Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 255 of 276
Found at i:84473641 original size:31 final size:31
Alignment explanation
Indices: 84473606--84473684 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
84473596 CGTTTACAGT
84473606 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* *
84473637 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
84473668 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
84473685 AACCGTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:84476057 original size:12 final size:12
Alignment explanation
Indices: 84476040--84476065 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84476030 CCCTCAAAGT
84476040 TTTCTCTTAATC
1 TTTCTCTTAATC
84476052 TTTCTCTTAATC
1 TTTCTCTTAATC
84476064 TT
1 TT
84476066 GATGTTATGA
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:0.23, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTCTCTTAATC
Found at i:84496929 original size:46 final size:46
Alignment explanation
Indices: 84496862--84497022 Score: 218
Period size: 46 Copynumber: 3.5 Consensus size: 46
84496852 TTTATGTGCT
*
84496862 AGTGTAAGACATGTTTGGGACATGCATTGGCCTCTAGATATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCTAGATATAAGCC
* * * * *
84496908 AGTGTAAGACATGTCTGGGACATGTATCGGCCAC-A-TTACGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCTAGATA-TA-AGCC
* *
84496954 AGTGTAAGACATGTCTGGGATATGCATTGGCCTTTAGATATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTGGCCTCTAGATATAAGCC
84497000 AGTGTAAGACATGTCTGGGACAT
1 AGTGTAAGACATGTCTGGGACAT
84497023 ACATCTCAGT
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
44 2 0.02
45 2 0.02
46 89 0.92
47 2 0.02
48 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATTGGCCTCTAGATATAAGCC
Found at i:84498348 original size:20 final size:20
Alignment explanation
Indices: 84498309--84498348 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
84498299 GTTATAATGA
84498309 CCACACGGGCATGTTGCCCTT
1 CCACACGGG-ATGTTGCCCTT
84498330 CCACACGGG-TGTGTGCCCT
1 CCACACGGGATGT-TGCCCT
84498349 ATTTCAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 6 0.33
21 9 0.50
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (20 bp):
CCACACGGGATGTTGCCCTT
Found at i:84501615 original size:16 final size:16
Alignment explanation
Indices: 84501594--84501624 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
84501584 CTCTGCATGC
*
84501594 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
84501610 AAAATACAAAAGACA
1 AAAATACAAAAGACA
84501625 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:84503024 original size:29 final size:29
Alignment explanation
Indices: 84502991--84503049 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
84502981 CAACAAGGTT
84502991 AGTTTCTTCACAATTGAATATAAAACATG
1 AGTTTCTTCACAATTGAATATAAAACATG
84503020 AGTTTCTTCACAATTGAATATAAAACATG
1 AGTTTCTTCACAATTGAATATAAAACATG
84503049 A
1 A
84503050 TTTATGCCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.14, G:0.10, T:0.34
Consensus pattern (29 bp):
AGTTTCTTCACAATTGAATATAAAACATG
Found at i:84509845 original size:34 final size:35
Alignment explanation
Indices: 84509803--84509876 Score: 132
Period size: 34 Copynumber: 2.1 Consensus size: 35
84509793 GTTTTTACTC
*
84509803 ATCTTTCTAATTGCATATTTAAATCTATACTAATT
1 ATCTTTCTAACTGCATATTTAAATCTATACTAATT
84509838 -TCTTTCTAACTGCATATTTAAATCTATACTAATT
1 ATCTTTCTAACTGCATATTTAAATCTATACTAATT
84509872 ATCTT
1 ATCTT
84509877 AATTTTATGT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
34 33 0.89
35 4 0.11
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.49
Consensus pattern (35 bp):
ATCTTTCTAACTGCATATTTAAATCTATACTAATT
Found at i:84515219 original size:33 final size:33
Alignment explanation
Indices: 84515166--84515261 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 33
84515156 ATGAACTTGA
* *
84515166 GCCGAGAAGAATGGAGTACGGCGGTGGATACGG
1 GCCGAGAACAGTGGAGTACGGCGGTGGATACGG
* * *
84515199 GCTG-GAAGGAGTGGAGTACGGTGGTGGATACGG
1 GCCGAGAA-CAGTGGAGTACGGCGGTGGATACGG
84515232 GCCGAGAACAGTGGAGTACGGCGGTGGATA
1 GCCGAGAACAGTGGAGTACGGCGGTGGATA
84515262 GGGGACGAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
32 3 0.05
33 49 0.89
34 3 0.05
ACGTcount: A:0.25, C:0.14, G:0.47, T:0.15
Consensus pattern (33 bp):
GCCGAGAACAGTGGAGTACGGCGGTGGATACGG
Found at i:84517869 original size:60 final size:60
Alignment explanation
Indices: 84517785--84517903 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
84517775 ATACTAAACT
* * * * *
84517785 AAACGCAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATGATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
84517845 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
84517904 TAAAAAATCA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:84518115 original size:13 final size:13
Alignment explanation
Indices: 84518068--84518132 Score: 53
Period size: 14 Copynumber: 4.8 Consensus size: 13
84518058 ATACATTATC
84518068 TTCTTTT-TTTTT
1 TTCTTTTCTTTTT
*
84518080 ATTC-TTTCTTCTTC
1 -TTCTTTTCTT-TTT
84518094 TTCTTTTTCTTTTT
1 TTC-TTTTCTTTTT
*
84518108 TTCTTTTCCTTTCT
1 TTCTTTT-CTTTTT
*
84518122 CTCTTTTCTTT
1 TTCTTTTCTTT
84518133 CTCTCTTCCG
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 3 0.07
13 16 0.37
14 18 0.42
15 6 0.14
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.77
Consensus pattern (13 bp):
TTCTTTTCTTTTT
Found at i:84518121 original size:27 final size:27
Alignment explanation
Indices: 84518066--84518132 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
84518056 TAATACATTA
*
84518066 TCTTCTTTTT-TTTTATTCTTTCTTCT
1 TCTTCTTTTTCTTTTATTCTTTCCTCT
*
84518092 TCTTCTTTTTCTTTTTTTCTTTTCCT-T
1 TCTTCTTTTTCTTTTATTC-TTTCCTCT
84518119 TC-TCTCTTTTCTTT
1 TCTTCT-TTTTCTTT
84518133 CTCTCTTCCG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
26 13 0.36
27 18 0.50
28 5 0.14
ACGTcount: A:0.01, C:0.22, G:0.00, T:0.76
Consensus pattern (27 bp):
TCTTCTTTTTCTTTTATTCTTTCCTCT
Found at i:84518133 original size:13 final size:13
Alignment explanation
Indices: 84518098--84518139 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
84518088 TTCTTCTTCT
* *
84518098 TTTTCTTTTTTTC
1 TTTTCTTTCTCTC
84518111 TTTTCCTTTCTCTC
1 TTTT-CTTTCTCTC
84518125 TTTTCTTTCTCTC
1 TTTTCTTTCTCTC
84518138 TT
1 TT
84518140 CCGGTGGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 15 0.58
14 11 0.42
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTCTTTCTCTC
Found at i:84518418 original size:25 final size:24
Alignment explanation
Indices: 84518390--84518458 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
84518380 TATAAATTTA
84518390 AATATTTT-TAACAAAAATAAAAAAT
1 AATATTTTATAA-AAAAA-AAAAAAT
* *
84518415 AATATTTTATTAAAAAAACAAAAT
1 AATATTTTATAAAAAAAAAAAAAT
*
84518439 ATATATTTTAATATAAAAAA
1 A-ATATTTT-ATAAAAAAAA
84518459 GAAATTATGC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 7 0.19
25 20 0.54
26 10 0.27
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (24 bp):
AATATTTTATAAAAAAAAAAAAAT
Found at i:84518463 original size:25 final size:24
Alignment explanation
Indices: 84518390--84518458 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
84518380 TATAAATTTA
*
84518390 AATATTTTTAACAAAAATAA-AAAAT
1 AATA-TTTTAATAAAAA-AACAAAAT
*
84518415 AATATTTTATTAAAAAAACAAAAT
1 AATATTTTAATAAAAAAACAAAAT
84518439 ATATATTTTAATATAAAAAA
1 A-ATATTTTAATA-AAAAAA
84518459 GAAATTATGC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 2 0.05
24 16 0.42
25 14 0.37
26 6 0.16
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (24 bp):
AATATTTTAATAAAAAAACAAAAT
Found at i:84523154 original size:19 final size:21
Alignment explanation
Indices: 84523106--84523155 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 21
84523096 TTATTTAGGA
*
84523106 ATGA-TATAATGTATTATTTC
1 ATGATTATAATATATTATTTC
*
84523126 AT-ATTTTAATAT-TTATTT-
1 ATGATTATAATATATTATTTC
84523144 ATGATTATAATA
1 ATGATTATAATA
84523156 ATAATAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.08
19 15 0.60
20 8 0.32
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (21 bp):
ATGATTATAATATATTATTTC
Found at i:84527097 original size:33 final size:33
Alignment explanation
Indices: 84527027--84527099 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
84527017 TCTGCCCAGT
* *
84527027 GCTGGGCACAAATTGTCGGTTCATCCAAATCGT
1 GCTGGGCACAAATTGTCGGTTCATCCAAATAGC
* *
84527060 GCTGGGCACAAATTGTCGGTTCATCCGACTAGC
1 GCTGGGCACAAATTGTCGGTTCATCCAAATAGC
84527093 GCTGGGC
1 GCTGGGC
84527100 GCAATCACTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.25
Consensus pattern (33 bp):
GCTGGGCACAAATTGTCGGTTCATCCAAATAGC
Found at i:84532145 original size:43 final size:41
Alignment explanation
Indices: 84532014--84532167 Score: 200
Period size: 42 Copynumber: 3.7 Consensus size: 41
84532004 TAAGTCTATG
*
84532014 TGTAAGACCATATCTAGGATATGGCATCAATATGAGACTTCG
1 TGTAAGACCATATCTAGGATATGGCATCAATATGAGA-TTCA
* *
84532056 TGTAAGACCATATCTGGGATATGACATCAATATGAGATTTCA
1 TGTAAGACCATATCTAGGATATGGCATCAATATGAGA-TTCA
* * * *
84532098 TGTAAGACCATAGCTAGGCTATTGGCATCGATATAAGATTACA
1 TGTAAGACCATATCTAGGATA-TGGCATCAATATGAGATT-CA
*
84532141 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTAGGATATGGCAT
84532168 TGGTATGGTA
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 64 0.66
43 33 0.34
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (41 bp):
TGTAAGACCATATCTAGGATATGGCATCAATATGAGATTCA
Found at i:84536281 original size:304 final size:304
Alignment explanation
Indices: 84535732--84536339 Score: 1216
Period size: 304 Copynumber: 2.0 Consensus size: 304
84535722 TTATCAAGTA
84535732 ATTTCAATAGAAATTGATTTTAGGACCTAATTGTGAAAAATTTTAGAATTAGGGTTTGGTGTTAA
1 ATTTCAATAGAAATTGATTTTAGGACCTAATTGTGAAAAATTTTAGAATTAGGGTTTGGTGTTAA
84535797 AATTCTGAATATCAAAAGCTGTATAGTAGTGTAAAATAATTAGATAAAGTGTTAATTGAGAAAAA
66 AATTCTGAATATCAAAAGCTGTATAGTAGTGTAAAATAATTAGATAAAGTGTTAATTGAGAAAAA
84535862 TTAGCTCAATTGATGGATTAATTGATTAGGGATTAAATTGTAAAAATTGTAAAATTTAGGGTAAA
131 TTAGCTCAATTGATGGATTAATTGATTAGGGATTAAATTGTAAAAATTGTAAAATTTAGGGTAAA
84535927 TGTGTAATTTCAAAAATTGAAGGGCATAAATTGTGAAGTGAATTAGAATTGAATTAGATGCTAAT
196 TGTGTAATTTCAAAAATTGAAGGGCATAAATTGTGAAGTGAATTAGAATTGAATTAGATGCTAAT
84535992 CAATGAATAATTTTACATTACAGATCAAGAACCCGAAGATAAAC
261 CAATGAATAATTTTACATTACAGATCAAGAACCCGAAGATAAAC
84536036 ATTTCAATAGAAATTGATTTTAGGACCTAATTGTGAAAAATTTTAGAATTAGGGTTTGGTGTTAA
1 ATTTCAATAGAAATTGATTTTAGGACCTAATTGTGAAAAATTTTAGAATTAGGGTTTGGTGTTAA
84536101 AATTCTGAATATCAAAAGCTGTATAGTAGTGTAAAATAATTAGATAAAGTGTTAATTGAGAAAAA
66 AATTCTGAATATCAAAAGCTGTATAGTAGTGTAAAATAATTAGATAAAGTGTTAATTGAGAAAAA
84536166 TTAGCTCAATTGATGGATTAATTGATTAGGGATTAAATTGTAAAAATTGTAAAATTTAGGGTAAA
131 TTAGCTCAATTGATGGATTAATTGATTAGGGATTAAATTGTAAAAATTGTAAAATTTAGGGTAAA
84536231 TGTGTAATTTCAAAAATTGAAGGGCATAAATTGTGAAGTGAATTAGAATTGAATTAGATGCTAAT
196 TGTGTAATTTCAAAAATTGAAGGGCATAAATTGTGAAGTGAATTAGAATTGAATTAGATGCTAAT
84536296 CAATGAATAATTTTACATTACAGATCAAGAACCCGAAGATAAAC
261 CAATGAATAATTTTACATTACAGATCAAGAACCCGAAGATAAAC
84536340 GCGAAAAAGA
Statistics
Matches: 304, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
304 304 1.00
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.34
Consensus pattern (304 bp):
ATTTCAATAGAAATTGATTTTAGGACCTAATTGTGAAAAATTTTAGAATTAGGGTTTGGTGTTAA
AATTCTGAATATCAAAAGCTGTATAGTAGTGTAAAATAATTAGATAAAGTGTTAATTGAGAAAAA
TTAGCTCAATTGATGGATTAATTGATTAGGGATTAAATTGTAAAAATTGTAAAATTTAGGGTAAA
TGTGTAATTTCAAAAATTGAAGGGCATAAATTGTGAAGTGAATTAGAATTGAATTAGATGCTAAT
CAATGAATAATTTTACATTACAGATCAAGAACCCGAAGATAAAC
Found at i:84545839 original size:46 final size:46
Alignment explanation
Indices: 84545781--84545870 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
84545771 GAACCTTAAA
* * *
84545781 TTGAAGCATTCGTTAATTTATCATATATTCATTTTTATTCCCACCG
1 TTGAAGCATTCGTTAATTTACCATAAATTCATTTTTATCCCCACCG
*
84545827 TTGAAGCTTTCGTTAATTTACCATAAATTCATTTTTATCCCCAC
1 TTGAAGCATTCGTTAATTTACCATAAATTCATTTTTATCCCCAC
84545871 ACACCAACAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (46 bp):
TTGAAGCATTCGTTAATTTACCATAAATTCATTTTTATCCCCACCG
Found at i:84558300 original size:32 final size:32
Alignment explanation
Indices: 84558259--84558324 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
84558249 TTATGCAATT
84558259 CACAAACACAACATTTAATTCAAGCATAAAAG
1 CACAAACACAACATTTAATTCAAGCATAAAAG
84558291 CACAAACACAACATTTAATTCAAGCATAAAAG
1 CACAAACACAACATTTAATTCAAGCATAAAAG
84558323 CA
1 CA
84558325 TATACAATTT
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:0.53, C:0.23, G:0.06, T:0.18
Consensus pattern (32 bp):
CACAAACACAACATTTAATTCAAGCATAAAAG
Found at i:84562547 original size:19 final size:20
Alignment explanation
Indices: 84562525--84562565 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
84562515 AAAGTGGGGA
*
84562525 GGAAGGAAGAAAGGGAA-GG
1 GGAAAGAAGAAAGGGAACGG
*
84562544 GGAAAGAAGAAGGGGAACGG
1 GGAAAGAAGAAAGGGAACGG
84562564 GG
1 GG
84562566 GTGCGACGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.44, C:0.02, G:0.54, T:0.00
Consensus pattern (20 bp):
GGAAAGAAGAAAGGGAACGG
Found at i:84569767 original size:25 final size:26
Alignment explanation
Indices: 84569708--84569774 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
84569698 GTTATAAGTG
*
84569708 ACCAAAAGTTGTCACTTGGTTACTAA
1 ACCAAAAGTTGTCACTTGATTACTAA
84569734 ACCAAAAGTTGTCACTTGATTACT-A
1 ACCAAAAGTTGTCACTTGATTACTAA
84569759 ACCAAAAGTTGTCACT
1 ACCAAAAGTTGTCACT
84569775 ATTACTTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
25 17 0.43
26 23 0.57
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (26 bp):
ACCAAAAGTTGTCACTTGATTACTAA
Found at i:84571941 original size:26 final size:26
Alignment explanation
Indices: 84571912--84571962 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
84571902 CGGAGATTAA
84571912 TTAATTAAGAAGCTAACAAAGAGCCT
1 TTAATTAAGAAGCTAACAAAGAGCCT
* * *
84571938 TTAATTAGGAAGCTCACGAAGAGCC
1 TTAATTAAGAAGCTAACAAAGAGCC
84571963 ATATAATGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.22
Consensus pattern (26 bp):
TTAATTAAGAAGCTAACAAAGAGCCT
Found at i:84581035 original size:32 final size:32
Alignment explanation
Indices: 84580994--84581055 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
84580984 TGAGTATGAA
*
84580994 AATGTGTTGCACGTTCTTTGATATTACAATAC
1 AATGTGTTGCACGTTCTTCGATATTACAATAC
*
84581026 AATGTGTTGCATGTTCTTCGATATTACAAT
1 AATGTGTTGCACGTTCTTCGATATTACAAT
84581056 GCAGCTAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.27, C:0.15, G:0.16, T:0.42
Consensus pattern (32 bp):
AATGTGTTGCACGTTCTTCGATATTACAATAC
Found at i:84589660 original size:54 final size:54
Alignment explanation
Indices: 84589610--84589778 Score: 320
Period size: 54 Copynumber: 3.1 Consensus size: 54
84589600 TGTGGCAGAA
84589610 CCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCATGGCATAG
1 CCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCATGGCATAG
84589664 CCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCATGGCATAG
1 CCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCATGGCATAG
**
84589718 CCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAG
1 CCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCATGGCATAG
84589772 CCACCAG
1 CCACCAG
84589779 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 113 1.00
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (54 bp):
CCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCATGGCATAG
Found at i:84589751 original size:27 final size:27
Alignment explanation
Indices: 84589596--84589778 Score: 230
Period size: 27 Copynumber: 6.8 Consensus size: 27
84589586 CCAAATACAA
*
84589596 ATAT-TGTGGCAGAACCACCAGAACAG
1 ATATATGTGGCAGAGCCACCAGAACAG
*
84589622 ATATATGTGGCAGAGCCACCAGATCAG
1 ATATATGTGGCAGAGCCACCAGAACAG
* *
84589649 ATA-ATCATGGCATAGCCACCAGAACAG
1 ATATAT-GTGGCAGAGCCACCAGAACAG
*
84589676 ATATATGTGGCAGAGCCACCAGATCAG
1 ATATATGTGGCAGAGCCACCAGAACAG
* *
84589703 ATA-ATCATGGCATAGCCACCAGAACAG
1 ATATAT-GTGGCAGAGCCACCAGAACAG
*
84589730 ATATATGTGGCAGAGCCACCAGATCAG
1 ATATATGTGGCAGAGCCACCAGAACAG
*
84589757 ATA-ATTGTGGCATAGCCACCAG
1 ATATA-TGTGGCAGAGCCACCAG
84589779 GACGCTTCCT
Statistics
Matches: 136, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
26 9 0.07
27 123 0.90
28 4 0.03
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (27 bp):
ATATATGTGGCAGAGCCACCAGAACAG
Found at i:84591431 original size:26 final size:26
Alignment explanation
Indices: 84591400--84591507 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
84591390 TGAAATGCCC
*
84591400 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
84591426 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
84591452 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
84591478 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
84591504 ATCA
1 ATCA
84591508 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:84593027 original size:36 final size:36
Alignment explanation
Indices: 84592980--84593051 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
84592970 TAATTGATAC
*
84592980 TCAGCTTTCACTTGCTGGCATGTCAGACATTTCCCT
1 TCAGCTTTCACTTGCTGGCATGTCAGACACTTCCCT
84593016 TCAGCTTTCACTTGCTGGCATGTCAGACACTTCCCT
1 TCAGCTTTCACTTGCTGGCATGTCAGACACTTCCCT
84593052 ACAAACTCCG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.35
Consensus pattern (36 bp):
TCAGCTTTCACTTGCTGGCATGTCAGACACTTCCCT
Found at i:84597811 original size:27 final size:27
Alignment explanation
Indices: 84597773--84597903 Score: 169
Period size: 27 Copynumber: 4.9 Consensus size: 27
84597763 CACTAGATAT
*
84597773 AGATAT-TGTGGCAAAGCCACCAGAAC
1 AGATATATGTGGCAGAGCCACCAGAAC
**
84597799 AGATATATGTGGCAGAGCCACCAGATT
1 AGATATATGTGGCAGAGCCACCAGAAC
*
84597826 AGATA-ATCGTGGCATAGCCACCAGAAC
1 AGATATAT-GTGGCAGAGCCACCAGAAC
*
84597853 AGATATATGTGGCAGAGCCACCAGATC
1 AGATATATGTGGCAGAGCCACCAGAAC
*
84597880 AGATA-ATTGTGGCATAGCCACCAG
1 AGATATA-TGTGGCAGAGCCACCAG
84597904 GACGCTTCCT
Statistics
Matches: 92, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
26 9 0.10
27 81 0.88
28 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
AGATATATGTGGCAGAGCCACCAGAAC
Found at i:84597853 original size:54 final size:54
Alignment explanation
Indices: 84597767--84597903 Score: 231
Period size: 54 Copynumber: 2.5 Consensus size: 54
84597757 CGAAGTCACT
*
84597767 AGATATAGAT-ATTGTGGCAAAGCCACCAGAACAGATATATGTGGCAGAGCCACC
1 AGAT-TAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACC
*
84597821 AGATTAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACC
1 AGATTAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACC
*
84597875 AGATCAGATAATTGTGGCATAGCCACCAG
1 AGATTAGATAATTGTGGCATAGCCACCAG
84597904 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 73 0.94
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (54 bp):
AGATTAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACC
Found at i:84598346 original size:8 final size:8
Alignment explanation
Indices: 84598321--84598357 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
84598311 AAAATATCAA
84598321 CTTTTCGG
1 CTTTTCGG
*
84598329 CATTTCGG
1 CTTTTCGG
84598337 CTTTTCGG
1 CTTTTCGG
*
84598345 CTTTTTGG
1 CTTTTCGG
84598353 CTTTT
1 CTTTT
84598358 GCCAATCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.03, C:0.22, G:0.22, T:0.54
Consensus pattern (8 bp):
CTTTTCGG
Found at i:84599565 original size:26 final size:26
Alignment explanation
Indices: 84599534--84599641 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
84599524 TGAAATGCCC
84599534 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
84599560 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
84599586 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
84599612 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
84599638 ATCA
1 ATCA
84599642 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:84605607 original size:131 final size:130
Alignment explanation
Indices: 84605370--84605629 Score: 385
Period size: 131 Copynumber: 2.0 Consensus size: 130
84605360 TAATTATTCA
* * *
84605370 TTTAAAAATTCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCGAGAATCATGCCCTATCG
1 TTTAAAAATTATTCAAAACGAAGGCAATATTCAATGTTTGGCAATTCGAGAATCATGCCCTATCG
* *
84605435 TGCTGGGTTACGATTTCCCGTTTGTTCAAAACAATCAAATATTCCTTTGGAATTTCACTCATGTC
66 TGCTGGGATACGATTTCCCGTTTGTTCAAAACAATCAAATATTCCTTTAGAATTTCACTCATGTC
* * * *
84605500 TTTAAAAATTATTCAAAACGAAGGTAATGTTCAATGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTATTCAAAACGAAGGCAATATTCAATGTTTGGCAATTC-GAGAATCATGCCCTATC
* ** * *
84605565 GTGCTGGGATGCGATTTCTTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGT
65 GTGCTGGGATACGATTTCCCGTTTGTTCAAAACAATCAAATATTCCTTTAGAATTTCACTCATGT
84605630 TCTCTAAATT
Statistics
Matches: 115, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
130 42 0.37
131 73 0.63
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (130 bp):
TTTAAAAATTATTCAAAACGAAGGCAATATTCAATGTTTGGCAATTCGAGAATCATGCCCTATCG
TGCTGGGATACGATTTCCCGTTTGTTCAAAACAATCAAATATTCCTTTAGAATTTCACTCATGTC
Found at i:84609119 original size:17 final size:18
Alignment explanation
Indices: 84609097--84609135 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
84609087 ACAATCTGTT
84609097 AAAAAAATTGAATCTGAA
1 AAAAAAATTGAATCTGAA
84609115 AAAAAAATTGAATCTGAA
1 AAAAAAATTGAATCTGAA
84609133 AAA
1 AAA
84609136 TAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (18 bp):
AAAAAAATTGAATCTGAA
Found at i:84615062 original size:133 final size:133
Alignment explanation
Indices: 84614824--84615712 Score: 1414
Period size: 133 Copynumber: 6.7 Consensus size: 133
84614814 TAAATATTTA
* * *
84614824 TTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCTCTTTATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCTTAATTTTGTCCCTTTATTATTTG
84614889 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
66 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
84614954 ATT
131 ATT
* *
84614957 TTAGTACATAAATGTATTACTTTAGTATTTTTTATATAACCTTAATTTTGTCTCTTTATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCTTAATTTTGTCCCTTTATTATTTG
**
84615022 TATTTCTAAAATATTCAAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
66 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATC--
84615087 ATTATT
129 -TTATT
* *
84615093 TTAGTAAATAAATGTATTA-TTTAGTGTTTTTTATTTTTTTATAAACTTTAATTTTGTCCCTTTA
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTA------TAT-AACCTTAATTTTGTCCCTTTA
84615157 TTATTTGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTT
59 TTATTTGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTT
84615222 TTATCTTATT
124 TTATCTTATT
*
84615232 TTAGTACATAAATGTATTACTTTAGTGTTTTTT-TATAAACTTTAATTTTGTCCCTTTATTATTT
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATAT-AACCTTAATTTTGTCCCTTTATTATTT
84615296 GTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCT
65 GTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCT
84615361 TATT
130 TATT
84615365 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCTTAATTTTGTCCCTTTATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCTTAATTTTGTCCCTTTATTATTTG
84615430 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
66 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
84615495 ATT
131 ATT
*
84615498 TTAGTACATAAATGTATTACTTTAGTGTTTTTT-TAT-A---TAA------CCC--TAAT-TTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCTTAATTTTGTCCCTTTATTATTTG
* *
84615549 TATTTCTAAAATATTCGGATTCTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATCTT
66 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
84615614 ATT
131 ATT
* * *
84615617 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATCTA
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCTTAATTTTGTCCCTTTATTATTTG
*
84615682 TATTTCTAAAATATTCGTATTTTATTTTTTA
66 TATTTCTAAAATATTCGGATTTTATTTTTTA
84615713 TCTTATTTTA
Statistics
Matches: 709, Mismatches: 21, Indels: 52
0.91 0.03 0.07
Matches are distributed among these distances:
119 103 0.15
120 6 0.01
121 1 0.00
122 3 0.00
124 3 0.00
128 3 0.00
130 3 0.00
131 1 0.00
132 6 0.01
133 415 0.59
134 3 0.00
135 13 0.02
136 23 0.03
139 23 0.03
140 13 0.02
141 3 0.00
142 87 0.12
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (133 bp):
TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCTTAATTTTGTCCCTTTATTATTTG
TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
ATT
Found at i:84615357 original size:275 final size:265
Alignment explanation
Indices: 84614824--84615712 Score: 1419
Period size: 275 Copynumber: 3.4 Consensus size: 265
84614814 TAAATATTTA
* *
84614824 TTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCTCTTTATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
84614889 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
66 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
* * *
84614954 ATTTTAGTACATAAATGTATTACTTTAGTATTTTTTATATAACCTTAATTTTGTCTCTTTATTAT
131 ATTTTAGTACATAAATGTATTACTTTAGTGTTTTTT-TATAAACTTAATTTTGTCCCTTTATTAT
**
84615019 TTGTATTTCTAAAATATTCAAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTAT
195 TTGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTAT
84615084 CTTATTATT
260 C---TTATT
* **
84615093 TTAGTAAATAAATGTATTA-TTTAGTGTTTTTTATTTTTTTATAAACTTTAATTTTGTCCCTTTA
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTA------TAT-AACCCTAATTTTGTCCCTTTA
84615157 TTATTTGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTT
59 TTATTTGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTT
84615222 TTATCTTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTTATAAACTTTAATTTTGTCCCT
124 TTATCTTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTTATAAAC-TTAATTTTGTCCCT
84615287 TTATTATTTGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTAT
188 TTATTATTTGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTAT
84615352 TTTTTATCTTATT
253 TTTTTATCTTATT
*
84615365 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCTTAATTTTGTCCCTTTATTATTTG
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
84615430 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
66 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
*
84615495 ATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTTAT--A--TAA------CCC--TAAT-TT
131 ATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTTATAAACTTAATTTTGTCCCTTTATTATT
* *
84615547 TGTATTTCTAAAATATTCGGATTCTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATC
196 TGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATC
84615612 TTATT
261 TTATT
* *
84615617 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATCTA
1 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
*
84615682 TATTTCTAAAATATTCGTATTTTATTTTTTA
66 TATTTCTAAAATATTCGGATTTTATTTTTTA
84615713 TCTTATTTTA
Statistics
Matches: 592, Mismatches: 19, Indels: 35
0.92 0.03 0.05
Matches are distributed among these distances:
252 162 0.27
253 3 0.01
255 3 0.01
261 3 0.01
264 1 0.00
266 131 0.22
267 3 0.01
268 14 0.02
269 17 0.03
272 23 0.04
273 14 0.02
274 9 0.02
275 209 0.35
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (265 bp):
TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
ATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTTATAAACTTAATTTTGTCCCTTTATTATT
TGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATC
TTATT
Found at i:84615557 original size:119 final size:118
Alignment explanation
Indices: 84615426--84615667 Score: 457
Period size: 119 Copynumber: 2.0 Consensus size: 118
84615416 CCCTTTATTA
*
84615426 TTTGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTA
1 TTTGTATTTCTAAAATATTCGGATTCTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTA
84615491 TCTTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTTATATAACCCTAAT
66 TCTTATTTTAGTACATAAATGTATTACTTTAGTG-TTTTTTATATAACCCTAAT
*
84615545 TTTGTATTTCTAAAATATTCGGATTCTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTA
1 TTTGTATTTCTAAAATATTCGGATTCTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTA
84615610 TCTTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAAT
66 TCTTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAAT
84615663 TTTGT
1 TTTGT
84615668 CCCTTTATTA
Statistics
Matches: 121, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
118 24 0.20
119 97 0.80
ACGTcount: A:0.28, C:0.08, G:0.07, T:0.57
Consensus pattern (118 bp):
TTTGTATTTCTAAAATATTCGGATTCTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTA
TCTTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAAT
Found at i:84615584 original size:408 final size:403
Alignment explanation
Indices: 84614824--84615712 Score: 1395
Period size: 408 Copynumber: 2.2 Consensus size: 403
84614814 TAAATATTTA
*
84614824 TTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCTCTTTATTATTTG
1 TTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
84614889 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
66 TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
*
84614954 ATTTTAGTACATAAATGTATTACTTTAGTATTTTTTATATAACCTTAATTTTGTCTCTTTATTAT
131 ATTTTAGTACATAAATGTATTACTTTAGTATTTTTTATATAACCTTAATTTTGTCCCTTTATTAT
84615019 TTGTATTTCTAAAATATTCAAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTAT
196 TTGTATTTCTAAAATATTCAAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTAT
* **
84615084 CTTATTATTTTAGTAAATAAATGTATTATTTAGTGTTTTTTATTTTTTTATAAACTTTAATTTTG
261 C-T-TTATTTTAGTAAATAAATGTATTATTTAGTG---TTTATTTTTATATAAACCCTAATTTTG
* *
84615149 TCCCTTTATTATTTGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTAT
321 TCCCTATATTATTTATATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTAT
84615214 TTTATTTTTTATCTTATT
386 TTTATTTTTTATCTTATT
* **
84615232 TTAGTACATAAATGTATTACTTTAGTGTTTTTT-TATAAACTTTAATTTTGTCCCTTTATTATTT
1 TTAGTACATAAATGTATAACTTTAGTGTTTTTTATAT-AACCCTAATTTTGTCCCTTTATTATTT
84615296 GTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCT
65 GTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCT
*
84615361 TATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCTTAATTTTGTCCCTTTATTA
130 TATTTTAGTACATAAATGTATTACTTTAGTATTTTTTATATAACCTTAATTTTGTCCCTTTATTA
**
84615426 TTTGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTA
195 TTTGTATTTCTAAAATATTCAAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTA
*
84615491 TC-TTATTTTAGTACATAAATGTATTACTTTAGTG-TT-TTTTTATAT-AACCCTAATTTTG---
260 TCTTTATTTTAGTAAATAAATGTATTA-TTTAGTGTTTATTTTTATATAAACCCTAATTTTGTCC
* *
84615549 ------------TATTTCTAAAATATTCGGATTCTATTTTTTAAAATATATTATTTTCGTATTTT
324 CTATATTATTTATATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTT
84615602 ATTTTTTATCTTATT
389 ATTTTTTATCTTATT
* * *
84615617 TTAGTACATAAATGTATTACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATCTA
1 TTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
*
84615682 TATTTCTAAAATATTCGTATTTTATTTTTTA
66 TATTTCTAAAATATTCGGATTTTATTTTTTA
84615713 TCTTATTTTA
Statistics
Matches: 459, Mismatches: 19, Indels: 29
0.91 0.04 0.06
Matches are distributed among these distances:
385 153 0.33
386 3 0.01
400 11 0.02
401 8 0.02
402 2 0.00
405 23 0.05
406 7 0.02
407 3 0.01
408 249 0.54
ACGTcount: A:0.28, C:0.09, G:0.06, T:0.57
Consensus pattern (403 bp):
TTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATTATTTG
TATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTT
ATTTTAGTACATAAATGTATTACTTTAGTATTTTTTATATAACCTTAATTTTGTCCCTTTATTAT
TTGTATTTCTAAAATATTCAAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTAT
CTTTATTTTAGTAAATAAATGTATTATTTAGTGTTTATTTTTATATAAACCCTAATTTTGTCCCT
ATATTATTTATATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTAT
TTTTTATCTTATT
Found at i:84615851 original size:24 final size:25
Alignment explanation
Indices: 84615824--84615870 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
84615814 TTTTTTAAAA
*
84615824 TATAATA-TTTTCGTATTTTATTTT
1 TATAATATTTTTAGTATTTTATTTT
*
84615848 TATACTATTTTTAGTATTTTATT
1 TATAATATTTTTAGTATTTTATT
84615871 GTATTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (25 bp):
TATAATATTTTTAGTATTTTATTTT
Found at i:84615903 original size:17 final size:16
Alignment explanation
Indices: 84615867--84615912 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
84615857 TTTAGTATTT
*
84615867 TATTGTATTTTTTTCA
1 TATTCTATTTTTTTCA
*
84615883 TATTCTATTTCTTTTCG
1 TATTCTATTT-TTTTCA
*
84615900 TATTTTATTTTTT
1 TATTCTATTTTTT
84615913 CATTAAGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.15, C:0.09, G:0.04, T:0.72
Consensus pattern (16 bp):
TATTCTATTTTTTTCA
Found at i:84616075 original size:60 final size:60
Alignment explanation
Indices: 84615982--84616095 Score: 228
Period size: 60 Copynumber: 1.9 Consensus size: 60
84615972 AATCATATCA
84615982 TATAAAAAATAAAAATAAATAAAATAATCAGAATATAACATGCCAAAGAAATTTATGTCC
1 TATAAAAAATAAAAATAAATAAAATAATCAGAATATAACATGCCAAAGAAATTTATGTCC
84616042 TATAAAAAATAAAAATAAATAAAATAATCAGAATATAACATGCCAAAGAAATTT
1 TATAAAAAATAAAAATAAATAAAATAATCAGAATATAACATGCCAAAGAAATTT
84616096 TATAAAAAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.61, C:0.09, G:0.06, T:0.25
Consensus pattern (60 bp):
TATAAAAAATAAAAATAAATAAAATAATCAGAATATAACATGCCAAAGAAATTTATGTCC
Found at i:84616333 original size:11 final size:11
Alignment explanation
Indices: 84616317--84616346 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
84616307 AATAAATTTA
84616317 TAAATTAAATC
1 TAAATTAAATC
84616328 TAAATTAAATC
1 TAAATTAAATC
84616339 -AAATTAAA
1 TAAATTAAA
84616347 ATCAACAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAATTAAATC
Found at i:84616348 original size:11 final size:10
Alignment explanation
Indices: 84616318--84616351 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
84616308 ATAAATTTAT
84616318 AAATTAAATC
1 AAATTAAATC
84616328 TAAATTAAATC
1 -AAATTAAATC
84616339 AAATTAAAATC
1 AAATT-AAATC
84616350 AA
1 AA
84616352 CAATAAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (10 bp):
AAATTAAATC
Found at i:84616496 original size:14 final size:13
Alignment explanation
Indices: 84616477--84616513 Score: 58
Period size: 12 Copynumber: 2.8 Consensus size: 13
84616467 GGTTGCTCCT
84616477 TCTTCTTCTTCTTC
1 TCTTCTT-TTCTTC
84616491 TCTTCTTTTCTTC
1 TCTTCTTTTCTTC
84616504 T-TTCTTTTCT
1 TCTTCTTTTCT
84616514 CTCCTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 9 0.39
13 7 0.30
14 7 0.30
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (13 bp):
TCTTCTTTTCTTC
Found at i:84616497 original size:17 final size:16
Alignment explanation
Indices: 84616475--84616525 Score: 63
Period size: 14 Copynumber: 3.3 Consensus size: 16
84616465 CTGGTTGCTC
84616475 CTTCTTCTTCTTCTTCT
1 CTTCTTCTTCTTCTT-T
84616492 CTTCTT-TTCTTCTTT
1 CTTCTTCTTCTTCTTT
*
84616507 CTT-TTC-TCTCCTTT
1 CTTCTTCTTCTTCTTT
84616521 CTTCT
1 CTTCT
84616526 CCCCAAATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 12 0.39
15 5 0.16
16 8 0.26
17 6 0.19
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (16 bp):
CTTCTTCTTCTTCTTT
Found at i:84616501 original size:22 final size:20
Alignment explanation
Indices: 84616472--84616525 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
84616462 CGTCTGGTTG
84616472 CTCC-TTCTTCTTCTTCTTCT
1 CTCCTTTCTTCTTCTT-TTCT
*
84616492 CTTCTTTTCTTCTTTCTTTTCT
1 C-TCCTTTCTTC-TTCTTTTCT
84616514 CTCCTTTCTTCT
1 CTCCTTTCTTCT
84616526 CCCCAAATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 2 0.07
21 11 0.38
22 11 0.38
23 5 0.17
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (20 bp):
CTCCTTTCTTCTTCTTTTCT
Found at i:84616522 original size:14 final size:12
Alignment explanation
Indices: 84616475--84616523 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 12
84616465 CTGGTTGCTC
84616475 CTTC-TTCTTCTT
1 CTTCTTTCTT-TT
84616487 CTTCTCTTCTTTT
1 CTTCT-TTCTTTT
84616500 CTTCTTTCTTTT
1 CTTCTTTCTTTT
84616512 CTCTCCTTTCTT
1 CT-T-CTTTCTT
84616524 CTCCCCAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
12 13 0.39
13 8 0.24
14 12 0.36
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (12 bp):
CTTCTTTCTTTT
Found at i:84617754 original size:26 final size:26
Alignment explanation
Indices: 84617725--84617782 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 26
84617715 ATCGCTCCAA
*
84617725 GAAAGAGAAAT-TTCT-TGAAAGAAATC
1 GAAAGAGAAATATTCTCTG--AGAAAAC
84617751 GAAAGAGAAATATTCTCTGAGAAAAC
1 GAAAGAGAAATATTCTCTGAGAAAAC
84617777 GAAAGA
1 GAAAGA
84617783 AGAAGAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 23 0.79
27 4 0.14
28 2 0.07
ACGTcount: A:0.52, C:0.09, G:0.21, T:0.19
Consensus pattern (26 bp):
GAAAGAGAAATATTCTCTGAGAAAAC
Found at i:84620169 original size:52 final size:51
Alignment explanation
Indices: 84620091--84620193 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 51
84620081 CTAACAAAAG
84620091 TCTGTAATTTCAATTTACAATAGGATAAATCAACCCCCATGAAAAGGATGGA
1 TCTGTAATTTCAATTTACAATAGGAT-AATCAACCCCCATGAAAAGGATGGA
*
84620143 TCTGTAATTTCAATTTACAATAGGATAATGAACCCCCATGAAAAGGATGGA
1 TCTGTAATTTCAATTTACAATAGGATAATCAACCCCCATGAAAAGGATGGA
84620194 ATTGGGGGAT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 24 0.48
52 26 0.52
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.27
Consensus pattern (51 bp):
TCTGTAATTTCAATTTACAATAGGATAATCAACCCCCATGAAAAGGATGGA
Found at i:84621047 original size:37 final size:37
Alignment explanation
Indices: 84621006--84621083 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
84620996 TAAATTTTTA
* *
84621006 AAAATCATGAAAAAAATTTCTTAA-ATTTTAAAAATAT
1 AAAATCATGAAAAAAATTT-TAAACATCTTAAAAATAT
***
84621043 AAAATCATTTTAAAAATTTTAAACATCTTAAAAATAT
1 AAAATCATGAAAAAAATTTTAAACATCTTAAAAATAT
84621080 AAAA
1 AAAA
84621084 AAAATCGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 3 0.09
37 32 0.91
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (37 bp):
AAAATCATGAAAAAAATTTTAAACATCTTAAAAATAT
Found at i:84621052 original size:19 final size:18
Alignment explanation
Indices: 84621030--84621083 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
84621020 AATTTCTTAA
84621030 ATTTTAAAAATATAAAATC
1 ATTTTAAAAATATAAAA-C
* *
84621049 ATTTTAAAAATTTTAAAC
1 ATTTTAAAAATATAAAAC
*
84621067 ATCTTAAAAATATAAAA
1 ATTTTAAAAATATAAAA
84621084 AAAATCGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTTTAAAAATATAAAAC
Found at i:84622713 original size:7 final size:8
Alignment explanation
Indices: 84622694--84622734 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
84622684 AATGATACTT
84622694 TTTTTAAA
1 TTTTTAAA
84622702 TTTTTAAA
1 TTTTTAAA
*
84622710 TTTTTCATA
1 TTTTT-AAA
84622719 TTTTTAAA
1 TTTTTAAA
*
84622727 ATTTTAAA
1 TTTTTAAA
84622735 GCGTTTTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 22 0.76
9 7 0.24
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (8 bp):
TTTTTAAA
Found at i:84622713 original size:17 final size:17
Alignment explanation
Indices: 84622693--84622731 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
84622683 GAATGATACT
*
84622693 TTTTTTAAATTTTTAAA
1 TTTTTCAAATTTTTAAA
*
84622710 TTTTTCATATTTTTAAA
1 TTTTTCAAATTTTTAAA
*
84622727 ATTTT
1 TTTTT
84622732 AAAGCGTTTT
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:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTCAAATTTTTAAA
Found at i:84624581 original size:20 final size:20
Alignment explanation
Indices: 84624556--84624597 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
84624546 ATTCTTCTAT
84624556 AGTAATCGGGTAATCGGTGA
1 AGTAATCGGGTAATCGGTGA
84624576 AGTAATCGGGTAATCGGTGA
1 AGTAATCGGGTAATCGGTGA
84624596 AG
1 AG
84624598 CGATCATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.10, G:0.36, T:0.24
Consensus pattern (20 bp):
AGTAATCGGGTAATCGGTGA
Found at i:84630230 original size:21 final size:21
Alignment explanation
Indices: 84630197--84630284 Score: 56
Period size: 21 Copynumber: 4.2 Consensus size: 21
84630187 CACAGAAGTA
*
84630197 CATAAGTGCTAAACGGAAACC
1 CATAAGGGCTAAACGGAAACC
* *
84630218 CATAAGGGTTAAAC-TAAAGCTC
1 CATAAGGGCTAAACGGAAA-C-C
* *
84630240 GA-AAGAGCTAAACGGAAACC
1 CATAAGGGCTAAACGGAAACC
* * *
84630260 CA-ATAGGGTTAAACTGAAACT
1 CATA-AGGGCTAAACGGAAACC
84630281 CATA
1 CATA
84630285 CGAGTTGACT
Statistics
Matches: 50, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
20 6 0.12
21 38 0.76
22 6 0.12
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.17
Consensus pattern (21 bp):
CATAAGGGCTAAACGGAAACC
Found at i:84630443 original size:77 final size:77
Alignment explanation
Indices: 84630316--84630465 Score: 282
Period size: 77 Copynumber: 1.9 Consensus size: 77
84630306 GAGCTAAACG
* *
84630316 GAACGTAAACATAGAAGTTCGCAACAAATGCTGAACCTTGGTTTACTTGGGTAGTTTGCCATCAA
1 GAACGTAAACACAGAAGTTCCCAACAAATGCTGAACCTTGGTTTACTTGGGTAGTTTGCCATCAA
84630381 TTTTTTTTAACA
66 TTTTTTTTAACA
84630393 GAACGTAAACACAGAAGTTCCCAACAAATGCTGAACCTTGGTTTACTTGGGTAGTTTGCCATCAA
1 GAACGTAAACACAGAAGTTCCCAACAAATGCTGAACCTTGGTTTACTTGGGTAGTTTGCCATCAA
84630458 TTTTTTTT
66 TTTTTTTT
84630466 TTACATTGAA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 71 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (77 bp):
GAACGTAAACACAGAAGTTCCCAACAAATGCTGAACCTTGGTTTACTTGGGTAGTTTGCCATCAA
TTTTTTTTAACA
Found at i:84631904 original size:19 final size:18
Alignment explanation
Indices: 84631880--84631915 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
84631870 TAATAAATTA
*
84631880 TTTAATATTATAATTTTAT
1 TTTAATAATA-AATTTTAT
84631899 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
84631916 AATAATATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:84632302 original size:31 final size:31
Alignment explanation
Indices: 84632267--84632363 Score: 194
Period size: 31 Copynumber: 3.1 Consensus size: 31
84632257 TTTTTTTTGA
84632267 AAATGAACGAAACCGACATTCCTATTTTTAC
1 AAATGAACGAAACCGACATTCCTATTTTTAC
84632298 AAATGAACGAAACCGACATTCCTATTTTTAC
1 AAATGAACGAAACCGACATTCCTATTTTTAC
84632329 AAATGAACGAAACCGACATTCCTATTTTTAC
1 AAATGAACGAAACCGACATTCCTATTTTTAC
84632360 AAAT
1 AAAT
84632364 AGGAACCAAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 66 1.00
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (31 bp):
AAATGAACGAAACCGACATTCCTATTTTTAC
Found at i:84636163 original size:13 final size:13
Alignment explanation
Indices: 84636144--84636205 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
84636134 TTGGACAATG
84636144 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
*
84636157 TTTTTGAAAAGTA
1 CTTTTGAAAAGTA
**
84636170 -TTGTAAAAAAGTA
1 CTT-TTGAAAAGTA
*
84636183 CTTTTGAGAAGTA
1 CTTTTGAAAAGTA
84636196 CTTTTGAAAA
1 CTTTTGAAAA
84636206 TTTTAGTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
12 2 0.05
13 36 0.90
14 2 0.05
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:84641679 original size:11 final size:11
Alignment explanation
Indices: 84641663--84641696 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
84641653 CTCATCTAGT
84641663 TTTGTTCTTGA
1 TTTGTTCTTGA
*
84641674 TTTGTTCTTAA
1 TTTGTTCTTGA
*
84641685 TTTATTCTTGA
1 TTTGTTCTTGA
84641696 T
1 T
84641697 GATTTGACAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.15, C:0.09, G:0.12, T:0.65
Consensus pattern (11 bp):
TTTGTTCTTGA
Found at i:84648144 original size:23 final size:23
Alignment explanation
Indices: 84648117--84648191 Score: 132
Period size: 23 Copynumber: 3.2 Consensus size: 23
84648107 CATACAACAG
84648117 ACACTGATTCAACTTTCCTTTCT
1 ACACTGATTCAACTTTCCTTTCT
84648140 ACACTGATTCAACTTTCCTTTCT
1 ACACTGATTCAACTTTCCTTTCT
*
84648163 ACATTGATTCAACTTTCCTTTCT
1 ACACTGATTCAACTTTCCTTTCT
84648186 AACACT
1 -ACACT
84648192 TTTGAATCGA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
23 45 0.92
24 4 0.08
ACGTcount: A:0.24, C:0.29, G:0.04, T:0.43
Consensus pattern (23 bp):
ACACTGATTCAACTTTCCTTTCT
Found at i:84649488 original size:19 final size:19
Alignment explanation
Indices: 84649451--84649488 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
84649441 CTAATTAAGT
*
84649451 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
84649470 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
84649489 GAAAAAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:84650574 original size:39 final size:39
Alignment explanation
Indices: 84650526--84650672 Score: 186
Period size: 39 Copynumber: 3.8 Consensus size: 39
84650516 TTAATAAGGG
* *
84650526 TAAACTACTGTACTGAATAATTGCTAGTTACTGAATAAC
1 TAAACTACTGCACTGAATAATTGATAGTTACTGAATAAC
* * * *
84650565 TAAATTACTGTATTGAATAATTGATAGTTATTGAATAAC
1 TAAACTACTGCACTGAATAATTGATAGTTACTGAATAAC
* * * *
84650604 TAGACTACCGCACTGAATATTTGATAGTTACTGAATGAC
1 TAAACTACTGCACTGAATAATTGATAGTTACTGAATAAC
* *
84650643 TAAATTACTGCACTGAATAATTGATTGTTA
1 TAAACTACTGCACTGAATAATTGATAGTTA
84650673 TTGATTGTTT
Statistics
Matches: 91, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 91 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.36
Consensus pattern (39 bp):
TAAACTACTGCACTGAATAATTGATAGTTACTGAATAAC
Found at i:84651317 original size:24 final size:24
Alignment explanation
Indices: 84651290--84651368 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
84651280 GTTAGATATT
84651290 TATAAAGGGGTTATATTGAGTTCG
1 TATAAAGGGGTTATATTGAGTTCG
* ** *
84651314 TATAAAGTAGGG-AAGGTT-AGATAT-T
1 TATAAAG--GGGTTATATTGAG-T-TCG
84651339 TATAAAGGGGTTATATTGAGTTCG
1 TATAAAGGGGTTATATTGAGTTCG
84651363 TATAAA
1 TATAAA
84651369 AAAATTTAGA
Statistics
Matches: 40, Mismatches: 8, Indels: 14
0.65 0.13 0.23
Matches are distributed among these distances:
23 4 0.10
24 19 0.47
25 13 0.32
26 4 0.10
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (24 bp):
TATAAAGGGGTTATATTGAGTTCG
Found at i:84651344 original size:49 final size:49
Alignment explanation
Indices: 84651272--84651368 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
84651262 TTTGAATGTT
*
84651272 TAGGGATGGTTAGATATTTATAAAGGGGTTATATTGAGTTCGTATAAAG
1 TAGGGAAGGTTAGATATTTATAAAGGGGTTATATTGAGTTCGTATAAAG
84651321 TAGGGAAGGTTAGATATTTATAAAGGGGTTATATTGAGTTCGTATAAA
1 TAGGGAAGGTTAGATATTTATAAAGGGGTTATATTGAGTTCGTATAAA
84651369 AAAATTTAGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (49 bp):
TAGGGAAGGTTAGATATTTATAAAGGGGTTATATTGAGTTCGTATAAAG
Found at i:84654525 original size:55 final size:53
Alignment explanation
Indices: 84654402--84654588 Score: 214
Period size: 55 Copynumber: 3.5 Consensus size: 53
84654392 CTTACCATTA
* * * *
84654402 CCATGTCTTGACATGGTCTTACGTGGTGTCCTTGCCTTAT-GAACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGG-GTCCTTGCCTTATAGAACTTATCAATG
* * * * *
84654455 CCATGCCTTGGCATGGTCTTGCATGGGACCTTTTCCTTATAGTGACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGGGTCC-TTGCCTTATAG-AACTTATCAATG
* **
84654510 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATG-GGTCCTTGCCTTATAGAACTTATCAATG
*
84654564 CCATGCCTTGGCATGGTCTTACATG
1 CCATGCCTTGACATGGTCTTACATG
84654589 ATATCCTTAT
Statistics
Matches: 111, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 3 0.03
53 30 0.27
54 35 0.32
55 41 0.37
56 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (53 bp):
CCATGCCTTGACATGGTCTTACATGGGTCCTTGCCTTATAGAACTTATCAATG
Found at i:84654579 original size:54 final size:54
Alignment explanation
Indices: 84654402--84654596 Score: 223
Period size: 54 Copynumber: 3.6 Consensus size: 54
84654392 CTTACCATTA
* * * * *
84654402 CCATGTCTTGACATGGTCTTACGTGGTGTCCTTGCCTTAT-GAACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGATGTCCTTGCCTTATAGAACTTATCAATG
* * * * * *
84654455 CCATGCCTTGGCATGGTCTTGCATG-GGACCTTTTCCTTATAGTGACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGATGTCC-TTGCCTTATAG-AACTTATCAATG
* *
84654510 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGATGTCCTTGCCTTATAGAACTTATCAATG
* *
84654564 CCATGCCTTGGCATGGTCTTACATGATATCCTT
1 CCATGCCTTGACATGGTCTTACATGATGTCCTT
84654597 ATCTTACCAA
Statistics
Matches: 117, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 3 0.03
53 29 0.25
54 42 0.36
55 41 0.35
56 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGATGTCCTTGCCTTATAGAACTTATCAATG
Found at i:84660271 original size:27 final size:27
Alignment explanation
Indices: 84660240--84660325 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
84660230 TATAACCAAT
84660240 AAAATAGTGATATATTTCCAATCAAGA
1 AAAATAGTGATATATTTCCAATCAAGA
*** * ** *
84660267 AAAATAAAAAAATATTTATAA-CTAA-T
1 AAAATAGTGATATATTTCCAATC-AAGA
*
84660293 AAAATAGTGATATATGTCCAATCAAGA
1 AAAATAGTGATATATTTCCAATCAAGA
84660320 AAAATA
1 AAAATA
84660326 AAAAATATTT
Statistics
Matches: 41, Mismatches: 15, Indels: 6
0.66 0.24 0.10
Matches are distributed among these distances:
26 17 0.41
27 24 0.59
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (27 bp):
AAAATAGTGATATATTTCCAATCAAGA
Found at i:84660294 original size:53 final size:52
Alignment explanation
Indices: 84660228--84660336 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 52
84660218 ATTAAAACCT
*
84660228 TTTATAACCAATAAAATAGTGATATATTTCCAATCAAGAAAAATAAAAAAATA
1 TTTATAACCAATAAAATAGTGATATATGTCCAATCAAGAAAAAT-AAAAAATA
*
84660281 TTTATAACTAATAAAATAGTGATATATGTCCAATCAAGAAAAATAAAAAATA
1 TTTATAACCAATAAAATAGTGATATATGTCCAATCAAGAAAAATAAAAAATA
84660333 TTTA
1 TTTA
84660337 ACGTGAAAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
52 12 0.22
53 42 0.78
ACGTcount: A:0.55, C:0.08, G:0.06, T:0.30
Consensus pattern (52 bp):
TTTATAACCAATAAAATAGTGATATATGTCCAATCAAGAAAAATAAAAAATA
Found at i:84660307 original size:26 final size:26
Alignment explanation
Indices: 84660228--84660307 Score: 63
Period size: 26 Copynumber: 3.0 Consensus size: 26
84660218 ATTAAAACCT
*
84660228 TTTATAACCAATAAAATAGTGATATA
1 TTTATAACTAATAAAATAGTGATATA
** * *** *
84660254 TTTCCAA-TCAAGAAAAATAAAAAAATA
1 TTTATAACT-AA-TAAAATAGTGATATA
84660281 TTTATAACTAATAAAATAGTGATATA
1 TTTATAACTAATAAAATAGTGATATA
84660307 T
1 T
84660308 GTCCAATCAA
Statistics
Matches: 36, Mismatches: 15, Indels: 6
0.63 0.26 0.11
Matches are distributed among these distances:
26 18 0.50
27 17 0.47
28 1 0.03
ACGTcount: A:0.54, C:0.07, G:0.06, T:0.33
Consensus pattern (26 bp):
TTTATAACTAATAAAATAGTGATATA
Found at i:84660322 original size:26 final size:26
Alignment explanation
Indices: 84660240--84660322 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 26
84660230 TATAACCAAT
84660240 AAAATAGTGATATATTTCCAATCAAG
1 AAAATAGTGATATATTTCCAATCAAG
*** * ** *
84660266 AAAAATAAAAAAATATTTATAA-CTAAT
1 -AAAATAGTGATATATTTCCAATC-AAG
*
84660293 AAAATAGTGATATATGTCCAATCAAG
1 AAAATAGTGATATATTTCCAATCAAG
84660319 AAAA
1 AAAA
84660323 ATAAAAAATA
Statistics
Matches: 39, Mismatches: 15, Indels: 5
0.66 0.25 0.08
Matches are distributed among these distances:
26 21 0.54
27 18 0.46
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.28
Consensus pattern (26 bp):
AAAATAGTGATATATTTCCAATCAAG
Found at i:84667845 original size:21 final size:19
Alignment explanation
Indices: 84667823--84667892 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 19
84667813 ATTATTAAAT
*
84667823 TTTAATAAAAATATTTAAAA
1 TTTAATAAAAA-ATTGAAAA
*
84667843 TTTATTAAAAAATTGAAAAAA
1 TTTAATAAAAAATTG--AAAA
*
84667864 ATT-ATAAAAAATTGTAAAA
1 TTTAATAAAAAATTG-AAAA
84667883 CTTT-ATAAAA
1 -TTTAATAAAA
84667893 TCATAAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
19 7 0.17
20 28 0.68
21 6 0.15
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (19 bp):
TTTAATAAAAAATTGAAAA
Found at i:84667862 original size:20 final size:20
Alignment explanation
Indices: 84667839--84667892 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
84667829 AAAAATATTT
84667839 AAAATTTATTAAAAAATTGAA
1 AAAATTTA-TAAAAAATTGAA
* *
84667860 AAAAATTATAAAAAATTGTA
1 AAAATTTATAAAAAATTGAA
*
84667880 AAACTTTATAAAA
1 AAAATTTATAAAA
84667893 TCATAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 22 0.76
21 7 0.24
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAATTTATAAAAAATTGAA
Found at i:84667872 original size:18 final size:18
Alignment explanation
Indices: 84667846--84667911 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
84667836 TTTAAAATTT
*
84667846 ATTAAAAAATTGAAAAAA
1 ATTATAAAATTGAAAAAA
* *
84667864 ATTATAAAAAATTGTAAAAC
1 ATTAT--AAAATTGAAAAAA
* *
84667884 TTTATAAAA-TCATAAAAA
1 ATTATAAAATTGA-AAAAA
84667902 ATTATAAAAT
1 ATTATAAAAT
84667912 GCATAAAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
17 1 0.03
18 20 0.56
20 15 0.42
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (18 bp):
ATTATAAAATTGAAAAAA
Found at i:84667901 original size:19 final size:19
Alignment explanation
Indices: 84667885--84667920 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
84667875 TTGTAAAACT
84667885 TTATAAAAT-CATAAAAAA
1 TTATAAAATGCATAAAAAA
84667903 TTATAAAATGCATAAAAA
1 TTATAAAATGCATAAAAA
84667921 TGATCATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (19 bp):
TTATAAAATGCATAAAAAA
Found at i:84667920 original size:28 final size:29
Alignment explanation
Indices: 84667860--84667921 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
84667850 AAAAATTGAA
* * **
84667860 AAAAATTATAAAAAATTGTAAAACTTTAT
1 AAAAATCATAAAAAATTATAAAACTGCAT
84667889 -AAAATCATAAAAAATTATAAAA-TGCAT
1 AAAAATCATAAAAAATTATAAAACTGCAT
84667916 AAAAAT
1 AAAAAT
84667922 GATCATTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (29 bp):
AAAAATCATAAAAAATTATAAAACTGCAT
Found at i:84668043 original size:8 final size:9
Alignment explanation
Indices: 84668026--84668076 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
84668016 ACATGTGACA
84668026 AAAAATAAT
1 AAAAATAAT
84668035 AAAAA-AAT
1 AAAAATAAT
84668043 AAAAATCAAT
1 AAAAAT-AAT
* *
84668053 AAAAGTTATAG
1 AAAA-ATA-AT
84668064 AAAAATAAT
1 AAAAATAAT
84668073 AAAA
1 AAAA
84668077 TTCACTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
8 8 0.24
9 10 0.29
10 10 0.29
11 6 0.18
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (9 bp):
AAAAATAAT
Found at i:84668164 original size:29 final size:27
Alignment explanation
Indices: 84668131--84668228 Score: 101
Period size: 29 Copynumber: 3.4 Consensus size: 27
84668121 TTCTTTACAT
*
84668131 TTTTATAAATTTCTTACGGCTTTATAAAA
1 TTTTATAATTTTCTTAC--CTTTATAAAA
*
84668160 TTTTATTATTTTTCTATA-CTTCTAT-AAA
1 TTTTA-TAATTTTCT-TACCTT-TATAAAA
84668188 TTTTATAATTTTCTTACAACTTTATAAAA
1 TTTTATAATTTTCTTAC--CTTTATAAAA
84668217 TTTTATAATTTT
1 TTTTATAATTTT
84668229 ATAAATTTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
26 2 0.03
27 8 0.14
28 14 0.24
29 26 0.44
30 7 0.12
31 2 0.03
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (27 bp):
TTTTATAATTTTCTTACCTTTATAAAA
Found at i:84668237 original size:9 final size:9
Alignment explanation
Indices: 84668182--84668246 Score: 55
Period size: 8 Copynumber: 7.1 Consensus size: 9
84668172 TCTATACTTC
84668182 TATAAATTT
1 TATAAATTT
84668191 TAT-AATTT
1 TATAAATTT
* *
84668199 TCTTACAACTT
1 T-ATA-AATTT
84668210 TATAAAATTT
1 TAT-AAATTT
84668220 TAT-AATTT
1 TATAAATTT
84668228 TATAAATTT
1 TATAAATTT
84668237 T-TAAGATTT
1 TATAA-ATTT
84668246 T
1 T
84668247 TTATAATTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
8 17 0.37
9 15 0.33
10 8 0.17
11 6 0.13
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (9 bp):
TATAAATTT
Found at i:84668239 original size:28 final size:27
Alignment explanation
Indices: 84668151--84668246 Score: 79
Period size: 29 Copynumber: 3.5 Consensus size: 27
84668141 TTCTTACGGC
* * *
84668151 TTTATAAAATTTTATTATTTTTCTATACT
1 TTTATAAAATTTTA-TAATTTTATA-AAT
* * *
84668180 TCTAT-AAATTTTATAATTTTCTTACAAC
1 TTTATAAAATTTTATAATTTT-ATA-AAT
84668208 TTTATAAAATTTTATAATTTTATAAAT
1 TTTATAAAATTTTATAATTTTATAAAT
*
84668235 TTT-TAAGATTTT
1 TTTATAAAATTTT
84668247 TTATAATTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
26 8 0.15
27 11 0.20
28 17 0.31
29 19 0.35
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.57
Consensus pattern (27 bp):
TTTATAAAATTTTATAATTTTATAAAT
Found at i:84668246 original size:18 final size:18
Alignment explanation
Indices: 84668151--84668239 Score: 61
Period size: 19 Copynumber: 4.8 Consensus size: 18
84668141 TTCTTACGGC
*
84668151 TTTATAAAATTTTATTATT
1 TTTATAAAATTTTA-TAAT
* * * *
84668170 TTTCTATACTTCTATAAAT
1 TTTATAAAATTTTAT-AAT
** * *
84668189 TTTATAATTTTCTTACAAC
1 TTTATAAAATT-TTATAAT
84668208 TTTATAAAATTTTATAAT
1 TTTATAAAATTTTATAAT
*
84668226 TTTATAAATTTTTA
1 TTTATAAAATTTTA
84668240 AGATTTTTTA
Statistics
Matches: 51, Mismatches: 17, Indels: 5
0.70 0.23 0.07
Matches are distributed among these distances:
18 19 0.37
19 30 0.59
20 2 0.04
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTATAAAATTTTATAAT
Found at i:84668249 original size:57 final size:58
Alignment explanation
Indices: 84668129--84668254 Score: 143
Period size: 57 Copynumber: 2.2 Consensus size: 58
84668119 ATTTCTTTAC
* ** * * *
84668129 ATTTTTATAAATTTCTTACGGCTTTATAAAATTTTATTATTTTTCTATACTTCTATAA
1 ATTTTTATAATTTTCTTACAACTTTATAAAATTTTATTAATTTTATATAATTCTATAA
*
84668187 A-TTTTATAATTTTCTTACAACTTTATAAAATTTTA-TAATTTTATA-AATT-TTTAA
1 ATTTTTATAATTTTCTTACAACTTTATAAAATTTTATTAATTTTATATAATTCTATAA
84668241 GATTTTTTATAATT
1 -A-TTTTTATAATT
84668255 ATTTTTTTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
54 4 0.07
55 4 0.07
56 8 0.14
57 41 0.71
58 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.56
Consensus pattern (58 bp):
ATTTTTATAATTTTCTTACAACTTTATAAAATTTTATTAATTTTATATAATTCTATAA
Found at i:84668280 original size:18 final size:18
Alignment explanation
Indices: 84668253--84668299 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
84668243 TTTTTTATAA
*
84668253 TTAT-TTTTTTACAATTT
1 TTATATTTTTTACAAGTT
* *
84668270 TTATATTTTTTTCTAGTT
1 TTATATTTTTTACAAGTT
*
84668288 TTAAATTTTTTA
1 TTATATTTTTTA
84668300 TATTTTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.70
Consensus pattern (18 bp):
TTATATTTTTTACAAGTT
Found at i:84668398 original size:29 final size:28
Alignment explanation
Indices: 84668349--84668406 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
84668339 CAATTATATA
*
84668349 TATTATAATTTTTAATATTTTATATATTT
1 TATTAAAATTTTTAATATTTTATA-ATTT
*
84668378 TATTAAAATTTATTTAT-TTTTATAATTT
1 TATTAAAATTT-TTAATATTTTATAATTT
84668406 T
1 T
84668407 TATTGATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 5 0.19
29 17 0.65
30 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (28 bp):
TATTAAAATTTTTAATATTTTATAATTT
Found at i:84668649 original size:86 final size:86
Alignment explanation
Indices: 84668518--84668725 Score: 267
Period size: 86 Copynumber: 2.4 Consensus size: 86
84668508 AATTGAGTGC
* * * * *
84668518 AAAAAAGCAGGAGCTTAATTGCATTTTTT-GAAAAAGTTTAAAGGTCTTTTTGATGTATTTTGAA
1 AAAAAAACAGGAGCTTAATT--ATTTTTTAAAAAAAGTTTAAAGGTCTTTTTGATGAATTGTAAA
*
84668582 AGTTCAAGTACCCAATTAAATGA
64 AGTTCAAGTACCCAAGTAAATGA
*
84668605 AAAAAAACAGGAGCTTAATTATTTTTTAAAAAAAGTTTGAAGGTCTTTTTGATGAATTGTAAAAG
1 AAAAAAACAGGAGCTTAATTATTTTTTAAAAAAAGTTTAAAGGTCTTTTTGATGAATTGTAAAAG
* *
84668670 TTTAAGTACCCAAGTGAATGA
66 TTCAAGTACCCAAGTAAATGA
* *
84668691 AAAAAAA-AGAAGGTTTAATTATTTTTTTAAAAAAA
1 AAAAAAACAGGA-GCTTAATTA-TTTTTTAAAAAAA
84668726 ATTGAGAATT
Statistics
Matches: 107, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
85 10 0.09
86 65 0.61
87 32 0.30
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.35
Consensus pattern (86 bp):
AAAAAAACAGGAGCTTAATTATTTTTTAAAAAAAGTTTAAAGGTCTTTTTGATGAATTGTAAAAG
TTCAAGTACCCAAGTAAATGA
Found at i:84674567 original size:29 final size:29
Alignment explanation
Indices: 84674521--84674576 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
84674511 GTGGGACTAG
* *
84674521 CTCATGTGTTTTGAAAATGGCCACACATA
1 CTCATGTGCTTTGAAAATAGCCACACATA
*
84674550 CTCATGTGCTTTGGAAATAGCCACACA
1 CTCATGTGCTTTGAAAATAGCCACACA
84674577 CGCCTGTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (29 bp):
CTCATGTGCTTTGAAAATAGCCACACATA
Found at i:84676292 original size:20 final size:22
Alignment explanation
Indices: 84676267--84676321 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 22
84676257 TGAAAAGGTC
84676267 TCTTTTTTTTATA-TTC-TGCA
1 TCTTTTTTTTATATTTCGTGCA
84676287 TCTTTTTTTTATTATTTCGTGCA
1 TCTTTTTTTTA-TATTTCGTGCA
84676310 T-TTTATTTTTAT
1 TCTTT-TTTTTAT
84676322 TTTTTTAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 11 0.35
21 2 0.06
22 7 0.23
23 11 0.35
ACGTcount: A:0.15, C:0.11, G:0.05, T:0.69
Consensus pattern (22 bp):
TCTTTTTTTTATATTTCGTGCA
Found at i:84676301 original size:23 final size:22
Alignment explanation
Indices: 84676269--84676322 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
84676259 AAAAGGTCTC
84676269 TTTTTTTTA-TA-TTC-TGCAT
1 TTTTTTTTATTATTTCGTGCAT
84676288 CTTTTTTTTATTATTTCGTGCAT
1 -TTTTTTTTATTATTTCGTGCAT
84676311 TTTATTTTTATT
1 TTT-TTTTTATT
84676323 TTTTTAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 6 0.20
23 13 0.43
ACGTcount: A:0.15, C:0.09, G:0.06, T:0.70
Consensus pattern (22 bp):
TTTTTTTTATTATTTCGTGCAT
Found at i:84677105 original size:22 final size:21
Alignment explanation
Indices: 84677065--84677105 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
84677055 CTTGGTATTT
* *
84677065 TTATTTTTTCCCTTCTTATGG
1 TTATTTTTTCCATTATTATGG
84677086 TTATTTTATTCCATTATTAT
1 TTATTTT-TTCCATTATTAT
84677106 TTTATTATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.17, C:0.15, G:0.05, T:0.63
Consensus pattern (21 bp):
TTATTTTTTCCATTATTATGG
Found at i:84677110 original size:21 final size:20
Alignment explanation
Indices: 84677063--84677111 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
84677053 GGCTTGGTAT
* *
84677063 TTTTATTTTTTCCCTTCTTA
1 TTTTATTTTTTCCATTATTA
*
84677083 TGGTTATTTTATTCCATTATTA
1 T-TTTATTTT-TTCCATTATTA
84677105 TTTTATT
1 TTTTATT
84677112 ATCAAATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 12 0.52
22 10 0.43
ACGTcount: A:0.16, C:0.12, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTATTTTTTCCATTATTA
Found at i:84677206 original size:3 final size:3
Alignment explanation
Indices: 84677198--84677235 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
84677188 TATATTGTTC
*
84677198 TTA TTA TTA CTA TTA TTA TT- TTA TCTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT
84677236 TATTTATTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:84677225 original size:15 final size:15
Alignment explanation
Indices: 84677198--84677235 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
84677188 TATATTGTTC
84677198 TTATTATTACTATTA
1 TTATTATTACTATTA
84677213 TTATT-TTATCTATTA
1 TTATTATTA-CTATTA
84677228 TTATTATT
1 TTATTATT
84677236 TATTTATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 16 0.76
16 2 0.10
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TTATTATTACTATTA
Found at i:84684405 original size:12 final size:13
Alignment explanation
Indices: 84684388--84684419 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
84684378 CGCCATATCC
84684388 GAAGAAGGA-ACT
1 GAAGAAGGAGACT
84684400 GAAGAA-GAGACT
1 GAAGAAGGAGACT
84684412 GAAGAAGG
1 GAAGAAGG
84684420 GAATTTGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 15 0.83
13 1 0.06
ACGTcount: A:0.50, C:0.06, G:0.38, T:0.06
Consensus pattern (13 bp):
GAAGAAGGAGACT
Found at i:84687516 original size:21 final size:20
Alignment explanation
Indices: 84687491--84687530 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
84687481 GTCAAAATGA
* *
84687491 CCACACGGGCGTGTTGCCCTT
1 CCACACAGGCATG-TGCCCTT
84687512 CCACACAGGCATGTGCCCT
1 CCACACAGGCATGTGCCCT
84687531 GTTTTAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (20 bp):
CCACACAGGCATGTGCCCTT
Found at i:84688656 original size:13 final size:13
Alignment explanation
Indices: 84688635--84688674 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
84688625 GAAGTAATCG
*
84688635 CACACGGGCGTGT
1 CACATGGGCGTGT
84688648 CACATGGGCGTGT
1 CACATGGGCGTGT
84688661 CACATGGGCGTGT
1 CACATGGGCGTGT
84688674 C
1 C
84688675 CCTACTGAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.28, G:0.38, T:0.20
Consensus pattern (13 bp):
CACATGGGCGTGT
Found at i:84689054 original size:14 final size:15
Alignment explanation
Indices: 84689035--84689064 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
84689025 ATATTTAACT
84689035 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
84689049 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
84689064 T
1 T
84689065 TTTGATATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:84695626 original size:39 final size:39
Alignment explanation
Indices: 84695581--84695667 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
84695571 CCGGCAATTA
*
84695581 GCCTGCTAGGTATAAACCTGAACTTATCATCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
* *
84695620 GCCTGCTAGGTATAAACCTGAATTTATCACCGGCATGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
84695659 GCCTGCTAG
1 GCCTGCTAG
84695668 ACATTAAGTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.24
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
Found at i:84697289 original size:47 final size:47
Alignment explanation
Indices: 84697226--84697904 Score: 1079
Period size: 47 Copynumber: 14.4 Consensus size: 47
84697216 CCCTTCGGGA
* * * *
84697226 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
84697273 CTTATCACATATATACACCTTCACATCCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * *
84697320 CTTATCTCATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
84697367 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
84697414 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
84697461 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
84697508 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
84697555 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
84697602 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
84697649 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
84697696 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
84697743 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
84697790 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
84697837 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
84697884 CTTATCACATATACACACTTT
1 CTTATCACATATATACACTTT
84697905 GTACACCAAT
Statistics
Matches: 597, Mismatches: 35, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 597 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:84697398 original size:25 final size:25
Alignment explanation
Indices: 84697370--84697730 Score: 122
Period size: 25 Copynumber: 15.3 Consensus size: 25
84697360 ACTCGGCCTT
*
84697370 ATCACATATATACACTTTCACATTC
1 ATCACATATACACACTTTCACATTC
* * *
84697395 ATCACAT-TGGC-CA--TTCGGCCTT-
1 ATCACATAT-ACACACTTTC-ACATTC
84697417 ATCACATATACACACTTTCACATTC
1 ATCACATATACACACTTTCACATTC
*** *** *
84697442 ATCACATCGGC-CA-TTAGGCCTT-
1 ATCACATATACACACTTTCACATTC
84697464 ATCACATATACACACTTTCACATTC
1 ATCACATATACACACTTTCACATTC
*** *** *
84697489 ATCACATCGGC-CA-TTAGGCCTT-
1 ATCACATATACACACTTTCACATTC
84697511 ATCACATATACACACTTTCACATTC
1 ATCACATATACACACTTTCACATTC
*** *** *
84697536 ATCACATCGGC-CA-TTAGGCCTT-
1 ATCACATATACACACTTTCACATTC
84697558 ATCACATATACACACTTTCACATTC
1 ATCACATATACACACTTTCACATTC
*** *** *
84697583 ATCACATCGGC-CA-TTAGGCCTT-
1 ATCACATATACACACTTTCACATTC
84697605 ATCACATATACACACTTTCACATTC
1 ATCACATATACACACTTTCACATTC
*** *** *
84697630 ATCACATCGGC-CA-TTAGGCCTT-
1 ATCACATATACACACTTTCACATTC
84697652 ATCACATATACACACTTTCACATTC
1 ATCACATATACACACTTTCACATTC
*** * *
84697677 ATCACATCGGC-CA--TTCGGCCTT-
1 ATCACATATACACACTTTC-ACATTC
*
84697699 ATCACATATATACACTTTCACATTC
1 ATCACATATACACACTTTCACATTC
84697724 ATCACAT
1 ATCACAT
84697731 TGGCCATTCG
Statistics
Matches: 221, Mismatches: 88, Indels: 54
0.61 0.24 0.15
Matches are distributed among these distances:
22 61 0.28
23 46 0.21
24 46 0.21
25 68 0.31
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.31
Consensus pattern (25 bp):
ATCACATATACACACTTTCACATTC
Found at i:84703620 original size:21 final size:21
Alignment explanation
Indices: 84703594--84703652 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
84703584 TGAGCGATCA
*
84703594 ACACGGCCGTGTTCCCCTTCC
1 ACACGGGCGTGTTCCCCTTCC
*
84703615 ACACGGGCGTGTTTCCCTTCC
1 ACACGGGCGTGTTCCCCTTCC
* *
84703636 ACAAGGGCGTGTGCCCC
1 ACACGGGCGTGTTCCCC
84703653 ATTTTAAGGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.12, C:0.41, G:0.25, T:0.22
Consensus pattern (21 bp):
ACACGGGCGTGTTCCCCTTCC
Found at i:84708328 original size:44 final size:44
Alignment explanation
Indices: 84708265--84708765 Score: 287
Period size: 44 Copynumber: 11.0 Consensus size: 44
84708255 TACCATGGTG
* * *
84708265 AATCTTATCTCCTTAAAGTTGCAGTGAAGCAGATTAAAGCTGTT
1 AATCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTAAAGCTATA
* * * *
84708309 AATCTTATCTCCCTGAAGTTGCAGTGGAA-CA-AGTTGAAGATAGTG
1 AATCTTATCTCCTTGAAGTTGCAGT-GAAGCAGA-TTAAAGCTA-TA
* * * * *
84708354 GATCTTATTTCCCTGAAGTTGCAGTGGAA-TAGATTTAAGTAGCAAGTTA
1 AATCTTATCTCCTTGAAGTTGCAGT-GAAGCAGA-TTAA--AGCTA--TA
* * *
84708403 CAATTCTTATAC-CCTTGAAGTTGCAGTG-GGACAGATTGAAGTTATCATGGTA
1 -AA-TCTTAT-CTCCTTGAAGTTGCAGTGAAG-CAGATT-AA---AGC-T-ATA
* * * *
84708455 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCATA
1 AATCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTAAAGCTATA
* * * * **
84708499 AACCTTATCTCCTTGGAGTTGCAGTGAAGTAGATTAAAGCCACG
1 AATCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTAAAGCTATA
* * * * * *
84708543 AATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCACA
1 AATCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTAAAGCTATA
* * * *** *
84708587 AGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAAAAAACA
1 AATCTTATCTCCTTGAAGTTGCAGTGAAGCAGA-TTAAAGCTATA
* * *
84708632 AATCTTATCTCGTTGAAATTGCAAT-AGAGCAGATTAAAGCTATA
1 AATCTTATCTCCTTGAAGTTGCAGTGA-AGCAGATTAAAGCTATA
* * * * *
84708676 AACCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAGATA-A
1 AATCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTAAAGCTATA
* * * **
84708719 CGAATCTCATTTCCCTGAAGTTGCAGTGGGGCAGATTAAAGCTATA
1 --AATCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTAAAGCTATA
84708765 A
1 A
84708766 GTCACAAATC
Statistics
Matches: 355, Mismatches: 78, Indels: 48
0.74 0.16 0.10
Matches are distributed among these distances:
43 2 0.01
44 176 0.50
45 100 0.28
46 7 0.02
48 3 0.01
49 4 0.01
50 30 0.08
51 28 0.08
52 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTAAAGCTATA
Found at i:84708725 original size:89 final size:89
Alignment explanation
Indices: 84708455--84708765 Score: 365
Period size: 89 Copynumber: 3.5 Consensus size: 89
84708445 TATCATGGTA
* * *
84708455 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCATAAACCTTATCTCCTTGGAGTTG
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGCCATAAACCTTATCTCCTTGAAGTTG
* **
84708520 CAGTGAAGTAGATTAAAG-CCACG
66 CAGTGGAGTAGATTAAAGAAAACG
* * **
84708543 AATCTTATCTCCCT-AAAGTTGTAGTGGAGCAGATTAAAGCCACAAGTCTTATCTCCTTGAAGTT
1 AATCTTATCTCCCTGAAA-TTGCAGTGGAGCAGATTAAAGCCATAAACCTTATCTCCTTGAAGTT
* * * *
84708607 GCAGTGGAGCAGACTAAAAAAAACA
65 GCAGTGGAGTAGATTAAAGAAAACG
** * * *
84708632 AATCTTATCTCGTTGAAATTGCAATAGAGCAGATTAAAGCTATAAACCTTATCTCCTTGAAGTTG
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGCCATAAACCTTATCTCCTTGAAGTTG
* *
84708697 CAGTGGAGTAGATTGAAGATAACG
66 CAGTGGAGTAGATTAAAGAAAACG
* * * * *
84708721 AATCTCATTTCCCTGAAGTTGCAGTGGGGCAGATTAAAGCTATAA
1 AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGCCATAA
84708766 GTCACAAATC
Statistics
Matches: 183, Mismatches: 37, Indels: 5
0.81 0.16 0.02
Matches are distributed among these distances:
87 2 0.01
88 69 0.38
89 109 0.60
90 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (89 bp):
AATCTTATCTCCCTGAAATTGCAGTGGAGCAGATTAAAGCCATAAACCTTATCTCCTTGAAGTTG
CAGTGGAGTAGATTAAAGAAAACG
Found at i:84710472 original size:3 final size:3
Alignment explanation
Indices: 84710464--84710501 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
84710454 TATATTGTTC
84710464 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TCTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TT
84710502 TATTTATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:84710513 original size:15 final size:14
Alignment explanation
Indices: 84710464--84710521 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 14
84710454 TATATTGTTC
84710464 TTATTATTA-TTA-
1 TTATTATTATTTAT
84710476 TTATTATTA-TTAT
1 TTATTATTATTTAT
84710489 TATATCTATTATTTAT
1 T-TAT-TATTATTTAT
84710505 TTA-T-TTATTTAT
1 TTATTATTATTTAT
*
84710517 ATATT
1 TTATT
84710522 TTACTACAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
12 22 0.55
13 3 0.08
14 3 0.08
15 7 0.17
16 5 0.12
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTATTATTTAT
Found at i:84711121 original size:131 final size:130
Alignment explanation
Indices: 84710891--84711156 Score: 313
Period size: 131 Copynumber: 2.0 Consensus size: 130
84710881 GAAAGTTTTC
* * * *
84710891 AAAAT-AAGGCAATGTTTCGAATTTTAGAGACTCGAGAAAATCGTGCCCTAACTTACGGGATTTC
1 AAAATAAAGGCAATATTCCGAATTTTAGAAACTCGAGAAAATCGTGCCCTAACTCACGGGATTTC
* * * * * *
84710955 GATTTTTCTCGTTCAATCTAAATAGCCAAATATCCTTTTAAATATTAAAATACATGA-ATTTCAA
66 AATTTTTCTCCTTCAATCTAAATAACCAAACATCCTTCT-AA-ATTAAAACACATGAGATTTCAA
84711019 ATA
129 A-A
* * *
84711022 AAAATAAAGGCAATATTCCGTA-TTTAGAAACTCGAGAAAGTCGTGCCCTAACTCACGGGGTTTC
1 AAAATAAAGGCAATATTCCGAATTTTAGAAACTCGAGAAAATCGTGCCCTAACTCACGGGATTTC
** * ** *
84711086 AATTTTTCTCCTTGGATCTGAATAACTGAACATCCTTCTAAATTAAAACACGTGAGATTTCAAAA
66 AATTTTTCTCCTTCAATCTAAATAACCAAACATCCTTCTAAATTAAAACACATGAGATTTCAAAA
84711151 AAAATA
1 AAAATA
84711157 TAAAACAAAA
Statistics
Matches: 114, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
129 19 0.17
130 10 0.09
131 72 0.63
132 13 0.11
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (130 bp):
AAAATAAAGGCAATATTCCGAATTTTAGAAACTCGAGAAAATCGTGCCCTAACTCACGGGATTTC
AATTTTTCTCCTTCAATCTAAATAACCAAACATCCTTCTAAATTAAAACACATGAGATTTCAAAA
Found at i:84712907 original size:13 final size:14
Alignment explanation
Indices: 84712881--84712909 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
84712871 AATTATTGAA
84712881 TTACTAATTTAACC
1 TTACTAATTTAACC
84712895 TTACTAA-TTAACC
1 TTACTAATTTAACC
84712908 TT
1 TT
84712910 TAAATCACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (14 bp):
TTACTAATTTAACC
Found at i:84720017 original size:11 final size:11
Alignment explanation
Indices: 84720001--84720025 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
84719991 ATTCCAACTT
84720001 CATTGTATCAA
1 CATTGTATCAA
84720012 CATTGTATCAA
1 CATTGTATCAA
84720023 CAT
1 CAT
84720026 ATACCACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (11 bp):
CATTGTATCAA
Found at i:84736591 original size:29 final size:29
Alignment explanation
Indices: 84736550--84736687 Score: 149
Period size: 29 Copynumber: 4.9 Consensus size: 29
84736540 CATGAACATG
* *
84736550 AATGTGA-CTGGGCCTAACGGGCCATATA
1 AATGTGATTTGGGCCTAATGGGCCATATA
*
84736578 AATGTTATTTGGGCCTAATGGGCCATATA
1 AATGTGATTTGGGCCTAATGGGCCATATA
* * * *
84736607 CAGGTGATTTTGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATA
* *
84736636 AATATGA-TTGGGCCTAATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATA
*
84736664 AATATGA-TT-GGCCTTAATGGGCCA
1 AATGTGATTTGGGCC-TAATGGGCCA
84736688 GATACAAGTA
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
27 4 0.04
28 45 0.47
29 47 0.49
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATATA
Found at i:84736658 original size:28 final size:28
Alignment explanation
Indices: 84736547--84736687 Score: 160
Period size: 28 Copynumber: 5.0 Consensus size: 28
84736537 GAGCATGAAC
* *
84736547 ATGAATGTGACTGGGCCTAACGGGCCAT
1 ATGAATGTGATTGGGCCTAATGGGCCAT
* *
84736575 ATAAATGTTATTTGGGCCTAATGGGCCAT
1 ATGAATGTGA-TTGGGCCTAATGGGCCAT
* *
84736604 AT-ACAGGTGATTTTGGCCTAATGGGCCAT
1 ATGA-ATGTGA-TTGGGCCTAATGGGCCAT
*
84736633 ATGAATATGATTGGGCCTAATGGGCCAT
1 ATGAATGTGATTGGGCCTAATGGGCCAT
*
84736661 ATGAATATGATT-GGCCTTAATGGGCCA
1 ATGAATGTGATTGGGCC-TAATGGGCCA
84736688 GATACAAGTA
Statistics
Matches: 99, Mismatches: 10, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
27 4 0.04
28 48 0.48
29 46 0.46
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (28 bp):
ATGAATGTGATTGGGCCTAATGGGCCAT
Found at i:84736672 original size:57 final size:56
Alignment explanation
Indices: 84736560--84736687 Score: 152
Period size: 57 Copynumber: 2.2 Consensus size: 56
84736550 AATGTGACTG
* * * *
84736560 GGCCTAACGGGCCATATAAATGTTATTTGGGCCTAATGGGCCATATACAGGTGATTTT
1 GGCCTAATGGGCCATATAAATATGATTTGGGCCTAATGGGCCATATACAGATGA--TT
* *
84736618 GGCCTAATGGGCCATATGAATATGA-TTGGGCCTAATGGGCCATATGA-ATATGATT
1 GGCCTAATGGGCCATATAAATATGATTTGGGCCTAATGGGCCATAT-ACAGATGATT
84736673 GGCCTTAATGGGCCA
1 GGCC-TAATGGGCCA
84736688 GATACAAGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
55 6 0.10
56 10 0.16
57 24 0.39
58 22 0.35
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (56 bp):
GGCCTAATGGGCCATATAAATATGATTTGGGCCTAATGGGCCATATACAGATGATT
Found at i:84741738 original size:30 final size:30
Alignment explanation
Indices: 84741702--84741758 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
84741692 AAATTCGTCG
*
84741702 AAAGGCAAAAGCATTAGATCAGCAGGATCA
1 AAAGGCAAAAGCATTAGATCAACAGGATCA
84741732 AAAGGCAAAAGCATTAGATCAACAGGA
1 AAAGGCAAAAGCATTAGATCAACAGGA
84741759 AAATAGATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.49, C:0.16, G:0.23, T:0.12
Consensus pattern (30 bp):
AAAGGCAAAAGCATTAGATCAACAGGATCA
Found at i:84743062 original size:9 final size:9
Alignment explanation
Indices: 84743048--84743072 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
84743038 AACCATTCAA
84743048 TCATTCATT
1 TCATTCATT
84743057 TCATTCATT
1 TCATTCATT
84743066 TCATTCA
1 TCATTCA
84743073 AAATAACCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (9 bp):
TCATTCATT
Found at i:84752798 original size:21 final size:20
Alignment explanation
Indices: 84752758--84752799 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
84752748 CCCCTGTAGC
*
84752758 TTTGAAAATTTTTATTGTTT
1 TTTGAAAATTTTTATAGTTT
84752778 TTTGAAAAATTTTCTA-AGTTT
1 TTTG-AAAATTTT-TATAGTTT
84752799 T
1 T
84752800 CAATTTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 13 0.68
22 2 0.11
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.60
Consensus pattern (20 bp):
TTTGAAAATTTTTATAGTTT
Found at i:84760265 original size:20 final size:21
Alignment explanation
Indices: 84760240--84760278 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
84760230 CATAACTATA
84760240 TATGTATGCATGAT-TGTATT
1 TATGTATGCATGATATGTATT
*
84760260 TATGTATGGATGATATGTA
1 TATGTATGCATGATATGTA
84760279 AAGAAATACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.28, C:0.03, G:0.23, T:0.46
Consensus pattern (21 bp):
TATGTATGCATGATATGTATT
Found at i:84761183 original size:40 final size:42
Alignment explanation
Indices: 84761105--84761184 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 42
84761095 ACAGGAGTTT
*
84761105 TCACACGGCCAAGCACACACCCGTGTCCTTGGCTCGTGTCCC
1 TCACACAGCCAAGCACACACCCGTGTCCTTGGCTCGTGTCCC
* * *
84761147 TCACACAGCCTAG-ACACGCCCGTGTCGTT-GCTCGTGTC
1 TCACACAGCCAAGCACACACCCGTGTCCTTGGCTCGTGTC
84761185 TAAAAACCCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 9 0.26
41 14 0.41
42 11 0.32
ACGTcount: A:0.16, C:0.40, G:0.23, T:0.21
Consensus pattern (42 bp):
TCACACAGCCAAGCACACACCCGTGTCCTTGGCTCGTGTCCC
Found at i:84766176 original size:18 final size:18
Alignment explanation
Indices: 84766153--84766200 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
84766143 TCGAGTTGAA
84766153 TTAATCGAATTATTCGAG
1 TTAATCGAATTATTCGAG
*
84766171 TTAATCGAGTTATTCGAG
1 TTAATCGAATTATTCGAG
*
84766189 TCAACTCGAATT
1 TTAA-TCGAATT
84766201 TTTTTTCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (18 bp):
TTAATCGAATTATTCGAG
Found at i:84767166 original size:23 final size:22
Alignment explanation
Indices: 84767123--84767167 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
84767113 GTTAATTTGA
**
84767123 ATTGTATGTATATGATTGTATT
1 ATTGTATGTATATGAAAGTATT
84767145 ATTGTGATGTATATGAAAGTATT
1 ATTGT-ATGTATATGAAAGTATT
84767168 CACATATCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (22 bp):
ATTGTATGTATATGAAAGTATT
Found at i:84773505 original size:43 final size:43
Alignment explanation
Indices: 84773411--84773554 Score: 134
Period size: 43 Copynumber: 3.3 Consensus size: 43
84773401 GAGATGTGGC
* * *
84773411 TACATGTAAGACCATGTCTGGTACTTTGGCATTGTATTGTGAT
1 TACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGTGAT
*
84773454 TACGTGTAAGACCATGTCTGGGACATTGGCATCGTTATT-TGAT
1 TACATGTAAGACCATGTCTGGGACATTGGCATCG-TATTGTGAT
* * * * *
84773497 TTCATGTAAAACTATAG-CTAGG-CAATCGGCATCG-ATATGTGAT
1 TACATGTAAGACCAT-GTCTGGGAC-ATTGGCATCGTAT-TGTGAT
*
84773540 AACATGTAAGACCAT
1 TACATGTAAGACCAT
84773555 ATCTAGGATA
Statistics
Matches: 82, Mismatches: 14, Indels: 10
0.77 0.13 0.09
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 73 0.89
44 5 0.06
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.33
Consensus pattern (43 bp):
TACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGTGAT
Found at i:84778343 original size:26 final size:26
Alignment explanation
Indices: 84778314--84778391 Score: 81
Period size: 26 Copynumber: 3.1 Consensus size: 26
84778304 CCGGAGGTCT
84778314 TGATTAAAGGCTCTTTGTGAGCTTCC
1 TGATTAAAGGCTCTTTGTGAGCTTCC
* * *
84778340 TGATTAAA-ACTTCTTCGTGAGCCTCC
1 TGATTAAAGGC-TCTTTGTGAGCTTCC
* *
84778366 TGATT-ATGGCTC-TTATGAGCTTCC
1 TGATTAAAGGCTCTTTGTGAGCTTCC
84778390 TG
1 TG
84778392 TTATATAGCC
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
24 11 0.26
25 4 0.10
26 27 0.64
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (26 bp):
TGATTAAAGGCTCTTTGTGAGCTTCC
Found at i:84790041 original size:23 final size:23
Alignment explanation
Indices: 84790006--84790050 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
84789996 ATTTTAACTT
*
84790006 TTTATAAAATTATATAA-TTTAA
1 TTTAAAAAATTATATAACTTTAA
*
84790028 TTTAAAAAATTTATTTAACTTTA
1 TTTAAAAAA-TTATATAACTTTA
84790051 TGTTGTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
23 7 0.37
24 4 0.21
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTAAAAAATTATATAACTTTAA
Done.