Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 135 of 373
Found at i:44566115 original size:33 final size:33
Alignment explanation
Indices: 44566073--44566139 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
44566063 CTAGCTTATG
44566073 TTAATATCTCTCTCGAGACTAAAAACAACTGAC
1 TTAATATCTCTCTCGAGACTAAAAACAACTGAC
44566106 TTAATATCTCTCTCGAGACTAAAAACAACTGAC
1 TTAATATCTCTCTCGAGACTAAAAACAACTGAC
44566139 T
1 T
44566140 CTAGGTTGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (33 bp):
TTAATATCTCTCTCGAGACTAAAAACAACTGAC
Found at i:44568146 original size:11 final size:11
Alignment explanation
Indices: 44568130--44568154 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44568120 AGGTGAAAAC
44568130 TGTGTGCTAGA
1 TGTGTGCTAGA
44568141 TGTGTGCTAGA
1 TGTGTGCTAGA
44568152 TGT
1 TGT
44568155 TAAAAGTACC
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:0.16, C:0.08, G:0.36, T:0.40
Consensus pattern (11 bp):
TGTGTGCTAGA
Found at i:44569260 original size:42 final size:42
Alignment explanation
Indices: 44569161--44569321 Score: 173
Period size: 42 Copynumber: 3.8 Consensus size: 42
44569151 ATTTGAGATA
* * * *
44569161 TCGTGTAAGACCGTGTCTGGGACA-CAAGCCTCG-ATTTGAGATT
1 TCGTGTAAGACCATGTCTGGGACATC-GGCATCGTATCT--GATT
* *
44569204 TACGTGTAAGACCATGTTTGGGACATCGGCATCGTATTTGATT
1 T-CGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATT
*
44569247 TTGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATT
1 TCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATT
* * **
44569289 TCGTGTAAGACCCTATCTGGGACAAAGGCATCG
1 TCGTGTAAGACCATGTCTGGGACATCGGCATCG
44569322 ATACGGAATT
Statistics
Matches: 103, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
42 66 0.64
43 6 0.06
44 26 0.25
45 5 0.05
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.30
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACATCGGCATCGTATCTGATT
Found at i:44571609 original size:6 final size:6
Alignment explanation
Indices: 44571592--44571652 Score: 68
Period size: 6 Copynumber: 9.8 Consensus size: 6
44571582 TAACAAGAAG
* * *
44571592 AATAAA AGTAAA AATAAA AGATAAA AGATAAA AATAAA CATAAA CATAAA
1 AATAAA AATAAA AATAAA A-ATAAA A-ATAAA AATAAA AATAAA AATAAA
*
44571642 CATAAA AATAA
1 AATAAA AATAA
44571653 TCGGACTCAA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
6 37 0.74
7 13 0.26
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:44571634 original size:19 final size:19
Alignment explanation
Indices: 44571593--44571652 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
44571583 AACAAGAAGA
*
44571593 ATAAAAGTAAAAATAAAAG
1 ATAAAAGTAAAAATAAAAC
44571612 ATAAAAGATAAAAAT-AAAC
1 ATAAAAG-TAAAAATAAAAC
*
44571631 ATAAACA-TAAACATAAAA-
1 ATAAA-AGTAAAAATAAAAC
44571649 ATAA
1 ATAA
44571653 TCGGACTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
18 10 0.28
19 18 0.50
20 8 0.22
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (19 bp):
ATAAAAGTAAAAATAAAAC
Found at i:44574281 original size:79 final size:80
Alignment explanation
Indices: 44574191--44574345 Score: 219
Period size: 79 Copynumber: 1.9 Consensus size: 80
44574181 AGCCTGGTTA
* *
44574191 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCACCAATGCCTT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGCCCGGATA-TAGTAACTTAGCA-CAAAGCCTT
44574253 CGGG-CTTAGCCCGAAAT
63 CGGGACTTAGCCCGAAAT
* *
44574270 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATATAGTAACTTAGCACAAAGCCTTCGG
44574335 GACTTAGCCCG
66 GACTTAGCCCG
44574346 GACATCATTC
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
78 3 0.04
79 51 0.75
80 14 0.21
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGGATATAGTAACTTAGCACAAAGCCTTCGG
GACTTAGCCCGAAAT
Found at i:44574347 original size:40 final size:41
Alignment explanation
Indices: 44574163--44574347 Score: 231
Period size: 40 Copynumber: 4.6 Consensus size: 41
44574153 GCTACTCGTT
* * *
44574163 CAAATGCCTTCGGGACATAGCCTGGTTA-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
44574203 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* *
44574243 CCAATGCCTTCGGG-CTTAGCCC-GAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* * *
44574282 CAAATGCCTTC-GGATCTTAGTCCGGATA-TAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTAGTAAC-TCGCA
44574323 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44574348 CATCATTCGA
Statistics
Matches: 128, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
38 4 0.03
39 33 0.26
40 77 0.60
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
Found at i:44583858 original size:27 final size:27
Alignment explanation
Indices: 44583827--44584004 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
44583817 TAAATTGTAC
44583827 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44583854 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
44583880 ATGCACTAAGTGTGCAAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44583908 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44583936 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44583963 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44583990 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44584005 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44583995 original size:82 final size:81
Alignment explanation
Indices: 44583824--44584004 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
44583814 GATTAAATTG
* *
44583824 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44583889 GTGTGCAAATTGACCA
66 GTGTGCAAATTGACCA
* * ** *
44583905 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* * **
44583969 AAGTGTGCGAGTTGATTA
64 AAGTGTGCAAATTGACCA
* *
44583987 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44584005 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCAAATTGACCA
Found at i:44591969 original size:27 final size:27
Alignment explanation
Indices: 44591938--44592115 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44591928 TAAATTGTAC
44591938 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
44591965 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44591991 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
44592019 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
44592047 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
44592074 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
44592101 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44592116 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:44592052 original size:82 final size:81
Alignment explanation
Indices: 44591939--44592094 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44591929 AAATTGTACA
* *
44591939 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
44592003 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
44592020 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
44592085 TGCGAGTTGA
65 TGCGAATTGA
44592095 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:44592106 original size:82 final size:81
Alignment explanation
Indices: 44591935--44592115 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
44591925 GATTAAATTG
* *
44591935 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
44592000 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
44592016 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
44592080 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
44592098 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
44592116 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:44593737 original size:79 final size:78
Alignment explanation
Indices: 44593601--44593818 Score: 244
Period size: 79 Copynumber: 2.7 Consensus size: 78
44593591 GAATCACGTA
* ** * * *
44593601 CCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
1 CCTTCGGAACTTAACCGGATATAG-TACTCGCACCAATGCCTTCGGGACTTAGCCCGGAAT-TAG
44593665 TAACTCACACAAATG
64 TAACTCACACAAATG
*
44593680 CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAG
1 CCTTCGGAACTTAA-CCGGATATAGT-ACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATTAG
*
44593744 TAACTCGCACAAATG
64 TAACTCACACAAATG
* * * *
44593759 CCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGAACTTA-ACCGGATATAGT-AC-TCGCACCAATGCCTTCGGGACTTAGCCCGGA
44593819 CATCATTCGA
Statistics
Matches: 119, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
79 76 0.64
80 43 0.36
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CCTTCGGAACTTAACCGGATATAGTACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATTAGTA
ACTCACACAAATG
Found at i:44593818 original size:40 final size:40
Alignment explanation
Indices: 44593634--44593818 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
44593624 GCTACTCGTT
* *
44593634 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACT-AGCA
* * * *
44593674 CAAATGCCTTCGGAACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* *
44593714 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
* *
44593753 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
44593794 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44593819 CATCATTCGA
Statistics
Matches: 123, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.63
41 12 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:44595682 original size:3 final size:3
Alignment explanation
Indices: 44595674--44595715 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
44595664 ATAAATAGAG
44595674 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
44595716 GGAATAAGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:44597467 original size:43 final size:42
Alignment explanation
Indices: 44597438--44597715 Score: 403
Period size: 43 Copynumber: 6.5 Consensus size: 42
44597428 TTACATCTAT
* * *
44597438 TAGGCACGAAGGCCCAAATACACATCACCGACACGAAGCCAGC
1 TAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC-TC
*
44597481 TAGGCACGAAGGCCCGAATACACATCACTGGCACGAAGCCTGC
1 TAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCT-C
*
44597524 TAGGCAGGAAGGCCCGAATACACATCACCGGCACGAAGCCTGC
1 TAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCT-C
*
44597567 TAGGCACGAAGGCCCGAATACACATCACTGGCACGAAGCCTTC
1 TAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC-TC
* * * *
44597610 TACGCACGAAGGCCCGAATGCACATCACCGACACGAAGCTTGC
1 TAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCT-C
*
44597653 TAGGCACGAAGGCCCGAATACACATCACCGGCATGAAGCCTGC
1 TAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCT-C
44597696 TAGGCACGAAGGCCCGAATA
1 TAGGCACGAAGGCCCGAATA
44597716 TAATACTAGC
Statistics
Matches: 214, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.00
43 212 0.99
44 1 0.00
ACGTcount: A:0.32, C:0.33, G:0.25, T:0.11
Consensus pattern (42 bp):
TAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTC
Found at i:44597583 original size:86 final size:86
Alignment explanation
Indices: 44597438--44597715 Score: 466
Period size: 86 Copynumber: 3.2 Consensus size: 86
44597428 TTACATCTAT
* *
44597438 TAGGCACGAAGGCCCAAATACACATCACCGACACGAAGCCAGCTAGGCACGAAGGCCCGAATACA
1 TAGGCACGAAGGCCCGAATACACATCACCGACACGAAGCCTGCTAGGCACGAAGGCCCGAATACA
44597503 CATCACTGGCACGAAGCCTGC
66 CATCACTGGCACGAAGCCTGC
* *
44597524 TAGGCAGGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACA
1 TAGGCACGAAGGCCCGAATACACATCACCGACACGAAGCCTGCTAGGCACGAAGGCCCGAATACA
*
44597589 CATCACTGGCACGAAGCCTTC
66 CATCACTGGCACGAAGCCTGC
* * *
44597610 TACGCACGAAGGCCCGAATGCACATCACCGACACGAAGCTTGCTAGGCACGAAGGCCCGAATACA
1 TAGGCACGAAGGCCCGAATACACATCACCGACACGAAGCCTGCTAGGCACGAAGGCCCGAATACA
* *
44597675 CATCACCGGCATGAAGCCTGC
66 CATCACTGGCACGAAGCCTGC
44597696 TAGGCACGAAGGCCCGAATA
1 TAGGCACGAAGGCCCGAATA
44597716 TAATACTAGC
Statistics
Matches: 177, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 177 1.00
ACGTcount: A:0.32, C:0.33, G:0.25, T:0.11
Consensus pattern (86 bp):
TAGGCACGAAGGCCCGAATACACATCACCGACACGAAGCCTGCTAGGCACGAAGGCCCGAATACA
CATCACTGGCACGAAGCCTGC
Found at i:44597654 original size:129 final size:129
Alignment explanation
Indices: 44597438--44597715 Score: 448
Period size: 129 Copynumber: 2.2 Consensus size: 129
44597428 TTACATCTAT
* *
44597438 TAGGCACGAAGGCCCAAATACACATCACCGACACGAAGCCAGCTAGGCACGAAGGCCCGAATACA
1 TAGGCACGAAGGCCCGAATACACATCACCGACACGAAGCCAGCTACGCACGAAGGCCCGAATACA
* * *
44597503 CATCACTGGCACGAAGCCTGCTAGGCAGGAAGGCCCGAATACACATCACCGGCACGAAGCCTGC
66 CATCACCGACACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGC
* * ** *
44597567 TAGGCACGAAGGCCCGAATACACATCACTGGCACGAAGCCTTCTACGCACGAAGGCCCGAATGCA
1 TAGGCACGAAGGCCCGAATACACATCACCGACACGAAGCCAGCTACGCACGAAGGCCCGAATACA
* *
44597632 CATCACCGACACGAAGCTTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAAGCCTGC
66 CATCACCGACACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGC
44597696 TAGGCACGAAGGCCCGAATA
1 TAGGCACGAAGGCCCGAATA
44597716 TAATACTAGC
Statistics
Matches: 137, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 137 1.00
ACGTcount: A:0.32, C:0.33, G:0.25, T:0.11
Consensus pattern (129 bp):
TAGGCACGAAGGCCCGAATACACATCACCGACACGAAGCCAGCTACGCACGAAGGCCCGAATACA
CATCACCGACACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGC
Found at i:44597792 original size:38 final size:38
Alignment explanation
Indices: 44597708--44597810 Score: 91
Period size: 38 Copynumber: 2.7 Consensus size: 38
44597698 GGCACGAAGG
* * * *
44597708 CCCGAATATAATACTAGCACTAGGCCTGCAGGATTTAT
1 CCCGGATATAATACTAGCACTAAGCCTACAGGATTTAA
* * *
44597746 TCCTGATATAATACTAGCA-TAAAGCCTACGGGATTTAA
1 CCCGGATATAATACTAGCACT-AAGCCTACAGGATTTAA
** * *
44597784 CCCGGATATTTTACCAGCACGAAGCCT
1 CCCGGATATAATACTAGCACTAAGCCT
44597811 GCGGGTCTTT
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
37 1 0.02
38 49 0.98
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.26
Consensus pattern (38 bp):
CCCGGATATAATACTAGCACTAAGCCTACAGGATTTAA
Found at i:44600495 original size:25 final size:25
Alignment explanation
Indices: 44600466--44600521 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 25
44600456 TTTCGCCAAA
44600466 TTCAC-GGAATCACAATTTTCCATTC
1 TTCACAGG-ATCACAATTTTCCATTC
*
44600491 TTCACATGATCACAATTTTCCATTC
1 TTCACAGGATCACAATTTTCCATTC
44600516 TTCACA
1 TTCACA
44600522 TGTATCTCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.38
Consensus pattern (25 bp):
TTCACAGGATCACAATTTTCCATTC
Found at i:44600534 original size:25 final size:25
Alignment explanation
Indices: 44600474--44600523 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
44600464 AATTCACGGA
44600474 ATCACAATTTTCCATTCTTCACATG
1 ATCACAATTTTCCATTCTTCACATG
44600499 ATCACAATTTTCCATTCTTCACATG
1 ATCACAATTTTCCATTCTTCACATG
44600524 TATCTCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.28, G:0.04, T:0.40
Consensus pattern (25 bp):
ATCACAATTTTCCATTCTTCACATG
Found at i:44603227 original size:43 final size:43
Alignment explanation
Indices: 44603179--44603502 Score: 497
Period size: 43 Copynumber: 7.6 Consensus size: 43
44603169 GGCATTACGT
** * *
44603179 CTGCTAGGCACGAAGGCCTAAATACACATCACCAGCATGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
* *
44603222 CTGCTACGCACGAAGGCCCGAATACACATCACCGGAACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
* * * *
44603265 CTGCTAGGCACGAAGGCCCGAATATACATCATCTGCACAAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
* *
44603308 CTGTTAGGCACGAAGGCCCGAATATACATCACCGGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
*
44603351 CTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
* *
44603394 CTGCTAGGCCCGAAGGCCCGAATACACA-CACCGGCCCGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
*
44603436 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACCAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
44603479 CTGCTAGGCACGAAGGCCCGAATA
1 CTGCTAGGCACGAAGGCCCGAATA
44603503 TAATACTAGC
Statistics
Matches: 255, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
42 40 0.16
43 215 0.84
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.12
Consensus pattern (43 bp):
CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
Found at i:44603579 original size:38 final size:38
Alignment explanation
Indices: 44603495--44603618 Score: 106
Period size: 38 Copynumber: 3.2 Consensus size: 38
44603485 GGCACGAAGG
* * * *
44603495 CCCGAATATAATACTAGCACT-AGGCCTGCAGGATTTAT
1 CCCGGATATAATACTAGCA-TGAAGCCTGCGGGATTTAA
* * *
44603533 TCCTGATATAATACTAGCATGAAGCCTACGGGATTTAA
1 CCCGGATATAATACTAGCATGAAGCCTGCGGGATTTAA
** * * *
44603571 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACTAGCATGAAGCCTGCGGG-ATTTAA
44603610 GCCCGGATA
1 -CCCGGATA
44603619 CACATCAAAT
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
37 1 0.01
38 54 0.79
39 5 0.07
40 8 0.12
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (38 bp):
CCCGGATATAATACTAGCATGAAGCCTGCGGGATTTAA
Found at i:44610813 original size:94 final size:92
Alignment explanation
Indices: 44610677--44610883 Score: 243
Period size: 94 Copynumber: 2.2 Consensus size: 92
44610667 CATGAGATTT
* ** * * *
44610677 TAAGACATATCTGGGACATGCATTGGCCACATTATGATAGCCAGTGTACGACCATGTATGGGACA
1 TAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGA-CATGTATGGGACA
* * * *
44610742 TGGCATCGGCATTGAGACGAGGGCTAGTG
65 T-GCATCGACATAGAGACGAGAGCCAGTG
* *
44610771 TAAGACATGTCTGGGACATGGATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTCTGGGACAT
1 TAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTATGGGACAT
* * **
44610836 GCATCGACCTAGAGATGTTAGCCAGTG
66 GCATCGACATAGAGACGAGAGCCAGTG
*
44610863 TCAGACATGTCTGGGACATGC
1 TAAGACATGTCTGGGACATGC
44610884 GTCGGCTACG
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
92 38 0.40
93 13 0.14
94 44 0.46
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (92 bp):
TAAGACATGTCTGGGACATGCATCAGCCACAGTATGAGAGCCAGTGTAAGACATGTATGGGACAT
GCATCGACATAGAGACGAGAGCCAGTG
Found at i:44610827 original size:46 final size:44
Alignment explanation
Indices: 44610677--44610883 Score: 180
Period size: 46 Copynumber: 4.5 Consensus size: 44
44610667 CATGAGATTT
* * * *
44610677 TAAGACATATCTGGGACATGCATTGGCCACATTATGATAGCCAGTG
1 TAAGACATGTCTGGGACATGCA-TCGCCACA-GATGAGAGCCAGTG
* * * * * * *
44610723 TACGACCATGTATGGGACATGGCATCGGCATTGAGACGAGGGCTAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCGCCA--CAGATGAGAGCCAGTG
*
44610771 TAAGACATGTCTGGGACATGGATCAGCCACAGTATGAGAGCCAGTG
1 TAAGACATGTCTGGGACATGCATC-GCCACAG-ATGAGAGCCAGTG
* **
44610817 TAAGACATGTCTGGGACATGCATCGACCTAGAGATGTTAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCG-CC-ACAGATGAGAGCCAGTG
*
44610863 TCAGACATGTCTGGGACATGC
1 TAAGACATGTCTGGGACATGC
44610884 GTCGGCTACG
Statistics
Matches: 129, Mismatches: 24, Indels: 16
0.76 0.14 0.09
Matches are distributed among these distances:
45 3 0.02
46 74 0.57
47 35 0.27
48 16 0.12
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (44 bp):
TAAGACATGTCTGGGACATGCATCGCCACAGATGAGAGCCAGTG
Found at i:44611684 original size:31 final size:31
Alignment explanation
Indices: 44611637--44611720 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
44611627 TTAGTCTTGA
*
44611637 CATAT-ACTGAGTCGAAGCCTTTCCATAAAT
1 CATATCACTGGGTCGAAGCCTTTCCATAAAT
*
44611667 CATATCACTGGGTCGAAGCCTTTTCATAAAT
1 CATATCACTGGGTCGAAGCCTTTCCATAAAT
*
44611698 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGTCGAAGCCTTT
44611721 ACTGTAAACA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 45 0.90
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGTCGAAGCCTTTCCATAAAT
Found at i:44611955 original size:25 final size:25
Alignment explanation
Indices: 44611927--44611996 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
44611917 CTCTTTTAAT
44611927 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
44611952 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
44611977 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
44611997 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:44615095 original size:30 final size:31
Alignment explanation
Indices: 44615061--44615118 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
44615051 TATATTATAA
44615061 TAATAGTTATACATGTAT-TAA-TATTTTCAG
1 TAATAGTTATACAT-TATATAATTATTTTCAG
*
44615091 TAATAGTTATATATTATATAATTATTTT
1 TAATAGTTATACATTATATAATTATTTT
44615119 ATGTATTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 3 0.12
30 16 0.64
31 6 0.24
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (31 bp):
TAATAGTTATACATTATATAATTATTTTCAG
Found at i:44617443 original size:85 final size:85
Alignment explanation
Indices: 44617289--44617450 Score: 211
Period size: 85 Copynumber: 1.9 Consensus size: 85
44617279 ATGCGTTTTT
* * * * *
44617289 GTGTAAGACCATGTCTGGGATATTGGCATCGACTTATGATTTACGTTAAGACCACGTCTGGGACA
1 GTGTAAGACCATGTCTGGGACAGTGGCATCGACTTATGATTTACATTAAGACCACATCTGAGACA
44617354 TTGGCATCGTATTTGATTTC
66 TTGGCATCGTATTTGATTTC
* *
44617374 GTGTAAGACCCTGTCTGGGACAGTGGCATCGA-TATTTGA-TTACATGTAAGACCACATCTGAGA
1 GTGTAAGACCATGTCTGGGACAGTGGCATCGACT-TATGATTTACAT-TAAGACCACATCTGAGA
**
44617437 TGTTGGCATCGTAT
64 CATTGGCATCGTAT
44617451 GAGCTTTCTG
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 6 0.09
85 60 0.91
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (85 bp):
GTGTAAGACCATGTCTGGGACAGTGGCATCGACTTATGATTTACATTAAGACCACATCTGAGACA
TTGGCATCGTATTTGATTTC
Found at i:44617444 original size:43 final size:43
Alignment explanation
Indices: 44617289--44617447 Score: 173
Period size: 43 Copynumber: 3.7 Consensus size: 43
44617279 ATGCGTTTTT
* *
44617289 GTGTAAGACCATGTCTGGGATATTGGCATCGACT-TATGATTTAC
1 GTGTAAGACCACGTCTGGGATATTGGCATCGA-TATTTGA-TTAC
* *
44617333 GT-TAAGACCACGTCTGGGACATTGGCATCG-TATTTGATTTC
1 GTGTAAGACCACGTCTGGGATATTGGCATCGATATTTGATTAC
* *
44617374 GTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGATATTGGCATCGATATTTGATTAC
* * * *
44617417 ATGTAAGACCACATCTGAGATGTTGGCATCG
1 GTGTAAGACCACGTCTGGGATATTGGCATCG
44617448 TATGAGCTTT
Statistics
Matches: 98, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
41 7 0.07
42 29 0.30
43 59 0.60
44 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGATATTGGCATCGATATTTGATTAC
Found at i:44617539 original size:19 final size:19
Alignment explanation
Indices: 44617517--44617556 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
44617507 CGAGAAATGA
44617517 ATGATTATATGAGATATGT
1 ATGATTATATGAGATATGT
44617536 ATGATTATATGAGATATGT
1 ATGATTATATGAGATATGT
44617555 AT
1 AT
44617557 CCGATTCAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (19 bp):
ATGATTATATGAGATATGT
Found at i:44625790 original size:43 final size:41
Alignment explanation
Indices: 44625668--44625846 Score: 254
Period size: 41 Copynumber: 4.3 Consensus size: 41
44625658 TATTCGGGCT
* * *
44625668 TTATTGCCTAGCAAGCTTTGTGCCGGTGTATTAAATCAAGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
44625709 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
* *
44625750 TTATTGCCTAGTAGGCTTTATATGCCGGTGTATTATATCAGGC
1 TTATTGCCTAGCAGGC-TT-TGTGCCGGTGTATTATATCAGGC
*
44625793 TTATTGCCTAGCAGGCTCTGTGCCGGTGTATTATA-CTAGGC
1 TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATC-AGGC
44625834 TT-TATGCCTAGCA
1 TTAT-TGCCTAGCA
44625847 AATTTTATGT
Statistics
Matches: 126, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
40 2 0.02
41 84 0.67
42 3 0.02
43 37 0.29
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (41 bp):
TTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATATCAGGC
Found at i:44625795 original size:84 final size:84
Alignment explanation
Indices: 44625688--44625844 Score: 255
Period size: 84 Copynumber: 1.9 Consensus size: 84
44625678 GCAAGCTTTG
*
44625688 TGCCGGTGTATTAAATCAAGCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATA-TCAGGC-T
1 TGCCGGTGTATTAAATCAAGCTTATTGCCTAGCAGGCTCTGTGCCGGTGTATTATACT-AGGCTT
44625751 TATTGCCTAGTAGGCTTTATA
65 TA-TGCCTAGTAGGCTTTATA
* *
44625772 TGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTCTGTGCCGGTGTATTATACTAGGCTTT
1 TGCCGGTGTATTAAATCAAGCTTATTGCCTAGCAGGCTCTGTGCCGGTGTATTATACTAGGCTTT
44625837 ATGCCTAG
66 ATGCCTAG
44625845 CAAATTTTAT
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
84 64 0.94
85 4 0.06
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (84 bp):
TGCCGGTGTATTAAATCAAGCTTATTGCCTAGCAGGCTCTGTGCCGGTGTATTATACTAGGCTTT
ATGCCTAGTAGGCTTTATA
Found at i:44625854 original size:84 final size:84
Alignment explanation
Indices: 44625668--44625854 Score: 247
Period size: 84 Copynumber: 2.2 Consensus size: 84
44625658 TATTCGGGCT
* * *
44625668 TTATTGCCTAGCAAGC-TT-TGTGCCGGTGTATTAAATCAAGCTTATTGCCTAGCAGGCTTTGTG
1 TTATTGCCTAGCAAACTTTATATGCCGGTGTATTAAATCAAGCTTATTGCCTAGCAGGCTCTGTG
44625731 CCGGTGTATTATATCAGGC
66 CCGGTGTATTATATCAGGC
* ** * *
44625750 TTATTGCCTAGTAGGCTTTATATGCCGGTGTATTATATCAGGCTTATTGCCTAGCAGGCTCTGTG
1 TTATTGCCTAGCAAACTTTATATGCCGGTGTATTAAATCAAGCTTATTGCCTAGCAGGCTCTGTG
44625815 CCGGTGTATTATA-CTAGGC
66 CCGGTGTATTATATC-AGGC
*
44625834 TT-TATGCCTAGCAAATTTTAT
1 TTAT-TGCCTAGCAAACTTTAT
44625855 GTGAACAACG
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
82 14 0.15
83 4 0.04
84 73 0.80
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (84 bp):
TTATTGCCTAGCAAACTTTATATGCCGGTGTATTAAATCAAGCTTATTGCCTAGCAGGCTCTGTG
CCGGTGTATTATATCAGGC
Found at i:44629042 original size:15 final size:15
Alignment explanation
Indices: 44629022--44629050 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44629012 TGTATGAATT
44629022 TATATATATTATGGC
1 TATATATATTATGGC
44629037 TATATATATTATGG
1 TATATATATTATGG
44629051 TCGAATATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.48
Consensus pattern (15 bp):
TATATATATTATGGC
Found at i:44633313 original size:27 final size:27
Alignment explanation
Indices: 44633283--44633372 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
44633273 ATTAGCAAAG
*
44633283 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTATAAAATTACTGTTT
* *
44633310 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* *
44633337 TACCATCGATTT-TCAAATTAC-GTTT
1 TACCCTCGATTTATAAAATTACTGTTT
*
44633362 TACCCTTGATT
1 TACCCTCGATT
44633373 GTGAAATTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
25 13 0.24
26 7 0.13
27 34 0.63
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.46
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTGTTT
Found at i:44633379 original size:25 final size:25
Alignment explanation
Indices: 44633298--44633381 Score: 80
Period size: 25 Copynumber: 3.2 Consensus size: 25
44633288 TCGATTTATA
* *
44633298 AAATTACTATTTTACCCTTGATTTAT
1 AAATTACTGTTTTACCCTTGATTT-C
* *
44633324 AGAATTACTGTTTTACCATCGATTTTC
1 A-AATTACTGTTTTACCCTTGA-TTTC
*
44633351 AAATTAC-GTTTTACCCTTGATTGTG
1 AAATTACTGTTTTACCCTTGATT-TC
44633376 AAATTA
1 AAATTA
44633382 TTGAAATACC
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
24 2 0.04
25 18 0.38
26 7 0.15
27 18 0.38
28 3 0.06
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (25 bp):
AAATTACTGTTTTACCCTTGATTTC
Found at i:44633434 original size:27 final size:27
Alignment explanation
Indices: 44633404--44633502 Score: 128
Period size: 27 Copynumber: 3.7 Consensus size: 27
44633394 TATAGGGTAG
44633404 AATTACCAAAATACCCCTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTGA
* *
44633431 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTGA
* * * *
44633458 AATTACCGAAATA-CCCTCAATTTATAA
1 AATTACCAAAATACCCCT-AGTTTGTGA
44633485 AATTACCAAAATACCCCT
1 AATTACCAAAATACCCCT
44633503 GATTTACATA
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.05
27 54 0.89
28 4 0.07
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTGA
Found at i:44633516 original size:54 final size:55
Alignment explanation
Indices: 44633404--44633528 Score: 130
Period size: 54 Copynumber: 2.3 Consensus size: 55
44633394 TATAGGGTAG
* * * * * **
44633404 AATTACCAAAATACCC-CTAGTTTGTGAAATTACCAAAATACCACTGGTTTGTGA
1 AATTACCGAAATACCCTCTAATTTATAAAATTACCAAAATACCACTGATTTGACA
*
44633458 AATTACCGAAATACCCTC-AATTTATAAAATTACCAAAATACCCCTGATTT-ACA
1 AATTACCGAAATACCCTCTAATTTATAAAATTACCAAAATACCACTGATTTGACA
**
44633511 TAATTATAGAAATACCCT
1 -AATTACCGAAATACCCT
44633529 TGACTTTCTA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
53 1 0.02
54 57 0.97
55 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.30
Consensus pattern (55 bp):
AATTACCGAAATACCCTCTAATTTATAAAATTACCAAAATACCACTGATTTGACA
Found at i:44633673 original size:27 final size:26
Alignment explanation
Indices: 44633630--44633703 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 26
44633620 AAATTACTAA
*
44633630 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAA-ACCGT
*
44633657 AA-AGCCCCTGTAGGGTAAAGTAACCGT
1 AATA-CCCCTGTAGGGTAAA-AAACCGT
*
44633684 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
44633704 TGATGAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
26 3 0.08
27 34 0.87
28 2 0.05
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (26 bp):
AATACCCCTGTAGGGTAAAAAACCGT
Found at i:44637174 original size:27 final size:27
Alignment explanation
Indices: 44637144--44637233 Score: 135
Period size: 27 Copynumber: 3.3 Consensus size: 27
44637134 ATTACCAAAG
*
44637144 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
44637171 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
*
44637198 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
44637225 TACCCTCGA
1 TACCCTCGA
44637234 CTGTGAAATT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:44637297 original size:27 final size:27
Alignment explanation
Indices: 44637239--44637475 Score: 124
Period size: 27 Copynumber: 8.7 Consensus size: 27
44637229 CTCGACTGTG
* **
44637239 AAATTACTAAAATACCCTTA-TAGGGTA
1 AAATTACCAAAATACCCTTAGT-TTGTA
*
44637266 GAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* * *
44637293 AAATTACCAAAATACCAC-TGGTTTATG
1 AAATTACCAAAATACC-CTTAGTTTGTA
* * * *
44637320 AAATTATCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCTTAGTTTGTA
* * **
44637347 AAATTACCAAAATACCCCTAATTTACA
1 AAATTACCAAAATACCCTTAGTTTGTA
* * *
44637374 CAATTA-CAGAAATACCCTTGACTTTTTA
1 AAATTACCA-AAATACCCTT-AGTTTGTA
* * * **
44637402 AAATTTA-TAGAAATACCATTGGTTTACA
1 AAA-TTACCA-AAATACCCTTAGTTTGTA
*
44637430 AAATTACTAAAATACCCTT-GTTTTGTA
1 AAATTACCAAAATACCCTTAG-TTTGTA
* * * *
44637457 CATTTACAAAAACACCCTT
1 AAATTACCAAAATACCCTT
44637476 GTAGGATGAA
Statistics
Matches: 162, Mismatches: 40, Indels: 16
0.74 0.18 0.07
Matches are distributed among these distances:
26 4 0.02
27 126 0.78
28 18 0.11
29 14 0.09
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTAGTTTGTA
Found at i:44637325 original size:54 final size:53
Alignment explanation
Indices: 44637267--44637452 Score: 162
Period size: 54 Copynumber: 3.4 Consensus size: 53
44637257 TATAGGGTAG
*
44637267 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTATGA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTA-AA
* * * * * ** *
44637321 AATTATCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAC
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTA-AA
* * * *
44637375 AATTA-CAGAAATACCCTTGACTTTTTAAAATTTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCTT-AGTTTGTAAAA-TTACCA-AAATACCACTGGTTTA-AA
*
44637431 AATTACTAAAATACCCTT-GTTT
1 AATTACCAAAATACCCTTAGTTT
44637453 TGTACATTTA
Statistics
Matches: 105, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
53 1 0.01
54 61 0.58
55 10 0.10
56 32 0.30
57 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.07, T:0.33
Consensus pattern (53 bp):
AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTAAA
Found at i:44638450 original size:24 final size:25
Alignment explanation
Indices: 44638379--44638448 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
44638369 AGGAAGTCCT
* * *
44638379 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
44638404 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
44638429 AAAAGGACTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
44638449 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:44641650 original size:16 final size:16
Alignment explanation
Indices: 44641631--44641661 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
44641621 TGAAATGCCA
44641631 AAATGCCGAAAAGCTG
1 AAATGCCGAAAAGCTG
44641647 AAATGCCGAAAAGCT
1 AAATGCCGAAAAGCT
44641662 AAAAGTTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.13
Consensus pattern (16 bp):
AAATGCCGAAAAGCTG
Found at i:44641932 original size:29 final size:29
Alignment explanation
Indices: 44641874--44641933 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
44641864 GTGAGCATGA
*
44641874 ATATAATGTGTTATGGGCCTAAAAGGGCC
1 ATATAATGTGTTATGGGCCTAAAAGAGCC
*
44641903 ATATAAATGTGATT-TGGGCCT-AACGAGCC
1 ATAT-AATGTG-TTATGGGCCTAAAAGAGCC
44641932 AT
1 AT
44641934 GTGAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 12 0.44
30 13 0.48
31 2 0.07
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (29 bp):
ATATAATGTGTTATGGGCCTAAAAGAGCC
Found at i:44648057 original size:32 final size:32
Alignment explanation
Indices: 44648021--44648094 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 32
44648011 ACAGTCTCAA
* *
44648021 TTGGGCCTAGCCCAAATCAGCATCAATATCAG
1 TTGGGCCTAGCCCAAATCAGAACCAATATCAG
* *
44648053 TTGGGCCTAGCCCATATCAGAACCAGTATCAG
1 TTGGGCCTAGCCCAAATCAGAACCAATATCAG
44648085 TTGGGCCTAG
1 TTGGGCCTAG
44648095 GCCATTTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (32 bp):
TTGGGCCTAGCCCAAATCAGAACCAATATCAG
Found at i:44655706 original size:19 final size:19
Alignment explanation
Indices: 44655655--44655709 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
44655645 TTTAACCCAC
44655655 ACTATATATATATTTT-TGTT
1 ACTATATAT-TATTTTAT-TT
*
44655675 AAT-TAT-TTA-TTTATTT
1 ACTATATATTATTTTATTT
44655691 ACTATATATTATTTTATTT
1 ACTATATATTATTTTATTT
44655710 TAAACTAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
16 7 0.24
17 6 0.21
18 4 0.14
19 10 0.34
20 2 0.07
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.64
Consensus pattern (19 bp):
ACTATATATTATTTTATTT
Found at i:44658963 original size:2 final size:2
Alignment explanation
Indices: 44658956--44658992 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
44658946 AGAAAGAAAA
44658956 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
44658993 GGTCACGGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:44661356 original size:40 final size:40
Alignment explanation
Indices: 44661312--44661467 Score: 226
Period size: 40 Copynumber: 3.9 Consensus size: 40
44661302 GGATATAGCT
* *
44661312 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
44661352 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* *
44661392 ACTCGCACAAATGCCTTTGGGACTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
44661432 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
44661468 CATCCGAATA
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
40 99 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:44679631 original size:49 final size:50
Alignment explanation
Indices: 44679547--44679780 Score: 217
Period size: 49 Copynumber: 4.7 Consensus size: 50
44679537 GGTCTCTGTC
* * * **
44679547 TAGTACTAAGTGTC-GGCTACTACGTGTACTGGATAATT-GGTCACATGTG
1 TAGTACTAAGTG-CAGACTACTATGCGTACCAGATAATTAGGTCACATGTG
* * * * *
44679596 TAGTACTAAGAGCATG-CTACTATGCGTACCCGATAACTTCGATCACGTGTG
1 TAGTACTAAGTGCA-GACTACTATGCGTACCAGATAA-TTAGGTCACATGTG
* * * ** *
44679647 TAGTACTAAGTGCAGACTACTACGTGTATCAGATGGTTAGGTCACGTGTG
1 TAGTACTAAGTGCAGACTACTATGCGTACCAGATAATTAGGTCACATGTG
* * * *
44679697 CAGTACTAAGTGCAGACTACTATGTGTACCAGATAATT-GGGCGCATGTG
1 TAGTACTAAGTGCAGACTACTATGCGTACCAGATAATTAGGTCACATGTG
44679746 TAGTACTAAGTGCA-AGCTACTATGCGTACCAGATA
1 TAGTACTAAGTGCAGA-CTACTATGCGTACCAGATA
44679781 GCTTTGGCTA
Statistics
Matches: 153, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
48 2 0.01
49 66 0.43
50 49 0.32
51 36 0.24
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
TAGTACTAAGTGCAGACTACTATGCGTACCAGATAATTAGGTCACATGTG
Found at i:44681661 original size:24 final size:24
Alignment explanation
Indices: 44681634--44681681 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
44681624 TAATATTATC
44681634 TAGGAAACATTGAAATACATGTAT
1 TAGGAAACATTGAAATACATGTAT
44681658 TAGGAAACATTGAAATACATGTAT
1 TAGGAAACATTGAAATACATGTAT
44681682 AAGTACACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (24 bp):
TAGGAAACATTGAAATACATGTAT
Found at i:44686797 original size:14 final size:14
Alignment explanation
Indices: 44686778--44686816 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
44686768 TTGGCAAAAT
44686778 TATAATTTTGCCCC
1 TATAATTTTGCCCC
44686792 TATAATTTTGCCCC
1 TATAATTTTGCCCC
44686806 TA-AACTTTTGC
1 TATAA-TTTTGC
44686817 ATATTACACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 2 0.08
14 22 0.92
ACGTcount: A:0.23, C:0.26, G:0.08, T:0.44
Consensus pattern (14 bp):
TATAATTTTGCCCC
Found at i:44688647 original size:49 final size:49
Alignment explanation
Indices: 44688575--44688748 Score: 206
Period size: 49 Copynumber: 3.5 Consensus size: 49
44688565 GAGGTCACAG
* * * *
44688575 GTGTAGTACTAAATGCCGACTACTACATGTACTGGATACTTGGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATACTTGGTCGCAT
* * * * *
44688624 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCT-GATAACTTCGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTA-CTGGAT-ACTT-GGTCGCAT
* *
44688675 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATACTTGGTCGCAT
*
44688724 GTGTAGTACTAAGTGCAAGCTACTA
1 GTGTAGTACTAAGTGCAGGCTACTA
44688749 TGCATACCAG
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 57 0.55
50 10 0.10
51 37 0.36
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (49 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATACTTGGTCGCAT
Found at i:44688748 original size:100 final size:100
Alignment explanation
Indices: 44688575--44688761 Score: 293
Period size: 100 Copynumber: 1.9 Consensus size: 100
44688565 GAGGTCACAG
* * *
44688575 GTGTAGTACTAAATGCCGACTACTACATGTACTGGATACTTGGTCGCATGTGTAGTACTAAGTGC
1 GTGTAGTACTAAATGCAGACTACTACATGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGC
* * *
44688640 AGGCTACTATGCGTACCTGATAACTTCGATCACGT
66 AAGCTACTATGCATACCAGATAACTTCGATCACGT
* * *
44688675 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGC
1 GTGTAGTACTAAATGCAGACTACTACATGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGC
44688740 AAGCTACTATGCATACCAGATA
66 AAGCTACTATGCATACCAGATA
44688762 GCTTTGGCTA
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 78 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (100 bp):
GTGTAGTACTAAATGCAGACTACTACATGTACCGGATAATTGGTCGCATGTGTAGTACTAAGTGC
AAGCTACTATGCATACCAGATAACTTCGATCACGT
Found at i:44695897 original size:49 final size:49
Alignment explanation
Indices: 44695824--44696007 Score: 233
Period size: 49 Copynumber: 3.7 Consensus size: 49
44695814 TAGCCGAAGC
*
44695824 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * * *
44695873 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACATACGTGATCACAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAT
* * *
44695924 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * *
44695973 TATCCGGTACACGTAGTGGCCTGCACTTAGTACTA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTA
44696008 TACACGTGAC
Statistics
Matches: 112, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 71 0.63
50 2 0.02
51 39 0.35
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:44695948 original size:100 final size:100
Alignment explanation
Indices: 44695829--44696016 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
44695819 GAAGCTATCT
*
44695829 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
*
44695894 TGCACTTAGTACTACATACGTGATCACAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCACAGTTTTCG
* *
44695929 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTGGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
*
44695994 TGCACTTAGTACTATACACGTGA
66 TGCACTTAGTACTACACACGTGA
44696017 CCTCACAATA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAGTTTTCG
Found at i:44699245 original size:20 final size:20
Alignment explanation
Indices: 44699208--44699245 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
44699198 TGATGGGGAG
*
44699208 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
44699228 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
44699246 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:44701197 original size:46 final size:46
Alignment explanation
Indices: 44701145--44701464 Score: 498
Period size: 46 Copynumber: 7.0 Consensus size: 46
44701135 AGTGTGCTCT
*
44701145 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
44701191 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
44701237 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
44701283 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
44701329 CTGATATGAAATGTGTAAGACCATGGATGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
44701375 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
44701421 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
44701465 TCATGTCAAA
Statistics
Matches: 255, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 254 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:44705634 original size:20 final size:20
Alignment explanation
Indices: 44705609--44705658 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
44705599 CGGGTGAGGG
44705609 ACACGGGCGTGTCCCTAAGT
1 ACACGGGCGTGTCCCTAAGT
44705629 ACACGGGCGTGTCCCTAAGT
1 ACACGGGCGTGTCCCTAAGT
*
44705649 AGACGGGCGT
1 ACACGGGCGT
44705659 ATGCTTTTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.20, C:0.28, G:0.34, T:0.18
Consensus pattern (20 bp):
ACACGGGCGTGTCCCTAAGT
Found at i:44718252 original size:34 final size:34
Alignment explanation
Indices: 44718188--44718252 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
44718178 AATGACAGTC
* *
44718188 CAGTATCAGTTAGGGTCGTAGCCCATTACAGTAT
1 CAGTATCAGTTAGGGCCGTAGCCCAATACAGTAT
* *
44718222 CAGTATCAGTGT-GGGCCTTAGCCTAATACAG
1 CAGTATCAGT-TAGGGCCGTAGCCCAATACAG
44718253 CAACAGAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
34 25 0.96
35 1 0.04
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (34 bp):
CAGTATCAGTTAGGGCCGTAGCCCAATACAGTAT
Found at i:44719912 original size:93 final size:92
Alignment explanation
Indices: 44719679--44719944 Score: 254
Period size: 94 Copynumber: 2.8 Consensus size: 92
44719669 ATTGTGGGCT
* * * * * * *
44719679 AGTGTAAGACATGTCTGGGACATGTATCAGCCA-C-ATTATGAGAGCCAGTGTAAGACCATATCT
1 AGTGTAAGACATGTCTGGGACATGCATC-GACATCGA-GACGTGAGCTAGTGTAAGA-CATGTCT
* *
44719742 GGGACATGGCATTGGCCTCGAGACGAGTGCT
63 GGGACATGGCATCGG-CTCGAGACGAGTGCC
* * * *
44719773 AGTGTAAGACATGTCTGGGATATTCATCGACCTCGAGACGTAAGCTAGTGTAAGACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGACATCGAGACGTGAGCTAGTGTAAGACATGTCTGGG
*
44719838 ACAT-GCATCGGCTACGAGATGA-TAGCC
66 ACATGGCATCGGCT-CGAGACGAGT-GCC
* * * *
44719865 AGTGTATGACCATGTTTGGGACATGGCATCGACAT-GAGATGTGAGCTAGTGTAAGACTGTGTCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACATCGAGACGTGAGCTAGTGTAAGAC-ATGTCT
44719929 GGGACATGGCATCGGC
63 GGGACATGGCATCGGC
44719945 ACCTTACCCA
Statistics
Matches: 142, Mismatches: 22, Indels: 15
0.79 0.12 0.08
Matches are distributed among these distances:
91 3 0.02
92 23 0.16
93 47 0.33
94 60 0.42
95 9 0.06
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACATCGAGACGTGAGCTAGTGTAAGACATGTCTGGG
ACATGGCATCGGCTCGAGACGAGTGCC
Found at i:44719928 original size:140 final size:140
Alignment explanation
Indices: 44719676--44719932 Score: 347
Period size: 140 Copynumber: 1.8 Consensus size: 140
44719666 GTTATTGTGG
* *
44719676 GCTAGTGTAAGACATGTCTGGGACATGTATCAGCCACATTATGAGAGCCAGTGTAAGACCATATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATATC
* * * *
44719741 TGGGACATGGCATTGGCCTCGAGACGAGTGCTAGTGTAAGACATGTCTGGGATATTCATCGACCT
66 TGGGACATGGCATCGACATCGAGACGAGAGCTAGTGTAAGACATGTCTGGGATATTCATCGACCT
44719806 CGAGACGTAA
131 CGAGACGTAA
* * * * *
44719816 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGCCAGTGTATGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGAGCCAGTGTAAGACCATAT
* * * *
44719880 TTGGGACATGGCATCGACAT-GAGATGTGAGCTAGTGTAAGACTGTGTCTGGGA
65 CTGGGACATGGCATCGACATCGAGACGAGAGCTAGTGTAAGAC-ATGTCTGGGA
44719933 CATGGCATCG
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
139 19 0.19
140 80 0.80
141 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (140 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATATC
TGGGACATGGCATCGACATCGAGACGAGAGCTAGTGTAAGACATGTCTGGGATATTCATCGACCT
CGAGACGTAA
Found at i:44719941 original size:47 final size:47
Alignment explanation
Indices: 44719676--44719942 Score: 208
Period size: 47 Copynumber: 5.7 Consensus size: 47
44719666 GTTATTGTGG
* * * * *
44719676 GCTAGTGTAAGACATGTCTGGGACAT-GTATCAGCCA-C-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATC-GACATCGA-GACGTGA
* * * * * * *
44719722 GCCAGTGTAAGACCATATCTGGGACATGGCATTGGCCTCGAGACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGACATCGAGACGTGA
* * * *
44719770 GCTAGTGTAAGACATGTCTGGGATAT-TCATCGACCTCGAGACGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGACATCGAGACGTGA
* *
44719816 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGC-TACGAGATGAT-A
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGACAT-CGAGACG-TGA
* * * *
44719862 GCCAGTGTATGACCATGTTTGGGACATGGCATCGACAT-GAGATGTGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGACATCGAGACGTGA
*
44719909 GCTAGTGTAAGACTGTGTCTGGGACATGGCATCG
1 GCTAGTGTAAGAC-ATGTCTGGGACATGGCATCG
44719943 GCACCTTACC
Statistics
Matches: 180, Mismatches: 30, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
45 1 0.01
46 75 0.42
47 76 0.42
48 26 0.14
49 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGACATCGAGACGTGA
Found at i:44721039 original size:19 final size:21
Alignment explanation
Indices: 44721017--44721060 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
44721007 GGACACGAGC
44721017 GTGTTGCCC-T-CACACGGGT
1 GTGTTGCCCTTCCACACGGGT
44721036 GTGTTGCCCTTCCACACGGGT
1 GTGTTGCCCTTCCACACGGGT
44721057 GTGT
1 GTGT
44721061 GCTTCTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 9 0.39
20 1 0.04
21 13 0.57
ACGTcount: A:0.09, C:0.30, G:0.32, T:0.30
Consensus pattern (21 bp):
GTGTTGCCCTTCCACACGGGT
Found at i:44724141 original size:28 final size:28
Alignment explanation
Indices: 44724106--44724164 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
44724096 ATTGGCTTGT
44724106 TGATGATGATATGGTATGTTTTAAAGTA
1 TGATGATGATATGGTATGTTTTAAAGTA
44724134 TGATGATGATATGGTATGTTTTAAAGTA
1 TGATGATGATATGGTATGTTTTAAAGTA
44724162 TGA
1 TGA
44724165 AATAGATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.42
Consensus pattern (28 bp):
TGATGATGATATGGTATGTTTTAAAGTA
Found at i:44724172 original size:28 final size:28
Alignment explanation
Indices: 44724106--44724172 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
44724096 ATTGGCTTGT
*
44724106 TGATGATGATATGGTATGTTTTAAAGTA
1 TGATAATGATATGGTATGTTTTAAAGTA
*
44724134 TGATGATGATATGGTATGTTTTAAAGTA
1 TGATAATGATATGGTATGTTTTAAAGTA
44724162 TGA-AATAGATA
1 TGATAAT-GATA
44724173 AAAAGATGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
27 2 0.05
28 35 0.95
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (28 bp):
TGATAATGATATGGTATGTTTTAAAGTA
Found at i:44725604 original size:43 final size:43
Alignment explanation
Indices: 44725556--44725685 Score: 167
Period size: 43 Copynumber: 3.0 Consensus size: 43
44725546 CATAGAATTT
*
44725556 TCGATATGTGTTCTCGTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATGTGTTCTCGTGTAAGACCACGTCTAGGACGTTGGCA
44725599 TCGATATGTGTTCTCGTGTAAGACC-CTGTCTAGGACAG-TGGCA
1 TCGATATGTGTTCTCGTGTAAGACCAC-GTCTAGGAC-GTTGGCA
* * * *
44725642 TCGATATGTGATT-ACATGTAAGACCACATCTAGGATGTTGGCA
1 TCGATATGTG-TTCTCGTGTAAGACCACGTCTAGGACGTTGGCA
44725685 T
1 T
44725686 TGTACGATAT
Statistics
Matches: 77, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
42 2 0.03
43 71 0.92
44 4 0.05
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (43 bp):
TCGATATGTGTTCTCGTGTAAGACCACGTCTAGGACGTTGGCA
Found at i:44727597 original size:20 final size:18
Alignment explanation
Indices: 44727564--44727614 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
44727554 AAAATTCTTT
44727564 TCTCTTCTTATTTTCTCC
1 TCTCTTCTTATTTTCTCC
44727582 TCTCTTCATCTATTTTCT-C
1 TCTCTTC-T-TATTTTCTCC
*
44727601 T-TCTTCTTCTTTTC
1 TCTCTTCTTATTTTC
44727615 CTCTATAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.20
17 1 0.03
18 12 0.40
19 3 0.10
20 8 0.27
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (18 bp):
TCTCTTCTTATTTTCTCC
Found at i:44729573 original size:16 final size:16
Alignment explanation
Indices: 44729554--44729585 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44729544 ATGTACAAAA
44729554 ATATATATGTGTTTAT
1 ATATATATGTGTTTAT
*
44729570 ATATATGTGTGTTTAT
1 ATATATATGTGTTTAT
44729586 TTGAAGTGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (16 bp):
ATATATATGTGTTTAT
Found at i:44730039 original size:24 final size:24
Alignment explanation
Indices: 44730012--44730344 Score: 245
Period size: 24 Copynumber: 13.9 Consensus size: 24
44730002 GAAATGACTT
*
44730012 TGGCACTATGTGTGCTAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* *
44730036 TGGCACTATGTGTACGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
* *
44730060 TGGCACTATGTGTGTGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
44730084 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
*
44730109 -GGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
*
44730132 TGGCACTATATGTGC-AGATTT-ATA
1 TGGCACTATGTGTGCGA-ATTTGA-A
* *
44730156 TGGCACTATGTGTGTGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
44730180 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
*
44730205 -GGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
*
44730228 TGGCACTATGTGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
*
44730252 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * ** *
44730276 TGTCAATATGAATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
** *
44730301 -GGCACTATGTGTGCG-GGTTAACA
1 TGGCACTATGTGTGCGAATTTGA-A
*
44730324 TGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGAATTT
44730345 CCTTGCTTGA
Statistics
Matches: 241, Mismatches: 48, Indels: 39
0.73 0.15 0.12
Matches are distributed among these distances:
21 1 0.00
22 3 0.01
23 5 0.02
24 219 0.91
25 10 0.04
26 3 0.01
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.36
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:44730064 original size:48 final size:48
Alignment explanation
Indices: 44730012--44730344 Score: 298
Period size: 48 Copynumber: 6.9 Consensus size: 48
44730002 GAAATGACTT
* * *
44730012 TGGCACTATGTGTGCTAATTTGAATGGCACTATGTGTACGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTATA
* * * * * *
44730060 TGGCACTATGTGTGTGGATTTGAATGTCAATATGTATGTGAA-TTACTA
1 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTA-TA
* * *
44730108 AGGCACTATGTGTGCGAATTTGTATGGCACTATATGTGC-AGATTTATA
1 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGA-ATTTATA
* * * * * *
44730156 TGGCACTATGTGTGTGGATTTGAATGTCAATATGTATGTGAA-TTACTA
1 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTA-TA
* * *
44730204 AGGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGGATTTATA
1 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTATA
* * * ** *
44730252 TGGCACTATGTGTGCGGATTTGAATGTCAATATGAATGTGAA-TTACTA
1 TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTA-TA
* ** * *
44730300 AGGCACTATGTGTGCG-GGTTAACATGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGAATTTGA-ATGGCACTATGTGTGCGAATTT
44730345 CCTTGCTTGA
Statistics
Matches: 222, Mismatches: 54, Indels: 17
0.76 0.18 0.06
Matches are distributed among these distances:
47 12 0.05
48 201 0.91
49 9 0.04
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.36
Consensus pattern (48 bp):
TGGCACTATGTGTGCGAATTTGAATGGCACTATGTGTGCGAATTTATA
Found at i:44730327 original size:96 final size:96
Alignment explanation
Indices: 44730013--44730344 Score: 522
Period size: 96 Copynumber: 3.5 Consensus size: 96
44730003 AAATGACTTT
* * * *
44730013 GGCACTATGTGTGCTAATTTGAATGGCACTATGTGTACGAATTTGTATGGCACTATGTGTGTGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGAATTTATATGGCACTATGTGTGTGGA
44730078 TTTGAATGTCAATATGTATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
*
44730109 GGCACTATGTGTGCGAATTTGTATGGCACTATATGTGC-AGATTTATATGGCACTATGTGTGTGG
1 GGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGA-ATTTATATGGCACTATGTGTGTGG
44730173 ATTTGAATGTCAATATGTATGTGAATTACTAA
65 ATTTGAATGTCAATATGTATGTGAATTACTAA
* *
44730205 GGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGGATTTATATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGAATTTATATGGCACTATGTGTGTGGA
*
44730270 TTTGAATGTCAATATGAATGTGAATTACTAA
66 TTTGAATGTCAATATGTATGTGAATTACTAA
** *** *
44730301 GGCACTATGTGTGCGGGTTAACATGGCACTATGGGTGCGAATTT
1 GGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGAATTT
44730345 CCTTGCTTGA
Statistics
Matches: 218, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
95 1 0.00
96 217 1.00
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.36
Consensus pattern (96 bp):
GGCACTATGTGTGCGAATTTGTATGGCACTATGTGTGCGAATTTATATGGCACTATGTGTGTGGA
TTTGAATGTCAATATGTATGTGAATTACTAA
Found at i:44732382 original size:47 final size:47
Alignment explanation
Indices: 44732331--44732568 Score: 377
Period size: 47 Copynumber: 5.1 Consensus size: 47
44732321 TTCCACGTTT
* * **
44732331 ATCACATTAGACATTCTACCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
44732378 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
*
44732425 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
44732472 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
* * * * **
44732519 ATCACATTGGCCATTAGGCCTTATCTCATATATACACATTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
44732566 ATC
1 ATC
44732569 TCATAAAATC
Statistics
Matches: 179, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 179 1.00
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
Found at i:44732405 original size:22 final size:22
Alignment explanation
Indices: 44732378--44732499 Score: 65
Period size: 22 Copynumber: 5.3 Consensus size: 22
44732368 GTTCACATTC
44732378 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
44732400 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
44732424 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * *
44732447 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
44732471 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
44732494 ATCACA
1 ATCACA
44732500 CATATGCATG
Statistics
Matches: 74, Mismatches: 10, Indels: 32
0.64 0.09 0.28
Matches are distributed among these distances:
22 22 0.30
23 18 0.24
24 18 0.24
25 16 0.22
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:44742050 original size:24 final size:24
Alignment explanation
Indices: 44742023--44742351 Score: 243
Period size: 24 Copynumber: 13.9 Consensus size: 24
44742013 CAAATGACTT
*
44742023 TGGCACTATGTGTGCTAATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* *
44742047 TGGCACTATGTGTACGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
*
44742071 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
44742095 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
*
44742120 -GGCACTATGTGTGCGAATTTGGA
1 TGGCACTATGTGTGCGAATTTGAA
* *
44742143 TGGCACTATATGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
*
44742167 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
44742191 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
*
44742216 -GGCACTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGAA
*
44742239 TGGCAC----TGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGAATTTGA-A
*
44742259 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * * *
44742283 TGTCAATATGTATGTGAATTACT-AA
1 TGGCACTATGTGTGCGAATT--TGAA
** *
44742308 -GGCACTATGTGTGCG-GGTTAACA
1 TGGCACTATGTGTGCGAATTTGA-A
*
44742331 TGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGAATTT
44742352 CCTTGCTTGA
Statistics
Matches: 237, Mismatches: 46, Indels: 43
0.73 0.14 0.13
Matches are distributed among these distances:
20 17 0.07
21 1 0.00
22 3 0.01
23 4 0.02
24 199 0.84
25 10 0.04
26 3 0.01
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:44742188 original size:96 final size:95
Alignment explanation
Indices: 44742024--44742322 Score: 505
Period size: 96 Copynumber: 3.2 Consensus size: 95
44742014 AAATGACTTT
* * * *
44742024 GGCACTATGTGTGCTAATTTGAATGGCACTATGTGTACGAATTTGTATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGAATGGCACTAT-TGTGCGGATTTATATGGCACTATGTGTGCGGA
44742089 TTTGAATGTCAATATGTATGTGAATTACTAA
65 TTTGAATGTCAATATGTATGTGAATTACTAA
*
44742120 GGCACTATGTGTGCGAATTTGGATGGCACTATATGTGCGGATTTATATGGCACTATGTGTGCGGA
1 GGCACTATGTGTGCGAATTTGAATGGCACTAT-TGTGCGGATTTATATGGCACTATGTGTGCGGA
44742185 TTTGAATGTCAATATGTATGTGAATTACTAA
65 TTTGAATGTCAATATGTATGTGAATTACTAA
*
44742216 GGCACTATGTGTGCGAATTTGTATGGCAC---TGTGCGGATTTATATGGCACTATGTGTGCGGAT
1 GGCACTATGTGTGCGAATTTGAATGGCACTATTGTGCGGATTTATATGGCACTATGTGTGCGGAT
44742278 TTGAATGTCAATATGTATGTGAATTACTAA
66 TTGAATGTCAATATGTATGTGAATTACTAA
44742308 GGCACTATGTGTGCG
1 GGCACTATGTGTGCG
44742323 GGTTAACATG
Statistics
Matches: 196, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
92 78 0.40
96 118 0.60
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (95 bp):
GGCACTATGTGTGCGAATTTGAATGGCACTATTGTGCGGATTTATATGGCACTATGTGTGCGGAT
TTGAATGTCAATATGTATGTGAATTACTAA
Found at i:44742250 original size:20 final size:20
Alignment explanation
Indices: 44742225--44742265 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
44742215 AGGCACTATG
*
44742225 TGTGCGAATTTGTATGGCAC
1 TGTGCGAATTTATATGGCAC
*
44742245 TGTGCGGATTTATATGGCAC
1 TGTGCGAATTTATATGGCAC
44742265 T
1 T
44742266 ATGTGTGCGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.37
Consensus pattern (20 bp):
TGTGCGAATTTATATGGCAC
Found at i:44742350 original size:48 final size:48
Alignment explanation
Indices: 44742024--44742350 Score: 315
Period size: 48 Copynumber: 6.9 Consensus size: 48
44742014 AAATGACTTT
** * ** *
44742024 GGCACTATGTGTGCTAATTTGAATGGCACTATGTGTACGAATTTGTAT
1 GGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCGAATTACTAA
* * * *
44742072 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCGAATTACTAA
* * * * *
44742120 GGCACTATGTGTGCGAATTTGGATGGCACTATATGTGCGGATTTA-TAT
1 GGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGC-GAATTACTAA
* * * *
44742168 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCGAATTACTAA
* * * * *
44742216 GGCACTATGTGTGCGAATTTGTATGGCAC--TGTGCG-GATTTA-TAT
1 GGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCGAATTACTAA
* * * *
44742260 GGCACTATGTGTGCGGATTTGAATGTCAATATGTATGTGAATTACTAA
1 GGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCGAATTACTAA
* * *
44742308 GGCACTATGTGTGCGG-GTTAACATGGCACTATGGGTGCGAATT
1 GGCACTATGTGTGCGGATTTGA-ATGGCACTATGTGTGCGAATT
44742351 TCCTTGCTTG
Statistics
Matches: 221, Mismatches: 51, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
44 27 0.12
45 5 0.02
46 8 0.04
47 13 0.06
48 163 0.74
49 5 0.02
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (48 bp):
GGCACTATGTGTGCGGATTTGAATGGCACTATGTGTGCGAATTACTAA
Found at i:44744042 original size:28 final size:28
Alignment explanation
Indices: 44744002--44744113 Score: 154
Period size: 28 Copynumber: 4.0 Consensus size: 28
44743992 AGAGGAAGCA
44744002 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
44744030 TTCTGGTGGCTCTGCCACTAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
44744058 TTCTGGTGGCCCTGCCATAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
44744086 ATCTGGTGACTCTGTCAC-AATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
44744113 T
1 T
44744114 CTAGCAGCCA
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 8 0.11
28 64 0.89
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:44745864 original size:27 final size:27
Alignment explanation
Indices: 44745801--44745921 Score: 152
Period size: 27 Copynumber: 4.4 Consensus size: 27
44745791 ATTGAGTCCA
* *
44745801 CACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCAACATAGTC-AATTCG
** *
44745829 CACACTTAGTGCCGCATGGTCAATTCG
1 CACACTTAGTGCAACATAGTCAATTCG
* * *
44745856 CACACTTAGTGCATCATATTCATTTCG
1 CACACTTAGTGCAACATAGTCAATTCG
*
44745883 CACACTTAGTGCAACATAGTCAAATCG
1 CACACTTAGTGCAACATAGTCAATTCG
44745910 CACACTTAGTGC
1 CACACTTAGTGC
44745922 TGTACAATTC
Statistics
Matches: 80, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 62 0.77
28 18 0.22
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CACACTTAGTGCAACATAGTCAATTCG
Found at i:44745935 original size:27 final size:26
Alignment explanation
Indices: 44745801--44745935 Score: 112
Period size: 27 Copynumber: 5.0 Consensus size: 26
44745791 ATTGAGTCCA
*
44745801 CACACTTAGTGCTACATAGTCAAACTCG
1 CACACTTAGTGCTACATATTC-AA-TCG
** **
44745829 CACACTTAGTGCCGCATGGTCAATTCG
1 CACACTTAGTGCTACATATTCAA-TCG
*
44745856 CACACTTAGTGC-ATCATATTCATTTCG
1 CACACTTAGTGCTA-CATATTCA-ATCG
* *
44745883 CACACTTAGTGCAACATAGTCAAATCG
1 CACACTTAGTGCTACATATTC-AATCG
44745910 CACACTTAGTGCTGTACA-ATTCAATC
1 CACACTTAGTGC--TACATATTCAATC
44745936 CCGCGCACTT
Statistics
Matches: 89, Mismatches: 12, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
27 63 0.71
28 23 0.26
29 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (26 bp):
CACACTTAGTGCTACATATTCAATCG
Found at i:44753871 original size:27 final size:27
Alignment explanation
Indices: 44753841--44754018 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
44753831 ATATTGAGTC
* * * *
44753841 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
44753868 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44753895 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
44753923 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
44753950 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
44753977 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44754004 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44754019 GTACAATTCA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:44753980 original size:82 final size:81
Alignment explanation
Indices: 44753862--44754017 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44753852 TGCTATATAA
* *
44753862 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
44753927 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44753944 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44754008 CACTTAGTGC
65 CACTTAGTGC
44754018 TGTACAATTC
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44754030 original size:82 final size:83
Alignment explanation
Indices: 44753841--44754030 Score: 221
Period size: 82 Copynumber: 2.3 Consensus size: 83
44753831 ATATTGAGTC
* * * * *
44753841 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
44753905 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
44753923 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
44753984 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
44754004 CGCACACTTAGTGCTGTACAATTCAAT
1 CGCACACTTAGTGCTGTACAATTCAAT
44754031 CCCGCGCACT
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 69 0.77
83 1 0.01
84 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:44759562 original size:26 final size:25
Alignment explanation
Indices: 44759533--44759589 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
44759523 TTTACTAAAG
*
44759533 TACCCTAAGTATG-AAAATGACTATTA
1 TACCCT-AG-ATGCAAAATGACCATTA
*
44759559 TACCCCTAGGTGCAAAATGACCATTA
1 TA-CCCTAGATGCAAAATGACCATTA
44759585 TACCC
1 TACCC
44759590 CTAGGGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 5 0.19
26 18 0.67
27 4 0.15
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (25 bp):
TACCCTAGATGCAAAATGACCATTA
Found at i:44759737 original size:28 final size:28
Alignment explanation
Indices: 44759697--44759759 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
44759687 GGAGGAAGTG
44759697 TTCTGGTGGCTCTGCCACAAATATCTAT
1 TTCTGGTGGCTCTGCCACAAATATCTAT
*
44759725 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTAT
44759753 TTCTGGT
1 TTCTGGT
44759760 AACTTTGTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTAT
Found at i:44759771 original size:28 final size:28
Alignment explanation
Indices: 44759697--44759784 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 28
44759687 GGAGGAAGTG
** *
44759697 TTCTGGTGGCTCTGCCACAAATATCTAT
1 TTCTGGTAACTCTGCCACAAATATCTGT
**
44759725 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTAACTCTGCCACAAATATCTGT
* *
44759753 TTCTGGTAACTTTGTCAC-AATATCTG-
1 TTCTGGTAACTCTGCCACAAATATCTGT
44759779 TTCTGG
1 TTCTGG
44759785 CAGCTATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 6 0.11
27 8 0.15
28 41 0.75
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (28 bp):
TTCTGGTAACTCTGCCACAAATATCTGT
Found at i:44764841 original size:43 final size:42
Alignment explanation
Indices: 44764734--44764892 Score: 157
Period size: 43 Copynumber: 3.9 Consensus size: 42
44764724 TACCGAGATG
* **
44764734 TGATTACATGTAAGACCATGTCTGGGACATTGG--T--TTTG
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAA
*
44764772 TGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTTAA
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAA
* * * *
44764814 TCGATTACGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATG
1 T-GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTA-A
* * * *
44764858 TGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 TGATTACGTGTAAGACCATGTCTGGGACATTGGCAT
44764893 TGTACAAGTT
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
38 31 0.31
40 1 0.01
42 9 0.09
43 59 0.58
44 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (42 bp):
TGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAA
Found at i:44772084 original size:30 final size:30
Alignment explanation
Indices: 44772048--44772108 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
44772038 CATTTAATAC
*
44772048 AAACTTTGGCAAAATTACATTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
* * *
44772078 AAACTTTTGCATAATTACACTTTTGTCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
44772108 A
1 A
44772109 GGCTCAGGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:44774367 original size:43 final size:42
Alignment explanation
Indices: 44774316--44774439 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 42
44774306 GGTTACCGAG
44774316 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATC-ATT
1 ATGTGATTACATGTAAGACCATGTCTGGGACA-TGGCATCGA-T
* * * *
44774359 AAT-TGATTACGTGTAAAACCCTGTCTAGGACAGTGGCATCGAT
1 -ATGTGATTACATGTAAGACCATGTCTGGGACA-TGGCATCGAT
* * *
44774402 ATGTGATAACATGTAAGACCATATCTGGGATATGGCAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATGGCAT
44774440 TGTACGAGTT
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 8 0.12
43 55 0.83
44 3 0.05
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATGGCATCGAT
Found at i:44789213 original size:29 final size:29
Alignment explanation
Indices: 44789179--44789252 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
44789169 TAATCAACCG
*
44789179 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
44789208 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
44789237 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
44789253 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:44793605 original size:43 final size:44
Alignment explanation
Indices: 44793557--44793722 Score: 171
Period size: 43 Copynumber: 3.9 Consensus size: 44
44793547 GTTACCGAGA
44793557 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT-TATAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCTATAT
**
44793600 TGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGT-TAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATC-TATAT
*** * * * * *
44793644 T-TGATTTTGTTTAAGACCCTGTATGGGACAGTGGCATCGATA-
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCTATAT
* * *
44793686 TGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
44793723 TGTACAAGCT
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
42 7 0.07
43 90 0.88
44 4 0.04
45 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (44 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCTATAT
Found at i:44795038 original size:17 final size:18
Alignment explanation
Indices: 44795016--44795053 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
44795006 ATTCAGACGA
44795016 GCATGTG-ACCCTTAAAT
1 GCATGTGAACCCTTAAAT
44795033 GCATGTGCAACCCTTAAAT
1 GCATGTG-AACCCTTAAAT
44795052 GC
1 GC
44795054 GTAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
19 12 0.63
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (18 bp):
GCATGTGAACCCTTAAAT
Found at i:44798411 original size:28 final size:27
Alignment explanation
Indices: 44798360--44798454 Score: 79
Period size: 28 Copynumber: 3.6 Consensus size: 27
44798350 GACATTACCG
* * *
44798360 TAAATGTGAAAGTCCGTCAAGACTATCA
1 TAAATGTGGAAGT-CATCAGGACTATCA
**
44798388 TAAATGTGGAAGTCTATCAGGACTATTG
1 TAAATGTGGAAGTC-ATCAGGACTATCA
* *
44798416 TATACGTGGAAGTCA--A-GACTATCA
1 TAAATGTGGAAGTCATCAGGACTATCA
*
44798440 TATATGTGGAAGTCA
1 TAAATGTGGAAGTCA
44798455 GGACTATCGT
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
24 20 0.36
25 1 0.02
27 2 0.04
28 33 0.59
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (27 bp):
TAAATGTGGAAGTCATCAGGACTATCA
Found at i:44798443 original size:24 final size:24
Alignment explanation
Indices: 44798375--44798477 Score: 107
Period size: 24 Copynumber: 4.1 Consensus size: 24
44798365 GTGAAAGTCC
*
44798375 GTCAAGACTATCATAAATGTGGAA
1 GTCAAGACTATCATATATGTGGAA
** *
44798399 GTCTATCAGGACTATTGTATACGTGGAA
1 GTC-A--A-GACTATCATATATGTGGAA
44798427 GTCAAGACTATCATATATGTGGAA
1 GTCAAGACTATCATATATGTGGAA
* * *
44798451 GTCAGGACTATCGTATATATGGAA
1 GTCAAGACTATCATATATGTGGAA
44798475 GTC
1 GTC
44798478 TGTTATGACT
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
24 43 0.66
25 2 0.03
27 2 0.03
28 18 0.28
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (24 bp):
GTCAAGACTATCATATATGTGGAA
Found at i:44798475 original size:48 final size:49
Alignment explanation
Indices: 44798375--44798477 Score: 136
Period size: 52 Copynumber: 2.1 Consensus size: 49
44798365 GTGAAAGTCC
* *
44798375 GTCAAGACTATCATAAATGTGGAAGTCTATCAGGACTATTGTATACGTGGAA
1 GTCAAGACTATCATAAATGTGGAAG--T-TCAGGACTATCGTATACATGGAA
* *
44798427 GTCAAGACTATCATATATGTGGAAG-TCAGGACTATCGTATATATGGAA
1 GTCAAGACTATCATAAATGTGGAAGTTCAGGACTATCGTATACATGGAA
44798475 GTC
1 GTC
44798478 TGTTATGACT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
48 23 0.49
52 24 0.51
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (49 bp):
GTCAAGACTATCATAAATGTGGAAGTTCAGGACTATCGTATACATGGAA
Found at i:44802334 original size:20 final size:21
Alignment explanation
Indices: 44802296--44802334 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
44802286 TCATTATGAA
44802296 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
44802317 CACACGGGCGTG-TGCCCT
1 CACACGGGCGTGTTGCCCT
44802335 GTTTCAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.31, T:0.21
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:44806166 original size:47 final size:47
Alignment explanation
Indices: 44806041--44806251 Score: 269
Period size: 47 Copynumber: 4.7 Consensus size: 47
44806031 GGAATGAAAA
* * * *
44806041 AACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT-T
* * *
44806089 AACGTGGTGCTAAGTAGATATTCCATGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
*
44806136 AACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------T
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
*
44806174 AACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
44806221 AACGTGGTGCTAAGTGGATATACCACGGTTA
1 AACGTGGTGCTAAGTGGATATACCACGGTTA
44806252 AACATGTAAC
Statistics
Matches: 142, Mismatches: 12, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
38 31 0.22
39 1 0.01
40 2 0.01
41 2 0.01
44 2 0.01
45 2 0.01
46 1 0.01
47 60 0.42
48 41 0.29
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (47 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATT
Found at i:44806186 original size:38 final size:38
Alignment explanation
Indices: 44806135--44806296 Score: 198
Period size: 38 Copynumber: 4.0 Consensus size: 38
44806125 ATTGATTCAT
44806135 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
44806173 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
44806214 ATTCATTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
44806258 TAACTTGGTGCTAAGTGGATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
44806296 T
1 T
44806297 TAATTTGAAA
Statistics
Matches: 108, Mismatches: 7, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
38 67 0.62
39 1 0.01
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 1 0.01
47 31 0.29
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:44806226 original size:85 final size:85
Alignment explanation
Indices: 44806083--44806289 Score: 378
Period size: 85 Copynumber: 2.4 Consensus size: 85
44806073 ACATATTGAT
* * *
44806083 ACATGTAACGTGGTGCTAAGTAGATATTCCATGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
44806148 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
44806168 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
44806233 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
*
44806253 ACATGTAACTTGGTGCTAAGTGGATATGCCACGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
44806290 TACATGTTAA
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 118 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:44819777 original size:15 final size:15
Alignment explanation
Indices: 44819726--44819767 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
44819716 GCTGTAAATG
44819726 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
44819741 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
44819756 GGATTTCCTTAT
1 GGATTTCCTTAT
44819768 TCTGGGTTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:44822322 original size:48 final size:47
Alignment explanation
Indices: 44822251--44822580 Score: 237
Period size: 38 Copynumber: 7.6 Consensus size: 47
44822241 AAATGTGCTT
* * *
44822251 CTAAGTGGATATACCACGATTACACATATTGATACGTGTAACGTGGTG
1 CTAAGTGGATATACCACGGTTACACATATTGATACAT-TAACATGGTG
* * *
44822299 CTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGGTG
1 CTAAGTGGATATACCACGGTTACACATATTGATACATTAACATGGTG
* *
44822346 CTAAGTGGATATACCACGGTTA-A-ACA-TG------TAACGTGGTG
1 CTAAGTGGATATACCACGGTTACACATATTGATACATTAACATGGTG
*
44822384 CTAAGTGGATATACCACGGTTA-A-ACA-TG------TAACATGGTG
1 CTAAGTGGATATACCACGGTTACACATATTGATACATTAACATGGTG
* * * **
44822422 CTAAGTGGATATACTACGGTTACATATATTGATTCATTAATGTGGTG
1 CTAAGTGGATATACCACGGTTACACATATTGATACATTAACATGGTG
* * *
44822469 CTAAGTGAATATACCACGGTTA-A-ACA-TG------TAACTTGGTG
1 CTAAGTGGATATACCACGGTTACACATATTGATACATTAACATGGTG
* * * * * * *
44822507 CTATGTGGATATGCTACGGTTACATATATTGATTCATTAACCTGGTA
1 CTAAGTGGATATACCACGGTTACACATATTGATACATTAACATGGTG
*
44822554 CTAAGTGGATATACCACGGTTAAACAT
1 CTAAGTGGATATACCACGGTTACACAT
44822581 GTAATGTGGT
Statistics
Matches: 233, Mismatches: 31, Indels: 37
0.77 0.10 0.12
Matches are distributed among these distances:
38 93 0.40
39 2 0.01
40 4 0.02
41 4 0.02
44 4 0.02
45 4 0.02
46 2 0.01
47 88 0.38
48 32 0.14
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.32
Consensus pattern (47 bp):
CTAAGTGGATATACCACGGTTACACATATTGATACATTAACATGGTG
Found at i:44822392 original size:38 final size:38
Alignment explanation
Indices: 44822336--44822620 Score: 246
Period size: 38 Copynumber: 7.0 Consensus size: 38
44822326 ATTGATTCAT
*
44822336 TAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
44822374 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
44822412 TAACATGGTGCTAAGTGGATATACTACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
* *
44822453 ATTCATTAATGTGGTGCTAAGTGAATATACCACGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * * * *
44822497 TAACTTGGTGCTATGTGGATATGCTACGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
* *
44822538 ATTCATTAACCTGGTACTAAGTGGATATACCACGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * * * *
44822582 TAATGTGGTGCTATGTGAATATGCCACGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
44822620 T
1 T
44822621 TAATTTGAAA
Statistics
Matches: 200, Mismatches: 29, Indels: 36
0.75 0.11 0.14
Matches are distributed among these distances:
38 125 0.62
39 2 0.01
40 4 0.02
41 4 0.02
44 4 0.02
45 4 0.02
46 2 0.01
47 55 0.28
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:44822467 original size:85 final size:85
Alignment explanation
Indices: 44822374--44822613 Score: 381
Period size: 85 Copynumber: 2.8 Consensus size: 85
44822364 GTTAAACATG
* *
44822374 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTAAGTGGATATACTAC
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTATGTGGATATGCTAC
44822439 GGTTACATATATTGATTCAT
66 GGTTACATATATTGATTCAT
* * *
44822459 TAATGTGGTGCTAAGTGAATATACCACGGTTAAACATGTAACTTGGTGCTATGTGGATATGCTAC
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTATGTGGATATGCTAC
44822524 GGTTACATATATTGATTCAT
66 GGTTACATATATTGATTCAT
* * ** * *
44822544 TAACCTGGTACTAAGTGGATATACCACGGTTAAACATGTAATGTGGTGCTATGTGAATATGCCAC
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTATGTGGATATGCTAC
44822609 GGTTA
66 GGTTA
44822614 TACATGTTAA
Statistics
Matches: 142, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 142 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (85 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACATGGTGCTATGTGGATATGCTAC
GGTTACATATATTGATTCAT
Found at i:44822506 original size:123 final size:123
Alignment explanation
Indices: 44822287--44822528 Score: 394
Period size: 123 Copynumber: 2.0 Consensus size: 123
44822277 TATTGATACG
* *
44822287 TGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACATGGTGCTAAGT
1 TGTAACATGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACATGGTGCTAAGT
*
44822352 GGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATACCACGGTTAAACA
66 GAATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATACCACGGTTAAACA
* **
44822410 TGTAACATGGTGCTAAGTGGATATACTACGGTTACATATATTGATTCATTAATGTGGTGCTAAGT
1 TGTAACATGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACATGGTGCTAAGT
* * * *
44822475 GAATATACCACGGTTAAACATGTAACTTGGTGCTATGTGGATATGCTACGGTTA
66 GAATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATACCACGGTTA
44822529 CATATATTGA
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
123 109 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (123 bp):
TGTAACATGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCATTAACATGGTGCTAAGT
GAATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATACCACGGTTAAACA
Found at i:44831755 original size:24 final size:24
Alignment explanation
Indices: 44831736--44831797 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
44831726 TTCAAATCCA
* *
44831736 CACACATAGTGCCGTACAAATTTG
1 CACACATAGTGCCATACAAATTCG
* *
44831760 CACACATAATGCCATTCAAATTCG
1 CACACATAGTGCCATACAAATTCG
44831784 CACACATAGTGCCA
1 CACACATAGTGCCA
44831798 AAGTCATTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.23
Consensus pattern (24 bp):
CACACATAGTGCCATACAAATTCG
Found at i:44833098 original size:15 final size:14
Alignment explanation
Indices: 44833072--44833107 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
44833062 CCTTTTCTTC
*
44833072 TTTTATTCATTCAT
1 TTTTATTAATTCAT
44833086 TTCTTATTAATTCAT
1 TT-TTATTAATTCAT
44833101 TTTTATT
1 TTTTATT
44833108 TGGATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTATTAATTCAT
Found at i:44839740 original size:24 final size:24
Alignment explanation
Indices: 44839721--44839782 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
44839711 TTCAAATCCA
* *
44839721 CACACATAGTGCCGTACAAATTTG
1 CACACATAGTGCCATACAAATTCG
* *
44839745 CACACATAGTGCAATTCAAATTCG
1 CACACATAGTGCCATACAAATTCG
44839769 CACACATAGTGCCA
1 CACACATAGTGCCA
44839783 AAGTCATTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (24 bp):
CACACATAGTGCCATACAAATTCG
Found at i:44841053 original size:15 final size:14
Alignment explanation
Indices: 44841027--44841062 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
44841017 CTTTTTCTTC
*
44841027 TTTTATTCATTCAT
1 TTTTATTAATTCAT
44841041 TTCTTATTAATTCAT
1 TT-TTATTAATTCAT
44841056 TTTTATT
1 TTTTATT
44841063 TGGATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTATTAATTCAT
Found at i:44842951 original size:13 final size:13
Alignment explanation
Indices: 44842933--44842957 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44842923 GTAAGTGATT
44842933 TTGATGATTTTTC
1 TTGATGATTTTTC
44842946 TTGATGATTTTT
1 TTGATGATTTTT
44842958 GCAATTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:44843892 original size:46 final size:47
Alignment explanation
Indices: 44843710--44843932 Score: 192
Period size: 46 Copynumber: 4.7 Consensus size: 47
44843700 TTATGAGAGC
** ** * *
44843710 CAGTGTAAGACCACATCTGGGACATGGCATCGGCATTGAGACG-AGAG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGTAG-T
* * *
44843757 CTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-CTCGAGATGTAAGC
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGAGATGT-AGT
* **
44843804 CAATGTAAGA-CATGTCTAAGACAT-GCATCGGCTACA-AGATGT-GT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGAGATGTAGT
*
44843848 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGT---AGT
*
44843898 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
44843933 TTATACCCTA
Statistics
Matches: 147, Mismatches: 16, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
44 10 0.07
45 15 0.10
46 61 0.41
47 13 0.09
48 12 0.08
50 36 0.24
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGTAGT
Found at i:44853064 original size:19 final size:20
Alignment explanation
Indices: 44853016--44853066 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
44853006 AATTCAAAAA
44853016 AATTATAAAAAA-TATTTAT
1 AATTATAAAAAATTATTTAT
** *
44853035 AAAAATTAAAAATTA-TTAT
1 AATTATAAAAAATTATTTAT
44853054 AATTATAAAAAAT
1 AATTATAAAAAAT
44853067 GTTTTTAAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 23 0.92
20 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AATTATAAAAAATTATTTAT
Found at i:44853082 original size:8 final size:8
Alignment explanation
Indices: 44853069--44853098 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
44853059 TAAAAAATGT
44853069 TTTTAAAA
1 TTTTAAAA
44853077 TTTTAAAA
1 TTTTAAAA
44853085 TTTTAAAA
1 TTTTAAAA
*
44853093 TATTAA
1 TTTTAA
44853099 TTAAATACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
TTTTAAAA
Found at i:44858540 original size:24 final size:24
Alignment explanation
Indices: 44858512--44858558 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
44858502 CGATCTACAG
44858512 CAGAGGCTGAGTATCATAGTCTAC
1 CAGAGGCTGAGTATCATAGTCTAC
*
44858536 CAGAGGCTGAGTATCGTAGTCTA
1 CAGAGGCTGAGTATCATAGTCTA
44858559 GCAGCCGCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.26
Consensus pattern (24 bp):
CAGAGGCTGAGTATCATAGTCTAC
Found at i:44861906 original size:28 final size:28
Alignment explanation
Indices: 44861862--44861926 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
44861852 TCAGAGTATA
*
44861862 CTGGGCC-TAGCCCATATCAGTATCAAT
1 CTGGGCCGTAACCCATATCAGTATCAAT
44861889 CTGGGCCGTAACCCATATCAGTATCAAT
1 CTGGGCCGTAACCCATATCAGTATCAAT
44861917 CTGGGCCGTA
1 CTGGGCCGTA
44861927 GCCCTATTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 7 0.19
28 29 0.81
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (28 bp):
CTGGGCCGTAACCCATATCAGTATCAAT
Found at i:44861912 original size:60 final size:60
Alignment explanation
Indices: 44861791--44861914 Score: 160
Period size: 59 Copynumber: 2.1 Consensus size: 60
44861781 CTATTCAGAA
* * * *
44861791 ATCAGAGTTTACTGGGCCTTAGCCCATATCAATATTAATCCGGGCCATAGCCCCTTAAGT
1 ATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAATCCGGGCCATAACCCATTAAGT
* * * *
44861851 ATCAGAGTATACTGGGCC-TAGCCCATATCAGTATCAATCTGGGCCGTAACCCATATCAGT
1 ATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAATCCGGGCCATAACCCAT-TAAGT
44861911 ATCA
1 ATCA
44861915 ATCTGGGCCG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
59 30 0.55
60 25 0.45
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (60 bp):
ATCAGAGTATACTGGGCCTTAGCCCATATCAATATCAATCCGGGCCATAACCCATTAAGT
Found at i:44862013 original size:19 final size:20
Alignment explanation
Indices: 44861971--44862014 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
44861961 ACATATTAAC
** *
44861971 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
44861991 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
44862010 ACAGT
1 ACAGT
44862015 ATCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:44870122 original size:3 final size:3
Alignment explanation
Indices: 44870095--44870133 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
44870085 TGCTATTACC
* *
44870095 ATT ACT ATT ATT ACT ATT ATCT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT AT
44870134 ATTTTGATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:44870417 original size:23 final size:23
Alignment explanation
Indices: 44870389--44870433 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
44870379 ACCACCACTA
*
44870389 TTATTTATATTATCATATTATTG
1 TTATTTATATTACCATATTATTG
* *
44870412 TTATTTTTTTTACCATATTATT
1 TTATTTATATTACCATATTATT
44870434 ATTTCCTATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (23 bp):
TTATTTATATTACCATATTATTG
Done.