Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 97 of 103
Found at i:35829166 original size:20 final size:22
Alignment explanation
Indices: 35829143--35829199 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
35829133 AATACTTAAG
*
35829143 AAAAAGTTGTAACAAAT-AACA
1 AAAAAATTGTAACAAATCAACA
35829164 AAAAAATTGT-A-AAATGCAAC-
1 AAAAAATTGTAACAAAT-CAACA
*
35829184 AAAAACTTGTAACAAA
1 AAAAAATTGTAACAAA
35829200 ATAAATAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
19 4 0.13
20 10 0.33
21 13 0.43
22 3 0.10
ACGTcount: A:0.61, C:0.11, G:0.09, T:0.19
Consensus pattern (22 bp):
AAAAAATTGTAACAAATCAACA
Found at i:35829188 original size:41 final size:41
Alignment explanation
Indices: 35829112--35829199 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
35829102 ATATATTACG
* * * *
35829112 ACAAATAATAAAAAAATGTATAATACTTAAGAAAAAGTTGTA
1 ACAAATAACAAAAAAATGTAAAATAC-TAACAAAAACTTGTA
*
35829154 ACAAATAACAAAAAAATTGTAAAATGC-AACAAAAACTTGTA
1 ACAAATAACAAAAAAA-TGTAAAATACTAACAAAAACTTGTA
35829195 ACAAA
1 ACAAA
35829200 ATAAATAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
41 17 0.43
42 15 0.38
43 8 0.20
ACGTcount: A:0.61, C:0.09, G:0.08, T:0.22
Consensus pattern (41 bp):
ACAAATAACAAAAAAATGTAAAATACTAACAAAAACTTGTA
Found at i:35831854 original size:11 final size:12
Alignment explanation
Indices: 35831834--35831868 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
35831824 AAACTTAAAT
35831834 AATATATTATTA
1 AATATATTATTA
35831846 AAT-TATTATATA
1 AATATATTAT-TA
35831858 AATATATTATT
1 AATATATTATT
35831869 TTTAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 6 0.29
12 9 0.43
13 6 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
AATATATTATTA
Found at i:35832043 original size:21 final size:21
Alignment explanation
Indices: 35832019--35832103 Score: 91
Period size: 21 Copynumber: 3.9 Consensus size: 21
35832009 GTATATATTG
* *
35832019 TGTTGGATGCTATTTATATGT
1 TGTTAGATGTTATTTATATGT
35832040 TGTTAGATGTTATTTATAT-T
1 TGTTAGATGTTATTTATATGT
*
35832060 GTGTTCGATGTTATTTATATGTT
1 -TGTTAGATGTTATTTATATG-T
35832083 AGATGTTAGATGTTATTTATA
1 ---TGTTAGATGTTATTTATA
35832104 ATTTCAATGT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
20 1 0.02
21 35 0.65
23 1 0.02
25 17 0.31
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.54
Consensus pattern (21 bp):
TGTTAGATGTTATTTATATGT
Found at i:35832075 original size:42 final size:44
Alignment explanation
Indices: 35832012--35832103 Score: 134
Period size: 42 Copynumber: 2.1 Consensus size: 44
35832002 TTTATTTGTA
*
35832012 TATATTGTGTTGGATGCTATTTATATG-T-TGTTAGATGTTATT
1 TATATTGTGTTCGATGCTATTTATATGTTATGTTAGATGTTATT
*
35832054 TATATTGTGTTCGATGTTATTTATATGTTAGATGTTAGATGTTATT
1 TATATTGTGTTCGATGCTATTTATATGTT--ATGTTAGATGTTATT
35832100 TATA
1 TATA
35832104 ATTTCAATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
42 25 0.57
43 1 0.02
46 18 0.41
ACGTcount: A:0.24, C:0.02, G:0.20, T:0.54
Consensus pattern (44 bp):
TATATTGTGTTCGATGCTATTTATATGTTATGTTAGATGTTATT
Found at i:35832113 original size:25 final size:23
Alignment explanation
Indices: 35832019--35832114 Score: 83
Period size: 21 Copynumber: 4.2 Consensus size: 23
35832009 GTATATATTG
* * *
35832019 TGTTGGATGCTATTTATATGT--
1 TGTTAGATGTTATTTATATTTAA
*
35832040 TGTTAGATGTTATTTATA-TT-G
1 TGTTAGATGTTATTTATATTTAA
*
35832061 TGTTCGATGTTATTTATATGTTAGA
1 TGTTAGATGTTATTTATAT-TTA-A
35832086 TGTTAGATGTTATTTATAATTTCAA
1 TGTTAGATGTTATTTAT-ATTT-AA
35832111 TGTT
1 TGTT
35832115 TCAATTTTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
20 1 0.02
21 33 0.53
23 2 0.03
25 23 0.37
26 3 0.05
ACGTcount: A:0.24, C:0.03, G:0.19, T:0.54
Consensus pattern (23 bp):
TGTTAGATGTTATTTATATTTAA
Found at i:35857848 original size:2 final size:2
Alignment explanation
Indices: 35857843--35857872 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
35857833 CTAACAATCC
*
35857843 CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
35857873 TGAAGGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:35857978 original size:3 final size:3
Alignment explanation
Indices: 35857970--35857995 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
35857960 GTTCTAGTTT
35857970 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
35857996 GATGTATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:35858610 original size:2 final size:2
Alignment explanation
Indices: 35858603--35858635 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
35858593 NNNNNNNNNN
35858603 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35858636 ATCAAACTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35858832 original size:6 final size:6
Alignment explanation
Indices: 35858821--35858849 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
35858811 TTTGGGGTTT
35858821 TTTTTC TTTTTC TTTTTC TTTTT- TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
35858850 CTATCCTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:35859240 original size:25 final size:23
Alignment explanation
Indices: 35859193--35859250 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
35859183 AAATAAAAAA
*
35859193 TTTAATAAATAATAATTAATTAAT
1 TTTAAT-AATAAAAATTAATTAAT
*
35859217 TATTAATAATAAAAATTTATTTAAT
1 T-TTAATAATAAAAA-TTAATTAAT
35859242 TTGTAATAA
1 TT-TAATAA
35859251 AATATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 9 0.31
25 20 0.69
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TTTAATAATAAAAATTAATTAAT
Found at i:35859257 original size:29 final size:27
Alignment explanation
Indices: 35859224--35859295 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 27
35859214 AATTATTAAT
* *
35859224 AATAAAAATTTATTTAATTTGTAATAAA
1 AATAAAAATTTATTTAA-ATATAATAAA
*
35859252 ATATAAAAATTTAATTAAATATAATAAA
1 A-ATAAAAATTTATTTAAATATAATAAA
* *
35859280 AATAATATTTTATTTA
1 AATAAAAATTTATTTA
35859296 TTTTTTTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 12 0.32
28 10 0.27
29 15 0.41
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (27 bp):
AATAAAAATTTATTTAAATATAATAAA
Found at i:35868951 original size:2 final size:2
Alignment explanation
Indices: 35868939--35869040 Score: 88
Period size: 2 Copynumber: 52.0 Consensus size: 2
35868929 CTGTATTAAC
*
35868939 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
35868981 CTCC TGA -A T- TT TA -A T- TC TG TA -A NA TA TA TA TA TA TA TA
1 -T-A T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35869019 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
35869041 CCTGAATTTT
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
1 5 0.06
2 77 0.92
3 2 0.02
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:35869019 original size:58 final size:57
Alignment explanation
Indices: 35868944--35869062 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 57
35868934 TTAACTATAC
35868944 ATATATATATATATATATATATATATATATATATATACTCCTGAATTTTAATTCTGTAA
1 ATATATATATATATATATATATATATATATATATATA--CCTGAATTTTAATTCTGTAA
35869003 NATATATATATATATATATATATATATATATATATATACCTGAATTTTAATTCTGTAA
1 -ATATATATATATATATATATATATATATATATATATACCTGAATTTTAATTCTGTAA
35869061 AT
1 AT
35869063 CTTATTCATT
Statistics
Matches: 59, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
57 2 0.03
58 20 0.34
60 37 0.63
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.47
Consensus pattern (57 bp):
ATATATATATATATATATATATATATATATATATATACCTGAATTTTAATTCTGTAA
Found at i:35870031 original size:21 final size:21
Alignment explanation
Indices: 35870007--35870049 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
35869997 TTCATTTCAG
35870007 TTACCGTAAACATTGAGATAA
1 TTACCGTAAACATTGAGATAA
* * *
35870028 TTACTGTTAAGATTGAGATAA
1 TTACCGTAAACATTGAGATAA
35870049 T
1 T
35870050 ACTAGATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (21 bp):
TTACCGTAAACATTGAGATAA
Found at i:35872408 original size:2 final size:2
Alignment explanation
Indices: 35872401--35872428 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
35872391 AGATATTATC
35872401 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35872429 ATAAAGGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35872496 original size:2 final size:2
Alignment explanation
Indices: 35872489--35872522 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
35872479 AAATAAGATN
35872489 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35872523 AAAGGTGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35872529 original size:92 final size:89
Alignment explanation
Indices: 35872401--35872580 Score: 333
Period size: 92 Copynumber: 2.0 Consensus size: 89
35872391 AGATATTATC
35872401 TATATATATATATATATATATATATATAATAAAGGTGATAATTGTCAATAAAAATAATGTTCATT
1 TATATATATATATATATATATATATATAATAAAGGTGATAATTGTCAATAAAAATAATGTTCATT
35872466 ATATTTCATTACAAAATAAGATNTA
66 ATATTTCATTACAAAATAAGAT-TA
35872491 TATATATATATATATATATATATATATATATAAAAGGTGATAATTGTCAATAAAAATAATGTTCA
1 TATATATATATATATATATATATATATA-AT-AAAGGTGATAATTGTCAATAAAAATAATGTTCA
35872556 TTATATTTCATTACAAAATAAGATT
64 TTATATTTCATTACAAAATAAGATT
35872581 TAATTGATTA
Statistics
Matches: 88, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
90 28 0.32
91 3 0.03
92 57 0.65
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (89 bp):
TATATATATATATATATATATATATATAATAAAGGTGATAATTGTCAATAAAAATAATGTTCATT
ATATTTCATTACAAAATAAGATTA
Found at i:35873053 original size:19 final size:19
Alignment explanation
Indices: 35873029--35873066 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
35873019 CCATTTAACT
*
35873029 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
35873048 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
35873067 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:35874460 original size:13 final size:13
Alignment explanation
Indices: 35874442--35874466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35874432 AGAGAAATTG
35874442 TGATTTTATAAAA
1 TGATTTTATAAAA
35874455 TGATTTTATAAA
1 TGATTTTATAAA
35874467 TTTTCTAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:35874611 original size:8 final size:8
Alignment explanation
Indices: 35874595--35874643 Score: 77
Period size: 8 Copynumber: 6.5 Consensus size: 8
35874585 TAGACACCTC
35874595 AAAAA-AT
1 AAAAATAT
35874602 AAAAATAT
1 AAAAATAT
35874610 AAAAATAT
1 AAAAATAT
35874618 -AAAATAT
1 AAAAATAT
35874625 AAAAATAT
1 AAAAATAT
35874633 -AAAATAT
1 AAAAATAT
35874640 AAAA
1 AAAA
35874644 TAAAATAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
7 19 0.49
8 20 0.51
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAAATAT
Found at i:35874613 original size:7 final size:7
Alignment explanation
Indices: 35874597--35874645 Score: 73
Period size: 7 Copynumber: 6.9 Consensus size: 7
35874587 GACACCTCAA
35874597 AAAATA-
1 AAAATAT
35874603 AAAATAT
1 AAAATAT
35874610 AAAAATAT
1 -AAAATAT
35874618 AAAATAT
1 AAAATAT
35874625 AAAAATAT
1 -AAAATAT
35874633 AAAATAT
1 AAAATAT
35874640 AAAATA
1 AAAATA
35874646 AAATAATTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.15
7 20 0.50
8 14 0.35
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATAT
Found at i:35874621 original size:15 final size:15
Alignment explanation
Indices: 35874596--35874643 Score: 89
Period size: 15 Copynumber: 3.3 Consensus size: 15
35874586 AGACACCTCA
35874596 AAAAATA-AAAATAT
1 AAAAATATAAAATAT
35874610 AAAAATATAAAATAT
1 AAAAATATAAAATAT
35874625 AAAAATATAAAATAT
1 AAAAATATAAAATAT
35874640 AAAA
1 AAAA
35874644 TAAAATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 7 0.21
15 26 0.79
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAAATATAAAATAT
Found at i:35874658 original size:15 final size:14
Alignment explanation
Indices: 35874596--35874658 Score: 58
Period size: 15 Copynumber: 4.4 Consensus size: 14
35874586 AGACACCTCA
35874596 AAAAAT-AAAAATAT
1 AAAAATAAAAAAT-T
*
35874610 AAAAATATAAAATAT
1 AAAAATAAAAAAT-T
*
35874625 AAAAATATAAAA-T
1 AAAAATAAAAAATT
35874638 ATAAAATAAAATAATT
1 A-AAAATAAAA-AATT
35874654 AAAAA
1 AAAAA
35874659 AAAGAGAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
13 2 0.05
14 14 0.33
15 25 0.58
16 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAAATAAAAAATT
Found at i:35875051 original size:80 final size:79
Alignment explanation
Indices: 35874919--35875090 Score: 301
Period size: 80 Copynumber: 2.2 Consensus size: 79
35874909 GTTACGGGTG
35874919 AGAGAGAGAGGAAGAAGGAGAAAAAAAAAAGAAGAAAAGCTTAAGGAAAAGATAGAGAGAGTGGC
1 AGAGAGAGAGGAAGAAGGAGAAAAAAAAAAGAAGAAAAGCTTAAGGAAAAGATAGAGAGAGTGGC
35874984 GGCAAGAGAGAGAA
66 GGCAAGAGAGAGAA
*
35874998 AGAGAGAGAGGAAGAAGGAGGAAGAAAAAAAA-AAGAAAAGCTTAAGGAGAAGATAGAGAGAGTG
1 AGAGAGAGAGGAAGAAGGA-GAA-AAAAAAAAGAAGAAAAGCTTAAGGAAAAGATAGAGAGAGTG
35875062 GCGGCAAGAGAGAGAA
64 GCGGCAAGAGAGAGAA
*
35875078 AGTGAGAGAGGAA
1 AGAGAGAGAGGAA
35875091 AGTGAAGAGA
Statistics
Matches: 89, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
79 19 0.21
80 62 0.70
81 8 0.09
ACGTcount: A:0.54, C:0.03, G:0.37, T:0.05
Consensus pattern (79 bp):
AGAGAGAGAGGAAGAAGGAGAAAAAAAAAAGAAGAAAAGCTTAAGGAAAAGATAGAGAGAGTGGC
GGCAAGAGAGAGAA
Found at i:35875084 original size:12 final size:12
Alignment explanation
Indices: 35875069--35875102 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
35875059 GTGGCGGCAA
35875069 GAGAGAGAAAGT
1 GAGAGAGAAAGT
35875081 GAGAGAGGAAAGT
1 GAGAGA-GAAAGT
35875094 GAAGAGAGA
1 G-AGAGAGA
35875103 GAAAAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.30
13 9 0.45
14 5 0.25
ACGTcount: A:0.50, C:0.00, G:0.44, T:0.06
Consensus pattern (12 bp):
GAGAGAGAAAGT
Found at i:35875108 original size:16 final size:15
Alignment explanation
Indices: 35875067--35875106 Score: 66
Period size: 14 Copynumber: 2.8 Consensus size: 15
35875057 GAGTGGCGGC
35875067 AAGAGAGAGAAAGTG
1 AAGAGAGAGAAAGTG
35875082 -AGAGAG-GAAAGTG
1 AAGAGAGAGAAAGTG
35875095 AAGAGAGAGAAA
1 AAGAGAGAGAAA
35875107 AGAAAAGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.30
14 12 0.52
15 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.40, T:0.05
Consensus pattern (15 bp):
AAGAGAGAGAAAGTG
Found at i:35875607 original size:2 final size:2
Alignment explanation
Indices: 35875600--35875637 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
35875590 TATAATAATA
35875600 AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35875638 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35878688 original size:22 final size:19
Alignment explanation
Indices: 35878657--35878700 Score: 52
Period size: 22 Copynumber: 2.2 Consensus size: 19
35878647 TATGGCAGGC
35878657 CAAAGAAAGACCAAAGGAAGAA
1 CAAAGAAAGA--AAAGG-AGAA
*
35878679 CAAAGGAAGAAAAGGAGAA
1 CAAAGAAAGAAAAGGAGAA
35878698 CAA
1 CAA
35878701 GAACCCTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
22 9 0.43
ACGTcount: A:0.64, C:0.11, G:0.25, T:0.00
Consensus pattern (19 bp):
CAAAGAAAGAAAAGGAGAA
Found at i:35891345 original size:16 final size:15
Alignment explanation
Indices: 35891324--35891357 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
35891314 ATGCAGGGAC
35891324 TTTTCCTCTGCCTTTG
1 TTTTCCTCTGCC-TTG
*
35891340 TTTTCCTTTGCCTTG
1 TTTTCCTCTGCCTTG
35891355 TTT
1 TTT
35891358 GCAACTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.00, C:0.26, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTTCCTCTGCCTTG
Found at i:35893596 original size:18 final size:18
Alignment explanation
Indices: 35893575--35893610 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
35893565 ACTTTTTGAA
35893575 TAAATATAATTATTTAAT
1 TAAATATAATTATTTAAT
35893593 TAAATATAATTATTTAAT
1 TAAATATAATTATTTAAT
35893611 GAACATAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAATATAATTATTTAAT
Found at i:35893623 original size:17 final size:18
Alignment explanation
Indices: 35893564--35893635 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 18
35893554 GTATAAATAC
* *
35893564 AACTTTTTGAATAAATAT
1 AACTATTTGAATAAACAT
* *
35893582 AATTATTT-AATTAAATAT
1 AACTATTTGAA-TAAACAT
* *
35893600 AATTATTT-AATGAACAT
1 AACTATTTGAATAAACAT
35893617 AACTATTTGAATAAACAT
1 AACTATTTGAATAAACAT
35893635 A
1 A
35893636 CGTGATCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
17 14 0.30
18 32 0.70
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.42
Consensus pattern (18 bp):
AACTATTTGAATAAACAT
Found at i:35901424 original size:2 final size:2
Alignment explanation
Indices: 35901417--35901459 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
35901407 TTTTGAGAGT
* *
35901417 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35901459 T
1 T
35901460 GTACACTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (2 bp):
TA
Found at i:35910201 original size:171 final size:170
Alignment explanation
Indices: 35910013--35910453 Score: 657
Period size: 171 Copynumber: 2.5 Consensus size: 170
35910003 GAATGAAGAA
* * * * *
35910013 GAGGAAGAAGATGAAGAGAAAGAAGGGAAGGATGAGCAAAAGATGGAAGAAGAAGAGCGATTAGA
1 GAGGAAGAAGATGAAGAGAAAGAAGGGAA-AATGAGGAACATATGGAAGAAGAAGAGGGATTAGA
* *
35910078 GGAGAACGAGGAAAGTAGTGATGAAGAAAAAGAAGAAGAGGATGACAAGTTAAAGGAAACGAGCG
65 GGAGAACGAGGAAAGCAGTGATGAAGAAAAAGAAGAAGAGGATGACAAATTAAAGGAAACGAGCG
*
35910143 AGGAAGAGAAAAAAGAGTTCAAAAATAAAGAGGAAAAACAT
130 AAGAAGAGAAAAAAGAGTTCAAAAATAAAGAGGAAAAACAT
35910184 GAGGAAGAAGATGAAGAGAAAGAAGGGGAAAATGAGGAACATATGGAAGAAGAAGAGGGATTAGA
1 GAGGAAGAAGATGAAGAGAAAGAA-GGGAAAATGAGGAACATATGGAAGAAGAAGAGGGATTAGA
* * * *
35910249 GGAGAACGAGGAAAACAGTGATGAAGAAAAAGAAGAGGAGGATGACAAATTAAAGGAAATGAGTG
65 GGAGAACGAGGAAAGCAGTGATGAAGAAAAAGAAGAAGAGGATGACAAATTAAAGGAAACGAGCG
*
35910314 AAGAAGAGAAAAAAGAGTTCAAGAATAAAGAGGAAAAACAT
130 AAGAAGAGAAAAAAGAGTTCAAAAATAAAGAGGAAAAACAT
* *
35910355 GAGGTAGAAGATGAAAAGAAAGAAGGGAAAAATGAGGAACATATGGAAGAAGACGAGGAAGGGGA
1 GAGGAAGAAGATGAAGAGAAAGAAGGG-AAAATGAGGAACATATGGAAGAAGA--A-G-A-GGG-
*
35910420 ATTAGAGGAGAATGAGGAAAGCAGTGATGAAGAA
59 ATTAGAGGAGAACGAGGAAAGCAGTGATGAAGAA
35910454 GACGATGAGA
Statistics
Matches: 245, Mismatches: 17, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
170 3 0.01
171 199 0.81
172 5 0.02
173 1 0.00
174 1 0.00
175 1 0.00
176 3 0.01
177 32 0.13
ACGTcount: A:0.53, C:0.04, G:0.34, T:0.10
Consensus pattern (170 bp):
GAGGAAGAAGATGAAGAGAAAGAAGGGAAAATGAGGAACATATGGAAGAAGAAGAGGGATTAGAG
GAGAACGAGGAAAGCAGTGATGAAGAAAAAGAAGAAGAGGATGACAAATTAAAGGAAACGAGCGA
AGAAGAGAAAAAAGAGTTCAAAAATAAAGAGGAAAAACAT
Found at i:35914086 original size:37 final size:36
Alignment explanation
Indices: 35914028--35914136 Score: 103
Period size: 37 Copynumber: 2.9 Consensus size: 36
35914018 ATACGTTATG
*
35914028 ACCACACTTAACCCTTATGGCATAGATTGAAAATAAA
1 ACCACAATTAACCC-TATGGCATAGATTGAAAATAAA
* * * *
35914065 ACTACAATTAACCCTAGTGGCACA-AATCAAAATCAAA
1 ACCACAATTAACCCTA-TGGCATAGATTGAAAAT-AAA
* * *
35914102 ACCACAATTAACTCCAATGGCATGGGTTGAAAATA
1 ACCACAATTAAC-CCTATGGCATAGATTGAAAATA
35914137 TATCATAAGC
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
36 9 0.16
37 38 0.68
38 9 0.16
ACGTcount: A:0.44, C:0.22, G:0.12, T:0.22
Consensus pattern (36 bp):
ACCACAATTAACCCTATGGCATAGATTGAAAATAAA
Found at i:35915771 original size:2 final size:2
Alignment explanation
Indices: 35915764--35915793 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
35915754 ATATGAAATC
35915764 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35915794 TTATTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35919766 original size:20 final size:20
Alignment explanation
Indices: 35919743--35919783 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
35919733 ACTTCTTTTA
* *
35919743 AAGTTTTTCCATGATGGAGG
1 AAGTTTGTCCATAATGGAGG
*
35919763 AAGTTTGTCTATAATGGAGG
1 AAGTTTGTCCATAATGGAGG
35919783 A
1 A
35919784 TACAATTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.34
Consensus pattern (20 bp):
AAGTTTGTCCATAATGGAGG
Found at i:35920831 original size:2 final size:2
Alignment explanation
Indices: 35920824--35920855 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
35920814 ATATGAAATC
35920824 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35920856 TTTATTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35934699 original size:83 final size:83
Alignment explanation
Indices: 35934560--35934891 Score: 637
Period size: 83 Copynumber: 4.0 Consensus size: 83
35934550 GACCAACCTC
* *
35934560 AAACTGAAAGTTGAATCACCTTTACCCTAAACCCTAAACCCTAAAACCCATATAACTAAGAACTT
1 AAACTGAAAGTTGAATCAGCTCTACCCTAAACCCTAAACCCTAAAACCCATATAACTAAGAACTT
35934625 AAGCTTGAAACATTATAT
66 AAGCTTGAAACATTATAT
*
35934643 AAACTGAAAGTTGAATCAGCTTTACCCTAAACCCTAAACCCTAAAACCCATATAACTAAGAACTT
1 AAACTGAAAGTTGAATCAGCTCTACCCTAAACCCTAAACCCTAAAACCCATATAACTAAGAACTT
35934708 AAGCTTGAAACATTATAT
66 AAGCTTGAAACATTATAT
35934726 AAACTGAAAGTTGAATCAGCTCTACCCTAAACCCTAAACCCTAAAACCCATATAACTAAGAACTT
1 AAACTGAAAGTTGAATCAGCTCTACCCTAAACCCTAAACCCTAAAACCCATATAACTAAGAACTT
35934791 AAGCTTGAAACATTATAT
66 AAGCTTGAAACATTATAT
35934809 AAACTGAAAGTTGAATCAGCTCTACCCTAAACCCTAAACCCTAAAACCCATATAACTAAGAACTT
1 AAACTGAAAGTTGAATCAGCTCTACCCTAAACCCTAAACCCTAAAACCCATATAACTAAGAACTT
35934874 AAGCTTGAAACATTATAT
66 AAGCTTGAAACATTATAT
35934892 GCACCCGAGC
Statistics
Matches: 247, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 247 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (83 bp):
AAACTGAAAGTTGAATCAGCTCTACCCTAAACCCTAAACCCTAAAACCCATATAACTAAGAACTT
AAGCTTGAAACATTATAT
Found at i:35935993 original size:15 final size:16
Alignment explanation
Indices: 35935961--35935998 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
35935951 ATGTATGAAA
35935961 ATTGATTAATAAAAAT
1 ATTGATTAATAAAAAT
*
35935977 ATTGATTAA-ACAAAT
1 ATTGATTAATAAAAAT
35935992 ATTGATT
1 ATTGATT
35935999 TTAAATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (16 bp):
ATTGATTAATAAAAAT
Found at i:35937144 original size:45 final size:45
Alignment explanation
Indices: 35937080--35937179 Score: 173
Period size: 45 Copynumber: 2.2 Consensus size: 45
35937070 GATATCATGC
**
35937080 TATTATAGCCGTTAGATGGAATATTCATCACACAGACTTATCCAG
1 TATTATAGCCGTTAGATGGAATATTCATCACACAGACGCATCCAG
35937125 TATTATAGCCGTTAGATGGAATATTCATCACACAGACGCATCCAG
1 TATTATAGCCGTTAGATGGAATATTCATCACACAGACGCATCCAG
*
35937170 TATTTTAGCC
1 TATTATAGCC
35937180 TTCGGACAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (45 bp):
TATTATAGCCGTTAGATGGAATATTCATCACACAGACGCATCCAG
Found at i:35937501 original size:2 final size:2
Alignment explanation
Indices: 35937494--35937525 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
35937484 TAAAAGTAGC
35937494 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
35937526 ATAACTCTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35939920 original size:123 final size:123
Alignment explanation
Indices: 35939701--35939949 Score: 498
Period size: 123 Copynumber: 2.0 Consensus size: 123
35939691 AAAACCGAAC
35939701 TAATCGAACTAACCGTTTGCACCCTTTAATTGGGGGTGAAGAGGATGTAACACTTCGTAGGGCAA
1 TAATCGAACTAACCGTTTGCACCCTTTAATTGGGGGTGAAGAGGATGTAACACTTCGTAGGGCAA
35939766 TTTGGCGCATTGATTGTGTAAGTAGTATTTGCAACATTCACAGCCATAAGCTTGGACA
66 TTTGGCGCATTGATTGTGTAAGTAGTATTTGCAACATTCACAGCCATAAGCTTGGACA
35939824 TAATCGAACTAACCGTTTGCACCCTTTAATTGGGGGTGAAGAGGATGTAACACTTCGTAGGGCAA
1 TAATCGAACTAACCGTTTGCACCCTTTAATTGGGGGTGAAGAGGATGTAACACTTCGTAGGGCAA
35939889 TTTGGCGCATTGATTGTGTAAGTAGTATTTGCAACATTCACAGCCATAAGCTTGGACA
66 TTTGGCGCATTGATTGTGTAAGTAGTATTTGCAACATTCACAGCCATAAGCTTGGACA
35939947 TAA
1 TAA
35939950 ATTTCCAAAT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 126 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (123 bp):
TAATCGAACTAACCGTTTGCACCCTTTAATTGGGGGTGAAGAGGATGTAACACTTCGTAGGGCAA
TTTGGCGCATTGATTGTGTAAGTAGTATTTGCAACATTCACAGCCATAAGCTTGGACA
Found at i:35949749 original size:93 final size:93
Alignment explanation
Indices: 35949590--35949778 Score: 283
Period size: 93 Copynumber: 2.0 Consensus size: 93
35949580 TGACATCAAT
* *
35949590 GAGGAATGGACTAGTGAAGAAAAAAAGCAGAACATAAAAGAGGAAATAAGCGAAGAAAGGAAAGA
1 GAGGAATGGACTAGTGAAGAAAAAAAGAAGAACATAAAAGAGCAAATAAGCGAAGAAAGGAAAGA
35949655 GGAAGAAAATTATGAGGAAGAATATGAA
66 GGAAGAAAATTATGAGGAAGAATATGAA
* * * *
35949683 GAGGAATGGACTAGTGAAGAAGAAGAGAAGAACA-ACAAAGAGCAAATGAGTGAAG-AAGAGAAA
1 GAGGAATGGACTAGTGAAGAAAAAAAGAAGAACATA-AAAGAGCAAATAAGCGAAGAAAG-GAAA
*
35949746 GAGGAGGAAAATTATGAGGAAGAATATGAA
64 GAGGAAGAAAATTATGAGGAAGAATATGAA
35949776 GAG
1 GAG
35949779 AAAGAAGGGA
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
92 4 0.05
93 83 0.95
ACGTcount: A:0.54, C:0.04, G:0.31, T:0.11
Consensus pattern (93 bp):
GAGGAATGGACTAGTGAAGAAAAAAAGAAGAACATAAAAGAGCAAATAAGCGAAGAAAGGAAAGA
GGAAGAAAATTATGAGGAAGAATATGAA
Found at i:35949921 original size:117 final size:117
Alignment explanation
Indices: 35949773--35950019 Score: 356
Period size: 117 Copynumber: 2.1 Consensus size: 117
35949763 GGAAGAATAT
* * *
35949773 GAAGAGAAAGAAGGGAAGGAAGAGCAGAAGATGGAAGAAGAAGAGGAATTACAGGAGAACGAGGA
1 GAAGAGAAAGAAGAGAAGGAAGAGCAAAAGATGGAAGAAGAAGAAGAATTACAGGAGAACGAGGA
*
35949838 AAGCA--ACGATGAAGAAAAAGATA-AGGAGGATGACAAAGAGGAAACGAGTGAA
66 AAGCAGTA-G-TGAAGAAAAAGA-AGAGGAGGATGACAAAGAGGAAACAAGTGAA
* * * * *
35949890 GAAGAGAAAGAAGAGAAGGATGAGGAAAAGATGGAAGAAGAAGAAGATTTAGAGGAGAATGAGGA
1 GAAGAGAAAGAAGAGAAGGAAGAGCAAAAGATGGAAGAAGAAGAAGAATTACAGGAGAACGAGGA
*
35949955 AAGCAGTAGTGAAGAAAAAGAAGAGGATGATGACAAAGAGGAAACAAGTGAA
66 AAGCAGTAGTGAAGAAAAAGAAGAGGAGGATGACAAAGAGGAAACAAGTGAA
35950007 GAAGAGAAAGAAG
1 GAAGAGAAAGAAG
35950020 GGGAGCTCAA
Statistics
Matches: 117, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
116 1 0.01
117 114 0.97
118 1 0.01
119 1 0.01
ACGTcount: A:0.53, C:0.04, G:0.36, T:0.07
Consensus pattern (117 bp):
GAAGAGAAAGAAGAGAAGGAAGAGCAAAAGATGGAAGAAGAAGAAGAATTACAGGAGAACGAGGA
AAGCAGTAGTGAAGAAAAAGAAGAGGAGGATGACAAAGAGGAAACAAGTGAA
Found at i:35958467 original size:35 final size:35
Alignment explanation
Indices: 35958419--35958563 Score: 112
Period size: 35 Copynumber: 4.1 Consensus size: 35
35958409 TATTTTACAA
*
35958419 AGAACAA-TCAAAACATGTGAAGCACTACTTCACAC
1 AGAACAACT-AAAACAAGTGAAGCACTACTTCACAC
* * * *
35958454 ATAACAACTAAAACAAGTGAAACACTATTTCACGC
1 AGAACAACTAAAACAAGTGAAGCACTACTTCACAC
* * * * * *
35958489 AGAATAACTAAAATAAGTGGAGCACTACTTTATAT
1 AGAACAACTAAAACAAGTGAAGCACTACTTCACAC
* * * * * *
35958524 AGAACAACCAATACACGTTAAACAGCTACTTCGCAC
1 AGAACAACTAAAACAAGTGAAGCA-CTACTTCACAC
35958560 AGAA
1 AGAA
35958564 TAACCACTCC
Statistics
Matches: 81, Mismatches: 27, Indels: 3
0.73 0.24 0.03
Matches are distributed among these distances:
35 69 0.85
36 12 0.15
ACGTcount: A:0.46, C:0.22, G:0.12, T:0.20
Consensus pattern (35 bp):
AGAACAACTAAAACAAGTGAAGCACTACTTCACAC
Found at i:35958793 original size:29 final size:29
Alignment explanation
Indices: 35958747--35958829 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 29
35958737 CTTGTTCTCG
* *
35958747 TATAGCTATTCACATACACCTTCTTCTTT
1 TATACCTATTCACGTACACCTTCTTCTTT
* * *
35958776 TATACCTATTCATGTACAACTTTTTCTTT
1 TATACCTATTCACGTACACCTTCTTCTTT
* * * *
35958805 TGTAACTGTTCACGTACAGCTTCTT
1 TATACCTATTCACGTACACCTTCTT
35958830 TTCTTGTACC
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.23, C:0.24, G:0.07, T:0.46
Consensus pattern (29 bp):
TATACCTATTCACGTACACCTTCTTCTTT
Found at i:35958845 original size:29 final size:28
Alignment explanation
Indices: 35958752--35958845 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 28
35958742 TCTCGTATAG
* * *
35958752 CTATTCACATACACCTTCTTCTTTTATAC
1 CTATTCACGTACAACTTCTT-TTTTGTAC
* * *
35958781 CTATTCATGTACAACTTTTTCTTTTGTAA
1 CTATTCACGTACAACTTCTT-TTTTGTAC
* *
35958810 CTGTTCACGTACAGCTTCTTTTCTTGTAC
1 CTATTCACGTACAACTTCTTTT-TTGTAC
*
35958839 CTTTTCA
1 CTATTCA
35958846 TGTATACCTC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 2 0.04
29 50 0.96
ACGTcount: A:0.20, C:0.26, G:0.06, T:0.48
Consensus pattern (28 bp):
CTATTCACGTACAACTTCTTTTTTGTAC
Found at i:35960372 original size:40 final size:40
Alignment explanation
Indices: 35960311--35960390 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
35960301 GGTGAAGTAT
* *
35960311 TCATTAATAGAGCACGGGAATCATTAAAGCTCTACCCAAC
1 TCATTAACAGAGCACGAGAATCATTAAAGCTCTACCCAAC
*
35960351 TCATTAACAGAGCATGAGAATCATTAAAGCTCTACCCAAC
1 TCATTAACAGAGCACGAGAATCATTAAAGCTCTACCCAAC
35960391 ACCTCCATCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.39, C:0.25, G:0.14, T:0.23
Consensus pattern (40 bp):
TCATTAACAGAGCACGAGAATCATTAAAGCTCTACCCAAC
Found at i:35961535 original size:35 final size:35
Alignment explanation
Indices: 35961472--35961595 Score: 117
Period size: 35 Copynumber: 3.5 Consensus size: 35
35961462 AACTCTATAG
* * * *
35961472 AGAACAACCAAAATATGTGAAATACTACTTCAGAT
1 AGAACAACTAGAATAAGTGAAATGCTACTTCAGAT
* * *
35961507 AAAACAACTAGAACAAGT-AAAGTGCTACTTTACG-T
1 AGAACAACTAGAATAAGTGAAA-TGCTACTTCA-GAT
* * * *
35961542 AGAACAACTACAATAAGTGAAATGCTATTTCATAC
1 AGAACAACTAGAATAAGTGAAATGCTACTTCAGAT
35961577 AGAACAACTAGAATAAGTG
1 AGAACAACTAGAATAAGTG
35961596 GAGCATTATT
Statistics
Matches: 70, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
34 3 0.04
35 63 0.90
36 4 0.06
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.23
Consensus pattern (35 bp):
AGAACAACTAGAATAAGTGAAATGCTACTTCAGAT
Found at i:35961912 original size:29 final size:31
Alignment explanation
Indices: 35961855--35961925 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 31
35961845 TTCACATACA
*
35961855 TCTTCTTCTATTGTACTTGTTTACGTAT-AC
1 TCTTCTTCTATTGTACTTGTTTACATATAAC
* *
35961885 -CTTCTTCTCTTGTACCTT-TTTATATATAAC
1 TCTTCTTCTATTGTA-CTTGTTTACATATAAC
35961915 TCTTCTT-TATT
1 TCTTCTTCTATT
35961926 ACTATTTACT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
29 20 0.59
30 8 0.24
31 6 0.18
ACGTcount: A:0.17, C:0.21, G:0.06, T:0.56
Consensus pattern (31 bp):
TCTTCTTCTATTGTACTTGTTTACATATAAC
Found at i:35967338 original size:72 final size:72
Alignment explanation
Indices: 35967219--35967363 Score: 245
Period size: 72 Copynumber: 2.0 Consensus size: 72
35967209 GAAGAGCCAT
* * * *
35967219 CCTCAAATTTGGTATTAGACTTTGAGAACACCTCTATCCAGGGTGAGAGTGGAGTGTCCACAGAT
1 CCTCAAATTTGGTATTAGACTTTGAGAACACCTCTACCCAGGCTGAGAGTGAAATGTCCACAGAT
35967284 GAATCAA
66 GAATCAA
*
35967291 CCTCAAATTTGGTATTAGACTTTGAGAACATCTCTACCCAGGCTGAGAGTGAAATGTCCACAGAT
1 CCTCAAATTTGGTATTAGACTTTGAGAACACCTCTACCCAGGCTGAGAGTGAAATGTCCACAGAT
35967356 GAATCAA
66 GAATCAA
35967363 C
1 C
35967364 AGAAGAGCAG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (72 bp):
CCTCAAATTTGGTATTAGACTTTGAGAACACCTCTACCCAGGCTGAGAGTGAAATGTCCACAGAT
GAATCAA
Found at i:35980242 original size:21 final size:21
Alignment explanation
Indices: 35980216--35980256 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
35980206 AAGACTGGAT
35980216 GGCATCACTGAGGTTATGATA
1 GGCATCACTGAGGTTATGATA
*
35980237 GGCATCTCTGAGGTTATGAT
1 GGCATCACTGAGGTTATGAT
35980257 GGATATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (21 bp):
GGCATCACTGAGGTTATGATA
Found at i:35986184 original size:15 final size:15
Alignment explanation
Indices: 35986158--35986214 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
35986148 ATTTGATATT
35986158 TTATAATATAATATAA
1 TTATAA-ATAATATAA
* *
35986174 TTATAAGTAATATGA
1 TTATAAATAATATAA
*
35986189 TTGTAAATAATATAA
1 TTATAAATAATATAA
35986204 TTATAAATAAT
1 TTATAAATAAT
35986215 GTGATTGTAG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
15 29 0.83
16 6 0.17
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (15 bp):
TTATAAATAATATAA
Found at i:35986234 original size:30 final size:30
Alignment explanation
Indices: 35986165--35986234 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
35986155 ATTTTATAAT
* *
35986165 ATAATATAATTATAAGTAATATGATTGTAA
1 ATAAAATAATTATAAATAATATGATTGTAA
* *
35986195 ATAATATAATTATAAATAATGTGATTGTAGA
1 ATAAAATAATTATAAATAATATGATTGTA-A
35986226 A-AAAATAAT
1 ATAAAATAAT
35986235 ATTATGATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 34 0.94
31 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (30 bp):
ATAAAATAATTATAAATAATATGATTGTAA
Found at i:35986236 original size:35 final size:30
Alignment explanation
Indices: 35986165--35986223 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
35986155 ATTTTATAAT
*
35986165 ATAATATAATTATAAGTAATATGATTGTAA
1 ATAATATAATTATAAATAATATGATTGTAA
*
35986195 ATAATATAATTATAAATAATGTGATTGTA
1 ATAATATAATTATAAATAATATGATTGTA
35986224 GAAAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (30 bp):
ATAATATAATTATAAATAATATGATTGTAA
Found at i:35986371 original size:20 final size:20
Alignment explanation
Indices: 35986313--35986381 Score: 61
Period size: 19 Copynumber: 3.4 Consensus size: 20
35986303 TTATAAATAT
* *
35986313 TTTATTAAAAATATAATATTAA
1 TTTATT-AAAATAT-ATTTTTA
* *
35986335 TTTTTTAAATTAT-TTTTTA
1 TTTATTAAAATATATTTTTA
35986354 TTTATTAAAATATATTTTT-
1 TTTATTAAAATATATTTTTA
35986373 TATTATTAA
1 T-TTATTAA
35986382 TTTTTATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 16 0.41
20 12 0.31
21 6 0.15
22 5 0.13
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTATTAAAATATATTTTTA
Found at i:35986371 original size:21 final size:21
Alignment explanation
Indices: 35986313--35986381 Score: 72
Period size: 20 Copynumber: 3.4 Consensus size: 21
35986303 TTATAAATAT
* * *
35986313 TTTATTAAAAATATAATATTAA
1 TTTATT-AAAATATATTTTTTA
*
35986335 TTT-TTTAAAT-TATTTTTTA
1 TTTATTAAAATATATTTTTTA
35986354 TTTATTAAAATATATTTTTTA
1 TTTATTAAAATATATTTTTTA
35986375 -TTATTAA
1 TTTATTAA
35986382 TTTTTATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 9 0.22
20 17 0.43
21 11 0.28
22 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTATTAAAATATATTTTTTA
Found at i:35986390 original size:24 final size:24
Alignment explanation
Indices: 35986329--35986391 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 24
35986319 AAAAATATAA
*
35986329 TATTAATTTTT-TAAATTATTTTT
1 TATTAATTTTTATATATTATTTTT
* ***
35986352 TATTTATTAAAATATATT-TTTTAT
1 TATTAATTTTTATATATTATTTT-T
35986376 TATTAATTTTTATATA
1 TATTAATTTTTATATA
35986392 ATATCATCTC
Statistics
Matches: 29, Mismatches: 9, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
23 11 0.38
24 18 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TATTAATTTTTATATATTATTTTT
Found at i:35986557 original size:19 final size:19
Alignment explanation
Indices: 35986535--35986579 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
35986525 TTTAATATTG
35986535 TATTTTATTTCAAT-TTTT
1 TATTTTATTTCAATATTTT
* *
35986553 ATATTTTGTTTTAATATTTT
1 -TATTTTATTTCAATATTTT
35986573 TATTTTA
1 TATTTTA
35986580 AAATATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TATTTTATTTCAATATTTT
Found at i:35986730 original size:16 final size:16
Alignment explanation
Indices: 35986711--35986758 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
35986701 ATATGATTAC
**
35986711 ATTATAATTTTATATT
1 ATTATAATAATATATT
35986727 ATTATAATAATATATT
1 ATTATAATAATATATT
*
35986743 A-TAAAATAA-ATATT
1 ATTATAATAATATATT
35986757 AT
1 AT
35986759 AATATAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 6 0.21
15 7 0.25
16 15 0.54
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTATAATAATATATT
Found at i:35986755 original size:14 final size:15
Alignment explanation
Indices: 35986721--35986766 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
35986711 ATTATAATTT
*
35986721 TATATTATTATAATAA
1 TATATTA-TAAAATAA
35986737 TATATTATAAAATAA
1 TATATTATAAAATAA
*
35986752 -ATATTATAATATAA
1 TATATTATAAAATAA
35986766 T
1 T
35986767 TTAATTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 13 0.48
15 7 0.26
16 7 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TATATTATAAAATAA
Found at i:35998042 original size:14 final size:14
Alignment explanation
Indices: 35998023--35998050 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35998013 AATATTATAC
35998023 TAAAATAAATTAAA
1 TAAAATAAATTAAA
35998037 TAAAATAAATTAAA
1 TAAAATAAATTAAA
35998051 AATGAAAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAAATAAATTAAA
Found at i:36015001 original size:2 final size:2
Alignment explanation
Indices: 36014996--36015025 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
36014986 TTGAGAAAAA
*
36014996 AG AG AG AG AG AG AG AG AG AG AG AA AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
36015026 CCCTTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36015510 original size:18 final size:18
Alignment explanation
Indices: 36015483--36015523 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
36015473 TCTTTATGGA
*
36015483 ATAT-TAACCGTTAGCTC
1 ATATATAACCGTTAGATC
36015500 ATATATAACCGTTAGATC
1 ATATATAACCGTTAGATC
36015518 ATATAT
1 ATATAT
36015524 TAATGAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.37
Consensus pattern (18 bp):
ATATATAACCGTTAGATC
Found at i:36022670 original size:2 final size:2
Alignment explanation
Indices: 36022651--36022687 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
36022641 TCTTGTGATT
*
36022651 TC TC T- TC TC -C TT TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
36022688 TATTGCCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:36033292 original size:2 final size:2
Alignment explanation
Indices: 36033285--36033311 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36033275 GGAGAGGGAA
36033285 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
36033312 CTAATGACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36036339 original size:28 final size:28
Alignment explanation
Indices: 36036307--36036364 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
36036297 TTATCCTTTC
36036307 TGCAGATGCAGTTGTGATTTAACTTACA
1 TGCAGATGCAGTTGTGATTTAACTTACA
36036335 TGCAGATGCAGTTGTGATTTAACTTACA
1 TGCAGATGCAGTTGTGATTTAACTTACA
36036363 TG
1 TG
36036365 TTTGTTTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (28 bp):
TGCAGATGCAGTTGTGATTTAACTTACA
Found at i:36044077 original size:28 final size:28
Alignment explanation
Indices: 36044033--36044090 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
36044023 GAATGTCACC
*
36044033 TACCTCAATAATATAAATTACCTCCGGT
1 TACCTCAATAATATAAATTACCTCAGGT
* *
36044061 TACCTCAATAATGTAAATTGCCTCAGGT
1 TACCTCAATAATATAAATTACCTCAGGT
36044089 TA
1 TA
36044091 GTCATAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.33
Consensus pattern (28 bp):
TACCTCAATAATATAAATTACCTCAGGT
Found at i:36059826 original size:2 final size:2
Alignment explanation
Indices: 36059819--36059852 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
36059809 ACTTTAAATT
36059819 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36059853 GAGAGAGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:36059857 original size:2 final size:2
Alignment explanation
Indices: 36059852--36059887 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
36059842 ATATATATAT
36059852 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
36059888 GTCATTATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36071811 original size:14 final size:15
Alignment explanation
Indices: 36071775--36071811 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
36071765 AATATTAATC
36071775 AAATAAAAAAATAGA
1 AAATAAAAAAATAGA
36071790 AACA-AAAAAAATA-A
1 AA-ATAAAAAAATAGA
36071804 AAATAAAA
1 AAATAAAA
36071812 TATAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
13 1 0.05
14 7 0.35
15 11 0.55
16 1 0.05
ACGTcount: A:0.84, C:0.03, G:0.03, T:0.11
Consensus pattern (15 bp):
AAATAAAAAAATAGA
Found at i:36075684 original size:53 final size:54
Alignment explanation
Indices: 36075621--36075744 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 54
36075611 TTTAATTCTG
* * *
36075621 ATAA-TATACGTGTAATATACGTATGAATACAAT-AATCGTTCAATATTAAATT
1 ATAATTATACGTGTAATACACGTAAGAATACAATAAATCATTCAATATTAAATT
* * * * *
36075673 ATGATTATACGTGTGATACACGTAAGAATATAGTAAATCATTCAATTTTAAATT
1 ATAATTATACGTGTAATACACGTAAGAATACAATAAATCATTCAATATTAAATT
* *
36075727 TTAATTATTCGTGTAATA
1 ATAATTATACGTGTAATA
36075745 ATTTAATTCT
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
52 3 0.05
53 24 0.41
54 31 0.53
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (54 bp):
ATAATTATACGTGTAATACACGTAAGAATACAATAAATCATTCAATATTAAATT
Found at i:36076087 original size:43 final size:43
Alignment explanation
Indices: 36076026--36076114 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
36076016 AAAATTTATA
36076026 AAAAAAAAAAAGACTTCTTCTTTTTCTAGATTCTCATTTTGTC
1 AAAAAAAAAAAGACTTCTTCTTTTTCTAGATTCTCATTTTGTC
36076069 AAAAAAAAAAAGACTTCTTCTTTTTCTAGATTCTCATTTTGTC
1 AAAAAAAAAAAGACTTCTTCTTTTTCTAGATTCTCATTTTGTC
36076112 AAA
1 AAA
36076115 GTCGTCATTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (43 bp):
AAAAAAAAAAAGACTTCTTCTTTTTCTAGATTCTCATTTTGTC
Found at i:36076135 original size:2 final size:2
Alignment explanation
Indices: 36076128--36076152 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36076118 GTCATTGGAT
36076128 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
36076153 TTCAATCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36087730 original size:2 final size:2
Alignment explanation
Indices: 36087723--36087749 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
36087713 TAATACATTC
36087723 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
36087750 ATAAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36092087 original size:2 final size:2
Alignment explanation
Indices: 36092076--36092125 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
36092066 TTTATCGCAC
36092076 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36092117 AT AT A- AT AT
1 AT AT AT AT AT
36092126 GACCCATTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:36094392 original size:79 final size:79
Alignment explanation
Indices: 36094261--36094494 Score: 450
Period size: 79 Copynumber: 3.0 Consensus size: 79
36094251 CAATTTAAAA
36094261 AATCCAACCAAACCCAACTTTGGAAGTTCCTAGATTTGTTTATTCTCATTAAATTTCAAGACTTT
1 AATCCAACCAAACCCAACTTTGGAAGTTCCTAGATTTGTTTATTCTCATTAAATTTCAAGACTTT
36094326 TATCTGTATGCATG
66 TATCTGTATGCATG
36094340 AATCCAACCAAACCCAACTTTGGAAGTTCCTAGATTTGTTTATTCTCATTAAATTTCAAGACTTT
1 AATCCAACCAAACCCAACTTTGGAAGTTCCTAGATTTGTTTATTCTCATTAAATTTCAAGACTTT
*
36094405 TATCTGTACGCATG
66 TATCTGTATGCATG
*
36094419 AATCCAACCAAACCCAACTTTGGAAGTTCCTAGATTTGTTTATTCTCATTAAATTTCAAGACCTT
1 AATCCAACCAAACCCAACTTTGGAAGTTCCTAGATTTGTTTATTCTCATTAAATTTCAAGACTTT
36094484 TATCTGTATGC
66 TATCTGTATGC
36094495 GTGCATGTAT
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 152 1.00
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.37
Consensus pattern (79 bp):
AATCCAACCAAACCCAACTTTGGAAGTTCCTAGATTTGTTTATTCTCATTAAATTTCAAGACTTT
TATCTGTATGCATG
Found at i:36096750 original size:72 final size:73
Alignment explanation
Indices: 36096660--36096807 Score: 280
Period size: 72 Copynumber: 2.0 Consensus size: 73
36096650 TCCCTGAATA
*
36096660 CTACTTGTTGAATGAGGAAGAATTTCATGATTTAGTCTCTCATAGTCAAATAAAACTCAT-ACTT
1 CTACTTGTTGAATGAGGAAGAATTTCATGATTTAGTCTCTCATAGTAAAATAAAACTCATCACTT
36096724 GTTCAGAG
66 GTTCAGAG
36096732 CTACTTGTTGAATGAGGAAGAATTTCATGATTTAGTCTCTCATAGTAAAATAAAACTCATCACTT
1 CTACTTGTTGAATGAGGAAGAATTTCATGATTTAGTCTCTCATAGTAAAATAAAACTCATCACTT
36096797 GTTCAGAG
66 GTTCAGAG
36096805 CTA
1 CTA
36096808 AAACTGCTAT
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
72 59 0.80
73 15 0.20
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (73 bp):
CTACTTGTTGAATGAGGAAGAATTTCATGATTTAGTCTCTCATAGTAAAATAAAACTCATCACTT
GTTCAGAG
Found at i:36102719 original size:16 final size:17
Alignment explanation
Indices: 36102695--36102748 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
36102685 ATATATATCA
36102695 AATAT-AATAAAAT-TT
1 AATATCAATAAAATATT
*
36102710 AATATCAAT-AAATCTT
1 AATATCAATAAAATATT
36102726 AATTATC-ATAAAAGTATT
1 AA-TATCAATAAAA-TATT
36102744 AATAT
1 AATAT
36102749 TTATATATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 9 0.27
16 9 0.27
17 10 0.30
18 5 0.15
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.39
Consensus pattern (17 bp):
AATATCAATAAAATATT
Found at i:36102762 original size:34 final size:32
Alignment explanation
Indices: 36102684--36102762 Score: 77
Period size: 32 Copynumber: 2.4 Consensus size: 32
36102674 TAAATATCAT
* *
36102684 AATATATATCAAATATAATAAAATTTAATATC
1 AATATATATTAATTATAATAAAATTTAATATC
* * * *
36102716 AATAAATCTTAATTATCATAAAAGTATTAATATT
1 AATATATATTAATTATAATAAAA-T-TTAATATC
*
36102750 TATATATATTAAT
1 AATATATATTAAT
36102763 AAATGATTCT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
32 18 0.50
33 1 0.03
34 17 0.47
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (32 bp):
AATATATATTAATTATAATAAAATTTAATATC
Found at i:36107128 original size:19 final size:19
Alignment explanation
Indices: 36107104--36107141 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
36107094 AATCTCCCTC
* *
36107104 TCAGATTATGCATAAATAT
1 TCAGATGATGCACAAATAT
36107123 TCAGATGATGCACAAATAT
1 TCAGATGATGCACAAATAT
36107142 ACACATGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (19 bp):
TCAGATGATGCACAAATAT
Found at i:36109102 original size:17 final size:17
Alignment explanation
Indices: 36109082--36109114 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36109072 TTTTTAAAAA
36109082 TAATT-TTTTTATAATTT
1 TAATTCTTTTTA-AATTT
36109099 TAATTCTTTTTAAATT
1 TAATTCTTTTTAAATT
36109115 AAATTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
TAATTCTTTTTAAATTT
Found at i:36121542 original size:12 final size:13
Alignment explanation
Indices: 36121516--36121545 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
36121506 TATGATTTTC
36121516 ATTTATTATATTA
1 ATTTATTATATTA
36121529 ATTTATTA-ATTA
1 ATTTATTATATTA
36121541 ATTTA
1 ATTTA
36121546 AATATACCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTATTATATTA
Found at i:36123051 original size:2 final size:2
Alignment explanation
Indices: 36123046--36123091 Score: 60
Period size: 2 Copynumber: 23.0 Consensus size: 2
36123036 CAAAAAAAAA
36123046 AT AT AT AT AT AT AT AT ACT AT AT A- AT -T AT AT AT ANT AT AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT
36123088 AT AT
1 AT AT
36123092 TCTTTTATGC
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
1 2 0.05
2 34 0.85
3 4 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36123069 original size:17 final size:17
Alignment explanation
Indices: 36123047--36123091 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
36123037 AAAAAAAAAA
36123047 TATATATATATATATAC
1 TATATATATATATATAC
*
36123064 TATATA-ATTATATATAN
1 TATATATA-TATATATAC
36123081 TATATATATAT
1 TATATATATAT
36123092 TCTTTTATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 1 0.04
17 23 0.92
18 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TATATATATATATATAC
Found at i:36123432 original size:4 final size:4
Alignment explanation
Indices: 36123423--36123451 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
36123413 TCCACTCTCC
36123423 CAAA CAAA CAAA CAAA CAAA CAAA CAAA C
1 CAAA CAAA CAAA CAAA CAAA CAAA CAAA C
36123452 GTGTTGAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.72, C:0.28, G:0.00, T:0.00
Consensus pattern (4 bp):
CAAA
Found at i:36127992 original size:36 final size:36
Alignment explanation
Indices: 36127952--36128024 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
36127942 TGCATTGGGC
*
36127952 ATGCTTCAGCAATGCTTTGGAATCTATACTCAAAAA
1 ATGCTTCAGCAATGCTTTGGAATCTATACTAAAAAA
36127988 ATGCTTCAGCAATGCTTTGGAATCTATACTAAAAAA
1 ATGCTTCAGCAATGCTTTGGAATCTATACTAAAAAA
36128024 A
1 A
36128025 ACCCATTCCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (36 bp):
ATGCTTCAGCAATGCTTTGGAATCTATACTAAAAAA
Found at i:36128839 original size:16 final size:17
Alignment explanation
Indices: 36128818--36128866 Score: 64
Period size: 16 Copynumber: 2.8 Consensus size: 17
36128808 TATAATTAAT
36128818 TATTAATATTTTA-AAA
1 TATTAATATTTTATAAA
36128834 TATTAATATTTTATTAAA
1 TATTAATATTTTA-TAAA
*
36128852 TTTTAATATTATTAT
1 TATTAATATT-TTAT
36128867 GATTAAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 13 0.45
18 13 0.45
19 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTAATATTTTATAAA
Found at i:36128848 original size:27 final size:27
Alignment explanation
Indices: 36128817--36128952 Score: 90
Period size: 27 Copynumber: 5.1 Consensus size: 27
36128807 TTATAATTAA
36128817 TTATTAATATTTTAAAATATTAATATT
1 TTATTAATATTTTAAAATATTAATATT
*
36128844 TTATTAA-ATTTTAATATTATTATGATTAAATT
1 TTATTAATATTTTAA-AATATTA--A-T--ATT
* *
36128876 TTATT-TTATTTTTAAATATTAATATT
1 TTATTAATATTTTAAAATATTAATATT
* * *
36128902 TGA-TCATTTATTTAAAATATTAATA--
1 TTATTAATAT-TTTAAAATATTAATATT
*
36128927 --ATTAATAATTT-AAATATTAATATT
1 TTATTAATATTTTAAAATATTAATATT
36128951 TT
1 TT
36128953 CTTTATAATT
Statistics
Matches: 84, Mismatches: 11, Indels: 29
0.68 0.09 0.23
Matches are distributed among these distances:
22 11 0.13
23 4 0.05
24 3 0.04
25 1 0.01
26 14 0.17
27 27 0.32
28 1 0.01
29 2 0.02
30 1 0.01
31 6 0.07
32 14 0.17
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (27 bp):
TTATTAATATTTTAAAATATTAATATT
Found at i:36128898 original size:74 final size:74
Alignment explanation
Indices: 36128794--36129116 Score: 214
Period size: 74 Copynumber: 4.2 Consensus size: 74
36128784 TTTTTTAAAT
* *
36128794 ATTAATATTTTA-TTTATAATTAATTATTAATATTTTAAAATATTAATATTTTATTAAATTTTAA
1 ATTAATATTTTATTTTATAATTAAATATTAATATTTTAATATATTAATATTTTATT-AATTTTAA
36128858 TATTATTATG
65 TATTATTATG
** * * * * * *
36128868 ATTAA-ATTTTATTTTATTTTTAAATATTAATATTTGATCATTTATTTAAAATATTAATAATTAA
1 ATTAATATTTTATTTTATAATTAAATATTAATATTT--TAATATA-TTAATATTTTATTAATT-T
*
36128932 TAAT-TTA-AAT-
62 TAATATTATTATG
* * * *
36128942 ATTAATATTTT-CTTTATAATT-AATCACTACTA-TTTAATATATTAATATTTTATTTAATTTAA
1 ATTAATATTTTATTTTATAATTAAAT-ATTAATATTTTAATATATTAATATTTTA-TTAATTTTA
36129004 ATATTATTATG
64 ATATTATTATG
* * * * *
36129015 ATTAATTATTTTATTTTTAAAATATTAGTAATTGAAAATTTATTTAAAATATTAATATATTGT-T
1 ATTAA-TATTTTA-TTTTATAAT-TAAAT-ATT---AATAT-TTTAATATATTAATAT-TT-TAT
* *
36129079 TAATGTAAATATTATTATG
56 TAATTTTAATATTATTATG
*
36129098 ATCAATTATTTTATTTTAT
1 ATTAA-TATTTTATTTTAT
36129117 TTTATTTTCA
Statistics
Matches: 191, Mismatches: 35, Indels: 38
0.72 0.13 0.14
Matches are distributed among these distances:
70 12 0.06
71 13 0.07
72 2 0.01
73 16 0.08
74 48 0.25
75 7 0.04
76 18 0.09
77 15 0.08
78 4 0.02
81 2 0.01
82 5 0.03
83 46 0.24
84 2 0.01
85 1 0.01
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (74 bp):
ATTAATATTTTATTTTATAATTAAATATTAATATTTTAATATATTAATATTTTATTAATTTTAAT
ATTATTATG
Found at i:36128965 original size:40 final size:40
Alignment explanation
Indices: 36128920--36128997 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
36128910 TATTTAAAAT
* *
36128920 ATTAATAATTAATAATTTAA-ATATTAATATTTTCTTTATA
1 ATTAATAACTAAT-ATTTAATATATTAATATTTTATTTATA
* *
36128960 ATTAATCACTACTATTTAATATATTAATATTTTATTTA
1 ATTAATAACTAATATTTAATATATTAATATTTTATTTA
36128998 ATTTAAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 6 0.18
40 27 0.82
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (40 bp):
ATTAATAACTAATATTTAATATATTAATATTTTATTTATA
Found at i:36129024 original size:29 final size:27
Alignment explanation
Indices: 36128991--36129113 Score: 67
Period size: 29 Copynumber: 4.4 Consensus size: 27
36128981 TATTAATATT
36128991 TTATTTAATTTAAATATTATTATGATTAA
1 TTATTTAATTTAAA-A-TATTATGATTAA
* *
36129020 TTATTTTATTTTTAAAATATTAGTAATTGAA
1 TTA-TTTA-ATTTAAAATATTA-TGATT-AA
*
36129051 -AATTT-ATTTAAAATATTA--A-TATA
1 TTATTTAATTTAAAATATTATGATTA-A
* * *
36129074 TTGTTTAATGTAAATATTATTATGATCAA
1 TTATTTAATTTAAA-A-TATTATGATTAA
*
36129103 TTATTTTATTT
1 TTATTTAATTT
36129114 TATTTTATTT
Statistics
Matches: 71, Mismatches: 11, Indels: 24
0.67 0.10 0.23
Matches are distributed among these distances:
22 1 0.01
23 2 0.03
24 4 0.06
25 6 0.08
26 1 0.01
27 17 0.24
29 21 0.30
30 11 0.15
31 8 0.11
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (27 bp):
TTATTTAATTTAAAATATTATGATTAA
Found at i:36129025 original size:24 final size:24
Alignment explanation
Indices: 36128972--36129025 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
36128962 TAATCACTAC
* *
36128972 TATTTAATATATTAATATTTTATT
1 TATTTAATATATTAATATATTAAT
*
36128996 TAATTTAA-ATATTATTATGATTAAT
1 T-ATTTAATATATTAATAT-ATTAAT
36129021 TATTT
1 TATTT
36129026 TATTTTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TATTTAATATATTAATATATTAAT
Found at i:36129072 original size:83 final size:86
Alignment explanation
Indices: 36128972--36129180 Score: 253
Period size: 83 Copynumber: 2.4 Consensus size: 86
36128962 TAATCACTAC
* *
36128972 TATTTAATATATTAATATTTTATTTAATTTAAATATTATTATGATTAATTATTTTA-T-TTTTA-
1 TATTTAAAATATTAATATTTTATTTAATTTAAATATTATTATGATCAATTATTTTATTATTTTAT
*
36129034 AAATATTAGTAATTGAAAATT
66 AAATATTAATAATTGAAAATT
* * *
36129055 TATTTAAAATATTAATATATTGTTTAATGTAAATATTATTATGATCAATTATTTTATTTTATTTT
1 TATTTAAAATATTAATATTTTATTTAATTTAAATATTATTATGATCAATTATTTTA--TTATTTT
**
36129120 ATTTTCAAATATTAATAATTGATTATT
64 A---T-AAATATTAATAATTGAAAATT
36129147 TATTTAAAATATTAATATTTTATTCATAATTTAA
1 TATTTAAAATATTAATATTTTATT--TAATTTAA
36129181 TCATTAATAT
Statistics
Matches: 104, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
83 51 0.49
86 1 0.01
87 5 0.05
92 40 0.38
94 7 0.07
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.55
Consensus pattern (86 bp):
TATTTAAAATATTAATATTTTATTTAATTTAAATATTATTATGATCAATTATTTTATTATTTTAT
AAATATTAATAATTGAAAATT
Found at i:36129088 original size:147 final size:147
Alignment explanation
Indices: 36128789--36129092 Score: 425
Period size: 147 Copynumber: 2.1 Consensus size: 147
36128779 TTTGATTTTT
* *
36128789 TAAATATTAATATTTTATTTATAATTAATTATTAATATTTTAAAATATTAATATTTTATTAAATT
1 TAAATATTAATATTTTATTTATAATTAATCACTAATATTTTAAAATATTAATATTTTATTAAATT
* * **
36128854 TTAATATTATTATGATTAAATTTTATTTTATTTTTAAATATTAATATTTGATCATTTATTTAAAA
66 TAAATATTATTATGATTAAA-TTTATTTTATTTTTAAATATTAATAATTGAAAATTTATTTAAAA
*
36128919 TATTAATAATTAATAATT
130 TATTAATAATTAATAATG
* * * *
36128937 TAAATATTAATATTTTCTTTATAATTAATCACTACTA-TTTAATATATTAATATTTTATTTAATT
1 TAAATATTAATATTTTATTTATAATTAATCACTAATATTTTAAAATATTAATATTTTATTAAATT
*
36129001 TAAATATTATTATGATT-AA-TTATTTTATTTTTAAAATATTAGTAATTGAAAATTTATTTAAAA
66 TAAATATTATTATGATTAAATTTATTTTATTTTT-AAATATTAATAATTGAAAATTTATTTAAAA
**
36129064 TATTAATATATTGTTTAATG
130 TATTAATA-ATT-AATAATG
36129084 TAAATATTA
1 TAAATATTA
36129093 TTATGATCAA
Statistics
Matches: 139, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
144 13 0.09
145 34 0.24
146 5 0.04
147 54 0.39
148 33 0.24
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (147 bp):
TAAATATTAATATTTTATTTATAATTAATCACTAATATTTTAAAATATTAATATTTTATTAAATT
TAAATATTATTATGATTAAATTTATTTTATTTTTAAATATTAATAATTGAAAATTTATTTAAAAT
ATTAATAATTAATAATG
Found at i:36129139 original size:118 final size:118
Alignment explanation
Indices: 36128873--36129266 Score: 307
Period size: 118 Copynumber: 3.3 Consensus size: 118
36128863 TTATGATTAA
* * *
36128873 ATTTTATTTTATTTT-TAAATATTAATATTTGATCATTTATTTAAAATATTAATAA-T--T-AAT
1 ATTTTATTTTATTTTACAAATATTAATAATTGATTATTTATTTAAAATATTAATAATTGATAAAT
* * * * **
36128933 AATTTAAAT-ATTAATATTTTCTTTATAAT-TAATCACTACTATT-TAAT--ATATTAAT
66 AATTT-AATCATTAATATATT-ATT-TAATCTAA--A-TATTATTATGATCAAT-TTTTT
* * * *
36128988 ATTTTA-TTTAATTT--AAATATTATTATGATTAATTATTTTATTTTTAAAATATTAGTAATTGA
1 ATTTTATTTTATTTTACAAATATTA--ATAATTGATTA-TTTA--TTTAAAATATTAATAATTGA
* * *
36129050 -AAATTTATTTAAAAT-ATTAATATATTGTTTAATGTAAATATTATTATGATCAATTATTTT
61 TAAA-TAATTT--AATCATTAATATATTATTTAATCTAAATATTATTATGATCAATT-TTTT
* * **
36129110 ATTTTATTTTATTTT-CAAATATTAATAATTGATTATTTATTTAAAATATTAATATTTTATTCAT
1 ATTTTATTTTATTTTACAAATATTAATAATTGATTATTTATTTAAAATATTAATAATTGATAAAT
* *
36129174 AATTTAATCATTAATATTTTATTTAATCTAAATATTATTATGATTAATTTTTT
66 AATTTAATCATTAATATATTATTTAATCTAAATATTATTATGATCAATTTTTT
* * *
36129227 ATTTTATTTTATTTTATAAATATTAATAATGGATAATTTA
1 ATTTTATTTTATTTTACAAATATTAATAATTGATTATTTA
36129267 AATAGTAATA
Statistics
Matches: 229, Mismatches: 29, Indels: 39
0.77 0.10 0.13
Matches are distributed among these distances:
113 8 0.03
114 7 0.03
115 13 0.06
116 4 0.02
117 22 0.10
118 72 0.31
119 29 0.13
120 5 0.02
121 11 0.05
122 29 0.13
123 21 0.09
124 8 0.03
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (118 bp):
ATTTTATTTTATTTTACAAATATTAATAATTGATTATTTATTTAAAATATTAATAATTGATAAAT
AATTTAATCATTAATATATTATTTAATCTAAATATTATTATGATCAATTTTTT
Found at i:36129178 original size:27 final size:25
Alignment explanation
Indices: 36129109--36129210 Score: 91
Period size: 27 Copynumber: 4.0 Consensus size: 25
36129099 TCAATTATTT
* *
36129109 TATTTTATTTTATTTTCAAATATTAA
1 TATTTTATTATAATTT-AAATATTAA
* * *
36129135 TAATTGATTATTTATTTAAAATATTAA
1 TATTTTATTA-TAATTT-AAATATTAA
36129162 TATTTTATTCATAATTT-AATCATTAA
1 TATTTTATT-ATAATTTAAAT-ATTAA
*
36129188 TATTTTATT-TAATCTAAATATTA
1 TATTTTATTATAATTTAAATATTA
36129211 TTATGATTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
24 9 0.15
25 6 0.10
26 21 0.34
27 25 0.40
28 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (25 bp):
TATTTTATTATAATTTAAATATTAA
Found at i:36129197 original size:19 final size:19
Alignment explanation
Indices: 36129175--36129214 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
36129165 TTTATTCATA
*
36129175 ATTTAATCATTAATATT-TT
1 ATTTAATC-TAAATATTATT
36129194 ATTTAATCTAAATATTATT
1 ATTTAATCTAAATATTATT
36129213 AT
1 AT
36129215 GATTAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTAATCTAAATATTATT
Found at i:36129210 original size:24 final size:23
Alignment explanation
Indices: 36129114--36129210 Score: 74
Period size: 24 Copynumber: 4.0 Consensus size: 23
36129104 TATTTTATTT
36129114 TATTTTATTT-TC-AAATATTAA
1 TATTTTATTTATCTAAATATTAA
*
36129135 TAATTGATTATTTATTTAAAATATTAA
1 T-ATT--TTATTTATCT-AAATATTAA
*
36129162 TATTTTATTCATAAT-TTAATCATTAA
1 TATTTTATT--T-ATCTAAAT-ATTAA
36129188 TATTTTATTTAATCTAAATATTA
1 TATTTTATTT-ATCTAAATATTA
36129211 TTATGATTAA
Statistics
Matches: 62, Mismatches: 3, Indels: 19
0.74 0.04 0.23
Matches are distributed among these distances:
21 1 0.02
22 3 0.05
24 19 0.31
25 8 0.13
26 19 0.31
27 12 0.19
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (23 bp):
TATTTTATTTATCTAAATATTAA
Found at i:36129249 original size:59 final size:58
Alignment explanation
Indices: 36129068--36129250 Score: 138
Period size: 59 Copynumber: 3.1 Consensus size: 58
36129058 TTAAAATATT
* * * *
36129068 AATATATTGTTTAATGTAAATATTATTATGATCAATTATTTTATTTTATTTTATTTT-CA
1 AATATTTTATTTAAT-TAAATATTATTATGATTAATT-TTTTATTTTATTTTATTTTATA
* * * ** ** * * * * * *
36129127 AATATTAATAATTGATTATTTATTTAAAAT-ATTAATATTTTATTCATAATTTA-ATCATT
1 AATATT-TTATTTAATTAAATA-TTATTATGATTAATTTTTTATT-TTATTTTATTTTATA
36129186 AATATTTTATTTAATCTAAATATTATTATGATTAATTTTTTATTTTATTTTATTTTATA
1 AATATTTTATTTAAT-TAAATATTATTATGATTAATTTTTTATTTTATTTTATTTTATA
36129245 AATATT
1 AATATT
36129251 AATAATGGAT
Statistics
Matches: 87, Mismatches: 30, Indels: 14
0.66 0.23 0.11
Matches are distributed among these distances:
58 25 0.29
59 52 0.60
60 10 0.11
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (58 bp):
AATATTTTATTTAATTAAATATTATTATGATTAATTTTTTATTTTATTTTATTTTATA
Found at i:36129314 original size:44 final size:42
Alignment explanation
Indices: 36129231--36129369 Score: 147
Period size: 44 Copynumber: 3.2 Consensus size: 42
36129221 TTTTTTATTT
** * *
36129231 TATTTTATTTTATAAATATTAATAATGGATA-ATTTAAATAGTAA
1 TATTTTATTTTAT-AAT-TTAAT-ATTAATACTTTTAAATATTAA
* *
36129275 TATTTTATTTT-TAATTTAATTTTTAATATTTTTTAAAATATTAA
1 TATTTTATTTTATAATTTAA-TATTAATA-CTTTT-AAATATTAA
36129319 TATTTTATTTTATAATTTAATATTAATACTTTTAAATATTAA
1 TATTTTATTTTATAATTTAATATTAATACTTTTAAATATTAA
*
36129361 TATTATATT
1 TATTTTATT
36129370 AAAAATTGGA
Statistics
Matches: 82, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
41 8 0.10
42 21 0.26
43 8 0.10
44 37 0.45
45 8 0.10
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (42 bp):
TATTTTATTTTATAATTTAATATTAATACTTTTAAATATTAA
Found at i:36129336 original size:113 final size:115
Alignment explanation
Indices: 36129065--36129326 Score: 309
Period size: 118 Copynumber: 2.3 Consensus size: 115
36129055 TATTTAAAAT
* * * * *
36129065 ATTAATATATTGTTTAATGTAAATATTATTATGATCAATTATTTTATTTTATTTTATTTTCAAAT
1 ATTAATATTTTATTAAATATAAATATTATTATGATTAATT-TTTTATTTTATTTTATTTTCAAAT
* *
36129130 ATTAATAATTGATTATTTATTTAAAATATTAATATTTTATTCATAATTTAATC
65 ATTAATAATGGATTA--TATTTAAAATAGTAATATTTTATTCATAATTTAATC
* * *
36129183 ATTAATATTTTATTTAATCTAAATATTATTATGATTAATTTTTTATTTTATTTTATTTTATAAAT
1 ATTAATATTTTATTAAATATAAATATTATTATGATTAATTTTTTATTTTATTTTATTTT-CAAAT
** *
36129248 ATTAATAATGGA-TA-ATTT-AAATAGTAATATTTTATTTTTAATTTAATT
65 ATTAATAATGGATTATATTTAAAATAGTAATATTTTATTCATAATTTAATC
* *
36129296 TTTAATATTTT-TTAAAATATTAATATT-TTAT
1 ATTAATATTTTATT-AAATATAAATATTATTAT
36129327 TTTATAATTT
Statistics
Matches: 128, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
112 6 0.05
113 46 0.36
114 4 0.03
117 21 0.16
118 51 0.40
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (115 bp):
ATTAATATTTTATTAAATATAAATATTATTATGATTAATTTTTTATTTTATTTTATTTTCAAATA
TTAATAATGGATTATATTTAAAATAGTAATATTTTATTCATAATTTAATC
Found at i:36130563 original size:24 final size:25
Alignment explanation
Indices: 36130545--36130615 Score: 79
Period size: 28 Copynumber: 2.7 Consensus size: 25
36130535 TATAAGACTT
36130545 AAAAATTAAAATAAAATAAAATATA
1 AAAAATTAAAATAAAATAAAATATA
* * *
36130570 AAAAATTAAAATTTATATAATATAGGTA
1 AAAAATTAAAA-TAAAATAAAATA--TA
*
36130598 AAAAATAAAAATAAAATA
1 AAAAATTAAAATAAAATA
36130616 TATGATATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
25 11 0.30
26 9 0.24
27 5 0.14
28 12 0.32
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (25 bp):
AAAAATTAAAATAAAATAAAATATA
Found at i:36130782 original size:31 final size:30
Alignment explanation
Indices: 36130744--36130806 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
36130734 TTCAATAAAA
36130744 TATTTATAAATTAAACATTATAATATTATTT
1 TATTTATAAATTAAACATTATAAT-TTATTT
* * *
36130775 TATTTATATATTAAATATTATAATTTTTTT
1 TATTTATAAATTAAACATTATAATTTATTT
36130805 TA
1 TA
36130807 AAAAAATCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (30 bp):
TATTTATAAATTAAACATTATAATTTATTT
Found at i:36134384 original size:3 final size:3
Alignment explanation
Indices: 36134376--36134405 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
36134366 GTGGCGGCTC
36134376 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
36134406 TGAGAGATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:36139124 original size:14 final size:16
Alignment explanation
Indices: 36139092--36139129 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
36139082 AAAGAAGAAG
36139092 AAAAAAGATGATAAAA
1 AAAAAAGATGATAAAA
*
36139108 AAAAAAGA-GA-AAGA
1 AAAAAAGATGATAAAA
36139122 AAAAAAGA
1 AAAAAAGA
36139130 AAGAAAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.52
15 2 0.10
16 8 0.38
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (16 bp):
AAAAAAGATGATAAAA
Found at i:36139134 original size:16 final size:17
Alignment explanation
Indices: 36139104--36139137 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
36139094 AAAAGATGAT
36139104 AAAAAAAAAAGAGAAAG
1 AAAAAAAAAAGAGAAAG
*
36139121 AAAAAAAGAA-AGAAAG
1 AAAAAAAAAAGAGAAAG
36139137 A
1 A
36139138 GATACGGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAGAGAAAG
Found at i:36144035 original size:7 final size:7
Alignment explanation
Indices: 36144023--36144063 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
36144013 TTGAGAGTCC
36144023 TGGCTAA
1 TGGCTAA
36144030 TGGCTAA
1 TGGCTAA
*
36144037 TGGCCAA
1 TGGCTAA
36144044 TGGCTAA
1 TGGCTAA
36144051 TGGCTAA
1 TGGCTAA
36144058 TGGCTA
1 TGGCTA
36144064 TGGGCTGACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (7 bp):
TGGCTAA
Found at i:36144678 original size:25 final size:26
Alignment explanation
Indices: 36144645--36144693 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
36144635 AAGAATTTAT
36144645 TTAATTTAAA-ATAAAAATAAAAATAC
1 TTAATTTAAACATAAAAA-AAAAATAC
*
36144671 TTAA-TTAAACATAATAAAAAAAT
1 TTAATTTAAACATAAAAAAAAAAT
36144694 TATTTAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (26 bp):
TTAATTTAAACATAAAAAAAAAATAC
Found at i:36146555 original size:27 final size:27
Alignment explanation
Indices: 36146503--36146561 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
36146493 TAATTTATTT
* *
36146503 AATTAAAAATAATACAATATAGAATTG
1 AATTAAAAATAATACAATACAGAATTA
* * *
36146530 AATTAAAGATAATATAATACATAATTA
1 AATTAAAAATAATACAATACAGAATTA
36146557 AATTA
1 AATTA
36146562 TACCATAGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.32
Consensus pattern (27 bp):
AATTAAAAATAATACAATACAGAATTA
Found at i:36150328 original size:31 final size:31
Alignment explanation
Indices: 36150293--36150373 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
36150283 AGAAAGAAAA
*
36150293 TAAAATTTTTTAGTTTTTATCATTAAA-TATT
1 TAAAATTTTTTA-TATTTATCATTAAATTATT
* *
36150324 TAAAATTTTGTATATTTATTATTAAATTATT
1 TAAAATTTTTTATATTTATCATTAAATTATT
* *
36150355 TAAAAATTTTAAT-TTTATC
1 TAAAATTTTTTATATTTATC
36150374 TTATTAATGA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
30 17 0.40
31 25 0.60
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (31 bp):
TAAAATTTTTTATATTTATCATTAAATTATT
Found at i:36150372 original size:30 final size:29
Alignment explanation
Indices: 36150307--36150373 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 29
36150297 ATTTTTTAGT
*
36150307 TTTTATCATTAAATATTTAAAATTTTGTA
1 TTTTATCATTAAATATTTAAAATTTTGAA
*
36150336 TATTTATTATTAAATTATTTAAAAATTTT-AA
1 T-TTTATCATTAAA-TATTT-AAAATTTTGAA
36150367 TTTTATC
1 TTTTATC
36150374 TTATTAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 1 0.03
30 16 0.50
31 7 0.22
32 8 0.25
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (29 bp):
TTTTATCATTAAATATTTAAAATTTTGAA
Found at i:36152737 original size:92 final size:92
Alignment explanation
Indices: 36152574--36152759 Score: 300
Period size: 92 Copynumber: 2.0 Consensus size: 92
36152564 TGCGGTTTAT
*
36152574 CCCTATTTATTACATAACTAGCTACTCCATGTGATAATTAGTTACCGTTCTACAGTACCTTGCAT
1 CCCTATTTATTACATAACTAGCTACTCCATGTGATAATTAGTTACCATTCTACAGTACCTTGCAT
36152639 TAACAAGGTTGGAGAAAAAAAGTTGGG
66 TAACAAGGTTGGAGAAAAAAAGTTGGG
* * * * * *
36152666 CCCTATTTGTTACGTAACTAGCTACTTCATGTGATAATTAGTTACCATTTTGCAGTACCTTGTAT
1 CCCTATTTATTACATAACTAGCTACTCCATGTGATAATTAGTTACCATTCTACAGTACCTTGCAT
*
36152731 TTACAAGGTTGGAGAAAAAAAGTTGGG
66 TAACAAGGTTGGAGAAAAAAAGTTGGG
36152758 CC
1 CC
36152760 ATGAACGTGC
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
92 86 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (92 bp):
CCCTATTTATTACATAACTAGCTACTCCATGTGATAATTAGTTACCATTCTACAGTACCTTGCAT
TAACAAGGTTGGAGAAAAAAAGTTGGG
Found at i:36155825 original size:62 final size:62
Alignment explanation
Indices: 36155726--36155852 Score: 218
Period size: 62 Copynumber: 2.0 Consensus size: 62
36155716 ATACGGGGAA
*
36155726 ATTGTTTTATATATAGTAGATAAAAATTGACTATTTTTTCACTAGTCGTTGCCATGTTTCAC
1 ATTGTTTTATATATAATAGATAAAAATTGACTATTTTTTCACTAGTCGTTGCCATGTTTCAC
* * *
36155788 ATTGTTTTATATATAATAGATAAAAATTGACTTTTTTTTCACTATTCGTTGCCATGTTTCGC
1 ATTGTTTTATATATAATAGATAAAAATTGACTATTTTTTCACTAGTCGTTGCCATGTTTCAC
36155850 ATT
1 ATT
36155853 CTTCCATATA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (62 bp):
ATTGTTTTATATATAATAGATAAAAATTGACTATTTTTTCACTAGTCGTTGCCATGTTTCAC
Found at i:36157109 original size:259 final size:259
Alignment explanation
Indices: 36156640--36157146 Score: 843
Period size: 259 Copynumber: 2.0 Consensus size: 259
36156630 AGATTGAAGT
* * *
36156640 ATATGAGATACTTGAGGATAACATGTAGGTGCTTGTTAAAGAATAAGTTCACTGAATATGACTCG
1 ATATGAGATACTTGAGGATAACATATAGGTGCTTGTTAAAGAATAAGTTCACTAAATATGACCCG
* ** * *
36156705 TTATGAGAACTCCATTTGGTATTTCACTCAAGTGTCTATGAAAAATATTCTCATGTGATAATCGT
66 CTATGAGAACTCCATTTAATATTTCACTCAAGTGTCTATAAAAAATATTCTCATATGATAATCGT
* * *
36156770 GTAACTAGTCCTTGGACTTGAGACACTAAGTCATCTTGTATAAGAAATGACATACTTTGATTTCA
131 ATAACTAGTCCTTGGACTTGAGACACGAAGTCATATTGTATAAGAAATGACATACTTTGATTTCA
*
36156835 CCCCTACAGGTTTGGAAGCAACCAGATGCCTAAACATGGTGTTTTTGGGTATGCTTGTTAAAGA
196 CCCCTACAAGTTTGGAAGCAACCAGATGCCTAAACATGGTGTTTTTGGGTATGCTTGTTAAAGA
*
36156899 ATATGGGATACTTGAGGATAACATATAGGTGCTTGTTAAAGAATAAGTTCACTAAATATGACCCG
1 ATATGAGATACTTGAGGATAACATATAGGTGCTTGTTAAAGAATAAGTTCACTAAATATGACCCG
* *
36156964 CTATGAGAACTCCATTTAATATTTCACTCAGGTGTCTATAAAAAATGTTCTCATATGATAATCGT
66 CTATGAGAACTCCATTTAATATTTCACTCAAGTGTCTATAAAAAATATTCTCATATGATAATCGT
* *
36157029 ATAACTAGTCCTTGGACTTGAGACACGAGGTCATATTGTATAAGGAATGACATACTTTGATTTCA
131 ATAACTAGTCCTTGGACTTGAGACACGAAGTCATATTGTATAAGAAATGACATACTTTGATTTCA
* *
36157094 CCCTTACAAGTTTGGAAGCAACTAGATGCCTAAACATGGTGTTTTTGGGTATG
196 CCCCTACAAGTTTGGAAGCAACCAGATGCCTAAACATGGTGTTTTTGGGTATG
36157147 TCATGAAGCA
Statistics
Matches: 229, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
259 229 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (259 bp):
ATATGAGATACTTGAGGATAACATATAGGTGCTTGTTAAAGAATAAGTTCACTAAATATGACCCG
CTATGAGAACTCCATTTAATATTTCACTCAAGTGTCTATAAAAAATATTCTCATATGATAATCGT
ATAACTAGTCCTTGGACTTGAGACACGAAGTCATATTGTATAAGAAATGACATACTTTGATTTCA
CCCCTACAAGTTTGGAAGCAACCAGATGCCTAAACATGGTGTTTTTGGGTATGCTTGTTAAAGA
Found at i:36157918 original size:16 final size:16
Alignment explanation
Indices: 36157897--36157928 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
36157887 TAAACAAAAC
36157897 TTGCTAGCACAAGTAA
1 TTGCTAGCACAAGTAA
36157913 TTGCTAGCACAAGTAA
1 TTGCTAGCACAAGTAA
36157929 AATCCTACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (16 bp):
TTGCTAGCACAAGTAA
Found at i:36165301 original size:28 final size:28
Alignment explanation
Indices: 36165249--36165341 Score: 100
Period size: 28 Copynumber: 3.2 Consensus size: 28
36165239 AAATACCTTA
*
36165249 AACATGATGTGTAATAACATTTTTTTTTT
1 AACATGATGTGTAACAAC-TTTTTTTTTT
*
36165278 CAACATGGTGTGTAACAACTTTTTTTTTT
1 -AACATGATGTGTAACAACTTTTTTTTTT
* *
36165307 AATATTGCT-TGTAACAA-TTTTGTTTTTT
1 AACA-TGATGTGTAACAACTTTT-TTTTTT
36165335 AACATGA
1 AACATGA
36165342 CGTATAACTT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
27 6 0.11
28 20 0.36
29 13 0.24
30 16 0.29
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (28 bp):
AACATGATGTGTAACAACTTTTTTTTTT
Found at i:36168442 original size:54 final size:54
Alignment explanation
Indices: 36168360--36168462 Score: 206
Period size: 54 Copynumber: 1.9 Consensus size: 54
36168350 ATCAAAGAAG
36168360 TTAGAGAAAACACAAAGACAACTCAGCACACATTTAATAAATCTTCGTAATTCT
1 TTAGAGAAAACACAAAGACAACTCAGCACACATTTAATAAATCTTCGTAATTCT
36168414 TTAGAGAAAACACAAAGACAACTCAGCACACATTTAATAAATCTTCGTA
1 TTAGAGAAAACACAAAGACAACTCAGCACACATTTAATAAATCTTCGTA
36168463 GCTCCCTTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (54 bp):
TTAGAGAAAACACAAAGACAACTCAGCACACATTTAATAAATCTTCGTAATTCT
Found at i:36170166 original size:15 final size:14
Alignment explanation
Indices: 36170119--36170173 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 14
36170109 ATAATTTTAT
36170119 TAATTATATATATTTA
1 TAATTAT-TATA-TTA
*
36170135 TATATT-TT-TAATA
1 TA-ATTATTATATTA
36170148 TAATTAATTATATTA
1 TAATT-ATTATATTA
36170163 TAATTATTATA
1 TAATTATTATA
36170174 AAAATTATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
12 3 0.09
13 4 0.12
14 10 0.30
15 10 0.30
16 3 0.09
17 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TAATTATTATATTA
Done.