Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 206 of 226
Found at i:61612515 original size:54 final size:54
Alignment explanation
Indices: 61612420--61612522 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
61612410 ACTCTCTGAA
* *
61612420 ATATTTTCAAACCATGGGATGGATGCCTCTAATCCATCAGGAACCTCAATGGTC
1 ATATTTTCAAACCATGGGATGGATGCATCTAATCCAGCAGGAACCTCAATGGTC
* ** *
61612474 ATATTTTCAAACCATGGGATGGATGTATCTTCTCCAGCAGGAAGCTCAA
1 ATATTTTCAAACCATGGGATGGATGCATCTAATCCAGCAGGAACCTCAA
61612523 CACCATCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (54 bp):
ATATTTTCAAACCATGGGATGGATGCATCTAATCCAGCAGGAACCTCAATGGTC
Found at i:61617020 original size:52 final size:52
Alignment explanation
Indices: 61616963--61617069 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
61616953 TATAATGTTG
*
61616963 CATTTTCAATTGGTATCAAAGCCATACACATAAAGCATTTTATGAGATCTTA
1 CATTTTCAATTGGTATCAAAGCCATACACATAAAGCATTTTATGAGATCTCA
*
61617015 CATTTTCAATTGGTATCAAAGCCATACACATAAAGTATTTTATGAGATCTCA
1 CATTTTCAATTGGTATCAAAGCCATACACATAAAGCATTTTATGAGATCTCA
61617067 CAT
1 CAT
61617070 CTGATAGCCG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (52 bp):
CATTTTCAATTGGTATCAAAGCCATACACATAAAGCATTTTATGAGATCTCA
Found at i:61617903 original size:108 final size:108
Alignment explanation
Indices: 61617714--61617929 Score: 414
Period size: 108 Copynumber: 2.0 Consensus size: 108
61617704 GGACTGGACC
*
61617714 CAATAGTAGAATTTATATTGGATTTGTTTATGGATTTATTCACTTGTAGCGCTCATGGTGTGACT
1 CAATAGTAGAATTTATATTGGATTTGTTTATGGATTTATTCACTTGTAACGCTCATGGTGTGACT
61617779 TACCTCGATGCTGAGTAAGTAACTGACCATGTGTACCTAATAG
66 TACCTCGATGCTGAGTAAGTAACTGACCATGTGTACCTAATAG
61617822 CAATAGTAGAATTTATATTGGATTTGTTTATGGATTTATTCACTTGTAACGCTCATGGTGTGACT
1 CAATAGTAGAATTTATATTGGATTTGTTTATGGATTTATTCACTTGTAACGCTCATGGTGTGACT
*
61617887 TACCTCGATTCTGAGTAAGTAACTGACCATGTGTACCTAATAG
66 TACCTCGATGCTGAGTAAGTAACTGACCATGTGTACCTAATAG
61617930 GGGTGAGCAA
Statistics
Matches: 106, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
108 106 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (108 bp):
CAATAGTAGAATTTATATTGGATTTGTTTATGGATTTATTCACTTGTAACGCTCATGGTGTGACT
TACCTCGATGCTGAGTAAGTAACTGACCATGTGTACCTAATAG
Found at i:61619271 original size:19 final size:19
Alignment explanation
Indices: 61619246--61619290 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
61619236 AGTTGAGAAT
*
61619246 TTTTTTATTATTTTAATTAA
1 TTTTTAATTA-TTTAATTAA
61619266 TTTTTAATTATTTAATTAA
1 TTTTTAATTATTTAATTAA
61619285 TATTTT
1 T-TTTT
61619291 GAGAATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTAATTATTTAATTAA
Found at i:61620124 original size:20 final size:21
Alignment explanation
Indices: 61620098--61620157 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
61620088 ATATTAAAAA
61620098 TATATTTTTATAATTAAATTT
1 TATATTTTTATAATTAAATTT
*
61620119 TA-ATTTTT-TAA-AAAATATT
1 TATATTTTTATAATTAAAT-TT
61620138 TATATTATTTA-AATTAAATT
1 TATATT-TTTATAATTAAATT
61620158 CGGATCGACC
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
18 4 0.12
19 7 0.22
20 9 0.28
21 8 0.25
22 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATATTTTTATAATTAAATTT
Found at i:61629493 original size:57 final size:56
Alignment explanation
Indices: 61629419--61629525 Score: 135
Period size: 57 Copynumber: 1.9 Consensus size: 56
61629409 AAAATTCAAT
* *
61629419 ATAGTTGAGTGATTATTTTGTAACTTTTCATAATTAGGTGACCAAAAAAATTTACTA
1 ATAGTTGAGTGACTATTTTGTAACTTTTCATAATTAGGTGA-AAAAAAAATTTACTA
* ** *
61629476 ATAGTTTGA-TGACTATTTTGTAATTTTTTGTAATTGGGTGAAAAAAAAAT
1 ATAG-TTGAGTGACTATTTTGTAACTTTTCATAATTAGGTGAAAAAAAAAT
61629526 CATAATTAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
56 8 0.19
57 31 0.72
58 4 0.09
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (56 bp):
ATAGTTGAGTGACTATTTTGTAACTTTTCATAATTAGGTGAAAAAAAAATTTACTA
Found at i:61653320 original size:20 final size:20
Alignment explanation
Indices: 61653295--61653334 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
61653285 TTATATAATT
*
61653295 TATATTATATGATACTTAAA
1 TATATTATATGATAATTAAA
*
61653315 TATATTATATTATAATTAAA
1 TATATTATATGATAATTAAA
61653335 AGTTTGTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (20 bp):
TATATTATATGATAATTAAA
Found at i:61654437 original size:114 final size:113
Alignment explanation
Indices: 61654239--61654769 Score: 653
Period size: 114 Copynumber: 4.7 Consensus size: 113
61654229 AAAATAAGCA
* * * *
61654239 TTAGCGGCATTTTTGAGAAAGCGCCGC-AAAAACCTAAGCCCAACGACACCGTTTCCCAAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTTT
* *
61654303 CGAGGG-TTTAGAGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGTT
66 C-AGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * * * *
61654351 TTAGCGACGTTTTTGAGAAAGTGCCGCAAAAAAACTTAAGCCCAACGACGCCGTTTTGTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTT
* * *
61654416 TCAGGGATTTAGCGGCGTTTTT-GGTAAAGCGTCGCTAATGCTCAGGGAT
65 TCAGGGATTTAGCGGCGTTTTTAAG-AAAGCGCCGCTAATGCTCAGGGCT
** * * * * * * * *
61654465 TTAGCGGCGCTTCCTCA-AAAACGCCGCAAGAAATCCTAAACCCGACGACGCTGTTTTGTTAGCT
1 TTAGCGGCG-TTTTTGAGAAAGCGCCGCAA-AAAACCTAAGCCCAACGACGCCGTTTTCTAAGCT
*
61654529 TTCGGGGATTTA---GCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
64 TTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * * *
61654576 TTAGCGGCGTTTTTGAGAAAGCGCCGTAAAAAACCTGAGCCCAACGATGCCGTTTTCTGAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTTT
* * *
61654641 CAGGGATTTAGTGGCGTTTTTAAGAAAGCGCCGCTAATGTTGAGGGCT
66 CAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* *
61654689 TTAGTGGCGTTTTTGAGAAAGCGCCGCAAAAAATTCTAAGCCCAACGACGCCGTTTTCTAAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAA-CCTAAGCCCAACGACGCCGTTTTCTAAGCTT
61654754 TCAGGGATTTAGCGGC
65 TCAGGGATTTAGCGGC
61654770 CAAAAATGCT
Statistics
Matches: 355, Mismatches: 52, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
110 41 0.12
111 49 0.14
112 25 0.07
113 71 0.20
114 165 0.46
115 4 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (113 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTAAGCTTT
CAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:61654716 original size:224 final size:224
Alignment explanation
Indices: 61654239--61654767 Score: 681
Period size: 224 Copynumber: 2.3 Consensus size: 224
61654229 AAAATAAGCA
* * * *
61654239 TTAGCGGCATTTTTGAGAAAGCGCCGCAAAAA-CCTAAGCCCAACGACACCGTTTCCCAAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATCCTAAGCCCAACGACGCCGTTTTCTAAGCTTT
*
61654303 CGAGGG-TTTAGAGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGTTTTAGCGACGTTTTTGA
66 CG-GGGATTT--A-GCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGACGTTTTTGA
* * *
61654367 GAAAGTGCCGCAAAAAAACTTAAGCCCAACGACGCCGTTTTGTGAGCTTTCAGGGATTTAGCGGC
127 GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAGGGATTTAGCGGC
* *
61654432 GTTTTTGGTAAAGCGTCGCTAATGCTCAGGGAT
192 GTTTTTAGTAAAGCGCCGCTAATGCTCAGGGAT
** * * * * * * *
61654465 TTAGCGGCGCTTCCTCA-AAAACGCCGCAAGAAATCCTAAACCCGACGACGCTGTTTTGTTAGCT
1 TTAGCGGCG-TTTTTGAGAAAGCGCCGCAA-AAATCCTAAGCCCAACGACGCCGTTTTCTAAGCT
*
61654529 TTCGGGGATTTAGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTTGAGA
64 TTCGGGGATTTAGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGACGTTTTTGAGA
* * * *
61654594 AAGCGCCG-TAAAAAACCTGAGCCCAACGATGCCGTTTTCTGAGCTTTCAGGGATTTAGTGGCGT
129 AAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAGGGATTTAGCGGCGT
* * *
61654658 TTTTAAG-AAAGCGCCGCTAATGTTGAGGGCT
194 TTTT-AGTAAAGCGCCGCTAATGCTCAGGGAT
* *
61654689 TTAGTGGCGTTTTTGAGAAAGCGCCGCAAAAAATTCTAAGCCCAACGACGCCGTTTTCTAAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAATCCTAAGCCCAACGACGCCGTTTTCTAAGCTT
*
61654754 TCAGGGATTTAGCG
65 TCGGGGATTTAGCG
61654768 GCCAAAAATG
Statistics
Matches: 257, Mismatches: 39, Indels: 16
0.82 0.12 0.05
Matches are distributed among these distances:
223 4 0.02
224 133 0.52
225 61 0.24
226 20 0.08
227 10 0.04
228 29 0.11
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (224 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAATCCTAAGCCCAACGACGCCGTTTTCTAAGCTTT
CGGGGATTTAGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGACGTTTTTGAGAAA
GCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAGGGATTTAGCGGCGTTT
TTAGTAAAGCGCCGCTAATGCTCAGGGAT
Found at i:61655120 original size:15 final size:14
Alignment explanation
Indices: 61655067--61655135 Score: 59
Period size: 14 Copynumber: 4.8 Consensus size: 14
61655057 AAGTATGGGT
* *
61655067 TTAGGGATTATGGA
1 TTAGGGGTTAGGGA
61655081 TTAGGGGTT-GGGA
1 TTAGGGGTTAGGGA
* *
61655094 TTTAAGGTTTAGGGA
1 -TTAGGGGTTAGGGA
*
61655109 TTAGAGGGTTAGGGGT
1 TTAG-GGGTTA-GGGA
61655125 TTAGGGGTTAG
1 TTAGGGGTTAG
61655136 ATGTGCTAGG
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
13 3 0.07
14 19 0.43
15 15 0.34
16 7 0.16
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.35
Consensus pattern (14 bp):
TTAGGGGTTAGGGA
Found at i:61655341 original size:15 final size:15
Alignment explanation
Indices: 61655321--61655367 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
61655311 TATTTTAAGG
*
61655321 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
61655336 TTTAGGGATTAT-GA
1 TTTAGGGATTATGGA
*
61655350 ATTAGGGATTATGG-
1 TTTAGGGATTATGGA
61655364 TTTA
1 TTTA
61655368 AGGGTTGGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:61655388 original size:21 final size:20
Alignment explanation
Indices: 61655354--61655394 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
61655344 TTATGAATTA
*
61655354 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
61655374 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
61655395 TAGGGGTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:61655413 original size:14 final size:14
Alignment explanation
Indices: 61655394--61655427 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
61655384 GTTTAGGGGT
61655394 TTAGGGGTT-AGATG
1 TTAGGGGTTAAGA-G
61655408 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
61655422 TTAGGG
1 TTAGGG
61655428 ATTTAAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.32
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:61656091 original size:76 final size:76
Alignment explanation
Indices: 61656009--61656239 Score: 336
Period size: 76 Copynumber: 3.0 Consensus size: 76
61655999 ATTTTATAAG
*
61656009 AAATCAATTTATAAAAAAACAAAATAAAAATTTTTTAGCATAGCAAAACGGCGTCATTTTGTTCA
1 AAATCAATTTATAAAAAAATAAAATAAAAATTTTTTAGCATAGCAAAACGGCGTCATTTTGTTCA
*
61656074 AAATGAAAAAT
66 AAATGAAAAAC
* * * *
61656085 AAATCAATTTATAAAAAAATAAAATAAAATTTTTTTAACATAGCAAAACGGCGTCATTTTGCTGA
1 AAATCAATTTATAAAAAAATAAAATAAAAATTTTTTAGCATAGCAAAACGGCGTCATTTTGTTCA
61656150 AAATGAACAAAAAAC
66 AAATG----AAAAAC
* * * *
61656165 AAATCAATATATAAAAAAATAAAATAAAAAATTTTTAGCATAACAAAACGGCATCATTTTGTTCA
1 AAATCAATTTATAAAAAAATAAAATAAAAATTTTTTAGCATAGCAAAACGGCGTCATTTTGTTCA
61656230 AAATGAAAAA
66 AAATGAAAAA
61656240 AATTTTGCGG
Statistics
Matches: 137, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
76 70 0.51
80 67 0.49
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (76 bp):
AAATCAATTTATAAAAAAATAAAATAAAAATTTTTTAGCATAGCAAAACGGCGTCATTTTGTTCA
AAATGAAAAAC
Found at i:61656200 original size:80 final size:79
Alignment explanation
Indices: 61656009--61656241 Score: 346
Period size: 80 Copynumber: 3.0 Consensus size: 79
61655999 ATTTTATAAG
*
61656009 AAATCAATTTATAAAAAAACAAAATAAAAATTTTTTAGCATAGCAAAACGGCGTCATTTTGTTCA
1 AAATCAATTTATAAAAAAATAAAATAAAAATTTTTTAGCATAGCAAAACGGCGTCATTTTGTTCA
*
61656074 AAATG---AAAAAT
66 AAATGAAAAAAAAC
* * * *
61656085 AAATCAATTTATAAAAAAATAAAATAAAATTTTTTTAACATAGCAAAACGGCGTCATTTTGCTGA
1 AAATCAATTTATAAAAAAATAAAATAAAAATTTTTTAGCATAGCAAAACGGCGTCATTTTGTTCA
61656150 AAATGAACAAAAAAC
66 AAATGAA-AAAAAAC
* * * *
61656165 AAATCAATATATAAAAAAATAAAATAAAAAATTTTTAGCATAACAAAACGGCATCATTTTGTTCA
1 AAATCAATTTATAAAAAAATAAAATAAAAATTTTTTAGCATAGCAAAACGGCGTCATTTTGTTCA
61656230 AAATGAAAAAAA
66 AAATGAAAAAAA
61656242 TTTTGCGGCG
Statistics
Matches: 139, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
76 65 0.47
79 5 0.04
80 69 0.50
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.27
Consensus pattern (79 bp):
AAATCAATTTATAAAAAAATAAAATAAAAATTTTTTAGCATAGCAAAACGGCGTCATTTTGTTCA
AAATGAAAAAAAAC
Found at i:61656351 original size:21 final size:21
Alignment explanation
Indices: 61656315--61656356 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
61656305 AAAACGCCAC
*
61656315 AAAAAATAAATCAATTTATAAA
1 AAAAAATAAATAAATTT-TAAA
61656337 AAAAAATAAA-AAATTTTAAA
1 AAAAAATAAATAAATTTTAAA
61656357 CTTCTCACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 5 0.26
22 10 0.53
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAAATAAATAAATTTTAAA
Found at i:61658265 original size:21 final size:20
Alignment explanation
Indices: 61658231--61658279 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
61658221 CTAAGATGTG
* *
61658231 AATTGGATTGAATTGAATATA
1 AATTGTATTAAATTGAAT-TA
*
61658252 AATTGTATTAAATTGAGTTA
1 AATTGTATTAAATTGAATTA
61658272 AATT-TATT
1 AATTGTATT
61658280 CGTATAGATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.16
20 6 0.24
21 15 0.60
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (20 bp):
AATTGTATTAAATTGAATTA
Found at i:61658839 original size:25 final size:25
Alignment explanation
Indices: 61658726--61658849 Score: 98
Period size: 25 Copynumber: 5.0 Consensus size: 25
61658716 CGTCCCTACA
*
61658726 AATGGCTCTTCGTGAGCTTCCTGATT
1 AATGGCTCTTCG-GAGCTTCCCGATT
* *
61658752 AATAGCTCTTCGGAGCTTCCC-AAT
1 AATGGCTCTTCGGAGCTTCCCGATT
*
61658776 -ATGGCTAGCTT--GAACTTCCCGA-T
1 AATGGCT--CTTCGGAGCTTCCCGATT
* *
61658799 ATATGGCTATCCGGAGCTTCCCGATT
1 A-ATGGCTCTTCGGAGCTTCCCGATT
* *
61658825 AATGGCTCTTTGGAGCTACCC-ATT
1 AATGGCTCTTCGGAGCTTCCCGATT
61658849 A
1 A
61658850 TTAGCTCACA
Statistics
Matches: 78, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
23 15 0.19
24 7 0.09
25 43 0.55
26 13 0.17
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (25 bp):
AATGGCTCTTCGGAGCTTCCCGATT
Found at i:61660528 original size:27 final size:27
Alignment explanation
Indices: 61660490--61660543 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
61660480 TGGAAGACAA
61660490 ATTAATATTGATGCATCTAAATATACT
1 ATTAATATTGATGCATCTAAATATACT
61660517 ATTAATATTGATGCATCTAAATATACT
1 ATTAATATTGATGCATCTAAATATACT
61660544 TTTTGTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (27 bp):
ATTAATATTGATGCATCTAAATATACT
Found at i:61661642 original size:33 final size:35
Alignment explanation
Indices: 61661605--61661701 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
61661595 ATGGTTATAT
61661605 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
61661638 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
61661673 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
61661702 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.16
35 11 0.22
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:61661902 original size:13 final size:13
Alignment explanation
Indices: 61661884--61661948 Score: 53
Period size: 13 Copynumber: 5.1 Consensus size: 13
61661874 TTTAAATCGA
*
61661884 ACTTCTCAAAAGT
1 ACTTCTCAAAAGC
*
61661897 ACTTCTCGAAAGC
1 ACTTCTCAAAAGC
* *
61661910 ACTTTTCTACAA-C
1 ACTTCTC-AAAAGC
* *
61661923 GCTTTTCAAAAGC
1 ACTTCTCAAAAGC
61661936 ACTT-TCAAAAGC
1 ACTTCTCAAAAGC
61661948 A
1 A
61661949 TTGACAAACT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
12 12 0.29
13 28 0.67
14 2 0.05
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.29
Consensus pattern (13 bp):
ACTTCTCAAAAGC
Found at i:61666433 original size:15 final size:14
Alignment explanation
Indices: 61666412--61666447 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
61666402 ATAATCCTTA
*
61666412 ATAATTATCTTAAT
1 ATAATTATCCTAAT
61666426 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
61666441 ATAATTA
1 ATAATTA
61666448 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:61667037 original size:20 final size:18
Alignment explanation
Indices: 61667012--61667056 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 18
61667002 ATTTTTCTTT
61667012 TTTATTTATTTTGATTTATA
1 TTTATTTA-TTT-ATTTATA
61667032 TTTATTTA-TTATTTATA
1 TTTATTTATTTATTTATA
61667049 TTT-TTTAT
1 TTTATTTAT
61667057 GCTTTAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.17
17 10 0.42
18 2 0.08
20 8 0.33
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTATTTATTTATTTATA
Found at i:61667055 original size:16 final size:17
Alignment explanation
Indices: 61667014--61667056 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
61667004 TTTTCTTTTT
*
61667014 TATTTATTT-TGATTTA
1 TATTTATTTATTATTTA
61667030 TATTTATTTATTATTTA
1 TATTTATTTATTATTTA
61667047 TATTT-TTTAT
1 TATTTATTTAT
61667057 GCTTTAGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (17 bp):
TATTTATTTATTATTTA
Found at i:61668114 original size:12 final size:13
Alignment explanation
Indices: 61668075--61668147 Score: 70
Period size: 12 Copynumber: 5.9 Consensus size: 13
61668065 ATTAATATCC
61668075 AAAT-AAGT-AAT
1 AAATAAAGTAAAT
61668086 AAAT-AA-TAAATT
1 AAATAAAGTAAA-T
61668098 AAAATAAAGT-AAT
1 -AAATAAAGTAAAT
61668111 AAATAAAGTAAAT
1 AAATAAAGTAAAT
61668124 AAAATAAA-TAAAT
1 -AAATAAAGTAAAT
61668137 AAATAAA-TAAA
1 AAATAAAGTAAA
61668148 AATTGGGTTG
Statistics
Matches: 55, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.02
11 8 0.15
12 21 0.38
13 13 0.24
14 11 0.20
15 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (13 bp):
AAATAAAGTAAAT
Found at i:61668117 original size:4 final size:4
Alignment explanation
Indices: 61668083--61668147 Score: 71
Period size: 4 Copynumber: 15.5 Consensus size: 4
61668073 CCAAATAAGT
61668083 AATA AAT- AATA AATTAA AATA AAGT- AATA AATA AAGTA AATAA AATA
1 AATA AATA AATA AA-T-A AATA AA-TA AATA AATA AA-TA AAT-A AATA
61668130 AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AA
61668148 AATTGGGTTG
Statistics
Matches: 54, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
3 4 0.07
4 36 0.67
5 11 0.20
6 3 0.06
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:61668148 original size:21 final size:22
Alignment explanation
Indices: 61668083--61668148 Score: 84
Period size: 21 Copynumber: 3.1 Consensus size: 22
61668073 CCAAATAAGT
*
61668083 AATAAAT-AATAAATTAAAATAA
1 AATAAATAAATAAAGT-AAATAA
*
61668105 AGT-AATAAATAAAGTAAATAA
1 AATAAATAAATAAAGTAAATAA
61668126 AATAAATAAATAAA-TAAATAA
1 AATAAATAAATAAAGTAAATAA
61668147 AA
1 AA
61668149 ATTGGGTTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
21 20 0.51
22 19 0.49
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (22 bp):
AATAAATAAATAAAGTAAATAA
Found at i:61668149 original size:22 final size:23
Alignment explanation
Indices: 61668083--61668150 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 23
61668073 CCAAATAAGT
*
61668083 AATAAAT-AATAAATTAAA-ATAA
1 AATAAATAAATAAAGTAAATA-AA
*
61668105 AGT-AATAAATAAAGTAAAT-AA
1 AATAAATAAATAAAGTAAATAAA
61668126 AATAAATAAATAAA-TAAATAAA
1 AATAAATAAATAAAGTAAATAAA
61668148 AAT
1 AAT
61668151 TGGGTTGCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 12 0.31
22 27 0.69
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (23 bp):
AATAAATAAATAAAGTAAATAAA
Found at i:61672106 original size:15 final size:15
Alignment explanation
Indices: 61672086--61672115 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61672076 TAATCCTTAA
*
61672086 TAATTATCTTAATAT
1 TAATTATCCTAATAT
61672101 TAATTATCCTAATAT
1 TAATTATCCTAATAT
61672116 AACTAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:61672727 original size:30 final size:30
Alignment explanation
Indices: 61672693--61672755 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
61672683 ACTTAACAAG
61672693 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
61672723 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
61672753 CAA
1 CAA
61672756 TAAAATAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:61677931 original size:21 final size:21
Alignment explanation
Indices: 61677907--61677951 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
61677897 TTATTTTTTC
*
61677907 AAATTGTTACCTCTATTAGTA
1 AAATTGTTAACTCTATTAGTA
* *
61677928 AAATTGTTAAGTCTATTATTA
1 AAATTGTTAACTCTATTAGTA
61677949 AAA
1 AAA
61677952 AGAATTCTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (21 bp):
AAATTGTTAACTCTATTAGTA
Found at i:61679601 original size:12 final size:12
Alignment explanation
Indices: 61679581--61679756 Score: 119
Period size: 12 Copynumber: 14.8 Consensus size: 12
61679571 ATTTAGGGTT
* *
61679581 ATTTCGATTTCA
1 ATTTTGATTTCG
61679593 ATTTTGATTTCG
1 ATTTTGATTTCG
* *
61679605 ATTCTGATTTTG
1 ATTTTGATTTCG
61679617 ATTTTGATTTCG
1 ATTTTGATTTCG
*
61679629 ATTTTGATTTCA
1 ATTTTGATTTCG
**
61679641 ATTTTGA-AAC-
1 ATTTTGATTTCG
*
61679651 ACTCATTGA-TTCTG
1 A-T-TTTGATTTC-G
*
61679665 ATTTTGATTTCA
1 ATTTTGATTTCG
* *
61679677 ATTTCGATCTCG
1 ATTTTGATTTCG
* *
61679689 ATTTAGATTTAG
1 ATTTTGATTTCG
*
61679701 ATTTTGATTTTG
1 ATTTTGATTTCG
* *
61679713 ATTTCGATTTGG
1 ATTTTGATTTCG
*
61679725 ATTTTGATTTAG
1 ATTTTGATTTCG
**
61679737 -GGTT-ATTTCG
1 ATTTTGATTTCG
61679747 ATTTTGATTT
1 ATTTTGATTT
61679757 TGACTTTGTT
Statistics
Matches: 126, Mismatches: 31, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
10 6 0.05
11 6 0.05
12 109 0.87
13 4 0.03
14 1 0.01
ACGTcount: A:0.22, C:0.09, G:0.15, T:0.54
Consensus pattern (12 bp):
ATTTTGATTTCG
Found at i:61679602 original size:6 final size:6
Alignment explanation
Indices: 61679593--61679764 Score: 87
Period size: 6 Copynumber: 28.0 Consensus size: 6
61679583 TTCGATTTCA
* * * **
61679593 ATTTTG ATTTCG ATTCTG ATTTTG ATTTTG ATTTCG ATTTTG ATTTCA
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* * ** * * *
61679641 ATTTTG AAACACTCATTG ATTCTG ATTTTG ATTTCA ATTTCG ATCTCG
1 ATTTTG ----A-T-TTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* * * * *
61679689 ATTTAG ATTTAG ATTTTG ATTTTG ATTTCG ATTTGG ATTTTG ATTTAG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
** * *
61679737 -GGTT- ATTTCG ATTTTG ATTTTG ACTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
61679765 TTTGGCAGGT
Statistics
Matches: 125, Mismatches: 33, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
5 2 0.02
6 116 0.93
7 1 0.01
8 1 0.01
10 1 0.01
11 1 0.01
12 3 0.02
ACGTcount: A:0.21, C:0.09, G:0.16, T:0.54
Consensus pattern (6 bp):
ATTTTG
Found at i:61679604 original size:18 final size:18
Alignment explanation
Indices: 61679581--61679734 Score: 105
Period size: 18 Copynumber: 8.2 Consensus size: 18
61679571 ATTTAGGGTT
*
61679581 ATTTCGATTTCAATTTTG
1 ATTTCGATTTCGATTTTG
61679599 ATTTCGA-TTCTGATTTTG
1 ATTTCGATTTC-GATTTTG
*
61679617 ATTTTGATTTCGATTTTG
1 ATTTCGATTTCGATTTTG
* * *
61679635 ATTTCAATTTTGAAACACTCATTG
1 ATTTCGATTTCG----A-T-TTTG
* **
61679659 A-TTCTGATTTTGATTTCA
1 ATTTC-GATTTCGATTTTG
* *
61679677 ATTTCGATCTCGATTTAG
1 ATTTCGATTTCGATTTTG
* *
61679695 ATTTAGATTTTGATTTTG
1 ATTTCGATTTCGATTTTG
*
61679713 ATTTCGATTTGGATTTTG
1 ATTTCGATTTCGATTTTG
61679731 ATTT
1 ATTT
61679735 AGGGTTATTT
Statistics
Matches: 106, Mismatches: 20, Indels: 20
0.73 0.14 0.14
Matches are distributed among these distances:
17 3 0.03
18 80 0.75
19 7 0.07
20 1 0.01
22 1 0.01
23 4 0.04
24 10 0.09
ACGTcount: A:0.22, C:0.10, G:0.14, T:0.54
Consensus pattern (18 bp):
ATTTCGATTTCGATTTTG
Found at i:61681562 original size:28 final size:27
Alignment explanation
Indices: 61681493--61681562 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 27
61681483 CCTTAAATTG
*
61681493 TTAATTGCTATTATTATTATTATTATTA
1 TTAATTGCT-TTATTAATATTATTATTA
* * *
61681521 TTAATCGTCATTATTAATATTATTATTC
1 TTAATTG-CTTTATTAATATTATTATTA
61681549 TTAAATTGCTTTAT
1 TT-AATTGCTTTAT
61681563 ACCTTATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 29 0.85
29 5 0.15
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.57
Consensus pattern (27 bp):
TTAATTGCTTTATTAATATTATTATTA
Found at i:61683832 original size:39 final size:40
Alignment explanation
Indices: 61683761--61683857 Score: 151
Period size: 39 Copynumber: 2.5 Consensus size: 40
61683751 TTAGTGAATT
* *
61683761 TTTTTTAATATGCATGCATTGATTGTTGGTGTGTTGACTA
1 TTTTTTAATATGCATGCAGTGATTGTTAGTGTGTTGACTA
* *
61683801 TTTTTTAATATGCATGTAGTGA-TGTTAGTGTGTTGCCTA
1 TTTTTTAATATGCATGCAGTGATTGTTAGTGTGTTGACTA
61683840 TTTTTTAATATGCATGCA
1 TTTTTTAATATGCATGCA
61683858 ATGACTCTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
39 32 0.62
40 20 0.38
ACGTcount: A:0.22, C:0.08, G:0.21, T:0.49
Consensus pattern (40 bp):
TTTTTTAATATGCATGCAGTGATTGTTAGTGTGTTGACTA
Found at i:61684554 original size:21 final size:19
Alignment explanation
Indices: 61684530--61684598 Score: 50
Period size: 21 Copynumber: 3.5 Consensus size: 19
61684520 AAGTTGGTGT
61684530 CCCAACTCAATAACAAGCTAC
1 CCCAACTC-A-AACAAGCTAC
* * * *
61684551 CCCAAATCAGCAAGAGGGTAC
1 CCCAACTCA--AACAAGCTAC
*
61684572 CCCAACTC-AACAAGCTGC
1 CCCAACTCAAACAAGCTAC
61684590 CCCAACTCA
1 CCCAACTCA
61684599 GTTGCCTACA
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
18 14 0.39
20 1 0.03
21 21 0.58
ACGTcount: A:0.38, C:0.39, G:0.12, T:0.12
Consensus pattern (19 bp):
CCCAACTCAAACAAGCTAC
Found at i:61685310 original size:38 final size:36
Alignment explanation
Indices: 61685268--61685353 Score: 109
Period size: 38 Copynumber: 2.3 Consensus size: 36
61685258 GATAGCCATG
**
61685268 TATACCAGCAACCATGTATAACATATGTTAAGCAACAA
1 TATACCAGCAACCATGTATAACA-A-CATAAGCAACAA
* * *
61685306 TATACCAGCAGCCATGTATACCAACATACGCAACAA
1 TATACCAGCAACCATGTATAACAACATAAGCAACAA
61685342 TATACCAGCAAC
1 TATACCAGCAAC
61685354 AATATTACAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
36 20 0.48
37 1 0.02
38 21 0.50
ACGTcount: A:0.43, C:0.27, G:0.10, T:0.20
Consensus pattern (36 bp):
TATACCAGCAACCATGTATAACAACATAAGCAACAA
Found at i:61686135 original size:2 final size:2
Alignment explanation
Indices: 61686128--61686162 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
61686118 CGGTTAAGTC
*
61686128 TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61686163 TGTTTTAGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:61689173 original size:10 final size:10
Alignment explanation
Indices: 61689146--61689184 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
61689136 TTAAATTCTA
61689146 AAAGATAAAT
1 AAAGATAAAT
61689156 ACAA-ATAAAT
1 A-AAGATAAAT
*
61689166 AAAGATAATT
1 AAAGATAAAT
61689176 AAAGATAAA
1 AAAGATAAA
61689185 AGCTAGGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:61697235 original size:94 final size:95
Alignment explanation
Indices: 61696942--61697508 Score: 348
Period size: 94 Copynumber: 6.1 Consensus size: 95
61696932 ATATTTACAA
* * * *
61696942 CTTCAAT-ATGCTCCACTACAACTTCAGAGTGATAAGATTCGCTATGGTAAATTCAATCC-GTCC
1 CTTCAATCTTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTAAATTCAATCCAAT-C
* * * * * *
61697005 CACTGCAACTTTAGAGGTGT-GGGTCTATAG
65 CACTGCAACTTCAGGGGTATAGGATTTGTAG
* * * * * * * ** * **
61697035 CTTC-ATCTCGCTCCACTTCAAATTCAAGGAGATAAGATTTGTTATCGTAGTTTCATTCTGA-CC
1 CTTCAATCTTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTAAATTCAATCCAATCC
*
61697098 TGCTGCAACTTCAGGGG--TAGGATTTGTAG
66 -ACTGCAACTTCAGGGGTATAGGATTTGTAG
** *
61697127 CTTCAATCTT-CTCCACTACAACTTCAGGGAGATAAGATTTACTATGGTAGATTCAATCCAATCC
1 CTTCAATCTTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTAAATTCAATCCAATCC
* * *
61697191 ACTGTAATTTTAGGGGT-TCAGGATTTGTAG
66 ACTGCAACTTCAGGGGTAT-AGGATTTGTAG
* * *** *
61697221 CTTCAAT-TTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTCTAACAAATTCAATCCAACCC
1 CTTCAATCTTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTAAATTCAATCCAATCC
*
61697285 ACTGTAACTTCAGGGGTATAGGATTTGTAG
66 ACTGCAACTTCAGGGGTATAGGATTTGTAG
** * * * * **
61697315 -TTGTAGCTT-CATTCCGACTCATTGCAACTTCA-AG-GAT-ATA-T-G-TATTGTAGCTTC-AT
1 CTTCAATCTTGC--TCC-ACT-A---CAACTTCAGGGAGATAAGATTCGCTATGGTAAATTCAAT
*** *
61697371 CTTGCTCCACTGCAACTTCAGGGAG-ATAAGATTTGTAG
59 C-CAATCCACTGCAACTTCAGGG-GTATAGGATTTGTAG
* * * * * *
61697409 CTTCAATC-TACTCTACTGCAATTTCAGGGAGATAAGATTCGCTATAGTAAAATTCAATCCAACC
1 CTTCAATCTTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGT-AAATTCAATCCAATC
* * * *
61697473 CACTACAACTTTAGGGGTATAGGAATTGTGG
65 CACTGCAACTTCAGGGGTATAGGATTTGTAG
61697504 CTTCA
1 CTTCA
61697509 CTGATCTGTT
Statistics
Matches: 358, Mismatches: 85, Indels: 60
0.71 0.17 0.12
Matches are distributed among these distances:
88 7 0.02
89 1 0.00
90 3 0.01
91 3 0.01
92 72 0.20
93 74 0.21
94 132 0.37
95 45 0.13
96 7 0.02
97 2 0.01
98 3 0.01
99 1 0.00
100 8 0.02
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (95 bp):
CTTCAATCTTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATGGTAAATTCAATCCAATCC
ACTGCAACTTCAGGGGTATAGGATTTGTAG
Found at i:61697427 original size:44 final size:44
Alignment explanation
Indices: 61697100--61697447 Score: 181
Period size: 44 Copynumber: 7.5 Consensus size: 44
61697090 TTCTGACCTG
* *
61697100 CTGCAACTTCAGGG-G-TAGGATTTGTAGCTTCAATCTTCTCCA
1 CTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTACTCCA
* * * *
61697142 CTACAACTTCAGGGAGATAAGATTTACTATGGTAGATTCAATCCAATCCA
1 CTGCAACTTCAGGGAGATAAGA--T--T-T-GTAGCTTCAATCTACTCCA
* * * * * * *
61697192 CTGTAATTTTAGGG-GTTCAGGATTTGTAGCTTCAATTTGCTCCA
1 CTGCAACTTCAGGGAGAT-AAGATTTGTAGCTTCAATCTACTCCA
* * *
61697236 CTGCAACTTCAGGGAGATAAGATTCGCTCTAACAAATTCAATCCAAC-CCA
1 CTGCAACTTCAGGGAGATAAGATT---TGTAGC---TTCAAT-CTACTCCA
* * * *
61697286 CTGTAACTTCAGGG-GTATAGGATTTGTAGTTGTAGCTTCATTCCGACT-CA
1 CTGCAACTTCAGGGAG-ATA--A---G-ATTTGTAGCTTCAAT-CTACTCCA
* * * * *
61697336 TTGCAACTTCAAGGATATATG-TATTGTAGCTTC-ATCTTGCTCCA
1 CTGCAACTTCAGGGAGATAAGAT-TTGTAGCTTCAATC-TACTCCA
*
61697380 CTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTACTCTA
1 CTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTACTCCA
*
61697424 CTGCAATTTCAGGGAGATAAGATT
1 CTGCAACTTCAGGGAGATAAGATT
61697448 CGCTATAGTA
Statistics
Matches: 226, Mismatches: 49, Indels: 60
0.67 0.15 0.18
Matches are distributed among these distances:
42 14 0.06
43 4 0.02
44 101 0.45
45 8 0.04
46 2 0.01
47 4 0.02
48 2 0.01
49 4 0.02
50 78 0.35
51 1 0.00
52 1 0.00
53 4 0.02
55 1 0.00
56 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTACTCCA
Found at i:61697981 original size:13 final size:13
Alignment explanation
Indices: 61697963--61697987 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61697953 CCAACCACAC
61697963 ACCCGTGTGACCA
1 ACCCGTGTGACCA
61697976 ACCCGTGTGACC
1 ACCCGTGTGACC
61697988 TTTGAAATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACCCGTGTGACCA
Found at i:61698753 original size:40 final size:40
Alignment explanation
Indices: 61698688--61698809 Score: 156
Period size: 40 Copynumber: 3.0 Consensus size: 40
61698678 TTTGGATAAT
61698688 AAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTAAAA
1 AAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTAAAA
* * * *
61698728 AAACGTCGCTAAAGATCTAGTATTAGCGGCGCTTTTTAAAA
1 AAACGCCGCTAAAAATCAAGCATTAGCGGCGC-TTTTAAAA
* * * *
61698769 AAACGCCGCAAAAAAT-GAGCATTAGCGGCGTTTTTCAAA
1 AAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTAAAA
61698808 AA
1 AA
61698810 GTGCCACAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
39 9 0.13
40 40 0.57
41 21 0.30
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (40 bp):
AAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTAAAA
Found at i:61699292 original size:7 final size:7
Alignment explanation
Indices: 61699281--61699312 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
61699271 GCTGCTACAC
*
61699281 TGCTCTC
1 TGCTCTT
61699288 TGCTCTT
1 TGCTCTT
61699295 TGCTCTT
1 TGCTCTT
61699302 TGCTCTT
1 TGCTCTT
61699309 TGCT
1 TGCT
61699313 GGTTCCCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.31, G:0.16, T:0.53
Consensus pattern (7 bp):
TGCTCTT
Found at i:61701478 original size:15 final size:14
Alignment explanation
Indices: 61701455--61701486 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
61701445 TCTTCACAAT
61701455 TTTCTGCCTGCTTA
1 TTTCTGCCTGCTTA
61701469 TTTCTCGCCTGCTTA
1 TTTCT-GCCTGCTTA
61701484 TTT
1 TTT
61701487 TATTACAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.06, C:0.28, G:0.12, T:0.53
Consensus pattern (14 bp):
TTTCTGCCTGCTTA
Found at i:61702980 original size:72 final size:72
Alignment explanation
Indices: 61702860--61703016 Score: 201
Period size: 72 Copynumber: 2.2 Consensus size: 72
61702850 TGTTTTTATC
* * * * *
61702860 AATAGTTATTTATGTTTAGTTTTTGGATATTGAATTTATGTTCTACTTAGTTATGT-GT-AATCT
1 AATAGTTGTTTATGTTTAGTCTTTAGATATTGAATTTATGTTCCACTTA-TTATGTACTAAAT-T
61702923 AGTTTAATT
64 AGTTTAATT
* * *
61702932 AATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCCACTTATTTTTTACTAAATTAG
1 AATAGTTGTTTATGTTTAGTCTTTAGATATTGAATTTATGTTCCACTTATTATGTACTAAATTAG
*
61702997 TTTTATT
66 TTTAATT
61703004 AATAGTTGTTTAT
1 AATAGTTGTTTAT
61703017 ATGTGATTTT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
71 4 0.05
72 67 0.91
73 3 0.04
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.55
Consensus pattern (72 bp):
AATAGTTGTTTATGTTTAGTCTTTAGATATTGAATTTATGTTCCACTTATTATGTACTAAATTAG
TTTAATT
Found at i:61707557 original size:21 final size:21
Alignment explanation
Indices: 61707505--61707558 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
61707495 TTGTAATCCT
61707505 TAAACCTCAAAAACCAAACCC
1 TAAACCTCAAAAACCAAACCC
* * **
61707526 CAGA-CTCCAAATTCCAAACCC
1 TAAACCT-CAAAAACCAAACCC
61707547 TAAACCTCAAAA
1 TAAACCTCAAAA
61707559 CCCCGAATAG
Statistics
Matches: 24, Mismatches: 7, Indels: 4
0.69 0.20 0.11
Matches are distributed among these distances:
20 2 0.08
21 20 0.83
22 2 0.08
ACGTcount: A:0.48, C:0.37, G:0.02, T:0.13
Consensus pattern (21 bp):
TAAACCTCAAAAACCAAACCC
Found at i:61708486 original size:18 final size:18
Alignment explanation
Indices: 61708463--61708498 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
61708453 ATTGAATTTT
61708463 AATT-AATATAAATAAACA
1 AATTAAATATAAA-AAACA
61708481 AATTAAATATAAAAAACA
1 AATTAAATATAAAAAACA
61708499 TATAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
AATTAAATATAAAAAACA
Found at i:61708506 original size:18 final size:19
Alignment explanation
Indices: 61708467--61708507 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
61708457 AATTTTAATT
*
61708467 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
*
61708486 AATATAAA-AAACATATAA
1 AATATAAATAAACAAATAA
61708504 AATA
1 AATA
61708508 ATTTTGTGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:61708760 original size:114 final size:113
Alignment explanation
Indices: 61708642--61709125 Score: 430
Period size: 114 Copynumber: 4.2 Consensus size: 113
61708632 TTTCCCATGT
* * *
61708642 GCGCCACTAATTCTAGTATACATCAAGAACTAAACGCTGTGTTTTGGTTAAGATACTTTGCGGCG
1 GCGCCACTAATTCTAATATACATCAAGAACCAAACGCTGCGTTTTGGTTAAGATA-TTTGCGGCG
* *
61708707 CGTTACAC-AAACGCTGCTAATAATATACTTTAGCGGCGTTT-TTCATCAA
65 C-TTACACTAAACGCCGCTAATAATATACATTAGCGGCGTTTCTTCAT-AA
* * *
61708756 GCGCCACTAATTCTAATACTTC-TCAAG-ACCAAACTCTGCGTTTTGGTTAAGATATTTGGAGGC
1 GCGCCACTAATTCTAATA-TACATCAAGAACCAAACGCTGCGTTTTGGTTAAGATATTT-GCGGC
* * * * * *
61708819 GCTTACCACCAAACGCTGCT-ATAACTATCCTTTA-CTGGCGTTT-TCCTTAA
64 GCTTA-CACTAAACGCCGCTAATAA-TATACATTAGC-GGCGTTTCTTCATAA
* * * * * *
61708869 ACGCCACTAATTATAGTATACATCAAG-ACCAAAACGGTGCGTTTTGATTAAGATATCTTGTGGC
1 GCGCCACTAATTCTAATATACATCAAGAACC-AAACGCTGCGTTTTGGTTAAGATAT-TTGCGGC
* * ** * *
61708933 GTTTAACGCTATGCGCCGCTAATACTATACATTAGCGGCGTTTTCTTTATAA
64 GCTT-ACACTAAACGCCGCTAATAATATACATTAGCGGCG-TTTCTTCATAA
* * * *
61708985 GCGCCACTAATTGC-AATATACATCAAG-ACCAAACTCTGCGTTTTAGTTAACATCTTTTGCGGC
1 GCGCCACTAATT-CTAATATACATCAAGAACCAAACGCTGCGTTTTGGTTAAGAT-ATTTGCGGC
* * * * * *
61709048 GCTTCCGCTAAGCGCCGCTAATACTATACATTACCGGCGTTTGTTCATAA
64 GCTTACACTAAACGCCGCTAATAATATACATTAGCGGCGTTTCTTCATAA
* *
61709098 GCGCCACTAATGCCAATATACATCAAGA
1 GCGCCACTAATTCTAATATACATCAAGA
61709126 CCAGAACTGA
Statistics
Matches: 306, Mismatches: 46, Indels: 36
0.79 0.12 0.09
Matches are distributed among these distances:
112 9 0.03
113 96 0.31
114 131 0.43
115 39 0.13
116 31 0.10
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (113 bp):
GCGCCACTAATTCTAATATACATCAAGAACCAAACGCTGCGTTTTGGTTAAGATATTTGCGGCGC
TTACACTAAACGCCGCTAATAATATACATTAGCGGCGTTTCTTCATAA
Found at i:61709105 original size:229 final size:227
Alignment explanation
Indices: 61708642--61709128 Score: 538
Period size: 229 Copynumber: 2.1 Consensus size: 227
61708632 TTTCCCATGT
* * * *
61708642 GCGCCACTAATTCTAGTATACATCAAGAACTAAACGCTGTGTTTTGGTTAAGATACTTTGCGGCG
1 GCGCCACTAATTCTAGTATACATCAAGACCAAAACGCTGCGTTTTGATTAAGATACTTTGCGGCG
* *
61708707 CGTTACACAAACGCTGCTAATAATATACTTTAGCGGCGTTTTTCATCAAGCGCCACTAATTCTAA
66 CGTTACACAAACGCCGCTAATAATATACATTAGCGGCGTTTTTCATCAAGCGCCACTAATTCTAA
* * * *
61708772 TACTTCTCAAGACCAAACTCTGCGTTTTGGTTAAGATATTTGGAGGCGCTTACCACCAAACGCTG
131 TACTACTCAAGACCAAACTCTGCGTTTTAGTTAACATATTTGGAGGCGCTTACCACCAAACGCCG
* * * *
61708837 CTATAACTATCCTTTACTGGCGTTTTCCTTAA
196 CTATAACTATACATTACCGGCGTTTTCCATAA
* * * *
61708869 ACGCCACTAATTATAGTATACATCAAGACCAAAACGGTGCGTTTTGATTAAGATA-TCTTGTGGC
1 GCGCCACTAATTCTAGTATACATCAAGACCAAAACGCTGCGTTTTGATTAAGATACT-TTGCGGC
* * ** * *
61708933 G-TTTAACGCTATGCGCCGCTAATACTATACATTAGCGGCGTTTTCTTTAT-AAGCGCCACTAAT
65 GCGTT-ACAC-AAACGCCGCTAATAATATACATTAGCGGCG-TTT-TTCATCAAGCGCCACTAAT
* * * * *
61708996 TGC-AATA-TACATCAAGACCAAACTCTGCGTTTTAGTTAACATCTTTTGCGGCGCTT-CCGCTA
126 T-CTAATACTAC-TCAAGACCAAACTCTGCGTTTTAGTTAACATATTTGGAGGCGCTTACCACCA
* *
61709058 AGCGCCGCTA-ATACTATACATTACCGGCGTTTGTTCATAA
189 AACGCCGCTATA-ACTATACATTACCGGCGTTT-TCCATAA
* * *
61709098 GCGCCACTAATGCCAATATACATCAAGACCA
1 GCGCCACTAATTCTAGTATACATCAAGACCA
61709129 GAACTGATAC
Statistics
Matches: 215, Mismatches: 36, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
226 3 0.01
227 59 0.27
228 56 0.26
229 92 0.43
230 5 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (227 bp):
GCGCCACTAATTCTAGTATACATCAAGACCAAAACGCTGCGTTTTGATTAAGATACTTTGCGGCG
CGTTACACAAACGCCGCTAATAATATACATTAGCGGCGTTTTTCATCAAGCGCCACTAATTCTAA
TACTACTCAAGACCAAACTCTGCGTTTTAGTTAACATATTTGGAGGCGCTTACCACCAAACGCCG
CTATAACTATACATTACCGGCGTTTTCCATAA
Found at i:61722695 original size:16 final size:16
Alignment explanation
Indices: 61722662--61722695 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61722652 TGTTCTTGTT
* *
61722662 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
61722678 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
61722694 AA
1 AA
61722696 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:61725496 original size:21 final size:21
Alignment explanation
Indices: 61725470--61725510 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61725460 AGACGAGCAA
* *
61725470 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
61725491 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
61725511 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:61727448 original size:16 final size:16
Alignment explanation
Indices: 61727415--61727448 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
61727405 GGAGATTGTT
* *
61727415 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
61727431 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
61727447 AA
1 AA
61727449 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:61730972 original size:22 final size:20
Alignment explanation
Indices: 61730944--61730984 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
61730934 ATTAGTTTTA
61730944 ATTTTATGATATAAAAATAAAT
1 ATTTTAT-AT-TAAAAATAAAT
*
61730966 ATTTTATATTTAAAATAAA
1 ATTTTATATTAAAAATAAA
61730985 GAAAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
ATTTTATATTAAAAATAAAT
Found at i:61732331 original size:16 final size:16
Alignment explanation
Indices: 61732310--61732340 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61732300 GAACATTAGC
61732310 CCACTCCAATGCGTAG
1 CCACTCCAATGCGTAG
*
61732326 CCACTCGAATGCGTA
1 CCACTCCAATGCGTA
61732341 ACGGTAACGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.19
Consensus pattern (16 bp):
CCACTCCAATGCGTAG
Found at i:61735211 original size:21 final size:21
Alignment explanation
Indices: 61735179--61735219 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
61735169 AGGCTCGAGG
61735179 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
61735200 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
61735220 CCAATTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:61739703 original size:21 final size:21
Alignment explanation
Indices: 61739671--61739711 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
61739661 AGGCTCGAGG
61739671 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
61739692 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
61739712 CCAATTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:61746668 original size:48 final size:48
Alignment explanation
Indices: 61746613--61746709 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
61746603 AATTCATTTA
61746613 TAACCTTGACCTAATTTTCAATCAAATTATGTCCTCCTTCACAACCTT
1 TAACCTTGACCTAATTTTCAATCAAATTATGTCCTCCTTCACAACCTT
*
61746661 TAACCTTGACCTAATTTTCAATCAAATTATGTCCTTCTTCACAACCTT
1 TAACCTTGACCTAATTTTCAATCAAATTATGTCCTCCTTCACAACCTT
61746709 T
1 T
61746710 TAGCTTCACA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.29, C:0.28, G:0.04, T:0.39
Consensus pattern (48 bp):
TAACCTTGACCTAATTTTCAATCAAATTATGTCCTCCTTCACAACCTT
Found at i:61748966 original size:22 final size:22
Alignment explanation
Indices: 61748941--61748982 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
61748931 CTCAGGCTTC
61748941 ACCTAATTACTTCAAATATGCT
1 ACCTAATTACTTCAAATATGCT
* *
61748963 ACCTACTTAGTTCAAATATG
1 ACCTAATTACTTCAAATATG
61748983 ACTAAGTTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (22 bp):
ACCTAATTACTTCAAATATGCT
Found at i:61753281 original size:7 final size:7
Alignment explanation
Indices: 61753269--61753333 Score: 53
Period size: 7 Copynumber: 8.9 Consensus size: 7
61753259 CAACCCAATT
61753269 TTTATTA
1 TTTATTA
61753276 TTTATTA
1 TTTATTA
61753283 TTTATTA
1 TTTATTA
* *
61753290 TTATTTTTC
1 -T-TTATTA
61753299 TTTACTTTA
1 TTTA--TTA
61753308 TTTATTA
1 TTTATTA
61753315 CTTTA-T-
1 -TTTATTA
61753321 TTTATTA
1 TTTATTA
61753328 TTTATT
1 TTTATT
61753334 TCTTATTTGG
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
5 4 0.09
6 1 0.02
7 26 0.55
8 6 0.13
9 10 0.21
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:61753292 original size:17 final size:17
Alignment explanation
Indices: 61753266--61753333 Score: 70
Period size: 16 Copynumber: 4.0 Consensus size: 17
61753256 AGGCAACCCA
61753266 ATTT-TTATTATTTATT
1 ATTTATTATTATTTATT
61753282 ATTTATTATTATTT-TT
1 ATTTATTATTATTTATT
* *
61753298 CTTTACT-TTATTTATT
1 ATTTATTATTATTTATT
61753314 ACTTTATTTTATTATTTATT
1 A-TTTA--TTATTATTTATT
61753334 TCTTATTTGG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
15 6 0.14
16 13 0.31
17 13 0.31
19 1 0.02
20 9 0.21
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTATTATTATTTATT
Found at i:61756657 original size:17 final size:17
Alignment explanation
Indices: 61756635--61756676 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
61756625 GGCCCGAGGT
* *
61756635 GGCCCAAACCCAACTGA
1 GGCCCAAACCAAACAGA
61756652 GGCCCAAACCAAACAGA
1 GGCCCAAACCAAACAGA
*
61756669 AGCCCAAA
1 GGCCCAAA
61756677 GTAGATTTGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.43, C:0.38, G:0.17, T:0.02
Consensus pattern (17 bp):
GGCCCAAACCAAACAGA
Found at i:61758519 original size:98 final size:98
Alignment explanation
Indices: 61758412--61758608 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
61758402 TTTAAAATGA
* *
61758412 TAAAGGAAATATTCCAAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
61758477 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* * *
61758510 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAATGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
61758575 TTAAATCTTGGATAAGTGTATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
61758608 T
1 T
61758609 TTTATTGTAC
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCAAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:61764865 original size:18 final size:18
Alignment explanation
Indices: 61764842--61764934 Score: 125
Period size: 18 Copynumber: 5.2 Consensus size: 18
61764832 CCCAACTACT
*
61764842 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
61764860 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
61764878 AT-TAACGTGAATAGTACC
1 GTAT-ACGTGAATAGTACC
* * *
61764896 GTACATGTGAATAGTGCC
1 GTATACGTGAATAGTACC
61764914 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
61764932 GTA
1 GTA
61764935 AACGATCGTA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
17 1 0.02
18 63 0.98
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:61770078 original size:24 final size:23
Alignment explanation
Indices: 61770028--61770080 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 23
61770018 TAATTTTTTT
*
61770028 TATATTTTTTAATTAATTAAATAA
1 TATATTTTTTAATT-ATCAAATAA
61770052 TATATTTTTATAATT-TCAAATATA
1 TATATTTTT-TAATTATCAAATA-A
61770076 TATAT
1 TATAT
61770081 GTGCTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 6 0.23
24 15 0.58
25 5 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TATATTTTTTAATTATCAAATAA
Found at i:61781281 original size:953 final size:958
Alignment explanation
Indices: 61779416--61781724 Score: 3761
Period size: 953 Copynumber: 2.4 Consensus size: 958
61779406 TGTTGTTCAG
*
61779416 CTTGTATGCATGCTACAACAATTGTGCATGTTGCAGCAACATAT-TTTCTGTTTTAGTTGCAATT
1 CTTGTATGCATGCTACAACAATTGTGCATGTTGCAGCAACATATGTTT-TGTTTTAGTTGCAATG
* *
61779480 TAATTTAGCTTGGTTGAAAATGAACTTAGTTGTTGATGTTTTGATGGGTTTAGGTGATGATTGAG
65 TAATTTAGTTTGGTTGAAAATGAACTTAGTTGTTGATGTTTTGATGGGTTTAGGTGATGATTGAA
* * * * *
61779545 CTGATAAGTCAGCTTATTCATGTGTACAAGCAATGTTTTAGTATTCCTAATGCTAATTAGTGGGA
130 CTGATAAGTCAGCTTATTCTTGTGTACAAGCAATGTTTTAATAGTCCCAATGCTGATTAGTGGGA
* *
61779610 TTACTTGAATATTTGGTGATGTATTTTGATTATAAATGTATTGTTTTCATACTGAATGAGAAAGC
195 TTAGTTGAATATTTGGTGATGTATTTTGATTATAAATGTATTGTTTTCATATTGAATGAGAAAGC
* * * *
61779675 ATATCAGTTGTGTAAAGTAGATTGCTTCCTTAATGTACATTTGTGAGCAACTAAATTATGTCAAG
260 ATATCAGTTGTGTAAAGCAGATTGCTTCCTTGATGCACATTTGTGAGCAAGTAAATTATGTCAAG
* *
61779740 CTTCTTGCTCCTTTGTTCTTTGTCTTGTTCTCTTCTTTTGCTGTCGTCAAAACCCAACAAATTGT
325 CTTCTTGCTCCTTTGTTCTCTGTCTTGTTCTCTTCTTTTGCTGTTGTCAAAACCCAACAAATTGT
61779805 ATCATGAGCCCAAGTCTTTAAAGGTTTGTTTTTTTGCTTCTGTTGCTTGTTAAGAAAGACAAGAA
390 ATCATGAGCCCAAGTC--------------TTTTTGCTTCTGTTGCTTGTTAAGAAAGACAAGAA
* * *
61779870 GCTGTTAAAGCTTGTCAACTTTAAAGGTTGTTTGTAAAAGATAGAGCAACAACTCACCCCTGTGA
441 GCTGTTAAAGCTTGTCAACTTTAAAGGCTGCTTGTAAAAGAGAGAGCAACAACTCACCCCTGTGA
*
61779935 GACTCCTAAACAAGCTTGGGATAAGCTGAAGGAGGAGTTGATGGGGTATGTGCATGAAGACACTC
506 GACTCCTAAACAAGCTTGAGATAAGCTGAAGGAGGAGTTGATGGGGTATGTGCATGAAGACACTC
* * *
61780000 CACAACAGGAGGGAGTATGTGCAAGAAGAAACAGGACTATAATGAGCAAAGAAACAAGGTAAGAT
571 CACAACAGGAGGGAGTATGTGCAAAAAGAAACAGGACTATAATGAACAAAGAAACAAGGCAAGAT
* *
61780065 GTGTTTGAAGGCAAGTTGCCAACTAAGGCTGTGAAGGAGGAGAAGACTCCATTTGATGAACAACT
636 GTGTTTGAAGGCAAGTTGCCAACCAAGGCTGTGAAGGAGGAGAAGACTCCATTTGATGAACAAAT
61780130 CTTTGGCACAAAAGAATGGGATAATCAAGTGTGTAAGTCATATTTGGTTGAGAATAAAGACAAGG
701 CTTTGGCACAAAAGAATGGGATAATCAAGTGTGTAAGTCATATTTGGTTGAGAATAAAGACAAGG
* *
61780195 TTGAAAATGAATTGCTTGAGTAGAGTCAACTTGAAATAAAGCATCTAAGGATTGCCAAGCTAAAA
766 TTGAAAATGAATTGCTTGAGCAGAGTCAACTTGAAATAAAGCATCTAAGGACTGCCAAGCTAAAA
* * * *
61780260 AATACTTGATGAATGATTGGTATTTTCAACATGGAGGCCAAGGAGGAGTGTTGAAAATGGCCAAC
831 AAAACTTGATGAATGATTGGTATCTTCAACATGGAGGCCAAGGAGGACTGTTGAAAATGACCAAC
* **
61780325 CATGCTGCTATTATATTTT-GTTAAAATGCACGTTGTTATGATGATTTTGTTGAGTGCATACAA
896 CATGCTACTATTAT-TTTTGGTTAAAATGCACACTGTTATGATGATTTTGTTGAGTGCATACAA
* *
61780388 CTTGTATGCATGCTACAATAATTGTGCATGTTGCAGTAACATATGTTTTGTTTTAGTTGCAATGT
1 CTTGTATGCATGCTACAACAATTGTGCATGTTGCAGCAACATATGTTTTGTTTTAGTTGCAATGT
*
61780453 AATTTATTTTGGTTGAAAATGAACTTAGTTGTTGATGTTTTGATGGGTTTAGGTGATGATTGAAC
66 AATTTAGTTTGGTTGAAAATGAACTTAGTTGTTGATGTTTTGATGGGTTTAGGTGATGATTGAAC
*
61780518 TGATAAGTCAGCTTATTCTTGTGTACAAGCAATGTTTTAATAGTCCCAATGCTGACTAGTGGGAT
131 TGATAAGTCAGCTTATTCTTGTGTACAAGCAATGTTTTAATAGTCCCAATGCTGATTAGTGGGAT
** *
61780583 TAGTTGAATATTTGGTGATGTATTTTGATTATAAATGTGCTATTTTCATATTGAATGAGAAAGCA
196 TAGTTGAATATTTGGTGATGTATTTTGATTATAAATGTATTGTTTTCATATTGAATGAGAAAGCA
*
61780648 TATCAGTTGTGTAAAGCAGATTAG-TTTCTTGATGCACATTTGTGAGCAAGTAAATTATGTCAAG
261 TATCAGTTGTGTAAAGCAGATT-GCTTCCTTGATGCACATTTGTGAGCAAGTAAATTATGTCAAG
*
61780712 CTTCTTACTCCTTTGTTCTCTGTCTTGTTCTCTTCTTTTGCTGTTGTCAAAACCCAACAAATTGT
325 CTTCTTGCTCCTTTGTTCTCTGTCTTGTTCTCTTCTTTTGCTGTTGTCAAAACCCAACAAATTGT
61780777 ATCATGAGCCCAAGTC-TTTT-CTT-T-TT-CTTGTTAAGAAAGACAAGAAGCTGTTAAAGCTTG
390 ATCATGAGCCCAAGTCTTTTTGCTTCTGTTGCTTGTTAAGAAAGACAAGAAGCTGTTAAAGCTTG
* * * *
61780837 TCATCTTTGAGGGCTGCTTGTAAAAGAGAGAGCAACAGCTCACCCCTGTGAGACTCCTAAACAAG
455 TCAACTTTAAAGGCTGCTTGTAAAAGAGAGAGCAACAACTCACCCCTGTGAGACTCCTAAACAAG
* *
61780902 CTTGAGATAAGCTGAAGGAGGAGTTGATGGGGTATGTGCATGAAGACACTCCACAGCGGGAGGGA
520 CTTGAGATAAGCTGAAGGAGGAGTTGATGGGGTATGTGCATGAAGACACTCCACAACAGGAGGGA
* *
61780967 GTATGTGCAAAAAGAAACATGACTGTAATGAACAAAGAAACAAGGCAAGATGTGTTTGAAGGCAA
585 GTATGTGCAAAAAGAAACAGGACTATAATGAACAAAGAAACAAGGCAAGATGTGTTTGAAGGCAA
61781032 GTTGCCAACCAAGGCTGTGAAGGAGGAGAAGACTCCATTTGATGAACAAATCTTTGGCACAAAAG
650 GTTGCCAACCAAGGCTGTGAAGGAGGAGAAGACTCCATTTGATGAACAAATCTTTGGCACAAAAG
*
61781097 AATGGGATAATCAAGTGTGTAAGTCATATTTGGTTGAGAATGAAGACAAGGTTGAAAATGAATTG
715 AATGGGATAATCAAGTGTGTAAGTCATATTTGGTTGAGAATAAAGACAAGGTTGAAAATGAATTG
* * *
61781162 CTTGAGCAGAGTCAGCTTGAAATAAAGCATCTAGGGACTGCCAAGCTAAAAAAAACTTGATGGAT
780 CTTGAGCAGAGTCAACTTGAAATAAAGCATCTAAGGACTGCCAAGCTAAAAAAAACTTGATGAAT
* *
61781227 GATTGGTATCTTCAACATGGAGGCCAAGGAGGACTGTTGAAAATGACCAACCATGTTACTGTTAT
845 GATTGGTATCTTCAACATGGAGGCCAAGGAGGACTGTTGAAAATGACCAACCATGCTACTATTAT
* * * *
61781292 TTTTGGTTAAAGTGCATACTGTTATGATGATTTTGTTGAGTGCATATAG
910 TTTTGGTTAAAATGCACACTGTTATGATGATTTTGTTGAGTGCATACAA
* * * *
61781341 CTTGTATGCATGCTACAGCAATTGTGCATGTTGTAGCAACATATGTTCTATTTTAGTTGCAATGT
1 CTTGTATGCATGCTACAACAATTGTGCATGTTGCAGCAACATATGTTTTGTTTTAGTTGCAATGT
* *
61781406 AATTTAGTTTGGTTGAAAATGAACTTAATTGTTGATGTTTTGATGGGTTTAAGTGATGATTGAAC
66 AATTTAGTTTGGTTGAAAATGAACTTAGTTGTTGATGTTTTGATGGGTTTAGGTGATGATTGAAC
61781471 TGATAAGTCAGCTTATTCTTGTGTACAAGCAATGTTTTAATAGTCCCAATGCTGATTAGTGGGAT
131 TGATAAGTCAGCTTATTCTTGTGTACAAGCAATGTTTTAATAGTCCCAATGCTGATTAGTGGGAT
*
61781536 TAGTTGAATATTTGGTGATGTATTTTGATTATAAATGTATTGTTTCCATATTGAATGAGAAAGCA
196 TAGTTGAATATTTGGTGATGTATTTTGATTATAAATGTATTGTTTTCATATTGAATGAGAAAGCA
*
61781601 TATTAGTTGTGTAAAGCAGATTGCTTCCTTGATGCACATTTGTGAGCAAGTAAATTATGTCAAGC
261 TATCAGTTGTGTAAAGCAGATTGCTTCCTTGATGCACATTTGTGAGCAAGTAAATTATGTCAAGC
**
61781666 TTCTTGCTCCTTTGTTCTCTGTCTTGTTCTCTTCTTTTTTTGTTGTCAAAACCCCAACA
326 TTCTTGCTCCTTTGTTCTCTGTCTTGTTCTCTTCTTTTGCTGTTGTCAAAA-CCCAACA
61781725 CGTATCCAAG
Statistics
Matches: 1252, Mismatches: 80, Indels: 28
0.92 0.06 0.02
Matches are distributed among these distances:
952 5 0.00
953 852 0.68
954 9 0.01
955 1 0.00
956 3 0.00
957 4 0.00
972 374 0.30
973 4 0.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.34
Consensus pattern (958 bp):
CTTGTATGCATGCTACAACAATTGTGCATGTTGCAGCAACATATGTTTTGTTTTAGTTGCAATGT
AATTTAGTTTGGTTGAAAATGAACTTAGTTGTTGATGTTTTGATGGGTTTAGGTGATGATTGAAC
TGATAAGTCAGCTTATTCTTGTGTACAAGCAATGTTTTAATAGTCCCAATGCTGATTAGTGGGAT
TAGTTGAATATTTGGTGATGTATTTTGATTATAAATGTATTGTTTTCATATTGAATGAGAAAGCA
TATCAGTTGTGTAAAGCAGATTGCTTCCTTGATGCACATTTGTGAGCAAGTAAATTATGTCAAGC
TTCTTGCTCCTTTGTTCTCTGTCTTGTTCTCTTCTTTTGCTGTTGTCAAAACCCAACAAATTGTA
TCATGAGCCCAAGTCTTTTTGCTTCTGTTGCTTGTTAAGAAAGACAAGAAGCTGTTAAAGCTTGT
CAACTTTAAAGGCTGCTTGTAAAAGAGAGAGCAACAACTCACCCCTGTGAGACTCCTAAACAAGC
TTGAGATAAGCTGAAGGAGGAGTTGATGGGGTATGTGCATGAAGACACTCCACAACAGGAGGGAG
TATGTGCAAAAAGAAACAGGACTATAATGAACAAAGAAACAAGGCAAGATGTGTTTGAAGGCAAG
TTGCCAACCAAGGCTGTGAAGGAGGAGAAGACTCCATTTGATGAACAAATCTTTGGCACAAAAGA
ATGGGATAATCAAGTGTGTAAGTCATATTTGGTTGAGAATAAAGACAAGGTTGAAAATGAATTGC
TTGAGCAGAGTCAACTTGAAATAAAGCATCTAAGGACTGCCAAGCTAAAAAAAACTTGATGAATG
ATTGGTATCTTCAACATGGAGGCCAAGGAGGACTGTTGAAAATGACCAACCATGCTACTATTATT
TTTGGTTAAAATGCACACTGTTATGATGATTTTGTTGAGTGCATACAA
Found at i:61786876 original size:56 final size:55
Alignment explanation
Indices: 61786792--61786957 Score: 271
Period size: 56 Copynumber: 3.0 Consensus size: 55
61786782 GATTATCCTT
*
61786792 TAAGAAT-TCATGGGTTAGTAATGGTTGATGCAGCAAACTCTTTTCATAAATTAA
1 TAAGAATCTCATGGGTTAGTAATGGTTGATGCAACAAACTCTTTTCATAAATTAA
*
61786846 TAAGAATCCTCATGGGTTAGTAATGGTTGATGTAACAAACTCTTTTCATAAATTAA
1 TAAGAAT-CTCATGGGTTAGTAATGGTTGATGCAACAAACTCTTTTCATAAATTAA
* *
61786902 TAAAGATTCTCATGGGTTAGTAATGGTTGATGCAACCAACTCTTTTCATAAATTAA
1 T-AAGAATCTCATGGGTTAGTAATGGTTGATGCAACAAACTCTTTTCATAAATTAA
61786958 AGATTGAATT
Statistics
Matches: 104, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
54 7 0.07
56 92 0.88
57 5 0.05
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.36
Consensus pattern (55 bp):
TAAGAATCTCATGGGTTAGTAATGGTTGATGCAACAAACTCTTTTCATAAATTAA
Found at i:61789284 original size:20 final size:21
Alignment explanation
Indices: 61789234--61789292 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
61789224 AAAAGAGAAA
61789234 GAAAAACTTGGGATTTTATAGG
1 GAAAAACTTGGG-TTTTATAGG
**
61789256 GAATTACTTGGGTTTTATA-G
1 GAAAAACTTGGGTTTTATAGG
*
61789276 GAAAAACTTGAGTTTTA
1 GAAAAACTTGGGTTTTA
61789293 CAAGAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 15 0.47
21 7 0.22
22 10 0.31
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (21 bp):
GAAAAACTTGGGTTTTATAGG
Found at i:61789299 original size:20 final size:20
Alignment explanation
Indices: 61789261--61789300 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
61789251 ATAGGGAATT
* * *
61789261 ACTTGGGTTTTATAGGAAAA
1 ACTTGAGTTTTACAAGAAAA
61789281 ACTTGAGTTTTACAAGAAAA
1 ACTTGAGTTTTACAAGAAAA
61789301 TTCAATTTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (20 bp):
ACTTGAGTTTTACAAGAAAA
Found at i:61797096 original size:20 final size:20
Alignment explanation
Indices: 61797060--61797097 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
61797050 GTGGGGGTCA
*
61797060 ACATGCCCATATGGAATGGT
1 ACATGCCCATATAGAATGGT
*
61797080 ACATGCCCATGTAGAATG
1 ACATGCCCATATAGAATG
61797098 AGGCACACGC
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:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
ACATGCCCATATAGAATGGT
Found at i:61800366 original size:22 final size:21
Alignment explanation
Indices: 61800333--61800379 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
61800323 ACGCCCATAT
*
61800333 GAAGGGGCACACGCCCGTGTG
1 GAAGGGGCACACACCCGTGTG
*
61800354 GAAGGAGGCACACACCCTTGTG
1 GAAGG-GGCACACACCCGTGTG
61800376 GAAG
1 GAAG
61800380 AAGGTACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.26, C:0.26, G:0.38, T:0.11
Consensus pattern (21 bp):
GAAGGGGCACACACCCGTGTG
Found at i:61800396 original size:21 final size:22
Alignment explanation
Indices: 61800338--61800396 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
61800328 CATATGAAGG
* * *
61800338 GGCACACGCCCGTGTGGAAGGA
1 GGCACACACCCATGTGGAAGAA
*
61800360 GGCACACACCCTTGTGGAAGAA
1 GGCACACACCCATGTGGAAGAA
*
61800382 GGTACA-ACCCATGTG
1 GGCACACACCCATGTG
61800397 ACCCAGGGAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.27, C:0.27, G:0.32, T:0.14
Consensus pattern (22 bp):
GGCACACACCCATGTGGAAGAA
Found at i:61803059 original size:15 final size:15
Alignment explanation
Indices: 61803039--61803070 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
61803029 CACAAACAAA
61803039 TTCTAAAATTTTTTC
1 TTCTAAAATTTTTTC
61803054 TTCTAAAATTTTTTC
1 TTCTAAAATTTTTTC
61803069 TT
1 TT
61803071 TCCTTCCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (15 bp):
TTCTAAAATTTTTTC
Found at i:61804562 original size:21 final size:22
Alignment explanation
Indices: 61804506--61804562 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
61804496 GGAATCTTAT
* *
61804506 ATATGATGTGTAAATATTAGAAT
1 ATATGATTTGT-AATATTAGAAG
*
61804529 ATATGATTTTGTAATCTTAG-AG
1 ATATGA-TTTGTAATATTAGAAG
61804551 ATATGATTTGTA
1 ATATGATTTGTA
61804563 GATAAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 6 0.20
22 7 0.23
23 13 0.43
24 4 0.13
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.44
Consensus pattern (22 bp):
ATATGATTTGTAATATTAGAAG
Found at i:61806916 original size:18 final size:17
Alignment explanation
Indices: 61806895--61806928 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
61806885 TTTTTTTAAT
*
61806895 AATAATAATTTTGTTATA
1 AATAAT-ATTTTATTATA
61806913 AATAATATTTTATTAT
1 AATAATATTTTATTAT
61806929 GATGTCAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
AATAATATTTTATTATA
Found at i:61807087 original size:22 final size:22
Alignment explanation
Indices: 61807059--61807103 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
61807049 TACAGATAGC
61807059 TTATAGAGATATACAC-AAGGAA
1 TTATAGAGATATAC-CGAAGGAA
61807081 TTATAGAGATATACCGAAGGAA
1 TTATAGAGATATACCGAAGGAA
61807103 T
1 T
61807104 GAAATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.47, C:0.09, G:0.20, T:0.24
Consensus pattern (22 bp):
TTATAGAGATATACCGAAGGAA
Found at i:61810096 original size:21 final size:18
Alignment explanation
Indices: 61810065--61810118 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 18
61810055 TATATATATA
61810065 TTTTTTAATTTTTAAAGAT
1 TTTTTTAATTTTTAAA-AT
61810084 TTTTTTAATATTTTTAAAAT
1 TTTTTT-A-ATTTTTAAAAT
61810104 TTTTTATAACTTTTT
1 TTTTT-TAA-TTTTT
61810119 TTTTCAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
19 7 0.23
20 14 0.45
21 10 0.32
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTTAATTTTTAAAAT
Found at i:61810119 original size:21 final size:21
Alignment explanation
Indices: 61810065--61810108 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
61810055 TATATATATA
61810065 TTTTTT-A-ATTTTTAAAGAT
1 TTTTTTAATATTTTTAAAGAT
61810084 TTTTTTAATATTTTTAAA-AT
1 TTTTTTAATATTTTTAAAGAT
61810104 TTTTT
1 TTTTT
61810109 ATAACTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.26
20 8 0.35
21 9 0.39
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTTTAATATTTTTAAAGAT
Found at i:61818373 original size:58 final size:58
Alignment explanation
Indices: 61818283--61818444 Score: 166
Period size: 58 Copynumber: 2.8 Consensus size: 58
61818273 AAAACACCCG
* * * * *
61818283 AAAAGGATG-TCTTGATGGCAATCTTTGAAAGGAAAGCCTTTGTGGTGAGTACTAAATA
1 AAAAGGATGCCCTTG-TGGAAATCTCTAAAAGGAAAGCCTTTGTGGTGAGTACTAAACA
* * * *
61818341 AAAAGGATGCCCTTGTGGTAATCTCTAAAAGGAAAGCCTTTCTCGTGAGTACTAAACG
1 AAAAGGATGCCCTTGTGGAAATCTCTAAAAGGAAAGCCTTTGTGGTGAGTACTAAACA
* * * *
61818399 AAAAGGACGCCTTTATGGAAATCTCTAGATATGGAAA-CCTTTGTGG
1 AAAAGGATGCCCTTGTGGAAATCTCTA-A-AAGGAAAGCCTTTGTGG
61818445 CGATCTTTGA
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
58 68 0.79
59 12 0.14
60 6 0.07
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (58 bp):
AAAAGGATGCCCTTGTGGAAATCTCTAAAAGGAAAGCCTTTGTGGTGAGTACTAAACA
Found at i:61818618 original size:27 final size:27
Alignment explanation
Indices: 61818586--61818644 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
61818576 ACGTATAGGT
* *
61818586 ACTCTGGAA-GAATGATAAATATGGCAA
1 ACTCT-GAAGGAATAATAAATACGGCAA
**
61818613 ACTCTGAAGGAATAATATGTACGGCAA
1 ACTCTGAAGGAATAATAAATACGGCAA
61818640 ACTCT
1 ACTCT
61818645 AAAAGAAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (27 bp):
ACTCTGAAGGAATAATAAATACGGCAA
Found at i:61820346 original size:20 final size:20
Alignment explanation
Indices: 61820323--61820388 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
61820313 TTTATATTCG
*
61820323 TATAAACTATAATTCATTCA
1 TATAAACTATAATTCATCCA
* * *
61820343 TAT-AACCATAGTTCATCCG
1 TATAAACTATAATTCATCCA
61820362 TATAAA-TAGTAATTCATCCA
1 TATAAACTA-TAATTCATCCA
61820382 TATAAAC
1 TATAAAC
61820389 ACATATCTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
19 16 0.44
20 20 0.56
ACGTcount: A:0.42, C:0.18, G:0.05, T:0.35
Consensus pattern (20 bp):
TATAAACTATAATTCATCCA
Found at i:61820916 original size:67 final size:67
Alignment explanation
Indices: 61820842--61821242 Score: 545
Period size: 67 Copynumber: 6.0 Consensus size: 67
61820832 AATAATTCAA
* * *
61820842 TTTCTCAAATAACATATATATAATCTATTCAATTAAATAAATACATTTAAATACTCAATTCGCAT
1 TTTCTCAAATCACATATATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
61820907 AC
66 AC
* * *
61820909 CTTCTCAAATCACATATATATAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGCAT
1 TTTCTCAAATCACATATATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
61820974 AC
66 AC
* * * * *
61820976 TTTCTCAAATTATACACATATAATCAATTCAATTAAATACATACATTTAAATACTCACTTCGCAT
1 TTTCTCAAATCACATATATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
61821041 AC
66 AC
* * * *
61821043 TTTCTCAAATCATATATACATAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGCAT
1 TTTCTCAAATCACATATATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
61821108 AC
66 AC
* * * * *
61821110 TTTCTCAAATTATC-CACATATAATCAATTCAATTAAATACATACCTTTAAATACTCAATTCACA
1 TTTCTCAAATCA-CATATATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCA
61821174 TAC
65 TAC
* ** * *
61821177 TTTCTCAAATCATATATATATAATTGATTTAATTAAATGCATACATTTAAATACTCAAATT-GCA
1 TTTCTCAAATCACATATATATAATCAATTCAATTAAATACATACATTTAAATACTC-AATTCGCA
61821241 TA
65 TA
61821243 TTCAATGCAT
Statistics
Matches: 292, Mismatches: 39, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
67 288 0.99
68 4 0.01
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.37
Consensus pattern (67 bp):
TTTCTCAAATCACATATATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCAT
AC
Found at i:61821071 original size:134 final size:134
Alignment explanation
Indices: 61820859--61821242 Score: 653
Period size: 134 Copynumber: 2.9 Consensus size: 134
61820849 AATAACATAT
* * * *
61820859 ATATAATCTATTCAATTAAATAAATACATTTAAATACTCAATTCGCATACCTTCTCAAATCACAT
1 ATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATCATAT
61820924 ATATATAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATTAT
66 ATATATAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATTAT
61820989 ACAC
131 ACAC
*
61820993 ATATAATCAATTCAATTAAATACATACATTTAAATACTCACTTCGCATACTTTCTCAAATCATAT
1 ATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATCATAT
*
61821058 ATACATAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATTAT
66 ATATATAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATTAT
*
61821123 CCAC
131 ACAC
* *
61821127 ATATAATCAATTCAATTAAATACATACCTTTAAATACTCAATTCACATACTTTCTCAAATCATAT
1 ATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATCATAT
* *
61821192 ATATATAATTGATTTAATTAAATGCATACATTTAAATACTCAAATT-GCATA
66 ATATATAATCGATTTAATTAAATACATACATTTAAATACTC-AATTCGCATA
61821243 TTCAATGCAT
Statistics
Matches: 236, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
134 232 0.98
135 4 0.02
ACGTcount: A:0.42, C:0.18, G:0.02, T:0.37
Consensus pattern (134 bp):
ATATAATCAATTCAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATCATAT
ATATATAATCGATTTAATTAAATACATACATTTAAATACTCAATTCGCATACTTTCTCAAATTAT
ACAC
Found at i:61822971 original size:19 final size:19
Alignment explanation
Indices: 61822916--61822983 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
61822906 AATTTAAAAG
* *
61822916 AAAATATATAAAATTTATA
1 AAAATATATAAAATATAAA
* * *
61822935 TAAATTTCTTAAAATATAAA
1 AAAATAT-ATAAAATATAAA
*
61822955 AGAAAT-TATAAATTATAAA
1 A-AAATATATAAAATATAAA
61822974 AAAATATATA
1 AAAATATATA
61822984 TGTATCTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
18 4 0.11
19 20 0.53
20 10 0.26
21 4 0.11
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAATATATAAAATATAAA
Found at i:61823443 original size:16 final size:16
Alignment explanation
Indices: 61823400--61823446 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
61823390 AAGTTTATCA
*
61823400 AGATTTAATTATGTGTTT
1 AGATTTAATTA--TATTT
*
61823418 A-ATATAATTATATTT
1 AGATTTAATTATATTT
61823433 AGATTTAATTATAT
1 AGATTTAATTATAT
61823447 GTGCTTGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 5 0.20
16 11 0.44
17 8 0.32
18 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (16 bp):
AGATTTAATTATATTT
Found at i:61823679 original size:15 final size:15
Alignment explanation
Indices: 61823616--61823679 Score: 58
Period size: 15 Copynumber: 4.2 Consensus size: 15
61823606 TTTAATGAAG
61823616 AGTGACTAAAATAAA
1 AGTGACTAAAATAAA
* *
61823631 AATGATTAAAATAAA
1 AGTGACTAAAATAAA
* *
61823646 AATAGACTAATAAT-TA
1 AGT-GACTAA-AATAAA
*
61823662 AGTGACTAAATTAAA
1 AGTGACTAAAATAAA
61823677 AGT
1 AGT
61823680 TTTAACCCAC
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
14 2 0.05
15 26 0.67
16 8 0.21
17 3 0.08
ACGTcount: A:0.58, C:0.05, G:0.11, T:0.27
Consensus pattern (15 bp):
AGTGACTAAAATAAA
Found at i:61829411 original size:21 final size:21
Alignment explanation
Indices: 61829356--61829412 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
61829346 TTAAAAATAG
*
61829356 TTTTTAATTTAAAATATTAAA
1 TTTTTAAATTAAAATATTAAA
* *
61829377 TTATATT--ATCAAAATATTTAA
1 TT-T-TTAAATTAAAATATTAAA
61829398 TTTTTAAATTAAAAT
1 TTTTTAAATTAAAAT
61829413 TAATTATAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
19 2 0.07
20 1 0.04
21 22 0.79
22 1 0.04
23 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTTTAAATTAAAATATTAAA
Found at i:61829468 original size:17 final size:16
Alignment explanation
Indices: 61829434--61829471 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
61829424 GTTCAAAAAA
*
61829434 TTAAA-ATATAACTAT
1 TTAAATATATAAATAT
61829449 TTAAATATATAAAATAT
1 TTAAATATAT-AAATAT
61829466 TTAAAT
1 TTAAAT
61829472 TTTCTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 4 0.20
17 11 0.55
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAAATATATAAATAT
Found at i:61830119 original size:14 final size:14
Alignment explanation
Indices: 61830100--61830132 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
61830090 ATATTATGAG
61830100 AAAATATAAAATAT
1 AAAATATAAAATAT
61830114 AAAATATAAAATAT
1 AAAATATAAAATAT
61830128 AAAAT
1 AAAAT
61830133 TATTTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATATAAAATAT
Found at i:61833181 original size:107 final size:107
Alignment explanation
Indices: 61832996--61833254 Score: 387
Period size: 107 Copynumber: 2.4 Consensus size: 107
61832986 AATTAAGATA
* *
61832996 TAAAAGGATATTTGGCTATTTGGTCCAACGAG-AAATCGAAACCCAGCACATTAGGACACGTTTC
1 TAAAAGGATATTTGGCTATTTGGTCAAACGAGAAAATCGAAACCCAACACATTAGGACACGTTTC
61833060 CTCGAATTTCCAAACGCAAAACATTGCCTTA-TTTTGAAATTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAA-TT
* * * * * *
61833102 TAAAAGGATATTCGACTATTTGGTCAAACAAGAAAATCGAAACCCAACATATTAGGACTCGTTTT
1 TAAAAGGATATTTGGCTATTTGGTCAAACGAGAAAATCGAAACCCAACACATTAGGACACGTTTC
* *
61833167 CTCGAATTTTCAAACGCAGAACATTGCCTTATTTTTGAAATT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAATT
*
61833209 TAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCC
1 TAAAAGGATATTTGGCTATTTGGTCAAACGAG-AAAATCGAAACCC
61833255 CTGTGAGGCT
Statistics
Matches: 136, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
106 28 0.21
107 87 0.64
108 21 0.15
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (107 bp):
TAAAAGGATATTTGGCTATTTGGTCAAACGAGAAAATCGAAACCCAACACATTAGGACACGTTTC
CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAATT
Found at i:61835771 original size:109 final size:107
Alignment explanation
Indices: 61835441--61835775 Score: 546
Period size: 109 Copynumber: 3.1 Consensus size: 107
61835431 GATTAAGATA
* *
61835441 TAAAAGGATATTTGGCTATTTGGTCCAACGAG-AAATCGAAACCCAGCACATTAGGGCACGTTTC
1 TAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTT
* *
61835505 CTCGAATTTCCAAACGCAAAAGATTGCCTTATTTCGAAATTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
* *
61835547 TAAAAGGATATTCGGCTATTTGGTCGAACAAGAAAATCGAAACCCAGCACATTAGGGCACGTTTT
1 TAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTT
*
61835612 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTTGAAATTG
66 CTCGAATTTCCAAACGCAAAACATTGCCTTA-TTTTGAAATTT
61835655 TAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTTT
1 TAAAAGGATATTTGGCTATTTGGTCGAACGAG-AAAATCGAAACCCAGCACATTAGGGCACGTTT
*
61835720 TCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATATT
65 TCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAT-TT
**
61835764 TTTAAGGATATT
1 TAAAAGGATATT
61835776 AATATGCGTA
Statistics
Matches: 212, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
106 29 0.14
107 61 0.29
108 47 0.22
109 75 0.35
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (107 bp):
TAAAAGGATATTTGGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTT
CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
Found at i:61836452 original size:13 final size:13
Alignment explanation
Indices: 61836434--61836459 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61836424 ATAAAATAAG
61836434 ATAAAAAATATAT
1 ATAAAAAATATAT
61836447 ATAAAAAATATAT
1 ATAAAAAATATAT
61836460 TTCAATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAAAAATATAT
Found at i:61836481 original size:12 final size:10
Alignment explanation
Indices: 61836453--61836479 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
61836443 ATATATAAAA
61836453 AATATATTTC
1 AATATATTTC
61836463 AATATATTTC
1 AATATATTTC
61836473 AATATAT
1 AATATAT
61836480 ATATGAGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (10 bp):
AATATATTTC
Found at i:61836724 original size:29 final size:29
Alignment explanation
Indices: 61836677--61836732 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
61836667 ATGAGTGGAA
*
61836677 ATATAATGATAACAATAATAATATTAATG
1 ATATAATGATAACAATAATAAGATTAATG
** *
61836706 ATATAATGATAGTAGTAATAAGATTAA
1 ATATAATGATAACAATAATAAGATTAA
61836733 AATAATTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.34
Consensus pattern (29 bp):
ATATAATGATAACAATAATAAGATTAATG
Found at i:61845039 original size:42 final size:42
Alignment explanation
Indices: 61844978--61845097 Score: 152
Period size: 42 Copynumber: 2.9 Consensus size: 42
61844968 TGAAAGTGAC
* *
61844978 TAGACGTGATGTTTCATTATGTTTGTTATATTTGTCATAAAT
1 TAGACGTGATGTTTCATTATGTTTGTTATATTAGTCATAAAG
* * * *
61845020 TAGACGTGATGTTTTATTATGTCTGTTATATGAGTGATAAAG
1 TAGACGTGATGTTTCATTATGTTTGTTATATTAGTCATAAAG
* * *
61845062 TAGATGTGATGTTTCACTATATTT-TTATATTAGTCA
1 TAGACGTGATGTTTCATTATGTTTGTTATATTAGTCA
61845098 ACAGAGTAGG
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
41 10 0.15
42 55 0.85
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.47
Consensus pattern (42 bp):
TAGACGTGATGTTTCATTATGTTTGTTATATTAGTCATAAAG
Found at i:61847493 original size:24 final size:24
Alignment explanation
Indices: 61847466--61847517 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
61847456 AATCAATGTC
* * * *
61847466 AAATATATTATGCTAGTAAATGCT
1 AAATATAATATACTAATAAATACT
61847490 AAATATAATATACTAATAAATACT
1 AAATATAATATACTAATAAATACT
61847514 AAAT
1 AAAT
61847518 CTACTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.35
Consensus pattern (24 bp):
AAATATAATATACTAATAAATACT
Found at i:61851175 original size:24 final size:24
Alignment explanation
Indices: 61851148--61851200 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
61851138 TAATCAACAT
* *
61851148 TAAATATATTATGCTAATAAATGC
1 TAAATATATTATACTAATAAATAC
*
61851172 TAAATATTTTATACTAATAAATAC
1 TAAATATATTATACTAATAAATAC
61851196 TAAAT
1 TAAAT
61851201 CTTCTAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.40
Consensus pattern (24 bp):
TAAATATATTATACTAATAAATAC
Found at i:61854543 original size:40 final size:40
Alignment explanation
Indices: 61854466--61854549 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
61854456 CACCAGCTCA
* *
61854466 AAGCCTACTAGGCACTAAGCCTGAATATCACACCGGCACG
1 AAGCCTACTAAGCACTAAGCCTGAATAACACACCGGCACG
* * *
61854506 AAGCCTACTAAGCACTAAGCCTGAATAACTCATCGGCACT
1 AAGCCTACTAAGCACTAAGCCTGAATAACACACCGGCACG
61854546 AAGC
1 AAGC
61854550 TTGAATAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.31, G:0.18, T:0.17
Consensus pattern (40 bp):
AAGCCTACTAAGCACTAAGCCTGAATAACACACCGGCACG
Found at i:61854564 original size:22 final size:22
Alignment explanation
Indices: 61854517--61854631 Score: 82
Period size: 22 Copynumber: 5.4 Consensus size: 22
61854507 AGCCTACTAA
*
61854517 GCACTAAGCCTGAATAACTCATCG
1 GCACTAAGCTTGAATAA--CATCG
61854541 GCACTAAGCTTGAATAACATCG
1 GCACTAAGCTTGAATAACATCG
* *
61854563 GCA-TGAAACTTG-CT---AT--
1 GCACT-AAGCTTGAATAACATCG
* * *
61854579 GCACTAAGCCTGAATAACACCA
1 GCACTAAGCTTGAATAACATCG
*
61854601 GCACTAAGCTTGAATAACACCG
1 GCACTAAGCTTGAATAACATCG
*
61854623 GCACAAAGC
1 GCACTAAGC
61854632 CTACTAGGCA
Statistics
Matches: 73, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
16 8 0.11
17 2 0.03
18 2 0.03
20 1 0.01
21 2 0.03
22 42 0.58
24 16 0.22
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.19
Consensus pattern (22 bp):
GCACTAAGCTTGAATAACATCG
Found at i:61854625 original size:60 final size:59
Alignment explanation
Indices: 61854477--61854659 Score: 213
Period size: 60 Copynumber: 3.0 Consensus size: 59
61854467 AGCCTACTAG
* * * *
61854477 GCACTAAGCCTGAATATCACACCGGCACGAAGCCTACTAAGCACTAAGCCTGAATAACTCATCG
1 GCACTAAGCTTGAATA--ACACCGGCA-GAAACCTACTAAGCACTAAGCCTGAATAA--CACCA
* * * *
61854541 GCACTAAGCTTGAATAACATCGGCATGAAACTTGCTATGCACTAAGCCTGAATAACACCA
1 GCACTAAGCTTGAATAACACCGGCA-GAAACCTACTAAGCACTAAGCCTGAATAACACCA
* *
61854601 GCACTAAGCTTGAATAACACCGGCACAAAGCCTACTAGGCACTAAGCCTGAATAACACC
1 GCACTAAGCTTGAATAACACCGGCAGAAA-CCTACTAAGCACTAAGCCTGAATAACACC
61854660 GGTATGAAGC
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
59 3 0.03
60 53 0.51
62 33 0.32
64 15 0.14
ACGTcount: A:0.36, C:0.29, G:0.17, T:0.18
Consensus pattern (59 bp):
GCACTAAGCTTGAATAACACCGGCAGAAACCTACTAAGCACTAAGCCTGAATAACACCA
Found at i:61854653 original size:38 final size:38
Alignment explanation
Indices: 61854601--61854709 Score: 128
Period size: 38 Copynumber: 2.9 Consensus size: 38
61854591 AATAACACCA
* *
61854601 GCACTAAGCTTGAATAACACCGGCACAAAGCCTACTAG
1 GCACTAAGCCTGAATAACACCGGCACGAAGCCTACTAG
* * *
61854639 GCACTAAGCCTGAATAACACCGGTATGAAGCCTGCTAG
1 GCACTAAGCCTGAATAACACCGGCACGAAGCCTACTAG
* * * * *
61854677 GCATTGAGCCTAAATAGCACCAGCACGAAGCCT
1 GCACTAAGCCTGAATAACACCGGCACGAAGCCT
61854710 GCTACTTATA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (38 bp):
GCACTAAGCCTGAATAACACCGGCACGAAGCCTACTAG
Found at i:61858905 original size:26 final size:27
Alignment explanation
Indices: 61858841--61858918 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
61858831 AGATTTTGTG
61858841 TAGATTAAGATAATTAGGAG-TTTAAAT
1 TAGATTAAGATAATTAGG-GTTTTAAAT
* * *
61858868 TAAATTAGGATAATTAGGGTTTTAATT
1 TAGATTAAGATAATTAGGGTTTTAAAT
*
61858895 TAGA-TAAGATAATTAGGATTTTAA
1 TAGATTAAGATAATTAGGGTTTTAA
61858919 GTTTTGCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 19 0.43
27 25 0.57
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (27 bp):
TAGATTAAGATAATTAGGGTTTTAAAT
Found at i:61860920 original size:18 final size:18
Alignment explanation
Indices: 61860888--61860952 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 18
61860878 TTATAACTAT
*
61860888 TTATATATATCTTTATATC
1 TTAT-TATATATTTATATC
61860907 TTATTATATATTTATATC
1 TTATTATATATTTATATC
61860925 TTATTATATATCTATATATC
1 TTATTATATAT-T-TATATC
*
61860945 TTTTTATA
1 TTATTATA
61860953 AACATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
18 24 0.57
19 5 0.12
20 13 0.31
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATATATTTATATC
Found at i:61861131 original size:30 final size:30
Alignment explanation
Indices: 61861059--61861131 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
61861049 TACGTCTATT
* *
61861059 TTCTTTTATATATACATATACATACTTACA
1 TTCTTTTATTTTTACATATACATACTTACA
* *
61861089 TTGTTTTA-TTTTACGATATACATACTTATA
1 TTCTTTTATTTTTAC-ATATACATACTTACA
61861119 -TCTTTTATTTTTA
1 TTCTTTTATTTTTA
61861132 TGTAATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 10 0.28
30 26 0.72
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (30 bp):
TTCTTTTATTTTTACATATACATACTTACA
Found at i:61865664 original size:15 final size:15
Alignment explanation
Indices: 61865644--61865679 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
61865634 TCTCATGAAT
61865644 TCAAAAAAATAAAAA
1 TCAAAAAAATAAAAA
* *
61865659 TCAAAAAAATCAAAG
1 TCAAAAAAATAAAAA
61865674 TCAAAA
1 TCAAAA
61865680 TAGGAAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.72, C:0.11, G:0.03, T:0.14
Consensus pattern (15 bp):
TCAAAAAAATAAAAA
Found at i:61867954 original size:88 final size:88
Alignment explanation
Indices: 61867805--61868321 Score: 796
Period size: 88 Copynumber: 5.9 Consensus size: 88
61867795 CAATGAAGTT
*
61867805 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
61867870 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
61867893 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
61867958 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
61867981 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATTGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
61868046 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
61868069 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
61868134 TGTGATAGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * *
61868157 AAAGATCTTGCC-TTCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
61868221 TGT-AGTGGAGCTGGTTAAAGA-A
66 TGTGA-TGGAGCTGGTTGAAGACA
** * * * * * * **
61868243 GCAGATCTTACCTTCCTGCATTAACAGCAAAGCGGATC-AA-AAACAAAGCCTTG-CTCCATCGG
1 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGG
*
61868305 TTG-CATTGGAGCTGGTT
65 TTGTGA-TGGAGCTGGTT
61868322 AAAGGTTACA
Statistics
Matches: 403, Mismatches: 22, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
85 28 0.07
86 18 0.04
87 85 0.21
88 272 0.67
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (88 bp):
AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
TGTGATGGAGCTGGTTGAAGACA
Found at i:61869958 original size:18 final size:18
Alignment explanation
Indices: 61869926--61869989 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 18
61869916 TTATAACTAT
*
61869926 TTATATATATCTTTATATC
1 TTAT-TATATATTTATATC
61869945 TTATTATATATTTATATC
1 TTATTATATATTTATATC
61869963 TTATTATATATCTATATATC
1 TTATTATATAT-T-TATATC
61869983 TT-TTATA
1 TTATTATA
61869990 AACATATTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
18 24 0.57
19 10 0.24
20 8 0.19
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATTATATATTTATATC
Found at i:61872183 original size:18 final size:19
Alignment explanation
Indices: 61872146--61872183 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
61872136 GGTATAATAT
61872146 TTCATAATTTTTCGTTAAAA
1 TTCATAATTTTTC-TTAAAA
*
61872166 TTCATCATTTTT-TTAAAA
1 TTCATAATTTTTCTTAAAA
61872184 AAGTCATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.53
Consensus pattern (19 bp):
TTCATAATTTTTCTTAAAA
Found at i:61873702 original size:27 final size:28
Alignment explanation
Indices: 61873670--61873733 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 28
61873660 GTTAGAAACA
* * *
61873670 AAATTATAATATTTTGAGT-AATAGAAC
1 AAATTATAATAATATGAATAAATAGAAC
61873697 AAATTATAA-AATATGAATAAATAGAAC
1 AAATTATAATAATATGAATAAATAGAAC
61873724 AAATTATAAT
1 AAATTATAAT
61873734 TTAGTAATAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (28 bp):
AAATTATAATAATATGAATAAATAGAAC
Found at i:61879934 original size:88 final size:88
Alignment explanation
Indices: 61879785--61880303 Score: 805
Period size: 88 Copynumber: 5.9 Consensus size: 88
61879775 CAATGAAGTT
61879785 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
61879850 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
61879873 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
61879938 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* *
61879961 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATTGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
61880026 TGTGATGGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
*
61880049 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
61880114 TGTGATAGAGCTGGTTGAAGACA
66 TGTGATGGAGCTGGTTGAAGACA
* * *
61880137 AAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
*
61880202 TGT-AGTGGAGCTGGTTAAAGA-A
66 TGTGA-TGGAGCTGGTTGAAGACA
** * * * * * **
61880224 GCAGATCTTACCTTCCTGCATTAACAGCAAAGCGGATC-AA-AAACAAAGCCTTGCCTCCATCGG
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGG
*
61880287 TTG-CATTGGAGCTGGTT
65 TTGTGA-TGGAGCTGGTT
61880304 AAAGGTTACA
Statistics
Matches: 406, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
85 6 0.01
86 30 0.07
87 32 0.08
88 338 0.83
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (88 bp):
AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
TGTGATGGAGCTGGTTGAAGACA
Found at i:61881946 original size:18 final size:18
Alignment explanation
Indices: 61881914--61881978 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 18
61881904 TTATAACTAT
*
61881914 TTATATATATCTTTATATC
1 TTAT-TATATATTTATATC
61881933 TTATTATATATTTATATC
1 TTATTATATATTTATATC
61881951 TTATTATATATCTATATATC
1 TTATTATATAT-T-TATATC
*
61881971 TTTTTATA
1 TTATTATA
61881979 AACATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
18 24 0.57
19 5 0.12
20 13 0.31
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATATATTTATATC
Found at i:61882157 original size:30 final size:30
Alignment explanation
Indices: 61882085--61882157 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
61882075 TACGTCTATT
* *
61882085 TTCTTTTATATATACATATACATACTTACA
1 TTCTTTTATTTTTACATATACATACTTACA
* *
61882115 TTGTTTTA-TTTTACGATATACATACTTATA
1 TTCTTTTATTTTTAC-ATATACATACTTACA
61882145 -TCTTTTATTTTTA
1 TTCTTTTATTTTTA
61882158 TGTAATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 10 0.28
30 26 0.72
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (30 bp):
TTCTTTTATTTTTACATATACATACTTACA
Found at i:61889061 original size:21 final size:21
Alignment explanation
Indices: 61889029--61889069 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
61889019 AGGCTCGAGG
61889029 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
61889050 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
61889070 CCAATTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:61894214 original size:17 final size:16
Alignment explanation
Indices: 61894181--61894211 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61894171 TTATTTTAAC
61894181 AATAAATTTTAAAAAT
1 AATAAATTTTAAAAAT
*
61894197 AATAATTTTTAAAAA
1 AATAAATTTTAAAAA
61894212 ATATTATTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAAATTTTAAAAAT
Found at i:61894286 original size:25 final size:27
Alignment explanation
Indices: 61894234--61894286 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 27
61894224 TATTATTGAA
* *
61894234 AAATATTTATATTAATATTTTACGAAT
1 AAATATATATATTAATATTTTACAAAT
*
61894261 AAATATAT-TATTAA-ATTTTATAAAT
1 AAATATATATATTAATATTTTACAAAT
61894286 A
1 A
61894287 TTATAGTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 10 0.43
26 6 0.26
27 7 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
AAATATATATATTAATATTTTACAAAT
Found at i:61896537 original size:21 final size:23
Alignment explanation
Indices: 61896513--61896559 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
61896503 TTACACGGCC
*
61896513 GTGTGGCTGAGGGACAC-G-CAT
1 GTGTGACTGAGGGACACAGCCAT
*
61896534 GTGTGACTGAGGTACACAGCCAT
1 GTGTGACTGAGGGACACAGCCAT
61896557 GTG
1 GTG
61896560 AGTAAGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 15 0.68
22 1 0.05
23 6 0.27
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (23 bp):
GTGTGACTGAGGGACACAGCCAT
Found at i:61896560 original size:21 final size:20
Alignment explanation
Indices: 61896459--61896560 Score: 55
Period size: 21 Copynumber: 4.8 Consensus size: 20
61896449 CGTGTGACAA
*
61896459 AGGTACACAGCCATGTGACTA
1 AGGTACAC-GCCATGTGACTG
* **
61896480 AGAG-ATACGCCCATACGACTG
1 AG-GTACACG-CCATGTGACTG
* * *
61896501 AGTTACACGGCCGTGTGGCTG
1 AGGTACAC-GCCATGTGACTG
*
61896522 AGGGACACG-CATGTGTGACTG
1 AGGTACACGCCA--TGTGACTG
61896543 AGGTACACAGCCATGTGA
1 AGGTACAC-GCCATGTGA
61896561 GTAAGTATTG
Statistics
Matches: 58, Mismatches: 15, Indels: 16
0.65 0.17 0.18
Matches are distributed among these distances:
19 1 0.02
20 2 0.03
21 50 0.86
22 3 0.05
23 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.30, T:0.19
Consensus pattern (20 bp):
AGGTACACGCCATGTGACTG
Found at i:61896838 original size:30 final size:30
Alignment explanation
Indices: 61896763--61896912 Score: 147
Period size: 30 Copynumber: 5.0 Consensus size: 30
61896753 AGTTTTTAAG
* * * * *
61896763 GCGGCACACGACCATGTGGATCGCTCATGC
1 GCGGCACACGCCCGTGTGGACCGCCCGTGC
* * * *
61896793 GAGACACATGGCCGTGTGGACCGCCCGTGC
1 GCGGCACACGCCCGTGTGGACCGCCCGTGC
*
61896823 GCGGCACACGCCCGTGTGGACCGCCCTTGC
1 GCGGCACACGCCCGTGTGGACCGCCCGTGC
* * *
61896853 GTGGAACATGCCCGTGTGGACCGCCCGTGC
1 GCGGCACACGCCCGTGTGGACCGCCCGTGC
* * * *
61896883 ACGGCACACACCCGTATGGACCGTCCGTGC
1 GCGGCACACGCCCGTGTGGACCGCCCGTGC
61896913 CCGGAACGCT
Statistics
Matches: 96, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 96 1.00
ACGTcount: A:0.16, C:0.37, G:0.33, T:0.15
Consensus pattern (30 bp):
GCGGCACACGCCCGTGTGGACCGCCCGTGC
Done.