Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 40 of 284
Found at i:14105939 original size:27 final size:27
Alignment explanation
Indices: 14105909--14105965 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
14105899 TACTGAGATA
* *
14105909 CCCTTGTGGGGTAAAATTACCATTTTG
1 CCCTTATGGGGTAAAATGACCATTTTG
* * *
14105936 CCCTTATGGTGTTAAATGACTATTTTG
1 CCCTTATGGGGTAAAATGACCATTTTG
14105963 CCC
1 CCC
14105966 CTCGTGCGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (27 bp):
CCCTTATGGGGTAAAATGACCATTTTG
Found at i:14106620 original size:27 final size:26
Alignment explanation
Indices: 14106576--14106626 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
14106566 CTCGCAGCAA
*
14106576 TCTGGTGGCCTCGCCACATATATCTAT
1 TCTGGTGACCTCGCCACA-ATATCTAT
* *
14106603 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
14106627 GGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTAT
Found at i:14113307 original size:27 final size:27
Alignment explanation
Indices: 14113277--14113422 Score: 150
Period size: 27 Copynumber: 5.4 Consensus size: 27
14113267 TGGATAAGTT
*
14113277 GTAGAATTACTAAAATACCCCTGTAAG
1 GTAGAATTACCAAAATACCCCTGTAAG
* *
14113304 GTAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCAAAATACCCCTGTAAG
** *
14113331 GTAGAATTATTAAAATACCCCTGTAGG
1 GTAGAATTACCAAAATACCCCTGTAAG
* * *
14113358 GTAGAATTACCGAAATA-CCCAGTACG
1 GTAGAATTACCAAAATACCCCTGTAAG
* * * **
14113384 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCAAAATACCCCTGTAAG
*
14113411 GTAAAATTACCA
1 GTAGAATTACCA
14113423 TTTTGCCCCT
Statistics
Matches: 98, Mismatches: 20, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
26 23 0.23
27 75 0.77
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCAAAATACCCCTGTAAG
Found at i:14113352 original size:54 final size:53
Alignment explanation
Indices: 14113277--14113393 Score: 189
Period size: 54 Copynumber: 2.2 Consensus size: 53
14113267 TGGATAAGTT
*
14113277 GTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACCGAAATACCC-AGTAAG
* * *
14113331 GTAGAATTATTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCAGTACG
1 GTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACCGAAATACCCAGTAAG
14113384 GTAGAATTAC
1 GTAGAATTAC
14113394 CGAGATACCC
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
53 13 0.22
54 45 0.78
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (53 bp):
GTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACCGAAATACCCAGTAAG
Found at i:14113413 original size:53 final size:54
Alignment explanation
Indices: 14113277--14113421 Score: 184
Period size: 54 Copynumber: 2.7 Consensus size: 54
14113267 TGGATAAGTT
* * *
14113277 GTAGAATTACTAAAATACCCCTGTAAGGTAGAATTACCGAAATACCCTTGTAAG
1 GTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTAGTAAG
** *
14113331 GTAGAATTATTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCC-AGTACG
1 GTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTAGTAAG
* * * * *
14113384 GTAGAATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 GTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACC
14113422 ATTTTGCCCC
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 35 0.44
54 45 0.56
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
GTAGAATTACCAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTAGTAAG
Found at i:14115913 original size:96 final size:96
Alignment explanation
Indices: 14115718--14116042 Score: 373
Period size: 96 Copynumber: 3.4 Consensus size: 96
14115708 GTAAGATGCT
* * * *
14115718 GATGCCATGTCCCAGACATGGTTTTACACTGGCTATCATATATCGGT-CCTCATGCCATGTTCCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC--TCATATATCGATGCC-GATGCCATGTTCCA
* * * * *
14115782 AACATGGTTTTACACTAGCCCATATGTTGAGGCC
63 AACATGGTCTTACACTAGCTCACATATCGAGGCC
* *
14115816 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATATCAATGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATATCGATGCCGATGCCATGTTCCAAAC
* * * *
14115881 ATGGTCTTATAGTGGCTCACATATCAAGGCC
66 ATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * * *
14115912 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCATAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATATCGATGCCGATGCCATGTTCCAAAC
* * **
14115977 ATAGTCTTACACTAGCTCTCATATCGAGGTT
66 ATGGTCTTACACTAGCTCACATATCGAGGCC
* *
14116008 GATGCCATGTCTCAAACATGGTCTTACACTAGCTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC
14116043 TCACAAACCT
Statistics
Matches: 191, Mismatches: 35, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
96 158 0.83
97 2 0.01
98 31 0.16
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCATATATCGATGCCGATGCCATGTTCCAAAC
ATGGTCTTACACTAGCTCACATATCGAGGCC
Found at i:14115940 original size:144 final size:144
Alignment explanation
Indices: 14115769--14116033 Score: 372
Period size: 144 Copynumber: 1.8 Consensus size: 144
14115759 ATCGGTCCTC
* * * *
14115769 ATGCCATGTTCCAAACATGGTTTTACACTAGCCCATATGTTGAGGCCGATGCCATGTCCCAGACA
1 ATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATCGAGGCCGATGCCATGTCCCAGACA
* * *
14115834 TGGTCTTACACTAGCTCTTATATCAATGCCGATGCCATGT-TCCAAACATGGTCTTATAGTGGCT
66 TAGTCTTACACTAGCTCTCATATCAAGGCCGATGCCATGTCT-CAAACATGGTCTTATAGTGGCT
14115898 CACATATCAAGGCCG
130 CACATATCAAGGCCG
* * * *
14115913 ATGCCATG-TCCTAGACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTCCCATAC
1 ATGCCATGTTCC-AAACATGGTCTTACACTAGCCCACATATCGAGGCCGATGCCATGTCCCAGAC
* **
14115977 ATAGTCTTACACTAGCTCTCATATCGAGGTTGATGCCATGTCTCAAACATGGTCTTA
65 ATAGTCTTACACTAGCTCTCATATCAAGGCCGATGCCATGTCTCAAACATGGTCTTA
14116034 CACTAGCTCT
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
143 3 0.03
144 101 0.96
145 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (144 bp):
ATGCCATGTTCCAAACATGGTCTTACACTAGCCCACATATCGAGGCCGATGCCATGTCCCAGACA
TAGTCTTACACTAGCTCTCATATCAAGGCCGATGCCATGTCTCAAACATGGTCTTATAGTGGCTC
ACATATCAAGGCCG
Found at i:14116043 original size:48 final size:48
Alignment explanation
Indices: 14115718--14116045 Score: 338
Period size: 48 Copynumber: 6.8 Consensus size: 48
14115708 GTAAGATGCT
* * * * *
14115718 GATGCCATGTCCCAGACATGGTTTTACACTGGCTATCATATATCG-GTCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTC--ATATCGAGGCC
* * * *
14115767 TCATGCCATGTTCCAAACATGGTTTTACACTAGC-C-CATATGTTGAGGCC
1 -GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATA--TCGAGGCC
* * * *
14115816 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTATATCAATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAGGCC
* * * * * *
14115864 GATGCCATGTTCCAAACATGGTCTTATAGTGGCTCACATATCAAGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAGGCC
* * * *
14115912 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATATCGAGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAGGCC
* * **
14115960 GATGCCATGTCCCATACATAGTCTTACACTAGCTCTCATATCGAGGTT
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAGGCC
*
14116008 GATGCCATGTCTCAAACATGGTCTTACACTAGCTCTCA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCA
14116046 CAAACCTAGT
Statistics
Matches: 234, Mismatches: 39, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
46 3 0.01
48 195 0.83
49 4 0.02
50 32 0.14
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAGGCC
Found at i:14120933 original size:57 final size:57
Alignment explanation
Indices: 14120845--14120958 Score: 192
Period size: 57 Copynumber: 2.0 Consensus size: 57
14120835 AAATGAACGC
* **
14120845 TCCACTTCATCGGTAGGATATTCGGGTAGAGCAAGAGGCTCTAAACAGTGAAGCCAG
1 TCCACTTCATCGGTAGCATATTCGGGTAGAGCAAGAGGCTCTAAACAACGAAGCCAG
*
14120902 TCCACTTCATCGGTAGCATATTTGGGTAGAGCAAGAGGCTCTAAACAACGAAGCCAG
1 TCCACTTCATCGGTAGCATATTCGGGTAGAGCAAGAGGCTCTAAACAACGAAGCCAG
14120959 AAGTCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (57 bp):
TCCACTTCATCGGTAGCATATTCGGGTAGAGCAAGAGGCTCTAAACAACGAAGCCAG
Found at i:14122632 original size:46 final size:45
Alignment explanation
Indices: 14122582--14122757 Score: 149
Period size: 46 Copynumber: 3.8 Consensus size: 45
14122572 TGGTTGAGCA
14122582 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
14122628 TCCAAACTCGTTGAGTTGAGCCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * * * *
14122675 TCCGAGCTTGTTGACTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
14122721 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACCTATGG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14122758 GTGGGTTACA
Statistics
Matches: 102, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 64 0.63
47 28 0.27
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (45 bp):
TCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:14127172 original size:28 final size:27
Alignment explanation
Indices: 14127115--14127266 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
14127105 TAAATTGTGC
* *
14127115 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
14127142 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
14127170 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
14127197 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* * *
14127225 AGCACTAAGTGCGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
14127252 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
14127267 GACTTAATAT
Statistics
Matches: 116, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 65 0.56
28 51 0.44
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:14127180 original size:55 final size:55
Alignment explanation
Indices: 14127115--14127266 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 55
14127105 TAAATTGTGC
* *
14127115 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
14127170 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * * *
14127225 AGCACTAAGTGCGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
14127267 GACTTAATAT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:14134105 original size:48 final size:48
Alignment explanation
Indices: 14133777--14134107 Score: 360
Period size: 48 Copynumber: 6.9 Consensus size: 48
14133767 AGGGTCAGAT
*
14133777 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATCG-G
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC--ATATCGAG
* * * * * * * * *
14133826 TCCTCATGCCATGTTCCAAACATGGTTTTACACTAGCCCACATGTTGAG
1 -GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAG
** * *
14133875 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAAT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAG
* * * * * * * *
14133923 GCCGATGCCATGTTCCAAACATGGTCTTTCATTGGCTCACATATCAAG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAG
* * *
14133971 GCTGATGCAATGTCCTAGACATGGTCTTACACTAGCTCACATATCGAG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAG
14134019 G-TCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAG
1 GCT-GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAG
* * *
14134067 GCTGATACCATGTCCCAGATATGATCTTACACTAGCTCTCA
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA
14134108 CAACCCTAGT
Statistics
Matches: 233, Mismatches: 45, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
47 1 0.00
48 198 0.85
49 2 0.01
50 32 0.14
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCGAG
Found at i:14135612 original size:42 final size:42
Alignment explanation
Indices: 14135517--14135664 Score: 134
Period size: 42 Copynumber: 3.5 Consensus size: 42
14135507 TATCCCAGAT
* ** * * * **
14135517 ATGGTCTTACATGGGATCACATATCGGTGCCGATAGCCCAACT
1 ATGGTCTTACACGAAATCACATATCGATGCC-ATATCCAAAAA
** * * * *
14135560 ATGGTCTTACACGATGTCTCATATCGATGCCATGTCCCAAAC
1 ATGGTCTTACACGAAATCACATATCGATGCCATATCCAAAAA
* *
14135602 ATGGTCTTACACAAAATCACATATCGATGCCATATCTAAAAA
1 ATGGTCTTACACGAAATCACATATCGATGCCATATCCAAAAA
*
14135644 ATCGTCTTACACGAAATCACA
1 ATGGTCTTACACGAAATCACA
14135665 CATAACCCTA
Statistics
Matches: 85, Mismatches: 20, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 60 0.71
43 25 0.29
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCACATATCGATGCCATATCCAAAAA
Found at i:14137369 original size:12 final size:12
Alignment explanation
Indices: 14137352--14137377 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14137342 CATTCCGAAG
14137352 TATATATATACA
1 TATATATATACA
14137364 TATATATATACA
1 TATATATATACA
14137376 TA
1 TA
14137378 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:14137889 original size:27 final size:27
Alignment explanation
Indices: 14137858--14138035 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
14137848 TAAATTGTAC
14137858 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
14137885 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
14137911 ATGCACTAAGTGTGTGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
14137939 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
14137967 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
14137994 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
14138021 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
14138036 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:14138026 original size:82 final size:81
Alignment explanation
Indices: 14137855--14138035 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
14137845 GATTAAATTG
* *
14137855 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
14137920 GTGTGTGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
14137936 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
14138000 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
14138018 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
14138036 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:14149012 original size:40 final size:40
Alignment explanation
Indices: 14148938--14149159 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
14148928 AACCCAAGGA
* *
14148938 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
14148977 CCTTCGGGTCTTAGCCCGGATACAGTCACTGGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
14149017 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
14149057 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
14149097 CTTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
14149137 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
14149160 CATCCGAATA
Statistics
Matches: 167, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 12 0.07
40 154 0.92
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:14162870 original size:46 final size:46
Alignment explanation
Indices: 14162819--14163018 Score: 199
Period size: 46 Copynumber: 4.3 Consensus size: 46
14162809 GCGAGCTCAA
* * **
14162819 ACTCAACTCAAAGAGCTCGGGGGATCGCATCCATAAGTGAACTCGG
1 ACTCAACTCAACGAGTTCGGAAGATCGCATCCATAAGTGAACTCGG
* * ** * *
14162865 ACTCAACTCAACGAGTTTGGATGCCTAGTTACAT-C-TCA-CGAACTCGG
1 ACTCAACTCAACGAGTTCGGAAG---A-TCGCATCCATAAGTGAACTCGG
* * *
14162912 GCTCAACTCAACGAGTTCGGATGTTCGCATCCATAAGTGAACTCGG
1 ACTCAACTCAACGAGTTCGGAAGATCGCATCCATAAGTGAACTCGG
* *
14162958 ACTCAACTCAACGAGTTCGGAAGTTCGCATCCATAAGTGAACTTGG
1 ACTCAACTCAACGAGTTCGGAAGATCGCATCCATAAGTGAACTCGG
*
14163004 ATTCAACTCAACGAG
1 ACTCAACTCAACGAG
14163019 CTTGGATGCC
Statistics
Matches: 127, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
43 4 0.03
44 1 0.01
45 2 0.02
46 83 0.65
47 29 0.23
48 2 0.02
49 2 0.02
50 4 0.03
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (46 bp):
ACTCAACTCAACGAGTTCGGAAGATCGCATCCATAAGTGAACTCGG
Found at i:14170628 original size:18 final size:18
Alignment explanation
Indices: 14170601--14170657 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
14170591 TTTTTGACAA
*
14170601 TTCTTTTCTCTTCTTCTT
1 TTCTTCTCTCTTCTTCTT
* *
14170619 TTCTTCTCTCTTCATCTA
1 TTCTTCTCTCTTCTTCTT
14170637 TT-TTCTCTTCTTCTTCTT
1 TTCTTCTC-TCTTCTTCTT
14170655 TTC
1 TTC
14170658 CTCTATAGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
17 5 0.16
18 27 0.84
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTCTCTCTTCTTCTT
Found at i:14171747 original size:27 final size:27
Alignment explanation
Indices: 14171717--14171774 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
14171707 TACTAAAATA
*
14171717 CCCTAAGTATG-AAAATTACCATTATAC
1 CCCTAAG-ATGCAAAATGACCATTATAC
*
14171744 CCCT-AGGTGCAAAATGACCATTATAC
1 CCCTAAGATGCAAAATGACCATTATAC
14171770 CCCTA
1 CCCTA
14171775 GGTTGATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 2 0.07
26 21 0.78
27 4 0.15
ACGTcount: A:0.36, C:0.28, G:0.10, T:0.26
Consensus pattern (27 bp):
CCCTAAGATGCAAAATGACCATTATAC
Found at i:14171787 original size:26 final size:26
Alignment explanation
Indices: 14171728--14171777 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
14171718 CCTAAGTATG
*
14171728 AAAATTACCATTATACCCCTAGGTGC
1 AAAATGACCATTATACCCCTAGGTGC
14171754 AAAATGACCATTATACCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
14171778 TGATTTTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.26
Consensus pattern (26 bp):
AAAATGACCATTATACCCCTAGGTGC
Found at i:14171921 original size:28 final size:28
Alignment explanation
Indices: 14171878--14171958 Score: 103
Period size: 28 Copynumber: 2.9 Consensus size: 28
14171868 GGAGGAAGCG
14171878 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
14171906 TTCTGGTGGC-CTTGCCACAATTATCTGT
1 TTCTGGTGGCTC-TGCCACAAATATCTGT
* * *
14171934 ATCTGGTGACTCTGTCAC-AATATCT
1 TTCTGGTGGCTCTGCCACAAATATCT
14171959 ATTCTGGCAG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 7 0.15
28 38 0.83
29 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.37
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:14175910 original size:28 final size:28
Alignment explanation
Indices: 14175870--14175979 Score: 159
Period size: 28 Copynumber: 4.0 Consensus size: 28
14175860 GGAGGAAGCG
14175870 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
14175898 TTCTGGTGGCTCTGCCATAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
14175926 TTCTGGTGGCCCTGCCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
14175954 ATCTGGTGACTCTGTCAC-AATATCTG
1 TTCTGGTGGCTCTGCCACAAATATCTG
14175980 CTCTGGCAGC
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 7 0.10
28 66 0.90
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:14184019 original size:47 final size:47
Alignment explanation
Indices: 14183960--14184262 Score: 389
Period size: 47 Copynumber: 6.4 Consensus size: 47
14183950 CAGCCAAGAG
14183960 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
14184007 AGTGTATGTATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
14184054 AGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
14184103 AGTGTATGTATATATGTAATAAGGCCT-A---CCGATGCGATGAATGTGAA
1 A--G--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
14184150 AGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
14184197 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
14184244 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
14184263 TCCCAAAAGG
Statistics
Matches: 224, Mismatches: 22, Indels: 20
0.84 0.08 0.08
Matches are distributed among these distances:
43 19 0.08
44 1 0.00
45 1 0.00
47 141 0.63
49 40 0.18
50 1 0.00
51 17 0.08
53 4 0.02
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:14184074 original size:96 final size:90
Alignment explanation
Indices: 14183960--14184209 Score: 383
Period size: 96 Copynumber: 2.7 Consensus size: 90
14183950 CAGCCAAGAG
14183960 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGTAATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGTAATAA
*
14184025 GGCCTAATGGCCGATGTGATGAATGTGAA
66 GGCCT-A---CCGATGCGATGAATGTGAA
14184054 AGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATATATG
1 AGTGTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATG----TATG
14184119 TAATAAGGCCTACCGATGCGATGAATGTGAA
60 TAATAAGGCCTACCGATGCGATGAATGTGAA
* *
14184150 AGTGTATATACGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGT
14184210 GACAGGGCCG
Statistics
Matches: 147, Mismatches: 3, Indels: 16
0.89 0.02 0.10
Matches are distributed among these distances:
90 5 0.03
94 53 0.36
96 73 0.50
99 1 0.01
100 15 0.10
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (90 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATGTAATAA
GGCCTACCGATGCGATGAATGTGAA
Found at i:14184437 original size:37 final size:37
Alignment explanation
Indices: 14184381--14184459 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
14184371 CCGAGCTCTA
* * *
14184381 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
14184418 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
14184455 AAGAC
1 AAGAC
14184460 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:14186148 original size:31 final size:31
Alignment explanation
Indices: 14186113--14186171 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
14186103 CACAATTTTA
14186113 ATAAATTAAGTGGACAAAATGTAATCGACCT
1 ATAAATTAAGTGGACAAAATGTAATCGACCT
14186144 ATAAATTAAGTGGACAAAATGTAATCGA
1 ATAAATTAAGTGGACAAAATGTAATCGA
14186172 TCTAATGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.25
Consensus pattern (31 bp):
ATAAATTAAGTGGACAAAATGTAATCGACCT
Found at i:14188667 original size:39 final size:39
Alignment explanation
Indices: 14188613--14188759 Score: 231
Period size: 39 Copynumber: 3.8 Consensus size: 39
14188603 TTCAGTGATG
* *
14188613 ATTATATCCGGACTTAGGGTCTGCAGGCTATATGCTGGA
1 ATTATATCCGGACTTAAGGTCCGCAGGCTATATGCTGGA
* * *
14188652 ATTATATTCGGACTTAGGGTCCGCAGGCTATGTGCTGGA
1 ATTATATCCGGACTTAAGGTCCGCAGGCTATATGCTGGA
*
14188691 ATTATATCCGGACTTAAGGTCCGTAGGCTATATGCTGGA
1 ATTATATCCGGACTTAAGGTCCGCAGGCTATATGCTGGA
*
14188730 ATTATAACCGGACTTAAGGTCCGCAGGCTA
1 ATTATATCCGGACTTAAGGTCCGCAGGCTA
14188760 CGTGCTAGAA
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 99 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (39 bp):
ATTATATCCGGACTTAAGGTCCGCAGGCTATATGCTGGA
Found at i:14194687 original size:40 final size:40
Alignment explanation
Indices: 14194625--14194819 Score: 250
Period size: 40 Copynumber: 4.8 Consensus size: 40
14194615 GTAGCAACTC
*
14194625 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
** *
14194665 GCATGAATGCCTTTGGGACTTAGCCCGGATATAGTCACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
14194705 GCACAAATGCCTTCGGGACTTAGCCC-GAGTATAG-CAACTA
1 GCACAAATGCCTTCGGGACTTAGCCCGGA-TATAGTC-ACTA
* *
14194745 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTT
1 ---GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
* * *
14194788 GCACAAATGCCCTCGAGACTTAGCCCAGATAT
1 GCACAAATGCCTTCGGGACTTAGCCCGGATAT
14194820 CATCCGAATA
Statistics
Matches: 136, Mismatches: 12, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
39 3 0.02
40 97 0.71
43 34 0.25
44 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTA
Found at i:14194792 original size:83 final size:80
Alignment explanation
Indices: 14194596--14194819 Score: 256
Period size: 83 Copynumber: 2.8 Consensus size: 80
14194586 ACCCAAGTAT
* * * * * *
14194596 CTTCGGGATTTAG-CTGGATGTAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
14194660 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
14194675 CTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCC-GAGTATAG
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGA-TATAG
14194739 -CAACTACTCGCACAAATGC
65 TC-ACTA---GCACAAATGC
* * * *
14194758 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCCTCGAGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
14194820 CATCCGAATA
Statistics
Matches: 123, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.11
80 45 0.37
83 62 0.50
84 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:14205365 original size:14 final size:14
Alignment explanation
Indices: 14205346--14205375 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14205336 CATTCCGAAG
*
14205346 TATATATATATACA
1 TATATACATATACA
14205360 TATATACATATACA
1 TATATACATATACA
14205374 TA
1 TA
14205376 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (14 bp):
TATATACATATACA
Found at i:14205892 original size:28 final size:28
Alignment explanation
Indices: 14205824--14206089 Score: 453
Period size: 28 Copynumber: 9.5 Consensus size: 28
14205814 CATGAGATTG
* * * *
14205824 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
14205853 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
14205881 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
14205909 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
14205937 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
14205965 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
14205993 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
14206021 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
14206049 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
14206076 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
14206090 GACTTAATAT
Statistics
Matches: 228, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
27 24 0.11
28 186 0.82
29 18 0.08
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:14207277 original size:18 final size:18
Alignment explanation
Indices: 14207254--14207288 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14207244 ACAATAATAG
14207254 TAAACAGTGCAGTAACAA
1 TAAACAGTGCAGTAACAA
*
14207272 TAAACAGTGTAGTAACA
1 TAAACAGTGCAGTAACA
14207289 GTTTAAACAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (18 bp):
TAAACAGTGCAGTAACAA
Found at i:14207650 original size:27 final size:27
Alignment explanation
Indices: 14207613--14207878 Score: 295
Period size: 27 Copynumber: 9.9 Consensus size: 27
14207603 ATATATACCT
* *
14207613 CACATAGGGGCAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
14207640 CATATAAGGGCAAAATAGTTATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
14207667 CATATATAGGGC-AAACATTCATTCTAC
1 CACATA-AGGGCAAAACAGTCATTTTAC
* * *
14207694 CATATAAGGACAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
14207721 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
14207748 CACATAAGGGCAAAATAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
14207775 CACATAAGGGCAAAATAGTCA-TTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
14207801 CACATAAGGG-AAAAGTAGCCATTTTAC
1 CACATAAGGGCAAAA-CAGTCATTTTAC
* **
14207828 CATATAAGGGCAAAACAACCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
14207855 CACATAAGGACAAAACAATCATTT
1 CACATAAGGGCAAAACAGTCATTT
14207879 ATCAATTAGG
Statistics
Matches: 206, Mismatches: 28, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
25 4 0.02
26 24 0.12
27 169 0.82
28 9 0.04
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:14207825 original size:80 final size:80
Alignment explanation
Indices: 14207613--14207879 Score: 324
Period size: 80 Copynumber: 3.3 Consensus size: 80
14207603 ATATATACCT
* * * * *
14207613 CACATAGGGGCAAAACAGTCATCTTACCATATAAGGGCAAAATAGTTATTTTATCATATATAGGG
1 CACATAAGGACAAAACAGTCAT-TTACCACATAAGGGCAAAATAGTCATTTTACCATATA-AGGG
*
14207678 CAAACAT--TCATTCTAC
64 CAAA-ATAATCATTTTAC
* * * *
14207694 CATATAAGGACAAAATAGTCATTTTACCACATAAGGGCAAAACAGTCATTTTACCACATAAGGGC
1 CACATAAGGACAAAACAGTCA-TTTACCACATAAGGGCAAAATAGTCATTTTACCATATAAGGGC
14207759 AAAATAATCATTTTAC
65 AAAATAATCATTTTAC
* * *
14207775 CACATAAGGGCAAAATAGTCATTTACCACATAAGGG-AAAAGTAGCCATTTTACCATATAAGGGC
1 CACATAAGGACAAAACAGTCATTTACCACATAAGGGCAAAA-TAGTCATTTTACCATATAAGGGC
* *
14207839 AAAACAACCATTTTAC
65 AAAATAATCATTTTAC
*
14207855 CACATAAGGACAAAACAATCATTTA
1 CACATAAGGACAAAACAGTCATTTA
14207880 TCAATTAGGT
Statistics
Matches: 162, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
79 6 0.04
80 79 0.49
81 76 0.47
82 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.25
Consensus pattern (80 bp):
CACATAAGGACAAAACAGTCATTTACCACATAAGGGCAAAATAGTCATTTTACCATATAAGGGCA
AAATAATCATTTTAC
Found at i:14210261 original size:39 final size:40
Alignment explanation
Indices: 14210216--14210383 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
14210206 CGGGGTTTAG
* * *
14210216 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
14210255 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
14210295 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
14210335 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
14210376 CCGGATAT
1 CCGGATAT
14210384 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:14210366 original size:41 final size:40
Alignment explanation
Indices: 14210239--14210383 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
14210229 CTCGCACAAG
* * * * *
14210239 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
14210279 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
14210319 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
14210360 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
14210384 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:14223196 original size:64 final size:64
Alignment explanation
Indices: 14223091--14223298 Score: 188
Period size: 67 Copynumber: 3.2 Consensus size: 64
14223081 CATCATGTGT
* *
14223091 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACAAG--A-TA-AATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
14223156 TAG
62 TAG
** * * * * * *
14223159 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGT
14223224 AG
63 AG
* * * *
14223226 ACAAGAGAGCTACAAGATAAAT-TGGCCAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-G
1 ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG
14223288 TACAAGAGAGC
1 -ACAAGAGAGC
14223299 CGAACTATAT
Statistics
Matches: 114, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.17
64 25 0.22
65 2 0.02
66 21 0.18
67 32 0.28
68 14 0.12
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:14231047 original size:16 final size:17
Alignment explanation
Indices: 14231026--14231058 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
14231016 CACATTGAAG
14231026 TGTTTT-TTGAAAACCT
1 TGTTTTATTGAAAACCT
14231042 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
14231059 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (17 bp):
TGTTTTATTGAAAACCT
Found at i:14236545 original size:8 final size:8
Alignment explanation
Indices: 14236534--14236576 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
14236524 GATTTCGACT
14236534 TTTCGGCA
1 TTTCGGCA
* *
14236542 TTTCGACT
1 TTTCGGCA
14236550 TTTCGGCA
1 TTTCGGCA
* *
14236558 TTTTGGCT
1 TTTCGGCA
14236566 TTTCGGCA
1 TTTCGGCA
14236574 TTT
1 TTT
14236577 TTGGATTTGC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.09, C:0.21, G:0.21, T:0.49
Consensus pattern (8 bp):
TTTCGGCA
Found at i:14236546 original size:16 final size:16
Alignment explanation
Indices: 14236525--14236576 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
14236515 TCATAGCCAG
14236525 ATTTCGACTTTTCGGC
1 ATTTCGACTTTTCGGC
14236541 ATTTCGACTTTTCGGC
1 ATTTCGACTTTTCGGC
* *
14236557 ATTTTGGCTTTTCGGC
1 ATTTCGACTTTTCGGC
14236573 ATTT
1 ATTT
14236577 TTGGATTTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.12, C:0.21, G:0.19, T:0.48
Consensus pattern (16 bp):
ATTTCGACTTTTCGGC
Found at i:14238124 original size:45 final size:44
Alignment explanation
Indices: 14238060--14238149 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 44
14238050 AAAAAGAAGG
*
14238060 GAAAGAGCTTGGAGAAAATCGGCTATGGTGGTTCACTAGACTAA
1 GAAAGAGCTTAGAGAAAATCGGCTATGGTGGTTCACTAGACTAA
14238104 NGAAAGAGCTTAGAGAAAATCGGCTATGGTGGTTCACTAGACTAA
1 -GAAAGAGCTTAGAGAAAATCGGCTATGGTGGTTCACTAGACTAA
14238149 G
1 G
14238150 GTATGTTGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 1 0.02
45 43 0.98
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.22
Consensus pattern (44 bp):
GAAAGAGCTTAGAGAAAATCGGCTATGGTGGTTCACTAGACTAA
Found at i:14239435 original size:40 final size:39
Alignment explanation
Indices: 14239236--14239454 Score: 246
Period size: 40 Copynumber: 5.5 Consensus size: 39
14239226 AGTGACAAAT
* *
14239236 TCCGGGCTAAGTCCCCAAGGCATTTGTGCTAGTGACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA
*
14239275 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC-AAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA
* * * *
14239315 TTTCAGACTAAGTCCCGAAGGCATTTTTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA
* *
14239356 TCCGGGCTAAGTCTCGAAGGCATTTGTGCGAACTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATA
*
14239396 TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATA
* *
14239436 TCC-GGTTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
14239455 TACTTGGTTT
Statistics
Matches: 156, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 18 0.12
40 134 0.86
41 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATA
Found at i:14259426 original size:18 final size:18
Alignment explanation
Indices: 14259405--14259468 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
14259395 AATTGATCGT
* *
14259405 TACTAAATAACTTATTGC
1 TACTGAATAACTAATTGC
* * * *
14259423 TACTGAACAAATGATTGT
1 TACTGAATAACTAATTGC
14259441 TACTGAATAACTAATTGC
1 TACTGAATAACTAATTGC
14259459 TACTGAATAA
1 TACTGAATAA
14259469 TTGAATGTTA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (18 bp):
TACTGAATAACTAATTGC
Found at i:14259450 original size:36 final size:36
Alignment explanation
Indices: 14259398--14259484 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 36
14259388 ACTATATAAT
* *
14259398 TGATCGTTACTAAATAACTTATTGCTACTGAACAAA
1 TGATTGTTACTAAATAACTAATTGCTACTGAACAAA
* * *
14259434 TGATTGTTACTGAATAACTAATTGCTACTGAATAAT
1 TGATTGTTACTAAATAACTAATTGCTACTGAACAAA
*
14259470 TGAATGTTACTAAAT
1 TGATTGTTACTAAAT
14259485 GAAACTGATA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (36 bp):
TGATTGTTACTAAATAACTAATTGCTACTGAACAAA
Found at i:14259480 original size:18 final size:18
Alignment explanation
Indices: 14259393--14259480 Score: 56
Period size: 18 Copynumber: 4.9 Consensus size: 18
14259383 CTGATACTAT
*
14259393 ATAATTG-ATCGTTACTAA
1 ATAATTGAAT-GTTACTGA
* *
14259411 ATAACTT-ATTGCTACTGA
1 ATAA-TTGAATGTTACTGA
* * *
14259429 ACAAATGATTGTTACTGA
1 ATAATTGAATGTTACTGA
* *
14259447 ATAACT-AATTGCTACTGA
1 ATAATTGAA-TGTTACTGA
14259465 ATAATTGAATGTTACT
1 ATAATTGAATGTTACT
14259481 AAATGAAACT
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
17 2 0.04
18 46 0.87
19 5 0.09
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
ATAATTGAATGTTACTGA
Found at i:14262811 original size:43 final size:42
Alignment explanation
Indices: 14262746--14262901 Score: 120
Period size: 43 Copynumber: 3.6 Consensus size: 42
14262736 AGCTCGTACA
* * * **
14262746 ATGCCATATCCCAGATATGGTCTTACATGTTATCACAT-ATCG
1 ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATAAT-G
* * *
14262788 ATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATG
1 ATGCCA-TGTCCCAGACATGGTCTTACACGAAATCACATAATG
* * *
14262831 ATGCCAATGTCCCAAACATGGTCTTACAC-ATAACCACA-ATATA
1 ATGCC-ATGTCCCAGACATGGTCTTACACGA-AATCACATA-ATG
* *
14262874 ATTCCAATGTCCAAGACATGGTCTTACA
1 ATGCC-ATGTCCCAGACATGGTCTTACA
14262902 ATCACATCTC
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 8 0.09
43 81 0.88
44 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACACGAAATCACATAATG
Found at i:14265859 original size:17 final size:17
Alignment explanation
Indices: 14265834--14265874 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
14265824 TCTTCATTTA
*
14265834 TACAGATATATCTTA-AT
1 TACATATATAT-TTATAT
14265851 TACATATATATTTATAT
1 TACATATATATTTATAT
14265868 T-CATATA
1 TACATATA
14265875 AAAAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.46
Consensus pattern (17 bp):
TACATATATATTTATAT
Found at i:14279554 original size:6 final size:7
Alignment explanation
Indices: 14279535--14279562 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
14279525 AACGGGAACT
14279535 ATAAAAA
1 ATAAAAA
14279542 ATAAAAA
1 ATAAAAA
14279549 ATAAAAA
1 ATAAAAA
14279556 ATAAAAA
1 ATAAAAA
14279563 GAAGATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
ATAAAAA
Found at i:14290981 original size:14 final size:14
Alignment explanation
Indices: 14290957--14290999 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 14
14290947 TGTTTGTTTG
14290957 CCAGTAAAATATTTT
1 CCAG-AAAATATTTT
14290972 CCAGAAAATATTTT
1 CCAGAAAATATTTT
*
14290986 CTAGAAAATGATTT
1 CCAGAAAAT-ATTT
14291000 ACTTTTCTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (14 bp):
CCAGAAAATATTTT
Found at i:14291007 original size:20 final size:19
Alignment explanation
Indices: 14290982--14291027 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
14290972 CCAGAAAATA
14290982 TTTTCTAGAAAATGATTTAC
1 TTTTCT-GAAAATGATTTAC
* *
14291002 TTTTCTGGAAGTGATTTAC
1 TTTTCTGAAAATGATTTAC
14291021 TTTTCTG
1 TTTTCTG
14291028 GTGTTTGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (19 bp):
TTTTCTGAAAATGATTTAC
Found at i:14297208 original size:44 final size:44
Alignment explanation
Indices: 14297159--14297250 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 44
14297149 CCGAAGTAAC
14297159 AGTAACAGTACGACACACA-AGGTGCCTCATCGACTCGAAG-TCGA
1 AGTAACAGTACGACACACATA-GTGCCTCATCGACTC-AAGTTCGA
** *
14297203 AGTAACAGTACGACACTTATAGTGGCTCATCGACTCAAGTTCGA
1 AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAGTTCGA
14297247 AGTA
1 AGTA
14297251 TCCCTGAACA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 3 0.07
44 39 0.91
45 1 0.02
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACGACACACATAGTGCCTCATCGACTCAAGTTCGA
Found at i:14298137 original size:21 final size:21
Alignment explanation
Indices: 14298107--14298149 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
14298097 CGAATGGTTC
*
14298107 TGTTTCTTTTATGTTTTATTT
1 TGTTTCTTTTATCTTTTATTT
*
14298128 TGTTTGTTTTATCTTTTATTT
1 TGTTTCTTTTATCTTTTATTT
14298149 T
1 T
14298150 TACTTTAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.05, G:0.09, T:0.77
Consensus pattern (21 bp):
TGTTTCTTTTATCTTTTATTT
Found at i:14298393 original size:23 final size:22
Alignment explanation
Indices: 14298359--14298403 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
14298349 CTATTTATTT
14298359 AATGACAAATATAAATATTACA
1 AATGACAAATATAAATATTACA
* * *
14298381 AATGTACACATATATATTTTACA
1 AATG-ACAAATATAAATATTACA
14298404 TTTGTATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.33
Consensus pattern (22 bp):
AATGACAAATATAAATATTACA
Found at i:14298614 original size:29 final size:29
Alignment explanation
Indices: 14298580--14298638 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
14298570 TTGTCTTTTC
*
14298580 TTAATTT-ATTCCATAATATAATAATATAA
1 TTAATTTAATT-CATAATATAATAAAATAA
*
14298609 TTAATTTAATTTATAATATAATAAAATAA
1 TTAATTTAATTCATAATATAATAAAATAA
14298638 T
1 T
14298639 AACAATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (29 bp):
TTAATTTAATTCATAATATAATAAAATAA
Found at i:14298647 original size:29 final size:29
Alignment explanation
Indices: 14298592--14298647 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
14298582 AATTTATTCC
* **
14298592 ATAATATAATAATATAATTAATTTAATTT
1 ATAATATAATAAAATAATTAAAATAATTT
14298621 ATAATATAATAAAATAA-TAACAATAAT
1 ATAATATAATAAAATAATTAA-AATAAT
14298648 AATATATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (29 bp):
ATAATATAATAAAATAATTAAAATAATTT
Found at i:14298659 original size:37 final size:37
Alignment explanation
Indices: 14298592--14298662 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
14298582 AATTTATTCC
* * *
14298592 ATAATATAATAATATAATTAATTTAATTTATAATATA
1 ATAAAATAATAAAATAATTAATATAATTTATAATATA
*
14298629 ATAAAATAATAACAATAA-TAATATATTTTATAAT
1 ATAAAATAATAA-AATAATTAATATAATTTATAAT
14298663 TAAGCAATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 25 0.86
38 4 0.14
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (37 bp):
ATAAAATAATAAAATAATTAATATAATTTATAATATA
Found at i:14299914 original size:6 final size:6
Alignment explanation
Indices: 14299903--14299934 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
14299893 GTCAAGGATG
*
14299903 GGGGAA GGGGAA GGGGAA GGGGAA GGGAAA GG
1 GGGGAA GGGGAA GGGGAA GGGGAA GGGGAA GG
14299935 AAAAGGGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (6 bp):
GGGGAA
Found at i:14299940 original size:18 final size:18
Alignment explanation
Indices: 14299903--14299947 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
14299893 GTCAAGGATG
* **
14299903 GGGGAAGGGGAAGGGGAA
1 GGGGAAGGGAAAGGAAAA
14299921 GGGGAAGGGAAAGGAAAA
1 GGGGAAGGGAAAGGAAAA
*
14299939 GGGAAAGGG
1 GGGGAAGGG
14299948 CAGATCGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (18 bp):
GGGGAAGGGAAAGGAAAA
Found at i:14303977 original size:49 final size:49
Alignment explanation
Indices: 14303899--14304019 Score: 129
Period size: 49 Copynumber: 2.5 Consensus size: 49
14303889 GTGTCAATGT
*
14303899 CCTGTCTGGGACACGGCATCGACACCGATAGATGAGAGCCAGTGTAAGA
1 CCTGTCTGGGACACGGCATCGACACCGATAGATGAAAGCCAGTGTAAGA
* * * *
14303948 CCTGTCTGGGATATGGCATC-AGC-CTCGATATATGAAAGGCAGTGTAAGA
1 CCTGTCTGGGACACGGCATCGA-CAC-CGATAGATGAAAGCCAGTGTAAGA
** * *
14303997 TATGTTTGGGACACGGTATCGAC
1 CCTGTCTGGGACACGGCATCGAC
14304020 TTTAATGTAC
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
48 2 0.03
49 55 0.95
50 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (49 bp):
CCTGTCTGGGACACGGCATCGACACCGATAGATGAAAGCCAGTGTAAGA
Found at i:14305951 original size:29 final size:28
Alignment explanation
Indices: 14305874--14306068 Score: 130
Period size: 29 Copynumber: 6.8 Consensus size: 28
14305864 CGTGTCTCTT
*
14305874 ATTTTTTAGATTTTACAGTTTTGCTCC-T-
1 ATTTTTTAGATTTTACAATTTT-C-CCTTA
* * * *
14305902 ATTTTTTAAAATTTAAAAATTTTTCCTTA
1 ATTTTTT-AGATTTTACAATTTTCCCTTA
* *
14305931 TTTTTTTAGATATTT-CTAATTTTACCCTTG
1 ATTTTTTAGAT-TTTAC-AATTTT-CCCTTA
*
14305961 ATTTTTT-GATTTTACAAATTTACCCTTA
1 ATTTTTTAGATTTTAC-AATTTTCCCTTA
* *
14305989 ATTTTTTAGATTTTACAATTTTTCTCTAA
1 ATTTTTTAGATTTTACAA-TTTTCCCTTA
* * *
14306018 ATTTTTTAGATTTTATAGTTTTGTCCCCT-
1 ATTTTTTAGATTTTACA-ATTT-TCCCTTA
* *
14306047 ATTTTTCAAATTTTACAATTTT
1 ATTTTTTAGATTTTACAATTTT
14306069 GACCTAAAAT
Statistics
Matches: 129, Mismatches: 27, Indels: 23
0.72 0.15 0.13
Matches are distributed among these distances:
27 3 0.02
28 31 0.24
29 82 0.64
30 13 0.10
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.57
Consensus pattern (28 bp):
ATTTTTTAGATTTTACAATTTTCCCTTA
Found at i:14306024 original size:58 final size:56
Alignment explanation
Indices: 14305874--14306032 Score: 151
Period size: 58 Copynumber: 2.8 Consensus size: 56
14305864 CGTGTCTCTT
* * * * **
14305874 ATTTTTTAGATTTTACAGTTTTGCTCCTATTTTTTAAAATTTAAAAATTTTTCCTTA
1 ATTTTTTAGATTTTACAATTTTACT-CTATTTTTTAGATTTTAAAAATTTACCCTTA
* * *
14305931 TTTTTTTAGATATTT-CTAATTTTACCCTTGATTTTTT-GATTTTACAAATTTACCCTTA
1 ATTTTTTAGAT-TTTAC-AATTTTACTC-T-ATTTTTTAGATTTTAAAAATTTACCCTTA
*
14305989 ATTTTTTAGATTTTACAATTTTTCTCTAAATTTTTTAGATTTTA
1 ATTTTTTAGATTTTACAATTTTACTCT--ATTTTTTAGATTTTA
14306033 TAGTTTTGTC
Statistics
Matches: 82, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
56 1 0.01
57 30 0.37
58 44 0.54
59 7 0.09
ACGTcount: A:0.26, C:0.11, G:0.05, T:0.58
Consensus pattern (56 bp):
ATTTTTTAGATTTTACAATTTTACTCTATTTTTTAGATTTTAAAAATTTACCCTTA
Found at i:14306341 original size:84 final size:84
Alignment explanation
Indices: 14306192--14306346 Score: 238
Period size: 84 Copynumber: 1.8 Consensus size: 84
14306182 ATGAGTCGAT
* * * * * *
14306192 TGAACCAAGTGGCATTTTGTTTAATTTGCAAATATGTTGTGCTCTCACAACAAGTGGCAGCAACT
1 TGAACCAAGTGGCATTTTGTCTAATCTACAAATATGTTGTGCACCCACAACAAGTGACAGCAACT
14306257 GCAAATATGTGGTTTGATA
66 GCAAATATGTGGTTTGATA
* *
14306276 TGAACCAAGTGGCATTTTGTCTAATCTACAAATATGTTTTGCACCCACAACAAGTGACAGTAACT
1 TGAACCAAGTGGCATTTTGTCTAATCTACAAATATGTTGTGCACCCACAACAAGTGACAGCAACT
14306341 GCAAAT
66 GCAAAT
14306347 CAACAGTCGT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 63 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (84 bp):
TGAACCAAGTGGCATTTTGTCTAATCTACAAATATGTTGTGCACCCACAACAAGTGACAGCAACT
GCAAATATGTGGTTTGATA
Found at i:14306756 original size:17 final size:16
Alignment explanation
Indices: 14306729--14306761 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
14306719 AACTCACTCC
14306729 CTTTTATAAAACCCAT
1 CTTTTATAAAACCCAT
14306745 CTTTTCATAAAACCCAT
1 CTTTT-ATAAAACCCAT
14306762 TAGGTAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (16 bp):
CTTTTATAAAACCCAT
Found at i:14311420 original size:22 final size:22
Alignment explanation
Indices: 14311395--14311439 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
14311385 TAAATTGCCA
14311395 TTGTTATTTTAATTTCTTATTC
1 TTGTTATTTTAATTTCTTATTC
14311417 TTGTTATTTTAATTTCTTATTC
1 TTGTTATTTTAATTTCTTATTC
14311439 T
1 T
14311440 GTGCATAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.09, G:0.04, T:0.69
Consensus pattern (22 bp):
TTGTTATTTTAATTTCTTATTC
Found at i:14314307 original size:31 final size:31
Alignment explanation
Indices: 14314240--14314307 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
14314230 ATAAACTATT
* *
14314240 AAAATTATAAAATTATATTTTCACTATCATA
1 AAAATTATAAAATTATATTTTAACTATCAAA
*
14314271 AAAATTAT-AAATTA-ATTTTAACTCTCTAAA
1 AAAATTATAAAATTATATTTTAACTATC-AAA
14314301 AGAAATT
1 A-AAATT
14314308 TTTAACTTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 10 0.31
30 9 0.28
31 13 0.41
ACGTcount: A:0.50, C:0.09, G:0.01, T:0.40
Consensus pattern (31 bp):
AAAATTATAAAATTATATTTTAACTATCAAA
Found at i:14328942 original size:44 final size:44
Alignment explanation
Indices: 14328018--14328927 Score: 1739
Period size: 44 Copynumber: 20.6 Consensus size: 44
14328008 TATGTGAGCC
* * ** **
14328018 AGTGTAAGACATGTCTGGGACATGCATCGACCATATTATGAAATGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGA--TTACGA-GATGTGCT
14328065 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328109 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328153 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328197 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328241 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328285 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328329 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328373 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328417 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328461 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328505 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328549 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328593 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328637 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328681 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328725 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328769 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328813 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328857 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
14328901 AGTGTAAGACATGTCTGGGACATGCAT
1 AGTGTAAGACATGTCTGGGACATGCAT
14328928 CAGTACGGAT
Statistics
Matches: 857, Mismatches: 6, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
44 825 0.96
45 3 0.00
47 29 0.03
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATTGATTACGAGATGTGCT
Found at i:14333235 original size:12 final size:12
Alignment explanation
Indices: 14333218--14333249 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
14333208 ATCTTTTCAC
14333218 ATCTTTGACATA
1 ATCTTTGACATA
14333230 ATCTTTGACATA
1 ATCTTTGACATA
14333242 ATCTTTGA
1 ATCTTTGA
14333250 ATTACCTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (12 bp):
ATCTTTGACATA
Found at i:14333385 original size:43 final size:41
Alignment explanation
Indices: 14333337--14333438 Score: 100
Period size: 41 Copynumber: 2.4 Consensus size: 41
14333327 CCAAAATATA
* * *
14333337 GTCTTACATGAGATCACATATCGGTGTCGATAG-CCCAG-CTATG
1 GTCTTACATGAAATCACATAT-GATG-CCAT-GTCCCAGAC-ATG
* * *
14333380 GTCTTACACGATATCTCATATGATGCCATGTCCCAGACATG
1 GTCTTACATGAAATCACATATGATGCCATGTCCCAGACATG
14333421 GTCTTACATGAAATCACA
1 GTCTTACATGAAATCACA
14333439 CATAACTCTA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
40 1 0.02
41 26 0.53
42 4 0.08
43 18 0.37
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (41 bp):
GTCTTACATGAAATCACATATGATGCCATGTCCCAGACATG
Found at i:14338332 original size:37 final size:37
Alignment explanation
Indices: 14338232--14338334 Score: 152
Period size: 37 Copynumber: 2.8 Consensus size: 37
14338222 CAAATAGTCC
* * **
14338232 CCACACGTAGTTATCGGGTTTTACCTAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
14338269 CCACACATAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
14338306 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
14338335 ATATATTTCC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:14338533 original size:48 final size:48
Alignment explanation
Indices: 14338475--14338992 Score: 598
Period size: 48 Copynumber: 11.0 Consensus size: 48
14338465 ATATACACAC
*
14338475 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
14338523 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACAACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
14338571 TTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
14338619 TTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
14338667 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCTCATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * * * * *
14338715 ATCTCATTCGA-CTTT-AC-C-A--CATAT--AC-ATATCTC--ATACAT
1 ATCTCATAC-ATATTTCACACTAGCCAT-TCGGCTTTACCACATATACAT
* * ** ** * ** * ** * * *
14338754 ATTTCACAC-TA-GCCATTC-GGCTTTACCACATATA-TATATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGC-TTTACCACATATACAT
*
14338799 TTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
14338847 TTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
14338895 TTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
14338943 TTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
14338991 AT
1 AT
14338993 TTATCTTGTA
Statistics
Matches: 405, Mismatches: 48, Indels: 34
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.00
39 13 0.03
41 6 0.01
42 3 0.01
43 3 0.01
44 4 0.01
45 13 0.03
46 2 0.00
47 8 0.02
48 351 0.87
49 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:14338723 original size:28 final size:28
Alignment explanation
Indices: 14338691--14338749 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
14338681 TCACATTAGC
* *
14338691 CATTCGGCTTTACCTCATATACATATCT
1 CATTCGACTTTACCACATATACATATCT
14338719 CATTCGACTTTACCACATATACATATCT
1 CATTCGACTTTACCACATATACATATCT
14338747 CAT
1 CAT
14338750 ACATATTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.37
Consensus pattern (28 bp):
CATTCGACTTTACCACATATACATATCT
Found at i:14338730 original size:76 final size:76
Alignment explanation
Indices: 14338643--14338792 Score: 255
Period size: 76 Copynumber: 2.0 Consensus size: 76
14338633 TCACACTAGC
* * * *
14338643 CATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCTCA
1 CATTCGACTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
14338708 TATACATATCT
66 TATACATATCT
14338719 CATTCGACTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
1 CATTCGACTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
*
14338784 TATATATAT
66 TATACATAT
14338793 ATACATTTCT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.37
Consensus pattern (76 bp):
CATTCGACTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
TATACATATCT
Found at i:14338748 original size:124 final size:125
Alignment explanation
Indices: 14338595--14338853 Score: 385
Period size: 124 Copynumber: 2.0 Consensus size: 125
14338585 TCACACTAGC
* *
14338595 CATTCGGCTTTACCACATATACATTTCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC-
1 CATTCGACTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
* * *
14338659 ATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCTCATATACATATCT
66 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
14338719 CATTCGACTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
1 CATTCGACTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC-
* *
14338784 TATATATATATACATTTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATTT
65 -----A-ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
14338849 CT
124 CT
14338851 CAT
1 CAT
14338854 ACATATTTCA
Statistics
Matches: 120, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
124 62 0.52
132 58 0.48
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (125 bp):
CATTCGACTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
Found at i:14338862 original size:180 final size:172
Alignment explanation
Indices: 14338547--14338901 Score: 566
Period size: 180 Copynumber: 2.0 Consensus size: 172
14338537 TCACACTAGC
* *
14338547 CATTCGGCTTTACAACATATACATTTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
1 CATTCGACTTTACAACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
*
14338612 TATACATTTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
66 TATACATTTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACA
* *
14338677 TATTTCACATTAGCCATTCGGCTTTACCTCATATACATATCT
131 TATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
*
14338719 CATTCGACTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
1 CATTCGACTTTACAACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC-
*
14338784 TATATATATATACATTTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATTT
65 -------ATATACATTTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
*
14338849 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATTTCT
123 CTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
14338899 CAT
1 CAT
14338902 ACATATTTCA
Statistics
Matches: 167, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
172 61 0.37
180 106 0.63
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (172 bp):
CATTCGACTTTACAACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
TATACATTTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACA
TATTTCACACTAGCCATTCGGCTTTACCACATATACATATCT
Found at i:14338966 original size:276 final size:268
Alignment explanation
Indices: 14338475--14338992 Score: 901
Period size: 276 Copynumber: 1.9 Consensus size: 268
14338465 ATATACACAC
*
14338475 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
14338540 CACTAGCCATTCGGCTTTACAACATATACATTTCTCATACATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCGGCTTTACAACATATACATTTCTCATACATATTTCACACTAGCCATTCGGCTT
14338605 TACCACATATACATTTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATC
131 TACCACATATACATTTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATC
* *
14338670 TCATATATATTTCACATTAGCCATTCGGCTTTACCTCATATACATATCTCATTCGACTTTACCAC
196 TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATTCGACTTTACCAC
14338735 ATATACAT
261 ATATACAT
*
14338743 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATATATATATACATTTCTCATAC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC--------ATATACATATCTCATAC
*
14338808 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATTTCTCATACATATTTCACACTAGCCA
58 ATATTTCACACTAGCCATTCGGCTTTACAACATATACATTTCTCATACATATTTCACACTAGCCA
14338873 TTCGGCTTTACCACATATACATTTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATA
123 TTCGGCTTTACCACATATACATTTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATA
* *
14338938 TACATTTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATAT
188 TACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
14338993 TTATCTTGTA
Statistics
Matches: 235, Mismatches: 7, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
268 39 0.17
276 196 0.83
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (268 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CACTAGCCATTCGGCTTTACAACATATACATTTCTCATACATATTTCACACTAGCCATTCGGCTT
TACCACATATACATTTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATC
TCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATTCGACTTTACCAC
ATATACAT
Found at i:14341002 original size:28 final size:28
Alignment explanation
Indices: 14340936--14341092 Score: 215
Period size: 29 Copynumber: 5.5 Consensus size: 28
14340926 CATGAGATTG
* * **
14340936 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
14340965 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
14340993 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
*
14341022 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
14341051 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
14341079 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
14341093 GACTTACTAT
Statistics
Matches: 118, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
28 45 0.38
29 73 0.62
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:14341025 original size:57 final size:58
Alignment explanation
Indices: 14340936--14341091 Score: 219
Period size: 57 Copynumber: 2.7 Consensus size: 58
14340926 CATGAGATTG
* * * *
14340936 GCACTAAGTGTGCGGGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATAT-A
1 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCAAGTTTGATTATATAA
* *
14340993 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCAAGTTTGATTATATAA
*
14341051 GCACTAAGTGTGCGAGTTTGATTATATAA-CACTAAGTGTGC
1 GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGC
14341092 GGACTTACTA
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
57 58 0.64
58 32 0.36
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGTTTGATTATGTAAGCACTAAGTGTGCAAGTTTGATTATATAA
Found at i:14348486 original size:40 final size:39
Alignment explanation
Indices: 14348402--14348626 Score: 249
Period size: 40 Copynumber: 5.7 Consensus size: 39
14348392 TTGAATGATG
* * *
14348402 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAT
*
14348441 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTGAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT-AT
* * * *
14348482 TCCGGGTTAAG-CCCGAAGGCATTGGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
*
14348521 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
* *
14348560 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
* *
14348600 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
14348627 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 35 0.22
40 117 0.72
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
Found at i:14348545 original size:79 final size:80
Alignment explanation
Indices: 14348403--14348776 Score: 264
Period size: 80 Copynumber: 4.8 Consensus size: 80
14348393 TGAATGATGT
* * * * *
14348403 CCGGGCTAAGTCCCGAAGGCTTTGTGCTA--AGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTG-G-TACGAGTCACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
14348465 TTGTGCGAGTTACTGAT-T
63 TTGTGCGAGTTACT-ATAA
* * *
14348483 CCGGGTTAAG-CCCGAAGGCATTGGTACGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTGGTACGAGTCACTATAA-CCGGGCTAAGTCCCGAAGGCATTT
14348546 GTGCGAGTTACTATAA
65 GTGCGAGTTACTATAA
* * *
14348562 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTGGTACGAGTCACTATAACCGGGCTAAGTCCCGAAGGCATTTG
** *
14348627 AACGAG-TAGCTATAT
66 TGCGAGTTA-CTATAA
* * * * * **
14348642 CC-GGTTAAATTCCG-A---A--GGTAC--GTGA-TTTGTCCGGGCTAAGTCCCGAAGGC-TTTG
1 CCGGGCTAAGTCCCGAAGGCATTGGTACGAGTCACTATAACCGGGCTAAGTCCCGAAGGCATTTG
* * * *
14348696 TGCTAAGTGACCATAT
66 TGC-GAGTTACTATAA
* * * * *
14348712 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 CCGGGCTAAG-TCCCGAAGGCATTGGTACGAGTCACTATAACCGGGCTAAGTCCCGAAGGCATTT
14348776 G
65 G
14348777 AATGAGTAGC
Statistics
Matches: 230, Mismatches: 42, Indels: 43
0.73 0.13 0.14
Matches are distributed among these distances:
69 5 0.02
70 30 0.13
71 11 0.05
72 2 0.01
73 3 0.01
75 2 0.01
77 5 0.02
78 6 0.03
79 73 0.32
80 87 0.38
81 6 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTACGAGTCACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAA
Found at i:14348579 original size:119 final size:120
Alignment explanation
Indices: 14348402--14348659 Score: 303
Period size: 119 Copynumber: 2.2 Consensus size: 120
14348392 TTGAATGATG
* *
14348402 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* * * *
14348467 GTGCGAGTTACTGAT-TCCGGGTTAAG-CCCGAAGGCATTGGTACGAGTTA-CTAAA
66 GTGCGAGTCACT-ATAACCGGGCTAAGTCCCGAAGGCATTGGAACGAG-TAGCTAAA
* * * *
14348521 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* * *
14348584 TTGTGCGAGTCACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTGCGAGTCACTATAACCGGGCTAAGTCCCGAAGGCATTGGAACGAGTAGCTAAA
* *
14348641 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
14348660 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 32 0.27
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTCACTATAACCGGGCTAAGTCCCGAAGGCATTGGAACGAGTAGCTAAA
Found at i:14348640 original size:80 final size:80
Alignment explanation
Indices: 14348402--14348645 Score: 275
Period size: 80 Copynumber: 3.1 Consensus size: 80
14348392 TTGAATGATG
* * * * *
14348402 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTCACTATAACCGGGCTAAG-TCCCGAAGGCAT
14348465 TTGTGCGAGTTACTGAT-
64 TTGTGCGAGTTACT-ATA
* * * * *
14348482 TCCGGGTTAAG-CCCGAAGGCATTGGTACGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA-CCGGGCTAAGTCCCGAAGGCATT
14348545 TGTGCGAGTTACTATA
65 TGTGCGAGTTACTATA
* *
14348561 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAACCGGGCTAAGTCCCGAAGGCATTT
**
14348626 GAACGAG-TAGCTATA
66 GTGCGAGTTA-CTATA
14348641 TCCGG
1 TCCGG
14348646 TTAAATTCCG
Statistics
Matches: 138, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
78 4 0.03
79 58 0.42
80 74 0.54
81 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:14348768 original size:40 final size:41
Alignment explanation
Indices: 14348672--14348776 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 41
14348662 CGTGATTTGT
*
14348672 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
* * * *
14348712 CCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACCATAA
*
14348752 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
14348777 AATGAGTAGC
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 46 0.84
41 8 0.15
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATAA
Found at i:14348792 original size:150 final size:150
Alignment explanation
Indices: 14348521--14348818 Score: 483
Period size: 150 Copynumber: 2.0 Consensus size: 150
14348511 AGTTACTAAA
* * * * *
14348521 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACCATAACCGGACTAAGTCCCGAAGGCATTT
14348586 GTGCGAGTCACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAA
66 GTGCGAGTCACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAA
14348651 TTCCGAAGGTACGTGATTTG
131 TTCCGAAGGTACGTGATTTG
*
14348671 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTGACCATAACCGGACTAAG-TCCCGAAGGCAT
* *
14348734 TTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAATGAGTAGCTATATCCGGTTA
64 TTGTGCGAGTCACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTA
*
14348799 AATTCTGAAGGTACGTGATT
129 AATTCCGAAGGTACGTGATT
14348819 CGGGAATGAA
Statistics
Matches: 137, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
149 7 0.05
150 129 0.94
151 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (150 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACCATAACCGGACTAAGTCCCGAAGGCATTT
GTGCGAGTCACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAA
TTCCGAAGGTACGTGATTTG
Found at i:14352359 original size:38 final size:38
Alignment explanation
Indices: 14352309--14352424 Score: 146
Period size: 38 Copynumber: 3.0 Consensus size: 38
14352299 TTAAAAACAA
*
14352309 ATATTAAAGATGTTCAAACTATGACATAATTAAAGAC-C
1 ATATTAATGATGTTCAAA-TATGACATAATTAAAGACTC
*
14352347 ATATTAATGATGTTCAGATTATGACATAATTAAA-ACTC
1 ATATTAATGATGTTCA-AATATGACATAATTAAAGACTC
* **
14352385 ATATTAATGATGATCAAATAAAAACATAATTAAAGACTC
1 ATATTAATGATGTTCAAAT-ATGACATAATTAAAGACTC
14352424 A
1 A
14352425 AACTATAATA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
37 4 0.06
38 58 0.85
39 6 0.09
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.31
Consensus pattern (38 bp):
ATATTAATGATGTTCAAATATGACATAATTAAAGACTC
Found at i:14356079 original size:65 final size:66
Alignment explanation
Indices: 14356004--14356135 Score: 248
Period size: 65 Copynumber: 2.0 Consensus size: 66
14355994 CCGAATTATA
*
14356004 ATATAATCGAATGTGGTTTTACACAATAGTGATGTGATAAGTTTAAA-TTGGTTCATTAGCTCAA
1 ATATAATCGAATATGGTTTTACACAATAGTGATGTGATAAGTTTAAATTTGGTTCATTAGCTCAA
14356068 G
66 G
14356069 ATATAATCGAATATGGTTTTACACAATAGTGATGTGATAAGTTTAAATTTGGTTCATTAGCTCAA
1 ATATAATCGAATATGGTTTTACACAATAGTGATGTGATAAGTTTAAATTTGGTTCATTAGCTCAA
14356134 G
66 G
14356135 A
1 A
14356136 ACTCAAGGAA
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
65 46 0.71
66 19 0.29
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (66 bp):
ATATAATCGAATATGGTTTTACACAATAGTGATGTGATAAGTTTAAATTTGGTTCATTAGCTCAA
G
Found at i:14357093 original size:47 final size:47
Alignment explanation
Indices: 14357012--14357405 Score: 574
Period size: 47 Copynumber: 8.4 Consensus size: 47
14357002 AATGTGAAAG
*
14357012 TGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
14357060 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
14357107 GGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
14357154 TGTATATGGGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACG
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* *
14357201 TGTGTATGTGTGATAAAGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
*
14357248 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * *
14357295 TGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * *
14357342 TGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-A
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
**
14357388 GTGTATAAATGTGATAAG
1 -TGTATATGTGTGATAAG
14357406 TCCCGAAGGG
Statistics
Matches: 315, Mismatches: 30, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
46 1 0.00
47 302 0.96
48 12 0.04
ACGTcount: A:0.32, C:0.10, G:0.32, T:0.27
Consensus pattern (47 bp):
TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
Found at i:14357095 original size:22 final size:22
Alignment explanation
Indices: 14357068--14357142 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
14357058 CATGTATATG
14357068 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ** *
14357090 TGTGATGAATG-TGAATAGGTGTATG
1 TGTGAT-AAGGCCGAAT-GG-CCA-A
14357115 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
14357137 TGTGAT
1 TGTGAT
14357143 GAAAGTGAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 16 0.42
23 6 0.16
24 6 0.16
25 10 0.26
ACGTcount: A:0.29, C:0.11, G:0.33, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:14357580 original size:37 final size:37
Alignment explanation
Indices: 14357524--14357603 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
14357514 CCGGGCTCTA
* * *
14357524 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
14357561 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
14357598 AAGACT
1 AAGACT
14357604 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:14357971 original size:115 final size:115
Alignment explanation
Indices: 14357769--14358000 Score: 403
Period size: 115 Copynumber: 2.0 Consensus size: 115
14357759 TATCGGATCA
* *
14357769 GTGTGAGAGGTGATGTGAAATCATACGATACATCTATGTCACATGAGCTCACTTTTATGTGAAAG
1 GTGTGAGAGGTGATGGGAAATCATACGATACATCTATGTCACATGAGCTCACTTTTACGTGAAAG
* *
14357834 TTTATCTGCCTATTGTATATGATGAGATGTGCAG-ATTCGGTAAAGGGATG
66 TTTATCTGCCTATTGTATATGATGAGACGTGC-GTATTCGGAAAAGGGATG
*
14357884 GTGTGAGAGGTGATGGGAAATCATACGATATATCTATGTCACATGAGCTCACTTTTACGTGAAAG
1 GTGTGAGAGGTGATGGGAAATCATACGATACATCTATGTCACATGAGCTCACTTTTACGTGAAAG
14357949 TTTATCTGCCTATTGTATATGATGAGACGTGCGTATTCGGAAAAGGGATG
66 TTTATCTGCCTATTGTATATGATGAGACGTGCGTATTCGGAAAAGGGATG
14357999 GT
1 GT
14358001 ATGCCCGAAG
Statistics
Matches: 111, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
114 1 0.01
115 110 0.99
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.32
Consensus pattern (115 bp):
GTGTGAGAGGTGATGGGAAATCATACGATACATCTATGTCACATGAGCTCACTTTTACGTGAAAG
TTTATCTGCCTATTGTATATGATGAGACGTGCGTATTCGGAAAAGGGATG
Found at i:14361348 original size:66 final size:66
Alignment explanation
Indices: 14361242--14361574 Score: 666
Period size: 66 Copynumber: 5.0 Consensus size: 66
14361232 TGTTCTTAAT
14361242 TCTTGTTTTGATATCCCAGGATACTGATCCAAGACACGCTCTTATTCAGAGGAGGAATAGACCCT
1 TCTTGTTTTGATATCCCAGGATACTGATCCAAGACACGCTCTTATTCAGAGGAGGAATAGACCCT
14361307 G
66 G
14361308 TCTTGTTTTGATATCCCAGGATACTGATCCAAGACACGCTCTTATTCAGAGGAGGAATAGACCCT
1 TCTTGTTTTGATATCCCAGGATACTGATCCAAGACACGCTCTTATTCAGAGGAGGAATAGACCCT
14361373 G
66 G
14361374 TCTTGTTTTGATATCCCAGGATACTGATCCAAGACACGCTCTTATTCAGAGGAGGAATAGACCCT
1 TCTTGTTTTGATATCCCAGGATACTGATCCAAGACACGCTCTTATTCAGAGGAGGAATAGACCCT
14361439 G
66 G
14361440 TCTTGTTTTGATATCCCAGGATACTGATCCAAGACACGCTCTTATTCAGAGGAGGAATAGACCCT
1 TCTTGTTTTGATATCCCAGGATACTGATCCAAGACACGCTCTTATTCAGAGGAGGAATAGACCCT
14361505 G
66 G
14361506 TCTTGTTTTGATATCCCAGGATACTGATCCAAGACACGCTCTTATTCAGAGGAGGAATAGACCCT
1 TCTTGTTTTGATATCCCAGGATACTGATCCAAGACACGCTCTTATTCAGAGGAGGAATAGACCCT
14361571 G
66 G
14361572 TCT
1 TCT
14361575 AAAAGTACAT
Statistics
Matches: 267, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 267 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (66 bp):
TCTTGTTTTGATATCCCAGGATACTGATCCAAGACACGCTCTTATTCAGAGGAGGAATAGACCCT
G
Found at i:14365572 original size:17 final size:17
Alignment explanation
Indices: 14365552--14365584 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
14365542 CTTTTATTAA
14365552 GTTTTTAAGATTCATTC
1 GTTTTTAAGATTCATTC
14365569 GTTTTTAAGATTCATT
1 GTTTTTAAGATTCATT
14365585 TGTTCTCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.12, T:0.55
Consensus pattern (17 bp):
GTTTTTAAGATTCATTC
Found at i:14378263 original size:40 final size:40
Alignment explanation
Indices: 14378208--14378349 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 40
14378198 TATTCGAATG
14378208 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
14378248 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
14378288 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
14378328 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
14378350 TACTTGGGTT
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 14 0.15
40 79 0.83
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:14385911 original size:40 final size:39
Alignment explanation
Indices: 14385856--14385934 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 39
14385846 GGTTGATAGC
14385856 AGGAATAAGGAGTATAAACTCCTCGAACCACCCTGACCA
1 AGGAATAAGGAGTATAAACTCCTCGAACCACCCTGACCA
*
14385895 NAGGAATGAGGAGTATAAACTCCTCGAACCACCCTGACCA
1 -AGGAATAAGGAGTATAAACTCCTCGAACCACCCTGACCA
14385935 TTCACTAGAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.15
Consensus pattern (39 bp):
AGGAATAAGGAGTATAAACTCCTCGAACCACCCTGACCA
Found at i:14386818 original size:11 final size:11
Alignment explanation
Indices: 14386792--14386826 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
14386782 AAAAAATTAG
14386792 ATTTTTATTTT
1 ATTTTTATTTT
*
14386803 A-TTTTGTTTT
1 ATTTTTATTTT
14386813 ATTTTTATTTT
1 ATTTTTATTTT
14386824 ATT
1 ATT
14386827 AAGTTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:14386832 original size:21 final size:21
Alignment explanation
Indices: 14386792--14386833 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
14386782 AAAAAATTAG
**
14386792 ATTTTTATTTTATTTTGTTTT
1 ATTTTTATTTTATTAAGTTTT
14386813 ATTTTTATTTTATTAAGTTTT
1 ATTTTTATTTTATTAAGTTTT
14386834 TAAGATTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.76
Consensus pattern (21 bp):
ATTTTTATTTTATTAAGTTTT
Found at i:14386849 original size:17 final size:17
Alignment explanation
Indices: 14386829--14386861 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
14386819 ATTTTATTAA
14386829 GTTTTTAAGATTCATTC
1 GTTTTTAAGATTCATTC
14386846 GTTTTTAAGATTCATT
1 GTTTTTAAGATTCATT
14386862 TGTTCTCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.12, T:0.55
Consensus pattern (17 bp):
GTTTTTAAGATTCATTC
Found at i:14388985 original size:50 final size:50
Alignment explanation
Indices: 14388853--14389144 Score: 307
Period size: 50 Copynumber: 5.8 Consensus size: 50
14388843 ATAACCGAAG
* * *
14388853 CTATTTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
* * * *
14388902 CAATCCGGTACACTTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
* * * * ** * *
14388952 CCATCTGATACACGTAGTAGCCTACACTTAGTACTACACACGTTATCGAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
* * * ** *
14389002 GTTGTCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
1 -CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
* *
14389053 CTATCTGGTACACGTAGTAGCCTGCACTTAGTATTACACACGCGACCTAAAA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCT--AA
*** *
14389105 CTATCTTAAACACATAGTAGCCTGCACATAGTACTACACA
1 CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
14389145 TGTGTTCTCA
Statistics
Matches: 196, Mismatches: 43, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
49 40 0.20
50 84 0.43
51 36 0.18
52 36 0.18
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
CTATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
Found at i:14389453 original size:24 final size:22
Alignment explanation
Indices: 14389426--14389475 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
14389416 GCCCGAATCT
14389426 CATTTACCTTTATCTATAATA-TCA
1 CATTTACC-TTA-CTA-AATAGTCA
*
14389450 CATTTAGCTTACTAAATAGTCA
1 CATTTACCTTACTAAATAGTCA
14389472 CATT
1 CATT
14389476 ATTCATATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 4 0.17
22 10 0.42
23 3 0.12
24 7 0.29
ACGTcount: A:0.34, C:0.20, G:0.04, T:0.42
Consensus pattern (22 bp):
CATTTACCTTACTAAATAGTCA
Found at i:14392652 original size:39 final size:40
Alignment explanation
Indices: 14392609--14392776 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
14392599 CTCGTTCAAG
* * * *
14392609 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
14392648 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
14392688 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
14392728 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
14392768 TGCCTTCGG
1 TGCCTTCGG
14392777 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:14392760 original size:80 final size:80
Alignment explanation
Indices: 14392644--14392829 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
14392634 AGTAACTCAT
* * *
14392644 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
14392708 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
14392723 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
14392787 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
14392804 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
14392830 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:14392789 original size:40 final size:40
Alignment explanation
Indices: 14392646--14392829 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
14392636 TAACTCATAC
* *
14392646 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
14392686 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
14392726 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
14392766 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
14392807 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
14392830 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:14396431 original size:40 final size:40
Alignment explanation
Indices: 14396386--14396526 Score: 167
Period size: 40 Copynumber: 3.5 Consensus size: 40
14396376 AGGTATAAAT
* *
14396386 AGGGCACGTATGTGCATTCGGGGGTACCAAAGTACAAAAA
1 AGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAAAA
** * *
14396426 AGGGCATATATGTGCACTCAGGGGTACCGAAGTAC-AAAC
1 AGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAAAA
* ** *
14396465 AGGGCCACGTATGTGCATTCAGGGGCATTGAAGTACAAACA
1 AGGG-CACGTATGTGCATTCAGGGGTACCGAAGTACAAAAA
*
14396506 TGGGCACGTATGTGCATTCAG
1 AGGGCACGTATGTGCATTCAG
14396527 TAATAGTTAT
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
39 7 0.08
40 72 0.86
41 5 0.06
ACGTcount: A:0.31, C:0.19, G:0.30, T:0.20
Consensus pattern (40 bp):
AGGGCACGTATGTGCATTCAGGGGTACCGAAGTACAAAAA
Found at i:14396499 original size:80 final size:79
Alignment explanation
Indices: 14396364--14396526 Score: 184
Period size: 80 Copynumber: 2.1 Consensus size: 79
14396354 GCTATTTGAT
* * * * *
14396364 TCAGGGTTACCAAGGTATAAATAGGGCACGTATGTGCATTCGGGGGTACCAAAGTACAAAAAAGG
1 TCAGGGGTACCAAGGTACAAACAGGGCACGTATGTGCATTCAGGGGCACCAAAGTACAAAAAAGG
*
14396429 GCATATATGTGCAC
66 GCACATATGTGCAC
*** * *
14396443 TCAGGGGTACCGAA-GTACAAACAGGGCCACGTATGTGCATTCAGGGGCATTGAAGTACAAACAT
1 TCAGGGGTACC-AAGGTACAAACAGGG-CACGTATGTGCATTCAGGGGCACCAAAGTACAAAAAA
* *
14396507 GGGCACGTATGTGCAT
64 GGGCACATATGTGCAC
14396523 TCAG
1 TCAG
14396527 TAATAGTTAT
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
79 20 0.29
80 49 0.71
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (79 bp):
TCAGGGGTACCAAGGTACAAACAGGGCACGTATGTGCATTCAGGGGCACCAAAGTACAAAAAAGG
GCACATATGTGCAC
Found at i:14400427 original size:21 final size:22
Alignment explanation
Indices: 14400386--14400428 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14400376 CATGATGATG
*
14400386 TCAATGCAAACCTTTTTAGAAA
1 TCAATGCAAACCTTTTCAGAAA
*
14400408 TCAATGCAAA-GTTTTCAGAAA
1 TCAATGCAAACCTTTTCAGAAA
14400429 ACGTTCCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (22 bp):
TCAATGCAAACCTTTTCAGAAA
Found at i:14405037 original size:18 final size:18
Alignment explanation
Indices: 14405016--14405071 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 18
14405006 ATTTGTTGCA
14405016 ATTTTTTTATTTATTTTT
1 ATTTTTTTATTTATTTTT
* *
14405034 A-TTTTTAATTAATTTTTT
1 ATTTTTTTATTTA-TTTTT
*
14405052 ATTTGTTATTCTTTATTTTT
1 ATTT-TT-TTATTTATTTTT
14405072 TGTGATTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 9 0.31
18 7 0.24
19 2 0.07
20 7 0.24
21 4 0.14
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (18 bp):
ATTTTTTTATTTATTTTT
Found at i:14405138 original size:23 final size:23
Alignment explanation
Indices: 14405108--14405155 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
14405098 AGCATAAATC
14405108 GAATCATCAATTTACTCCCTATA
1 GAATCATCAATTTACTCCCTATA
*
14405131 GAATCATCAGTTTACTCCCTATA
1 GAATCATCAATTTACTCCCTATA
14405154 GA
1 GA
14405156 CCTTGAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.33
Consensus pattern (23 bp):
GAATCATCAATTTACTCCCTATA
Found at i:14405731 original size:66 final size:65
Alignment explanation
Indices: 14405616--14405739 Score: 203
Period size: 66 Copynumber: 1.9 Consensus size: 65
14405606 AATCCTATTA
14405616 AATATACTAAATAGCAGGAAATACTATTAAACTGAATAAAAAGTGGATATAATGTAATTTACTGC
1 AATATACTAAATAGCAGGAAATACTATTAAACTGAATAAAAAGTGGATATAATG-AATTTACTGC
14405681 T
65 T
* * * *
14405682 AATATACTAAATAGCAGGAAATGCTATTAAGCTGAATAAGAAGTTGATATAATGAATT
1 AATATACTAAATAGCAGGAAATACTATTAAACTGAATAAAAAGTGGATATAATGAATT
14405740 AATGTAATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
65 4 0.07
66 50 0.93
ACGTcount: A:0.47, C:0.08, G:0.15, T:0.30
Consensus pattern (65 bp):
AATATACTAAATAGCAGGAAATACTATTAAACTGAATAAAAAGTGGATATAATGAATTTACTGCT
Found at i:14409029 original size:19 final size:20
Alignment explanation
Indices: 14408994--14409031 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14408984 ACAAGGGAAT
14408994 TACAATCAACAACAACAGAC
1 TACAATCAACAACAACAGAC
*
14409014 TACAATCAGC-ACAACAGA
1 TACAATCAACAACAACAGA
14409032 TGCATCCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.53, C:0.29, G:0.08, T:0.11
Consensus pattern (20 bp):
TACAATCAACAACAACAGAC
Found at i:14414416 original size:24 final size:23
Alignment explanation
Indices: 14414391--14414691 Score: 162
Period size: 24 Copynumber: 12.6 Consensus size: 23
14414381 TGTTAACCCA
*
14414391 CACACATAGTGCCTTAGTAATTCA
1 CACACATAGTGCCTTA-TAATTCG
* * * *
14414415 CATACATATTGACATTCA-AATCCG
1 CACACATAGTG-CCTT-ATAATTCG
* *
14414439 CACACATAGTGCCATATAAATCTG
1 CACACATAGTGCCTTATAATTC-G
* * *
14414463 CACAGATAGTGCCATACAAATTCG
1 CACACATAGTGCCTTA-TAATTCG
*
14414487 CACACATAGTGCCTTAGTAATTCA
1 CACACATAGTGCCTTA-TAATTCG
* * * *
14414511 CATACATATTGACATTCA-AATCCG
1 CACACATAGTG-CCTT-ATAATTCG
* *
14414535 CACACATAGTGCCATATAAATCTG
1 CACACATAGTGCCTTATAATTC-G
* * *
14414559 CACAGATAGTGCCATACAAATTCG
1 CACACATAGTGCCTTA-TAATTCG
*
14414583 CACACATAGTGCCTTAGTAATTCA
1 CACACATAGTGCCTTA-TAATTCG
* * *
14414607 CATACATATTGACATTCA-AA-TCTG
1 CACACATAGTG-CCTT-ATAATTC-G
* *
14414631 CACACATAGTGCCATACAAATTCG
1 CACACATAGTGCCTTA-TAATTCG
* *
14414655 CACACATAGTACCATTCA-AATTAG
1 CACACATAGTGCC-TT-ATAATTCG
14414679 CACACATAGTGCC
1 CACACATAGTGCC
14414692 AAAGTCATTT
Statistics
Matches: 209, Mismatches: 50, Indels: 36
0.71 0.17 0.12
Matches are distributed among these distances:
22 3 0.01
23 14 0.07
24 168 0.80
25 20 0.10
26 4 0.02
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.26
Consensus pattern (23 bp):
CACACATAGTGCCTTATAATTCG
Found at i:14414444 original size:48 final size:48
Alignment explanation
Indices: 14414391--14414692 Score: 313
Period size: 48 Copynumber: 6.3 Consensus size: 48
14414381 TGTTAACCCA
* * *
14414391 CACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCG
1 CACACATAGTGCCATAGTAATTCACACACATAGTGACATTCAAATCCG
* * * * * *
14414439 CACACATAGTGCCATA-TAAATCTGCACAGATAGTGCCATACAAATTCG
1 CACACATAGTGCCATAGTAATTC-ACACACATAGTGACATTCAAATCCG
* * *
14414487 CACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCG
1 CACACATAGTGCCATAGTAATTCACACACATAGTGACATTCAAATCCG
* * * * * *
14414535 CACACATAGTGCCATA-TAAATCTGCACAGATAGTGCCATACAAATTCG
1 CACACATAGTGCCATAGTAATTC-ACACACATAGTGACATTCAAATCCG
* * * *
14414583 CACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCTG
1 CACACATAGTGCCATAGTAATTCACACACATAGTGACATTCAAATCCG
** * **
14414631 CACACATAGTGCCATACAAATTCGCACACATAGT-ACCATTCAAATTAG
1 CACACATAGTGCCATAGTAATTCACACACATAGTGA-CATTCAAATCCG
14414679 CACACATAGTGCCA
1 CACACATAGTGCCA
14414693 AAGTCATTTC
Statistics
Matches: 204, Mismatches: 45, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
47 11 0.05
48 183 0.90
49 10 0.05
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (48 bp):
CACACATAGTGCCATAGTAATTCACACACATAGTGACATTCAAATCCG
Found at i:14414492 original size:96 final size:96
Alignment explanation
Indices: 14414391--14414691 Score: 532
Period size: 96 Copynumber: 3.1 Consensus size: 96
14414381 TGTTAACCCA
14414391 CACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCATAT
1 CACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCATAT
14414456 AAATCTGCACAGATAGTGCCATACAAATTCG
66 AAATCTGCACAGATAGTGCCATACAAATTCG
14414487 CACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCATAT
1 CACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCATAT
14414552 AAATCTGCACAGATAGTGCCATACAAATTCG
66 AAATCTGCACAGATAGTGCCATACAAATTCG
* *
14414583 CACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCTGCACACATAGTGCCATAC
1 CACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCATAT
* * * *
14414648 AAAT-TCGCACACATAGTACCATTCAAATTAG
66 AAATCT-GCACAGATAGTGCCATACAAATTCG
14414679 CACACATAGTGCC
1 CACACATAGTGCC
14414692 AAAGTCATTT
Statistics
Matches: 198, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
95 1 0.01
96 197 0.99
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.26
Consensus pattern (96 bp):
CACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGCACACATAGTGCCATAT
AAATCTGCACAGATAGTGCCATACAAATTCG
Found at i:14415140 original size:16 final size:16
Alignment explanation
Indices: 14415119--14415150 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14415109 ATTACTTCAA
14415119 ATAAACACACATATAT
1 ATAAACACACATATAT
*
14415135 ATAAACACATATATAT
1 ATAAACACACATATAT
14415151 TTTTGTACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAACACACATATAT
Found at i:14417295 original size:23 final size:23
Alignment explanation
Indices: 14417236--14417295 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
14417226 TGTCTCAATG
* *
14417236 CACACTGGCGTGTACATTGCCTC
1 CACACGGGCGTGTGCATTGCCTC
*
14417259 CACACGGGCATGTGCATTGCCTC
1 CACACGGGCGTGTGCATTGCCTC
*
14417282 CACACGGGTGTGTG
1 CACACGGGCGTGTG
14417296 AGGCTTAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.17, C:0.32, G:0.28, T:0.23
Consensus pattern (23 bp):
CACACGGGCGTGTGCATTGCCTC
Found at i:14419862 original size:27 final size:27
Alignment explanation
Indices: 14419824--14419989 Score: 145
Period size: 27 Copynumber: 6.1 Consensus size: 27
14419814 TCATTAAGAC
*
14419824 CCCCCGATTTGTAAAATTACTGAAATA
1 CCCCCGGTTTGTAAAATTACTGAAATA
* *
14419851 CCCCCGGCTTGTAAAATTATTGAAATA
1 CCCCCGGTTTGTAAAATTACTGAAATA
* * * *
14419878 CCCTCGATATGTAAAATTACCGAAATA
1 CCCCCGGTTTGTAAAATTACTGAAATA
** ** * *
14419905 CCCCCAATTTGTAAGGTTATTAAAATA
1 CCCCCGGTTTGTAAAATTACTGAAATA
* * *
14419932 GCCCCGGGTTATAAAATTA-TCGAAATA
1 CCCCCGGTTTGTAAAATTACT-GAAATA
* * *
14419959 CCCTCGATTTGTAAAATTACTAAAATA
1 CCCCCGGTTTGTAAAATTACTGAAATA
14419986 CCCC
1 CCCC
14419990 TATAGGGTAG
Statistics
Matches: 105, Mismatches: 32, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
26 1 0.01
27 103 0.98
28 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (27 bp):
CCCCCGGTTTGTAAAATTACTGAAATA
Found at i:14419917 original size:54 final size:52
Alignment explanation
Indices: 14419825--14419989 Score: 177
Period size: 54 Copynumber: 3.1 Consensus size: 52
14419815 CATTAAGACC
* ** *
14419825 CCCCGATTTGTAAAATTACTGAAATACCCCCGGCTTGTAAAATTATTGAAATA
1 CCCCGA-TTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTATTAAAATA
* **
14419878 CCCTCGATATGTAAAATTACCGAAATACCCCCAATTTGTAAGGTTATTAAAATA
1 CCC-CGAT-TGTAAAATTACCGAAATACCCCCGATTTGTAAAATTATTAAAATA
* * * * *
14419932 GCCCCGGGTTATAAAATTATCGAAATACCCTCGATTTGTAAAATTACTAAAATA
1 -CCCC-GATTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTATTAAAATA
14419986 CCCC
1 CCCC
14419990 TATAGGGTAG
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
53 8 0.09
54 80 0.86
55 5 0.05
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (52 bp):
CCCCGATTGTAAAATTACCGAAATACCCCCGATTTGTAAAATTATTAAAATA
Found at i:14420012 original size:81 final size:81
Alignment explanation
Indices: 14419845--14420015 Score: 202
Period size: 81 Copynumber: 2.1 Consensus size: 81
14419835 TAAAATTACT
* * *
14419845 GAAATACCCCCGGCTTGTAAAATTATTGAAATACCCTCGATATGTAAAATTACCGAAATACCCCC
1 GAAATACCCCCGGCTTATAAAATTATCGAAATACCCTCGATATGTAAAATTACCAAAATACCCCC
** *
14419910 AATTTGTAAGGTTATT
66 AATGGGTAAGGTTATC
* * * * *
14419926 AAAATAGCCCCGGGTTATAAAATTATCGAAATACCCTCGATTTGTAAAATTACTAAAATA-CCCC
1 GAAATACCCCCGGCTTATAAAATTATCGAAATACCCTCGATATGTAAAATTACCAAAATACCCCC
*
14419990 TATAGGGT-AGGATTATC
66 AAT-GGGTAAGG-TTATC
14420007 GAAATACCC
1 GAAATACCC
14420016 TTATAGGGTA
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
80 9 0.12
81 65 0.88
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.28
Consensus pattern (81 bp):
GAAATACCCCCGGCTTATAAAATTATCGAAATACCCTCGATATGTAAAATTACCAAAATACCCCC
AATGGGTAAGGTTATC
Found at i:14420078 original size:26 final size:26
Alignment explanation
Indices: 14420013--14420083 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
14420003 TATCGAAATA
14420013 CCCTTATAGGGTAAAATGACCATTTTG
1 CCCTTATA-GGTAAAATGACCATTTTG
* **
14420040 CCC-TAAAGAGTAAAATGATTATTTTG
1 CCCTTATAG-GTAAAATGACCATTTTG
*
14420066 CCCTTGTAGGT-AAATGAC
1 CCCTTATAGGTAAAATGAC
14420084 GGACTTGGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
25 7 0.19
26 23 0.64
27 6 0.17
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (26 bp):
CCCTTATAGGTAAAATGACCATTTTG
Found at i:14420856 original size:31 final size:33
Alignment explanation
Indices: 14420811--14420875 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
14420801 TGTCACTGTA
* * *
14420811 TTGGGCTTAGGCCCACTTG-TTCTGTTATTGGT
1 TTGGGCTTAGGCCCAATTGATTCTATTATGGGT
14420843 TTGGGC-TAGGCCCAATTGATTCTATTATGGGT
1 TTGGGCTTAGGCCCAATTGATTCTATTATGGGT
14420875 T
1 T
14420876 GTGACCCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 11 0.38
32 18 0.62
ACGTcount: A:0.14, C:0.17, G:0.28, T:0.42
Consensus pattern (33 bp):
TTGGGCTTAGGCCCAATTGATTCTATTATGGGT
Done.