0.28, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTATTTTCCCCAAAACT
Found at i:88777692 original size:17 final size:16
Alignment explanation
Indices: 88777670--88777713 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
88777660 CATTTTATAT
88777670 TATTTATATTATTGAA
1 TATTTATATTATTGAA
*
88777686 TTGTTTAGTA-TATTGAA
1 -TATTTA-TATTATTGAA
88777703 TATTTATATTA
1 TATTTATATTA
88777714 AAATTAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
15 2 0.09
16 7 0.30
17 12 0.52
18 2 0.09
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (16 bp):
TATTTATATTATTGAA
Found at i:88783094 original size:34 final size:30
Alignment explanation
Indices: 88783018--88783097 Score: 88
Period size: 34 Copynumber: 2.5 Consensus size: 30
88783008 ACTATATATA
* *
88783018 AAAAATAATGTATAATATAATTTTTAAAAT
1 AAAAATAATGTATAATATAATTTTGAAAAC
*
88783048 AATATATAATGTATAATGTATAAATTTTGAAAAC
1 AA-AAATAATGTATAA--TAT-AATTTTGAAAAC
88783082 AAAAATACATGTATAA
1 AAAAATA-ATGTATAA
88783098 AGAAAATTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 2 0.05
31 12 0.29
33 7 0.17
34 20 0.49
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (30 bp):
AAAAATAATGTATAATATAATTTTGAAAAC
Found at i:88783242 original size:21 final size:21
Alignment explanation
Indices: 88783210--88783263 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
88783200 TAAGATAATT
88783210 TTAAA-AACAAAT-AATAAAATC
1 TTAAATAA-AAATGAATAAAA-C
88783231 TTAAATAAAAATGAATAAAAC
1 TTAAATAAAAATGAATAAAAC
*
88783252 ATAAATTAAAAA
1 TTAAA-TAAAAA
88783264 AACTCCATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 14 0.48
22 15 0.52
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.24
Consensus pattern (21 bp):
TTAAATAAAAATGAATAAAAC
Found at i:88784769 original size:22 final size:21
Alignment explanation
Indices: 88784742--88784877 Score: 112
Period size: 22 Copynumber: 6.1 Consensus size: 21
88784732 TTTTATATTA
*
88784742 TTAAAAATATATATTTAATAT
1 TTAAAAATATATATTTAAAAT
*
88784763 TTAAAAATA-ATATTTAAAAA
1 TTAAAAATATATATTTAAAAT
* * * *
88784783 ATAATATTATAAATTTAAAAAATAAT
1 TTAAAAATATATATTT----AA-AAT
88784809 TTAAAAAATATATATTTAAAAT
1 TT-AAAAATATATATTTAAAAT
88784831 TTAAAAAATATATATTATAAAAT
1 TT-AAAAATATATATT-TAAAAT
* *
88784854 ATTTAAAATATACATTTAAAAT
1 -TTAAAAATATATATTTAAAAT
88784876 TT
1 TT
88784878 TTTAAAATTA
Statistics
Matches: 93, Mismatches: 13, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
20 15 0.16
21 16 0.17
22 25 0.27
23 19 0.20
24 2 0.02
25 2 0.02
26 3 0.03
27 11 0.12
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAAAAATATATATTTAAAAT
Found at i:88784773 original size:13 final size:13
Alignment explanation
Indices: 88784757--88784829 Score: 61
Period size: 13 Copynumber: 5.9 Consensus size: 13
88784747 AATATATATT
88784757 TAATATTTAAAAA
1 TAATATTTAAAAA
88784770 TAATATTTAAAAAA
1 TAATATTT-AAAAA
88784784 TAATA-TT----A
1 TAATATTTAAAAA
88784792 TAA-ATTTAAAAAA
1 TAATATTT-AAAAA
*
88784805 TAAT-TTAAAAAA
1 TAATATTTAAAAA
88784817 TATATATTTAAAA
1 TA-ATATTTAAAA
88784830 TTTAAAAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 19
0.70 0.03 0.28
Matches are distributed among these distances:
7 1 0.02
8 6 0.12
12 7 0.15
13 18 0.38
14 16 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAATATTTAAAAA
Found at i:88784782 original size:34 final size:34
Alignment explanation
Indices: 88784742--88784852 Score: 138
Period size: 34 Copynumber: 3.2 Consensus size: 34
88784732 TTTTATATTA
88784742 TTAAAAATATATATTTAATATTT-AAAAATAATAT
1 TTAAAAATATATATTTAA-ATTTAAAAAATAATAT
88784776 TTAAAAA-ATAATATTATAAATTTAAAAAATAAT-T
1 TTAAAAATAT-ATATT-TAAATTTAAAAAATAATAT
*
88784810 TAAAAAATATATATTTAAAATTTAAAAAATATATAT
1 TTAAAAATATATATTT-AAATTTAAAAAATA-ATAT
88784846 TATAAAA
1 T-TAAAA
88784853 TATTTAAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 13
0.82 0.02 0.16
Matches are distributed among these distances:
33 3 0.04
34 42 0.63
35 16 0.24
36 2 0.03
37 4 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (34 bp):
TTAAAAATATATATTTAAATTTAAAAAATAATAT
Found at i:88784881 original size:23 final size:22
Alignment explanation
Indices: 88784813--88784885 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 22
88784803 AATAATTTAA
**
88784813 AAAATATATATTTAAAATTTAA
1 AAAATATATATTTAAAATTTTT
*
88784835 AAAATATATATTATAAAATATTT
1 AAAATATATATT-TAAAATTTTT
*
88784858 AAAATATACATTTAAAATTTTTT
1 AAAATATATATTTAAAA-TTTTT
88784881 AAAAT
1 AAAAT
88784886 TAATAATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
22 17 0.39
23 27 0.61
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAATATATATTTAAAATTTTT
Found at i:88784885 original size:68 final size:66
Alignment explanation
Indices: 88784744--88784884 Score: 158
Period size: 68 Copynumber: 2.0 Consensus size: 66
88784734 TTATATTATT
* *
88784744 AAAAATATATATTTAATATTTAAAAATAATATTTAAAAAATAATATTATAAATTTAAAAAATAAT
1 AAAAATATATATTTAAAATTTAAAAATAATATTTAAAAAATAATAATATAAATTT-AAAAAT-AT
88784809 TTA
64 TTA
* * *
88784812 AAAAATATATATTTAAAATTTAAAAAATATATATTATAAAATATTTAA-AATATACATTTAAAAT
1 AAAAATATATATTTAAAATTT-AAAAATA-ATATT-TAAAA-A-ATAATAATATAAATTTAAAAA
*
88784876 TTTTTA
61 TATTTA
88784882 AAA
1 AAA
88784885 TTAATAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
68 20 0.32
69 7 0.11
70 12 0.19
71 10 0.16
72 10 0.16
73 3 0.05
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (66 bp):
AAAAATATATATTTAAAATTTAAAAATAATATTTAAAAAATAATAATATAAATTTAAAAATATTT
A
Found at i:88785736 original size:45 final size:45
Alignment explanation
Indices: 88785672--88785765 Score: 107
Period size: 45 Copynumber: 2.1 Consensus size: 45
88785662 TTTATTTTTA
* * * * * *
88785672 TTTTTAACTTTTGTCTTTTTCTTTAATTTCTTTAGTTTTTTTCTT
1 TTTTTAACTTTTATATTTTTCCTTAATTTATTTAGTTTGTTTATT
* * *
88785717 TTTTTAAGTTTTATATTTTTCCTTATTTTATTTTGTTTGTTTATT
1 TTTTTAACTTTTATATTTTTCCTTAATTTATTTAGTTTGTTTATT
88785762 TTTT
1 TTTT
88785766 GTTATTAATT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.13, C:0.07, G:0.05, T:0.74
Consensus pattern (45 bp):
TTTTTAACTTTTATATTTTTCCTTAATTTATTTAGTTTGTTTATT
Found at i:88785820 original size:35 final size:34
Alignment explanation
Indices: 88785780--88785948 Score: 164
Period size: 36 Copynumber: 4.8 Consensus size: 34
88785770 TTAATTTAAA
* *
88785780 AAAAATTAAATGTATA-TTTTTATAATATATATTTTT
1 AAAATTTAAATATATATTTTTTA-AAT-TAT-TTTTT
88785816 AAAATTTAAA-ATATTATTTTTTAAATTATTTTTT
1 AAAATTTAAATATA-TATTTTTTAAATTATTTTTT
*
88785850 AAAATTTTAAATATATATTTTTGAAATTATTTCTTAT
1 AAAA-TTTAAATATATATTTTTTAAATTATTT-TT-T
* * *
88785887 AAATTTTAAAAATATATTTTTGAAATTAATTTTTAT
1 AAAATTTAAATATATATTTTTTAAATT-ATTTTT-T
*
88785923 AAATTTTAAATAT-TATTTTTTTAAAT
1 AAAATTTAAATATATA-TTTTTTAAAT
88785949 ATTAAATATA
Statistics
Matches: 118, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
34 9 0.08
35 29 0.25
36 66 0.56
37 14 0.12
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.55
Consensus pattern (34 bp):
AAAATTTAAATATATATTTTTTAAATTATTTTTT
Found at i:88785835 original size:21 final size:22
Alignment explanation
Indices: 88785798--88785842 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
88785788 AATGTATATT
*
88785798 TTTATAATATATATTTTTAAAA
1 TTTAAAATATATATTTTTAAAA
*
88785820 TTTAAAATAT-TATTTTTTAAA
1 TTTAAAATATATATTTTTAAAA
88785841 TT
1 TT
88785843 ATTTTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTAAAATATATATTTTTAAAA
Found at i:88785854 original size:13 final size:12
Alignment explanation
Indices: 88785828--88785927 Score: 59
Period size: 13 Copynumber: 8.2 Consensus size: 12
88785818 AATTTAAAAT
88785828 ATTATTTTTTAA
1 ATTATTTTTTAA
88785840 ATTATTTTTTAA
1 ATTATTTTTTAA
88785852 A--A--TTTTAA
1 ATTATTTTTTAA
88785860 ATATATATTTTTGAA
1 AT-TAT-TTTTT-AA
*
88785875 ATTATTTCTTATA
1 ATTATTTTTTA-A
**
88785888 A--ATTTTAAAA
1 ATTATTTTTTAA
*
88785898 ATATATTTTTGAA
1 AT-TATTTTTTAA
88785911 ATTAATTTTTATAA
1 ATT-ATTTTT-TAA
88785925 ATT
1 ATT
88785928 TTAAATATTA
Statistics
Matches: 68, Mismatches: 7, Indels: 24
0.69 0.07 0.24
Matches are distributed among these distances:
8 7 0.10
10 3 0.04
11 6 0.09
12 15 0.22
13 21 0.31
14 12 0.18
15 4 0.06
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (12 bp):
ATTATTTTTTAA
Found at i:88785857 original size:21 final size:23
Alignment explanation
Indices: 88785833--88785877 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 23
88785823 AAAATATTAT
88785833 TTTTTAAAT-TAT-TTTTTAAAA
1 TTTTTAAATATATATTTTTAAAA
*
88785854 -TTTTAAATATATATTTTTGAAA
1 TTTTTAAATATATATTTTTAAAA
88785876 TT
1 TT
88785878 ATTTCTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
20 8 0.40
21 3 0.15
22 8 0.40
23 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTTAAATATATATTTTTAAAA
Found at i:88785868 original size:71 final size:73
Alignment explanation
Indices: 88785785--88785951 Score: 206
Period size: 71 Copynumber: 2.4 Consensus size: 73
88785775 TTAAAAAAAA
* * *
88785785 TTAAATGTATATTTTTATAATATATATT-TT-TAAAATTT-AAAATATTATTTTTTAAATTATTT
1 TTAAATATATATTTTTATAATATAT-TTCTTATAAAATTTAAAAATA-TATTTTTGAAATTAATT
88785847 TTTA-AAATT
64 TTTATAAATT
*
88785856 TTAAATATATATTTTTGA-AAT-TATTTCTTATAAATTTTAAAAATATATTTTTGAAATTAATTT
1 TTAAATATATATTTTT-ATAATATATTTCTTATAAAATTTAAAAATATATTTTTGAAATTAATTT
88785919 TTATAAATT
65 TTATAAATT
*
88785928 TTAAATAT-TATTTTTTTAA-ATATT
1 TTAAATATATATTTTTATAATATATT
88785952 AAATATATTT
Statistics
Matches: 84, Mismatches: 5, Indels: 14
0.82 0.05 0.14
Matches are distributed among these distances:
69 2 0.02
70 5 0.06
71 57 0.68
72 20 0.24
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.57
Consensus pattern (73 bp):
TTAAATATATATTTTTATAATATATTTCTTATAAAATTTAAAAATATATTTTTGAAATTAATTTT
TATAAATT
Found at i:88785870 original size:22 final size:22
Alignment explanation
Indices: 88785834--88785976 Score: 66
Period size: 22 Copynumber: 6.3 Consensus size: 22
88785824 AAATATTATT
88785834 TTTTAAAT-TAT-TTTTTAAAA
1 TTTTAAATATATATTTTTAAAA
*
88785854 TTTTAAATATATATTTTTGAAA
1 TTTTAAATATATATTTTTAAAA
*** * *
88785876 TTATTTCTTATAAATTTTAAAAATATA
1 TT-TTAAATATATATTTT--TAA-A-A
88785903 TTTTTGAAAT-TA-ATTTTTATAAA
1 -TTTT-AAATATATATTTTTA-AAA
*
88785926 TTTTAAATAT-TATTTTTTTAAA
1 TTTTAAATATATA-TTTTTAAAA
*
88785948 TATT-AA-ATATATTTTTAATAA
1 TTTTAAATATATATTTTTAA-AA
88785969 TATTTAAA
1 T-TTTAAA
88785977 CATTAAAATT
Statistics
Matches: 91, Mismatches: 15, Indels: 31
0.66 0.11 0.23
Matches are distributed among these distances:
20 16 0.18
21 14 0.15
22 24 0.26
23 19 0.21
24 2 0.02
25 2 0.02
26 6 0.07
27 5 0.05
28 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (22 bp):
TTTTAAATATATATTTTTAAAA
Found at i:88785974 original size:29 final size:27
Alignment explanation
Indices: 88785942--88786000 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
88785932 ATATTATTTT
* * *
88785942 TTTAAATATTAAATATATTTTTAATAATA
1 TTTAAACATTAAA-AT-TTTTAAATAAAA
88785971 TTTAAACATTAAAATTTTTAAATAAAA
1 TTTAAACATTAAAATTTTTAAATAAAA
88785998 TTT
1 TTT
88786001 TTATAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 13 0.48
28 2 0.07
29 12 0.44
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
TTTAAACATTAAAATTTTTAAATAAAA
Found at i:88786003 original size:29 final size:29
Alignment explanation
Indices: 88785940--88785995 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
88785930 AAATATTATT
* *
88785940 TTTTTAAATATTAAATATATTTTTAATAA
1 TTTTTAAACATTAAATATATTTTAAATAA
*
88785969 TATTTAAACATTAAA-AT-TTTTAAATAA
1 TTTTTAAACATTAAATATATTTTAAATAA
88785996 AATTTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 9 0.38
28 2 0.08
29 13 0.54
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (29 bp):
TTTTTAAACATTAAATATATTTTAAATAA
Found at i:88786009 original size:12 final size:13
Alignment explanation
Indices: 88785980--88786013 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
88785970 ATTTAAACAT
88785980 TAAAATTTTTAAA
1 TAAAATTTTTAAA
*
88785993 TAAAATTTTTATA
1 TAAAATTTTTAAA
88786006 -AAAATTTT
1 TAAAATTTT
88786014 AAAAGCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TAAAATTTTTAAA
Found at i:88786126 original size:13 final size:14
Alignment explanation
Indices: 88786108--88786139 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
88786098 AACCATTTTT
88786108 AAATTTTTA-TTAA
1 AAATTTTTATTTAA
88786121 AAA-TTTTATTTAA
1 AAATTTTTATTTAA
88786134 AAATTT
1 AAATTT
88786140 AAACATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.29
13 10 0.59
14 2 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AAATTTTTATTTAA
Found at i:88786249 original size:31 final size:30
Alignment explanation
Indices: 88786214--88786272 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
88786204 ATTTAAACAT
*
88786214 TTAAA-ATTTTTAATAAAAAACTTAAAAATGG
1 TTAAATATCTTTAA-AAAAAAC-TAAAAATGG
*
88786245 TTAAATATCTTTAAAAATAACTAAAAAT
1 TTAAATATCTTTAAAAAAAACTAAAAAT
88786273 AATAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 11 0.44
32 7 0.28
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (30 bp):
TTAAATATCTTTAAAAAAAACTAAAAATGG
Found at i:88786405 original size:20 final size:21
Alignment explanation
Indices: 88786377--88786429 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
88786367 GTTTAAATAT
*
88786377 TATTAAAAAAAT-ATATTTAA
1 TATTTAAAAAATAATATTTAA
88786397 TATTT-AAAAATAATATTTAA
1 TATTTAAAAAATAATATTTAA
*
88786417 AATTTAGAAAAAT
1 TATTTA-AAAAAT
88786430 TAATTTCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 6 0.21
20 16 0.57
22 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
TATTTAAAAAATAATATTTAA
Found at i:88786410 original size:13 final size:13
Alignment explanation
Indices: 88786394--88786418 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88786384 AAAATATATT
88786394 TAATATTTAAAAA
1 TAATATTTAAAAA
88786407 TAATATTTAAAA
1 TAATATTTAAAA
88786419 TTTAGAAAAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATATTTAAAAA
Found at i:88786433 original size:36 final size:36
Alignment explanation
Indices: 88786398--88786500 Score: 115
Period size: 36 Copynumber: 2.9 Consensus size: 36
88786388 TATATTTAAT
88786398 ATTT-AAAAATAATATTTAAAATTTA-GAAAAATTA
1 ATTTCAAAAATAATATTTAAAATTTATGAAAAATTA
* * *
88786432 ATTTCAAAAATTAATTTTTAAAATTTATTAGAAA-TA
1 ATTTCAAAAA-TAATATTTAAAATTTATGAAAAATTA
* * *
88786468 ATTTCAAATAT-ATATTTAAAATTTTTAAAAAAT
1 ATTTCAAAAATAATATTTAAAATTTATGAAAAAT
88786501 ATATATTATA
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
34 21 0.37
35 6 0.11
36 26 0.46
37 4 0.07
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (36 bp):
ATTTCAAAAATAATATTTAAAATTTATGAAAAATTA
Found at i:88786456 original size:13 final size:13
Alignment explanation
Indices: 88786424--88786448 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88786414 TAAAATTTAG
88786424 AAAAATTAATTTC
1 AAAAATTAATTTC
88786437 AAAAATTAATTT
1 AAAAATTAATTT
88786449 TTAAAATTTA
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:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAAATTAATTTC
Found at i:88786548 original size:10 final size:9
Alignment explanation
Indices: 88786535--88786653 Score: 55
Period size: 9 Copynumber: 13.1 Consensus size: 9
88786525 TTTTAAAATT
88786535 AATAACAAAA
1 AATAA-AAAA
*
88786545 AATAAATAA
1 AATAAAAAA
88786554 AATAAATAAA
1 AATAAA-AAA
* *
88786564 CA-AAATAA
1 AATAAAAAA
*
88786572 AATAAGAAA
1 AATAAAAAA
*
88786581 AATATAAAAC
1 AATA-AAAAA
**
88786591 TTTAAAAAA
1 AATAAAAAA
*
88786600 ATTAAAGAAA
1 AATAAA-AAA
* *
88786610 AAGACAAAA
1 AATAAAAAA
**
88786619 GTTAAAAAA
1 AATAAAAAA
88786628 AAT--AAAA
1 AATAAAAAA
*
88786635 AGTAAAAAA
1 AATAAAAAA
*
88786644 AGTAAAAAA
1 AATAAAAAA
88786653 A
1 A
88786654 CCAGAAGACT
Statistics
Matches: 80, Mismatches: 23, Indels: 13
0.69 0.20 0.11
Matches are distributed among these distances:
7 6 0.08
8 3 0.04
9 52 0.65
10 19 0.24
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (9 bp):
AATAAAAAA
Found at i:88786560 original size:13 final size:13
Alignment explanation
Indices: 88786530--88786572 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
88786520 AAATTTTTTA
* *
88786530 AAATTAATAACAAA
1 AAATAAATAA-AAT
88786544 AAATAAATAAAAT
1 AAATAAATAAAAT
*
88786557 AAATAAACAAAAT
1 AAATAAATAAAAT
88786570 AAA
1 AAA
88786573 ATAAGAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.19
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:88786574 original size:23 final size:24
Alignment explanation
Indices: 88786528--88786584 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
88786518 TCAAATTTTT
*
88786528 TAAAATTAAT-AACAAAAAATAAA
1 TAAAATAAATAAACAAAAAATAAA
*
88786551 TAAAATAAATAAACAAAATA-AAA
1 TAAAATAAATAAACAAAAAATAAA
88786574 TAAGAA-AAATA
1 TAA-AATAAATA
88786585 TAAAACTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 20 0.67
24 10 0.33
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (24 bp):
TAAAATAAATAAACAAAAAATAAA
Found at i:88786597 original size:29 final size:27
Alignment explanation
Indices: 88786565--88786632 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 27
88786555 ATAAATAAAC
* * *
88786565 AAAATAAAATAAGAAAAATATAAAACTTT
1 AAAA-AAAATAAGAAAAAGACAAAA-GTT
*
88786594 AAAAAAATTAAAGAAAAAGACAAAAGTT
1 AAAAAAAAT-AAGAAAAAGACAAAAGTT
88786622 AAAAAAAATAA
1 AAAAAAAATAA
88786633 AAAGTAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 2 0.06
28 14 0.42
29 17 0.52
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.18
Consensus pattern (27 bp):
AAAAAAAATAAGAAAAAGACAAAAGTT
Found at i:88786634 original size:16 final size:15
Alignment explanation
Indices: 88786542--88786650 Score: 57
Period size: 16 Copynumber: 7.3 Consensus size: 15
88786532 ATTAATAACA
* *
88786542 AAAAATAAATAAAAT
1 AAAAGTAAAAAAAAT
*
88786557 -AAA-TAAACAAAAT
1 AAAAGTAAAAAAAAT
88786570 AAAA-TAAGAAAAATAT
1 AAAAGTAA-AAAAA-AT
* *
88786586 AAAACTTTAAAAAAAT
1 AAAA-GTAAAAAAAAT
* * *
88786602 TAAAG--AAAAAGAC
1 AAAAGTAAAAAAAAT
88786615 AAAAGTTAAAAAAAAT
1 AAAAG-TAAAAAAAAT
*
88786631 AAAAAGTAAAAAAAGT
1 -AAAAGTAAAAAAAAT
88786647 AAAA
1 AAAA
88786651 AAACCAGAAG
Statistics
Matches: 74, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
13 19 0.26
14 9 0.12
15 8 0.11
16 26 0.35
17 10 0.14
18 2 0.03
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.17
Consensus pattern (15 bp):
AAAAGTAAAAAAAAT
Found at i:88786652 original size:17 final size:17
Alignment explanation
Indices: 88786595--88786651 Score: 62
Period size: 16 Copynumber: 3.3 Consensus size: 17
88786585 TAAAACTTTA
* *
88786595 AAAAAATTAAAGAAAAAG
1 AAAAAGTTAAA-AAAAAT
88786613 ACAAAAGTTAAAAAAAAT
1 A-AAAAGTTAAAAAAAAT
*
88786631 AAAAAG-TAAAAAAAGT
1 AAAAAGTTAAAAAAAAT
88786647 AAAAA
1 AAAAA
88786652 AACCAGAAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 14 0.40
17 5 0.14
18 7 0.20
19 9 0.26
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAAAGTTAAAAAAAAT
Found at i:88794262 original size:22 final size:21
Alignment explanation
Indices: 88794237--88794294 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
88794227 ATAATTTATT
88794237 TAATTAAATAATATATTAATAA
1 TAATTAAATAATAT-TTAATAA
*
88794259 TAATTAAATTAGATATTTTATAA
1 TAATTAAA-TA-ATATTTAATAA
* *
88794282 TATTTTAATAATA
1 TAATTAAATAATA
88794295 AAATGATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 3 0.10
22 10 0.32
23 14 0.45
24 4 0.13
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TAATTAAATAATATTTAATAA
Found at i:88794284 original size:10 final size:11
Alignment explanation
Indices: 88794243--88794294 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
88794233 TATTTAATTA
*
88794243 AATAATATATT
1 AATAATATTTT
* *
88794254 AATAATAATTA
1 AATAATATTTT
88794265 AATTAGATATTTT
1 AA-TA-ATATTTT
88794278 -ATAATATTTT
1 AATAATATTTT
88794288 AATAATA
1 AATAATA
88794295 AAATGATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
10 7 0.21
11 18 0.55
12 3 0.09
13 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (11 bp):
AATAATATTTT
Found at i:88799909 original size:13 final size:12
Alignment explanation
Indices: 88799879--88799909 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
88799869 TTAAATTATC
88799879 AATTAATTTTTA
1 AATTAATTTTTA
88799891 AATTAATTTTTA
1 AATTAATTTTTA
88799903 AACTTAA
1 AA-TTAA
88799910 AAGAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (12 bp):
AATTAATTTTTA
Found at i:88800587 original size:7 final size:7
Alignment explanation
Indices: 88800575--88800599 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
88800565 ATTTTTTTCC
88800575 TTTATCT
1 TTTATCT
88800582 TTTATCT
1 TTTATCT
88800589 TTTATCT
1 TTTATCT
88800596 TTTA
1 TTTA
88800600 ATAAAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATCT
Found at i:88801698 original size:19 final size:19
Alignment explanation
Indices: 88801674--88801712 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
88801664 AAATGCCTTT
88801674 ATGTCCTACTTTCAAGTGA
1 ATGTCCTACTTTCAAGTGA
88801693 ATGTCCTACTTTCAAGTGA
1 ATGTCCTACTTTCAAGTGA
88801712 A
1 A
88801713 GAAGGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGTCCTACTTTCAAGTGA
Found at i:88805057 original size:43 final size:42
Alignment explanation
Indices: 88805009--88805176 Score: 158
Period size: 43 Copynumber: 4.0 Consensus size: 42
88804999 TACCGAGATA
88805009 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATT
** * * * *
88805051 GTGATTATGTATAAAACCATGTCTGGGACATTGGCATCGTTAAT
1 -TGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATT
* * * * * **
88805095 CGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCAATATT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCAT-TGTATT
* * *
88805138 TGATAACATGTAAGACCATATCTGGGATA-TGGCATTGTA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
88805177 CAAGCTATAT
Statistics
Matches: 98, Mismatches: 25, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 87 0.89
44 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (42 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATT
Found at i:88805430 original size:29 final size:29
Alignment explanation
Indices: 88805388--88805447 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
88805378 TGCCAAAATG
88805388 TGTTTATTTGGCTATAATGAGGTATGAAT
1 TGTTTATTTGGCTATAATGAGGTATGAAT
88805417 TGTTTATTTGGCTATAATGAGGTATGAAT
1 TGTTTATTTGGCTATAATGAGGTATGAAT
88805446 TG
1 TG
88805448 CATGACATGT
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:0.27, C:0.03, G:0.25, T:0.45
Consensus pattern (29 bp):
TGTTTATTTGGCTATAATGAGGTATGAAT
Found at i:88807262 original size:15 final size:14
Alignment explanation
Indices: 88807206--88807276 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 14
88807196 TTATTATGTT
*
88807206 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
88807220 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
88807234 TACTATTATTATTTA
1 T-CTATTTTTATTTA
88807249 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
*
88807264 TCTATTTATATTT
1 TCTATTTTTATTT
88807277 CTACTATTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
12 6 0.13
13 2 0.04
14 14 0.30
15 15 0.33
16 2 0.04
17 7 0.15
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:88807275 original size:29 final size:28
Alignment explanation
Indices: 88807206--88807276 Score: 67
Period size: 29 Copynumber: 2.5 Consensus size: 28
88807196 TTATTATGTT
88807206 TCTATTTATATTTATTTTGTTATTCTAA
1 TCTATTTATATTTATTTTGTTATTCTAA
*
88807234 TACTA-TTATTATTTATCTAATTTTTATT-T-A
1 T-CTATTTA-TATTTAT-T--TTGTTATTCTAA
88807264 TCTATTTATATTT
1 TCTATTTATATTT
88807277 CTACTATTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 11
0.75 0.02 0.23
Matches are distributed among these distances:
28 4 0.11
29 18 0.50
30 6 0.17
31 1 0.03
32 7 0.19
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.65
Consensus pattern (28 bp):
TCTATTTATATTTATTTTGTTATTCTAA
Found at i:88807546 original size:3 final size:3
Alignment explanation
Indices: 88807501--88807605 Score: 74
Period size: 3 Copynumber: 35.7 Consensus size: 3
88807491 CTATTTATAT
* * * *
88807501 TTA TGTA TTA ATA TCA TTA TT- TTT TTA TT- TT- TTA TT- TTT TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
88807543 TTA TTA TCA TTA TTA TTA CTA TTA GTA CTA TTA TTA TTT TCTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
*
88807589 TTA TTA CTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
88807606 TATAGTATAT
Statistics
Matches: 80, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
2 8 0.10
3 67 0.84
4 5 0.06
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:88808656 original size:6 final size:6
Alignment explanation
Indices: 88808645--88808673 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
88808635 TGGCGACTCC
88808645 CATTTT CATTTT CATTTT CATTTT CATTT
1 CATTTT CATTTT CATTTT CATTTT CATTT
88808674 CCAAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (6 bp):
CATTTT
Found at i:88815229 original size:13 final size:12
Alignment explanation
Indices: 88815211--88815255 Score: 58
Period size: 13 Copynumber: 3.8 Consensus size: 12
88815201 AGGTGGTTGT
88815211 TTTTCTTTTTAAA
1 TTTTCTTTTT-AA
88815224 TTTTCTTTTTAA
1 TTTTCTTTTTAA
*
88815236 TTTTC-CTTT-A
1 TTTTCTTTTTAA
88815246 TTTTCTTTTT
1 TTTTCTTTTT
88815256 CCCAAATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 6 0.21
11 6 0.21
12 7 0.24
13 10 0.34
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTCTTTTTAA
Found at i:88825311 original size:10 final size:10
Alignment explanation
Indices: 88825296--88825352 Score: 53
Period size: 10 Copynumber: 5.4 Consensus size: 10
88825286 GAAGAAAGGA
88825296 AAAAAGAAAG
1 AAAAAGAAAG
88825306 AAAAAGAAAG
1 AAAAAGAAAG
88825316 AAAAA-AAGGAG
1 AAAAAGAA--AG
*
88825327 AGAAAAAAATAG
1 A-AAAAGAA-AG
*
88825339 AAAAGGAAAG
1 AAAAAGAAAG
88825349 AAAA
1 AAAA
88825353 TAAAATAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 2 0.05
10 21 0.52
11 8 0.20
12 7 0.17
13 2 0.05
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:88825313 original size:22 final size:23
Alignment explanation
Indices: 88825287--88825365 Score: 71
Period size: 22 Copynumber: 3.6 Consensus size: 23
88825277 TAACCCGAAG
*
88825287 AAGAAAGGAAAAAA-GAAAGAAA
1 AAGAAAGAAAAAAAGGAAAGAAA
*
88825309 AAGAAAGAAAAAAAGGAGAGAAA
1 AAGAAAGAAAAAAAGGAAAGAAA
88825332 AA-AATAG---AAAAGGAAAGAAA
1 AAGAA-AGAAAAAAAGGAAAGAAA
*
88825352 ATA-AAATAAAAAAA
1 A-AGAAAGAAAAAAA
88825366 TAAAAAGATA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
20 14 0.30
21 3 0.06
22 15 0.32
23 15 0.32
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (23 bp):
AAGAAAGAAAAAAAGGAAAGAAA
Found at i:88825330 original size:13 final size:13
Alignment explanation
Indices: 88825298--88825341 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
88825288 AGAAAGGAAA
88825298 AAAGAAAGAAAAAG
1 AAAGAAA-AAAAAG
*
88825312 AAAGAAAAAAAGG
1 AAAGAAAAAAAAG
*
88825325 AGAGAAAAAAATAG
1 AAAGAAAAAAA-AG
88825339 AAA
1 AAA
88825342 AGGAAAGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.02
Consensus pattern (13 bp):
AAAGAAAAAAAAG
Found at i:88825527 original size:24 final size:23
Alignment explanation
Indices: 88825485--88825537 Score: 88
Period size: 24 Copynumber: 2.3 Consensus size: 23
88825475 AGCAAAAAAA
*
88825485 AAGCAGCAAAAAGAAGAAGAAAG
1 AAGCAGAAAAAAGAAGAAGAAAG
88825508 AAGCAGAAAACAAGAAGAAGAAAG
1 AAGCAGAAAA-AAGAAGAAGAAAG
88825532 AAGCAG
1 AAGCAG
88825538 CCCACTTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.64, C:0.09, G:0.26, T:0.00
Consensus pattern (23 bp):
AAGCAGAAAAAAGAAGAAGAAAG
Found at i:88826163 original size:17 final size:17
Alignment explanation
Indices: 88826120--88826167 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
88826110 AAGAAAAAAT
88826120 CGTGTTTCAAAAATTTTCA
1 CGTGTTTC-AAAA-TTTCA
88826139 --TGTCTTCAAAATTTCA
1 CGTGT-TTCAAAATTTCA
88826155 CGTGTTTCAAAAT
1 CGTGTTTCAAAAT
88826168 AATAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 5 0.19
17 15 0.58
18 6 0.23
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (17 bp):
CGTGTTTCAAAATTTCA
Found at i:88826315 original size:24 final size:24
Alignment explanation
Indices: 88826288--88826336 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
88826278 AATTCCCGTG
*
88826288 TTTTAAAAAAAAAAATTCGTGTTT
1 TTTTAAAAAAAAAAATTCATGTTT
**
88826312 TTTTTTAAAAAAAAATTCATGTTT
1 TTTTAAAAAAAAAAATTCATGTTT
88826336 T
1 T
88826337 AAAAAAATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (24 bp):
TTTTAAAAAAAAAAATTCATGTTT
Found at i:88826342 original size:17 final size:17
Alignment explanation
Indices: 88826320--88826353 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
88826310 TTTTTTTTAA
88826320 AAAAAAATTCATGTTTT
1 AAAAAAATTCATGTTTT
88826337 AAAAAAATTCATGTTTT
1 AAAAAAATTCATGTTTT
88826354 CGAAATTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (17 bp):
AAAAAAATTCATGTTTT
Found at i:88826379 original size:18 final size:18
Alignment explanation
Indices: 88826356--88826485 Score: 90
Period size: 18 Copynumber: 7.3 Consensus size: 18
88826346 CATGTTTTCG
88826356 AAATTTTCGTGTTTTCAA
1 AAATTTTCGTGTTTTCAA
*
88826374 AAATTTT--TG-TGTCAAA
1 AAATTTTCGTGTTTTC-AA
* * * *
88826390 AAATTCTCATG-TATCGA
1 AAATTTTCGTGTTTTCAA
* *
88826407 AAATTTCCTTGTTTTCAAA
1 AAATTTTCGTGTTTTC-AA
* *
88826426 AAAATTCCGTGTTTTCAAAA
1 AAATTTTCGTGTTTTC--AA
*
88826446 AAAATTTCGTG-TTTCAA
1 AAATTTTCGTGTTTTCAA
*
88826463 AAATCTTCGTGTTTTCAA
1 AAATTTTCGTGTTTTCAA
88826481 AAATT
1 AAATT
88826486 ATTATTGTGT
Statistics
Matches: 90, Mismatches: 15, Indels: 14
0.76 0.13 0.12
Matches are distributed among these distances:
15 3 0.03
16 10 0.11
17 20 0.22
18 25 0.28
19 19 0.21
20 13 0.14
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (18 bp):
AAATTTTCGTGTTTTCAA
Found at i:88826428 original size:19 final size:19
Alignment explanation
Indices: 88826406--88826483 Score: 88
Period size: 19 Copynumber: 4.2 Consensus size: 19
88826396 TCATGTATCG
* *
88826406 AAAATTTCCTTGTTTTCAA
1 AAAAATTCCGTGTTTTCAA
88826425 AAAAATTCCGTGTTTTCAAA
1 AAAAATTCCGTGTTTTC-AA
*
88826445 AAAAATTTCGTG-TTTCAA
1 AAAAATTCCGTGTTTTCAA
**
88826463 AAATCTT-CGTGTTTTCAA
1 AAAAATTCCGTGTTTTCAA
88826481 AAA
1 AAA
88826484 TTATTATTGT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
17 4 0.08
18 16 0.31
19 19 0.37
20 13 0.25
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (19 bp):
AAAAATTCCGTGTTTTCAA
Found at i:88826431 original size:20 final size:20
Alignment explanation
Indices: 88826406--88826483 Score: 87
Period size: 20 Copynumber: 4.1 Consensus size: 20
88826396 TCATGTATCG
*
88826406 AAAATTTCCTTGTTTTCAAA
1 AAAATTTCCGTGTTTTCAAA
88826426 AAAA-TTCCGTGTTTTCAAAA
1 AAAATTTCCGTGTTTTC-AAA
88826446 AAAATTT-CGTG-TTTC--A
1 AAAATTTCCGTGTTTTCAAA
88826462 AAAATCTT-CGTGTTTTCAAA
1 AAAAT-TTCCGTGTTTTCAAA
88826482 AA
1 AA
88826484 TTATTATTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
16 6 0.12
17 6 0.12
18 4 0.08
19 15 0.29
20 18 0.35
21 2 0.04
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (20 bp):
AAAATTTCCGTGTTTTCAAA
Found at i:88826461 original size:38 final size:38
Alignment explanation
Indices: 88826419--88826501 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
88826409 ATTTCCTTGT
88826419 TTTCAAAAAAATTCCGTGTTTTCAAAAAAAATT-TCGTG
1 TTTCAAAAAAATT-CGTGTTTTCAAAAAAAATTATCGTG
** ** *
88826457 TTTCAAAAATCTTCGTGTTTTCAAAAATTATTATTGTG
1 TTTCAAAAAAATTCGTGTTTTCAAAAAAAATTATCGTG
88826495 TTTCAAA
1 TTTCAAA
88826502 GTTCTCGTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 17 0.44
38 22 0.56
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (38 bp):
TTTCAAAAAAATTCGTGTTTTCAAAAAAAATTATCGTG
Found at i:88839814 original size:12 final size:12
Alignment explanation
Indices: 88839797--88839852 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 12
88839787 TAACCCGAAG
88839797 AAGAAAGGAAAA
1 AAGAAAGGAAAA
*
88839809 AAGAAAAG-AAA
1 AAGAAAGGAAAA
88839820 AAGAAA-GAAAA
1 AAGAAAGGAAAA
* *
88839831 AAGGAGAGAAAAA
1 AA-GAAAGGAAAA
88839844 ATAGAAAGG
1 A-AGAAAGG
88839853 GAAAGAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 14 0.40
12 10 0.29
13 9 0.26
14 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (12 bp):
AAGAAAGGAAAA
Found at i:88839834 original size:30 final size:31
Alignment explanation
Indices: 88839794--88839863 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
88839784 TTTTAACCCG
*
88839794 AAGAAGAAAGGA-A-AAAAGAAAAGAAAAAGA
1 AAGAAAAAAGGAGAGAAAA-AAAAGAAAAAGA
* **
88839824 AAGAAAAAAGGAGAGAAAAAATAGAAAGGGA
1 AAGAAAAAAGGAGAGAAAAAAAAGAAAAAGA
88839855 AAGAAAAAA
1 AAGAAAAAA
88839864 AAATAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 11 0.32
31 19 0.56
32 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.01
Consensus pattern (31 bp):
AAGAAAAAAGGAGAGAAAAAAAAGAAAAAGA
Found at i:88839844 original size:23 final size:23
Alignment explanation
Indices: 88839797--88839843 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
88839787 TAACCCGAAG
88839797 AAGAAAGGAAAAAAGAAAAGAAA
1 AAGAAAGGAAAAAAGAAAAGAAA
* *
88839820 AAGAAA-GAAAAAAGGAGAGAAA
1 AAGAAAGGAAAAAAGAAAAGAAA
88839842 AA
1 AA
88839844 ATAGAAAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (23 bp):
AAGAAAGGAAAAAAGAAAAGAAA
Found at i:88839873 original size:8 final size:8
Alignment explanation
Indices: 88839860--88839893 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
88839850 AGGGAAAGAA
88839860 AAAAAAAT
1 AAAAAAAT
88839868 AAAAAAAT
1 AAAAAAAT
*
88839876 AAAAAGAT
1 AAAAAAAT
88839884 AACAAAAAT
1 AA-AAAAAT
88839893 A
1 A
88839894 TCAGTCGGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 17 0.74
9 6 0.26
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:88840032 original size:24 final size:24
Alignment explanation
Indices: 88839994--88840048 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
88839984 AGCAAAAAAA
88839994 AAGCAGCAAAAAAGAAGAAGAAAG
1 AAGCAGCAAAAAAGAAGAAGAAAG
88840018 AAGCAG-AAAACAAGAAGAAGAAAG
1 AAGCAGCAAAA-AAGAAGAAGAAAG
88840042 AAGCAGC
1 AAGCAGC
88840049 CCACTTTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 4 0.14
24 25 0.86
ACGTcount: A:0.64, C:0.11, G:0.25, T:0.00
Consensus pattern (24 bp):
AAGCAGCAAAAAAGAAGAAGAAAG
Found at i:88840673 original size:17 final size:17
Alignment explanation
Indices: 88840630--88840677 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
88840620 AAGAAAAAAT
88840630 CGTGTTTCAAAAATTTTCA
1 CGTGTTTC-AAAA-TTTCA
88840649 --TGTCTTCAAAATTTCA
1 CGTGT-TTCAAAATTTCA
88840665 CGTGTTTCAAAAT
1 CGTGTTTCAAAAT
88840678 AATAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
16 5 0.19
17 15 0.58
18 6 0.23
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (17 bp):
CGTGTTTCAAAATTTCA
Found at i:88840761 original size:17 final size:17
Alignment explanation
Indices: 88840741--88840805 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
88840731 AAAAAAAATC
88840741 CGTGTTTCAAAAATTCT
1 CGTGTTTCAAAAATTCT
* **
88840758 CGTGAATAAAAAAATT-T
1 CGTG-TTTCAAAAATTCT
*
88840775 CGTGTTTCCAAAAATTCC
1 CGTGTTT-CAAAAATTCT
*
88840793 CGTGTTTTAAAAA
1 CGTGTTTCAAAAA
88840806 AAAATTTCGT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
16 1 0.03
17 21 0.57
18 15 0.41
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.35
Consensus pattern (17 bp):
CGTGTTTCAAAAATTCT
Found at i:88840787 original size:18 final size:19
Alignment explanation
Indices: 88840765--88840819 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 19
88840755 TCTCGTGAAT
88840765 AAAAAAATTTCGTGTTT--
1 AAAAAAATTTCGTGTTTAA
** *
88840782 CCAAAAATTCCCGTGTTTTAA
1 AAAAAAATT-TCGTG-TTTAA
88840803 AAAAAAATTTCGTGTTT
1 AAAAAAATTTCGTGTTT
88840820 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
17 7 0.25
18 4 0.14
19 6 0.21
20 4 0.14
21 7 0.25
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (19 bp):
AAAAAAATTTCGTGTTTAA
Found at i:88840829 original size:24 final size:24
Alignment explanation
Indices: 88840797--88840844 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
88840787 AATTCCCGTG
* *
88840797 TTTTAAAAAAAAATTTCGTGTTTT
1 TTTTAAAAAAAAAATTCATGTTTT
*
88840821 TTTTTAAAAAAAAATTCATGTTTT
1 TTTTAAAAAAAAAATTCATGTTTT
88840845 AAAAAAATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (24 bp):
TTTTAAAAAAAAAATTCATGTTTT
Found at i:88840831 original size:25 final size:24
Alignment explanation
Indices: 88840797--88840844 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
88840787 AATTCCCGTG
*
88840797 TTTTAAAAAAAAATTTCGTGTTTTT
1 TTTTAAAAAAAAA-TTCATGTTTTT
88840822 TTTTAAAAAAAAATTCATGTTTT
1 TTTTAAAAAAAAATTCATGTTTT
88840845 AAAAAAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (24 bp):
TTTTAAAAAAAAATTCATGTTTTT
Found at i:88840935 original size:19 final size:19
Alignment explanation
Indices: 88840913--88840990 Score: 88
Period size: 19 Copynumber: 4.2 Consensus size: 19
88840903 TCATGTATCG
* *
88840913 AAAATTTCCTTGTTTTCAA
1 AAAAATTCCGTGTTTTCAA
88840932 AAAAATTCCGTGTTTTCAAA
1 AAAAATTCCGTGTTTTC-AA
*
88840952 AAAAATTTCGTG-TTTCAA
1 AAAAATTCCGTGTTTTCAA
**
88840970 AAATCTT-CGTGTTTTCAA
1 AAAAATTCCGTGTTTTCAA
88840988 AAA
1 AAA
88840991 TTATTATTGT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
17 4 0.08
18 16 0.31
19 19 0.37
20 13 0.25
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (19 bp):
AAAAATTCCGTGTTTTCAA
Found at i:88840938 original size:20 final size:20
Alignment explanation
Indices: 88840913--88840990 Score: 87
Period size: 20 Copynumber: 4.1 Consensus size: 20
88840903 TCATGTATCG
*
88840913 AAAATTTCCTTGTTTTCAAA
1 AAAATTTCCGTGTTTTCAAA
88840933 AAAA-TTCCGTGTTTTCAAAA
1 AAAATTTCCGTGTTTTC-AAA
88840953 AAAATTT-CGTG-TTTC--A
1 AAAATTTCCGTGTTTTCAAA
88840969 AAAATCTT-CGTGTTTTCAAA
1 AAAAT-TTCCGTGTTTTCAAA
88840989 AA
1 AA
88840991 TTATTATTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
16 6 0.12
17 6 0.12
18 4 0.08
19 15 0.29
20 18 0.35
21 2 0.04
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (20 bp):
AAAATTTCCGTGTTTTCAAA
Found at i:88840968 original size:38 final size:38
Alignment explanation
Indices: 88840926--88841008 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
88840916 ATTTCCTTGT
88840926 TTTCAAAAAAATTCCGTGTTTTCAAAAAAAATT-TCGTG
1 TTTCAAAAAAATT-CGTGTTTTCAAAAAAAATTATCGTG
** ** *
88840964 TTTCAAAAATCTTCGTGTTTTCAAAAATTATTATTGTG
1 TTTCAAAAAAATTCGTGTTTTCAAAAAAAATTATCGTG
88841002 TTTCAAA
1 TTTCAAA
88841009 GTTCTCGTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 17 0.44
38 22 0.56
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (38 bp):
TTTCAAAAAAATTCGTGTTTTCAAAAAAAATTATCGTG
Found at i:88840991 original size:18 final size:17
Alignment explanation
Indices: 88840829--88840992 Score: 86
Period size: 17 Copynumber: 9.4 Consensus size: 17
88840819 TTTTTTTAAA
* * *
88840829 AAAAAATTCATGTTTTA
1 AAAAATTTCGTGTTTTC
* *
88840846 AAAAAATTCATGTTTTC
1 AAAAATTTCGTGTTTTC
* *
88840863 GAAATTTTCGTGTTTTC
1 AAAAATTTCGTGTTTTC
* *
88840880 -AAAATTT-TTG-TGTC
1 AAAAATTTCGTGTTTTC
* *
88840894 AAAAAATTCTCATG-TATC
1 -AAAAATT-TCGTGTTTTC
* *
88840912 GAAAATTTCCTTGTTTTC
1 AAAAATTT-CGTGTTTTC
*
88840930 AAAAAAATTCCGTGTTTTC
1 --AAAAATTTCGTGTTTTC
88840949 AAAAAAAATTTCGTG-TTTC
1 ---AAAAATTTCGTGTTTTC
88840968 AAAAATCTTCGTGTTTTC
1 AAAAAT-TTCGTGTTTTC
88840986 AAAAATT
1 AAAAATT
88840993 ATTATTGTGT
Statistics
Matches: 119, Mismatches: 17, Indels: 22
0.75 0.11 0.14
Matches are distributed among these distances:
14 3 0.03
15 2 0.02
16 19 0.16
17 46 0.39
18 18 0.15
19 12 0.10
20 19 0.16
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (17 bp):
AAAAATTTCGTGTTTTC
Found at i:88843412 original size:16 final size:17
Alignment explanation
Indices: 88843384--88843418 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
88843374 TCTATTTACT
88843384 AATTAATTTTTTTTTAA
1 AATTAATTTTTTTTTAA
88843401 AATTAA-TTTTTTTTAA
1 AATTAATTTTTTTTTAA
88843417 AA
1 AA
88843419 AATAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AATTAATTTTTTTTTAA
Found at i:88843421 original size:18 final size:17
Alignment explanation
Indices: 88843384--88843419 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
88843374 TCTATTTACT
*
88843384 AATTAATTTTTTTTTAA
1 AATTAATTTTTTTTAAA
88843401 AATTAATTTTTTTTAAA
1 AATTAATTTTTTTTAAA
88843418 AA
1 AA
88843420 ATAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AATTAATTTTTTTTAAA
Found at i:88843426 original size:18 final size:17
Alignment explanation
Indices: 88843388--88843426 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
88843378 TTTACTAATT
* *
88843388 AATTTTTTTTTAAAATT
1 AATTTTTTTTAAAAATA
88843405 AATTTTTTTTAAAAAATA
1 AATTTTTTTT-AAAAATA
88843423 AATT
1 AATT
88843427 ATATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTTTTTTAAAAATA
Found at i:88849034 original size:24 final size:26
Alignment explanation
Indices: 88849004--88849057 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
88848994 TTTTGTATAT
*
88849004 ATTTTTA-AAA-ATATAAATTTTAGA
1 ATTTTTACAAACATATAAATTTTAAA
* *
88849028 ATTTTTACAAACATTTTAATTTTAAA
1 ATTTTTACAAACATATAAATTTTAAA
88849054 ATTT
1 ATTT
88849058 ATTTTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 7 0.28
25 3 0.12
26 15 0.60
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (26 bp):
ATTTTTACAAACATATAAATTTTAAA
Found at i:88849089 original size:19 final size:19
Alignment explanation
Indices: 88849040--88849089 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
88849030 TTTTACAAAC
88849040 ATTTTAA-TTTTAAAATTT
1 ATTTTAATTTTTAAAATTT
88849058 ATTTTAAATTTTTGAAAA-TT
1 ATTTT-AATTTTT-AAAATTT
88849078 ATTTTAATTTTT
1 ATTTTAATTTTT
88849090 TTATAAATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.17
19 9 0.31
20 11 0.38
21 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTTTAATTTTTAAAATTT
Found at i:88849097 original size:21 final size:20
Alignment explanation
Indices: 88849047--88849097 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
88849037 AACATTTTAA
88849047 TTTTAAAATTTATTTTAAATT
1 TTTTAAAA-TTATTTTAAATT
* *
88849068 TTTGAAAATTATTTTAATTT
1 TTTTAAAATTATTTTAAATT
88849088 TTTTATAAAT
1 TTTTA-AAAT
88849098 AGAGAACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTTAAAATTATTTTAAATT
Found at i:88854008 original size:16 final size:16
Alignment explanation
Indices: 88853973--88854010 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
88853963 TAAATGTAAT
*
88853973 ATTT-TATATTATATT
1 ATTTATATATTATATA
*
88853988 TTTTATATATTATATA
1 ATTTATATATTATATA
88854004 ATTTATA
1 ATTTATA
88854011 ACACATAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTATATATTATATA
Found at i:88855376 original size:16 final size:16
Alignment explanation
Indices: 88855355--88855389 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
88855345 TTCTACAATT
88855355 ACGAGAATTAAGTAAA
1 ACGAGAATTAAGTAAA
88855371 ACGAGAATTAAGTAAA
1 ACGAGAATTAAGTAAA
88855387 ACG
1 ACG
88855390 GCAAAAGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.09, G:0.20, T:0.17
Consensus pattern (16 bp):
ACGAGAATTAAGTAAA
Found at i:88868355 original size:46 final size:45
Alignment explanation
Indices: 88868189--88868406 Score: 236
Period size: 46 Copynumber: 5.0 Consensus size: 45
88868179 TTTGACGTGA
* * * * ** * *
88868189 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTGTCATG-
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTCATATCAGGT
** * * *
88868233 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACAC-ATTCATATCAGGT
88868279 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAT-TCATATCAGGT
88868325 TGCCATGGTATCTTTCAACCATGGTCTT--ACA--C--AT-AGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTCATATCAGGT
88868363 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTCATATCAG
88868407 AGAGCACACT
Statistics
Matches: 150, Mismatches: 13, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
38 32 0.21
39 2 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 31 0.21
45 11 0.07
46 69 0.46
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.39
Consensus pattern (45 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTCATATCAGGT
Found at i:88868372 original size:38 final size:38
Alignment explanation
Indices: 88868321--88868396 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
88868311 ATCTCATATC
88868321 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
88868359 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
88868397 TTCATATCAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (38 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
Found at i:88870601 original size:27 final size:28
Alignment explanation
Indices: 88870541--88870612 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 28
88870531 TATACTAATA
88870541 AAATAATAATAAAATATCTTATTAAAGT
1 AAATAATAATAAAATATCTTATTAAAGT
*
88870569 -ATTAATAA-AATAATAT-TTATCTAAA-T
1 AAATAATAATAA-AATATCTTAT-TAAAGT
*
88870595 AAATAATTATAAAATATC
1 AAATAATAATAAAATATC
88870613 AAAATATCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
26 7 0.19
27 27 0.75
28 2 0.06
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.38
Consensus pattern (28 bp):
AAATAATAATAAAATATCTTATTAAAGT
Found at i:88873213 original size:11 final size:11
Alignment explanation
Indices: 88873197--88873221 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
88873187 CGTAACACAT
88873197 TTAACATTGGG
1 TTAACATTGGG
88873208 TTAACATTGGG
1 TTAACATTGGG
88873219 TTA
1 TTA
88873222 TGGTAATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.08, G:0.24, T:0.40
Consensus pattern (11 bp):
TTAACATTGGG
Found at i:88873353 original size:17 final size:18
Alignment explanation
Indices: 88873331--88873365 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
88873321 TTTACCCTTA
*
88873331 AAATA-TATTACCCCATT
1 AAATATTATTACACCATT
88873348 AAATATTATTACACCATT
1 AAATATTATTACACCATT
88873366 CATAATATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATATTATTACACCATT
Found at i:88874855 original size:45 final size:45
Alignment explanation
Indices: 88874794--88874912 Score: 220
Period size: 45 Copynumber: 2.6 Consensus size: 45
88874784 ATATCCTTCT
88874794 TCCTCGGATCTACCATAACTTGGCTTCCTATATCCTTCTTCCTCC
1 TCCTCGGATCTACCATAACTTGGCTTCCTATATCCTTCTTCCTCC
*
88874839 TCCTCGGATCTACCATAACTTGGCTTCCTATATCCTTCTTCCTCT
1 TCCTCGGATCTACCATAACTTGGCTTCCTATATCCTTCTTCCTCC
*
88874884 TCCTCGGATCTACCATAACTTGGTTTCCT
1 TCCTCGGATCTACCATAACTTGGCTTCCT
88874913 CTCATACCCG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.16, C:0.35, G:0.10, T:0.39
Consensus pattern (45 bp):
TCCTCGGATCTACCATAACTTGGCTTCCTATATCCTTCTTCCTCC
Found at i:88875228 original size:54 final size:54
Alignment explanation
Indices: 88875164--88875287 Score: 185
Period size: 54 Copynumber: 2.3 Consensus size: 54
88875154 TGTTCGCCAT
* *
88875164 ATTCGGGTCTCCGGCCATACCCAGATTCAAATTCAGGAGGCGGAGGCTGCTCAA
1 ATTCGGGTCTCCGGCCATACCCAGATCCAAACTCAGGAGGCGGAGGCTGCTCAA
* * *
88875218 ATTCGGGTCTCCGTCGATACCCAGATCCAAACTCAGGCGGCGGAGGCTGCTCAA
1 ATTCGGGTCTCCGGCCATACCCAGATCCAAACTCAGGAGGCGGAGGCTGCTCAA
* *
88875272 ATTCTGATCTCCGGCC
1 ATTCGGGTCTCCGGCC
88875288 GGATCCGAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.22, C:0.31, G:0.27, T:0.21
Consensus pattern (54 bp):
ATTCGGGTCTCCGGCCATACCCAGATCCAAACTCAGGAGGCGGAGGCTGCTCAA
Found at i:88887369 original size:22 final size:22
Alignment explanation
Indices: 88887344--88887389 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
88887334 TTTATACATC
88887344 AACTCATTTTATATTAACATTT
1 AACTCATTTTATATTAACATTT
88887366 AACTCATTTTATATTAACATTT
1 AACTCATTTTATATTAACATTT
88887388 AA
1 AA
88887390 ACTTATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (22 bp):
AACTCATTTTATATTAACATTT
Found at i:88889768 original size:40 final size:37
Alignment explanation
Indices: 88889665--88889799 Score: 143
Period size: 35 Copynumber: 3.7 Consensus size: 37
88889655 TTTTCCTCAT
* * *
88889665 TGAAACACCATACCTACATTTTACAACTCGGTATGG-
1 TGAAATACCATACCTACATTTCACAACTCAGTATGGA
* ** **
88889701 -GAAATGCCATACCTATGTTTCTTAACTCAGTATGGA
1 TGAAATACCATACCTACATTTCACAACTCAGTATGGA
88889737 TTTGATAATACCATACCTACATTTCACAACTCAGTATGGA
1 --TGA-AATACCATACCTACATTTCACAACTCAGTATGGA
88889777 TG--ATACCATACCTACATTTCACA
1 TGAAATACCATACCTACATTTCACA
88889800 CTTTGCCATG
Statistics
Matches: 81, Mismatches: 13, Indels: 11
0.77 0.12 0.10
Matches are distributed among these distances:
35 48 0.59
38 2 0.02
39 2 0.02
40 29 0.36
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (37 bp):
TGAAATACCATACCTACATTTCACAACTCAGTATGGA
Found at i:88897779 original size:12 final size:13
Alignment explanation
Indices: 88897759--88897787 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
88897749 TAAAAAAAAA
88897759 TTTATTTTAATTT
1 TTTATTTTAATTT
88897772 TTTA-TTTAATTT
1 TTTATTTTAATTT
88897784 TTTA
1 TTTA
88897788 AACTTACCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTTAATTT
Found at i:88897919 original size:9 final size:8
Alignment explanation
Indices: 88897887--88897918 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
88897877 TTAATTATAT
*
88897887 TTTTAAAT
1 TTTTAAAA
88897895 TTTTAAAA
1 TTTTAAAA
88897903 TTTTAAAA
1 TTTTAAAA
88897911 TTTTAAAA
1 TTTTAAAA
88897919 AATTATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TTTTAAAA
Found at i:88897919 original size:17 final size:17
Alignment explanation
Indices: 88897885--88897919 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
88897875 AATTAATTAT
* *
88897885 ATTTTTAAATTTTTAAA
1 ATTTTAAAATTTTAAAA
88897902 ATTTTAAAATTTTAAAA
1 ATTTTAAAATTTTAAAA
88897919 A
1 A
88897920 ATTATATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTTAAAATTTTAAAA
Found at i:88897936 original size:21 final size:22
Alignment explanation
Indices: 88897910--88897958 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
88897900 AAATTTTAAA
88897910 ATTTTAAAAA-ATTATATAAT-T
1 ATTTTAAAAATATT-TATAATAT
*
88897931 ATTTTAAAAATATTTTTAATAT
1 ATTTTAAAAATATTTATAATAT
88897953 ATTTTA
1 ATTTTA
88897959 TTTTTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTTAAAAATATTTATAATAT
Found at i:88906639 original size:13 final size:13
Alignment explanation
Indices: 88906599--88906644 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
88906589 ATTATAAATT
88906599 TAAA-TTTC-TTA
1 TAAATTTTCTTTA
* *
88906610 TAACTTTTTTTTAA
1 TAAATTTTCTTT-A
88906624 TAAATTTTCTTTA
1 TAAATTTTCTTTA
88906637 TAAATTTT
1 TAAATTTT
88906645 ATGATTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 3 0.11
12 3 0.11
13 11 0.39
14 11 0.39
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (13 bp):
TAAATTTTCTTTA
Found at i:88911501 original size:20 final size:21
Alignment explanation
Indices: 88911476--88911525 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
88911466 GATTGACTTA
*
88911476 ATTTAATATAT-TTTTTAATT
1 ATTTAAAATATATTTTTAATT
88911496 ATTTAAAATATATTTTTAATT
1 ATTTAAAATATATTTTTAATT
*
88911517 -TATAAAATA
1 ATTTAAAATA
88911526 AATAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTAAAATATATTTTTAATT
Found at i:88911508 original size:22 final size:20
Alignment explanation
Indices: 88911480--88911525 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
88911470 GACTTAATTT
*
88911480 AATATATTTTTTAATTATTTAA
1 AATATA-TTTTTAATT-TATAA
88911502 AATATATTTTTAATTTATAA
1 AATATATTTTTAATTTATAA
88911522 AATA
1 AATA
88911526 AATAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.35
21 9 0.39
22 6 0.26
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AATATATTTTTAATTTATAA
Found at i:88920259 original size:32 final size:32
Alignment explanation
Indices: 88920223--88920290 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
88920213 TTTTAAGAAT
*
88920223 TTTAATTTTAATAAAATATTTGGGAAAATAAA
1 TTTAATTTTAATAAAATATTTGGAAAAATAAA
88920255 TTTAATTTTAATAAAATATTTGGAAAAATAAA
1 TTTAATTTTAATAAAATATTTGGAAAAATAAA
88920287 TTTA
1 TTTA
88920291 CTTGATAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (32 bp):
TTTAATTTTAATAAAATATTTGGAAAAATAAA
Found at i:88920584 original size:11 final size:12
Alignment explanation
Indices: 88920561--88920595 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
88920551 AGTCATATTT
88920561 AATTTTTATATA
1 AATTTTTATATA
88920573 AATTTTTA-ATA
1 AATTTTTATATA
88920584 AATTTATTATAT
1 AATTT-TTATAT
88920596 CATTGTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.38
12 11 0.52
13 2 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATTTTTATATA
Found at i:88923118 original size:126 final size:127
Alignment explanation
Indices: 88922988--88923246 Score: 376
Period size: 126 Copynumber: 2.0 Consensus size: 127
88922978 TTCAGATACG
* * ** *
88922988 AAATACTGTCTCATTTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTGTATTTTA
1 AAATACTGCCTCATTTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCA
88923053 GTCGAATG-AAAAAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACA
66 GTCGAATGAAAAAAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACA
* ** * *
88923114 AAATATTGCCTTGTTTTAATTTAAGAAAACTTGGACGAAATTTCACAAGGATATTCCATATTTCA
1 AAATACTGCCTCATTTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCA
* * * *
88923179 GTTGAATGAAAAAAAATCGAAACCCAGCACGATTGGGCACGATCTCTTAAACTTCCAAACACG
66 GTCGAATG-AAAAAAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACA
88923242 AAATA
1 AAATA
88923247 TTTCCTTATG
Statistics
Matches: 117, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
126 62 0.53
128 55 0.47
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (127 bp):
AAATACTGCCTCATTTTAATTTAAGAAAACATGGACGAAATTTCAAAAGGATATTCCATATTTCA
GTCGAATGAAAAAAATCGAAACCCAGCACGATTGGGCACGATCTCTCAAACTCCCAAACACA
Done.