Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 62 of 204
Found at i:18261088 original size:21 final size:21
Alignment explanation
Indices: 18261037--18261088 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
18261027 GGGTTGTGAT
* *
18261037 TTAAGGGTTATGGGTTAGGGG
1 TTAAGAGTTATGGGTTAGAGG
18261058 TT-AGAGGTTATGGGTTAGAGG
1 TTAAGA-GTTATGGGTTAGAGG
18261079 TTAAGAGTTA
1 TTAAGAGTTA
18261089 GGGATTTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 2 0.07
21 22 0.81
22 3 0.11
ACGTcount: A:0.25, C:0.00, G:0.40, T:0.35
Consensus pattern (21 bp):
TTAAGAGTTATGGGTTAGAGG
Found at i:18261206 original size:96 final size:96
Alignment explanation
Indices: 18261106--18261280 Score: 287
Period size: 96 Copynumber: 1.8 Consensus size: 96
18261096 AGGGTTTATG
* *
18261106 GATTTAGTGTTAGGTTAGGGTTTAGGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAAT
1 GATTTAGGGTCAGGTTAGGGTTTAGGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAAT
*
18261171 AATGTTTAGGGGTTAAGGGTTAGGGGTTAGA
66 AAGGTTTAGGGGTTAAGGGTTAGGGGTTAGA
* * * *
18261202 GATTTGGGGTCGGGTTAGGGTTTAGGGTTTAGATTAATTAGTATTTTTTAATTTATATATTAAAT
1 GATTTAGGGTCAGGTTAGGGTTTAGGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAAT
18261267 AAGGTTTAGGGGTT
66 AAGGTTTAGGGGTT
18261281 TGGGGTATAT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.27, C:0.01, G:0.28, T:0.44
Consensus pattern (96 bp):
GATTTAGGGTCAGGTTAGGGTTTAGGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAAT
AAGGTTTAGGGGTTAAGGGTTAGGGGTTAGA
Found at i:18261375 original size:14 final size:15
Alignment explanation
Indices: 18261347--18261379 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
18261337 AAGGTTTATA
18261347 GATTATGGAATTAGG
1 GATTATGGAATTAGG
18261362 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
18261376 GATT
1 GATT
18261380 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:18261431 original size:14 final size:14
Alignment explanation
Indices: 18261412--18261440 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18261402 AGGTTTATGA
18261412 GTTAGGGGTTAGAG
1 GTTAGGGGTTAGAG
18261426 GTTAGGGGTTAGAG
1 GTTAGGGGTTAGAG
18261440 G
1 G
18261441 CTAAGAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.52, T:0.28
Consensus pattern (14 bp):
GTTAGGGGTTAGAG
Found at i:18261651 original size:89 final size:89
Alignment explanation
Indices: 18261489--18261662 Score: 240
Period size: 89 Copynumber: 2.0 Consensus size: 89
18261479 AGGTTAGGGT
* *
18261489 TTAGGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAATAATGTTTAGGGGTTAAGGGCT
1 TTAGGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAATAAGGTTTAAGGGTTAAGGGCT
* * *
18261554 AGGGGTTAGAGATTTGGGGTCGAG
66 AAGAGTTAGAGATTTAGGGTCGAG
** * ** *
18261578 TTAGGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAGGTTTAAGGGTTTGGGGTT
1 TTAGGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAATAAGGTTTAAGGGTTAAGGGCT
*
18261643 AAGAGTTAGTGATTTAGGGT
66 AAGAGTTAGAGATTTAGGGT
18261663 TTAGAGATTC
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 73 1.00
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.43
Consensus pattern (89 bp):
TTAGGGTTTAGATTAATTAGCATGTTTTAATTTATATATTAAATAAGGTTTAAGGGTTAAGGGCT
AAGAGTTAGAGATTTAGGGTCGAG
Found at i:18262692 original size:145 final size:147
Alignment explanation
Indices: 18262516--18262781 Score: 428
Period size: 148 Copynumber: 1.8 Consensus size: 147
18262506 TTTTTTGTGG
*
18262516 AAGGTAAGCAATAGCGGCATTTTAATAAAAAACGCCAC-AAAAA-AATTTTACTTTAAAAAAATA
1 AAGGTAAGCAATAGCGGCATTTTAATAAAAAACACCACAAAAAATAATTTTACTTTAAAAAAATA
* * *
18262579 GCGCCATTTTGTATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCAGCGTTTT
66 GCACCATTTTATATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAATTTTTTGCAGCGTTTT
18262644 TCATAAAAACGCCGCAA
131 TCATAAAAACGCCGCAA
* * *
18262661 AAGGTAAGCAATAGCGGCGTTTTTATGAAAAACACCACAAAAAAATAATTTTACTTTAAAAAAAT
1 AAGGTAAGCAATAGCGGCATTTTAATAAAAAACACCAC-AAAAAATAATTTTACTTTAAAAAAAT
* *
18262726 AGCATCATTTTATATAGTAAAACAATGTCGTTTTATTCCAAATGAAATAATTTTTT
65 AGCACCATTTTATATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAATTTTTT
18262782 ACGACGATAG
Statistics
Matches: 109, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
145 34 0.31
147 5 0.05
148 70 0.64
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (147 bp):
AAGGTAAGCAATAGCGGCATTTTAATAAAAAACACCACAAAAAATAATTTTACTTTAAAAAAATA
GCACCATTTTATATAGCAAAACAATGTCGTTTTATTCCAAATGAAATAATTTTTTGCAGCGTTTT
TCATAAAAACGCCGCAA
Found at i:18262908 original size:21 final size:22
Alignment explanation
Indices: 18262870--18262925 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
18262860 CTCTCCCCCG
*
18262870 AAATCCCCAACTTTCCCCCCTA
1 AAATCCCCAACTTCCCCCCCTA
* * *
18262892 AAATCCCTAA-TTCCCCCCTTG
1 AAATCCCCAACTTCCCCCCCTA
18262913 AAATCCCCAACTT
1 AAATCCCCAACTT
18262926 TACAAACATA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.29, C:0.45, G:0.02, T:0.25
Consensus pattern (22 bp):
AAATCCCCAACTTCCCCCCCTA
Found at i:18265254 original size:13 final size:13
Alignment explanation
Indices: 18265236--18265265 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
18265226 CCATGCCTTT
18265236 AAACACAATGCTC
1 AAACACAATGCTC
18265249 AAACACAATGCTC
1 AAACACAATGCTC
18265262 AAAC
1 AAAC
18265266 TAGGAATAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.30, G:0.07, T:0.13
Consensus pattern (13 bp):
AAACACAATGCTC
Found at i:18269986 original size:43 final size:43
Alignment explanation
Indices: 18269903--18270169 Score: 219
Period size: 43 Copynumber: 6.5 Consensus size: 43
18269893 TTTTAAAAAA
* * *
18269903 GTCATGTT-TTTAGCAGCGTTTGTCA-AAAAGCGCCGCTAAAG
1 GTCATGTTCTTTAGCGGCGTTTGTGATAGAAGCGCCGCTAAAG
18269944 GTCATGTTCTTTAGCGGCGTTTGTGATAGAAGCGCCGCTAAA-
1 GTCATGTTCTTTAGCGGCGTTTGTGATAGAAGCGCCGCTAAAG
* *
18269986 G----G-----T-GCGGCGTTTAT-AGTAGAAGCGCTGCTAAAG
1 GTCATGTTCTTTAGCGGCGTTTGTGA-TAGAAGCGCCGCTAAAG
*
18270019 GTCATGATT-TTTAGCGGCGTTTGTTG-TTGAAGCGCCGCTAAAG
1 GTCATG-TTCTTTAGCGGCGTTTG-TGATAGAAGCGCCGCTAAAG
* * *
18270062 GTCATGATCTTTACCGGCGTTTGT-AGTAGAAGCGCCGCTAACG
1 GTCATGTTCTTTAGCGGCGTTTGTGA-TAGAAGCGCCGCTAAAG
* * ** *
18270105 GTCTTGTTCTTTAGCGGCGTTTATGGGATAAGCGCCGCTAAAG
1 GTCATGTTCTTTAGCGGCGTTTGTGATAGAAGCGCCGCTAAAG
* *
18270148 GTTATG-ACTTTTAGCGGCGTTT
1 GTCATGTTC-TTTAGCGGCGTTT
18270170 ATTTTTAAAA
Statistics
Matches: 182, Mismatches: 23, Indels: 40
0.74 0.09 0.16
Matches are distributed among these distances:
31 1 0.01
32 25 0.14
33 2 0.01
37 1 0.01
38 1 0.01
41 8 0.04
42 20 0.11
43 123 0.68
44 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (43 bp):
GTCATGTTCTTTAGCGGCGTTTGTGATAGAAGCGCCGCTAAAG
Found at i:18270006 original size:32 final size:32
Alignment explanation
Indices: 18269957--18270020 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
18269947 ATGTTCTTTA
*
18269957 GCGGCGTTTGTGATAGAAGCGCCGCTAAAGGT
1 GCGGCGTTTATGATAGAAGCGCCGCTAAAGGT
*
18269989 GCGGCGTTTAT-AGTAGAAGCGCTGCTAAAGGT
1 GCGGCGTTTATGA-TAGAAGCGCCGCTAAAGGT
18270021 CATGATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 1 0.03
32 28 0.97
ACGTcount: A:0.23, C:0.17, G:0.36, T:0.23
Consensus pattern (32 bp):
GCGGCGTTTATGATAGAAGCGCCGCTAAAGGT
Found at i:18280976 original size:42 final size:42
Alignment explanation
Indices: 18280929--18281138 Score: 251
Period size: 42 Copynumber: 5.0 Consensus size: 42
18280919 GAAGCACAAA
* * *
18280929 CACTTAAGCTCACATGGGGAGCTTTGCTGATACACAGCTTGT
1 CACTTAAGCTCACATGGGGAGCTTCGCTAATACACAACTTGT
** *
18280971 CACTTAAGCTTGCATGGGGAGCTTCACTAATACACAACTTGT
1 CACTTAAGCTCACATGGGGAGCTTCGCTAATACACAACTTGT
* * * *
18281013 CATTTAAGCTCACGA-GGAGAGCTTCGCTGATGCACAACTTGT
1 CACTTAAGCTCAC-ATGGGGAGCTTCGCTAATACACAACTTGT
* * * *
18281055 CACTTAAGCTCACGTGAGGAACTTCTCTAATACACAACTTGT
1 CACTTAAGCTCACATGGGGAGCTTCGCTAATACACAACTTGT
* * *
18281097 CACTTAAGCTCACGTAGAGAGCTTCGCTAATACACAACTTGT
1 CACTTAAGCTCACATGGGGAGCTTCGCTAATACACAACTTGT
18281139 AAAATCATTT
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
42 139 0.99
43 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (42 bp):
CACTTAAGCTCACATGGGGAGCTTCGCTAATACACAACTTGT
Found at i:18281085 original size:84 final size:84
Alignment explanation
Indices: 18280929--18281138 Score: 280
Period size: 84 Copynumber: 2.5 Consensus size: 84
18280919 GAAGCACAAA
* * * ** * *
18280929 CACTTAAGCTCAC-ATGGGGAGCTTTGCTGATACACAGCTTGTCACTTAAGCTTGCATGGGGAGC
1 CACTTAAGCTCACGA-GGAGAGCTTCGCTGATACACAACTTGTCACTTAAGCTCACATGAGGAAC
18280993 TTCACTAATACACAACTTGT
65 TTCACTAATACACAACTTGT
* * *
18281013 CATTTAAGCTCACGAGGAGAGCTTCGCTGATGCACAACTTGTCACTTAAGCTCACGTGAGGAACT
1 CACTTAAGCTCACGAGGAGAGCTTCGCTGATACACAACTTGTCACTTAAGCTCACATGAGGAACT
*
18281078 TCTCTAATACACAACTTGT
66 TCACTAATACACAACTTGT
*
18281097 CACTTAAGCTCACGTA-GAGAGCTTCGCTAATACACAACTTGT
1 CACTTAAGCTCACG-AGGAGAGCTTCGCTGATACACAACTTGT
18281139 AAAATCATTT
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
84 108 0.98
85 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (84 bp):
CACTTAAGCTCACGAGGAGAGCTTCGCTGATACACAACTTGTCACTTAAGCTCACATGAGGAACT
TCACTAATACACAACTTGT
Found at i:18283013 original size:8 final size:8
Alignment explanation
Indices: 18283002--18283027 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
18282992 AATTTACAAA
18283002 TTAATTAT
1 TTAATTAT
18283010 TTAATTAT
1 TTAATTAT
18283018 TTAATTAT
1 TTAATTAT
18283026 TT
1 TT
18283028 TTCTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTAATTAT
Found at i:18285583 original size:23 final size:23
Alignment explanation
Indices: 18285553--18285596 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
18285543 AAGAGAAGAG
*
18285553 TCACTCGAGTTAGACTTAACGGT
1 TCACTCGAGTTAAACTTAACGGT
18285576 TCACTCGAGTTAAACTTAACG
1 TCACTCGAGTTAAACTTAACG
18285597 ATTTTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (23 bp):
TCACTCGAGTTAAACTTAACGGT
Found at i:18289820 original size:12 final size:12
Alignment explanation
Indices: 18289805--18289836 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
18289795 AAAAGAGAGA
*
18289805 AAAATCTCTGTT
1 AAAATCTCTATT
18289817 AAAATCTCTATT
1 AAAATCTCTATT
18289829 AAAATCTC
1 AAAATCTC
18289837 AAGAAAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.38
Consensus pattern (12 bp):
AAAATCTCTATT
Found at i:18295444 original size:30 final size:30
Alignment explanation
Indices: 18295383--18295445 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
18295373 CAAGCAAGGG
* *
18295383 AGAAATCCAAGGGATCTCTATGCTATTTTT
1 AGAAATCCAAGGGATCTCCATGCTATATTT
*
18295413 AGAAATCCAAGGGATCTCCGTGCT-TAATTT
1 AGAAATCCAAGGGATCTCCATGCTAT-ATTT
18295443 AGA
1 AGA
18295446 TTTTAATCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (30 bp):
AGAAATCCAAGGGATCTCCATGCTATATTT
Found at i:18295854 original size:15 final size:16
Alignment explanation
Indices: 18295822--18295855 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
18295812 TTTTCAACTC
18295822 ATTTGCATTTAGGTTA
1 ATTTGCATTTAGGTTA
18295838 ATTTGCATTTA-GTTA
1 ATTTGCATTTAGGTTA
18295853 ATT
1 ATT
18295856 AATTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (16 bp):
ATTTGCATTTAGGTTA
Found at i:18305762 original size:50 final size:49
Alignment explanation
Indices: 18305695--18305879 Score: 199
Period size: 51 Copynumber: 3.7 Consensus size: 49
18305685 TGAAAGTGAT
* * *
18305695 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG-TA
* *** *
18305745 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATACGTACCGGATAGCTTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAG--TA
* * * *
18305796 GATCACGTGTGTAGTGCTATGTGCAGGCTACTACGTGTATCGGATAGTGA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGT-A
* *
18305846 TGGTTACATGTGTAGTACTATGTGTAGGCTACTA
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTA
18305880 TGTGAACCCG
Statistics
Matches: 109, Mismatches: 23, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
49 1 0.01
50 40 0.37
51 68 0.62
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATAGTA
Found at i:18305827 original size:51 final size:50
Alignment explanation
Indices: 18305697--18305829 Score: 158
Period size: 50 Copynumber: 2.6 Consensus size: 50
18305687 AAAGTGATGG
** *
18305697 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAAAGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACACGTACCAGAAAGATAGA
* * * * * * *
18305747 TCGCATGTGTAGTACTATGTGCAGGCTACTATACGTACCGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACACGTACCAGAAAG-ATAGA
*
18305798 TCACGTGTGTAGTGCTATGTGCAGGCTACTAC
1 TCACGTGTGTAGTACTATGTGCAGGCTACTAC
18305830 GTGTATCGGA
Statistics
Matches: 68, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 38 0.56
51 30 0.44
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACACGTACCAGAAAGATAGA
Found at i:18306030 original size:84 final size:84
Alignment explanation
Indices: 18305886--18306102 Score: 364
Period size: 84 Copynumber: 2.6 Consensus size: 84
18305876 ACTATGTGAA
* *
18305886 CCCGTATCATTGATTATAAGGA-GGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAG
1 CCCGTATCATTGATTATAA-GATGGTTGCTAAGTGCTGATTCCACCGTGTCCTTGACTGTGAAAG
18305950 GGGTTACTATGTGCTGATTC
65 GGGTTACTATGTGCTGATTC
18305970 CCCGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTCCACCGTGTCCTTGACTGTGAAAGG
1 CCCGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTCCACCGTGTCCTTGACTGTGAAAGG
* *
18306035 GGTTGCTATGTTCTGATTC
66 GGTTACTATGTGCTGATTC
* *
18306054 CCTGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACCGTGT
1 CCCGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTCCACCGTGT
18306103 AACGGTTAAT
Statistics
Matches: 126, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
83 2 0.02
84 124 0.98
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.35
Consensus pattern (84 bp):
CCCGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTCCACCGTGTCCTTGACTGTGAAAGG
GGTTACTATGTGCTGATTC
Found at i:18306092 original size:41 final size:41
Alignment explanation
Indices: 18305887--18306100 Score: 245
Period size: 42 Copynumber: 5.1 Consensus size: 41
18305877 CTATGTGAAC
18305887 CCGTATCATTGATTATAAGGAGGTTGCTAAGTGCTGATTCCA
1 CCGTATCATTGATTATAAGG-GGTTGCTAAGTGCTGATTCCA
* * * *
18305929 CCGTATCCTTGATTGTGAAAGGGGTTACTATGTGCTGATTCC-
1 CCGTATCATTGATTAT--AAGGGGTTGCTAAGTGCTGATTCCA
*
18305971 CCGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTCCA
1 CCGTATCATTGATTATAAG-GGGTTGCTAAGTGCTGATTCCA
* * * *
18306013 CCGTGTCCTTGACTGTGA-AAGGGGTTGCTATGTTCTGATTCC-
1 CCGTATCATTGA-T-T-ATAAGGGGTTGCTAAGTGCTGATTCCA
*
18306055 CTGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCA
1 CCGTATCATTGATTATAAGG-GGTTGCTAAGTGCTGATTCCA
18306097 CCGT
1 CCGT
18306101 GTAACGGTTA
Statistics
Matches: 142, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
39 1 0.01
40 8 0.06
41 37 0.26
42 50 0.35
43 37 0.26
44 8 0.06
45 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (41 bp):
CCGTATCATTGATTATAAGGGGTTGCTAAGTGCTGATTCCA
Found at i:18315222 original size:46 final size:45
Alignment explanation
Indices: 18315155--18315480 Score: 368
Period size: 46 Copynumber: 7.6 Consensus size: 45
18315145 TTTGAGTACT
*
18315155 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
18315201 TCTGATCAAGTGAAAAAGTGATAA---GT-G--T---TACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
18315237 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
18315283 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
18315319 TCTGATCAGGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
18315365 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
18315411 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
18315456 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
18315481 ATCATATGTA
Statistics
Matches: 242, Mismatches: 18, Indels: 43
0.80 0.06 0.14
Matches are distributed among these distances:
36 57 0.24
38 1 0.00
39 4 0.02
40 4 0.02
41 1 0.00
42 5 0.02
43 18 0.07
44 3 0.01
45 19 0.08
46 130 0.54
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:18315234 original size:36 final size:36
Alignment explanation
Indices: 18315193--18315348 Score: 168
Period size: 36 Copynumber: 4.1 Consensus size: 36
18315183 TAGCATTAGC
18315193 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
* *
18315229 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 TACACTTATCTGATCAAGTGAAAAAGTGATAA---GT-G---T
*
18315272 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGC
1 ---TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
* * *
18315311 TATACTTATCTGATCAGGTGACAAAGTGATAAGTGT
1 TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
18315347 TA
1 TA
18315349 GCCTTAGCTA
Statistics
Matches: 101, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
36 64 0.63
39 2 0.02
40 1 0.01
42 1 0.01
43 3 0.03
46 30 0.30
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (36 bp):
TACACTTATCTGATCAAGTGAAAAAGTGATAAGTGT
Found at i:18315258 original size:82 final size:81
Alignment explanation
Indices: 18315155--18315480 Score: 431
Period size: 82 Copynumber: 3.9 Consensus size: 81
18315145 TTTGAGTACT
*
18315155 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
18315220 GATAAGTGTTACACTTA
65 GATAAGTGTTACACTTA
*
18315237 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
18315302 GATAAGTGCTATACTTA
65 GATAAGTGTTACACTTA
* * *
18315319 TCTGATCAGGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAGTGAAAAAGT
18315384 GATAAGTGGTAGCCTTAGCTACTCTTA
65 GATAA---GT-G--TTA-C-A--CTTA
* * *
18315411 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AG-GGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
18315474 ATAAGTG
66 ATAAGTG
18315481 ATCATATGTA
Statistics
Matches: 216, Mismatches: 17, Indels: 19
0.86 0.07 0.08
Matches are distributed among these distances:
82 141 0.65
83 1 0.00
85 3 0.01
86 3 0.01
88 2 0.01
89 10 0.05
90 3 0.01
91 20 0.09
92 33 0.15
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (81 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGTTACACTTA
Found at i:18315473 original size:128 final size:126
Alignment explanation
Indices: 18315155--18315480 Score: 365
Period size: 128 Copynumber: 2.6 Consensus size: 126
18315145 TTTGAGTACT
* *
18315155 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAG-GGAAAAGT
* *
18315220 GATAAGTGTTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
64 GATAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
* * * * * ** * *
18315283 TCTGATCAAGTGAAAAAGTGATAAGTGCTATACTTATCT-GA-TCAGGTGA-CAAAGTGATAAGT
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTA-GCTTAGCTACACTTATCTGATC-AAGGGAAAAGT
* * * *
18315345 G-TTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCT
64 GATAAG---T-GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAGCTACACT
18315409 TA
125 TA
* * *
18315411 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AGGGACAAGTGA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGAAAAGTGA
18315475 TAAGTG
66 TAAGTG
18315481 ATCATATGTA
Statistics
Matches: 159, Mismatches: 29, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
124 3 0.02
125 8 0.05
126 9 0.06
127 7 0.04
128 122 0.77
129 9 0.06
130 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (126 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGGGAAAAGTGA
TAAGTGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
Found at i:18318421 original size:62 final size:58
Alignment explanation
Indices: 18318309--18318441 Score: 158
Period size: 62 Copynumber: 2.2 Consensus size: 58
18318299 ATCACTTTAA
* * * * *
18318309 TATTAAATTAATATAATATTTATCGAAATAAATATTAGATTAAATATAATATCAAATCT
1 TATTAAATTAATACAATATGTATCCAAATAAATAATAAATTAAATATAATATCAAAT-T
* *
18318368 TATTAAATTAATACAATATGTATCTACAATATAAATAATAAATTAAATTTAATATTAAATT
1 TATTAAATTAATACAATATGTATC--CAA-ATAAATAATAAATTAAATATAATATCAAATT
*
18318429 TATTAAAATAATA
1 TATTAAATTAATA
18318442 TTATTTTTGG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 22 0.35
61 15 0.24
62 26 0.41
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (58 bp):
TATTAAATTAATACAATATGTATCCAAATAAATAATAAATTAAATATAATATCAAATT
Found at i:18325197 original size:22 final size:24
Alignment explanation
Indices: 18325156--18325210 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 24
18325146 ATAGTCCTAG
* *
18325156 TGACATTCTTACCTAATATATATA
1 TGACATGCTTACCTAATATATACA
*
18325180 TGACATGCTT-CC-AATATATGCA
1 TGACATGCTTACCTAATATATACA
18325202 TGACATGCT
1 TGACATGCT
18325211 ATGAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 17 0.61
23 2 0.07
24 9 0.32
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (24 bp):
TGACATGCTTACCTAATATATACA
Found at i:18326482 original size:20 final size:19
Alignment explanation
Indices: 18326435--18326484 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
18326425 CAATATAAAC
18326435 ATTAAATT--TAATTTAAT
1 ATTAAATTAATAATTTAAT
18326452 ATTAAGA-TAATAACTTTAAT
1 ATTAA-ATTAATAA-TTTAAT
18326472 ATTAAATTAATAA
1 ATTAAATTAATAA
18326485 AATATTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.21
18 1 0.04
19 4 0.14
20 17 0.61
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
ATTAAATTAATAATTTAAT
Found at i:18326488 original size:25 final size:25
Alignment explanation
Indices: 18326441--18326488 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
18326431 AAACATTAAA
*
18326441 TTTAATTTAATATTAAGATAATAAC
1 TTTAATTTAATATTAAGAAAATAAC
*
18326466 TTTAATATTAA-ATTAATAAAATA
1 TTTAAT-TTAATATTAAGAAAATA
18326489 TTATTAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATAAC
Found at i:18330564 original size:26 final size:26
Alignment explanation
Indices: 18330508--18330557 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
18330498 CCTAATTCCT
18330508 AAAAACCTCTAACCCTAACAAAATTA
1 AAAAACCTCTAACCCTAACAAAATTA
* *
18330534 AAAAACCT-TAACCTTATCAAAATT
1 AAAAACCTCTAACCCTAACAAAATT
18330558 TTTAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (26 bp):
AAAAACCTCTAACCCTAACAAAATTA
Found at i:18343323 original size:29 final size:30
Alignment explanation
Indices: 18343284--18343350 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 30
18343274 ATAATTTAAT
*
18343284 AATCAAGTGAGCCCTCAATTAAAAATA-GC
1 AATCAATTGAGCCCTCAATTAAAAATATGC
* * * *
18343313 ACTCAATTGAGTCCTTAATTAAATATATGC
1 AATCAATTGAGCCCTCAATTAAAAATATGC
18343343 AATCAATT
1 AATCAATT
18343351 AATCCTTTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (30 bp):
AATCAATTGAGCCCTCAATTAAAAATATGC
Found at i:18343356 original size:29 final size:29
Alignment explanation
Indices: 18343300--18343357 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
18343290 GTGAGCCCTC
* *
18343300 AATTAAAAATAGCACTCAATTGAGTCCTT
1 AATTAAAAATAGCAATCAATTGAATCCTT
*
18343329 AATTAAATATATGCAATCAATT-AATCCTT
1 AATTAAAAATA-GCAATCAATTGAATCCTT
18343358 TGAAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (29 bp):
AATTAAAAATAGCAATCAATTGAATCCTT
Found at i:18343733 original size:30 final size:30
Alignment explanation
Indices: 18343699--18343779 Score: 78
Period size: 29 Copynumber: 2.7 Consensus size: 30
18343689 TATTGTTCAT
18343699 AATTTTATATAATTTGTAATAACTTTTTT-C
1 AATTTTATATAATTT-TAATAACTTTTTTGC
* **
18343729 AA-TTTCTATAATATTTAA-ATTTTTTTTGC
1 AATTTTATATAAT-TTTAATAACTTTTTTGC
*
18343758 AATTTTATATTATTTTTAATAA
1 AATTTTATA-TAATTTTAATAA
18343780 ATTATAATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
28 7 0.17
29 15 0.38
30 14 0.35
31 4 0.10
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (30 bp):
AATTTTATATAATTTTAATAACTTTTTTGC
Found at i:18343809 original size:34 final size:33
Alignment explanation
Indices: 18343760--18343851 Score: 103
Period size: 34 Copynumber: 2.7 Consensus size: 33
18343750 TTTTTTGCAA
* *
18343760 TTTTATATTATTTTTAATAAATTATAATATTTTCC
1 TTTT-TATAATTTTTAA-AAATTATAATATTTTAC
* * *
18343795 TTTTTATAATTTTTAAAAATTCAAAATTTTTTAT
1 TTTTTATAATTTTTAAAAATT-ATAATATTTTAC
*
18343829 TTTTTGTAATTTTTAAAAATTAT
1 TTTTTATAATTTTTAAAAATTAT
18343852 GTTCTTTAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
33 6 0.12
34 39 0.80
35 4 0.08
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (33 bp):
TTTTTATAATTTTTAAAAATTATAATATTTTAC
Found at i:18343884 original size:25 final size:27
Alignment explanation
Indices: 18343838--18343892 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
18343828 TTTTTTGTAA
**
18343838 TTTTTAAAAATTATGTTCTTTA-ATTT
1 TTTTTAAAAATTATAATCTTTATATTT
*
18343864 TTTTTGAAAATTATAAT-TTTATATTT
1 TTTTTAAAAATTATAATCTTTATATTT
18343890 TTT
1 TTT
18343893 ATTCGCCACG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (27 bp):
TTTTTAAAAATTATAATCTTTATATTT
Found at i:18344338 original size:13 final size:13
Alignment explanation
Indices: 18344298--18344338 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
18344288 AATTAATTTT
18344298 AATAAATTTATTA
1 AATAAATTTATTA
**
18344311 CTTAAATTT-TT-
1 AATAAATTTATTA
18344322 AATAAATTTATTA
1 AATAAATTTATTA
18344335 AATA
1 AATA
18344339 TGTGGGTTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
11 7 0.32
12 4 0.18
13 11 0.50
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (13 bp):
AATAAATTTATTA
Found at i:18349865 original size:49 final size:48
Alignment explanation
Indices: 18349808--18350317 Score: 778
Period size: 49 Copynumber: 10.6 Consensus size: 48
18349798 TTAAACCCAT
*
18349808 ATGTGAAAGTGTATATACATGTGATAAGGACTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGA
18349857 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
18349906 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
18349955 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
18350004 ATGTGAAAGTGTATATATACGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGA
18350053 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
18350102 ATGTGAAAGTGTATAT-ATGTGATAAGGCCTAATGGCCGATGTGAGGA
1 ATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
18350149 ATGTGAAAGTGTATGCAT-ATGTGATAAGGCCTAATAGCCGATGTAATGA
1 ATGTGAAAGTGTAT--ATAATGTGATAAGGCCTAATGGCCGATGTGATGA
18350198 ATGTGAAAGTGTATAT-ATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
18350245 ATGTGAAAGTGTATAT-AGGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCGATGTGATGA
18350292 ATGTGAAAGTGTATA-AATGTGATAAG
1 ATGTGAAAGTGTATATAATGTGATAAG
18350318 TCCCGAAGGG
Statistics
Matches: 432, Mismatches: 26, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
47 136 0.31
49 296 0.69
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (48 bp):
ATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:18350492 original size:37 final size:37
Alignment explanation
Indices: 18350436--18350514 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18350426 CCGAGCTCTA
* * *
18350436 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
18350473 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
18350510 AAGAC
1 AAGAC
18350515 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:18355071 original size:42 final size:42
Alignment explanation
Indices: 18354980--18355079 Score: 128
Period size: 42 Copynumber: 2.4 Consensus size: 42
18354970 GATCTTGGTA
* * ** **
18354980 TCGCACACTCAGTACCCGTTATTTGACATCGTCATTTTTGTT
1 TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
*
18355022 TCGCACACTTAGTGCCCGTTATTCAACATCTTCATTTTAATT
1 TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
*
18355064 TCTCACACTTAGTGCC
1 TCGCACACTTAGTGCC
18355080 ATTCGTATAG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.21, C:0.28, G:0.12, T:0.39
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCGTTATTCAACATCGTCATTTTAATT
Found at i:18361079 original size:30 final size:31
Alignment explanation
Indices: 18361045--18361112 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
18361035 TTGCCCAAGA
** * * *
18361045 GTAAATACTCAAAATTTGAGGGGCTAA-AGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
18361075 GTAAATACAAAAAATTTGAAGGACCAATAGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
18361106 GTAAATA
1 GTAAATA
18361113 TTTTAAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (31 bp):
GTAAATACAAAAAATTTGAAGGACCAATAGT
Found at i:18384176 original size:56 final size:56
Alignment explanation
Indices: 18384109--18384228 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
18384099 TATTAGTTTA
18384109 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
18384165 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
18384221 TTGCCCAT
1 TTGCCCAT
18384229 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:18390870 original size:22 final size:21
Alignment explanation
Indices: 18390843--18390896 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
18390833 ATTTATTTAA
*
18390843 TTATTTTTTGGTTATTAGGAAT
1 TTATTTTTTGGTAATTAGG-AT
*
18390865 TTATTTCTTTAGTAATTAGGAT
1 TTATTT-TTTGGTAATTAGGAT
*
18390887 TTAATTTTTG
1 TTATTTTTTG
18390897 CAAATTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.11
22 13 0.48
23 11 0.41
ACGTcount: A:0.24, C:0.02, G:0.15, T:0.59
Consensus pattern (21 bp):
TTATTTTTTGGTAATTAGGAT
Found at i:18393072 original size:19 final size:19
Alignment explanation
Indices: 18393050--18393087 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
18393040 TCAATCATCC
18393050 CTCATCTCATCA-TCTCTCA
1 CTCAT-TCATCATTCTCTCA
18393069 CTCATTCATCATTCTCTCA
1 CTCATTCATCATTCTCTCA
18393088 ACTCTTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCATTCATCATTCTCTCA
Found at i:18401658 original size:56 final size:56
Alignment explanation
Indices: 18401573--18401685 Score: 167
Period size: 56 Copynumber: 2.0 Consensus size: 56
18401563 TCCTTTATCC
*
18401573 ATTAATTTTATTTTCCCTTTCTCTGGTTTTG-TT-CCTTCATCTGAATCAATGTTGG
1 ATTAATTTTATTTTCCCTTTCTCTAGTTTTGTTTCCCTT-ATCTGAATCAATGTTGG
* *
18401628 ATTAATTTTCATTTTCCCTTTCTCTAGTTTTGTTTCCCTTATCTTAATCAATTTTGG
1 ATTAATTTT-ATTTTCCCTTTCTCTAGTTTTGTTTCCCTTATCTGAATCAATGTTGG
18401685 A
1 A
18401686 AAATGACGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
55 9 0.17
56 21 0.40
57 18 0.35
58 4 0.08
ACGTcount: A:0.18, C:0.19, G:0.10, T:0.54
Consensus pattern (56 bp):
ATTAATTTTATTTTCCCTTTCTCTAGTTTTGTTTCCCTTATCTGAATCAATGTTGG
Found at i:18430868 original size:26 final size:26
Alignment explanation
Indices: 18430833--18430883 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
18430823 AATGTGAAAG
*
18430833 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
18430859 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
18430884 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:18431009 original size:104 final size:103
Alignment explanation
Indices: 18430755--18431123 Score: 632
Period size: 103 Copynumber: 3.6 Consensus size: 103
18430745 TTGTATATAA
** *
18430755 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
18430819 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
*
18430858 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
18430923 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
* *
18430962 AGGGGTTGCTAAGTGCTTATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
18431027 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
** *
18431065 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
18431124 ATAACGGTTA
Statistics
Matches: 254, Mismatches: 10, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
103 151 0.59
104 103 0.41
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:18431075 original size:26 final size:26
Alignment explanation
Indices: 18431040--18431091 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
18431030 AATGTGAAAG
*
18431040 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
18431066 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
18431092 TTCAGCGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:18434097 original size:40 final size:40
Alignment explanation
Indices: 18434042--18434121 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
18434032 ACAAGATAAG
*
18434042 AAATAGAAAGAATTCAAGGATGACAGCTTTCTTCTATCCA
1 AAATAGAAAGAATTCAAGGATGACAACTTTCTTCTATCCA
*
18434082 AAATAGAGAGAATTCAAGGATGACAACTTTCTTCTATCCA
1 AAATAGAAAGAATTCAAGGATGACAACTTTCTTCTATCCA
18434122 GCTCTCAACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (40 bp):
AAATAGAAAGAATTCAAGGATGACAACTTTCTTCTATCCA
Found at i:18435093 original size:110 final size:110
Alignment explanation
Indices: 18434962--18435181 Score: 397
Period size: 110 Copynumber: 2.0 Consensus size: 110
18434952 TCTTTTTTAG
* * *
18434962 GATTTGACTTTTAGACGAGAAATAGAAT-ACTATTTTGGTATCGATTTTTCAATCAGTATCGATA
1 GATTTGACTTTTAGACAAGAAATAGAATGA-TATTTTGGTACCGATTTTCCAATCAGTATCGATA
18435026 ACATATGAAGGAAATATCGATAATTTTGTTTCAGTATCGATACCTA
65 ACATATGAAGGAAATATCGATAATTTTGTTTCAGTATCGATACCTA
18435072 GATTTGACTTTTAGACAAGAAATAGAATGATATTTTGGTACCGATTTTCCAATCAGTATCGATAA
1 GATTTGACTTTTAGACAAGAAATAGAATGATATTTTGGTACCGATTTTCCAATCAGTATCGATAA
18435137 CATATGAAGGAAATATCGATAATTTTGTTTCAGTATCGATACCTA
66 CATATGAAGGAAATATCGATAATTTTGTTTCAGTATCGATACCTA
18435182 CGTAGTTACA
Statistics
Matches: 106, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
110 105 0.99
111 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (110 bp):
GATTTGACTTTTAGACAAGAAATAGAATGATATTTTGGTACCGATTTTCCAATCAGTATCGATAA
CATATGAAGGAAATATCGATAATTTTGTTTCAGTATCGATACCTA
Found at i:18440753 original size:37 final size:37
Alignment explanation
Indices: 18440703--18440781 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18440693 TTATTACGAA
* * *
18440703 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
18440740 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
18440777 GTCTT
1 GTCTT
18440782 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:18441109 original size:47 final size:47
Alignment explanation
Indices: 18440899--18441282 Score: 607
Period size: 47 Copynumber: 8.1 Consensus size: 47
18440889 CCCTTCGGGA
* * * * * *
18440899 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18440946 CCTGTCACATATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18440994 CTTATCACATATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18441039 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18441085 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18441132 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18441180 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18441227 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18441276 CTTATCA
1 CTTATCA
18441283 TCATTTCATA
Statistics
Matches: 316, Mismatches: 10, Indels: 20
0.91 0.03 0.06
Matches are distributed among these distances:
44 14 0.04
45 29 0.09
46 44 0.14
47 99 0.31
48 69 0.22
49 61 0.19
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18441190 original size:95 final size:95
Alignment explanation
Indices: 18440899--18441282 Score: 652
Period size: 95 Copynumber: 4.1 Consensus size: 95
18440889 CCCTTCGGGA
* * * * * * *
18440899 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATATAC
18440964 AC-TTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
18440994 CTTATCACATATAT--ACTTTCACATTCATCACATCGGCCATTAGGCCTATCAC--ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATATACA
18441055 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
18441085 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATATACA
18441150 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
18441180 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATATAC
18441245 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
18441276 CTTATCA
1 CTTATCA
18441283 TCATTTCATA
Statistics
Matches: 276, Mismatches: 7, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
90 10 0.04
91 42 0.15
92 7 0.03
93 63 0.23
95 100 0.36
96 54 0.20
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (95 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18444507 original size:49 final size:49
Alignment explanation
Indices: 18444286--18445032 Score: 1238
Period size: 49 Copynumber: 15.6 Consensus size: 49
18444276 CCCTTCGGGA
* * * * *
18444286 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18444333 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18444380 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18444427 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18444474 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18444523 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18444572 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18444619 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18444668 CTTATCAAATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18444717 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18444766 CTTATCAC--ATATATACATTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18444813 CTTATCAC--ATATATACATTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18444860 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18444909 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18444958 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18445007 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
18445033 CACAATTATC
Statistics
Matches: 669, Mismatches: 23, Indels: 16
0.94 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 278 0.42
49 390 0.58
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18444578 original size:145 final size:145
Alignment explanation
Indices: 18444286--18445032 Score: 1231
Period size: 145 Copynumber: 5.2 Consensus size: 145
18444276 CCCTTCGGGA
* * * * * * * *
18444286 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
18444349 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC--ATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
*
18444412 CATCGGCTATTAGGC
131 CATCGGCCATTAGGC
18444427 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
18444492 ACTTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
18444557 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
18444572 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
18444637 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAAATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
18444702 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
18444717 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* * *
18444780 ACATTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--ATATATACATTTTCACATTCAT
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
18444843 CACATCGGCCATTAGGC
129 CACATCGGCCATTAGGC
18444860 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
18444925 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
* *
18444990 CACATTGGCCATTCGGC
129 CACATCGGCCATTAGGC
* *
18445007 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
18445033 CACAATTATC
Statistics
Matches: 572, Mismatches: 24, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
141 47 0.08
143 140 0.24
145 294 0.51
147 91 0.16
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (145 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
CATCGGCCATTAGGC
Found at i:18452335 original size:30 final size:31
Alignment explanation
Indices: 18452301--18452368 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
18452291 TTGCCCAAGA
** * * *
18452301 GTAAATACTCAAAATTTGAGGGGCTAA-AGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
18452331 GTAAATACAAAAAATTTGAAGGACCAATAGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
18452362 GTAAATA
1 GTAAATA
18452369 TTTTAAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (31 bp):
GTAAATACAAAAAATTTGAAGGACCAATAGT
Found at i:18463184 original size:27 final size:27
Alignment explanation
Indices: 18463153--18463330 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
18463143 TAAAATGTAC
18463153 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
18463180 TGCACTAAGTGTGCGAAATGA--ATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18463205 GATGCACTAAGTGTGCGAATTGACCATGC
1 -A-GCACTAAGTGTGCGATTTGACTATGT
*
18463234 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
18463262 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
18463289 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
18463316 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
18463331 GACTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
25 4 0.03
27 99 0.77
28 23 0.18
29 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:18463294 original size:82 final size:81
Alignment explanation
Indices: 18463154--18463309 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
18463144 AAAATGTACA
* *
18463154 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGT
18463219 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
**
18463235 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCACTAAG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACGTGATGCACTAAG
*
18463298 TGTGCGAGTTGA
63 TGTGCGAATTGA
18463310 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 15 0.22
82 48 0.72
83 1 0.01
84 3 0.04
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:18463321 original size:82 final size:81
Alignment explanation
Indices: 18463150--18463330 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
18463140 GATTAAAATG
* *
18463150 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAA
18463215 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * **
18463231 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACGTGATGCAC
* **
18463294 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
18463313 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
18463331 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 17 0.20
82 63 0.75
83 1 0.01
84 3 0.04
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAA
GTGTGCGAATTGACCA
Found at i:18475411 original size:19 final size:19
Alignment explanation
Indices: 18475389--18475426 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18475379 TCAATCATCC
18475389 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
18475408 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
18475427 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:18484114 original size:14 final size:14
Alignment explanation
Indices: 18484095--18484122 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18484085 TAAAGTTATA
18484095 TTTAATAATTCATT
1 TTTAATAATTCATT
18484109 TTTAATAATTCATT
1 TTTAATAATTCATT
18484123 AATAAATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:18484612 original size:19 final size:19
Alignment explanation
Indices: 18484590--18484627 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18484580 TCAATCATCC
18484590 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
18484609 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
18484628 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:18494751 original size:41 final size:45
Alignment explanation
Indices: 18494663--18494757 Score: 117
Period size: 47 Copynumber: 2.2 Consensus size: 45
18494653 TCATTACGAT
* **
18494663 TGGCATGCTTAACATGCAAATCAGAATTTAATTATGAATCGGTACAG
1 TGGCATGCTTAACATGCAAATCAGAA-TTAATCATG-ATCGAAACAG
18494710 TGGCATGCTTAACATGCAAATCAGAA-T-ATCA-G-TCGAAACAG
1 TGGCATGCTTAACATGCAAATCAGAATTAATCATGATCGAAACAG
18494751 TGGCATG
1 TGGCATG
18494758 GTTATTCTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
41 14 0.31
43 1 0.02
44 3 0.07
45 1 0.02
47 26 0.58
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (45 bp):
TGGCATGCTTAACATGCAAATCAGAATTAATCATGATCGAAACAG
Found at i:18522140 original size:44 final size:43
Alignment explanation
Indices: 18522083--18522411 Score: 188
Period size: 44 Copynumber: 7.6 Consensus size: 43
18522073 AGAATTACAT
*
18522083 ATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCCAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAA-CCAGTA
* * *** * ** **
18522127 ATCCTATTTCCCTGAGATTACAGTGGAACGGATTAAAATAAAA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAACCAGTA
* * * * *
18522170 GATCTTATCTCTCTGA-AGTTACAGTAGAATAGA-TCACATCA-T-
1 -ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGA-ACCAGTA
* *
18522212 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAA-CCAGTA
* * * * * ** *
18522256 ATCCTATTTCCCTGAGATTACAGTGGAATGGATTAAAATAAAG-G
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATT-GAA-CCAGTA
** * * * *
18522300 ATCTTATCTCTTTGA-AGTTACAGTAGAGTAGATCGCATCA--A
1 ATCTTATCTCCCTGAGA-TTACAGTGGAGTAGATTGAACCAGTA
* *
18522341 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAACCCAGTA
1 ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAA-CCAGTA
* * *
18522385 ATCCTATTTCCTTGAGATTACAGTGGA
1 ATCTTATCTCCCTGAGATTACAGTGGA
18522412 ACGGATTAAA
Statistics
Matches: 207, Mismatches: 64, Indels: 28
0.69 0.21 0.09
Matches are distributed among these distances:
41 54 0.26
42 9 0.04
43 8 0.04
44 132 0.64
45 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (43 bp):
ATCTTATCTCCCTGAGATTACAGTGGAGTAGATTGAACCAGTA
Found at i:18522310 original size:129 final size:129
Alignment explanation
Indices: 18522080--18522492 Score: 718
Period size: 129 Copynumber: 3.2 Consensus size: 129
18522070 CGAAGAATTA
*
18522080 CATATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCCAGTAATCCTATTTCCCTGAGAT
1 CATATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGAT
* * * *
18522145 TACAGTGGAACGGATTAAAATAAAAGATCTTATCTCTCTGAAGTTACAGTAGAATAGATCACAT
66 TACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCAT
18522209 CATATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGAT
1 CATATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGAT
*
18522274 TACAGTGGAATGGATTAAAATAAAGGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCAT
66 TACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCAT
* * *
18522338 CAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAACCCAGTAATCCTATTTCCTTGAGAT
1 CATATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGAT
*
18522403 TACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTTTGAAGTTACAATAGAGTAGATCGCAT
66 TACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCAT
**
18522467 CAGGTCTTATCTCCCTGAGATTACAG
1 CATATCTTATCTCCCTGAGATTACAG
18522493 TGGAATAGAC
Statistics
Matches: 271, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 271 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (129 bp):
CATATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGAT
TACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTTTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:18528206 original size:21 final size:21
Alignment explanation
Indices: 18528182--18528231 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
18528172 TTGGGTATCA
18528182 TTTGGAAACTAAA-TAGAAAAT
1 TTTGGAAACTAAATTA-AAAAT
18528203 TTT-GAAA-TAAATTTAAAAAT
1 TTTGGAAACTAAA-TTAAAAAT
18528223 TTTGGAAAC
1 TTTGGAAAC
18528232 ATGGGTCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 4 0.16
20 12 0.48
21 9 0.36
ACGTcount: A:0.50, C:0.04, G:0.12, T:0.34
Consensus pattern (21 bp):
TTTGGAAACTAAATTAAAAAT
Found at i:18531632 original size:14 final size:15
Alignment explanation
Indices: 18531615--18531647 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
18531605 CTTGCTTTTC
*
18531615 ATTTATTTT-TTGTT
1 ATTTATTTTCTTATT
18531629 ATTTATTTTCTTATT
1 ATTTATTTTCTTATT
18531644 ATTT
1 ATTT
18531648 TATTATCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (15 bp):
ATTTATTTTCTTATT
Found at i:18543246 original size:17 final size:17
Alignment explanation
Indices: 18543224--18543259 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
18543214 ATAAGTACAC
*
18543224 ATTGTCATTACTTTTTT
1 ATTGTCATTACATTTTT
18543241 ATTGTCATTACATTTTT
1 ATTGTCATTACATTTTT
18543258 AT
1 AT
18543260 GTTAGTGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.06, T:0.61
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:18550091 original size:79 final size:79
Alignment explanation
Indices: 18549874--18550097 Score: 249
Period size: 79 Copynumber: 2.8 Consensus size: 79
18549864 GCTACTCGTT
* * * * *
18549874 CAAATGCCTTCGGGACATAGCCCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTC-GGACTTAACCCGGATATAGTAACTAGCACAAA-GCCTTCGGGACTTAGCCCGG
*
18549939 -TTATAGTAACTCGCA
64 AATATAGTAACTCGCA
* * *
18549954 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTC-GGACTTAACCCGGATATAGTAACTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
18550018 AAT-TAGTAACTCGCA
64 AATATAGTAACTCGCA
** * *
18550033 CAAATGCCTTC-GATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGA-CTTAACCCGGATATAGTAAC-TAGCACAAAGCCTTCGGGACTTAGCCCGG
18550097 A
64 A
18550098 CATCATTCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
77 2 0.02
78 27 0.22
79 48 0.38
80 45 0.36
81 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGACTTAACCCGGATATAGTAACTAGCACAAAGCCTTCGGGACTTAGCCCGGAA
TATAGTAACTCGCA
Found at i:18550097 original size:40 final size:40
Alignment explanation
Indices: 18549855--18550097 Score: 291
Period size: 40 Copynumber: 6.1 Consensus size: 40
18549845 CGGAATTTAA
** *
18549855 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
18549895 CCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
18549935 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
18549975 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
18550014 CCGGA-ATTAGTAACTCGCACAAATGCCTTC--GATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
18550053 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
18550093 CCGGA
1 CCGGA
18550098 CATCATTCAA
Statistics
Matches: 178, Mismatches: 17, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
37 1 0.01
39 54 0.30
40 121 0.68
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:18558184 original size:119 final size:120
Alignment explanation
Indices: 18557978--18558200 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
18557968 TACTCGTTCA
* * * *
18557978 AATGCCTTCGGGACATAGCCCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGAT
*
18558043 ATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* *
18558098 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-AGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGAGA-CTTAGCCCGG
* * *
18558160 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
18558201 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 3 0.03
119 67 0.74
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:18558200 original size:40 final size:40
Alignment explanation
Indices: 18557957--18558200 Score: 291
Period size: 40 Copynumber: 6.1 Consensus size: 40
18557947 AGGAATTTAA
** *
18557957 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
18557997 CCGGTTATAGTGACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
18558037 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
18558077 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
18558116 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-AGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
18558156 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
18558196 CCGGA
1 CCGGA
18558201 CATCATTCAA
Statistics
Matches: 178, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
38 1 0.01
39 33 0.19
40 133 0.75
41 11 0.06
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:18559636 original size:37 final size:37
Alignment explanation
Indices: 18559586--18559664 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
18559576 TTATTACGAA
* *
18559586 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
18559623 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
18559660 GTCTT
1 GTCTT
18559665 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:18559861 original size:47 final size:47
Alignment explanation
Indices: 18559783--18560002 Score: 322
Period size: 47 Copynumber: 4.7 Consensus size: 47
18559773 CCCTTCGGGA
* * * * * *
18559783 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
18559830 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18559877 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
18559924 CTTATCACATATATACACTTTCACATT--TCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
18559969 CTTATCACATATATGCA-TGTTCACA-TCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
18560003 AGAATCCTAA
Statistics
Matches: 159, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
44 2 0.01
45 40 0.25
46 6 0.04
47 111 0.70
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:18569656 original size:40 final size:39
Alignment explanation
Indices: 18569582--18569804 Score: 254
Period size: 39 Copynumber: 5.6 Consensus size: 39
18569572 GCTACTCGTT
*
18569582 CAAATGCCTTCGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATT-TAGTAACTCGCA
*
18569621 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
*
18569661 CAAATGCCTTCGGACTTCA-CCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGACTT-AGCCCGGATTTAGTAACTCGCA
* * * *
18569700 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
18569739 CAAAAGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
18569780 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
18569805 CATCATTCAA
Statistics
Matches: 158, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 79 0.50
40 65 0.41
41 13 0.08
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:18569684 original size:79 final size:79
Alignment explanation
Indices: 18569582--18569804 Score: 274
Period size: 79 Copynumber: 2.8 Consensus size: 79
18569572 GCTACTCGTT
* *
18569582 CAAATGCCTTCGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
18569647 TTTAGTAACTCGCA
66 ATTAGTAACTCGCA
* *
18569661 CAAATGCCTTCGGACTTCA-CCCGGATT-TAGTAACTCACACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGACTT-AGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
18569723 GAATTAGTATCTCGCA
64 GAATTAGTAACTCGCA
* * * * * *
18569739 CAAAAGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
18569803 GA
64 GA
18569805 CATCATTCAA
Statistics
Matches: 123, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
78 37 0.30
79 66 0.54
80 20 0.16
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:18577636 original size:40 final size:40
Alignment explanation
Indices: 18577599--18577822 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
18577589 GCTACTCGTT
* *
18577599 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
18577639 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
18577679 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
18577719 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
18577757 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
18577798 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
18577823 CATCATTCAA
Statistics
Matches: 165, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
38 25 0.15
39 21 0.13
40 106 0.64
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:18577782 original size:118 final size:119
Alignment explanation
Indices: 18577601--18577822 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 119
18577591 TACTCGTTCA
*
18577601 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
18577666 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * **
18577720 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
18577782 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
18577823 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
117 4 0.04
118 66 0.73
119 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:18579701 original size:23 final size:23
Alignment explanation
Indices: 18579675--18579741 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
18579665 CGGATATCAC
18579675 TAGCACGAATGCTCCTCGGGACT
1 TAGCACGAATGCTCCTCGGGACT
* * * *
18579698 TAGCCCGGAT-AT-ATC---AC-
1 TAGCACGAATGCTCCTCGGGACT
18579715 TAGCACGAATGCTCCTCGGGACT
1 TAGCACGAATGCTCCTCGGGACT
18579738 TAGC
1 TAGC
18579742 CCGGATACAT
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 3 0.10
19 2 0.07
21 2 0.07
22 3 0.10
23 12 0.40
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (23 bp):
TAGCACGAATGCTCCTCGGGACT
Found at i:18579706 original size:78 final size:77
Alignment explanation
Indices: 18579592--18579829 Score: 322
Period size: 78 Copynumber: 3.1 Consensus size: 77
18579582 TAGCACGGAT
* *
18579592 ATATTACTAGCACGAA-GCTCTTCGGAACTTAGCCGGATACATCACTAGCACGAATGCTCCTCGG
1 ATATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATATATCACTAGCACGAATGCTCCTCGG
*
18579656 GACTTAGCTCGG
66 GACTTAGCCCGG
* *
18579668 ATATCACTAGCACGAATGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCCTCG
1 ATATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATATATCACTAGCACGAATGCTCCTCG
18579733 GGACTTAGCCCGG
65 GGACTTAGCCCGG
* * *
18579746 ATACATCACTAGCACGAATGCTCTTCGGAACTTAGTCC-GATATGTCACTTAGCAC-AAAGC-CT
1 AT--ATCACTAGCACGAATGCTCTTCGGAACTTAG-CCGGATATATCAC-TAGCACGAATGCTCC
18579808 TCGGGACTTAGCCCGG
62 TCGGGACTTAGCCCGG
*
18579824 ACATCA
1 ATATCA
18579830 TTCAATAACC
Statistics
Matches: 145, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
76 19 0.13
77 14 0.10
78 62 0.43
79 13 0.09
80 37 0.26
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (77 bp):
ATATCACTAGCACGAATGCTCTTCGGAACTTAGCCGGATATATCACTAGCACGAATGCTCCTCGG
GACTTAGCCCGG
Found at i:18579723 original size:40 final size:40
Alignment explanation
Indices: 18579581--18579824 Score: 313
Period size: 40 Copynumber: 6.2 Consensus size: 40
18579571 TCTTCGAGGT
* * * *
18579581 TTAGCACGGATATATTACTAGCACGAA-GCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
18579620 TTAG-CCGGATACATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
*
18579659 TTAGCTCGG--ATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
18579697 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
* * *
18579737 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
* * * *
18579777 TTAGTCC-GATATGTCACTTAGCAC-AAAGC-CTTCGGGAC
1 TTAGCCCGGATATATCAC-TAGCACGAATGCTCCTCGGGAC
18579815 TTAGCCCGGA
1 TTAGCCCGGA
18579825 CATCATTCAA
Statistics
Matches: 182, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 69 0.38
39 32 0.18
40 81 0.45
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATATCACTAGCACGAATGCTCCTCGGGAC
Found at i:18580172 original size:29 final size:29
Alignment explanation
Indices: 18580133--18580211 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
18580123 CTTAATAATC
*
18580133 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
18580163 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
18580192 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
18580212 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:18580258 original size:43 final size:43
Alignment explanation
Indices: 18580193--18580295 Score: 190
Period size: 43 Copynumber: 2.4 Consensus size: 43
18580183 TGCATTTCAA
*
18580193 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCTAATCTCACAACCGTGAACACTTATT
18580236 GCCCGCACACTTAGTGCTAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCTAATCTCACAACCGTGAACACTTATT
18580279 GCCCG-ACACTTAGTGCT
1 GCCCGCACACTTAGTGCT
18580296 GAAAACCAAC
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
42 12 0.20
43 47 0.80
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCTAATCTCACAACCGTGAACACTTATT
Found at i:18582205 original size:37 final size:37
Alignment explanation
Indices: 18582155--18582233 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
18582145 TTATTACGAA
* *
18582155 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
18582192 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
18582229 GTCTT
1 GTCTT
18582234 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:18582439 original size:47 final size:47
Alignment explanation
Indices: 18582352--18582527 Score: 237
Period size: 47 Copynumber: 3.7 Consensus size: 47
18582342 CCCTTCAGGA
* * * * * *
18582352 CTTATCACATTTATACACTTTCACATCCAACACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
* * *
18582399 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
*
18582446 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
*
18582493 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATCCATCACAT
18582528 AGAATCCCAA
Statistics
Matches: 115, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 1 0.01
47 114 0.99
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCATTAGGC
Found at i:18615879 original size:14 final size:14
Alignment explanation
Indices: 18615860--18615889 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18615850 AGTGGGAGAG
*
18615860 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
18615874 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
18615888 GA
1 GA
18615890 ATGAGGGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:18619371 original size:17 final size:18
Alignment explanation
Indices: 18619351--18619390 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
18619341 TTATTAATAT
18619351 TTAAATAATTTG-A-AAAA
1 TTAAATAA-TTGAATAAAA
18619368 TTAAATAATTGAATAAAA
1 TTAAATAATTGAATAAAA
18619386 TTAAA
1 TTAAA
18619391 ATTCAAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.14
17 9 0.43
18 9 0.43
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (18 bp):
TTAAATAATTGAATAAAA
Found at i:18629443 original size:41 final size:41
Alignment explanation
Indices: 18629397--18629516 Score: 116
Period size: 41 Copynumber: 2.9 Consensus size: 41
18629387 CAACGGTTAT
* *
18629397 CTGA-TTCACTACACTAGCATGCAGCCTGCTAGGCTCAAGTC
1 CTGATTTCA-TACACTAGCACGAAGCCTGCTAGGCTCAAGTC
* * **
18629438 CTGATTTCATACACTGGCACGAAGCTTGCTAGGCTCAACAC
1 CTGATTTCATACACTAGCACGAAGCCTGCTAGGCTCAAGTC
* * * * * *
18629479 TTGATTTCATAAACCAACACAAAGCCTGCTAGGTTCAA
1 CTGATTTCATACACTAGCACGAAGCCTGCTAGGCTCAA
18629517 AACCCGATAC
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 60 0.94
42 4 0.06
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.25
Consensus pattern (41 bp):
CTGATTTCATACACTAGCACGAAGCCTGCTAGGCTCAAGTC
Found at i:18633469 original size:14 final size:14
Alignment explanation
Indices: 18633445--18633487 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
18633435 TATTGATTTA
18633445 TTTCGTTTGTTTATT
1 TTTC-TTTGTTTATT
18633460 TTTCTTTGTTTATT
1 TTTCTTTGTTTATT
18633474 TATT-TTTG-TTATT
1 T-TTCTTTGTTTATT
18633487 T
1 T
18633488 ATTTATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.22
14 15 0.56
15 6 0.22
ACGTcount: A:0.09, C:0.05, G:0.09, T:0.77
Consensus pattern (14 bp):
TTTCTTTGTTTATT
Found at i:18633479 original size:17 final size:17
Alignment explanation
Indices: 18633449--18633497 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
18633439 GATTTATTTC
* *
18633449 GTTTGTTTATTTTTCTTT
1 GTTTATTTATTTTT-GTT
18633467 GTTTATTTATTTTTGTT
1 GTTTATTTATTTTTGTT
*
18633484 ATTTATTTATTTTT
1 GTTTATTTATTTTT
18633498 CTCTCTTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.78
Consensus pattern (17 bp):
GTTTATTTATTTTTGTT
Found at i:18633487 original size:13 final size:14
Alignment explanation
Indices: 18633450--18633491 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
18633440 ATTTATTTCG
18633450 TTTGTTTATTT-TT
1 TTTGTTTATTTATT
18633463 CTTTGTTTATTTATT
1 -TTTGTTTATTTATT
18633478 TTTG-TTATTTATT
1 TTTGTTTATTTATT
18633491 T
1 T
18633492 ATTTTTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.37
14 15 0.56
15 2 0.07
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTGTTTATTTATT
Found at i:18638996 original size:22 final size:22
Alignment explanation
Indices: 18638968--18639011 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
18638958 TCTCAATCCT
18638968 ACCCTATGAATTCTACTGACTA
1 ACCCTATGAATTCTACTGACTA
18638990 ACCCTATGAATTCTACTGACTA
1 ACCCTATGAATTCTACTGACTA
18639012 TGTAGCGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.32
Consensus pattern (22 bp):
ACCCTATGAATTCTACTGACTA
Found at i:18640607 original size:16 final size:17
Alignment explanation
Indices: 18640582--18640614 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
18640572 AATTTCACTA
18640582 TTTATATTTTTT-ATTT
1 TTTATATTTTTTCATTT
*
18640598 TTTATTTTTTTTCATTT
1 TTTATATTTTTTCATTT
18640615 CACATGCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTATATTTTTTCATTT
Found at i:18640763 original size:18 final size:18
Alignment explanation
Indices: 18640723--18640764 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
18640713 TTATATAATT
18640723 TTTTTA-AAAAAAATTCA
1 TTTTTATAAAAAAATTCA
* * *
18640740 TATTTATAATAAAATTTA
1 TTTTTATAAAAAAATTCA
18640758 TTTTTAT
1 TTTTTAT
18640765 CACTTAAGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTTTATAAAAAAATTCA
Found at i:18650488 original size:22 final size:22
Alignment explanation
Indices: 18650463--18650508 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
18650453 TAAAATTTAA
18650463 ATTTAAGTTTATAT-TAACTATT
1 ATTT-AGTTTATATCTAACTATT
* *
18650485 ATTTATTTTATATCTAATTATT
1 ATTTAGTTTATATCTAACTATT
18650507 AT
1 AT
18650509 AATTCATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTTAGTTTATATCTAACTATT
Found at i:18654833 original size:21 final size:21
Alignment explanation
Indices: 18654809--18654848 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18654799 CTTCTCGTTC
18654809 TTACGTTTTAATTTTTCTTGA
1 TTACGTTTTAATTTTTCTTGA
* **
18654830 TTACTTTTTTCTTTTTCTT
1 TTACGTTTTAATTTTTCTT
18654849 TTTCGCACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.70
Consensus pattern (21 bp):
TTACGTTTTAATTTTTCTTGA
Found at i:18655545 original size:21 final size:21
Alignment explanation
Indices: 18655521--18655560 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18655511 CTTCTCGTTC
18655521 TTACGTTTTAATTTTTCTTGA
1 TTACGTTTTAATTTTTCTTGA
* **
18655542 TTACTTTTTTCTTTTTCTT
1 TTACGTTTTAATTTTTCTT
18655561 TTTCTTTTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.70
Consensus pattern (21 bp):
TTACGTTTTAATTTTTCTTGA
Found at i:18656263 original size:21 final size:20
Alignment explanation
Indices: 18656239--18656277 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
18656229 CTTCTCGTTC
18656239 TTACGTTTTAATTTTTCTTGA
1 TTAC-TTTTAATTTTTCTTGA
**
18656260 TTACTTTTTCTTTTTCTT
1 TTACTTTTAATTTTTCTT
18656278 TTTCGCACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.13, C:0.13, G:0.05, T:0.69
Consensus pattern (20 bp):
TTACTTTTAATTTTTCTTGA
Found at i:18656787 original size:711 final size:712
Alignment explanation
Indices: 18654444--18657300 Score: 5626
Period size: 711 Copynumber: 4.0 Consensus size: 712
18654434 GAGAATGCTT
18654444 AAGTCACATTGGTCTTCCAGGCTTGTAACGTTCTAAGGCTTAGGACGGTATGAGTTCAAAGAAAG
1 AAGTCACATTGGTCTTCCAGGCTTGTAACGTTCTAAGGCTTAGGACGGTATGAGTTCAAAGAAAG
18654509 ATATGGCTCAAAATGGTTCAAACACTAGAAATAGTTAGGCACATGACATTGTTCCCTCTCTTCCC
66 ATATGGCTCAAAATGGTTCAAACACTAGAAATAGTTAGGCACATGACATTGTTCCCTCTCTTCCC
18654574 CATTAATGTCTCATTCAAGTTCACCGCCTTTTGTCTCCCTCTCTCACCTACCTTATTTCTCTATG
131 CATTAATGTCTCATTCAAGTTCACCGCCTTTTGTCTCCCTCTCTCACCTACCTTATTTCTCTATG
18654639 TAGGAAGATACAATCTAATACTAGCAACTACGGTCGACTTAACGAGTTTTGGTGCACTGATGACT
196 TAGGAAGATACAATCTAATACTAGCAACTACGGTCGACTTAACGAGTTTTGGTGCACTGATGACT
18654704 GAGTTTTCTCTCACTTTTGTGACTTTTTGTTTTGTCACTTGACTTTTTACTTTTTTTTTCAATCA
261 GAGTTTTCTCTCACTTTTGTGACTTTTTGTTTTGTCACTTGACTTTTTAC-TTTTTTTTCAATCA
18654769 CAATGCTTTTGTCTTTGTTCTATACTTTTTCTTCTCGTTCTTACGTTTTAATTTTTCTTGATTAC
325 CAATGCTTTTGTCTTTGTTCTATACTTTTTCTTCTCGTTCTTACGTTTTAATTTTTCTTGATTAC
18654834 TTTTTTCTTTTTCTTTTTCGCACATTTTTGCCCAACCTATAAGTGTTGTATCACATTGTTTCTTC
390 TTTTTTCTTTTTCTTTTTCGCACATTTTTGCCCAACCTATAAGTGTTGTATCACATTGTTTCTTC
18654899 CTTTTTCGCTCTTTTTTTAAACCATCATAATATATCTACCTAAACCCTCAATATCTATCGCTTGA
455 CTTTTTCGCTCTTTTTTTAAACCATCATAATATATCTACCTAAACCCTCAATATCTATCGCTTGA
18654964 CGTCTATTTCGTAATGTATTAAAGGACCAAAGATAGGGAAGAGTTCAAGTTTTATGTGTGGTATT
520 CGTCTATTTCGTAATGTATTAAAGGACCAAAGATAGGGAAGAGTTCAAGTTTTATGTGTGGTATT
18655029 TGAGTTTCAATTTTGTTGGTTCGTCAAAAAGGAGTTATAAGTGATACGATCTCGGTTTAGTAGAT
585 TGAGTTTCAATTTTGTTGGTTCGTCAAAAAGGAGTTATAAGTGATACGATCTCGGTTTAGTAGAT
18655094 GAATCTGAGTTGTTTAGTTGCCCGATCGATAAACGTAGAAGTATGTTTTGTTCTTAGAGTTTA
650 GAATCTGAGTTGTTTAGTTGCCCGATCGATAAACGTAGAAGTATGTTTTGTTCTTAGAGTTTA
18655157 AAGTCACATTGGTCTTCCAGGCTTGTAACGTTCTAAGGCTTAGGACGGTATGAGTTCAAAGAAAG
1 AAGTCACATTGGTCTTCCAGGCTTGTAACGTTCTAAGGCTTAGGACGGTATGAGTTCAAAGAAAG
18655222 ATATGGCTCAAAATGGTTCAAACACTAGAAATAGTTAGGCACATGACATTGTTCCCTCTCTTCCC
66 ATATGGCTCAAAATGGTTCAAACACTAGAAATAGTTAGGCACATGACATTGTTCCCTCTCTTCCC
18655287 CATTAATGTCTCATTCAAGTTCACCGCCTTTTGTCTCCCTCTCTCACCTACCTTATTTCTCTATG
131 CATTAATGTCTCATTCAAGTTCACCGCCTTTTGTCTCCCTCTCTCACCTACCTTATTTCTCTATG
18655352 TAGGAAGATACAATCTAATACTAGCAACTACGGTCGACTTAACGAGTTTTGGTGCACTGATGACT
196 TAGGAAGATACAATCTAATACTAGCAACTACGGTCGACTTAACGAGTTTTGGTGCACTGATGACT
18655417 GAGTTTTCTCTCACTTTTGTGACTTTTTGTTTTGTCACTTGACTTTTTACTTTTTTTTCAATCAC
261 GAGTTTTCTCTCACTTTTGTGACTTTTTGTTTTGTCACTTGACTTTTTACTTTTTTTTCAATCAC
18655482 AATGCTTTTGTCTTTGTTCTATACTTTTTCTTCTCGTTCTTACGTTTTAATTTTTCTTGATTACT
326 AATGCTTTTGTCTTTGTTCTATACTTTTTCTTCTCGTTCTTACGTTTTAATTTTTCTTGATTAC-
18655547 TTTTTCTTTTTCTTTTTCTTTTTCGCACATTTTTGCCCAACCTATAAGTGTTGTATCACATTGTT
390 ----T-TTTTTCTTTTTCTTTTTCGCACATTTTTGCCCAACCTATAAGTGTTGTATCACATTGTT
18655612 TCTTCCTTTTTCGCTCTTTTTTTAAACCATCATAATATATCTACCTAAACCCTCAATATCTATCG
450 TCTTCCTTTTTCGCTCTTTTTTTAAACCATCATAATATATCTACCTAAACCCTCAATATCTATCG
18655677 CTTGACGTCTATTTCGTAATGTATTAAAGGACCAAAGATAGGGAAGAGTTCAAGTTTTATGTGTG
515 CTTGACGTCTATTTCGTAATGTATTAAAGGACCAAAGATAGGGAAGAGTTCAAGTTTTATGTGTG
18655742 GTATTTGAGTTTCAATTTTGTTGGTTCGTCAAAAAGGAGTTATAAGTGATACGATCTCGGTTTAG
580 GTATTTGAGTTTCAATTTTGTTGGTTCGTCAAAAAGGAGTTATAAGTGATACGATCTCGGTTTAG
18655807 TAGATGAATCTGAGTTGTTTAGTTGCCCGATCGATAAACGTAGAAGTATGTTTTGTTCTTAGAGT
645 TAGATGAATCTGAGTTGTTTAGTTGCCCGATCGATAAACGTAGAAGTATGTTTTGTTCTTAGAGT
18655872 TTA
710 TTA
18655875 AAGTCACATTGGTCTTCCAGGCTTGTAACGTTCTAAGGCTTAGGACGGTATGAGTTCAAAGAAAG
1 AAGTCACATTGGTCTTCCAGGCTTGTAACGTTCTAAGGCTTAGGACGGTATGAGTTCAAAGAAAG
18655940 ATATGGCTCAAAATGGTTCAAACACTAGAAATAGTTAGGCACATGACATTGTTCCCTCTCTTCCC
66 ATATGGCTCAAAATGGTTCAAACACTAGAAATAGTTAGGCACATGACATTGTTCCCTCTCTTCCC
*
18656005 CATTAATGTCTCATTCAAGTTCACCGCCTTTTGTCTCCCTCTCTCACCTACCTTATTTCTCTATA
131 CATTAATGTCTCATTCAAGTTCACCGCCTTTTGTCTCCCTCTCTCACCTACCTTATTTCTCTATG
18656070 TAGGAAGATACAATCTAATACTAGCAACTACGGTCGACTTAACGAGTTTTGGTGCACTGATGACT
196 TAGGAAGATACAATCTAATACTAGCAACTACGGTCGACTTAACGAGTTTTGGTGCACTGATGACT
18656135 GAGTTTTCTCTCACTTTTGTGACTTTTTGTTTTGTCACTTGACTTTTTACTTTTTTTTCAATCAC
261 GAGTTTTCTCTCACTTTTGTGACTTTTTGTTTTGTCACTTGACTTTTTACTTTTTTTTCAATCAC
18656200 AATGCTTTTGTCTTTGTTCTATACTTTTTCTTCTCGTTCTTACGTTTTAATTTTTCTTGATTAC-
326 AATGCTTTTGTCTTTGTTCTATACTTTTTCTTCTCGTTCTTACGTTTTAATTTTTCTTGATTACT
18656264 TTTTTCTTTTTCTTTTTCGCACATTTTTGCCCAACCTATAAGTGTTGTATCACATTGTTTCTTCC
391 TTTTTCTTTTTCTTTTTCGCACATTTTTGCCCAACCTATAAGTGTTGTATCACATTGTTTCTTCC
18656329 TTTTTCGCTCTTTTTTTAAACCATCATAATATATCTACCTAAACCCTCAATATCTATCGCTTGAC
456 TTTTTCGCTCTTTTTTTAAACCATCATAATATATCTACCTAAACCCTCAATATCTATCGCTTGAC
18656394 GTCTATTTCGTAATGTATTAAAGGACCAAAGATAGGGAAGAGTTCAAGTTTTATGTGTGGTATTT
521 GTCTATTTCGTAATGTATTAAAGGACCAAAGATAGGGAAGAGTTCAAGTTTTATGTGTGGTATTT
18656459 GAGTTTCAATTTTGTTGGTTCGTCAAAAAGGAGTTATAAGTGATACGATCTCGGTTTAGTAGATG
586 GAGTTTCAATTTTGTTGGTTCGTCAAAAAGGAGTTATAAGTGATACGATCTCGGTTTAGTAGATG
18656524 AATCTGAGTTGTTTAGTTGCCCGATCGATAAACGTAGAAGTATGTTTTGTTCTTAGAGTTTA
651 AATCTGAGTTGTTTAGTTGCCCGATCGATAAACGTAGAAGTATGTTTTGTTCTTAGAGTTTA
18656586 AAGTCACATTGGTCTTCCAGGCTTGTAACGTTCTAAGGCTTAGGACGGTATGAGTTCAAAGAAAG
1 AAGTCACATTGGTCTTCCAGGCTTGTAACGTTCTAAGGCTTAGGACGGTATGAGTTCAAAGAAAG
18656651 ATATGGCTCAAAATGGTTCAAACACTAGAAATAGTTAGGCACATGACATTGTTCCCTCTCTTCCC
66 ATATGGCTCAAAATGGTTCAAACACTAGAAATAGTTAGGCACATGACATTGTTCCCTCTCTTCCC
18656716 CATTAATGTCTCATTCAAGTTCACCGCCTTTTGTCTCCCTCTCTCACCTACCTTATTTCTCTATG
131 CATTAATGTCTCATTCAAGTTCACCGCCTTTTGTCTCCCTCTCTCACCTACCTTATTTCTCTATG
18656781 TAGGAAGATACAATCTAATACTAGCAACTACGGTCGACTTAACGAGTTTTGGTGCACTGATGACT
196 TAGGAAGATACAATCTAATACTAGCAACTACGGTCGACTTAACGAGTTTTGGTGCACTGATGACT
18656846 GAGTTTTCTCTCACTTTTGTGACTTTTTGTTTTGTCACTTGACTTTTTACTTTTTTTTCAATCAC
261 GAGTTTTCTCTCACTTTTGTGACTTTTTGTTTTGTCACTTGACTTTTTACTTTTTTTTCAATCAC
18656911 AATGCTTTTGTCTTTGTTCTATACTTTTTCTTCTCGTTCTTACGTTTTAATTTTTCTTGATTACT
326 AATGCTTTTGTCTTTGTTCTATACTTTTTCTTCTCGTTCTTACGTTTTAATTTTTCTTGATTACT
18656976 TTTTTCTTTTTCTTTTTCGCACATTTTTGCCCAACCTATAAGTGTTGTATCACATTGTTTCTTCC
391 TTTTTCTTTTTCTTTTTCGCACATTTTTGCCCAACCTATAAGTGTTGTATCACATTGTTTCTTCC
18657041 TTTTTCGCTCTTTTTTTAAACCATCATAATATATCTACCTAAACCCTCAATATCTATCGCTTGAC
456 TTTTTCGCTCTTTTTTTAAACCATCATAATATATCTACCTAAACCCTCAATATCTATCGCTTGAC
18657106 GTCTATTTCGTAATGTATTAAAGGACCAAAGATAGGGAAGAGTTCAAGTTTTATGTGTGGTATTT
521 GTCTATTTCGTAATGTATTAAAGGACCAAAGATAGGGAAGAGTTCAAGTTTTATGTGTGGTATTT
*
18657171 GAGTTTCAATTTTGTTGGTTCGTCAAAAAGGAGTTATAAGTGATACGATCTCAGTTTAGTAGATG
586 GAGTTTCAATTTTGTTGGTTCGTCAAAAAGGAGTTATAAGTGATACGATCTCGGTTTAGTAGATG
18657236 AATCTGAGTTGTTTAGTTGCCCGATCGATAAACGTAGAAGTATGTTTTGTTCTTAGAGTTTA
651 AATCTGAGTTGTTTAGTTGCCCGATCGATAAACGTAGAAGTATGTTTTGTTCTTAGAGTTTA
18657298 AAG
1 AAG
18657301 GAAAATAGGC
Statistics
Matches: 2134, Mismatches: 3, Indels: 15
0.99 0.00 0.01
Matches are distributed among these distances:
711 710 0.33
712 403 0.19
713 310 0.15
717 1 0.00
718 710 0.33
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (712 bp):
AAGTCACATTGGTCTTCCAGGCTTGTAACGTTCTAAGGCTTAGGACGGTATGAGTTCAAAGAAAG
ATATGGCTCAAAATGGTTCAAACACTAGAAATAGTTAGGCACATGACATTGTTCCCTCTCTTCCC
CATTAATGTCTCATTCAAGTTCACCGCCTTTTGTCTCCCTCTCTCACCTACCTTATTTCTCTATG
TAGGAAGATACAATCTAATACTAGCAACTACGGTCGACTTAACGAGTTTTGGTGCACTGATGACT
GAGTTTTCTCTCACTTTTGTGACTTTTTGTTTTGTCACTTGACTTTTTACTTTTTTTTCAATCAC
AATGCTTTTGTCTTTGTTCTATACTTTTTCTTCTCGTTCTTACGTTTTAATTTTTCTTGATTACT
TTTTTCTTTTTCTTTTTCGCACATTTTTGCCCAACCTATAAGTGTTGTATCACATTGTTTCTTCC
TTTTTCGCTCTTTTTTTAAACCATCATAATATATCTACCTAAACCCTCAATATCTATCGCTTGAC
GTCTATTTCGTAATGTATTAAAGGACCAAAGATAGGGAAGAGTTCAAGTTTTATGTGTGGTATTT
GAGTTTCAATTTTGTTGGTTCGTCAAAAAGGAGTTATAAGTGATACGATCTCGGTTTAGTAGATG
AATCTGAGTTGTTTAGTTGCCCGATCGATAAACGTAGAAGTATGTTTTGTTCTTAGAGTTTA
Found at i:18656974 original size:21 final size:21
Alignment explanation
Indices: 18656950--18656989 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18656940 CTTCTCGTTC
18656950 TTACGTTTTAATTTTTCTTGA
1 TTACGTTTTAATTTTTCTTGA
* **
18656971 TTACTTTTTTCTTTTTCTT
1 TTACGTTTTAATTTTTCTT
18656990 TTTCGCACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.05, T:0.70
Consensus pattern (21 bp):
TTACGTTTTAATTTTTCTTGA
Found at i:18661716 original size:12 final size:12
Alignment explanation
Indices: 18661699--18661759 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 12
18661689 TCTTGTATAG
18661699 TTTTTCCTCTTT
1 TTTTTCCTCTTT
18661711 TTTTT-CTCATTT
1 TTTTTCCTC-TTT
* *
18661723 TTCTTTTCTTTTT
1 TT-TTTCCTCTTT
18661736 TATTTTCACTCTTT
1 T-TTTTC-CTCTTT
*
18661750 TTTTTTCTCT
1 TTTTTCCTCT
18661760 CGTTTGTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
11 3 0.08
12 14 0.35
13 14 0.35
14 9 0.22
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTCCTCTTT
Found at i:18663317 original size:20 final size:20
Alignment explanation
Indices: 18663292--18663329 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18663282 CCAAATGTAT
**
18663292 ATTGCAGTTTAACTGCCAAA
1 ATTGCAGTAAAACTGCCAAA
18663312 ATTGCAGTAAAACTGCCA
1 ATTGCAGTAAAACTGCCA
18663330 TATACATTTT
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:0.21, G:0.16, T:0.26
Consensus pattern (20 bp):
ATTGCAGTAAAACTGCCAAA
Found at i:18666898 original size:33 final size:34
Alignment explanation
Indices: 18666859--18666957 Score: 110
Period size: 33 Copynumber: 2.9 Consensus size: 34
18666849 AACACATTAC
* *
18666859 CAGAAACATATGTCAGATCAGAATGTCATATTTT
1 CAGAAACATATATCAAATCAGAATGTCATATTTT
* * *
18666893 -TGAAACATATACCAAATTAGAATGTCATATTTT
1 CAGAAACATATATCAAATCAGAATGTCATATTTT
* * * *
18666926 CAAAAACTTATATCATATCAAAATGTCATATT
1 CAGAAACATATATCAAATCAGAATGTCATATT
18666958 ATATCCCAAC
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
33 28 0.54
34 24 0.46
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.34
Consensus pattern (34 bp):
CAGAAACATATATCAAATCAGAATGTCATATTTT
Found at i:18667535 original size:37 final size:37
Alignment explanation
Indices: 18667485--18667557 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
18667475 CTATGTGGCC
* *
18667485 CACATAGGCTACCTATCCTGCCCGTATGATTTCACAA
1 CACATAGGCTACCTAACCTGCCCATATGATTTCACAA
* *
18667522 CACATAGGCTACCTAACGTGCCTATATGATTTCACA
1 CACATAGGCTACCTAACCTGCCCATATGATTTCACA
18667558 CGGCCGTGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.29, C:0.30, G:0.14, T:0.27
Consensus pattern (37 bp):
CACATAGGCTACCTAACCTGCCCATATGATTTCACAA
Found at i:18685880 original size:12 final size:12
Alignment explanation
Indices: 18685863--18685902 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
18685853 TTTTAATTTA
*
18685863 TATTATTATTAT
1 TATTATTACTAT
18685875 TATTATTACTAT
1 TATTATTACTAT
18685887 TATTATTACTAT
1 TATTATTACTAT
18685899 TATT
1 TATT
18685903 GATATGAGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:18685919 original size:3 final size:3
Alignment explanation
Indices: 18685863--18685902 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
18685853 TTTTAATTTA
* *
18685863 TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAC TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
18685903 GATATGAGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:18691989 original size:991 final size:992
Alignment explanation
Indices: 18688547--18693508 Score: 9352
Period size: 992 Copynumber: 5.0 Consensus size: 992
18688537 GATCAGTTAC
*
18688547 AGATGCAAATGAAGGAGCAATTGGAAAAAATTTAACAGGACATGACAGAAAGGATGCTGAAGTCT
1 AGATTCAAATGAAGGAGCAATTGGAAAAAATTTAACAGGACATGACAGAAAGGATGCTGAAGTCT
* *
18688612 CAAAAGGACATGATGACTGAGCTGATGCAATTACTAAAAGGAATAAATAAGGGGAAAGGCCCTAT
66 CAAAAGGACATGATGACTGAGCTGATGCAATTACTAAAAGGAATAAATATGGGGAAAGGCCCTCT
* * * *
18688677 GGTAAATGATGAAGGAGAAGACAAGGATAGACCTATCTATCCTCTAGGCTTTACGCCACTGCATG
131 GGTAAATGATGAAGGAGAAGACAACGATAGACCTATCAATCCTCTAGGTTTTACGCCTCTGCATG
* * *
18688742 TGCAGATTTAGACCGAGGTACCTCCGCATAGATCCTCTGTTTCAATTGGGCCTCAACAGTTTCAA
196 CGTAGATTTAGACCGAGGTACCTCCGCATAGATCCTTTGTTTCAATTGGGCCTCAACAGTTTCAA
*
18688807 ACTGATGTTTCAATACCGACGAACTTTCAGGCTGGATTAGGTTCTAATCCTAGAGATAACCCAGT
261 ACTGATGTTTCAATACCGACAAACTTTCAGGCTGGATTAGGTTCTAATCCTAGAGATAACCCAGT
* * *
18688872 GAATCTTGTTATTCCTGATTTCGATGAAATGGCTGAAAAAGAGAAGGCAAACGTCGAACTGTCAA
326 GAATCTTGTTATTCCTGATTTCGATGAAATGACTAAAAAAGAGAAGGCAAACGTCGAACTGCCAA
18688937 AACAATGGGAGGATAGGTGTAAATGGTTGGAGGAAAAATTCAAAGCCCTGGAAAGCGTTGATAGT
391 AACAATGGGAGGATAGGTGTAAATGGTTGGAGGAAAAATTCAAAGCCCTGGAAAGCGTTGATAGT
* * *
18689002 CACCATGGAATCGATGCAAAAGATCTGAGCTTGATTCCAGACTTAGTACTCCCTCACAAGTTTAA
456 CATCATGGAATCGATGCAAAAGATCTGAGCTTGGTTCCAAACTTAGTACTCCCTCACAAGTTTAA
* * *
18689067 GATGCCTAAATTTCAGAAATATAGTGGGACTAGTTGCCCAAAAGCCCATATCACCATGTTCTGTA
521 GATGCCTAAATTTGAAAAATATAGTGGGACTAGTTGCCCAGAAGCCCATATCACCATGTTCTGTA
18689132 GGAGAATGACGGGGTACATTAACAACGATCAGCTATTAATACATTGTTTTCAGGATAGCCTCATT
586 GGAGAATGACGGGGTACATTAACAACGATCAGCTATTAATACATTGTTTTCAGGATAGCCTCATT
*
18689197 GGAGCGGCATCTAGGTGGTATAATCATTTGAGCCGTAGCCAAATTAGTTCTTGGAGGGATTTAGC
651 GGAGCGGCATCTAGGTGGTATAATCATTTGAGCCGTAGCCAAATTAGTTCTTGGAGGGATTTGGC
*
18689262 GCAGACTTTTATGAAGCAATACAGTCATGTATCAGAGATAATGCCTGACAGAATCACCTTGCAAA
716 GCAGGCTTTTATGAAGCAATACAGTCATGTATCAGAGATAATGCCTGACAGAATCACCTTGCAAA
18689327 ATTTGGAAAAGAAATCAAATGAAAGTTTTAGACAGTATGCGCAGAGGTGGAGAGAGATCGCAGTT
781 ATTTGGAAAAGAAATCAAATGAAAGTTTTAGACAGTATGCGCAGAGGTGGAGAGAGATCGCAGTT
18689392 CAGGTTCAGCCTCCACTCCTAGAGAAAGAAATGACGATGCTCTTTATCAACACACTTAAAGCCCC
846 CAGGTTCAGCCTCCACTCCTAGAGAAAGAAATGACGATGCTCTTTATCAACACACTTAAAGCCCC
18689457 TTTCATCACACACATGTTAGGAAGTGCTACAAAAAGCTTTTCTGACATAGTCATGAGCGGTGAAA
911 TTTCATCACACACATGTTAGGAAGTGCTACAAAAAGCTTTTCTGACATAGTCATGAGCGGTGAAA
18689522 TGATTGAAAGTGCCGTG
976 TGATTGAAAGTGCCGTG
*
18689539 AGATTCAAATGAAGGAGTAATTGGAAAAAATTTAACAGGACATGACAGAAAGGATGCTGAAGTCT
1 AGATTCAAATGAAGGAGCAATTGGAAAAAATTTAACAGGACATGACAGAAAGGATGCTGAAGTCT
*
18689604 CAAAAGGACATGATGACTAAGCTGATGCAATTACTAAAAGGAATAAATATGGGGAAAGGCCCTCT
66 CAAAAGGACATGATGACTGAGCTGATGCAATTACTAAAAGGAATAAATATGGGGAAAGGCCCTCT
18689669 GGTAAATGATGAAGGAGAAGACAACGATAGACCTATCAATCCTCTAGGTTTTACGCCTCTGCATG
131 GGTAAATGATGAAGGAGAAGACAACGATAGACCTATCAATCCTCTAGGTTTTACGCCTCTGCATG
*
18689734 CGTAGATTTAGACCGAGGTACCTCTGCATAGATCCTTTGTTTCAATTGGGCCTCAACAGTTTCAA
196 CGTAGATTTAGACCGAGGTACCTCCGCATAGATCCTTTGTTTCAATTGGGCCTCAACAGTTTCAA
18689799 ACTGATGTTTCAATACCGACAAACTTTCAGGCTGGATTAGGTTCTAATCCTAGAGATAACCCAGT
261 ACTGATGTTTCAATACCGACAAACTTTCAGGCTGGATTAGGTTCTAATCCTAGAGATAACCCAGT
*
18689864 GAATCTTGTTATTCCTGATTTTGATGAAATGACTAAAAAAGAGAAGGCAAACGTCGAACTGCCAA
326 GAATCTTGTTATTCCTGATTTCGATGAAATGACTAAAAAAGAGAAGGCAAACGTCGAACTGCCAA
*
18689929 AACAATAGGAGGATAGGTGTAAATGGTTGGAGGAAAAATTCAAAGCCCTGGAAAGCGTTGATAGT
391 AACAATGGGAGGATAGGTGTAAATGGTTGGAGGAAAAATTCAAAGCCCTGGAAAGCGTTGATAGT
*
18689994 CATCATGGAATCAATGCAAAAGATCTGAGCTTGGTTCCAAACTTAGTACTCCCTCACAAGTTTAA
456 CATCATGGAATCGATGCAAAAGATCTGAGCTTGGTTCCAAACTTAGTACTCCCTCACAAGTTTAA
18690059 GATGCCTAAATTTGAAAAATATAGTGGGACTAGTTGCCCAGAAGCCCATATCACCATGTTCTGTA
521 GATGCCTAAATTTGAAAAATATAGTGGGACTAGTTGCCCAGAAGCCCATATCACCATGTTCTGTA
18690124 GGAGAATGACGGGGTACATTAACAACGATCAGCTATTAATACATTGTTTTCAGGATAGCCTCATT
586 GGAGAATGACGGGGTACATTAACAACGATCAGCTATTAATACATTGTTTTCAGGATAGCCTCATT
18690189 GGAGCGGCATCTAGGTGGTATAATCATTTGAGCCGTAGCCAAATTAGTTCTTGGAGGGATTTGGC
651 GGAGCGGCATCTAGGTGGTATAATCATTTGAGCCGTAGCCAAATTAGTTCTTGGAGGGATTTGGC
18690254 GCAGGCTTTTATGAAGCAATACAGTCATGTATCAGAGATAATGCCTGACAGAATCACCTTGCAAA
716 GCAGGCTTTTATGAAGCAATACAGTCATGTATCAGAGATAATGCCTGACAGAATCACCTTGCAAA
* *
18690319 ATTTGGAAAAGAAATCAAATGAAAGTTTTAGACAGTATGCGCAGAGGTGGAGAGAGATCGCGGTC
781 ATTTGGAAAAGAAATCAAATGAAAGTTTTAGACAGTATGCGCAGAGGTGGAGAGAGATCGCAGTT
* *
18690384 CAGGTTCAGCCCCCACTCCTAGAGAAAGAAATGATGATGCTCTTTATCAACACACTTAAAGCCCC
846 CAGGTTCAGCCTCCACTCCTAGAGAAAGAAATGACGATGCTCTTTATCAACACACTTAAAGCCCC
*
18690449 TTTCATCGCACACATGTTAGGAAGTGCTACAAAAAGCTTTTCTGACATAGTCATGAGCGGTGAAA
911 TTTCATCACACACATGTTAGGAAGTGCTACAAAAAGCTTTTCTGACATAGTCATGAGCGGTGAAA
18690514 TGATTGAAAGTGCCGTG
976 TGATTGAAAGTGCCGTG
18690531 AGATTCAAATGAAGGAGCAATTGGAAAAAATTTAACAGGACATGACAGAAAGGATGCTGAAGTCT
1 AGATTCAAATGAAGGAGCAATTGGAAAAAATTTAACAGGACATGACAGAAAGGATGCTGAAGTCT
18690596 CAAAAGGACATGATGACTGAGCTGATGCAATTACTAAAAGGAATAAATATGGGGAAAGGCCCTCT
66 CAAAAGGACATGATGACTGAGCTGATGCAATTACTAAAAGGAATAAATATGGGGAAAGGCCCTCT
18690661 GGTAAATGATGAAGGAGAAGACAACGATAGACCTATCAATCCTCTAGGTTTTACGCCTCTGCATG
131 GGTAAATGATGAAGGAGAAGACAACGATAGACCTATCAATCCTCTAGGTTTTACGCCTCTGCATG
18690726 CGTAGATTTAGACCGAGGTACCTCCGCATAGATCCTTTGTTTCAATTGGGCCTCAACAGTTTCAA
196 CGTAGATTTAGACCGAGGTACCTCCGCATAGATCCTTTGTTTCAATTGGGCCTCAACAGTTTCAA
18690791 ACTGATGTTTCAATACCGACAAACTTTCAGGCTGGATTAGGTTCTAATCCTAGAGATAACCCAGT
261 ACTGATGTTTCAATACCGACAAACTTTCAGGCTGGATTAGGTTCTAATCCTAGAGATAACCCAGT
*
18690856 GAATCTTGTTATCCCTGATTTCGATGAAATGACTAAAAAAGAGAAGGCAAACGTCGAACTGCCAA
326 GAATCTTGTTATTCCTGATTTCGATGAAATGACTAAAAAAGAGAAGGCAAACGTCGAACTGCCAA
18690921 AACAATGGGAGGATAGGTGTAAATGGTTGGAGGAAAAATTCAAAGCCCTGGAAAGCGTTGATAGT
391 AACAATGGGAGGATAGGTGTAAATGGTTGGAGGAAAAATTCAAAGCCCTGGAAAGCGTTGATAGT
18690986 CATCATGGAATCGATGCAAAAGATCTGAGCTTGGTTCCAAACTTAGTACTCCCTCACAAGTTTAA
456 CATCATGGAATCGATGCAAAAGATCTGAGCTTGGTTCCAAACTTAGTACTCCCTCACAAGTTTAA
18691051 GATGCCTAAATTTGAAAAATATAGTGGGACTAGTTGCCCAGAAGCCCATATCACCATGTTCTGTA
521 GATGCCTAAATTTGAAAAATATAGTGGGACTAGTTGCCCAGAAGCCCATATCACCATGTTCTGTA
*
18691116 GGAGAATGACGGAGTACATTAACAACGATCAGCTATTAATACATTGTTTTCAGGATAGCCTCATT
586 GGAGAATGACGGGGTACATTAACAACGATCAGCTATTAATACATTGTTTTCAGGATAGCCTCATT
* *
18691181 GGAGCGGCATCTAGGTGGTATAATCATTTGAGCCGTAGCCAAATAAGTTATTGGAGGGATTTGGC
651 GGAGCGGCATCTAGGTGGTATAATCATTTGAGCCGTAGCCAAATTAGTTCTTGGAGGGATTTGGC
18691246 GCAGGCTTTTATGAAGCAATACAGTCATGTATCAGAGATAATGCCTGACAGAATCACCTTGCAAA
716 GCAGGCTTTTATGAAGCAATACAGTCATGTATCAGAGATAATGCCTGACAGAATCACCTTGCAAA
*
18691311 ATTTGGAAAAGAAATCAAATGAAAGTTTTAGACAGTATGCACAGAGGTGGAGAGAGATCGCAGTT
781 ATTTGGAAAAGAAATCAAATGAAAGTTTTAGACAGTATGCGCAGAGGTGGAGAGAGATCGCAGTT
18691376 CAGGTTCAGCCTCCACTCCTAGAGAAAGAAATGACGATGCTCTTTATCAACACACTTAAAGCCCC
846 CAGGTTCAGCCTCCACTCCTAGAGAAAGAAATGACGATGCTCTTTATCAACACACTTAAAGCCCC
18691441 TTTCATCACACACATGTTAGGAAGTGC-ACAAAAAGCTTTTCTGACATAGTCATGAGCGGTGAAA
911 TTTCATCACACACATGTTAGGAAGTGCTACAAAAAGCTTTTCTGACATAGTCATGAGCGGTGAAA
*
18691505 TGATTGAAAGTGCCATG
976 TGATTGAAAGTGCCGTG
*
18691522 AGATTCAAATGAAGGAGCAATTGGAAAAAATTTAACAGGACATGACAGAAATGATGCTGAAGTCT
1 AGATTCAAATGAAGGAGCAATTGGAAAAAATTTAACAGGACATGACAGAAAGGATGCTGAAGTCT
18691587 CAAAAGGACATGATGACTGAGCTGATGCAATTACTAAAAGGAATAAATATGGGGAAAGGCCCTCT
66 CAAAAGGACATGATGACTGAGCTGATGCAATTACTAAAAGGAATAAATATGGGGAAAGGCCCTCT
* *
18691652 GGTAAATGATGAAGGAGAAGACAACGATGGACCTATCAATCCTCTAGGTTTTACGCCTCTACATG
131 GGTAAATGATGAAGGAGAAGACAACGATAGACCTATCAATCCTCTAGGTTTTACGCCTCTGCATG
* *
18691717 CGTAGATTTAGACCGAGGTACCTCCGTATAGATCCTTTGTTTCAATTGGGCGTCAACAGTTTCAA
196 CGTAGATTTAGACCGAGGTACCTCCGCATAGATCCTTTGTTTCAATTGGGCCTCAACAGTTTCAA
18691782 ACTGATGTTTCAATACCGACAAACTTTCAGGCTGGATTAGGTTCTAATCCTAGAGATAACCCAGT
261 ACTGATGTTTCAATACCGACAAACTTTCAGGCTGGATTAGGTTCTAATCCTAGAGATAACCCAGT
18691847 GAATCTTGTTATTCCTGATTTCGATGAAATGACTAAAAAAGAGAAGGCAAACGTCGAACTGCCAA
326 GAATCTTGTTATTCCTGATTTCGATGAAATGACTAAAAAAGAGAAGGCAAACGTCGAACTGCCAA
18691912 AACAATGGGAGGATAGGTGTAAATGGTTGGAGGAAAAATTCAAAGCCCTGGAAAGCGTTGATAGT
391 AACAATGGGAGGATAGGTGTAAATGGTTGGAGGAAAAATTCAAAGCCCTGGAAAGCGTTGATAGT
18691977 CATCATGGAATCGATGCAAAAGATCTGAGCTTGGTTCCAAACTTAGTACTCCCTCACAAGTTTAA
456 CATCATGGAATCGATGCAAAAGATCTGAGCTTGGTTCCAAACTTAGTACTCCCTCACAAGTTTAA
* * *
18692042 GATGCCTAAATTTGAAAAATATAATGGGACTAGCTGCCCAAAAGCCCATATCACCATGTTCTGTA
521 GATGCCTAAATTTGAAAAATATAGTGGGACTAGTTGCCCAGAAGCCCATATCACCATGTTCTGTA
18692107 GGAGAATGACGGGGTACATTAACAACGATCAGCTATTAATACATTGTTTTCAGGATAGCCTCATT
586 GGAGAATGACGGGGTACATTAACAACGATCAGCTATTAATACATTGTTTTCAGGATAGCCTCATT
18692172 GGAGCGGCATCTAGGTGGTATAATCATTTGAGCCGTAGCCAAATTAGTTCTTGGAGGGATTTGGC
651 GGAGCGGCATCTAGGTGGTATAATCATTTGAGCCGTAGCCAAATTAGTTCTTGGAGGGATTTGGC
18692237 GCAGGCTTTTATGAAGCAATACAGTCATGTATCAGAGATAATGCCTGACAGAATCACCTTGCAAA
716 GCAGGCTTTTATGAAGCAATACAGTCATGTATCAGAGATAATGCCTGACAGAATCACCTTGCAAA
*
18692302 ATTTGGAAAAGAAATCACATGAAAGTTTTAGACAGTATGCGCAGAGGTGGAGAGAGATCGCAGTT
781 ATTTGGAAAAGAAATCAAATGAAAGTTTTAGACAGTATGCGCAGAGGTGGAGAGAGATCGCAGTT
*
18692367 CAGGTTCAGCCTCCACTCCTAGAGAAAGAAATGACGATGCTCTTTATCAACACACTTAAAGCCCT
846 CAGGTTCAGCCTCCACTCCTAGAGAAAGAAATGACGATGCTCTTTATCAACACACTTAAAGCCCC
18692432 TTTCATCACACACATGTTAGGAAGTGCTACAAAAAGCTTTTCTGACATAGTCATGAGCGGTGAAA
911 TTTCATCACACACATGTTAGGAAGTGCTACAAAAAGCTTTTCTGACATAGTCATGAGCGGTGAAA
18692497 TGATTGAAAGTGCCGTG
976 TGATTGAAAGTGCCGTG
* * *
18692514 AGATTCAAATGAATGAGTAATTGGAAAAAATTTAGA-AGGACATGACGGAAAGGATGCTGAAGTC
1 AGATTCAAATGAAGGAGCAATTGGAAAAAATTTA-ACAGGACATGACAGAAAGGATGCTGAAGTC
18692578 TCAAAAGGACATGATGACTGAGCTGATGCAATTACTAAAAGGAATAAATATGGGGAAAGGCCCTC
65 TCAAAAGGACATGATGACTGAGCTGATGCAATTACTAAAAGGAATAAATATGGGGAAAGGCCCTC
*
18692643 TGGTAAATGATAAAGGAGAAGACAACGATAGACCTATCAATCCTCTAGGTTTTACGCCTCTGCAT
130 TGGTAAATGATGAAGGAGAAGACAACGATAGACCTATCAATCCTCTAGGTTTTACGCCTCTGCAT
18692708 GCGTAGATTTAGACCGAGGTACCTCCGCATAGATCCTTTGTTTCAATTGGGCCTCAACAGTTTCA
195 GCGTAGATTTAGACCGAGGTACCTCCGCATAGATCCTTTGTTTCAATTGGGCCTCAACAGTTTCA
18692773 AACTGATGTTTCAATACCGACAAACTTTCAGGCTGGATTAGGTTCTAATCCTAGAGATAACCCAG
260 AACTGATGTTTCAATACCGACAAACTTTCAGGCTGGATTAGGTTCTAATCCTAGAGATAACCCAG
18692838 TGAATCTTGTTATTCCTGATTTCGATGAAATGACTAAAAAAGAGAAGGCAAACGTCGAACTGCCA
325 TGAATCTTGTTATTCCTGATTTCGATGAAATGACTAAAAAAGAGAAGGCAAACGTCGAACTGCCA
*
18692903 AAACAATGGGAGGATTGGTGTAAATGGTTGGAGGAAAAATTCAAAGCCCTGGAAAGCGTTGATAG
390 AAACAATGGGAGGATAGGTGTAAATGGTTGGAGGAAAAATTCAAAGCCCTGGAAAGCGTTGATAG
18692968 TCATCATGGAATCGATGCAAAAGATCTGAGCTTGGTTCCAAACTTAGTACTCCCTCACAAGTTTA
455 TCATCATGGAATCGATGCAAAAGATCTGAGCTTGGTTCCAAACTTAGTACTCCCTCACAAGTTTA
18693033 AGATGCCTAAATTTGAAAAATATAGTGGGACTAGTTGCCCAGAAGCCCATATCACCATGTTCTGT
520 AGATGCCTAAATTTGAAAAATATAGTGGGACTAGTTGCCCAGAAGCCCATATCACCATGTTCTGT
18693098 AGGAGAATGACGGGGTACATTAACAACGATCAGCTATTAATACATTGTTTTCAGGATAGCCTCAT
585 AGGAGAATGACGGGGTACATTAACAACGATCAGCTATTAATACATTGTTTTCAGGATAGCCTCAT
18693163 TGGAGCGGCATCTAGGTGGTATAATCATTTGAGCCGTAGCCAAATTAGTTCTTGGAGGGATTTGG
650 TGGAGCGGCATCTAGGTGGTATAATCATTTGAGCCGTAGCCAAATTAGTTCTTGGAGGGATTTGG
18693228 CGCAGGCTTTTATGAAGCAATACAGTCATGTATCAGAGATAATGCCTGACAGAATCACCTTGCAA
715 CGCAGGCTTTTATGAAGCAATACAGTCATGTATCAGAGATAATGCCTGACAGAATCACCTTGCAA
* *
18693293 AATTTGGAAAAGAAATCAAATGAAAGTTTTAGACAGTATGCACAGAGGTGGAGAGAGATCGCGGT
780 AATTTGGAAAAGAAATCAAATGAAAGTTTTAGACAGTATGCGCAGAGGTGGAGAGAGATCGCAGT
* * *
18693358 CCAGGTTCAGCCCCCACTCCTAGAGAAAGAAATGATGATGCTCTTTATCAACACACTTAAAGCCC
845 TCAGGTTCAGCCTCCACTCCTAGAGAAAGAAATGACGATGCTCTTTATCAACACACTTAAAGCCC
*
18693423 CTTTCATCACACACATGTTAGGAAGTGCTACAAAAAGCTTTTATGACATAGTCATGAGCGGTGAA
910 CTTTCATCACACACATGTTAGGAAGTGCTACAAAAAGCTTTTCTGACATAGTCATGAGCGGTGAA
*
18693488 ATGATTGAAAGTGCCATG
975 ATGATTGAAAGTGCCGTG
18693506 AGA
1 AGA
18693509 AGCGGAAAGA
Statistics
Matches: 3880, Mismatches: 88, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
991 975 0.25
992 2904 0.75
993 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (992 bp):
AGATTCAAATGAAGGAGCAATTGGAAAAAATTTAACAGGACATGACAGAAAGGATGCTGAAGTCT
CAAAAGGACATGATGACTGAGCTGATGCAATTACTAAAAGGAATAAATATGGGGAAAGGCCCTCT
GGTAAATGATGAAGGAGAAGACAACGATAGACCTATCAATCCTCTAGGTTTTACGCCTCTGCATG
CGTAGATTTAGACCGAGGTACCTCCGCATAGATCCTTTGTTTCAATTGGGCCTCAACAGTTTCAA
ACTGATGTTTCAATACCGACAAACTTTCAGGCTGGATTAGGTTCTAATCCTAGAGATAACCCAGT
GAATCTTGTTATTCCTGATTTCGATGAAATGACTAAAAAAGAGAAGGCAAACGTCGAACTGCCAA
AACAATGGGAGGATAGGTGTAAATGGTTGGAGGAAAAATTCAAAGCCCTGGAAAGCGTTGATAGT
CATCATGGAATCGATGCAAAAGATCTGAGCTTGGTTCCAAACTTAGTACTCCCTCACAAGTTTAA
GATGCCTAAATTTGAAAAATATAGTGGGACTAGTTGCCCAGAAGCCCATATCACCATGTTCTGTA
GGAGAATGACGGGGTACATTAACAACGATCAGCTATTAATACATTGTTTTCAGGATAGCCTCATT
GGAGCGGCATCTAGGTGGTATAATCATTTGAGCCGTAGCCAAATTAGTTCTTGGAGGGATTTGGC
GCAGGCTTTTATGAAGCAATACAGTCATGTATCAGAGATAATGCCTGACAGAATCACCTTGCAAA
ATTTGGAAAAGAAATCAAATGAAAGTTTTAGACAGTATGCGCAGAGGTGGAGAGAGATCGCAGTT
CAGGTTCAGCCTCCACTCCTAGAGAAAGAAATGACGATGCTCTTTATCAACACACTTAAAGCCCC
TTTCATCACACACATGTTAGGAAGTGCTACAAAAAGCTTTTCTGACATAGTCATGAGCGGTGAAA
TGATTGAAAGTGCCGTG
Found at i:18696007 original size:6 final size:7
Alignment explanation
Indices: 18695987--18696020 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
18695977 AAAAAAAAGG
18695987 ATGAAAA
1 ATGAAAA
18695994 ATGAAAA
1 ATGAAAA
18696001 ATG-AAA
1 ATGAAAA
18696007 ATGAAAA
1 ATGAAAA
18696014 ATGAAAA
1 ATGAAAA
18696021 GTAATGACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.71, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
ATGAAAA
Found at i:18696007 original size:13 final size:13
Alignment explanation
Indices: 18695991--18696020 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
18695981 AAAAGGATGA
18695991 AAAATGAAAAATG
1 AAAATGAAAAATG
18696004 AAAATGAAAAATG
1 AAAATGAAAAATG
18696017 AAAA
1 AAAA
18696021 GTAATGACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:18697345 original size:88 final size:88
Alignment explanation
Indices: 18697181--18697615 Score: 690
Period size: 88 Copynumber: 4.9 Consensus size: 88
18697171 CAGTAAAGAT
* *
18697181 CCTTGCCTCCCTCGGTTGTAGTGGAGCTGGTGGAAGATAGTAGATCTTGCCTTCCTGCATCGACA
1 CCTTGCCTCCCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACA
* *
18697246 GCGAAGCAGATCGAAGACACAAA
66 GTGAAGTAGATCGAAGACACAAA
* * * *
18697269 CCTTACCTCCCTCGGTTGTAGTGGAACTGGTTGAAGATAGCAAATCTTGCCTTCCTACATCGACA
1 CCTTGCCTCCCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACA
18697334 GTGAAGTAGATCGAAGACACAAA
66 GTGAAGTAGATCGAAGACACAAA
*
18697357 CCTTGCCTCCCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGATA
1 CCTTGCCTCCCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACA
*
18697422 GCGAAGTAGATCGAAGACACAAA
66 GTGAAGTAGATCGAAGACACAAA
*
18697445 CCTTGCCTCCCTCGGTTGTAGTGGAGCTAGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACA
1 CCTTGCCTCCCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACA
18697510 GTGAAGTAGATCGAAGACACAAA
66 GTGAAGTAGATCGAAGACACAAA
* * * * * * * *
18697533 CCTTGCCTCCCTCAGTTGTAATGGAGCTGGTTGAGGATAGTAGATTTTGCCTTTCTGTATCGACT
1 CCTTGCCTCCCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACA
*
18697598 GTGAAGCAGATCGAAGAC
66 GTGAAGTAGATCGAAGAC
18697616 GGCGAATCTT
Statistics
Matches: 320, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 320 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (88 bp):
CCTTGCCTCCCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACA
GTGAAGTAGATCGAAGACACAAA
Found at i:18697406 original size:44 final size:44
Alignment explanation
Indices: 18697182--18697496 Score: 169
Period size: 44 Copynumber: 7.2 Consensus size: 44
18697172 AGTAAAGATC
* * *
18697182 CTTGCCTCCCTCGGTTGTAGTGGAGCTGGTGGAAGATAGTAGAT
1 CTTGCCTCCCTCGGTTGTAGTGGAGCTGGTCGAAGATAGCAAAT
* * * * * * * * * *
18697226 CTTGCCTTCCT-GCATCGACAGCGAAGCAGATCGAAGACA-CAAAC
1 CTTGCCTCCCTCG-GTTG-TAGTGGAGCTGGTCGAAGATAGCAAAT
* * *
18697270 CTTACCTCCCTCGGTTGTAGTGGAACTGGTTGAAGATAGCAAAT
1 CTTGCCTCCCTCGGTTGTAGTGGAGCTGGTCGAAGATAGCAAAT
* * * * * * * *
18697314 CTTGCCTTCCTAC-ATCGACAGTGAAG-TAGATCGAAGACA-CAAAC
1 CTTGCCTCCCT-CGGTTG-TAGTGGAGCT-GGTCGAAGATAGCAAAT
* *
18697358 CTTGCCTCCCTCGGTTGTAGTGGAGCTGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTCGGTTGTAGTGGAGCTGGTCGAAGATAGCAAAT
* * * * * * * *
18697402 CTTGCCTTCCT-GCATCGATAGCGAAG-TAGATCGAAGACA-CAAAC
1 CTTGCCTCCCTCG-GTTG-TAGTGGAGCT-GGTCGAAGATAGCAAAT
* * *
18697446 CTTGCCTCCCTCGGTTGTAGTGGAGCTAGTTGAAGATAGCAGAT
1 CTTGCCTCCCTCGGTTGTAGTGGAGCTGGTCGAAGATAGCAAAT
18697490 CTTGCCT
1 CTTGCCT
18697497 TCCTGCATCG
Statistics
Matches: 187, Mismatches: 68, Indels: 32
0.65 0.24 0.11
Matches are distributed among these distances:
43 43 0.23
44 100 0.53
45 44 0.24
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (44 bp):
CTTGCCTCCCTCGGTTGTAGTGGAGCTGGTCGAAGATAGCAAAT
Found at i:18697538 original size:44 final size:43
Alignment explanation
Indices: 18697226--18697546 Score: 186
Period size: 44 Copynumber: 7.3 Consensus size: 43
18697216 GATAGTAGAT
* * *
18697226 CTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCT-CATCGATAGTGAAGTAGATCGAAGACACAAAC
* * * * * * * * *
18697270 CTTACCTCCCTCGGTTG-TAGTGGAACT-GGTTGAAGATAGCAAAT
1 CTTGCCTTCCTC-ATCGATAGT-GAAGTAGATCGAAGACA-CAAAC
*
18697314 CTTGCCTTCCTACATCGACAGTGAAGTAGATCGAAGACACAAAC
1 CTTGCCTTCCT-CATCGATAGTGAAGTAGATCGAAGACACAAAC
* * * * * * * * *
18697358 CTTGCCTCCCTCGGTTG-TAGTGGAGCT-GGTTGAAGATAGCAGAT
1 CTTGCCTTCCTC-ATCGATAGTGAAG-TAGATCGAAGACA-CAAAC
*
18697402 CTTGCCTTCCTGCATCGATAGCGAAGTAGATCGAAGACACAAAC
1 CTTGCCTTCCT-CATCGATAGTGAAGTAGATCGAAGACACAAAC
* * * * * * * *
18697446 CTTGCCTCCCTCGGTTG-TAGTGGAGCTAG-TTGAAGATAGCAGAT
1 CTTGCCTTCCTC-ATCGATAGTGAAG-TAGATCGAAGACA-CAAAC
*
18697490 CTTGCCTTCCTGCATCGACAGTGAAGTAGATCGAAGACACAAAC
1 CTTGCCTTCCT-CATCGATAGTGAAGTAGATCGAAGACACAAAC
*
18697534 CTTGCCTCCCTCA
1 CTTGCCTTCCTCA
18697547 GTTGTAATGG
Statistics
Matches: 198, Mismatches: 61, Indels: 37
0.67 0.21 0.12
Matches are distributed among these distances:
43 42 0.21
44 115 0.58
45 41 0.21
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (43 bp):
CTTGCCTTCCTCATCGATAGTGAAGTAGATCGAAGACACAAAC
Found at i:18698631 original size:28 final size:27
Alignment explanation
Indices: 18698581--18698638 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
18698571 AAAAATAGCA
18698581 GCAAAACAAAGAAAAAAACAAAAGGAGG
1 GCAAAACAAAGAAAAAAACAAAA-GAGG
* *
18698609 GCAACACAAAGAAAATAGA-AAAAGAGG
1 GCAAAACAAAGAAAA-AAACAAAAGAGG
18698636 GCA
1 GCA
18698639 GAAAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 7 0.26
28 18 0.67
29 2 0.07
ACGTcount: A:0.64, C:0.12, G:0.22, T:0.02
Consensus pattern (27 bp):
GCAAAACAAAGAAAAAAACAAAAGAGG
Found at i:18704414 original size:47 final size:47
Alignment explanation
Indices: 18704356--18704797 Score: 740
Period size: 47 Copynumber: 9.4 Consensus size: 47
18704346 CAGCCAAGAC
18704356 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
18704403 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
18704450 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
18704497 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
18704544 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
18704591 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
18704638 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
18704685 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
18704732 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
18704779 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
18704798 TCCCGAAGGG
Statistics
Matches: 374, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 374 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:18704972 original size:37 final size:37
Alignment explanation
Indices: 18704916--18704994 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
18704906 CCGAGCTCTA
* *
18704916 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
18704953 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
18704990 AAGAC
1 AAGAC
18704995 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:18708988 original size:15 final size:16
Alignment explanation
Indices: 18708968--18708997 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18708958 TGGTGCCTTG
18708968 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
18708983 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
18708998 AAGCATGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:18715197 original size:15 final size:16
Alignment explanation
Indices: 18715177--18715206 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18715167 TGGTGCCTTG
18715177 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
18715192 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
18715207 AAGCATGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:18717296 original size:16 final size:16
Alignment explanation
Indices: 18717276--18717314 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
18717266 ATAAGCAAGT
*
18717276 AAGTAAACAAATAAGA
1 AAGTAAACAAAGAAGA
* *
18717292 GAGTAAATAAAGAAGA
1 AAGTAAACAAAGAAGA
18717308 AAGTAAA
1 AAGTAAA
18717315 GATCATGATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.67, C:0.03, G:0.18, T:0.13
Consensus pattern (16 bp):
AAGTAAACAAAGAAGA
Found at i:18717296 original size:20 final size:20
Alignment explanation
Indices: 18717264--18717302 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18717254 TGAGTTATTT
*
18717264 AAATAAGCAAGTAAGTAAAC
1 AAATAAGCAAGTAAATAAAC
18717284 AAATAAG-AGAGTAAATAAA
1 AAATAAGCA-AGTAAATAAA
18717303 GAAGAAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.64, C:0.05, G:0.15, T:0.15
Consensus pattern (20 bp):
AAATAAGCAAGTAAATAAAC
Found at i:18725639 original size:16 final size:17
Alignment explanation
Indices: 18725610--18725641 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
18725600 AACTTTTATT
18725610 TTTTATTGTTATTTGTG
1 TTTTATTGTTATTTGTG
18725627 TTTTATT-TTATTTGT
1 TTTTATTGTTATTTGT
18725642 CGGACTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.75
Consensus pattern (17 bp):
TTTTATTGTTATTTGTG
Found at i:18728957 original size:5 final size:6
Alignment explanation
Indices: 18728906--18728992 Score: 55
Period size: 5 Copynumber: 15.7 Consensus size: 6
18728896 TTAATATGAT
* * * *
18728906 TTAATA TTAA-A TTAGTA -TAATA TTTATC TTGATA --AATA TT-ATA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
* *
18728949 TTAAT- TTAATA TTAAAGA TAAATA TT-ATA TTAAT- TTAATA TTAA
1 TTAATA TTAATA TT-AATA TTAATA TTAATA TTAATA TTAATA TTAA
18728993 AGTGATTAAG
Statistics
Matches: 61, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
4 3 0.05
5 28 0.46
6 26 0.43
7 4 0.07
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.48
Consensus pattern (6 bp):
TTAATA
Done.