Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 139 of 214
Found at i:41989437 original size:11 final size:11
Alignment explanation
Indices: 41989423--41989457 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
41989413 TTCCTTCCCC
41989423 CTCCCTTCTCT
1 CTCCCTTCTCT
41989434 CTCCCTTCTCT
1 CTCCCTTCTCT
41989445 CTTCCC-TCTCT
1 C-TCCCTTCTCT
41989456 CT
1 CT
41989458 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:41989944 original size:3 final size:3
Alignment explanation
Indices: 41989920--41989987 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
41989910 AATATCCTTG
* * * *
41989920 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA GTA TTA TTA TTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
41989968 TTA GTA TATA TTT TTA TTA T
1 TTA TTA T-TA TTA TTA TTA T
41989988 GTACGTGTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:41989997 original size:23 final size:23
Alignment explanation
Indices: 41989927--41989998 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
41989917 TTGTTATTTT
* *
41989927 TATATTATTAGTAT-TATTAGTA
1 TATATTATTATTATGTAGTAGTA
*
41989949 TTAGTATTATTATTATGTATTAGTA
1 -TA-TATTATTATTATGTAGTAGTA
*
41989974 TATATTTTTATTATGTACGT-GTA
1 TATATTATTATTATGTA-GTAGTA
41989997 TA
1 TA
41989999 CATATATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
23 21 0.49
24 14 0.33
25 8 0.19
ACGTcount: A:0.32, C:0.01, G:0.11, T:0.56
Consensus pattern (23 bp):
TATATTATTATTATGTAGTAGTA
Found at i:41990101 original size:3 final size:3
Alignment explanation
Indices: 41990088--41990129 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
41990078 TATTCCAATG
* *
41990088 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
41990130 GTTTATGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:41990438 original size:17 final size:18
Alignment explanation
Indices: 41990376--41990453 Score: 72
Period size: 17 Copynumber: 4.3 Consensus size: 18
41990366 CATATATCTT
*
41990376 TTATATATATTATCATT-
1 TTATATATTTTATCATTA
* *
41990393 GTATATATTTTATTATTA
1 TTATATATTTTATCATTA
41990411 TTAGTTATATTTTA-CATTA
1 TTA--TATATTTTATCATTA
*
41990430 TTATATATTTT-TCTAATA
1 TTATATATTTTATC-ATTA
41990448 TTATAT
1 TTATAT
41990454 TGTATATACT
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
17 23 0.46
18 11 0.22
19 7 0.14
20 9 0.18
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (18 bp):
TTATATATTTTATCATTA
Found at i:41990865 original size:18 final size:19
Alignment explanation
Indices: 41990806--41990901 Score: 58
Period size: 18 Copynumber: 5.1 Consensus size: 19
41990796 ATATACGTAC
*
41990806 TTATACATACTTAAATATAT
1 TTAT-CATACTTACATATAT
* * *
41990826 TTTTCATA-TTTCATAATTT
1 TTATCATACTTACAT-ATAT
41990845 TTAT-ATACTTACATATAT
1 TTATCATACTTACATATAT
*
41990863 TTATGCATATTTTACATCATA-
1 TTAT-CATA-CTTACAT-ATAT
*
41990884 -TA-CATACTTATATATAT
1 TTATCATACTTACATATAT
41990901 T
1 T
41990902 CTTTATATTC
Statistics
Matches: 58, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
16 3 0.05
17 5 0.09
18 18 0.31
19 15 0.26
20 8 0.14
21 6 0.10
22 3 0.05
ACGTcount: A:0.36, C:0.11, G:0.01, T:0.51
Consensus pattern (19 bp):
TTATCATACTTACATATAT
Found at i:41990891 original size:38 final size:36
Alignment explanation
Indices: 41990807--41990901 Score: 93
Period size: 38 Copynumber: 2.6 Consensus size: 36
41990797 TATACGTACT
* *
41990807 TATACATACTTAAATATATTTTTCATATTTCATAATT
1 TATACATACTTAAATATATTTTGCATATTT-ATAATA
* * *
41990844 TTTATATACTTACATATATTTATGCATATTT-TACATCA
1 TATACATACTTAAATATATTT-TGCATATTTATA-AT-A
*
41990882 TATACATACTTATATATATT
1 TATACATACTTAAATATATT
41990902 CTTTATATTC
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
36 2 0.04
37 20 0.43
38 25 0.53
ACGTcount: A:0.37, C:0.12, G:0.01, T:0.51
Consensus pattern (36 bp):
TATACATACTTAAATATATTTTGCATATTTATAATA
Found at i:42015986 original size:44 final size:44
Alignment explanation
Indices: 42015919--42016371 Score: 308
Period size: 44 Copynumber: 10.7 Consensus size: 44
42015909 AAAAAATTTC
* *
42015919 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
* ** *
42015963 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
* * * *
42016007 TA-ATCCTATCTCCTTGAGATTACAATGGAGCGGATT--A-A-A-
1 -AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
* * * * *
42016046 AGATCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACA-TCAG
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-AGACAG
* * * ** * *
42016089 -G-TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGA-ATTCC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACA---G
* *
42016133 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
* *
42016177 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
** * * * * *
42016220 CTATCCTATCTCCCTGA-AGTTACAGTGGA-C-GA-TCAAAATAT
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGACAG
*
42016261 AGATCTTATCTCCCTGAGATTACA-TGGA-CAGA--G-A-A-AT
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
* * *
42016298 AGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGATAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
* *
42016342 TA-ATCCTATCTGCCTGAGATTACAGTGGAG
1 -AGATCTTATCTCCCTGAGATTACAGTGGAG
42016372 TGGATTAAAA
Statistics
Matches: 321, Mismatches: 59, Indels: 58
0.73 0.13 0.13
Matches are distributed among these distances:
37 26 0.08
38 7 0.02
39 27 0.08
40 10 0.03
41 53 0.17
42 7 0.02
43 24 0.07
44 131 0.41
45 3 0.01
46 32 0.10
47 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
Found at i:42016336 original size:165 final size:163
Alignment explanation
Indices: 42015879--42016371 Score: 476
Period size: 170 Copynumber: 2.9 Consensus size: 163
42015869 ATACAGGTCT
*
42015879 TATCTCCCTG-AGATTACAGTGGAACAGACCAAAAAATTTCAGATCTTATCTCCCTGAGGTTACA
1 TATCTCCCTGAAG-TTACAGTGG-AC-GATC--AAAA-TT-AGATCTTATCTCCCTGAGGTTACA
* * **
42015943 GTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGT
59 GTGGAGCAGA-CGAA---ATAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGT
* * * * *
42016008 AATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAAGATCT
120 AATCCTATCTCCCTGAGATTACAGTGGAGCAGATGAAAAGATCC
* * * * * *
42016052 TATCTCTCTGAAGTTACAGTAGAGAAGATC-ACATCAGGTCTTATTTCCCTGAGGTTACAGTGGA
1 TATCTCCCTGAAGTTACAGT-G-GACGATCAAAATTAGATCTTATCTCCCTGAGGTTACAGTGGA
* * * **
42016116 GTAGACCGGAGAATTCCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG-AGA
64 GCAGA-C-GA-AA-T--AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTA-A
* * *
42016180 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCC
122 TCCTATCTCCCTGAGATTACAGTGGAGCAGAT-GAA-A-A-GATCC
*
42016226 TATCTCCCTGAAGTTACAGTGGACGATCAAAATATAGATCTTATCTCCCTGAGATTACA-TGGA-
1 TATCTCCCTGAAGTTACAGTGGACGATCAAAAT-TAGATCTTATCTCCCTGAGGTTACAGTGGAG
*
42016289 CAGA-GAAATAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGATAGTAATCCTATCT
65 CAGACGAAATAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCT
*
42016353 GCCTGAGATTACAGTGGAG
130 CCCTGAGATTACAGTGGAG
42016372 TGGATTAAAA
Statistics
Matches: 263, Mismatches: 41, Indels: 40
0.76 0.12 0.12
Matches are distributed among these distances:
165 64 0.24
166 1 0.00
167 2 0.01
168 33 0.13
169 6 0.02
170 69 0.26
171 2 0.01
172 10 0.04
173 28 0.11
174 47 0.18
175 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (163 bp):
TATCTCCCTGAAGTTACAGTGGACGATCAAAATTAGATCTTATCTCCCTGAGGTTACAGTGGAGC
AGACGAAATAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTC
CCTGAGATTACAGTGGAGCAGATGAAAAGATCC
Found at i:42017330 original size:32 final size:32
Alignment explanation
Indices: 42017272--42017339 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 32
42017262 CTATTTTCCC
* * * * *
42017272 ATATATATATACTAAAAAATATAAAAATAACA
1 ATATATATAAACTAAAAAAAAAAAAAAAAAAA
42017304 ATATAATATAAAC-AAAAAAAAAAAAAAAAAAA
1 ATAT-ATATAAACTAAAAAAAAAAAAAAAAAAA
42017336 ATAT
1 ATAT
42017340 TTTTTTACCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 23 0.77
33 7 0.23
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (32 bp):
ATATATATAAACTAAAAAAAAAAAAAAAAAAA
Found at i:42017456 original size:11 final size:11
Alignment explanation
Indices: 42017442--42017476 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
42017432 TTCCTTCCCC
42017442 CTCCCTTCTCT
1 CTCCCTTCTCT
42017453 CTCCCTTCTCT
1 CTCCCTTCTCT
42017464 CTTCCC-TCTCT
1 C-TCCCTTCTCT
42017475 CT
1 CT
42017477 TTTTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:42017960 original size:3 final size:3
Alignment explanation
Indices: 42017936--42018003 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
42017926 AATATCCTTG
* * * *
42017936 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA GTA TTA TTA TTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
42017984 TTA GTA TATA TTT TTA TTA T
1 TTA TTA T-TA TTA TTA TTA T
42018004 GTACGTGTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:42018013 original size:23 final size:23
Alignment explanation
Indices: 42017943--42018014 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
42017933 TTGTTATTTT
* *
42017943 TATATTATTAGTAT-TATTAGTA
1 TATATTATTATTATGTAGTAGTA
*
42017965 TTAGTATTATTATTATGTATTAGTA
1 -TA-TATTATTATTATGTAGTAGTA
*
42017990 TATATTTTTATTATGTACGT-GTA
1 TATATTATTATTATGTA-GTAGTA
42018013 TA
1 TA
42018015 CATATATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
23 21 0.49
24 14 0.33
25 8 0.19
ACGTcount: A:0.32, C:0.01, G:0.11, T:0.56
Consensus pattern (23 bp):
TATATTATTATTATGTAGTAGTA
Found at i:42018117 original size:3 final size:3
Alignment explanation
Indices: 42018104--42018142 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
42018094 TATTCCAATG
* *
42018104 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
42018143 GTTTATGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:42018451 original size:17 final size:18
Alignment explanation
Indices: 42018389--42018466 Score: 72
Period size: 17 Copynumber: 4.3 Consensus size: 18
42018379 CATATATCTT
*
42018389 TTATATATATTATCATT-
1 TTATATATTTTATCATTA
* *
42018406 GTATATATTTTATTATTA
1 TTATATATTTTATCATTA
42018424 TTAGTTATATTTTA-CATTA
1 TTA--TATATTTTATCATTA
*
42018443 TTATATATTTT-TCTAATA
1 TTATATATTTTATC-ATTA
42018461 TTATAT
1 TTATAT
42018467 TGTATATACT
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
17 23 0.46
18 11 0.22
19 7 0.14
20 9 0.18
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (18 bp):
TTATATATTTTATCATTA
Found at i:42018879 original size:18 final size:19
Alignment explanation
Indices: 42018820--42018915 Score: 58
Period size: 18 Copynumber: 5.1 Consensus size: 19
42018810 ATATACGTAC
*
42018820 TTATACATACTTAAATATAT
1 TTAT-CATACTTACATATAT
* * *
42018840 TTTTCATA-TTTCATAATTT
1 TTATCATACTTACAT-ATAT
42018859 TTAT-ATACTTACATATAT
1 TTATCATACTTACATATAT
*
42018877 TTATGCATATTTTACATCATA-
1 TTAT-CATA-CTTACAT-ATAT
*
42018898 -TA-CATACTTATATATAT
1 TTATCATACTTACATATAT
42018915 T
1 T
42018916 CTTTATATTC
Statistics
Matches: 58, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
16 3 0.05
17 5 0.09
18 18 0.31
19 15 0.26
20 8 0.14
21 6 0.10
22 3 0.05
ACGTcount: A:0.36, C:0.11, G:0.01, T:0.51
Consensus pattern (19 bp):
TTATCATACTTACATATAT
Found at i:42018905 original size:38 final size:36
Alignment explanation
Indices: 42018821--42018915 Score: 93
Period size: 38 Copynumber: 2.6 Consensus size: 36
42018811 TATACGTACT
* *
42018821 TATACATACTTAAATATATTTTTCATATTTCATAATT
1 TATACATACTTAAATATATTTTGCATATTT-ATAATA
* * *
42018858 TTTATATACTTACATATATTTATGCATATTT-TACATCA
1 TATACATACTTAAATATATTT-TGCATATTTATA-AT-A
*
42018896 TATACATACTTATATATATT
1 TATACATACTTAAATATATT
42018916 CTTTATATTC
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
36 2 0.04
37 20 0.43
38 25 0.53
ACGTcount: A:0.37, C:0.12, G:0.01, T:0.51
Consensus pattern (36 bp):
TATACATACTTAAATATATTTTGCATATTTATAATA
Found at i:42022836 original size:3 final size:3
Alignment explanation
Indices: 42022780--42022816 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
42022770 CAAGACATAG
*
42022780 ATA ATA ATA ATA ATA ATA ATC ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
42022817 CTTATTAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:42023326 original size:17 final size:16
Alignment explanation
Indices: 42023306--42023337 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
42023296 AAAAAAATTC
42023306 AAAGAAACAAAAAAAGA
1 AAAGAAA-AAAAAAAGA
42023323 AAAGAAAAAAAAAAG
1 AAAGAAAAAAAAAAG
42023338 GACTCAGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.84, C:0.03, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAGAAAAAAAAAAGA
Found at i:42023636 original size:5 final size:5
Alignment explanation
Indices: 42023628--42023659 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
42023618 TGTAAAAGAA
42023628 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AA
42023660 CAAGAAACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:42026222 original size:23 final size:23
Alignment explanation
Indices: 42026195--42026242 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
42026185 ATCAAAGTCA
* *
42026195 AATATATTATGCTAATAAATGCT
1 AATATATTATCCTAATAAATACT
*
42026218 AATATATTATCCTCATAAATACT
1 AATATATTATCCTAATAAATACT
42026241 AA
1 AA
42026243 ATCTTCTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.38
Consensus pattern (23 bp):
AATATATTATCCTAATAAATACT
Found at i:42030424 original size:24 final size:25
Alignment explanation
Indices: 42030372--42030424 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
42030362 CTTGAAAACT
* *
42030372 TAATCTTTTTAAAAATATTTATGAA
1 TAATGTTTTTAAAAATATTTATAAA
42030397 -AATGTTTTT-AAAAT-TTTATCAAA
1 TAATGTTTTTAAAAATATTTAT-AAA
42030420 TAATG
1 TAATG
42030425 CTGAAAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 5 0.21
23 7 0.29
24 12 0.50
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (25 bp):
TAATGTTTTTAAAAATATTTATAAA
Found at i:42031814 original size:21 final size:22
Alignment explanation
Indices: 42031775--42031815 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
42031765 TAGTTTTTAA
*
42031775 TAATAAAAATTGATGAATTTTT
1 TAATAAAAATTGATAAATTTTT
*
42031797 TAATAGAAA-TGATAAATTT
1 TAATAAAAATTGATAAATTT
42031816 ACTCTTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (22 bp):
TAATAAAAATTGATAAATTTTT
Found at i:42032793 original size:20 final size:20
Alignment explanation
Indices: 42032751--42032795 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
42032741 TTTTTTACGC
*
42032751 TAAAAAATAATTAAATATCG
1 TAAAAAATAATAAAATATCG
*
42032771 TAAAAAATGATAAGAATAT-G
1 TAAAAAATAATAA-AATATCG
42032791 TAAAA
1 TAAAA
42032796 CTACTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.62, C:0.02, G:0.09, T:0.27
Consensus pattern (20 bp):
TAAAAAATAATAAAATATCG
Found at i:42052138 original size:20 final size:20
Alignment explanation
Indices: 42052113--42052158 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
42052103 TAGTAAAGCT
* *
42052113 TAACAATCTATTTAAATAAG
1 TAACAACCTATTTAAATAAA
*
42052133 TAACAACCTATTTGAATAAA
1 TAACAACCTATTTAAATAAA
42052153 TAACAA
1 TAACAA
42052159 AATATTAGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.52, C:0.13, G:0.04, T:0.30
Consensus pattern (20 bp):
TAACAACCTATTTAAATAAA
Found at i:42052164 original size:20 final size:20
Alignment explanation
Indices: 42052121--42052164 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
42052111 CTTAACAATC
* **
42052121 TATTTAAATAAGTAACAACC
1 TATTTAAATAAATAACAAAA
*
42052141 TATTTGAATAAATAACAAAA
1 TATTTAAATAAATAACAAAA
42052161 TATT
1 TATT
42052165 AGCAGATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (20 bp):
TATTTAAATAAATAACAAAA
Found at i:42056029 original size:20 final size:20
Alignment explanation
Indices: 42056004--42056049 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
42055994 TAGTAAAGCT
*
42056004 TAACAACCTATTTAAATAAG
1 TAACAACCTATTTAAATAAA
*
42056024 TAACAACCTATTTGAATAAA
1 TAACAACCTATTTAAATAAA
42056044 TAACAA
1 TAACAA
42056050 AATATTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.28
Consensus pattern (20 bp):
TAACAACCTATTTAAATAAA
Found at i:42056055 original size:20 final size:20
Alignment explanation
Indices: 42056012--42056055 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
42056002 CTTAACAACC
* **
42056012 TATTTAAATAAGTAACAACC
1 TATTTAAATAAATAACAAAA
*
42056032 TATTTGAATAAATAACAAAA
1 TATTTAAATAAATAACAAAA
42056052 TATT
1 TATT
42056056 AACAGATTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (20 bp):
TATTTAAATAAATAACAAAA
Found at i:42061829 original size:6 final size:6
Alignment explanation
Indices: 42061818--42061859 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
42061808 TTTTATTTGG
42061818 ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT
1 ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT ATGGCT
42061860 GTAATGGCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.17, C:0.17, G:0.33, T:0.33
Consensus pattern (6 bp):
ATGGCT
Found at i:42064616 original size:20 final size:19
Alignment explanation
Indices: 42064555--42064619 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
42064545 TATAAAAAAA
*
42064555 TAAAAATCAATAAAATTTA-
1 TAAAAAT-ATTAAAATTTAT
* *
42064574 TAAATATTATTAAATTTTAAT
1 TAAA-AATATTAAAATTT-AT
42064595 TAAAAATATTAAAAATTTAT
1 TAAAAATATT-AAAATTTAT
42064615 TAAAA
1 TAAAA
42064620 GTAGAAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
19 12 0.32
20 15 0.41
21 10 0.27
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAAATATTAAAATTTAT
Found at i:42064645 original size:37 final size:39
Alignment explanation
Indices: 42064595--42064675 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 39
42064585 AAATTTTAAT
* *
42064595 TAAAAATATTAAAAATTTATTAAAAGTA-GAAAAAA-TA
1 TAAAAATATTAAAAATTTATAAAAAGTATAAAAAAATTA
* *
42064632 TAAAAAT-TATAAAATTTTATAAAAATTATAAAAAAATTA
1 TAAAAATAT-TAAAAATTTATAAAAAGTATAAAAAAATTA
42064671 TAAAA
1 TAAAA
42064676 TGCATCAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 1 0.03
37 23 0.62
38 6 0.16
39 7 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.32
Consensus pattern (39 bp):
TAAAAATATTAAAAATTTATAAAAAGTATAAAAAAATTA
Found at i:42064665 original size:9 final size:9
Alignment explanation
Indices: 42064539--42064675 Score: 80
Period size: 9 Copynumber: 14.4 Consensus size: 9
42064529 ACATGTAACA
42064539 AAAAATTAT
1 AAAAATTAT
*
42064548 AAAAA-AAT
1 AAAAATTAT
*
42064556 AAAAATCAAT
1 AAAAAT-TAT
*
42064566 AAAATTTAT
1 AAAAATTAT
*
42064575 AAATATTATT
1 AAAAATTA-T
**
42064585 AAATTTTAATT
1 AAAAATT-A-T
42064596 AAAAA-TATT
1 AAAAATTA-T
42064605 AAAAATTTAT
1 AAAAA-TTAT
* * *
42064615 TAAAAGTAG
1 AAAAATTAT
*
42064624 AAAAAATAT
1 AAAAATTAT
42064633 AAAAATTAT
1 AAAAATTAT
*
42064642 AAAATTTTAT
1 AAAA-ATTAT
42064652 AAAAATTAT
1 AAAAATTAT
42064661 AAAAAAATTAT
1 --AAAAATTAT
42064672 AAAA
1 AAAA
42064676 TGCATCAAAA
Statistics
Matches: 102, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
8 7 0.07
9 49 0.48
10 29 0.28
11 17 0.17
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (9 bp):
AAAAATTAT
Found at i:42064665 original size:20 final size:19
Alignment explanation
Indices: 42064539--42064675 Score: 95
Period size: 19 Copynumber: 7.2 Consensus size: 19
42064529 ACATGTAACA
*
42064539 AAAAATTATAAAAA--AAT
1 AAAAATTATAAAAATTTAT
*
42064556 AAAAATCA-ATAAAATTTAT
1 AAAAATTATA-AAAATTTAT
* * *
42064575 AAATATTATTAAATTTTAATT
1 AAAAATTATAAAAATTT-A-T
42064596 AAAAA-TATTAAAAATTTAT
1 AAAAATTA-TAAAAATTTAT
* * * *
42064615 TAAAAGTAGAAAAA-ATAT
1 AAAAATTATAAAAATTTAT
*
42064633 AAAAATTATAAAATTTTAT
1 AAAAATTATAAAAATTTAT
*
42064652 AAAAATTATAAAAAAATTAT
1 AAAAATTAT-AAAAATTTAT
42064672 AAAA
1 AAAA
42064676 TGCATCAAAA
Statistics
Matches: 91, Mismatches: 19, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
16 1 0.01
17 11 0.12
18 13 0.14
19 36 0.40
20 18 0.20
21 12 0.13
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (19 bp):
AAAAATTATAAAAATTTAT
Found at i:42064670 original size:11 final size:11
Alignment explanation
Indices: 42064642--42064675 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
42064632 TAAAAATTAT
* *
42064642 AAAATTTTATA
1 AAAATTATAAA
42064653 AAAATTATAAA
1 AAAATTATAAA
42064664 AAAATTATAAA
1 AAAATTATAAA
42064675 A
1 A
42064676 TGCATCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATTATAAA
Found at i:42064882 original size:12 final size:11
Alignment explanation
Indices: 42064860--42064912 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
42064850 AGTACAAAAA
42064860 TTTTTATAATT
1 TTTTTATAATT
42064871 TTTTTATAA--
1 TTTTTATAATT
*
42064880 ATTTTAT-ATT
1 TTTTTATAATT
* *
42064890 TATTTA-CATT
1 TTTTTATAATT
42064900 TTTTTATAATT
1 TTTTTATAATT
42064911 TT
1 TT
42064913 CTTACAACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
8 1 0.03
9 6 0.18
10 12 0.36
11 14 0.42
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:42064958 original size:10 final size:9
Alignment explanation
Indices: 42064929--42065003 Score: 62
Period size: 10 Copynumber: 7.8 Consensus size: 9
42064919 ACTTTATGGA
42064929 ATTTTATAAT
1 ATTTTAT-AT
* *
42064939 CTTTTTTAT
1 ATTTTATAT
42064948 ATTTCTATAT
1 ATTT-TATAT
42064958 ATTTCTATAT
1 ATTT-TATAT
42064968 ATTTTATCAT
1 ATTTTAT-AT
42064978 -TTTTAATATT
1 ATTTT-ATA-T
*
42064988 TTTTTATAT
1 ATTTTATAT
42064997 ATTTTAT
1 ATTTTAT
42065004 TAAAATTTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
9 20 0.36
10 31 0.56
11 4 0.07
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (9 bp):
ATTTTATAT
Found at i:42064986 original size:29 final size:27
Alignment explanation
Indices: 42064942--42065003 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 27
42064932 TTATAATCTT
42064942 TTTTATATTTCTATATATTTCTATATA
1 TTTTATATTTCTATATATTTCTATATA
* * *
42064969 TTTTATCATTTTTAATATTTTTTTATATA
1 TTTTAT-ATTTCT-ATATATTTCTATATA
42064998 TTTTAT
1 TTTTAT
42065004 TAAAATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 6 0.20
28 5 0.17
29 19 0.63
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (27 bp):
TTTTATATTTCTATATATTTCTATATA
Found at i:42064991 original size:19 final size:18
Alignment explanation
Indices: 42064941--42065056 Score: 69
Period size: 18 Copynumber: 6.3 Consensus size: 18
42064931 TTTATAATCT
*
42064941 TTTTTATATTTCTATAT-A
1 TTTTTATATTT-TTTATCA
* *
42064959 TTTCTATATATTTTATCA
1 TTTTTATATTTTTTATCA
42064977 TTTTTAATATTTTTTTAT-A
1 TTTTT-ATA-TTTTTTATCA
** *
42064996 TATTTTATTAAAATTTAATCA
1 T-TTTTA-T-ATTTTTTATCA
* *
42065017 TTTTTATAATTTTTATTGA
1 TTTTTATATTTTTTA-TCA
42065036 TTTTTAT-TTTTTTATC-
1 TTTTTATATTTTTTATCA
42065052 TTTTT
1 TTTTT
42065057 TGCCACATGT
Statistics
Matches: 77, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
16 5 0.06
17 5 0.06
18 26 0.34
19 16 0.21
20 22 0.29
21 3 0.04
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (18 bp):
TTTTTATATTTTTTATCA
Found at i:42065030 original size:39 final size:38
Alignment explanation
Indices: 42064935--42065030 Score: 99
Period size: 39 Copynumber: 2.5 Consensus size: 38
42064925 TGGAATTTTA
* * *
42064935 TAATCTTTTTTAT-A-TTTCTATATATTTCTATATATT
1 TAATCATTTTTATAATTTTTTATATATTTCTATAAATT
* *
42064971 TTATCATTTTTAATATTTTTTTATATATTT-TATTAAAATT
1 TAATCATTTTT-ATAATTTTTTATATATTTCTA-T-AAATT
42065011 TAATCATTTTTATAATTTTT
1 TAATCATTTTTATAATTTTT
42065031 ATTGATTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
36 9 0.19
37 2 0.04
38 2 0.04
39 21 0.44
40 14 0.29
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (38 bp):
TAATCATTTTTATAATTTTTTATATATTTCTATAAATT
Found at i:42077803 original size:19 final size:20
Alignment explanation
Indices: 42077765--42077804 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
42077755 CGATGGTTTA
*
42077765 AATAATTTTTTTGAATAACTT
1 AATAATTATTTT-AATAACTT
42077786 AATAATTATTTT-ATAACTT
1 AATAATTATTTTAATAACTT
42077805 TTTAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
21 11 0.61
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (20 bp):
AATAATTATTTTAATAACTT
Found at i:42080467 original size:14 final size:14
Alignment explanation
Indices: 42080444--42080497 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
42080434 AAATTGAATT
42080444 AAAT-TAAAATTTC
1 AAATATAAAATTTC
42080457 AAATATAAAATTTC
1 AAATATAAAATTTC
*
42080471 ACAAAATCAAAA-TTC
1 A-AATAT-AAAATTTC
*
42080486 ATATATAAAATT
1 AAATATAAAATT
42080498 GAACATTAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 8 0.24
14 14 0.41
15 8 0.24
16 4 0.12
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATATAAAATTTC
Found at i:42080799 original size:26 final size:23
Alignment explanation
Indices: 42080762--42080808 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
42080752 AAAGAAATTG
42080762 CAAAAAATAAATTACAAAAACTTT
1 CAAAAAATAAATT-CAAAAACTTT
*
42080786 CAAAGAAATAAAATTTAAAAACT
1 CAAA-AAAT-AAATTCAAAAACT
42080809 ATTTATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 11 0.55
26 5 0.25
ACGTcount: A:0.64, C:0.11, G:0.02, T:0.23
Consensus pattern (23 bp):
CAAAAAATAAATTCAAAAACTTT
Found at i:42081118 original size:8 final size:8
Alignment explanation
Indices: 42081105--42081152 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
42081095 TTCAAAGGCA
42081105 TATATATG
1 TATATATG
42081113 TATATATG
1 TATATATG
*
42081121 TATATATA
1 TATATATG
42081129 TATATGCATG
1 TATAT--ATG
* *
42081139 TGTGTATG
1 TATATATG
42081147 TATATA
1 TATATA
42081153 GGGATTAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
8 27 0.84
10 5 0.16
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (8 bp):
TATATATG
Found at i:42081984 original size:20 final size:20
Alignment explanation
Indices: 42081959--42081996 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
42081949 AAAATGAAAT
*
42081959 ATTTAGGATAAATCAATGCA
1 ATTTAGGAGAAATCAATGCA
*
42081979 ATTTAGGAGGAATCAATG
1 ATTTAGGAGAAATCAATG
42081997 AAAGGATATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (20 bp):
ATTTAGGAGAAATCAATGCA
Found at i:42093499 original size:14 final size:14
Alignment explanation
Indices: 42093480--42093510 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
42093470 TGATTGTTTT
*
42093480 TAATCTAAATTTAC
1 TAATCTAAATTAAC
42093494 TAATCTAAATTAAC
1 TAATCTAAATTAAC
42093508 TAA
1 TAA
42093511 GAACGCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:42097434 original size:23 final size:21
Alignment explanation
Indices: 42097401--42097537 Score: 121
Period size: 23 Copynumber: 6.0 Consensus size: 21
42097391 ATATGTTGAA
42097401 AGGTATATTGGTTGTGTTTGG
1 AGGTATATTGGTTGTGTTTGG
**
42097422 AGGCTATACTTGGTTGTGTTCAG
1 AGG-TATA-TTGGTTGTGTTTGG
42097445 AGGTTATACATATGGTTGTGTTTGG
1 AGG-TAT--AT-TGGTTGTGTTTGG
*
42097470 AAGGTATATTTGGTTGTGTTCGG
1 -AGGTATA-TTGGTTGTGTTTGG
*
42097493 ATGGTACATATGGTTGTGTTTGG
1 A-GGTATAT-TGGTTGTGTTTGG
* *
42097516 AGGGTAAATTGGTTATGTTTGG
1 A-GGTATATTGGTTGTGTTTGG
42097538 TGGGTGATAG
Statistics
Matches: 96, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
21 3 0.03
22 18 0.19
23 55 0.57
24 2 0.02
25 15 0.16
26 3 0.03
ACGTcount: A:0.18, C:0.04, G:0.34, T:0.43
Consensus pattern (21 bp):
AGGTATATTGGTTGTGTTTGG
Found at i:42097465 original size:48 final size:45
Alignment explanation
Indices: 42097409--42097518 Score: 150
Period size: 48 Copynumber: 2.4 Consensus size: 45
42097399 AAAGGTATAT
42097409 TGGTTGTGTTTGGAGGCTATACTTGGTTGTGTTCAGA-GGTTATACATA
1 TGGTTGTGTTTGGAGG-TATACTTGGTTGTGTTCAGATGG---TACATA
* *
42097457 TGGTTGTGTTTGGAAGGTATATTTGGTTGTGTTCGGATGGTACATA
1 TGGTTGTGTTTGG-AGGTATACTTGGTTGTGTTCAGATGGTACATA
42097503 TGGTTGTGTTTGGAGG
1 TGGTTGTGTTTGGAGG
42097519 GTAAATTGGT
Statistics
Matches: 58, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
45 3 0.05
46 19 0.33
48 31 0.53
49 5 0.09
ACGTcount: A:0.16, C:0.05, G:0.35, T:0.43
Consensus pattern (45 bp):
TGGTTGTGTTTGGAGGTATACTTGGTTGTGTTCAGATGGTACATA
Found at i:42100651 original size:4 final size:4
Alignment explanation
Indices: 42100642--42100690 Score: 98
Period size: 4 Copynumber: 12.2 Consensus size: 4
42100632 AGATATTGAG
42100642 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
42100690 T
1 T
42100691 GACTTCGTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:42104968 original size:17 final size:18
Alignment explanation
Indices: 42104935--42104968 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
42104925 AATAAATAAT
*
42104935 TTAAAATATATAAAATAC
1 TTAAAATATAAAAAATAC
42104953 TTAAAA-ATAAAAAATA
1 TTAAAATATAAAAAATA
42104969 AAAAAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAAAATATAAAAAATAC
Found at i:42105446 original size:31 final size:30
Alignment explanation
Indices: 42105384--42105446 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 30
42105374 AAAAAAAAGC
* * * *
42105384 AATTTGACTTTTTTCAAAGGTTTATGGTCA
1 AATTTGACTTTTTTAAAAAGTTGATGATCA
*
42105414 AATTTGACTCTTTTTAAAAAGTTGATTATCA
1 AATTTGACT-TTTTTAAAAAGTTGATGATCA
42105445 AA
1 AA
42105447 GTTTAGCTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (30 bp):
AATTTGACTTTTTTAAAAAGTTGATGATCA
Found at i:42107087 original size:27 final size:27
Alignment explanation
Indices: 42107057--42107126 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 27
42107047 GAGTCTTTTG
*
42107057 GGACAATAAACACGGATAAGTCCATCA
1 GGACAGTAAACACGGATAAGTCCATCA
* * * * *
42107084 GGACAGTTAACACGAGGTATGTTCATTA
1 GGACAGTAAACACG-GATAAGTCCATCA
42107112 GGACAGTAAACACGG
1 GGACAGTAAACACGG
42107127 GGTAAGTCTG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
27 13 0.37
28 22 0.63
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.19
Consensus pattern (27 bp):
GGACAGTAAACACGGATAAGTCCATCA
Found at i:42110520 original size:18 final size:18
Alignment explanation
Indices: 42110494--42110531 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
42110484 TAAATTTTAC
*
42110494 AATTTGAATAACTCAAAT
1 AATTCGAATAACTCAAAT
42110512 AATTCGAATAACTCAAAT
1 AATTCGAATAACTCAAAT
42110530 AA
1 AA
42110532 CAAATTGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (18 bp):
AATTCGAATAACTCAAAT
Found at i:42110640 original size:20 final size:22
Alignment explanation
Indices: 42110602--42110654 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
42110592 TCTCAGCAAA
*
42110602 AAAAATAT-AAAAATAATTT-T
1 AAAAATTTCAAAAATAATTTAT
42110622 CAAAAA-TTCAAAAAT-ATTTAT
1 -AAAAATTTCAAAAATAATTTAT
42110643 AAAAATTTCAAA
1 AAAAATTTCAAA
42110655 TTTTCATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAAATTTCAAAAATAATTTAT
Found at i:42111565 original size:15 final size:17
Alignment explanation
Indices: 42111534--42111581 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
42111524 AACAAATAAT
42111534 TTAAAAATCATAAAATA
1 TTAAAAATCATAAAATA
42111551 TTAAAAAT-A-AAAATA
1 TTAAAAATCATAAAATA
* * *
42111566 ATAAAATTCAAAAAAT
1 TTAAAAATCATAAAAT
42111582 TATATAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 12 0.44
16 2 0.07
17 13 0.48
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAAAATCATAAAATA
Found at i:42111579 original size:23 final size:23
Alignment explanation
Indices: 42111535--42111581 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
42111525 ACAAATAATT
* *
42111535 TAAAAATCATAAAATATTAAAAA
1 TAAAAATAATAAAATATAAAAAA
42111558 TAAAAATAATAAAAT-TCAAAAAA
1 TAAAAATAATAAAATAT-AAAAAA
42111581 T
1 T
42111582 TATATAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (23 bp):
TAAAAATAATAAAATATAAAAAA
Found at i:42113141 original size:21 final size:21
Alignment explanation
Indices: 42113117--42113189 Score: 71
Period size: 23 Copynumber: 3.4 Consensus size: 21
42113107 CATATATTTT
*
42113117 AAAAAATAATAATTAAATATGA
1 AAAAAATAATAATTAAAAAT-A
*
42113139 AAAAGA-AATAA--AAAAATA
1 AAAAAATAATAATTAAAAATA
42113157 AAAAAACTAATTAATTAAAAATA
1 AAAAAA-TAA-TAATTAAAAATA
42113180 AAGAAAATAA
1 AA-AAAATAA
42113190 AAAAAAGCTA
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
18 6 0.14
19 5 0.12
20 2 0.05
21 8 0.19
22 5 0.12
23 12 0.29
24 4 0.10
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (21 bp):
AAAAAATAATAATTAAAAATA
Found at i:42113738 original size:19 final size:19
Alignment explanation
Indices: 42113714--42113788 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
42113704 AATCACATCT
42113714 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
42113733 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
* *
42113754 TCTAATATTGCATATCATA
1 TCTAAGATTACATATCATA
*
42113773 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
42113789 CTCAAAGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 32 0.65
21 17 0.35
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:42113751 original size:21 final size:21
Alignment explanation
Indices: 42113725--42113787 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
42113715 CTAAGATTAC
42113725 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
*
42113746 ATATCATATCTAATATTGC--
1 ATATCATATCTAAGATTGCAT
42113765 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
42113786 AT
1 AT
42113788 CCTCAAAGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.47
21 20 0.53
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:42118587 original size:26 final size:24
Alignment explanation
Indices: 42118552--42118631 Score: 72
Period size: 26 Copynumber: 3.2 Consensus size: 24
42118542 AAAAATATAT
*
42118552 TTTTAAAATTTTATGTACTTTTAAAA
1 TTTTATAATTTTATG-A-TTTTAAAA
*
42118578 TTTTATAATTTT-TCATTTTTATAAA
1 TTTTATAATTTTATGA-TTTTA-AAA
* *
42118603 ATTTATATATTTTATGATTTTATAA
1 TTTTATA-ATTTTATGATTTTAAAA
42118628 TTTT
1 TTTT
42118632 TTTTAAAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
24 6 0.14
25 15 0.34
26 21 0.48
27 2 0.05
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (24 bp):
TTTTATAATTTTATGATTTTAAAA
Found at i:42118596 original size:42 final size:42
Alignment explanation
Indices: 42118550--42118632 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
42118540 ATAAAAATAT
* *
42118550 ATTTTTA-AAATTTTATGTACTTTTAAAATTTTATAATTTTTC
1 ATTTTTATAAAATTTATATA-TTTTAAAATTTTATAATTTTTC
**
42118592 ATTTTTATAAAATTTATATATTTTATGATTTTATAATTTTT
1 ATTTTTATAAAATTTATATATTTTAAAATTTTATAATTTTT
42118633 TTTAAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 26 0.72
43 10 0.28
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (42 bp):
ATTTTTATAAAATTTATATATTTTAAAATTTTATAATTTTTC
Found at i:42124969 original size:14 final size:12
Alignment explanation
Indices: 42124957--42125002 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
42124947 CACGTATATG
42124957 TATATAAAAATA
1 TATATAAAAATA
42124969 TATATAAAAATTA
1 TATATAAAAA-TA
*
42124982 TAAAATATAAAATA
1 T-ATATA-AAAATA
42124996 TATATAA
1 TATATAA
42125003 GTATGTGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 11 0.38
13 7 0.24
14 7 0.24
15 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TATATAAAAATA
Found at i:42125016 original size:27 final size:26
Alignment explanation
Indices: 42124950--42125019 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
42124940 GTATATGCAC
42124950 GTATATGTATATA-AAAATATATATAA
1 GTAT-TGTATATATAAAATATATATAA
** * *
42124976 AAATTATAAAATATAAAATATATATAA
1 GTATTGT-ATATATAAAATATATATAA
42125003 GTATGTGTATATATAAA
1 GTAT-TGTATATATAAA
42125020 TGAGGAAATA
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
25 2 0.06
26 6 0.18
27 23 0.70
28 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (26 bp):
GTATTGTATATATAAAATATATATAA
Found at i:42126842 original size:44 final size:44
Alignment explanation
Indices: 42126679--42127311 Score: 577
Period size: 44 Copynumber: 14.4 Consensus size: 44
42126669 CGCCATCGTC
* * * *
42126679 GATCTGCTTTCTTCGATCTTCTTCACCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCA-CACCAATATAGGAAGACAA
* * *
42126724 GATCTGC-ATCTTCGATCCACTTC-CTACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * * * *
42126767 AATCTGC-ATCGTCGGTCCACTTC-CTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * *
42126810 GATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* * *
42126854 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
* * *
42126899 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * * *
42126942 GATCTGATATCTTTGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* * *
42126986 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
* * * *
42127031 GATCTGC-ATCTTTGATCCACTTC-CTACCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * *
42127074 GACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* * *
42127118 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
* * * * *
42127163 GATCTG-TATCTTGGATCCACTTC-CTATCAATATAGGAAGATAG
1 GATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * * *
42127206 GACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
* * * * * *
42127250 GATCTGTTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAA
*
42127295 GATCTGC-ATCTTTGATC
1 GATCTGCTATCTTCGATC
42127312 CTCAATCTAT
Statistics
Matches: 473, Mismatches: 99, Indels: 33
0.78 0.16 0.05
Matches are distributed among these distances:
42 4 0.01
43 120 0.25
44 253 0.53
45 96 0.20
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (44 bp):
GATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAA
Found at i:42126927 original size:132 final size:132
Alignment explanation
Indices: 42126716--42127312 Score: 1000
Period size: 132 Copynumber: 4.5 Consensus size: 132
42126706 ACCAGTATGG
* * * * * *
42126716 GAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAGTATGGGAAGACAAAATCTGCATCGT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
* *
42126779 CGGTCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATAC
42126844 AT
131 AT
42126846 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
* *
42126911 CGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTTGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATAC
42126976 AT
131 AT
42126978 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
* *
42127043 TGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATAC
42127108 AT
131 AT
*
42127110 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGTATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
* * *
42127175 GGATCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATAC
42127240 AT
131 AT
* * *
42127242 GAAGACAAGATCTGTTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
*
42127307 TGATCC
66 CGATCC
42127313 TCAATCTATT
Statistics
Matches: 445, Mismatches: 20, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
130 15 0.03
131 14 0.03
132 416 0.93
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (132 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTT
CGATCCACTTCCTACCAATATAGGAAGATAGGACCTGATATCTTCGATCTACTTCACGCCAATAC
AT
Found at i:42127507 original size:45 final size:45
Alignment explanation
Indices: 42127445--42127602 Score: 115
Period size: 45 Copynumber: 3.4 Consensus size: 45
42127435 GATCTGCAAT
*
42127445 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATTATCGG
* *** * * *
42127490 CTTCAATGTACTCCACTG--TTGT-CAGGGAGGTAAAATCTGCCATCTTTGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAAT-T---ATC---G-G
* * *
42127540 CTTCAATCTATTCCACTGCCAAATACAGTGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATTATCGG
*
42127585 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
42127603 TGGTCAAGGA
Statistics
Matches: 82, Mismatches: 20, Indels: 22
0.66 0.16 0.18
Matches are distributed among these distances:
42 12 0.15
43 2 0.02
45 32 0.39
46 4 0.05
49 4 0.05
50 16 0.20
52 2 0.02
53 10 0.12
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATTATCGG
Found at i:42127548 original size:95 final size:95
Alignment explanation
Indices: 42127443--42127636 Score: 352
Period size: 95 Copynumber: 2.0 Consensus size: 95
42127433 AAGATCTGCA
42127443 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
* *
42127508 TTGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TGGTCAAGGAGGTAAAATCTGCCATCTTTG
* *
42127538 ATCTTCAATCTATTCCACTGCCAAATACAGTGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
42127603 TGGTCAAGGAGGTAAAATCTGCCATCTTTG
66 TGGTCAAGGAGGTAAAATCTGCCATCTTTG
42127633 ATCT
1 ATCT
42127637 GCTTCGCTGC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
TGGTCAAGGAGGTAAAATCTGCCATCTTTG
Found at i:42127878 original size:231 final size:229
Alignment explanation
Indices: 42127296--42128461 Score: 2127
Period size: 229 Copynumber: 5.1 Consensus size: 229
42127286 GGAAGACAAG
* * * *
42127296 ATCTG-CATCTTTGATCCTCAATCTATTCCACTGCCAAATGCAGAGAGATAGAGTTATCGGCTTT
1 ATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTC
42127360 AATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATAC
66 AATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATAC
42127425 AGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGG
131 AGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGG
*
42127490 CTTCAATGTACTCCACTGTTGTCAGGGAGGTAAA
196 CTTCAATGTACTCCACTGTAGTCAGGGAGGTAAA
*
42127524 ATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGTGAGATAGAGTTATCGGCTTC
1 ATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTC
*
42127589 AATGTACTCCACTGTGGTCAAGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATAC
66 AATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATAC
42127654 AGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGG
131 AGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGG
*
42127719 CTTCAATGTACTCCACTGTAGTCACATGGAGGTAAA
196 CTTCAATGTACTCCACTGTAGT--CAGGGAGGTAAA
*
42127755 ATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATATAGGGAGATAGAGTTATCGGCTTC
1 ATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTC
42127820 AATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATAC
66 AATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATAC
42127885 AGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGG
131 AGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGG
*
42127950 CTTCAATGTACTCCACTGTAGTCACATGGAGGTAAA
196 CTTCAATGTACTCCACTGTAGT--CAGGGAGGTAAA
*
42127986 ATCTGCCATCCTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTC
1 ATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTC
*
42128051 AATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATAC
66 AATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATAC
*
42128116 AGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGG
131 AGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGG
*
42128181 CTTCAATGTACTCCACTGTGGTCAGGGAGGTAAA
196 CTTCAATGTACTCCACTGTAGTCAGGGAGGTAAA
* *
42128215 ATCTGCCATCCTTGATCTTCAATCTATTCCACTGCCAAATACAGGAAGATAGAGTTATCGGCTTC
1 ATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTC
*
42128280 AATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATAC
66 AATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATAC
42128345 AGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGG
131 AGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGG
*
42128410 CTTCAATGTACTCCACTGTGGTCAGGGAGGTAAA
196 CTTCAATGTACTCCACTGTAGTCAGGGAGGTAAA
42128444 ATCTGCCATCTTTGATCT
1 ATCTGCCATCTTTGATCT
42128462 GCTTCGCTGC
Statistics
Matches: 916, Mismatches: 19, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
228 5 0.01
229 460 0.50
231 451 0.49
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (229 bp):
ATCTGCCATCTTTGATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTC
AATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATAC
AGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGG
CTTCAATGTACTCCACTGTAGTCAGGGAGGTAAA
Found at i:42128069 original size:97 final size:95
Alignment explanation
Indices: 42127903--42128098 Score: 347
Period size: 97 Copynumber: 2.0 Consensus size: 95
42127893 AAGATCTGCA
42127903 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
*
42127968 TAGTCACATGGAGGTAAAATCTGCCATCCTTG
66 TAGT--CAGGGAGGTAAAATCTGCCATCCTTG
*
42128000 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
*
42128065 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCCTTG
42128095 ATCT
1 ATCT
42128099 GCTTCGCTGC
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
95 28 0.29
97 68 0.71
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCCTTG
Found at i:42128300 original size:95 final size:95
Alignment explanation
Indices: 42128134--42128327 Score: 352
Period size: 95 Copynumber: 2.0 Consensus size: 95
42128124 AAGATCTGTA
*
42128134 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGAAGATAGAATTATCGGCTTCAATGTACTCCACTG
*
42128199 TGGTCAGGGAGGTAAAATCTGCCATCCTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCCTTG
*
42128229 ATCTTCAATCTATTCCACTGCCAAATACAGGAAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGAAGATAGAATTATCGGCTTCAATGTACTCCACTG
*
42128294 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCCTTG
42128324 ATCT
1 ATCT
42128328 GCTTCGCTGC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGAAGATAGAATTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCCTTG
Found at i:42128384 original size:46 final size:46
Alignment explanation
Indices: 42128334--42128527 Score: 143
Period size: 46 Copynumber: 4.3 Consensus size: 46
42128324 ATCTGCTTCG
42128334 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
* * ** * *
42128380 CTGCCAAATACAGGGA-G-ATAGAAT-TATC-GGCTTCAATGTACTCCA
1 CTGCCAAATACAGGAAGGCA-AG-ATCT-GCAATCTTCAATCTATTCCA
*** * * * * ** * *
42128425 CTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTT-CG
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCT-ATTCCA
42128468 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
42128514 CTGCCAAATACAGG
1 CTGCCAAATACAGG
42128528 GAGATAGAAT
Statistics
Matches: 106, Mismatches: 30, Indels: 24
0.66 0.19 0.15
Matches are distributed among these distances:
42 9 0.08
43 14 0.13
44 3 0.03
45 23 0.22
46 57 0.54
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
Found at i:42128385 original size:134 final size:134
Alignment explanation
Indices: 42128229--42128638 Score: 784
Period size: 134 Copynumber: 3.1 Consensus size: 134
42128219 GCCATCCTTG
* *
42128229 ATCTTCAATCTATTCCACTGCCAAATACAGGAAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
*
42128294 TAGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
42128359 TGCA
131 TGCA
42128363 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
42128428 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
42128493 TGCA
131 TGCA
42128497 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
*
42128562 TGGTCAGGGAGGTAAAATATGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
66 TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
42128627 TGCA
131 TGCA
42128631 ATCTTCAA
1 ATCTTCAA
42128639 CCAGCTCTGC
Statistics
Matches: 272, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 272 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (134 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTG
TGGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATC
TGCA
Found at i:42132826 original size:19 final size:20
Alignment explanation
Indices: 42132802--42132845 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
42132792 CGTGAAAGTC
* *
42132802 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
42132821 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
42132841 -AATGC
1 TAATGC
42132846 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:42135187 original size:14 final size:12
Alignment explanation
Indices: 42135175--42135220 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
42135165 CACGTATATG
42135175 TATATAAAAATA
1 TATATAAAAATA
42135187 TATATAAAAATTA
1 TATATAAAAA-TA
*
42135200 TAAAATATAAAATA
1 T-ATATA-AAAATA
42135214 TATATAA
1 TATATAA
42135221 GTATGTGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 11 0.38
13 7 0.24
14 7 0.24
15 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TATATAAAAATA
Found at i:42135234 original size:27 final size:26
Alignment explanation
Indices: 42135168--42135237 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
42135158 GTATATGCAC
42135168 GTATATGTATATA-AAAATATATATAA
1 GTAT-TGTATATATAAAATATATATAA
** * *
42135194 AAATTATAAAATATAAAATATATATAA
1 GTATTGT-ATATATAAAATATATATAA
42135221 GTATGTGTATATATAAA
1 GTAT-TGTATATATAAA
42135238 TGAGGAAATA
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
25 2 0.06
26 6 0.18
27 23 0.70
28 2 0.06
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (26 bp):
GTATTGTATATATAAAATATATATAA
Found at i:42141382 original size:3 final size:3
Alignment explanation
Indices: 42141376--42141403 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
42141366 ATATCAACAA
42141376 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT C
42141404 ATCATCATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:42142019 original size:3 final size:3
Alignment explanation
Indices: 42142013--42142047 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
42142003 GAACTAACAG
42142013 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
42142048 AGGATACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:42142317 original size:7 final size:7
Alignment explanation
Indices: 42142305--42142329 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
42142295 ATTATTGTTG
42142305 TTGTTCA
1 TTGTTCA
42142312 TTGTTCA
1 TTGTTCA
42142319 TTGTTCA
1 TTGTTCA
42142326 TTGT
1 TTGT
42142330 GGTGATGATG
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:0.12, C:0.12, G:0.16, T:0.60
Consensus pattern (7 bp):
TTGTTCA
Found at i:42142379 original size:2 final size:2
Alignment explanation
Indices: 42142372--42142396 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
42142362 TTGATTGATC
42142372 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
42142397 TTGATTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42147954 original size:5 final size:5
Alignment explanation
Indices: 42147944--42147970 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
42147934 AATTGTATTT
42147944 TACAA TACAA TACAA TACAA TACAA TA
1 TACAA TACAA TACAA TACAA TACAA TA
42147971 TATCGTCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (5 bp):
TACAA
Found at i:42151296 original size:119 final size:120
Alignment explanation
Indices: 42151140--42151366 Score: 314
Period size: 121 Copynumber: 1.9 Consensus size: 120
42151130 GTAGTCGGAT
* * * * * *
42151140 TTTCTACATTTTTCATGTTTCGAGGTCATATCCGCATATCGATGT-TATA-TTAAACCTAGTAAC
1 TTTCTACATTTTTCATGTTTCAAAGCCATATCCGCATATCCATGTGTAGACTTAAACCCAGTAAC
* *
42151203 CTACTTGTAACCGTCAGATATGAGTATGGGTCTGAATATCATCATTTTTTCTACA
66 CTACTTGTAACCGTCAGATACGAGTATGGGTCCGAATATCATCATTTTTTCTACA
* *
42151258 TTTCTACATTTTTTCATGTTTCAAAGCCATATCTGCATATCCATGTGTCGACTTAAACCCAGTAA
1 TTTCTACA-TTTTTCATGTTTCAAAGCCATATCCGCATATCCATGTGTAGACTTAAACCCAGTAA
** *
42151323 CCTACTTGTAAGTGTCAGATACGAGTGTGGGTCCGAATATCATC
65 CCTACTTGTAACCGTCAGATACGAGTATGGGTCCGAATATCATC
42151367 GGATTTTCGA
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
118 8 0.09
119 32 0.34
120 2 0.02
121 51 0.55
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.37
Consensus pattern (120 bp):
TTTCTACATTTTTCATGTTTCAAAGCCATATCCGCATATCCATGTGTAGACTTAAACCCAGTAAC
CTACTTGTAACCGTCAGATACGAGTATGGGTCCGAATATCATCATTTTTTCTACA
Found at i:42161844 original size:14 final size:14
Alignment explanation
Indices: 42161822--42161865 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
42161812 GTTACTCAAT
*
42161822 GTATAATAATAAGA
1 GTATTATAATAAGA
*
42161836 GTATTATAATAAGT
1 GTATTATAATAAGA
42161850 GTATTATAATAAGA
1 GTATTATAATAAGA
42161864 GT
1 GT
42161866 TAAAAATCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (14 bp):
GTATTATAATAAGA
Found at i:42166472 original size:24 final size:24
Alignment explanation
Indices: 42166445--42166501 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
42166435 GCCATGTAAC
*
42166445 GGGAAGCTCCAGAGAGCTATTAAT
1 GGGAAGCTCCAAAGAGCTATTAAT
42166469 GGGAAGCTCCAAAGAGCTATTAAT
1 GGGAAGCTCCAAAGAGCTATTAAT
42166493 GGGAAGCTC
1 GGGAAGCTC
42166502 ATATGAGCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.19
Consensus pattern (24 bp):
GGGAAGCTCCAAAGAGCTATTAAT
Found at i:42173075 original size:25 final size:25
Alignment explanation
Indices: 42173046--42173137 Score: 89
Period size: 25 Copynumber: 3.7 Consensus size: 25
42173036 TGTATATCGA
42173046 GAAGCTCATAAGAGCCATAAATTGG
1 GAAGCTCATAAGAGCCATAAATTGG
* * * *
42173071 AAAGCTCATACGAGCCA-ATTATCGG
1 GAAGCTCATAAGAGCCATA-AATTGG
*
42173096 GAAGCTCA-AGAGAGCCATTAATTGG
1 GAAGCTCATA-AGAGCCATAAATTGG
* *
42173121 GAAGCTCGTGAGAGCCA
1 GAAGCTCATAAGAGCCA
42173138 AATATCGATA
Statistics
Matches: 52, Mismatches: 11, Indels: 8
0.73 0.15 0.11
Matches are distributed among these distances:
24 2 0.04
25 50 0.96
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.18
Consensus pattern (25 bp):
GAAGCTCATAAGAGCCATAAATTGG
Found at i:42173094 original size:50 final size:50
Alignment explanation
Indices: 42173039--42173158 Score: 145
Period size: 50 Copynumber: 2.4 Consensus size: 50
42173029 ATCAAGTTGT
42173039 ATATCGAGAAGCTCATAAGAGCCATAAATTGGAAAGCTCAT-ACGAGCCAA
1 ATATCGAGAAGCTCATAAGAGCCATAAATTGGAAAGCTCATGA-GAGCCAA
* * * * *
42173089 TTATCGGGAAGCTCA-AGAGAGCCATTAATTGGGAAGCTCGTGAGAGCCAA
1 ATATCGAGAAGCTCATA-AGAGCCATAAATTGGAAAGCTCATGAGAGCCAA
* *
42173139 ATATCGATATGCTCATAAGA
1 ATATCGAGAAGCTCATAAGA
42173159 ACTATGGTGT
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
49 1 0.02
50 55 0.95
51 2 0.03
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (50 bp):
ATATCGAGAAGCTCATAAGAGCCATAAATTGGAAAGCTCATGAGAGCCAA
Found at i:42178094 original size:28 final size:29
Alignment explanation
Indices: 42178029--42178095 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
42178019 CTCATATCAG
*
42178029 CCCAAAATTTTCATCTATTTTAAAATTCAA
1 CCCAAAATTTTCA-CTATTTCAAAATTCAA
* * *
42178059 CCCTAAATTTTCA-TATTTCACAATTTAA
1 CCCAAAATTTTCACTATTTCAAAATTCAA
*
42178087 TCCAAAATT
1 CCCAAAATT
42178096 GACATTTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
28 19 0.61
30 12 0.39
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.40
Consensus pattern (29 bp):
CCCAAAATTTTCACTATTTCAAAATTCAA
Found at i:42179271 original size:18 final size:18
Alignment explanation
Indices: 42179218--42179271 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
42179208 ATTCACCTAA
* *
42179218 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAATT
*
42179237 ATCCAACCCAACCCAATT
1 ACCCAACCCAACCCAATT
42179255 ACCCAACCCAACCCAAT
1 ACCCAACCCAACCCAAT
42179272 CATAAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 26 0.84
19 5 0.16
ACGTcount: A:0.41, C:0.46, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAATT
Found at i:42187743 original size:14 final size:15
Alignment explanation
Indices: 42187711--42187750 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
42187701 GAAACTCTAA
42187711 TTTCTCCTTTCTTTC
1 TTTCTCCTTTCTTTC
42187726 TTTC-CCTTT-TTTC
1 TTTCTCCTTTCTTTC
42187739 TTT-T-CTTTCTTT
1 TTTCTCCTTTCTTT
42187751 TTCTCCCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 4 0.17
13 10 0.43
14 5 0.22
15 4 0.17
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTCTCCTTTCTTTC
Found at i:42187799 original size:20 final size:20
Alignment explanation
Indices: 42187764--42187807 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
42187754 TCCCTGTTTA
42187764 ATTTCTATTATGTTTCTTTCT
1 ATTTCTATTATGTTTCTTT-T
*
42187785 ATTTCT-TTTTGTTTCTTTT
1 ATTTCTATTATGTTTCTTTT
42187804 ATTT
1 ATTT
42187808 ATTATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.23
20 11 0.50
21 6 0.27
ACGTcount: A:0.11, C:0.11, G:0.05, T:0.73
Consensus pattern (20 bp):
ATTTCTATTATGTTTCTTTT
Found at i:42187831 original size:5 final size:5
Alignment explanation
Indices: 42187823--42187896 Score: 148
Period size: 5 Copynumber: 14.8 Consensus size: 5
42187813 ATTTACTTAT
42187823 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
42187873 TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATA
42187897 TAGTTAATAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 69 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:42188213 original size:23 final size:23
Alignment explanation
Indices: 42188180--42188228 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
42188170 GCACTTTTAG
*
42188180 ACACCCGTGACTATC-GAGTCATT
1 ACACCCCTGACTATCAG-GTCATT
42188203 ACACCCCTGACTATCAGGTCATT
1 ACACCCCTGACTATCAGGTCATT
42188226 ACA
1 ACA
42188229 TATACCATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (23 bp):
ACACCCCTGACTATCAGGTCATT
Found at i:42190599 original size:42 final size:42
Alignment explanation
Indices: 42190549--42190789 Score: 315
Period size: 42 Copynumber: 5.7 Consensus size: 42
42190539 GGTTTTAGAA
*
42190549 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
* * * *
42190591 ACAAACGCCGCTAAAAACCAAGACCTTTAACAGCGCTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
* *
42190633 ACAAACGCCGCTAAAGACCAAGACTTTTAGCGGCGCTTTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
*
42190675 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGTGCTTTAT--
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTT-TCC
* * * **
42190716 ACAAACGTCGCTAAAGACCATGACCTTTAGCAGCGCTTTTTTAA
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGC--TTTTCC
*
42190760 ACAAACGCCGCTAAAGACCATGACCTTTAG
1 ACAAACGCCGCTAAAGACCAAGACCTTTAG
42190790 ACAACCTAAT
Statistics
Matches: 177, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
41 32 0.18
42 113 0.64
43 3 0.02
44 29 0.16
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.20
Consensus pattern (42 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCC
Found at i:42193269 original size:23 final size:23
Alignment explanation
Indices: 42193227--42193270 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
42193217 AGTTCTCTAT
*
42193227 ATATAAACAAGAAGGAAAGAAAG
1 ATATAAACAAGAAGAAAAGAAAG
42193250 ATATAAA-AAGAAGAAGAAGAA
1 ATATAAACAAGAAGAA-AAGAA
42193271 GAAGGAGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.68, C:0.02, G:0.20, T:0.09
Consensus pattern (23 bp):
ATATAAACAAGAAGAAAAGAAAG
Found at i:42194217 original size:134 final size:134
Alignment explanation
Indices: 42193989--42194241 Score: 472
Period size: 134 Copynumber: 1.9 Consensus size: 134
42193979 CTAAAATAGA
42193989 TAGTTGCCTATTCATATCAATATGTTACTTTTTTTATTTATTTATCAATGTTTTTTTTAAATCTA
1 TAGTTGCCTATTCATATCAATATGTTACTTTTTTTATTTATTTATCAA--TTTTTTTTAAATCTA
42194054 ATATTTAAATATATCAAATGGTTTAGATTAAATATTTTTAAATATAAAAGCATTAATTTGAAGAA
64 ATATTTAAATATATCAAATGGTTTAGATTAAATATTTTTAAATATAAAAGCATTAATTTGAAGAA
42194119 CTATTT
129 CTATTT
42194125 TAGTTGCCTATTCATATCAATATGTTACTTTTTTTTATTTATTTATCAA-TTTTTTTAAATCTAA
1 TAGTTGCCTATTCATATCAATATGTTAC-TTTTTTTATTTATTTATCAATTTTTTTTAAATCTAA
42194189 TATTTAAATATATCAAATGGTTTAGATTAAATATTTTTAAATATAAAAGCATT
65 TATTTAAATATATCAAATGGTTTAGATTAAATATTTTTAAATATAAAAGCATT
42194242 TTTAAATATA
Statistics
Matches: 116, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
134 68 0.59
136 28 0.24
137 20 0.17
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.50
Consensus pattern (134 bp):
TAGTTGCCTATTCATATCAATATGTTACTTTTTTTATTTATTTATCAATTTTTTTTAAATCTAAT
ATTTAAATATATCAAATGGTTTAGATTAAATATTTTTAAATATAAAAGCATTAATTTGAAGAACT
ATTT
Found at i:42195598 original size:41 final size:41
Alignment explanation
Indices: 42195477--42195630 Score: 233
Period size: 41 Copynumber: 3.8 Consensus size: 41
42195467 AGATTTTATT
*
42195477 ATTAGCGGCGCTTTTTCAAAAACGCCACTAAAGGTC--AGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTCAGAGC
*
42195516 ATTAGCGGCGCTTTTTCCAGAAACGCCGCTAAAGG-CAAGAGC
1 ATTAGCGGCGCTTTTT-CAAAAACGCCGCTAAAGGTC-AGAGC
*
42195558 ATTAGCGGCGCTTTATCAAAAACGCCGCTAAAGGTCAGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTCAGAGC
*
42195599 ATTAGCGGCGCTTTTTCAAAAATGCCGCTAAA
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAA
42195631 TGCCCCAAAA
Statistics
Matches: 104, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
39 17 0.16
40 16 0.15
41 52 0.50
42 19 0.18
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGTCAGAGC
Found at i:42195703 original size:39 final size:39
Alignment explanation
Indices: 42195653--42195787 Score: 101
Period size: 40 Copynumber: 3.4 Consensus size: 39
42195643 TCCGCTTAGG
* **
42195653 TTTTTTGCGGCGCTTTTTGAAAAAT-GCCGCTAATGCTTA
1 TTTTTGGCGGCG-TTTTCCAAAAATCGCCGCTAATGCTTA
* *
42195692 TTTTTGGCGGCGTTTTCCAAAATTCGCCGCTAATGCTCGA
1 TTTTTGGCGGCGTTTTCCAAAAATCGCCGCTAATGCT-TA
** * * *** *
42195732 GCTTTAGCTGCGTTTTTGTAAAAGCGCCGCTAATGCTTGA
1 TTTTTGGCGGCGTTTTCCAAAAATCGCCGCTAATGCTT-A
* *
42195772 TTTTTAGTGGCGTTTT
1 TTTTTGGCGGCGTTTT
42195788 TAATTCAAAC
Statistics
Matches: 74, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
38 9 0.12
39 23 0.31
40 42 0.57
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (39 bp):
TTTTTGGCGGCGTTTTCCAAAAATCGCCGCTAATGCTTA
Found at i:42195778 original size:40 final size:41
Alignment explanation
Indices: 42195678--42195788 Score: 113
Period size: 40 Copynumber: 2.8 Consensus size: 41
42195668 TTTGAAAAAT
* * *
42195678 GCCGCTAATGCTT-ATTTTTGGCGGCG-TTTTCCAAAATTC
1 GCCGCTAATGCTTGATTTTTAGCTGCGTTTTTCCAAAATGC
* ** **
42195717 GCCGCTAATGCTCGAGCTTTAGCTGCGTTTTTGTAAAA-GC
1 GCCGCTAATGCTTGATTTTTAGCTGCGTTTTTCCAAAATGC
42195757 GCCGCTAATGCTTGATTTTTAG-TGGCGTTTTT
1 GCCGCTAATGCTTGATTTTTAGCT-GCGTTTTT
42195789 AATTCAAACG
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
39 13 0.22
40 37 0.64
41 8 0.14
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (41 bp):
GCCGCTAATGCTTGATTTTTAGCTGCGTTTTTCCAAAATGC
Found at i:42198503 original size:31 final size:31
Alignment explanation
Indices: 42198438--42198505 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
42198428 GAAAACGCAG
* * *
42198438 AAATTTGACTTTTTTTTAAAGGATGATGGTC
1 AAATTTGACTTCTTTTTAAAAGATGATGGCC
42198469 AAATTTGAC-TCTTTTTAAAAGATTGA-GGACC
1 AAATTTGACTTCTTTTTAAAAGA-TGATGG-CC
42198500 AAATTT
1 AAATTT
42198506 AACTAAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 13 0.41
31 19 0.59
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (31 bp):
AAATTTGACTTCTTTTTAAAAGATGATGGCC
Found at i:42199870 original size:18 final size:18
Alignment explanation
Indices: 42199844--42199879 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
42199834 AAGAAATCAG
*
42199844 CCCAGTTTTAACGGTCAA
1 CCCAATTTTAACGGTCAA
*
42199862 CCCAATTTTAATGGTCAA
1 CCCAATTTTAACGGTCAA
42199880 TGTGAGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (18 bp):
CCCAATTTTAACGGTCAA
Found at i:42200022 original size:26 final size:26
Alignment explanation
Indices: 42199986--42200035 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
42199976 ATTATATTGA
42199986 CCTACAATTTGATTAACGGTCAACGT
1 CCTACAATTTGATTAACGGTCAACGT
*
42200012 CCTACAATTTGATTAATGGTCAAC
1 CCTACAATTTGATTAACGGTCAAC
42200036 TCACGTTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (26 bp):
CCTACAATTTGATTAACGGTCAACGT
Found at i:42200604 original size:32 final size:33
Alignment explanation
Indices: 42200551--42200615 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
42200541 CTTTAAGGGG
**
42200551 TTAAATTTAAATTATAATTTTTTTTTTTAAAAA
1 TTAAATTTAAATTATAATTTTTAATTTTAAAAA
* *
42200584 TTAAA-TTAATTTATATTTTTTAATTTTAAAAA
1 TTAAATTTAAATTATAATTTTTAATTTTAAAAA
42200616 GAATTCAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 23 0.82
33 5 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (33 bp):
TTAAATTTAAATTATAATTTTTAATTTTAAAAA
Found at i:42220990 original size:24 final size:23
Alignment explanation
Indices: 42220955--42221027 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 23
42220945 TCCGAGTTTT
42220955 ATAAC-GGAAAGCTCATAAGAGCC
1 ATAACAGG-AAGCTCATAAGAGCC
**
42220978 ATAATCAGGAAGCTCATGCGAGCC
1 ATAA-CAGGAAGCTCATAAGAGCC
*
42221002 AATAACAGGTAGCTC-TGAAGAGCC
1 -ATAACAGGAAGCTCAT-AAGAGCC
42221026 AT
1 AT
42221028 TAATGGAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
23 7 0.17
24 28 0.68
25 6 0.15
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (23 bp):
ATAACAGGAAGCTCATAAGAGCC
Found at i:42226318 original size:50 final size:50
Alignment explanation
Indices: 42226257--42226439 Score: 242
Period size: 50 Copynumber: 3.7 Consensus size: 50
42226247 CGTAACTTTT
* * * *
42226257 GGGAAGTAAGATTCGCCATTGTAGCTTCAATCTTTTTAACTGCACCGTCA
1 GGGAAGTAAGATTCGCCTTTGTGGCTTTAATCTTTTTAACTGCACTGTCA
*
42226307 GGGAAGTAAGATTCGCCTTTGTGGCTTTAATCTTTTTAATTGCACTGTCA
1 GGGAAGTAAGATTCGCCTTTGTGGCTTTAATCTTTTTAACTGCACTGTCA
* * *
42226357 GGGAAGTAAAAATT-GCCTTTGTGGCTTTAATCTTTTTAACTGCAGTATCA
1 GGGAAGT-AAGATTCGCCTTTGTGGCTTTAATCTTTTTAACTGCACTGTCA
* * **
42226407 GGAAAGTAAGATTCACCGATGTGGCTTTAATCT
1 GGGAAGTAAGATTCGCCTTTGTGGCTTTAATCT
42226440 GCTCCACTGC
Statistics
Matches: 117, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
49 5 0.04
50 107 0.91
51 5 0.04
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (50 bp):
GGGAAGTAAGATTCGCCTTTGTGGCTTTAATCTTTTTAACTGCACTGTCA
Found at i:42226626 original size:44 final size:44
Alignment explanation
Indices: 42226573--42226842 Score: 181
Period size: 44 Copynumber: 5.9 Consensus size: 44
42226563 TTTAACCCGC
42226573 TCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATTTGT
1 TCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATTTGT
* * * *
42226617 TCCATTGTAATCTCAGGGGGATAAGATTTCTGGCTTCAATATGATGCGAT
1 TCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAAT-T--T--G-T
* * *** * ** *
42226667 CTACTCTACTGTAA-CTTCAGAGAGATA--ATATCCTTTATTTTAATCCGC
1 -T-C-C-ACTGTAATC-TCAGGGAGATAGGAT-TAC-TGGCTTCAATTTGT
* *
42226715 TCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCT
1 TCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATTTG-T
* *
42226760 T-TACTGTAATCTCAGGGAGATAGGATTACTAGG-TTCAATTTGC
1 TCCACTGTAATCTCAGGGAGATAGGATTACT-GGCTTCAATTTGT
** * *
42226803 TCTGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAAT
1 TCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAAT
42226843 CTGATGCGAT
Statistics
Matches: 176, Mismatches: 30, Indels: 40
0.72 0.12 0.16
Matches are distributed among these distances:
43 3 0.02
44 129 0.73
45 7 0.04
46 3 0.02
47 2 0.01
49 2 0.01
50 1 0.01
51 1 0.01
52 3 0.02
53 4 0.02
54 21 0.12
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (44 bp):
TCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATTTGT
Found at i:42226772 original size:142 final size:142
Alignment explanation
Indices: 42226516--42226786 Score: 409
Period size: 142 Copynumber: 1.9 Consensus size: 142
42226506 AGATAAGACT
* *
42226516 TGATGCGATTTACTCAACTGTAATTTCAGAAAGATAAGATCCTTTACTTTAACCCGCTCCACTGT
1 TGATGCGATCTACTCAACTGTAACTTCAGAAAGATAAGATCCTTTACTTTAACCCGCTCCACTGT
* * * *
42226581 AATCTCAGGGAGATAGGATTACTGGCTTCAATTTGTTCCATTGTAATCTCAGGGGGATAAGATTT
66 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGTTCCACTGTAATCTCAGGGAGATAAGATTT
42226646 CTGGCTTCAATA
131 CTGGCTTCAATA
* * * * *
42226658 TGATGCGATCTACTCTACTGTAACTTCAGAGAGATAATATCCTTTATTTTAATCCGCTCCACTGT
1 TGATGCGATCTACTCAACTGTAACTTCAGAAAGATAAGATCCTTTACTTTAACCCGCTCCACTGT
* *
42226723 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTT-TACTGTAATCTCAGGGAGATAGGATT
66 AATCTCAGGGAGATAGGATTACTAGCTTCAATCTG-TTCCACTGTAATCTCAGGGAGATAAGATT
42226787 ACTAGGTTCA
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
142 113 0.98
143 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (142 bp):
TGATGCGATCTACTCAACTGTAACTTCAGAAAGATAAGATCCTTTACTTTAACCCGCTCCACTGT
AATCTCAGGGAGATAGGATTACTAGCTTCAATCTGTTCCACTGTAATCTCAGGGAGATAAGATTT
CTGGCTTCAATA
Found at i:42226850 original size:186 final size:186
Alignment explanation
Indices: 42226571--42226984 Score: 659
Period size: 186 Copynumber: 2.2 Consensus size: 186
42226561 ACTTTAACCC
* * *
42226571 GCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATTTGTTCCATTGTAATCTCAGGGG
1 GCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATTTGCTCCACTGTAATCTCAGGGA
*
42226636 GATAAGATTTCTGGCTTCAATATGATGCGATCTACTCTACTGTAACTTCAGAGAGATAATATCCT
66 GATAAGATTTCTGGCTTCAATATGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT
42226701 TTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
131 TTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
** **
42226757 GCTTTACTGTAATCTCAGGGAGATAGGATTACTAGG-TTCAATTTGCTCTGCTGTAATCTCAGGG
1 GCTCCACTGTAATCTCAGGGAGATAGGATTACT-GGCTTCAATTTGCTCCACTGTAATCTCAGGG
* * *
42226821 AGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTTAGAGATATAAGATCC
65 AGATAAGATTTCTGGCTTCAATATGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCC
* *
42226886 TTTATTTTAATCCGCTCCACTGTAATCTTAGGGAGATAGGATTATTAGCTTCAATCT
130 TTTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
* * * *
42226943 GCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTCAAT
1 GCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAAT
42226985 CTGATGCGAT
Statistics
Matches: 207, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
185 2 0.01
186 203 0.98
187 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (186 bp):
GCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTCAATTTGCTCCACTGTAATCTCAGGGA
GATAAGATTTCTGGCTTCAATATGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT
TTATTTTAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
Found at i:42226864 original size:142 final size:141
Alignment explanation
Indices: 42226752--42227129 Score: 612
Period size: 142 Copynumber: 2.7 Consensus size: 141
42226742 TACTAGCTTC
** * * * *
42226752 AATCTGCTTTACTGTAATCTCAGGGAGATAGGATTACTAGGTTCAATTTGCTCTGCTGTAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTC
* *
42226817 AGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTTAGAGATATAAG
66 AGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAG
42226882 ATCCTTTATTTT
131 AT-CTTTATTTT
* * *
42226894 AATCCGCTCCACTGTAATCTTAGGGAGATAGGATTATTAGCTTCAATCTGCTCCGCTATAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTC
42226959 AGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAG
66 AGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAG
42227024 ATCCTTTATTTT
131 AT-CTTTATTTT
*
42227036 AATATGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTC
* *
42227101 AGGGAGATAAAATTTCTGTCTTCAATCTG
66 AGGGAGATAAGATTTCTGGCTTCAATCTG
42227130 CTTCTTTACA
Statistics
Matches: 219, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 219 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.35
Consensus pattern (141 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTC
AGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAG
ATCTTTATTTT
Found at i:42226947 original size:44 final size:43
Alignment explanation
Indices: 42226894--42227131 Score: 158
Period size: 44 Copynumber: 5.2 Consensus size: 43
42226884 CCTTTATTTT
* * *
42226894 AATCCGCTCCACTGTAATCTTAGGGAGATAGGATTATTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-TTAGCTTC
* * *
42226938 AATCTGCTCCGCTATAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT-TAGCTTC
* * *
42226982 AATCTGATGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTA-TTTT
1 AATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT--TTTAGCTTC
* * *
42227036 AATATGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATT-TTAGCTTC
* * *
42227080 AATCTGCTCCGCTATAATCTCAGGGAGATAAAATTTCT-GTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTT-TAG-CTTC
42227124 AATCTGCT
1 AATCTGCT
42227132 TCTTTACACT
Statistics
Matches: 151, Mismatches: 24, Indels: 38
0.71 0.11 0.18
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 105 0.70
45 2 0.01
46 1 0.01
47 3 0.02
49 2 0.01
51 3 0.02
52 1 0.01
53 2 0.01
54 24 0.16
55 1 0.01
56 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (43 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTTAGCTTC
Found at i:42235689 original size:19 final size:19
Alignment explanation
Indices: 42235663--42235708 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
42235653 TTAATAATCT
* *
42235663 TGAATGCATATG-ATGACA
1 TGAATGCAGATGCATGAAA
42235681 TGTAATGCAGATGCATGAAA
1 TG-AATGCAGATGCATGAAA
42235701 TGAATGCA
1 TGAATGCA
42235709 AAAAGAAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (19 bp):
TGAATGCAGATGCATGAAA
Found at i:42243169 original size:24 final size:24
Alignment explanation
Indices: 42243142--42243192 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
42243132 TACTTGGGTA
* *
42243142 ATTTTTCGTCAATTCATCCTTTAC
1 ATTTTCCGTCAATTCATCATTTAC
42243166 ATTTTCCGTCAATTCATCATTTAC
1 ATTTTCCGTCAATTCATCATTTAC
42243190 ATT
1 ATT
42243193 CGTAGTGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.04, T:0.49
Consensus pattern (24 bp):
ATTTTCCGTCAATTCATCATTTAC
Found at i:42243360 original size:101 final size:101
Alignment explanation
Indices: 42243185--42243487 Score: 385
Period size: 101 Copynumber: 3.0 Consensus size: 101
42243175 CAATTCATCA
* * * *
42243185 TTTACATTCGTAGTGCCATAACCCAGTTATGGTATTATCATCAAAATGCCATAGCGC-AGCTATG
1 TTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATTAAAATGCCATAGC-CTAGCTATG
* * *
42243249 GTCTTACATATAAACACAGCCACGGTCCAGCCATGGT
65 GTCTTACATATAAACACTGCCATGGTCCAACCATGGT
* * * *
42243286 TTTACGTTCATAGTGCCATAACCCAATTATGGTCTTATCATTAGAATGCCACAGCCTAACTATGG
1 TTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATTAAAATGCCATAGCCTAGCTATGG
* * *
42243351 TCTCACATATAAACACTGCCATGGTCCAACAATGGC
66 TCTTACATATAAACACTGCCATGGTCCAACCATGGT
* * * * *
42243387 CTTACGTTCATAGTGTCATAACCCAGTTATGGTCTTTTCATTAAAATTCAATAG-CTCAGCTATG
1 TTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATTAAAATGCCATAGCCT-AGCTATG
* *
42243451 GTCTTACATTTAAACATTGCCATGGTCCAACCATGGT
65 GTCTTACATATAAACACTGCCATGGTCCAACCATGGT
42243488 CTTATCCGTC
Statistics
Matches: 172, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
100 3 0.02
101 169 0.98
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (101 bp):
TTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATTAAAATGCCATAGCCTAGCTATGG
TCTTACATATAAACACTGCCATGGTCCAACCATGGT
Found at i:42253726 original size:9 final size:9
Alignment explanation
Indices: 42253712--42253823 Score: 161
Period size: 9 Copynumber: 12.4 Consensus size: 9
42253702 GTAGTGATTC
42253712 AATTCGGTT
1 AATTCGGTT
42253721 AATTCGGTT
1 AATTCGGTT
42253730 AATTCGGTT
1 AATTCGGTT
*
42253739 AATTCGGGT
1 AATTCGGTT
*
42253748 AATTCGGGT
1 AATTCGGTT
42253757 AATTCGGTT
1 AATTCGGTT
*
42253766 AATTCGGGT
1 AATTCGGTT
*
42253775 AATCCGGTT
1 AATTCGGTT
42253784 AATTCGGTT
1 AATTCGGTT
*
42253793 AATTCGGGT
1 AATTCGGTT
*
42253802 AATCCGGTT
1 AATTCGGTT
*
42253811 AAGTCGGTT
1 AATTCGGTT
42253820 AATT
1 AATT
42253824 TTTAACCAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 91 1.00
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.38
Consensus pattern (9 bp):
AATTCGGTT
Found at i:42253744 original size:27 final size:27
Alignment explanation
Indices: 42253712--42253823 Score: 179
Period size: 27 Copynumber: 4.1 Consensus size: 27
42253702 GTAGTGATTC
* *
42253712 AATTCGGTTAATTCGGTTAATTCGGTT
1 AATTCGGGTAATCCGGTTAATTCGGTT
* *
42253739 AATTCGGGTAATTCGGGTAATTCGGTT
1 AATTCGGGTAATCCGGTTAATTCGGTT
42253766 AATTCGGGTAATCCGGTTAATTCGGTT
1 AATTCGGGTAATCCGGTTAATTCGGTT
*
42253793 AATTCGGGTAATCCGGTTAAGTCGGTT
1 AATTCGGGTAATCCGGTTAATTCGGTT
42253820 AATT
1 AATT
42253824 TTTAACCAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.38
Consensus pattern (27 bp):
AATTCGGGTAATCCGGTTAATTCGGTT
Found at i:42264743 original size:58 final size:57
Alignment explanation
Indices: 42264647--42264811 Score: 201
Period size: 58 Copynumber: 2.9 Consensus size: 57
42264637 TACAGTATTA
* * *
42264647 TATATTATGATTTTAGTAAATTCATA--TAATAATAATTATATTAAGAATTTTATTAAAT
1 TATA-TATTATTTTATTAAATT-ATATTTAATAATAATTATATTAA-AATTTGATTAAAT
* *
42264705 TATATATTATTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATTAAAT
1 TATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATTTGATTAAAT
* *
42264762 TATTTATTAATTTTATTAAATTATTTTTAATAATAA-TATTATTAAAATTT
1 TATATATT-ATTTTATTAAATTATATTTAATAATAATTA-TATTAAAATTT
42264812 AATAACAATA
Statistics
Matches: 94, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
56 3 0.03
57 35 0.37
58 56 0.60
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (57 bp):
TATATATTATTTTATTAAATTATATTTAATAATAATTATATTAAAATTTGATTAAAT
Found at i:42265003 original size:16 final size:16
Alignment explanation
Indices: 42264982--42265036 Score: 101
Period size: 16 Copynumber: 3.4 Consensus size: 16
42264972 TGAATTATTT
42264982 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
42264998 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
42265014 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
42265030 ATTACAG
1 ATTACAG
42265037 TGAACTAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:42265131 original size:3 final size:3
Alignment explanation
Indices: 42265123--42265147 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
42265113 TGAGGGTCAG
42265123 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
42265148 CTAGTAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:42267400 original size:19 final size:19
Alignment explanation
Indices: 42267376--42267486 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
42267366 AATCATATCC
42267376 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
42267395 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
42267414 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
42267433 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
42267452 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
42267471 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
42267487 CCTGAAGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:42267423 original size:38 final size:38
Alignment explanation
Indices: 42267376--42267479 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
42267366 AATCATATCC
42267376 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
42267414 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
42267452 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
42267480 GCATATCCCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:42268036 original size:132 final size:132
Alignment explanation
Indices: 42267799--42268840 Score: 1685
Period size: 132 Copynumber: 7.9 Consensus size: 132
42267789 GTAATATCAA
* * * *
42267799 GGAGATAAGA-CTTACAATCTTCAACCTATTCCACTGCTGACCAGGG-AGATATG-ATTACTGGC
1 GGAGATAAGATCTGA-AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TA-GAATTACTGGC
* *
42267861 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGTTCCACTACTA
63 TTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTG
42267926 CTTAG
128 CTTAG
* * *
42267931 GGAGATAAGATCTGAAATCTTCAATCTACTCCACTGTTGTACAAGGAAGTAGAATTACTGGCTTC
1 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
*
42267996 AATGTACTCCACTATAACCACAAGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
66 AATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
42268061 AG
131 AG
* *
42268063 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGTCCAGGGAAGTAGAATTCCTGGCTTC
1 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
* *
42268128 AATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCTATCTTCGATCTGCTCCACTACTGCTT
66 AATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
42268193 AG
131 AG
* * *
42268195 GGAGATAAGACCTGAAATATTTAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
1 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
* * * * *
42268260 AATGTACTCCAGTGTAACCACAAGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTTCTT
66 AATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
42268325 AG
131 AG
* * *
42268327 GGACATAAGACCTGAAATCTTCAATCTATTCCACTGTTTTCCAGGGAAGTAGAATTACTGGCTTC
1 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
* *
42268392 AATGTACTCCACTATAACCATAGGGAGGTAAAATTCGCCATCTTCGATCTGCTCCACTACTGCTT
66 AATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
42268457 AG
131 AG
* *
42268459 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTTCAGGGAAGTAGAAATACTGGCTTC
1 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
* *
42268524 AATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGTTCCACTACTGCTT
66 AATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
42268589 AG
131 AG
* *
42268591 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGAAGTAAAATTACTGGCTTC
1 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
* * *
42268656 AATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCTATCTTCGATCTACTCTACTACTGCTT
66 AATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
42268721 AG
131 AG
* *
42268723 GGAGATAAGATCTAAAATCTTCAATCTATTTCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
1 GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
*
42268788 AATGTACTCCACTATAACCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCT
66 AATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
42268841 TCGCTGTCAA
Statistics
Matches: 843, Mismatches: 64, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
131 1 0.00
132 837 0.99
133 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
GGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTC
AATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
AG
Found at i:42268492 original size:44 final size:44
Alignment explanation
Indices: 42268444--42268757 Score: 121
Period size: 44 Copynumber: 7.1 Consensus size: 44
42268434 TTCGATCTGC
*
42268444 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTAT
1 TCCACTACTGCTTAGGGAGATAAAATCTGAAATCTTCAATCTAT
** * * *
42268488 TCCACTGTTG-TTCAGGGA-AGTAGAAATACTG---GCTTCAATGTAC
1 TCCACTACTGCTT-AGGGAGA-TA-AAAT-CTGAAATCTTCAATCTAT
** * * ** * *
42268531 TCCACTGTAAC--CACAGGGAGGTAAAATCCGCCATCTTCGATCTGT
1 TCCAC--T-ACTGCTTAGGGAGATAAAATCTGAAATCTTCAATCTAT
*
42268576 TCCACTACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTAT
1 TCCACTACTGCTTAGGGAGATAAAATCTGAAATCTTCAATCTAT
** ** * * *
42268620 TCCACTGTTGCCCAGGGA-AGTAAAATTACTG---GCTTCAATGTAC
1 TCCACTACTGCTTAGGGAGA-TAAAA-T-CTGAAATCTTCAATCTAT
* ** * * ** * *
42268663 TCCACTA-TAACCACAGGGAGGTAAAATCCGCTATCTTCGATCTAC
1 TCCACTACT--GCTTAGGGAGATAAAATCTGAAATCTTCAATCTAT
* * *
42268708 TCTACTACTGCTTAGGGAGATAAGATCTAAAATCTTCAATCTAT
1 TCCACTACTGCTTAGGGAGATAAAATCTGAAATCTTCAATCTAT
*
42268752 TTCACT
1 TCCACT
42268758 GTTGTCCAGG
Statistics
Matches: 190, Mismatches: 56, Indels: 48
0.65 0.19 0.16
Matches are distributed among these distances:
42 7 0.04
43 39 0.21
44 105 0.55
45 32 0.17
46 7 0.04
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
TCCACTACTGCTTAGGGAGATAAAATCTGAAATCTTCAATCTAT
Found at i:42270537 original size:10 final size:10
Alignment explanation
Indices: 42270519--42270555 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
42270509 CCCTGGTAGA
*
42270519 TTTTGTTTTG
1 TTTTTTTTTG
42270529 TTTTTTTTTG
1 TTTTTTTTTG
42270539 -TTTTTTTTG
1 TTTTTTTTTG
42270548 TTTTTTTT
1 TTTTTTTT
42270556 GTCATCCCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (10 bp):
TTTTTTTTTG
Done.