Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 185 of 284
Found at i:62663317 original size:12 final size:12
Alignment explanation
Indices: 62663300--62663325 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62663290 AGCATTCCAT
62663300 GCTCAGAGGTCC
1 GCTCAGAGGTCC
62663312 GCTCAGAGGTCC
1 GCTCAGAGGTCC
62663324 GC
1 GC
62663326 GAGAAAAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.35, G:0.35, T:0.15
Consensus pattern (12 bp):
GCTCAGAGGTCC
Found at i:62674225 original size:22 final size:20
Alignment explanation
Indices: 62674188--62674227 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
62674178 AAGATAAGTC
*
62674188 CAAAAAAGGATAAATCAAAT
1 CAAAAAAGAATAAATCAAAT
62674208 CAAAAAAGAAATAGAATCAA
1 CAAAAAAG-AATA-AATCAA
62674228 CAATTTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.68, C:0.10, G:0.10, T:0.12
Consensus pattern (20 bp):
CAAAAAAGAATAAATCAAAT
Found at i:62687225 original size:20 final size:21
Alignment explanation
Indices: 62687191--62687248 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
62687181 TTTTAAACTA
*
62687191 TTTCCAATCTTTCAAATTAAG-
1 TTTCAAAT-TTTCAAATTAAGT
62687212 TTTCAAATTTTCAAATTAAGT
1 TTTCAAATTTTCAAATTAAGT
62687233 TTTCAAATTTT-AAATT
1 TTTCAAATTTTCAAATT
62687249 CAAATTACTA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 17 0.49
21 18 0.51
ACGTcount: A:0.36, C:0.12, G:0.03, T:0.48
Consensus pattern (21 bp):
TTTCAAATTTTCAAATTAAGT
Found at i:62687238 original size:21 final size:20
Alignment explanation
Indices: 62687200--62687248 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
62687190 ATTTCCAATC
62687200 TTTCAAATTAAGTTTCAAAT
1 TTTCAAATTAAGTTTCAAAT
62687220 TTTCAAATTAAGTTTTCAAAT
1 TTTCAAATTAAG-TTTCAAAT
62687241 TTT-AAATT
1 TTTCAAATT
62687249 CAAATTACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (20 bp):
TTTCAAATTAAGTTTCAAAT
Found at i:62690306 original size:29 final size:29
Alignment explanation
Indices: 62690264--62690329 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
62690254 CAGCTTAGAA
* *
62690264 TCGAGTCTATAGGTACATGCCAATTTAAG
1 TCGACTCTAGAGGTACATGCCAATTTAAG
62690293 TCGACTCTAGAGGTACATGCCAATTTAAG
1 TCGACTCTAGAGGTACATGCCAATTTAAG
*
62690322 TCAACTCT
1 TCGACTCT
62690330 GAGTAGGGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (29 bp):
TCGACTCTAGAGGTACATGCCAATTTAAG
Found at i:62694008 original size:49 final size:49
Alignment explanation
Indices: 62693878--62694010 Score: 169
Period size: 49 Copynumber: 2.7 Consensus size: 49
62693868 GCACATCAAA
* * **
62693878 GTCGATGCCATGTCCCAGACAGGTCTTGCACTAACTTTCATATATCGAG
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACCCTCATATATCGAG
* * * * *
62693927 GCCGATGTCGTGTCCCAGACAGGTCTTACACTGGCCCTCATCTATCG-G
1 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACCCTCATATATCGAG
62693975 TGTCGATGCCATGTCCCAGACAGGTCTTACACTGAC
1 -GTCGATGCCATGTCCCAGACAGGTCTTACACTGAC
62694011 ACACAACAAG
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
48 1 0.01
49 69 0.99
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACAGGTCTTACACTGACCCTCATATATCGAG
Found at i:62694130 original size:46 final size:44
Alignment explanation
Indices: 62694028--62694190 Score: 152
Period size: 46 Copynumber: 3.6 Consensus size: 44
62694018 AAGCTGACAC
* ** * *
62694028 CATGTCCCAGACAGGTCTTACACTAGCTAGTATAA-CT-CGAGG
1 CATGTCCCAGACATGTCTTACACTAGCTCCTATAATGTGCGATG
* * *
62694070 CCGATGTCCCAGACATTTCTTACAGTAGCTCACCTCTCAATGT-CGATG
1 -C-ATGTCCCAGACATGTCTTACACTAGCT--CCTAT-AATGTGCGATG
* *
62694118 CATGTCCCAGACATGTCTTACACTGGCTCTTATAATGTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCCTATAATGT-G-CGATG
62694164 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
62694191 ACACTTATCA
Statistics
Matches: 98, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
44 27 0.28
46 57 0.58
47 3 0.03
48 5 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTAGCTCCTATAATGTGCGATG
Found at i:62704968 original size:55 final size:55
Alignment explanation
Indices: 62704868--62704980 Score: 145
Period size: 55 Copynumber: 2.1 Consensus size: 55
62704858 GTTCAAGCTC
* * * *
62704868 CACGCCCGTGTTAATTTAACAGTTTCAACCACGGGTGTTAGACACGTGCGTGTCG
1 CACGCCCGTGCTAATTTAACAGTTTCAACCACGGGTCTTACACACGGGCGTGTCG
* ** * *
62704923 CACGCCCGTGCTAGTTTCTCAGTTTCAACCACGGGTCTTCCACACGGGTGTGTCG
1 CACGCCCGTGCTAATTTAACAGTTTCAACCACGGGTCTTACACACGGGCGTGTCG
62704978 CAC
1 CAC
62704981 ACCCATGTTG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.19, C:0.30, G:0.25, T:0.27
Consensus pattern (55 bp):
CACGCCCGTGCTAATTTAACAGTTTCAACCACGGGTCTTACACACGGGCGTGTCG
Found at i:62709668 original size:13 final size:13
Alignment explanation
Indices: 62709650--62709678 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
62709640 GGTCATTTAT
62709650 TAAACTAATTAAC
1 TAAACTAATTAAC
62709663 TAAACTAATTAAC
1 TAAACTAATTAAC
62709676 TAA
1 TAA
62709679 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:62719752 original size:42 final size:44
Alignment explanation
Indices: 62719693--62719812 Score: 138
Period size: 42 Copynumber: 2.8 Consensus size: 44
62719683 GTAATTCAGT
* * *
62719693 ATCGATGCCTCTGTCCCAGACAGGGTCTTACACG-A-AA-TCAG
1 ATCGATGCCTATGTCCCAGACACGGTCTTACACGTACAACTCAA
* *
62719734 ATACGATGCCAATGTCCCAGACATGGTCTTACACGTACAACCTCAA
1 AT-CGATGCCTATGTCCCAGACACGGTCTTACACGTACAA-CTCAA
* *
62719780 ATCGAGGCCTGTGTCCCAGACACGGTCTTACAC
1 ATCGATGCCTATGTCCCAGACACGGTCTTACAC
62719813 AATATCTCAG
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.03
42 29 0.44
43 1 0.02
44 2 0.03
45 27 0.41
46 5 0.08
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.22
Consensus pattern (44 bp):
ATCGATGCCTATGTCCCAGACACGGTCTTACACGTACAACTCAA
Found at i:62720328 original size:28 final size:29
Alignment explanation
Indices: 62720286--62720348 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
62720276 CACAACATGT
62720286 TTATTT-CACATTTTTGTCCCCCAAAACA
1 TTATTTGCACATTTTTGTCCCCCAAAACA
*
62720314 TTATTTGCACATTTTTGTCCCCCAAAATA
1 TTATTTGCACATTTTTGTCCCCCAAAACA
62720343 TT-TTTG
1 TTATTTG
62720349 TCCCTCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
28 10 0.30
29 23 0.70
ACGTcount: A:0.25, C:0.24, G:0.06, T:0.44
Consensus pattern (29 bp):
TTATTTGCACATTTTTGTCCCCCAAAACA
Found at i:62722081 original size:54 final size:54
Alignment explanation
Indices: 62722023--62722219 Score: 187
Period size: 54 Copynumber: 3.6 Consensus size: 54
62722013 CAAATTGTAA
* * * *
62722023 AATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAG
1 AATTACCAAATTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAG
*** * * *
62722077 AATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTATAG
1 AATTACCAAATTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAG
* ** * * ** *
62722131 AATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAA
1 AATTACCAAATTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAG
* * * * *
62722185 AATTACTAAAATACCCTTGGTTTAAAAAATTACCA
1 AATTACCAAATTACCCTCGATTTACAAAATTACCA
62722220 AAATACCCTC
Statistics
Matches: 117, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 117 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (54 bp):
AATTACCAAATTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAG
Found at i:62722191 original size:27 final size:27
Alignment explanation
Indices: 62722034--62722190 Score: 215
Period size: 27 Copynumber: 5.8 Consensus size: 27
62722024 ATTACCAAAG
* *
62722034 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
62722061 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
62722088 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
62722115 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
62722142 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
62722169 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
62722191 TAAAATACCC
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:62722199 original size:27 final size:27
Alignment explanation
Indices: 62722169--62722374 Score: 143
Period size: 27 Copynumber: 7.7 Consensus size: 27
62722159 ATTACTGTTT
* *
62722169 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
62722196 TACCCTTGGTTTAAAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
62722223 TACCCTCGA-TCAGTAAAATTACTAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* * * *
62722250 TACCCT-GGTCTATAAAATTGCTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
62722276 TACCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACCAAAA
* *
62722303 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * * *
62722330 TACTACTAG-TTTGTGAAATTACCGAAA
1 TAC-CCTCGATTTATAAAATTACCAAAA
* *
62722357 TACCCTCAATTTGTAAAA
1 TACCCTCGATTTATAAAA
62722375 AAATACCCCT
Statistics
Matches: 143, Mismatches: 27, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
26 23 0.16
27 118 0.83
28 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:62722200 original size:81 final size:81
Alignment explanation
Indices: 62722021--62722219 Score: 272
Period size: 81 Copynumber: 2.5 Consensus size: 81
62722011 CTCAAATTGT
* *
62722021 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTTGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCGT
62722086 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
**** * * * *
62722102 AAAATTACCGTTTTACCCTTGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGT
1 AAAATTACCAAAATACCCTTGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCGT
62722167 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * * *
62722183 AAAATTACTAAAATACCCTTGGTTTAAAAAATTACCA
1 AAAATTACCAAAATACCCTTGATTTATAGAATTACCA
62722220 AAATACCCTC
Statistics
Matches: 100, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 100 1.00
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.37
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCGT
TTTACCCTCGATTTAC
Found at i:62722227 original size:54 final size:54
Alignment explanation
Indices: 62722169--62722332 Score: 190
Period size: 54 Copynumber: 3.1 Consensus size: 54
62722159 ATTACTGTTT
* *
62722169 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTAAAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAA
* * * *
62722223 TACCCTCGA-TCAGTAAAATTACTAAAATACCC-TGGTCTATAAAATTGCTAAAA
1 TACCCTCGATTTA-TAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAA
* * * * *
62722276 TACCC-CTGGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAA
62722330 TAC
1 TAC
62722333 TACTAGTTTG
Statistics
Matches: 91, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
52 1 0.01
53 43 0.47
54 47 0.52
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTTATAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAA
Found at i:62722227 original size:81 final size:81
Alignment explanation
Indices: 62722021--62722308 Score: 231
Period size: 81 Copynumber: 3.6 Consensus size: 81
62722011 CTCAAATTGT
* * * * * *** * *
62722021 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAGAATTACCGT
1 AAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCGATTTACAGAATTACTGT
62722086 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
***** * * * *** *
62722102 AAAATTACCGTTTTACCCTTGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGT
1 AAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCGATTTACAGAATTACTGT
62722167 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* *
62722183 AAAATTACTAAAATACCCTTGGTTTAAAAAATTACCAAAATACCCTCGATCAGTA-A-AATTACT
1 AAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCGAT--TTACAGAATTACT
**** * * *
62722246 AAAATACCCT-GGTCTAT
64 GTTTTACCCTCGATTTAC
* * *
62722263 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCT
1 AAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCT
62722309 TAGTTTGTAA
Statistics
Matches: 171, Mismatches: 34, Indels: 5
0.81 0.16 0.02
Matches are distributed among these distances:
80 46 0.27
81 122 0.71
82 1 0.01
83 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCTCGATTTACAGAATTACTGT
TTTACCCTCGATTTAC
Found at i:62722319 original size:80 final size:80
Alignment explanation
Indices: 62722183--62722332 Score: 212
Period size: 80 Copynumber: 1.9 Consensus size: 80
62722173 CTCGATTTAC
* * *
62722183 AAAATTACTAAAATACCCTTGGTTTAAAAAATTACCAAAATACCCTCGATCAGTAAAATTACTAA
1 AAAATTACTAAAATACCCCTGGTTTAAAAAATTACCAAAATACCCTAGATCAGTAAAATTACCAA
62722248 AATACCCTGGTCTAT
66 AATACCCTGGTCTAT
* ** **
62722263 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTAG-TTTGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTAAAAAATTACCAAAATACCC-TAGATCAGTAAAATTACCA
62722327 AAATAC
65 AAATAC
62722333 TACTAGTTTG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 59 0.97
81 2 0.03
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.29
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTGGTTTAAAAAATTACCAAAATACCCTAGATCAGTAAAATTACCAA
AATACCCTGGTCTAT
Found at i:62722343 original size:54 final size:53
Alignment explanation
Indices: 62722183--62722362 Score: 182
Period size: 54 Copynumber: 3.4 Consensus size: 53
62722173 CTCGATTTAC
* * * * **
62722183 AAAATTACTAAAATACCCTTGGTTTAAAAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCTAG-TTTGT
* * * * * *
62722237 AAAATTACTAAAATACCC-TGGTCTATAAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATA-CCCTAGTTTGT
* *
62722290 AAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACTACTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATAC-CCTAGTTTGT
* *
62722344 GAAATTACCGAAATACCCT
1 AAAATTACCAAAATACCCT
62722363 CAATTTGTAA
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
53 40 0.38
54 66 0.62
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCTAGTTTGT
Found at i:62722454 original size:27 final size:27
Alignment explanation
Indices: 62722421--62722472 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
62722411 TGACTTTCTA
62722421 AAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACT-GAAATACCATTGGTTTAC
*
62722448 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCATTGGTTT
62722473 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGGTTTAC
Found at i:62722553 original size:26 final size:27
Alignment explanation
Indices: 62722513--62722585 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
62722503 AAAAAACTAA
62722513 AATACCCCTATTA-GGTAAAGTGACCGT
1 AATACCCCTA-TAGGGTAAAGTGACCGT
62722540 AA-AGCCCCTATAGGGTAAAGTGACCGT
1 AATA-CCCCTATAGGGTAAAGTGACCGT
* *
62722567 AATACCCCTGTATGGTAAA
1 AATACCCCTATAGGGTAAA
62722586 ATGATGAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (27 bp):
AATACCCCTATAGGGTAAAGTGACCGT
Found at i:62723474 original size:24 final size:25
Alignment explanation
Indices: 62723397--62723467 Score: 92
Period size: 24 Copynumber: 2.9 Consensus size: 25
62723387 GGAGGAAGTG
*
62723397 CAAAAAGGGCTATGCCCCAGTTTA-
1 CAAAAAGGGCTTTGCCCCAGTTTAT
**
62723421 CCGAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAGTTTAT
62723446 CAAAAAGGGCTTT-CCTCCAGTT
1 CAAAAAGGGCTTTGCC-CCAGTT
62723468 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
24 23 0.57
25 17 0.43
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTTAT
Found at i:62723673 original size:42 final size:42
Alignment explanation
Indices: 62723614--62723706 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
62723604 GTAGTCTCCC
* * ** * *
62723614 GAAATAGGCTTGCATACATTCATTGGTATTTCATGTGATATT
1 GAAATGGGCTTGCATACATCCATTGACATTACATGTGACATT
62723656 GAAATGGGCTTGCATACATCCATTGACATTACATGTGACATT
1 GAAATGGGCTTGCATACATCCATTGACATTACATGTGACATT
62723698 GAAATGGGC
1 GAAATGGGC
62723707 CTAAGGGCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (42 bp):
GAAATGGGCTTGCATACATCCATTGACATTACATGTGACATT
Found at i:62723765 original size:31 final size:31
Alignment explanation
Indices: 62723730--62723844 Score: 162
Period size: 31 Copynumber: 3.7 Consensus size: 31
62723720 CGTTTACAGT
*
62723730 AAAGGCTTCGACCCATTGATATGATTTATGA
1 AAAGGCTTCGACCCAGTGATATGATTTATGA
*
62723761 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGACCCAGTGATATGATTTATGA
*
62723792 AAAGGCTTC-AGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGA-CCCAGTGATATGATTTATGA
* *
62723823 AAAGGCTTTGGCCCAGT-ATATG
1 AAAGGCTTCGACCCAGTGATATG
62723845 TCAAGACTAA
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
30 5 0.07
31 71 0.93
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTGATATGATTTATGA
Found at i:62729504 original size:43 final size:43
Alignment explanation
Indices: 62729443--62729558 Score: 139
Period size: 43 Copynumber: 2.7 Consensus size: 43
62729433 AAAGCTCATA
***
62729443 CAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAATAT
62729486 CAATGCC-ACTGTCCCAGACAG-GGTCTTACACAAAATCAAATAT
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACAAAATCAAATAT
* * *
62729529 -GATGCCAACGTCCTAGATGTGGTCTTACAC
1 CAATGCCAACGTCCCAGACGTGGTCTTACAC
62729559 GATAACACAT
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
41 1 0.02
42 24 0.38
43 37 0.59
44 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACAAAATCAAATAT
Found at i:62737495 original size:6 final size:7
Alignment explanation
Indices: 62737476--62737501 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
62737466 TAACGCCCTA
62737476 AATTTTT
1 AATTTTT
62737483 AATTTTT
1 AATTTTT
62737490 AATTTTT
1 AATTTTT
62737497 AATTT
1 AATTT
62737502 CGGGTATGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
AATTTTT
Found at i:62745831 original size:55 final size:56
Alignment explanation
Indices: 62745593--62745870 Score: 366
Period size: 56 Copynumber: 5.0 Consensus size: 56
62745583 TCTTACATGT
* * * * * *
62745593 AATCACATATCGATGCC-AC-TATCCCAAACAGGGTCTTACTCGTAAACACATATCGA
1 AATCACATATCGATGCCAACGTAT--TAAACATGGTCTTACTCGCACACATATATCGG
* *
62745649 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTGCTCGCACACATATATCGG
1 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATATCGG
* * * *
62745705 AATCACATATCGATGCCAACCTATTAAACGTGGTTTTACTCGCACACACATATCGG
1 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATATCGG
* *
62745761 AATCACAAATCGATGCCAACGTATTAAACATGGTCTTACTC-CACACATATTTCGG
1 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATATCGG
* *
62745816 AATCACATACCGATGCCAACGTATTAAACATGGTCTTACTC-CACACATATTTCGG
1 AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATATCGG
62745871 CGTATTAAAC
Statistics
Matches: 200, Mismatches: 20, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
55 65 0.32
56 130 0.65
57 2 0.01
58 3 0.01
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTATTAAACATGGTCTTACTCGCACACATATATCGG
Found at i:62745942 original size:92 final size:92
Alignment explanation
Indices: 62745780--62745958 Score: 272
Period size: 92 Copynumber: 1.9 Consensus size: 92
62745770 TCGATGCCAA
* *
62745780 CGTATTAAACATGGTCTTACTCCACACATATTTCGGAATCACATACCGATGCCAACGTATTAAAC
1 CGTATTAAACATGGTCTTACTCCACACATATATCAGAATCACATACCGATGCCAACGTATTAAAC
62745845 ATGGTCTTACTC-CACACATATTTCGG
66 ATGGTCTTACTCGCACACATATTTCGG
*
62745871 CGTATTAAACATGGTCTTACTCGCACGCACT-TATCAGAATCACATACCGATGCCAACGTATTAA
1 CGTATTAAACATGGTCTTACTC-CACACA-TATATCAGAATCACATACCGATGCCAACGTATTAA
** *
62745935 ATGTGGTCTTACTCGCATACATAT
64 ACATGGTCTTACTCGCACACATAT
62745959 ATCAGAATCA
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
91 22 0.28
92 48 0.61
93 9 0.11
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.30
Consensus pattern (92 bp):
CGTATTAAACATGGTCTTACTCCACACATATATCAGAATCACATACCGATGCCAACGTATTAAAC
ATGGTCTTACTCGCACACATATTTCGG
Found at i:62754183 original size:30 final size:30
Alignment explanation
Indices: 62754147--62754214 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
62754137 ATGTGCTAAG
*
62754147 GCCGTGTCCCCCACAC-AGCTGAGAGACACA
1 GCCGTGTCCCCCACACGA-CTGAGACACACA
62754177 GCCGTGTCCCCCACACGACTGAGACACACA
1 GCCGTGTCCCCCACACGACTGAGACACACA
62754207 GCCGTGTC
1 GCCGTGTC
62754215 TCTGCCTGTG
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 35 0.97
31 1 0.03
ACGTcount: A:0.24, C:0.41, G:0.24, T:0.12
Consensus pattern (30 bp):
GCCGTGTCCCCCACACGACTGAGACACACA
Found at i:62760437 original size:45 final size:45
Alignment explanation
Indices: 62760299--62760470 Score: 166
Period size: 45 Copynumber: 4.0 Consensus size: 45
62760289 ATATCATACA
* * * * *
62760299 ATGCCAATATCCCAGACGTGGTCTTACATGCT-ATCAC-ATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACACGATAATCACAATATCG
* *
62760342 ATGCCACTGTCCCAGAA-AGGGTCTTACACG--AATCA-AATA-CG
1 ATGCCAATGTCCCA-AACATGGTCTTACACGATAATCACAATATCG
* *
62760383 ATGCCAATGTCCCAAACATGGTCTTACATG-TAACCACATATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACACGATAATCACA-ATATCG
*
62760428 ATGCCAATGTCCCAGACATGGTCTTACACGATAA-CAC-ATATCG
1 ATGCCAATGTCCCAAACATGGTCTTACACGATAATCACAATATCG
62760471 GAAATCCTAT
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
40 2 0.02
41 26 0.24
42 11 0.10
43 29 0.27
44 4 0.04
45 33 0.31
46 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (45 bp):
ATGCCAATGTCCCAAACATGGTCTTACACGATAATCACAATATCG
Found at i:62760457 original size:86 final size:84
Alignment explanation
Indices: 62760294--62760458 Score: 224
Period size: 84 Copynumber: 1.9 Consensus size: 84
62760284 CACACATATC
* * * *
62760294 ATACAATGCCAATATCCCAGACGTGGTCTTACATGCTATCACATATCGATGCCACTGTCCCAGAA
1 ATACAATGCCAATATCCCAAACATGGTCTTACATGCTACCACATATCGATGCCAATGTCCCAGAA
62760359 AGGGTCTTACACGAATCAA
66 AGGGTCTTACACGAATCAA
* *
62760378 ATACGATGCCAATGTCCCAAACATGGTCTTACATG-TAACCACATATATCGATGCCAATGTCCCA
1 ATACAATGCCAATATCCCAAACATGGTCTTACATGCT-ACCAC--ATATCGATGCCAATGTCCCA
* *
62760442 GACATGGTCTTACACGA
63 GAAAGGGTCTTACACGA
62760459 TAACACATAT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
83 1 0.01
84 35 0.50
86 34 0.49
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (84 bp):
ATACAATGCCAATATCCCAAACATGGTCTTACATGCTACCACATATCGATGCCAATGTCCCAGAA
AGGGTCTTACACGAATCAA
Found at i:62766786 original size:20 final size:20
Alignment explanation
Indices: 62766761--62766827 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
62766751 ATTTTGATAT
62766761 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
*
62766781 ACATGATATGTACGATATGC
1 ACATGATATGTATGATATGC
62766801 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
62766821 ACATGAT
1 ACATGAT
62766828 GTATTCATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:62766788 original size:11 final size:11
Alignment explanation
Indices: 62766772--62766827 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
62766762 CATGATTGAT
62766772 ATGATATGCAC
1 ATGATATGCAC
*
62766783 ATGATATGTAC
1 ATGATATGCAC
62766794 --GATATGCAC
1 ATGATATGCAC
*
62766803 ATGATATG--T
1 ATGATATGCAC
62766812 ATGATATGCAC
1 ATGATATGCAC
62766823 ATGAT
1 ATGAT
62766828 GTATTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:62766906 original size:26 final size:26
Alignment explanation
Indices: 62766877--62766949 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
62766867 GAGGAAGTGC
*
62766877 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
62766903 AAAAGGGCTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTACCG
*
62766929 AAAAGGGCTTTTACCCCAGTT
1 AAAAGGGCTTTTGCCCCAGTT
62766950 ATTAAAAGAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTACCG
Found at i:62785109 original size:40 final size:40
Alignment explanation
Indices: 62785015--62785159 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
62785005 TACTCGAATG
*
62785015 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
62785056 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
62785096 ATATCCGGGCTAAGTCCCGAAGGTATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
62785136 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
62785160 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:62787613 original size:22 final size:21
Alignment explanation
Indices: 62787588--62787658 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 21
62787578 TCCGGGTGGC
62787588 ATTCTACTAGCCTTTGTGGTGT
1 ATTCTA-TAGCCTTTGTGGTGT
*
62787610 ATTCTGATATGGCCTTTGT-G-GC
1 ATTCT-ATA--GCCTTTGTGGTGT
*
62787632 ATTCTATTAGCCTTTG-GGTAT
1 ATTCTA-TAGCCTTTGTGGTGT
62787653 ATTCTA
1 ATTCTA
62787659 ATATGGCCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
20 8 0.20
21 7 0.17
22 15 0.38
23 2 0.05
24 8 0.20
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.45
Consensus pattern (21 bp):
ATTCTATAGCCTTTGTGGTGT
Found at i:62787675 original size:43 final size:43
Alignment explanation
Indices: 62787583--62787804 Score: 272
Period size: 43 Copynumber: 5.2 Consensus size: 43
62787573 GGGTGTCCGG
** *
62787583 GTGGCATTCTACTAGCCTTTGTGGTGTATTCTGATATGGCCTTT
1 GTGGCATTCTGTTAGCCTTTGTGGT-TATTCTAATATGGCCTTT
*
62787627 GTGGCATTCTATTAGCCTTTG-GGTATATTCTAATATGGCCTTT
1 GTGGCATTCTGTTAGCCTTTGTGGT-TATTCTAATATGGCCTTT
* * * *
62787670 TTGGCATTCTGTTAGCCTTTGTGG-TATGCTGATATTGCCTTT
1 GTGGCATTCTGTTAGCCTTTGTGGTTATTCTAATATGGCCTTT
* *
62787712 GTGGCATTTTGTTAGCCTTTG-GGTATATTCTAATTTGGCCTTT
1 GTGGCATTCTGTTAGCCTTTGTGGT-TATTCTAATATGGCCTTT
* *
62787755 GTGGCATTCTGTTAACCTTTGTGG-TATTCTAATATGGCCTCT
1 GTGGCATTCTGTTAGCCTTTGTGGTTATTCTAATATGGCCTTT
*
62787797 GAGGCATT
1 GTGGCATT
62787805 TTGTCAACTT
Statistics
Matches: 155, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
41 2 0.01
42 57 0.37
43 72 0.46
44 24 0.15
ACGTcount: A:0.15, C:0.17, G:0.23, T:0.45
Consensus pattern (43 bp):
GTGGCATTCTGTTAGCCTTTGTGGTTATTCTAATATGGCCTTT
Found at i:62787729 original size:85 final size:85
Alignment explanation
Indices: 62787583--62787808 Score: 326
Period size: 85 Copynumber: 2.6 Consensus size: 85
62787573 GGGTGTCCGG
** * *
62787583 GTGGCATTCTACTAGCCTTTGTGGTGTATTCTGATATGGCCTTTGTGGCATTCTATTAGCCTTTG
1 GTGGCATTCTGTTAGCCTTTGT-G-GTATTCTGATATGGCCTTTGTGGCATTTTGTTAGCCTTTG
62787648 GGTATATTCTAATATGGCCTTT
64 GGTATATTCTAATATGGCCTTT
* * *
62787670 TTGGCATTCTGTTAGCCTTTGTGGTATGCTGATATTGCCTTTGTGGCATTTTGTTAGCCTTTGGG
1 GTGGCATTCTGTTAGCCTTTGTGGTATTCTGATATGGCCTTTGTGGCATTTTGTTAGCCTTTGGG
*
62787735 TATATTCTAATTTGGCCTTT
66 TATATTCTAATATGGCCTTT
* * * *
62787755 GTGGCATTCTGTTAACCTTTGTGGTATTCTAATATGGCCTCTGAGGCATTTTGT
1 GTGGCATTCTGTTAGCCTTTGTGGTATTCTGATATGGCCTTTGTGGCATTTTGT
62787809 CAACTTTGCG
Statistics
Matches: 124, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
85 104 0.84
86 1 0.01
87 19 0.15
ACGTcount: A:0.15, C:0.16, G:0.23, T:0.45
Consensus pattern (85 bp):
GTGGCATTCTGTTAGCCTTTGTGGTATTCTGATATGGCCTTTGTGGCATTTTGTTAGCCTTTGGG
TATATTCTAATATGGCCTTT
Found at i:62805604 original size:13 final size:13
Alignment explanation
Indices: 62805586--62805622 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
62805576 GTGCAGGGGA
*
62805586 CACACGGCCATAT
1 CACACGACCATAT
62805599 CACACGACCATAT
1 CACACGACCATAT
*
62805612 CACACGCCCAT
1 CACACGACCAT
62805623 GGAGCGGTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.43, G:0.11, T:0.14
Consensus pattern (13 bp):
CACACGACCATAT
Found at i:62809216 original size:30 final size:30
Alignment explanation
Indices: 62809175--62809241 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
62809165 TATACAGGGG
*
62809175 TCACACACCCGTGTGGATAGGCCGTGTGAC
1 TCACACGCCCGTGTGGATAGGCCGTGTGAC
*
62809205 TCACACGCCCGTGTGGGTAGGCCGTGTGAC
1 TCACACGCCCGTGTGGATAGGCCGTGTGAC
62809235 TCACACG
1 TCACACG
62809242 ACCATGTGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.18, C:0.31, G:0.31, T:0.19
Consensus pattern (30 bp):
TCACACGCCCGTGTGGATAGGCCGTGTGAC
Found at i:62810489 original size:24 final size:23
Alignment explanation
Indices: 62810460--62810513 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
62810450 CCTTGTAACA
*
62810460 GGAAGCTCACACAGAGCCATT-TCG
1 GGAAGCTCACAAAGAG-C-TTATCG
*
62810484 GGAAGCTCATAAAGAGCTTATCG
1 GGAAGCTCACAAAGAGCTTATCG
62810507 GGAAGCT
1 GGAAGCT
62810514 TAATCGAGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 11 0.41
24 14 0.52
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (23 bp):
GGAAGCTCACAAAGAGCTTATCG
Found at i:62810511 original size:23 final size:23
Alignment explanation
Indices: 62810481--62810560 Score: 67
Period size: 23 Copynumber: 3.3 Consensus size: 23
62810471 CAGAGCCATT
62810481 TCGGGAAGCTCATAAAGAGCTTA
1 TCGGGAAGCTCATAAAGAGCTTA
*
62810504 TCGGGAAGCT--TAATCGAGCTATA
1 TCGGGAAGCTCATAA-AGAGCT-TA
*
62810527 TAACGGGAAGCTCAT-AAGAGGCATAA
1 T--CGGGAAGCTCATAAAGA-GC-TTA
62810553 TCGGGAAG
1 TCGGGAAG
62810561 TTCACAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
21 3 0.07
22 5 0.11
23 13 0.28
24 7 0.15
25 11 0.24
26 5 0.11
27 2 0.04
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.20
Consensus pattern (23 bp):
TCGGGAAGCTCATAAAGAGCTTA
Found at i:62816561 original size:43 final size:43
Alignment explanation
Indices: 62816502--62816584 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
62816492 GAGTTATGTG
* * * *
62816502 GCATCCGAGCTTGTTGAGAGGTCTGAGTTCATTATTGATGCAA
1 GCATCCGAGCTCGTTGAAAGGTCCGAGTTCATTATGGATGCAA
*
62816545 GCATTCGAGCTCGTTGAAAGGTCCGAGTTCATTATGGATG
1 GCATCCGAGCTCGTTGAAAGGTCCGAGTTCATTATGGATG
62816585 TGTTACATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAAAGGTCCGAGTTCATTATGGATGCAA
Found at i:62819627 original size:23 final size:23
Alignment explanation
Indices: 62819584--62819628 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
62819574 TCTTTATCAT
* *
62819584 AATTAAATTAATCATGCAAAAAA
1 AATTAAATTAAACAAGCAAAAAA
62819607 AATTAAATTAACACAAG-AAAAA
1 AATTAAATTAA-ACAAGCAAAAA
62819629 GATAGGAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.64, C:0.09, G:0.04, T:0.22
Consensus pattern (23 bp):
AATTAAATTAAACAAGCAAAAAA
Found at i:62819856 original size:21 final size:21
Alignment explanation
Indices: 62819818--62819857 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
62819808 AAAATATAAA
* **
62819818 ACTAAATTAAAATTCTAAACT
1 ACTAAACTAAAACCCTAAACT
62819839 ACTAAACTAAAACCCTAAA
1 ACTAAACTAAAACCCTAAA
62819858 AAGGCTTGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (21 bp):
ACTAAACTAAAACCCTAAACT
Found at i:62821867 original size:48 final size:47
Alignment explanation
Indices: 62821756--62821963 Score: 206
Period size: 46 Copynumber: 4.4 Consensus size: 47
62821746 TGTGCTAGTG
* * * *
62821756 TAAGACATGTCTGGGACATGCATCGGCCAC-A-TTATGAGAGTCAGTA
1 TAAGACATGTCTGGGACATGCATCGGCCTCGAGATAT-AAAGCCAGTA
*
62821802 TAAGACATGTCTGGGACATGCATTGGCCTCGAGATATACAAGCCAGTA
1 TAAGACATGTCTGGGACATGCATCGGCCTCGAGATATA-AAGCCAGTA
* * ** * * *
62821850 TAAGACATGTCTGGGACATGCATCGGCATTGAGA-CGAGAGCTAGTG
1 TAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAGCCAGTA
* * *
62821896 TAAGACATGTCTGGGACATGCATCGGCCTCGAGATCTACAAGCTAGTG
1 TAAGACATGTCTGGGACATGCATCGGCCTCGAGATATA-AAGCCAGTA
* * *
62821944 TAAGACCTGTTTGAGACATG
1 TAAGACATGTCTGGGACATG
62821964 GTGTCAGTGT
Statistics
Matches: 137, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
46 66 0.48
47 5 0.04
48 66 0.48
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (47 bp):
TAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAGCCAGTA
Found at i:62821901 original size:94 final size:92
Alignment explanation
Indices: 62821756--62821963 Score: 267
Period size: 94 Copynumber: 2.2 Consensus size: 92
62821746 TGTGCTAGTG
*
62821756 TAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGTCAGTATAAGACATGTCTGGGACAT
1 TAAGACATGTCTGGGACATGCATCGG-C-CATTACGAGAGTCAGTATAAGACATGTCTGGGACAT
*
62821821 GCATTGGCCTCGAGATATACAAGCCAGTA
64 GCATCGGCCTCGAGATATACAAGCCAGTA
*
62821850 TAAGACATGTCTGGGACATGCATCGG-CATTGAGACGAGAG-CTAGTGTAAGACATGTCTGGGAC
1 TAAGACATGTCTGGGACATGCATCGGCCATT---ACGAGAGTC-AGTATAAGACATGTCTGGGAC
* * *
62821913 ATGCATCGGCCTCGAGATCTACAAGCTAGTG
62 ATGCATCGGCCTCGAGATATACAAGCCAGTA
* * *
62821944 TAAGACCTGTTTGAGACATG
1 TAAGACATGTCTGGGACATG
62821964 GTGTCAGTGT
Statistics
Matches: 101, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
91 4 0.04
93 1 0.01
94 96 0.95
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (92 bp):
TAAGACATGTCTGGGACATGCATCGGCCATTACGAGAGTCAGTATAAGACATGTCTGGGACATGC
ATCGGCCTCGAGATATACAAGCCAGTA
Found at i:62822053 original size:49 final size:49
Alignment explanation
Indices: 62821977--62822106 Score: 138
Period size: 49 Copynumber: 2.7 Consensus size: 49
62821967 TCAGTGTGTT
* * *
62821977 AGTGTAAGACCTG-TTAGGGATATGGCATCGACAC-CAATAGATGAGAGCC
1 AGTGTAAGACTTGTTTA-GGACATGGCATCGAC-CTCAATAGATGAAAGCC
* * * * *
62822026 AGTGTAAGACTTGTTTAGGACACGGCATCGGCCTCGATATATGAAAGTC
1 AGTGTAAGACTTGTTTAGGACATGGCATCGACCTCAATAGATGAAAGCC
* *
62822075 AGTGTAAGACTTGTCTGGGACATGGCATCGAC
1 AGTGTAAGACTTGTTTAGGACATGGCATCGAC
62822107 TTTGATGTGC
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 63 0.94
50 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACTTGTTTAGGACATGGCATCGACCTCAATAGATGAAAGCC
Found at i:62824638 original size:43 final size:43
Alignment explanation
Indices: 62824590--62824675 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
62824580 GGCATAAAAA
*
62824590 ATAATTTTGAAAACTTTAATAATTAAATTGTATTTTTTTAAGT
1 ATAATTTTAAAAACTTTAATAATTAAATTGTATTTTTTTAAGT
*
62824633 ATAATTTTAAAAACTTTAATGATTAAATTGTATTTTTTTAAGT
1 ATAATTTTAAAAACTTTAATAATTAAATTGTATTTTTTTAAGT
62824676 TAAGTGAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (43 bp):
ATAATTTTAAAAACTTTAATAATTAAATTGTATTTTTTTAAGT
Found at i:62830094 original size:58 final size:61
Alignment explanation
Indices: 62830032--62830165 Score: 170
Period size: 61 Copynumber: 2.2 Consensus size: 61
62830022 AATCACTTTA
* *
62830032 ATATTAGATTAATATAATACTTA-T-CAAGATAAATATTAGATTTATTTTAATATTA-AAT
1 ATATTAGATTAATATAATACTTACTACAAGATAAATATTAAATTTAATTTAATATTATAAT
* *
62830090 ATATT-GAATTAATAGAATACTTATCTACAAGATAAATATTAAATTTAATTTAATATTATGAT
1 ATATTAG-ATTAATATAATACTTA-CTACAAGATAAATATTAAATTTAATTTAATATTATAAT
*
62830152 A-ATTAGTTTAATAT
1 ATATTAGATTAATAT
62830166 TAAATTAATA
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
57 1 0.02
58 20 0.31
60 1 0.02
61 38 0.59
62 4 0.06
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (61 bp):
ATATTAGATTAATATAATACTTACTACAAGATAAATATTAAATTTAATTTAATATTATAAT
Found at i:62832072 original size:43 final size:43
Alignment explanation
Indices: 62832020--62832245 Score: 290
Period size: 43 Copynumber: 5.3 Consensus size: 43
62832010 CCGTTAAAAG
* * *
62832020 TGGCCTTTAGCGGCGTTTGTGTGAGAAGTGCCGCTAAAAGTCA
1 TGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAAGTCA
* * *
62832063 TGGCCTTTAGCAGCGTTTGTGGGAGAAGCGTCGCTAAAAGTCA
1 TGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAAGTCA
* * ** * *
62832106 TGGCTTTTAACGGCATTTGTGATAGAGGCGCCGCTAATAGTCA
1 TGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAAGTCA
**
62832149 TGGCTTTTAATGGCGTTTGTGGGAGAAGCGCCGCTAAAAGTCA
1 TGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAAGTCA
* * *
62832192 TGGCTTTTAGAGGTGTTTGTGGTAGAAGCGCCGCTAAAAGTCA
1 TGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAAGTCA
*
62832235 CGGCTTTTAGC
1 TGGCTTTTAGC
62832246 AGCACTTTTT
Statistics
Matches: 158, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 158 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (43 bp):
TGGCTTTTAGCGGCGTTTGTGGGAGAAGCGCCGCTAAAAGTCA
Found at i:62832365 original size:31 final size:31
Alignment explanation
Indices: 62832323--62832418 Score: 149
Period size: 31 Copynumber: 3.1 Consensus size: 31
62832313 CACCTTTTTT
*
62832323 GCATTAAATCCAACCAATAACAGCAAATATA
1 GCATGAAATCCAACCAATAACAGCAAATATA
*
62832354 GCATGAAATCCAACCAATAACAACAAATATA
1 GCATGAAATCCAACCAATAACAGCAAATATA
* *
62832385 GCATGAAATCCAACCAA-AAAAGCAAATGTA
1 GCATGAAATCCAACCAATAACAGCAAATATA
62832415 GCAT
1 GCAT
62832419 AAAAATTAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 14 0.23
31 46 0.77
ACGTcount: A:0.52, C:0.22, G:0.09, T:0.17
Consensus pattern (31 bp):
GCATGAAATCCAACCAATAACAGCAAATATA
Found at i:62837932 original size:50 final size:51
Alignment explanation
Indices: 62837843--62837964 Score: 165
Period size: 50 Copynumber: 2.4 Consensus size: 51
62837833 GACCATGACA
* * *
62837843 ACAAGTGATAAGTGATAGTTTCAGCTACATTTATCTGATCAAGGACAAGTG
1 ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATG
* * *
62837894 A-AAGTGATAAGTGATAGCTTCGGTTACACTTATTTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATG
* *
62837944 ACAAGTGAAAAGTGGTAGCTT
1 ACAAGTGATAAGTGATAGCTT
62837965 TGGCTACCTG
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 44 0.71
51 18 0.29
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATG
Found at i:62837985 original size:31 final size:31
Alignment explanation
Indices: 62837947--62838092 Score: 222
Period size: 31 Copynumber: 4.7 Consensus size: 31
62837937 ACAAATGACA
*
62837947 AGTGAAAAGTGGTAGCTTTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
62837978 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
62838009 AGTGAAAAGTGGTAGCTTTGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
62838040 AGTGAAAAATGGTAGCTTCAGCTGA-CTGATC
1 AGTGAAAAGTGGTAGCTTCGGCT-ACCTGATC
*
62838071 AGTGAATAGTGGTAGCTTCGGC
1 AGTGAAAAGTGGTAGCTTCGGC
62838093 CACAAGTGAT
Statistics
Matches: 104, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
31 103 0.99
32 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:62838167 original size:47 final size:47
Alignment explanation
Indices: 62838113--62838221 Score: 146
Period size: 47 Copynumber: 2.3 Consensus size: 47
62838103 AAGTTATTTC
*
62838113 TGTGTAAGATCATATCTAGGATATGGCATCAGAGTGATATGTGCATT
1 TGTGTAAGACCATATCTAGGATATGGCATCAGAGTGATATGTGCATT
* * * * *
62838160 TGTGTAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGTATA
1 TGTGTAAGACCATATCTAGGATATGGCATCAGAGTGATATGTGCATT
*
62838207 AGATGTAAGACCATA
1 TG-TGTAAGACCATA
62838222 GCGGGGCTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 42 0.78
48 12 0.22
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.32
Consensus pattern (47 bp):
TGTGTAAGACCATATCTAGGATATGGCATCAGAGTGATATGTGCATT
Found at i:62838233 original size:48 final size:47
Alignment explanation
Indices: 62838131--62838236 Score: 131
Period size: 47 Copynumber: 2.2 Consensus size: 47
62838121 ATCATATCTA
** * *
62838131 GGATATGGCATCAGAGTGATATGTGCATTTGTGTAAGACCATATCTG
1 GGATATGGCATCAGAGTGATATGTGCATAAGTGTAAGACCATAGCGG
* * *
62838178 GGATATGGCATCGGTGTGATATGTGTATAAGATGTAAGACCATAGCGG
1 GGATATGGCATCAGAGTGATATGTGCATAAG-TGTAAGACCATAGCGG
*
62838226 GGCTATGGCAT
1 GGATATGGCAT
62838237 TTTAGTAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
47 26 0.52
48 24 0.48
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.29
Consensus pattern (47 bp):
GGATATGGCATCAGAGTGATATGTGCATAAGTGTAAGACCATAGCGG
Found at i:62841218 original size:9 final size:9
Alignment explanation
Indices: 62841204--62841397 Score: 248
Period size: 9 Copynumber: 21.7 Consensus size: 9
62841194 TAAGTATAAT
*
62841204 TAAGTTATA
1 TAAGTTATG
62841213 TAAGTTATG
1 TAAGTTATG
62841222 -ATA-TTATG
1 TA-AGTTATG
*
62841230 TAAGTTATA
1 TAAGTTATG
*
62841239 AAAGTTATG
1 TAAGTTATG
*
62841248 TAAGTTCTG
1 TAAGTTATG
62841257 TAAGTTATG
1 TAAGTTATG
*
62841266 TGAGTTATG
1 TAAGTTATG
*
62841275 TGAGTTATG
1 TAAGTTATG
62841284 TAAGTTATG
1 TAAGTTATG
*
62841293 TAAGTTATA
1 TAAGTTATG
62841302 TAAGTTATG
1 TAAGTTATG
62841311 TAAGTTATG
1 TAAGTTATG
**
62841320 TGGGTTATG
1 TAAGTTATG
62841329 TAAGTTATG
1 TAAGTTATG
62841338 TAAGTTATG
1 TAAGTTATG
*
62841347 TAAGTTATA
1 TAAGTTATG
*
62841356 TAAGTTATA
1 TAAGTTATG
62841365 TAAGTTATG
1 TAAGTTATG
*
62841374 TGAGTTATG
1 TAAGTTATG
*
62841383 TGAGTTATG
1 TAAGTTATG
62841392 TAAGTT
1 TAAGTT
62841398 CAAGTATATA
Statistics
Matches: 163, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
8 7 0.04
9 156 0.96
ACGTcount: A:0.33, C:0.01, G:0.22, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:62841688 original size:29 final size:28
Alignment explanation
Indices: 62841654--62841720 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 28
62841644 ATCACATGAA
*
62841654 AAAAAATTATTTTAATTAAATAATATTT
1 AAAAAATTATATTAATTAAATAATATTT
*
62841682 ATAAAAATTATATTAATTTAATAATATTT
1 A-AAAAATTATATTAATTAAATAATATTT
62841711 AAATAAATTA
1 AAA-AAATTA
62841721 ATCCAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
AAAAAATTATATTAATTAAATAATATTT
Found at i:62841719 original size:20 final size:19
Alignment explanation
Indices: 62841667--62841719 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
62841657 AAATTATTTT
62841667 AATTAAATAATATTTATAAA
1 AATTAAATAA-ATTTATAAA
* * *
62841687 AATTATATTAATTTAATAAT
1 AATTAAATAAATTT-ATAAA
*
62841707 ATTTAAATAAATT
1 AATTAAATAAATT
62841720 AATCCAAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTAAATAAATTTATAAA
Found at i:62843932 original size:14 final size:13
Alignment explanation
Indices: 62843913--62843951 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
62843903 AAATTTAGGG
62843913 TTAGGGAGAAAATT
1 TTAGGG-GAAAATT
*
62843927 TTAGGGGGAAATT
1 TTAGGGGAAAATT
62843940 TTAAGGGGAAAA
1 TT-AGGGGAAAA
62843952 CACTTAAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.26
Consensus pattern (13 bp):
TTAGGGGAAAATT
Found at i:62844631 original size:262 final size:261
Alignment explanation
Indices: 62844102--62844663 Score: 722
Period size: 262 Copynumber: 2.1 Consensus size: 261
62844092 CTCACATATT
* * * *
62844102 ACACATATTTGCGGCATTTTTGACCAAAA-TGCCGGTAATGCATAGCCTATTGCAACGTTTTAGA
1 ACACATATTTGCGACGTTTTTGACTAAAACT-CCGGTAATGCATAGCCTATTACAACGTTTTAGA
** * *
62844166 ACAAACGCCACTAACAACAAAGATAAAACAACATTGTTTTTAGGACTTGTAATACACTTTGTGGC
65 ACAAACGCCACTAACAACAAAGATAAAACAACATCATTTTTAGGACTTGTAATACACTTGGCGGC
* * *
62844231 GTTTCATGGAAGCGCCACTAAATAAAAAGTATAAAACGTCGCCGTTTTGCTAACTACTTATCACA
130 GTTTCATGGAAGCGCCACTAAATAAAAAGCATAAAACGTCACCGTTTTGCTAACCACTTATCACA
* * * *
62844296 TTTTGCGGCGTTTTTAGTAAACACCACTAATACCAATGGTAAAACGTGGCCATTTTACTCACACA
195 TTTTGCGACGTTTTTAGTAAACACCACTAATAACAATGGTAAAACGTGGCCATTTTACTAAAACA
*
62844361 TT
260 TA
* * **
62844363 ACACATATTTGCAACGTTTTTGACTAAAACTCTGGTAATGCATAGCCTATTACGGCGTTTT-GAA
1 ACACATATTTGCGACGTTTTTGACTAAAACTCCGGTAATGCATAGCCTATTACAACGTTTTAG-A
* * * *
62844427 ACAAACGTCACTAACAGCAAGGATAAAACGACATCATTTTTAGGACTTGTAATGTACA-TTGGCG
65 ACAAACGCCACTAACAACAAAGATAAAACAACATCATTTTTAGGACTTGTAA--TACACTTGGCG
* * *
62844491 GTGTTTTATGGAAGCGCCACTAAATGAAAAGCATAAAACGTCACCGTTTTGCTAACCACTTATCA
128 GCGTTTCATGGAAGCGCCACTAAATAAAAAGCATAAAACGTCACCGTTTTGCTAACCACTTATCA
* * *
62844556 CATTTTGCGACGTTTTTAGTAAACGCCACTGATAACAATGGTAAAACGAT-GCCGTTTTA-TGAA
193 CATTTTGCGACGTTTTTAGTAAACACCACTAATAACAATGGTAAAACG-TGGCCATTTTACT-AA
*
62844619 AACCTA
256 AACATA
* *
62844625 ACACATATTTGTGACGTTTTCTG-CTAAAACGCCGGTAAT
1 ACACATATTTGCGACGTTTT-TGACTAAAACTCCGGTAAT
62844664 AAATATGATA
Statistics
Matches: 259, Mismatches: 35, Indels: 13
0.84 0.11 0.04
Matches are distributed among these distances:
260 1 0.00
261 99 0.38
262 152 0.59
263 7 0.03
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (261 bp):
ACACATATTTGCGACGTTTTTGACTAAAACTCCGGTAATGCATAGCCTATTACAACGTTTTAGAA
CAAACGCCACTAACAACAAAGATAAAACAACATCATTTTTAGGACTTGTAATACACTTGGCGGCG
TTTCATGGAAGCGCCACTAAATAAAAAGCATAAAACGTCACCGTTTTGCTAACCACTTATCACAT
TTTGCGACGTTTTTAGTAAACACCACTAATAACAATGGTAAAACGTGGCCATTTTACTAAAACAT
A
Found at i:62844901 original size:26 final size:27
Alignment explanation
Indices: 62844872--62844946 Score: 118
Period size: 26 Copynumber: 2.9 Consensus size: 27
62844862 AAGAATTAGA
*
62844872 TAAAATTTGAAATATTGAAAATTATT-
1 TAAAATTTGAAATCTTGAAAATTATTC
62844898 TAAAATTTGAAATCTTGAAAATTATTC
1 TAAAATTTGAAATCTTGAAAATTATTC
*
62844925 T-AAATTTGAAATCTTTAAAATT
1 TAAAATTTGAAATCTTGAAAATT
62844947 TGAAATTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 45 0.98
27 1 0.02
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.43
Consensus pattern (27 bp):
TAAAATTTGAAATCTTGAAAATTATTC
Found at i:62845106 original size:7 final size:7
Alignment explanation
Indices: 62845096--62845120 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
62845086 CTATCACATT
62845096 AACCCTA
1 AACCCTA
62845103 AACCCTA
1 AACCCTA
62845110 AACCCTA
1 AACCCTA
62845117 AACC
1 AACC
62845121 TTACATCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.12
Consensus pattern (7 bp):
AACCCTA
Found at i:62845152 original size:7 final size:7
Alignment explanation
Indices: 62845136--62845221 Score: 55
Period size: 7 Copynumber: 11.9 Consensus size: 7
62845126 TCATAGCCTT
62845136 TAAACCA
1 TAAACCA
*
62845143 TAAACTA
1 TAAACCA
* *
62845150 TAATCCC
1 TAAACCA
62845157 TAAACCCA
1 TAAA-CCA
* *
62845165 TAATCCT
1 TAAACCA
62845172 TAAACCGA
1 TAAACC-A
*
62845180 TAATCCA
1 TAAACCA
*
62845187 TAAACCT
1 TAAACCA
**
62845194 TAAAATA
1 TAAACCA
*
62845201 TTAACTCA
1 TAAAC-CA
62845209 TAAACCA
1 TAAACCA
62845216 TAAACC
1 TAAACC
62845222 CCTAACCTAT
Statistics
Matches: 56, Mismatches: 20, Indels: 6
0.68 0.24 0.07
Matches are distributed among these distances:
7 41 0.73
8 15 0.27
ACGTcount: A:0.48, C:0.27, G:0.01, T:0.24
Consensus pattern (7 bp):
TAAACCA
Found at i:62845169 original size:15 final size:15
Alignment explanation
Indices: 62845140--62845192 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
62845130 AGCCTTTAAA
*
62845140 CCATAAA-CTATAAT
1 CCATAAACCCATAAT
*
62845154 CCCTAAACCCATAAT
1 CCATAAACCCATAAT
* *
62845169 CCTTAAACCGATAAT
1 CCATAAACCCATAAT
62845184 CCATAAACC
1 CCATAAACC
62845193 TTAAAATATT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
14 6 0.18
15 27 0.82
ACGTcount: A:0.43, C:0.32, G:0.02, T:0.23
Consensus pattern (15 bp):
CCATAAACCCATAAT
Found at i:62850840 original size:26 final size:26
Alignment explanation
Indices: 62850810--62850919 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
62850800 TGAAATTCCC
62850810 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
62850836 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
62850862 ATCATGAAACATTTACCTAACCCACATT
1 ATCATGGAACATTTACCTAA-CC-CATT
62850890 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
62850916 ATCA
1 ATCA
62850920 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
26 53 0.66
27 4 0.05
28 23 0.29
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:62850908 original size:54 final size:52
Alignment explanation
Indices: 62850810--62850919 Score: 193
Period size: 54 Copynumber: 2.1 Consensus size: 52
62850800 TGAAATTCCC
*
62850810 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
62850862 ATCATGAAACATTTACCTAACCCACATTATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAA-CC-CATTATCATGGAACATTTACCTAACCCATT
62850916 ATCA
1 ATCA
62850920 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
52 19 0.35
53 2 0.04
54 34 0.62
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.30
Consensus pattern (52 bp):
ATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
Found at i:62877085 original size:68 final size:67
Alignment explanation
Indices: 62876909--62877085 Score: 210
Period size: 68 Copynumber: 2.6 Consensus size: 67
62876899 CAGGATAGTT
* ***
62876909 AACATGGGATCATAATGTGTAAGACCATAGCTAGGATATGGAAACAAATGGAGTTTTCCAAGACA
1 AACATGGGTTCATAATGTGTAAGACCATAGCTAGGATAT-GAAACAAATGGAGTCCGCCAAGACA
62876974 TTA
65 TTA
* * * * * *
62876977 AACCTGGGTTAATAATGTGTAAGACCATAGCTAGGCTATGACAACATATGGAGTCCGCTAGGACA
1 AACATGGGTTCATAATGTGTAAGACCATAGCTAGGATATGA-AACAAATGGAGTCCGCCAAGACA
62877042 TTA
65 TTA
* * * *
62877045 AACATGGGTTCGTATTGTGTAAGGCCATAGCTGGGATATGA
1 AACATGGGTTCATAATGTGTAAGACCATAGCTAGGATATGA
62877086 TAATAGAAAT
Statistics
Matches: 91, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
67 2 0.02
68 89 0.98
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (67 bp):
AACATGGGTTCATAATGTGTAAGACCATAGCTAGGATATGAAACAAATGGAGTCCGCCAAGACAT
TA
Found at i:62883260 original size:13 final size:13
Alignment explanation
Indices: 62883242--62883267 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62883232 TTGGGTCAAT
62883242 TTGGTACTTAAGC
1 TTGGTACTTAAGC
62883255 TTGGTACTTAAGC
1 TTGGTACTTAAGC
62883268 AGCCTTCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
TTGGTACTTAAGC
Found at i:62892581 original size:80 final size:80
Alignment explanation
Indices: 62892448--62892759 Score: 552
Period size: 80 Copynumber: 3.9 Consensus size: 80
62892438 ATTTGAATGA
*
62892448 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGAACCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
62892513 TTGTGCTAGTGATTT
66 TTGTGCTAGTGATTT
62892528 TATCCGGGCTAAGAACCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGAACCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
62892593 TTGTGCTAGTGATTT
66 TTGTGCTAGTGATTT
*
62892608 TATCCGGGCTAAGAACCGAAGGCATTTGTGCGAATTGCTATACCTGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGAACCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
62892673 TTGTGCTAGTGATTT
66 TTGTGCTAGTGATTT
* * * * * *
62892688 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGCTAAGAACCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
62892753 TTGTGCT
66 TTGTGCT
62892760 TGTGGTTATA
Statistics
Matches: 223, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 223 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGAACCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACCCGAAGGCAA
TTGTGCTAGTGATTT
Found at i:62892770 original size:40 final size:40
Alignment explanation
Indices: 62892447--62892778 Score: 344
Period size: 40 Copynumber: 8.3 Consensus size: 40
62892437 CATTTGAATG
* * *
62892447 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * * * *
62892487 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * * * *
62892527 TTATCCGGGCTAAGAACCGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * * * *
62892567 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * * * *
62892607 TTATCCGGGCTAAGAACCGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * * *
62892647 ATA-CCTGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCC-GGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
* * *
62892687 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
**
62892727 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
*
62892767 ATATGC-GGCTAA
1 ATATCCGGGCTAA
62892779 ATTCCGAAGA
Statistics
Matches: 230, Mismatches: 60, Indels: 5
0.78 0.20 0.02
Matches are distributed among these distances:
39 8 0.03
40 220 0.96
41 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGGTT
Found at i:62894990 original size:40 final size:40
Alignment explanation
Indices: 62894896--62895080 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
62894886 TATTCGAATG
*
62894896 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
62894937 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
62894977 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
62895017 ATATCCGAGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
62895057 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
62895081 CTTGCGCAAG
Statistics
Matches: 118, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.01
40 87 0.74
41 29 0.25
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:62895071 original size:80 final size:81
Alignment explanation
Indices: 62894898--62895080 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
62894888 TTCGAATGAT
* * *
62894898 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGCAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGCAT
* * *
62894963 TCGTGCGAGTTGCTAT
66 TCATGCGAGTTGCCAC
* *
62894979 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGATTATATCC-GAGCTAAG-TCCCGAAGGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGA-CTAAGAT-CCGAAGGC
* *
62895041 ATTTATGCTAG-TGACCAC
64 ATTCATGCGAGTTG-CCAC
62895059 ATCCGGGCTAAGACCCGAAGGC
1 ATCCGGGCTAAGACCCGAAGGC
62895081 CTTGCGCAAG
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
79 5 0.06
80 54 0.61
81 30 0.34
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (81 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGCAT
TCATGCGAGTTGCCAC
Found at i:62897051 original size:11 final size:11
Alignment explanation
Indices: 62897035--62897072 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
62897025 AAATGATTTG
62897035 ACATGATATGC
1 ACATGATATGC
62897046 ACATGATATG-
1 ACATGATATGC
*
62897056 -TATGATATGC
1 ACATGATATGC
62897066 ACATGAT
1 ACATGAT
62897073 GTATTCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:62897203 original size:25 final size:26
Alignment explanation
Indices: 62897129--62897191 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
62897119 AAAAGGGATA
* * *
62897129 TGCCCCAGTTTACCGAAACGGGCTGT
1 TGCCCCAGTTTATCAAAAAGGGCTGT
*
62897155 TGCCCCAGTTTATCAAAAAGGGCTTT
1 TGCCCCAGTTTATCAAAAAGGGCTGT
62897181 TGCCCCAGTTT
1 TGCCCCAGTTT
62897192 TTAAAAGAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (26 bp):
TGCCCCAGTTTATCAAAAAGGGCTGT
Found at i:62898669 original size:39 final size:40
Alignment explanation
Indices: 62898598--62898742 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
62898588 GCTCCTCGTT
* *
62898598 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
62898638 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
62898677 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
62898718 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62898743 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 44 0.49
41 12 0.13
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:62907516 original size:31 final size:31
Alignment explanation
Indices: 62907478--62907561 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
62907468 TCGTTACAGT
62907478 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
62907509 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
62907540 GAAGGCTTCGACCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
62907562 CTGAGATTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:62911454 original size:40 final size:40
Alignment explanation
Indices: 62911335--62911495 Score: 198
Period size: 40 Copynumber: 4.0 Consensus size: 40
62911325 CGGATGATAA
* * *
62911335 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * * *
62911375 CCGGGCTATGACCCAAAGGCATTTATGCTAG-CGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
62911415 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
62911455 CCGGGCTCAGACCTGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
62911495 C
1 C
62911496 TGGTTAAATC
Statistics
Matches: 101, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:62911495 original size:80 final size:80
Alignment explanation
Indices: 62911335--62911485 Score: 223
Period size: 80 Copynumber: 1.9 Consensus size: 80
62911325 CGGATGATAA
*
62911335 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGACCCAAAGGCATTTA
1 CCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGACCCAAAGGCATTTA
*
62911400 TGCTAGCGATTATAT
66 TGCGAGCGATTATAT
* * **
62911415 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTCA-GACCTGAAGGCATTT
1 CCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCT-ATGACCCAAAGGCATTT
*
62911479 GTGCGAG
65 ATGCGAG
62911486 TTGTTATATC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
80 62 0.98
81 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGCTATATCCGGGCTATGACCCAAAGGCATTTA
TGCGAGCGATTATAT
Found at i:62919683 original size:40 final size:40
Alignment explanation
Indices: 62919604--62919767 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
62919594 CGGATGATAA
* * * *
62919604 CCGGACTAAGATCCGAAGGCA-TTCGAGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTC-TGCGAGTCGCTATAT
* * * *
62919644 CTGGGCTATGACCCGAAGGCATTTCTGCTAG-CGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTCTGCGAGTCG-CTATAT
* *
62919684 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTCTGCGAGTCGCTATAT
* * *
62919724 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTCTGCGAGTCGCTATAT
62919764 CCGG
1 CCGG
62919768 TTAAATCCCG
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 101 0.95
41 4 0.04
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTCTGCGAGTCGCTATAT
Found at i:62919762 original size:80 final size:80
Alignment explanation
Indices: 62919604--62919767 Score: 231
Period size: 80 Copynumber: 2.0 Consensus size: 80
62919594 CGGATGATAA
* * *
62919604 CCGGACTAAGATCCGAAGGCATTCGAGCGAGTTGCTATATCTGGGCTATGACCCGAAGGCATTTC
1 CCGGACTAAGACCCGAAGGCATTCGAGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTC
*
62919669 TGCTAGCGATTATAT
66 TGCGAGCGATTATAT
* * * *
62919684 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGACTAAGACCCGAAGGCATTCGAGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTC
*
62919749 TGCGAGTTG-TTATAT
66 TGCGAG-CGATTATAT
62919764 CCGG
1 CCGG
62919768 TTAAATCCCG
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 73 0.99
81 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGACTAAGACCCGAAGGCATTCGAGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTC
TGCGAGCGATTATAT
Found at i:62925071 original size:68 final size:68
Alignment explanation
Indices: 62924957--62925140 Score: 208
Period size: 68 Copynumber: 2.7 Consensus size: 68
62924947 AGTTTTCCTA
* * * * ** *
62924957 GACAGTAAACATAGGATCATAATGTGTAATACCATAGCTAGGCTATGGTAACAAATAGAGTCGGC
1 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTAGGCTATGACAACAAAGAGAGTCGGC
62925022 CAG
66 CAG
* * * * *
62925025 GACATTAAACATGGGTT-ACTAATTTGTAAGACCATATCTAGGCTATGACAACATAGGGAGTCTG
1 GACATTAAACATGGGTTCA-TAATGTGTAAGACCATAGCTAGGCTATGACAACAAAGAGAGTCGG
62925089 CCAG
65 CCAG
* * * *
62925093 GGCATTAAACATGGGTTCATACTGTGTAAGACCATAGTTGGGCTATGA
1 GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTAGGCTATGA
62925141 TAGTAGAAAA
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
67 1 0.01
68 94 0.98
69 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (68 bp):
GACATTAAACATGGGTTCATAATGTGTAAGACCATAGCTAGGCTATGACAACAAAGAGAGTCGGC
CAG
Found at i:62929394 original size:18 final size:19
Alignment explanation
Indices: 62929371--62929408 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
62929361 TTTTTTTAAA
62929371 ATAAAT-TTTGGAATTTTT
1 ATAAATATTTGGAATTTTT
*
62929389 ATAAATATTTTGAATTTTT
1 ATAAATATTTGGAATTTTT
62929408 A
1 A
62929409 AATTTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (19 bp):
ATAAATATTTGGAATTTTT
Found at i:62933552 original size:14 final size:14
Alignment explanation
Indices: 62933533--62933567 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
62933523 TATTATGTTA
* *
62933533 AATGTTTTTATAAT
1 AATGTTATTATAAC
62933547 AATGTTATTATAAC
1 AATGTTATTATAAC
62933561 AATGTTA
1 AATGTTA
62933568 AAAGTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (14 bp):
AATGTTATTATAAC
Found at i:62941846 original size:51 final size:51
Alignment explanation
Indices: 62941762--62942062 Score: 453
Period size: 51 Copynumber: 5.9 Consensus size: 51
62941752 TGGATACACG
* *
62941762 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCCATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
* *
62941813 GTAGCCTTCACATAGTACTACACTTGTGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* * * *
62941864 GTGGCATTTACATAGTACCACACTTGTGTCCAAAGCTAATATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
*
62941915 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
*
62941966 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATT-TTCATAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATT-TTATTCACAAA
* * *
62942017 GTGGCCTTCACGTATTACCACACGTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
62942063 CTAAGGTTCA
Statistics
Matches: 229, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
50 3 0.01
51 225 0.98
52 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:62942142 original size:52 final size:52
Alignment explanation
Indices: 62942086--62942203 Score: 191
Period size: 52 Copynumber: 2.3 Consensus size: 52
62942076 GGGAAATTTC
*
62942086 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
1 TCACTTAGCACAATGCAATGGACTTATTTCACTTAGATGCCATGGACTTATT
* **
62942138 TCACTTAGCACATTGCAATGGACTTATTTCACTTAGATGCCATGGTTTTATT
1 TCACTTAGCACAATGCAATGGACTTATTTCACTTAGATGCCATGGACTTATT
*
62942190 TCACTTAGTACAAT
1 TCACTTAGCACAAT
62942204 TTCATATCCT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.37
Consensus pattern (52 bp):
TCACTTAGCACAATGCAATGGACTTATTTCACTTAGATGCCATGGACTTATT
Found at i:62942167 original size:28 final size:27
Alignment explanation
Indices: 62942086--62942197 Score: 137
Period size: 24 Copynumber: 4.3 Consensus size: 27
62942076 GGGAAATTTC
62942086 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCAC-ATGCCATGGACTTATT
62942114 TCACTTAG---ATGCCATGGACTTATT
1 TCACTTAGCACATGCCATGGACTTATT
*
62942138 TCACTTAGCACATTGCAATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
**
62942166 TCACTTAG---ATGCCATGGTTTTATT
1 TCACTTAGCACATGCCATGGACTTATT
62942190 TCACTTAG
1 TCACTTAG
62942198 TACAATTTCA
Statistics
Matches: 76, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
24 44 0.58
25 1 0.01
27 1 0.01
28 30 0.39
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:62960219 original size:27 final size:27
Alignment explanation
Indices: 62960179--62960341 Score: 150
Period size: 27 Copynumber: 6.0 Consensus size: 27
62960169 GAACATGCCA
62960179 GAAAAAGGAAGCCTTTGTGGCGATCTAT
1 GAAAAA-GAAGCCTTTGTGGCGATCTAT
*
62960207 GAAAAAGAAGCCTTTGTGGCAATCTAT
1 GAAAAAGAAGCCTTTGTGGCGATCTAT
* * * * * *
62960234 CAAAACGAATCTTTTGTGGTGATCCAT
1 GAAAAAGAAGCCTTTGTGGCGATCTAT
* * * *
62960261 G-AAAAGAAAGCCTCTGTTGCAATCCAT
1 GAAAAAG-AAGCCTTTGTGGCGATCTAT
* *
62960288 GAAAAAGAAGCCTCTGGGGCGATCTAT
1 GAAAAAGAAGCCTTTGTGGCGATCTAT
**
62960315 -AAAAAGGAAATCTTTGTGGCGATCTAT
1 GAAAAA-GAAGCCTTTGTGGCGATCTAT
62960342 AAAGAATGGC
Statistics
Matches: 108, Mismatches: 24, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
26 9 0.08
27 88 0.81
28 11 0.10
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (27 bp):
GAAAAAGAAGCCTTTGTGGCGATCTAT
Found at i:62960313 original size:81 final size:81
Alignment explanation
Indices: 62960181--62960338 Score: 201
Period size: 81 Copynumber: 2.0 Consensus size: 81
62960171 ACATGCCAGA
* * * * * * *
62960181 AAAAGGAAGCCTTTGTGGCGATCTATGAAAAAGAAGCCTTTGTGGCAATCTATCAAAACG-AATC
1 AAAAGAAAGCCTCTGTGGCAATCCATGAAAAAGAAGCCTCTGGGGCAATCTATAAAAACGAAATC
*
62960245 TTTTGTGGTGATCCATG
66 -TTTGTGGCGATCCATG
* * *
62960262 AAAAGAAAGCCTCTGTTGCAATCCATGAAAAAGAAGCCTCTGGGGCGATCTATAAAAAGGAAATC
1 AAAAGAAAGCCTCTGTGGCAATCCATGAAAAAGAAGCCTCTGGGGCAATCTATAAAAACGAAATC
62960327 TTTGTGGCGATC
66 TTTGTGGCGATC
62960339 TATAAAGAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
81 61 0.94
82 4 0.06
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.25
Consensus pattern (81 bp):
AAAAGAAAGCCTCTGTGGCAATCCATGAAAAAGAAGCCTCTGGGGCAATCTATAAAAACGAAATC
TTTGTGGCGATCCATG
Found at i:62970038 original size:25 final size:24
Alignment explanation
Indices: 62969995--62970051 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
62969985 TTTTCTCCTA
*
62969995 AATTTTTATTTTATTTAATTATTT
1 AATTTTTAATTTATTTAATTATTT
*
62970019 AATTTTCTAATTTCTTTAATTA-TT
1 AATTTT-TAATTTATTTAATTATTT
62970043 AATATTTTA
1 AAT-TTTTA
62970052 TACTAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 13 0.45
25 16 0.55
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.65
Consensus pattern (24 bp):
AATTTTTAATTTATTTAATTATTT
Found at i:62972299 original size:43 final size:43
Alignment explanation
Indices: 62972238--62972374 Score: 125
Period size: 43 Copynumber: 3.2 Consensus size: 43
62972228 AAAGCTCGTA
* *
62972238 CAATGCCAACATCCCAGACGTGGTCTTACATGTAATCAAATAT
1 CAATGCCAATATCCCAGACGTGGTCTTACATATAATCAAATAT
* * * *
62972281 CAATGCCATTATCCCAGACAG-GGTCTTAAACAAAATCAAATA-
1 CAATGCCAATATCCCAGAC-GTGGTCTTACATATAATCAAATAT
* * * * * * *
62972323 CGATGCCAATGTCCTAGACATGGTCTTACATTTAAATCATAGAT
1 CAATGCCAATATCCCAGACGTGGTCTTACATAT-AATCAAATAT
62972367 CAATGCCA
1 CAATGCCA
62972375 TGTAGCGCCC
Statistics
Matches: 72, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
42 23 0.32
43 41 0.57
44 8 0.11
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (43 bp):
CAATGCCAATATCCCAGACGTGGTCTTACATATAATCAAATAT
Found at i:62973249 original size:27 final size:27
Alignment explanation
Indices: 62973219--62973534 Score: 185
Period size: 27 Copynumber: 11.7 Consensus size: 27
62973209 TGTAGGGTAG
*
62973219 AATTACTGAAATACCCTTGGTTTACAA
1 AATTACCGAAATACCCTTGGTTTACAA
* *
62973246 AATTACC-AAATACCC-TCGATTAGCAA
1 AATTACCGAAATACCCTTGGTTTA-CAA
* * * * ***
62973272 AATTACCAAAATACCATCGATTCGTAA
1 AATTACCGAAATACCCTTGGTTTACAA
* * * **
62973299 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCGAAATACCCTTGGTTTACAA
* *
62973326 AATTACCAAAATACTCC-TGGTTTATAA
1 AATTACCGAAATAC-CCTTGGTTTACAA
* * * **
62973353 AATTATCAAAATACCCCTT-ATTTGGAA
1 AATTACCGAAATA-CCCTTGGTTTACAA
*
62973380 AATTACCGAAATACCCTTGATTTGA-AA
1 AATTACCGAAATACCCTTGGTTT-ACAA
** * *
62973407 AATTATAGAAATACCCCTGATTTACAA
1 AATTACCGAAATACCCTTGGTTTACAA
* *
62973434 AATTACAGAAATACCCTTGACTTT-CAAA
1 AATTACCGAAATACCCTTG-GTTTAC-AA
* * * **
62973462 AACTACAGAAATACCATTGGTTTGTAA
1 AATTACCGAAATACCCTTGGTTTACAA
** *
62973489 AATTACCGAAATACCCTTGGTTTGTAG
1 AATTACCGAAATACCCTTGGTTTACAA
* *
62973516 ATTTACCAAAATACCCTTG
1 AATTACCGAAATACCCTTG
62973535 TAGGGTAAAA
Statistics
Matches: 235, Mismatches: 42, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
25 5 0.02
26 24 0.10
27 179 0.76
28 27 0.11
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGGTTTACAA
Found at i:62973409 original size:54 final size:53
Alignment explanation
Indices: 62973219--62973531 Score: 233
Period size: 54 Copynumber: 5.8 Consensus size: 53
62973209 TGTAGGGTAG
* * * * *
62973219 AATTACTGAAATACCCTTGGTTT-ACAAAATTACCAAATA-CCCTCGATTAGCAA
1 AATTACCGAAATACCCTTGATTTGA-AAAATTACAAAATACCCCT-TATTTGCAA
* * * * * *
62973272 AATTACCAAAATACCATCGATTCGTAAAATTACCAAAATACCCC-TAGTTTGTAA
1 AATTACCGAAATACCCTTGATTTGAAAAATTA-CAAAATACCCCTTA-TTTGCAA
* * *
62973326 AATTACCAAAATACTCC-TGGTTT-ATAAAATTATCAAAATACCCCTTATTTGGAA
1 AATTACCGAAATAC-CCTTGATTTGA-AAAATTA-CAAAATACCCCTTATTTGCAA
* * *
62973380 AATTACCGAAATACCCTTGATTTGAAAAATTATAGAAATACCCCTGATTTACAA
1 AATTACCGAAATACCCTTGATTTGAAAAATTACA-AAATACCCCTTATTTGCAA
* * * * * *
62973434 AATTACAGAAATACCCTTGACTTTCAAAAACTACAGAAATA-CCATTGGTTTGTAA
1 AATTACCGAAATACCCTTGA-TTTGAAAAATTACA-AAATACCCCTT-ATTTGCAA
* * * *
62973489 AATTACCGAAATACCCTTGGTTTGTAGATTTACCAAAATACCC
1 AATTACCGAAATACCCTTGATTTGAAAAATTA-CAAAATACCC
62973532 TTGTAGGGTA
Statistics
Matches: 206, Mismatches: 40, Indels: 26
0.76 0.15 0.10
Matches are distributed among these distances:
53 28 0.14
54 127 0.62
55 51 0.25
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (53 bp):
AATTACCGAAATACCCTTGATTTGAAAAATTACAAAATACCCCTTATTTGCAA
Found at i:62973528 original size:82 final size:79
Alignment explanation
Indices: 62973226--62973534 Score: 230
Period size: 81 Copynumber: 3.8 Consensus size: 79
62973216 TAGAATTACT
* ** * * * * *
62973226 GAAATACCCTTGGTTTACAAAATTACC-AAATACCCTCGATTAGCAAAATTACCAAAATACCATC
1 GAAATACCATTGGTTTGTAAAATTACCGAAATACCCTGGTTTA-TAAAATTA-CAAAATACCCTT
* *
62973290 GA-TTCGTAAAATTACCA
64 GATTTC-AAAAACTA-CA
** * *
62973307 -AAATACCCCTAGTTTGTAAAATTACCAAAATACTCCTGGTTTATAAAATTATCAAAATACCCCT
1 GAAATACCATTGGTTTGTAAAATTACCGAAATAC-CCTGGTTTATAAAATTA-CAAAATA-CCCT
** * *
62973371 T-ATTTGGAAAATTACC
63 TGATTTCAAAAACTACA
* * * ** * *
62973387 GAAATACCCTTGATTTGAAAAATTATAGAAATACCCCTGATTTACAAAATTACAGAAATACCCTT
1 GAAATACCATTGGTTTGTAAAATTACCGAAATA-CCCTGGTTTATAAAATTACA-AAATACCCTT
62973452 GACTTTCAAAAACTACA
64 GA-TTTCAAAAACTACA
* * *
62973469 GAAATACCATTGGTTTGTAAAATTACCGAAATACCCTTGGTTTGTAGATTTACCAAAATACCCTT
1 GAAATACCATTGGTTTGTAAAATTACCGAAATACCC-TGGTTTATAAAATTA-CAAAATACCCTT
62973534 G
64 G
62973535 TAGGGTAAAA
Statistics
Matches: 181, Mismatches: 36, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
80 30 0.17
81 77 0.43
82 72 0.40
83 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (79 bp):
GAAATACCATTGGTTTGTAAAATTACCGAAATACCCTGGTTTATAAAATTACAAAATACCCTTGA
TTTCAAAAACTACA
Found at i:62974268 original size:33 final size:33
Alignment explanation
Indices: 62974219--62974286 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
62974209 AGAACAGCAA
* *
62974219 ATGGTGGAATGTCGAAATGTCGGTCACACGGCG
1 ATGGTGAAATGCCGAAATGTCGGTCACACGGCG
62974252 ATGGTGAAATGCCGAAATGTCGGTCACACGGCG
1 ATGGTGAAATGCCGAAATGTCGGTCACACGGCG
62974285 AT
1 AT
62974287 AACAGCCACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.34, T:0.21
Consensus pattern (33 bp):
ATGGTGAAATGCCGAAATGTCGGTCACACGGCG
Found at i:62974538 original size:27 final size:27
Alignment explanation
Indices: 62974516--62974846 Score: 216
Period size: 27 Copynumber: 12.3 Consensus size: 27
62974506 AGAATTACTG
*
62974516 AAATACCCTTCATTTACAAAATTA-CT
1 AAATACCCTTCATTTACAAAATTACCA
*
62974542 GAATACCCTT-AGTTTACAAAATTACCA
1 AAATACCCTTCA-TTTACAAAATTACCA
* *
62974569 AAATACCC-TCGA-TGAGCAAAAATACCA
1 AAATACCCTTC-ATTTA-CAAAATTACCA
*
62974596 AAATACCC-TCGTTTATCAAAATTACCA
1 AAATACCCTTCATTTA-CAAAATTACCA
* **
62974623 AAATACCCCT-AGTTTGTAAAATTACCA
1 AAATACCCTTCA-TTTACAAAATTACCA
* *** *
62974650 AAATACCCTTGATTTGTGAAATTATCA
1 AAATACCCTTCATTTACAAAATTACCA
**
62974677 AAATACCC-TCGATTTGTAAAATTACCA
1 AAATACCCTTC-ATTTACAAAATTACCA
** *
62974704 AAATAACCCTT-ATTTGGAAAATTACTA
1 AAAT-ACCCTTCATTTACAAAATTACCA
* ** *
62974731 AAATACCCTTAATTTGGAAAATTACAA
1 AAATACCCTTCATTTACAAAATTACCA
* *
62974758 AAATACCCTTGATTTACAAAATTA-TA
1 AAATACCCTTCATTTACAAAATTACCA
*
62974784 GAAATACCCTTAACTTTTA-AAAATTA-CA
1 -AAATACCCTT--CATTTACAAAATTACCA
* ** * *
62974812 GAAATACCATTGGTTTGCAAAATTACCG
1 -AAATACCCTTCATTTACAAAATTACCA
62974840 AAATACC
1 AAATACC
62974847 TTGGTTTGTA
Statistics
Matches: 254, Mismatches: 33, Indels: 35
0.79 0.10 0.11
Matches are distributed among these distances:
25 1 0.00
26 35 0.14
27 184 0.72
28 29 0.11
29 5 0.02
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (27 bp):
AAATACCCTTCATTTACAAAATTACCA
Found at i:62974616 original size:54 final size:54
Alignment explanation
Indices: 62974543--62974877 Score: 267
Period size: 54 Copynumber: 6.2 Consensus size: 54
62974533 AAAATTACTG
** * *
62974543 AATACCCTTAGTTTA-CAAAATTACCAAAATACCCTCGATGAGCAAAAATACCAA
1 AATACCCTT-GTTTATCAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAA
* *
62974597 AATACCCTCGTTTATCAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAA
1 AATACCCTTGTTTATCAAAATTACCAAAATACCCTCGA-TTTGTAAAATTACCAA
* * *
62974651 AATACCCTTGATTTGT-GAAATTATCAAAATACCCTCGATTTGTAAAATTACCAA
1 AATACCCTTG-TTTATCAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAA
* ** * ** * *
62974705 AATAACCCTTATTT-GGAAAATTACTAAAATACCCTTAATTTGGAAAATTACAAA
1 AAT-ACCCTTGTTTATCAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAA
* **
62974759 AATACCCTTGATTTA-CAAAATTA-TAGAAATACCCTTAACTTT-TAAAAATTA-CAGA
1 AATACCCTTG-TTTATCAAAATTACCA-AAATACCCTCGA-TTTGT-AAAATTACCA-A
* * * * * * *
62974814 AATACCATTGGTTT-GCAAAATTACCGAAATA-CCTTGGTTTGTAGATTTACCAA
1 AATACCCTT-GTTTATCAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAA
62974867 AATACCCTTGT
1 AATACCCTTGT
62974878 AGGGTGAAAC
Statistics
Matches: 232, Mismatches: 32, Indels: 36
0.77 0.11 0.12
Matches are distributed among these distances:
52 2 0.01
53 32 0.14
54 150 0.65
55 47 0.20
56 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
AATACCCTTGTTTATCAAAATTACCAAAATACCCTCGATTTGTAAAATTACCAA
Found at i:62974740 original size:81 final size:78
Alignment explanation
Indices: 62974516--62974875 Score: 257
Period size: 81 Copynumber: 4.5 Consensus size: 78
62974506 AGAATTACTG
* ** *
62974516 AAATACCCTTC-ATTTACAAAATTA-CTGAATACCCTTAGTTT-ACAAAATTACCAAAATACCCT
1 AAATACCC-TCGATTTATAAAATTACCAAAATACCCTTACTTTGA-AAAATTA-CAAAATACCCT
* ** * *
62974578 CGATGAGCAAAAATACCA
63 TGATTTG-GAAATTA-CA
* * *
62974596 AAATACCCTCG-TTTATCAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTT
1 AAATACCCTCGATTTAT-AAAATTACCAAAATACCCTTACTTTGAAAAATTA-CAAAATACCCTT
62974660 GATTTGTGAAATTATCA
64 GATTTG-GAAATTA-CA
* *
62974677 AAATACCCTCGATTTGTAAAATTACCAAAATAACCCTTA-TTTGGAAAATTACTAAAATACCCTT
1 AAATACCCTCGATTTATAAAATTACCAAAAT-ACCCTTACTTTGAAAAATTAC-AAAATACCCTT
*
62974741 AATTTGGAAAATTACAA
64 GATTTGG-AAATTAC-A
* * * * *
62974758 AAATACCCTTGATTTACAAAATTA-TAGAAATACCCTTAACTTTTAAAAATTACAGAAATACCAT
1 AAATACCCTCGATTTATAAAATTACCA-AAATACCCTT-ACTTTGAAAAATTACA-AAATACCCT
* * *
62974822 TGGTTTGCAAAATTACCG
63 TGATTTG-GAAATTA-CA
* * * * *
62974840 AAATA-CCTTGGTTTGTAGATTTACCAAAATACCCTT
1 AAATACCCTCGATTTATAAAATTACCAAAATACCCTT
62974876 GTAGGGTGAA
Statistics
Matches: 231, Mismatches: 33, Indels: 31
0.78 0.11 0.11
Matches are distributed among these distances:
79 6 0.03
80 25 0.11
81 153 0.66
82 46 0.20
83 1 0.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.31
Consensus pattern (78 bp):
AAATACCCTCGATTTATAAAATTACCAAAATACCCTTACTTTGAAAAATTACAAAATACCCTTGA
TTTGGAAATTACA
Found at i:62975163 original size:41 final size:41
Alignment explanation
Indices: 62975118--62975195 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
62975108 GAAAAAATTG
* ** *
62975118 AGGATCGCATGGTTGCTTGACGATTGTGGATCCACCGATTA
1 AGGATCGCATGGTTACTTGACGACCGTCGATCCACCGATTA
*
62975159 AGGATCGTATGGTTACTTGACGACCGTCGATCCACCG
1 AGGATCGCATGGTTACTTGACGACCGTCGATCCACCG
62975196 GTGGCTTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (41 bp):
AGGATCGCATGGTTACTTGACGACCGTCGATCCACCGATTA
Found at i:62983565 original size:37 final size:37
Alignment explanation
Indices: 62983506--62983614 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
62983496 AGCTCAGACG
* *
62983506 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
62983543 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
62983580 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
62983615 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:62983910 original size:47 final size:47
Alignment explanation
Indices: 62983819--62984004 Score: 237
Period size: 47 Copynumber: 4.1 Consensus size: 47
62983809 TATATATATT
* * *
62983819 TCACATTGACCATTCGG-CTCTA-C-CACATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCT-TATCACACATATGCATGCTCACATTCA
*
62983864 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
*
62983911 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
62983958 TCACA------ATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
62983999 TCACAT
1 TCACAT
62984005 AAAATCCTAA
Statistics
Matches: 130, Mismatches: 7, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
41 40 0.31
45 17 0.13
46 3 0.02
47 70 0.54
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:62988710 original size:34 final size:34
Alignment explanation
Indices: 62988667--62988732 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
62988657 ACGCTATCAC
62988667 ATATATATATGGCATGTATAGCTAGACTCATACA
1 ATATATATATGGCATGTATAGCTAGACTCATACA
62988701 ATATATATATGGCATGTATAGCTAGACTCATA
1 ATATATATATGGCATGTATAGCTAGACTCATA
62988733 TAGACGCTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (34 bp):
ATATATATATGGCATGTATAGCTAGACTCATACA
Found at i:62990272 original size:39 final size:39
Alignment explanation
Indices: 62990155--62990650 Score: 779
Period size: 39 Copynumber: 12.6 Consensus size: 39
62990145 GCTCCTCGTT
* * *
62990155 CAAATGCCTTTGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
62990195 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
62990235 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
62990274 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
62990313 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
62990352 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
62990391 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
62990430 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
62990469 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
62990508 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGTA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
62990547 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
62990586 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
62990627 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
62990651 CATCATTCAA
Statistics
Matches: 435, Mismatches: 14, Indels: 15
0.94 0.03 0.03
Matches are distributed among these distances:
39 364 0.84
40 60 0.14
41 11 0.03
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:62993971 original size:32 final size:32
Alignment explanation
Indices: 62993930--62993995 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
62993920 TTTGAGTCAT
62993930 CAAAATTTTGAGACTTTTGTGATCCGAAAATA
1 CAAAATTTTGAGACTTTTGTGATCCGAAAATA
62993962 CAAAATTTTGAGACTTTTGTGATCCGAAAATA
1 CAAAATTTTGAGACTTTTGTGATCCGAAAATA
62993994 CA
1 CA
62993996 TGGCACTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (32 bp):
CAAAATTTTGAGACTTTTGTGATCCGAAAATA
Found at i:63000524 original size:21 final size:21
Alignment explanation
Indices: 63000498--63000541 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
63000488 GTTACCATAT
*
63000498 TGATGTGTTGTATTGCGACAC
1 TGATGTGTTGTATTGCAACAC
*
63000519 TGATGTGTTGTGTTGCAACAC
1 TGATGTGTTGTATTGCAACAC
63000540 TG
1 TG
63000542 GTGCTTCCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.14, G:0.30, T:0.39
Consensus pattern (21 bp):
TGATGTGTTGTATTGCAACAC
Found at i:63001054 original size:16 final size:17
Alignment explanation
Indices: 63001019--63001055 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
63001009 TTAGTTTAGG
*
63001019 CTTTCAATTTTTCCTTT
1 CTTTCAATTTTTCCTCT
63001036 CTTTCAATTTTT-CTCT
1 CTTTCAATTTTTCCTCT
63001052 CTTT
1 CTTT
63001056 TATTTTAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.11, C:0.24, G:0.00, T:0.65
Consensus pattern (17 bp):
CTTTCAATTTTTCCTCT
Found at i:63003448 original size:3 final size:3
Alignment explanation
Indices: 63003406--63003478 Score: 69
Period size: 3 Copynumber: 24.0 Consensus size: 3
63003396 TTTAGCAATT
* * *
63003406 TTA TTA TT- TTA TTCA TTA TT- TTA ATG TTA TTA TCA TTTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
*
63003451 TTA TTA TTA TTA TTA TCAA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA
63003479 GTTTTATTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
2 4 0.07
3 46 0.81
4 7 0.12
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:63007392 original size:16 final size:17
Alignment explanation
Indices: 63007367--63007399 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
63007357 ATAATTTCAC
*
63007367 TTTTATAAA-TTTAAAA
1 TTTTAAAAATTTTAAAA
63007383 TTTTAAAAATTTTAAAA
1 TTTTAAAAATTTTAAAA
63007400 GGTCTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTAAAAATTTTAAAA
Found at i:63010356 original size:17 final size:16
Alignment explanation
Indices: 63010320--63010358 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
63010310 CTCAAAGTAA
*
63010320 GAAAAAAACCAATTGG
1 GAAAAAAACCAATTAG
*
63010336 GAAAACAAACCAATTAT
1 GAAAA-AAACCAATTAG
63010353 GAAAAA
1 GAAAAA
63010359 TGTAGAAGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.62, C:0.13, G:0.13, T:0.13
Consensus pattern (16 bp):
GAAAAAAACCAATTAG
Found at i:63011813 original size:25 final size:24
Alignment explanation
Indices: 63011769--63011823 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
63011759 CACACCTTTT
*
63011769 TATATAACGCATATACTTATATTA
1 TATATAACGCATATACTTATAATA
* *
63011793 TATATATACGCAT-TATTTTATAATC
1 TATATA-ACGCATATA-CTTATAATA
63011818 TATATA
1 TATATA
63011824 CCTATATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (24 bp):
TATATAACGCATATACTTATAATA
Found at i:63036432 original size:3 final size:3
Alignment explanation
Indices: 63036424--63036478 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
63036414 NNNNNNNNNC
63036424 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
63036472 ATT ATT A
1 ATT ATT A
63036479 CCATCTTATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:63036652 original size:17 final size:17
Alignment explanation
Indices: 63036616--63036654 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
63036606 TTTATTTTCT
* **
63036616 TATTACTTATCTATTTA
1 TATTTCTTATCTATCCA
63036633 TATTTCTTATCTATCCA
1 TATTTCTTATCTATCCA
63036650 TATTT
1 TATTT
63036655 TCGTTATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTCTTATCTATCCA
Found at i:63041291 original size:19 final size:20
Alignment explanation
Indices: 63041264--63041302 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
63041254 AGATGTATTG
*
63041264 TATATTTATAAAAT-TTTAA
1 TATAATTATAAAATATTTAA
*
63041283 TATAATTATATAATATTTAA
1 TATAATTATAAAATATTTAA
63041303 AATATATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATAATTATAAAATATTTAA
Found at i:63045205 original size:35 final size:34
Alignment explanation
Indices: 63045159--63045227 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 34
63045149 TCAGGGGCAT
* *
63045159 CAATCAGTGAAACTCTACCGTACAATGGTCCAGG
1 CAATCAGTGAAACTATACCGTACAACGGTCCAGG
63045193 NCAATCAGTGAAACTATACCGTACAACGGTCCAGG
1 -CAATCAGTGAAACTATACCGTACAACGGTCCAGG
63045228 TAAAGTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.19
Consensus pattern (34 bp):
CAATCAGTGAAACTATACCGTACAACGGTCCAGG
Found at i:63048918 original size:194 final size:194
Alignment explanation
Indices: 63048589--63048946 Score: 545
Period size: 194 Copynumber: 1.8 Consensus size: 194
63048579 ATTGAGAGCC
* * *
63048589 AAAAACTAGGCTCACAATCCAGCAAAGTTAGTATTATAGGGCTATTAGCAATGGATAATAACTTA
1 AAAAACTAGGCTCACAATCCAGCAAAGTCAGTATTATAGGGCTATTAACAATGGATAACAACTTA
* * * *
63048654 TACTTGCCAATGATCAATCAACACATGTTGATTGATCTCTAATTGAGAGCCAAGATAATGTTGAC
66 TACTTGCAAATGATCAATCAACACATGTTGATTGATCGCTAATTGAGAGCCAAGATAAAGTCGAC
* * *
63048719 TTTGCTGAATTATGAGCCTAGTTTTCCTTTCATTGGCATACAATCATTAGTTTGATGAAGAGAT
131 TTTGCTAAATAATGAGCCTAATTTTCCTTTCATTGGCATACAATCATTAGTTTGATGAAGAGAT
* * *
63048783 AAAAACTAGGCTCATAATCCAGCAAAGTCAGTATTATAGGGCTATTAACAATGGATAGCAACTTG
1 AAAAACTAGGCTCACAATCCAGCAAAGTCAGTATTATAGGGCTATTAACAATGGATAACAACTTA
* * **
63048848 TATTTGCAAATGATCAATTAACACATGTTGATTGATCGCTAATTGAGAGCCAATTTAAAGTCGAC
66 TACTTGCAAATGATCAATCAACACATGTTGATTGATCGCTAATTGAGAGCCAAGATAAAGTCGAC
* *
63048913 TTTGCTAAATAATGAGTCTAATTTTTCTTTCATT
131 TTTGCTAAATAATGAGCCTAATTTTCCTTTCATT
63048947 TGCAAGCAAC
Statistics
Matches: 145, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
194 145 1.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (194 bp):
AAAAACTAGGCTCACAATCCAGCAAAGTCAGTATTATAGGGCTATTAACAATGGATAACAACTTA
TACTTGCAAATGATCAATCAACACATGTTGATTGATCGCTAATTGAGAGCCAAGATAAAGTCGAC
TTTGCTAAATAATGAGCCTAATTTTCCTTTCATTGGCATACAATCATTAGTTTGATGAAGAGAT
Found at i:63057368 original size:12 final size:12
Alignment explanation
Indices: 63057351--63057375 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63057341 CTTGAAATGC
63057351 CTTCTCTTCACT
1 CTTCTCTTCACT
63057363 CTTCTCTTCACT
1 CTTCTCTTCACT
63057375 C
1 C
63057376 CTTTCTGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.44, G:0.00, T:0.48
Consensus pattern (12 bp):
CTTCTCTTCACT
Found at i:63066227 original size:26 final size:26
Alignment explanation
Indices: 63066165--63066214 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
63066155 CATGTATGTG
*
63066165 AAAATATGTATGAATTATAAAATGGA
1 AAAATATATATGAATTATAAAATGGA
* *
63066191 AAAATGTATATGTATTATAAAATG
1 AAAATATATATGAATTATAAAATG
63066215 TAAATTTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (26 bp):
AAAATATATATGAATTATAAAATGGA
Found at i:63069368 original size:14 final size:14
Alignment explanation
Indices: 63069349--63069375 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
63069339 ACTTTTTAAA
63069349 TAATTTTTAATATG
1 TAATTTTTAATATG
63069363 TAATTTTTAATAT
1 TAATTTTTAATAT
63069376 TTTCTGAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (14 bp):
TAATTTTTAATATG
Found at i:63071119 original size:193 final size:192
Alignment explanation
Indices: 63070790--63071637 Score: 1126
Period size: 193 Copynumber: 4.4 Consensus size: 192
63070780 TTGTTCTTGC
* *
63070790 CATGTTGATTGATCTCTAATTGAGAGCCAAGTTAATGTTGGCTTTGTTGAATTATGAGTCTAGTT
1 CATGTTGATTGATCTCTAATTGAGAGCCAAGTTAATGTTGACTTTGCTGAATTATGAGTCTAGTT
*
63070855 TTCCTTTCATTGGCATGCAATCATTAGTTGATGAAGAGATAAAAACTAGGCTCATAATTCAGCAA
66 TTCCTTTCATTGGCATGCAATCATTAGTTGATGAAGAGATAAAAACTAGGCTCATAATCCAGCAA
** *
63070920 AGTCAACATTATAACGCTATTAGCAACGGACAACAACTTGTACTTGCTAATGATCAATCAACA
131 AGTCAACATTATAGGGCTATTAGCAACGGATAACAACTTGTACTTGC-AATGATCAATCAACA
* ** *
63070983 CATGTTGATTGATCTCTAATTGAGAGCCAAGTTAATGTCGACTTTGCTTCATTATGAATCTAGTT
1 CATGTTGATTGATCTCTAATTGAGAGCCAAGTTAATGTTGACTTTGCTGAATTATGAGTCTAGTT
* * * *
63071048 TTCCTTTTATTGGCATACAATCATTAGTTGATGAAGAGATAAAAATTAGGCTCATAATCTAGCAA
66 TTCCTTTCATTGGCATGCAATCATTAGTTGATGAAGAGATAAAAACTAGGCTCATAATCCAGCAA
* *
63071113 AGTCAACATTATAGGGCTATTAGCAACGGATAGCAACTTGTACTTGCCATG-T---T-----
131 AGTCAACATTATAGGGCTATTAGCAACGGATAACAACTTGTACTTGCAATGATCAATCAACA
* * * * * *
63071166 GA--TTGATAT-ATATCTAATTGAGGGCCAAGTTAATGTTGGCTTTGCTGAATAATGAGTCTAAT
1 CATGTTGAT-TGATCTCTAATTGAGAGCCAAGTTAATGTTGACTTTGCTGAATTATGAGTCTAGT
* * *
63071228 TTTCCTTTCATTTGCATGCAATCATTAGTTGATGATGAGATAAAAACTAGACTCATAATCCAGCA
65 TTTCCTTTCATTGGCATGCAATCATTAGTTGATGAAGAGATAAAAACTAGGCTCATAATCCAGCA
** *
63071293 AAGTCAGTATTATAGGGCTATTAGCAATGGATAACAACTTGTACTTGCCAATGATCAATCAACA
130 AAGTCAACATTATAGGGCTATTAGCAACGGATAACAACTTGTACTTG-CAATGATCAATCAACA
* *
63071357 CATGTTAATTGATCTCTAATTGAGAGCCAAGTTAATGTTGACTTTGCTGAATTATGAGCCTAGTT
1 CATGTTGATTGATCTCTAATTGAGAGCCAAGTTAATGTTGACTTTGCTGAATTATGAGTCTAGTT
* * *
63071422 TTCCTTTCATTGGCATGCAATCAATAGTTGATGAAGAGAAAAAAAACACTAGGTTCATAATCCAG
66 TTCCTTTCATTGGCATGCAATCATTAGTTGATGAAGAG--ATAAAA-ACTAGGCTCATAATCCAG
* * * * * *
63071487 CAAGGTGAACATTATAGGGCTATTAACAATGGATAATAACTTGTATTTGCAAATGATCAATCAAC
128 CAAAGTCAACATTATAGGGCTATTAGCAACGGATAACAACTTGTACTTGC-AATGATCAATCAAC
63071552 A
192 A
* * * * *
63071553 CATGTTGATTGATCTCTAGTTGAGAGCCAATTTAATGTCGACTTTGCTAAATTATGAGTCTAATT
1 CATGTTGATTGATCTCTAATTGAGAGCCAAGTTAATGTTGACTTTGCTGAATTATGAGTCTAGTT
* * *
63071618 TTTCTTTCATTTGCAAGCAA
66 TTCCTTTCATTGGCATGCAA
63071638 CGATCAATTT
Statistics
Matches: 568, Mismatches: 69, Indels: 33
0.85 0.10 0.05
Matches are distributed among these distances:
181 150 0.26
182 5 0.01
183 2 0.00
186 1 0.00
188 1 0.00
191 2 0.00
192 4 0.01
193 249 0.44
195 6 0.01
196 148 0.26
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.34
Consensus pattern (192 bp):
CATGTTGATTGATCTCTAATTGAGAGCCAAGTTAATGTTGACTTTGCTGAATTATGAGTCTAGTT
TTCCTTTCATTGGCATGCAATCATTAGTTGATGAAGAGATAAAAACTAGGCTCATAATCCAGCAA
AGTCAACATTATAGGGCTATTAGCAACGGATAACAACTTGTACTTGCAATGATCAATCAACA
Found at i:63071361 original size:374 final size:370
Alignment explanation
Indices: 63070639--63071536 Score: 1382
Period size: 374 Copynumber: 2.4 Consensus size: 370
63070629 AAAGTTGGAC
*
63070639 CCAAGTTAATGTTGACTTTGCTGAATTATGAGTCTAGTTTTCCTTTCATTGGCACGCAATCATTA
1 CCAAGTTAATGTTGACTTTGCTGAATTATGAGTCTAGTTTTCCTTTCATTGGCATGCAATCATTA
*
63070704 GTTGATGAAGAGATAAAAATTAGGCTCATAATCTAGCAAAGTCAGCATTATAGGGCTATTAGCAA
66 GTTGATGAAGAGATAAAAATTAGGCTCATAATCTAGCAAAGTCAACATTATAGGGCTATTAGCAA
* *
63070769 CGGATAGCAACTTGTTCTTGCCATGTTGATTGATCTCTAATTGAGAGCCAAGTTAATGTTGGCTT
131 CGGATAGCAACTTGTACTTGCCATGTTGATTGATATCTAATTGAGAGCCAAGTTAATGTTGGCTT
* * *
63070834 TGTTGAATTATGAGTCTAGTTTTCCTTTCATTGGCATGCAATCATTAGTTGATGAAGAGATAAAA
196 TGCTGAATAATGAGTCTAATTTTCCTTTCATTGGCATGCAATCATTAGTTGATGAAGAGATAAAA
* *
63070899 ACTAGGCTCATAATTCAGCAAAGTCAACATTATAACGCTATTAGCAACGGACAACAACTTGTACT
261 ACTAGACTCATAATCCAGCAAAGTCAACATTATAACGCTATTAGCAACGGACAACAACTTGTACT
* *
63070964 TGCTAATGATCAATCAACACATGTTGATTGATCTCTAATTGAGAG
326 TGCCAATGATCAATCAACACATGTTAATTGATCTCTAATTGAGAG
* ** * * *
63071009 CCAAGTTAATGTCGACTTTGCTTCATTATGAATCTAGTTTTCCTTTTATTGGCATACAATCATTA
1 CCAAGTTAATGTTGACTTTGCTGAATTATGAGTCTAGTTTTCCTTTCATTGGCATGCAATCATTA
63071074 GTTGATGAAGAGATAAAAATTAGGCTCATAATCTAGCAAAGTCAACATTATAGGGCTATTAGCAA
66 GTTGATGAAGAGATAAAAATTAGGCTCATAATCTAGCAAAGTCAACATTATAGGGCTATTAGCAA
*
63071139 CGGATAGCAACTTGTACTTGCCATGTTGATTGATATATATCTAATTGAGGGCCAAGTTAATGTTG
131 CGGATAGCAACTTGTACTTGCCATGTTGATTG----ATATCTAATTGAGAGCCAAGTTAATGTTG
* *
63071204 GCTTTGCTGAATAATGAGTCTAATTTTCCTTTCATTTGCATGCAATCATTAGTTGATGATGAGAT
192 GCTTTGCTGAATAATGAGTCTAATTTTCCTTTCATTGGCATGCAATCATTAGTTGATGAAGAGAT
** ** * *
63071269 AAAAACTAGACTCATAATCCAGCAAAGTCAGTATTATAGGGCTATTAGCAATGGATAACAACTTG
257 AAAAACTAGACTCATAATCCAGCAAAGTCAACATTATAACGCTATTAGCAACGGACAACAACTTG
63071334 TACTTGCCAATGATCAATCAACACATGTTAATTGATCTCTAATTGAGAG
322 TACTTGCCAATGATCAATCAACACATGTTAATTGATCTCTAATTGAGAG
* *
63071383 CCAAGTTAATGTTGACTTTGCTGAATTATGAGCCTAGTTTTCCTTTCATTGGCATGCAATCAATA
1 CCAAGTTAATGTTGACTTTGCTGAATTATGAGTCTAGTTTTCCTTTCATTGGCATGCAATCATTA
* * * * * * *
63071448 GTTGATGAAGAGAAAAAAAACACTAGGTTCATAATCCAGCAAGGTGAACATTATAGGGCTATTAA
66 GTTGATGAAGAG--ATAAAA-ATTAGGCTCATAATCTAGCAAAGTCAACATTATAGGGCTATTAG
* ** *
63071513 CAATGGATAATAACTTGTATTTGC
128 CAACGGATAGCAACTTGTACTTGC
63071537 AAATGATCAA
Statistics
Matches: 476, Mismatches: 45, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
370 153 0.32
374 260 0.55
376 5 0.01
377 58 0.12
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (370 bp):
CCAAGTTAATGTTGACTTTGCTGAATTATGAGTCTAGTTTTCCTTTCATTGGCATGCAATCATTA
GTTGATGAAGAGATAAAAATTAGGCTCATAATCTAGCAAAGTCAACATTATAGGGCTATTAGCAA
CGGATAGCAACTTGTACTTGCCATGTTGATTGATATCTAATTGAGAGCCAAGTTAATGTTGGCTT
TGCTGAATAATGAGTCTAATTTTCCTTTCATTGGCATGCAATCATTAGTTGATGAAGAGATAAAA
ACTAGACTCATAATCCAGCAAAGTCAACATTATAACGCTATTAGCAACGGACAACAACTTGTACT
TGCCAATGATCAATCAACACATGTTAATTGATCTCTAATTGAGAG
Done.