Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 342 of 373
Found at i:114453755 original size:145 final size:145
Alignment explanation
Indices: 114453485--114453865 Score: 478
Period size: 145 Copynumber: 2.6 Consensus size: 145
114453475 ATTAAAAGGT
* ** * * *
114453485 TCAACCCACCTCTCGCAATATGAGTTGATTTTTTGAAAGTAGAATTTGAAAATACCTCGGCGTGC
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAAAAATTGAAAATACCTCAGCGTGC
* ** *
114453550 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAAATTACCT
65 CCCGAGGCTCAACTCACCTCTCGCAACATGAGTTGAAATTTGAAAAACAAAAATTGAAATTACCT
114453615 CAGCGTGTCCTGAGGC
130 CAGCGTGTCCTGAGGC
* * *
114453631 TTAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAAAAATTGAAAATACCTCAGCGTGC
* ** *
114453695 CCTGAGGCTCAA-TCCATTTCTCGCAACATGAGTTGAAATTTGGAAAACAAAAATTGAAATTACC
65 CCCGAGGCTCAACT-CACCTCTCGCAACATGAGTTGAAATTTGAAAAACAAAAATTGAAATTACC
114453759 TCAGCGTGTCCTGAGGC
129 TCAGCGTGTCCTGAGGC
* *
114453776 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAAAAATTTAAAAGAAATACCTCGGC
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAAAAA-TT--GA-AAATACCTCAGC
* * *
114453841 ATGACCCGAAGCTCAACTCACCTCT
61 GTGCCCCGAGGCTCAACTCACCTCT
114453866 GTATTATGAG
Statistics
Matches: 199, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
144 6 0.03
145 121 0.61
146 36 0.18
147 7 0.04
149 1 0.01
150 27 0.14
151 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (145 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAAAAATTGAAAATACCTCAGCGTGCC
CCGAGGCTCAACTCACCTCTCGCAACATGAGTTGAAATTTGAAAAACAAAAATTGAAATTACCTC
AGCGTGTCCTGAGGC
Found at i:114454023 original size:54 final size:56
Alignment explanation
Indices: 114453936--114454072 Score: 194
Period size: 55 Copynumber: 2.5 Consensus size: 56
114453926 ATGTGACCCG
* *
114453936 AGGC-TCAACTCACCTCT-GTATTATGAGTTGA-TTTTTGAAAAACAGAAATTAAA
1 AGGCTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAA
* *
114453989 AGG-TTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAAACAGGAATTAAA
1 AGGCTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAA
*
114454044 AGGCTT-AACTCACTTCTCGCAATATGAGT
1 AGGCTTCAACTCACCTCTCGCAATATGAGT
114454073 CAATTTAAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
53 16 0.22
54 11 0.15
55 45 0.61
56 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (56 bp):
AGGCTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAA
Found at i:114454221 original size:73 final size:71
Alignment explanation
Indices: 114454044--114454221 Score: 200
Period size: 73 Copynumber: 2.5 Consensus size: 71
114454034 AGGAATTAAA
* * *
114454044 AGGCTTAACTCACTTCTCGCAATATGAGTCAA--TTTAAAACATAAACTAAAAGTACCTCGGCGT
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTTAAAACAAAAACTAAAAGTACCTCAGCGT
*
114454107 GCCCCG
66 GACCCG
* * ** * *
114454113 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAACAAAAGGAATTAAAA-TACCTCAG
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTTAAAAC-AAA--AACTAAAAGTACCTCAG
*
114454177 CGTGACCTG
63 CGTGACCCG
*
114454186 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTT
1 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTT
114454222 CCTTGGAAAG
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
69 27 0.31
71 7 0.08
72 2 0.02
73 45 0.51
74 7 0.08
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (71 bp):
AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTTTAAAACAAAAACTAAAAGTACCTCAGCGT
GACCCG
Found at i:114460934 original size:106 final size:106
Alignment explanation
Indices: 114460764--114460964 Score: 366
Period size: 106 Copynumber: 1.9 Consensus size: 106
114460754 AAGCTTTAAG
*
114460764 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
114460829 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
* *
114460870 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
*
114460935 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATCGCCTTATTTA
114460965 GAAAAATTTT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 91 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
Found at i:114461501 original size:18 final size:20
Alignment explanation
Indices: 114461462--114461505 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
114461452 AAATATGCAT
114461462 AAATATATGTAAGTGTATAA
1 AAATATATGTAAGTGTATAA
114461482 AAAT-TATG-AAGTGTGA-AA
1 AAATATATGTAAGTGT-ATAA
114461500 AAATAT
1 AAATAT
114461506 GTTTAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 12 0.55
19 6 0.27
20 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (20 bp):
AAATATATGTAAGTGTATAA
Found at i:114463912 original size:45 final size:45
Alignment explanation
Indices: 114463730--114464536 Score: 911
Period size: 45 Copynumber: 18.2 Consensus size: 45
114463720 CGCCATTGTC
* *
114463730 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
* * * * * * **
114463775 GATCTGC-ATCGTCAATCCACTTC-CTACCAATATAGGAAGACCG
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
** * * * ***
114463818 GATCTGCTACCTTTGATCTACTTC-ACGCCAATACATGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
* *
114463862 GATCTGCTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
*
114463907 TATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
* *
114463952 TATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
* *
114463997 TATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
* * * * *
114464042 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
* *
114464085 TATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
*
114464130 GATCTGCTTTCTTCGACCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
* * * * * *
114464175 GATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAG
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
* * * * ***
114464218 GATCTGATATCTTCGATCTACTTC-ACGCCAATACATGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
*
114464262 GATCTGCTTTCTTCGATCTGCTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
* * * * * *
114464307 GATCTGC-ATCTTCGATCCACTT-TCTACCAATATAGGAAGATAA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
* *
114464350 TATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
*
114464395 GATCTGCTTTCTTCGACCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
* * * * *
114464440 GATCTGC-GTCGTCGATCTACTTC-CTACCAATATAGGAAGATAA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
** * * ***
114464483 GATCTGCTACCTTCGATCTACTTC-ACGCCAATACATGAAGACAA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
114464527 GATCTGCTTT
1 GATCTGCTTT
114464537 AATGACTTCA
Statistics
Matches: 642, Mismatches: 111, Indels: 19
0.83 0.14 0.02
Matches are distributed among these distances:
43 112 0.17
44 218 0.34
45 312 0.49
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (45 bp):
GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
Found at i:114464120 original size:133 final size:133
Alignment explanation
Indices: 114463730--114464536 Score: 1100
Period size: 133 Copynumber: 6.1 Consensus size: 133
114463720 CGCCATTGTC
* * * *
114463730 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCAATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*** * * * * * ***
114463795 TTCCTACCAATATAGGAAGACCGGATCTGCTACCTTTGATCTACTTC-ACGCCAATACATGAAGA
66 TTCCTACCAATATAGGAAGATAAGATCTACTATCTTCGATCTACTTCGCCACCAATATGGGAAGA
114463859 CAA
131 CAA
* * * * *
114463862 GATCTGCTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAATATCTGCTTTCTTCGATCTA
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCA
* * * * *
114463927 CTTCGCCACCAATATGGGAAGACAATATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAA
65 CTTC-CTACCAATATAGGAAGATAAGATCTACTATCTTCGATCTACTTCGCCACCAATATGGGAA
114463992 GACAA
129 GACAA
* *
114463997 TATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* *
114464062 TTCCTACCAATATAGGAAGATAATATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGA
66 TTCCTACCAATATAGGAAGATAAGATCTACTATCTTCGATCTACTTCGCCACCAATATGGGAAGA
114464127 CAA
131 CAA
*
114464130 GATCTGCTTTCTTCGACCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * * ***
114464195 TTCCTACCAATATAGGAAGATAGGATCTGA-TATCTTCGATCTACTTC-ACGCCAATACATGAAG
66 TTCCTACCAATATAGGAAGATAAGATCT-ACTATCTTCGATCTACTTCGCCACCAATATGGGAAG
114464258 ACAA
130 ACAA
*
114464262 GATCTGCTTTCTTCGATCTGCTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * *
114464327 TTTCTACCAATATAGGAAGATAATATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGA
66 TTCCTACCAATATAGGAAGATAAGATCTACTATCTTCGATCTACTTCGCCACCAATATGGGAAGA
114464392 CAA
131 CAA
* * * *
114464395 GATCTGCTTTCTTCGACCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCTAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * * * ***
114464460 TTCCTACCAATATAGGAAGATAAGATCTGCTACCTTCGATCTACTTC-ACGCCAATACATGAAGA
66 TTCCTACCAATATAGGAAGATAAGATCTACTATCTTCGATCTACTTCGCCACCAATATGGGAAGA
114464524 CAA
131 CAA
114464527 GATCTGCTTT
1 GATCTGCTTT
114464537 AATGACTTCA
Statistics
Matches: 599, Mismatches: 70, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
131 1 0.00
132 191 0.32
133 295 0.49
134 50 0.08
135 62 0.10
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (133 bp):
GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAAGATCTACTATCTTCGATCTACTTCGCCACCAATATGGGAAGA
CAA
Found at i:114464318 original size:265 final size:265
Alignment explanation
Indices: 114463730--114464536 Score: 1186
Period size: 265 Copynumber: 3.0 Consensus size: 265
114463720 CGCCATTGTC
* * * *
114463730 GATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCATCGTCAATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
**** * ** * * * ***
114463795 TTCCTACCAATATAGGAAGACCGGATCTGCTACCTTTGATCTACTTC-ACGCCAATACATGAAGA
66 TTCCTACCAATATAGGAAGATAATATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGA
* * * * *
114463859 CAAGATCTGCTTTCTGCAATCTACTTCGCCACCAATATGGGAAGACAATATCTGCTTTCTTCGAT
131 CAAGATCTGCTTTCTTCGACCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGAT
* * * * * * * **
114463924 CTACTTCGCCACCAATATGGGAAGACAATATCT-ACTTTCTTCGATCTACTTCGCCACCAATATG
195 CTACTTC-CTACCAATATAGGAAGATAAGATCTGA-TATCTTCGATCTACTTC-ACGCCAATACA
*
114463988 GGAAGACAA
257 TGAAGACAA
* *
114463997 TATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
114464062 TTCCTACCAATATAGGAAGATAATATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGA
66 TTCCTACCAATATAGGAAGATAATATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGA
114464127 CAAGATCTGCTTTCTTCGACCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATC
131 CAAGATCTGCTTTCTTCGACCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATC
* *
114464192 CACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAA
196 TACTTCCTACCAATATAGGAAGATAAGATCTGATATCTTCGATCTACTTCACGCCAATACATGAA
114464257 GACAA
261 GACAA
*
114464262 GATCTGCTTTCTTCGATCTGCTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
1 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
114464327 TTTCTACCAATATAGGAAGATAATATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGA
66 TTCCTACCAATATAGGAAGATAATATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGA
* *
114464392 CAAGATCTGCTTTCTTCGACCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATC
131 CAAGATCTGCTTTCTTCGACCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATC
* *
114464457 TACTTCCTACCAATATAGGAAGATAAGATCTGCTACCTTCGATCTACTTCACGCCAATACATGAA
196 TACTTCCTACCAATATAGGAAGATAAGATCTGATATCTTCGATCTACTTCACGCCAATACATGAA
114464522 GACAA
261 GACAA
114464527 GATCTGCTTT
1 GATCTGCTTT
114464537 AATGACTTCA
Statistics
Matches: 492, Mismatches: 46, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
265 280 0.57
266 36 0.07
267 113 0.23
268 63 0.13
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (265 bp):
GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAATATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGA
CAAGATCTGCTTTCTTCGACCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATC
TACTTCCTACCAATATAGGAAGATAAGATCTGATATCTTCGATCTACTTCACGCCAATACATGAA
GACAA
Found at i:114465446 original size:1 final size:1
Alignment explanation
Indices: 114465440--114465464 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
114465430 GCCTCTCCCC
114465440 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
114465465 AGGCAAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:114476040 original size:105 final size:106
Alignment explanation
Indices: 114475871--114476070 Score: 357
Period size: 105 Copynumber: 1.9 Consensus size: 106
114475861 AAGCTTTAAG
*
114475871 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
114475936 TTTTCCAAACGCGAAATAAT-CCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATAATGCCTTATTTAAAAGTTTAAAA
* *
114475976 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
*
114476041 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATAATGCCTTATTTA
114476071 GAAAAATTTT
Statistics
Matches: 90, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
105 81 0.90
106 9 0.10
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATAATGCCTTATTTAAAAGTTTAAAA
Found at i:114476603 original size:18 final size:20
Alignment explanation
Indices: 114476564--114476607 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
114476554 AAATATGCAT
114476564 AAATATATGTAAGTGTATAA
1 AAATATATGTAAGTGTATAA
114476584 AAAT-TATG-AAGTGTGA-AA
1 AAATATATGTAAGTGT-ATAA
114476602 AAATAT
1 AAATAT
114476608 GTTTAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 12 0.55
19 6 0.27
20 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (20 bp):
AAATATATGTAAGTGTATAA
Found at i:114484736 original size:26 final size:26
Alignment explanation
Indices: 114484676--114484740 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
114484666 TACGAAGAAG
* *
114484676 TATATATAATATAATAATAATATTAA
1 TATAAATAATATAAAAATAATATTAA
*
114484702 AATACAATAAT-TAAAAATAATATTATA
1 TATA-AATAATATAAAAATAATATTA-A
114484729 TATAAAT-ATATA
1 TATAAATAATATA
114484741 CAATATTCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
25 2 0.06
26 21 0.66
27 9 0.28
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
TATAAATAATATAAAAATAATATTAA
Found at i:114487755 original size:152 final size:151
Alignment explanation
Indices: 114487480--114487756 Score: 432
Period size: 152 Copynumber: 1.8 Consensus size: 151
114487470 ATAGAAAATT
* *
114487480 TAACAAAAAGAGGTAGAAAAGTTTTTAGGATAACAAAAATTGGCAGAGAGGAAACGAAAGGAACA
1 TAACAAAAAGAGGTAGAAAAATTTTTAGGATAACAAAAATTGGCAGAAAGGAAACGAAAGGAACA
*
114487545 ACAGAAGAGAGAAAATGTTTACTTGAAGGAGGCTCCGATGAAGGGAAGGAGTGCTAGTGGGCGGA
66 ACAGAAGAGAGAAAATGTTTACTTGAAGGAGGCTACGATGAAGGGAAGGAGTGCTAGTGGGCGGA
114487610 AGCAAACTCTACTTAAATGGG
131 AGCAAACTCTACTTAAATGGG
* * * * *
114487631 TAACAAAAAGAGGTTGAAAAATTTTTAGGGTAAGAAAAATTGGCAGAAAGGAAAATGTAAGGAAC
1 TAACAAAAAGAGGTAGAAAAATTTTTAGGATAACAAAAATTGGCAGAAAGG-AAACGAAAGGAAC
*
114487696 AAC-GAAAGAGAGAAAATGTTTACTTGAAGGAGGCTATGATGAAGAGG-AGGAGTGCTAGTGG
65 AACAG-AAGAGAGAAAATGTTTACTTGAAGGAGGCTACGATGAAG-GGAAGGAGTGCTAGTGG
114487757 TAGGAGTCGA
Statistics
Matches: 114, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
151 47 0.41
152 65 0.57
153 2 0.02
ACGTcount: A:0.43, C:0.08, G:0.30, T:0.18
Consensus pattern (151 bp):
TAACAAAAAGAGGTAGAAAAATTTTTAGGATAACAAAAATTGGCAGAAAGGAAACGAAAGGAACA
ACAGAAGAGAGAAAATGTTTACTTGAAGGAGGCTACGATGAAGGGAAGGAGTGCTAGTGGGCGGA
AGCAAACTCTACTTAAATGGG
Found at i:114489437 original size:27 final size:28
Alignment explanation
Indices: 114489392--114489444 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
114489382 ATACATATTT
114489392 TTTAAAATATATATATAATAATAATAAA
1 TTTAAAATATATATATAATAATAATAAA
* * *
114489420 TTTAAATTTTATAT-TAATATTAATA
1 TTTAAAATATATATATAATAATAATA
114489445 TTAAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TTTAAAATATATATATAATAATAATAAA
Found at i:114489466 original size:31 final size:30
Alignment explanation
Indices: 114489428--114489486 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
114489418 AATTTAAATT
* *
114489428 TTATATTAATATTAATATTAAATAAAAATAA
1 TTATATTAATACTAA-ATAAAATAAAAATAA
114489459 TTATATTAATACTAAATAAAATAAAAAT
1 TTATATTAATACTAAATAAAATAAAAAT
114489487 TCTCCACCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (30 bp):
TTATATTAATACTAAATAAAATAAAAATAA
Found at i:114490325 original size:18 final size:18
Alignment explanation
Indices: 114490285--114490340 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
114490275 AAAGTACAAA
*
114490285 AAAACTTCAAAATAATTTTT
1 AAAA-TTCAAAAT-ATTTAT
114490305 AAAATTCAAAATATTTAT
1 AAAATTCAAAATATTTAT
*
114490323 AAAATTCTAAA-ATTTAT
1 AAAATTCAAAATATTTAT
114490340 A
1 A
114490341 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 7 0.21
18 15 0.44
19 8 0.24
20 4 0.12
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:114490387 original size:31 final size:31
Alignment explanation
Indices: 114490341--114490411 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
114490331 AAAATTTATA
* * *
114490341 TTTTAAAAAACATATATATAAATTTTAAAAT
1 TTTTAAAAAACATATAAAGAAAATTTAAAAT
* *
114490372 TTTTAAAGAATATATAAAGAAAATTTAAAAT
1 TTTTAAAAAACATATAAAGAAAATTTAAAAT
114490403 TTTATAAAA
1 TTT-TAAAA
114490412 TAATTTAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 29 0.88
32 4 0.12
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.39
Consensus pattern (31 bp):
TTTTAAAAAACATATAAAGAAAATTTAAAAT
Found at i:114490410 original size:21 final size:20
Alignment explanation
Indices: 114490384--114490431 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
114490374 TTAAAGAATA
114490384 TATAAAGAAAATTTAAAATTT
1 TATAAA-AAAATTTAAAATTT
*
114490405 TATAAAATAATTTAAAATTT
1 TATAAAAAAATTTAAAATTT
114490425 TATAAAA
1 TATAAAA
114490432 TAATAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TATAAAAAAATTTAAAATTT
Found at i:114490418 original size:20 final size:20
Alignment explanation
Indices: 114490393--114490435 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
114490383 ATATAAAGAA
114490393 AATTTAAAATTTTATAAAAT
1 AATTTAAAATTTTATAAAAT
114490413 AATTTAAAATTTTATAAAAT
1 AATTTAAAATTTTATAAAAT
114490433 AAT
1 AAT
114490436 AATTTTGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTAAAATTTTATAAAAT
Found at i:114490904 original size:24 final size:24
Alignment explanation
Indices: 114490869--114490939 Score: 83
Period size: 23 Copynumber: 3.0 Consensus size: 24
114490859 AATTTAAATC
114490869 TATTATATTATTTTGAAAATATTTT
1 TATTATA-TATTTTGAAAATATTTT
* * *
114490894 TTTTATATATTTTTAAAAT-TTAT
1 TATTATATATTTTGAAAATATTTT
114490917 TATTAT-TATTTTTGAAAATATTT
1 TATTATATA-TTTTGAAAATATTT
114490940 ATATATTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 2 0.05
23 17 0.45
24 13 0.34
25 6 0.16
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (24 bp):
TATTATATATTTTGAAAATATTTT
Found at i:114490908 original size:10 final size:10
Alignment explanation
Indices: 114490893--114490957 Score: 53
Period size: 10 Copynumber: 6.3 Consensus size: 10
114490883 GAAAATATTT
114490893 TTTTTATATA
1 TTTTTATATA
*
114490903 TTTTTA-AAA
1 TTTTTATATA
114490912 TTTATTATTATTA
1 TTT-TTA-TA-TA
*
114490925 TTTTTGA-AAA
1 TTTTT-ATATA
*
114490935 TATTTATATA
1 TTTTTATATA
114490945 TTTTTATATA
1 TTTTTATATA
114490955 TTT
1 TTT
114490958 CTTTAATTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
9 6 0.14
10 28 0.65
11 1 0.02
12 3 0.07
13 5 0.12
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTTATATA
Found at i:114490926 original size:22 final size:21
Alignment explanation
Indices: 114490864--114490950 Score: 70
Period size: 23 Copynumber: 4.0 Consensus size: 21
114490854 ATTTAAATTT
* *
114490864 AAATCTATTATATTATTTTGAA
1 AAATTTATTATATTATTTT-TA
* *
114490886 AATATTTTTTTTATATATTTTTA
1 AA-ATTTATTATAT-TATTTTTA
114490909 AAATTTATTATTATTATTTTTGA
1 AAATTTATTA-TATTATTTTT-A
*
114490932 AAATAT-TTATA-TATTTTTA
1 AAATTTATTATATTATTTTTA
114490951 TATATTTCTT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
19 1 0.02
20 7 0.13
21 2 0.04
22 18 0.33
23 20 0.37
24 6 0.11
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (21 bp):
AAATTTATTATATTATTTTTA
Found at i:114495466 original size:3 final size:3
Alignment explanation
Indices: 114495458--114495482 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
114495448 GATGACTTTA
114495458 CAC CAC CAC CAC CAC CAC CAC CAC C
1 CAC CAC CAC CAC CAC CAC CAC CAC C
114495483 TGTGTTTGCT
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:0.68, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:114501436 original size:25 final size:26
Alignment explanation
Indices: 114501389--114501437 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
114501379 TTTTTACGAC
*
114501389 TTATCTTATTAAAAAATTAAAATAAA
1 TTATCTTATTAAAAAATAAAAATAAA
114501415 TTATCTT-TTAAAAAA-AAGAAATA
1 TTATCTTATTAAAAAATAA-AAATA
114501438 TTCAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 13 0.62
26 7 0.33
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (26 bp):
TTATCTTATTAAAAAATAAAAATAAA
Found at i:114501508 original size:19 final size:18
Alignment explanation
Indices: 114501466--114501508 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
114501456 TCTTTCATAC
114501466 AAAATTATATAAAATAAT
1 AAAATTATATAAAATAAT
* *
114501484 ATAAATTATTATATAATATT
1 A-AAATTA-TATAAAATAAT
114501504 AAAAT
1 AAAAT
114501509 ACAAATACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 10 0.48
20 10 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTATATAAAATAAT
Found at i:114502091 original size:12 final size:12
Alignment explanation
Indices: 114502074--114502106 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
114502064 CGGCCTGCCC
114502074 ATATTAATTTTT
1 ATATTAATTTTT
114502086 ATATT-ATTTTT
1 ATATTAATTTTT
114502097 ATA-TAATTTT
1 ATATTAATTTT
114502107 AAAAAATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:114502265 original size:30 final size:30
Alignment explanation
Indices: 114502229--114502291 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
114502219 ACTTAACAAG
*
114502229 CAAATGT-TTCTAAAATAATAACAAAATTAA
1 CAAATGTCTT-TAAAATAATAAAAAAATTAA
114502259 CAAATGTCTTTAAAATAATAAAAAAATTAA
1 CAAATGTCTTTAAAATAATAAAAAAATTAA
114502289 CAA
1 CAA
114502292 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTTTAAAATAATAAAAAAATTAA
Found at i:114502346 original size:11 final size:11
Alignment explanation
Indices: 114502328--114502368 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
114502318 ACAATAACAA
114502328 CAAAATAGTAG
1 CAAAATAGTAG
*
114502339 CAACATAGTAG
1 CAAAATAGTAG
*
114502350 TAAAATAGTAG
1 CAAAATAGTAG
114502361 CAAAATAG
1 CAAAATAG
114502369 GAAGAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.54, C:0.10, G:0.17, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:114502376 original size:22 final size:22
Alignment explanation
Indices: 114502329--114502378 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
114502319 CAATAACAAC
* *
114502329 AAAATAGTAGCAACATAGTAGT
1 AAAATAGTAGCAAAATAGAAGT
114502351 AAAATAGTAGCAAAATAGGAAG-
1 AAAATAGTAGCAAAATA-GAAGT
114502373 AAAATA
1 AAAATA
114502379 ATAAGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (22 bp):
AAAATAGTAGCAAAATAGAAGT
Found at i:114502797 original size:21 final size:22
Alignment explanation
Indices: 114502761--114502803 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
114502751 TAGTTTTCAG
* *
114502761 TTTATTAAAAATTATATATTAT
1 TTTAGTAAAAATTATAAATTAT
114502783 TTTAGTAAAAA-TATAAATTAT
1 TTTAGTAAAAATTATAAATTAT
114502804 ATACTGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTAGTAAAAATTATAAATTAT
Found at i:114503021 original size:26 final size:26
Alignment explanation
Indices: 114502969--114503021 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
114502959 ATTAAAATAA
*
114502969 TTAAAATAAAAAATTTAATAGTTAAT
1 TTAAAATAAAAAATTTAATAGTCAAT
* *
114502995 TTAAAATATCAAAATTTTATA-TCAAT
1 TTAAAATA-AAAAATTTAATAGTCAAT
114503021 T
1 T
114503022 GGCTCGATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (26 bp):
TTAAAATAAAAAATTTAATAGTCAAT
Found at i:114503470 original size:17 final size:17
Alignment explanation
Indices: 114503444--114503476 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
114503434 AAAAAGAGAA
114503444 AGAAAAAAGGT-AAAAG
1 AGAAAAAAGGTCAAAAG
114503460 AGAAGAAAAGGTCAAAA
1 AGAA-AAAAGGTCAAAA
114503477 ATAGACAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.67, C:0.03, G:0.24, T:0.06
Consensus pattern (17 bp):
AGAAAAAAGGTCAAAAG
Found at i:114513664 original size:7 final size:7
Alignment explanation
Indices: 114513654--114513691 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
114513644 CTACGCCTCC
114513654 GCCATCT
1 GCCATCT
114513661 GCCATCT
1 GCCATCT
114513668 GCCATCT
1 GCCATCT
114513675 GCCATCT
1 GCCATCT
114513682 GCCATCT
1 GCCATCT
114513689 GCC
1 GCC
114513692 TTTTCACGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.13, C:0.45, G:0.16, T:0.26
Consensus pattern (7 bp):
GCCATCT
Found at i:114514875 original size:26 final size:26
Alignment explanation
Indices: 114514839--114514889 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
114514829 CTTTGACATC
114514839 TTGCTGAGCTTGCAACTTGCACATTT
1 TTGCTGAGCTTGCAACTTGCACATTT
*
114514865 TTGCTGAGCTTGCAGCTTGCACATT
1 TTGCTGAGCTTGCAACTTGCACATT
114514890 GGAAAGCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
TTGCTGAGCTTGCAACTTGCACATTT
Found at i:114517903 original size:25 final size:26
Alignment explanation
Indices: 114517843--114517912 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
114517833 GGTTCTTCGT
* *
114517843 GAGCTT-CTCGATTAAAGGCTCTTTGC
1 GAGCTTCCT-GATTAATGGCTCTTTGA
114517869 GAGCTTCCTGATTAATGGCTCTTT-A
1 GAGCTTCCTGATTAATGGCTCTTTGA
114517894 GAGCTTCCTGA-T-ATGGCTC
1 GAGCTTCCTGATTAATGGCTC
114517913 GCTTGAAGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
23 7 0.17
24 1 0.02
25 11 0.27
26 20 0.49
27 2 0.05
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
GAGCTTCCTGATTAATGGCTCTTTGA
Found at i:114518737 original size:22 final size:22
Alignment explanation
Indices: 114518675--114518743 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
114518665 TATGCACTAA
* *
114518675 TAAACAGAGAGCACTAAAGTGT
1 TAAACAGAGAGCACTAATGTGC
* * * *
114518697 TATATAGAGAACACGAATGTGC
1 TAAACAGAGAGCACTAATGTGC
*
114518719 TAAACAAAGAGCACTAATGTGC
1 TAAACAGAGAGCACTAATGTGC
114518741 TAA
1 TAA
114518744 TAATCAAATA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.20
Consensus pattern (22 bp):
TAAACAGAGAGCACTAATGTGC
Found at i:114518757 original size:25 final size:25
Alignment explanation
Indices: 114518712--114518780 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
114518702 AGAGAACACG
114518712 AATGTGCT-A-AA-CAAAGAGCACT
1 AATGTGCTAATAATCAAAGAGCACT
*
114518734 AATGTGCTAATAATCAAATAGCACT
1 AATGTGCTAATAATCAAAGAGCACT
* *
114518759 -ATCGTGCTAATTATCAGAGAGC
1 AAT-GTGCTAATAATCAAAGAGC
114518781 GTGCTAAAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
22 8 0.21
23 1 0.03
24 4 0.10
25 26 0.67
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (25 bp):
AATGTGCTAATAATCAAAGAGCACT
Found at i:114522842 original size:14 final size:14
Alignment explanation
Indices: 114522823--114522858 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
114522813 CCTATTTTTC
*
114522823 CTTTCTTTTTCTTT
1 CTTTCTTTTTCCTT
114522837 CTTTCTTTTTCCTT
1 CTTTCTTTTTCCTT
114522851 CTTTCTTT
1 CTTTCTTT
114522859 CCCTACTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
CTTTCTTTTTCCTT
Found at i:114524853 original size:14 final size:14
Alignment explanation
Indices: 114524831--114524867 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
114524821 TTGCATAAAT
*
114524831 TGTGAATATGAGAC
1 TGTGGATATGAGAC
114524845 TGTGGATATGAGAC
1 TGTGGATATGAGAC
114524859 TGTGGATAT
1 TGTGGATAT
114524868 AAGTCAGGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.32, T:0.32
Consensus pattern (14 bp):
TGTGGATATGAGAC
Found at i:114526919 original size:22 final size:21
Alignment explanation
Indices: 114526894--114526943 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
114526884 TATATACTTT
*
114526894 TATTATTTAAAACTCTTTCATA
1 TATTATTT-AAACCCTTTCATA
*
114526916 TATTA-TT-ATCCCTTTCATA
1 TATTATTTAAACCCTTTCATA
114526935 TATTATTTA
1 TATTATTTA
114526944 TATTGAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 15 0.62
20 2 0.08
21 2 0.08
22 5 0.21
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTATTTAAACCCTTTCATA
Found at i:114530730 original size:22 final size:21
Alignment explanation
Indices: 114530687--114530731 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
114530677 TAAGATGTTA
*
114530687 GATATTTATTATTATTTAATT
1 GATATTTATTATTAATTAATT
114530708 GATATTATATTATTAAATT-ATT
1 GATATT-TATTATT-AATTAATT
114530730 GA
1 GA
114530732 ATAATTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 12 0.57
23 3 0.14
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (21 bp):
GATATTTATTATTAATTAATT
Found at i:114530868 original size:33 final size:35
Alignment explanation
Indices: 114530803--114530868 Score: 82
Period size: 33 Copynumber: 1.9 Consensus size: 35
114530793 CAATTGTAAC
* *
114530803 ATATTTATCTAATTACTTTTTATTTAAGTAAATAG
1 ATATTTATCTAATTACTTATTATTAAAGTAAATAG
* *
114530838 ATATTTAT-TATTTA-TTATTATTAAATTAAAT
1 ATATTTATCTAATTACTTATTATTAAAGTAAAT
114530869 TAAAGACAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 14 0.52
34 5 0.19
35 8 0.30
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (35 bp):
ATATTTATCTAATTACTTATTATTAAAGTAAATAG
Found at i:114531627 original size:23 final size:23
Alignment explanation
Indices: 114531601--114531644 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
114531591 GATTAAAATT
114531601 GAAATTAAAGT-AGAAATTTAATA
1 GAAATT-AAGTAAGAAATTTAATA
*
114531624 GAAATTGAGTAAGAAATTTAA
1 GAAATTAAGTAAGAAATTTAA
114531645 ATATTAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.30
Consensus pattern (23 bp):
GAAATTAAGTAAGAAATTTAATA
Found at i:114538505 original size:26 final size:26
Alignment explanation
Indices: 114538396--114538497 Score: 168
Period size: 26 Copynumber: 3.9 Consensus size: 26
114538386 CATGAAATTC
114538396 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
114538422 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* **
114538448 TTATCATGGAACATTTACCTAACATA
1 TTATCATGAAACATTTACCTAACCCA
*
114538474 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
114538498 TTTTATCAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:114544327 original size:26 final size:26
Alignment explanation
Indices: 114544218--114544319 Score: 177
Period size: 26 Copynumber: 3.9 Consensus size: 26
114544208 CATGAAATTC
114544218 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
114544244 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
114544270 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
114544296 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
114544320 TTTTATCAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:114544812 original size:39 final size:39
Alignment explanation
Indices: 114544754--114544892 Score: 224
Period size: 39 Copynumber: 3.6 Consensus size: 39
114544744 TCGTGATCTA
* * * *
114544754 AAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAATAG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACAG
114544793 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACAG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACAG
*
114544832 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACAG
*
114544871 AAGCTCGAAGGCTAACTGAAGC
1 AAGCCCGAAGGCTAACTGAAGC
114544893 TCATCGAGCT
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 94 1.00
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.13
Consensus pattern (39 bp):
AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACAG
Found at i:114544874 original size:21 final size:21
Alignment explanation
Indices: 114544771--114544874 Score: 89
Period size: 21 Copynumber: 5.2 Consensus size: 21
114544761 AAGTCTAGCT
* *
114544771 GAAGCACATAAGTGCTAAATA
1 GAAGCACACAAGTGCTAAACA
*
114544792 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACA
114544810 GAAGCACACAAGTGCTAAACA
1 GAAGCACACAAGTGCTAAACA
*
114544831 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACA
*
114544849 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACA
114544870 GAAGC
1 GAAGC
114544875 TCGAAGGCTA
Statistics
Matches: 67, Mismatches: 6, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
18 15 0.22
19 15 0.22
20 16 0.24
21 21 0.31
ACGTcount: A:0.41, C:0.23, G:0.24, T:0.12
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACA
Found at i:114544894 original size:18 final size:18
Alignment explanation
Indices: 114544754--114544892 Score: 89
Period size: 18 Copynumber: 7.2 Consensus size: 18
114544744 TCGTGATCTA
* * *
114544754 AAGCCCGAAGTCTAGCTG
1 AAGCACGAAGGCTAACTG
* *
114544772 AAGCACATAAGTGCTAAATAG
1 AAGCAC-GAAG-GCTAACT-G
*
114544793 AAGCCCGAAGGCTAACTG
1 AAGCACGAAGGCTAACTG
* *
114544811 AAGCACACAAGTGCTAAACAG
1 AAGCAC-GAAG-GCT-AACTG
*
114544832 AAGCCCGAAGGCTAACTG
1 AAGCACGAAGGCTAACTG
* *
114544850 AAGCACACAAGTGCTAAACGG
1 AAGCAC-GAAG-GCT-AACTG
*
114544871 AAGCTCGAAGGCTAACTG
1 AAGCACGAAGGCTAACTG
114544889 AAGC
1 AAGC
114544893 TCATCGAGCT
Statistics
Matches: 92, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
18 28 0.30
19 21 0.23
20 19 0.21
21 24 0.26
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.13
Consensus pattern (18 bp):
AAGCACGAAGGCTAACTG
Found at i:114544958 original size:20 final size:20
Alignment explanation
Indices: 114544945--114544986 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
114544935 CATATAAGTC
114544945 AACGAAAGCTCATAAGAGCT
1 AACGAAAGCTCATAAGAGCT
114544965 AACGAAAGCTCATAAGAGCT
1 AACGAAAGCTCATAAGAGCT
114544985 AA
1 AA
114544987 ACGGAAAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.14
Consensus pattern (20 bp):
AACGAAAGCTCATAAGAGCT
Found at i:114545719 original size:24 final size:25
Alignment explanation
Indices: 114545692--114545741 Score: 93
Period size: 24 Copynumber: 2.0 Consensus size: 25
114545682 TGACAGTTCC
114545692 AACCCTTCTTCACT-AAAATTAATT
1 AACCCTTCTTCACTAAAAATTAATT
114545716 AACCCTTCTTCACTAAAAATTAATT
1 AACCCTTCTTCACTAAAAATTAATT
114545741 A
1 A
114545742 TCTTCTCGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (25 bp):
AACCCTTCTTCACTAAAAATTAATT
Found at i:114546480 original size:15 final size:15
Alignment explanation
Indices: 114546460--114546498 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
114546450 GGTGCAAAAA
*
114546460 TTATGGAATACCAGC
1 TTATGGAACACCAGC
114546475 TTATGGAACACCAGC
1 TTATGGAACACCAGC
114546490 TTATGGAAC
1 TTATGGAAC
114546499 CCCTCCTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (15 bp):
TTATGGAACACCAGC
Found at i:114548479 original size:21 final size:20
Alignment explanation
Indices: 114548455--114548509 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 20
114548445 CGTGTGCCCT
*
114548455 CTCCACACGGGCGTATGAGAC
1 CTCCACACGGGCCTAT-AGAC
*
114548476 CTCCACATGGGCCTATAGAC
1 CTCCACACGGGCCTATAGAC
*
114548496 CCCCACAC-GGCCTA
1 CTCCACACGGGCCTA
114548510 GGCAATACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 6 0.20
20 10 0.33
21 14 0.47
ACGTcount: A:0.24, C:0.40, G:0.22, T:0.15
Consensus pattern (20 bp):
CTCCACACGGGCCTATAGAC
Found at i:114548646 original size:141 final size:141
Alignment explanation
Indices: 114548392--114548648 Score: 415
Period size: 141 Copynumber: 1.8 Consensus size: 141
114548382 GTCTCGTCTA
* *
114548392 TTCTTAATTTTTAGCATTTTTGGACAGTGAGTTACACGGGCTATTCATACGGGCGTGTGCCCTCT
1 TTCTTAATTTTTAGCATTTTTAGACAGTGAGTTACACGGGCTATTCACACGGGCGTGTGCCCTCT
*
114548457 CCACACGGGCGTATGAGACCTCCACATGGGCCTATAGACCCCCACACGGCCTAGGCAATACCACA
66 CCACACGGGCATATGAGACCTCCACATGGGCCTATAGACCCCCACACGGCCTAGGCAATACCACA
114548522 CGGCCATGTGG
131 CGGCCATGTGG
* * *
114548533 TTCTTAATTTTTAGTATTTTTAGACAGTGAGTTACATGGGCTGTTCACACGGGCGTGTGCCCTCT
1 TTCTTAATTTTTAGCATTTTTAGACAGTGAGTTACACGGGCTATTCACACGGGCGTGTGCCCTCT
* * * * *
114548598 CCACACGGGCATTTGAGGCCTCCATATGGGCGTGTAGACCCCCACACGGCC
66 CCACACGGGCATATGAGACCTCCACATGGGCCTATAGACCCCCACACGGCC
114548649 ATGTGGTTCT
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
141 105 1.00
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.27
Consensus pattern (141 bp):
TTCTTAATTTTTAGCATTTTTAGACAGTGAGTTACACGGGCTATTCACACGGGCGTGTGCCCTCT
CCACACGGGCATATGAGACCTCCACATGGGCCTATAGACCCCCACACGGCCTAGGCAATACCACA
CGGCCATGTGG
Found at i:114554569 original size:22 final size:21
Alignment explanation
Indices: 114554544--114554598 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
114554534 TAATAACAAC
*
114554544 AAAATAATAATAATACAATAA
1 AAAATAATAATAAAACAATAA
* *
114554565 TAAAATGATAACAAAACAATAA
1 -AAAATAATAATAAAACAATAA
*
114554587 AAAATAAAAATA
1 AAAATAATAATA
114554599 TTTTTTTAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAATAATAATAAAACAATAA
Found at i:114564703 original size:24 final size:24
Alignment explanation
Indices: 114564671--114564722 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
114564661 ACTACATCTA
114564671 GACATGGATTGAACATGACGTAAG
1 GACATGGATTGAACATGACGTAAG
114564695 GACATGGATTGAACATGACGTAAG
1 GACATGGATTGAACATGACGTAAG
114564719 GACA
1 GACA
114564723 AAAACTGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.38, C:0.13, G:0.29, T:0.19
Consensus pattern (24 bp):
GACATGGATTGAACATGACGTAAG
Found at i:114573292 original size:25 final size:25
Alignment explanation
Indices: 114573264--114573314 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
114573254 TTGAATGTTT
114573264 TGTTTGTGGTTGCTAATGGTTGAAA
1 TGTTTGTGGTTGCTAATGGTTGAAA
114573289 TGTTTGTGGTTGCTAATGGTTGAAA
1 TGTTTGTGGTTGCTAATGGTTGAAA
114573314 T
1 T
114573315 ATTAGGGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.04, G:0.31, T:0.45
Consensus pattern (25 bp):
TGTTTGTGGTTGCTAATGGTTGAAA
Found at i:114573532 original size:24 final size:25
Alignment explanation
Indices: 114573504--114573569 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
114573494 GTTAATGTAC
114573504 ATGAATTAATTTTTAATAGTAAA-A
1 ATGAATTAATTTTTAATAGTAAATA
* *
114573528 ATGAATGAATTTTTAA-ATTAAATA
1 ATGAATTAATTTTTAATAGTAAATA
* *
114573552 ATTAATTTATTCTTTAAT
1 ATGAATTAATT-TTTAAT
114573570 TCAACATATA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 5 0.15
24 24 0.71
25 5 0.15
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (25 bp):
ATGAATTAATTTTTAATAGTAAATA
Found at i:114577343 original size:26 final size:27
Alignment explanation
Indices: 114577292--114577356 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 27
114577282 TTAAAAGTTA
*
114577292 AATTATATTAATTAAAACATGATTAATT
1 AATTA-ATTAATTAAAACAAGATTAATT
114577320 AATTAATTAATT-AAACTAAG-TTAATT
1 AATTAATTAATTAAAAC-AAGATTAATT
*
114577346 AACT-ATTAATT
1 AATTAATTAATT
114577357 GAAGTATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 7 0.21
26 13 0.38
27 9 0.26
28 5 0.15
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (27 bp):
AATTAATTAATTAAAACAAGATTAATT
Found at i:114582577 original size:20 final size:21
Alignment explanation
Indices: 114582554--114582594 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
114582544 TATTGTGCCA
114582554 TATTTATT-GTTGTTGTATTT
1 TATTTATTCGTTGTTGTATTT
*
114582574 TATTTATTCGTTGTTTTATTT
1 TATTTATTCGTTGTTGTATTT
114582595 GTTATATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.15, C:0.02, G:0.12, T:0.71
Consensus pattern (21 bp):
TATTTATTCGTTGTTGTATTT
Found at i:114585814 original size:16 final size:18
Alignment explanation
Indices: 114585775--114585808 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
114585765 TAAGTTTATA
114585775 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
114585792 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
114585809 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:114587833 original size:18 final size:19
Alignment explanation
Indices: 114587793--114587833 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
114587783 AGTTTTTATC
*
114587793 TTTTACTTGTTTCTTTTCG
1 TTTTACTTGTTTCTTTTCA
*
114587812 TTTT-CTTGTTTCTTTTTA
1 TTTTACTTGTTTCTTTTCA
114587830 TTTT
1 TTTT
114587834 TTACAAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.76
Consensus pattern (19 bp):
TTTTACTTGTTTCTTTTCA
Found at i:114588653 original size:24 final size:24
Alignment explanation
Indices: 114588619--114588755 Score: 107
Period size: 26 Copynumber: 5.5 Consensus size: 24
114588609 TTTATATGTG
* * *
114588619 ATTTATATTAAGCTTATTTATTTT
1 ATTTATTTTAAACTTATTTATCTT
* *
114588643 ATTTACTTTAAATCTT-TTCATATGTT
1 ATTTATTTTAAA-CTTATT--TATCTT
*
114588669 ATTTATTTTAAACTTACTTATCTT
1 ATTTATTTTAAACTTATTTATCTT
*
114588693 ATTTATTTTAAATCTT-TTCATATATT
1 ATTTATTTTAAA-CTTATT--TATCTT
* * *
114588719 GTTTATTTTAAACTTTTTATATATT
1 ATTTATTTTAAACTTATT-TATCTT
114588744 ATTTATTTTAAA
1 ATTTATTTTAAA
114588756 TATTTTTTAT
Statistics
Matches: 94, Mismatches: 11, Indels: 15
0.78 0.09 0.12
Matches are distributed among these distances:
24 29 0.31
25 30 0.32
26 35 0.37
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTTATTTTAAACTTATTTATCTT
Found at i:114588666 original size:50 final size:50
Alignment explanation
Indices: 114588612--114588811 Score: 190
Period size: 50 Copynumber: 3.9 Consensus size: 50
114588602 TTATTTATTT
* * *
114588612 ATATGTGATTTATATTAAGCTTATTTATTTTATTTACTTTAAATCTTTTC
1 ATATGTGATTTATTTTAAACTTATTTATTTTATTTATTTTAAATCTTTTC
* * *
114588662 ATATGTTATTTATTTTAAACTTACTTATCTTATTTATTTTAAATCTTTTC
1 ATATGTGATTTATTTTAAACTTATTTATTTTATTTATTTTAAATCTTTTC
* * *
114588712 ATATATTG-TTTATTTTAAACTT-TTTATATATTATTTATTTTAAATATTTTTTAT
1 ATAT-GTGATTTATTTTAAACTTATTTAT-T-TTATTTATTTT-AA-ATCTTTT-C
* * *
114588766 ATATATTATTTATTTTAAAC-TATTTTATATATTATCTATTTTAAAT
1 ATATGTGATTTATTTTAAACTTA-TTTAT-T-TTATTTATTTTAAAT
114588812 TTTCACATAA
Statistics
Matches: 126, Mismatches: 15, Indels: 15
0.81 0.10 0.10
Matches are distributed among these distances:
49 4 0.03
50 62 0.49
51 12 0.10
52 2 0.02
53 10 0.08
54 18 0.14
55 18 0.14
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (50 bp):
ATATGTGATTTATTTTAAACTTATTTATTTTATTTATTTTAAATCTTTTC
Found at i:114588671 original size:26 final size:26
Alignment explanation
Indices: 114588641--114588990 Score: 207
Period size: 26 Copynumber: 13.3 Consensus size: 26
114588631 CTTATTTATT
* *
114588641 TTATTTACTTTAAATCTTTTCATATG
1 TTATTTATTTTAAATCTTTTCATATA
* * *
114588667 TTATTTATTTTAAA-C-TTACTTATC
1 TTATTTATTTTAAATCTTTTCATATA
114588691 TTATTTATTTTAAATCTTTTCATATA
1 TTATTTATTTTAAATCTTTTCATATA
* *
114588717 TTGTTTATTTTAAA-CTTTTTATATA
1 TTATTTATTTTAAATCTTTTCATATA
* *
114588742 TTATTTATTTTAAATATTTTTTATATATA
1 TTATTTATTTT-AA-ATCTTTT-CATATA
*
114588771 TTATTTATTTTAAA-CTATTTTATATA
1 TTATTTATTTTAAATCT-TTTCATATA
* *
114588797 TTATCTATTTTAAA--TTTTCACATAA
1 TTATTTATTTTAAATCTTTTCATAT-A
* * * * *
114588822 ATATTCAATTTAAA-CTGTTTTATATG
1 TTATTTATTTTAAATCT-TTTCATATA
* ** * *
114588848 TTATTCATTTTAAAAATTTTAAGCTGTTTTA
1 TTATTTATTTTAAATCTTTT---C--ATATA
* * *
114588879 TTATTTATTTTAAGTTTTTTTCATACA
1 TTATTTATTTTAA-ATCTTTTCATATA
* * **
114588906 TTATTTATTTGAAACTGTTTTTTTATA
1 TTATTTATTTTAAA-TCTTTTCATATA
* * *
114588933 TTATTTACTTTAAGT-TCTTTCATTTA
1 TTATTTATTTTAAATCT-TTTCATATA
*
114588959 TTATTTATTTTAAA-CTTTT-TTATA
1 TTATTTATTTTAAATCTTTTCATATA
114588983 TTATTTAT
1 TTATTTAT
114588991 ATATTATTTT
Statistics
Matches: 252, Mismatches: 52, Indels: 42
0.73 0.15 0.12
Matches are distributed among these distances:
24 37 0.15
25 38 0.15
26 90 0.36
27 45 0.18
28 6 0.02
29 18 0.07
31 14 0.06
32 4 0.02
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (26 bp):
TTATTTATTTTAAATCTTTTCATATA
Found at i:114588758 original size:16 final size:16
Alignment explanation
Indices: 114588733--114588789 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
114588723 ATTTTAAACT
*
114588733 TTTTATATATTATTTA
1 TTTTAAATATTATTTA
114588749 TTTTAAATA-T-TTT-
1 TTTTAAATATTATTTA
* *
114588762 TTATATATATTATTTA
1 TTTTAAATATTATTTA
114588778 TTTTAAACTATT
1 TTTTAAA-TATT
114588790 TTATATATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
13 7 0.22
14 4 0.12
15 4 0.12
16 13 0.41
17 4 0.12
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTAAATATTATTTA
Found at i:114588858 original size:51 final size:52
Alignment explanation
Indices: 114588691--114588861 Score: 145
Period size: 51 Copynumber: 3.3 Consensus size: 52
114588681 CTTACTTATC
* * * * *
114588691 TTATTTATTTTAAATCTTTT--CATATATTGTTTATTTTAAACTTTTTATATA
1 TTATTCATTTTAAAT-TTTTCACATATAATATTCAATTTAAACTTTTTATATA
* * * * * *
114588742 TTATTTATTTTAAATATTTTTTATATATATTATTTATTTTAAACTATTTTATATA
1 TTATTCATTTT-AA-ATTTTTCACATATAATATTCAATTTAAACT-TTTTATATA
*
114588797 TTA-TCTATTTTAAA-TTTTCACATA-AATATTCAATTTAAACTGTTTTATATG
1 TTATTC-ATTTTAAATTTTTCACATATAATATTCAATTTAAACT-TTTTATATA
114588848 TTATTCATTTTAAA
1 TTATTCATTTTAAA
114588862 AATTTTAAGC
Statistics
Matches: 103, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
51 44 0.43
52 16 0.16
53 3 0.03
54 23 0.22
55 17 0.17
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (52 bp):
TTATTCATTTTAAATTTTTCACATATAATATTCAATTTAAACTTTTTATATA
Found at i:114588968 original size:53 final size:51
Alignment explanation
Indices: 114588877--114588989 Score: 147
Period size: 53 Copynumber: 2.2 Consensus size: 51
114588867 TAAGCTGTTT
* *
114588877 TATTATTTATTTTAAGTTTTTTTCATACATTATTTATTTGAAACTGTTTTTTTA
1 TATTATTTACTTTAAGTTTCTTTCATACATTATTTATTTGAAAC---TTTTTTA
** *
114588931 TATTATTTACTTTAAG-TTCTTTCATTTATTATTTATTTTAAACTTTTTTA
1 TATTATTTACTTTAAGTTTCTTTCATACATTATTTATTTGAAACTTTTTTA
114588981 TATTATTTA
1 TATTATTTA
114588990 TATATTATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
50 16 0.30
53 23 0.43
54 15 0.28
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.64
Consensus pattern (51 bp):
TATTATTTACTTTAAGTTTCTTTCATACATTATTTATTTGAAACTTTTTTA
Found at i:114596437 original size:20 final size:22
Alignment explanation
Indices: 114596396--114596439 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
114596386 ACTTTTCTAA
*
114596396 ATTTTTTTTAAATGATATTTCT
1 ATTTTTTTTAAATGATACTTCT
114596418 ATTTTTTTTAAAT-A-ACTTCT
1 ATTTTTTTTAAATGATACTTCT
114596438 AT
1 AT
114596440 ATAAAATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.33
21 1 0.05
22 13 0.62
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (22 bp):
ATTTTTTTTAAATGATACTTCT
Found at i:114606514 original size:16 final size:16
Alignment explanation
Indices: 114606470--114606515 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 16
114606460 CTGAACTTTA
114606470 TTTATTAAAATAATAAT
1 TTTATTAAAA-AATAAT
114606487 TTTA-TAATAAAATAAT
1 TTTATTAA-AAAATAAT
114606503 TTTATTAAAAAAT
1 TTTATTAAAAAAT
114606516 TCACTAGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTTATTAAAAAATAAT
Found at i:114608689 original size:47 final size:49
Alignment explanation
Indices: 114608624--114608715 Score: 120
Period size: 47 Copynumber: 1.9 Consensus size: 49
114608614 CGGGGTTTAG
* *
114608624 GGAAATTAAAAGTTTTGGG-GAGAAAG-TAAA-GGAAAAAGGTTTTGAAGA
1 GGAAATTAAAAGTCTTGGGAG-GAAAGAAAAAGGGAAAAA-GTTTTGAAGA
114608672 GGAAA-TAAAAGTCTTGGGAGGAAAGAAAAAGGGAAAAAGTTTTG
1 GGAAATTAAAAGTCTTGGGAGGAAAGAAAAAGGGAAAAAGTTTTG
114608716 GGAGTTTGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
47 17 0.44
48 15 0.38
49 7 0.18
ACGTcount: A:0.47, C:0.01, G:0.32, T:0.21
Consensus pattern (49 bp):
GGAAATTAAAAGTCTTGGGAGGAAAGAAAAAGGGAAAAAGTTTTGAAGA
Found at i:114611537 original size:46 final size:46
Alignment explanation
Indices: 114611485--114611666 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
114611475 ACTTTCCGAA
* * *
114611485 ATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
114611531 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
114611577 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATTAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
114611623 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
114611667 TCGAAGATAA
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 121 0.99
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.22
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:114614325 original size:104 final size:105
Alignment explanation
Indices: 114614202--114614396 Score: 275
Period size: 104 Copynumber: 1.9 Consensus size: 105
114614192 CCTTATTGAA
* * * ***
114614202 ATACCATACCTATATTTCACAACTCGGTATGGGAAATGCCATATCTACA-TTCTTGACTCAGTAT
1 ATACCATACCTACATTTCACAACTCGGTATGGGAAATACCATACCTACATTTCACAACTCAGTAT
*
114614266 ATATAATACCATACCTACGTTTCACAACTCGGTATGGATG
66 AGATAATACCATACCTACGTTTCACAACTCGGTATGGATG
** *
114614306 ATACCATACCTACATTTCACAACTCGGTATGGTTAATACCATACCTACATTTCACAACTCGGTAT
1 ATACCATACCTACATTTCACAACTCGGTATGGGAAATACCATACCTACATTTCACAACTCAGTAT
* *
114614371 GGATGATACCATACCTACGTTTCACA
66 AGATAATACCATACCTACGTTTCACA
114614397 CTTTTACATG
Statistics
Matches: 78, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
104 44 0.56
105 34 0.44
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (105 bp):
ATACCATACCTACATTTCACAACTCGGTATGGGAAATACCATACCTACATTTCACAACTCAGTAT
AGATAATACCATACCTACGTTTCACAACTCGGTATGGATG
Found at i:114614409 original size:35 final size:35
Alignment explanation
Indices: 114614202--114614396 Score: 232
Period size: 35 Copynumber: 5.6 Consensus size: 35
114614192 CCTTATTGAA
* *
114614202 ATACCATACCTATATTTCACAACTCGGTATGGGA-A
1 ATACCATACCTACATTTCACAACTCGGTAT-GGATG
* * *** * ** *
114614237 ATGCCATATCTACA-TTCTTGACTCAGTATATATA
1 ATACCATACCTACATTTCACAACTCGGTATGGATG
*
114614271 ATACCATACCTACGTTTCACAACTCGGTATGGATG
1 ATACCATACCTACATTTCACAACTCGGTATGGATG
* *
114614306 ATACCATACCTACATTTCACAACTCGGTATGGTTA
1 ATACCATACCTACATTTCACAACTCGGTATGGATG
114614341 ATACCATACCTACATTTCACAACTCGGTATGGATG
1 ATACCATACCTACATTTCACAACTCGGTATGGATG
*
114614376 ATACCATACCTACGTTTCACA
1 ATACCATACCTACATTTCACA
114614397 CTTTTACATG
Statistics
Matches: 133, Mismatches: 25, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
33 1 0.01
34 23 0.17
35 109 0.82
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (35 bp):
ATACCATACCTACATTTCACAACTCGGTATGGATG
Found at i:114615128 original size:5 final size:5
Alignment explanation
Indices: 114615118--114615168 Score: 95
Period size: 5 Copynumber: 10.4 Consensus size: 5
114615108 TTATGTTTTA
114615118 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
114615167 AT
1 AT
114615169 AAACTAAAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.09
5 41 0.91
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:114616458 original size:15 final size:15
Alignment explanation
Indices: 114616438--114616494 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
114616428 CGATGAATTT
114616438 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
114616453 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
114616468 ATTGAATTTATATTG
1 ATTGAATTTATATTG
114616483 ATTGAA-TTATAT
1 ATTGAATTTATAT
114616495 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:114616925 original size:21 final size:23
Alignment explanation
Indices: 114616866--114616931 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
114616856 GCTTTATCGA
114616866 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
* **
114616889 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACTTTATGTGTCGTATT
114616911 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
114616932 ACTGATCAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.15, C:0.20, G:0.24, T:0.41
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:114622150 original size:46 final size:47
Alignment explanation
Indices: 114622057--114622208 Score: 155
Period size: 47 Copynumber: 3.2 Consensus size: 47
114622047 ATAGTAAAAC
* * * * *
114622057 TATGGTCTTGCACA-TAGTCACATATTACACACCGAAGCCATAGCCCAGC
1 TATGGTCTTACACAGGA-TCACATA-T-CACACCGATGCCATAACCCAGA
* *
114622106 CATGGTCTTACAC-GGATCACATATCACACTGATGCCATAACCCAGA
1 TATGGTCTTACACAGGATCACATATCACACCGATGCCATAACCCAGA
* * * * *
114622152 TATGGTTTTATACAGTAGCACATATCACACCGATGCCATATCCCAGA
1 TATGGTCTTACACAGGATCACATATCACACCGATGCCATAACCCAGA
114622199 TATGGTCTTA
1 TATGGTCTTA
114622209 TGCGGAAGCA
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
46 28 0.33
47 39 0.45
48 7 0.08
49 12 0.14
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (47 bp):
TATGGTCTTACACAGGATCACATATCACACCGATGCCATAACCCAGA
Found at i:114622180 original size:54 final size:53
Alignment explanation
Indices: 114622120--114622387 Score: 220
Period size: 53 Copynumber: 5.2 Consensus size: 53
114622110 GTCTTACACG
* * *
114622120 GATCACATATCACACTGATGCCATAACCCAGATATGGTTTTATAC-AGT---A-
1 GATCACATATCACAC-GATGCCATAGCCCAGATATGGTCTTATACGAATCACAT
* * *
114622169 G--CACATATCACACCGATGCCATATCCCAGATATGGTCTTATGCGGAAGCACAT
1 GATCACATATCACA-CGATGCCATAGCCCAGATATGGTCTTATAC-GAATCACAT
* * * * * *
114622222 AATTACATCTCTC-CGATGTCATAGCCCAGTTATGGTCTTATACGGAAATCACAT
1 GATCACATATCACACGATGCCATAGCCCAGATATGGTCTTATAC-G-AATCACAT
* *
114622276 GATCAC--ATCACACCGATGCCATAGTCCAGCTATGGTCTTATACGAAATCACAT
1 GATCACATATCACA-CGATGCCATAGCCCAGATATGGTCTTATACG-AATCACAT
* * *
114622329 GAT--CAGATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGATCACAT
1 GATCACATATCACA-CGATGCCATAGCCCAGATATGGTCTTATACGAATCACAT
114622381 -ATCACAT
1 GATCACAT
114622388 GTTGCCATGG
Statistics
Matches: 179, Mismatches: 24, Indels: 28
0.77 0.10 0.12
Matches are distributed among these distances:
47 37 0.21
48 1 0.01
49 2 0.01
51 3 0.02
52 11 0.06
53 80 0.45
54 38 0.21
55 7 0.04
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.26
Consensus pattern (53 bp):
GATCACATATCACACGATGCCATAGCCCAGATATGGTCTTATACGAATCACAT
Found at i:114622261 original size:53 final size:53
Alignment explanation
Indices: 114622175--114622387 Score: 286
Period size: 53 Copynumber: 4.0 Consensus size: 53
114622165 AGTAGCACAT
* * * * * *
114622175 ATCACACCGATGCCATATCCCAGATATGGTCTTATGCGGAAGCACATAATTAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATGATCAC
* * * *
114622228 ATCTCTCCGATGTCATAGCCCAGTTATGGTCTTATACGGAAATCACATGATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGG-AATCACATGATCAC
* * *
114622282 ATCACACCGATGCCATAGTCCAGCTATGGTCTTATACGAAATCACATGATCAG
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATGATCAC
114622335 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGG-ATCACAT-ATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATGATCAC
114622386 AT
1 AT
114622388 GTTGCCATGG
Statistics
Matches: 140, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
51 6 0.04
52 7 0.05
53 83 0.59
54 44 0.31
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (53 bp):
ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATGATCAC
Found at i:114622328 original size:107 final size:104
Alignment explanation
Indices: 114622175--114622387 Score: 284
Period size: 107 Copynumber: 2.0 Consensus size: 104
114622165 AGTAGCACAT
* * * * *
114622175 ATCACACCGATGCCATATCCCAGATATGGTCTTATGCGGAAGCACATAATTACATCTCTCCGATG
1 ATCACACCGATGCCATATCCCAGATATGGTCTTATACGAAAGCACATAATCACATCACACCGATG
* *
114622240 TCATAGCCCAGTTATGGTCTTATACGGAAATCACATGATCAC
66 CCATAGCCCAGCTATGGTCTTATACGG--ATCACAT-ATCAC
* * * *
114622282 ATCACACCGATGCCATAGT-CCAGCTATGGTCTTATACGAAATCACATGATCAGATCACACCGAT
1 ATCACACCGATGCCATA-TCCCAGATATGGTCTTATACGAAAGCACATAATCACATCACACCGAT
114622346 GCCATAGCCCAGCTATGGTCTTATACGGATCACATATCAC
65 GCCATAGCCCAGCTATGGTCTTATACGGATCACATATCAC
114622386 AT
1 AT
114622388 GTTGCCATGG
Statistics
Matches: 94, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
104 7 0.07
105 7 0.07
107 79 0.84
108 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (104 bp):
ATCACACCGATGCCATATCCCAGATATGGTCTTATACGAAAGCACATAATCACATCACACCGATG
CCATAGCCCAGCTATGGTCTTATACGGATCACATATCAC
Found at i:114624156 original size:20 final size:21
Alignment explanation
Indices: 114624122--114624174 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
114624112 TGATGATATT
*
114624122 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
114624143 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
114624163 TTTTATTATTTT
1 TTATATTATTTT
114624175 TTTATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 4 0.14
20 14 0.50
21 10 0.36
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:114624179 original size:11 final size:11
Alignment explanation
Indices: 114624163--114624192 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
114624153 TAATGAGATA
114624163 TTTTATTATTT
1 TTTTATTATTT
114624174 TTTTATTATTT
1 TTTTATTATTT
*
114624185 TATTATTA
1 TTTTATTA
114624193 ATTATTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATTATTT
Found at i:114628158 original size:83 final size:82
Alignment explanation
Indices: 114627985--114628143 Score: 291
Period size: 83 Copynumber: 1.9 Consensus size: 82
114627975 ATTTAGGCCT
* *
114627985 TGGACTTGATAATTATTCCCACATTAGGGTTTGAACTTTTTTATCCAAATTAGTCCCTGAACTTG
1 TGGACTTGATAATTATTCCCACATTAGGGCTTGAACTTTTTTATCCAAATTAGTCCCTAAACTTG
114628050 ACAATTATTCTAATACC
66 ACAATTATTCTAATACC
114628067 TGGACTTGATAATTATTCCCACATTAGGGCTTGAACTTTTTTTATCCAAATTAGTCCCTAAACTT
1 TGGACTTGATAATTATTCCCACATTAGGGCTTGAAC-TTTTTTATCCAAATTAGTCCCTAAACTT
114628132 GACAATTATTCT
65 GACAATTATTCT
114628144 CATATTGAGG
Statistics
Matches: 74, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
82 35 0.47
83 39 0.53
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (82 bp):
TGGACTTGATAATTATTCCCACATTAGGGCTTGAACTTTTTTATCCAAATTAGTCCCTAAACTTG
ACAATTATTCTAATACC
Found at i:114629453 original size:19 final size:19
Alignment explanation
Indices: 114629429--114629467 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
114629419 TAAAATTAAG
*
114629429 TAATCAACACGTATTAATA
1 TAATCAACACATATTAATA
114629448 TAATCAACACATATTAATA
1 TAATCAACACATATTAATA
114629467 T
1 T
114629468 TTAGTAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (19 bp):
TAATCAACACATATTAATA
Found at i:114630334 original size:48 final size:48
Alignment explanation
Indices: 114630279--114630374 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
114630269 ATTAATGGTG
* * *
114630279 TTTGAAAATGACCAAACTGTAGGAGCTATAAAACTTTCTTTTGATCTT
1 TTTGAAAAAGACCAAAATGCAGGAGCTATAAAACTTTCTTTTGATCTT
114630327 TTTGAAAAAGACCAAAATGCAGGAGCTATAAAACTTTCTTTTGATCTT
1 TTTGAAAAAGACCAAAATGCAGGAGCTATAAAACTTTCTTTTGATCTT
114630375 GTACTTGCCT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (48 bp):
TTTGAAAAAGACCAAAATGCAGGAGCTATAAAACTTTCTTTTGATCTT
Found at i:114635515 original size:33 final size:33
Alignment explanation
Indices: 114635455--114635532 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 33
114635445 AGTAGAGTAT
* *
114635455 TGCGGTGGATACGGGCTGAGGGTAGTGCTATAC
1 TGCGGTGGATACGGGCCGAGGGAAGTGCTATAC
* * *
114635488 TGCGGTGGATATGGGCCG-GGAGAAGTGCTGTGC
1 TGCGGTGGATACGGGCCGAGG-GAAGTGCTATAC
*
114635521 TACGGTGGATAC
1 TGCGGTGGATAC
114635533 AACCCAAAGA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
32 2 0.05
33 35 0.95
ACGTcount: A:0.18, C:0.15, G:0.44, T:0.23
Consensus pattern (33 bp):
TGCGGTGGATACGGGCCGAGGGAAGTGCTATAC
Found at i:114638064 original size:150 final size:149
Alignment explanation
Indices: 114637702--114638216 Score: 808
Period size: 150 Copynumber: 3.5 Consensus size: 149
114637692 TATTTTTAAA
* *
114637702 ATTTTTAAAATTTTCGAATCTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTTATATT
1 ATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATATT
*
114637767 ATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAAAC
65 ATTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTATATTAATTTAGTAAAT-AAC
* * *
114637832 CTGATTTTGGCCATTTGTTCGT
128 CTGATTTTGACCCTTTGTTTGT
114637854 ATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTATATTA
1 ATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
*
114637918 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGAAAATAACCTT
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAATAACC-T
114637983 GATTTTGACCCTTTGTTTGT
130 GATTTTGACCCTTTGTTTGT
* *
114638003 ATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
1 ATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
*
114638068 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTATATTAATTTAGTAAATAACCCT
66 TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAATAA-CCT
* *
114638133 AATTTTGTCCCTTTGTTTGT
130 GATTTTGACCCTTTGTTTGT
* *
114638153 ATTTTTAAAATTTT-TAGA--TT-TTTTTT-AAATATACTATATTCGTATTTTATTTTTTATATT
1 ATTTTTAAAATTTTCGA-ATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATT
114638213 ATTT
65 ATTT
114638217 AAAAAAAACC
Statistics
Matches: 343, Mismatches: 16, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
146 37 0.11
147 6 0.02
148 6 0.02
149 91 0.27
150 150 0.44
151 2 0.01
152 51 0.15
ACGTcount: A:0.30, C:0.06, G:0.07, T:0.57
Consensus pattern (149 bp):
ATTTTTAAAATTTTCGAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATATTA
TTTTAGTACATAATGTTTCAAATGTATTATTTTAGTTTTTTTATATTAATTTAGTAAATAACCTG
ATTTTGACCCTTTGTTTGT
Found at i:114638286 original size:17 final size:16
Alignment explanation
Indices: 114638254--114638327 Score: 78
Period size: 16 Copynumber: 4.6 Consensus size: 16
114638244 CAAAAAAAAA
114638254 TTATTTTTTTCATATT
1 TTATTTTTTTCATATT
*
114638270 TTATTTCTTTTCGTATT
1 TTATTT-TTTTCATATT
**
114638287 TTA-TTTTTTCATTAAG
1 TTATTTTTTTCA-TATT
* *
114638303 ATATTTTTTTAATATT
1 TTATTTTTTTCATATT
114638319 TTATTTTTT
1 TTATTTTTT
114638328 ATACTATTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
15 5 0.11
16 22 0.48
17 19 0.41
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (16 bp):
TTATTTTTTTCATATT
Found at i:114638335 original size:17 final size:16
Alignment explanation
Indices: 114638254--114638337 Score: 69
Period size: 16 Copynumber: 5.1 Consensus size: 16
114638244 CAAAAAAAAA
*
114638254 TTATTTTTTTCATATT
1 TTATTTTTTTAATATT
**
114638270 TTATTTCTTTTCGTATT
1 TTATTT-TTTTAATATT
* * **
114638287 TTATTTTTTCATTAAG
1 TTATTTTTTTAATATT
*
114638303 ATATTTTTTTAATATT
1 TTATTTTTTTAATATT
*
114638319 TTATTTTTTATACTATT
1 TTATTTTTT-TAATATT
114638336 TT
1 TT
114638338 TGTAAAATAG
Statistics
Matches: 53, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
16 30 0.57
17 23 0.43
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.70
Consensus pattern (16 bp):
TTATTTTTTTAATATT
Found at i:114638696 original size:12 final size:12
Alignment explanation
Indices: 114638679--114638703 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
114638669 ATAATAATTC
114638679 TTCTTTTCTTCT
1 TTCTTTTCTTCT
114638691 TTCTTTTCTTCT
1 TTCTTTTCTTCT
114638703 T
1 T
114638704 CTCCTTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCTTTTCTTCT
Found at i:114639003 original size:22 final size:23
Alignment explanation
Indices: 114638953--114639003 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
114638943 CATTTTCGTC
114638953 ATTAGT-TTTTGCCTTATACCAT
1 ATTAGTATTTTGCCTTATACCAT
* *
114638975 -TTAAGTATTTTG-TTTATACTAT
1 ATT-AGTATTTTGCCTTATACCAT
114638997 ATTAGTA
1 ATTAGTA
114639004 AAAAACCCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 2 0.08
22 15 0.62
23 7 0.29
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (23 bp):
ATTAGTATTTTGCCTTATACCAT
Found at i:114641543 original size:3 final size:3
Alignment explanation
Indices: 114641535--114641710 Score: 126
Period size: 3 Copynumber: 59.7 Consensus size: 3
114641525 TAATATTTCA
* ** *
114641535 ATT ATT ATT ATT GTT ATT ATT -TT -TT ATT ACC ATT ATT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
114641581 ACT ATT ATT TTT ATT ACT ATT ATT ACT ACT ATT -TT CGTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
* * * * * * *
114641626 ACT ATT ACT ATT ATT TTT ATT ACT ATT ATT ATT ACT ATT TTT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
114641674 ATT ATT ATT ACT ATT -GT ATT ATT ACT ATT GTT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
114641711 ATTTTCTTTC
Statistics
Matches: 131, Mismatches: 38, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
2 7 0.05
3 122 0.93
4 2 0.02
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:114641594 original size:24 final size:24
Alignment explanation
Indices: 114641567--114641702 Score: 139
Period size: 24 Copynumber: 5.6 Consensus size: 24
114641557 TTTATTACCA
*
114641567 TTATTATTACTATTACTATTATTT
1 TTATTATTACTATTACTACTATTT
* *
114641591 TTATTACTATTATTACTACTATTTT
1 TTATTATTACTATTACTACTA-TTT
*
114641616 CGTTATTATTACTATTACTATTATTT
1 --TTATTATTACTATTACTACTATTT
* * *
114641642 TTATTACTATTATTATTACTATTT
1 TTATTATTACTATTACTACTATTT
* * *
114641666 TTGTTATTATTATTATTACTA-TT
1 TTATTATTACTATTACTACTATTT
*
114641689 GTATTATTACTATT
1 TTATTATTACTATT
114641703 GTTATTATAT
Statistics
Matches: 94, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
23 13 0.14
24 57 0.61
25 3 0.03
26 3 0.03
27 18 0.19
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (24 bp):
TTATTATTACTATTACTACTATTT
Found at i:114641596 original size:27 final size:27
Alignment explanation
Indices: 114641566--114641680 Score: 139
Period size: 27 Copynumber: 4.4 Consensus size: 27
114641556 TTTTATTACC
114641566 ATTATTATTACTATTACTATTATTTTT
1 ATTATTATTACTATTACTATTATTTTT
* * *
114641593 ATTACTA-T--TATTACTACTATTTTC
1 ATTATTATTACTATTACTATTATTTTT
*
114641617 GTTATTATTACTATTACTATTATTTTT
1 ATTATTATTACTATTACTATTATTTTT
* *
114641644 ATTACTATTATTATTACTATT-TTTGTT
1 ATTATTATTACTATTACTATTATTT-TT
114641671 ATTATTATTA
1 ATTATTATTA
114641681 TTACTATTGT
Statistics
Matches: 73, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
24 19 0.26
25 1 0.01
26 4 0.05
27 49 0.67
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.61
Consensus pattern (27 bp):
ATTATTATTACTATTACTATTATTTTT
Found at i:114641635 original size:51 final size:51
Alignment explanation
Indices: 114641567--114641716 Score: 232
Period size: 51 Copynumber: 3.0 Consensus size: 51
114641557 TTTATTACCA
*
114641567 TTATTATTACTATTACTATTATTTTTATTACTATTATTACTACTATTTTCG
1 TTATTATTACTATTACTATTATTTTTATTACTATTATTATTACTATTTTCG
*
114641618 TTATTATTACTATTACTATTATTTTTATTACTATTATTATTACTATTTTTG
1 TTATTATTACTATTACTATTATTTTTATTACTATTATTATTACTATTTTCG
* * * *
114641669 TTATTATTATTATTACTATT-GTATTATTACTATTGTTATTA-TATTTTC
1 TTATTATTACTATTACTATTATTTTTATTACTATTATTATTACTATTTTC
114641717 TTTCTTTATG
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
49 6 0.07
50 18 0.20
51 68 0.74
ACGTcount: A:0.27, C:0.09, G:0.03, T:0.61
Consensus pattern (51 bp):
TTATTATTACTATTACTATTATTTTTATTACTATTATTATTACTATTTTCG
Found at i:114641861 original size:26 final size:26
Alignment explanation
Indices: 114641792--114641867 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 26
114641782 ACATGTATTT
* **
114641792 TTTATTTTATTTTTATTTTTTATATCA
1 TTTATTTTATTTATATCATTT-TATCA
*
114641819 -TTATTCTT-GTTATTATCATTTTATCA
1 TTTATT-TTATTTA-TATCATTTTATCA
*
114641845 TTTATTTTATTTATATCCTTTTA
1 TTTATTTTATTTATATCATTTTA
114641868 AATAATTTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
26 23 0.59
27 16 0.41
ACGTcount: A:0.22, C:0.08, G:0.01, T:0.68
Consensus pattern (26 bp):
TTTATTTTATTTATATCATTTTATCA
Found at i:114650746 original size:71 final size:71
Alignment explanation
Indices: 114650651--114650782 Score: 174
Period size: 71 Copynumber: 1.9 Consensus size: 71
114650641 GGTCACCTGT
* * * * * * *
114650651 TAGTAATTTATTGTTGTTGCATACTCATTTCAGTTACTCAATTTTAATAAATCTTTATTTTAGTC
1 TAGTAATTTAGTATTATTGCATACTCATTTCAATCACACAAATTTAATAAATCTTTATTTTAGTC
114650716 CGTTGC
66 CGTTGC
* * *
114650722 TAGTAATTTAGTATTATTGTATACTTATTTCAATCACACAAATTTAATAAATTTTTATTTT
1 TAGTAATTTAGTATTATTGCATACTCATTTCAATCACACAAATTTAATAAATCTTTATTTT
114650783 TGTAAATTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
71 51 1.00
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.50
Consensus pattern (71 bp):
TAGTAATTTAGTATTATTGCATACTCATTTCAATCACACAAATTTAATAAATCTTTATTTTAGTC
CGTTGC
Found at i:114650800 original size:18 final size:18
Alignment explanation
Indices: 114650774--114650820 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
114650764 TTTAATAAAT
114650774 TTTTATTTTTGTAAATT-A
1 TTTTATTTTT-TAAATTAA
* *
114650792 TTTTCTTTTTAAAATTAA
1 TTTTATTTTTTAAATTAA
114650810 TTTTATTTTTT
1 TTTTATTTTTT
114650821 TAAAAGAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTATTTTTTAAATTAA
Found at i:114658381 original size:20 final size:20
Alignment explanation
Indices: 114658356--114658394 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
114658346 CGGCCTTAAA
114658356 CAAGTAAATTACAAAACCAG
1 CAAGTAAATTACAAAACCAG
114658376 CAAGTAAATTACAAAACCA
1 CAAGTAAATTACAAAACCA
114658395 AGTTTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.21, G:0.08, T:0.15
Consensus pattern (20 bp):
CAAGTAAATTACAAAACCAG
Found at i:114662291 original size:15 final size:15
Alignment explanation
Indices: 114662271--114662301 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
114662261 GTGAGTGAAG
114662271 GAGAAGAAAAAGAAA
1 GAGAAGAAAAAGAAA
*
114662286 GAGAAGAAAGAGAAA
1 GAGAAGAAAAAGAAA
114662301 G
1 G
114662302 TGAGGGCGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (15 bp):
GAGAAGAAAAAGAAA
Found at i:114662613 original size:27 final size:27
Alignment explanation
Indices: 114662550--114662652 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
114662540 CTAAGTGGGT
* * * **
114662550 GTGGTGTCTATTTGATAGACGGCACCG
1 GTGGTGCCTATCTGATAGGCGGCACTA
* *
114662577 GTGATCCCTATCTGATAGGCGGCACTA
1 GTGGTGCCTATCTGATAGGCGGCACTA
* * *
114662604 GTTGTGCCTATGTGATAGGCGGCACTG
1 GTGGTGCCTATCTGATAGGCGGCACTA
*
114662631 GTGGTGCTTATCTGATAGGCGG
1 GTGGTGCCTATCTGATAGGCGG
114662653 TGCACCCTGT
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.17, C:0.19, G:0.34, T:0.29
Consensus pattern (27 bp):
GTGGTGCCTATCTGATAGGCGGCACTA
Found at i:114662976 original size:19 final size:20
Alignment explanation
Indices: 114662941--114662978 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
114662931 TTGAGAATGT
*
114662941 TATATTGTAAAATTTTTTAA
1 TATATTGTAAAAGTTTTTAA
114662961 TATATT-TAAAAGTTTTTA
1 TATATTGTAAAAGTTTTTA
114662979 TGTTAGTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TATATTGTAAAAGTTTTTAA
Found at i:114665985 original size:62 final size:62
Alignment explanation
Indices: 114665886--114666051 Score: 260
Period size: 62 Copynumber: 2.7 Consensus size: 62
114665876 CAATGTACCT
* * *
114665886 AATTTATATTATAAAGTTTGTTTCAATTTTTAGTGTTGTAATTTATTTAACTTATATAACAA
1 AATTTATATTACAAAGTTTGTTACAATTTTTAGTGTTGTAATATATTTAACTTATATAACAA
* * *
114665948 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATATATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTACAATTTTTAGTGTTGTAATATATTTAACTTATATAACAA
* *
114666010 AATTTATATTACAAAGTTTGTTACAAGTTTTAGTGTTTTAAT
1 AATTTATATTACAAAGTTTGTTACAATTTTTAGTGTTGTAAT
114666052 GTTGTAATGT
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 95 1.00
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.50
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTACAATTTTTAGTGTTGTAATATATTTAACTTATATAACAA
Found at i:114667502 original size:27 final size:27
Alignment explanation
Indices: 114667472--114667523 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
114667462 TGCTACATCT
*
114667472 GCCAACTCCTCCACCAGTGCCGCCTAC
1 GCCAACTCCTCCACCAATGCCGCCTAC
114667499 GCCAACTCCTCCACCAATGCCGCCT
1 GCCAACTCCTCCACCAATGCCGCCT
114667524 CTTCTCTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.19, C:0.52, G:0.13, T:0.15
Consensus pattern (27 bp):
GCCAACTCCTCCACCAATGCCGCCTAC
Found at i:114669607 original size:2 final size:2
Alignment explanation
Indices: 114669602--114669627 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
114669592 GTATATATTC
114669602 GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT
114669628 AGTACCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:114673381 original size:26 final size:26
Alignment explanation
Indices: 114673345--114673480 Score: 220
Period size: 26 Copynumber: 5.2 Consensus size: 26
114673335 TGATACAAAT
114673345 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTCAA
114673371 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTCAA
*
114673397 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCAA
* *
114673423 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCAA
*
114673449 TGATAATGGGTTAGGTAAATGTTTC-A
1 TGATAATAGGTTAGGTAAATG-TTCAA
114673475 TGATAA
1 TGATAA
114673481 GAATTTCATG
Statistics
Matches: 107, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
26 104 0.97
27 3 0.03
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCAA
Found at i:114675138 original size:27 final size:27
Alignment explanation
Indices: 114675097--114675236 Score: 174
Period size: 27 Copynumber: 5.2 Consensus size: 27
114675087 GAGGAAGCGT
*
114675097 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
114675124 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
114675151 TCTGGTGGCTCTACCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
114675178 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
114675206 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
114675232 TCTGG
1 TCTGG
114675237 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
26 5 0.05
27 80 0.80
28 15 0.15
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:114675182 original size:54 final size:55
Alignment explanation
Indices: 114675097--114675236 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 55
114675087 GAGGAAGCGT
* * *
114675097 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* * *
114675151 TCTGGTGGCTCTACCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
114675206 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
114675237 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
54 59 0.78
55 17 0.22
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:114680547 original size:26 final size:26
Alignment explanation
Indices: 114680511--114680620 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
114680501 TGATACAAAT
114680511 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
114680537 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
114680563 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
114680589 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
114680615 TGATAA
1 TGATAA
114680621 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:114682094 original size:28 final size:26
Alignment explanation
Indices: 114682062--114682137 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
114682052 AAAAGTAGCT
*
114682062 AAATTACTATAATACCCCTATGTGTGGA
1 AAATTACTATAATACCCCTA-G-GTGCA
* * *
114682090 AAATTGCTGTTATACCCCTAGGTGCA
1 AAATTACTATAATACCCCTAGGTGCA
** *
114682116 AAATTACCGTTATACCCCTAGG
1 AAATTACTATAATACCCCTAGG
114682138 GTTAATTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 24 0.57
27 1 0.02
28 17 0.40
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (26 bp):
AAATTACTATAATACCCCTAGGTGCA
Found at i:114682127 original size:26 final size:26
Alignment explanation
Indices: 114682073--114682137 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 26
114682063 AATTACTATA
* * *
114682073 ATACCCCTATGTGTGGAAAATTGCTGTT
1 ATACCCCTA-G-GTGCAAAATTACCGTT
114682101 ATACCCCTAGGTGCAAAATTACCGTT
1 ATACCCCTAGGTGCAAAATTACCGTT
114682127 ATACCCCTAGG
1 ATACCCCTAGG
114682138 GTTAATTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 24 0.71
27 1 0.03
28 9 0.26
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (26 bp):
ATACCCCTAGGTGCAAAATTACCGTT
Found at i:114682281 original size:27 final size:27
Alignment explanation
Indices: 114682240--114682379 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
114682230 GAGGAAGCGT
* *
114682240 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAATTATCTGA
*
114682267 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAATTATCTGA
* *
114682294 TCTGGTGGCTCTGCCACATTTATCTGT
1 TCTGGTGGCTCTGCCACAATTATCTGA
*
114682321 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAATTATCTG-A
* * *
114682349 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAATTATCTGA
114682375 TCTGG
1 TCTGG
114682380 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 15 0.15
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATTATCTGA
Found at i:114682465 original size:19 final size:22
Alignment explanation
Indices: 114682441--114682480 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
114682431 CTCCCCACAC
114682441 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
114682460 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
114682481 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:114688972 original size:55 final size:55
Alignment explanation
Indices: 114688912--114689019 Score: 139
Period size: 55 Copynumber: 2.0 Consensus size: 55
114688902 TCGTCTTAAT
* * *
114688912 TGTTGGAATACTGC-TTCTTTTGAA-TATATTTTTTATATGTTTAAATCAATTGTCA
1 TGTTGGAATACTGCATT-TTTTAAATTA-ATTATTTATATGTCTAAATCAATTGTCA
* *
114688967 TGTTGGAATATTGCATTTTTTAAATTAATTATTTATATGTCTAAATCGATTGT
1 TGTTGGAATACTGCATTTTTTAAATTAATTATTTATATGTCTAAATCAATTGT
114689020 TACATAACAC
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
55 42 0.91
56 4 0.09
ACGTcount: A:0.29, C:0.07, G:0.13, T:0.51
Consensus pattern (55 bp):
TGTTGGAATACTGCATTTTTTAAATTAATTATTTATATGTCTAAATCAATTGTCA
Found at i:114696436 original size:38 final size:37
Alignment explanation
Indices: 114696392--114696502 Score: 97
Period size: 38 Copynumber: 3.0 Consensus size: 37
114696382 TAATTATGTA
114696392 AATATATATAATTTAATTATTAATTACTT-TTTTATTT
1 AATATATATAATTTAATTATTAATTA-TTATTTTATTT
* * *
114696429 AAGTATATAGATATTT-ATTATTTATTATTATTCTA-TT
1 AA-TATATATA-ATTTAATTATTAATTATTATTTTATTT
*
114696466 AA-AT-TATAATTTATATTATTAAATTATGATTATTATT
1 AATATATATAATTTA-ATTATT-AATTATTATT-TTATT
114696503 ATTAAAAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
33 4 0.07
34 3 0.05
35 8 0.14
36 8 0.14
37 10 0.17
38 22 0.37
39 4 0.07
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.57
Consensus pattern (37 bp):
AATATATATAATTTAATTATTAATTATTATTTTATTT
Found at i:114696485 original size:20 final size:20
Alignment explanation
Indices: 114696452--114696508 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
114696442 TTTATTATTT
114696452 ATTATTATTCTATTAAATTATA
1 ATTATTA-T-TATTAAATTATA
*
114696474 ATT-TATATTATTAAATTATG
1 ATTAT-TATTATTAAATTATA
114696494 ATTATTATTATTAAA
1 ATTATTATTATTAAA
114696509 AATAAGTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 24 0.75
21 3 0.09
22 5 0.16
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:114696491 original size:25 final size:26
Alignment explanation
Indices: 114696443--114696491 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
114696433 ATATAGATAT
* **
114696443 TTATTATTTATTATTATTCTATTAAA
1 TTATAATTTATTATTATTAAATTAAA
114696469 TTATAATTTA-TATTATTAAATTA
1 TTATAATTTATTATTATTAAATTA
114696492 TGATTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (26 bp):
TTATAATTTATTATTATTAAATTAAA
Found at i:114696779 original size:13 final size:14
Alignment explanation
Indices: 114696761--114696798 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
114696751 TTATAAAGTT
114696761 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
114696774 AATAAAAGAAATGA
1 AATAAAATAAAAGA
114696788 AATAAAATAAA
1 AATAAAATAAA
114696799 GTAAAGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:114697869 original size:12 final size:12
Alignment explanation
Indices: 114697852--114697876 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
114697842 GCCGACTACT
114697852 GTTACTGTTACC
1 GTTACTGTTACC
114697864 GTTACTGTTACC
1 GTTACTGTTACC
114697876 G
1 G
114697877 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:114697935 original size:45 final size:45
Alignment explanation
Indices: 114697854--114697959 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
114697844 CGACTACTGT
*
114697854 TACTGTTACCGTTACTGTTACCGATTCGACACTTTGTGTG-TCGAA
1 TACTGTTACCGTTACTGTTACAGATTCGACACTTTGTGTGCT-GAA
* *
114697899 TACTGTTACCGTTACTGTTACAGATTC-AGTATTTTGTGTGCTGAA
1 TACTGTTACCGTTACTGTTACAGATTCGA-CACTTTGTGTGCTGAA
* *
114697944 TATTGTTA-TGTTACTG
1 TACTGTTACCGTTACTG
114697960 CTACTGCTAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
44 8 0.15
45 45 0.83
46 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCGACACTTTGTGTGCTGAA
Done.