Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 318 of 433
Found at i:99268955 original size:7 final size:7
Alignment explanation
Indices: 99268945--99269064 Score: 53
Period size: 7 Copynumber: 16.9 Consensus size: 7
99268935 TCCTAACCCC
99268945 TAAACCT
1 TAAACCT
**
99268952 TAAACAA
1 TAAACCT
* *
99268959 TAAAACA
1 TAAACCT
99268966 TAAACCCT
1 TAAA-CCT
*
99268974 TAACCCT
1 TAAACCT
*
99268981 TAACCCT
1 TAAACCT
99268988 TAAACCT
1 TAAACCT
*
99268995 TAAACCC
1 TAAACCT
* *
99269002 CAACACCC
1 TAA-ACCT
*
99269010 TAAAACT
1 TAAACCT
*
99269017 TAAACCC
1 TAAACCT
99269024 T-AACCTT
1 TAAACC-T
* *
99269031 TAACCCA
1 TAAACCT
*
99269038 TAAACCA
1 TAAACCT
*
99269045 TAAACCA
1 TAAACCT
* *
99269052 TAATCCC
1 TAAACCT
99269059 TAAACC
1 TAAACC
99269065 CATAATACAT
Statistics
Matches: 87, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
6 4 0.05
7 70 0.80
8 13 0.15
ACGTcount: A:0.45, C:0.34, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCT
Found at i:99268991 original size:29 final size:28
Alignment explanation
Indices: 99268942--99269079 Score: 99
Period size: 29 Copynumber: 5.1 Consensus size: 28
99268932 AATTCCTAAC
* * *
99268942 CCCTAAACCTTAAACAATAAAACATAAA
1 CCCTAACCCTTAACCCATAAAACATAAA
* * *
99268970 CCCTTAACCCTTAACCCTTAAACCTTAAA
1 CCC-TAACCCTTAACCCATAAAACATAAA
* *
99268999 CCCCAA--C---ACCC-TAAAACTTAAA
1 CCCTAACCCTTAACCCATAAAACATAAA
* *
99269021 CCCTAACCTTTAACCCATAAACCATAAA
1 CCCTAACCCTTAACCCATAAAACATAAA
* * *
99269049 CCATAATCCCTAAACCCATAATACATAAA
1 CCCTAA-CCCTTAACCCATAAAACATAAA
99269078 CC
1 CC
99269080 TTACAACAGT
Statistics
Matches: 85, Mismatches: 17, Indels: 15
0.73 0.15 0.13
Matches are distributed among these distances:
22 15 0.18
23 4 0.05
26 1 0.01
27 4 0.05
28 19 0.22
29 42 0.49
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (28 bp):
CCCTAACCCTTAACCCATAAAACATAAA
Found at i:99269000 original size:22 final size:21
Alignment explanation
Indices: 99268936--99269115 Score: 74
Period size: 22 Copynumber: 8.3 Consensus size: 21
99268926 ACCCTGAATT
*
99268936 CCTAACCCCTAAACCTTAAAC
1 CCTAACCCTTAAACCTTAAAC
** ** *
99268957 AATAAAACATAAACCCTT-AAC
1 CCTAACCCTTAAA-CCTTAAAC
99268978 CCTTAACCCTTAAACCTTAAAC
1 CC-TAACCCTTAAACCTTAAAC
* * *
99269000 CCCAACACCCTAAAACTTAAAC
1 CCTAAC-CCTTAAACCTTAAAC
* * *
99269022 CCTAACCTTTAACCCATAAAC
1 CCTAACCCTTAAACCTTAAAC
* * * * *
99269043 CATAAACCATAATCCCTAAAC
1 CCTAACCCTTAAACCTTAAAC
** *
99269064 CCATAATACATAAACCTTACAAC
1 CC-TAACCCTTAAACCTTA-AAC
** * * *
99269087 AGTAACTCATAAACATTAAAC
1 CCTAACCCTTAAACCTTAAAC
99269108 CCTTAACC
1 CC-TAACC
99269116 ATATATCGTA
Statistics
Matches: 114, Mismatches: 38, Indels: 13
0.69 0.23 0.08
Matches are distributed among these distances:
21 47 0.41
22 64 0.56
23 3 0.03
ACGTcount: A:0.44, C:0.34, G:0.01, T:0.21
Consensus pattern (21 bp):
CCTAACCCTTAAACCTTAAAC
Found at i:99269050 original size:15 final size:15
Alignment explanation
Indices: 99269032--99269079 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
99269022 CCTAACCTTT
99269032 AACCCATAAACCATA
1 AACCCATAAACCATA
* *
99269047 AA-CCATAATCCCTA
1 AACCCATAAACCATA
99269061 AACCCATAATA-CATA
1 AACCCATAA-ACCATA
99269076 AACC
1 AACC
99269080 TTACAACAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (15 bp):
AACCCATAAACCATA
Found at i:99269728 original size:39 final size:39
Alignment explanation
Indices: 99269652--99269728 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
99269642 GCGTTTTTAA
*
99269652 AAAAGCGCCGCTAATACTCAATCTTTAGCGGCGTTTTTG
1 AAAAGCGCCGCTAATACTCAATCTTTAGCGGCATTTTTG
* ** * *
99269691 AAAAGCGCCGCTAATGCTCGTTCTTTGGTGGCATTTTT
1 AAAAGCGCCGCTAATACTCAATCTTTAGCGGCATTTTT
99269729 CATTCAAACG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (39 bp):
AAAAGCGCCGCTAATACTCAATCTTTAGCGGCATTTTTG
Found at i:99276212 original size:39 final size:39
Alignment explanation
Indices: 99276169--99276309 Score: 158
Period size: 39 Copynumber: 3.6 Consensus size: 39
99276159 CGTATTCAAT
* * *
99276169 TTTAATCATATATCACATTACACATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
*
99276208 TTTAAGCATATATCACAATACTCATATAAGT-ACATAACG
1 TTTAAGCATATATCACAATACTCATATAA-TCACATAACA
* * * *
99276247 TTCAAGCACATATCGCAATACTTATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
** **
99276286 TGCAAGCATATATCGTAATACTCA
1 TTTAAGCATATATCACAATACTCA
99276310 AAAACATGTT
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
38 1 0.01
39 85 0.98
40 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:99281153 original size:27 final size:27
Alignment explanation
Indices: 99281119--99281318 Score: 242
Period size: 27 Copynumber: 7.4 Consensus size: 27
99281109 TGGATAAGTT
*
99281119 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
99281146 GTGGAATTACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
99281173 GTAGAATTATTGAAATA-CCCTAGTAGG
1 GTAGAATTACCGAAATACCCCT-GTAGG
* *
99281200 GTAGAATTACTGAAATACCCTTGT-GG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
99281226 GATAGAATTACCAAAATACCCTTGTAGG
1 G-TAGAATTACCGAAATACCCCTGTAGG
*
99281254 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
99281281 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
99281308 GTAAAATTACC
1 GTAGAATTACC
99281319 ATTTTTCCCC
Statistics
Matches: 150, Mismatches: 19, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
26 7 0.05
27 137 0.91
28 6 0.04
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:99281254 original size:81 final size:80
Alignment explanation
Indices: 99281119--99281319 Score: 269
Period size: 81 Copynumber: 2.5 Consensus size: 80
99281109 TGGATAAGTT
* * * * **
99281119 GTAGAATTACCGAAATACCCCTGTAAGGTGGAATTACCAAAATACCCCTGTAGGGTAGAATTATT
1 GTAGAATTACCGAAATACCCTTGT-GGGTAGAATTACCAAAATACCCCTGTAGGGTAGAAATACC
99281184 GAAATA-CCCTAGTAGG
65 GAAATACCCCT-GTAGG
* *
99281200 GTAGAATTACTGAAATACCCTTGTGGGATAGAATTACCAAAATACCCTTGTAGGGTAGAAATACC
1 GTAGAATTACCGAAATACCCTTGTGGG-TAGAATTACCAAAATACCCCTGTAGGGTAGAAATACC
99281265 GAAATACCCCTGTAGG
65 GAAATACCCCTGTAGG
* *
99281281 GTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 GTAGAATTACCGAAATACCCTTGT-GGGTAGAATTACCA
99281320 TTTTTCCCCT
Statistics
Matches: 106, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
80 2 0.02
81 97 0.92
82 7 0.07
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (80 bp):
GTAGAATTACCGAAATACCCTTGTGGGTAGAATTACCAAAATACCCCTGTAGGGTAGAAATACCG
AAATACCCCTGTAGG
Found at i:99285195 original size:30 final size:30
Alignment explanation
Indices: 99285159--99285318 Score: 204
Period size: 29 Copynumber: 5.5 Consensus size: 30
99285149 GACAAGATTG
* * * * *
99285159 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
* *
99285189 GCACTAAGTGTGCGAGTTTG---ATTATACA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
*
99285217 TCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
99285246 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
99285276 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
99285305 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
99285319 GATTCACTAT
Statistics
Matches: 118, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.19
29 47 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:99285288 original size:59 final size:57
Alignment explanation
Indices: 99285159--99285318 Score: 205
Period size: 59 Copynumber: 2.8 Consensus size: 57
99285149 GACAAGATTG
* * * * * *
99285159 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATACA
* *
99285217 TCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATACA
99285276 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
99285319 GATTCACTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 19 0.21
59 49 0.54
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATACA
Found at i:99290693 original size:39 final size:40
Alignment explanation
Indices: 99290576--99290764 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 40
99290566 GGATATAACG
* * ** **
99290576 ACTCGCTCAAATGCCTTCGGGACAGAGCCC-GGTTATAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCAGAAT-TAGTA
* **
99290616 ACTCGCACGAATGCCTTCGGGACTTAGCCCGGGTTTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCAGAATTAGTA
* *
99290656 ACTCGCACAAATGCCTTTGGG-CTTAGCCCAGAATTAGTA
1 ACTCGCACGAATGCCTTCGGGACTTAGCCCAGAATTAGTA
* * *
99290695 ACTCGCACGAATGCCTTC-GGATCTTAGTCC-GGATATAGTC
1 ACTCGCACGAATGCCTTCGGGA-CTTAGCCCAGAAT-TAGTA
* *
99290735 ACTTAGCAC-AAAGCCTTCGGGACTTAGCCC
1 AC-TCGCACGAATGCCTTCGGGACTTAGCCC
99290765 GGACATCATT
Statistics
Matches: 126, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 34 0.27
40 78 0.62
41 12 0.10
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
ACTCGCACGAATGCCTTCGGGACTTAGCCCAGAATTAGTA
Found at i:99290705 original size:79 final size:80
Alignment explanation
Indices: 99290611--99290764 Score: 215
Period size: 79 Copynumber: 1.9 Consensus size: 80
99290601 AGCCCGGTTA
* * * *
99290611 TAGTAACTCGCACGAATGCCTTCGGGA-CTTAGCCCGGGTTTAGTAAC-TCGCACAAATGCCTTT
1 TAGTAACTCGCACGAATGCCTTC-GGATCTTAGCCCGGATATAGTAACTTAGCACAAA-GCCTTC
99290674 GGG-CTTAGCCCAGAAT
64 GGGACTTAGCCCAGAAT
* *
99290690 TAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACGAATGCCTTCGGATCTTAGCCCGGATATAGTAACTTAGCACAAAGCCTTCGG
99290755 GACTTAGCCC
66 GACTTAGCCC
99290765 GGACATCATT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
78 3 0.05
79 47 0.71
80 16 0.24
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACGAATGCCTTCGGATCTTAGCCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCCCAGAAT
Found at i:99298009 original size:79 final size:80
Alignment explanation
Indices: 99297841--99298025 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 80
99297831 ACGACTCGCT
** * *
99297841 CAAATGCCTTCGGGACAGAGCCCGG-TTATAGTAACTCGCACGAATGCCTTTGGGAATTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACGAATGCCTTTCGGAATTAGCCCG
* * *
99297905 GGTTTAGTAACTCGCA
65 GATATAGTAACTAGCA
* * *
99297921 CAAATGCCTTTGGG-CTTAGCCCGGAATTAGTAACTCGCACGAATGCC-TTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACGAATGCCTTTCGGA-ATTAGCCCG
*
99297984 GATATAGTCACTTAGCA
65 GATATAGTAAC-TAGCA
99298001 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
99298026 CATCATTCGA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 5 0.06
79 51 0.57
80 33 0.37
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACGAATGCCTTTCGGAATTAGCCCGG
ATATAGTAACTAGCA
Found at i:99298025 original size:40 final size:39
Alignment explanation
Indices: 99297834--99298025 Score: 174
Period size: 40 Copynumber: 4.8 Consensus size: 39
99297824 GGATATAACG
* ** *
99297834 ACTCGCTCAAATGCCTTCGGGACAGAGCCCGGTTATAGTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * * *
99297874 ACTCGCACGAATGCCTTTGGGAATTAGCCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
*
99297914 ACTCGCACAAATGCCTTTGGG-CTTAGCCCGGA-ATTAGTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATA-TAGTA
* * *
99297953 ACTCGCACGAATGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
99297993 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
99298026 CATCATTCGA
Statistics
Matches: 124, Mismatches: 19, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
38 2 0.02
39 29 0.23
40 82 0.66
41 11 0.09
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:99301638 original size:27 final size:27
Alignment explanation
Indices: 99301604--99301720 Score: 171
Period size: 27 Copynumber: 4.3 Consensus size: 27
99301594 TGGATAAGTT
* *
99301604 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCAGTAGG
* *
99301631 GTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCAGTAGG
**
99301658 GTAGAATTATTGAAATACCCCAGTAGG
1 GTAGAATTACCGAAATACCCCAGTAGG
*
99301685 GTAGAATTACTGAAATACCCCAGTAGG
1 GTAGAATTACCGAAATACCCCAGTAGG
99301712 GTAGAATTA
1 GTAGAATTA
99301721 TTGGTGTCCA
Statistics
Matches: 85, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCAGTAGG
Found at i:99309325 original size:24 final size:24
Alignment explanation
Indices: 99309057--99309323 Score: 462
Period size: 24 Copynumber: 11.1 Consensus size: 24
99309047 GCAAAGACCA
*
99309057 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
99309081 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
99309105 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
99309129 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
99309153 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
99309177 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
99309201 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
99309225 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
99309249 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
99309273 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
99309297 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
99309321 TAT
1 TAT
99309324 AGTCACATTC
Statistics
Matches: 234, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 234 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:99311561 original size:29 final size:29
Alignment explanation
Indices: 99311533--99311634 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
99311523 CCTCCGAGCT
** * * *
99311533 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
99311562 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
99311591 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
99311620 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
99311635 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:99319418 original size:29 final size:29
Alignment explanation
Indices: 99319390--99319491 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
99319380 CCTCCGAGCT
** * * *
99319390 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
99319419 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
99319448 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
99319477 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
99319492 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:99322909 original size:27 final size:28
Alignment explanation
Indices: 99322879--99322948 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
99322869 ATAATAAGTC
*
99322879 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
99322906 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
99322934 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
99322949 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:99330983 original size:27 final size:28
Alignment explanation
Indices: 99330953--99331022 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
99330943 ATAATAAGTC
*
99330953 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
99330980 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
99331008 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
99331023 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:99333449 original size:30 final size:30
Alignment explanation
Indices: 99333385--99333459 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
99333375 ACCACCGAAT
* * *
99333385 TATGAAAAGAGATGGCTTTGGCTATCGATT
1 TATGAAAAGGGATGGCTTCGGCTATCGATC
*
99333415 TATGAAAAGGGATGGCTTCGGAC-ATTGATC
1 TATGAAAAGGGATGGCTTCGG-CTATCGATC
*
99333445 TATGAAAAAGGATGG
1 TATGAAAAGGGATGG
99333460 TGATGACCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 38 0.97
31 1 0.03
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (30 bp):
TATGAAAAGGGATGGCTTCGGCTATCGATC
Found at i:99333496 original size:29 final size:30
Alignment explanation
Indices: 99333445--99333516 Score: 110
Period size: 29 Copynumber: 2.4 Consensus size: 30
99333435 GACATTGATC
* *
99333445 TATGAAAAAGGATGGTGATGACCATCAAAT
1 TATGAAAAGGGATGGTGACGACCATCAAAT
*
99333475 TATGATAAGGGAT-GTGACGACCATCAAAT
1 TATGAAAAGGGATGGTGACGACCATCAAAT
99333504 TATGAAAAGGGAT
1 TATGAAAAGGGAT
99333517 AACTTTGGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
29 27 0.71
30 11 0.29
ACGTcount: A:0.42, C:0.10, G:0.25, T:0.24
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGACGACCATCAAAT
Found at i:99333533 original size:30 final size:30
Alignment explanation
Indices: 99333497--99333576 Score: 133
Period size: 30 Copynumber: 2.7 Consensus size: 30
99333487 TGTGACGACC
*
99333497 ATCAAATTATGAAAAGGGATAACTTTGGCT
1 ATCAAATTATGAAAAGAGATAACTTTGGCT
* *
99333527 ATCAAATTATGAAGAGAGATAGCTTTGGCT
1 ATCAAATTATGAAAAGAGATAACTTTGGCT
99333557 ATCAAATTATGAAAAGAGAT
1 ATCAAATTATGAAAAGAGAT
99333577 GTGTCAACCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (30 bp):
ATCAAATTATGAAAAGAGATAACTTTGGCT
Found at i:99334079 original size:51 final size:52
Alignment explanation
Indices: 99334001--99334179 Score: 161
Period size: 52 Copynumber: 3.5 Consensus size: 52
99333991 ACGGATACCT
* * * * *
99334001 AGTGGCCTGCACATAGTGCCGCCCTTGT-AGTCAAAGCT-ACTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTGACTTTCTTCACAA
*
99334052 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTGTCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTGACTTTCTTCACAA
* ** ** * * *
99334104 AGTGGCTTTTGCATAGTACCACACTAATGACC-AAG-TTA-TCTCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTGACTTTCTTCACAA
* * *
99334153 AGTGGGCTTCATATGGTACCACACTTG
1 AGTGGCCTTCACATAGTACCACACTTG
99334180 AGCCACTAGT
Statistics
Matches: 103, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
49 28 0.27
50 1 0.01
51 34 0.33
52 40 0.39
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (52 bp):
AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTGACTTTCTTCACAA
Found at i:99334604 original size:17 final size:17
Alignment explanation
Indices: 99334578--99334616 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
99334568 AAAAGCACTT
99334578 ATTTTACACTAAATTAC
1 ATTTTACACTAAATTAC
*
99334595 ATTTTTCACTAAATTAC
1 ATTTTACACTAAATTAC
99334612 ATTTT
1 ATTTT
99334617 CTACACATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTTACACTAAATTAC
Found at i:99337794 original size:47 final size:47
Alignment explanation
Indices: 99337658--99337812 Score: 141
Period size: 47 Copynumber: 3.2 Consensus size: 47
99337648 TGTACATAGT
* * * * *
99337658 CACATATCACACACCAAAGCCATAGCCCAGCTATGGTCTTATATGGAAG
1 CACATAT--CACACCGATGCCATAGCCTAGATATGGTCTTATATGGAAA
** * * * *
99337707 CACATATCACATTGATGTCATAGCCTAGCTATAGTGTTATATGGAAA
1 CACATATCACACCGATGCCATAGCCTAGATATGGTCTTATATGGAAA
* **
99337754 CACATATCACACCGATGCCATA-TCTCAGATATGGTCTTATACAGAAA
1 CACATATCACACCGATGCCATAGCCT-AGATATGGTCTTATATGGAAA
99337801 TCACATATCACA
1 -CACATATCACA
99337813 TATTTCCATG
Statistics
Matches: 86, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
46 2 0.02
47 66 0.77
48 11 0.13
49 7 0.08
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (47 bp):
CACATATCACACCGATGCCATAGCCTAGATATGGTCTTATATGGAAA
Found at i:99342225 original size:23 final size:23
Alignment explanation
Indices: 99342199--99342274 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
99342189 CAGCTCGTAA
*
99342199 GAGCTTACTATTTCAGGTCATTG
1 GAGCTTACTATTTCAGCTCATTG
*
99342222 GAGCTTACTGTTTCAGCTCATTG
1 GAGCTTACTATTTCAGCTCATTG
* *
99342245 GAGCTTACTGTTTCAGCTCATTA
1 GAGCTTACTATTTCAGCTCATTG
99342268 GAGCTTA
1 GAGCTTA
99342275 TCATTTTAGG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (23 bp):
GAGCTTACTATTTCAGCTCATTG
Found at i:99348519 original size:13 final size:13
Alignment explanation
Indices: 99348501--99348540 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
99348491 GAAGTAATCG
99348501 CACACGGGCGTGT
1 CACACGGGCGTGT
99348514 CACACGGGCGTGT
1 CACACGGGCGTGT
*
99348527 CACACGGGCATGT
1 CACACGGGCGTGT
99348540 C
1 C
99348541 CCTACTAAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.17, C:0.33, G:0.35, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:99361351 original size:15 final size:15
Alignment explanation
Indices: 99361331--99361360 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
99361321 CAACACTTGT
99361331 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
99361346 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
99361361 AATACATTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:99367752 original size:23 final size:24
Alignment explanation
Indices: 99367691--99367802 Score: 92
Period size: 23 Copynumber: 4.9 Consensus size: 24
99367681 TCGAAATATT
* *
99367691 AGCTCGTA-AGATCTTACTATTTC
1 AGCTCGTATAGAGCTTACTGTTTC
* * * *
99367714 AGATCAT-TGGAACTTACTGTTTC
1 AGCTCGTATAGAGCTTACTGTTTC
99367737 AGCTCGTAT-GAGCTTACTG-TTC
1 AGCTCGTATAGAGCTTACTGTTTC
* *
99367759 AGCTC-AATAGAGCTTACTGTTTT
1 AGCTCGTATAGAGCTTACTGTTTC
* *
99367782 AGCTC-AATAGATCTTACTGTT
1 AGCTCGTATAGAGCTTACTGTT
99367803 CATTAGCTTA
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
21 2 0.03
22 18 0.24
23 53 0.72
24 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (24 bp):
AGCTCGTATAGAGCTTACTGTTTC
Found at i:99367762 original size:22 final size:22
Alignment explanation
Indices: 99367726--99367804 Score: 97
Period size: 23 Copynumber: 3.5 Consensus size: 22
99367716 ATCATTGGAA
*
99367726 CTTACTGTTTCAGCTC-GTATGAG
1 CTTACTG-TTCAGCTCAATA-GAG
99367749 CTTACTGTTCAGCTCAATAGAG
1 CTTACTGTTCAGCTCAATAGAG
* *
99367771 CTTACTGTTTTAGCTCAATAGAT
1 CTTACTG-TTCAGCTCAATAGAG
99367794 CTTACTGTTCA
1 CTTACTGTTCA
99367805 TTAGCTTAGG
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
22 21 0.42
23 29 0.58
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (22 bp):
CTTACTGTTCAGCTCAATAGAG
Found at i:99382842 original size:44 final size:41
Alignment explanation
Indices: 99382794--99382885 Score: 114
Period size: 44 Copynumber: 2.2 Consensus size: 41
99382784 TGTTTAGCCA
99382794 AAGCTATAAC-GATATCGCACACTTAGTGCCATAATATTAAACCG
1 AAGCTATAACAG-TATCGCACACTTAGTGCCA-AATA--AAACCG
** *
99382838 AAGCTATGTCAGTATCGCACACTTAGTGCCACATAAAACCG
1 AAGCTATAACAGTATCGCACACTTAGTGCCAAATAAAACCG
99382879 AAGCTAT
1 AAGCTAT
99382886 TCCAATTCGT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
41 13 0.30
43 3 0.07
44 27 0.61
45 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (41 bp):
AAGCTATAACAGTATCGCACACTTAGTGCCAAATAAAACCG
Found at i:99392468 original size:12 final size:13
Alignment explanation
Indices: 99392424--99392460 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
99392414 TTTATGCATG
*
99392424 TCTGTATCTA-AA
1 TCTGAATCTAGAA
99392436 TCTGAATCT-GAA
1 TCTGAATCTAGAA
99392448 TCTGAATCTAGAA
1 TCTGAATCTAGAA
99392461 CTGTATCTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 19 0.86
13 3 0.14
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (13 bp):
TCTGAATCTAGAA
Found at i:99392468 original size:18 final size:18
Alignment explanation
Indices: 99392424--99392492 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
99392414 TTTATGCATG
*
99392424 TCTGTATCTAAATCTGAA
1 TCTGTATCTGAATCTGAA
*
99392442 TCTGAATCTGAATCTAGAA
1 TCTGTATCTGAATCT-GAA
** *
99392461 -CTGTATCTGTTTCTGAC
1 TCTGTATCTGAATCTGAA
* *
99392478 TGTGTATCTAAATCT
1 TCTGTATCTGAATCT
99392493 ATATGCTCGT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
17 2 0.05
18 34 0.87
19 3 0.08
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (18 bp):
TCTGTATCTGAATCTGAA
Found at i:99399722 original size:6 final size:6
Alignment explanation
Indices: 99399711--99399735 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
99399701 AAATAAAAGG
99399711 AAATTA AAATTA AAATTA AAATTA A
1 AAATTA AAATTA AAATTA AAATTA A
99399736 TAAAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATTA
Found at i:99401389 original size:12 final size:12
Alignment explanation
Indices: 99401371--99401400 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
99401361 TAAATAAGAT
99401371 AATAATAATAAA
1 AATAATAATAAA
*
99401383 CATAATAATAAA
1 AATAATAATAAA
99401395 AATAAT
1 AATAAT
99401401 TGTGGGGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:99404210 original size:17 final size:19
Alignment explanation
Indices: 99404168--99404211 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
99404158 ATGAAATTTT
*
99404168 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
99404187 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
99404205 AA-TATTA
1 AATTATTA
99404212 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:99408901 original size:29 final size:29
Alignment explanation
Indices: 99408877--99408970 Score: 161
Period size: 29 Copynumber: 3.2 Consensus size: 29
99408867 TCGCACACCC
* *
99408877 AGTGCCGTATTTTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
99408906 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
*
99408935 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
99408964 AGTGCCA
1 AGTGCCA
99408971 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 62 1.00
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:99408902 original size:58 final size:58
Alignment explanation
Indices: 99408839--99408970 Score: 158
Period size: 58 Copynumber: 2.3 Consensus size: 58
99408829 AATTTAAGCC
* * * * *
99408839 CGCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCA
* * * **
99408897 TGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
99408955 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
99408971 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
58 61 0.98
59 1 0.02
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCA
Found at i:99411734 original size:17 final size:19
Alignment explanation
Indices: 99411692--99411735 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
99411682 ATGAAATTTT
*
99411692 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
99411711 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
99411729 AA-TATTA
1 AATTATTA
99411736 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:99416515 original size:40 final size:40
Alignment explanation
Indices: 99416471--99416580 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
99416461 TTCACAATTT
* *
99416471 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
99416511 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
99416551 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
99416581 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:99426094 original size:40 final size:40
Alignment explanation
Indices: 99425986--99426195 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
99425976 CGGGATTTAA
* * * * *
99425986 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
99426026 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99426066 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99426106 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99426146 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99426186 CCGGATATAT
1 CCGGATATAT
99426196 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:99429375 original size:27 final size:28
Alignment explanation
Indices: 99429345--99429414 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
99429335 ATAATAAGTC
*
99429345 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
99429372 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
99429400 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
99429415 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:99436216 original size:27 final size:28
Alignment explanation
Indices: 99436186--99436255 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
99436176 ATAATAAGTC
*
99436186 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
99436213 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
99436241 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
99436256 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:99442933 original size:40 final size:40
Alignment explanation
Indices: 99442825--99443034 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
99442815 CGGGATTTAA
* * * * *
99442825 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
99442865 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99442905 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99442945 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99442985 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99443025 CCGGATATAT
1 CCGGATATAT
99443035 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:99452472 original size:35 final size:41
Alignment explanation
Indices: 99452433--99452519 Score: 96
Period size: 42 Copynumber: 2.2 Consensus size: 41
99452423 AATAAAAATT
99452433 ATAAAAAAATTAAAAT-A-AT-AATAAAG-GAAAA-TG-AA
1 ATAAAAAAATTAAAATAAGATAAATAAAGAGAAAAGTGAAA
* * *
99452468 ATAAAAAGTATTTAAATAAGATAAATAAAGATAAAAGTGAAA
1 ATAAAAA-AATTAAAATAAGATAAATAAAGAGAAAAGTGAAA
99452510 ATAAAAAAAT
1 ATAAAAAAAT
99452520 AAATAAAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
35 7 0.17
36 7 0.17
37 1 0.02
38 2 0.05
39 7 0.17
40 4 0.10
41 4 0.10
42 9 0.22
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (41 bp):
ATAAAAAAATTAAAATAAGATAAATAAAGAGAAAAGTGAAA
Found at i:99452522 original size:26 final size:26
Alignment explanation
Indices: 99452481--99452530 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
99452471 AAAAGTATTT
*
99452481 AAATAAGATAAATAAAGATAAAAGTGA
1 AAATAAGAAAAATAAAGA-AAAAGTGA
*
99452508 AAATAA-AAAAATAAATAAAAAGT
1 AAATAAGAAAAATAAAGAAAAAGT
99452531 TTTTAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 6 0.29
26 9 0.43
27 6 0.29
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (26 bp):
AAATAAGAAAAATAAAGAAAAAGTGA
Found at i:99463335 original size:40 final size:40
Alignment explanation
Indices: 99463227--99463436 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
99463217 CGGGATTTAA
* * * * *
99463227 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
99463267 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99463307 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99463347 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99463387 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99463427 CCGGATATAT
1 CCGGATATAT
99463437 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:99471400 original size:40 final size:40
Alignment explanation
Indices: 99471292--99471501 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
99471282 CGGGATTTAA
* * * * *
99471292 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
99471332 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99471372 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99471412 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99471452 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
99471492 CCGGATATAT
1 CCGGATATAT
99471502 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:99479609 original size:40 final size:40
Alignment explanation
Indices: 99479565--99479668 Score: 147
Period size: 40 Copynumber: 2.6 Consensus size: 40
99479555 ATAACCGAGT
* *
99479565 TAAGACCCGAAGGCAATTGTGCTAGTAGCTATATTCGGGC
1 TAAGACCCGAAGGCAATTGTGCAAGTAGCTAAATTCGGGC
* *
99479605 TAAGACCCGAAGGC-ATTCGTGCAAGTTGTTAAATTCGGGC
1 TAAGACCCGAAGGCAATT-GTGCAAGTAGCTAAATTCGGGC
*
99479645 TAAGACCCGAAGGCATTTGTGCAA
1 TAAGACCCGAAGGCAATTGTGCAA
99479669 ATCGTGATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
39 3 0.05
40 52 0.91
41 2 0.04
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (40 bp):
TAAGACCCGAAGGCAATTGTGCAAGTAGCTAAATTCGGGC
Found at i:99486385 original size:27 final size:26
Alignment explanation
Indices: 99486314--99486415 Score: 77
Period size: 27 Copynumber: 3.8 Consensus size: 26
99486304 TAAGGGCATA
99486314 ATTTTACCAAACAGGGGTATTACGGTC
1 ATTTTACCAAACAGGGGTATTAC-GTC
*
99486341 ATTTTATCCTATA-A-GGGTATTACAGTC
1 ATTTTA-CC-AAACAGGGGTATTAC-GTC
* *
99486368 ATTTTA-CAAACCAGGGGTATTTCGATA
1 ATTTTACCAAA-CAGGGGTATTACG-TC
*
99486395 ATTTTA-CAAATAAGGGGTATT
1 ATTTTACCAAA-CAGGGGTATT
99486416 TTGGTAGTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
24 2 0.03
25 1 0.02
26 2 0.03
27 52 0.84
28 3 0.05
29 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (26 bp):
ATTTTACCAAACAGGGGTATTACGTC
Found at i:99486416 original size:27 final size:27
Alignment explanation
Indices: 99486368--99486437 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
99486358 TATTACAGTC
*
99486368 ATTTTACAAACCAGGGGTATTTCGATA
1 ATTTTACAAATCAGGGGTATTTCGATA
* * *
99486395 ATTTTACAAATAAGGGGTATTTTGGTA
1 ATTTTACAAATCAGGGGTATTTCGATA
*
99486422 GTTTTACAAATCAGGG
1 ATTTTACAAATCAGGG
99486438 TCTTAACGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (27 bp):
ATTTTACAAATCAGGGGTATTTCGATA
Found at i:99489087 original size:43 final size:42
Alignment explanation
Indices: 99489015--99489130 Score: 112
Period size: 43 Copynumber: 2.7 Consensus size: 42
99489005 AAAATTTTTT
99489015 ATATGTGTTCTTC-TGTAAGACCGCATCTGGAACAGTGGC-ATCG
1 ATATGTGTTC-TCATGTAAGACC-CATCTGGAACAGTGGCAAT-G
* * *
99489058 ATATGTGTTCTCATGTAAGACCCTGTCTGGGATAGTGGCAATG
1 ATATGTGTTCTCATGTAAGACCC-ATCTGGAACAGTGGCAATG
* *
99489101 ATACGTGATTAT-ATGTAAGACCCCATCTGG
1 ATATGTG-TTCTCATGTAAGA-CCCATCTGG
99489131 GATGTTGACA
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
42 3 0.05
43 51 0.82
44 8 0.13
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
ATATGTGTTCTCATGTAAGACCCATCTGGAACAGTGGCAATG
Found at i:99489131 original size:43 final size:43
Alignment explanation
Indices: 99489028--99489133 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 43
99489018 TGTGTTCTTC
* * * * *
99489028 TGTAAGACCGCATCTGGAACAGTGGCATCGATATGTGTTCTCA
1 TGTAAGACCCCATCTGGGATAGTGGCATCGATACGTGTTATCA
**
99489071 TGTAAGACCCTGTCTGGGATAGTGGCAAT-GATACGTGATTAT-A
1 TGTAAGACCCCATCTGGGATAGTGGC-ATCGATACGTG-TTATCA
99489114 TGTAAGACCCCATCTGGGAT
1 TGTAAGACCCCATCTGGGAT
99489134 GTTGACATTG
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
43 47 0.90
44 5 0.10
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
TGTAAGACCCCATCTGGGATAGTGGCATCGATACGTGTTATCA
Found at i:99490420 original size:13 final size:14
Alignment explanation
Indices: 99490392--99490426 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
99490382 CATTTTGACC
*
99490392 ATGTTTATATTTAT
1 ATGTTTATATTGAT
99490406 ATGTTT-TATTGAT
1 ATGTTTATATTGAT
99490419 ATGTTTAT
1 ATGTTTAT
99490427 TTTTTATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (14 bp):
ATGTTTATATTGAT
Found at i:99494791 original size:27 final size:26
Alignment explanation
Indices: 99494761--99494814 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
99494751 TTCTGAAATC
99494761 TTTTCTCAAAATTAGGGTTTTGAAAAGT
1 TTTTCT-AAAATT-GGGTTTTGAAAAGT
*
99494789 TTTTCTAAAATTTGGTTTTGGAAAAG
1 TTTTCTAAAATTGGGTTTT-GAAAAG
99494815 ATGATTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 6 0.25
27 12 0.50
28 6 0.25
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (26 bp):
TTTTCTAAAATTGGGTTTTGAAAAGT
Found at i:99497676 original size:46 final size:46
Alignment explanation
Indices: 99497620--99498031 Score: 558
Period size: 46 Copynumber: 9.0 Consensus size: 46
99497610 AGTGTGCTCT
*
99497620 CTGATATGAAACGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
99497666 CTAATATGAAATGTA-TAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATG-AGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
99497712 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
99497758 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
99497804 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATGCCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
99497850 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * **
99497896 ATGAGGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGT
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
99497942 GTGACATGAAATGAATAAGACCATGGTTGAAATATACCATAGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
99497988 ATGATA-GAAAATGAGTAAGATCATAGTTAAAAGATACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
99498032 TCATGTCAAA
Statistics
Matches: 329, Mismatches: 34, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.00
46 327 0.99
47 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:99498338 original size:16 final size:17
Alignment explanation
Indices: 99498317--99498349 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
99498307 ATGATGGAGC
99498317 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
99498333 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
99498350 TGCTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:99504098 original size:15 final size:15
Alignment explanation
Indices: 99504066--99504094 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
99504056 ATTTTCTGTG
99504066 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
99504081 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
99504095 ATTTTCGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:99505281 original size:43 final size:43
Alignment explanation
Indices: 99505219--99505388 Score: 193
Period size: 43 Copynumber: 4.0 Consensus size: 43
99505209 TAGGATTCCT
* * * *
99505219 ATATGTGTTCTCGTATAAGACCACGTCTGGGACGTTAGCATTG
1 ATATGTGTTCTCATGTAAGACCACGTCTGGGACGTTGGCATCG
* *
99505262 ATATGTGTTCTCATGTAAGACCACGTCTGGGATGTTGGAATCG
1 ATATGTGTTCTCATGTAAGACCACGTCTGGGACGTTGGCATCG
* * *
99505305 ATATGTGTTCTCGTGTAAGACTC-TGTATGGGACAG-TGGCATCG
1 ATATGTGTTCTCATGTAAGAC-CACGTCTGGGAC-GTTGGCATCG
* *
99505348 ATATGTGATTAT-ATGGAAGACCACGTCTGGGACGTTGGCAT
1 ATATGTG-TTCTCATGTAAGACCACGTCTGGGACGTTGGCAT
99505389 TGTACGATAT
Statistics
Matches: 106, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
42 2 0.02
43 99 0.93
44 5 0.05
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (43 bp):
ATATGTGTTCTCATGTAAGACCACGTCTGGGACGTTGGCATCG
Found at i:99505368 original size:86 final size:86
Alignment explanation
Indices: 99505219--99505385 Score: 214
Period size: 86 Copynumber: 1.9 Consensus size: 86
99505209 TAGGATTCCT
* * * *
99505219 ATATGTGTTCTCGTATAAGACCACGTCTGGGACGTTAGCATTGATATGTGTTCTCATGTAAGACC
1 ATATGTGTTCTCGTATAAGACCACGTATGGGACGTTAGCATCGATATGTGTTATCATGGAAGACC
*
99505284 ACGTCTGGGATGTTGGAATCG
66 ACGTCTGGGACGTTGGAATCG
* * *
99505305 ATATGTGTTCTCGTGTAAGACTC-TGTATGGGACAG-TGGCATCGATATGTGATTAT-ATGGAAG
1 ATATGTGTTCTCGTATAAGAC-CACGTATGGGAC-GTTAGCATCGATATGTG-TTATCATGGAAG
99505367 ACCACGTCTGGGACGTTGG
63 ACCACGTCTGGGACGTTGG
99505386 CATTGTACGA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
86 65 0.93
87 5 0.07
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (86 bp):
ATATGTGTTCTCGTATAAGACCACGTATGGGACGTTAGCATCGATATGTGTTATCATGGAAGACC
ACGTCTGGGACGTTGGAATCG
Found at i:99507652 original size:3 final size:3
Alignment explanation
Indices: 99507644--99507691 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
99507634 ATGACATTGG
99507644 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
99507692 AAATTAAAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:99509196 original size:25 final size:25
Alignment explanation
Indices: 99509164--99509280 Score: 162
Period size: 25 Copynumber: 4.6 Consensus size: 25
99509154 ACCTTAGCGC
*
99509164 GCTCTCTGATTATTAGTACGTCAGT
1 GCTCTCTGATTATTAGCACGTCAGT
* *
99509189 GCTATCTGATTATTAGCATGTCAGT
1 GCTCTCTGATTATTAGCACGTCAGT
* *
99509214 GCTCTCTGATTATTAGCACATCTGT
1 GCTCTCTGATTATTAGCACGTCAGT
* *
99509239 GCTCTCTAATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACGTCAGT
99509264 GCTCTCTGATTAGTTAG
1 GCTCTCTGATTA-TTAG
99509281 TGCATAATAA
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
25 75 0.95
26 4 0.05
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTCAGT
Found at i:99510941 original size:23 final size:23
Alignment explanation
Indices: 99510915--99510967 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
99510905 CCAAGTGGAT
99510915 GTATGTTTTGAATGACCAATTTG
1 GTATGTTTTGAATGACCAATTTG
99510938 GTATGTTTTGAATGACCAATTTG
1 GTATGTTTTGAATGACCAATTTG
99510961 GTATGTT
1 GTATGTT
99510968 AGGATGTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.45
Consensus pattern (23 bp):
GTATGTTTTGAATGACCAATTTG
Found at i:99513550 original size:41 final size:39
Alignment explanation
Indices: 99513478--99513573 Score: 106
Period size: 41 Copynumber: 2.4 Consensus size: 39
99513468 TCCGAATACT
* *
99513478 TGAAAAGGTTGAAAAGGAAGTTACTCGAAAGGGATAGCACA
1 TGAAAAGGTTGAAAAGGAAATTACTCAAAAGGG-TAGCA-A
*
99513519 TGAAAAGGTTGAAAAGGAAA-TA-TCCAAAAAGGGTATCAA
1 TGAAAAGGTTGAAAAGGAAATTACT-C-AAAAGGGTAGCAA
*
99513558 TGAAAAGGTCGAAAAG
1 TGAAAAGGTTGAAAAG
99513574 AATAGCAATG
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
39 17 0.35
40 7 0.14
41 25 0.51
ACGTcount: A:0.48, C:0.08, G:0.27, T:0.17
Consensus pattern (39 bp):
TGAAAAGGTTGAAAAGGAAATTACTCAAAAGGGTAGCAA
Found at i:99514602 original size:2 final size:2
Alignment explanation
Indices: 99514595--99514629 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
99514585 GTTTTGGATG
99514595 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
99514630 GCAAATGGCC
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:99524170 original size:27 final size:29
Alignment explanation
Indices: 99524140--99524254 Score: 99
Period size: 29 Copynumber: 4.0 Consensus size: 29
99524130 ACGCAAGAGC
*
99524140 ATATA-GTGAATC-CGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
99524167 ATATATTTTCAGCTCGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
* **
99524196 ATATAATTTTCAGCTCGCACACTTAGTGCT
1 ATAT-ATGTGAAGCTCGCACACTTAGTGCT
* ** * *
99524226 ATATATTTTCAGTTTGCACACTTAGTGCT
1 ATATATGTGAAGCTCGCACACTTAGTGCT
99524255 GTACAATTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.06
28 3 0.04
29 42 0.53
30 29 0.37
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (29 bp):
ATATATGTGAAGCTCGCACACTTAGTGCT
Found at i:99524207 original size:30 final size:29
Alignment explanation
Indices: 99524152--99524254 Score: 179
Period size: 29 Copynumber: 3.5 Consensus size: 29
99524142 ATAGTGAATC
99524152 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
99524181 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
99524211 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
99524240 TGCACACTTAGTGCT
1 CGCACACTTAGTGCT
99524255 GTACAATTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
29 42 0.59
30 29 0.41
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:99524245 original size:59 final size:60
Alignment explanation
Indices: 99524151--99524284 Score: 198
Period size: 59 Copynumber: 2.2 Consensus size: 60
99524141 TATAGTGAAT
* * *
99524151 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * * *
99524210 TCGCACACTTAGTGCTATATATTTTCAGTTTGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
99524270 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
99524285 CAATCTTGTT
Statistics
Matches: 66, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
59 46 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:99525576 original size:19 final size:18
Alignment explanation
Indices: 99525552--99525587 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
99525542 CCCCCTTTTT
*
99525552 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
99525571 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
99525588 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:99531845 original size:29 final size:29
Alignment explanation
Indices: 99531813--99531944 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
99531803 ATAGTGAATC
99531813 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
99531842 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
99531872 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
99531901 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
99531930 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
99531945 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:99531954 original size:59 final size:59
Alignment explanation
Indices: 99531813--99531944 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
99531803 ATAGTGAATC
99531813 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
99531872 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
99531930 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
99531945 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:99533256 original size:19 final size:18
Alignment explanation
Indices: 99533232--99533267 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
99533222 CCCCCTTTTT
*
99533232 CTTTTCTTATTTTATTCCC
1 CTTTTCTT-TTTAATTCCC
99533251 CTTTTCTTTTTAATTCC
1 CTTTTCTTTTTAATTCC
99533268 TTTCTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.11, C:0.25, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTTCTTTTTAATTCCC
Found at i:99535596 original size:30 final size:29
Alignment explanation
Indices: 99535558--99535632 Score: 114
Period size: 30 Copynumber: 2.6 Consensus size: 29
99535548 TCAGGTCAAG
*
99535558 GGGTAAATGGTCATTTTGCAAATGTCTAA
1 GGGTAAATGGTCATTTTGCAAAAGTCTAA
99535587 GGGTAAAATGGTCATTTTGCAAAAGTCTAA
1 GGGT-AAATGGTCATTTTGCAAAAGTCTAA
* *
99535617 GGGCAAATGGTAATTT
1 GGGTAAATGGTCATTT
99535633 CGCCCAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
29 15 0.36
30 27 0.64
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.32
Consensus pattern (29 bp):
GGGTAAATGGTCATTTTGCAAAAGTCTAA
Found at i:99538542 original size:35 final size:35
Alignment explanation
Indices: 99538503--99538610 Score: 207
Period size: 35 Copynumber: 3.1 Consensus size: 35
99538493 GGTATGTGAT
99538503 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
99538538 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
*
99538573 ATATATATTATTTATGTGAGATTGATCTGACAAGA
1 ATATATATTATTTATGTGAGATTGATCTGACGAGA
99538608 ATA
1 ATA
99538611 AAGAATGTGT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
35 72 1.00
ACGTcount: A:0.36, C:0.06, G:0.19, T:0.40
Consensus pattern (35 bp):
ATATATATTATTTATGTGAGATTGATCTGACGAGA
Found at i:99540890 original size:21 final size:22
Alignment explanation
Indices: 99540851--99540891 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
99540841 TTGGAATGCT
99540851 CACACGGGCATGTTGCCCCTCC
1 CACACGGGCATGTTGCCCCTCC
*
99540873 CACACGGGCGTG-TGCCCCT
1 CACACGGGCATGTTGCCCCT
99540892 GTGTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGGGCATGTTGCCCCTCC
Found at i:99541631 original size:22 final size:22
Alignment explanation
Indices: 99541606--99541658 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
99541596 GTGTCCTTTG
99541606 CGCACGGCCTGGCCTTGTCAAT
1 CGCACGGCCTGGCCTTGTCAAT
99541628 CGCACGGCCTGGCCTTGTCAAT
1 CGCACGGCCTGGCCTTGTCAAT
*
99541650 CACACGGCC
1 CGCACGGCC
99541659 GTGACCCATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.15, C:0.40, G:0.26, T:0.19
Consensus pattern (22 bp):
CGCACGGCCTGGCCTTGTCAAT
Found at i:99545261 original size:222 final size:222
Alignment explanation
Indices: 99544869--99545306 Score: 867
Period size: 222 Copynumber: 2.0 Consensus size: 222
99544859 AATTAAAGCG
99544869 CATGAAAAGAATTATCCGACCCATGATTTAGAGTTGGCCACTATTGTGTTCGCATTGAAAATTTG
1 CATGAAAAGAATTATCCGACCCATGATTTAGAGTTGGCCACTATTGTGTTCGCATTGAAAATTTG
99544934 GTGACAGTATTTGTACAGTGAAAAGTGTCACATCTTTGTAGATCACAAGAGTTTAAAGTATATAA
66 GTGACAGTATTTGTACAGTGAAAAGTGTCACATCTTTGTAGATCACAAGAGTTTAAAGTATATAA
99544999 TGACTCAAAAAGATTTGAATTTGCGACAACGAATATGGCTCGAGTTGCTGAAAGACTATGAGTTA
131 TGACTCAAAAAGATTTGAATTTGCGACAACGAATATGGCTCGAGTTGCTGAAAGACTATGAGTTA
99545064 GTAATTTATTATCATTTGGGGCCGACC
196 GTAATTTATTATCATTTGGGGCCGACC
*
99545091 CATGATAAGAATTATCCGACCCATGATTTAGAGTTGGCCACTATTGTGTTCGCATTGAAAATTTG
1 CATGAAAAGAATTATCCGACCCATGATTTAGAGTTGGCCACTATTGTGTTCGCATTGAAAATTTG
99545156 GTGACAGTATTTGTACAGTGAAAAGTGTCACATCTTTGTAGATCACAAGAGTTTAAAGTATATAA
66 GTGACAGTATTTGTACAGTGAAAAGTGTCACATCTTTGTAGATCACAAGAGTTTAAAGTATATAA
99545221 TGACTCAAAAAGATTTGAATTTGCGACAACGAATATGGCTCGAGTTGCTGAAAGACTATGAGTTA
131 TGACTCAAAAAGATTTGAATTTGCGACAACGAATATGGCTCGAGTTGCTGAAAGACTATGAGTTA
99545286 GTAATTTATTATCATTTGGGG
196 GTAATTTATTATCATTTGGGG
99545307 AAAGCAAATG
Statistics
Matches: 215, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
222 215 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (222 bp):
CATGAAAAGAATTATCCGACCCATGATTTAGAGTTGGCCACTATTGTGTTCGCATTGAAAATTTG
GTGACAGTATTTGTACAGTGAAAAGTGTCACATCTTTGTAGATCACAAGAGTTTAAAGTATATAA
TGACTCAAAAAGATTTGAATTTGCGACAACGAATATGGCTCGAGTTGCTGAAAGACTATGAGTTA
GTAATTTATTATCATTTGGGGCCGACC
Found at i:99557016 original size:40 final size:41
Alignment explanation
Indices: 99556961--99557054 Score: 122
Period size: 40 Copynumber: 2.3 Consensus size: 41
99556951 CAACTACGAT
* *
99556961 TGGCACTAAGTGTGCG-GTTTTATATAGCTTCAGCTATA-AA
1 TGGCACTAAGTGTGCGAG-TTGACATAGCTTCAGCTATATAA
* *
99557001 TGGCACTAAGTGTGCGAGTTGGCATAGCTTCGGCTATATAA
1 TGGCACTAAGTGTGCGAGTTGACATAGCTTCAGCTATATAA
99557042 -GGCACTAAGTGTG
1 TGGCACTAAGTGTG
99557055 TGATACCAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
40 45 0.94
41 3 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGAGTTGACATAGCTTCAGCTATATAA
Found at i:99557577 original size:2 final size:2
Alignment explanation
Indices: 99557570--99557594 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
99557560 TTTTGTGATG
99557570 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
99557595 TTAGCCATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:99559193 original size:62 final size:61
Alignment explanation
Indices: 99559087--99559225 Score: 163
Period size: 62 Copynumber: 2.3 Consensus size: 61
99559077 AAGAAATATG
* * *
99559087 GCACTAAGTGTGCGAGGGATAAAGTGACGGCACTGAGTGTGCGATTCGTCAC-AAGATTTTA
1 GCACTAAGTGTGCGAGGGATAAAGTAACGGCACTAAGTGTGCGATACGTCACAAAGA-TTTA
* * * * *
99559148 GCACTAAGTGTGCGAGATGTTAATGTAATGGCACTAAGTGTGCGATACGTTACAAAGATTTA
1 GCACTAAGTGTGCGAG-GGATAAAGTAACGGCACTAAGTGTGCGATACGTCACAAAGATTTA
* *
99559210 GCATTGAGTGTGCGAG
1 GCACTAAGTGTGCGAG
99559226 TTGGCTGATC
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
61 16 0.24
62 46 0.70
63 4 0.06
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (61 bp):
GCACTAAGTGTGCGAGGGATAAAGTAACGGCACTAAGTGTGCGATACGTCACAAAGATTTA
Found at i:99568119 original size:27 final size:26
Alignment explanation
Indices: 99568082--99568195 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 26
99568072 AGCATGGCTG
* * *
99568082 CCAGAACAGATAGTGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
99568108 CCAGATACAGATAATCGTGGCAAAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
99568136 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
99568163 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
99568190 CCAGAA
1 CCAGAA
99568196 TGCTTCCTCC
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.07
27 55 0.72
28 16 0.21
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:99568141 original size:54 final size:54
Alignment explanation
Indices: 99568082--99568195 Score: 158
Period size: 54 Copynumber: 2.1 Consensus size: 54
99568072 AGCATGGCTG
* *
99568082 CCAGAACAGATA-GTGTGACAGAGTCACCAGATACAGATAATCGTGGCAAAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAAAGCCA
* * * *
99568136 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAAAGCCA
99568190 CCAGAA
1 CCAGAA
99568196 TGCTTCCTCC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.68
55 17 0.32
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAAAGCCA
Found at i:99568625 original size:8 final size:8
Alignment explanation
Indices: 99568610--99568645 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
99568600 AAAATACTGA
99568610 CTTTTCGG
1 CTTTTCGG
*
99568618 CATTTCGG
1 CTTTTCGG
99568626 CTTTTCGG
1 CTTTTCGG
99568634 CTTTTCGG
1 CTTTTCGG
99568642 CTTT
1 CTTT
99568646 GCCAATCTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.03, C:0.25, G:0.22, T:0.50
Consensus pattern (8 bp):
CTTTTCGG
Found at i:99569856 original size:26 final size:26
Alignment explanation
Indices: 99569820--99569929 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
99569810 CATGAAATTC
99569820 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
99569846 TTATCATGAAACTTTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
99569872 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
99569898 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
99569924 TTATCA
1 TTATCA
99569930 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:99571109 original size:2 final size:2
Alignment explanation
Indices: 99571102--99571137 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
99571092 TCTAGATGTC
99571102 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
99571138 CACACAAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:99573522 original size:18 final size:18
Alignment explanation
Indices: 99573501--99573538 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
99573491 ACTATTAAAA
*
99573501 GACTACGAACTTGTAATT
1 GACTACAAACTTGTAATT
99573519 GACTACAAACTTGTAATT
1 GACTACAAACTTGTAATT
99573537 GA
1 GA
99573539 TTATCATCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (18 bp):
GACTACAAACTTGTAATT
Found at i:99578660 original size:27 final size:27
Alignment explanation
Indices: 99578616--99578689 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
99578606 TTGGAGGAAG
*
99578616 TACTG-TACCGGTGGCTTTGCCACAAC
1 TACTGTTACTGGTGGCTTTGCCACAAC
**
99578642 TACTGTTACTGGTGGCTTTGCCACATT
1 TACTGTTACTGGTGGCTTTGCCACAAC
**
99578669 TACTGTTACTGGCAGCTTTGC
1 TACTGTTACTGGTGGCTTTGC
99578690 TGCGATATTG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 5 0.12
27 37 0.88
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTTTGCCACAAC
Found at i:99579842 original size:6 final size:6
Alignment explanation
Indices: 99579824--99579863 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
99579814 AAGAAACATT
99579824 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA
99579864 AAATGTGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 1 0.03
6 30 0.94
7 1 0.03
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:99579873 original size:18 final size:18
Alignment explanation
Indices: 99579833--99579867 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
99579823 TATCAGAACT
*
99579833 AGAATCAGAATCAGAATC
1 AGAATCAGAATCAAAATC
99579851 AGAATCAGAATCAAAAT
1 AGAATCAGAATCAAAAT
99579868 GTGAATGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.17
Consensus pattern (18 bp):
AGAATCAGAATCAAAATC
Found at i:99579983 original size:27 final size:26
Alignment explanation
Indices: 99579935--99580036 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
99579925 GCTCAGTTAT
* *
99579935 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGA-A
*
99579962 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAAAGCCACCAGAA
* *
99579988 TAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAAAGCCACCAG-AA
* *
99580016 CAGATAATGTGGAAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
99580037 TTAACAGAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 6 0.09
27 51 0.80
28 7 0.11
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAAAGCCACCAGAA
Found at i:99580223 original size:22 final size:22
Alignment explanation
Indices: 99580195--99580259 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
99580185 GCAAATACAT
*
99580195 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
99580217 TTGGCACAGAGCCA-GATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
99580239 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
99580260 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:99580716 original size:27 final size:27
Alignment explanation
Indices: 99580686--99580872 Score: 213
Period size: 27 Copynumber: 7.0 Consensus size: 27
99580676 GGGGTAAAAT
* *
99580686 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
99580713 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
99580740 GGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
99580767 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
99580794 GGTAATTCTACCCTAC-AGAGGTATTTT
1 GGTAATTTTACCCTACAAG-GGTATTTC
* * *
99580821 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
99580848 GGT-ATTTCTACCCTACAA-GGTATTT
1 GGTAATTT-TACCCTACAAGGGTATTT
99580873 TGATATCTTA
Statistics
Matches: 141, Mismatches: 14, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
26 15 0.11
27 122 0.87
28 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:99580733 original size:54 final size:54
Alignment explanation
Indices: 99580686--99580872 Score: 247
Period size: 54 Copynumber: 3.5 Consensus size: 54
99580676 GGGGTAAAAT
* *
99580686 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
99580740 GGT-ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* **
99580794 GGTAATTCTACCCTAC-AGAGGTATTTTAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAG-GGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
99580848 GGT-ATTTCTACCCTACAA-GGTATTT
1 GGTAATTT-TACCCTACAAGGGTATTT
99580873 TGATATCTTA
Statistics
Matches: 116, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
53 15 0.13
54 97 0.84
55 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (54 bp):
GGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:99580810 original size:81 final size:81
Alignment explanation
Indices: 99580690--99580872 Score: 298
Period size: 81 Copynumber: 2.3 Consensus size: 81
99580680 TAAAATGGTA
* * * * *
99580690 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAGTAATTCTACCCT
99580754 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
*
99580770 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAGTAATTCTACCCT
99580835 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
99580851 ATTTCTACCCTACAA-GGTATTT
1 ATTTCTACCCTACAAGGGTATTT
99580873 TGATATCTTA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
80 11 0.11
81 85 0.89
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCAGTAATTCTACCCT
ACAGGGGTATTTCGGT
Found at i:99580923 original size:27 final size:26
Alignment explanation
Indices: 99580866--99580961 Score: 106
Period size: 27 Copynumber: 3.6 Consensus size: 26
99580856 TACCCTACAA
99580866 GGTATTTTGAT-ATCTTACAAATC-GAG
1 GGTATTTTGATAAT-TTACAAATCAG-G
*
99580892 AGTATTTTGATAATTTCACAAATCAGG
1 GGTATTTTGATAATTT-ACAAATCAGG
* *
99580919 GGTATTTTGGTAATTTTACAAACCAGG
1 GGTATTTTGATAA-TTTACAAATCAGG
*
99580946 GGTATTTTGGTAATTT
1 GGTATTTTGATAATTT
99580962 TGTAAACTAA
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
26 15 0.24
27 43 0.69
28 4 0.06
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (26 bp):
GGTATTTTGATAATTTACAAATCAGG
Found at i:99580962 original size:27 final size:27
Alignment explanation
Indices: 99580893--99580989 Score: 113
Period size: 27 Copynumber: 3.6 Consensus size: 27
99580883 CAAATCGAGA
* * *
99580893 GTATTTTGATAATTTCACAAATCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
99580920 GTATTTTGGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
** * *
99580947 GTATTTTGGTAATTTTGTAAACTAAGG
1 GTATTTTGGTAATTTTACAAACCAGGG
**
99580974 GTATTTCAGTAATTTT
1 GTATTTTGGTAATTTT
99580990 GTAAATCAAG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACCAGGG
Found at i:99580990 original size:27 final size:27
Alignment explanation
Indices: 99580918--99581000 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 27
99580908 CACAAATCAG
** *
99580918 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTGTAAACCAA
*
99580945 GGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTGTAAACCAA
** *
99580972 GGGTATTTCAGTAATTTTGTAAATCAA
1 GGGTATTTTGGTAATTTTGTAAACCAA
99580999 GG
1 GG
99581001 ATAAAACAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGTAAACCAA
Found at i:99581010 original size:27 final size:26
Alignment explanation
Indices: 99580982--99581273 Score: 341
Period size: 27 Copynumber: 10.8 Consensus size: 26
99580972 GGGTATTTCA
* *
99580982 GTAATTTTGTAAATCAAGGATAAAAC
1 GTAATTTTGTAAATCGAGGGTAAAAC
* * *
99581008 AGTAATTCTATAAATTGAGGGTAAAAC
1 -GTAATTTTGTAAATCGAGGGTAAAAC
* *
99581035 GATAATTCTATAAATCGAGGGTAAAAC
1 G-TAATTTTGTAAATCGAGGGTAAAAC
99581062 GATAATTTTGTAAATCGAGGGTAAAAC
1 G-TAATTTTGTAAATCGAGGGTAAAAC
*
99581089 GGTAATTTTATAAATCGAGGGTAAAAC
1 -GTAATTTTGTAAATCGAGGGTAAAAC
* * *
99581116 GATAATTTTGTAAATTGAAGGTAAAATG
1 G-TAATTTTGTAAATCGAGGGTAAAA-C
99581144 GTAATTTTGTAAATCGAGGGTAAAAC
1 GTAATTTTGTAAATCGAGGGTAAAAC
* * *
99581170 GATAATTCTATAAATCGAGAGTAAAAC
1 G-TAATTTTGTAAATCGAGGGTAAAAC
99581197 GGTAATTTTGTAAATCGAGGGTAAAAC
1 -GTAATTTTGTAAATCGAGGGTAAAAC
*
99581224 GGTAATTTTGTAAATCGTGGGTAAAAC
1 -GTAATTTTGTAAATCGAGGGTAAAAC
* *
99581251 GATAATTCTATAAATCGAGGGTA
1 G-TAATTTTGTAAATCGAGGGTA
99581274 CTTTGGTAAT
Statistics
Matches: 232, Mismatches: 26, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
26 4 0.02
27 225 0.97
28 3 0.01
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (26 bp):
GTAATTTTGTAAATCGAGGGTAAAAC
Found at i:99581300 original size:54 final size:54
Alignment explanation
Indices: 99580982--99581273 Score: 388
Period size: 54 Copynumber: 5.4 Consensus size: 54
99580972 GGGTATTTCA
* * * * * *
99580982 GTAATTTTGTAAATCAAGGATAAAAC-AGTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACGA-TAATTTTGTAAATCGAGGGTAAAACG
* *
99581036 ATAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACG
* * *
99581090 GTAATTTTATAAATCGAGGGTAAAACGATAATTTTGTAAATTGAAGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACG
* * * *
99581144 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGAGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACG
* * *
99581198 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGTGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACG
* *
99581252 ATAATTCTATAAATCGAGGGTA
1 GTAATTTTATAAATCGAGGGTA
99581274 CTTTGGTAAT
Statistics
Matches: 209, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
54 208 1.00
55 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (54 bp):
GTAATTTTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACG
Found at i:99581300 original size:81 final size:81
Alignment explanation
Indices: 99580982--99581273 Score: 433
Period size: 81 Copynumber: 3.6 Consensus size: 81
99580972 GGGTATTTCA
* * * *
99580982 GTAATTTTGTAAATCAAGGATAAAAC-AGTAATTCTATAAATTGAGGGTAAAACGATAATTCTAT
1 GTAATTTTGTAAATCGAGGGTAAAACGA-TAATTCTATAAATCGAGGGTAAAACGATAATTTTAT
99581046 AAATCGAGGGTAAAACG
65 AAATCGAGGGTAAAACG
* * * *
99581063 ATAATTTTGTAAATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGATAATTTTGTA
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTTTATA
* * *
99581128 AATTGAAGGTAAAATG
66 AATCGAGGGTAAAACG
* * *
99581144 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGAGTAAAACGGTAATTTTGTA
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTTTATA
99581209 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
*
99581225 GTAATTTTGTAAATCGTGGGTAAAACGATAATTCTATAAATCGAGGGTA
1 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTA
99581274 CTTTGGTAAT
Statistics
Matches: 189, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
81 189 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (81 bp):
GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTTTATA
AATCGAGGGTAAAACG
Found at i:99589458 original size:27 final size:27
Alignment explanation
Indices: 99589411--99589473 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
99589401 TTGGAGGAAG
*
99589411 TACTG-TACTGGTGGCTCTGCCACAAC
1 TACTGTTACTCGTGGCTCTGCCACAAC
* * **
99589437 TACTGTTACTCGTTGCTTTGCCACATT
1 TACTGTTACTCGTGGCTCTGCCACAAC
99589464 TACTGTTACT
1 TACTGTTACT
99589474 GGCAACTTTG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 5 0.16
27 26 0.84
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.38
Consensus pattern (27 bp):
TACTGTTACTCGTGGCTCTGCCACAAC
Found at i:99589563 original size:18 final size:17
Alignment explanation
Indices: 99589531--99589564 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
99589521 ATCCCCACAT
*
99589531 GGTGTGTTGGTTGGTAC
1 GGTGTGGTGGTTGGTAC
99589548 GGTGTGGTGTGTTGGTA
1 GGTGTGGTG-GTTGGTA
99589565 GGATTTGTAA
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:0.06, C:0.03, G:0.50, T:0.41
Consensus pattern (17 bp):
GGTGTGGTGGTTGGTAC
Found at i:99590945 original size:45 final size:45
Alignment explanation
Indices: 99590881--99591053 Score: 199
Period size: 45 Copynumber: 3.8 Consensus size: 45
99590871 TGTAACCCGC
* *
99590881 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCCTCGCAT
* *
99590926 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCCTCGCAT
* * * * *
99590972 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-CTCGCAT
99591019 CCATAAGTGAACTCGGACTC-ACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
99591054 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
45 53 0.50
46 17 0.16
47 35 0.33
48 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCCTCGCAT
Found at i:99591000 original size:92 final size:92
Alignment explanation
Indices: 99590889--99591057 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
99590879 GCCCATAAGT
*
99590889 GAACTCGGACTCAACTCAACGAGCTCGGGC-GTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACAGTCGCATCCATAAGTGAACTCGGACTC-ACTCAA
99590953 CGAGTTCGGATGCCTAGTTACATTTCAC
65 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
99590981 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACAGTCGCATCCATAAGTGAACTCGGACTCACTCAAC
99591046 GAGTTCGGATGC
66 GAGTTCGGATGC
99591058 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 47 0.64
93 26 0.36
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACAGTCGCATCCATAAGTGAACTCGGACTCACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:99593389 original size:39 final size:39
Alignment explanation
Indices: 99593308--99593466 Score: 245
Period size: 36 Copynumber: 4.2 Consensus size: 39
99593298 TGTGAATGAA
99593308 TGTGCGAATTGTGATATCCGGGCTAAG-CCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
99593346 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
99593385 TGTGCGAA---TGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * **
99593421 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCGTT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
99593461 TGTGCG
1 TGTGCG
99593467 GGTTACCATA
Statistics
Matches: 112, Mismatches: 4, Indels: 8
0.90 0.03 0.06
Matches are distributed among these distances:
36 35 0.31
38 27 0.24
39 34 0.30
40 16 0.14
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:99593433 original size:75 final size:75
Alignment explanation
Indices: 99593319--99593466 Score: 244
Period size: 75 Copynumber: 2.0 Consensus size: 75
99593309 GTGCGAATTG
99593319 TGATATCCGGGCTAAGCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
1 TGATATCCGGGCTAAGCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
99593383 ATTGTGCGAA
66 ATTGTGCGAA
* *
99593393 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
**
99593458 GTTTGTGCG
65 AATTGTGCG
99593467 GGTTACCATA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
74 16 0.24
75 36 0.53
76 16 0.24
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (75 bp):
TGATATCCGGGCTAAGCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAA
Found at i:99601287 original size:39 final size:39
Alignment explanation
Indices: 99601233--99601392 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
99601223 TGTGAATGAA
99601233 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
99601272 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
99601311 TGTGCGAA---TGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
99601347 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
99601387 TGTGCG
1 TGTGCG
99601393 GGTTACCATA
Statistics
Matches: 114, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
36 35 0.31
39 62 0.54
40 17 0.15
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:99601332 original size:75 final size:76
Alignment explanation
Indices: 99601244--99601392 Score: 264
Period size: 75 Copynumber: 2.0 Consensus size: 76
99601234 GTGCGAATTG
99601244 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
99601308 AATTGTGCGAA
66 AATTGTGCGAA
* *
99601319 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
*
99601384 ATTTGTGCG
66 AATTGTGCG
99601393 GGTTACCATA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
75 53 0.76
76 17 0.24
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (76 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAA
Found at i:99601408 original size:40 final size:40
Alignment explanation
Indices: 99601250--99601422 Score: 160
Period size: 39 Copynumber: 4.5 Consensus size: 40
99601240 ATTGTGATAT
* *** *
99601250 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAATTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
** *
99601289 CCGGGCTAAG-CCCGAAGGCAATTGTGCGA---ATGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*** *
99601325 CCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTGTGATAT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
* * *
99601364 CCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACCATAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
*
99601404 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
99601423 TGTTTTGAAC
Statistics
Matches: 119, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
36 35 0.29
39 44 0.37
40 40 0.34
ACGTcount: A:0.24, C:0.23, G:0.32, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACCATAA
Found at i:99603916 original size:40 final size:40
Alignment explanation
Indices: 99603714--99603921 Score: 233
Period size: 40 Copynumber: 5.2 Consensus size: 40
99603704 TGAATGATAC
* * *
99603714 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
99603754 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * *
99603794 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TCATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* ** *
99603834 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGAT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * * *
99603874 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
99603914 CC-GGCTAA
1 CCGGGCTAA
99603922 ATTCCGAAGA
Statistics
Matches: 145, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 6 0.04
40 137 0.94
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:99611870 original size:39 final size:41
Alignment explanation
Indices: 99611810--99611956 Score: 160
Period size: 40 Copynumber: 3.7 Consensus size: 41
99611800 TGAATGATAC
* * *
99611810 CCGGGCTAAGTCCCGAA-GCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGATGATCATAT
* * *
99611849 CCGGGCTAAGACCC-AAGGCATTCGTGCGAGTTG-TCATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGATGATCATAT
* * *
99611888 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGAT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGATGATCATAT
* *
99611928 CCGGGTTAAGACCCGAAGGCAATTGTGCT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT
99611957 TGTGGTTATA
Statistics
Matches: 91, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.02
39 42 0.46
40 47 0.52
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (41 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGATGATCATAT
Found at i:99611970 original size:40 final size:40
Alignment explanation
Indices: 99611810--99611975 Score: 146
Period size: 40 Copynumber: 4.2 Consensus size: 40
99611800 TGAATGATAC
* * * *
99611810 CCGGGCTAAGTCCCGAA-GCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATCATAT
*
99611849 CCGGGCTAAGACCC-AAGGC-ATTCGTGCGAGTTG-TCATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATCATAT
* * * *
99611888 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGAT-ACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATCATAT
* * * *
99611928 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATCATAT
99611968 CC-GGCTAA
1 CCGGGCTAA
99611976 ATTCCGAAGA
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
38 4 0.04
39 45 0.45
40 50 0.50
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATCATAT
Found at i:99625834 original size:14 final size:14
Alignment explanation
Indices: 99625810--99625848 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
99625800 TCAAAACAAG
99625810 AATTAAGAACACAT
1 AATTAAGAACACAT
* *
99625824 ATTTTAGAACACAT
1 AATTAAGAACACAT
99625838 AATTAAGAACA
1 AATTAAGAACA
99625849 AGTTAATTAT
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:0.54, C:0.13, G:0.08, T:0.26
Consensus pattern (14 bp):
AATTAAGAACACAT
Found at i:99626079 original size:13 final size:13
Alignment explanation
Indices: 99626061--99626093 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
99626051 ATCAATCAGC
99626061 TTCCTTCGAGTAA
1 TTCCTTCGAGTAA
99626074 TTCCTTCGAGTAA
1 TTCCTTCGAGTAA
99626087 TTCCTTC
1 TTCCTTC
99626094 CTTCCTCTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.18, C:0.27, G:0.12, T:0.42
Consensus pattern (13 bp):
TTCCTTCGAGTAA
Found at i:99634568 original size:48 final size:47
Alignment explanation
Indices: 99634496--99634875 Score: 295
Period size: 48 Copynumber: 7.9 Consensus size: 47
99634486 TGACATTTGG
* * *
99634496 ATGAAATGTGAGCTAGTGTAAGACCATGTCTGAGACATGCCATCGACC
1 ATGATATGAGAGCTAGTGTAAGACCATGTCTG-GACATGGCATCGACC
* * * * *
99634544 ACGATATGAGAGCCAATGTAAGACCATG-CTTGGAACATGGCATTG-GC
1 ATGATATGAGAGCTAGTGTAAGACCATGTC-TGG-ACATGGCATCGACC
* * * * *
99634591 ATTGAAATGTGAGCTAGTCTAAGACCACGTCTGGGACATGGCAT-AAGCC
1 A-TGATATGAGAGCTAGTGTAAGACCATGTCT-GGACATGGCATCGA-CC
* * * *
99634640 ACGATATGAGAGCTAGAGTAAGACCATGTTTGGAACATGGCATC-AGC
1 ATGATATGAGAGCTAGTGTAAGACCATGTCTGG-ACATGGCATCGACC
* * * * * *
99634687 ATTGAAATGTGAGCTAGTGTAATACCATTTCTGGAACATGGCGTCGGCC
1 A-TGATATGAGAGCTAGTGTAAGACCATGTCTGG-ACATGGCATCGACC
* *
99634736 ATGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTG-GC
1 ATGATATGAGAGCTAGTGTAAGACCATGTCT-GGACATGGCATCGACC
* * * *
99634783 ATTGAGACGAGAGCTAGTGTAAGACCATGTCTGGGAGATGGCATCGGCC
1 A-TGATATGAGAGCTAGTGTAAGACCATGTCT-GGACATGGCATCGACC
* * * *
99634832 -TCGACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC
1 AT-GATATGAGAGCTAGTGTAAGACCATGTCTGG-ACATGGCATC
99634876 CACAATTCAC
Statistics
Matches: 263, Mismatches: 53, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
47 13 0.05
48 240 0.91
49 10 0.04
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
ATGATATGAGAGCTAGTGTAAGACCATGTCTGGACATGGCATCGACC
Found at i:99634661 original size:96 final size:96
Alignment explanation
Indices: 99634497--99634874 Score: 488
Period size: 96 Copynumber: 3.9 Consensus size: 96
99634487 GACATTTGGA
* * *
99634497 TGAAATGTGAGCTAGTGTAAGACCATGTCTGAGACATGCCATCGACCACGATATGAGAGCCA-AT
1 TGAAATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGA-
*
99634561 GTAAGACCATGCTTGGAACATGGCATTGGCAT
65 GTAAGACCATGTTTGGAACATGGCATTGGCAT
* * ** *
99634593 TGAAATGTGAGCTAGTCTAAGACCACGTCTGGGACATGGCATAAGCCACGATATGAGAGCTAGAG
1 TGAAATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGAG
**
99634658 TAAGACCATGTTTGGAACATGGCATCAGCAT
66 TAAGACCATGTTTGGAACATGGCATTGGCAT
* * * * * * *
99634689 TGAAATGTGAGCTAGTGTAATACCATTTCTGGAACATGGCGTCGGCCATGATATGAGAGCTAGTG
1 TGAAATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGAG
* *
99634754 TAAGACCATGTCTGGGACATGGCATTGGCAT
66 TAAGACCATGTTTGGAACATGGCATTGGCAT
* * * * * * * *
99634785 TGAGACGAGAGCTAGTGTAAGACCATGTCTGGGAGATGGCATCGGCCTCGACATGTGAGCCAGTG
1 TGAAATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGAG
99634850 TAAGACCATGTTTGGAACATGGCAT
66 TAAGACCATGTTTGGAACATGGCAT
99634875 CCACAATTCA
Statistics
Matches: 241, Mismatches: 40, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
96 240 1.00
97 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (96 bp):
TGAAATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCAGAG
TAAGACCATGTTTGGAACATGGCATTGGCAT
Found at i:99634767 original size:144 final size:144
Alignment explanation
Indices: 99634505--99634875 Score: 410
Period size: 144 Copynumber: 2.6 Consensus size: 144
99634495 GATGAAATGT
* * * * * *
99634505 GAGCTAGTGTAAGACCATGTCT-GAGACATGCCATCGACCA-CGATATGAGAGCCAATGTAAGAC
1 GAGCTAGAGTAAGACCATGTCTGGA-ACATGGCATC-AGCATCGAAATGTGAGCCAGTGTAAGAC
* * *
99634568 CATGCTTGGAACATGGCATTGGCATTGAAATGTGAGCTAGTCTAAGACCACGTCTGGGACATGGC
64 CATGTTTGGAACATGGCATCGGCATTGAAATGAGAGCTAGTCTAAGACCACGTCTGGGACATGGC
* *
99634633 ATAAGCCA-CGATATGA
129 AT-AGCCATCGAGACGA
* * * *
99634649 GAGCTAGAGTAAGACCATGTTTGGAACATGGCATCAGCATTGAAATGTGAGCTAGTGTAATACCA
1 GAGCTAGAGTAAGACCATGTCTGGAACATGGCATCAGCATCGAAATGTGAGCCAGTGTAAGACCA
* * * *
99634714 T-TTCTGGAACATGGCGTCGGCCA-TGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGC
66 TGTT-TGGAACATGGCATCGG-CATTGAAATGAGAGCTAGTCTAAGACCACGTCTGGGACATGGC
* * *
99634777 ATTGGCATTGAGACGA
129 ATAGCCATCGAGACGA
* * * * * *
99634793 GAGCTAGTGTAAGACCATGTCTGGGAGATGGCATCGGCCTCGACATGTGAGCCAGTGTAAGACCA
1 GAGCTAGAGTAAGACCATGTCTGGAACATGGCATCAGCATCGAAATGTGAGCCAGTGTAAGACCA
99634858 TGTTTGGAACATGGCATC
66 TGTTTGGAACATGGCATC
99634876 CACAATTCAC
Statistics
Matches: 188, Mismatches: 33, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
143 7 0.04
144 175 0.93
145 6 0.03
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (144 bp):
GAGCTAGAGTAAGACCATGTCTGGAACATGGCATCAGCATCGAAATGTGAGCCAGTGTAAGACCA
TGTTTGGAACATGGCATCGGCATTGAAATGAGAGCTAGTCTAAGACCACGTCTGGGACATGGCAT
AGCCATCGAGACGA
Found at i:99636599 original size:28 final size:29
Alignment explanation
Indices: 99636568--99636624 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
99636558 TAAAGTGATT
*
99636568 TTTGACAAAAATGTCAATT-AGGGATTAA
1 TTTGACAAAAATGTAAATTAAGGGATTAA
* *
99636596 TTTGAGAAAAATGTAAATTAAGGGGTTAA
1 TTTGACAAAAATGTAAATTAAGGGATTAA
99636625 ATTGTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.32
Consensus pattern (29 bp):
TTTGACAAAAATGTAAATTAAGGGATTAA
Found at i:99636624 original size:29 final size:28
Alignment explanation
Indices: 99636568--99636633 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
99636558 TAAAGTGATT
* *
99636568 TTTGACAAAAATGTCAATTAGGGATTAA
1 TTTGAGAAAAATGTAAATTAGGGATTAA
*
99636596 TTTGAGAAAAATGTAAATTAAGGGGTTAA
1 TTTGAGAAAAATGTAAATT-AGGGATTAA
* *
99636625 ATTGTGAAA
1 TTTGAGAAA
99636634 TAAATGAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 17 0.53
29 15 0.47
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.32
Consensus pattern (28 bp):
TTTGAGAAAAATGTAAATTAGGGATTAA
Done.