Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 186 of 292
Found at i:55463612 original size:2 final size:2
Alignment explanation
Indices: 55463599--55463640 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
55463589 TATGTGAAAG
55463599 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55463641 GAAATCATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:55476098 original size:45 final size:44
Alignment explanation
Indices: 55476034--55476226 Score: 175
Period size: 45 Copynumber: 4.5 Consensus size: 44
55476024 TAGGATTCCA
* * * ** *
55476034 ATATGTGTTTTCGTTTAAGACCACGTCTGGAACGTTGGAATCAAT
1 ATATGTGGTTACGTGTAAGACCACGTCTGGAATATTGGCATC-AT
*
55476079 ATATGTGGTTACGTGTAAGACCATGTCTGGAATATTGGCATCAT
1 ATATGTGGTTACGTGTAAGACCACGTCTGGAATATTGGCATCAT
* * *
55476123 AT-T-TGATT-CGTGGAAGACCACGTCTGGGATATTGGCATCGAT
1 ATATGTGGTTACGTGTAAGACCACGTCTGGAATATTGGCATC-AT
* * * * *
55476165 ATATGTGGTTACATGTAAGACCA-GTCTGGGACATCGGCATCGT
1 ATATGTGGTTACGTGTAAGACCACGTCTGGAATATTGGCATCAT
*
55476208 AT-T-TGATT-CGTGTAAGACC
1 ATATGTGGTTACGTGTAAGACC
55476227 CTTTCTGGGA
Statistics
Matches: 125, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
40 10 0.08
41 32 0.26
42 9 0.07
43 5 0.04
44 24 0.19
45 45 0.36
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (44 bp):
ATATGTGGTTACGTGTAAGACCACGTCTGGAATATTGGCATCAT
Found at i:55476235 original size:85 final size:86
Alignment explanation
Indices: 55476050--55476251 Score: 264
Period size: 85 Copynumber: 2.4 Consensus size: 86
55476040 GTTTTCGTTT
* * * * * * *
55476050 AAGACCACGTCTGGAACGTTGGAATCAATATATGTGGTTACGTGTAAGACCATGTCTGGAATATT
1 AAGACCACGTCTGGGACATTGGCATCGATATATGTGGTTACATGTAAGACCATGTCTGGAACATC
55476115 GGCATCATATTTGATTCGTGG
66 GGCATCATATTTGATTCGTGG
* *
55476136 AAGACCACGTCTGGGATATTGGCATCGATATATGTGGTTACATGTAAGACCA-GTCTGGGACATC
1 AAGACCACGTCTGGGACATTGGCATCGATATATGTGGTTACATGTAAGACCATGTCTGGAACATC
* *
55476200 GGCATCGTATTTGATTCGTGT
66 GGCATCATATTTGATTCGTGG
* *
55476221 AAGACC-CTTTCTGGGACAGTGGCATCGATAT
1 AAGACCAC-GTCTGGGACATTGGCATCGATAT
55476252 GAGATAGCAT
Statistics
Matches: 101, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
84 1 0.01
85 54 0.53
86 46 0.46
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (86 bp):
AAGACCACGTCTGGGACATTGGCATCGATATATGTGGTTACATGTAAGACCATGTCTGGAACATC
GGCATCATATTTGATTCGTGG
Found at i:55476245 original size:41 final size:41
Alignment explanation
Indices: 55476090--55476247 Score: 149
Period size: 41 Copynumber: 3.8 Consensus size: 41
55476080 TATGTGGTTA
* * * *
55476090 CGTGTAAGACCATGTCTGGAATATTGGCATCATATTTGATT
1 CGTGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGATT
* * *
55476131 CGTGGAAGACCAC-GTCTGGGATATTGGCATCGATATATGTGGTT
1 CGTGTAAGACC-CTGTCTGGGACATTGGCATCG-TAT-T-TGATT
* * *
55476175 ACATGTAAGA-CCAGTCTGGGACATCGGCATCGTATTTGATT
1 -CGTGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGATT
* *
55476216 CGTGTAAGACCCTTTCTGGGACAGTGGCATCG
1 CGTGTAAGACCCTGTCTGGGACATTGGCATCG
55476248 ATATGAGATA
Statistics
Matches: 95, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
40 8 0.08
41 49 0.52
42 4 0.04
43 5 0.05
44 22 0.23
45 7 0.07
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (41 bp):
CGTGTAAGACCCTGTCTGGGACATTGGCATCGTATTTGATT
Found at i:55476686 original size:2 final size:2
Alignment explanation
Indices: 55476679--55476706 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
55476669 AAAGTATAAG
55476679 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
55476707 GAAATCATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55484193 original size:38 final size:38
Alignment explanation
Indices: 55484100--55484289 Score: 193
Period size: 38 Copynumber: 4.9 Consensus size: 38
55484090 GAATCCAGTC
* * * *
55484100 ACCAGCACAAAACCTGCGGGACTTTAAGCTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
* *
55484140 ACCAGCACTAGGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* *
55484178 ACCAGTACGAAGCCTGCGGGATTTAACCCGAATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* ** *
55484216 ACTAGCACGAAGCCTGCGGGATTTAACATGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* * *
55484254 TCCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATA
1 ACCAGCACGA-AGCCTGCGGG-ATTTAA-CCCGGATA
55484290 CACATCAAAT
Statistics
Matches: 126, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
37 1 0.01
38 91 0.72
39 10 0.08
40 24 0.19
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:55491828 original size:38 final size:38
Alignment explanation
Indices: 55491766--55491905 Score: 140
Period size: 38 Copynumber: 3.6 Consensus size: 38
55491756 CGGTACAAAA
* *
55491766 CCTGCGGGACTTTAAGCTCGGATATAATACCAGCAC-AAGG
1 CCTGCGGGA-TTTAA-CCCAGATATAATACCAGCACGAA-G
*
55491806 CCTGTGGGATTTAACCCAGATATAATACCAGCACGAAG
1 CCTGCGGGATTTAACCCAGATATAATACCAGCACGAAG
* * * *
55491844 CCTGCGGGATTTAACCCGGATATATTTCCAGCA-TATAG
1 CCTGCGGGATTTAACCCAGATATAATACCAGCACGA-AG
*
55491882 CCTGCGGGTCTTTAAGCCCAGATA
1 CCTGCGGG-ATTTAA-CCCAGATA
55491906 CACATCAAAT
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
37 1 0.01
38 58 0.67
39 12 0.14
40 15 0.17
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (38 bp):
CCTGCGGGATTTAACCCAGATATAATACCAGCACGAAG
Found at i:55496076 original size:151 final size:150
Alignment explanation
Indices: 55495877--55496176 Score: 546
Period size: 151 Copynumber: 2.0 Consensus size: 150
55495867 TCATTATTGA
55495877 AATTGGTTGTGTTAATTGTCAATTTAGGTTTTGGGATTACTCGTGTTTGAATCAACATCATAAAA
1 AATTGGTTGTGTTAATTGTCAATTTAGGTTTTGGGATTACTCGTGTTTGAATCAACATCATAAAA
55495942 TACTCAAGTGTGTATCAAAAACACGAAAAAATAGTAATCGACGAAAGCTGAAAAAGTTCACTGTC
66 TACTCAAGTGTGTATCAAAAACACG-AAAAATAGTAATCGACGAAAGCTGAAAAAGTTCACTGTC
* *
55496007 AACGCTACATGGCCGTGTGTG
130 AACACTACATGACCGTGTGTG
* *
55496028 AATTGGTTGTGTTAATTTTCAATTTAGGTTTTGGGATTACTTGTGTTTGAATCAACATCATAAAA
1 AATTGGTTGTGTTAATTGTCAATTTAGGTTTTGGGATTACTCGTGTTTGAATCAACATCATAAAA
*
55496093 TACTCAAGTGTGTATCGAAAACACGAAAAATAGTAATCGACGAAAGCTGAAAAAGTTCACTGTCA
66 TACTCAAGTGTGTATCAAAAACACGAAAAATAGTAATCGACGAAAGCTGAAAAAGTTCACTGTCA
55496158 ACACTACATGACCGTGTGT
131 ACACTACATGACCGTGTGT
55496177 CACACACGGC
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
150 57 0.40
151 87 0.60
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (150 bp):
AATTGGTTGTGTTAATTGTCAATTTAGGTTTTGGGATTACTCGTGTTTGAATCAACATCATAAAA
TACTCAAGTGTGTATCAAAAACACGAAAAATAGTAATCGACGAAAGCTGAAAAAGTTCACTGTCA
ACACTACATGACCGTGTGTG
Found at i:55499272 original size:12 final size:12
Alignment explanation
Indices: 55499255--55499280 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
55499245 AAAACAGGGC
55499255 TTTAGCGGCGTT
1 TTTAGCGGCGTT
55499267 TTTAGCGGCGTT
1 TTTAGCGGCGTT
55499279 TT
1 TT
55499281 ACCAAAAAAC
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:55499358 original size:41 final size:40
Alignment explanation
Indices: 55499335--55499472 Score: 213
Period size: 41 Copynumber: 3.4 Consensus size: 40
55499325 CGTTTTACCA
*
55499335 AAAACGCCGCTAAAAACCGGAGCAATAGCGGCGTTTTTGGT
1 AAAACGCCGCTAAAAACCGGAGCAATAGCGGCG-TTTTCGT
*
55499376 AAAACGCCGCTAAAAACCGGAGCAATAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCGGAGCAATAGCGGCGTTTTC-GT
* *
55499417 AAAACGCCGCTAAAAACCGGAGCATTAGCGGCGCTTTCGGT
1 AAAACGCCGCTAAAAACCGGAGCAATAGCGGCGTTTTC-GT
55499458 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
55499473 GTCATATAAC
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
40 3 0.03
41 90 0.97
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.16
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACCGGAGCAATAGCGGCGTTTTCGT
Found at i:55499538 original size:22 final size:23
Alignment explanation
Indices: 55499513--55499560 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
55499503 AAAAAATCAT
*
55499513 AAACACT-AA-TCTATAATCCTTA
1 AAACACTAAACTCT-TAAACCTTA
55499535 AAACACTAAACTCTTAAACCTTA
1 AAACACTAAACTCTTAAACCTTA
55499558 AAA
1 AAA
55499561 AACTTAACCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 13 0.57
24 3 0.13
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (23 bp):
AAACACTAAACTCTTAAACCTTA
Found at i:55499575 original size:23 final size:23
Alignment explanation
Indices: 55499530--55499576 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
55499520 AATCTATAAT
* * *
55499530 CCTTAAAACACTAAACTCTTAAA
1 CCTTAAAAAACTAAACCCCTAAA
*
55499553 CCTTAAAAAACTTAACCCCTAAA
1 CCTTAAAAAACTAAACCCCTAAA
55499576 C
1 C
55499577 TATAACCCCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (23 bp):
CCTTAAAAAACTAAACCCCTAAA
Found at i:55499584 original size:14 final size:13
Alignment explanation
Indices: 55499560--55499589 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
55499550 AAACCTTAAA
55499560 AAACTTAACCCCT
1 AAACTTAACCCCT
55499573 AAACTATAACCCCT
1 AAACT-TAACCCCT
55499587 AAA
1 AAA
55499590 ATACTAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (13 bp):
AAACTTAACCCCT
Found at i:55499797 original size:15 final size:15
Alignment explanation
Indices: 55499774--55499827 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
55499764 TATTTTATGT
*
55499774 TTTATGGATTATGGG
1 TTTAGGGATTATGGG
55499789 TTTAGGGATTAT-GG
1 TTTAGGGATTATGGG
*
55499803 TTTAAGGG-TTAGGGG
1 TTT-AGGGATTATGGG
*
55499818 TCTA-GGATTA
1 TTTAGGGATTA
55499828 AGAGTTTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 2 0.06
14 12 0.36
15 19 0.58
ACGTcount: A:0.22, C:0.02, G:0.35, T:0.41
Consensus pattern (15 bp):
TTTAGGGATTATGGG
Found at i:55499800 original size:22 final size:21
Alignment explanation
Indices: 55499775--55499829 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
55499765 ATTTTATGTT
*
55499775 TTATGGATTATGGGTTTAGGGA
1 TTATGGATTAAGGG-TTAGGGA
* *
55499797 TTATGGTTTAAGGGTTAGGGG
1 TTATGGATTAAGGGTTAGGGA
55499818 TCTA-GGATTAAG
1 T-TATGGATTAAG
55499830 AGTTTATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.24, C:0.02, G:0.36, T:0.38
Consensus pattern (21 bp):
TTATGGATTAAGGGTTAGGGA
Found at i:55499804 original size:14 final size:14
Alignment explanation
Indices: 55499768--55499806 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
55499758 AGTTACTATT
* *
55499768 TTATGTTTTATGGA
1 TTATGGTTTAGGGA
55499782 TTATGGGTTTAGGGA
1 TTAT-GGTTTAGGGA
55499797 TTATGGTTTA
1 TTATGGTTTA
55499807 AGGGTTAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (14 bp):
TTATGGTTTAGGGA
Found at i:55500011 original size:14 final size:14
Alignment explanation
Indices: 55499992--55500030 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
55499982 ATCATTATAG
55499992 TTTAGGGTTTACGA
1 TTTAGGGTTTACGA
* *
55500006 TTTAGGGTATATGA
1 TTTAGGGTTTACGA
*
55500020 TTGAGGGTTTA
1 TTTAGGGTTTA
55500031 AGGTTTATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.03, G:0.31, T:0.44
Consensus pattern (14 bp):
TTTAGGGTTTACGA
Found at i:55500114 original size:13 final size:13
Alignment explanation
Indices: 55500096--55500134 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
55500086 TAAAATTTAA
55500096 GGGTTAGGGTTAG
1 GGGTTAGGGTTAG
*
55500109 GGGTTATGGGTTAT
1 GGGTTA-GGGTTAG
*
55500123 GGTTTAGGGTTA
1 GGGTTAGGGTTA
55500135 ATGGTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (13 bp):
GGGTTAGGGTTAG
Found at i:55500138 original size:14 final size:13
Alignment explanation
Indices: 55500099--55500142 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
55500089 AATTTAAGGG
* *
55500099 TTAGGGTTAGGGG
1 TTAGGGTTATGGT
55500112 TTATGGGTTATGGT
1 TTA-GGGTTATGGT
55500126 TTAGGGTTAATGGT
1 TTAGGGTT-ATGGT
55500140 TTA
1 TTA
55500143 TATTTTAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 8 0.30
14 19 0.70
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.43
Consensus pattern (13 bp):
TTAGGGTTATGGT
Found at i:55500491 original size:6 final size:6
Alignment explanation
Indices: 55500482--55500521 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
55500472 TATTGGTAAC
*
55500482 AAATAA AAATGAA ATATAA AAATAA AAATAA AATATAA AA
1 AAATAA AAAT-AA AAATAA AAATAA AAATAA AA-ATAA AA
55500522 TAGAGATTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
6 19 0.63
7 11 0.37
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:55500500 original size:13 final size:12
Alignment explanation
Indices: 55500482--55500521 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
55500472 TATTGGTAAC
55500482 AAATAAAAATGAA
1 AAATAAAAAT-AA
*
55500495 ATATAAAAATAA
1 AAATAAAAATAA
55500507 AAATAAAATATAA
1 AAATAAAA-ATAA
55500520 AA
1 AA
55500522 TAGAGATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (12 bp):
AAATAAAAATAA
Found at i:55500504 original size:19 final size:19
Alignment explanation
Indices: 55500482--55500521 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
55500472 TATTGGTAAC
*
55500482 AAATAAAAATGAAATATAA
1 AAATAAAAATAAAATATAA
55500501 AAATAAAAATAAAATATAA
1 AAATAAAAATAAAATATAA
55500520 AA
1 AA
55500522 TAGAGATTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (19 bp):
AAATAAAAATAAAATATAA
Found at i:55505645 original size:18 final size:18
Alignment explanation
Indices: 55505608--55505641 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55505598 AAAAATCACA
*
55505608 ATTTTTTACATTTAATAT
1 ATTTTTTACATTTAAAAT
55505626 ATTTTTTA-ATTTAAAA
1 ATTTTTTACATTTAAAA
55505642 ATATATAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTTTACATTTAAAAT
Found at i:55512847 original size:40 final size:41
Alignment explanation
Indices: 55512794--55512912 Score: 134
Period size: 41 Copynumber: 2.9 Consensus size: 41
55512784 TACTATGTTT
* *
55512794 GGCACTTAATGTGCGA-ATCAAAATAGCTTCGGCTATGAAA
1 GGCACTTAGTGTGCGAGATCAAAATAGCTTTGGCTATGAAA
* * * *
55512834 GGCAATTAGTGTGCGAGA-CTGAGATAGTTTTGGCTATGAAA
1 GGCACTTAGTGTGCGAGATC-AAAATAGCTTTGGCTATGAAA
* * *
55512875 GACACTTAGTGTGCGAGATTATAATAGCTTTGGCTATG
1 GGCACTTAGTGTGCGAGATCAAAATAGCTTTGGCTATG
55512913 TTTTGGAACT
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
40 15 0.24
41 48 0.76
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.29
Consensus pattern (41 bp):
GGCACTTAGTGTGCGAGATCAAAATAGCTTTGGCTATGAAA
Found at i:55523784 original size:18 final size:17
Alignment explanation
Indices: 55523750--55523788 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
55523740 AATAAATGGG
55523750 TAAATAGAAATAATAAT
1 TAAATAGAAATAATAAT
* *
55523767 ATAAATAGAACTACTAAT
1 -TAAATAGAAATAATAAT
55523785 TAAA
1 TAAA
55523789 ATAAAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (17 bp):
TAAATAGAAATAATAAT
Found at i:55527078 original size:38 final size:38
Alignment explanation
Indices: 55527019--55527244 Score: 299
Period size: 38 Copynumber: 5.9 Consensus size: 38
55527009 ACTCGATACT
*
55527019 TATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
55527057 TATCCGGGTTAAATCCTGCAGGTTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
** * *
55527095 TATAAGGTTTAAATCTCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
55527133 TATCCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * * *
55527171 TATCTGGGTTAAATCCTGCAGGCTTAGTGCTAGTACTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
55527209 TATCCGAGCTTAAAGTCCCGCAGGCTTTGTGCTGGT
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
55527245 GATTGGATTC
Statistics
Matches: 161, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
38 137 0.85
39 6 0.04
40 18 0.11
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.32
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:55532663 original size:2 final size:2
Alignment explanation
Indices: 55532656--55532681 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
55532646 GGCCACAACG
55532656 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
55532682 CACATCTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:55532821 original size:47 final size:46
Alignment explanation
Indices: 55532768--55532983 Score: 297
Period size: 47 Copynumber: 4.6 Consensus size: 46
55532758 TCGGCTTCGC
* * *
55532768 CACATATATACACTTTCACGTTCATCACATTGGCCATTCTGCCTTAT
1 CACATATATGCA-TTTCACATTCATCACATTGGCCATTCGGCCTTAT
* *
55532815 CTCATATATGCACATTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATGCA-TTTCACATTCATCACATTGGCCATTCGGCCTTAT
* *
55532862 CACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATGCAT-TTCACATTCATCACATTGGCCATTCGGCCTTAT
* *
55532909 CTCATATATGCATGTTCATATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATGCAT-TTCACATTCATCACATTGGCCATTCGGCCTTAT
*
55532956 CACATATATGCAGGTTCACATTCATCAC
1 CACATATATGCA-TTTCACATTCATCAC
55532984 CTTAAATCCT
Statistics
Matches: 151, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
47 151 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (46 bp):
CACATATATGCATTTCACATTCATCACATTGGCCATTCGGCCTTAT
Found at i:55532889 original size:94 final size:94
Alignment explanation
Indices: 55532783--55532983 Score: 330
Period size: 94 Copynumber: 2.1 Consensus size: 94
55532773 ATATACACTT
* *
55532783 TCACGTTCATCACATTGGCCATTCTGCCTTATCTCATATATGCACATTCACATTCATCACATTGG
1 TCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCATCACATTGG
*
55532848 CCATTCGGCCTTATCACACATATGCATGC
66 CCATTCGGCCTTATCACACATATGCAGGC
** *
55532877 TCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCATATTCATCACATTGG
1 TCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCATCACATTGG
* *
55532942 CCATTCGGCCTTATCACATATATGCAGGT
66 CCATTCGGCCTTATCACACATATGCAGGC
55532971 TCACATTCATCAC
1 TCACATTCATCAC
55532984 CTTAAATCCT
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 99 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (94 bp):
TCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCATCACATTGG
CCATTCGGCCTTATCACACATATGCAGGC
Found at i:55538883 original size:38 final size:38
Alignment explanation
Indices: 55538823--55539049 Score: 301
Period size: 38 Copynumber: 5.9 Consensus size: 38
55538813 CACTCGATAC
* *
55538823 ATATCCGGGTTAAGTCCCGCAGGTTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* *
55538861 ATATCCGGGTTAAATCCTGCAGGTTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
** *
55538899 ATATAAGGTTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
*
55538937 ATATCCGGGTTAAATCCCGTAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * * *
55538975 ATATCCGGGTTAAATCCCGCAGGCTTAGTGTTAGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
* * *
55539013 ATTTCCGAGCTTAAAGTCCCGCAGGCTTTGTGCTGGT
1 ATATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGT
55539050 GACTGGATTC
Statistics
Matches: 166, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
38 142 0.86
39 6 0.04
40 18 0.11
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
Found at i:55542912 original size:29 final size:29
Alignment explanation
Indices: 55542849--55542943 Score: 77
Period size: 29 Copynumber: 3.3 Consensus size: 29
55542839 TGTGCTAAAT
* * *
55542849 GATGGTTGTAACCATCCGTTTTCATGTTC
1 GATGGTCGAAACCATCCATTTTCATGTTC
*
55542878 GATGGTCGAAACCATCCCTTTTCAT-TAATC
1 GATGGTCGAAACCATCCATTTTCATGT--TC
** * * *
55542908 G-TGGTCGTCACCATCCATTTTTATATTT
1 GATGGTCGAAACCATCCATTTTCATGTTC
55542936 GATGGTCG
1 GATGGTCG
55542944 TCACAATCCC
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
28 3 0.06
29 47 0.87
30 4 0.07
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (29 bp):
GATGGTCGAAACCATCCATTTTCATGTTC
Found at i:55542981 original size:29 final size:29
Alignment explanation
Indices: 55542949--55543076 Score: 132
Period size: 29 Copynumber: 4.4 Consensus size: 29
55542939 GGTCGTCACA
55542949 ATCCCTTTTCATAATCAATAGCCAAAGCT
1 ATCCCTTTTCATAATCAATAGCCAAAGCT
* * * *** *
55542978 ATCCCTTTTCATATTCGATGATCGTCA-CC
1 ATCCCTTTTCATAATCAAT-AGCCAAAGCT
* *
55543007 ATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCAATAGCCAAAGCT
* * *
55543036 ATCCCTGTTCATAATCAATAGACAAAGTT
1 ATCCCTTTTCATAATCAATAGCCAAAGCT
55543065 ATCCCTTTTCAT
1 ATCCCTTTTCAT
55543077 TGGTCGATGA
Statistics
Matches: 78, Mismatches: 19, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
28 3 0.04
29 72 0.92
30 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.34
Consensus pattern (29 bp):
ATCCCTTTTCATAATCAATAGCCAAAGCT
Found at i:55542992 original size:58 final size:58
Alignment explanation
Indices: 55542920--55543048 Score: 186
Period size: 58 Copynumber: 2.2 Consensus size: 58
55542910 GGTCGTCACC
* * * *
55542920 ATCCATTTTTATATTTGATGGTCGTCACAATCCCTTTTCATAATCAATAGCCAAAGCT
1 ATCCCTTTTCATATTCGATGATCGTCACAATCCCTTTTCATAATCAATAGCCAAAGCT
* * *
55542978 ATCCCTTTTCATATTCGATGATCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATATTCGATGATCGTCACAATCCCTTTTCATAATCAATAGCCAAAGCT
*
55543036 ATCCCTGTTCATA
1 ATCCCTTTTCATA
55543049 ATCAATAGAC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.36
Consensus pattern (58 bp):
ATCCCTTTTCATATTCGATGATCGTCACAATCCCTTTTCATAATCAATAGCCAAAGCT
Found at i:55543003 original size:87 final size:87
Alignment explanation
Indices: 55542891--55543089 Score: 224
Period size: 87 Copynumber: 2.3 Consensus size: 87
55542881 GGTCGAAACC
* * * * * * * *
55542891 ATCCCTTTTCATTAATCG-TGGTCGTCACCATCCATTTTTATATTTGATGGTCGTCA-CAATCCC
1 ATCCCTTTTCA-TATTCGATGATCGTCACCATCCATTTTCATAATCGATAGCCG-AAGCAATCCC
* *
55542954 TTTTCATAATCAATAGCCAAAGCT
64 TGTTCATAATCAATAGACAAAGCT
* *
55542978 ATCCCTTTTCATATTCGATGATCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTG
1 ATCCCTTTTCATATTCGATGATCGTCACCATCCATTTTCATAATCGATAGCCGAAGCAATCCCTG
*
55543043 TTCATAATCAATAGACAAAGTT
66 TTCATAATCAATAGACAAAGCT
55543065 ATCCCTTTTCAT-TGGTCGATGATCG
1 ATCCCTTTTCATAT--TCGATGATCG
55543090 CTGATACACC
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
86 7 0.07
87 78 0.82
88 10 0.11
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.36
Consensus pattern (87 bp):
ATCCCTTTTCATATTCGATGATCGTCACCATCCATTTTCATAATCGATAGCCGAAGCAATCCCTG
TTCATAATCAATAGACAAAGCT
Found at i:55546041 original size:19 final size:19
Alignment explanation
Indices: 55546017--55546054 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
55546007 TTGAGGTATG
55546017 TAATTTTTTACGTTTTTGA
1 TAATTTTTTACGTTTTTGA
55546036 TAATTTTTTACGTTTTTGA
1 TAATTTTTTACGTTTTTGA
55546055 GATCGTTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.11, T:0.63
Consensus pattern (19 bp):
TAATTTTTTACGTTTTTGA
Found at i:55546843 original size:43 final size:43
Alignment explanation
Indices: 55546795--55546891 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 43
55546785 GTGTGATTCG
*
55546795 TGTAAGACCATGCCTGGGACATTGGCATCGA-AGTGAGAAAACA
1 TGTAAGACCATGCCTGGGACAGTGGCATCGATA-TGAGAAAACA
* ** * * *
55546838 TGTAAGACCCTGTTTGGGACAGTGGCATCGATATGTGATAGCA
1 TGTAAGACCATGCCTGGGACAGTGGCATCGATATGAGAAAACA
55546881 TGTAAGACCAT
1 TGTAAGACCAT
55546892 ATCCGAGATA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
43 44 0.98
44 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.24
Consensus pattern (43 bp):
TGTAAGACCATGCCTGGGACAGTGGCATCGATATGAGAAAACA
Found at i:55549166 original size:40 final size:40
Alignment explanation
Indices: 55549058--55549180 Score: 140
Period size: 40 Copynumber: 3.1 Consensus size: 40
55549048 CGGGATTTAA
* * * *
55549058 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCGACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
55549098 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCGACTCGCACGAATGCCTTCGGGTCTTAGC
*
55549138 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCGACTCGCACGAATGCCTTCGGGTCTTAGC
55549178 CCG
1 CCG
55549181 TGTGAAAAAT
Statistics
Matches: 66, Mismatches: 15, Indels: 4
0.78 0.18 0.05
Matches are distributed among these distances:
39 1 0.02
40 65 0.98
ACGTcount: A:0.20, C:0.29, G:0.26, T:0.24
Consensus pattern (40 bp):
CCGGATATATCGACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:55554035 original size:40 final size:40
Alignment explanation
Indices: 55553991--55554083 Score: 177
Period size: 40 Copynumber: 2.3 Consensus size: 40
55553981 TAATTCTAAC
*
55553991 AGCCCGGATTTATCAACTCGCACGAATGCCTTCGGGTCTT
1 AGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTT
55554031 AGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTT
1 AGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTT
55554071 AGCCCGGATATAT
1 AGCCCGGATATAT
55554084 TTTCAATGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (40 bp):
AGCCCGGATATATCAACTCGCACGAATGCCTTCGGGTCTT
Found at i:55565396 original size:40 final size:41
Alignment explanation
Indices: 55565352--55565457 Score: 137
Period size: 40 Copynumber: 2.6 Consensus size: 41
55565342 GCTACTCGTT
* * * *
55565352 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTAGCA
*
55565392 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTAGCA
55565433 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55565458 CATCATTCGA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
40 48 0.83
41 10 0.17
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTAGCA
Found at i:55575994 original size:29 final size:29
Alignment explanation
Indices: 55575955--55576034 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
55575945 CTTAATAATC
*
55575955 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
55575985 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
55576014 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
55576035 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:55583878 original size:29 final size:29
Alignment explanation
Indices: 55583839--55583918 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
55583829 CTTAATAATC
*
55583839 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
55583869 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
55583898 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
55583919 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:55588276 original size:20 final size:22
Alignment explanation
Indices: 55588226--55588281 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
55588216 TAGTCATATA
* * *
55588226 ATAAATTATTAATATAATAAAT
1 ATAATTTATTATTTTAATAAAT
55588248 ATAATTTATTATTTTAATAAAT
1 ATAATTTATTATTTTAATAAAT
55588270 -T-ATTTATTATTT
1 ATAATTTATTATTT
55588282 CAATTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 11 0.35
21 1 0.03
22 19 0.61
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATAATTTATTATTTTAATAAAT
Found at i:55588320 original size:14 final size:14
Alignment explanation
Indices: 55588289--55588327 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
55588279 TTTCAATTTT
55588289 ATTTT-AATAATAA
1 ATTTTAAATAATAA
55588302 ATTTTAAAATAAT-A
1 ATTTT-AAATAATAA
55588316 ATTTTAAATAAT
1 ATTTTAAATAAT
55588328 GTTATTCACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 6 0.25
15 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTTTAAATAATAA
Found at i:55588806 original size:32 final size:33
Alignment explanation
Indices: 55588768--55588839 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
55588758 AACTTTTATG
55588768 AAATATTTTA-A-AGAAAT-CTACCAAACAACAGA
1 AAATATTTTACACAG-AATCCT-CCAAACAACAGA
* *
55588800 AAATATTTTACACAGATTCCTCCAAACACCAGA
1 AAATATTTTACACAGAATCCTCCAAACAACAGA
55588833 AAATATT
1 AAATATT
55588840 AGCTTTTCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 10 0.29
33 21 0.60
34 4 0.11
ACGTcount: A:0.50, C:0.19, G:0.06, T:0.25
Consensus pattern (33 bp):
AAATATTTTACACAGAATCCTCCAAACAACAGA
Found at i:55588876 original size:14 final size:14
Alignment explanation
Indices: 55588857--55588894 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
55588847 CTAGAAAAGT
55588857 AAATCATTTTCCAA
1 AAATCATTTTCCAA
*
55588871 AAATCA-TTTCCAG
1 AAATCATTTTCCAA
*
55588884 AAGTCATTTTC
1 AAATCATTTTC
55588895 AATGAAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAA
Found at i:55591814 original size:11 final size:11
Alignment explanation
Indices: 55591800--55591828 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
55591790 TATAAAATAA
55591800 TTAAATTGTAC
1 TTAAATTGTAC
55591811 TTAAATTGTAC
1 TTAAATTGTAC
55591822 TTAAATT
1 TTAAATT
55591829 ATTAACATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (11 bp):
TTAAATTGTAC
Found at i:55594433 original size:67 final size:67
Alignment explanation
Indices: 55594325--55594459 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
55594315 ACTTGAGACA
55594325 TTCTATAATGCCCTTAATGCTTACATGAGGATGGTAGTGGATGCTTCTACTAATATTGTTTCCTT
1 TTCTATAATGCCCTTAATGCTTACATGAGGATGGTAGTGGATGCTTCTACTAATATTGTTTCCTT
55594390 TC
66 TC
55594392 TTCTATAATGCCCTTAATGCTTACATGAGGATGGTAGTGGATGCTTCTACTAATATTGTTTCCTT
1 TTCTATAATGCCCTTAATGCTTACATGAGGATGGTAGTGGATGCTTCTACTAATATTGTTTCCTT
55594457 TC
66 TC
55594459 T
1 T
55594460 AAGTCTTATA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (67 bp):
TTCTATAATGCCCTTAATGCTTACATGAGGATGGTAGTGGATGCTTCTACTAATATTGTTTCCTT
TC
Found at i:55599324 original size:27 final size:27
Alignment explanation
Indices: 55599294--55599485 Score: 176
Period size: 27 Copynumber: 7.1 Consensus size: 27
55599284 GACCGTAGTA
55599294 CCCCTGTAAGGTAAAATGACTATAATG
1 CCCCTGTAAGGTAAAATGACTATAATG
55599321 CCCCTGTAAGGTAAAATGACTGA-AATG
1 CCCCTGTAAGGTAAAATGACT-ATAATG
* * **
55599348 CCCATGTAGGGTAAAATGACCGTAATG
1 CCCCTGTAAGGTAAAATGACTATAATG
* * * * *
55599375 CCCCTTTAGGGTAAAATAACTGTAATA
1 CCCCTGTAAGGTAAAATGACTATAATG
*
55599402 CCCCT-AAAGGGTAAAATGAC-AGTAATG
1 CCCCTGTAA-GGTAAAATGACTA-TAATG
** *
55599429 CCCCTGT-AGGATAAAATGACCGTAATA
1 CCCCTGTAAGG-TAAAATGACTATAATG
* * *
55599456 CCCCTGTATGGTAAAATGACGATTATG
1 CCCCTGTAAGGTAAAATGACTATAATG
55599483 CCC
1 CCC
55599486 TTATGTTCCG
Statistics
Matches: 135, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
26 3 0.02
27 129 0.96
28 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
CCCCTGTAAGGTAAAATGACTATAATG
Found at i:55599367 original size:54 final size:53
Alignment explanation
Indices: 55599283--55599485 Score: 219
Period size: 54 Copynumber: 3.8 Consensus size: 53
55599273 GGTTGTTATT
* * *
55599283 TGACCGTAGTACCCCTGTAAGGTAAAATGACTATAATGCCCCTGTAAGGTAAAA
1 TGACTGTAATACCCCTGTAGGGTAAAATGAC-ATAATGCCCCTGTAAGGTAAAA
* * * * * *
55599337 TGACTGAAATGCCCATGTAGGGTAAAATGACCGTAATGCCCCTTTAGGGTAAAA
1 TGACTGTAATACCCCTGTAGGGTAAAATGA-CATAATGCCCCTGTAAGGTAAAA
* **
55599391 TAACTGTAATACCCCTAAAGGGTAAAATGACAGTAATGCCCCTGT-AGGATAAAA
1 TGACTGTAATACCCCTGTAGGGTAAAATGACA-TAATGCCCCTGTAAGG-TAAAA
* * *
55599445 TGACCGTAATACCCCTGTATGGTAAAATGACGATTATGCCC
1 TGACTGTAATACCCCTGTAGGGTAAAATGAC-ATAATGCCC
55599486 TTATGTTCCG
Statistics
Matches: 121, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
53 3 0.02
54 116 0.96
55 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (53 bp):
TGACTGTAATACCCCTGTAGGGTAAAATGACATAATGCCCCTGTAAGGTAAAA
Found at i:55599418 original size:81 final size:81
Alignment explanation
Indices: 55599283--55599472 Score: 247
Period size: 81 Copynumber: 2.3 Consensus size: 81
55599273 GGTTGTTATT
* * * * *
55599283 TGACCGTAGTACCCCTGTAAGGTAAAATGACTATAATGCCCCTGTAAGGTAAAATGACTGAAATG
1 TGACCGTAATACCCCTGTAAGGTAAAATAACTATAATACCCCTGAAAGGTAAAATGACAGAAATG
*
55599348 CCCATGTAGGGTAAAA
66 CCCATGTAGGATAAAA
* * * * *
55599364 TGACCGTAATGCCCCTTTAGGGTAAAATAACTGTAATACCCCT-AAAGGGTAAAATGACAGTAAT
1 TGACCGTAATACCCCTGTAAGGTAAAATAACTATAATACCCCTGAAA-GGTAAAATGACAGAAAT
*
55599428 GCCCCTGTAGGATAAAA
65 GCCCATGTAGGATAAAA
*
55599445 TGACCGTAATACCCCTGTATGGTAAAAT
1 TGACCGTAATACCCCTGTAAGGTAAAAT
55599473 GACGATTATG
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
80 2 0.02
81 91 0.98
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (81 bp):
TGACCGTAATACCCCTGTAAGGTAAAATAACTATAATACCCCTGAAAGGTAAAATGACAGAAATG
CCCATGTAGGATAAAA
Found at i:55599690 original size:26 final size:26
Alignment explanation
Indices: 55599660--55599712 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
55599650 GGCTTTGCCA
* *
55599660 CATTACTGTTTCTGGCAGCTATGCTG
1 CATTACTATTACTGGCAGCTATGCTG
* *
55599686 CATTATTATTACTGGCAGCTTTGCTG
1 CATTACTATTACTGGCAGCTATGCTG
55599712 C
1 C
55599713 GATTTCGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.40
Consensus pattern (26 bp):
CATTACTATTACTGGCAGCTATGCTG
Found at i:55599895 original size:33 final size:33
Alignment explanation
Indices: 55599820--55599918 Score: 93
Period size: 33 Copynumber: 3.2 Consensus size: 33
55599810 ATTGTATTAC
* * * *
55599820 ACTGTACTGATACTGCATTGGGCTTAGGCCCAC
1 ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
*
55599853 A-T-TA-T--TACTGTATAGGGCTAAGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
*
55599881 ACTGTACTGATACTGAATAGGGCTCAA-TCCCAG
1 ACTGTACTGATACTGAATAGGGCT-AAGGCCCAG
55599914 ACTGT
1 ACTGT
55599919 TACCGGTCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
28 20 0.37
29 1 0.02
30 3 0.06
31 3 0.06
32 1 0.02
33 24 0.44
34 2 0.04
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (33 bp):
ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
Found at i:55605438 original size:2 final size:2
Alignment explanation
Indices: 55605431--55605465 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
55605421 TATACACGTG
55605431 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
55605466 GAAAGTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:55609156 original size:32 final size:32
Alignment explanation
Indices: 55609120--55609204 Score: 107
Period size: 32 Copynumber: 2.7 Consensus size: 32
55609110 CCCATTACAG
* * * *
55609120 TATCAATTGGGCGTAGCCCATCTCAGAATCAA
1 TATCAGTTGGGCCTAGCCCATATCAGAACCAA
** *
55609152 TATCAGTTAAGCCTAGCCTATATCAGAACCAA
1 TATCAGTTGGGCCTAGCCCATATCAGAACCAA
55609184 TATCAGTTGGGCCTAGCCCAT
1 TATCAGTTGGGCCTAGCCCAT
55609205 TTCAATATCA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (32 bp):
TATCAGTTGGGCCTAGCCCATATCAGAACCAA
Found at i:55610293 original size:18 final size:18
Alignment explanation
Indices: 55610260--55610354 Score: 109
Period size: 18 Copynumber: 5.3 Consensus size: 18
55610250 AGTTTCATTT
*
55610260 AGTAACATTCAATTATTC
1 AGTAACAATCAATTATTC
* * *
55610278 AGTAGCAATTAGTTATTC
1 AGTAACAATCAATTATTC
* **
55610296 AGTAACAATCATTTGCTC
1 AGTAACAATCAATTATTC
* *
55610314 AGTAGCATTCAATTATTC
1 AGTAACAATCAATTATTC
55610332 AGTAACAATCAATTATTC
1 AGTAACAATCAATTATTC
55610350 AGTAA
1 AGTAA
55610355 TAGTTAGTCA
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (18 bp):
AGTAACAATCAATTATTC
Found at i:55610352 original size:36 final size:36
Alignment explanation
Indices: 55610260--55610353 Score: 127
Period size: 36 Copynumber: 2.6 Consensus size: 36
55610250 AGTTTCATTT
* *
55610260 AGTAACATTCAATTATTCAGTAGCAATTAGTTATTC
1 AGTAACAATCAATTATTCAGTAGCAATTAATTATTC
* **
55610296 AGTAACAATCATTTGCTCAGTAGC-ATTCAATTATTC
1 AGTAACAATCAATTATTCAGTAGCAATT-AATTATTC
55610332 AGTAACAATCAATTATTCAGTA
1 AGTAACAATCAATTATTCAGTA
55610354 ATAGTTAGTC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 3 0.06
36 46 0.94
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (36 bp):
AGTAACAATCAATTATTCAGTAGCAATTAATTATTC
Found at i:55610368 original size:36 final size:35
Alignment explanation
Indices: 55610254--55610371 Score: 119
Period size: 36 Copynumber: 3.3 Consensus size: 35
55610244 TTTATCAGTT
* *
55610254 TCATTTAGTAACATTCAATTATTCAGTAGCAATTAG
1 TCATTCAGTAACAATCAATTATTCAGTAGC-ATTAG
* * ** *
55610290 TTATTCAGTAACAATCATTTGCTCAGTAGCATTCAA
1 TCATTCAGTAACAATCAATTATTCAGTAGCATT-AG
* **
55610326 TTATTCAGTAACAATCAATTATTCAGTAATAGTTAG
1 TCATTCAGTAACAATCAATTATTCAGTAGCA-TTAG
55610362 TCATTCAGTA
1 TCATTCAGTA
55610372 CTTTTATTTA
Statistics
Matches: 66, Mismatches: 14, Indels: 4
0.79 0.17 0.05
Matches are distributed among these distances:
35 3 0.05
36 61 0.92
37 2 0.03
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (35 bp):
TCATTCAGTAACAATCAATTATTCAGTAGCATTAG
Found at i:55610370 original size:54 final size:54
Alignment explanation
Indices: 55610254--55610371 Score: 128
Period size: 54 Copynumber: 2.2 Consensus size: 54
55610244 TTTATCAGTT
* * * * *
55610254 TCATTTAGTAACATTCAATTATTCAGTAGCAATTAGTTATTCAGTAACAATCAT
1 TCATTCAGTAACATTCAATTATTCAGTAACAATCAATTATTCAGTAACAATCAG
*** * * * *
55610308 TTGCTCAGTAGCATTCAATTATTCAGTAACAATCAATTATTCAGTAATAGTTAG
1 TCATTCAGTAACATTCAATTATTCAGTAACAATCAATTATTCAGTAACAATCAG
55610362 TCATTCAGTA
1 TCATTCAGTA
55610372 CTTTTATTTA
Statistics
Matches: 49, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (54 bp):
TCATTCAGTAACATTCAATTATTCAGTAACAATCAATTATTCAGTAACAATCAG
Found at i:55610737 original size:17 final size:17
Alignment explanation
Indices: 55610705--55610737 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
55610695 TTCCATATTA
55610705 CATTTCAATTTCAATTT
1 CATTTCAATTTCAATTT
55610722 CATTCTCAATTT-AATT
1 CATT-TCAATTTCAATT
55610738 ACAACTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (17 bp):
CATTTCAATTTCAATTT
Found at i:55611253 original size:16 final size:15
Alignment explanation
Indices: 55611226--55611275 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 15
55611216 TTTCATGCTA
*
55611226 TTCTGTTTCTTTT-T
1 TTCTTTTTCTTTTAT
55611240 TTCTTTCCTTCTTTTCAT
1 TTCTTT--TTCTTTT-AT
55611258 TTCTTTTTCTTTTAT
1 TTCTTTTTCTTTTAT
55611273 TTC
1 TTC
55611276 ATTTACTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.16
15 5 0.16
16 14 0.45
18 7 0.23
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (15 bp):
TTCTTTTTCTTTTAT
Found at i:55611311 original size:13 final size:15
Alignment explanation
Indices: 55611285--55611317 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
55611275 CATTTACTTT
55611285 ATATATATTATAATA
1 ATATATATTATAATA
55611300 ATATA-ATT-TAATA
1 ATATATATTATAATA
55611313 ATATA
1 ATATA
55611318 CTTATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 3 0.17
15 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATATATATTATAATA
Found at i:55611418 original size:4 final size:4
Alignment explanation
Indices: 55611409--55611447 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
55611399 TTGTCAACTT
*
55611409 TTAA TTAA TTAA TTAA TTAA TTTACA TTAT TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA -TTA-A TTAA TTAA TTAA T
55611448 ATAAAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
4 24 0.77
5 6 0.19
6 1 0.03
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:55616001 original size:17 final size:17
Alignment explanation
Indices: 55615976--55616009 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
55615966 TTTAATTCAA
*
55615976 CATATATCAATCAAAAT
1 CATAAATCAATCAAAAT
*
55615993 CATAAATCAATTAAAAT
1 CATAAATCAATCAAAAT
55616010 TTATCCTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (17 bp):
CATAAATCAATCAAAAT
Found at i:55623907 original size:24 final size:25
Alignment explanation
Indices: 55623865--55623912 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
55623855 ACACAAACGC
55623865 AGCTCTTCATGAGCGTCCTGATATA
1 AGCTCTTCATGAGCGTCCTGATATA
*
55623890 AGCTCTT-ATGAGCTTCCTGATAT
1 AGCTCTTCATGAGCGTCCTGATAT
55623913 GGCTCGCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (25 bp):
AGCTCTTCATGAGCGTCCTGATATA
Found at i:55628901 original size:17 final size:17
Alignment explanation
Indices: 55628879--55628911 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
55628869 GTGTGGTTCA
55628879 CCTGTGTGGCCCACACG
1 CCTGTGTGGCCCACACG
55628896 CCTGTGTGGCCCACAC
1 CCTGTGTGGCCCACAC
55628912 AGCCCAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.42, G:0.27, T:0.18
Consensus pattern (17 bp):
CCTGTGTGGCCCACACG
Found at i:55631797 original size:26 final size:26
Alignment explanation
Indices: 55631766--55631873 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
55631756 TGAAATGCCC
*
55631766 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
55631792 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
55631818 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
55631844 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
55631870 ATCA
1 ATCA
55631874 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:55633461 original size:22 final size:19
Alignment explanation
Indices: 55633436--55633477 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
55633426 TGATAATAAC
55633436 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
55633458 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
55633477 T
1 T
55633478 CAACTTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:55633468 original size:16 final size:15
Alignment explanation
Indices: 55633436--55633474 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
55633426 TGATAATAAC
55633436 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
55633452 TTATTATAATATATAT
1 TAATTATAAT-TATAT
55633468 TAATTAT
1 TAATTAT
55633475 TATCAACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:55635188 original size:9 final size:9
Alignment explanation
Indices: 55635174--55635206 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
55635164 ATTCGAGTTG
55635174 ACTCGAATA
1 ACTCGAATA
*
55635183 ACTCGATTA
1 ACTCGAATA
55635192 ACTCGAATA
1 ACTCGAATA
55635201 ACTCGA
1 ACTCGA
55635207 TTCGTTTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (9 bp):
ACTCGAATA
Found at i:55635197 original size:18 final size:18
Alignment explanation
Indices: 55635174--55635208 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
55635164 ATTCGAGTTG
55635174 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
55635192 ACTCGAATAACTCGATT
1 ACTCGAATAACTCGATT
55635209 CGTTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:55635511 original size:25 final size:26
Alignment explanation
Indices: 55635455--55635512 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
55635445 ATTTTTCTCC
* *
55635455 TAAA-TTTCAAATTTATTTAGTTAAT
1 TAAATTTTCAAATTTATTAAATTAAT
55635480 TAAATTTTC-AATTTATTAAATT-AT
1 TAAATTTTCAAATTTATTAAATTAAT
55635504 TAATATTTT
1 TAA-ATTTT
55635513 TTGCAAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 5 0.17
25 20 0.69
26 4 0.14
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (26 bp):
TAAATTTTCAAATTTATTAAATTAAT
Found at i:55638356 original size:18 final size:18
Alignment explanation
Indices: 55638335--55638385 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
55638325 CTTGTCGAAA
*
55638335 AATATAA-TAT-AATTAT
1 AATATAATTATAAAATAT
* *
55638351 AAAATAATTAAAAAATAT
1 AATATAATTATAAAATAT
55638369 AATATAATTATAAAATA
1 AATATAATTATAAAATA
55638386 ATTAAATTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
16 6 0.21
17 2 0.07
18 20 0.71
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AATATAATTATAAAATAT
Found at i:55638357 original size:11 final size:11
Alignment explanation
Indices: 55638337--55638389 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
55638327 TGTCGAAAAA
*
55638337 TATAATATAAT
1 TATAAAATAAT
55638348 TATAAAATAA-
1 TATAAAATAAT
55638358 T-TAAAA-AA-
1 TATAAAATAAT
*
55638366 TATAATATAAT
1 TATAAAATAAT
55638377 TATAAAATAAT
1 TATAAAATAAT
55638388 TA
1 TA
55638390 AATTGTACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
8 3 0.08
9 9 0.25
10 3 0.08
11 21 0.58
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TATAAAATAAT
Found at i:55638373 original size:29 final size:29
Alignment explanation
Indices: 55638332--55638391 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
55638322 ATTCTTGTCG
55638332 AAAAATATAATATAATTATAAAATAATTA
1 AAAAATATAATATAATTATAAAATAATTA
55638361 AAAAATATAATATAATTATAAAATAATTA
1 AAAAATATAATATAATTATAAAATAATTA
55638390 AA
1 AA
55638392 TTGTACTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (29 bp):
AAAAATATAATATAATTATAAAATAATTA
Found at i:55642055 original size:16 final size:17
Alignment explanation
Indices: 55642034--55642072 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
55642024 CAGAGTTTTT
55642034 GAGAAA-AGAAGAATGA
1 GAGAAAGAGAAGAATGA
*
55642050 GAGAAATGAGAAGACTGA
1 GAGAAA-GAGAAGAATGA
55642068 GAGAA
1 GAGAA
55642073 GCTCAGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
18 14 0.70
ACGTcount: A:0.56, C:0.03, G:0.33, T:0.08
Consensus pattern (17 bp):
GAGAAAGAGAAGAATGA
Found at i:55642177 original size:14 final size:14
Alignment explanation
Indices: 55642158--55642231 Score: 85
Period size: 14 Copynumber: 5.3 Consensus size: 14
55642148 TCAAAAAATT
55642158 CAACGGTCAGATTC
1 CAACGGTCAGATTC
* *
55642172 CAACGGTCATATTA
1 CAACGGTCAGATTC
*
55642186 CAACAGTCAGATTC
1 CAACGGTCAGATTC
* *
55642200 CAACGGTCATATTA
1 CAACGGTCAGATTC
* *
55642214 CAACAGTCAAATTC
1 CAACGGTCAGATTC
55642228 CAAC
1 CAAC
55642232 AACTATATTG
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 49 1.00
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (14 bp):
CAACGGTCAGATTC
Found at i:55642198 original size:28 final size:28
Alignment explanation
Indices: 55642158--55642231 Score: 130
Period size: 28 Copynumber: 2.6 Consensus size: 28
55642148 TCAAAAAATT
*
55642158 CAACGGTCAGATTCCAACGGTCATATTA
1 CAACAGTCAGATTCCAACGGTCATATTA
55642186 CAACAGTCAGATTCCAACGGTCATATTA
1 CAACAGTCAGATTCCAACGGTCATATTA
*
55642214 CAACAGTCAAATTCCAAC
1 CAACAGTCAGATTCCAAC
55642232 AACTATATTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.36, C:0.27, G:0.14, T:0.23
Consensus pattern (28 bp):
CAACAGTCAGATTCCAACGGTCATATTA
Found at i:55642239 original size:28 final size:28
Alignment explanation
Indices: 55642158--55642240 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 28
55642148 TCAAAAAATT
* * **
55642158 CAACGGTCAGATTCCAACGGTCATATTA
1 CAACAGTCAAATTCCAACACTCATATTA
* **
55642186 CAACAGTCAGATTCCAACGGTCATATTA
1 CAACAGTCAAATTCCAACACTCATATTA
55642214 CAACAGTCAAATTCCAACAACT-ATATT
1 CAACAGTCAAATTCCAAC-ACTCATATT
55642241 GTAACGAAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 49 0.98
29 1 0.02
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (28 bp):
CAACAGTCAAATTCCAACACTCATATTA
Found at i:55648909 original size:41 final size:41
Alignment explanation
Indices: 55648582--55648911 Score: 367
Period size: 41 Copynumber: 8.0 Consensus size: 41
55648572 TTGTAAAACA
* * ** * *
55648582 CAGAGCAATAGCGGCGTTTTTGTTACCATGCCGCTAAAA-A
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
** * * * *
55648622 CAGAGCAATAGCGATGTTTTTTGTTAAAACACCGCTAAAAAT
1 CAGAGCAATAGCGGCG-CTTTTGGTAAAACGCCGCTAAAAGT
* * * *
55648664 -AGATCAATAGTGGCACTTTTGGTAAAACGCCACTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
* * *
55648704 AAGAGCAATAGCGGCGTTTTTGGTAAAACACCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
* *
55648745 CAGAGCAATAGCGGCGCTTCTGATAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
* * *
55648786 CAGAGCAATAGCGGCGCTTCTGATAAAATGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
* * * *
55648827 CGGAGCAGTAGCGGGCACTTTTGGTAAAATGCCGCTAAAAGT
1 CAGAGCAATAGC-GGCGCTTTTGGTAAAACGCCGCTAAAAGT
*
55648869 CGGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
1 CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
55648910 CA
1 CA
55648912 TATAATCCCT
Statistics
Matches: 248, Mismatches: 38, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
40 34 0.14
41 177 0.71
42 37 0.15
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (41 bp):
CAGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAGT
Found at i:55649208 original size:15 final size:15
Alignment explanation
Indices: 55649164--55649214 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
55649154 CGGTTTAATA
*
55649164 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
* * *
55649178 TCTATAGTTTAGGGT
1 TTTATGGTTTAAGGT
55649193 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
55649208 TTAATGG
1 TTTATGG
55649215 CCATGGGTAT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:55649666 original size:78 final size:78
Alignment explanation
Indices: 55649574--55649730 Score: 314
Period size: 78 Copynumber: 2.0 Consensus size: 78
55649564 TATATATTTG
55649574 TGTCTCCATGTTTTTTCATTTTCTTTTACACAATTATTGATATAACATCATTTTATATTTATATA
1 TGTCTCCATGTTTTTTCATTTTCTTTTACACAATTATTGATATAACATCATTTTATATTTATATA
55649639 TTGCATGGATACA
66 TTGCATGGATACA
55649652 TGTCTCCATGTTTTTTCATTTTCTTTTACACAATTATTGATATAACATCATTTTATATTTATATA
1 TGTCTCCATGTTTTTTCATTTTCTTTTACACAATTATTGATATAACATCATTTTATATTTATATA
55649717 TTGCATGGATACA
66 TTGCATGGATACA
55649730 T
1 T
55649731 AAATATTTAT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (78 bp):
TGTCTCCATGTTTTTTCATTTTCTTTTACACAATTATTGATATAACATCATTTTATATTTATATA
TTGCATGGATACA
Found at i:55649906 original size:8 final size:7
Alignment explanation
Indices: 55649871--55649942 Score: 60
Period size: 7 Copynumber: 10.3 Consensus size: 7
55649861 CATTAAACCG
55649871 AAATAAA
1 AAATAAA
55649878 AAAT--A
1 AAATAAA
*
55649883 AACTCAAA
1 AAAT-AAA
55649891 AAAT-AA
1 AAATAAA
55649897 AAATAAAA
1 AAAT-AAA
*
55649905 AAATTAA
1 AAATAAA
* *
55649912 AATTTAA
1 AAATAAA
55649919 AAATAAA
1 AAATAAA
55649926 AAATTAAA
1 AAA-TAAA
55649934 AAATAAA
1 AAATAAA
55649941 AA
1 AA
55649943 CTTAAAAATT
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
5 4 0.08
6 6 0.11
7 26 0.49
8 17 0.32
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (7 bp):
AAATAAA
Found at i:55649947 original size:15 final size:14
Alignment explanation
Indices: 55649874--55649950 Score: 84
Period size: 14 Copynumber: 5.4 Consensus size: 14
55649864 TAAACCGAAA
*
55649874 TAAAAAAT-AAACT
1 TAAAAAATAAAAAT
*
55649887 CAAAAAATAAAAAT
1 TAAAAAATAAAAAT
* *
55649901 AAAAAAATTAAAAT
1 TAAAAAATAAAAAT
*
55649915 TTAAAAATAAAAAAT
1 TAAAAAAT-AAAAAT
55649930 TAAAAAATAAAAACT
1 TAAAAAATAAAAA-T
55649945 TAAAAA
1 TAAAAA
55649951 TTTAAAATTT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
13 7 0.13
14 27 0.51
15 19 0.36
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAAAAATAAAAAT
Found at i:55649948 original size:8 final size:7
Alignment explanation
Indices: 55649888--55649959 Score: 72
Period size: 7 Copynumber: 10.0 Consensus size: 7
55649878 AAATAAACTC
*
55649888 AAAAAAT
1 AAAAATT
*
55649895 AAAAATAA
1 AAAAAT-T
55649903 AAAAATT
1 AAAAATT
*
55649910 AAAATTT
1 AAAAATT
*
55649917 AAAAATA
1 AAAAATT
55649924 AAAAATT
1 AAAAATT
*
55649931 AAAAAAT
1 AAAAATT
55649938 AAAAACTT
1 AAAAA-TT
55649946 AAAAATT
1 AAAAATT
*
55649953 TAAAATT
1 AAAAATT
55649960 TAATATTTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
7 41 0.77
8 12 0.23
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAAATT
Found at i:55649951 original size:29 final size:28
Alignment explanation
Indices: 55649889--55649951 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 28
55649879 AATAAACTCA
* *
55649889 AAAAATAAAAATAAAAAAATTAAAATTT
1 AAAAATAAAAATAAAAAAATAAAAACTT
*
55649917 AAAAATAAAAAATTAAAAAATAAAAACTT
1 AAAAAT-AAAAATAAAAAAATAAAAACTT
55649946 AAAAAT
1 AAAAAT
55649952 TTAAAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (28 bp):
AAAAATAAAAATAAAAAAATAAAAACTT
Found at i:55649957 original size:15 final size:15
Alignment explanation
Indices: 55649888--55649962 Score: 82
Period size: 15 Copynumber: 5.1 Consensus size: 15
55649878 AAATAAACTC
*
55649888 AAAAAATAAAAA-TA
1 AAAAAATAAAAATTT
*
55649902 AAAAAATTAAAATTT
1 AAAAAATAAAAATTT
*
55649917 -AAAAATAAAAAATT
1 AAAAAATAAAAATTT
*
55649931 AAAAAATAAAAACTT
1 AAAAAATAAAAATTT
* *
55649946 AAAAATTTAAAATTT
1 AAAAAATAAAAATTT
55649961 AA
1 AA
55649963 TATTTTTGTC
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
14 23 0.45
15 28 0.55
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAAAATAAAAATTT
Found at i:55650062 original size:17 final size:18
Alignment explanation
Indices: 55650026--55650064 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
55650016 TCGAAAAGAG
**
55650026 AAAAATAAAAAATATGTT
1 AAAAATAAAAAATAAATT
55650044 AAAAATAAAAAA-AAATT
1 AAAAATAAAAAATAAATT
55650061 AAAA
1 AAAA
55650065 TTAATCAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (18 bp):
AAAAATAAAAAATAAATT
Found at i:55653232 original size:24 final size:24
Alignment explanation
Indices: 55653203--55653251 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
55653193 ATCGAATGAG
55653203 AATGTTTTAGGACATGTGTATTAC
1 AATGTTTTAGGACATGTGTATTAC
55653227 AATGTTTTAGGACATGTGTATTAC
1 AATGTTTTAGGACATGTGTATTAC
55653251 A
1 A
55653252 TGATGTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (24 bp):
AATGTTTTAGGACATGTGTATTAC
Found at i:55656401 original size:19 final size:19
Alignment explanation
Indices: 55656379--55656419 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
55656369 TTTATTGATA
55656379 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
55656397 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
55656416 TTTT
1 TTTT
55656420 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:55656649 original size:10 final size:9
Alignment explanation
Indices: 55656609--55656658 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
55656599 TGATAATGAA
55656609 TTTTA-AAT
1 TTTTATAAT
55656617 TTTT-TATAT
1 TTTTATA-AT
*
55656626 TTTTCATGAT
1 TTTT-ATAAT
55656636 TTTTATAAT
1 TTTTATAAT
55656645 ATTTTATAAT
1 -TTTTATAAT
55656655 TTTT
1 TTTT
55656659 TTTTGAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
8 5 0.14
9 14 0.40
10 15 0.43
11 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (9 bp):
TTTTATAAT
Found at i:55656657 original size:28 final size:27
Alignment explanation
Indices: 55656604--55656657 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
55656594 TATTTTGATA
* *
55656604 ATGAATTTTAAATTTTTTATATTTTTC
1 ATGAATTTTAAATATTTTATAATTTTC
*
55656631 ATGATTTTTATAATATTTTATAATTTT
1 ATGAATTTTA-AATATTTTATAATTTT
55656658 TTTTTGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (27 bp):
ATGAATTTTAAATATTTTATAATTTTC
Found at i:55656659 original size:10 final size:10
Alignment explanation
Indices: 55656609--55656659 Score: 54
Period size: 9 Copynumber: 5.4 Consensus size: 10
55656599 TGATAATGAA
55656609 TTTTA-AATT
1 TTTTATAATT
55656618 TTTTAT-ATT
1 TTTTATAATT
* *
55656627 TTTCATGA-T
1 TTTTATAATT
*
55656636 TTTTATAATA
1 TTTTATAATT
55656646 TTTTATAATT
1 TTTTATAATT
55656656 TTTT
1 TTTT
55656660 TTTGAATTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
9 20 0.59
10 14 0.41
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTATAATT
Found at i:55662871 original size:64 final size:64
Alignment explanation
Indices: 55662790--55662973 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
55662780 AGACATTATG
* * *
55662790 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACTATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
55662854 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
55662919 AA
63 AA
* * * *
55662921 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
55662974 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 21 0.22
65 8 0.08
66 16 0.16
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:55665392 original size:40 final size:40
Alignment explanation
Indices: 55665331--55665514 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 40
55665321 TATTCGAATG
*
55665331 ATATCCGGGCTAAG-TCTCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTATGCTAGTGACT
* * *
55665371 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
55665411 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
55665451 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
55665491 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
55665515 CTTGTGCGAG
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 121 0.96
41 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:55668001 original size:17 final size:17
Alignment explanation
Indices: 55667979--55668013 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
55667969 TATGAGTGCA
55667979 CGAGTCACTTCGGTCGC
1 CGAGTCACTTCGGTCGC
55667996 CGAGTCACTTCGGTCGC
1 CGAGTCACTTCGGTCGC
55668013 C
1 C
55668014 AGTGTTAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.37, G:0.29, T:0.23
Consensus pattern (17 bp):
CGAGTCACTTCGGTCGC
Found at i:55669174 original size:16 final size:16
Alignment explanation
Indices: 55669153--55669184 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
55669143 ACCACGTATT
55669153 GATGATTTGTTTGATC
1 GATGATTTGTTTGATC
55669169 GATGATTTGTTTGATC
1 GATGATTTGTTTGATC
55669185 AACTAAAGGG
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:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (16 bp):
GATGATTTGTTTGATC
Found at i:55673683 original size:40 final size:40
Alignment explanation
Indices: 55673563--55673744 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
55673553 TATTCGAATG
* *
55673563 ATATCCGGGCTAAG-TCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
55673602 ATATCCGGACTAAGA-TCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* *
55673641 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
55673681 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
55673721 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
55673745 CTTGTGCAAG
Statistics
Matches: 125, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
39 45 0.36
40 80 0.64
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:55678923 original size:68 final size:67
Alignment explanation
Indices: 55678851--55679000 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
55678841 CATCATGTGT
* * * *
55678851 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
55678913 ATGTAG
62 ATGTAG
** * *
55678919 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
55678984 AG
66 AG
55678986 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
55679001 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:55678956 original size:64 final size:64
Alignment explanation
Indices: 55678875--55679058 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
55678865 AGACATTATG
* *
55678875 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
55678939 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
55679004 AA
63 AA
* * * *
55679006 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
55679059 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:55680868 original size:12 final size:14
Alignment explanation
Indices: 55680853--55680884 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
55680843 GTGAGAACAC
55680853 ATGTGT-GG-TACT
1 ATGTGTAGGCTACT
55680865 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
55680879 ATGTGT
1 ATGTGT
55680885 TTAAGACGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 2 0.11
14 10 0.56
ACGTcount: A:0.19, C:0.09, G:0.31, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:55681142 original size:50 final size:49
Alignment explanation
Indices: 55680908--55681131 Score: 245
Period size: 50 Copynumber: 4.5 Consensus size: 49
55680898 AGGTCACGTA
* *
55680908 TGTAGTACTAACTGTAGGCTACTACGTGTACCAGATTGTTAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC-CATG
* * * * * * *
55680958 TGTAGTACTAAGTGCAGACTACTATGCGTACC-GATAGCTTCGATCAAGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGTCCA-TG
* * * *
55681008 TGCAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGT-CATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCCATG
55681056 TGTGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATG
1 TGT--AGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC-CATG
* *
55681108 TGTAGTAGTAAGTGAAGGCTACTA
1 TGTAGTACTAAGTGCAGGCTACTA
55681132 TAAGTACCAG
Statistics
Matches: 142, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
48 4 0.03
49 6 0.04
50 121 0.85
51 4 0.03
52 7 0.05
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCCATG
Found at i:55683633 original size:2 final size:2
Alignment explanation
Indices: 55683626--55683652 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
55683616 TGAATGATGC
55683626 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
55683653 GCTTGTTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55686851 original size:2 final size:2
Alignment explanation
Indices: 55686846--55686905 Score: 102
Period size: 2 Copynumber: 30.0 Consensus size: 2
55686836 AATACTTTTT
*
55686846 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
55686888 TC TC TC TC TT TC TC TC TC
1 TC TC TC TC TC TC TC TC TC
55686906 AAAATGTGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:55700363 original size:25 final size:27
Alignment explanation
Indices: 55700335--55700384 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
55700325 CCGTTATATG
*
55700335 GCTC-TTCA-GAGCTTCCAGATTAAAA
1 GCTCTTTCATGAGCCTCCAGATTAAAA
*
55700360 GCTCTTTCATGAGCCTCCTGATTAA
1 GCTCTTTCATGAGCCTCCAGATTAA
55700385 TTGGCTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 4 0.19
27 13 0.62
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (27 bp):
GCTCTTTCATGAGCCTCCAGATTAAAA
Found at i:55703719 original size:30 final size:30
Alignment explanation
Indices: 55703683--55703813 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
55703673 GACAAGATTG
* * * * *
55703683 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
55703713 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
55703741 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
55703771 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
55703800 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55703814 GATTCCTATA
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:55703774 original size:58 final size:58
Alignment explanation
Indices: 55703683--55703813 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
55703673 GACAAGATTG
* * * * * *
55703683 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
55703741 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
55703800 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55703814 GATTCCTATA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:55711658 original size:30 final size:30
Alignment explanation
Indices: 55711622--55711752 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
55711612 GACAAGATTG
* * * * *
55711622 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
55711652 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
55711680 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
55711710 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
55711739 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55711753 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:55711713 original size:58 final size:58
Alignment explanation
Indices: 55711622--55711752 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
55711612 GACAAGATTG
* * * * * *
55711622 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
55711680 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
55711739 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55711753 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:55715785 original size:25 final size:23
Alignment explanation
Indices: 55715748--55715793 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
55715738 TTTATTTTAA
*
55715748 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
55715771 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
55715794 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:55719404 original size:180 final size:180
Alignment explanation
Indices: 55719102--55719467 Score: 651
Period size: 180 Copynumber: 2.0 Consensus size: 180
55719092 GGACCAATTG
*
55719102 TATAATTTAACCTAAAATTTTTATTTGAAATTATGATTTAACGTGTCACGTCAACTTACTATTAT
1 TATAATTTAACCTAAAATTTTTATTTGAAATTATGATTTAACGTGTCACGTCAACTTACCATTAT
*
55719167 ACCGTTAATGGCAATTAACACTCAATGACTAAAATGTTACAACACGATAACGTAAGTGACTAAAA
66 ACCGTTAATGACAATTAACACTCAATGACTAAAATGTTACAACACGATAACGTAAGTGACTAAAA
* * * * *
55719232 TGTTATATGAGAGAAACAAAAGTGATTATTTTGATAGTTTACCCATGTAA
131 TGTAACATGAAAGAAACAAAAATAATTATTTTGATAGTTTACCCATGTAA
55719282 TATAATTTAACCTAAAATTTTTATTTGAAATTATGATTTAACGTGTCACGTCAACTTACCATTAT
1 TATAATTTAACCTAAAATTTTTATTTGAAATTATGATTTAACGTGTCACGTCAACTTACCATTAT
* *
55719347 ACCGTTAATGACAATTAACACTCAATGATTAAAATGTTACAACACGATAACGTAAGTGATTAAAA
66 ACCGTTAATGACAATTAACACTCAATGACTAAAATGTTACAACACGATAACGTAAGTGACTAAAA
55719412 TGTAACATGAAAGAAACAAAAATAATTATTTTGATAGTTTACCCATGTAA
131 TGTAACATGAAAGAAACAAAAATAATTATTTTGATAGTTTACCCATGTAA
55719462 TATAAT
1 TATAAT
55719468 ACACTATACT
Statistics
Matches: 177, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
180 177 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (180 bp):
TATAATTTAACCTAAAATTTTTATTTGAAATTATGATTTAACGTGTCACGTCAACTTACCATTAT
ACCGTTAATGACAATTAACACTCAATGACTAAAATGTTACAACACGATAACGTAAGTGACTAAAA
TGTAACATGAAAGAAACAAAAATAATTATTTTGATAGTTTACCCATGTAA
Found at i:55728616 original size:44 final size:45
Alignment explanation
Indices: 55728563--55728665 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
55728553 TGTCTTTGAC
* * * *
55728563 ATGGACTTACATGAATTATTCTTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
55728607 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
55728653 ATGGACTTACATG
1 ATGGACTTACATG
55728666 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 32 0.64
46 18 0.36
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:55728664 original size:46 final size:44
Alignment explanation
Indices: 55728585--55728670 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
55728575 GAATTATTCT
*
55728585 TGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAATCC
1 TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCC
*
55728629 TGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
55728671 TTTCTGTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 15 0.39
46 23 0.61
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (44 bp):
TGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAATCC
Found at i:55735756 original size:46 final size:43
Alignment explanation
Indices: 55735658--55735764 Score: 133
Period size: 43 Copynumber: 2.4 Consensus size: 43
55735648 TGTCTTTGAC
** * * *
55735658 ATGGACTTACATGAATTATTCCTGTCTCCAATCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAGCCATATATAAT
*
55735701 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCC-AAGCCATA--TATAAT
55735747 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
55735765 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
43 25 0.45
44 7 0.13
46 23 0.42
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (43 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAGCCATATATAAT
Found at i:55737772 original size:14 final size:14
Alignment explanation
Indices: 55737753--55737779 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
55737743 TAAATACTTG
55737753 ATTTGTTCTTAATT
1 ATTTGTTCTTAATT
55737767 ATTTGTTCTTAAT
1 ATTTGTTCTTAAT
55737780 GCTTGAGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (14 bp):
ATTTGTTCTTAATT
Found at i:55768713 original size:213 final size:213
Alignment explanation
Indices: 55768335--55768807 Score: 547
Period size: 213 Copynumber: 2.2 Consensus size: 213
55768325 GTAAGTTATT
* * * * *
55768335 TTAGGGGCTGCGGTTTTTCACCTGCAAGCCTTAATATGACAGTTGAGAGTTTGTAACTCTCGCTA
1 TTAGAGGCTGTGGTTTTTCACCTGCGAGCCTTAATATGACAGTTGGGAGTTTGTAACTATCGCTA
* * * * * *
55768400 ACTGTGTTAGAGGCTGTGGTTTTTTACCTACAAGCCTTAATATTACAGTTAGGAGTTTGTAACTT
66 ACTATGTTAGAGGCTGCGGTTTTTCACCTACAAGCCTTAATATGACAGTGAGGAGTTTGGAACTT
* * ** * *
55768465 TCACTAATTGTGTTGGAAGCTACAATTTTTCACCTGTGACCCTTAATATGATAGCTGGAAGTTTG
131 TCACTAACTGTGTTGGAAGCTACAATCTTTCACCTGCAACACTTAATATGATAGCTGGAAGTTTC
*
55768530 TAACTCTCG-TCAACTATA
196 TAACTCTAGCT-AACTATA
* *
55768548 TTAGAGGCTGTGGTTTTTCACTTGCGAGCCTTAATATGACAGTTGGGAGTTTGTAACTATCGGTA
1 TTAGAGGCTGTGGTTTTTCACCTGCGAGCCTTAATATGACAGTTGGGAGTTTGTAACTATCGCTA
* * * *
55768613 ACTATGTTGGAGGCTGCGGTTTTTCACTTGCAAGCCTTAATATGATAGCTGA-GAGTTTGGAACT
66 ACTATGTTAGAGGCTGCGGTTTTTCACCTACAAGCCTTAATATGACAG-TGAGGAGTTTGGAACT
* * * ** * * * *
55768677 CTT-GCTAACTGTGTTGGAGGCTGCGGTCTTTCACCTGCAAGATTTAATATGATAGTTGGGAGTT
130 -TTCACTAACTGTGTTGGAAGCTACAATCTTTCACCTGCAACACTTAATATGATAGCTGGAAGTT
*
55768741 TCTAACTCTAGCTAACTATG
194 TCTAACTCTAGCTAACTATA
* * * * *
55768761 TTGGAGGCTGTAGTTTTTCACCTGTGAGCTTTAATATGATAGTTGGG
1 TTAGAGGCTGTGGTTTTTCACCTGCGAGCCTTAATATGACAGTTGGG
55768808 TGACTAGGGG
Statistics
Matches: 217, Mismatches: 40, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
213 212 0.98
214 5 0.02
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (213 bp):
TTAGAGGCTGTGGTTTTTCACCTGCGAGCCTTAATATGACAGTTGGGAGTTTGTAACTATCGCTA
ACTATGTTAGAGGCTGCGGTTTTTCACCTACAAGCCTTAATATGACAGTGAGGAGTTTGGAACTT
TCACTAACTGTGTTGGAAGCTACAATCTTTCACCTGCAACACTTAATATGATAGCTGGAAGTTTC
TAACTCTAGCTAACTATA
Found at i:55768806 original size:71 final size:71
Alignment explanation
Indices: 55768340--55768807 Score: 497
Period size: 71 Copynumber: 6.6 Consensus size: 71
55768330 TTATTTTAGG
* * *
55768340 GGCTGCGGTTTTTCACCTGCAAGCCTTAATATGACAGTTGAGAGTTTGTAACTCTCGCTAACTGT
1 GGCTGCGGTTTTTCACCTGCAAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTAT
*
55768405 GTTAGA
66 GTTGGA
* * * * * * * * * *
55768411 GGCTGTGGTTTTTTACCTACAAGCCTTAATATTACAGTTAGGAGTTTGTAACTTTCACTAATTGT
1 GGCTGCGGTTTTTCACCTGCAAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTAT
55768476 GTTGGA
66 GTTGGA
* * ** ** * * *
55768482 AGCTACAATTTTTCACCTGTGACCCTTAATATGATAGCTGGAAGTTTGTAACTCTCG-TCAACTA
1 GGCTGCGGTTTTTCACCTGCAAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCT-AACTA
* *
55768546 TATTAGA
65 TGTTGGA
* * * * * *
55768553 GGCTGTGGTTTTTCACTTGCGAGCCTTAATATGACAGTTGGGAGTTTGTAACTATCGGTAACTAT
1 GGCTGCGGTTTTTCACCTGCAAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTAT
55768618 GTTGGA
66 GTTGGA
* * * * * *
55768624 GGCTGCGGTTTTTCACTTGCAAGCCTTAATATGATAGCTGAGAGTTTGGAACTCTTGCTAACTGT
1 GGCTGCGGTTTTTCACCTGCAAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTAT
55768689 GTTGGA
66 GTTGGA
* ** * *
55768695 GGCTGCGGTCTTTCACCTGCAAGATTTAATATGATAGTTGGGAGTTTCTAACTCTAGCTAACTAT
1 GGCTGCGGTTTTTCACCTGCAAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTAT
55768760 GTTGGA
66 GTTGGA
** ** *
55768766 GGCTGTAGTTTTTCACCTGTGAGCTTTAATATGATAGTTGGG
1 GGCTGCGGTTTTTCACCTGCAAGCCTTAATATGATAGTTGGG
55768808 TGACTAGGGG
Statistics
Matches: 324, Mismatches: 71, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
70 1 0.00
71 322 0.99
72 1 0.00
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (71 bp):
GGCTGCGGTTTTTCACCTGCAAGCCTTAATATGATAGTTGGGAGTTTGTAACTCTCGCTAACTAT
GTTGGA
Found at i:55773539 original size:12 final size:12
Alignment explanation
Indices: 55773509--55773548 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
55773499 TACTCTCAAG
*
55773509 TTTTATTTTGTTA
1 TTTTATTTT-TTC
55773522 TTTTATTTTTTC
1 TTTTATTTTTTC
*
55773534 TTTTATTTTTAC
1 TTTTATTTTTTC
55773546 TTT
1 TTT
55773549 CGAAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (12 bp):
TTTTATTTTTTC
Found at i:55774582 original size:17 final size:17
Alignment explanation
Indices: 55774560--55774593 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
55774550 TTAATTTCCC
*
55774560 ATATATTATTTATTTTA
1 ATATATTATTTACTTTA
*
55774577 ATATATTCTTTACTTTA
1 ATATATTATTTACTTTA
55774594 GATTATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATATTATTTACTTTA
Found at i:55774918 original size:26 final size:27
Alignment explanation
Indices: 55774889--55774944 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
55774879 TTTAAACTCC
*
55774889 TTTACATATTATTTATTTTAAA-TATT
1 TTTACATATTATTTACTTTAAACTATT
* *
55774915 TTTATATTTTATTTACTTTAAACTATT
1 TTTACATATTATTTACTTTAAACTATT
55774942 TTT
1 TTT
55774945 TTATATGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (27 bp):
TTTACATATTATTTACTTTAAACTATT
Found at i:55775234 original size:25 final size:24
Alignment explanation
Indices: 55775196--55775258 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
55775186 ATATTATTTT
55775196 ATTGTTTTGAATATTAATGATTTTTAA
1 ATTGTTTT--ATATTAATGA-TTTTAA
* *
55775223 ATTGTTTTATATTATTTATTTTAA
1 ATTGTTTTATATTAATGATTTTAA
55775247 ATTGCTTTTATA
1 ATTG-TTTTATA
55775259 GTATCTATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 10 0.30
25 15 0.45
27 8 0.24
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.60
Consensus pattern (24 bp):
ATTGTTTTATATTAATGATTTTAA
Done.