Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 190 of 345
Found at i:53960962 original size:24 final size:25
Alignment explanation
Indices: 53960935--53960981 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
53960925 GAGATATCTG
*
53960935 AAAAGCTC-TATGAGCTTCCTGAGT
1 AAAAACTCTTATGAGCTTCCTGAGT
* *
53960959 AAAAATTCTTATGAGTTTCCTGA
1 AAAAACTCTTATGAGCTTCCTGA
53960982 TTAGCTCAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 6 0.32
25 13 0.68
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (25 bp):
AAAAACTCTTATGAGCTTCCTGAGT
Found at i:53969484 original size:29 final size:29
Alignment explanation
Indices: 53969451--53969522 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 29
53969441 GTGACGAGAT
*
53969451 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
53969480 TGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
53969509 CGGCACT--GTGTGCG
1 TGGCACTAAGTGTGCG
53969523 AGCTCGAGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 6 0.15
29 33 0.85
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:53977339 original size:28 final size:29
Alignment explanation
Indices: 53977273--53977344 Score: 128
Period size: 29 Copynumber: 2.5 Consensus size: 29
53977263 GTGACGAGAT
*
53977273 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
53977302 TGGCACTAAGTGTGCATGCTGGAAA-ATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
53977330 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
53977345 GAGCTCGAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 18 0.43
29 24 0.57
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:53987565 original size:24 final size:24
Alignment explanation
Indices: 53987537--53987629 Score: 168
Period size: 24 Copynumber: 3.9 Consensus size: 24
53987527 ACCGAATGTG
**
53987537 GCACACATAGTGCCATAGCGAATC
1 GCACACATAGTGCCATAGTAAATC
53987561 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
53987585 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
53987609 GCACACATAGTGCCATAGTAA
1 GCACACATAGTGCCATAGTAA
53987630 TCGACCCGAG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAATC
Found at i:53989023 original size:40 final size:40
Alignment explanation
Indices: 53988978--53989143 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
53988968 CGGAATATAA
53988978 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
53989018 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
53989058 CCGGATAT-ACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
53989097 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
53989136 CCGGATAT
1 CCGGATAT
53989144 CATTCAATTT
Statistics
Matches: 105, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 46 0.44
40 59 0.56
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53989100 original size:39 final size:38
Alignment explanation
Indices: 53988994--53989105 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 38
53988984 ATAATCACGT
* * *
53988994 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATA-TACAACTA
* *
53989034 GCACGAATGCCTTCGGGCCTTAGCCCGGATATACCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATACAACTA
*
53989073 GCACAATTGCCTTCGGGTCTTAACCCGGATATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATA
53989106 ATTTCCAGCA
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
38 2 0.03
39 32 0.51
40 29 0.46
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATACAACTA
Found at i:53989127 original size:79 final size:78
Alignment explanation
Indices: 53988994--53989143 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 78
53988984 ATAATCACGT
*
53988994 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
53989059 CGGATATACCACTA
65 CGGATATACCACTA
* * ** * *
53989073 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
53989136 CCGGATAT
64 CCGGATAT
53989144 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 17 0.27
79 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATACCACTA
Found at i:53989992 original size:17 final size:19
Alignment explanation
Indices: 53989969--53990014 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
53989959 AAGAAGCATG
53989969 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
53989987 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
53990005 AATCATGCTC
1 AATCATGCTC
53990015 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:53997030 original size:40 final size:40
Alignment explanation
Indices: 53996985--53997151 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
53996975 CGGAATATAA
53996985 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
53997025 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
53997065 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
53997105 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
53997144 CCGGATAT
1 CCGGATAT
53997152 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:53997135 original size:80 final size:79
Alignment explanation
Indices: 53996985--53997151 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
53996975 CGGAATATAA
* *
53996985 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
53997050 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
53997065 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
53997127 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
53997144 CCGGATAT
1 CCGGATAT
53997152 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:53998000 original size:17 final size:19
Alignment explanation
Indices: 53997977--53998022 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
53997967 AAGAAGCATG
53997977 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
53997995 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
53998013 AATCATGCTC
1 AATCATGCTC
53998023 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:54006192 original size:3 final size:3
Alignment explanation
Indices: 54006184--54006215 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
54006174 TAAATGAGAG
54006184 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
54006216 CAAGGAGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:54012627 original size:43 final size:43
Alignment explanation
Indices: 54012579--54012747 Score: 139
Period size: 43 Copynumber: 4.0 Consensus size: 43
54012569 GTTACCAAGA
*
54012579 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
** * * * *
54012622 TGTGATTATGTGTAAGACCATATCAGAGACATTAGCATCAT-TAC
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCAT--TGTAT
* * * * * * *
54012666 T-CGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
* *
54012707 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGT
1 -TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGT
54012748 GCGAGCTATA
Statistics
Matches: 94, Mismatches: 26, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
41 1 0.01
42 8 0.09
43 81 0.86
44 3 0.03
45 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT
Found at i:54019425 original size:22 final size:22
Alignment explanation
Indices: 54019372--54019473 Score: 107
Period size: 22 Copynumber: 4.5 Consensus size: 22
54019362 AGCTGATAAG
*
54019372 CAGTAAGCTCTATTGAGCTGAAA
1 CAGTAAGCTCTATCGAGCT-AAA
* *
54019395 CGGTAAGCTCTATCGAGCTGAA
1 CAGTAAGCTCTATCGAGCTAAA
*
54019417 CAGTAAGCTCTATTGAGCTAAA
1 CAGTAAGCTCTATCGAGCTAAA
* *
54019439 TAGTAAACTCGTA-CGAGCTAAAA
1 CAGTAAGCTC-TATCGAGCT-AAA
*
54019462 CGGTAAGCTCTA
1 CAGTAAGCTCTA
54019474 ATGAGTTGAA
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
22 36 0.55
23 29 0.45
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (22 bp):
CAGTAAGCTCTATCGAGCTAAA
Found at i:54019426 original size:45 final size:45
Alignment explanation
Indices: 54019372--54019506 Score: 150
Period size: 45 Copynumber: 3.0 Consensus size: 45
54019362 AGCTGATAAG
**
54019372 CAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCTATCGAGCTGAA
1 CAGTAAGCTCTATTGAGCTGAAATAGTAAGCTCTATCGAGCTGAA
* *
54019417 CAGTAAGCTCTATTGAGCT-AAATAGTAAACTCGTA-CGAGCTAAAA
1 CAGTAAGCTCTATTGAGCTGAAATAGTAAGCTC-TATCGAGCT-GAA
* * *
54019462 CGGTAAGCTCTAATGAGTTGAAAATAGTAAGCTCT-TACGAGCTGA
1 CAGTAAGCTCTATTGAGCTG-AAATAGTAAGCTCTAT-CGAGCTGA
54019507 TATATCGGTA
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
44 16 0.21
45 39 0.52
46 2 0.03
47 18 0.24
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (45 bp):
CAGTAAGCTCTATTGAGCTGAAATAGTAAGCTCTATCGAGCTGAA
Found at i:54021070 original size:48 final size:48
Alignment explanation
Indices: 54020842--54021151 Score: 188
Period size: 48 Copynumber: 6.6 Consensus size: 48
54020832 AGATCTCGTG
* * * * ** * *
54020842 TAAGACCATGTTTGAGACATGACATCGACATTCAAAATGAGATCCCGTG
1 TAAGACCATGTCTGGGACATGGCATCGGCA-TCAGTATGAGATCCCATA
* * * **
54020891 TAAGACCATGTCTGGGACATGACATCGGTATCAAG-ATGTGATCCTGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCATC-AGTATGAGATCCCATA
* * * * * * * ** *
54020939 TAAGACCATAT-TAGGGATATGGCTTCGGCACCATTAAGTGATTTCATG
1 TAAGACCATGTCT-GGGACATGGCATCGGCATCAGTATGAGATCCCATA
* *
54020987 TAAAACCATGTTTGGGACATGGCATC-G-AT-A--A-GAGATCCCATA
1 TAAGACCATGTCTGGGACATGGCATCGGCATCAGTATGAGATCCCATA
*
54021029 TAAGACCATGTCTGGGACATGGCATCGGCATCAGTATGAGATCCCATG
1 TAAGACCATGTCTGGGACATGGCATCGGCATCAGTATGAGATCCCATA
* * * * * * * *
54021077 TAAGACCATATCTAGGATATGGCATTGGCATC-GATGTGAGGTCTCGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCATCAG-TATGAGATCCCATA
* * *
54021125 TAAGACCGTGTTTTGGACATGGCATCG
1 TAAGACCATGTCTGGGACATGGCATCG
54021152 ACACCGATAT
Statistics
Matches: 202, Mismatches: 48, Indels: 23
0.74 0.18 0.08
Matches are distributed among these distances:
42 31 0.15
43 2 0.01
44 2 0.01
45 2 0.01
46 1 0.00
47 5 0.02
48 131 0.65
49 28 0.14
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCATCAGTATGAGATCCCATA
Found at i:54021099 original size:90 final size:93
Alignment explanation
Indices: 54020842--54021101 Score: 231
Period size: 90 Copynumber: 2.8 Consensus size: 93
54020832 AGATCTCGTG
* * * * *
54020842 TAAGACCATGTTTGAGACATGACATCGACATTCAAAATGAGATCCCGTGTAAGACCATGTCTGGG
1 TAAGACCATG-TTGGGACATGGCATCGGCA-TCAATATGAGATCCCATGTAAGACCATGTCTGGG
* **
54020907 ACATGACATCGGTATCAAGATGTGATCCTGTA
64 ACATGGCATCGGTATCAAGA--TGATCCCATA
* * * * * * * ** * *
54020939 TAAGACCATATTAGGGATATGGCTTCGGCACCATTAAGTGATTTCATGTAAAACCATGTTTGGGA
1 TAAGACCATGTT-GGGACATGGCATCGGCATCAATATGAGATCCCATGTAAGACCATGTCTGGGA
54021004 CATGGCATC-G-AT-AAGA-GATCCCATA
65 CATGGCATCGGTATCAAGATGATCCCATA
* * *
54021029 TAAGACCATGTCTGGGACATGGCATCGGCATCAGTATGAGATCCCATGTAAGACCATATCTAGGA
1 TAAGACCATGT-TGGGACATGGCATCGGCATCAATATGAGATCCCATGTAAGACCATGTCTGGGA
*
54021094 TATGGCAT
65 CATGGCAT
54021102 TGGCATCGAT
Statistics
Matches: 128, Mismatches: 33, Indels: 11
0.74 0.19 0.06
Matches are distributed among these distances:
90 64 0.50
91 1 0.01
93 4 0.03
94 2 0.02
95 1 0.01
96 35 0.27
97 21 0.16
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (93 bp):
TAAGACCATGTTGGGACATGGCATCGGCATCAATATGAGATCCCATGTAAGACCATGTCTGGGAC
ATGGCATCGGTATCAAGATGATCCCATA
Found at i:54021137 original size:138 final size:138
Alignment explanation
Indices: 54020880--54021152 Score: 322
Period size: 138 Copynumber: 2.0 Consensus size: 138
54020870 CATTCAAAAT
* * * * **
54020880 GAGATCCCGTGTAAGACCATGTCTGGGACATGACATCGGTATCAAGATGTGATCCTGTATAAGAC
1 GAGATCCCATATAAGACCATGTCTGGGACATGACATCGGCATCAAGATGAGATCCCATATAAGAC
* *
54020945 CATATTAGGGATATGGCTTCGGCACCATTAAGTGATTTCATGTAAAACCATGTTTGGGACATGGC
66 CATATTAGGGATATGGCTTCGGCACCATTAAGTGATCTCATATAAAACCATGTTTGGGACATGGC
54021010 ATCGATAA
131 ATCGATAA
* *
54021018 GAGATCCCATATAAGACCATGTCTGGGACATGGCATCGGCATC-AGTATGAGATCCCATGTAAGA
1 GAGATCCCATATAAGACCATGTCTGGGACATGACATCGGCATCAAG-ATGAGATCCCATATAAGA
* * * * * *
54021082 CCATATCTA-GGATATGGCATT-GGCATCGATGTGAG-G-TCTCGTATAAGACCGTGTTTTGGAC
65 CCATAT-TAGGGATATGGC-TTCGGCA-CCAT-TAAGTGATCTCATATAAAACCATGTTTGGGAC
54021143 ATGGCATCGA
126 ATGGCATCGA
54021153 CACCGATATG
Statistics
Matches: 114, Mismatches: 16, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
137 2 0.02
138 101 0.89
139 8 0.07
140 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (138 bp):
GAGATCCCATATAAGACCATGTCTGGGACATGACATCGGCATCAAGATGAGATCCCATATAAGAC
CATATTAGGGATATGGCTTCGGCACCATTAAGTGATCTCATATAAAACCATGTTTGGGACATGGC
ATCGATAA
Found at i:54021221 original size:186 final size:185
Alignment explanation
Indices: 54020831--54021237 Score: 417
Period size: 186 Copynumber: 2.2 Consensus size: 185
54020821 CATGGTTAAT
* * * * *
54020831 GAGATCTCGTGTAAGACCATGTTTGAGACATGACATCGACATTCAAAATGAGATCCCGTGTAAGA
1 GAGATCCCATGTAAGACCATG-TTGGGACATGGCATCGACATTCAAAATGAGATCCCATGTAAGA
* * * *
54020896 CCATGTCTGGGACATGACATCGGTATCAAGATGTGATCCTGTATAAGACCATATTAGGGATATGG
65 CCATATCTAGGACATGACATCGGCATC-AGATGTGATCCTGTATAAGACCATATTAGGGACATGG
* * * * *
54020961 CTTCGGCACCATTAAGTGATTTCATGTAAAACCATGTTTGGGACATGGCATCGATAA
129 CATCGACACCATTAAGAGATTTCATATAAAACCATATTTGGGACATGGCATCGATAA
* * **
54021018 GAGATCCCATATAAGACCATGTCTGGGACATGGCATCGGCA-TCAGTATGAGATCCCATGTAAGA
1 GAGATCCCATGTAAGACCATGT-TGGGACATGGCATCGACATTCAAAATGAGATCCCATGTAAGA
* * * * * **
54021082 CCATATCTAGGATATGGCATTGGCATC-GATGTGAGGT-CTCGTATAAGACCGTGTTTTGGACAT
65 CCATATCTAGGACATGACATCGGCATCAGATGTGA--TCCT-GTATAAGACCATATTAGGGACAT
* * * * * *
54021145 GGCATCGACACCGA-TATGAGATTTCGTATAAAACCATATTTGGGATATGTCATTGATAC
127 GGCATCGACACC-ATTAAGAGATTTCATATAAAACCATATTTGGGACATGGCATCGATAA
* *
54021204 GTGGTCCCATGTAAGACCATGTTCGGGACATGGC
1 GAGATCCCATGTAAGACCATGTT-GGGACATGGC
54021238 TTTGGCACTC
Statistics
Matches: 180, Mismatches: 34, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
184 7 0.04
185 3 0.02
186 136 0.76
187 34 0.19
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (185 bp):
GAGATCCCATGTAAGACCATGTTGGGACATGGCATCGACATTCAAAATGAGATCCCATGTAAGAC
CATATCTAGGACATGACATCGGCATCAGATGTGATCCTGTATAAGACCATATTAGGGACATGGCA
TCGACACCATTAAGAGATTTCATATAAAACCATATTTGGGACATGGCATCGATAA
Found at i:54027155 original size:29 final size:28
Alignment explanation
Indices: 54027098--54027181 Score: 114
Period size: 29 Copynumber: 3.0 Consensus size: 28
54027088 TACCTGTATC
* * *
54027098 TGGCCCACTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
54027126 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
*
54027155 TGGCCCGTTAGGCCCAATCACATTCAT
1 TGGCCCATTAGGCCCAATCACATTCAT
54027182 CTTCATGCTC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
28 24 0.49
29 25 0.51
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:54027434 original size:16 final size:16
Alignment explanation
Indices: 54027394--54027436 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
54027384 GTAGCCAAAC
* *
54027394 TTTCGACTTTTGGGCA
1 TTTCGACTTTTCGACA
**
54027410 TTTTTACTTTTCGACA
1 TTTCGACTTTTCGACA
54027426 TTTCGACTTTT
1 TTTCGACTTTT
54027437 GCCGATACAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.53
Consensus pattern (16 bp):
TTTCGACTTTTCGACA
Found at i:54029729 original size:28 final size:27
Alignment explanation
Indices: 54029666--54029735 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
54029656 ATAGTGAGTC
54029666 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
54029693 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
54029721 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54029736 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:54040725 original size:29 final size:29
Alignment explanation
Indices: 54040651--54040725 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
54040641 CGCTAAACCC
* * *
54040651 AATCATATTCATATGGCCCATTCGGCCCA
1 AATCATATTTATATGGCCCATTAGCCCCA
** * *
54040680 AATCACCTGTATGTGGCCCATTAGCCCCA
1 AATCATATTTATATGGCCCATTAGCCCCA
54040709 AATCATATTTATATGGC
1 AATCATATTTATATGGC
54040726 TCGTTGGCCC
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (29 bp):
AATCATATTTATATGGCCCATTAGCCCCA
Found at i:54040993 original size:8 final size:8
Alignment explanation
Indices: 54040976--54041010 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
54040966 CTTTTTAGCA
*
54040976 TTTCGACT
1 TTTCGGCT
54040984 TTTCGGCT
1 TTTCGGCT
*
54040992 TTTCGGCA
1 TTTCGGCT
54041000 TTTCGGCT
1 TTTCGGCT
54041008 TTT
1 TTT
54041011 ACCGATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.06, C:0.23, G:0.20, T:0.51
Consensus pattern (8 bp):
TTTCGGCT
Found at i:54040993 original size:24 final size:24
Alignment explanation
Indices: 54040960--54041010 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
54040950 ATAGCCAAAC
*
54040960 TTTCGACTTTTTAGCATTTCGACT
1 TTTCGACTTTTCAGCATTTCGACT
* * *
54040984 TTTCGGCTTTTCGGCATTTCGGCT
1 TTTCGACTTTTCAGCATTTCGACT
54041008 TTT
1 TTT
54041011 ACCGATACAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.10, C:0.22, G:0.18, T:0.51
Consensus pattern (24 bp):
TTTCGACTTTTCAGCATTTCGACT
Found at i:54040995 original size:16 final size:16
Alignment explanation
Indices: 54040960--54041010 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
54040950 ATAGCCAAAC
** *
54040960 TTTCGACTTTTTAGCA
1 TTTCGACTTTTCGGCT
54040976 TTTCGACTTTTCGGCT
1 TTTCGACTTTTCGGCT
* *
54040992 TTTCGGCATTTCGGCT
1 TTTCGACTTTTCGGCT
54041008 TTT
1 TTT
54041011 ACCGATACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.10, C:0.22, G:0.18, T:0.51
Consensus pattern (16 bp):
TTTCGACTTTTCGGCT
Found at i:54042138 original size:16 final size:16
Alignment explanation
Indices: 54042117--54042163 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
54042107 GAAAATTCAA
54042117 GATTTCAGAATTTTTG
1 GATTTCAGAATTTTTG
* *
54042133 GATTTCAGGATATTTG
1 GATTTCAGAATTTTTG
*
54042149 GGTTTC-GAGATTTTT
1 GATTTCAGA-ATTTTT
54042164 AGGGTGTTAC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
15 1 0.04
16 24 0.96
ACGTcount: A:0.21, C:0.06, G:0.23, T:0.49
Consensus pattern (16 bp):
GATTTCAGAATTTTTG
Found at i:54045596 original size:68 final size:66
Alignment explanation
Indices: 54045523--54045694 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
54045513 CATCATGTGT
* * * *
54045523 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
54045586 TGTAG
62 TGTAG
** * *
54045591 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
54045656 AG
65 AG
* * * *
54045658 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
54045695 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:54045628 original size:64 final size:64
Alignment explanation
Indices: 54045547--54045730 Score: 196
Period size: 67 Copynumber: 2.8 Consensus size: 64
54045537 AGACATTATG
* * *
54045547 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
54045611 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
54045676 AA
63 AA
* *
54045678 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGCT-CACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTG-TACACCATGTAG-ACAAGAGAGC
54045731 CGAACTATAT
Statistics
Matches: 99, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:54049493 original size:22 final size:23
Alignment explanation
Indices: 54049465--54049550 Score: 79
Period size: 23 Copynumber: 3.7 Consensus size: 23
54049455 GAGCCATAAT
54049465 CAGTAAGCTC-TATCGAGCTG-AA
1 CAGTAAGCTCATA-CGAGCTGAAA
54049487 CAGTAAGCTCATACGAGCTGAAA
1 CAGTAAGCTCATACGAGCTGAAA
* * *
54049510 CAATAAGCTCCA-ATGAGCTAAAAA
1 CAGTAAGCT-CATACGAGCT-GAAA
* *
54049534 TAGTAAGCTCTTACGAG
1 CAGTAAGCTCATACGAG
54049551 ATGATATATC
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
22 17 0.33
23 19 0.37
24 16 0.31
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (23 bp):
CAGTAAGCTCATACGAGCTGAAA
Found at i:54049528 original size:23 final size:23
Alignment explanation
Indices: 54049468--54049519 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
54049458 CCATAATCAG
*
54049468 TAAGCTC-TATCGAGCTG-AACAG
1 TAAGCTCATA-CGAGCTGAAACAA
54049490 TAAGCTCATACGAGCTGAAACAA
1 TAAGCTCATACGAGCTGAAACAA
54049513 TAAGCTC
1 TAAGCTC
54049520 CAATGAGCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (23 bp):
TAAGCTCATACGAGCTGAAACAA
Found at i:54052692 original size:43 final size:43
Alignment explanation
Indices: 54052643--54052757 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 43
54052633 AACATTGTAT
* * * *
54052643 TGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGATAA
1 TGTGATTATATGTAAGACCATATCTGGGACAATGGCATCAAT-A
* * *
54052687 T-TGATT-TCATGTAAGACCCTCTCTGAGACAATGGCATCAATA
1 TGTGATTAT-ATGTAAGACCATATCTGGGACAATGGCATCAATA
* *
54052729 TGTGATAACATGTAAGACCATATCTGGGA
1 TGTGATTATATGTAAGACCATATCTGGGA
54052758 TACAGCATTG
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
42 3 0.05
43 53 0.93
44 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (43 bp):
TGTGATTATATGTAAGACCATATCTGGGACAATGGCATCAATA
Found at i:54069626 original size:43 final size:43
Alignment explanation
Indices: 54069536--54069638 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 43
54069526 TACCGAGATG
* * * *
54069536 TGATTACATGTAAGGCCATGTCAGGGACATTGGCATTGTATTG
1 TGATTACATGTAAGACCATGACAGGGACATTGGCATCGTATTA
* **
54069579 TGATTACGTGTAAGACCATGACTTGGACATTGGCATCGT-TATA
1 TGATTACATGTAAGACCATGACAGGGACATTGGCATCGTAT-TA
*
54069622 TGATTTCATGTAAGACC
1 TGATTACATGTAAGACC
54069639 CTGTCTGGGT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.02
43 49 0.98
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGACAGGGACATTGGCATCGTATTA
Found at i:54070999 original size:42 final size:42
Alignment explanation
Indices: 54070940--54071072 Score: 257
Period size: 42 Copynumber: 3.2 Consensus size: 42
54070930 ACCCTGTTTT
*
54070940 CACACGGCCTATGACATGGGCGTGTCTAGTTACCATGTGAGG
1 CACACGGCCTACGACATGGGCGTGTCTAGTTACCATGTGAGG
54070982 CACACGGCCTACGACATGGGCGTGTCTAGTTACCATGTGAGG
1 CACACGGCCTACGACATGGGCGTGTCTAGTTACCATGTGAGG
54071024 CACACGGCCTACGACATGGGCGTGTCTAGTTACCATGTGAGG
1 CACACGGCCTACGACATGGGCGTGTCTAGTTACCATGTGAGG
54071066 CACACGG
1 CACACGG
54071073 AATGTTCACA
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 90 1.00
ACGTcount: A:0.22, C:0.26, G:0.31, T:0.21
Consensus pattern (42 bp):
CACACGGCCTACGACATGGGCGTGTCTAGTTACCATGTGAGG
Found at i:54079710 original size:43 final size:43
Alignment explanation
Indices: 54079662--54079831 Score: 195
Period size: 43 Copynumber: 4.0 Consensus size: 43
54079652 TACCGAGATG
*
54079662 TGATTACATGTAAGACCATGGT-TGGGACATTGGCATTG-TAGTT
1 TGATTACATGTAAGACCAT-GTCTGGGACATTGGCATTGATA-TA
* *
54079705 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTTATA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGATATA
* * * * *
54079748 TGATTTCGTGTAAGACCATGTCTGGGACAGTGGCATCGATATG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGATATA
* * *
54079791 TGATAACATGTAAGACCATATCTGGGATA-TGGCATTG-TATA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGATATA
54079832 AGCTTTATGT
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
41 3 0.03
42 9 0.08
43 97 0.87
44 2 0.02
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATTGATATA
Found at i:54081692 original size:27 final size:27
Alignment explanation
Indices: 54081654--54081754 Score: 139
Period size: 27 Copynumber: 3.6 Consensus size: 27
54081644 TTAAACAGCT
*
54081654 TATGAAAAGAATGCCTTTGTGGCAATA
1 TATGAAAGGAATGCCTTTGTGGCAATA
* * *
54081681 TATGAAACGAATGTCTTTGTGACAATA
1 TATGAAAGGAATGCCTTTGTGGCAATA
54081708 TATGAAAGGAATGCCTTTGTGGCAATA
1 TATGAAAGGAATGCCTTTGTGGCAATA
54081735 TACAATGAAAGGAATGCCTT
1 T---ATGAAAGGAATGCCTT
54081755 GACGGCGTAC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 49 0.75
30 16 0.25
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.30
Consensus pattern (27 bp):
TATGAAAGGAATGCCTTTGTGGCAATA
Found at i:54091033 original size:19 final size:20
Alignment explanation
Indices: 54090994--54091039 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
54090984 AATATCCACC
54090994 TCGTGTGTCAGATTCGCACT
1 TCGTGTGTCAGATTCGCACT
54091014 TCGTGTGTCAAGA-T-GCACT
1 TCGTGTGTC-AGATTCGCACT
54091033 TCGTGTG
1 TCGTGTG
54091040 CTTGTATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.48
20 10 0.40
21 3 0.12
ACGTcount: A:0.15, C:0.22, G:0.28, T:0.35
Consensus pattern (20 bp):
TCGTGTGTCAGATTCGCACT
Found at i:54092917 original size:16 final size:16
Alignment explanation
Indices: 54092898--54092955 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
54092888 TAATAAGATT
54092898 TAATATTAAATTAATA
1 TAATATTAAATTAATA
**
54092914 TAATATTTATCTTAATA
1 TAATA-TTAAATTAATA
* *
54092931 -AATATTATATTAATT
1 TAATATTAAATTAATA
54092946 TAATATTAAA
1 TAATATTAAA
54092956 GTGATTAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 9 0.26
16 17 0.49
17 9 0.26
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:54092940 original size:21 final size:20
Alignment explanation
Indices: 54092910--54092950 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
54092900 ATATTAAATT
*
54092910 AATATAATATTTATCTTAATA
1 AATATAATATTAAT-TTAATA
*
54092931 AATATTATATTAATTTAATA
1 AATATAATATTAATTTAATA
54092951 TTAAAGTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
AATATAATATTAATTTAATA
Found at i:54092948 original size:5 final size:6
Alignment explanation
Indices: 54092897--54092954 Score: 56
Period size: 5 Copynumber: 10.7 Consensus size: 6
54092887 TTAATAAGAT
* *
54092897 TTAATA TTAA-A TTAATA -TAATA TTTATC TTAATA --AATA TT-ATA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
54092940 TTAAT- TTAATA TTAA
1 TTAATA TTAATA TTAA
54092955 AGTGATTAAC
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
4 4 0.10
5 20 0.48
6 18 0.43
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAATA
Found at i:54094533 original size:44 final size:42
Alignment explanation
Indices: 54094451--54094620 Score: 180
Period size: 43 Copynumber: 4.0 Consensus size: 42
54094441 TAGGACTCCG
* * * *
54094451 ATATGTGATTTCGTGTAAGACCACATCTGGGACGTTGGCATC
1 ATATTTGATTTCATGTAAGACCACGTCTGGGACATTGGCATC
* * **
54094493 A-ATTTGAGATTTACGTGTAAGACCATGTCTGCAACATTGGCATC
1 ATATTT--GATTT-CATGTAAGACCACGTCTGGGACATTGGCATC
** *
54094537 ATATTTGATTTCATGTAAGACCTTGTCTGGGACAGTGGCATC
1 ATATTTGATTTCATGTAAGACCACGTCTGGGACATTGGCATC
* *
54094579 GATATTTGATTACATGTAAGACCACGTCTGGGACTTTGGCAT
1 -ATATTTGATTTCATGTAAGACCACGTCTGGGACATTGGCAT
54094621 TGTACGAGCT
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
41 3 0.03
42 27 0.25
43 46 0.43
44 27 0.25
45 4 0.04
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (42 bp):
ATATTTGATTTCATGTAAGACCACGTCTGGGACATTGGCATC
Found at i:54097171 original size:16 final size:16
Alignment explanation
Indices: 54097150--54097180 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54097140 GTAAAGCCCC
*
54097150 AAAAATCTCGAAATCA
1 AAAAATCCCGAAATCA
54097166 AAAAATCCCGAAATC
1 AAAAATCCCGAAATC
54097181 TTGAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.23, G:0.06, T:0.16
Consensus pattern (16 bp):
AAAAATCCCGAAATCA
Found at i:54098709 original size:29 final size:29
Alignment explanation
Indices: 54098640--54098709 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
54098630 GTGAGCATGA
*
54098640 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATAAATATGAATTGGGCCTAATGGGCC
* *
54098668 ATATAAATGTGAATTGGGCCTAGTGGGCC
1 ATATAAATATGAATTGGGCCTAATGGGCC
54098697 ATA-AGAATATGAA
1 ATATA-AATATGAA
54098710 CTAGGCCCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 5 0.14
29 31 0.86
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (29 bp):
ATATAAATATGAATTGGGCCTAATGGGCC
Found at i:54098716 original size:29 final size:29
Alignment explanation
Indices: 54098655--54098716 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
54098645 ATATGATTTG
* * *
54098655 GGCCTAATGGGCCATATAAATGTGAATTG
1 GGCCTAATGGGCCATATAAATATGAACTA
*
54098684 GGCCTAGTGGGCCATA-AGAATATGAACTA
1 GGCCTAATGGGCCATATA-AATATGAACTA
54098713 GGCC
1 GGCC
54098717 CCATTTGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.23
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATATGAACTA
Found at i:54110221 original size:28 final size:28
Alignment explanation
Indices: 54110181--54110262 Score: 119
Period size: 28 Copynumber: 2.9 Consensus size: 28
54110171 GCAATCAAAT
* **
54110181 ATGGCACTCAGTGTATGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
54110209 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
54110237 ATGACACTTAGTGTGCGAAATATTGA
1 ATGGCACTTAGTGTGCGAAATATTGA
54110263 ATGATTCAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:54110700 original size:21 final size:22
Alignment explanation
Indices: 54110669--54110709 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
54110659 TAATGTATTG
*
54110669 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
54110691 TGAT-TATGTGCCAATGAAA
1 TGATGTATGTGCAAATGAAA
54110710 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:54118174 original size:17 final size:19
Alignment explanation
Indices: 54118145--54118180 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
54118135 CCCTTATCCT
54118145 CTAAGGAGAAAT-AGAAAC
1 CTAAGGAGAAATAAGAAAC
54118163 CTAAGG-GAAATAAGAAAC
1 CTAAGGAGAAATAAGAAAC
54118181 TAACTAAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.56, C:0.11, G:0.22, T:0.11
Consensus pattern (19 bp):
CTAAGGAGAAATAAGAAAC
Found at i:54124515 original size:28 final size:30
Alignment explanation
Indices: 54124447--54124515 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 30
54124437 TACTTATACC
* *
54124447 AGCCCATAAATTTCACCATTTCTCACATTT
1 AGCCCCTAATTTTCACCATTTCTCACATTT
*
54124477 AACACCC-AATTTTCA-CATTTCTCA-ATTT
1 AGC-CCCTAATTTTCACCATTTCTCACATTT
54124505 AGCCCCTAATT
1 AGCCCCTAATT
54124516 GACCATTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 3 0.09
28 10 0.30
29 9 0.27
30 9 0.27
31 2 0.06
ACGTcount: A:0.30, C:0.30, G:0.03, T:0.36
Consensus pattern (30 bp):
AGCCCCTAATTTTCACCATTTCTCACATTT
Found at i:54130656 original size:48 final size:48
Alignment explanation
Indices: 54130585--54130746 Score: 166
Period size: 48 Copynumber: 3.4 Consensus size: 48
54130575 TAACGCCATA
* * * * *
54130585 TCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCAATGCATG
1 TCCCAAACATGTCTTACACTAGCTTATATATCTCGAGGCCGATGCATG
* ** * *
54130633 TCCCAAACATGTCTTACACTAGC-TCT-CGTCTCAATGCCGATGCATG
1 TCCCAAACATGTCTTACACTAGCTTATATATCTCGAGGCCGATGCATG
* * * * *
54130679 TCCTAAACATGTCTTACACTGGCTTAAATATCTCGAGGCCGAGGCATA
1 TCCCAAACATGTCTTACACTAGCTTATATATCTCGAGGCCGATGCATG
*
54130727 TCCCAGACATGTCTTACACT
1 TCCCAAACATGTCTTACACT
54130747 GGCTCTCATG
Statistics
Matches: 91, Mismatches: 21, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
46 35 0.38
47 3 0.03
48 53 0.58
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
TCCCAAACATGTCTTACACTAGCTTATATATCTCGAGGCCGATGCATG
Found at i:54130769 original size:94 final size:93
Alignment explanation
Indices: 54130585--54130795 Score: 226
Period size: 94 Copynumber: 2.2 Consensus size: 93
54130575 TAACGCCATA
* * ** * *
54130585 TCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCAATGCATGTCCCAAACATGTCTTAC
1 TCCCAAACATGTCTTACACTAGCTTAAATATCGCGAGGCCAAGGCATATCCCAAACATGTCTTAC
*
54130650 ACTAGCTCTCGTCTCAATGCCGATGCATG
66 ACTAGCTCTCATCT-AATGCCGATGCATG
* * * * *
54130679 TCCTAAACATGTCTTACACTGGCTTAAATATCTCGAGGCCGAGGCATATCCCAGACATGTCTTAC
1 TCCCAAACATGTCTTACACTAGCTTAAATATCGCGAGGCCAAGGCATATCCCAAACATGTCTTAC
* * **
54130744 ACTGGCTCTCATGCT-GTGGTTGATGCATG
66 ACTAGCTCTCAT-CTAAT-GCCGATGCATG
* *
54130773 TCCCAGACATGTCTTACAATAGC
1 TCCCAAACATGTCTTACACTAGC
54130796 ACACATATCA
Statistics
Matches: 95, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
93 1 0.01
94 92 0.97
95 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (93 bp):
TCCCAAACATGTCTTACACTAGCTTAAATATCGCGAGGCCAAGGCATATCCCAAACATGTCTTAC
ACTAGCTCTCATCTAATGCCGATGCATG
Found at i:54130790 original size:46 final size:46
Alignment explanation
Indices: 54130621--54130790 Score: 157
Period size: 46 Copynumber: 3.7 Consensus size: 46
54130611 TATATCGCGA
* * * *
54130621 GGCCAATGCATGTCCCAAACATGTCTTACACTAGCTCTCGTCTCAAT
1 GGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATCTC-GT
* * *
54130668 -GCCGATGCATGTCCTAAACATGTCTTACACTGGCT-TAAATATCTCGA
1 GGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCT---CATCTCGT
* * *
54130715 GGCCGAGGCATATCCCAGACATGTCTTACACTGGCTCTCATGCT-GT
1 GGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCAT-CTCGT
** *
54130761 GGTTGATGCATGTCCCAGACATGTCTTACA
1 GGCCGATGCATGTCCCAAACATGTCTTACA
54130791 ATAGCACACA
Statistics
Matches: 100, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
45 1 0.01
46 61 0.61
47 2 0.02
48 35 0.35
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
GGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATCTCGT
Found at i:54136928 original size:28 final size:29
Alignment explanation
Indices: 54136896--54136994 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
54136886 ATAATAAGCC
*
54136896 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
54136924 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
54136952 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
54136981 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54136995 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:54144977 original size:28 final size:28
Alignment explanation
Indices: 54144906--54144979 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
54144896 ATAATAAGCC
* *
54144906 CGCACACTTAGTGCT-TAATAGTCGAACT
1 CGCACACTTAGTGCTAT-ATAATCAAACT
54144934 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
54144962 CGCACACTTAGTGCTATA
1 CGCACACTTAGTGCTATA
54144980 CAATTTGAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:54148160 original size:39 final size:39
Alignment explanation
Indices: 54148069--54148210 Score: 151
Period size: 40 Copynumber: 3.6 Consensus size: 39
54148059 AAATTGAATG
* * * *
54148069 ATATCCGGGCTAAGCCCCGAAGACAAT-TGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATGTGCTAGTAATT
* * ***
54148107 ATAACCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATGTGCTAGTAATT
* * *
54148146 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAAT-GTGCTAGTAATT
*
54148186 CTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
54148211 TTTGTGCAAT
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
38 23 0.27
39 30 0.35
40 32 0.38
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATGTGCTAGTAATT
Found at i:54148201 original size:40 final size:39
Alignment explanation
Indices: 54148106--54148287 Score: 136
Period size: 39 Copynumber: 4.6 Consensus size: 39
54148096 TGCTGGAAAT
* * * * **
54148106 TATAACCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
*
54148145 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
* * *
54148185 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTCAC
* * * * *
54148223 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCG-GTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
* * * *
54148263 CATAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
54148288 GTTGAACGAG
Statistics
Matches: 114, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
38 3 0.03
39 73 0.64
40 36 0.32
41 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
Found at i:54148229 original size:79 final size:79
Alignment explanation
Indices: 54148111--54148257 Score: 181
Period size: 79 Copynumber: 1.9 Consensus size: 79
54148101 GAAATTATAA
* * *
54148111 CCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGCTATATCCGGGCTAAGACCCGAAGGCATTCGT
1 CCGGGCTAAGACCCGAAGGCAATGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCGT
54148176 GCGAGTCATTCTAT
66 GCGAGTCATTCTAT
* * * * * *
54148190 CCGGGCTAAGACCCGAAGGCATTTGTGC-AATCG-TGATATCCGGGTTAAGTCCCGTAGGCCTTG
1 CCGGGCTAAGACCCGAAGGCA-ATGTGCTAATCGCT-ATATCCGGGCTAAGACCCGAAGGCATTC
54148253 GTGCG
64 GTGCG
54148258 GTTACCATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
78 1 0.02
79 51 0.89
80 5 0.09
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.23
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCAATGTGCTAATCGCTATATCCGGGCTAAGACCCGAAGGCATTCGT
GCGAGTCATTCTAT
Found at i:54156256 original size:40 final size:40
Alignment explanation
Indices: 54156150--54156333 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
54156140 TGCTGGAAAT
* * * * * **
54156150 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
54156190 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
54156230 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
54156268 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
54156309 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
54156334 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:54157799 original size:16 final size:16
Alignment explanation
Indices: 54157778--54157812 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
54157768 CATGTCATAA
54157778 ATACATTTACAATATG
1 ATACATTTACAATATG
54157794 ATACATTTACAATATG
1 ATACATTTACAATATG
54157810 ATA
1 ATA
54157813 TAATATGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (16 bp):
ATACATTTACAATATG
Found at i:54159202 original size:44 final size:43
Alignment explanation
Indices: 54159122--54159225 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 43
54159112 ATGACTGAAT
* * *
54159122 AAATGGCACTATGTGTGCGATACCAATATAAGTTCGGTTTAATG
1 AAATGGCACTAAGTGTGCGATAACAATATAAGTTCGG-CTAATG
* * *
54159166 AAATGGCACTAAGTGTGCGATAATATTAT-AGCTTCGGCTAATT
1 AAATGGCACTAAGTGTGCGATAACAATATAAG-TTCGGCTAATG
*
54159209 AATTGGCACTAAGTGTG
1 AAATGGCACTAAGTGTG
54159226 TGAGTTCAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 22 0.42
44 30 0.58
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (43 bp):
AAATGGCACTAAGTGTGCGATAACAATATAAGTTCGGCTAATG
Found at i:54169343 original size:93 final size:93
Alignment explanation
Indices: 54169228--54169398 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
54169218 GCCCATAAGT
* *
54169228 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
54169293 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
54169321 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
54169386 CGAGTTCGGATGC
66 CGAGCTCGGATGC
54169399 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:54169395 original size:46 final size:46
Alignment explanation
Indices: 54169220--54169395 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
54169210 TGTAACCTGC
* * *
54169220 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* *
54169266 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
54169316 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
54169359 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
54169396 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 65 0.59
47 28 0.25
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:54171826 original size:30 final size:30
Alignment explanation
Indices: 54171782--54171870 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
54171772 CAAAGATAAC
*
54171782 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
54171811 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
54171841 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
54171871 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:54171830 original size:15 final size:14
Alignment explanation
Indices: 54171782--54171864 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
54171772 CAAAGATAAC
*
54171782 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
54171796 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
54171811 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
54171826 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
54171841 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
54171856 AAGAAACCC
1 AAGAAACCC
54171865 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:54171870 original size:15 final size:15
Alignment explanation
Indices: 54171793--54171870 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
54171783 AGAAAACCGA
54171793 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
54171808 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
54171822 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
54171837 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
54171853 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
54171868 ATA
1 ATA
54171871 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:54174934 original size:93 final size:93
Alignment explanation
Indices: 54174775--54174945 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
54174765 GCCCATAAGT
* *
54174775 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
54174840 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
54174868 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
54174933 CGAGTTCGGATGC
66 CGAGCTCGGATGC
54174946 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:54174942 original size:46 final size:46
Alignment explanation
Indices: 54174767--54174942 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
54174757 TGTAACCCGC
* * *
54174767 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * *
54174813 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
54174863 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
54174906 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
54174943 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 64 0.59
47 27 0.25
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:54182467 original size:49 final size:48
Alignment explanation
Indices: 54182160--54182473 Score: 186
Period size: 46 Copynumber: 6.7 Consensus size: 48
54182150 CATTGGGTGG
* * * *
54182160 TATGTGAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCCAC-AT-
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATA
* * * * * * * *
54182206 CATGAGTGCAAGTGTAAGACATATCTGGGACATGCATCGACATTGAGA
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATA
54182254 T-T-AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGGGATA
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTC--GATA
* * * * **
54182302 TA-CA-AGCTAGTGTAAAACTTGTCTGGGACGTGGCATTAG-CT---T-
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGATA
* * * * *
54182344 TTTGTGTG-TCAGTGTAAGACCTGTCTGGGACATGGCATCGACACT-GATA
1 TATGAGAGCT-AGTGTAAGACATGTCTGGGACAT-GCATCGGC-CTCGATA
* * * * * *
54182393 GATGAGAGCCAATGTGAGACCTGTCTGGGACATGGCATTGGCCTCGATA
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGATA
* * *
54182442 TATGAAAGTTAGTGTAAGACATGTCTAGGACA
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACA
54182474 CAGCATCGAC
Statistics
Matches: 200, Mismatches: 51, Indels: 31
0.71 0.18 0.11
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 26 0.13
46 70 0.35
47 2 0.01
48 33 0.17
49 66 0.33
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATA
Found at i:54187932 original size:8 final size:9
Alignment explanation
Indices: 54187917--54187959 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
54187907 ACACAATTTA
54187917 ATTTTTTTT
1 ATTTTTTTT
54187926 ATTTTTTTT
1 ATTTTTTTT
54187935 ATTTTCTATTTT
1 A-TTT-T-TTTT
*
54187947 ATTTTCTTT
1 ATTTTTTTT
54187956 ATTT
1 ATTT
54187960 CTTGCATGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
9 17 0.57
10 4 0.13
11 4 0.13
12 5 0.17
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:54189798 original size:48 final size:49
Alignment explanation
Indices: 54189662--54189789 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 49
54189652 ACAACAAGCT
* **
54189662 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATAT-TGCAAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAGCTTAAATATCTGCAAGGCC
* *
54189711 GATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCT-CGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCTGCAAGGCC
54189759 -AGTGCATGTCCCAGACATGTCTTACACTAGC
1 GA-TGCATGTCCCAGACATGTCTTACACTAGC
54189790 ACACATATCA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
47 1 0.01
48 65 0.92
49 5 0.07
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (49 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCTGCAAGGCC
Found at i:54192342 original size:49 final size:49
Alignment explanation
Indices: 54192275--54192433 Score: 279
Period size: 49 Copynumber: 3.3 Consensus size: 49
54192265 GTATGAGATA
54192275 TATATAT-TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
54192323 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
*
54192372 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA--AGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
*
54192419 TATAAATGTGATAAG
1 TATATATGTGATAAG
54192434 TCCCGAAGAG
Statistics
Matches: 108, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
47 17 0.16
48 7 0.06
49 84 0.78
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
Found at i:54194809 original size:40 final size:40
Alignment explanation
Indices: 54194746--54194946 Score: 314
Period size: 40 Copynumber: 5.0 Consensus size: 40
54194736 AGGTCTCGAC
*
54194746 GATG-ATCCGGGCTAAGTCTCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
54194785 GATGTAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
54194825 GATGTATCCGGGCTAAGTCCTGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
54194865 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * *
54194905 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
54194945 GA
1 GA
54194947 CGTGTATTCG
Statistics
Matches: 148, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 4 0.03
40 144 0.97
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:54198734 original size:49 final size:49
Alignment explanation
Indices: 54198674--54198833 Score: 288
Period size: 49 Copynumber: 3.3 Consensus size: 49
54198664 GTATGAGATA
54198674 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
54198723 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
*
54198772 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA--AGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
*
54198819 TATAAATGTGATAAG
1 TATATATGTGATAAG
54198834 TCCCGAAGAG
Statistics
Matches: 109, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
47 17 0.16
49 92 0.84
ACGTcount: A:0.31, C:0.07, G:0.31, T:0.31
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
Found at i:54201208 original size:40 final size:40
Alignment explanation
Indices: 54201145--54201385 Score: 394
Period size: 40 Copynumber: 6.0 Consensus size: 40
54201135 AGGTCTCGAC
*
54201145 GATG-ATCCGGGCTAAGTCTCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
54201184 GATGTAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
54201224 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
54201264 GATGTATCCGGGCTAAGTCCTGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
54201304 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * *
54201344 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
54201384 GA
1 GA
54201386 CGTGTATTCG
Statistics
Matches: 188, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
39 4 0.02
40 184 0.98
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:54205171 original size:49 final size:49
Alignment explanation
Indices: 54205111--54205270 Score: 288
Period size: 49 Copynumber: 3.3 Consensus size: 49
54205101 GTATGAGATA
54205111 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
54205160 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
*
54205209 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA--AGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
*
54205256 TATAAATGTGATAAG
1 TATATATGTGATAAG
54205271 TCCCGAAGAG
Statistics
Matches: 109, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
47 17 0.16
49 92 0.84
ACGTcount: A:0.31, C:0.07, G:0.31, T:0.31
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
Found at i:54207645 original size:40 final size:40
Alignment explanation
Indices: 54207582--54207782 Score: 314
Period size: 40 Copynumber: 5.0 Consensus size: 40
54207572 AGGTCTCGAC
*
54207582 GATG-ATCCGGGCTAAGTCTCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
54207621 GATGTAACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
54207661 GATGTATCCGGGCTAAGTCCTGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
54207701 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * *
54207741 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
54207781 GA
1 GA
54207783 CGTGTATTCG
Statistics
Matches: 148, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 4 0.03
40 144 0.97
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:54211572 original size:49 final size:49
Alignment explanation
Indices: 54211512--54211671 Score: 288
Period size: 49 Copynumber: 3.3 Consensus size: 49
54211502 GTATGAGATA
54211512 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
54211561 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
*
54211610 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA--AGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
*
54211657 TATAAATGTGATAAG
1 TATATATGTGATAAG
54211672 TCCCGAAGAG
Statistics
Matches: 109, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
47 17 0.16
49 92 0.84
ACGTcount: A:0.31, C:0.07, G:0.31, T:0.31
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTG
Found at i:54215087 original size:49 final size:49
Alignment explanation
Indices: 54215034--54215265 Score: 275
Period size: 49 Copynumber: 4.7 Consensus size: 49
54215024 CTAGTACGCA
* * *
54215034 TAGTAGGCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
* ** *
54215083 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCTGGTACACG
* * * ** *
54215133 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAATTATCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAATTATCTGGTACACG
* * **
54215184 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
*
54215233 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC
54215266 TCACAATAGA
Statistics
Matches: 153, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 71 0.46
50 44 0.29
51 38 0.25
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCTGGTACACG
Found at i:54215258 original size:100 final size:99
Alignment explanation
Indices: 54215034--54215264 Score: 295
Period size: 101 Copynumber: 2.3 Consensus size: 99
54215024 CTAGTACGCA
* * * * * * *
54215034 TAGTAGGCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACCTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCGGGTACACATAGTAGCCTACACTTA
* *
54215099 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCAGATACACG
**
54215133 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAATTATCGGGTATGCATAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-AAATTATCGGGTACACATAGTAGCCTACACT
* **
54215198 TAGTACTACACATGCGACC-AATTATCCAG-TACACG
64 TAGTACTACACACGCGACCTAACCAT-CAGATACACG
54215233 TAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGAC
54215265 CTCACAATAG
Statistics
Matches: 115, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
99 29 0.25
100 42 0.37
101 44 0.38
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCGGGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCTAACCATCAGATACACG
Found at i:54218493 original size:107 final size:108
Alignment explanation
Indices: 54218261--54218494 Score: 296
Period size: 107 Copynumber: 2.2 Consensus size: 108
54218251 GTTAACCGGA
* * * * ** *
54218261 ATTAAATAAAAAAT-AAAT-AATTAAGAGTGTGTTGGGCTTAGTAACTGGGGTGGGGTGCTTGGG
1 ATTAAA-AAATAATAAAATAAATTAAGAGTATATTGGGCTGAGTAACCAGAGTGGGGTGCTTGGG
*
54218324 TTGTCATTCCACTTCGCGTCAAAAGGGCCAATACATTCTTAAAC
65 TTGTCATTCCACTTCGCGTCAAAAGGACCAATACATTCTTAAAC
* * * * *
54218368 AAT-ATATATAATATAATAAATTAGGAGTATATTGGGCTGAGTAACCAGAGTGGGGTGCTT-GGT
1 ATTAAAAAATAATAAAATAAATTAAGAGTATATTGGGCTGAGTAACCAGAGTGGGGTGCTTGGGT
* *
54218431 TGTCATTCCACTTCGTGTCAAAAGGACCAATACATTCTTAATC
66 TGTCATTCCACTTCGCGTCAAAAGGACCAATACATTCTTAAAC
54218474 ATTAAAAAATAATAAAATAAA
1 ATTAAAAAATAATAAAATAAA
54218495 AATAAATAAA
Statistics
Matches: 105, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
105 5 0.05
106 49 0.47
107 51 0.49
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (108 bp):
ATTAAAAAATAATAAAATAAATTAAGAGTATATTGGGCTGAGTAACCAGAGTGGGGTGCTTGGGT
TGTCATTCCACTTCGCGTCAAAAGGACCAATACATTCTTAAAC
Found at i:54221262 original size:24 final size:24
Alignment explanation
Indices: 54221225--54221320 Score: 95
Period size: 24 Copynumber: 4.0 Consensus size: 24
54221215 CATTAAGGAG
* * *
54221225 TACTGATTGCAGCTCGTGAAAGCT
1 TACTAATTGTAGCTCGTGAGAGCT
* *
54221249 TACCAATTGTAGCTCTTGAGAGCT
1 TACTAATTGTAGCTCGTGAGAGCT
*
54221273 TACTAATTCTCAGCTCGT-AGGAGCT
1 TACTAATTGT-AGCTCGTGA-GAGCT
* *
54221298 TACTGATTGTAGCTCGTTAGAGC
1 TACTAATTGTAGCTCGTGAGAGC
54221321 ATACCGAATC
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
24 39 0.66
25 20 0.34
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (24 bp):
TACTAATTGTAGCTCGTGAGAGCT
Found at i:54225495 original size:46 final size:46
Alignment explanation
Indices: 54225344--54225614 Score: 201
Period size: 47 Copynumber: 5.8 Consensus size: 46
54225334 ATTTGTTTGT
* * * *
54225344 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGA
* * *
54225390 GAGCCAGTGTAAGACCATGTCTGGGACATGGTATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
* *
54225438 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGGGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
* * * * * *
54225485 -AGCCAGTGTAAGACATATTTAGGACATGCATTGG-CTATGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGA
* ** * ** * *
54225530 TAGTTAGTGTAAGACCATGTCTAGGACATGGCATC-AACTTGAGA-TA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
*
54225576 TGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
54225615 ACCTTACCCA
Statistics
Matches: 182, Mismatches: 32, Indels: 20
0.78 0.14 0.09
Matches are distributed among these distances:
45 3 0.02
46 71 0.39
47 78 0.43
48 29 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:54225573 original size:47 final size:48
Alignment explanation
Indices: 54225391--54225614 Score: 212
Period size: 47 Copynumber: 4.8 Consensus size: 48
54225381 ACATTATGAG
* * *
54225391 AGCCAGTGTAAGACCATGTCTGGGACATGGTATCGGCATTGAGACGA-G
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC-TTGAGACGATA
* * * *
54225439 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGGGACG-TA
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGG-CTTGAGACGATA
* * * *
54225485 AGCCAGTGTAAGA-CATATTTAGGACAT-GCATTGGCTATGAGATGAT-
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCT-TGAGACGATA
** ** * *
54225531 AGTTAGTGTAAGACCATGTCTAGGACATGGCATCAACTTGAGA-TATG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTGAGACGATA
54225578 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC
54225615 ACCTTACCCA
Statistics
Matches: 144, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
45 2 0.01
46 58 0.40
47 66 0.46
48 18 0.12
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTTGAGACGATA
Found at i:54226157 original size:11 final size:11
Alignment explanation
Indices: 54226141--54226165 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
54226131 ATATGATATT
54226141 TTATTATTTTA
1 TTATTATTTTA
54226152 TTATTATTTTA
1 TTATTATTTTA
54226163 TTA
1 TTA
54226166 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:54235085 original size:49 final size:49
Alignment explanation
Indices: 54234935--54235157 Score: 244
Period size: 49 Copynumber: 4.6 Consensus size: 49
54234925 TATGTGTGCT
* * * * *
54234935 AGTGTAAGACATGTCTAGAACAT-GCATCGGCCAC-AT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAGAGCC
* * * *
54234981 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATAT-ACAAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGA-GAGCC
* *
54235029 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATATATGAGAGCC
*
54235078 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGTA-AGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATG-AGAGCC
* *
54235127 AGTGTAAGACTTGTCTTGGACATGGCATCGA
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA
54235158 ATTAGATGTG
Statistics
Matches: 153, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
46 31 0.20
47 2 0.01
48 30 0.20
49 87 0.57
50 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGAGAGCC
Found at i:54235095 original size:97 final size:98
Alignment explanation
Indices: 54234972--54235157 Score: 284
Period size: 98 Copynumber: 1.9 Consensus size: 98
54234962 CGGCCACATT
*
54234972 ATGAGAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATACAAGCCAGTGTAA
1 ATGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACCTCGAGATATACAAGCCAGTGTAA
54235036 GACCTGTCTGGGACATGGCATCGACACCGATAG
66 GACCTGTCTGGGACATGGCATCGACACCGATAG
* * * ** *
54235069 ATGAGAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATATATGTAAGTCAGTGTAA
1 ATGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACCTCGAGATATACAAGCCAGTGTAA
* *
54235134 GACTTGTCTTGGACATGGCATCGA
66 GACCTGTCTGGGACATGGCATCGA
54235158 ATTAGATGTG
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
97 30 0.38
98 49 0.62
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (98 bp):
ATGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGACCTCGAGATATACAAGCCAGTGTAA
GACCTGTCTGGGACATGGCATCGACACCGATAG
Found at i:54235181 original size:33 final size:33
Alignment explanation
Indices: 54235139--54235204 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
54235129 TGTAAGACTT
54235139 GTCTTGGACATGGCATCGAATTAGATGTGTGAG
1 GTCTTGGACATGGCATCGAATTAGATGTGTGAG
*
54235172 GTCTTGGACATGGCATCGACTTAGATGTGTGAG
1 GTCTTGGACATGGCATCGAATTAGATGTGTGAG
54235205 CCAGTGTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.30
Consensus pattern (33 bp):
GTCTTGGACATGGCATCGAATTAGATGTGTGAG
Found at i:54239227 original size:92 final size:92
Alignment explanation
Indices: 54239058--54239865 Score: 847
Period size: 92 Copynumber: 8.8 Consensus size: 92
54239048 AAACTAGATT
* * * *
54239058 TTTAGGTTTTAATTTTGGTAAAATTAGATTATAGATTTAAATAGGATTTGATTTCAAGTTGTAGT
1 TTTAGATTATAATTTTGGTAAAATTAGATTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAGT
54239123 AAAATTATATTTTTAGGTTCTAATAGG
66 AAAATTATATTTTTAGGTTCTAATAGG
* * * * * *
54239150 TTTATATTGTAATTTTGGTAAAATTAGTTTTTAGGTTTAAATAGGATCTGATTTTAAGTTCTAGT
1 TTTAGATTATAATTTTGGTAAAATTAGATTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAGT
*
54239215 AAAATTAGATTTTTAGGTTCTAATAGG
66 AAAATTATATTTTTAGGTTCTAATAGG
* * * ** *
54239242 CTTAGATCATAATTTTGGAAAAATTAGACAATAGGATTAAATAGGATTTGATTTTAAGTTGTAGT
1 TTTAGATTATAATTTTGGTAAAATTAGATTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAGT
**
54239307 AGTATTATATTTTTAGGTTCTAATAGG
66 AAAATTATATTTTTAGGTTCTAATAGG
*
54239334 TTTGGATTATAATTTTGGTAAAATTAGATTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAGT
1 TTTAGATTATAATTTTGGTAAAATTAGATTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAGT
*
54239399 AAAATTATATTTTTAGGTTTTAATAGG
66 AAAATTATATTTTTAGGTTCTAATAGG
* * * * * *
54239426 CTTAGATCATAATTTTGGAAAAATTAGATAATAGGTTTAAAAAGGATTTGATTTTAAGTTGTAAT
1 TTTAGATTATAATTTTGGTAAAATTAGATTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAGT
**
54239491 AGTATTATATTTTTAGGTTCTAATA-G
66 AAAATTATATTTTTAGGTTCTAATAGG
*
54239517 TTTAGATTATAATTTTGGTAAAATTAGATTATAGGTTTAAA-AGGGTTTGATTTTAAGTTGTAGT
1 TTTAGATTATAATTTTGGTAAAATTAGATTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAGT
* *
54239581 AAAATTAGATTTTTAGCTT-TAATAGG
66 AAAATTATATTTTTAGGTTCTAATAGG
* * * * * ** * ** *
54239607 TTTAGATTTTAATTTTGGAAAAAAATATATTAGAATTTTAATTACAATTTGATTTTAAGTTTTAG
1 TTTAGATTATAATTTTGG-TAAAATTAGATTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAG
* ** * ** *
54239672 TAAAATTAGATTGATAGGTTTTAGCA-A
65 TAAAATTATATTTTTAGGTTCTAATAGG
* * *** * * * * * ** ** *
54239699 ATTAAATTATAAGTTTAAATGAGATTCGTTTGTAATTTTAAATAAAAGTTAGATTTTAAGTTGTA
1 TTTAGATTATAA-TTTTGGTAAAATTAGATTATAGGTTTAAATAGGA-TTTGATTTTAAGTTGTA
* *
54239764 GTAAAATTAGATTTTT-GGCTTTTAATAGG
64 GTAAAATTATATTTTTAGG-TTCTAATAGG
* * * * *
54239793 TTTAGATTTTAATTTTGG-AAAATAATATATTATA-ATTATAAATAGAATTTGATTTTAAGTTTT
1 TTTAGATTATAATTTTGGTAAAAT--TAGATTATAGGTT-TAAATAGGATTTGATTTTAAGTTGT
*
54239856 AGTCAAATTA
63 AGTAAAATTA
54239866 GATTGATAGA
Statistics
Matches: 591, Mismatches: 114, Indels: 21
0.81 0.16 0.03
Matches are distributed among these distances:
89 5 0.01
90 54 0.09
91 54 0.09
92 387 0.65
93 69 0.12
94 22 0.04
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.46
Consensus pattern (92 bp):
TTTAGATTATAATTTTGGTAAAATTAGATTATAGGTTTAAATAGGATTTGATTTTAAGTTGTAGT
AAAATTATATTTTTAGGTTCTAATAGG
Found at i:54239683 original size:23 final size:23
Alignment explanation
Indices: 54239565--54239778 Score: 87
Period size: 23 Copynumber: 9.3 Consensus size: 23
54239555 AAAAGGGTTT
*
54239565 GATTTTAAGTTGTAGTAAAATTA
1 GATTTTAAGTTTTAGTAAAATTA
* * * ***
54239588 GATTTTTAGCTTTAATAGGTTTA
1 GATTTTAAGTTTTAGTAAAATTA
* **
54239611 GATTTTAA-TTTT-GGAAAAAAA
1 GATTTTAAGTTTTAGTAAAATTA
* * * * * *
54239632 TATATTAGAATTTTAATTACAATTT
1 GATTTTA-AGTTTT-AGTAAAATTA
54239657 GATTTTAAGTTTTAGTAAAATTA
1 GATTTTAAGTTTTAGTAAAATTA
* * *
54239680 GATTGATAGGTTTTAG-CAAATTA
1 GATT-TTAAGTTTTAGTAAAATTA
* * * * * * *
54239703 AATTATAAGTTTAAATGAGATTC
1 GATTTTAAGTTTTAGTAAAATTA
*
54239726 G-TTTGTAA-TTTTAAATAAAAGTTA
1 GATTT-TAAGTTTT-AGTAAAA-TTA
*
54239750 GATTTTAAGTTGTAGTAAAATTA
1 GATTTTAAGTTTTAGTAAAATTA
54239773 GATTTT
1 GATTTT
54239779 TGGCTTTTAA
Statistics
Matches: 132, Mismatches: 48, Indels: 22
0.65 0.24 0.11
Matches are distributed among these distances:
21 7 0.05
22 17 0.13
23 68 0.52
24 26 0.20
25 14 0.11
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.45
Consensus pattern (23 bp):
GATTTTAAGTTTTAGTAAAATTA
Found at i:54239813 original size:186 final size:185
Alignment explanation
Indices: 54239565--54239942 Score: 585
Period size: 186 Copynumber: 2.0 Consensus size: 185
54239555 AAAAGGGTTT
54239565 GATTTTAAGTTGTAGTAAAATTAGATTTTTAGCTTTAATAGGTTTAGATTTTAATTTTGGAAAAA
1 GATTTTAAGTTGTAGTAAAATTAGATTTTTAGCTTTAATAGGTTTAGATTTTAATTTTGGAAAAA
* * *
54239630 AATATATTAGAATTTTAATTACAATTTGATTTTAAGTTTTAGTAAAATTAGATTGATAGGTTTTA
66 AATATATTAGAATTATAAATACAATTTGATTTTAAGTTTTAGTAAAATTAGATTGATAGATTTTA
* * * **
54239695 GCAAATTAAATTATAAGTTTAAATGAGATTCGTTTGTAATTTTAAATAAAAGTTA
131 ACAAATTAAATTATAAATTTAAATAAGATTCGTTTGTAATTTTAAATAAAAAATA
*
54239750 GATTTTAAGTTGTAGTAAAATTAGATTTTTGGCTTTTAATAGGTTTAGATTTTAATTTTGGAAAA
1 GATTTTAAGTTGTAGTAAAATTAGATTTTTAGC-TTTAATAGGTTTAGATTTTAATTTTGGAAAA
* * * *
54239815 TAATATATTATAATTATAAATAGAATTTGATTTTAAGTTTTAGTCAAATTAGATTGATAGATTTT
65 AAATATATTAGAATTATAAATACAATTTGATTTTAAGTTTTAGTAAAATTAGATTGATAGATTTT
* * ** *
54239880 AATAAGTTAGGTTATAAATTTAAATAAGATTCGTTTGTAATTTTTAATAAAAAATA
130 AACAAATTAAATTATAAATTTAAATAAGATTCGTTTGTAATTTTAAATAAAAAATA
54239936 GATTTTA
1 GATTTTA
54239943 GGTTTTTGTT
Statistics
Matches: 174, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
185 32 0.18
186 142 0.82
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.46
Consensus pattern (185 bp):
GATTTTAAGTTGTAGTAAAATTAGATTTTTAGCTTTAATAGGTTTAGATTTTAATTTTGGAAAAA
AATATATTAGAATTATAAATACAATTTGATTTTAAGTTTTAGTAAAATTAGATTGATAGATTTTA
ACAAATTAAATTATAAATTTAAATAAGATTCGTTTGTAATTTTAAATAAAAAATA
Found at i:54239940 original size:93 final size:93
Alignment explanation
Indices: 54239652--54239948 Score: 278
Period size: 93 Copynumber: 3.2 Consensus size: 93
54239642 TTTTAATTAC
* * ** * * *
54239652 AATTTGATTTTAAGTTTTAGTAAAATTAGATTGATAGGTTTTAGCAAATTAAATTATAAGTTTAA
1 AATTAGATTTTAAGTTTTAGTAAAATTAGATTGATAGATTTTAATAAGTTAGATTATAAATTTAA
*
54239717 ATGAGATTCGTTTGTAATTTTAAATAAA
66 ATAAGATTCGTTTGTAATTTTAAATAAA
* * ** * * * * *
54239745 AGTTAGATTTTAAGTTGTAGTAAAATTAGATTTTTGGCTTTTAATAGGTTTAGATTTTAATTTTG
1 AATTAGATTTTAAGTTTTAGTAAAATTAGATTGATAGATTTTAATAAG-TTAGATTATAAATTT-
* * * * *
54239810 GAAAATAATA-T--ATTATAATTATAAAT-AG
64 --AAATAAGATTCGTTTGTAATTTTAAATAAA
* * *
54239838 AATTTGATTTTAAGTTTTAGTCAAATTAGATTGATAGATTTTAATAAGTTAGGTTATAAATTTAA
1 AATTAGATTTTAAGTTTTAGTAAAATTAGATTGATAGATTTTAATAAGTTAGATTATAAATTTAA
*
54239903 ATAAGATTCGTTTGTAATTTTTAATAAA
66 ATAAGATTCGTTTGTAATTTTAAATAAA
* *
54239931 AAATAGATTTTAGGTTTT
1 AATTAGATTTTAAGTTTT
54239949 TGTTAGATTA
Statistics
Matches: 155, Mismatches: 41, Indels: 16
0.73 0.19 0.08
Matches are distributed among these distances:
89 7 0.05
90 1 0.01
92 23 0.15
93 93 0.60
94 24 0.15
96 1 0.01
97 6 0.04
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (93 bp):
AATTAGATTTTAAGTTTTAGTAAAATTAGATTGATAGATTTTAATAAGTTAGATTATAAATTTAA
ATAAGATTCGTTTGTAATTTTAAATAAA
Found at i:54242170 original size:54 final size:54
Alignment explanation
Indices: 54242083--54242218 Score: 191
Period size: 54 Copynumber: 2.5 Consensus size: 54
54242073 CCGCACGGTC
* * * * *
54242083 TAGCACACGGCCTGTGACACGGCCATGTGAGCCAAAATGGATTGTTACACGATT
1 TAGCACATGGCCTGCGACACGGCCGTGTAAGCCAAAATAGATTGTTACACGATT
* *
54242137 TAGCACATGGCCTACGACAAGGCCGTGTAAGCCAAAATAGATTGTTACACGATT
1 TAGCACATGGCCTGCGACACGGCCGTGTAAGCCAAAATAGATTGTTACACGATT
* *
54242191 TAGTACATGGCATGCGACACGGCCGTGT
1 TAGCACATGGCCTGCGACACGGCCGTGT
54242219 GGCCCTTTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (54 bp):
TAGCACATGGCCTGCGACACGGCCGTGTAAGCCAAAATAGATTGTTACACGATT
Found at i:54244530 original size:45 final size:45
Alignment explanation
Indices: 54244473--54244642 Score: 232
Period size: 45 Copynumber: 3.8 Consensus size: 45
54244463 ACCAGAAACT
* * * * *
54244473 AGCAAGATCATGACTAAAAGACATTATGGTATCATGATTCTAACG
1 AGCAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAACG
*
54244518 AGTAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAACG
1 AGCAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAACG
* *
54244563 AGCAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTATCA
1 AGCAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAACG
* * * *
54244608 AGCAAGACAATAACTGAAAGATGCTATGGCATCAC
1 AGCAAGACCATGACTGAAAGACGTTATGGCATCAC
54244643 AAATCAAACG
Statistics
Matches: 112, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 112 1.00
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.22
Consensus pattern (45 bp):
AGCAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAACG
Found at i:54244660 original size:45 final size:45
Alignment explanation
Indices: 54244475--54244664 Score: 211
Period size: 45 Copynumber: 4.2 Consensus size: 45
54244465 CAGAAACTAG
* * * * * *
54244475 CAAGATCATGACTAAAAGACATTATGGTATCATGATTCTAACGAG
1 CAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAACGAA
* *
54244520 TAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAACGAG
1 CAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAACGAA
*
54244565 CAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTATC-AA
1 CAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAACGAA
* * * * * * *
54244609 GCAAGACAATAACTGAAAGATGCTATGGCATCACAAATCAAACGAA
1 -CAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAACGAA
*
54244655 TAAGACCATG
1 CAAGACCATG
54244665 GTTGAGAAAC
Statistics
Matches: 123, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
44 1 0.01
45 120 0.98
46 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (45 bp):
CAAGACCATGACTGAAAGACGTTATGGCATCACGATTCTAACGAA
Found at i:54244761 original size:45 final size:46
Alignment explanation
Indices: 54244653--54244774 Score: 140
Period size: 45 Copynumber: 2.7 Consensus size: 46
54244643 AAATCAAACG
* ** *
54244653 AATAAGACCATGGTTGAGAA-ACACTATGGAAACACGACGAAAAATG
1 AATAAGACCATGGTTGA-AAGACACTATGGCAACAAAACGAAAAATA
* *
54244699 AATAAGACCATGGTTGAAAGACACTATGGCATCAAAACG-AGAATA
1 AATAAGACCATGGTTGAAAGACACTATGGCAACAAAACGAAAAATA
* * *
54244744 AATAAGATCATGGTTGAAAGATACCATGGCA
1 AATAAGACCATGGTTGAAAGACACTATGGCA
54244775 CACTCCGATA
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
45 34 0.52
46 32 0.48
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (46 bp):
AATAAGACCATGGTTGAAAGACACTATGGCAACAAAACGAAAAATA
Found at i:54249791 original size:21 final size:20
Alignment explanation
Indices: 54249742--54249791 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
54249732 ACTCAAACTC
*
54249742 TATTAT-TTACTTTAATTAA
1 TATTATATTACTTTAATAAA
54249761 T-TTAACTATTACTTTAATAAA
1 TATT-A-TATTACTTTAATAAA
54249782 TAATTATATT
1 T-ATTATATT
54249792 GATATATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 2 0.08
19 2 0.08
20 1 0.04
21 17 0.68
22 1 0.04
23 2 0.08
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTATATTACTTTAATAAA
Found at i:54252097 original size:40 final size:40
Alignment explanation
Indices: 54252042--54252243 Score: 309
Period size: 40 Copynumber: 5.0 Consensus size: 40
54252032 GATGATAACG
54252042 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
* *
54252082 GGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATTTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
54252122 GGGCTAAGTCCCAAAGGCATTTGTCCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
54252162 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
54252202 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
54252242 GG
1 GG
54252244 TTAAATCCCA
Statistics
Matches: 148, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
39 2 0.01
40 146 0.99
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:54254339 original size:2 final size:2
Alignment explanation
Indices: 54254332--54254359 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
54254322 CACTCATGGC
54254332 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
54254360 CAAACCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:54258944 original size:41 final size:41
Alignment explanation
Indices: 54258800--54258999 Score: 235
Period size: 41 Copynumber: 4.9 Consensus size: 41
54258790 ATACTTGATA
* * * * *
54258800 TCTCGCACACTAAGTGCCGTACATAGCCGAAGCTATTTCAAA
1 TCTCGCACACTAAGTGCCATATATAGGCGAAGCTATCTC-AT
* *
54258842 T-T-GCACACTAAGTGCCATACATA-GCTGAAGCTATCACATT
1 TCTCGCACACTAAGTGCCATATATAGGC-GAAGCTATCTCA-T
*
54258882 TCTCGCACACTAAGTGCCATATGTAGGCGAAGCTATCTCAT
1 TCTCGCACACTAAGTGCCATATATAGGCGAAGCTATCTCAT
* * * *
54258923 TCTTGCACGCTAAGTGCCATATGTAGGCGAAGTTATCTCAT
1 TCTCGCACACTAAGTGCCATATATAGGCGAAGCTATCTCAT
*
54258964 TCTCGCACACTAAGTGCCATATATAGCCGAAGCTAT
1 TCTCGCACACTAAGTGCCATATATAGGCGAAGCTAT
54259000 GTCGAATTGC
Statistics
Matches: 137, Mismatches: 16, Indels: 11
0.84 0.10 0.07
Matches are distributed among these distances:
39 2 0.01
40 30 0.22
41 72 0.53
42 31 0.23
43 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (41 bp):
TCTCGCACACTAAGTGCCATATATAGGCGAAGCTATCTCAT
Found at i:54258967 original size:82 final size:82
Alignment explanation
Indices: 54258800--54259018 Score: 280
Period size: 82 Copynumber: 2.7 Consensus size: 82
54258790 ATACTTGATA
* * *
54258800 TCTCGCACACTAAGTGCCGTACATAGCCGAAGCTATTTCAAATTGCACACTAAGTGCCATACATA
1 TCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATTGCACACTAAGTGCCATACATA
54258865 GCTGAAGCTATCACATT
66 GCTGAAGCTATCACATT
* * ** * **
54258882 TCTCGCACACTAAGTGCCATATGTAGGCGAAGCTATCTCATTCTTGCACGCTAAGTGCCATATGT
1 TCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA-AATTGCACACTAAGTGCCATACAT
* *
54258947 AGGC-GAAGTTATCTCA-T
65 A-GCTGAAGCTATCACATT
* *
54258964 TCTCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATTGCACACTAAGT
1 TCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATTGCACACTAAGT
54259019 TCCACAAGTA
Statistics
Matches: 116, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
81 12 0.10
82 72 0.62
83 30 0.26
84 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (82 bp):
TCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAATTGCACACTAAGTGCCATACATA
GCTGAAGCTATCACATT
Found at i:54273408 original size:47 final size:47
Alignment explanation
Indices: 54273314--54273477 Score: 156
Period size: 45 Copynumber: 3.5 Consensus size: 47
54273304 CATGTTCCAA
*
54273314 ACATGGTCTTACATGGTATCCTTGTCTTAATGCCGATGCCACATCTTG
1 ACATGGTCTTACATGGTATCCTTATC-TAATGCCGATGCCACATCTTG
** **
54273362 ATGTGGTCTTACATGG-AGTCCTTAATC-AATGCCGATGCCATGTCTTG
1 ACATGGTCTTACATGGTA-TCCTT-ATCTAATGCCGATGCCACATCTTG
* * ** * * **
54273409 ACATGGTCTTACACGGGATCCTTGCCT--TACCAATGCCATGTCTTG
1 ACATGGTCTTACATGGTATCCTTATCTAATGCCGATGCCACATCTTG
54273454 ACATGGTCTTACATGGTATCCTTA
1 ACATGGTCTTACATGGTATCCTTA
54273478 ACCGTCAATT
Statistics
Matches: 97, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
45 37 0.38
46 1 0.01
47 37 0.38
48 20 0.21
49 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (47 bp):
ACATGGTCTTACATGGTATCCTTATCTAATGCCGATGCCACATCTTG
Found at i:54276570 original size:39 final size:39
Alignment explanation
Indices: 54276523--54276661 Score: 154
Period size: 40 Copynumber: 3.5 Consensus size: 39
54276513 GGACTAGAAT
*
54276523 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGCTAAGTC
* * *
54276562 CCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGCTAAGTC
* * **
54276602 CCGAAGGCATTCGTGAGAGTCACTATAACCGGGCTTCGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCGGGCTAAGTC
* *
54276642 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
54276662 CGTTATATCC
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 33 0.40
40 48 0.58
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCGGGCTAAGTC
Found at i:54276685 original size:79 final size:79
Alignment explanation
Indices: 54276522--54276687 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
54276512 CGGACTAGAA
* * * *
54276522 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTA
1 TCCGAAGGCATTCGTGAGAGTCAATAAATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTA
*
54276587 AACCCGGGTTAAGT
66 AACCCGGGTTAAAT
* * ** * **
54276601 CCCGAAGGCATTCGTGAGAGTCACTATAA-CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGT
1 TCCGAAGGCATTCGTGAGAGTCAATA-AATCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCAC
* *
54276665 TATATCC-GGTTAAAT
64 TAAACCCGGGTTAAAT
54276680 TCCGAAGG
1 TCCGAAGG
54276688 TAGGTGATTC
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
79 44 0.63
80 26 0.37
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGAAGGCATTCGTGAGAGTCAATAAATCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTA
AACCCGGGTTAAAT
Found at i:54280813 original size:20 final size:20
Alignment explanation
Indices: 54280788--54280838 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
54280778 ATCAGGGCCA
*
54280788 CACGCCCGTGTGGATAGGGG
1 CACGCCCGTGTGGATAGGCG
* *
54280808 CACGCCCATGTGGGTAGGCG
1 CACGCCCGTGTGGATAGGCG
54280828 CACGCCCGTGT
1 CACGCCCGTGT
54280839 CCCTAACCTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.14, C:0.31, G:0.39, T:0.16
Consensus pattern (20 bp):
CACGCCCGTGTGGATAGGCG
Found at i:54285783 original size:48 final size:48
Alignment explanation
Indices: 54285591--54285870 Score: 281
Period size: 48 Copynumber: 5.8 Consensus size: 48
54285581 CACATAGTAA
* * * * *
54285591 GATGCCAATGCCATATCCCAGATATGGTGTTACATGGGATCACACATATC
1 GATGCCGATGCCATGTCCCAGACATGGTCTTACATGGGAT--CTCATATC
* * * *
54285641 GATGCCAATGCCATGTCCTAGACATGGTCTTACATGTGATCTCATATATT
1 GATGCCGATGCCATGTCCCAGACATGGTCTTACATGGGATCTC--ATATC
* * *
54285691 GATGCCAATGCCATGTCCCAGACATGGTCTTACATTGGATCTCGTATC
1 GATGCCGATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATC
* * * * * *
54285739 GGTGCCGATGCGATGTCCCAGACATGGTCTTATATGGGACCTCGTCTC
1 GATGCCGATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATC
* * * * * * *
54285787 AATGCCGATGCCATATCCCAAATATGGTCTTATACGGGGTCTCATATC
1 GATGCCGATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATC
* *
54285835 GATGCCGATGCCATGTCCCAGGCATGGTCTTGCATG
1 GATGCCGATGCCATGTCCCAGACATGGTCTTACATG
54285871 AGACCTTATC
Statistics
Matches: 190, Mismatches: 38, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
48 111 0.58
50 79 0.42
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.29
Consensus pattern (48 bp):
GATGCCGATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATATC
Found at i:54285816 original size:96 final size:96
Alignment explanation
Indices: 54285592--54285876 Score: 311
Period size: 96 Copynumber: 2.9 Consensus size: 96
54285582 ACATAGTAAG
* * *
54285592 ATGCCAATGCCATATCCCAGATATGGTGTTACATGGGATCACACATATCGATGCCAATGCCATGT
1 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGAT--CTCATATCGATGCCGATGCCATGT
* * *
54285657 CCTAGACATGGTCTTACATGTGATCTCATATATT
64 CCCAGACATGGTCTTACATGGGACCTCATATA-T
* * * * * *
54285691 GATGCCAATGCCATGTCCCAGACATGGTCTTACATTGGATCTCGTATCGGTGCCGATGCGATGTC
1 -ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCGATGCCGATGCCATGTC
* * *
54285756 CCAGACATGGTCTTATATGGGACCTCGTCTCA-
65 CCAGACATGGTCTTACATGGGACCTCATAT-AT
* * * * *
54285788 ATGCCGATGCCATATCCCAAATATGGTCTTATACGGGGTCTCATATCGATGCCGATGCCATGTCC
1 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCGATGCCGATGCCATGTCC
* * *
54285853 CAGGCATGGTCTTGCATGAGACCT
66 CAGACATGGTCTTACATGGGACCT
54285877 TATCTTAAAA
Statistics
Matches: 154, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
96 74 0.48
98 44 0.29
99 1 0.01
100 35 0.23
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (96 bp):
ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCGATGCCGATGCCATGTCC
CAGACATGGTCTTACATGGGACCTCATATAT
Found at i:54288774 original size:39 final size:40
Alignment explanation
Indices: 54288674--54288858 Score: 182
Period size: 40 Copynumber: 4.7 Consensus size: 40
54288664 TCGAATGATG
* * **
54288674 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGCGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
**
54288713 ATCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
54288754 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
54288793 TCAGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
54288832 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
54288859 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 35 0.29
40 75 0.62
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:54288880 original size:79 final size:79
Alignment explanation
Indices: 54288727--54288891 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
54288717 GAACTAAGAT
* **
54288727 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* *
54288792 ATCAGGGTTAAGTC
66 ATCACGGTTAAATC
* * *
54288806 CCGAAGGCATTTGTGCGGGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
54288869 TATATC-CGGTTAAATT
63 TAAATCACGGTTAAATC
54288885 CCGAAGG
1 CCGAAGG
54288892 TATGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCACGGTTAAATC
Found at i:54293850 original size:39 final size:39
Alignment explanation
Indices: 54293803--54293899 Score: 131
Period size: 39 Copynumber: 2.5 Consensus size: 39
54293793 GGACTAGGAT
*
54293803 CCGAAGGCATTCGTGCGAGATAATAAATCCGGGCTAAGC
1 CCGAAGGCATTCGTGCGAGATAATAAACCCGGGCTAAGC
* * * * * *
54293842 CCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGT
1 CCGAAGGCATTCGTGCGAGATAATAAACCCGGGCTAAGC
54293881 CCGAAGGCATTCGTGCGAG
1 CCGAAGGCATTCGTGCGAG
54293900 TCACTATAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.28, C:0.23, G:0.29, T:0.21
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATAATAAACCCGGGCTAAGC
Found at i:54293897 original size:78 final size:80
Alignment explanation
Indices: 54293750--54293899 Score: 216
Period size: 79 Copynumber: 1.9 Consensus size: 80
54293740 TCGAATGATG
* * *
54293750 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
54293815 GTGCGAGATAATAAA
66 GTGCGAGATAATAAA
* **
54293830 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
54293892 CGTGCGAG
65 CGTGCGAG
54293900 TCACTATAAC
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
78 20 0.32
79 25 0.40
80 18 0.29
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGATAATAAA
Found at i:54293923 original size:78 final size:80
Alignment explanation
Indices: 54293751--54293932 Score: 214
Period size: 78 Copynumber: 2.3 Consensus size: 80
54293741 CGAATGATGT
* * *
54293751 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
54293815 GTGCGAGATAATAAA
66 GTGCGAGATAATAAA
* **
54293830 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCGAAGGCATT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
54293892 CGTGCGAG-TCACTATAA
65 CGTGCGAGAT-AATA-AA
**
54293909 -CGGGCTTCGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
54293933 AGCGAGTCGT
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
77 8 0.09
78 37 0.42
79 27 0.30
80 17 0.19
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGATAATAAA
Found at i:54300059 original size:39 final size:40
Alignment explanation
Indices: 54299958--54300159 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
54299948 TCGAATGATG
*
54299958 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTATA
*
54299998 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
54300037 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
54300077 TCCGGGTTAAGTCCCGAAGGCATTTGTGCG-GTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
54300116 ACC-GGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
54300155 TCCGG
1 TCCGG
54300160 TTAAATTCTG
Statistics
Matches: 140, Mismatches: 13, Indels: 18
0.82 0.08 0.11
Matches are distributed among these distances:
38 24 0.17
39 53 0.38
40 54 0.39
41 9 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:54300094 original size:79 final size:80
Alignment explanation
Indices: 54299958--54300138 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
54299948 TCGAATGATG
* *
54299958 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
54300022 TGTGCGAGTTACTA-A
66 TGTGCG-GTTACTATA
* **
54300037 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCG-AGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
54300099 TTTGTGCGGTTACTATA
64 TTTGTGCGGTTACTATA
* *
54300116 ACC-GGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
54300139 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
77 6 0.07
78 22 0.24
79 44 0.49
80 18 0.20
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGGTTACTATA
Found at i:54304125 original size:31 final size:31
Alignment explanation
Indices: 54304087--54304148 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
54304077 TGGTAGAGAG
*
54304087 AAGAAATCAAATGTTGTTAGACATGGAATGT
1 AAGAAATCAAACGTTGTTAGACATGGAATGT
* *
54304118 AAGAAATCGAACGTTGTTAGACATGGTATGT
1 AAGAAATCAAACGTTGTTAGACATGGAATGT
54304149 TCAATGTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (31 bp):
AAGAAATCAAACGTTGTTAGACATGGAATGT
Found at i:54305617 original size:34 final size:34
Alignment explanation
Indices: 54305579--54305645 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
54305569 TTTTAGAGAA
*
54305579 AATCACGGACAATATTAAAATTTTATATTCTTTT
1 AATCACGGAAAATATTAAAATTTTATATTCTTTT
*
54305613 AATCATGGAAAATATTAAAATTTTATATTCTTT
1 AATCACGGAAAATATTAAAATTTTATATTCTTT
54305646 CCAAAAGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (34 bp):
AATCACGGAAAATATTAAAATTTTATATTCTTTT
Found at i:54307363 original size:38 final size:38
Alignment explanation
Indices: 54307321--54307445 Score: 241
Period size: 38 Copynumber: 3.3 Consensus size: 38
54307311 ATAGACATGC
54307321 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
*
54307359 ATGTTTGGCCACATGAATGAGTACATAAGTTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
54307397 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
1 ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
54307435 ATGTTCGGCCA
1 ATGTTCGGCCA
54307446 TAGGTAAGCA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 85 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (38 bp):
ATGTTCGGCCACATGAATGAGTACATAAGTTGATGTGT
Found at i:54308132 original size:40 final size:40
Alignment explanation
Indices: 54308038--54308262 Score: 195
Period size: 40 Copynumber: 5.6 Consensus size: 40
54308028 TATTCGAATG
* ** * *
54308038 ATATCCGGGCTAAGTCCCGAAGGTTTTTGTGCTAG-GAGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTG--AGAGTGACT
* * *
54308079 ATAACCGGACTAAGATCCGAAGGCATTCGTGAGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGAGAG-TGACT
* ** * *
54308119 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGAGAGTGACT
* * ** *
54308159 ATATCCGGGCTAAGAACCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGAGAGTGACT
* ** *
54308199 ATATCCGGGCTAAGTCCCGAAGGCA-TCTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTC-GTGAGAGTGACT
54308239 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
54308263 CTTGTGCAAG
Statistics
Matches: 156, Mismatches: 24, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
39 4 0.03
40 127 0.81
41 25 0.16
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGAGAGTGACT
Found at i:54308211 original size:80 final size:80
Alignment explanation
Indices: 54308038--54308298 Score: 287
Period size: 80 Copynumber: 3.3 Consensus size: 80
54308028 TATTCGAATG
** * * *
54308038 ATATCCGGGCTAAGTCCCGAAGGTTTTTGTGCTAGGAGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GAGACTATATCCGGGCTAAGAACCGAAGGC
*
54308103 ATTCGTGAGAGTTGCT
65 ATTCGTGAGAGTCGCT
* * *
54308119 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGAACCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGAGACTATATCCGGGCTAAGAACCGAAGGCA
* **
54308184 TTTGTGCTAG-CGACT
66 TTCGTGAGAGTCG-CT
* * * * *
54308199 ATATCCGGGCTAAGTCCCGAAGGCATCTGTGCTAGTGACCATATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGAGACTATATCCGGGCTAAGAACCGAAGGCA
* *
54308264 TT-GTGCA-AGTAGTT
66 TTCGTG-AGAGTCGCT
*
54308278 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
54308299 ATTACTTGAG
Statistics
Matches: 154, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
78 14 0.09
79 13 0.08
80 96 0.62
81 31 0.20
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGAGACTATATCCGGGCTAAGAACCGAAGGCA
TTCGTGAGAGTCGCT
Found at i:54308252 original size:120 final size:121
Alignment explanation
Indices: 54308038--54308262 Score: 305
Period size: 120 Copynumber: 1.9 Consensus size: 121
54308028 TATTCGAATG
** **
54308038 ATATCCGGGCTAAGTCCCGAAGGTTTTTGTGCTAGGAGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGAACCGAAGGCATTTGTGCTAGGAGACTATAACCGGACTAAGATCCGAAGGC
*
54308103 ATTCGTGAGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
66 ATTCGTGAGAGTTGCCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
* * *
54308159 ATATCCGGGCTAAGAACCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAGAACCGAAGGCATTTGTGCTAGGAGACTATAACCGGACTAAGAT-CCGAAGG
**
54308222 CA-TCTGTGCTAG-TGACCATATCCGGGCTAAGACCCGAAGGC
65 CATTC-GTGAGAGTTG-CCATATCCGGGCTAAGACCCGAAGGC
54308263 CTTGTGCAAG
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
119 5 0.05
120 56 0.62
121 30 0.33
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (121 bp):
ATATCCGGGCTAAGAACCGAAGGCATTTGTGCTAGGAGACTATAACCGGACTAAGATCCGAAGGC
ATTCGTGAGAGTTGCCATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
Found at i:54315452 original size:38 final size:38
Alignment explanation
Indices: 54315363--54315481 Score: 224
Period size: 38 Copynumber: 3.2 Consensus size: 38
54315353 ACATAGTGCA
54315363 TCGGCCACATGAATGAGTACATAAGTTGATGTGTATG-
1 TCGGCCACATGAATGAGTACATAAGTTGATGTGTATGT
54315400 T-GGCCACATGAATGAGTACATAAGTTGATGTGTATGT
1 TCGGCCACATGAATGAGTACATAAGTTGATGTGTATGT
54315437 TCGGCCACATGAATGAGTACATAAGTTGATGTGTATGT
1 TCGGCCACATGAATGAGTACATAAGTTGATGTGTATGT
54315475 TCGGCCA
1 TCGGCCA
54315482 TAGGTAAGCA
Statistics
Matches: 80, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
36 35 0.44
37 2 0.03
38 43 0.54
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (38 bp):
TCGGCCACATGAATGAGTACATAAGTTGATGTGTATGT
Found at i:54316291 original size:79 final size:79
Alignment explanation
Indices: 54316077--54316336 Score: 301
Period size: 80 Copynumber: 3.3 Consensus size: 79
54316067 TATTCGAATG
* * * *
54316077 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
54316142 ATTCGTGCGAGTTGCT
64 ATTCGTGCGAGTCGCT
* * *
54316158 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
54316223 TTTGTGCTAG-CGACT
65 TTCGTGCGAGTCG-CT
* * *
54316238 ATATCCGGGCTAAGTCCGAAGGCATCTGTGCTAGTGACCATATCCGGGCTAAGACCCGAAGGCCT
1 ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCAT
* * *
54316303 T-GTGCAAGTAGTT
66 TCGTGCGAGTCGCT
*
54316316 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGT-CCGAAG
54316337 ATTACTTGAG
Statistics
Matches: 155, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
77 7 0.05
78 19 0.12
79 48 0.31
80 50 0.32
81 31 0.20
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCAT
TCGTGCGAGTCGCT
Done.