Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 163 of 325
Found at i:51580636 original size:46 final size:46
Alignment explanation
Indices: 51580580--51580752 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
51580570 TTGGGATCCG
51580580 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCA
* * * * *
51580626 AACTCATTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCCGA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC-A
** * * * *
51580674 GTCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCA
*
51580720 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51580753 GCGGGTTACA
Statistics
Matches: 99, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 54 0.55
47 5 0.05
48 23 0.23
49 3 0.03
51 3 0.03
52 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCA
Found at i:51586195 original size:46 final size:46
Alignment explanation
Indices: 51586142--51586313 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
51586132 TGGGCATCCG
*
51586142 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCA
* * * * * *
51586188 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG--TCCA
* *
51586235 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCC-A
* *
51586282 GA-TCGTTGAGTTGTGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
51586314 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 56 0.56
47 27 0.27
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCA
Found at i:51586293 original size:93 final size:93
Alignment explanation
Indices: 51586134--51586305 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
51586124 AGGATATTTG
* *
51586134 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCAAACTCGTTGAG
51586199 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* *
51586227 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAGA-TCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCC-AAACTCGTTGA
*
51586291 GTTGTGTCCGAGTTC
65 GTTGAGTCCGAGTTC
51586306 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 71 0.97
94 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCAAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:51588244 original size:25 final size:26
Alignment explanation
Indices: 51588199--51588250 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
51588189 TTAAATACCT
*
51588199 ATATTAATAGTATTTTATTAAT-TTA
1 ATATTAATAGTATTATATTAATATTA
*
51588224 ATATTAA-AGTGATTATCTTAATATTA
1 ATATTAATAGT-ATTATATTAATATTA
51588250 A
1 A
51588251 ATATAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 3 0.13
25 16 0.70
26 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (26 bp):
ATATTAATAGTATTATATTAATATTA
Found at i:51588263 original size:17 final size:19
Alignment explanation
Indices: 51588217--51588265 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
51588207 AGTATTTTAT
51588217 TAATTTAATATTAAAGTGA
1 TAATTTAATATTAAAGTGA
*
51588236 TTATCTTAATATTAAA-T-A
1 TAAT-TTAATATTAAAGTGA
51588254 TAATTTAATATT
1 TAATTTAATATT
51588266 TATCTTGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 8 0.30
18 4 0.15
19 4 0.15
20 11 0.41
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (19 bp):
TAATTTAATATTAAAGTGA
Found at i:51598877 original size:20 final size:21
Alignment explanation
Indices: 51598841--51598888 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
51598831 ATTTTGATAT
*
51598841 ACATGATTTGATATGATATGC
1 ACATGATATGATATGATATGC
51598862 ACATGATATG-TATGATATGC
1 ACATGATATGATATGATATGC
51598882 ACATGAT
1 ACATGAT
51598889 GTATTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (21 bp):
ACATGATATGATATGATATGC
Found at i:51599006 original size:24 final size:25
Alignment explanation
Indices: 51598936--51599001 Score: 91
Period size: 24 Copynumber: 2.7 Consensus size: 25
51598926 GAGGAAGTGC
*
51598936 AAAAGGGCTTTGCCCCAGTTTACCGA
1 AAAAGGGCTTTGCCCCAGTTTATC-A
51598962 AAAA-GGCTTTG-CCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
51598985 AAAAGGGTTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
51599002 ATTATTAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
23 5 0.14
24 16 0.44
25 11 0.31
26 4 0.11
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:51599287 original size:30 final size:32
Alignment explanation
Indices: 51599251--51599315 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
51599241 TGATATGAGT
*
51599251 TGTGAATTAT-AAAATGCTTCGGCCCAGTA-A
1 TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
* *
51599281 TGTGAATTATGAAGAGGCTTCGGCCTAGTATA
1 TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
51599313 TGT
1 TGT
51599316 TGAGATTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 10 0.33
31 16 0.53
32 4 0.13
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (32 bp):
TGTGAATTATGAAAAGGCTTCGGCCCAGTATA
Found at i:51609088 original size:20 final size:20
Alignment explanation
Indices: 51609032--51609088 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
51609022 AAGTTTATGC
* *
51609032 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGGAATGGTAAG
*
51609052 TAAGTAAATTGAATGGTAAG
1 TAAGTAAATGGAATGGTAAG
*
51609072 TAAGTAAATGGAGTGGT
1 TAAGTAAATGGAATGGT
51609089 TTATAATCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.46, C:0.00, G:0.28, T:0.26
Consensus pattern (20 bp):
TAAGTAAATGGAATGGTAAG
Found at i:51621594 original size:24 final size:23
Alignment explanation
Indices: 51621567--51621628 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 23
51621557 TGAGCTAAAT
51621567 AGGAAACTCATAAGAGTTTTAATC
1 AGGAAACTCATAAGAGTTTTAA-C
* *
51621591 AGGAAGCTTAT-AGAG-TTTAAC
1 AGGAAACTCATAAGAGTTTTAAC
*
51621612 AGGTAACTC-TGAAGAGT
1 AGGAAACTCAT-AAGAGT
51621629 CATTATCAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
20 1 0.03
21 7 0.23
22 9 0.30
23 4 0.13
24 9 0.30
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (23 bp):
AGGAAACTCATAAGAGTTTTAAC
Found at i:51625769 original size:40 final size:40
Alignment explanation
Indices: 51625707--51625884 Score: 218
Period size: 40 Copynumber: 4.5 Consensus size: 40
51625697 CAACCAAGTA
* * * *
51625707 CCTTCGGGATTTA-ACCGGATATAGCT-ACCCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACGAATG
*
51625746 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
*
51625786 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
* * * * *
51625826 CCTTCGGGACTTAGCCCGGGA-CTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCC-GGATATAGTAACTCGCACGAATG
51625866 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
51625885 TTATCATCCA
Statistics
Matches: 125, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 14 0.11
40 108 0.86
41 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
Found at i:51638153 original size:27 final size:26
Alignment explanation
Indices: 51638120--51638491 Score: 191
Period size: 27 Copynumber: 13.8 Consensus size: 26
51638110 TTAGTTTACC
* *
51638120 AAATTACAAAAATACCCCTGGTTTGT
1 AAATTACCAAAATACCCCTGATTTGT
*
51638146 AAAGTTACCAAAATACCCCTAATTTGT
1 AAA-TTACCAAAATACCCCTGATTTGT
** *
51638173 GAAATTACTGAAATA-CCCTCGACTTGT
1 -AAATTACCAAAATACCCCT-GATTTGT
* * **
51638200 AACATTACCAAAATACCCTTGGTTTACA
1 AA-ATTACCAAAATACCCCTGATTT-GT
*
51638228 AAATTACCAAAATACCCCTGGTTTGT
1 AAATTACCAAAATACCCCTGATTTGT
51638254 AAAATTACCAAAATACCCCTGATTTGT
1 -AAATTACCAAAATACCCCTGATTTGT
* * * *
51638281 GAAATTATCGAAATA-CCCTCAGTTTGCA
1 -AAATTACCAAAATACCCCTGA-TTTG-T
*
51638309 AAATTACTAAAATA-CCCTCGATTTGT
1 AAATTACCAAAATACCCCT-GATTTGT
*** *
51638335 AAAATTAATGAAATA-CCCTCGACTTGTT
1 -AAATTACCAAAATACCCCT-GATTTG-T
* * **
51638363 AAAATTACCAAAGTACCCCCGATTTAC
1 -AAATTACCAAAATACCCCTGATTTGT
*** **
51638390 AGAATTACCATTTTA-CCCTCGATTTACA
1 A-AATTACCAAAATACCCCT-GATTT-GT
** **
51638418 AAATTATTAAAATACCCCTG-TAGGGT
1 AAATTACCAAAATACCCCTGAT-TTGT
**
51638444 AGAATTACCAAAATACCCCTG-TAAGGT
1 A-AATTACCAAAATACCCCTGAT-TTGT
51638471 AGAATTACCAAAATACCCCTG
1 A-AATTACCAAAATACCCCTG
51638492 TAGGGTAGAA
Statistics
Matches: 270, Mismatches: 57, Indels: 37
0.74 0.16 0.10
Matches are distributed among these distances:
26 20 0.07
27 217 0.80
28 30 0.11
29 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.29
Consensus pattern (26 bp):
AAATTACCAAAATACCCCTGATTTGT
Found at i:51638187 original size:54 final size:55
Alignment explanation
Indices: 51638120--51638387 Score: 253
Period size: 54 Copynumber: 4.9 Consensus size: 55
51638110 TTAGTTTACC
** * * *
51638120 AAATTACAAAAATACCCCT-GGTTTGTAAAGTTACCAAAATACCCCTAATTTGTG
1 AAATTACTGAAATACCCCTCGGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
** * * * **
51638174 AAATTACTGAAATA-CCCTCGACTTGTAACATTACCAAAATACCCTTGGTTTACA
1 AAATTACTGAAATACCCCTCGGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
** *
51638228 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTACTGAAATACCCCTCGGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
* * *
51638282 AAATTA-TCGAAATA-CCCTCAGTTTGCAAAATTACTAAAATA-CCCTCGATTTGTA
1 AAATTACT-GAAATACCCCTCGGTTTGTAAAATTACCAAAATACCCCT-GATTTGTA
* ** * *
51638336 AAATTAATGAAATA-CCCTCGACTTGTTAAAATTACCAAAGTACCCCCGATTT
1 AAATTACTGAAATACCCCTCGGTTTG-TAAAATTACCAAAATACCCCTGATTT
51638388 ACAGAATTAC
Statistics
Matches: 171, Mismatches: 35, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
53 12 0.07
54 133 0.78
55 23 0.13
56 3 0.02
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (55 bp):
AAATTACTGAAATACCCCTCGGTTTGTAAAATTACCAAAATACCCCTGATTTGTA
Found at i:51638259 original size:81 final size:80
Alignment explanation
Indices: 51638120--51638399 Score: 285
Period size: 81 Copynumber: 3.5 Consensus size: 80
51638110 TTAGTTTACC
* * ** * * *
51638120 AAATTACAAAAATACCCCTGGTTTGTAAAGTTACCAAAATACCCCTAATTTGTGAAATTACTGAA
1 AAATTACCAAAATACCCCCGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACTGAA
51638185 ATACCCTCGACTTGT
66 ATACCCTCGACTTGT
** * **
51638200 AACATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
1 AA-ATTACCAAAATACCCCCGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACTGA
*
51638265 AATACCC-CTGATTTGT
65 AATACCCTC-GACTTGT
* * * * * * *
51638281 GAAATTATCGAAATACCCTCAGTTTGCAAAATTACTAAAATA-CCCTCGATTTGTAAAATTAATG
1 -AAATTACCAAAATACCCCCGGTTTACAAAATTACCAAAATACCCCT-GATTTGTAAAATTACTG
51638345 AAATACCCTCGACTTGTT
64 AAATACCCTCGACTTG-T
* * *
51638363 AAAATTACCAAAGTACCCCCGATTTACAGAATTACCA
1 -AAATTACCAAAATACCCCCGGTTTACAAAATTACCA
51638400 TTTTACCCTC
Statistics
Matches: 162, Mismatches: 32, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
80 7 0.04
81 124 0.77
82 31 0.19
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (80 bp):
AAATTACCAAAATACCCCCGGTTTACAAAATTACCAAAATACCCCTGATTTGTAAAATTACTGAA
ATACCCTCGACTTGT
Found at i:51638315 original size:108 final size:108
Alignment explanation
Indices: 51638113--51638326 Score: 324
Period size: 108 Copynumber: 2.0 Consensus size: 108
51638103 GAATACTTTA
* *
51638113 GTTTACCAAATTACAAAAATACCCCTGGTTTGTAAAGTTACCAAAATACCCCTAATTTGTGAAAT
1 GTTTACAAAATTACAAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAAT
* *
51638178 TACTGAAATACCCTCGACTTGTAACATTACCAAAATACCCTTG
66 TACTGAAATACCCTCGACTTGCAAAATTACCAAAATACCCTTG
* *
51638221 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTGAAAT
1 GTTTACAAAATTACAAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAAT
* *
51638286 TA-TCGAAATACCCTC-AGTTTGCAAAATTACTAAAATACCCT
66 TACT-GAAATACCCTCGA-CTTGCAAAATTACCAAAATACCCT
51638327 CGATTTGTAA
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 2 0.02
108 94 0.98
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (108 bp):
GTTTACAAAATTACAAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAAT
TACTGAAATACCCTCGACTTGCAAAATTACCAAAATACCCTTG
Found at i:51638492 original size:27 final size:27
Alignment explanation
Indices: 51638426--51638561 Score: 191
Period size: 27 Copynumber: 5.0 Consensus size: 27
51638416 CAAAATTATT
51638426 AAAATACCCCTGTAGGGTAGAATTACC
1 AAAATACCCCTGTAGGGTAGAATTACC
*
51638453 AAAATACCCCTGTAAGGTAGAATTACC
1 AAAATACCCCTGTAGGGTAGAATTACC
*
51638480 AAAATACCCCTGTAGGGTAGAATTACT
1 AAAATACCCCTGTAGGGTAGAATTACC
* *
51638507 GAAATACCCCTGTAGGATAGAATTACC
1 AAAATACCCCTGTAGGGTAGAATTACC
* * ** *
51638534 GAGATACCTTTGTAGGGTAAAATTACC
1 AAAATACCCCTGTAGGGTAGAATTACC
51638561 A
1 A
51638562 TTTTGCCCCT
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (27 bp):
AAAATACCCCTGTAGGGTAGAATTACC
Found at i:51638798 original size:25 final size:25
Alignment explanation
Indices: 51638764--51638830 Score: 98
Period size: 25 Copynumber: 2.7 Consensus size: 25
51638754 AGGAAGTGCT
*
51638764 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
51638789 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
51638814 AAAAGGGTTTTACCCCA
1 AAAAGGGCTTTGCCCCA
51638831 AATATTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:51642935 original size:34 final size:35
Alignment explanation
Indices: 51642883--51642955 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 35
51642873 TTCCATGCTA
* *
51642883 AATTCAATTCAAAAATGTAGAT-ATACATACATAC
1 AATTCAATTCAAAAATGTACATAATAAATACATAC
* ** *
51642917 AATTCAATTCGACTATGTACATAATAAATACATTC
1 AATTCAATTCAAAAATGTACATAATAAATACATAC
51642952 AATT
1 AATT
51642956 TAACATCATT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 18 0.56
35 14 0.44
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (35 bp):
AATTCAATTCAAAAATGTACATAATAAATACATAC
Found at i:51647073 original size:26 final size:26
Alignment explanation
Indices: 51647044--51647117 Score: 61
Period size: 26 Copynumber: 3.0 Consensus size: 26
51647034 ATACTATGAG
51647044 TTGGCTTCAAGCCATGATATAGCACT
1 TTGGCTTCAAGCCATGATATAGCACT
* * * *
51647070 TTGGGTGCGAG--AT-AAACT-G-A-T
1 TTGGCTTCAAGCCATGATA-TAGCACT
51647091 TTGGCTTCAAGCCATGATATAGCACT
1 TTGGCTTCAAGCCATGATATAGCACT
51647117 T
1 T
51647118 CGAGTGGGAG
Statistics
Matches: 33, Mismatches: 8, Indels: 14
0.60 0.15 0.25
Matches are distributed among these distances:
21 9 0.27
22 1 0.03
23 6 0.18
24 6 0.18
25 1 0.03
26 10 0.30
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (26 bp):
TTGGCTTCAAGCCATGATATAGCACT
Found at i:51647153 original size:47 final size:47
Alignment explanation
Indices: 51647044--51647145 Score: 168
Period size: 47 Copynumber: 2.2 Consensus size: 47
51647034 ATACTATGAG
* * *
51647044 TTGGCTTCAAGCCATGATATAGCACTTTGGGTGCGAGATAAACTGAT
1 TTGGCTTCAAGCCATGATATAGCACTTCGAGTGCGAGATAAACCGAT
*
51647091 TTGGCTTCAAGCCATGATATAGCACTTCGAGTGGGAGATAAACCGAT
1 TTGGCTTCAAGCCATGATATAGCACTTCGAGTGCGAGATAAACCGAT
51647138 TTGGCTTC
1 TTGGCTTC
51647146 GGGCCATGCA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (47 bp):
TTGGCTTCAAGCCATGATATAGCACTTCGAGTGCGAGATAAACCGAT
Found at i:51648490 original size:21 final size:18
Alignment explanation
Indices: 51648464--51648507 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 18
51648454 TTTTAAAATT
51648464 ATAAAAAGATATAAATGAATA
1 ATAAAAAGATA-AAAT-AA-A
*
51648485 ATAAAATGATAAAATAAA
1 ATAAAAAGATAAAATAAA
51648503 ATAAA
1 ATAAA
51648508 TAATAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 2 0.09
20 4 0.18
21 10 0.45
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (18 bp):
ATAAAAAGATAAAATAAA
Found at i:51648506 original size:29 final size:28
Alignment explanation
Indices: 51648457--51648512 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
51648447 TCTAAAGTTT
* *
51648457 TAAAATTATAAAAAGATATAAATGAATAA
1 TAAAATGATAAAAAGAAATAAAT-AATAA
51648486 TAAAATGATAAAATA-AAATAAATAATA
1 TAAAATGATAAAA-AGAAATAAATAATA
51648513 GTTAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.17
29 19 0.79
30 1 0.04
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (28 bp):
TAAAATGATAAAAAGAAATAAATAATAA
Found at i:51648518 original size:29 final size:29
Alignment explanation
Indices: 51648456--51648518 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 29
51648446 ATCTAAAGTT
* *
51648456 TTAAAATTATAAAAAGATATAAATGAATA
1 TTAAAATGATAAAAAGAAATAAATGAATA
*
51648485 ATAAAATGATAAAATA-AAATAAAT-AATA
1 TTAAAATGATAAAA-AGAAATAAATGAATA
51648513 GTTAAA
1 -TTAAA
51648519 TATTAGGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 4 0.14
29 23 0.82
30 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (29 bp):
TTAAAATGATAAAAAGAAATAAATGAATA
Found at i:51648690 original size:79 final size:76
Alignment explanation
Indices: 51648590--51648737 Score: 176
Period size: 79 Copynumber: 1.9 Consensus size: 76
51648580 TCAAGGATAC
* *
51648590 AATAATATAATAATAATTAAATAAGCAT-AA-AAAAGAAAATATAATTATAGTA-ATAATAACAT
1 AATAATAGAATAATAATTAAATAA--ATAAATAAAAGAAAATATAATGATAGTAGA-AATAACAT
51648652 TAAATTAACTAATTT
63 T-AATTAACTAATTT
* * *
51648667 AATAATAGAATGATAATGATAAATTAATAAATAAAAGAAAATATAATGATAGTAGAAATAATATT
1 AATAATAGAATAATAAT--TAAATAAATAAATAAAAGAAAATATAATGATAGTAGAAATAACATT
51648732 AATTAA
64 AATTAA
51648738 TTTAGTAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
77 17 0.28
78 8 0.13
79 35 0.57
80 1 0.02
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (76 bp):
AATAATAGAATAATAATTAAATAAATAAATAAAAGAAAATATAATGATAGTAGAAATAACATTAA
TTAACTAATTT
Found at i:51651670 original size:92 final size:95
Alignment explanation
Indices: 51651547--51651723 Score: 270
Period size: 92 Copynumber: 1.9 Consensus size: 95
51651537 TGTATGTGAC
* ** * *
51651547 AAGTTTGGGTAATTGTATTGTAAGTCTGGTAATACTCTGTAACCCTATTTCGGCATTGAATATGA
1 AAGTTTGGGTAATTGTATTGTAAGTCCGGTAATACTCCATAACCCTATTCCGGCATTGAATACGA
51651612 GTGAGG-GTGTTACA-TTTTATTGGTATCA
66 GTGAGGAGTGTTACACTTTTATTGGTATCA
**
51651640 AAGTTT-GGTAATTGTATTGTAAGTCCGGTAATACTCCATAACCCTATTCCGGTGTTGAATACGA
1 AAGTTTGGGTAATTGTATTGTAAGTCCGGTAATACTCCATAACCCTATTCCGGCATTGAATACGA
51651704 GTGAGGAGTGTTACACTTTT
66 GTGAGGAGTGTTACACTTTT
51651724 CTAGACAATC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
92 57 0.76
93 14 0.19
94 4 0.05
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (95 bp):
AAGTTTGGGTAATTGTATTGTAAGTCCGGTAATACTCCATAACCCTATTCCGGCATTGAATACGA
GTGAGGAGTGTTACACTTTTATTGGTATCA
Found at i:51658162 original size:23 final size:24
Alignment explanation
Indices: 51658136--51658185 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
51658126 CCTATACTTG
51658136 TGATGTATGAAATGTG-GTGAAAA
1 TGATGTATGAAATGTGTGTGAAAA
* * * *
51658159 TGATTTGTGATATGTGTGTTAAAA
1 TGATGTATGAAATGTGTGTGAAAA
51658183 TGA
1 TGA
51658186 GGTTAATACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.28, T:0.38
Consensus pattern (24 bp):
TGATGTATGAAATGTGTGTGAAAA
Found at i:51660233 original size:27 final size:27
Alignment explanation
Indices: 51660173--51660372 Score: 204
Period size: 27 Copynumber: 7.3 Consensus size: 27
51660163 GTATAGCTAC
51660173 AAGTGTGCGATTTGAGCTATGATTGCACT
1 AAGTGTGCGATTTGA-CTATG-TTGCACT
*
51660202 AAGTGTGCGATTTGACCATGTTGCACT
1 AAGTGTGCGATTTGACTATGTTGCACT
** ** *
51660229 AAGTGTGCGAAATGAAAATGATGCACT
1 AAGTGTGCGATTTGACTATGTTGCACT
* * *
51660256 AAGTGTGCGAATTGACCATG-CGCACT
1 AAGTGTGCGATTTGACTATGTTGCACT
* *
51660282 AAGTGTGCGAGTTGACTATGTAGCACT
1 AAGTGTGCGATTTGACTATGTTGCACT
* *
51660309 AAGTGTGCGAGTTTGATTATGTGGCACT
1 AAGTGTGCGA-TTTGACTATGTTGCACT
* * * *
51660337 AAGTGTGCGAGTTGATTATATAGCACT
1 AAGTGTGCGATTTGACTATGTTGCACT
*
51660364 GAGTGTGCG
1 AAGTGTGCG
51660373 GACTTAATAT
Statistics
Matches: 149, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
26 23 0.15
27 83 0.56
28 28 0.19
29 15 0.10
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AAGTGTGCGATTTGACTATGTTGCACT
Found at i:51660346 original size:55 final size:54
Alignment explanation
Indices: 51660173--51660372 Score: 224
Period size: 55 Copynumber: 3.7 Consensus size: 54
51660163 GTATAGCTAC
* * *
51660173 AAGTGTGCGATTTGAGCTATGATTGCACTAAGTGTGCGATTTGACCATGTTGCACT
1 AAGTGTGCGAGTTGA-CTATG-TAGCACTAAGTGTGCGATTTGACCATGTCGCACT
** ** *
51660229 AAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATG-CGCACT
1 AAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTCGCACT
** *
51660282 AAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTGGCACT
1 AAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTCGCACT
* * *
51660337 AAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
51660373 GACTTAATAT
Statistics
Matches: 122, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
53 36 0.30
54 32 0.26
55 41 0.34
56 13 0.11
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (54 bp):
AAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTCGCACT
Found at i:51668317 original size:27 final size:27
Alignment explanation
Indices: 51668280--51668483 Score: 223
Period size: 27 Copynumber: 7.6 Consensus size: 27
51668270 TAAATTGTAC
*
51668280 AGCACTAAGTGTGCGATTTGGCTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
51668307 AGCACTAAGTGTGCGATTTGACCATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** **
51668334 TGCACTAAGTGTGCGAAATGAAAATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
51668360 ATGCACTAAGTGTGCGAATTGACCATG-
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
51668387 CGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
51668414 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
51668442 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
51668469 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
51668484 GACTTAATAT
Statistics
Matches: 152, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
26 23 0.15
27 105 0.69
28 24 0.16
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:51668341 original size:54 final size:54
Alignment explanation
Indices: 51668281--51668483 Score: 248
Period size: 54 Copynumber: 3.8 Consensus size: 54
51668271 AAATTGTACA
* * *
51668281 GCACTAAGTGTGCGATTTGGCTATGTAGCACTAAGTGTGCGATTTGACCATGTT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTC
** ** *
51668335 GCACTAAGTGTGCGAAATGAAAATG-ATGCACTAAGTGTGCGAATTGACCATG-C
1 GCACTAAGTGTGCGAGTTGACTATGTA-GCACTAAGTGTGCGATTTGACCATGTC
** *
51668388 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGA-TTTGACCATGTC
* * *
51668443 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
51668484 GACTTAATAT
Statistics
Matches: 127, Mismatches: 18, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
53 37 0.29
54 52 0.41
55 38 0.30
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGACCATGTC
Found at i:51670634 original size:27 final size:27
Alignment explanation
Indices: 51670604--51670689 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 27
51670594 ATGAATGCTT
51670604 GATGATTAAGCTGAAGATATTTGGTAA
1 GATGATTAAGCTGAAGATATTTGGTAA
* * * *
51670631 GATGA-TAA-CTTTAA-ATATGAATGCT-T
1 GATGATTAAGC-TGAAGATAT--TTGGTAA
51670657 GATGATTAAGCTGAAGATATTTGGTAA
1 GATGATTAAGCTGAAGATATTTGGTAA
51670684 GATGAT
1 GATGAT
51670690 AATCTTGGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
25 5 0.11
26 14 0.32
27 20 0.45
28 5 0.11
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (27 bp):
GATGATTAAGCTGAAGATATTTGGTAA
Found at i:51670648 original size:53 final size:53
Alignment explanation
Indices: 51670583--51670691 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
51670573 AGATATGGTC
51670583 TAACTTTAAATATGAATGCTTGATGATTAAGCTGAAGATATTTGGTAAGATGA
1 TAACTTTAAATATGAATGCTTGATGATTAAGCTGAAGATATTTGGTAAGATGA
51670636 TAACTTTAAATATGAATGCTTGATGATTAAGCTGAAGATATTTGGTAAGATGA
1 TAACTTTAAATATGAATGCTTGATGATTAAGCTGAAGATATTTGGTAAGATGA
51670689 TAA
1 TAA
51670692 TCTTGGTATA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.36
Consensus pattern (53 bp):
TAACTTTAAATATGAATGCTTGATGATTAAGCTGAAGATATTTGGTAAGATGA
Found at i:51673033 original size:24 final size:24
Alignment explanation
Indices: 51672984--51673033 Score: 57
Period size: 26 Copynumber: 2.0 Consensus size: 24
51672974 GGAGTTTCGA
*
51672984 TTTTTTTTTTAGCTCATTTAATTTTT
1 TTTTTTTTTTAG--CATTTAAGTTTT
51673010 TTTTTTTTTTAG-ATTTGAAGTTTT
1 TTTTTTTTTTAGCATTT-AAGTTTT
51673034 CTAAATTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 4 0.18
24 6 0.27
26 12 0.55
ACGTcount: A:0.16, C:0.04, G:0.08, T:0.72
Consensus pattern (24 bp):
TTTTTTTTTTAGCATTTAAGTTTT
Found at i:51675413 original size:46 final size:46
Alignment explanation
Indices: 51675343--51675435 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
51675333 CTTAATTGCA
* *
51675343 ATTAAGAGTTTTAGTTTTATTTATTTTCTTTATTATATCAGGTTTT
1 ATTAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGGTTTT
* *
51675389 ATTAAGAGTTTTGGTTTTACTTATTTTCTCTATTATATTAGGTTTT
1 ATTAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGGTTTT
51675435 A
1 A
51675436 ATTTCCTTCG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.24, C:0.05, G:0.12, T:0.59
Consensus pattern (46 bp):
ATTAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGGTTTT
Found at i:51677606 original size:20 final size:19
Alignment explanation
Indices: 51677575--51677646 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
51677565 AATTACACCA
51677575 AAAATATTTAAAATAATTTT
1 AAAAT-TTTAAAATAATTTT
51677595 CAAAATTTTAAAATAATTTTT
1 -AAAATTTTAAAATAA-TTTT
*
51677616 AAAA-TTCAAAAT-ATTTAT
1 AAAATTTTAAAATAATTT-T
*
51677634 AAAATTTAAAAAT
1 AAAATTTTAAAAT
51677647 TCTAAAGAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
17 3 0.07
18 6 0.13
19 14 0.30
20 14 0.30
21 9 0.20
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTTTAAAATAATTTT
Found at i:51677628 original size:19 final size:19
Alignment explanation
Indices: 51677580--51677644 Score: 87
Period size: 20 Copynumber: 3.4 Consensus size: 19
51677570 CACCAAAAAT
*
51677580 ATTTAAAATAATTTTCAAA
1 ATTTAAAATAATTTTTAAA
51677599 ATTTTAAAATAATTTTTAAA
1 A-TTTAAAATAATTTTTAAA
* *
51677619 ATTCAAAAT-ATTTATAAA
1 ATTTAAAATAATTTTTAAA
51677637 ATTTAAAA
1 ATTTAAAA
51677645 ATTCTAAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
18 15 0.37
19 8 0.20
20 18 0.44
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (19 bp):
ATTTAAAATAATTTTTAAA
Found at i:51677636 original size:18 final size:19
Alignment explanation
Indices: 51677584--51677644 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 19
51677574 AAAAATATTT
*
51677584 AAAATAATTT-TCAAAATTTT
1 AAAATAATTTAT-AAAA-TTC
*
51677604 AAAATAATTTTTAAAATTC
1 AAAATAATTTATAAAATTC
*
51677623 AAAAT-ATTTATAAAATTT
1 AAAATAATTTATAAAATTC
51677641 AAAA
1 AAAA
51677645 ATTCTAAAGA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 15 0.41
19 7 0.19
20 14 0.38
21 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AAAATAATTTATAAAATTC
Found at i:51679165 original size:20 final size:20
Alignment explanation
Indices: 51679128--51679167 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
51679118 TAAAAAATAC
*
51679128 TTTTAAAAATATTTTTAAAT
1 TTTTAAAAATATTATTAAAT
51679148 TTTTAAAAA-ATTGATTAAAT
1 TTTTAAAAATATT-ATTAAAT
51679168 GTTATGTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTTAAAAATATTATTAAAT
Found at i:51682318 original size:42 final size:42
Alignment explanation
Indices: 51682246--51682355 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 42
51682236 TGAGTTTCCG
* ** * * * *
51682246 TTCAACCCTAATGGGTTCCCGTTCAGCTCTTTTGAACTTCTG
1 TTCAACCCTTATGGGTTTTCATTCACCTCTTATGAACTTCTA
* **
51682288 TTTAACCCTTATGGGTTTTCATTCACCTCTTATGGGCTTCTA
1 TTCAACCCTTATGGGTTTTCATTCACCTCTTATGAACTTCTA
*
51682330 TTCAACCTTTATGGG-TTTCTATTCAC
1 TTCAACCCTTATGGGTTTTC-ATTCAC
51682356 TTATGTGCTT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 4 0.07
42 51 0.93
ACGTcount: A:0.17, C:0.25, G:0.15, T:0.43
Consensus pattern (42 bp):
TTCAACCCTTATGGGTTTTCATTCACCTCTTATGAACTTCTA
Found at i:51682321 original size:21 final size:21
Alignment explanation
Indices: 51682295--51682355 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 21
51682285 CTGTTTAACC
51682295 CTTATGGGTTT-TCATTCACCT
1 CTTATGGGTTTCT-ATTCACCT
*
51682316 CTTATGGGCTTCTATTCAACCT
1 CTTATGGGTTTCTATTC-ACCT
51682338 -TTATGGGTTTCTATTCAC
1 CTTATGGGTTTCTATTCAC
51682356 TTATGTGCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 2 0.06
21 29 0.81
22 5 0.14
ACGTcount: A:0.16, C:0.23, G:0.15, T:0.46
Consensus pattern (21 bp):
CTTATGGGTTTCTATTCACCT
Found at i:51685985 original size:8 final size:8
Alignment explanation
Indices: 51685967--51686004 Score: 67
Period size: 8 Copynumber: 4.8 Consensus size: 8
51685957 AAATTAAAAA
*
51685967 ATTAAAAC
1 ATTAAATC
51685975 ATTAAATC
1 ATTAAATC
51685983 ATTAAATC
1 ATTAAATC
51685991 ATTAAATC
1 ATTAAATC
51685999 ATTAAA
1 ATTAAA
51686005 ACAATTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (8 bp):
ATTAAATC
Found at i:51685987 original size:24 final size:24
Alignment explanation
Indices: 51685959--51686004 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
51685949 ATATTGATAA
51685959 ATTAAAAAATTAAAACATTAAATC
1 ATTAAAAAATTAAAACATTAAATC
** *
51685983 ATTAAATCATTAAATCATTAAA
1 ATTAAAAAATTAAAACATTAAA
51686005 ACAATTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.33
Consensus pattern (24 bp):
ATTAAAAAATTAAAACATTAAATC
Found at i:51686209 original size:20 final size:20
Alignment explanation
Indices: 51686184--51686221 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51686174 TTACTTTCAA
51686184 AATTAAGTTTTGGCATAAGG
1 AATTAAGTTTTGGCATAAGG
* *
51686204 AATTAATTTTTGGTATAA
1 AATTAAGTTTTGGCATAA
51686222 AAAGATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.18, T:0.42
Consensus pattern (20 bp):
AATTAAGTTTTGGCATAAGG
Found at i:51686862 original size:20 final size:20
Alignment explanation
Indices: 51686837--51686901 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 20
51686827 CAAAACCTTA
51686837 CAAAAAAATTGAGGTAATAC
1 CAAAAAAATTGAGGTAATAC
*
51686857 CAAAAAATATT-ACAGT-ATAC
1 CAAAAAA-ATTGA-GGTAATAC
51686877 C-AAAAAATATGAGG-AAGTAC
1 CAAAAAAAT-TGAGGTAA-TAC
51686897 CAAAA
1 CAAAA
51686902 TTTTGAAGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
18 2 0.06
19 8 0.22
20 18 0.50
21 8 0.22
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.18
Consensus pattern (20 bp):
CAAAAAAATTGAGGTAATAC
Found at i:51687040 original size:19 final size:20
Alignment explanation
Indices: 51687014--51687056 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
51687004 TCATGGATGC
*
51687014 ATACCAAAAAGTATGAGGAA
1 ATACAAAAAAGTATGAGGAA
*
51687034 ATACAAAAAATTATGAGGAA
1 ATACAAAAAAGTATGAGGAA
51687054 ATA
1 ATA
51687057 AATATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.58, C:0.07, G:0.16, T:0.19
Consensus pattern (20 bp):
ATACAAAAAAGTATGAGGAA
Found at i:51687185 original size:20 final size:19
Alignment explanation
Indices: 51687135--51687191 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
51687125 TGAAAGTACA
*
51687135 AAAAATGATGAGCGAATAAC
1 AAAAATGATGAG-GGATAAC
*
51687155 AAACAA-CATGAGAGGATAAC
1 AAA-AATGATGAG-GGATAAC
51687175 AAAAATGATGAGGGATA
1 AAAAATGATGAGGGATA
51687192 CCAATTTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 7 0.23
20 22 0.71
21 2 0.06
ACGTcount: A:0.54, C:0.09, G:0.23, T:0.14
Consensus pattern (19 bp):
AAAAATGATGAGGGATAAC
Found at i:51687296 original size:106 final size:106
Alignment explanation
Indices: 51687111--51687323 Score: 399
Period size: 106 Copynumber: 2.0 Consensus size: 106
51687101 TATGAGGGAA
*
51687111 TACGAAAAAATATTTGAAAGTACAAAAAATGATGAGCGAATAACAAACAACATGAGAGGATAACA
1 TACGAAAAAATATTTGAAAGTACAAAAAATGATGAGAGAATAACAAACAACATGAGAGGATAACA
51687176 AAAATGATGAGGGATACCAATTTTTGGTTCTTCTAAATAAT
66 AAAATGATGAGGGATACCAATTTTTGGTTCTTCTAAATAAT
*
51687217 TACGAAAAAATATTTGAAAGTACAAAAAATTATGAGAGAATAACAAACAACATGAGAGGATAACA
1 TACGAAAAAATATTTGAAAGTACAAAAAATGATGAGAGAATAACAAACAACATGAGAGGATAACA
*
51687282 AAAATGGTGAGGGATACCAATTTTTGGTTCTTCTAAATAAT
66 AAAATGATGAGGGATACCAATTTTTGGTTCTTCTAAATAAT
51687323 T
1 T
51687324 TTTCCATTTA
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 104 1.00
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.25
Consensus pattern (106 bp):
TACGAAAAAATATTTGAAAGTACAAAAAATGATGAGAGAATAACAAACAACATGAGAGGATAACA
AAAATGATGAGGGATACCAATTTTTGGTTCTTCTAAATAAT
Found at i:51687580 original size:22 final size:22
Alignment explanation
Indices: 51687528--51687583 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 22
51687518 AGGAATATCC
51687528 AAAATTATGAG-GAA-ATACAA
1 AAAATTATGAGAGAATATACAA
* *
51687548 AAAATTA--AGAGAATGTATAA
1 AAAATTATGAGAGAATATACAA
51687568 AAAATTATGAGAGAAT
1 AAAATTATGAGAGAAT
51687584 TGTTAGTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 2 0.07
19 3 0.10
20 18 0.60
22 7 0.23
ACGTcount: A:0.59, C:0.02, G:0.16, T:0.23
Consensus pattern (22 bp):
AAAATTATGAGAGAATATACAA
Found at i:51690103 original size:43 final size:43
Alignment explanation
Indices: 51690056--51690144 Score: 97
Period size: 43 Copynumber: 2.1 Consensus size: 43
51690046 GTAATTCGAT
* *
51690056 ATCGAAGCCTCTATCCCAAATAGGGTCTTACACGAAATCTCAA
1 ATCGAAGCCTCTATCCCAAACACGGTCTTACACGAAATCTCAA
* * * * * * *
51690099 ATCGAGGCCTGTGTCCCAGACACGGTCTTACATGATATTTCAA
1 ATCGAAGCCTCTATCCCAAACACGGTCTTACACGAAATCTCAA
51690142 ATC
1 ATC
51690145 AAATTTGACA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
ATCGAAGCCTCTATCCCAAACACGGTCTTACACGAAATCTCAA
Found at i:51697205 original size:43 final size:43
Alignment explanation
Indices: 51697147--51697231 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
51697137 GTAATTCGAT
51697147 ATCGAAGCCTCTGTCCCAGACAAGGCCTTACACGAAATCTCAA
1 ATCGAAGCCTCTGTCCCAGACAAGGCCTTACACGAAATCTCAA
* * * * *
51697190 ATCGAGGCCTGTGTCCCAGACACGGTCTTACACGATATCTCA
1 ATCGAAGCCTCTGTCCCAGACAAGGCCTTACACGAAATCTCA
51697232 GATCAAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.21
Consensus pattern (43 bp):
ATCGAAGCCTCTGTCCCAGACAAGGCCTTACACGAAATCTCAA
Found at i:51697547 original size:15 final size:16
Alignment explanation
Indices: 51697527--51697561 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
51697517 GGTACTTAAC
*
51697527 ATTTTAGCCTTT-ACA
1 ATTTTAGACTTTGACA
51697542 ATTTTAGACTTTGACA
1 ATTTTAGACTTTGACA
51697558 ATTT
1 ATTT
51697562 AGTCCATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.49
Consensus pattern (16 bp):
ATTTTAGACTTTGACA
Found at i:51701749 original size:47 final size:47
Alignment explanation
Indices: 51701695--51701982 Score: 432
Period size: 47 Copynumber: 6.1 Consensus size: 47
51701685 TTAGGATTTT
** *
51701695 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
51701742 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
51701789 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
51701836 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
51701883 ATGTGATGAATGTGAGCATACATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
51701930 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
51701977 ATGTGA
1 ATGTGA
51701983 AATATATATA
Statistics
Matches: 216, Mismatches: 25, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 216 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:51701797 original size:25 final size:25
Alignment explanation
Indices: 51701722--51701797 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
51701712 GTGTATATAT
51701722 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
51701747 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
51701769 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
51701794 GTGA
1 GTGA
51701798 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:51701949 original size:141 final size:141
Alignment explanation
Indices: 51701695--51701982 Score: 504
Period size: 141 Copynumber: 2.0 Consensus size: 141
51701685 TTAGGATTTT
** *
51701695 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
* *
51701760 TGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAGG
66 TACATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAAG
*
51701825 CCGAATGGCCC
131 CCGAATGGCCA
51701836 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
*
51701901 TACATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGGTAAAG
66 TACATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAAG
*
51701966 CCGAATGGTCA
131 CCGAATGGCCA
51701977 ATGTGA
1 ATGTGA
51701983 AATATATATA
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
141 139 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (141 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
TACATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAAG
CCGAATGGCCA
Found at i:51702033 original size:94 final size:93
Alignment explanation
Indices: 51701695--51702024 Score: 385
Period size: 94 Copynumber: 3.5 Consensus size: 93
51701685 TTAGGATTTT
* * * *
51701695 ATGTGATGAATGTGA-ATGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 ATGTGATGAATATGAGATATG--TATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAAC
*
51701759 ATGCATATGTGTGATAAGGCCGAATGGCCA
64 ATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
51701789 ATGTGGTGAATATGA-ACATGCATATATGTGATAAGGCCGAATGGCCCATGTGATGAATGTGAAC
1 ATGTGATGAATATGAGATATG--TATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAAC
51701853 ATGCATATATGTGATAAGGCCGAATGGCCA
64 ATGCATATATGTGATAAGGCCGAATGGCCA
* ** * *
51701883 ATGTGATGAATGTGAGCATACATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACA
1 ATGTGATGAATATGAG-ATATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACA
* * *
51701948 TGCATATATGTGGTAAAGCCGAATGGTCA
65 TGCATATATGTGATAAGGCCGAATGGCCA
* * *
51701977 ATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGC
1 ATGTG--AT-GA-ATATGAGATATGTATATGTGATAAGGCCGAATGGC
51702025 TAGTGTGAAA
Statistics
Matches: 203, Mismatches: 27, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
94 169 0.83
96 4 0.02
97 24 0.12
98 6 0.03
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.27
Consensus pattern (93 bp):
ATGTGATGAATATGAGATATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACAT
GCATATATGTGATAAGGCCGAATGGCCA
Found at i:51702369 original size:37 final size:37
Alignment explanation
Indices: 51702187--51702368 Score: 301
Period size: 37 Copynumber: 4.9 Consensus size: 37
51702177 GGAAATATAT
*
51702187 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
51702224 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
51702261 TCCGGGTAAGACCTGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
51702298 TTCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
51702335 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
51702369 TCGTCTGAGC
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 135 1.00
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:51708492 original size:20 final size:20
Alignment explanation
Indices: 51708469--51708614 Score: 77
Period size: 20 Copynumber: 7.3 Consensus size: 20
51708459 GAGGATGTAT
51708469 AAAAAATTATGAGAGAATAC
1 AAAAAATTATGAGAGAATAC
* *
51708489 AAAAAAATATGAGGGAATAC
1 AAAAAATTATGAGAGAATAC
* * **
51708509 CAAAAACTCCGAG-GAAGTAC
1 AAAAAATTATGAGAGAA-TAC
* * * *
51708529 TAAAAGTTATGAGGGAATAT
1 AAAAAATTATGAGAGAATAC
* *
51708549 AAGAAAA-TCTGA-AAAATTAC
1 AA-AAAATTATGAGAGAA-TAC
* *
51708569 CAAAAA-TATGAG-GATGTACC
1 AAAAAATTATGAGAGA-ATA-C
*
51708589 AAAAAATTATAAGAGAATAC
1 AAAAAATTATGAGAGAATAC
51708609 AAAAAA
1 AAAAAA
51708615 AAATAGTGAG
Statistics
Matches: 92, Mismatches: 25, Indels: 18
0.68 0.19 0.13
Matches are distributed among these distances:
19 16 0.17
20 61 0.66
21 13 0.14
22 2 0.02
ACGTcount: A:0.56, C:0.09, G:0.16, T:0.18
Consensus pattern (20 bp):
AAAAAATTATGAGAGAATAC
Found at i:51708514 original size:40 final size:41
Alignment explanation
Indices: 51708470--51708615 Score: 90
Period size: 40 Copynumber: 3.7 Consensus size: 41
51708460 AGGATGTATA
51708470 AAAAATTATGAGAGAA-TACAAAAAAATATGAGGGAATACC
1 AAAAATTATGAGAGAAGTACAAAAAAATATGAGGGAATACC
* ** * ** *
51708510 AAAAACTCCGAG-GAAGTACTAAAAGTTATGAGGGAATA-T
1 AAAAATTATGAGAGAAGTACAAAAAAATATGAGGGAATACC
* * * * * *
51708549 AAGAAAATCTGA-AAAATTAC-CAAAAATATGA-GGATGTACC
1 AA-AAATTATGAGAGAAGTACAAAAAAATATGAGGGA-ATACC
*
51708589 AAAAAATTATAAGAGAA-TACAAAAAAA
1 -AAAAATTATGAGAGAAGTACAAAAAAA
51708616 AATAGTGAGA
Statistics
Matches: 77, Mismatches: 21, Indels: 15
0.68 0.19 0.13
Matches are distributed among these distances:
38 3 0.04
39 15 0.19
40 49 0.64
41 10 0.13
ACGTcount: A:0.56, C:0.09, G:0.16, T:0.18
Consensus pattern (41 bp):
AAAAATTATGAGAGAAGTACAAAAAAATATGAGGGAATACC
Found at i:51708570 original size:60 final size:57
Alignment explanation
Indices: 51708416--51708615 Score: 188
Period size: 60 Copynumber: 3.4 Consensus size: 57
51708406 AGTTCCAAAT
* *
51708416 ATTATGAGAGAATATCAAAAAAATCTGCAAAATTACCAAAAATGAGGATGTATAAAAA
1 ATTATGAGAGAATAT-AAAAAAATCTGAAAAATTACCAAAAATGAGGAAGTATAAAAA
* * **
51708474 ATTATGAGAGAATACAAAAAAATATGAGGGAA-TACCAAAAACTCCGAGGAAGTACT-AAAA
1 ATTATGAGAGAATATAAAAAAATCTGA-AAAATTACCAAAAA-T--GAGGAAGTA-TAAAAA
* * * * *
51708534 GTTATGAGGGAATATAAGAAAATCTGAAAAATTACCAAAAATATGAGGATGTACCAAAAA
1 ATTATGAGAGAATATAAAAAAATCTGAAAAATTACC-AAAA-ATGAGGAAGTA-TAAAAA
* *
51708594 ATTATAAGAGAATACAAAAAAA
1 ATTATGAGAGAATATAAAAAAA
51708616 AATAGTGAGA
Statistics
Matches: 113, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
57 19 0.17
58 17 0.15
59 11 0.10
60 59 0.52
61 6 0.05
62 1 0.01
ACGTcount: A:0.55, C:0.09, G:0.16, T:0.20
Consensus pattern (57 bp):
ATTATGAGAGAATATAAAAAAATCTGAAAAATTACCAAAAATGAGGAAGTATAAAAA
Found at i:51709119 original size:17 final size:17
Alignment explanation
Indices: 51709097--51709130 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
51709087 TATTGAAAAC
51709097 TGTGAGGAAATACCACA
1 TGTGAGGAAATACCACA
51709114 TGTGAGGAAATACCACA
1 TGTGAGGAAATACCACA
51709131 AATTTTAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (17 bp):
TGTGAGGAAATACCACA
Found at i:51709153 original size:20 final size:20
Alignment explanation
Indices: 51709130--51709173 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
51709120 GAAATACCAC
*
51709130 AAATTTTAAGAAAATATCAA
1 AAATTCTAAGAAAATATCAA
*
51709150 AAATTCTAAGAGAATATCAA
1 AAATTCTAAGAAAATATCAA
51709170 AAAT
1 AAAT
51709174 ATTTGAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.27
Consensus pattern (20 bp):
AAATTCTAAGAAAATATCAA
Found at i:51709518 original size:18 final size:19
Alignment explanation
Indices: 51709479--51709653 Score: 79
Period size: 20 Copynumber: 8.9 Consensus size: 19
51709469 TTTTTAAAAC
* *
51709479 AATACCAAAAATTATAACGG
1 AATACCAAAAAATATGA-GG
*
51709499 AATA-CAAAAAATGTGAGG
1 AATACCAAAAAATATGAGG
* *
51709517 AAGCACCAAAAAAAATGAGG
1 AA-TACCAAAAAATATGAGG
*
51709537 TAATA-TAAAAAATTATGATGG
1 -AATACCAAAAAA-TATGA-GG
* ***
51709558 AATATCAAAAAATGCAAGG
1 AATACCAAAAAATATGAGG
* *
51709577 AAATACTAAAAATTATGAGTG
1 -AATACCAAAAAATATGAG-G
* **
51709598 AAATACCAAAAATTATGAAT
1 -AATACCAAAAAATATGAGG
*
51709618 AAGTACCAAAAAA-A-GAGAT
1 AA-TACCAAAAAATATGAG-G
*
51709637 AATACCAAAAATTATGA
1 AATACCAAAAAATATGA
51709654 TAGGTTATCA
Statistics
Matches: 118, Mismatches: 25, Indels: 24
0.71 0.15 0.14
Matches are distributed among these distances:
18 15 0.13
19 25 0.21
20 50 0.42
21 28 0.24
ACGTcount: A:0.57, C:0.09, G:0.14, T:0.20
Consensus pattern (19 bp):
AATACCAAAAAATATGAGG
Found at i:51709624 original size:20 final size:19
Alignment explanation
Indices: 51709578--51709653 Score: 75
Period size: 21 Copynumber: 3.9 Consensus size: 19
51709568 AATGCAAGGA
* *
51709578 AATACTAAAAATTATGAGT
1 AATACCAAAAATTATGAAT
51709597 GAAATACCAAAAATTATGAAT
1 --AATACCAAAAATTATGAAT
*
51709618 AAGTACCAAAAA--AAGAGAT
1 AA-TACCAAAAATTATGA-AT
51709637 AATACCAAAAATTATGA
1 AATACCAAAAATTATGA
51709654 TAGGTTATCA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
18 12 0.26
19 6 0.13
20 12 0.26
21 17 0.36
ACGTcount: A:0.58, C:0.09, G:0.11, T:0.22
Consensus pattern (19 bp):
AATACCAAAAATTATGAAT
Found at i:51710004 original size:19 final size:18
Alignment explanation
Indices: 51709966--51710018 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
51709956 TTCTAAAAAT
*
51709966 ATATAAAAAAAATTTATGAA
1 ATATAATAAAAA--TATGAA
51709986 GATATAATAAAAATATGAA
1 -ATATAATAAAAATATGAA
* *
51710005 AAATACTAAAAATA
1 ATATAATAAAAATA
51710019 AGAGAGATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 12 0.41
19 6 0.21
21 11 0.38
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (18 bp):
ATATAATAAAAATATGAA
Found at i:51710064 original size:19 final size:20
Alignment explanation
Indices: 51710042--51710095 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 20
51710032 AGATTATAAG
*
51710042 ATATATTAATTATTATG-AA
1 ATATATAAATTATTATGAAA
**
51710061 ATATATAAAAAATTATGAAA
1 ATATATAAATTATTATGAAA
*
51710081 ATATATCAATTATTA
1 ATATATAAATTATTA
51710096 ACTTATAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.41
Consensus pattern (20 bp):
ATATATAAATTATTATGAAA
Found at i:51711499 original size:6 final size:6
Alignment explanation
Indices: 51711488--51711514 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
51711478 AAAAGCATTT
51711488 AATTCA AATTCA AATTCA AATTCA AAT
1 AATTCA AATTCA AATTCA AATTCA AAT
51711515 CATCATTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTCA
Found at i:51712024 original size:71 final size:72
Alignment explanation
Indices: 51711923--51712087 Score: 188
Period size: 71 Copynumber: 2.3 Consensus size: 72
51711913 TGAGCTAGCT
* * * ** * *
51711923 GGTAAAACTGACAAATGAGTGTACCAAGCACTAATTGGTATAACTGACAAATAAATGCGCCTTGC
1 GGTAAAACTCAAAAATGAGTGTACCAAGCACTAATTGATATAACCAACAAATAAATGCGCCCTAC
51711988 GCTAGTC
66 GCTAGTC
** * **
51711995 GGTAAAAC-CAAAAATGAGTGTGTCTAGCACTGGTTGATATAACCAACAAATAAATGCGCCCTAC
1 GGTAAAACTCAAAAATGAGTGTACCAAGCACTAATTGATATAACCAACAAATAAATGCGCCCTAC
*
51712059 GCTGGTC
66 GCTAGTC
* *
51712066 GGTAAAACTGAAACATGAGTGT
1 GGTAAAACTCAAAAATGAGTGT
51712088 TCATTCATTC
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
71 58 0.75
72 19 0.25
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (72 bp):
GGTAAAACTCAAAAATGAGTGTACCAAGCACTAATTGATATAACCAACAAATAAATGCGCCCTAC
GCTAGTC
Found at i:51712610 original size:107 final size:107
Alignment explanation
Indices: 51712483--51712685 Score: 352
Period size: 107 Copynumber: 1.9 Consensus size: 107
51712473 TCAGCTATAG
51712483 AAAAACACTTATTCGCCTATAATATCAACATTAAAATCGACATAAACACTTATTTAATCCGAACA
1 AAAAACACTTATTCGCCTATAATATCAACATTAAAATCGACATAAACACTTATTTAATCCGAACA
51712548 TTTAATTTAACAAAAACATAATAGAAATGTCTAGCTTTGGAA
66 TTTAATTTAACAAAAACATAATAGAAATGTCTAGCTTTGGAA
* ** *
51712590 AAAAACACTTATTCGCCTATAATATCAGCATTAAAATTTACATAAACACTTATTTAATCCTAACA
1 AAAAACACTTATTCGCCTATAATATCAACATTAAAATCGACATAAACACTTATTTAATCCGAACA
* *
51712655 TTTAATTTAACATAAACATTATAGAAATGTC
66 TTTAATTTAACAAAAACATAATAGAAATGTC
51712686 CTCAACTTTA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 90 1.00
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (107 bp):
AAAAACACTTATTCGCCTATAATATCAACATTAAAATCGACATAAACACTTATTTAATCCGAACA
TTTAATTTAACAAAAACATAATAGAAATGTCTAGCTTTGGAA
Found at i:51712672 original size:18 final size:18
Alignment explanation
Indices: 51712624--51712726 Score: 59
Period size: 18 Copynumber: 5.4 Consensus size: 18
51712614 TCAGCATTAA
*
51712624 AATTT-ACATAAACACTT
1 AATTTAACATAAACATTT
*
51712641 -ATTTAATCCT-AACATTT
1 AATTTAA-CATAAACATTT
51712658 AATTTAACATAAACATTAT
1 AATTTAACATAAACATT-T
* *
51712677 AGAAATGTCCTCAACTTTAACATTT
1 ---AAT-T--T-AACATAAACATTT
51712702 AATTTAACATAAACATTT
1 AATTTAACATAAACATTT
*
51712720 AAGTTAA
1 AATTTAA
51712727 TCATTTAACA
Statistics
Matches: 66, Mismatches: 8, Indels: 23
0.68 0.08 0.24
Matches are distributed among these distances:
16 4 0.06
17 9 0.14
18 31 0.47
19 2 0.03
21 1 0.02
22 6 0.09
23 1 0.02
25 2 0.03
26 10 0.15
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.38
Consensus pattern (18 bp):
AATTTAACATAAACATTT
Found at i:51716413 original size:36 final size:36
Alignment explanation
Indices: 51716364--51716464 Score: 105
Period size: 36 Copynumber: 2.8 Consensus size: 36
51716354 GAGCTAGCTA
*
51716364 GTAAAACCAACAAATGAGTGTGCCTAGCACTGGCCG
1 GTAAAACCGACAAATGAGTGTGCCTAGCACTGGCCG
* * * * * *
51716400 GTATAACTGACAAATAAATGTGTCCT-GCGCTGGTCG
1 GTAAAACCGACAAATGAGTGTG-CCTAGCACTGGCCG
* *
51716436 GTAAAACCGAAAAATGAGTGTGCCCAGCA
1 GTAAAACCGACAAATGAGTGTGCCTAGCA
51716465 TTGGTTGATA
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
35 2 0.04
36 44 0.90
37 3 0.06
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (36 bp):
GTAAAACCGACAAATGAGTGTGCCTAGCACTGGCCG
Found at i:51716485 original size:72 final size:72
Alignment explanation
Indices: 51716364--51716528 Score: 179
Period size: 72 Copynumber: 2.3 Consensus size: 72
51716354 GAGCTAGCTA
* * ** ***
51716364 GTAAAACC-AACAAATGAGTGTGCCTAGCACTGGCCGGTATAACTGACAAATAAATGTGTCCTGC
1 GTAAAACCGAA-AAATGAGTGTGCCCAGCACTGGCCGATATAACCAACAAATAAATGCACCCTGC
* **
51716428 GCTGGTCG
65 ACTAATCG
* **
51716436 GTAAAACCGAAAAATGAGTGTGCCCAGCATTGGTTGATATAACCAACAAATAAATGCACCCTGCA
1 GTAAAACCGAAAAATGAGTGTGCCCAGCACTGGCCGATATAACCAACAAATAAATGCACCCTGCA
51716501 CTAATCG
66 CTAATCG
* *
51716508 GTAAAACTGACAAATGAGTGT
1 GTAAAACCGAAAAATGAGTGT
51716529 TCATTCATTC
Statistics
Matches: 77, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
72 75 0.97
73 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.22
Consensus pattern (72 bp):
GTAAAACCGAAAAATGAGTGTGCCCAGCACTGGCCGATATAACCAACAAATAAATGCACCCTGCA
CTAATCG
Found at i:51717096 original size:107 final size:105
Alignment explanation
Indices: 51716912--51717130 Score: 348
Period size: 107 Copynumber: 2.1 Consensus size: 105
51716902 TTAGATATAA
* *
51716912 CCAGCTTTAGAAAAACACTTATTTAGCTATAATATCAGCAATAAAATTGACATAAACAATTATTT
1 CCAGCTTTAGAAAAACACTTATTCACCTATAATATCAGCAATAAAATTGACATAAACAATTATTT
*
51716977 AATCCTAACATTTAATTTAACATAAACATAATAGAAATGT
66 AATCCCAACATTTAATTTAACATAAACATAATAGAAATGT
* * * *
51717017 CCAGCTTTGGAAAAATACACTTATTCACCTATAATATCAGCATTAAAATTTACATAAACACTTAT
1 CCAGCTTTAG-AAAA-ACACTTATTCACCTATAATATCAGCAATAAAATTGACATAAACAATTAT
51717082 TTAATCCCAACATTTAATTTAACATAAACATAATAGAAATGT
64 TTAATCCCAACATTTAATTTAACATAAACATAATAGAAATGT
*
51717124 CTAGCTT
1 CCAGCTT
51717131 GGACAACACT
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
105 9 0.09
106 4 0.04
107 91 0.88
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.33
Consensus pattern (105 bp):
CCAGCTTTAGAAAAACACTTATTCACCTATAATATCAGCAATAAAATTGACATAAACAATTATTT
AATCCCAACATTTAATTTAACATAAACATAATAGAAATGT
Found at i:51717218 original size:22 final size:22
Alignment explanation
Indices: 51717159--51717220 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
51717149 GCTTTAGATG
*
51717159 ACATTTAGAACATATTTTGGACA
1 ACATTTA-AACATACTTTGGACA
51717182 ACATTTAAA-AGTACTTT-GACA
1 ACATTTAAACA-TACTTTGGACA
*
51717203 GCATTTGAAACATACTTT
1 ACATTT-AAACATACTTT
51717221 TGCTAGCATC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 10 0.29
22 16 0.47
23 8 0.24
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
ACATTTAAACATACTTTGGACA
Found at i:51731433 original size:15 final size:15
Alignment explanation
Indices: 51731415--51731446 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
51731405 AAATCGAGTA
51731415 AATTAATTTGATGCT
1 AATTAATTTGATGCT
51731430 AATTAATTTGATGCT
1 AATTAATTTGATGCT
51731445 AA
1 AA
51731447 CCTGAATCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (15 bp):
AATTAATTTGATGCT
Found at i:51732891 original size:34 final size:34
Alignment explanation
Indices: 51732851--51732915 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
51732841 TAATCAATAT
51732851 TTAAAGTGTAAGTTAATTGATTTAAGAAGAATCG
1 TTAAAGTGTAAGTTAATTGATTTAAGAAGAATCG
*
51732885 TTAAAGTGTAAGTTATTTGATTTAAGAAGAA
1 TTAAAGTGTAAGTTAATTGATTTAAGAAGAA
51732916 GCGGTTATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.42, C:0.02, G:0.20, T:0.37
Consensus pattern (34 bp):
TTAAAGTGTAAGTTAATTGATTTAAGAAGAATCG
Found at i:51733394 original size:28 final size:29
Alignment explanation
Indices: 51733340--51733395 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
51733330 CTGAGACAAA
* *
51733340 TTAATATTTTTATTATTAAATAGATTAAT
1 TTAATATTTTTATTATTAAAAAAATTAAT
51733369 TTAAT-TTTTTATTATTAAAAAAATTAA
1 TTAATATTTTTATTATTAAAAAAATTAA
51733396 ATGATGCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 20 0.80
29 5 0.20
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (29 bp):
TTAATATTTTTATTATTAAAAAAATTAAT
Found at i:51735682 original size:40 final size:40
Alignment explanation
Indices: 51735612--51735787 Score: 214
Period size: 40 Copynumber: 4.4 Consensus size: 40
51735602 CCCAAATATA
*
51735612 TTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGCC
1 TTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGCC
*
51735651 TTCGGGTCTTAGCCCAGATATAGCAACTCGCACAAATGCC
1 TTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCC
* * *
51735691 TTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGCC
1 TTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGCC
* * * *
51735731 TTCGGGACATAGCTCGGATATAGCAACTCGCACGAATGCC
1 TTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCC
* *
51735771 TTCGGATCTTAGTCCGG
1 TTCGGGTCTTAGCCCGG
51735788 TTATCATCCG
Statistics
Matches: 115, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 100 0.87
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCC
Found at i:51738374 original size:25 final size:24
Alignment explanation
Indices: 51738321--51738385 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
51738311 TTTTTCCTCA
* *
51738321 TATTATTTATTTTAAATTGTTTCAT
1 TATTATTTATTTT-AATGGTTTCAG
51738346 TATTATTTATTTTAA-GGCTTTCACG
1 TATTATTTATTTTAATGG-TTTCA-G
*
51738371 TATTATGTATTTTAA
1 TATTATTTATTTTAA
51738386 ACTATTATCC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 1 0.03
24 7 0.20
25 27 0.77
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (24 bp):
TATTATTTATTTTAATGGTTTCAG
Found at i:51738582 original size:26 final size:26
Alignment explanation
Indices: 51738549--51738609 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
51738539 CTTTTATATG
51738549 TTATTTTAAAAT-ATTATATATATTAT
1 TTATTTTAAAATGATT-TATATATTAT
** * *
51738575 TTATTTTAACTTGCTTTGTATATTAT
1 TTATTTTAAAATGATTTATATATTAT
51738601 TTATTTTAA
1 TTATTTTAA
51738610 TTTGTTTTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 28 0.93
27 2 0.07
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (26 bp):
TTATTTTAAAATGATTTATATATTAT
Found at i:51738628 original size:26 final size:26
Alignment explanation
Indices: 51738567--51738630 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
51738557 AAATATTATA
*
51738567 TATATTATTTATTTTAACTTGCTTTG
1 TATATCATTTATTTTAACTTGCTTTG
* *
51738593 TATATTATTTATTTTAATTTG-TTT-
1 TATATCATTTATTTTAACTTGCTTTG
51738617 TACGTATCATTTAT
1 TA--TATCATTTAT
51738631 CTCAAATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 2 0.06
25 3 0.09
26 29 0.85
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.62
Consensus pattern (26 bp):
TATATCATTTATTTTAACTTGCTTTG
Found at i:51742339 original size:135 final size:135
Alignment explanation
Indices: 51742097--51742371 Score: 428
Period size: 135 Copynumber: 2.0 Consensus size: 135
51742087 AACACTTTGG
* *
51742097 TGTGGTTAGCATGGAGCAACATGAATTTTCCCAATGAAAACATCCCTAGGAACCTAATAAACCAA
1 TGTGGTTAGCATAGAGCAACATGAATTTCCCCAATGAAAACATCCCTAGGAACCTAATAAACCAA
*
51742162 ACATTGTCTACACATCCCCTAACTCAAGATGCTGGTCAAACTAGTAATTCCCAGCATGC-TACAA
66 ACATTGTCTACACATCCCCCAACTCAAGATGCTGGTCAAACTAGTAATTCCCAGCAT-CTTACAA
51742226 CCCATA
130 CCCATA
* * ** * *
51742232 TGTGGTTAGCATAGAGCAACATGACTTTCCCCAATGAAACCATCTTTAGGAACTTAGTAAACGC-
1 TGTGGTTAGCATAGAGCAACATGAATTTCCCCAATGAAAACATCCCTAGGAACCTAATAAAC-CA
*
51742296 AACATTGTTTACACATCCCCCAACTCAAGATGCTGGTCAAACTAGTAATTCCCAGCATCTTACAA
65 AACATTGTCTACACATCCCCCAACTCAAGATGCTGGTCAAACTAGTAATTCCCAGCATCTTACAA
51742361 CCCATA
130 CCCATA
51742367 TGTGG
1 TGTGG
51742372 AAATTTATGG
Statistics
Matches: 128, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
134 1 0.01
135 126 0.98
136 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (135 bp):
TGTGGTTAGCATAGAGCAACATGAATTTCCCCAATGAAAACATCCCTAGGAACCTAATAAACCAA
ACATTGTCTACACATCCCCCAACTCAAGATGCTGGTCAAACTAGTAATTCCCAGCATCTTACAAC
CCATA
Found at i:51746163 original size:24 final size:24
Alignment explanation
Indices: 51746150--51746260 Score: 114
Period size: 24 Copynumber: 4.6 Consensus size: 24
51746140 ATTATTCTGT
*
51746150 CCAAGAGACTGCCCAACATTCGGC
1 CCAACAGACTGCCCAACATTCGGC
51746174 CCAACAGACTGCCCAACATTCGGC
1 CCAACAGACTGCCCAACATTCGGC
** * * *
51746198 TTAATAGACTGCCCAGCATTCAGC
1 CCAACAGACTGCCCAACATTCGGC
* * * * *
51746222 CTAACAGACTACCCAGCATGCGGT
1 CCAACAGACTGCCCAACATTCGGC
*
51746246 CCAAGAGACTGCCCA
1 CCAACAGACTGCCCA
51746261 GGAATCTGCT
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.30, C:0.36, G:0.19, T:0.15
Consensus pattern (24 bp):
CCAACAGACTGCCCAACATTCGGC
Found at i:51746255 original size:48 final size:48
Alignment explanation
Indices: 51746148--51746261 Score: 140
Period size: 48 Copynumber: 2.4 Consensus size: 48
51746138 CCATTATTCT
* * * *
51746148 GTCCAAGAGACTGCCCAACATTCGGCCCAACAGACTGCCCAACATTCG
1 GTCCAAGAGACTGCCCAGCATTCAGCCCAACAGACTACCCAACATGCG
* * * *
51746196 G-CTTAATAGACTGCCCAGCATTCAGCCTAACAGACTACCCAGCATGCG
1 GTC-CAAGAGACTGCCCAGCATTCAGCCCAACAGACTACCCAACATGCG
51746244 GTCCAAGAGACTGCCCAG
1 GTCCAAGAGACTGCCCAG
51746262 GAATCTGCTT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
47 1 0.02
48 52 0.96
49 1 0.02
ACGTcount: A:0.29, C:0.35, G:0.20, T:0.16
Consensus pattern (48 bp):
GTCCAAGAGACTGCCCAGCATTCAGCCCAACAGACTACCCAACATGCG
Found at i:51756572 original size:15 final size:16
Alignment explanation
Indices: 51756546--51756575 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51756536 TGTTTAAAAA
51756546 TTTTAAAGAAAATTAT
1 TTTTAAAGAAAATTAT
51756562 TTTTAAA-AAAATTA
1 TTTTAAAGAAAATTA
51756576 CATAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
TTTTAAAGAAAATTAT
Found at i:51760494 original size:40 final size:40
Alignment explanation
Indices: 51760393--51760613 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
51760383 TATTTGAATG
* * *
51760393 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACT
* * *
51760434 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
51760474 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
51760514 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * **
51760554 ATATCCAGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
51760593 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
51760614 ATACTTGGGT
Statistics
Matches: 152, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 15 0.10
40 95 0.62
41 28 0.18
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:51768556 original size:40 final size:40
Alignment explanation
Indices: 51768455--51768675 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
51768445 TATTCGAATG
* * *
51768455 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACT
* * *
51768496 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
51768536 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
51768576 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* **
51768616 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
51768655 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
51768676 ATACTTGGGT
Statistics
Matches: 153, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
37 1 0.01
38 13 0.08
39 15 0.10
40 96 0.63
41 28 0.18
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:51775115 original size:30 final size:30
Alignment explanation
Indices: 51775069--51775128 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
51775059 TTCCCGAGCC
* *
51775069 TAGGGGTAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
51775099 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
51775129 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:51777561 original size:21 final size:21
Alignment explanation
Indices: 51777537--51777576 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
51777527 AAACTTGTAT
51777537 AACTATCATCACAT-ATTAATA
1 AACTATCATCA-ATCATTAATA
51777558 AACTATCATCAATCATTAA
1 AACTATCATCAATCATTAA
51777577 AATACATGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (21 bp):
AACTATCATCAATCATTAATA
Found at i:51782953 original size:27 final size:26
Alignment explanation
Indices: 51782923--51782975 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
51782913 GACCAAAATA
*
51782923 CCCCTAAAGGGTAAAATGACTGTTTTG
1 CCCCTAAAGGGT-AAATGACTGATTTG
**
51782950 CCCCTCGAGGGTAAATGACTGATTTG
1 CCCCTAAAGGGTAAATGACTGATTTG
51782976 TCTGTGACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (26 bp):
CCCCTAAAGGGTAAATGACTGATTTG
Found at i:51785591 original size:6 final size:6
Alignment explanation
Indices: 51785582--51785615 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
51785572 TTTTTCTTTT
51785582 TTTCCC TTTCCC TTTCCC TTTCCC TTTCCC TTTC
1 TTTCCC TTTCCC TTTCCC TTTCCC TTTCCC TTTC
51785616 TGTTTCGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (6 bp):
TTTCCC
Found at i:51787114 original size:27 final size:27
Alignment explanation
Indices: 51787084--51787288 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
51787074 ATATTGAGTC
* * * *
51787084 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
51787111 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
51787138 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
51787166 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
51787193 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
51787220 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
51787247 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
51787274 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51787289 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:51787312 original size:109 final size:108
Alignment explanation
Indices: 51787082--51787287 Score: 308
Period size: 109 Copynumber: 1.9 Consensus size: 108
51787072 GTATATTGAG
* * ** * *
51787082 TCCGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACT
1 TCCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAATCAAATCGCACACT
51787146 TAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAA
65 TAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCAT-GTCAA
* *
51787191 TTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAATCAAATCGCACACTT
51787256 AGTGCTACATAGTCAAA-TCGCACACTTAGTGC
66 AGTGCTACATAGTCAAACTCGCACACTTAGTGC
51787288 TGTACAATTT
Statistics
Matches: 88, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
108 17 0.19
109 71 0.81
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (108 bp):
TCCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAATCAAATCGCACACTT
AGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGTCAA
Found at i:51795186 original size:27 final size:27
Alignment explanation
Indices: 51795156--51795360 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
51795146 ATATTGAGTC
* * * *
51795156 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
51795183 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
51795210 CGTACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
51795238 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
51795265 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
51795292 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
51795319 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
51795346 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51795361 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 132 0.85
28 23 0.15
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:51803206 original size:27 final size:27
Alignment explanation
Indices: 51803176--51803380 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
51803166 ATATTGAGTC
* * * *
51803176 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
51803203 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
51803230 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
51803258 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
51803285 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
51803312 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
51803339 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
51803366 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
51803381 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:51817817 original size:28 final size:27
Alignment explanation
Indices: 51817784--51817852 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
51817774 GAATACAGTG
* *
51817784 CATACAGTAACAGTCTGGGCCTTAGCC
1 CATACAGTAACAGTCTGGGACTAAGCC
* *
51817811 CTATACAGAAACAGTGTGGGACTAAGCC
1 C-ATACAGTAACAGTCTGGGACTAAGCC
* *
51817839 CAAACAGTATCAGT
1 CATACAGTAACAGT
51817853 ACAGTGCAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
27 11 0.32
28 23 0.68
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (27 bp):
CATACAGTAACAGTCTGGGACTAAGCC
Found at i:51818240 original size:27 final size:27
Alignment explanation
Indices: 51818210--51818323 Score: 113
Period size: 27 Copynumber: 4.2 Consensus size: 27
51818200 CATAATCGTT
51818210 ATTTTACCATACAGGGGTATTACAGTC
1 ATTTTACCATACAGGGGTATTACAGTC
* **
51818237 ATTTTACCCTACAGGGGTATTATGGTC
1 ATTTTACCATACAGGGGTATTACAGTC
* * **
51818264 ATTTTACCCTACAGAGGTATTATGGTC
1 ATTTTACCATACAGGGGTATTACAGTC
* * * *
51818291 ATTTTA-CAAACTGGGGGTATTTCAGTA
1 ATTTTACCATAC-AGGGGTATTACAGTC
51818318 ATTTTA
1 ATTTTA
51818324 AAATTTGAGG
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 3 0.04
27 71 0.96
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (27 bp):
ATTTTACCATACAGGGGTATTACAGTC
Found at i:51822117 original size:17 final size:17
Alignment explanation
Indices: 51822075--51822117 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
51822065 TGCACTTAAG
51822075 CCATTCATGCATTCTAT
1 CCATTCATGCATTCTAT
51822092 -CATTCCATGCATT-TGAT
1 CCATT-CATGCATTCT-AT
51822109 CCATTCATG
1 CCATTCATG
51822118 GACCAGCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 5 0.22
17 14 0.61
18 4 0.17
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (17 bp):
CCATTCATGCATTCTAT
Found at i:51822548 original size:30 final size:30
Alignment explanation
Indices: 51822514--51822610 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
51822504 TAAACTAAAA
51822514 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
51822544 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* * *
51822574 TGAGCTAAGGTTTTGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
51822604 TGAGCTA
1 TGAGCTA
51822611 GGAGAGAGCT
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.84
31 6 0.12
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:51824781 original size:12 final size:12
Alignment explanation
Indices: 51824766--51824799 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
51824756 TTCTTTTCGT
51824766 TCTCTTTTTCAA
1 TCTCTTTTTCAA
51824778 TCTCTTTTTCAA
1 TCTCTTTTTCAA
*
51824790 TCTCATTTTC
1 TCTCTTTTTC
51824800 TTTTTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.15, C:0.26, G:0.00, T:0.59
Consensus pattern (12 bp):
TCTCTTTTTCAA
Found at i:51824805 original size:42 final size:42
Alignment explanation
Indices: 51824718--51824816 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
51824708 GTTTCTTTTG
*
51824718 TTTCAATT-TCTTTTTCATCTTCTTTTTCACTCTCAAATTTCT
1 TTTC-ATTCTCTTTTTCATCTTCTTTTTCAATCTCAAATTTCT
* *
51824760 TTTCGTTCTCTTTTTCAATC-TCTTTTTCAATCTC-ATTTTCTT
1 TTTCATTCTCTTTTTC-ATCTTCTTTTTCAATCTCAAATTTC-T
*
51824802 TTTCATTTTCTTTTT
1 TTTCATTCTCTTTTT
51824817 GCTTTTCAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
41 7 0.14
42 39 0.80
43 3 0.06
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (42 bp):
TTTCATTCTCTTTTTCATCTTCTTTTTCAATCTCAAATTTCT
Found at i:51824823 original size:12 final size:12
Alignment explanation
Indices: 51824792--51824816 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51824782 TTTTTCAATC
51824792 TCATTTTCTTTT
1 TCATTTTCTTTT
51824804 TCATTTTCTTTT
1 TCATTTTCTTTT
51824816 T
1 T
51824817 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:51824834 original size:12 final size:12
Alignment explanation
Indices: 51824819--51824849 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
51824809 TTCTTTTTGC
51824819 TTTTCAAAGACT
1 TTTTCAAAGACT
*
51824831 TTTTCAAAGGCT
1 TTTTCAAAGACT
51824843 TTTTCAA
1 TTTTCAA
51824850 CACTCGCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGACT
Found at i:51830737 original size:49 final size:50
Alignment explanation
Indices: 51830660--51830837 Score: 250
Period size: 52 Copynumber: 3.5 Consensus size: 50
51830650 ACTAGTGACT
** *
51830660 CAAGTGTGGTACTATGTGAAGGTAACTTTGAGAAG-AGATAGCTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTCA
*
51830709 AAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGC-TTGGTCA
* *
51830761 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTC-A
* *
51830812 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
51830838 GGGGTATTCG
Statistics
Matches: 116, Mismatches: 9, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
49 31 0.27
50 4 0.03
51 40 0.34
52 41 0.35
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.28
Consensus pattern (50 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTGGTCA
Found at i:51830801 original size:51 final size:51
Alignment explanation
Indices: 51830660--51830837 Score: 254
Period size: 51 Copynumber: 3.5 Consensus size: 51
51830650 ACTAGTGACT
** *
51830660 CAAGTGTGGTACTATGTGAAGGTAACTTTGAGAAG-AGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
*
51830709 AAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
*
51830761 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTC-A
* *
51830812 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
51830838 GGGGTATTCG
Statistics
Matches: 117, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
49 31 0.26
50 2 0.02
51 43 0.37
52 41 0.35
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.28
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:51832661 original size:21 final size:25
Alignment explanation
Indices: 51832637--51832696 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 25
51832627 GTACGACCTG
51832637 TAGCCGTTCTGT-ATA-A-GGCTT-
1 TAGCCGTTCTGTGATATATGGCTTA
*
51832658 TAGCCTTTCTGTGATACTTATGGCTTA
1 TAGCCGTTCTGTGATA--TATGGCTTA
51832685 TAGCCGTTCTGT
1 TAGCCGTTCTGT
51832697 TAACTGGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
21 11 0.35
22 3 0.10
25 1 0.03
26 5 0.16
27 11 0.35
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.42
Consensus pattern (25 bp):
TAGCCGTTCTGTGATATATGGCTTA
Found at i:51832750 original size:22 final size:22
Alignment explanation
Indices: 51832722--51832789 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
51832712 CTGCTATATT
*
51832722 TACGGCCTTTAGCCGCCCTGTC
1 TACGGCCTTTAGCCGTCCTGTC
*
51832744 TACGGCCTTTCA-CCTTCCTGTC
1 TACGGCCTTT-AGCCGTCCTGTC
** *
51832766 TACGGTGTTGAGCCGTCCTGTC
1 TACGGCCTTTAGCCGTCCTGTC
51832788 TA
1 TA
51832790 TGGCGTTAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
21 1 0.03
22 36 0.95
23 1 0.03
ACGTcount: A:0.10, C:0.35, G:0.22, T:0.32
Consensus pattern (22 bp):
TACGGCCTTTAGCCGTCCTGTC
Found at i:51838380 original size:63 final size:63
Alignment explanation
Indices: 51838300--51838425 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
51838290 TCTTGATAAG
*
51838300 TATTATATTAATTTAATATTAAAGTGATTAAGTTTAATCATAGTTGAACTCTCTAAATTCTCC
1 TATTATATTAATTTAATATTAAAGTGATTAAGTTTAATCATAGTTGAACTCTCTAAACTCTCC
51838363 TATTATATTAATTTAATATTAAAGTGATTAAGTTTAATCATAGTTGAACTCTCTAAACTCTCC
1 TATTATATTAATTTAATATTAAAGTGATTAAGTTTAATCATAGTTGAACTCTCTAAACTCTCC
51838426 CTATATAAAG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.44
Consensus pattern (63 bp):
TATTATATTAATTTAATATTAAAGTGATTAAGTTTAATCATAGTTGAACTCTCTAAACTCTCC
Found at i:51842426 original size:17 final size:17
Alignment explanation
Indices: 51842404--51842438 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
51842394 GATGGGCTGA
**
51842404 AATGGGCTTGTGGGCCC
1 AATGGGCTCATGGGCCC
51842421 AATGGGCTCATGGGCCC
1 AATGGGCTCATGGGCCC
51842438 A
1 A
51842439 TACGGACAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.26, G:0.37, T:0.20
Consensus pattern (17 bp):
AATGGGCTCATGGGCCC
Found at i:51842684 original size:27 final size:27
Alignment explanation
Indices: 51842653--51842836 Score: 174
Period size: 27 Copynumber: 6.9 Consensus size: 27
51842643 AAGACCCCCG
51842653 ATTTGTAAAATTACCAAAATACCCCTA
1 ATTTGTAAAATTACCAAAATACCCCTA
*
51842680 ATTTGTAAAATTACCAAAATACCCTTA
1 ATTTGTAAAATTACCAAAATACCCCTA
* * * *
51842707 ACTTGTAAAATTACTAAAATACCTCTT
1 ATTTGTAAAATTACCAAAATACCCCTA
* *
51842734 ATTTATAAAATTACCAAAATACTCCTA
1 ATTTGTAAAATTACCAAAATACCCCTA
* *** * *
51842761 ACTTGT-AAATTATTTAAATACACCTG
1 ATTTGTAAAATTACCAAAATACCCCTA
* * *
51842787 ATTTATAAAATTACCGAAATA-CCCTCG
1 ATTTGTAAAATTACCAAAATACCCCT-A
* * *
51842814 ATTTGTGAAATTATCGAAATACC
1 ATTTGTAAAATTACCAAAATACC
51842837 TCTATGAGGT
Statistics
Matches: 126, Mismatches: 28, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
26 22 0.17
27 103 0.82
28 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.34
Consensus pattern (27 bp):
ATTTGTAAAATTACCAAAATACCCCTA
Found at i:51842794 original size:53 final size:53
Alignment explanation
Indices: 51842655--51842811 Score: 201
Period size: 54 Copynumber: 2.9 Consensus size: 53
51842645 GACCCCCGAT
* *
51842655 TTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCTTAAC
1 TTGTAAAATTACTAAAATA-CCCTAATTTATAAAATTACCAAAATACCCTTAAC
*
51842709 TTGTAAAATTACTAAAATACCTCTTATTTATAAAATTACCAAAATACTCC-TAAC
1 TTGTAAAATTACTAAAATACC-CTAATTTATAAAATTACCAAAATAC-CCTTAAC
* * * *
51842763 TTGT-AAATTATTTAAATACACCTGATTTATAAAATTACCGAAATACCCT
1 TTGTAAAATTACTAAAATAC-CCTAATTTATAAAATTACCAAAATACCCT
51842812 CGATTTGTGA
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
52 2 0.02
53 38 0.41
54 50 0.54
55 2 0.02
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (53 bp):
TTGTAAAATTACTAAAATACCCTAATTTATAAAATTACCAAAATACCCTTAAC
Found at i:51842874 original size:27 final size:27
Alignment explanation
Indices: 51842844--51842953 Score: 143
Period size: 26 Copynumber: 4.1 Consensus size: 27
51842834 ACCTCTATGA
* *
51842844 GGTAGGATTACCGAAATACCCTTGTGG
1 GGTAGGATTACCAAAATACCCTTGTAG
* **
51842871 GGTAGAATTACTGAAATACCC-TGTAG
1 GGTAGGATTACCAAAATACCCTTGTAG
* *
51842897 GGTAGGATTACAAAAATACCCCTGTAG
1 GGTAGGATTACCAAAATACCCTTGTAG
51842924 GGTAGGATTA-CAAAATACCCTTGTAG
1 GGTAGGATTACCAAAATACCCTTGTAG
51842950 GGTA
1 GGTA
51842954 AAATGCCCGT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
26 40 0.54
27 34 0.46
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (27 bp):
GGTAGGATTACCAAAATACCCTTGTAG
Found at i:51842927 original size:53 final size:53
Alignment explanation
Indices: 51842844--51842953 Score: 150
Period size: 53 Copynumber: 2.1 Consensus size: 53
51842834 ACCTCTATGA
** * * *
51842844 GGTAGGATTACCGAAATACCCTTGTGGGGTAGAATTACTGAAATACCC-TGTAG
1 GGTAGGATTACAAAAATACCCCTGTAGGGTAGAATTAC-AAAATACCCTTGTAG
*
51842897 GGTAGGATTACAAAAATACCCCTGTAGGGTAGGATTACAAAATACCCTTGTAG
1 GGTAGGATTACAAAAATACCCCTGTAGGGTAGAATTACAAAATACCCTTGTAG
51842950 GGTA
1 GGTA
51842954 AAATGCCCGT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
52 8 0.16
53 42 0.84
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.25
Consensus pattern (53 bp):
GGTAGGATTACAAAAATACCCCTGTAGGGTAGAATTACAAAATACCCTTGTAG
Found at i:51843802 original size:31 final size:33
Alignment explanation
Indices: 51843756--51843816 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
51843746 CTGTCACTGT
* *
51843756 TTTGGGCTTAGGCCCACTTG-TTCTGTTATTTG
1 TTTGGGCTTAGGCCCAATGGATTCTGTTATTTG
51843788 TTTGGGC-TAGGCCCAATGGATTCTGTTAT
1 TTTGGGCTTAGGCCCAATGGATTCTGTTAT
51843817 GGGCTATGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 10 0.38
32 16 0.62
ACGTcount: A:0.13, C:0.18, G:0.26, T:0.43
Consensus pattern (33 bp):
TTTGGGCTTAGGCCCAATGGATTCTGTTATTTG
Found at i:51847141 original size:54 final size:54
Alignment explanation
Indices: 51847051--51847289 Score: 239
Period size: 54 Copynumber: 4.4 Consensus size: 54
51847041 AAGACCCTTG
* * *
51847051 ATTTGTAAAATTATTGAAATA-CTCTCGATATGTAAAATTACCAAAATACCCCTA
1 ATTTGTAAAATTATTAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCCTA
* ** * * * *
51847105 ATTTGTAAAATTATTGAAATACCCCTGGGTTATAAAATTATCGAAATACCTCTA
1 ATTTGTAAAATTATTAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTA
* * * * * *
51847159 ACTTGTAAAATTACTAAAATACCCTTGATTTGTAAAATTACCGAAATACTCCTG
1 ATTTGTAAAATTATTAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTA
* * * * *
51847213 ACTTGTAAAATAATTAAAATACCCCTGATTTGTGAAATTACTAGAATACCCTCT-
1 ATTTGTAAAATTATTAAAATACCCCTGATTTGTAAAATTACCAAAATACCC-CTA
* *
51847267 ATTTGTGAAATTATCAAAATACC
1 ATTTGTAAAATTATTAAAATACC
51847290 TCTATGGGGT
Statistics
Matches: 152, Mismatches: 31, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
54 147 0.97
55 5 0.03
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (54 bp):
ATTTGTAAAATTATTAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTA
Found at i:51847191 original size:81 final size:79
Alignment explanation
Indices: 51847056--51847289 Score: 245
Period size: 81 Copynumber: 2.9 Consensus size: 79
51847046 CCTTGATTTG
* * *
51847056 TAAAATTATTGAAATA-CTCTCGATATGTAAAATTACCAAAATACCCCTAATTTGTAAAATTATT
1 TAAAATTATTGAAATACCTCT-GAT-TGTAAAATTACTAAAATA-CCCTTATTTGTAAAATTATC
**
51847120 GAAATACCCCTGGGTTA
63 GAAATACCCCTGACTTA
* * *
51847137 TAAAATTATCGAAATACCTCTAACTTGTAAAATTACTAAAATACCCTTGATTTGTAAAATTACCG
1 TAAAATTATTGAAATACCTCTGA-TTGTAAAATTACTAAAATACCCTT-ATTTGTAAAATTATCG
* *
51847202 AAATACTCCTGACTTG
64 AAATACCCCTGACTTA
* * * * * * *
51847218 TAAAATAATTAAAATACCCCTGATTTGTGAAATTACTAGAATACCCTCTATTTGTGAAATTATCA
1 TAAAATTATTGAAATACCTCTGA-TTGTAAAATTACTAAAATACCCT-TATTTGTAAAATTATCG
51847283 AAATACC
64 AAATACC
51847290 TCTATGGGGT
Statistics
Matches: 127, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
80 4 0.03
81 117 0.92
82 6 0.05
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (79 bp):
TAAAATTATTGAAATACCTCTGATTGTAAAATTACTAAAATACCCTTATTTGTAAAATTATCGAA
ATACCCCTGACTTA
Found at i:51847239 original size:27 final size:27
Alignment explanation
Indices: 51847044--51847289 Score: 199
Period size: 27 Copynumber: 9.1 Consensus size: 27
51847034 GGTTATTAAG
* *
51847044 ACCCTTGATTTGTAAAATTATTGAAAT
1 ACCCCTGATTTGTAAAATTATTAAAAT
* * **
51847071 A-CTCTCGATATGTAAAATTACCAAAAT
1 ACCCCT-GATTTGTAAAATTATTAAAAT
* *
51847098 ACCCCTAATTTGTAAAATTATTGAAAT
1 ACCCCTGATTTGTAAAATTATTAAAAT
** * **
51847125 ACCCCTGGGTTATAAAATTATCGAAAT
1 ACCCCTGATTTGTAAAATTATTAAAAT
* * * *
51847152 ACCTCTAACTTGTAAAATTACTAAAAT
1 ACCCCTGATTTGTAAAATTATTAAAAT
* ***
51847179 ACCCTTGATTTGTAAAATTACCGAAAT
1 ACCCCTGATTTGTAAAATTATTAAAAT
* * *
51847206 ACTCCTGACTTGTAAAATAATTAAAAT
1 ACCCCTGATTTGTAAAATTATTAAAAT
* * *
51847233 ACCCCTGATTTGTGAAATTACTAGAAT
1 ACCCCTGATTTGTAAAATTATTAAAAT
* *
51847260 ACCCTCT-ATTTGTGAAATTATCAAAAT
1 ACCC-CTGATTTGTAAAATTATTAAAAT
51847287 ACC
1 ACC
51847290 TCTATGGGGT
Statistics
Matches: 169, Mismatches: 47, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
26 2 0.01
27 162 0.96
28 5 0.03
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.34
Consensus pattern (27 bp):
ACCCCTGATTTGTAAAATTATTAAAAT
Found at i:51847334 original size:54 final size:53
Alignment explanation
Indices: 51847276--51847429 Score: 158
Period size: 54 Copynumber: 3.0 Consensus size: 53
51847266 TATTTGTGAA
* *
51847276 ATTATCAAAATACCTCTATGGGGTAGGATTATCGAAATACCCCTGTGGGGTAGG
1 ATTATCAAAATACCTCTATAGGGTAGGATTATCGAAATA-CCCTGTAGGGTAGG
* * * *
51847330 ATTATCGAAATACCTTTGTAGGGTAGGATTATTG-AA-A---TGTAGGGTAGG
1 ATTATCAAAATACCTCTATAGGGTAGGATTATCGAAATACCCTGTAGGGTAGG
* * *
51847378 ATTA-CAAAAATACCCCTATAAGGTAGGATTACCGAAATACCCTTGTAGGGTA
1 ATTATC-AAAATACCTCTATAGGGTAGGATTATCGAAATACCC-TGTAGGGTA
51847430 AAATGCCCAT
Statistics
Matches: 80, Mismatches: 13, Indels: 14
0.75 0.12 0.13
Matches are distributed among these distances:
47 1 0.01
48 35 0.44
49 2 0.03
50 1 0.01
52 1 0.01
53 2 0.03
54 38 0.47
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (53 bp):
ATTATCAAAATACCTCTATAGGGTAGGATTATCGAAATACCCTGTAGGGTAGG
Found at i:51847388 original size:21 final size:21
Alignment explanation
Indices: 51847346--51847388 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
51847336 GAAATACCTT
***
51847346 TGTAGGGTAGGATTATTGAAA
1 TGTAGGGTAGGATTACAAAAA
51847367 TGTAGGGTAGGATTACAAAAA
1 TGTAGGGTAGGATTACAAAAA
51847388 T
1 T
51847389 ACCCCTATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.30, T:0.30
Consensus pattern (21 bp):
TGTAGGGTAGGATTACAAAAA
Found at i:51847429 original size:27 final size:27
Alignment explanation
Indices: 51847276--51847429 Score: 133
Period size: 27 Copynumber: 5.9 Consensus size: 27
51847266 TATTTGTGAA
* * * *
51847276 ATTATCAAAATACCTCTATGGGGTAGG
1 ATTATCGAAATACCCCTGTAGGGTAGG
*
51847303 ATTATCGAAATACCCCTGTGGGGTAGG
1 ATTATCGAAATACCCCTGTAGGGTAGG
**
51847330 ATTATCGAAATACCTTTGTAGGGTAGG
1 ATTATCGAAATACCCCTGTAGGGTAGG
*
51847357 ATTATTG-AA-A----TGTAGGGTAGG
1 ATTATCGAAATACCCCTGTAGGGTAGG
* * *
51847378 ATTA-CAAAAATACCCCTATAAGGTAGG
1 ATTATC-GAAATACCCCTGTAGGGTAGG
* *
51847405 ATTACCGAAATACCCTTGTAGGGTA
1 ATTATCGAAATACCCCTGTAGGGTA
51847430 AAATGCCCAT
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
21 15 0.14
22 2 0.02
23 1 0.01
25 1 0.01
26 2 0.02
27 82 0.79
28 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (27 bp):
ATTATCGAAATACCCCTGTAGGGTAGG
Found at i:51848893 original size:16 final size:17
Alignment explanation
Indices: 51848861--51848893 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
51848851 AAATAAGAAG
51848861 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
51848879 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
51848894 CTTTAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Done.