Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 154 of 228
Found at i:46311804 original size:44 final size:45
Alignment explanation
Indices: 46311693--46311900 Score: 190
Period size: 45 Copynumber: 4.7 Consensus size: 45
46311683 TCATGGCGAA
* * * ***
46311693 TCTTATCTCCCTAAAGTTGTAGTGGAACAGATT-AAGGCCACTAA-
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGATTAC-AAG
* * * *
46311737 TCTTACCCCGCCTGAAGTTGCAGTGGGGCAGGTTGAA-ATTACAAG
1 TCTTATCTC-CCTAAAGTTGCAGTGGAGCAGGTTGAAGATTACAAG
* * ** * * *
46311782 TCTTATCTCCTTAAAGTTGCAGTGGAACAGACTAAAGATAACAAA
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGATTACAAG
* *
46311827 CCTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTGAAGA-TACAAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGATTACAAG
*
46311871 TCTTATCTCCCTAAAGTTGCAGCGGAGCAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAG
46311901 ACTGAAAACA
Statistics
Matches: 127, Mismatches: 33, Indels: 8
0.76 0.20 0.05
Matches are distributed among these distances:
44 60 0.47
45 65 0.51
46 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (45 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGATTACAAG
Found at i:46311809 original size:89 final size:89
Alignment explanation
Indices: 46311693--46311903 Score: 255
Period size: 89 Copynumber: 2.4 Consensus size: 89
46311683 TCATGGCGAA
* * * * * * *
46311693 TCTTATCTCCCTAAAGTTGTAGTGGAACAGA-TTAAGGCCACTAATCTTACCCCGCCTGAAGTTG
1 TCTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAGACAACAAACCTTACCCC-CCTAAAGTTG
*
46311757 CAGTGGGGCAGGTTGAA-ATTACAAG
65 CAGTGGAGCAGGTTGAAGA-TACAAG
* * * *
46311782 TCTTATCTCCTTAAAGTTGCAGTGGAACAGACTAAAGATAACAAACCTTATCTCCCTAAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAGACAACAAACCTTACCCCCCTAAAGTTGC
*
46311847 AGTGGAGTAGGTTGAAGATACAAG
66 AGTGGAGCAGGTTGAAGATACAAG
* *
46311871 TCTTATCTCCCTAAAGTTGCAGCGGAGCAGACT
1 TCTTATCTCCCTAAAGTTGCAGTGGAACAGACT
46311904 GAAAACAGTG
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
89 89 0.86
90 15 0.14
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (89 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAACAGACTAAAGACAACAAACCTTACCCCCCTAAAGTTGC
AGTGGAGCAGGTTGAAGATACAAG
Found at i:46311958 original size:89 final size:89
Alignment explanation
Indices: 46311693--46311958 Score: 205
Period size: 89 Copynumber: 3.0 Consensus size: 89
46311683 TCATGGCGAA
* * * * * * * * * *
46311693 TCTTATCTCCCTAAAGTTGTAGTGGAACAGA-TTAAGGCCACTAATCTTACCCCGCCTGAAGTTG
1 TCTTATCTCCCTAAAGTTGCAGCGGAACAGACTAAAGACAACAAACCTTATCTC-CCTAAAGTTG
** * *
46311757 CAGTGGGGCAGGTTGAAA-TTACAAG
65 CAGTGGAACAGATT-AAAGATACAAG
* * *
46311782 TCTTATCTCCTTAAAGTTGCAGTGGAACAGACTAAAGATAACAAACCTTATCTCCCTAAAGTTGC
1 TCTTATCTCCCTAAAGTTGCAGCGGAACAGACTAAAGACAACAAACCTTATCTCCCTAAAGTTGC
** * *
46311847 AGTGGAGTAGGTTGAAGATACAAG
66 AGTGGAACAGATTAAAGATACAAG
* *** * * ***
46311871 TCTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAA-ACAGTGAATCTTATTTCCCTGGCGTTG
1 TCTTATCTCCCTAAAGTTGCAGCGGAACAGACT-AAAGACAACAAACCTTATCTCCCTAAAGTTG
*
46311935 CAGTGGAACAGATTAAAGCTACAA
65 CAGTGGAACAGATTAAAGATACAA
46311959 ATTATGGCAA
Statistics
Matches: 142, Mismatches: 32, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
88 2 0.01
89 123 0.87
90 17 0.12
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (89 bp):
TCTTATCTCCCTAAAGTTGCAGCGGAACAGACTAAAGACAACAAACCTTATCTCCCTAAAGTTGC
AGTGGAACAGATTAAAGATACAAG
Found at i:46312086 original size:143 final size:143
Alignment explanation
Indices: 46311823--46312416 Score: 768
Period size: 143 Copynumber: 4.2 Consensus size: 143
46311813 CTAAAGATAA
* * * * * ** * *
46311823 CAAACCTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTGAAGATACAAGTCTTATCTCCCTAAAGT
1 CAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGT
* * *
46311888 TGCAGCGGAGCAGACTGAAA-ACAGTGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAA
66 TGCAGCAGAGCAAACT-AAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAA
46311952 GCTACAAATTATGG
130 GCTACAAATTATGG
* * *
46311966 CAAATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGTCTTATCTCCCTGAAGT
1 CAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGT
* * *
46312031 TGCAGCAGAGCAGACTAAAGACAACGAATCTTATTTCCCTGGCGTTGTAGTGGAACAGATTAAAG
66 TGCAGCAGAGCAAACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAG
46312096 CTACAAATTATGG
131 CTACAAATTATGG
** *
46312109 CGGATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGT
1 CAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGT
* * * * *
46312174 TGCAGCGGAGCAAACTGAAGACAGCGAACCTTATTTCCCTGGTGTTGCAGTGGAATAGATTAAAG
66 TGCAGCAGAGCAAACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAG
46312239 CTACAAATTATGG
131 CTACAAATTATGG
* * * *
46312252 -AATATCTTATCTTCCTGAAGTTCCAGTGGAGTAGATTGAAGCCACCAACCTTATCTCCCTGAAG
1 CAA-ATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAG
* * ** * * *
46312316 TTGCAGCAGAGCAAACTAAAGATAGCGAGTCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAC
65 TTGCAGCAGAGCAAACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAA
*
46312381 GCTATAAA-T-T-G
130 GCTACAAATTATGG
*
46312392 CAGATCTTATC-TCTCTGAAGTTGCA
1 CAAATCTTATCTTC-CTGAAGTTGCA
46312417 ATAGAGCATA
Statistics
Matches: 398, Mismatches: 49, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
139 2 0.01
140 19 0.05
141 2 0.01
142 4 0.01
143 371 0.93
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (143 bp):
CAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGT
TGCAGCAGAGCAAACTAAAGACAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAG
CTACAAATTATGG
Found at i:46312209 original size:286 final size:286
Alignment explanation
Indices: 46311828--46312416 Score: 871
Period size: 286 Copynumber: 2.1 Consensus size: 286
46311818 GATAACAAAC
* * * *
46311828 CTTATCTCCCTAAAGTTGCAGTGGAGTAGGTTGAAGATACAAGTCTTATCTCCCTAAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
* * *
46311893 CGGAGCAGACTGAAAACAGTGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACA
66 CGGAGCAAACTGAAAACAGCGAACCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACA
** **
46311958 AATTATGGCAA-ATCTTATCTTCCTGAAGTTGTAGTGGAGCAGATTGAAGCCACCAGTCTTATCT
131 AATTATGG-AATATCTTATCTTCCTGAAGTTCCAGTGGAGCAGATTGAAGCCACCAACCTTATCT
* **
46312022 CCCTGAAGTTGCAGCAGAGCAGACTAAAGACAACGAATCTTATTTCCCTGGCGTTGTAGTGGAAC
195 CCCTGAAGTTGCAGCAGAGCAAACTAAAGACAACGAATCTTATTTCCCTGAAGTTGTAGTGGAAC
46312087 AGATTAAAGCTACAAATTATGGCGGAT
260 AGATTAAAGCTACAAATTATGGCGGAT
* * *
46312114 CTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTAAAGTTGCAG
1 CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
* * *
46312179 CGGAGCAAACTGAAGACAGCGAACCTTATTTCCCTGGTGTTGCAGTGGAATAGATTAAAGCTACA
66 CGGAGCAAACTGAAAACAGCGAACCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACA
*
46312244 AATTATGGAATATCTTATCTTCCTGAAGTTCCAGTGGAGTAGATTGAAGCCACCAACCTTATCTC
131 AATTATGGAATATCTTATCTTCCTGAAGTTCCAGTGGAGCAGATTGAAGCCACCAACCTTATCTC
* * *
46312309 CCTGAAGTTGCAGCAGAGCAAACTAAAGATAGCGAGTCTTATTTCCCTGAAGTTGTAGTGGAACA
196 CCTGAAGTTGCAGCAGAGCAAACTAAAGACAACGAATCTTATTTCCCTGAAGTTGTAGTGGAACA
* * * *
46312374 GATTGACGCTATAAA-T-T-GCAGAT
261 GATTAAAGCTACAAATTATGGCGGAT
* *
46312397 CTTATCTCTCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTGCA
46312417 ATAGAGCATA
Statistics
Matches: 271, Mismatches: 31, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
283 22 0.08
284 1 0.00
285 3 0.01
286 245 0.90
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (286 bp):
CTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGACACAAGCCTTATCTCCCTAAAGTTGCAG
CGGAGCAAACTGAAAACAGCGAACCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACA
AATTATGGAATATCTTATCTTCCTGAAGTTCCAGTGGAGCAGATTGAAGCCACCAACCTTATCTC
CCTGAAGTTGCAGCAGAGCAAACTAAAGACAACGAATCTTATTTCCCTGAAGTTGTAGTGGAACA
GATTAAAGCTACAAATTATGGCGGAT
Found at i:46312534 original size:45 final size:45
Alignment explanation
Indices: 46312478--46312685 Score: 215
Period size: 45 Copynumber: 4.7 Consensus size: 45
46312468 TCGAAGTTAT
*
46312478 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGACAGC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGC
* * *
46312523 TAGTCTTATCTCCCTCAAGTTGCAGTGGAGCAGACTGAAGATAGC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGC
* * * * *
46312568 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTGAAGCCA-C
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGC
* * * * * *
46312612 AAATCTAATCTCCCTGAA-TATGTAGTGGAGCAGATTGTAGA-TGC
1 AAGTCTTATCTCCCTGAAGT-TGCAGTGGAGCAGACTGAAGACAGC
* * * *
46312656 GAGTCTAATCTCCCTGAAGTTACAGAGGAG
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAG
46312686 TAGATCCAAA
Statistics
Matches: 136, Mismatches: 24, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
43 1 0.01
44 58 0.43
45 77 0.57
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACAGC
Found at i:46314316 original size:3 final size:3
Alignment explanation
Indices: 46314308--46314342 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
46314298 TAAACTTTAG
*
46314308 ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
46314343 CATCATCATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:46316219 original size:20 final size:22
Alignment explanation
Indices: 46316196--46316235 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
46316186 GGTGAGAACT
46316196 AAAA-GTTTAGGGAA-AAAATA
1 AAAATGTTTAGGGAATAAAATA
*
46316216 AAAATTTTTAGGGAATAAAA
1 AAAATGTTTAGGGAATAAAA
46316236 GTTTGAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.25
Consensus pattern (22 bp):
AAAATGTTTAGGGAATAAAATA
Found at i:46316700 original size:9 final size:9
Alignment explanation
Indices: 46316683--46316713 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
46316673 TCGAGTTGAT
46316683 TCGAATAAC
1 TCGAATAAC
*
46316692 TCGATTAAC
1 TCGAATAAC
46316701 TCGAATAAC
1 TCGAATAAC
46316710 TCGA
1 TCGA
46316714 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:46317563 original size:32 final size:29
Alignment explanation
Indices: 46317527--46317589 Score: 81
Period size: 32 Copynumber: 2.1 Consensus size: 29
46317517 TAAAAAATAT
46317527 ATATTTTTAATAATTTTTATAGTTTTTAAAAA
1 ATATTTTTAATAATTTTT-TA--TTTTAAAAA
* *
46317559 ATATTTTTTATAGTTTTTTATTTTAAAAA
1 ATATTTTTAATAATTTTTTATTTTAAAAA
46317588 AT
1 AT
46317590 TAATTAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 11 0.38
31 2 0.07
32 16 0.55
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (29 bp):
ATATTTTTAATAATTTTTTATTTTAAAAA
Found at i:46317999 original size:24 final size:23
Alignment explanation
Indices: 46317955--46318012 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 23
46317945 TTAAAATATA
*
46317955 ATTAAATGAAAATTTTATATTAAT
1 ATTAAAT-AAAATATTATATTAAT
*
46317979 ATTAAATAAAATAATTGTATTAAT
1 ATTAAATAAAAT-ATTATATTAAT
46318003 ATTAAATAAA
1 ATTAAATAAA
46318013 TAAATAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 5 0.16
24 26 0.84
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (23 bp):
ATTAAATAAAATATTATATTAAT
Found at i:46321598 original size:6 final size:6
Alignment explanation
Indices: 46321587--46321611 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
46321577 AGTTTTCTTC
46321587 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
46321612 CCTAGAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:46324109 original size:92 final size:92
Alignment explanation
Indices: 46323952--46324131 Score: 263
Period size: 92 Copynumber: 2.0 Consensus size: 92
46323942 AGAAAGCAGG
* * *
46323952 GAGAAAAGATAGAGGGAATTGAGAATAGGAGAGAATAAAGAAGAAAGTTGTATTAAGAAAAATTG
1 GAGAAAAGATAGAAGGAATTGAGAAGAGGAGAGAATAAAGAAGAAAGTTGTATTAACAAAAATTG
* *
46324017 ATAGTTGTTTCCTCTCTCAACAGTAGA
66 ATAATTGTTTCCCCTCTCAACAGTAGA
* * * *
46324044 GAGAAAAGATATAAGGAATTGAGAAGAGGAGAGAATAATGAAGGAAA-TTGTATTAACCACAATT
1 GAGAAAAGATAGAAGGAATTGAGAAGAGGAGAGAATAAAGAA-GAAAGTTGTATTAACAAAAATT
46324108 GATAATTGTTTCCCCTCTCAACAG
65 GATAATTGTTTCCCCTCTCAACAG
46324132 CAGGTTAAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 74 0.95
93 4 0.05
ACGTcount: A:0.44, C:0.09, G:0.23, T:0.24
Consensus pattern (92 bp):
GAGAAAAGATAGAAGGAATTGAGAAGAGGAGAGAATAAAGAAGAAAGTTGTATTAACAAAAATTG
ATAATTGTTTCCCCTCTCAACAGTAGA
Found at i:46326172 original size:21 final size:21
Alignment explanation
Indices: 46326148--46326197 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
46326138 TTTGGAATAG
46326148 GTTAAAAAGAATCTCTGGTAA
1 GTTAAAAAGAATCTCTGGTAA
46326169 GTTAAAAAGAATCTCTGGTAA
1 GTTAAAAAGAATCTCTGGTAA
*
46326190 GTCAAAAA
1 GTTAAAAA
46326198 AACATGGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (21 bp):
GTTAAAAAGAATCTCTGGTAA
Found at i:46326748 original size:22 final size:21
Alignment explanation
Indices: 46326723--46326768 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
46326713 ACTTTTTAAG
46326723 TTTT-TTATTTGTCCTTTATTTA
1 TTTTATTATTTGT--TTTATTTA
46326745 TTTTACTTATTTGTTTTATTTA
1 TTTTA-TTATTTGTTTTATTTA
46326767 TT
1 TT
46326769 GGTTTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 14 0.64
24 8 0.36
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (21 bp):
TTTTATTATTTGTTTTATTTA
Found at i:46330218 original size:29 final size:30
Alignment explanation
Indices: 46330185--46330286 Score: 127
Period size: 30 Copynumber: 3.4 Consensus size: 30
46330175 CCTATGGCCA
*
46330185 GGTGATATGAACTTGAATCGCCCATGT-TG
1 GGTGATATGAACTCGAATCGCCCATGTCTG
* * **
46330214 GGTGATATGAACTCAAATCGCCAATGTCCA
1 GGTGATATGAACTCGAATCGCCCATGTCTG
*
46330244 GGTGATATGAACTCGTA-CTGCCCATGTCTG
1 GGTGATATGAACTCGAATC-GCCCATGTCTG
46330274 GGTGATATGAACT
1 GGTGATATGAACT
46330287 GCTCTGCGAC
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
29 25 0.41
30 36 0.59
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (30 bp):
GGTGATATGAACTCGAATCGCCCATGTCTG
Found at i:46330245 original size:59 final size:60
Alignment explanation
Indices: 46330151--46330286 Score: 186
Period size: 59 Copynumber: 2.3 Consensus size: 60
46330141 CGGTTGTTGC
* * * *
46330151 TCTGGGTGAAATAAACTCAAACCGCCTATGGCCAGGTGATATGAACTTGAA-TCGCCCATG
1 TCTGGGTGATATGAACTCAAACCGCCAATGGCCAGGTGATATGAACTCGAACT-GCCCATG
* * *
46330211 T-TGGGTGATATGAACTCAAATCGCCAATGTCCAGGTGATATGAACTCGTACTGCCCATG
1 TCTGGGTGATATGAACTCAAACCGCCAATGGCCAGGTGATATGAACTCGAACTGCCCATG
46330270 TCTGGGTGATATGAACT
1 TCTGGGTGATATGAACT
46330287 GCTCTGCGAC
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
59 50 0.75
60 17 0.25
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (60 bp):
TCTGGGTGATATGAACTCAAACCGCCAATGGCCAGGTGATATGAACTCGAACTGCCCATG
Found at i:46330271 original size:30 final size:30
Alignment explanation
Indices: 46330155--46330286 Score: 115
Period size: 30 Copynumber: 4.4 Consensus size: 30
46330145 TGTTGCTCTG
* * * * * *
46330155 GGTGAAATAAACTCAAACCGCCTATGGCCA
1 GGTGATATGAACTCGAATCGCCCATGTCCA
* **
46330185 GGTGATATGAACTTGAATCGCCCATGT-TG
1 GGTGATATGAACTCGAATCGCCCATGTCCA
* *
46330214 GGTGATATGAACTCAAATCGCCAATGTCCA
1 GGTGATATGAACTCGAATCGCCCATGTCCA
* **
46330244 GGTGATATGAACTCGTA-CTGCCCATGTCTG
1 GGTGATATGAACTCGAATC-GCCCATGTCCA
46330274 GGTGATATGAACT
1 GGTGATATGAACT
46330287 GCTCTGCGAC
Statistics
Matches: 81, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
29 25 0.31
30 56 0.69
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (30 bp):
GGTGATATGAACTCGAATCGCCCATGTCCA
Found at i:46332924 original size:21 final size:22
Alignment explanation
Indices: 46332898--46332952 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
46332888 TGACTAGTTA
46332898 TAATATATATTTTTTA-TTTTC
1 TAATATATATTTTTTACTTTTC
* *
46332919 TAATATA-AATTTTTACTTTTT
1 TAATATATATTTTTTACTTTTC
46332940 TAATATATATTTT
1 TAATATATATTTT
46332953 AAAAAGCCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.24
21 18 0.62
22 4 0.14
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (22 bp):
TAATATATATTTTTTACTTTTC
Found at i:46333146 original size:21 final size:20
Alignment explanation
Indices: 46333122--46333165 Score: 61
Period size: 22 Copynumber: 2.1 Consensus size: 20
46333112 TAAAATTAAA
*
46333122 TAAATATATATTTAAAAATTT
1 TAAATATACATTT-AAAATTT
46333143 TAAAATATACATTTAAAATTT
1 T-AAATATACATTTAAAATTT
46333164 TA
1 TA
46333166 TAAAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 9 0.43
22 11 0.52
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAATATACATTTAAAATTT
Found at i:46333257 original size:18 final size:19
Alignment explanation
Indices: 46333229--46333275 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
46333219 TTTTATATTA
46333229 TTAAAAAATATTT-AAA-T
1 TTAAAAAATATTTAAAATT
46333246 TTAAAAATATATTTAAAATT
1 TTAAAAA-ATATTTAAAATT
46333266 TTAAAAAATA
1 TTAAAAAATA
46333276 ATATTATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.26
18 6 0.22
19 6 0.22
20 8 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAAAAAATATTTAAAATT
Found at i:46333413 original size:25 final size:26
Alignment explanation
Indices: 46333353--46333414 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
46333343 TAAATAAAGG
46333353 AAAAATAAAAAACTTAAAAAGTAAATA
1 AAAAAT-AAAAACTTAAAAAGTAAATA
* *
46333380 AATAA-AAAAACTTAAAACG-AAA-A
1 AAAAATAAAAACTTAAAAAGTAAATA
46333403 AAAAATGAAAAA
1 AAAAAT-AAAAA
46333415 GGACAAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 5 0.17
24 3 0.10
25 18 0.60
27 4 0.13
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.15
Consensus pattern (26 bp):
AAAAATAAAAACTTAAAAAGTAAATA
Found at i:46338547 original size:35 final size:34
Alignment explanation
Indices: 46338506--46338571 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 34
46338496 ATGTATATAT
*
46338506 ATGTATATGTTATAATAATAAATAA-AATGAATCTA
1 ATGTATATATTATAAT-AT-AATAATAATGAATCTA
46338541 ATGTATATATTATAATATAATAATAATGAAT
1 ATGTATATATTATAATATAATAATAATGAAT
46338572 GAAATTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 5 0.17
34 9 0.31
35 15 0.52
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.39
Consensus pattern (34 bp):
ATGTATATATTATAATATAATAATAATGAATCTA
Found at i:46339803 original size:19 final size:20
Alignment explanation
Indices: 46339774--46339817 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
46339764 CAAATATTAA
46339774 AAATG-AATATGAGA-TGA-G
1 AAATGAAATATGA-ATTGATG
46339792 AAATGAAATATGAATTGATG
1 AAATGAAATATGAATTGATG
46339812 AAATGA
1 AAATGA
46339818 GATGTGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.26
19 10 0.43
20 7 0.30
ACGTcount: A:0.52, C:0.00, G:0.23, T:0.25
Consensus pattern (20 bp):
AAATGAAATATGAATTGATG
Found at i:46345729 original size:26 final size:28
Alignment explanation
Indices: 46345687--46345739 Score: 74
Period size: 26 Copynumber: 1.9 Consensus size: 28
46345677 CCAACATGGC
46345687 TCACAAAGGAGCACGCAT-GGAGTTTTA
1 TCACAAAGGAGCACGCATAGGAGTTTTA
*
46345714 TCACAAA-GAGCTCGCATAAGGAGTTT
1 TCACAAAGGAGCACGCAT-AGGAGTTT
46345740 ACTTATCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 9 0.39
27 7 0.30
28 7 0.30
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (28 bp):
TCACAAAGGAGCACGCATAGGAGTTTTA
Found at i:46356133 original size:27 final size:27
Alignment explanation
Indices: 46356098--46356175 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
46356088 GAATATAAAG
46356098 GGGGTTGCTAAGTGATGATTCCCCAAA
1 GGGGTTGCTAAGTGATGATTCCCCAAA
* *
46356125 GGGGTTGCTAAGTGCTGATTCCCCCAA
1 GGGGTTGCTAAGTGATGATTCCCCAAA
*
46356152 GGGGTTGCTAAGTGTTGATTCCCC
1 GGGGTTGCTAAGTGATGATTCCCC
46356176 GATTCATTGG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (27 bp):
GGGGTTGCTAAGTGATGATTCCCCAAA
Found at i:46356191 original size:33 final size:33
Alignment explanation
Indices: 46356127--46356450 Score: 152
Period size: 33 Copynumber: 9.4 Consensus size: 33
46356117 TCCCCAAAGG
*
46356127 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
46356154 GGTTGCTAAGTGTTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
46356187 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
*
46356229 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
46356262 GGTTGCTAAGTGCTGATTCTACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTC-CCCG-A--TT-CAT-T---GGT
*
46356304 GGTTGCTAAGTACTGATTTCCCCG----A--GG-
1 GGTTGCTAAGTGCTGA-TTCCCCGATTCATTGGT
* *
46356331 GGTTGCTAAGTGCTGTTTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * * *
46356364 GGTTGCTAAATGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
*
46356406 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
46356439 AGTTGCTAAGTG
1 GGTTGCTAAGTG
46356451 TTGAATCCAC
Statistics
Matches: 228, Mismatches: 28, Indels: 76
0.69 0.08 0.23
Matches are distributed among these distances:
26 7 0.03
27 35 0.15
28 2 0.01
30 1 0.00
31 2 0.01
32 4 0.02
33 68 0.30
34 10 0.04
35 3 0.01
36 4 0.02
37 8 0.04
38 8 0.04
39 5 0.02
40 2 0.01
41 6 0.03
42 60 0.26
43 3 0.01
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:46356246 original size:42 final size:41
Alignment explanation
Indices: 46356187--46356321 Score: 160
Period size: 42 Copynumber: 3.4 Consensus size: 41
46356177 ATTCATTGGT
46356187 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG-AAGG
* *
46356229 GGTTGCTAAGTGCTGATTCC-CCG-A-C-T-CAT-TG--GT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
*
46356262 GGTTGCTAAGTGCTGATTCTACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAA-GG
*
46356304 GGTTGCTAAGTACTGATT
1 GGTTGCTAAGTGCTGATT
46356322 TCCCCGAGGG
Statistics
Matches: 78, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
33 20 0.26
34 3 0.04
35 1 0.01
36 3 0.04
37 3 0.04
38 3 0.04
39 3 0.04
40 1 0.01
41 3 0.04
42 38 0.49
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.33
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
Found at i:46356273 original size:75 final size:75
Alignment explanation
Indices: 46356150--46356328 Score: 304
Period size: 75 Copynumber: 2.4 Consensus size: 75
46356140 TGATTCCCCC
* *
46356150 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
46356215 TTAAATGTGA
66 TTAAATGTGA
*
46356225 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCTACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
46356290 TTAAATGTGA
66 TTAAATGTGA
* *
46356300 AGGGGGTTGCTAAGTACTGATTTCCCCGA
1 AAGGGGTTGCTAAGTGCTGA-TTCCCCGA
46356329 GGGGTTGCTA
Statistics
Matches: 98, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
75 90 0.92
76 8 0.08
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.33
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:46356332 original size:102 final size:101
Alignment explanation
Indices: 46356226--46356429 Score: 336
Period size: 102 Copynumber: 2.0 Consensus size: 101
46356216 TAAATGTGAA
* * * *
46356226 AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCTACCGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAATGCTGATCCCACCGTATCT
*
46356291 TAAATGTGAAGGGGGTTGCTAAGTACTGATTTCCCCG
66 TAAATGTGAAAGGGGTTGCTAAGTACTGA-TTCCCCG
*
46356328 AGGGGTTGCTAAGTGCTGTTTCCCCGAATCATTGGTGGTTGCTAAATGCTGATCCCACCGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAATGCTGATCCCACCGTATCT
*
46356393 TAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
66 TAAATGTGAAAGGGGTTGCTAAGTACTGATTCCCCG
46356429 A
1 A
46356430 CTCATTGGTA
Statistics
Matches: 95, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
101 8 0.08
102 87 0.92
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (101 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAATGCTGATCCCACCGTATCT
TAAATGTGAAAGGGGTTGCTAAGTACTGATTCCCCG
Found at i:46356339 original size:27 final size:26
Alignment explanation
Indices: 46356302--46356354 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 26
46356292 AAATGTGAAG
46356302 GGGGTTGCTAAGTACTGATTTCCCCGA
1 GGGGTTGCTAAGTACTG-TTTCCCCGA
*
46356329 GGGGTTGCTAAGTGCTGTTTCCCCGA
1 GGGGTTGCTAAGTACTGTTTCCCCGA
46356355 ATCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 9 0.36
27 16 0.64
ACGTcount: A:0.15, C:0.23, G:0.32, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTACTGTTTCCCCGA
Found at i:46356421 original size:177 final size:177
Alignment explanation
Indices: 46356125--46356450 Score: 571
Period size: 177 Copynumber: 1.8 Consensus size: 177
46356115 ATTCCCCAAA
* * *
46356125 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGT
1 GGGGTTGCTAAGTACTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGT
* *
46356190 TGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGACT
66 TGCTAAATGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGACT
*
46356255 CATTGGTGGTTGCTAAGTGCTGATTCTACCGTATCTTAAATGTGAAG
131 CATTGGTAGTTGCTAAGTGCTGATTCTACCGTATCTTAAATGTGAAG
* * *
46356302 GGGGTTGCTAAGTACTGATTTCCCCGAGGGGTTGCTAAGTGCTGTTTCCCCGAATCATTGGTGGT
1 GGGGTTGCTAAGTACTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGT
46356367 TGCTAAATGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGACT
66 TGCTAAATGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGACT
46356432 CATTGGTAGTTGCTAAGTG
131 CATTGGTAGTTGCTAAGTG
46356451 TTGAATCCAC
Statistics
Matches: 140, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
177 140 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (177 bp):
GGGGTTGCTAAGTACTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGT
TGCTAAATGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGACT
CATTGGTAGTTGCTAAGTGCTGATTCTACCGTATCTTAAATGTGAAG
Found at i:46358639 original size:25 final size:26
Alignment explanation
Indices: 46358579--46358643 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 26
46358569 TAATTATATT
*
46358579 TTTATTTAATTTAATTTAAATAAAAA
1 TTTATTTAATTTAACTTAAATAAAAA
46358605 TTACTCATTTAATTTAACTTAAATAAAAA
1 TT--T-ATTTAATTTAACTTAAATAAAAA
46358634 -TTATTTAATT
1 TTTATTTAATT
46358644 ATATATTATC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
25 8 0.23
26 3 0.09
28 2 0.06
29 22 0.63
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTATTTAATTTAACTTAAATAAAAA
Found at i:46366580 original size:75 final size:76
Alignment explanation
Indices: 46366439--46366607 Score: 243
Period size: 75 Copynumber: 2.2 Consensus size: 76
46366429 AAAGGTTGAT
** *
46366439 AATTTAAATGAAATGAGAAAAAAATTTGTTTGAAATGAAATGGTACAAAATTTAAATGAAAATTG
1 AATTTAAATGAAATGAGAAAAAAATTTCATTGAAATGAAATGGTACAAAAATTAAATGAAAATTG
46366504 AAAGAAAGATA
66 AAAGAAAGATA
* * * * *
46366515 AATTTAAATGAAATGAGTAAAAATTTTCATTGAAATGAAATGAG-A-AAAAATTAAATTATATTT
1 AATTTAAATGAAATGAGAAAAAAATTTCATTGAAATGAAATG-GTACAAAAATTAAATGAAAATT
46366578 GAAAGAAAGATA
65 GAAAGAAAGATA
46366590 AATTTAAATGAAATGAGA
1 AATTTAAATGAAATGAGA
46366608 GGCACTTTTA
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
75 43 0.52
76 39 0.47
77 1 0.01
ACGTcount: A:0.55, C:0.01, G:0.15, T:0.29
Consensus pattern (76 bp):
AATTTAAATGAAATGAGAAAAAAATTTCATTGAAATGAAATGGTACAAAAATTAAATGAAAATTG
AAAGAAAGATA
Found at i:46366631 original size:75 final size:75
Alignment explanation
Indices: 46366439--46366639 Score: 226
Period size: 75 Copynumber: 2.7 Consensus size: 75
46366429 AAAGGTTGAT
* * ** * * * * *
46366439 AATTTAAATGAAATGAGAAAAAAATTTGTTTGAAATGAAATG-GTACAAAATTTAAATGAAAATT
1 AATTTAAATGAAATGAGTAAAAATTTTAATTGAAATAAAATGAG-A-AAAAATTAAATTATATTT
46366503 GAAAGAAAGATA
64 GAAAGAAAGATA
* *
46366515 AATTTAAATGAAATGAGTAAAAATTTTCATTGAAATGAAATGAGAAAAAATTAAATTATATTTGA
1 AATTTAAATGAAATGAGTAAAAATTTTAATTGAAATAAAATGAGAAAAAATTAAATTATATTTGA
46366580 AAGAAAGATA
66 AAGAAAGATA
** * *
46366590 AATTTAAATGAAATGAG-AGGCACTTTTAATTTAAATAAAATGAGAAAAAA
1 AATTTAAATGAAATGAGTA-AAAATTTTAATTGAAATAAAATGAGAAAAAA
46366640 ATTTAATGGA
Statistics
Matches: 109, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
74 1 0.01
75 68 0.62
76 39 0.36
77 1 0.01
ACGTcount: A:0.55, C:0.02, G:0.14, T:0.29
Consensus pattern (75 bp):
AATTTAAATGAAATGAGTAAAAATTTTAATTGAAATAAAATGAGAAAAAATTAAATTATATTTGA
AAGAAAGATA
Found at i:46366815 original size:19 final size:19
Alignment explanation
Indices: 46366776--46366816 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
46366766 TGAATTGAGA
*
46366776 AAAAAATAAATTTAAATTG
1 AAAAAATAAATTTAAAGTG
46366795 AAAAAATATAATTT-AAGTG
1 AAAAAATA-AATTTAAAGTG
46366814 AAA
1 AAA
46366817 TGGAATTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (19 bp):
AAAAAATAAATTTAAAGTG
Found at i:46366835 original size:12 final size:12
Alignment explanation
Indices: 46366812--46366841 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
46366802 ATAATTTAAG
46366812 TGAAAT-GGAAT
1 TGAAATGGGAAT
46366823 TGAAATGGGAAT
1 TGAAATGGGAAT
46366835 TGAAATG
1 TGAAATG
46366842 AAATTGGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (12 bp):
TGAAATGGGAAT
Found at i:46366845 original size:5 final size:5
Alignment explanation
Indices: 46366812--46366890 Score: 50
Period size: 5 Copynumber: 14.6 Consensus size: 5
46366802 ATAATTTAAG
* * * *
46366812 TGAAA TGGAAT TGAAA TGGGAAT TGAAA TGAAA TTGGAA TGAAA TAAAA
1 TGAAA T-GAAA TGAAA T--GAAA TGAAA TGAAA -TGAAA TGAAA TGAAA
* *
46366861 TTAAAA TGAAA TGAAAA TGAAA AGAAA TGA
1 -TGAAA TGAAA TG-AAA TGAAA TGAAA TGA
46366891 CTAATCTGTA
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
5 36 0.62
6 18 0.31
7 4 0.07
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.23
Consensus pattern (5 bp):
TGAAA
Found at i:46366853 original size:11 final size:11
Alignment explanation
Indices: 46366812--46366888 Score: 66
Period size: 11 Copynumber: 7.0 Consensus size: 11
46366802 ATAATTTAAG
*
46366812 TGAAATGGAAT
1 TGAAATGAAAT
*
46366823 TGAAATGGGAAT
1 TGAAAT-GAAAT
46366835 TGAAATGAAAT
1 TGAAATGAAAT
*
46366846 TGGAATGAAA-
1 TGAAATGAAAT
* * *
46366856 TAAAATTAAAA
1 TGAAATGAAAT
*
46366867 TGAAATGAAAA
1 TGAAATGAAAT
*
46366878 TGAAAAGAAAT
1 TGAAATGAAAT
46366889 GACTAATCTG
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
10 7 0.13
11 37 0.67
12 11 0.20
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.23
Consensus pattern (11 bp):
TGAAATGAAAT
Found at i:46366856 original size:16 final size:16
Alignment explanation
Indices: 46366812--46366890 Score: 68
Period size: 16 Copynumber: 4.8 Consensus size: 16
46366802 ATAATTTAAG
*
46366812 TGAAATGGAATTGAAAT
1 TGAAAT-GAAATGAAAT
* *
46366829 GGGAATTGAAATGAAAT
1 -TGAAATGAAATGAAAT
* *
46366846 TGGAATGAAATAAAAT
1 TGAAATGAAATGAAAT
* *
46366862 TAAAATGAAATGAAAA
1 TGAAATGAAATGAAAT
*
46366878 TGAAAAGAAATGA
1 TGAAATGAAATGA
46366891 CTAATCTGTA
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
16 35 0.73
17 9 0.19
18 4 0.08
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.23
Consensus pattern (16 bp):
TGAAATGAAATGAAAT
Found at i:46368878 original size:54 final size:53
Alignment explanation
Indices: 46368820--46369101 Score: 279
Period size: 53 Copynumber: 5.3 Consensus size: 53
46368810 CTCTGGTGCC
* ***** * *
46368820 GGCCATTGACAGGCCAGCACTAAATTTTTTTAATTTTTTTGGGTACTTGGTGGT
1 GGCCATTGACAGGCCAACACTAAAAAAAATTGATTTTTTT-TGTACTTGGTGGT
* * *
46368874 GGCCATTGATAGGCTAACAC-AAAAAAAAGTTGATTTTTTTTATACTTGGTGGT
1 GGCCATTGACAGGCCAACACTAAAAAAAA-TTGATTTTTTTTGTACTTGGTGGT
* *
46368927 GGCCATTGACAGGCTAACA-TAAAAAAAATTGATTTTTTTTTGTACTTGATGGT
1 GGCCATTGACAGGCCAACACTAAAAAAAATTGA-TTTTTTTTGTACTTGGTGGT
* * * *
46368980 GGCCATTGACAGGTCAGCA-TCAAAAAAATGTGATTTATTTTTGTACATGGTGGT
1 GGCCATTGACAGGCCAACACTAAAAAAAAT-TGATTT-TTTTTGTACTTGGTGGT
* **
46369034 AGATATTGACAGGCCAACA-TACAAAAAAAATTGA-TTTTTTT-TACTTGGTGGT
1 GGCCATTGACAGGCCAACACT--AAAAAAAATTGATTTTTTTTGTACTTGGTGGT
46369086 GGCCATTGACAGGCCA
1 GGCCATTGACAGGCCA
46369102 GCATCAATTT
Statistics
Matches: 191, Mismatches: 30, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
52 27 0.14
53 91 0.48
54 62 0.32
55 3 0.02
56 8 0.04
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (53 bp):
GGCCATTGACAGGCCAACACTAAAAAAAATTGATTTTTTTTGTACTTGGTGGT
Found at i:46368926 original size:53 final size:52
Alignment explanation
Indices: 46368852--46369099 Score: 288
Period size: 53 Copynumber: 4.7 Consensus size: 52
46368842 AATTTTTTTA
* *
46368852 ATTTTTTTGGGTACTTGGTGGTGGCCATTGATAGGCTAACACAAAAAAAAGTTG
1 ATTTTTTT-TGTACTTGGTGGTGGCCATTGACAGGCTAACACAAAAAAAA-TTG
* *
46368906 ATTTTTTTTATACTTGGTGGTGGCCATTGACAGGCTAACATAAAAAAAATTG
1 ATTTTTTTTGTACTTGGTGGTGGCCATTGACAGGCTAACACAAAAAAAATTG
* *
46368958 ATTTTTTTTTGTACTTGATGGTGGCCATTGACAGG-TCAGCATC-AAAAAAATGTG
1 A-TTTTTTTTGTACTTGGTGGTGGCCATTGACAGGCT-AACA-CAAAAAAAAT-TG
* * ** *
46369012 ATTTATTTTTGTACATGGTGGTAGATATTGACAGGCCAACATACAAAAAAAATTG
1 ATTT-TTTTTGTACTTGGTGGTGGCCATTGACAGGCTAAC--ACAAAAAAAATTG
46369067 A-TTTTTTT-TACTTGGTGGTGGCCATTGACAGGC
1 ATTTTTTTTGTACTTGGTGGTGGCCATTGACAGGC
46369100 CAGCATCAAT
Statistics
Matches: 166, Mismatches: 19, Indels: 20
0.81 0.09 0.10
Matches are distributed among these distances:
52 26 0.16
53 87 0.52
54 40 0.24
55 4 0.02
56 9 0.05
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (52 bp):
ATTTTTTTTGTACTTGGTGGTGGCCATTGACAGGCTAACACAAAAAAAATTG
Found at i:46369005 original size:106 final size:107
Alignment explanation
Indices: 46368852--46369108 Score: 319
Period size: 106 Copynumber: 2.4 Consensus size: 107
46368842 AATTTTTTTA
** * * *
46368852 ATTTTTTTGGGTACTTGGTGGTGGCCATTGATAGGCTAACA-CAAAAAAAAGTTGATTT-TTTTT
1 ATTTTTTTTTGTACTTGGTGGTGGCCATTGACAGGC-AGCATCAAAAAAATG-TGATTTATTTTT
* * * *
46368915 ATACTTGGTGGTGGCCATTGACAGGCTAACAT-AAAAAAAATTG
64 ATACATGGTGGTAGACATTGACAGGCCAACATAAAAAAAAATTG
* *
46368958 ATTTTTTTTTGTACTTGATGGTGGCCATTGACAGGTCAGCATCAAAAAAATGTGATTTATTTTTG
1 ATTTTTTTTTGTACTTGGTGGTGGCCATTGACAGG-CAGCATCAAAAAAATGTGATTTATTTTTA
*
46369023 TACATGGTGGTAGATATTGACAGGCCAACATACAAAAAAAATTG
65 TACATGGTGGTAGACATTGACAGGCCAACATA-AAAAAAAATTG
46369067 A--TTTTTTT-TACTTGGTGGTGGCCATTGACAGGCCAGCATCAA
1 ATTTTTTTTTGTACTTGGTGGTGGCCATTGACAGG-CAGCATCAA
46369109 TTTTTTTTAA
Statistics
Matches: 132, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
106 72 0.55
107 48 0.36
109 12 0.09
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (107 bp):
ATTTTTTTTTGTACTTGGTGGTGGCCATTGACAGGCAGCATCAAAAAAATGTGATTTATTTTTAT
ACATGGTGGTAGACATTGACAGGCCAACATAAAAAAAAATTG
Found at i:46385800 original size:23 final size:22
Alignment explanation
Indices: 46385774--46385819 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
46385764 ATATGCTCTT
46385774 TTATTTTTAATTTTATATAAAAA
1 TTATTTTTAATTTTATA-AAAAA
*
46385797 TTATTTTTAATTTTTTAAAAAA
1 TTATTTTTAATTTTATAAAAAA
46385819 T
1 T
46385820 AAAATCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATTTTTAATTTTATAAAAAA
Found at i:46389254 original size:31 final size:31
Alignment explanation
Indices: 46389213--46389276 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
46389203 AAAAATTATC
*
46389213 ATATATTTTTTCTAAAAATAGTGTACCATAT
1 ATATACTTTTTCTAAAAATAGTGTACCATAT
46389244 ATATACTTTTTCTAAAAATAGTGTACCATAT
1 ATATACTTTTTCTAAAAATAGTGTACCATAT
46389275 AT
1 AT
46389277 TTTACGTGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (31 bp):
ATATACTTTTTCTAAAAATAGTGTACCATAT
Found at i:46389836 original size:9 final size:9
Alignment explanation
Indices: 46389801--46389853 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
46389791 TTACACTTTT
46389801 AAAATT-TA
1 AAAATTATA
46389809 AAAA-TATTA
1 AAAATTA-TA
*
46389818 AAAATCATA
1 AAAATTATA
46389827 AAAATTATAA
1 AAAATTAT-A
46389837 ACAAATTATA
1 A-AAATTATA
46389847 AAAATTA
1 AAAATTA
46389854 ATTTTTTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
7 1 0.03
8 4 0.11
9 21 0.55
10 5 0.13
11 7 0.18
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAATTATA
Found at i:46389847 original size:20 final size:19
Alignment explanation
Indices: 46389801--46389853 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
46389791 TTACACTTTT
*
46389801 AAAATT-TAAAAA-TATTA
1 AAAATTATAAAAATTATAA
*
46389818 AAAATCATAAAAATTATAA
1 AAAATTATAAAAATTATAA
46389837 ACAAATTATAAAAATTA
1 A-AAATTATAAAAATTA
46389854 ATTTTTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.17
18 6 0.20
19 5 0.17
20 14 0.47
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATTATAAAAATTATAA
Found at i:46389996 original size:21 final size:22
Alignment explanation
Indices: 46389972--46390017 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
46389962 ATAAAAAATT
*
46389972 TTAATTCTA-AATTTT-TAACAA
1 TTAATT-TATAATTTTCTAAAAA
46389993 TTAATTTATAATTTTCTAAAAA
1 TTAATTTATAATTTTCTAAAAA
46390015 TTA
1 TTA
46390018 TGAGAGCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 2 0.09
21 12 0.55
22 8 0.36
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAATTTATAATTTTCTAAAAA
Found at i:46416802 original size:20 final size:19
Alignment explanation
Indices: 46416779--46416925 Score: 73
Period size: 20 Copynumber: 7.4 Consensus size: 19
46416769 ATGCACATTA
46416779 GTGCCCCTGTTTGCACTTT
1 GTGCCCCTGTTTGCACTTT
* ***
46416798 GGTGCCCTTAAATGCACATTT
1 -GTGCCCCTGTTTGCAC-TTT
* ****
46416819 GTGCCACTGAACACACATTT
1 GTGCCCCTGTTTGCAC-TTT
*
46416839 GTGCCCCTGTTCGCACTTT
1 GTGCCCCTGTTTGCACTTT
* * * *
46416858 GGTACCTCTGTATACACTTT
1 -GTGCCCCTGTTTGCACTTT
46416878 AGTGTCCCC-GTTTGCACGTTT
1 -GTG-CCCCTGTTTGCAC-TTT
*
46416899 GTG-CCCTGTTCGCACTTT
1 GTGCCCCTGTTTGCACTTT
46416917 AGTGCCCCT
1 -GTGCCCCT
46416926 ATTCTGTATA
Statistics
Matches: 96, Mismatches: 24, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
18 6 0.06
19 13 0.14
20 68 0.71
21 9 0.09
ACGTcount: A:0.14, C:0.31, G:0.20, T:0.35
Consensus pattern (19 bp):
GTGCCCCTGTTTGCACTTT
Found at i:46419044 original size:42 final size:42
Alignment explanation
Indices: 46418940--46419053 Score: 117
Period size: 42 Copynumber: 2.7 Consensus size: 42
46418930 TTGAGATTTG
* * *
46418940 CATGTAAGACCATGTCTGAGACATTGGCATCATATATGATTA
1 CATGTAAGACCACGTCTGGGACAGTGGCATCATATATGATTA
* * *
46418982 CATGTAAGACC-CTGTTTGGGACAGTGGCATCGT-TGTTGATTA
1 CATGTAAGACCAC-GTCTGGGACAGTGGCATCATAT-ATGATTA
*
46419024 CTTGTAAGACCACGTCTGGGAC-GTTGGCAT
1 CATGTAAGACCACGTCTGGGACAG-TGGCAT
46419054 TGTACGAGCT
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
41 2 0.03
42 57 0.95
43 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
CATGTAAGACCACGTCTGGGACAGTGGCATCATATATGATTA
Found at i:46425067 original size:8 final size:8
Alignment explanation
Indices: 46425054--46425078 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
46425044 TTTTTAATGA
46425054 TATTTTAT
1 TATTTTAT
46425062 TATTTTAT
1 TATTTTAT
46425070 TATTTTAT
1 TATTTTAT
46425078 T
1 T
46425079 TAGCATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:46431993 original size:44 final size:44
Alignment explanation
Indices: 46431922--46432063 Score: 214
Period size: 44 Copynumber: 3.2 Consensus size: 44
46431912 TATGTGATAT
* * *
46431922 CGTGTAAGACCACGTCTAGGACATTGGCATC-ATATTGAAATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-ATTGAGATTTA
* *
46431966 CGTGTAAGATCACGTCTGGGACGTTGGCATCGAATTTAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGAGATTTA
46432010 CGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGAGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGAGATTTA
*
46432054 TGTGTAAGAC
1 CGTGTAAGAC
46432064 TCTGTCTGGG
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
44 88 0.99
45 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGAATTGAGATTTA
Found at i:46434516 original size:99 final size:98
Alignment explanation
Indices: 46434371--46434656 Score: 324
Period size: 99 Copynumber: 2.8 Consensus size: 98
46434361 ACAACCAAGG
* * **
46434371 TGGTGGAGCCATTCTTTATGGCTCCACCAAAATAAAATATCA-TTTTTAAAATTTTTGGATTAAA
1 TGGTGGCGCCATTCTTTATGGCTCCACC-AAATAAAATATTATTTTTTAAAATTTTTAAATTAAA
46434435 AAACAACACATTTAAAAAAAATCCATAC-AGTACAC
65 AAA-AACACATTTAAAAAAAAT-CATACAAGTACAC
* * * * *
46434470 TGGTGGCGTCATTCTTTATAGCTCCACCAAATAAAATATTATTTTTTTAAATTTTAAAATAAAAA
1 TGGTGGCGCCATTCTTTATGGCTCCACCAAATAAAATATTATTTTTTAAAATTTTTAAATTAAAA
* * * * *
46434535 AATAATAGATTTAAAAATATATTATACATAGTATAC
66 AA-AACACATTTAAAAA-AAATCATACA-AGTACAC
* * *
46434571 TGGTGGCGCCATTCTATATGGATCTACCAAATAAAATATTATTTTTTAAAATTTTTAAATTTGAA
1 TGGTGGCGCCATTCTTTATGGCTCCACCAAATAAAATATTATTTTTTAAAATTTTTAAA-TT-AA
46434636 AAAAAACCACATTTAAAAAAA
64 AAAAAA-CACATTTAAAAAAA
46434657 CCTTAGTAAT
Statistics
Matches: 154, Mismatches: 26, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
98 12 0.08
99 61 0.40
100 3 0.02
101 58 0.38
102 4 0.03
103 16 0.10
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (98 bp):
TGGTGGCGCCATTCTTTATGGCTCCACCAAATAAAATATTATTTTTTAAAATTTTTAAATTAAAA
AAAACACATTTAAAAAAAATCATACAAGTACAC
Found at i:46437496 original size:62 final size:61
Alignment explanation
Indices: 46437420--46437545 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 61
46437410 TATTCTAAAT
46437420 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATGGGGTATGGGTCGA
1 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATGGGGTAT-GGTCGA
* *
46437482 TTTAATTATTATCTTATCTATGATGTTTCCTACGAAGTTCAAAATTATGGGGTATGGTCGA
1 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATGGGGTATGGTCGA
46437543 TTT
1 TTT
46437546 CACTTCACAA
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 9 0.15
62 53 0.85
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (61 bp):
TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATGGGGTATGGTCGA
Found at i:46438156 original size:12 final size:14
Alignment explanation
Indices: 46438122--46438158 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
46438112 CCTGCGGTAG
*
46438122 GGTTTTGGGTTATT
1 GGTTTAGGGTTATT
46438136 GGTTTAGGGTTA-T
1 GGTTTAGGGTTATT
46438149 GG-TTAGGGTT
1 GGTTTAGGGTT
46438159 TTAGTGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 8 0.36
13 3 0.14
14 11 0.50
ACGTcount: A:0.11, C:0.00, G:0.41, T:0.49
Consensus pattern (14 bp):
GGTTTAGGGTTATT
Found at i:46438340 original size:94 final size:93
Alignment explanation
Indices: 46438279--46438598 Score: 357
Period size: 92 Copynumber: 3.4 Consensus size: 93
46438269 GTGTTTATTA
46438279 TTTTTAAGAAAAAATTAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAATTTT
1 TTTTTAAGAAAAAATTAA-TAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAATTTT
46438344 AAAATCAGATTAGGATTTAGAG-TTAAGGG
65 AAAATCAGATTAGGATTTAGAGTTTAA-GG
*
46438373 TTTTTAAGAAAAAAATCTAATAAACTA-GGTTT-GAGGTTACTTGAGTAATTTAATT-AAAAATT
1 TTTTTAAG-AAAAAAT-TAATAAATTAGGGTTTAG-GGTTACTTGAGTAATTTAATTAAAAAATT
*
46438435 TAAAAATCAGATTAGGATTTAGAG-TTAAGG
63 TTAAAATCAGATTAGGATTTAGAGTTTAAGG
* * * * * *
46438465 GTTTTCAGAAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATT-ATAAATTTA
1 TTTTTAAGAAAAAAT-TAATAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAATTT-
* * * *
46438529 TAATAAATTAGTTTAGGGTTTAGGGTTTAAGG
64 T-A-AAATCAGATTAGGATTTAGAGTTTAAGG
* * *
46438561 -TTTTAAGTAAAAACCTAAATAAATTAGGGTTTGGGGTT
1 TTTTTAAG-AAAAA-ATTAATAAATTAGGGTTTAGGGTT
46438599 TACGGTTACT
Statistics
Matches: 197, Mismatches: 18, Indels: 20
0.84 0.08 0.09
Matches are distributed among these distances:
91 16 0.08
92 39 0.20
93 36 0.18
94 35 0.18
95 36 0.18
96 34 0.17
97 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (93 bp):
TTTTTAAGAAAAAATTAATAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAATTTTA
AAATCAGATTAGGATTTAGAGTTTAAGG
Found at i:46438458 original size:93 final size:92
Alignment explanation
Indices: 46438279--46438598 Score: 371
Period size: 93 Copynumber: 3.4 Consensus size: 92
46438269 GTGTTTATTA
46438279 TTTTTAAGAAAAAAT-TAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAATTT
1 TTTTTAAGAAAAAATCTAA-TAAATTA-GGTTTAGGGTTACTTGAGTAATTTAATT-AAAAATTT
*
46438343 TAAAATCAGATTAGGATTTAGAGTTAAGGG
63 AAAAATCAGATTAGGATTTAGAGTTAAGGG
*
46438373 TTTTTAAGAAAAAAATCTAATAAACTAGGTTT-GAGGTTACTTGAGTAATTTAATTAAAAATTTA
1 TTTTTAAG-AAAAAATCTAATAAATTAGGTTTAG-GGTTACTTGAGTAATTTAATTAAAAATTTA
46438437 AAAATCAGATTAGGATTTAGAGTTAAGGG
64 AAAATCAGATTAGGATTTAGAGTTAAGGG
* * * * *
46438466 -TTTTCAGAAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTAT
1 TTTTTAAGAAAAAATCTAATAAATTA-GGTTTAGGGTTACTTGAGTAATTTAATTA-AAAATT-T
* * * *
46438530 AATAAATTAGTTTAGGGTTTAGGGTTTAA-GG
63 AA-AAATCAGATTAGGATTTAGAG-TTAAGGG
* * *
46438561 -TTTTAAGTAAAAACCTAAATAAATTAGGGTTTGGGGTT
1 TTTTTAAGAAAAAATCT-AATAAATTA-GGTTTAGGGTT
46438599 TACGGTTACT
Statistics
Matches: 198, Mismatches: 18, Indels: 18
0.85 0.08 0.08
Matches are distributed among these distances:
91 16 0.08
92 31 0.16
93 44 0.22
94 37 0.19
95 44 0.22
96 26 0.13
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (92 bp):
TTTTTAAGAAAAAATCTAATAAATTAGGTTTAGGGTTACTTGAGTAATTTAATTAAAAATTTAAA
AATCAGATTAGGATTTAGAGTTAAGGG
Found at i:46438614 original size:186 final size:185
Alignment explanation
Indices: 46438280--46438616 Score: 416
Period size: 186 Copynumber: 1.8 Consensus size: 185
46438270 TGTTTATTAT
* * * *
46438280 TTTTAAGAAAAAATTAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAATTTTA
1 TTTTAAGAAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTAAAAAATTTTA
*
46438345 AAATCAGATTAGGATTTAGAGTTAAGGGTTTTTAAGAAAAAAATCTAATAAACTAGGTTTGAGGT
66 AAATCAGATTAGGATTTAGAGTTAAGGGTTTTTAAGAAAAAAACCTAATAAACTAGGTTTGAGGT
*
46438410 TACTTGAGTAATTTAATTAAAAATTTAAAAATCAGATTAGGATTTAGAGTTAAGGG
131 TAC-TGAGTAACTTAATTAAAAATTTAAAAATCAGATTAGGATTTAGAGTTAAGGG
* *
46438466 TTTTCAGAAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATT-ATAAATTTAT
1 TTTTAAGAAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTAAAAAATTT-T
* * * * * *
46438530 AATAAATTAGTTTAGGGTTTAGGGTTTAA-GG-TTTTAAG-TAAAAACCTAAATAAATTAGGGTT
65 -A-AAATCAGATTAGGATTTAGAG-TTAAGGGTTTTTAAGAAAAAAACCT-AATAAACTA-GGTT
* *
46438592 TGGGGTTTAC-G-GTTACTTAATTAAA
125 TGAGG-TTACTGAGTAACTTAATTAAA
46438617 TTATTTGTTA
Statistics
Matches: 128, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
185 7 0.05
186 69 0.54
187 17 0.13
188 27 0.21
189 8 0.06
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (185 bp):
TTTTAAGAAAAAATCAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTAAAAAATTTTA
AAATCAGATTAGGATTTAGAGTTAAGGGTTTTTAAGAAAAAAACCTAATAAACTAGGTTTGAGGT
TACTGAGTAACTTAATTAAAAATTTAAAAATCAGATTAGGATTTAGAGTTAAGGG
Found at i:46438860 original size:126 final size:126
Alignment explanation
Indices: 46438635--46438920 Score: 464
Period size: 126 Copynumber: 2.3 Consensus size: 126
46438625 TAATTTAAAG
* * * * * *
46438635 AAGCTCCGATGTGGACGCGCTTTTACTACAGTGGCTCCTGAGAAAGTAATTTCGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
* *
46438700 CTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
66 CTAAGCAAACAATGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
* *
46438761 AAGCTCCCACGTGGACGCGCTTTTGTTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGACGTTT
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
46438826 CTAAGCAAACAATGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
66 CTAAGCAAACAATGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
* *
46438887 AAGCTTCCACGTGGACGTGCTTTTGCTACAGTAG
1 AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
46438921 TTGAACGTTA
Statistics
Matches: 147, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 147 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGTTT
CTAAGCAAACAATGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTGAAAA
Found at i:46441485 original size:11 final size:11
Alignment explanation
Indices: 46441471--46441531 Score: 81
Period size: 11 Copynumber: 5.6 Consensus size: 11
46441461 AAATAGGGAT
46441471 TTGAGA-GAAA
1 TTGAGAGGAAA
* *
46441481 TTTGAAAGCAAA
1 -TTGAGAGGAAA
46441493 TTGAGAGGAAA
1 TTGAGAGGAAA
46441504 TTGAGAGGAAA
1 TTGAGAGGAAA
46441515 TTGAGAGGAAA
1 TTGAGAGGAAA
46441526 TT-AGAG
1 TTGAGAG
46441532 AAAGAATGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
10 4 0.09
11 38 0.84
12 3 0.07
ACGTcount: A:0.46, C:0.02, G:0.31, T:0.21
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:46441947 original size:9 final size:9
Alignment explanation
Indices: 46441933--46441991 Score: 68
Period size: 9 Copynumber: 6.6 Consensus size: 9
46441923 TAAAAATTTT
46441933 ATTTTTATA
1 ATTTTTATA
46441942 ATTTTTTATA
1 A-TTTTTATA
*
46441952 ATTTTTATG
1 ATTTTTATA
*
46441961 ATTTTTATG
1 ATTTTTATA
46441970 ATTTTTA-A
1 ATTTTTATA
46441978 TATTTTTA-A
1 -ATTTTTATA
46441987 ATTTT
1 ATTTT
46441992 AAAAGCGTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
8 5 0.11
9 32 0.70
10 9 0.20
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (9 bp):
ATTTTTATA
Found at i:46457249 original size:62 final size:62
Alignment explanation
Indices: 46457174--46457300 Score: 245
Period size: 62 Copynumber: 2.0 Consensus size: 62
46457164 TATTCTAAAT
*
46457174 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATGGGGTATGGGTCGA
1 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATAGGGTATGGGTCGA
46457236 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATAGGGTATGGGTCGA
1 TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATAGGGTATGGGTCGA
46457298 TTT
1 TTT
46457301 CACTTTACAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.42
Consensus pattern (62 bp):
TTTAATTACTATCTTATCTATGATGTTTCCTACAAAGTTCAAAATTATAGGGTATGGGTCGA
Found at i:46458298 original size:23 final size:23
Alignment explanation
Indices: 46458264--46458307 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
46458254 AAGTATGTAT
46458264 ATATATTAATTACAAATGTATAC
1 ATATATTAATTACAAATGTATAC
* *
46458287 ATATATTTATTACACATGTAT
1 ATATATTAATTACAAATGTAT
46458308 TTATAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (23 bp):
ATATATTAATTACAAATGTATAC
Found at i:46460994 original size:19 final size:19
Alignment explanation
Indices: 46460970--46461007 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
46460960 TGTCGTTTGT
46460970 TTGCTCATATTCCTCGCGA
1 TTGCTCATATTCCTCGCGA
46460989 TTGCTCATATTCCTCGCGA
1 TTGCTCATATTCCTCGCGA
46461008 GGGTAATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.37
Consensus pattern (19 bp):
TTGCTCATATTCCTCGCGA
Found at i:46482347 original size:99 final size:97
Alignment explanation
Indices: 46482244--46482494 Score: 281
Period size: 101 Copynumber: 2.5 Consensus size: 97
46482234 GGTGGAGCCA
* * *
46482244 AAAATATCATTTTTAAAATTTTTAGATTAAAAAAACGACACATTTAAAAAA-A-ATCCATGCAGT
1 AAAATATTATTTTTAAAATTTTTAAATTAAAAAAA--ACACATTTAAAAAATACATACAT--AGT
*
46482307 ACACTGGTGGCGTCATTCTATATGGCTCCACCAAAT
62 ACACTGGTGGCGTCATTCTATATGGATCCACCAAAT
* *
46482343 AAAATATTATTTTTTAAAATTTTAAAATAAAAAAATAACACATTTAAAAATATACTATACATAGT
1 AAAATATTA-TTTTTAAAATTTTTAAATTAAAAAA-AACACATTTAAAAA-ATAC-ATACATAGT
* **
46482408 ATACTGGTGGCGTCATTCTATATGGATCTGCCAAAT
62 ACACTGGTGGCGTCATTCTATATGGATCCACCAAAT
* * * *
46482444 AAAATATTGTTTTTTTTAAATTTTTAAATTTAAAAAAACATATTTAAAAAA
1 AAAATA-T-TATTTTTAAAATTTTTAAATTAAAAAAAACACATTTAAAAAA
46482495 CACTCCTACT
Statistics
Matches: 129, Mismatches: 15, Indels: 15
0.81 0.09 0.09
Matches are distributed among these distances:
99 21 0.16
100 24 0.19
101 56 0.43
102 22 0.17
103 6 0.05
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (97 bp):
AAAATATTATTTTTAAAATTTTTAAATTAAAAAAAACACATTTAAAAAATACATACATAGTACAC
TGGTGGCGTCATTCTATATGGATCCACCAAAT
Found at i:46486326 original size:21 final size:22
Alignment explanation
Indices: 46486300--46486341 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
46486290 ATTAGTAAGT
46486300 ATGTAT-ATATATTAATTACAA
1 ATGTATAATATATTAATTACAA
*
46486321 ATGTATACATATATTTATTAC
1 ATGTATA-ATATATTAATTAC
46486342 GCATGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
23 12 0.67
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (22 bp):
ATGTATAATATATTAATTACAA
Found at i:46487817 original size:9 final size:9
Alignment explanation
Indices: 46487791--46487841 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
46487781 TAAAAAATTT
46487791 ATTTTTATA
1 ATTTTTATA
46487800 ATTTGTTTATA
1 A-TT-TTTATA
*
46487811 ATTTTTATG
1 ATTTTTATA
46487820 ATTTTTA-A
1 ATTTTTATA
46487828 TATTTTTA-A
1 -ATTTTTATA
46487837 ATTTT
1 ATTTT
46487842 AAAAGTATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
8 5 0.14
9 21 0.57
10 4 0.11
11 7 0.19
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:46487832 original size:18 final size:19
Alignment explanation
Indices: 46487790--46487840 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
46487780 ATAAAAAATT
*
46487790 TATTTTTATAATTTGTTTA
1 TATTTTTATAATTTGTTAA
*
46487809 TAATTTTTATGATTT-TTAA
1 T-ATTTTTATAATTTGTTAA
46487828 TATTTTTA-AATTT
1 TATTTTTATAATTT
46487841 TAAAAGTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 4 0.14
18 7 0.25
19 5 0.18
20 12 0.43
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
TATTTTTATAATTTGTTAA
Found at i:46497865 original size:21 final size:22
Alignment explanation
Indices: 46497830--46497874 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
46497820 AGCTCTCATA
*
46497830 AATTTTTAGAAAATTATA-AATT
1 AATTGTTAGAAAATT-TAGAATT
46497852 AATTGTTA-AAAATTTAGAATT
1 AATTGTTAGAAAATTTAGAATT
46497873 AA
1 AA
46497875 AATTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 12 0.57
22 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (22 bp):
AATTGTTAGAAAATTTAGAATT
Found at i:46498010 original size:9 final size:9
Alignment explanation
Indices: 46497996--46498048 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
46497986 ATAAAAAAAT
46497996 TAATTTTTA
1 TAATTTTTA
46498005 TAATTTGTTTA
1 TAA-TT-TTTA
46498016 TAATTTTTA
1 TAATTTTTA
*
46498025 TGATTTTTA
1 TAATTTTTA
46498034 -ATATTTTTA
1 TA-ATTTTTA
46498043 -AATTTT
1 TAATTTT
46498049 AAAAGTGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
8 5 0.13
9 23 0.59
10 4 0.10
11 7 0.18
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (9 bp):
TAATTTTTA
Found at i:46498039 original size:18 final size:20
Alignment explanation
Indices: 46497996--46498047 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
46497986 ATAAAAAAAT
*
46497996 TAATTTTTATAATTTGTTTA
1 TAATTTTTATAATTTGTTAA
*
46498016 TAATTTTTATGATTT-TTAA
1 TAATTTTTATAATTTGTTAA
46498035 T-ATTTTTA-AATTT
1 TAATTTTTATAATTT
46498048 TAAAAGTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 7 0.24
19 4 0.14
20 14 0.48
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
TAATTTTTATAATTTGTTAA
Found at i:46498614 original size:31 final size:31
Alignment explanation
Indices: 46498579--46498642 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
46498569 CCACGTAAAA
*
46498579 ATATATGGTACACTATTTTTAGAAAAAGTAT
1 ATATATGGTACACTATTTTTAGAAAAAATAT
46498610 ATATATGGTACACTATTTTTAGAAAAAATAT
1 ATATATGGTACACTATTTTTAGAAAAAATAT
46498641 AT
1 AT
46498643 GATAATTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (31 bp):
ATATATGGTACACTATTTTTAGAAAAAATAT
Found at i:46502108 original size:23 final size:23
Alignment explanation
Indices: 46502082--46502128 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
46502072 AATGATTTTT
*
46502082 ATTTTTTTAAAAAATTAAAAATA
1 ATTTTTATAAAAAATTAAAAATA
*
46502105 ATTTTTATATAAAATTAAAAATA
1 ATTTTTATAAAAAATTAAAAATA
46502128 A
1 A
46502129 AAGAGCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTTTATAAAAAATTAAAAATA
Found at i:46504730 original size:42 final size:43
Alignment explanation
Indices: 46504684--46504847 Score: 131
Period size: 43 Copynumber: 3.9 Consensus size: 43
46504674 TAAAAGTCAT
*
46504684 GACCTTTAGCGACG-CTTTCCCACAAACGCCGCTAAAGACTAC
1 GACCTTTAGCGACGTCTTTCCCACAAACGCCGCTAAAGACCAC
* * * * *
46504726 GACCTTTAGCGGCGTTTTTTCCACAAAGGCCGCTAAAGACCAT
1 GACCTTTAGCGACGTCTTTCCCACAAACGCCGCTAAAGACCAC
* * * *
46504769 GACCTTTAGCG--GATCTTTTTCTACAAACGCCGCTATAGAACA-
1 GACCTTTAGCGACG-TC-TTTCCCACAAACGCCGCTAAAGACCAC
* * * * *
46504811 AATCTTTAGCGACG-CGTCTCGCAAAAACGCCGCTAAA
1 GACCTTTAGCGACGTC-TTTCCCACAAACGCCGCTAAA
46504848 AACATATCAT
Statistics
Matches: 97, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 1 0.01
42 39 0.40
43 56 0.58
44 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (43 bp):
GACCTTTAGCGACGTCTTTCCCACAAACGCCGCTAAAGACCAC
Found at i:46504761 original size:43 final size:43
Alignment explanation
Indices: 46504684--46504803 Score: 145
Period size: 43 Copynumber: 2.8 Consensus size: 43
46504674 TAAAAGTCAT
* * * *
46504684 GACCTTTAGCGACG-CTTTCCCACAAACGCCGCTAAAGACTAC
1 GACCTTTAGCGGCGTTTTTTCCACAAACGCCGCTAAAGACCAC
* *
46504726 GACCTTTAGCGGCGTTTTTTCCACAAAGGCCGCTAAAGACCAT
1 GACCTTTAGCGGCGTTTTTTCCACAAACGCCGCTAAAGACCAC
* *
46504769 GACCTTTAGCGG-ATCTTTTTCTACAAACGCCGCTA
1 GACCTTTAGCGGCGT-TTTTTCCACAAACGCCGCTA
46504804 TAGAACAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 14 0.21
43 53 0.79
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (43 bp):
GACCTTTAGCGGCGTTTTTTCCACAAACGCCGCTAAAGACCAC
Found at i:46506201 original size:15 final size:17
Alignment explanation
Indices: 46506181--46506218 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
46506171 GATAAGGAAA
46506181 AAAAATTAT-AAAT-AT
1 AAAAATTATAAAATAAT
*
46506196 AAAAATTCTAAAATAAT
1 AAAAATTATAAAATAAT
46506213 AAAAAT
1 AAAAAT
46506219 AAATAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 8 0.40
16 4 0.20
17 8 0.40
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAATTATAAAATAAT
Found at i:46509143 original size:12 final size:12
Alignment explanation
Indices: 46509110--46509144 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
46509100 TAAAAGAGTA
*
46509110 TACAAACCAATC
1 TACAAACCAGTC
46509122 TACAAACCAGTC
1 TACAAACCAGTC
*
46509134 TACAATCCAGT
1 TACAAACCAGT
46509145 TTAAGCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.43, C:0.31, G:0.06, T:0.20
Consensus pattern (12 bp):
TACAAACCAGTC
Found at i:46510963 original size:15 final size:16
Alignment explanation
Indices: 46510943--46510980 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
46510933 CCGACCCCTG
46510943 AATCCCTAAAC-CTTA
1 AATCCCTAAACTCTTA
46510958 AATCCCT-AACTCTTA
1 AATCCCTAAACTCTTA
46510973 AA-CCCTAA
1 AATCCCTAA
46510981 CATCTAACCC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.39, C:0.34, G:0.00, T:0.26
Consensus pattern (16 bp):
AATCCCTAAACTCTTA
Found at i:46510980 original size:14 final size:15
Alignment explanation
Indices: 46510954--46510995 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
46510944 ATCCCTAAAC
46510954 CTTAAATCCCTAAC-T
1 CTTAAA-CCCTAACAT
46510969 CTTAAACCCTAACAT
1 CTTAAACCCTAACAT
*
46510984 C-TAACCCCTAAC
1 CTTAAACCCTAAC
46510996 CCCTAAACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 17 0.68
15 8 0.32
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.26
Consensus pattern (15 bp):
CTTAAACCCTAACAT
Found at i:46511050 original size:49 final size:51
Alignment explanation
Indices: 46510945--46511058 Score: 155
Period size: 49 Copynumber: 2.3 Consensus size: 51
46510935 GACCCCTGAA
* * *
46510945 TCCCTAAACCTTAAATCCCTAACTCTTAAACCCTAACATCTAACCCCTAAC
1 TCCCTAAACCTTAAATCCCTAACCCTTAAACCATAACATCTAACCCATAAC
*
46510996 -CCCTAAACCTTAAATCCC-AACCCTTAAACCATAATCA-CTAATCCAT-AC
1 TCCCTAAACCTTAAATCCCTAACCCTTAAACCATAA-CATCTAACCCATAAC
46511044 TCCCTAAACCTTAAA
1 TCCCTAAACCTTAAA
46511059 ATATGAACTC
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
48 2 0.04
49 35 0.61
50 20 0.35
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (51 bp):
TCCCTAAACCTTAAATCCCTAACCCTTAAACCATAACATCTAACCCATAAC
Found at i:46511656 original size:41 final size:41
Alignment explanation
Indices: 46511595--46511789 Score: 291
Period size: 41 Copynumber: 4.8 Consensus size: 41
46511585 TAAAATGTTT
* *
46511595 TTAGCGGCGCTTCTTTAAAAATGCCGCTAAAGACCAGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCA
*
46511636 TTAGCGGCGCTTATTCAAAAACGCCGCTAAAGACCAGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCA
*
46511677 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGTA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCA
* * * **
46511718 TTAGTGGCGCTTATTTAAAAACGCCGCTAAAGAATAGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCA
* *
46511759 TTAGCGGCGCTTCTTAAAAAACGCCACTAAA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAA
46511790 TCCCCAAAAA
Statistics
Matches: 139, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 139 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGCA
Found at i:46514086 original size:23 final size:22
Alignment explanation
Indices: 46514038--46514086 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
46514028 AAAAAGTTTA
46514038 AAATAATAATAAATAATAAGGT
1 AAATAATAATAAATAATAAGGT
*
46514060 -AATATATATATATATAAT-AGGT
1 AAATA-ATA-ATAAATAATAAGGT
46514082 AAATA
1 AAATA
46514087 GAAGTATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 4 0.17
22 7 0.30
23 12 0.52
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (22 bp):
AAATAATAATAAATAATAAGGT
Found at i:46515796 original size:45 final size:42
Alignment explanation
Indices: 46515717--46516110 Score: 161
Period size: 44 Copynumber: 8.9 Consensus size: 42
46515707 AATTTATAGT
* *
46515717 TTCAACCTGTTCCACTGTAACTTCAGGG-GAATAAGA-TTCGATATC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAG-ATAAGACTTC---A-C
* * *
46515762 TTTAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTTCAC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTTCAC
* * *
46515804 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAACTTGCTATGGTAGA
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTT-C------A-C
* * * * * * *
46515854 TTTAATCCGAC-CTACTGCAACTTTAGAGG-CATAGGA-TTCATC
1 TTCAATCTG-CTCCACTGTAACTTCAG-GGAGATAAGACTTCA-C
* * * * * *
46515896 ATTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTTGCAAC
1 --TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTT-C-AC
* *
46515942 TTCAATTTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCACTATC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTT--C-A-C
* * * *
46515987 TTCAATCTACTCCATTGCAACTTCAGGGAGATAAGACTTGTAAC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGAC-T-TCAC
** * * **
46516031 TTCAATCTGCTCCACTACAACTTCAGGGAGATAGGATTATTGGC
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGA--CTTCAC
* * * *
46516075 TTTAATCTACTCCACTGCAACTTCAGAGAGATAAGA
1 TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGA
46516111 TTCGCCAGGA
Statistics
Matches: 278, Mismatches: 45, Indels: 53
0.74 0.12 0.14
Matches are distributed among these distances:
42 36 0.13
43 7 0.03
44 128 0.46
45 67 0.24
46 6 0.02
47 2 0.01
48 2 0.01
49 3 0.01
50 24 0.09
51 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (42 bp):
TTCAATCTGCTCCACTGTAACTTCAGGGAGATAAGACTTCAC
Found at i:46515932 original size:44 final size:43
Alignment explanation
Indices: 46515901--46516334 Score: 231
Period size: 44 Copynumber: 9.8 Consensus size: 43
46515891 TCATCATTTT
* * *
46515901 AATCCGCTCTACTGCAACTTCAGGGAGATAGGATT-TGCAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-C-ACTTC
*
46515945 AATTTGCTCCACTGCAACTTCAGGGAGATAAGATTCA-CTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ATC-A-CTTC
* * * *
46515990 AATCTACTCCATTGCAACTTCAGGGAGATAAGACTTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTATCACTTC
* * ** *
46516034 AATCTGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTA-TCACTTC
* * *
46516078 AATCTACTCCACTGCAACTTCAGAGAGATAAGA-T-TCGC--C
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCACTTC
* * * * * *
46516117 AGGATCTACTCTACTACAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTT
1 A--ATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A--T-CA-CTTC
* * * * * *
46516170 AATCTGTTCCACTACAACTTTAGGAAAATAATATT-TGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-C-A-CTTC
* * * *
46516215 AGTCTACTCCACTGCAACTTCAGGGAGATAAGACT-TCATTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCACTTC
** * ** *
46516257 AATCCACT-CATTGCAACTTCAGGGAGAT-AGTATTATTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAG-ATTA-TCACTTC
* * *
46516300 AATCTACTCTACTACAACTTCAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
46516335 TGTCATCTTC
Statistics
Matches: 301, Mismatches: 63, Indels: 52
0.72 0.15 0.12
Matches are distributed among these distances:
39 1 0.00
40 2 0.01
41 54 0.18
42 9 0.03
43 14 0.05
44 121 0.40
45 69 0.23
46 2 0.01
48 1 0.00
49 2 0.01
51 25 0.08
53 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (43 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATCACTTC
Found at i:46516032 original size:89 final size:88
Alignment explanation
Indices: 46515911--46516334 Score: 287
Period size: 85 Copynumber: 4.8 Consensus size: 88
46515901 AATCCGCTCT
* * * *
46515911 ACTGCAACTTCAGGGAGATAGGATTTGCAACTTCAATTTGCTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAAGACTTGCAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAA
*
46515976 GATTCACTATCTTCAATCTACTCC
66 GATT-ACTAGCTTCAATCTACTCC
* * *
46516000 ATTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAG
1 ACTGCAACTTCAGGGAGATAAGACTTGCAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAA
* * *
46516065 GATTATTGGCTTTAATCTACTCC
66 GATTACTAGCTTCAATCTACTCC
* * * * *
46516088 ACTGCAACTTCAGAGAGATAAGA-TT-C-GC--CAGGATCTACTCTACTACAACTTCAGAGAGAT
1 ACTGCAACTTCAGGGAGATAAGACTTGCAACTTCA--ATCTGCTCCACTACAACTTCAGGGAGAT
* * **
46516148 AAGATCTGTGATTTATAGCTTTAATCTGTTCC
64 AAGA--T-T-A---CTAGCTTCAATCTACTCC
* * * * * * * * * *
46516180 ACTACAACTTTAGGAAAATAATATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATAAGACTTGC-AACTTCAATCTGCTCCACTACAACTTCAGGGAGATA
* *
46516245 AGACTT-C-A-TTTCAATCCACT-C
65 AGA-TTACTAGCTTCAATCTACTCC
* * * * * *
46516266 ATTGCAACTTCAGGGAGAT-AGTATTATTG--GCTTTAATCTACTCTACTACAACTTCAGGGAGA
1 ACTGCAACTTCAGGGAGATAAG-A--CTTGCAACTTCAATCTGCTCCACTACAACTTCAGGGAGA
46516328 TAAGATT
63 TAAGATT
46516335 TGTCATCTTC
Statistics
Matches: 265, Mismatches: 52, Indels: 41
0.74 0.15 0.11
Matches are distributed among these distances:
83 2 0.01
84 2 0.01
85 63 0.24
86 16 0.06
87 10 0.04
88 41 0.15
89 63 0.24
92 31 0.12
93 2 0.01
94 2 0.01
95 2 0.01
96 29 0.11
98 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (88 bp):
ACTGCAACTTCAGGGAGATAAGACTTGCAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAA
GATTACTAGCTTCAATCTACTCC
Found at i:46516088 original size:133 final size:130
Alignment explanation
Indices: 46515898--46516329 Score: 357
Period size: 133 Copynumber: 3.3 Consensus size: 130
46515888 GATTCATCAT
* * * * * * *
46515898 TTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGAT-TTGCAACTTCAATTTGCTCCACTGCAA
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATATTG--GCTTTAATCTACTCCACTGCAA
46515962 CTTCAGGGAGATAAGATTCACTATCTTCAATCTACTCCATTGCAACTTCAGGGAGATAAGACTTG
64 CTTCAGGGAGATAAGATTC-C-ATCTTCAATCTACTCCATTGCAACTTCAGGGAGATAAGACTTG
46516027 TAAC
127 TAAC
*
46516031 TTCAATCTGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCACTGCAAC
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATAGGA-TATTGGCTTTAATCTACTCCACTGCAAC
* * * * * *
46516096 TTCAGAGAGATAAGATT-C-GC--CAGGATCTACTCTACTACAACTTCAGAGAGATAAGATCTGT
65 TTCAGGGAGATAAGATTCCATCTTCA--ATCTACTCCATTGCAACTTCAGGGAGATAAGA-CT-T
46516157 GATTTATAGC
126 G---TA-A-C
* * * * * *
46516167 TTTAATCTGTTCCACTACAACTTTAGGAAAATA--ATATTTGCTATCTTCAGTCTACTCCACTGC
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATATTGGC--T-TT-AATCTACTCCACTGC
*
46516230 AACTTCAGGGAGATAAGACTT-CAT-TTCAATCCACT-CATTGCAACTTCAGGGAGAT-AGTA-T
62 AACTTCAGGGAGATAAGA-TTCCATCTTCAATCTACTCCATTGCAACTTCAGGGAGATAAG-ACT
* **
46516290 TATTGGC
125 T-GTAAC
* *
46516297 TTTAATCTACTCTACTACAACTTCAGGGAGATA
1 TTTAATCTGCTCCACTACAACTTCAGGGAGATA
46516330 AGATTTGTCA
Statistics
Matches: 241, Mismatches: 37, Indels: 45
0.75 0.11 0.14
Matches are distributed among these distances:
127 2 0.01
129 29 0.12
130 30 0.12
131 3 0.01
132 1 0.00
133 73 0.30
134 5 0.02
135 6 0.02
136 33 0.14
137 48 0.20
138 9 0.04
140 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (130 bp):
TTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATATTGGCTTTAATCTACTCCACTGCAACT
TCAGGGAGATAAGATTCCATCTTCAATCTACTCCATTGCAACTTCAGGGAGATAAGACTTGTAAC
Found at i:46516233 original size:225 final size:224
Alignment explanation
Indices: 46515669--46516334 Score: 681
Period size: 225 Copynumber: 3.0 Consensus size: 224
46515659 GGTCTGATTC
* * * *
46515669 GATCTGCTCTACTGCAACTTTAGAGAGATTAGATCTGTAATTTATAG-TTTCAACCTGTTCCACT
1 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTT-AATCTGTTCCACT
* * * * * * *
46515733 GTAACTTCAGGGGAATAAGATTCGATATCTTTAGTCTGCTCCACTGTAACTTTAGGGAGATAAGA
65 GCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGA
* * * *
46515798 CTTCACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAACTTGCTATGGTAGATTTAATCCG
130 CTTCACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAGAA--T--TAT--TGGCTTTAAT-CT
* * * *
46515863 AC-CTACTGCAACTTTAGAG-GCATAGGATTCATCATTTT
188 ACTCTACTGCAACTTCAGAGAG-ATAAGATTCACCA--TG
* * * * * * * *
46515901 AATCCGCTCTACTGCAACTTCAGGGAGATAGGAT-T-TG---CA-A-CTTCAATTTGCTCCACTG
1 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTTCCACTG
* * * *
46515959 CAACTTCAGGGAGATAAGATTCACTATCTTCAATCTACTCCATTGCAACTTCAGGGAGATAAGAC
66 CAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGAC
* * * *
46516024 TTGTAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCA
131 -T-TCACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAGAATTATTGGCTTTAATCTACTCTA
*
46516089 CTGCAACTTCAGAGAGATAAGATTCGCCA-G
194 CTGCAACTTCAGAGAGATAAGATTCACCATG
* * *
46516119 GATCTACTCTACTACAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTTCCACTA
1 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTTCCACTG
* * * *
46516184 CAACTTTAGGAAAATAATATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGAC
66 CAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGAC
* ** * *
46516249 TTCATTTCAATCCACT-CATTGCAACTTCAGGGAGATAGTATTATTGGCTTTAATCTACTCTACT
131 TTCACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAGAATTATTGGCTTTAATCTACTCTACT
* *
46516313 ACAACTTCAGGGAGATAAGATT
196 GCAACTTCAGAGAGATAAGATT
46516335 TGTCATCTTC
Statistics
Matches: 357, Mismatches: 65, Indels: 34
0.78 0.14 0.07
Matches are distributed among these distances:
218 28 0.08
219 1 0.00
220 5 0.01
221 33 0.09
222 65 0.18
223 15 0.04
224 2 0.01
225 137 0.38
226 4 0.01
227 37 0.10
230 1 0.00
231 1 0.00
232 28 0.08
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (224 bp):
GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTTAATCTGTTCCACTG
CAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGAC
TTCACTTCAATCTGCTCCACTGCAACTTCAGGGAGATAGAATTATTGGCTTTAATCTACTCTACT
GCAACTTCAGAGAGATAAGATTCACCATG
Found at i:46527797 original size:23 final size:23
Alignment explanation
Indices: 46527729--46527798 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 23
46527719 CCACTTTTGA
*
46527729 AATGATAATAAATTAAATAAAAAT
1 AATG-TAATAAATTAAATAATAAT
*
46527753 ATCATGTAAT-AATAAAAATAATAAT
1 A--ATGTAATAAAT-TAAATAATAAT
*
46527778 AATGTAATAAATTAATTAATA
1 AATGTAATAAATTAAATAATA
46527799 GCAAAAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
23 14 0.37
24 7 0.18
25 14 0.37
26 3 0.08
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (23 bp):
AATGTAATAAATTAAATAATAAT
Found at i:46543745 original size:22 final size:22
Alignment explanation
Indices: 46543719--46543795 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
46543709 CCAAAATATT
46543719 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
* * * *
46543741 ATCTCCT-AA-TTAAACCAAAATATT
1 ATCTCCTAAACTT-TAGC---ATCTA
46543765 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
46543787 ATCTCCTAA
1 ATCTCCTAA
46543796 TTAAAATAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 19 0.46
24 10 0.24
25 4 0.10
26 2 0.05
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (22 bp):
ATCTCCTAAACTTTAGCATCTA
Found at i:46543757 original size:46 final size:46
Alignment explanation
Indices: 46543705--46543800 Score: 192
Period size: 46 Copynumber: 2.1 Consensus size: 46
46543695 TACAAAGACA
46543705 TAAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAAT
1 TAAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAAT
46543751 TAAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAAT
1 TAAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAAT
46543797 TAAA
1 TAAA
46543801 ATAAAGAGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (46 bp):
TAAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAAT
Found at i:46547903 original size:23 final size:23
Alignment explanation
Indices: 46547877--46547923 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
46547867 ATATGCTCTT
*
46547877 TTATTTTTAATTTTATATAAAAA
1 TTATTTTTAATTTTATAAAAAAA
*
46547900 TTATTTTTAATTTTTTAAAAAAA
1 TTATTTTTAATTTTATAAAAAAA
46547923 T
1 T
46547924 AAAAATCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTATTTTTAATTTTATAAAAAAA
Found at i:46551400 original size:31 final size:31
Alignment explanation
Indices: 46551359--46551422 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
46551349 AAAAATTATC
*
46551359 ATATATTTTTTCTAAAAATAGTGTACCATAT
1 ATATACTTTTTCTAAAAATAGTGTACCATAT
46551390 ATATACTTTTTCTAAAAATAGTGTACCATAT
1 ATATACTTTTTCTAAAAATAGTGTACCATAT
46551421 AT
1 AT
46551423 TTTTACGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (31 bp):
ATATACTTTTTCTAAAAATAGTGTACCATAT
Found at i:46551986 original size:9 final size:9
Alignment explanation
Indices: 46551951--46552003 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
46551941 TTACACTTTT
46551951 AAAATT-TA
1 AAAATTATA
46551959 AAAA-TATTA
1 AAAATTA-TA
*
46551968 AAAATCATA
1 AAAATTATA
46551977 AAAATTATAA
1 AAAATTAT-A
46551987 ACAAATTATA
1 A-AAATTATA
46551997 AAAATTA
1 AAAATTA
46552004 ATTTTTTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
7 1 0.03
8 4 0.11
9 21 0.55
10 5 0.13
11 7 0.18
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (9 bp):
AAAATTATA
Found at i:46551997 original size:20 final size:19
Alignment explanation
Indices: 46551951--46552003 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
46551941 TTACACTTTT
*
46551951 AAAATT-TAAAAA-TATTA
1 AAAATTATAAAAATTATAA
*
46551968 AAAATCATAAAAATTATAA
1 AAAATTATAAAAATTATAA
46551987 ACAAATTATAAAAATTA
1 A-AAATTATAAAAATTA
46552004 ATTTTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.17
18 6 0.20
19 5 0.17
20 14 0.47
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAATTATAAAAATTATAA
Found at i:46552149 original size:21 final size:22
Alignment explanation
Indices: 46552125--46552169 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
46552115 ATAAAAAATT
*
46552125 TTAATTCTA-AATTTT-TAACAA
1 TTAATT-TATAATTTTCTAAAAA
46552146 TTAATTTATAATTTTCTAAAAA
1 TTAATTTATAATTTTCTAAAAA
46552168 TT
1 TT
46552170 TATGAGAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 2 0.10
21 12 0.57
22 7 0.33
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAATTTATAATTTTCTAAAAA
Found at i:46564543 original size:17 final size:18
Alignment explanation
Indices: 46564523--46564557 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
46564513 ATTAAATTCG
46564523 ATAATATATTTC-CAATA
1 ATAATATATTTCTCAATA
*
46564540 ATAATTTATTTCTCAATA
1 ATAATATATTTCTCAATA
46564558 TTTACAATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (18 bp):
ATAATATATTTCTCAATA
Found at i:46575162 original size:9 final size:9
Alignment explanation
Indices: 46575127--46575177 Score: 52
Period size: 9 Copynumber: 5.6 Consensus size: 9
46575117 TTATACTTTT
46575127 AAAATT-TA
1 AAAATTATA
46575135 AAAA-TATTA
1 AAAATTA-TA
*
46575144 AAAATCATA
1 AAAATTATA
46575153 AAAATTATAA
1 AAAATTAT-A
46575163 ACAAATTATA
1 A-AAATTATA
46575173 AAAAT
1 AAAAT
46575178 AAATTTTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
7 1 0.03
8 4 0.11
9 19 0.53
10 5 0.14
11 7 0.19
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAATTATA
Found at i:46575173 original size:20 final size:19
Alignment explanation
Indices: 46575127--46575177 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
46575117 TTATACTTTT
*
46575127 AAAATT-TAAAAA-TATTA
1 AAAATTATAAAAATTATAA
*
46575144 AAAATCATAAAAATTATAA
1 AAAATTATAAAAATTATAA
46575163 ACAAATTATAAAAAT
1 A-AAATTATAAAAAT
46575178 AAATTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 5 0.18
18 6 0.21
19 5 0.18
20 12 0.43
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATTATAAAAATTATAA
Found at i:46576505 original size:22 final size:22
Alignment explanation
Indices: 46576475--46576526 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
46576465 AGTGAATTTA
*
46576475 GTTAAATTAAAGTTG-ATTGAGT
1 GTTAAATTAAA-TTGAATTAAGT
*
46576497 GTTAGATTAAATTGAATTAAGT
1 GTTAAATTAAATTGAATTAAGT
*
46576519 GTGAAATT
1 GTTAAATT
46576527 TATTATAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.40
Consensus pattern (22 bp):
GTTAAATTAAATTGAATTAAGT
Found at i:46576631 original size:23 final size:23
Alignment explanation
Indices: 46576605--46576648 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
46576595 GTAATTATAA
46576605 ATACATGCGTAATAAATATATGT
1 ATACATGCGTAATAAATATATGT
** *
46576628 ATACATTTGTAATTAATATAT
1 ATACATGCGTAATAAATATAT
46576649 ATACATACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (23 bp):
ATACATGCGTAATAAATATATGT
Found at i:46580676 original size:100 final size:100
Alignment explanation
Indices: 46580349--46580684 Score: 307
Period size: 100 Copynumber: 3.4 Consensus size: 100
46580339 TTAATGTTAT
* * * * * *
46580349 TTTTTTTTAATTTTAAAACTATAAAAAAT-GTTTTCTTA-TTGGTGGAGCCATTCTA-AATGGCG
1 TTTTTTTTAATTTAAAAATTTTAAAAAATAATATT-TTATTTGGTGGAGCCA-TATAGAATGGCG
* * * *
46580411 CCACCATTTTA-TTAGTAGGATTGTTTTTTAAA--TGTG
64 CCACCAGTATACTGA-T-GGATTATTTTTTAAATGTGTG
* * ** * *
46580447 TTTTTTTAAATTTAAAAATTTTAAAAAAACAATATTTTATTTGGCAGATCCATATAGAATGACGC
1 TTTTTTTTAATTTAAAAATTTT-AAAAAATAATATTTTATTTGGTGGAGCCATATAGAATGGCGC
*
46580512 CACCAGTATACT-ATGTATAGTATATTTTTAAATGTGT-
65 CACCAGTATACTGATGGAT--TAT-TTTTTAAATGTGTG
* *
46580549 TATTTTTT-ATTTTAAAATTTTAAAAAATAATATTTTATTTGGTGGAGCCATATAGAATGGCGCC
1 TTTTTTTTAATTTAAAAATTTTAAAAAATAATATTTTATTTGGTGGAGCCATATAGAATGGCGCC
*
46580613 ACCAGTGTACTGCATGGATT-TTTTTTAAATGTGTCG
66 ACCAGTATACTG-ATGGATTATTTTTTAAATGTGT-G
* *
46580649 TTTTTTTTAATCTAAAAATTTT-AAAAATGATATTTT
1 TTTTTTTTAATTTAAAAATTTTAAAAAATAATATTTT
46580685 TGCTCCACCA
Statistics
Matches: 193, Mismatches: 30, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
98 34 0.18
99 14 0.07
100 99 0.51
101 32 0.17
102 11 0.06
103 3 0.02
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.45
Consensus pattern (100 bp):
TTTTTTTTAATTTAAAAATTTTAAAAAATAATATTTTATTTGGTGGAGCCATATAGAATGGCGCC
ACCAGTATACTGATGGATTATTTTTTAAATGTGTG
Found at i:46585354 original size:137 final size:137
Alignment explanation
Indices: 46585108--46585384 Score: 527
Period size: 137 Copynumber: 2.0 Consensus size: 137
46585098 GGCTTTTATG
46585108 ATCGGTGTAGATAATACACTTCTCACCGTACTGATAATGCCTCCAAATTTTTAATGTAAAGACTA
1 ATCGGTGTAGATAATACACTTCTCACCGTACTGATAATGCCTCCAAATTTTTAATGTAAAGACTA
* *
46585173 CGGCGACCAACTCTAAATTGTGCATCGGATAGTTTACTTCACTAGTTTTGAGCTGACGAGTTACC
66 CGGCGACCAACTCCAAATTGTGCATCGGATAGTTCACTTCACTAGTTTTGAGCTGACGAGTTACC
46585238 ATCATGC
131 ATCATGC
46585245 ATCGGTGTAGATAATACACTTCTCACCGTACTGATAATGCCTCCAAATTTTTAATGTAAAGACTA
1 ATCGGTGTAGATAATACACTTCTCACCGTACTGATAATGCCTCCAAATTTTTAATGTAAAGACTA
46585310 CGGCGACCAACTCCAAATTGTGCATCGGATAGTTCACTTCACTAGTTTTGAGCTGACGAGTTACC
66 CGGCGACCAACTCCAAATTGTGCATCGGATAGTTCACTTCACTAGTTTTGAGCTGACGAGTTACC
*
46585375 ATCCTGC
131 ATCATGC
46585382 ATC
1 ATC
46585385 AATACAAACC
Statistics
Matches: 137, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 137 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (137 bp):
ATCGGTGTAGATAATACACTTCTCACCGTACTGATAATGCCTCCAAATTTTTAATGTAAAGACTA
CGGCGACCAACTCCAAATTGTGCATCGGATAGTTCACTTCACTAGTTTTGAGCTGACGAGTTACC
ATCATGC
Found at i:46602074 original size:19 final size:19
Alignment explanation
Indices: 46602050--46602087 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
46602040 AGTATTACCC
46602050 TCGCGAGGAATATGAGCAA
1 TCGCGAGGAATATGAGCAA
46602069 TCGCGAGGAATATGAGCAA
1 TCGCGAGGAATATGAGCAA
46602088 ACAAACGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.32, T:0.16
Consensus pattern (19 bp):
TCGCGAGGAATATGAGCAA
Found at i:46606942 original size:21 final size:21
Alignment explanation
Indices: 46606913--46606972 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 21
46606903 CAAGTGTATG
* *
46606913 ATAATTATAAATACATGTGTA
1 ATAAATATATATACATGTGTA
*
46606934 ATAAATATATGTATACATTTGTA
1 ATAAATATA--TATACATGTGTA
*
46606957 ATTAATATATATACAT
1 ATAAATATATATACAT
46606973 ACTTATTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 15 0.45
23 18 0.55
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (21 bp):
ATAAATATATATACATGTGTA
Found at i:46606949 original size:23 final size:23
Alignment explanation
Indices: 46606923--46606966 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
46606913 ATAATTATAA
46606923 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
46606946 ATACATTTGTAATTAATATAT
1 ATACATGTGTAATAAATATAT
46606967 ATACATACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:46608027 original size:62 final size:62
Alignment explanation
Indices: 46607930--46608056 Score: 245
Period size: 62 Copynumber: 2.0 Consensus size: 62
46607920 TTGTAAAGTG
*
46607930 AAATCGACCCATACCCTATAATTTTGAACTTTGTAGGAAACATCATAGATAAGATAGTAATT
1 AAATCGACCCATACCCCATAATTTTGAACTTTGTAGGAAACATCATAGATAAGATAGTAATT
46607992 AAATCGACCCATACCCCATAATTTTGAACTTTGTAGGAAACATCATAGATAAGATAGTAATT
1 AAATCGACCCATACCCCATAATTTTGAACTTTGTAGGAAACATCATAGATAAGATAGTAATT
46608054 AAA
1 AAA
46608057 ATTTAGAATA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.29
Consensus pattern (62 bp):
AAATCGACCCATACCCCATAATTTTGAACTTTGTAGGAAACATCATAGATAAGATAGTAATT
Found at i:46623147 original size:8 final size:9
Alignment explanation
Indices: 46623125--46623167 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
46623115 TTTTAAAATT
46623125 TAAAAAT-A
1 TAAAAATCA
46623133 TTAAAAATCA
1 -TAAAAATCA
46623143 TAAAAATCA
1 TAAAAATCA
*
46623152 TAAAAATTA
1 TAAAAATCA
46623161 TAAAAAT
1 TAAAAAT
46623168 AAAATTTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
9 31 0.97
10 1 0.03
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (9 bp):
TAAAAATCA
Found at i:46623636 original size:51 final size:51
Alignment explanation
Indices: 46623581--46623682 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
46623571 TCTAATTTCC
*
46623581 TCTCAATTTCCTCTCAATTTGCTTTCAAATTTCTCTCAAATCCCTATTTAA
1 TCTCAATTTCCTCTCAATTTCCTTTCAAATTTCTCTCAAATCCCTATTTAA
*
46623632 TCTCAATTTGCTCTCAATTTCCTTTCAAATTTCTCTCAAATCCCTATTTAA
1 TCTCAATTTCCTCTCAATTTCCTTTCAAATTTCTCTCAAATCCCTATTTAA
46623683 AAGAGCTTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.25, C:0.27, G:0.02, T:0.45
Consensus pattern (51 bp):
TCTCAATTTCCTCTCAATTTCCTTTCAAATTTCTCTCAAATCCCTATTTAA
Found at i:46623672 original size:11 final size:11
Alignment explanation
Indices: 46623569--46623670 Score: 72
Period size: 11 Copynumber: 9.5 Consensus size: 11
46623559 AATCATTCTT
46623569 TCTCTAATTTCC
1 TCTC-AATTTCC
46623581 TCTCAATTTCC
1 TCTCAATTTCC
*
46623592 TCTCAATTTGC
1 TCTCAATTTCC
*
46623603 TTTCAAATTT-C
1 TCTC-AATTTCC
*
46623614 TCTCAA-ATCC
1 TCTCAATTTCC
**
46623624 -CT--ATTTAA
1 TCTCAATTTCC
*
46623632 TCTCAATTTGC
1 TCTCAATTTCC
46623643 TCTCAATTTCC
1 TCTCAATTTCC
*
46623654 TTTCAAATTT-C
1 TCTC-AATTTCC
46623665 TCTCAA
1 TCTCAA
46623671 ATCCCTATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 16
0.72 0.12 0.16
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 5 0.07
10 5 0.07
11 45 0.63
12 14 0.20
ACGTcount: A:0.24, C:0.28, G:0.02, T:0.46
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:46626365 original size:126 final size:126
Alignment explanation
Indices: 46626213--46626488 Score: 462
Period size: 126 Copynumber: 2.2 Consensus size: 126
46626203 TAACGTTCAA
*
46626213 CTACTGTAGCAAAAGCACGTCCACGTGGAAGCTTTTTTCAGTACTTCTGCTGACAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTTTTTCAGTACTTCTGCTGACAAAGCATCCTG
* * * *
46626278 CTTAAAGCGTTTTTGACATTGTTTGCTTAGAAACGTCTACTCAAAATTATTTTTTCAGGAG
66 CTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCAAAATTACTTTCTCAGGAG
* *
46626339 CTACTGTAACAAAAGCGCGTCCACGTGGGAGCTTTTTTCAGTACTTCTGCTGACAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTTTTTCAGTACTTCTGCTGACAAAGCATCCTG
*
46626404 CTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTACTTTCTCAGGAG
66 CTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCAAAATTACTTTCTCAGGAG
* *
46626465 CCACTGTAGTAAAAGCGCGTCCAC
1 CTACTGTAGCAAAAGCGCGTCCAC
46626489 ATCGGAGCTT
Statistics
Matches: 139, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 139 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGAAGCTTTTTTCAGTACTTCTGCTGACAAAGCATCCTG
CTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCAAAATTACTTTCTCAGGAG
Found at i:46626636 original size:90 final size:92
Alignment explanation
Indices: 46626535--46626846 Score: 374
Period size: 90 Copynumber: 3.4 Consensus size: 92
46626525 AGTAACCGTA
* * * * * *
46626535 AACCCCAAACCCTAATTTATTTAGGTTTTTACTTAAAAACCCTAAACCCTAAA-CTAAT-TTATT
1 AACCCTAAACCCTAATTTATTTAGATTTTTTCTTAAAAACCCTTAACTCTAAACCTAATCTGATT
* * *
46626598 ATAAATTTATAATTAATTTACTCAAGT
66 TTAAATTTTTAATTAAATTACTCAAGT
* *
46626625 AACCCTGAACCC-AATTTATTT-GA-TTTTTC-TGAAAACCCTTAACTCTAAATCCTAATCTGAT
1 AACCCTAAACCCTAATTTATTTAGATTTTTTCTTAAAAACCCTTAACTCTAAA-CCTAATCTGA-
46626686 TTTTAAATTTTTAATTAAATTACTCAAGT
64 TTTTAAATTTTTAATTAAATTACTCAAGT
*
46626715 AA-CCTCAAA-CCTAGTTTA-TTAGATTTTTTTCTTAAAAACCCTTAACTCTAAATCCTAATCTG
1 AACCCT-AAACCCTAATTTATTTAGA-TTTTTTCTTAAAAACCCTTAACTCTAAA-CCTAATCTG
46626777 ATTTTAAAATTTTTTAATTAAATTACTCAAGT
63 ATTTT-AAA-TTTTTAATTAAATTACTCAAGT
*
46626809 AACCCTAAACCCTAATTTAATTA-ATTTTTTCTTAAAAA
1 AACCCTAAACCCTAATTTATTTAGATTTTTTCTTAAAAA
46626847 TAATAAACAC
Statistics
Matches: 192, Mismatches: 15, Indels: 26
0.82 0.06 0.11
Matches are distributed among these distances:
86 17 0.09
87 5 0.03
88 6 0.03
89 18 0.09
90 47 0.24
92 10 0.05
93 33 0.17
94 41 0.21
95 12 0.06
96 3 0.02
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.40
Consensus pattern (92 bp):
AACCCTAAACCCTAATTTATTTAGATTTTTTCTTAAAAACCCTTAACTCTAAACCTAATCTGATT
TTAAATTTTTAATTAAATTACTCAAGT
Found at i:46626880 original size:94 final size:94
Alignment explanation
Indices: 46626693--46626891 Score: 235
Period size: 94 Copynumber: 2.1 Consensus size: 94
46626683 GATTTTTAAA
* ** *
46626693 TTTTTAATTAAATTACTCAAGTAACCTCAAACCTAGTTTATTAGATTTTTTTCTTAAAAACCCTT
1 TTTTTAATTAAATTACTCAAGTAACCTCAAACCTAATTTATTAGATTTTTTTCTTAAAAACAATA
* * * ** *
46626758 AACTCTAAATCCTAATCTGATTTTAAAAT
66 AACACGAAATACTAATCCAATTTGAAAAT
*
46626787 TTTTTAATTAAATTACTCAAGTAACC-CTAAACCCTAATTTAATTA-A-TTTTTTCTTAAAAATA
1 TTTTTAATTAAATTACTCAAGTAACCTC-AAA-CCTAATTT-ATTAGATTTTTTTCTTAAAAACA
46626849 ATAAACACGAAA-ACTAATCCAATATTGAAAAT
63 ATAAACACGAAATACTAATCCAAT-TTGAAAAT
46626881 TTTTTAATTAA
1 TTTTTAATTAA
46626892 TTTCATTGAT
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
93 9 0.10
94 69 0.77
95 8 0.09
96 4 0.04
ACGTcount: A:0.41, C:0.15, G:0.04, T:0.41
Consensus pattern (94 bp):
TTTTTAATTAAATTACTCAAGTAACCTCAAACCTAATTTATTAGATTTTTTTCTTAAAAACAATA
AACACGAAATACTAATCCAATTTGAAAAT
Found at i:46626984 original size:12 final size:14
Alignment explanation
Indices: 46626967--46627003 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
46626957 AAAACACTAA
46626967 AACCCT-AACC-AT
1 AACCCTAAACCAAT
46626979 AACCCTAAACCAAT
1 AACCCTAAACCAAT
*
46626993 AACCCAAAACC
1 AACCCTAAACC
46627004 CTACCGCAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.49, C:0.41, G:0.00, T:0.11
Consensus pattern (14 bp):
AACCCTAAACCAAT
Found at i:46627666 original size:62 final size:61
Alignment explanation
Indices: 46627576--46627701 Score: 225
Period size: 62 Copynumber: 2.0 Consensus size: 61
46627566 TTGTGAAGTG
46627576 AAATCGACCCATACCCATAATTTTGAACTTCGTAGGAAACATCATAGATAAGATAATAATT
1 AAATCGACCCATACCCATAATTTTGAACTTCGTAGGAAACATCATAGATAAGATAATAATT
* *
46627637 AAATCGACCCATACCCCATAATTTTGAACTTTGTAGGAAACATCATAGATAAGATAGTAATT
1 AAATCGACCCATA-CCCATAATTTTGAACTTCGTAGGAAACATCATAGATAAGATAATAATT
46627699 AAA
1 AAA
46627702 ATTTAGAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 13 0.21
62 49 0.79
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (61 bp):
AAATCGACCCATACCCATAATTTTGAACTTCGTAGGAAACATCATAGATAAGATAATAATT
Found at i:46630540 original size:100 final size:97
Alignment explanation
Indices: 46630429--46630740 Score: 279
Period size: 100 Copynumber: 3.1 Consensus size: 97
46630419 AGCCGTTCTA
* *
46630429 AATGGCACCACCATTTTATTACTAAGGTTTTTTTAAATGTGGTT-TTTTTTCAAATTTAAAAATT
1 AATGGCGCCACCATTCTATTA-TAAGGTTTTTTTAAATGT-GTTATTTTTT--AATTTAAAAATT
* * *
46630493 TTAAAAAATAATATTTTATTTGGTAGATCCATATAG
62 TTAAAAAATAATATTTTATTTGGTGGAGCCATAAAG
** * * * * *
46630529 AATGGCGCCACCAGTATACTATGTATAATATATTTTTAAATCTATTATTTTTTTATTTTAAAA-T
1 AATGGCGCCACCA-T-T-CTAT-TATAAGGTTTTTTTAAATGTGTTATTTTTTAATTTAAAAATT
*
46630593 TTAAAAAATAATATTTTATTTGGTGGAGCTATAAAG
62 TTAAAAAATAATATTTTATTTGGTGGAGCCATAAAG
* * * * * * * * **
46630629 AATGACGCCACCAGTGTACTGTATGGATTTTTTTTATATGTGTTGTTTTTTAATCCAAAAATTTT
1 AATGGCGCCACCATTCTATTATAAGG--TTTTTTTAAATGTGTTATTTTTTAATTTAAAAATTTT
*
46630694 -AAAAATGATATTTTATTTTGGTGGAGCCATAAAG
64 AAAAAATAATATTTTA-TTTGGTGGAGCCATAAAG
*
46630728 AATGGCTCCACCA
1 AATGGCGCCACCA
46630741 CCTTGGTTGT
Statistics
Matches: 169, Mismatches: 34, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
96 3 0.02
97 2 0.01
98 39 0.23
99 31 0.18
100 57 0.34
101 9 0.05
102 3 0.02
103 23 0.14
104 2 0.01
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (97 bp):
AATGGCGCCACCATTCTATTATAAGGTTTTTTTAAATGTGTTATTTTTTAATTTAAAAATTTTAA
AAAATAATATTTTATTTGGTGGAGCCATAAAG
Found at i:46633087 original size:44 final size:43
Alignment explanation
Indices: 46633039--46633191 Score: 182
Period size: 44 Copynumber: 3.5 Consensus size: 43
46633029 GGTGCCACTA
*
46633039 TCCCAGACAGAGTCTTACACATAAATCTCAATTCGATGCCAACG
1 TCCCAGAC-GAGTCTTACACGTAAATCTCAATTCGATGCCAACG
* *
46633083 TCCCAGACGTGGTCTTACACGTAAATCTAAATTCGATGCCAACG
1 TCCCAGACG-AGTCTTACACGTAAATCTCAATTCGATGCCAACG
* * *
46633127 TCCCAGACGTGATCTTACACGTAAATTTCAATAT-GATGCCAATG
1 TCCCAGACGAG-TCTTACACGTAAATCTCAAT-TCGATGCCAACG
* *
46633171 TCCTAGACGTGGTCTTACACG
1 TCCCAGACG-AGTCTTACACG
46633192 ATATCACATA
Statistics
Matches: 96, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
43 2 0.02
44 92 0.96
45 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
TCCCAGACGAGTCTTACACGTAAATCTCAATTCGATGCCAACG
Found at i:46637690 original size:19 final size:20
Alignment explanation
Indices: 46637648--46637690 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
46637638 TCATGCTTTC
*
46637648 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
46637668 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
46637686 TATTC
1 TATTC
46637691 CACAATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:46640042 original size:8 final size:8
Alignment explanation
Indices: 46640029--46640053 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
46640019 ATATATGCTA
46640029 AATAAAAT
1 AATAAAAT
46640037 AATAAAAT
1 AATAAAAT
46640045 AATAAAAT
1 AATAAAAT
46640053 A
1 A
46640054 TCATTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:46646158 original size:42 final size:43
Alignment explanation
Indices: 46646050--46646164 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
46646040 AGCTCGTACA
* * *
46646050 ATGCCAACGTCCCAGACGTGGTCTTACAAGTAATCAAACAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAACAACG
* * * * * *
46646093 ATGCCACTGTCCCAAACAGGGTCTTACATGTAATCATA-TATG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAACAACG
*
46646135 ATGCCAATGTCTCAGACATGGTCTTACATG
1 ATGCCAATGTCCCAGACATGGTCTTACATG
46646165 CAAATCTCAA
Statistics
Matches: 59, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
42 28 0.47
43 31 0.53
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAACAACG
Found at i:46648210 original size:19 final size:19
Alignment explanation
Indices: 46648186--46648323 Score: 58
Period size: 19 Copynumber: 7.2 Consensus size: 19
46648176 TACAGAATAG
46648186 GGGCACTAAAGTGCGAACA
1 GGGCACTAAAGTGCGAACA
* *
46648205 GGGCAC-AAACGTGCAAACG
1 GGGCACTAAA-GTGCGAACA
* * *
46648224 GGGACACTGAATTG-TATACAA
1 GGG-CACTAAAGTGCGA-AC-A
46648245 GGGCACGT--AGTGCGAACA
1 GGGCAC-TAAAGTGCGAACA
46648263 GGGGCAC-AAACGTGC-AA-A
1 -GGGCACTAAA-GTGCGAACA
*
46648281 GGGACACTAAAGTG-TATACA
1 GGG-CACTAAAGTGCGA-ACA
* *
46648301 GGGGTACCAAAGTGCGAACA
1 -GGGCACTAAAGTGCGAACA
46648321 GGG
1 GGG
46648324 GCACAAATGT
Statistics
Matches: 90, Mismatches: 11, Indels: 36
0.66 0.08 0.26
Matches are distributed among these distances:
17 3 0.03
18 12 0.13
19 38 0.42
20 27 0.30
21 10 0.11
ACGTcount: A:0.36, C:0.20, G:0.33, T:0.12
Consensus pattern (19 bp):
GGGCACTAAAGTGCGAACA
Done.