Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 171 of 425
Found at i:51817166 original size:40 final size:39
Alignment explanation
Indices: 51817122--51817340 Score: 217
Period size: 40 Copynumber: 5.5 Consensus size: 39
51817112 GCTTGATTGT
* *
51817122 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGTT-TAGTAACTCGCACAAATGC
51817162 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
51817202 CTTTGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
51817242 CTTCAGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGG-TTTAGTAACTCGCACAAATGC
* * * *
51817282 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGG-TTTAGTAAC-TCGCACAAATGC
*
51817323 CTTCGGGACTTAGCCCGG
1 CTTCGGGACATAGCCCGG
51817341 ACATCATTCG
Statistics
Matches: 153, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.01
40 124 0.81
41 25 0.16
42 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CTTCGGGACATAGCCCGGTTTAGTAACTCGCACAAATGC
Found at i:51817220 original size:80 final size:79
Alignment explanation
Indices: 51817122--51817341 Score: 260
Period size: 80 Copynumber: 2.7 Consensus size: 79
51817112 GCTTGATTGT
* * * *
51817122 CTTCGGGACATAGCCCGGTTATAGTAATTCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGT
1 CTTCGGGACTTAACCCGGTT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
51817187 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * * * *
51817202 CTTTGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGTTTTGGT
1 CTTCGGGACTTAACCCGG-TTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGT
51817267 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * * *
51817282 CTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAACCCGG-TTTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
51817342 CATCATTCGA
Statistics
Matches: 115, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
80 86 0.75
81 29 0.25
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (79 bp):
CTTCGGGACTTAACCCGGTTTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
ACTCGCACAAATGC
Found at i:51822849 original size:13 final size:14
Alignment explanation
Indices: 51822831--51822899 Score: 63
Period size: 13 Copynumber: 4.9 Consensus size: 14
51822821 AAACGTACAT
51822831 AAAAATATATATA-
1 AAAAATATATATAC
*
51822844 AAAAATATATTTAC
1 AAAAATATATATAC
*
51822858 AACAATA-ATATA-
1 AAAAATATATATAC
*
51822870 AAATAATGATATGTAC
1 AAA-AAT-ATATATAC
51822886 ATAAAATATATATA
1 A-AAAATATATATA
51822900 TGTATATATA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
12 2 0.05
13 19 0.43
14 7 0.16
15 10 0.23
16 4 0.09
17 2 0.05
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (14 bp):
AAAAATATATATAC
Found at i:51822881 original size:28 final size:27
Alignment explanation
Indices: 51822834--51822899 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
51822824 CGTACATAAA
*
51822834 AATATATATAAAAAATATATTTACAAC
1 AATATATATAAAAAATATATGTACAAC
*
51822861 AATA-ATATAAAATAATGATATGTACATAA
1 AATATATATAAAA-AAT-ATATGTACA-AC
51822890 AATATATATA
1 AATATATATA
51822900 TGTATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 8 0.24
27 7 0.21
28 8 0.24
29 5 0.15
30 5 0.15
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (27 bp):
AATATATATAAAAAATATATGTACAAC
Found at i:51822891 original size:19 final size:19
Alignment explanation
Indices: 51822867--51822903 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
51822857 CAACAATAAT
51822867 ATAAAATA-ATGATATGTAC
1 ATAAAATATAT-ATATGTAC
51822886 ATAAAATATATATATGTA
1 ATAAAATATATATATGTA
51822904 TATATATAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (19 bp):
ATAAAATATATATATGTAC
Found at i:51824455 original size:13 final size:13
Alignment explanation
Indices: 51824437--51824462 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51824427 TGCAACAATT
51824437 ATAATTATTATTA
1 ATAATTATTATTA
51824450 ATAATTATTATTA
1 ATAATTATTATTA
51824463 TGGTTTTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATAATTATTATTA
Found at i:51824930 original size:13 final size:13
Alignment explanation
Indices: 51824912--51824961 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
51824902 TATGAATTAA
*
51824912 ATATTAGTATATT
1 ATATTATTATATT
*
51824925 ATATTATTATAAT
1 ATATTATTATATT
*
51824938 GTATTATTATTATT
1 ATATTATTA-TATT
51824952 AATATTATTA
1 -ATATTATTA
51824962 ACTAATATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
13 19 0.63
14 3 0.10
15 8 0.27
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:51831190 original size:3 final size:3
Alignment explanation
Indices: 51831182--51831231 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
51831172 ACTAACATAG
51831182 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
51831230 AA
1 AA
51831232 AATCTAAAGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:51831272 original size:16 final size:17
Alignment explanation
Indices: 51831251--51831283 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
51831241 TTTGTAATAC
51831251 ATTAAAAT-AATAAACA
1 ATTAAAATAAATAAACA
51831267 ATTAAAATAAATAAACA
1 ATTAAAATAAATAAACA
51831284 CAAAGGCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
ATTAAAATAAATAAACA
Found at i:51831527 original size:15 final size:15
Alignment explanation
Indices: 51831509--51831547 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
51831499 ATGTGTAAGT
51831509 AAATAATAATGGATA-
1 AAATAATAAT-GATAG
51831524 AAATAATAATGATAG
1 AAATAATAATGATAG
*
51831539 TAATAATAA
1 AAATAATAA
51831548 ATAATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (15 bp):
AAATAATAATGATAG
Found at i:51834158 original size:2 final size:2
Alignment explanation
Indices: 51834151--51834193 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
51834141 TTTCACTCAC
51834151 AT AT AT 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
51834193 A
1 A
51834194 CACACACACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:51838094 original size:21 final size:21
Alignment explanation
Indices: 51838070--51838113 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
51838060 GTTCTGCTTT
*
51838070 GCCTCCCTCGCTGCTGCCTCC
1 GCCTCCCGCGCTGCTGCCTCC
51838091 GCCTCCCGCGCTGCTGCCTCC
1 GCCTCCCGCGCTGCTGCCTCC
51838112 GC
1 GC
51838114 TCTAAGTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.00, C:0.57, G:0.23, T:0.20
Consensus pattern (21 bp):
GCCTCCCGCGCTGCTGCCTCC
Found at i:51841660 original size:9 final size:9
Alignment explanation
Indices: 51841646--51841762 Score: 117
Period size: 9 Copynumber: 12.3 Consensus size: 9
51841636 ATGTATTAGT
51841646 TAAGTTATG
1 TAAGTTATG
51841655 TAAGTTGTTATG
1 TAA---GTTATG
*
51841667 TATGTTATG
1 TAAGTTATG
*
51841676 TGAGTTATG
1 TAAGTTATG
*
51841685 TAAATTATG
1 TAAGTTATG
51841694 TAAGTTATG
1 TAAGTTATG
*
51841703 TGAGTTATG
1 TAAGTTATG
51841712 TAAGTTGTTATG
1 TAA---GTTATG
*
51841724 TAAATTATG
1 TAAGTTATG
*
51841733 TAAGTTATA
1 TAAGTTATG
*
51841742 TGAGTTATG
1 TAAGTTATG
51841751 TAAGTTATG
1 TAAGTTATG
51841760 TAA
1 TAA
51841763 TTTTTTTAAG
Statistics
Matches: 88, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
9 71 0.81
12 17 0.19
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:51841693 original size:39 final size:38
Alignment explanation
Indices: 51841650--51841762 Score: 119
Period size: 39 Copynumber: 3.0 Consensus size: 38
51841640 ATTAGTTAAG
51841650 TTATGTAAGTTGTTATGTATGTTATGTGAGTTATGTAAA
1 TTATGTAAGTTGTTATGTA-GTTATGTGAGTTATGTAAA
*
51841689 TTATGTAA---GTTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTTGTTATGT-AGTTATGT--G-AGTTATGTAAA
* *
51841728 TTATGTAAGTT-ATATG-AGTTATGTAAGTTATGTAA
1 TTATGTAAGTTGTTATGTAGTTATGTGAGTTATGTAA
51841763 TTTTTTTAAG
Statistics
Matches: 63, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
36 23 0.37
37 1 0.02
38 1 0.02
39 34 0.54
41 4 0.06
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (38 bp):
TTATGTAAGTTGTTATGTAGTTATGTGAGTTATGTAAA
Found at i:51841732 original size:57 final size:57
Alignment explanation
Indices: 51841648--51841760 Score: 172
Period size: 57 Copynumber: 2.0 Consensus size: 57
51841638 GTATTAGTTA
** * *
51841648 AGTTATGTAAGTTGTTATGTATGTTATGTGAGTTATGTAAATTATGTAAGTTATGTG
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTG
* *
51841705 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATGT
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGT
51841761 AATTTTTTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (57 bp):
AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATGTG
Found at i:51842763 original size:10 final size:10
Alignment explanation
Indices: 51842748--51842776 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
51842738 AATAAAATTA
51842748 ATTCATACTT
1 ATTCATACTT
51842758 ATTCATACTT
1 ATTCATACTT
51842768 ATTCATACT
1 ATTCATACT
51842777 CCACTCTCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (10 bp):
ATTCATACTT
Found at i:51843273 original size:183 final size:183
Alignment explanation
Indices: 51842965--51843333 Score: 720
Period size: 183 Copynumber: 2.0 Consensus size: 183
51842955 CCTAGAACAG
51842965 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
51843030 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
*
51843095 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAAGCAGTAACTGAAAAACATACAACATTAATTCACTAATACAGACAC
51843148 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
*
51843213 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCATCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
51843278 AGCAGGAAGCAGTAACTGAAAAACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAAGCAGTAACTGAAAAACATACAACATTAATTCACTAATACAGACAC
51843331 ATG
1 ATG
51843334 GAACTATATC
Statistics
Matches: 184, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
183 184 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (183 bp):
ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
AGCAGGAAGCAGTAACTGAAAAACATACAACATTAATTCACTAATACAGACAC
Found at i:51843423 original size:14 final size:13
Alignment explanation
Indices: 51843404--51843433 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
51843394 CAATATAATT
51843404 TTACTTCATATATA
1 TTACTTCATATA-A
51843418 TTACTTCATATAA
1 TTACTTCATATAA
51843431 TTA
1 TTA
51843434 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:51844714 original size:36 final size:37
Alignment explanation
Indices: 51844637--51844756 Score: 152
Period size: 36 Copynumber: 3.2 Consensus size: 37
51844627 CTATGCAGTA
51844637 GATGCACGGGGCGAAGGCGATGGAGGCCAAGATGGGTTGC
1 GATGCACGGGGCGAAGGCGATGGAGG---AGATGGGTTGC
* * *
51844677 GATGAACGGTGCGAAGGCGATGGAGG-GATGGTTTGC
1 GATGCACGGGGCGAAGGCGATGGAGGAGATGGGTTGC
* *
51844713 GATGCACGGGGAGAAGGCGATGGAGGAGATGTGTTGC
1 GATGCACGGGGCGAAGGCGATGGAGGAGATGGGTTGC
*
51844750 AATGCAC
1 GATGCAC
51844757 AGGGAGATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
36 32 0.46
37 14 0.20
40 24 0.34
ACGTcount: A:0.24, C:0.14, G:0.46, T:0.16
Consensus pattern (37 bp):
GATGCACGGGGCGAAGGCGATGGAGGAGATGGGTTGC
Found at i:51844810 original size:24 final size:24
Alignment explanation
Indices: 51844783--51844832 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
51844773 AAACTTACAG
* * *
51844783 ATTTGGGGAATTTGGGATTTCTGA
1 ATTTAGGGAAATTGGGATTTCAGA
51844807 ATTTAGGGAAATTGGGATTTCAGA
1 ATTTAGGGAAATTGGGATTTCAGA
51844831 AT
1 AT
51844833 CGGGGCAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.28, C:0.04, G:0.30, T:0.38
Consensus pattern (24 bp):
ATTTAGGGAAATTGGGATTTCAGA
Found at i:51845726 original size:18 final size:17
Alignment explanation
Indices: 51845700--51845733 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
51845690 CACTGTAACC
51845700 CCTAAACCAACCATAAAT
1 CCTAAACC-ACCATAAAT
*
51845718 CCTAGACCACCATAAA
1 CCTAAACCACCATAAA
51845734 GCCCAAACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.35, G:0.03, T:0.15
Consensus pattern (17 bp):
CCTAAACCACCATAAAT
Found at i:51846809 original size:40 final size:40
Alignment explanation
Indices: 51846741--51846948 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
51846731 CCTTCGGAGT
** * * *
51846741 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGAGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * * * *
51846780 TTAGCCCAGTTATAGTAACTTGCAAAAATGCCTTTGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
51846820 TTAGCCCGG-TATAATAACTCGCACAAACGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
51846859 TTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
51846899 TTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGAGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
51846939 TTAGCCCGGA
1 TTAGCCCGGA
51846949 ATTAGCCACA
Statistics
Matches: 147, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 38 0.26
40 109 0.74
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:51846873 original size:79 final size:80
Alignment explanation
Indices: 51846764--51846948 Score: 255
Period size: 79 Copynumber: 2.3 Consensus size: 80
51846754 GCCACTAGCT
* * * *
51846764 CAAATGCCTTCGAGACTTAGCCCAGTTATAGTAACTTGCAAAAATGCCTTTGGGACTTAGCCCGG
1 CAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCAAAAATGCCTTCGGGACTTAGCCCGG
51846829 -TATAATAACTCGCA
66 ATATAATAACTCGCA
* * * **
51846843 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACGAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCAAAAATGCCTTCGGGACTTAGCCCGG
* *
51846908 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
*
51846923 CGAATGCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCGAGACTTAGCCCGGA
51846949 ATTAGCCACA
Statistics
Matches: 91, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
79 56 0.62
80 35 0.38
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCAAAAATGCCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:51850497 original size:40 final size:40
Alignment explanation
Indices: 51850398--51850603 Score: 259
Period size: 40 Copynumber: 5.1 Consensus size: 40
51850388 CGAATGATGT
* * * * *
51850398 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
51850439 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
51850479 CCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
51850519 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * * *
51850559 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
51850599 CCGGG
1 CCGGG
51850604 CTATGTCTCG
Statistics
Matches: 145, Mismatches: 20, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 121 0.83
41 24 0.17
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:51850629 original size:80 final size:80
Alignment explanation
Indices: 51850398--51850630 Score: 198
Period size: 80 Copynumber: 2.9 Consensus size: 80
51850388 CGAATGATGT
** * * * * * * *
51850398 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGG-TCAATTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAA-TTACCAAAACCGGGCT-AAGTCCCGAAGACAAT
* *
51850462 TGTGCGAGTTACCAAAA
64 CGAGCGAGTTACCAAAA
* * * * * * * *
51850479 CCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCG
* * *
51850544 TGCGAGTTACTAAAT
66 AGCGAGTTACCAAAA
* * * * *
51850559 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCTCGAAGACAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCG
51850624 AGCGAGT
66 AGCGAGT
51850631 CGCTATATCC
Statistics
Matches: 126, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
80 99 0.79
81 27 0.21
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAGACAATCG
AGCGAGTTACCAAAA
Found at i:51850629 original size:120 final size:121
Alignment explanation
Indices: 51850398--51850630 Score: 301
Period size: 120 Copynumber: 1.9 Consensus size: 121
51850388 CGAATGATGT
* *
51850398 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* * * * * *
51850463 GTGCGAGTTACCAAAACCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACCAAAA
66 GTGCGAATTACCAAAACCGGGCTAAGTCCTGAAGACAATCGAGCGAGTTACCAAAA
* * *
51850519 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTC-AATTCCCGAAGGCAAT
* * *
51850582 TGTGCGAATTACTATAACCGGGCTATGT-CTCGAAGACAATCGAGCGAGT
65 TGTGCGAATTACCAAAACCGGGCTAAGTCCT-GAAGACAATCGAGCGAGT
51850631 CGCTATATCC
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
119 3 0.03
120 67 0.70
121 26 0.27
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATTACCAAAACCGGGCTAAGTCCTGAAGACAATCGAGCGAGTTACCAAAA
Found at i:51857175 original size:40 final size:40
Alignment explanation
Indices: 51857108--51857315 Score: 276
Period size: 40 Copynumber: 5.2 Consensus size: 40
51857098 CCTTCGGAGT
** * *
51857108 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
51857147 TTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* *
51857187 TTAGCCCGG-TATAATAACTCGCACAAATGCCTTCGAGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* * *
51857226 TTAGCCCGGATATAGTAGCTCCCACGAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
* **
51857266 TTAGCCCGGATATAGTAGCTCGCATGAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
51857306 TTAGCCCGGA
1 TTAGCCCGGA
51857316 ATTAGCCACA
Statistics
Matches: 152, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 40 0.26
40 112 0.74
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGAC
Found at i:51857229 original size:79 final size:80
Alignment explanation
Indices: 51857131--51857315 Score: 273
Period size: 79 Copynumber: 2.3 Consensus size: 80
51857121 GCCACTAGCT
* **
51857131 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCCCACAAATGCCTTCGGGACTTAGCCCGG
51857196 -TATAATAACTCGCA
66 ATATAATAACTCGCA
* * *
51857210 CAAATGCCTTCGAGACTTAGCCCGGATATAGTAGCTCCCACGAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCCCACAAATGCCTTCGGGACTTAGCCCGG
* *
51857275 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
**
51857290 TGAATGCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51857316 ATTAGCCACA
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 59 0.63
80 35 0.37
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCCCACAAATGCCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:51859417 original size:12 final size:12
Alignment explanation
Indices: 51859400--51859425 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51859390 CTTTTTATCC
51859400 AAATGCCGCTAA
1 AAATGCCGCTAA
51859412 AAATGCCGCTAA
1 AAATGCCGCTAA
51859424 AA
1 AA
51859426 GTCTGTTTTC
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:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (12 bp):
AAATGCCGCTAA
Found at i:51862094 original size:15 final size:14
Alignment explanation
Indices: 51862076--51862114 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
51862066 CATTTAATTA
51862076 TATTAGTATTTTTT
1 TATTAGTATTTTTT
*
51862090 CTATTAGGA-TTTTT
1 -TATTAGTATTTTTT
51862104 TATTAGTATTT
1 TATTAGTATTT
51862115 ATTAGTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 7 0.33
14 7 0.33
15 7 0.33
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (14 bp):
TATTAGTATTTTTT
Found at i:51862966 original size:21 final size:21
Alignment explanation
Indices: 51862942--51862998 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
51862932 AAAATGTAAA
51862942 TAACATGAAATCAAAAG-AATT
1 TAACATGAAATCAAAAGCAA-T
*
51862963 TAACAAGAAAATCAAAAGCAAT
1 TAACATG-AAATCAAAAGCAAT
* *
51862985 AAACATAAAATCAA
1 TAACATGAAATCAA
51862999 CTAACTTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 13 0.43
22 15 0.50
23 2 0.07
ACGTcount: A:0.63, C:0.12, G:0.07, T:0.18
Consensus pattern (21 bp):
TAACATGAAATCAAAAGCAAT
Found at i:51867482 original size:17 final size:17
Alignment explanation
Indices: 51867460--51867492 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
51867450 CCATTTAAGC
51867460 CATGTGGGCCACACAGG
1 CATGTGGGCCACACAGG
*
51867477 CATGTGGGTCACACAG
1 CATGTGGGCCACACAG
51867493 ATGAACCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.27, G:0.33, T:0.15
Consensus pattern (17 bp):
CATGTGGGCCACACAGG
Found at i:51869711 original size:46 final size:44
Alignment explanation
Indices: 51869571--51869711 Score: 126
Period size: 46 Copynumber: 3.0 Consensus size: 44
51869561 GCCCATAAGC
*
51869571 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-AGT
* * * *
51869618 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCG--GATGC-CAACCATCTAGT
51869664 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTAGT
51869710 GA
1 GA
51869712 CATGTCACTT
Statistics
Matches: 77, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 32 0.42
47 30 0.39
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCTAGT
Found at i:51877208 original size:47 final size:47
Alignment explanation
Indices: 51877155--51877346 Score: 294
Period size: 47 Copynumber: 4.1 Consensus size: 47
51877145 TTAGGATTTT
* *
51877155 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
51877202 AATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
51877249 AATGTGATGAATGTGAAAATGCATATATGAGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * *
51877296 GATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
51877343 AATG
1 AATG
51877347 CGAAATGTGT
Statistics
Matches: 134, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 134 1.00
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:51877456 original size:46 final size:46
Alignment explanation
Indices: 51877320--51877456 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
51877310 GAACATGTAT
* * *
51877320 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
51877366 ATATGAGATAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
51877412 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATG
51877457 TGTATATATA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.36, C:0.09, G:0.30, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:51883228 original size:22 final size:22
Alignment explanation
Indices: 51883198--51883271 Score: 55
Period size: 22 Copynumber: 3.3 Consensus size: 22
51883188 ACACCAATCA
51883198 TCACATACTTGAATTTATCAGAT
1 TCAC-TACTTGAATTTATCAGAT
***
51883221 TCACTACTTAGACACCAATC--A-
1 TCACTACTT-GA-ATTTATCAGAT
*
51883242 TCATATACTTGAATTTATCAGAT
1 TCA-CTACTTGAATTTATCAGAT
51883265 TCACTAC
1 TCACTAC
51883272 CAATATACAT
Statistics
Matches: 37, Mismatches: 8, Indels: 13
0.64 0.14 0.22
Matches are distributed among these distances:
20 4 0.11
21 5 0.14
22 15 0.41
23 9 0.24
24 4 0.11
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (22 bp):
TCACTACTTGAATTTATCAGAT
Found at i:51883238 original size:44 final size:44
Alignment explanation
Indices: 51883188--51883271 Score: 159
Period size: 44 Copynumber: 1.9 Consensus size: 44
51883178 CAATACTCAT
51883188 ACACCAATCATCACATACTTGAATTTATCAGATTCACTACTTAG
1 ACACCAATCATCACATACTTGAATTTATCAGATTCACTACTTAG
*
51883232 ACACCAATCATCATATACTTGAATTTATCAGATTCACTAC
1 ACACCAATCATCACATACTTGAATTTATCAGATTCACTAC
51883272 CAATATACAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (44 bp):
ACACCAATCATCACATACTTGAATTTATCAGATTCACTACTTAG
Found at i:51885430 original size:37 final size:37
Alignment explanation
Indices: 51885371--51885513 Score: 241
Period size: 37 Copynumber: 3.9 Consensus size: 37
51885361 AGCTCAGACG
* *
51885371 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
51885408 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
51885445 TAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
51885482 TAATCTCCACACGTAGTCATCGGGTCTTACCC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC
51885514 AGAATATATT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:51885793 original size:99 final size:96
Alignment explanation
Indices: 51885662--51885846 Score: 282
Period size: 99 Copynumber: 1.9 Consensus size: 96
51885652 GCACATCGCC
*
51885662 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTCAAAT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATAT-TTCAAAT
51885727 T-GACCATTCAGCTTTACCACATATGCATATCTCA
63 TAG-CCATTCAGCTTTACCACATATGCATATCTCA
* * *
51885761 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAAATTAG
*
51885826 CCATTCGGCTTTACCACATAT
66 CCATTCAGCTTTACCACATAT
51885847 ATGCATGTTC
Statistics
Matches: 80, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
96 27 0.34
97 8 0.10
99 45 0.56
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (96 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCAAATTAG
CCATTCAGCTTTACCACATATGCATATCTCA
Found at i:51885808 original size:48 final size:48
Alignment explanation
Indices: 51885662--51885847 Score: 275
Period size: 48 Copynumber: 3.8 Consensus size: 48
51885652 GCACATCGCC
*
51885662 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * * *
51885712 TATATATATTCAAATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATAT-TTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
51885761 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
51885809 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
51885848 TGCATGTTCA
Statistics
Matches: 123, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
48 74 0.60
49 8 0.07
50 7 0.06
51 34 0.28
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:51885910 original size:47 final size:47
Alignment explanation
Indices: 51885770--51885916 Score: 118
Period size: 47 Copynumber: 3.1 Consensus size: 47
51885760 ATACATATTT
* * * * * *
51885770 CACATTAGCCATTCGGCTTTACCACATATACATTTCTCATACATATT--T
1 CACATTAGCCATTCGGCCTTACCACATAT--A-TACACATTCACATTCAC
* * ** *
51885818 CACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCAC
1 CACATTAGCCATTCGGCCTTACCACATATATACACATTCACATTCAC
* * * *
51885865 CACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCAT
1 CACATTAGCCATTCGGCCTTACCACATATATACACATTCACATTCAC
51885912 CACAT
1 CACAT
51885917 AAAATCCTAA
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
45 9 0.11
46 1 0.01
47 43 0.52
48 29 0.35
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.35
Consensus pattern (47 bp):
CACATTAGCCATTCGGCCTTACCACATATATACACATTCACATTCAC
Found at i:51890380 original size:20 final size:20
Alignment explanation
Indices: 51890341--51890381 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
51890331 AAACAGTAGC
**
51890341 TCATCCATATAAACTGTATT
1 TCATCCATATAAACAATATT
51890361 TCATCCATATAAACAATATT
1 TCATCCATATAAACAATATT
51890381 T
1 T
51890382 ATGCTCGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.39, C:0.20, G:0.02, T:0.39
Consensus pattern (20 bp):
TCATCCATATAAACAATATT
Found at i:51890533 original size:25 final size:25
Alignment explanation
Indices: 51890479--51890536 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
51890469 TTCCACTTTT
* *
51890479 TTGAGCTATGAACAGTAAGTTCCTC
1 TTGAGCTATGAACAGTAAGCTCCTA
* *
51890504 CTGAGCTGATGGACAGTAAGCT-CTA
1 TTGAGCT-ATGAACAGTAAGCTCCTA
51890529 TTGAGCTA
1 TTGAGCTA
51890537 AAATGGTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
24 1 0.04
25 14 0.52
26 12 0.44
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (25 bp):
TTGAGCTATGAACAGTAAGCTCCTA
Found at i:51890570 original size:47 final size:47
Alignment explanation
Indices: 51890516--51890629 Score: 158
Period size: 47 Copynumber: 2.4 Consensus size: 47
51890506 GAGCTGATGG
* ***
51890516 ACAGTAAGCTC-TATTGAGCTAAAATGGTAAGCTTTGACGAGCTGAAA
1 ACAGTAAGCTCTTA-TGAGCTAAAATAGTAAGCTCCAACGAGCTGAAA
*
51890563 ACAGTAAGCTTTTATGAGCTAAAATAGTAAGCTCCAACGAGCTGAAA
1 ACAGTAAGCTCTTATGAGCTAAAATAGTAAGCTCCAACGAGCTGAAA
*
51890610 ATAGTAAGCTCTTATGAGCT
1 ACAGTAAGCTCTTATGAGCT
51890630 GATATATCAG
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
47 57 0.97
48 2 0.03
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (47 bp):
ACAGTAAGCTCTTATGAGCTAAAATAGTAAGCTCCAACGAGCTGAAA
Found at i:51890628 original size:24 final size:24
Alignment explanation
Indices: 51890518--51890631 Score: 119
Period size: 24 Copynumber: 4.8 Consensus size: 24
51890508 GCTGATGGAC
51890518 AGTAAGCTC-TATTGAGCT-AAAAT
1 AGTAAGCTCTTA-TGAGCTGAAAAT
* * *
51890541 GGTAAGCT-TTGACGAGCTGAAAAC
1 AGTAAGCTCTT-ATGAGCTGAAAAT
*
51890565 AGTAAGCTTTTATGAGCT-AAAAT
1 AGTAAGCTCTTATGAGCTGAAAAT
** *
51890588 AGTAAGCTCCAACGAGCTGAAAAT
1 AGTAAGCTCTTATGAGCTGAAAAT
51890612 AGTAAGCTCTTATGAGCTGA
1 AGTAAGCTCTTATGAGCTGA
51890632 TATATCAGCA
Statistics
Matches: 73, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
23 31 0.42
24 40 0.55
25 2 0.03
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (24 bp):
AGTAAGCTCTTATGAGCTGAAAAT
Found at i:51891829 original size:8 final size:8
Alignment explanation
Indices: 51891816--51891842 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
51891806 CTGTAAACTT
51891816 TAATAAAA
1 TAATAAAA
51891824 TAATAAAA
1 TAATAAAA
51891832 TAATAAAA
1 TAATAAAA
51891840 TAA
1 TAA
51891843 ATATTTTGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
TAATAAAA
Found at i:51903195 original size:20 final size:19
Alignment explanation
Indices: 51903158--51903201 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
51903148 TATTAATGAA
*
51903158 TTTG-TGATGATTTTTAAG
1 TTTGATGATGATTTATAAG
51903176 TTTGATGATAGATTTATAAG
1 TTTGATGAT-GATTTATAAG
51903196 TTTGAT
1 TTTGAT
51903202 AGTTAAATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.52
Consensus pattern (19 bp):
TTTGATGATGATTTATAAG
Found at i:51904053 original size:45 final size:45
Alignment explanation
Indices: 51903989--51904198 Score: 171
Period size: 45 Copynumber: 4.6 Consensus size: 45
51903979 GATGAAGACA
* * *
51903989 AGTAAGACCATAGCTGAAAGAAGCTATGGAATTATTATTCAGATG
1 AGTAAGACCATAGTTGAAAGAAGCTATGGAATTATGATTCAAATG
* * *
51904034 AGTAAGACCTTAGTTGAAAGACGCTATGGCATTATGATTCAAATG
1 AGTAAGACCATAGTTGAAAGAAGCTATGGAATTATGATTCAAATG
* ** *
51904079 AATAAGACCATAGTTGAAAGACA-CTAT-GACATCCT-ATTGAAAATG
1 AGTAAGACCATAGTTGAAAGA-AGCTATGGA-ATTATGATT-CAAATG
* * * *
51904124 AATAAGACCATAGTTGAAAGACA-CTATGGCATCAT-ATTAGAAAGTG
1 AGTAAGACCATAGTTGAAAGA-AGCTATGGAATTATGATT-CAAA-TG
* *
51904170 AATAAGACCATAGTTTAAAGACA-CTATGG
1 AGTAAGACCATAGTTGAAAGA-AGCTATGG
51904199 CGTTATATCA
Statistics
Matches: 142, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
44 4 0.03
45 107 0.75
46 31 0.22
ACGTcount: A:0.41, C:0.13, G:0.20, T:0.26
Consensus pattern (45 bp):
AGTAAGACCATAGTTGAAAGAAGCTATGGAATTATGATTCAAATG
Found at i:51904142 original size:22 final size:22
Alignment explanation
Indices: 51904074--51904142 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
51904064 ATTATGATTC
51904074 AAATGAATAAGACCATAGTTG-
1 AAATGAATAAGACCATAGTTGA
* *
51904095 AAA-GACACTATGACATCCTA-TTGA
1 AAATGA-A-TAAGAC--CATAGTTGA
51904119 AAATGAATAAGACCATAGTTGA
1 AAATGAATAAGACCATAGTTGA
51904141 AA
1 AA
51904143 GACACTATGG
Statistics
Matches: 37, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
20 2 0.05
21 7 0.19
22 11 0.30
23 8 0.22
24 7 0.19
25 2 0.05
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.23
Consensus pattern (22 bp):
AAATGAATAAGACCATAGTTGA
Found at i:51904190 original size:46 final size:45
Alignment explanation
Indices: 51904036--51904339 Score: 355
Period size: 46 Copynumber: 6.7 Consensus size: 45
51904026 TTCAGATGAG
* * *
51904036 TAAGACCTTAGTTGAAAGACGCTATGGCATTATGATTC-AAA-TGAA
1 TAAGACCATAGTTGAAAGACACTATGGCATCAT-A-TCGAAAGTGAA
* * * *
51904081 TAAGACCATAGTTGAAAGACACTATGACATCCTATTGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATATCGAAAGTGAA
*
51904126 TAAGACCATAGTTGAAAGACACTATGGCATCATATTAGAAAGTGAA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATA-TCGAAAGTGAA
* * * * *
51904172 TAAGACCATAGTTTAAAGACACTATGGCGTTATATCAGATAGTAAA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATATC-GAAAGTGAA
* *
51904218 TAAGACCGTGGTTG-AAGACACTATGGCATCATATCGGAAAGTGAA
1 TAAGACCATAGTTGAAAGACACTATGGCATCATATC-GAAAGTGAA
*
51904263 TAAGACCATGGTTGAAAGAC-CTAATGGCATCATATCGGAAAGTGAA
1 TAAGACCATAGTTGAAAGACACT-ATGGCATCATATC-GAAAGTGAA
* *
51904309 TAAGACCATGGTTGAAAGACACCATGGCATC
1 TAAGACCATAGTTGAAAGACACTATGGCATC
51904340 CTTCAATCAT
Statistics
Matches: 226, Mismatches: 26, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
43 1 0.00
44 4 0.02
45 106 0.47
46 114 0.50
47 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCATCATATCGAAAGTGAA
Found at i:51904196 original size:91 final size:91
Alignment explanation
Indices: 51904031--51904339 Score: 356
Period size: 91 Copynumber: 3.4 Consensus size: 91
51904021 TATTATTCAG
* * * * *
51904031 ATGAGTAAGACCTTAGTTGAAAGACGCTATGGCATTATGATTCAAA-TGAATAAGACCATAGTTG
1 ATGAATAAGACCATAGTTGAAAGACACTATGGCATCAT-ATTGAAAGTGAATAAGACCATAGTTG
* * *
51904095 AAAGACACTATGACATCCTAT-TGAAA
65 AAAGACACTATGGCATCATATCAGAAA
*
51904121 ATGAATAAGACCATAGTTGAAAGACACTATGGCATCATATTAGAAAGTGAATAAGACCATAGTTT
1 ATGAATAAGACCATAGTTGAAAGACACTATGGCATCATATT-GAAAGTGAATAAGACCATAGTTG
* * *
51904186 AAAGACACTATGGCGTTATATCAGATA
65 AAAGACACTATGGCATCATATCAGAAA
* * * * * *
51904213 GTAAATAAGACCGTGGTTG-AAGACACTATGGCATCATATCGGAAAGTGAATAAGACCATGGTTG
1 ATGAATAAGACCATAGTTGAAAGACACTATGGCATCATAT-TGAAAGTGAATAAGACCATAGTTG
*
51904277 AAAGAC-CTAATGGCATCATATCGGAAA
65 AAAGACACT-ATGGCATCATATCAGAAA
* * *
51904304 GTGAATAAGACCATGGTTGAAAGACACCATGGCATC
1 ATGAATAAGACCATAGTTGAAAGACACTATGGCATC
51904340 CTTCAATCAT
Statistics
Matches: 187, Mismatches: 26, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
89 3 0.02
90 39 0.21
91 112 0.60
92 33 0.18
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (91 bp):
ATGAATAAGACCATAGTTGAAAGACACTATGGCATCATATTGAAAGTGAATAAGACCATAGTTGA
AAGACACTATGGCATCATATCAGAAA
Found at i:51908243 original size:12 final size:12
Alignment explanation
Indices: 51908228--51908257 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
51908218 AATAATTAAA
51908228 TAAATTAGAAAT
1 TAAATTAGAAAT
*
51908240 TAAATTGGAAAT
1 TAAATTAGAAAT
51908252 TAAATT
1 TAAATT
51908258 CAGATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:51912214 original size:10 final size:12
Alignment explanation
Indices: 51912184--51912217 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
51912174 TTATGTATGT
51912184 TGTGAATATATA
1 TGTGAATATATA
51912196 TGTGAATATATA
1 TGTGAATATATA
51912208 T-TG-ATATATA
1 TGTGAATATATA
51912218 ATTGTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 7 0.32
11 2 0.09
12 13 0.59
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (12 bp):
TGTGAATATATA
Found at i:51913602 original size:6 final size:6
Alignment explanation
Indices: 51913592--51913651 Score: 111
Period size: 6 Copynumber: 10.0 Consensus size: 6
51913582 GCAAATGAAT
*
51913592 CATTTT CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC
51913640 CATTTC CATTTC
1 CATTTC CATTTC
51913652 GGAAACCTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.17, C:0.32, G:0.00, T:0.52
Consensus pattern (6 bp):
CATTTC
Found at i:51932740 original size:19 final size:19
Alignment explanation
Indices: 51932718--51932754 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
51932708 AAGTAATTTA
51932718 ATGTTATTTAT-ATGAAATG
1 ATGTTA-TTATCATGAAATG
51932737 ATGTTATTATCATGAAAT
1 ATGTTATTATCATGAAAT
51932755 ATTATGCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.46
Consensus pattern (19 bp):
ATGTTATTATCATGAAATG
Found at i:51936285 original size:14 final size:14
Alignment explanation
Indices: 51936261--51936320 Score: 55
Period size: 13 Copynumber: 4.9 Consensus size: 14
51936251 AGAAGTAAAC
51936261 AAATA-AAAAATTA
1 AAATATAAAAATTA
51936274 AAATATAAAAATT-
1 AAATATAAAAATTA
51936287 AAAT-T--AAA--A
1 AAATATAAAAATTA
*
51936296 AAATATTAAAATTA
1 AAATATAAAAATTA
51936310 AAATA-AAAAAT
1 AAATATAAAAAT
51936321 GGCTAAATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
9 4 0.10
10 4 0.10
12 4 0.10
13 14 0.36
14 13 0.33
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAATATAAAAATTA
Found at i:51936313 original size:23 final size:21
Alignment explanation
Indices: 51936273--51936319 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
51936263 ATAAAAAATT
51936273 AAAATATAAAAATTAAATTAAA
1 AAAATATAAAAATTAAA-TAAA
*
51936295 AAAATATTAAAATTAAAATAAA
1 AAAATATAAAAATT-AAATAAA
51936317 AAA
1 AAA
51936320 TGGCTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAATATAAAAATTAAATAAA
Found at i:51940827 original size:79 final size:80
Alignment explanation
Indices: 51940667--51940889 Score: 301
Period size: 79 Copynumber: 2.8 Consensus size: 80
51940657 TCGAATGATG
* * * *
51940667 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
*
51940731 TGTGCGAGTTACTAAA
65 GGTGCGAGTTACTAAA
*
51940747 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGACCCGAAGGCAT
51940809 TGGTGCGAGTTACTAAA
64 TGGTGCGAGTTACTAAA
* * * *
51940826 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATT
51940890 TGAACGAGTA
Statistics
Matches: 127, Mismatches: 10, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 1 0.01
79 70 0.55
80 48 0.38
81 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGACCCGAAGGCATTG
GTGCGAGTTACTAAA
Found at i:51940890 original size:119 final size:120
Alignment explanation
Indices: 51940667--51940891 Score: 307
Period size: 119 Copynumber: 1.9 Consensus size: 120
51940657 TCGAATGATG
* *
51940667 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
51940732 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
66 GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
* * **
51940787 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
* *
51940849 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTGCGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
51940892 AACGAGTAGC
Statistics
Matches: 93, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
118 2 0.02
119 72 0.77
120 19 0.20
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:51940898 original size:40 final size:39
Alignment explanation
Indices: 51940668--51940891 Score: 267
Period size: 40 Copynumber: 5.6 Consensus size: 39
51940658 CGAATGATGT
* * *
51940668 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
*
51940708 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
51940747 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
51940788 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51940826 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
51940867 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
51940892 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 12, Indels: 16
0.85 0.06 0.08
Matches are distributed among these distances:
39 35 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:51940913 original size:79 final size:79
Alignment explanation
Indices: 51940674--51940924 Score: 289
Period size: 79 Copynumber: 3.2 Consensus size: 79
51940664 ATGTCCGGGC
* * *
51940674 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
*
51940737 AGTTACTAAATCCGGAC
64 AGTTACTAAATCCGG-T
*
51940754 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGCG
51940816 AGTTACTAAATCCGGGT
64 AGTTACTAAATCC-GGT
* * **
51940833 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
51940898 -TAGCTATATCCGGT
66 TTA-CTAAATCCGGT
* *
51940912 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
51940925 TACGTGATTC
Statistics
Matches: 149, Mismatches: 13, Indels: 19
0.82 0.07 0.10
Matches are distributed among these distances:
78 1 0.01
79 84 0.56
80 56 0.38
81 8 0.05
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTAAATCCGGT
Found at i:51945976 original size:224 final size:224
Alignment explanation
Indices: 51945579--51946021 Score: 841
Period size: 224 Copynumber: 2.0 Consensus size: 224
51945569 ACAAAGCACT
51945579 GTTCATATAGGGCTCGCATATCTCTATTCATAAAAACACACATATAATCACAAAACAGAGTTTAG
1 GTTCATATAGGGCTCGCATATCTCTATTCATAAAAACACACATATAATCACAAAACAGAGTTTAG
51945644 AAAAGACTTACTCTCAAAATTTAGAATAAAGCCCTAAGTTTTTTATTTACATTATAGTTCGTACA
66 AAAAGACTTACTCTCAAAATTTAGAATAAAGCCCTAAGTTTTTTATTTACATTATAGTTCGTACA
51945709 TACATGATGCGATCCCTGAACACTCACCAATTTGCTAAAAGCTTAAACGAGCTTCGCTTTCCTCT
131 TACATGATGCGATCCCTGAACACTCACCAATTTGCTAAAAGCTTAAACGAGCTTCGCTTTCCTCT
*
51945774 TATCTTTGCTTGTAGACTGTAACATTATA
196 TATCTTTACTTGTAGACTGTAACATTATA
* *
51945803 GTTCATCTAGGGCTCGCATATCTCTATTCATAAAAACACACATATAATCACAAAATAGAGTTTAG
1 GTTCATATAGGGCTCGCATATCTCTATTCATAAAAACACACATATAATCACAAAACAGAGTTTAG
51945868 AAAAGACTTACTCTCAAAATTTAGAATAAAGCCCTAAGTTTTTTATTTACATTATAGTTCGTACA
66 AAAAGACTTACTCTCAAAATTTAGAATAAAGCCCTAAGTTTTTTATTTACATTATAGTTCGTACA
* *
51945933 TACATGATGTGATCCCTGAACACTCACCAATTTGCTAAAAGCTTAAACGAGCTTCGCTTTTCTCT
131 TACATGATGCGATCCCTGAACACTCACCAATTTGCTAAAAGCTTAAACGAGCTTCGCTTTCCTCT
51945998 TATCTTTACTTGTAGACTGTAACA
196 TATCTTTACTTGTAGACTGTAACA
51946022 ACCCGATTTA
Statistics
Matches: 214, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
224 214 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.33
Consensus pattern (224 bp):
GTTCATATAGGGCTCGCATATCTCTATTCATAAAAACACACATATAATCACAAAACAGAGTTTAG
AAAAGACTTACTCTCAAAATTTAGAATAAAGCCCTAAGTTTTTTATTTACATTATAGTTCGTACA
TACATGATGCGATCCCTGAACACTCACCAATTTGCTAAAAGCTTAAACGAGCTTCGCTTTCCTCT
TATCTTTACTTGTAGACTGTAACATTATA
Found at i:51947245 original size:46 final size:47
Alignment explanation
Indices: 51947187--51947402 Score: 219
Period size: 46 Copynumber: 4.6 Consensus size: 47
51947177 GGGTTATTGT
* *
51947187 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCA-C-ACTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATCGA-GATGA
* * *
51947233 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGG-CATCGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATCGAGATGA
* * * *
51947281 GTGCTAGTGTAAGACATGTCTAGGACATGTATCGGCC-TCGAGATGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATCGAGATG-A
* * *
51947328 -AGCCAGTGTAAGACATATCTGGGACATGCATCGACTAT-GAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATCGAGATGA
* *
51947373 TAGTCAGTGTAAGACCATGTCTGGGACATG
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG
51947403 GCATAAACTT
Statistics
Matches: 140, Mismatches: 21, Indels: 17
0.79 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 72 0.51
47 44 0.31
48 22 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATCGAGATGA
Found at i:51947416 original size:47 final size:48
Alignment explanation
Indices: 51947328--51947453 Score: 161
Period size: 47 Copynumber: 2.7 Consensus size: 48
51947318 TCGAGATGTA
**
51947328 AGCCAGTGTAAGA-CATATCTGGGACAT-GCATCGACTATGAGATGAT-
1 AGCCAGTGTAAGACCATATCTGGGACATGGCATAAACTATGAGAT-ATG
* *
51947374 AGTCAGTGTAAGACCATGTCTGGGACATGGCATAAACT-TGAGATATG
1 AGCCAGTGTAAGACCATATCTGGGACATGGCATAAACTATGAGATATG
* *
51947421 AGCCAGTATAAGACTATATCTGGGACATGGCAT
1 AGCCAGTGTAAGACCATATCTGGGACATGGCAT
51947454 CGGCACCTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 14 0.20
47 48 0.70
48 7 0.10
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.25
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATATCTGGGACATGGCATAAACTATGAGATATG
Found at i:51947447 original size:140 final size:140
Alignment explanation
Indices: 51947192--51947449 Score: 306
Period size: 140 Copynumber: 1.8 Consensus size: 140
51947182 ATTGTGAGCT
* * * *
51947192 AGTGTAAGACATGTCTGGGACATGCATCGGCCACACTATGAGAGCCAGTGTAAGACCATGTTTGG
1 AGTGTAAGACATATCTGGGACATGCATCGACCACACGATGAGAGCCAGTGTAAGACCATGTCTGG
*** * * * *
51947257 GACATGGCATTGGCATCGAGACGAGTGCTAGTGTAAGACATGTCTAGGACATGTATCGGCCTCGA
66 GACATGGCATAAACATCGAGACGAGAGCCAGTATAAGACATATCTAGGACATGTATCGGCCTCGA
51947322 GATGTAAGCC
131 GATGTAAGCC
* * * *
51947332 AGTGTAAGACATATCTGGGACATGCATCGACTATGA-GATGATAGTCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATATCTGGGACATGCATCGACCA-CACGATGAGAGCCAGTGTAAGACCATGTCTG
* * *
51947396 GGACATGGCATAAAC-TTGAGA-TATGAGCCAGTATAAGACTATATCTGGGACATG
65 GGACATGGCATAAACATCGAGACGA-GAGCCAGTATAAGAC-ATATCTAGGACATG
51947450 GCATCGGCAC
Statistics
Matches: 97, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
138 1 0.01
139 17 0.18
140 78 0.80
141 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (140 bp):
AGTGTAAGACATATCTGGGACATGCATCGACCACACGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATAAACATCGAGACGAGAGCCAGTATAAGACATATCTAGGACATGTATCGGCCTCGA
GATGTAAGCC
Found at i:51954542 original size:93 final size:93
Alignment explanation
Indices: 51954430--51954600 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
51954420 GCCCCTAAGT
* *
51954430 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
51954495 CGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
51954523 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
51954588 CGAGTTCGGATGC
66 CGAGTTCGGATGC
51954601 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:51954597 original size:46 final size:46
Alignment explanation
Indices: 51954425--51954597 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
51954415 AACCCGCCCC
* * *
51954425 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
51954471 TAAGTGAACTCAGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
51954519 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
51954564 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
51954598 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.56
47 27 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:51955281 original size:19 final size:19
Alignment explanation
Indices: 51955257--51955296 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
51955247 GTCTAACATA
51955257 ATTTAAAACTTCATATTCT
1 ATTTAAAACTTCATATTCT
51955276 ATTTAAAACTTCATATTCT
1 ATTTAAAACTTCATATTCT
51955295 AT
1 AT
51955297 CATAAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTAAAACTTCATATTCT
Found at i:51955304 original size:20 final size:19
Alignment explanation
Indices: 51955260--51955304 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
51955250 TAACATAATT
*
51955260 TAAAACTTCATATTCTATT
1 TAAAACTTCATATTCTATA
51955279 TAAAACTTCATATTCTATCA
1 TAAAACTTCATATTCTAT-A
51955299 TAAAAC
1 TAAAAC
51955305 ATCAAAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAACTTCATATTCTATA
Found at i:51971608 original size:19 final size:18
Alignment explanation
Indices: 51971580--51971620 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
51971570 TTTATTTACG
51971580 TTTTTATATTTCAGCATA
1 TTTTTATATTTCAGCATA
* *
51971598 TTTTATATATTTTAGCTTA
1 TTTT-TATATTTCAGCATA
51971617 TTTT
1 TTTT
51971621 GACCATTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTTTATATTTCAGCATA
Found at i:51972756 original size:40 final size:40
Alignment explanation
Indices: 51972684--51972869 Score: 259
Period size: 40 Copynumber: 4.7 Consensus size: 40
51972674 TTCTAGCGCA
* * * *
51972684 AGCCTACGGGTCTTTAA-CCCGGATACCATTCCAGTACGA-
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCA-TAT
*
51972723 AGCCTGCGGGTCTTTATGCCCGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
*
51972763 AGCCTGCGGGTCTTTAAGCCTGGATACAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
* * *
51972803 AGCCTGTGGGTCTTTAAGCCTGGATAAAATTCCAGCATAT
1 AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
*
51972843 AGCCTGCGGATCTTTAAGCCCGGATAC
1 AGCCTGCGGGTCTTTAAGCCCGGATAC
51972870 CACATCAAAT
Statistics
Matches: 132, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 16 0.12
40 116 0.88
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCATAT
Found at i:51974150 original size:21 final size:21
Alignment explanation
Indices: 51974125--51974165 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
51974115 CGGCAATTTC
51974125 AATTCATACCT-TTCAACCATG
1 AATTCA-ACCTGTTCAACCATG
*
51974146 AATTCAACTTGTTCAACCAT
1 AATTCAACCTGTTCAACCAT
51974166 CATTTAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (21 bp):
AATTCAACCTGTTCAACCATG
Found at i:51974175 original size:21 final size:21
Alignment explanation
Indices: 51974136--51974175 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
51974126 ATTCATACCT
* *
51974136 TTCAACCATGAATTCAACTTG
1 TTCAACCATCAATTAAACTTG
*
51974157 TTCAACCATCATTTAAACT
1 TTCAACCATCAATTAAACT
51974176 ACTTAACATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (21 bp):
TTCAACCATCAATTAAACTTG
Found at i:51976932 original size:46 final size:45
Alignment explanation
Indices: 51976770--51976988 Score: 174
Period size: 46 Copynumber: 4.7 Consensus size: 45
51976760 ATTGTGAGCT
* * *
51976770 AGTGTAAGACATGTCTGGGACATGCATCGACCAT-ACTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GATGA-AGCC
** * *
51976816 AGTGTAAGACCATGTCTGGGACATGGCATCGGTATCGAGATGAATGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGATGAA-GCC
* ** *
51976864 AGTGCAAGACA-GTTCTAAGACATGCATCGGCCTTGAGACGTAAGCC
1 AGTGTAAGACATG-TCTGGGACATGCATCGGCCTTGAGATG-AAGCC
* * * *
51976910 AGTGTAAGTCATGTCTGGGACATGCATC-GACTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-TGAGATGA-AGCC
*
51976956 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
51976989 ACCTTACCCC
Statistics
Matches: 135, Mismatches: 26, Indels: 21
0.74 0.14 0.12
Matches are distributed among these distances:
45 4 0.03
46 63 0.47
47 41 0.30
48 25 0.19
49 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGAAGCC
Found at i:51981125 original size:29 final size:28
Alignment explanation
Indices: 51981072--51981127 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 28
51981062 CATGGCCAAG
51981072 ACACAAGCCCGTGTTCTAGGCCGTGTGGC
1 ACACAAGCCCGTGTTCTA-GCCGTGTGGC
*
51981101 ACACACGCCCGTGTCTCT-GCTCGTGTG
1 ACACAAGCCCGTGT-TCTAGC-CGTGTG
51981128 CCCAATTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 2 0.08
29 19 0.79
30 3 0.12
ACGTcount: A:0.14, C:0.34, G:0.29, T:0.23
Consensus pattern (28 bp):
ACACAAGCCCGTGTTCTAGCCGTGTGGC
Found at i:51988271 original size:13 final size:13
Alignment explanation
Indices: 51988253--51988283 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
51988243 TTGGGACACA
51988253 CCCGTGTCCCTAG
1 CCCGTGTCCCTAG
*
51988266 CCCGTGTCCTTAG
1 CCCGTGTCCCTAG
51988279 CCCGT
1 CCCGT
51988284 ACTAATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.06, C:0.45, G:0.23, T:0.26
Consensus pattern (13 bp):
CCCGTGTCCCTAG
Found at i:51990624 original size:142 final size:145
Alignment explanation
Indices: 51990463--51990737 Score: 346
Period size: 142 Copynumber: 1.9 Consensus size: 145
51990453 CACATTATGA
*
51990463 GAGCCAATGTAAGACCATGTCTGGGACATGGAATCGGTATTGA-GACGAGAG-CTAGTGTAAGA-
1 GAGCCAATGTAAGACCATGTCTGGGACATGGAATCGGCATTGATGACGAGAGTC-AGTGTAAGAC
* * *
51990525 CATGTCTAGGACAT-GCATCGGCTATGA-GATG-TGTCAGTGTAAGACCATGTCTGGGACATGAC
65 CATGTCTAGGACATGGCATCGACT-TGAGGATGAGGT-AGTGTAAGACCATGTCTAGGACATGAC
51990587 ATCGGCACGAAGATGTGG
128 ATCGGCACGAAGATGTGG
* ** * ** *
51990605 GAGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTTGATTTCGATAGTCAGTGTAAGACC
1 GAGCCAATGTAAGACCATGTCTGGGACATGGAATCGGCATTGATGACGAGAGTCAGTGTAAGACC
* * *
51990670 ATGTTTGGGACATGGCATCGACTTGATGGATGAGGTAGTGTAAGACCATGTCTAGGACATGGCAT
66 ATGTCTAGGACATGGCATCGACTTGA-GGATGAGGTAGTGTAAGACCATGTCTAGGACATGACAT
51990735 CGG
130 CGG
51990738 TATTACACCC
Statistics
Matches: 112, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
142 38 0.34
143 14 0.12
144 16 0.14
145 8 0.07
146 34 0.30
147 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (145 bp):
GAGCCAATGTAAGACCATGTCTGGGACATGGAATCGGCATTGATGACGAGAGTCAGTGTAAGACC
ATGTCTAGGACATGGCATCGACTTGAGGATGAGGTAGTGTAAGACCATGTCTAGGACATGACATC
GGCACGAAGATGTGG
Found at i:51990681 original size:49 final size:49
Alignment explanation
Indices: 51990470--51990737 Score: 224
Period size: 47 Copynumber: 5.6 Consensus size: 49
51990460 TGAGAGCCAA
* * *
51990470 TGTAAGACCATGTCTGGGACATGGAATCGGTA-TTGAGACGA-GAGCT-AG
1 TGTAAGACCATGTCTGGGACATGGCATCGG-ACTTGA-TCGATGAGGTCAG
* *
51990518 TGTAAGA-CATGTCTAGGACAT-GCATCGG-CTATGA--GATG-TGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGACT-TGATCGATGAGGTCAG
* ** * *
51990562 TGTAAGACCATGTCTGGGACATGACATCGGCACGAAGAT-G-TGGGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGG-AC-TTGATCGATGAG-GTCAG
* *
51990612 TGTAAGACCATGTCTGGGACATGGCGTCGGCCTTGATTTCGAT-A-GTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGACTTGA--TCGATGAGGTCAG
* *
51990661 TGTAAGACCATGTTTGGGACATGGCATC-GACTTGATGGATGAGGT-AG
1 TGTAAGACCATGTCTGGGACATGGCATCGGACTTGATCGATGAGGTCAG
*
51990708 TGTAAGACCATGTCTAGGACATGGCATCGG
1 TGTAAGACCATGTCTGGGACATGGCATCGG
51990738 TATTACACCC
Statistics
Matches: 178, Mismatches: 23, Indels: 38
0.74 0.10 0.16
Matches are distributed among these distances:
43 3 0.02
44 10 0.06
45 14 0.08
46 19 0.11
47 42 0.24
48 23 0.13
49 32 0.18
50 33 0.19
51 1 0.01
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (49 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGACTTGATCGATGAGGTCAG
Found at i:51992451 original size:95 final size:93
Alignment explanation
Indices: 51992288--51992602 Score: 323
Period size: 95 Copynumber: 3.3 Consensus size: 93
51992278 GGTGAATTGC
* * * * * *
51992288 CGATGCCATATTCCAAACATGGTCTTACACTGGCTCACAT-GTCGAGGCTGATGCCATGTCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-CATAAT-GTGGCCGATGCCATGTCCAGA
* *
51992352 CATGGTCTTACACTAGCTCTTGTCTCAATG
64 CATGGTCTTACACTAGCTCTTATATCAATG
*
51992382 TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCATAATGTGGTCGATGCCATGTCCCAGA
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCATAATGTGGCCGATGCCATGT-CCAGA
* * **
51992447 CATGGTCATACACTAGCGCACATATCAATG
64 CATGGTCTTACACTAGCTCTTATATCAATG
* * * *
51992477 CTGATGCCATGTCCCAGGCATGGTCTTACACTGGTTCTCATTACAT-T-GCCGGTGCCAGGTTCC
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-CA-TA-ATGTGGCCGATGCCATG-TCC
* * *
51992540 AAACATGGTCTTACACTGGCTCTTATATC-GTGG
61 AGACATGGTCTTACACTAGCTCTTATATCAAT-G
51992573 CCGATGCCATGTCCCAGACATGGTCTTACA
1 -CGATGCCATGTCCCAGACATGGTCTTACA
51992603 GTAACACACA
Statistics
Matches: 185, Mismatches: 26, Indels: 17
0.81 0.11 0.07
Matches are distributed among these distances:
94 17 0.09
95 97 0.52
96 64 0.35
97 5 0.03
98 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (93 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCCATAATGTGGCCGATGCCATGTCCAGACA
TGGTCTTACACTAGCTCTTATATCAATG
Found at i:51992616 original size:48 final size:48
Alignment explanation
Indices: 51992286--51992602 Score: 288
Period size: 48 Copynumber: 6.6 Consensus size: 48
51992276 AGGGTGAATT
* * * *
51992286 GCCGATGCCATATTCCAAACATGGTCTTACACTGGCTCACATGTCGA-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC-ATG
* * *** *
51992334 GCTGATGCCATGT-CCAGACATGGTCTTACACTAGCTCTTGTCTCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC-ATG
* *
51992381 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-CATAAT-GTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCATG
* * * *
51992428 GTCGATGCCATGTCCCAGACATGGTCATACACTAGCGCACATATCAAT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC-ATG
* * * * *
51992476 GCTGATGCCATGTCCCAGGCATGGTCTTACACTGGTTCTCAT-TACATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAT-CATG
* * * * ** *
51992524 GCCGGTGCCAGGTTCCAAACATGGTCTTACACTGGCTCTTATATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
51992572 GCCGATGCCATGTCCCAGACATGGTCTTACA
1 GCCGATGCCATGTCCCAGACATGGTCTTACA
51992603 GTAACACACA
Statistics
Matches: 217, Mismatches: 42, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
46 1 0.00
47 78 0.36
48 136 0.63
49 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCATG
Found at i:51994127 original size:20 final size:20
Alignment explanation
Indices: 51994102--51994146 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
51994092 AGCACATGTA
*
51994102 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTAGAAATT
51994122 TTCATAAAATTTTAGAAATT
1 TTCATAAAATTTTAGAAATT
51994142 TTCAT
1 TTCAT
51994147 TTTAGTCCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTAGAAATT
Found at i:51996947 original size:48 final size:48
Alignment explanation
Indices: 51996871--51997095 Score: 188
Period size: 48 Copynumber: 4.7 Consensus size: 48
51996861 GATATTTGCA
* * * * *
51996871 CTAGTGTAAGACCATGCCTGGCATATGGCTTCGGCCA-CGATATGAGAG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGG-CATTGATATGAGAG
* * * * *
51996919 CTAGTGTAAAACCATGTTTGGAACATGGCATCGGTATTGAGATGAAAG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGATATGAGAG
* * * * *
51996967 CCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGCG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGATATGAGAG
* * *
51997015 CTAGTGTAAGATCATGTTTGGAATATGGCATCGGGCACATT-ATA--AGAG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATC-GG--CATTGATATGAGAG
* * * *
51997063 CCAGTATAAGACCATGCCTGGGACATGGCATCG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCG
51997096 TCAATTCACT
Statistics
Matches: 138, Mismatches: 35, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
47 2 0.01
48 128 0.93
49 1 0.01
50 3 0.02
51 4 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGATATGAGAG
Found at i:51997018 original size:96 final size:94
Alignment explanation
Indices: 51996873--51997095 Score: 245
Period size: 96 Copynumber: 2.3 Consensus size: 94
51996863 TATTTGCACT
* * * *
51996873 AGTGTAAGACCATGCCTGGCATATGGCTTCGGCCACGATATGAGAGCTAGTGTAAAACCATGTTT
1 AGTGTAAGACCATGCCTGGGACATGGCATC-GACACGATATGAGAGCTAGTGTAAAACCATGTTT
*
51996938 GGAACATGGCATC-GG-TATTGAGATGAA-AGCC
65 GGAACATGGCATCGGGACATT---AT-AAGAGCC
* * * * * *
51996969 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTGCGCTAGTGTAAGATCATGTTT
1 AGTGTAAGACCATGCCTGGGACATGGCATCGACA-CGATATGAGAGCTAGTGTAAAACCATGTTT
*
51997034 GGAATATGGCATCGGGCACATTATAAGAGCC
65 GGAACATGGCATCGGG-ACATTATAAGAGCC
*
51997065 AGTATAAGACCATGCCTGGGACATGGCATCG
1 AGTGTAAGACCATGCCTGGGACATGGCATCG
51997096 TCAATTCACT
Statistics
Matches: 108, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
95 5 0.05
96 98 0.91
97 2 0.02
99 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACCATGCCTGGGACATGGCATCGACACGATATGAGAGCTAGTGTAAAACCATGTTTG
GAACATGGCATCGGGACATTATAAGAGCC
Found at i:52001087 original size:60 final size:60
Alignment explanation
Indices: 52001020--52001144 Score: 187
Period size: 60 Copynumber: 2.1 Consensus size: 60
52001010 TTCATCTGGT
* * *
52001020 GGGTCTGGTGCAGGTTCTGAAGCTGGTTCATCCGCAGGTTCTTACGCTGGGTCTCGAGCC
1 GGGTCTGGTGCAGGTTCGGAAGCTGGTTCATCCGCAGGTTCCTACGCTGGCTCTCGAGCC
* * * *
52001080 GGGTCTGGTGCAGGTTCGGAAGCTGGTTCATCTGCCGGTTCCTATGCTGGCTCTCGAGCT
1 GGGTCTGGTGCAGGTTCGGAAGCTGGTTCATCCGCAGGTTCCTACGCTGGCTCTCGAGCC
52001140 GGGTC
1 GGGTC
52001145 AGGACGAGGC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.10, C:0.25, G:0.36, T:0.29
Consensus pattern (60 bp):
GGGTCTGGTGCAGGTTCGGAAGCTGGTTCATCCGCAGGTTCCTACGCTGGCTCTCGAGCC
Found at i:52005247 original size:18 final size:18
Alignment explanation
Indices: 52005220--52005255 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
52005210 TGGTGAAGGT
*
52005220 TATGGCGAGGGACATGGC
1 TATGGAGAGGGACATGGC
*
52005238 TATGGAGAGGGTCATGGC
1 TATGGAGAGGGACATGGC
52005256 AGCGGTGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.14, G:0.44, T:0.19
Consensus pattern (18 bp):
TATGGAGAGGGACATGGC
Found at i:52007789 original size:26 final size:27
Alignment explanation
Indices: 52007729--52007792 Score: 69
Period size: 26 Copynumber: 2.4 Consensus size: 27
52007719 ATGGAGGAAG
* *
52007729 TACTG-TACTGGTGACTATGTCACATT
1 TACTGTTACTGGTGACTATGCCACACT
* * *
52007755 TATTATTACTGGTGGCT-TGCCACACT
1 TACTGTTACTGGTGACTATGCCACACT
52007781 TACTGTTACTGG
1 TACTGTTACTGG
52007793 CAGCTACGCT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
26 20 0.67
27 10 0.33
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (27 bp):
TACTGTTACTGGTGACTATGCCACACT
Found at i:52023987 original size:46 final size:46
Alignment explanation
Indices: 52023936--52024064 Score: 186
Period size: 46 Copynumber: 2.8 Consensus size: 46
52023926 TATTTGGGCA
*
52023936 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCTGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
52023982 TCTGAACTTATTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 TCTGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * *
52024028 CCCGAGCTCATTGAGTTGAGTGCGAGTTCGCTTATGG
1 TCTGAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
52024065 GTGGGTTACA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.32
Consensus pattern (46 bp):
TCTGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:52026892 original size:28 final size:28
Alignment explanation
Indices: 52026827--52026927 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
52026817 ATAGTGAATC
*
52026827 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
52026856 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
52026884 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
52026914 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52026928 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:52030507 original size:51 final size:52
Alignment explanation
Indices: 52030431--52030665 Score: 259
Period size: 51 Copynumber: 4.7 Consensus size: 52
52030421 TGAGGTCGCA
52030431 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACT-ATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGATGATCACG
* * *** *** *
52030482 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAG-ATGGTGA-GGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGATGATCACG
*
52030532 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACT-ATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGATGATCACG
* * * * * * * *
52030583 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA--C-TAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGATGATCACG
52030632 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
52030666 AGATAGCTTC
Statistics
Matches: 148, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
48 4 0.03
49 36 0.24
50 39 0.26
51 69 0.47
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (52 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGATGATCACG
Found at i:52030595 original size:101 final size:101
Alignment explanation
Indices: 52030419--52030665 Score: 426
Period size: 101 Copynumber: 2.5 Consensus size: 101
52030409 AATGATCTAT
52030419 TGTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTATGATCACGTG
1 TGTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTATGATCACGTG
*
52030484 TGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-
66 TGTAGTACTAAGTGCAGGCTACTACGTGTACTAGAC
* * *
52030519 TGGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTATGATCACGT
1 T-GTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTATGATCACGT
52030584 GTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGAC
65 GTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGAC
*
52030621 TGT-TGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 TGTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
52030666 AGATAGCTTC
Statistics
Matches: 137, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
100 39 0.28
101 97 0.71
102 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (101 bp):
TGTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTATGATCACGTG
TGTAGTACTAAGTGCAGGCTACTACGTGTACTAGAC
Found at i:52032057 original size:50 final size:50
Alignment explanation
Indices: 52031939--52032125 Score: 209
Period size: 50 Copynumber: 3.7 Consensus size: 50
52031929 CTGGTACGCA
* * *
52031939 TAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAGTCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACTCACCATTCTAGTACACG
* *
52031988 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CTCACCATTCTAGTACACG
* * ** * *
52032038 TAGTAGCCTGCACTTAGTACTACACACGTGA-TCACAATTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACTCACCA--TTCTAGTACACG
*
52032089 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCAC
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CTCAC
52032126 AATAGATCAT
Statistics
Matches: 119, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
48 5 0.04
49 29 0.24
50 42 0.35
51 39 0.33
53 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACTCACCATTCTAGTACACG
Found at i:52032114 original size:101 final size:99
Alignment explanation
Indices: 52031939--52032125 Score: 257
Period size: 101 Copynumber: 1.9 Consensus size: 99
52031929 CTGGTACGCA
* * *
52031939 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTAGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGAGTACACATAGTAGCCTGCACTTA
*
52032004 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* *** * *
52032038 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAATTTTCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAACAGTCGAGTACACATAGTAGCCTGCACT
*
52032103 TAGTACTACACATGCGACCTCAC
64 TAGTACTACACACGCGACCTCAC
52032126 AATAGATCAT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
99 29 0.39
100 1 0.01
101 45 0.60
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAACAGTCGAGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:52034936 original size:15 final size:15
Alignment explanation
Indices: 52034894--52034937 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
52034884 CATAGTATCG
*
52034894 TATCTTGGATTTCTT
1 TATCTTGGATTTCTC
*
52034909 TAT-TCTGGGTTTCTC
1 TATCT-TGGATTTCTC
52034924 TATCTTGGATTTCT
1 TATCTTGGATTTCT
52034938 TTATTCGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:52034952 original size:14 final size:14
Alignment explanation
Indices: 52034900--52034952 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
52034890 ATCGTATCTT
52034900 GGATTTCTTTATTC
1 GGATTTCTTTATTC
* * *
52034914 TGGGTTTCTCTATCTT
1 -GGATTTCTTTAT-TC
52034930 GGATTTCTTTATTC
1 GGATTTCTTTATTC
*
52034944 GGTTTTCTT
1 GGATTTCTT
52034953 GTTATCTTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
14 9 0.30
15 20 0.67
16 1 0.03
ACGTcount: A:0.09, C:0.15, G:0.17, T:0.58
Consensus pattern (14 bp):
GGATTTCTTTATTC
Found at i:52034966 original size:30 final size:30
Alignment explanation
Indices: 52034894--52034951 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
52034884 CATAGTATCG
52034894 TATCTTGGATTTCTTTATTCTGGGTTTCTC
1 TATCTTGGATTTCTTTATTCTGGGTTTCTC
*
52034924 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGGTTTCT
52034952 TGTTATCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.10, C:0.16, G:0.16, T:0.59
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGGTTTCTC
Found at i:52037405 original size:46 final size:45
Alignment explanation
Indices: 52037352--52037475 Score: 185
Period size: 46 Copynumber: 2.7 Consensus size: 45
52037342 GGGCATCTGA
*
52037352 ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGG
1 ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCG
*
52037398 ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCG
1 ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
* * *
52037443 AGCTCATTGAGTTGAGTGCGAGTTCGCTTATGG
1 A-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52037476 GCGGGTTACA
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 4 0.06
46 68 0.94
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (45 bp):
ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
Found at i:52041373 original size:37 final size:37
Alignment explanation
Indices: 52041323--52041410 Score: 167
Period size: 37 Copynumber: 2.4 Consensus size: 37
52041313 CTGCGATATT
52041323 GGTGTGCTGGTTGGATGGGTCAATTGATATCCCCACA
1 GGTGTGCTGGTTGGATGGGTCAATTGATATCCCCACA
52041360 GGTGTGCTGGTTGGATGGGTCAATTGATATCCCCACA
1 GGTGTGCTGGTTGGATGGGTCAATTGATATCCCCACA
*
52041397 TGTGTGCTGGTTGG
1 GGTGTGCTGGTTGG
52041411 TACGGGTGGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.16, C:0.17, G:0.35, T:0.32
Consensus pattern (37 bp):
GGTGTGCTGGTTGGATGGGTCAATTGATATCCCCACA
Found at i:52043744 original size:21 final size:21
Alignment explanation
Indices: 52043710--52043753 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
52043700 AAGGTCTTGT
52043710 AGTTTTTAATTAGCTTAATTA
1 AGTTTTTAATTAGCTTAATTA
52043731 AGTTTATTAA-TAGCTTAATTA
1 AGTTT-TTAATTAGCTTAATTA
52043752 AG
1 AG
52043754 CTGAGTGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (21 bp):
AGTTTTTAATTAGCTTAATTA
Found at i:52052405 original size:16 final size:16
Alignment explanation
Indices: 52052384--52052415 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
52052374 TTTAAGACCT
52052384 GTATAGAAACATCGTC
1 GTATAGAAACATCGTC
52052400 GTATAGAAACATCGTC
1 GTATAGAAACATCGTC
52052416 TTACAGACTT
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):
GTATAGAAACATCGTC
Found at i:52053357 original size:41 final size:41
Alignment explanation
Indices: 52053251--52053373 Score: 203
Period size: 41 Copynumber: 3.0 Consensus size: 41
52053241 TGTGCGACAT
* * * *
52053251 GCCCATGTCCCTACCCGTCGTTAAGACTGTCAAAAGAACAC
1 GCCCGTGTCCCCACCCGTGGTCAAGACTGTCAAAAGAACAC
52053292 GCCCGTGT-CCCACCCGTGGTCAAGACTGTCAAAAGAACAC
1 GCCCGTGTCCCCACCCGTGGTCAAGACTGTCAAAAGAACAC
52053332 GCCCGTGTCCCCACCCGTGGTCAAGACTGTCAAAAGAACAC
1 GCCCGTGTCCCCACCCGTGGTCAAGACTGTCAAAAGAACAC
52053373 G
1 G
52053374 AGCGTGCGCA
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 37 0.48
41 40 0.52
ACGTcount: A:0.28, C:0.35, G:0.21, T:0.16
Consensus pattern (41 bp):
GCCCGTGTCCCCACCCGTGGTCAAGACTGTCAAAAGAACAC
Found at i:52065212 original size:40 final size:39
Alignment explanation
Indices: 52065168--52065360 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
52065158 GTTCAAAACA
* * ** * *
52065168 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
52065208 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
52065248 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
52065287 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
52065326 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
52065361 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:52065279 original size:39 final size:39
Alignment explanation
Indices: 52065198--52065360 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
52065188 TATGGTAACC
* *
52065198 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
52065238 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
52065277 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
52065316 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
52065355 CGCACA
1 CGCACA
52065361 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:52072293 original size:40 final size:40
Alignment explanation
Indices: 52072249--52072433 Score: 205
Period size: 39 Copynumber: 4.7 Consensus size: 40
52072239 GTTCAAAACA
* * ***
52072249 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
52072289 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * ** *
52072329 CCTTCGGG-CTTAGCCCGGATATCATAGCTTGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
** *
52072368 CCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
52072407 CCTTCGGG-CTTAGCCCGGATATCACAA
1 CCTTCGGGACTTAGCCCGGATATCACAA
52072434 TTCGCACATT
Statistics
Matches: 129, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 89 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:52072363 original size:39 final size:38
Alignment explanation
Indices: 52072280--52072441 Score: 225
Period size: 39 Copynumber: 4.1 Consensus size: 38
52072270 ATGGTAACCC
* * *
52072280 GCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTC
1 GCACAATTGCCTTCGGG-CTTAGCCCGGATATCAC-ACTT
*
52072320 GCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTT
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACA-CTT
*
52072359 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACACTT
*
52072397 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 -GCACAATTGCCTTCGGGCTTAGCCCGGATATCACACTT
52072436 CGCACA
1 -GCACA
52072442 TTCATTCACA
Statistics
Matches: 114, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
38 3 0.03
39 95 0.83
40 16 0.14
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (38 bp):
GCACAATTGCCTTCGGGCTTAGCCCGGATATCACACTT
Found at i:52072405 original size:78 final size:79
Alignment explanation
Indices: 52072280--52072430 Score: 268
Period size: 78 Copynumber: 1.9 Consensus size: 79
52072270 ATGGTAACCC
52072280 GCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
52072345 GGATATCATAGCTT
66 GGATATCATAGCTT
* * *
52072359 GCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTGCCTTCGGGCTTAGCCC
1 GCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
52072423 GGATATCA
66 GGATATCA
52072431 CAATTCGCAC
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
78 53 0.77
79 16 0.23
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGATATCATAGCTT
Found at i:52073635 original size:27 final size:26
Alignment explanation
Indices: 52073594--52073705 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
52073584 AGGAAGCATC
52073594 CTGGTGGCTAC-GCCACAATTATCTGAT
1 CTGGTGGCT-CTGCCAC-ATTATCTGAT
*
52073621 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
52073648 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * * *
52073676 CTGGTGACTCTGTCACATTATTTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
52073702 CTGG
1 CTGG
52073706 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.11
27 50 0.67
28 17 0.23
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:52073702 original size:54 final size:54
Alignment explanation
Indices: 52073594--52073705 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
52073584 AGGAAGCATC
*
52073594 CTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
52073648 CTGGTGGCT-CTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATTTGTT
1 CTGGTGGCTAC-GCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
52073702 CTGG
1 CTGG
52073706 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
53 1 0.02
54 33 0.63
55 18 0.35
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTACGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:52075098 original size:46 final size:46
Alignment explanation
Indices: 52075047--52075175 Score: 165
Period size: 46 Copynumber: 2.8 Consensus size: 46
52075037 ATGGTTGAGC
*
52075047 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA--GATGCAACAGG
* * *
52075094 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGCAAC-AGG
52075139 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAG
52075176 GGGCGGGTTA
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
43 6 0.08
45 4 0.06
46 29 0.41
47 29 0.41
48 3 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGCAACAGG
Found at i:52081954 original size:47 final size:46
Alignment explanation
Indices: 52081837--52082009 Score: 196
Period size: 45 Copynumber: 3.8 Consensus size: 46
52081827 GGATGGTTGA
*
52081837 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCAAT
* *
52081884 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGTAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAA-T
* *
52081927 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGC-AAT
*
52081977 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
52082010 TAGGGGCGGG
Statistics
Matches: 109, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
44 2 0.02
45 30 0.28
46 30 0.28
47 30 0.28
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCAAT
Found at i:52082005 original size:46 final size:45
Alignment explanation
Indices: 52081841--52082011 Score: 213
Period size: 46 Copynumber: 3.7 Consensus size: 45
52081831 GGTTGAGCAT
* *
52081841 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
* * *
52081886 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC---GC
52081931 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
*
52081979 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
52082012 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 9, Indels: 17
0.81 0.07 0.13
Matches are distributed among these distances:
42 6 0.06
44 2 0.02
45 29 0.27
46 32 0.30
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:52088714 original size:46 final size:46
Alignment explanation
Indices: 52088663--52088791 Score: 165
Period size: 46 Copynumber: 2.8 Consensus size: 46
52088653 ATGGTTGAGC
*
52088663 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA--GATGCAACAGG
* * *
52088710 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGCAAC-AGG
52088755 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAG
52088792 GGGCGGGTTA
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
43 6 0.08
45 4 0.06
46 29 0.41
47 29 0.41
48 3 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (46 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGATGCAACAGG
Found at i:52097440 original size:29 final size:29
Alignment explanation
Indices: 52097407--52097480 Score: 121
Period size: 29 Copynumber: 2.6 Consensus size: 29
52097397 GTGACGAGAT
*
52097407 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
52097436 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
52097465 CGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52097481 AGCTCGAGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:52105306 original size:28 final size:29
Alignment explanation
Indices: 52105245--52105308 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 29
52105235 GTGACGAGAT
*
52105245 CGGCACTAAGTGTGCATGCTGGAAATATA
1 CGGCACTAAGTGTGCATGCTGGAAAAATA
*
52105274 TGGCACTAAGTGTGCA-GCTGGAAAAATA
1 CGGCACTAAGTGTGCATGCTGGAAAAATA
52105302 CGGCACT
1 CGGCACT
52105309 GGGTGTGCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 17 0.53
29 15 0.47
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:52108677 original size:23 final size:23
Alignment explanation
Indices: 52108651--52108695 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
52108641 TTAAAATGTA
*
52108651 TGTTCTTAATTGT-AATATAATTG
1 TGTTATTAATTGTGAA-ATAATTG
*
52108674 TGTTATTCATTGTGAAATAATT
1 TGTTATTAATTGTGAAATAATT
52108696 TATGAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.31, C:0.04, G:0.13, T:0.51
Consensus pattern (23 bp):
TGTTATTAATTGTGAAATAATTG
Found at i:52110738 original size:93 final size:93
Alignment explanation
Indices: 52110579--52110750 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
52110569 CGCCCATAAG
* * * *
52110579 CGAACTCGGACTCAACTCAACAAGCTTGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACAAGCTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
52110644 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
* *
52110672 CGAACTCAGACTCAACTCAACGAG-TTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACAAGCTT-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
52110736 AACGAGCTCGGATGC
65 AACGAGCTCGGATGC
52110751 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACAAGCTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:52110740 original size:46 final size:46
Alignment explanation
Indices: 52110572--52110747 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
52110562 TGTAACCCGC
* * * *
52110572 CCATAAGCGAACTCGGACTCAACTCAACAAGCTT-GGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCAT
* * * *
52110618 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* * *
52110668 --TTCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
52110711 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
52110748 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 19, Indels: 16
0.75 0.14 0.12
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 4 0.04
46 57 0.55
47 28 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:52113157 original size:15 final size:15
Alignment explanation
Indices: 52113131--52113186 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
52113121 CAAGGAAACC
52113131 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
52113146 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
52113161 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
52113176 GAATAAAGAAA
1 GAATAAAGAAA
52113187 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:52115635 original size:80 final size:80
Alignment explanation
Indices: 52115474--52115655 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 80
52115464 ACATTCAAAT
* * *
52115474 GCCTTCGGGACATAGCCC-GATTACAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTT
1 GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTTAACCCGGATTT
* *
52115538 AGTAGCTCGCTCGAAA
65 AGTAGCTAGCACGAAA
* * **
52115554 GCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTATTCCGGATT
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTTAACCCGGATT
52115617 TAGTCA-CTTAGCAC-AAA
64 TAGT-AGC-TAGCACGAAA
52115634 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
52115656 ATCATTCGAA
Statistics
Matches: 86, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
79 6 0.07
80 68 0.79
81 12 0.14
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTTAACCCGGATTTA
GTAGCTAGCACGAAA
Found at i:52115654 original size:40 final size:40
Alignment explanation
Indices: 52115474--52115655 Score: 174
Period size: 40 Copynumber: 4.5 Consensus size: 40
52115464 ACATTCAAAT
* * *
52115474 GCCTTCGGGACATAGCCC-GATTACAGTAACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAAA
* * *
52115514 GCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCTCGAAA
1 GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAAA
* * *
52115554 GCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTAT
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAAA
* ** * *
52115594 GCCGTC-GGATCTTATTCCGGATTTAGTCACTTAGCAC-AAA
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACGAAA
52115634 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
52115656 ATCATTCGAA
Statistics
Matches: 117, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.87
41 12 0.10
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAAA
Found at i:52119452 original size:93 final size:93
Alignment explanation
Indices: 52119293--52119464 Score: 276
Period size: 93 Copynumber: 1.8 Consensus size: 93
52119283 CGCCCATAAG
*
52119293 CGAACTCAGACTCAACTCAACGAGCTTGGGCATTCGCATCCATGAATGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTTGGACATTCGCATCCATGAATGAACTCGGACTCAACTCA
*
52119358 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
52119386 CGAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCATCCAT-AAGTGAACTCGGACTCAACT
1 CGAACTCAGACTCAACTCAACGAGCTT-GGACATTCGCATCCATGAA-TGAACTCGGACTCAACT
52119449 CAACGAGCTCGGATGC
64 CAACGAGCTCGGATGC
52119465 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTTGGACATTCGCATCCATGAATGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Done.