Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 7 of 328
Found at i:2124237 original size:348 final size:350
Alignment explanation
Indices: 2123582--2124290 Score: 1208
Period size: 348 Copynumber: 2.0 Consensus size: 350
2123572 TTCCAGTTTT
* *
2123582 TCCGGCTACAGTTTCAGTTTCACCAGAACTACAAGACAAAAATAGAAAATAGAGGTCATCAATAA
1 TCCGGCAACAGTTTCAGCTTCACCAGAACTACAAGACAAAAATAGAAAATAGAGGTCATCAATAA
2123647 TTGTTATAAATTCAGCCATGATCACATTACTGCAAGTAATATCATTTTCATATCATTTTTTACAA
66 TTGTTATAAATTCAGCCATGATCACATTACTGCAAG----ATCA---T-ATATCATTTTTTACAA
* * *
2123712 CGCCACCTAGGCTGAATCTGAAAAAAGTTATAGTGGTGGGCGAAAACTTCAGTTGTTAACTCTAT
123 CGCCACCTAGGCTGAATCTGAAAAAAGTTACAGTGGTGGGCGAAAACTTCAATTGTTAACTCTAC
2123777 GGAGAGCAAACAACAGTGTAAAGTAATAGACTAAAGAACTATACATAAAAAGGCTATTCCATAGG
188 GGAGAGCAAACAACAGTGTAAAGTAATAGACTAAAGAACTATACATAAAAAGGCTATTCCATAGG
2123842 GTTTATATCTTGGGTAAGAAACTAGAAATGAATCAAGTGGGAACCATTTTTTTTTTTAAATCAGA
253 GTTTATATCTTGGGTAAGAAACTAGAAATGAATCAAGTGGGAACCA-TTTTTTTTTTAAATCAGA
*
2123907 TTATAAGATTGTAAACAGATATAAACCTTCCATC
317 TTATAAGATTGTAAACAGACATAAACCTTCCATC
2123941 TCCGGCAACAGTTTCAGCTTCACCAGAACTACAAGACAAAAATAGAAAATAGAGGTCATCAATAA
1 TCCGGCAACAGTTTCAGCTTCACCAGAACTACAAGACAAAAATAGAAAATAGAGGTCATCAATAA
*
2124006 TTGTTATAACTTCAGCCATGATCACATTACTGCAAG-T-A-ATATCATTTTTTACAACGCCACCT
66 TTGTTATAAATTCAGCCATGATCACATTACTGCAAGATCATATATCATTTTTTACAACGCCACCT
* * *
2124068 AGGCTGAATCTGAAAAAGGTTACAGTGGTGGGTGAAAACTTTAATTGTTAACTCTACGGAGAGCA
131 AGGCTGAATCTGAAAAAAGTTACAGTGGTGGGCGAAAACTTCAATTGTTAACTCTACGGAGAGCA
2124133 AACAACAGTGTAAAGTAATAGACTAAAGAACTATACATAAAAAGGCTATTCCATAGGGTTTATAT
196 AACAACAGTGTAAAGTAATAGACTAAAGAACTATACATAAAAAGGCTATTCCATAGGGTTTATAT
*
2124198 CTTGGGTAAGAAACTAGAAATGAATCAAGTTGGAACCATTTTTTTTTTAAATCAGATTATAAGAT
261 CTTGGGTAAGAAACTAGAAATGAATCAAGTGGGAACCATTTTTTTTTTAAATCAGATTATAAGAT
*
2124263 TGTAAACAGGCATAAACCTTCCATC
326 TGTAAACAGACATAAACCTTCCATC
2124288 TCC
1 TCC
2124291 AGCAGAAGCC
Statistics
Matches: 338, Mismatches: 12, Indels: 12
0.93 0.03 0.03
Matches are distributed among these distances:
347 53 0.16
348 185 0.55
353 1 0.00
354 1 0.00
359 98 0.29
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (350 bp):
TCCGGCAACAGTTTCAGCTTCACCAGAACTACAAGACAAAAATAGAAAATAGAGGTCATCAATAA
TTGTTATAAATTCAGCCATGATCACATTACTGCAAGATCATATATCATTTTTTACAACGCCACCT
AGGCTGAATCTGAAAAAAGTTACAGTGGTGGGCGAAAACTTCAATTGTTAACTCTACGGAGAGCA
AACAACAGTGTAAAGTAATAGACTAAAGAACTATACATAAAAAGGCTATTCCATAGGGTTTATAT
CTTGGGTAAGAAACTAGAAATGAATCAAGTGGGAACCATTTTTTTTTTAAATCAGATTATAAGAT
TGTAAACAGACATAAACCTTCCATC
Found at i:2125063 original size:3 final size:3
Alignment explanation
Indices: 2125055--2125106 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
2125045 AACGTTAAAT
2125055 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
2125103 AGA A
1 AGA A
2125107 ATACTAAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:2131824 original size:2 final size:2
Alignment explanation
Indices: 2131782--2131808 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2131772 TAATGTTTAT
2131782 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2131809 CTTATGCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2131930 original size:48 final size:48
Alignment explanation
Indices: 2131874--2131970 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
2131864 ATTGCGCTTT
2131874 ACTTCACTTAGGCTAGCACATTTAGCACATTTTTGTGCCTTGCATTGA
1 ACTTCACTTAGGCTAGCACATTTAGCACATTTTTGTGCCTTGCATTGA
2131922 ACTTCACTTAGGCTAGCACATTTAGCACATTTTTGTGCCTTGCATTGA
1 ACTTCACTTAGGCTAGCACATTTAGCACATTTTTGTGCCTTGCATTGA
2131970 A
1 A
2131971 GCAATACAAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (48 bp):
ACTTCACTTAGGCTAGCACATTTAGCACATTTTTGTGCCTTGCATTGA
Found at i:2136547 original size:22 final size:23
Alignment explanation
Indices: 2136500--2136558 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
2136490 AAAACCAAGC
*
2136500 TATATACGAATAATTTTAAAGAAAA
1 TATATAC-AATAAATTT-AAGAAAA
2136525 TATATACAATAAATTT-AGAAAA
1 TATATACAATAAATTTAAGAAAA
*
2136547 TATTTAC-ATAAA
1 TATATACAATAAA
2136559 ATAATATGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
22 12 0.38
24 8 0.25
25 7 0.22
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (23 bp):
TATATACAATAAATTTAAGAAAA
Found at i:2138606 original size:133 final size:132
Alignment explanation
Indices: 2138373--2138727 Score: 539
Period size: 133 Copynumber: 2.7 Consensus size: 132
2138363 GATAAGGCCG
* * * *
2138373 GTGGCTAAAATCTGCTTCATAGCCGATACATGGAGATAAGACTACTATTCCTGATCTGCTCCATA
1 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTGCCATTTCTGATCTGCTCCATA
* * *
2138438 GTCGATATACGGCGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAGAC
66 GCCGATATATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAGAC
2138503 TT
131 TT
* * *
2138505 GTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTCTGATTTACTCCAT
1 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACT-GCCATTTCTGATCTGCTCCAT
*
2138570 AGCCGATATATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAGGAAGATAAGA
65 AGCCGATATATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAGA
2138635 CTT
130 CTT
* * * *
2138638 ATAGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTTGCCATTTTTGATCTGCTCCAT
1 GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGAC-TGCCATTTCTGATCTGCTCCAT
* *
2138703 AGCTGATACATGGAGATAAGATCTG
65 AGCCGATATATGGAGATAAGATCTG
2138728 GTATTTAGCT
Statistics
Matches: 201, Mismatches: 20, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
132 41 0.20
133 159 0.79
134 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (132 bp):
GTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTGCCATTTCTGATCTGCTCCATA
GCCGATATATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTTCAGGAAGATAAGAC
TT
Found at i:2138828 original size:133 final size:133
Alignment explanation
Indices: 2138716--2139395 Score: 857
Period size: 133 Copynumber: 5.1 Consensus size: 133
2138706 TGATACATGG
* ** *
2138716 AGATAAGATCTGGTATTTAGCTTGCTCCACTCCTGCTCAGTGAAGATAAGAATGATGATTGGAAC
1 AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
* * * * *
2138781 CTGCTCCATCGCCGGTACGTGGAGATAAAATTCTCCAAAGTTCGATCTGCTTCACTCCTGCTCAG
66 CTGCTCCATTGCCGATACATGGAGATAAAATTCGCCAAAATTCGATCTGCTTCACTCCTGCTCAG
2138846 TGA
131 TGA
* * *
2138849 AGATAAGATCTGGTATTTAGCCTGCTCCACTTCTGCTCAGTGAAGATAAGGCTGAT-AGCTGAAA
1 AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGA-TTGGAA
* * * * * *
2138913 TTTGCTCCATTGCCAATACATGAAGATAAGACTT-GCCAAAATT-TATCTGCTTTACTCCTGCTC
65 TCTGCTCCATTGCCGATACATGGAGATAA-AATTCGCCAAAATTCGATCTGCTTCACTCCTGCTC
2138976 AGTGA
129 AGTGA
2138981 AGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
1 AGATAAGATCTGGTA--TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
* * * * * * *
2139046 ATTTGCTCCATTGCCGGTACGTGGAGATAAGATTCTCCAAAGTTCGATCTGTTTCACTCCTGCTC
64 ATCTGCTCCATTGCCGATACATGGAGATAAAATTCGCCAAAATTCGATCTGCTTCACTCCTGCTC
2139111 AGTGA
129 AGTGA
** *
2139116 AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGGCTGAAAT
1 AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
* ** * * * *
2139181 CTGCTCCATTACCGATACATAAAGATAAGACTT-GCCAAAATTTGATCTACTTCATTCCTGCTCA
66 CTGCTCCATTGCCGATACATGGAGATAA-AATTCGCCAAAATTCGATCTGCTTCACTCCTGCTCA
2139245 GTGA
130 GTGA
* *
2139249 AGATAAGATCTAGTATGTTTATCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
1 AGATAAGATCTGGTA--TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGA
* * * * * *
2139314 ATCTACTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGC-CCTGCTCCTGCT
64 ATCTGCTCCATTGCCGATACATGGAGATAAAATTCGCCAAAATTCGATCTGCTTC-ACTCCTGCT
*
2139378 CAGCGA
128 CAGTGA
2139384 AGATAAGATCTG
1 AGATAAGATCTG
2139396 TAATTTTAGC
Statistics
Matches: 468, Mismatches: 67, Indels: 22
0.84 0.12 0.04
Matches are distributed among these distances:
132 39 0.08
133 199 0.43
134 84 0.18
135 146 0.31
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (133 bp):
AGATAAGATCTGGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAAT
CTGCTCCATTGCCGATACATGGAGATAAAATTCGCCAAAATTCGATCTGCTTCACTCCTGCTCAG
TGA
Found at i:2139378 original size:268 final size:268
Alignment explanation
Indices: 2138621--2139395 Score: 1107
Period size: 267 Copynumber: 2.9 Consensus size: 268
2138611 TCCTGCAACT
* * * * *
2138621 TCAG-GAAGATAAGACTTATAGCTAAAATCTACTCCA-TAGCCGATACATGGAGATAAGACTTGC
1 TCAGTGAAGATAAGGCTGATAGCTGAAATCTGCTCCATTA-CCGATACATGAAGATAAGACTTGC
** * ** * * *
2138684 C-ATTTTTGATCTGCTCCATAGCTGATACA-TGGAGATAAGATCTGGTA--TTTAGCTTGCTCCA
65 CAAAATTTGATCTGCTTCATTCCTGCT-CAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCA
** * * *
2138745 CTCCTGCTCAGTGAAGATAAGAATGATGATTGGAACCTGCTCCATCGCCGGTACGTGGAGATAAA
129 CTCCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGGTACGTGGAGATAAG
2138810 ATTCTCCAAAGTTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCT
194 ATTCTCCAAAGTTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCT
*
2138875 CCACTTCTGC
259 CCACTCCTGC
* * *
2138885 TCAGTGAAGATAAGGCTGATAGCTGAAATTTGCTCCATTGCCAATACATGAAGATAAGACTTGCC
1 TCAGTGAAGATAAGGCTGATAGCTGAAATCTGCTCCATTACCGATACATGAAGATAAGACTTGCC
* *
2138950 AAAATTT-ATCTGCTTTACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACT
66 AAAATTTGATCTGCTTCATTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACT
*
2139014 CCTGCTCAGTGAAGATAAGGCTGATGATTGGAATTTGCTCCATTGCCGGTACGTGGAGATAAGAT
131 CCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGGTACGTGGAGATAAGAT
*
2139079 TCTCCAAAGTTCGATCTGTTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCC
196 TCTCCAAAGTTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCC
2139144 ACTCCTGC
261 ACTCCTGC
* *
2139152 TCAGTGAAGATAAGGCTGATGGCTGAAATCTGCTCCATTACCGATACATAAAGATAAGACTTGCC
1 TCAGTGAAGATAAGGCTGATAGCTGAAATCTGCTCCATTACCGATACATGAAGATAAGACTTGCC
* * *
2139217 AAAATTTGATCTACTTCATTCCTGCTCAGTGAAGATAAGATCTAGTATGTTTATCCTGCTCCACT
66 AAAATTTGATCTGCTTCATTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACT
* * *
2139282 CCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTACTCCATTGCCGATACATGGAGATAAGAT
131 CCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGGTACGTGGAGATAAGAT
* * * * * *
2139347 TCACCAAAATTTGATCTGC-CCTGCTCCTGCTCAGCGAAGATAAGATCTG
196 TCTCCAAAGTTCGATCTGCTTC-ACTCCTGCTCAGTGAAGATAAGATCTG
2139396 TAATTTTAGC
Statistics
Matches: 456, Mismatches: 47, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
264 6 0.01
265 79 0.17
266 5 0.01
267 213 0.47
268 153 0.34
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (268 bp):
TCAGTGAAGATAAGGCTGATAGCTGAAATCTGCTCCATTACCGATACATGAAGATAAGACTTGCC
AAAATTTGATCTGCTTCATTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACT
CCTGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGGTACGTGGAGATAAGAT
TCTCCAAAGTTCGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATTTAGCCTGCTCC
ACTCCTGC
Found at i:2140867 original size:14 final size:16
Alignment explanation
Indices: 2140848--2140882 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
2140838 CTCTAGTTTC
2140848 TTTTTC-TTTTCT-TT
1 TTTTTCTTTTTCTCTT
2140862 TTTTTCTTTTTCTCTT
1 TTTTTCTTTTTCTCTT
2140878 TTTTT
1 TTTTT
2140883 TGAAACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 6 0.32
16 7 0.37
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTCTTTTTCTCTT
Found at i:2140869 original size:20 final size:20
Alignment explanation
Indices: 2140844--2140883 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2140834 GCCTCTCTAG
2140844 TTTCTTTTTCT-TTTCTTTTT
1 TTTCTTTTTCTCTTT-TTTTT
2140864 TTTCTTTTTCTCTTTTTTTT
1 TTTCTTTTTCTCTTTTTTTT
2140884 GAAACTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTCTTTTTCTCTTTTTTTT
Found at i:2144819 original size:24 final size:23
Alignment explanation
Indices: 2144778--2144827 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 23
2144768 AAGGCCAAGC
*
2144778 TATATACGAATAATTTTAAAGAAAA
1 TATATACGAATAAATTT--AGAAAA
2144803 TATATAC-AATAAATTTAGAAAA
1 TATATACGAATAAATTTAGAAAA
2144825 TAT
1 TAT
2144828 TCACATAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 9 0.38
24 8 0.33
25 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (23 bp):
TATATACGAATAAATTTAGAAAA
Found at i:2145699 original size:27 final size:25
Alignment explanation
Indices: 2145668--2145720 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
2145658 TCACGCAAAA
*
2145668 AGAAAATGAAAGAATAATAACAAAATC
1 AGAAAAGGAAAGAA-AATAA-AAAATC
* *
2145695 AGAAAGGGAAAGAAACTAAAAAATC
1 AGAAAAGGAAAGAAAATAAAAAATC
2145720 A
1 A
2145721 CCTTTAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 4 0.17
27 12 0.52
ACGTcount: A:0.66, C:0.08, G:0.15, T:0.11
Consensus pattern (25 bp):
AGAAAAGGAAAGAAAATAAAAAATC
Found at i:2147683 original size:46 final size:44
Alignment explanation
Indices: 2147578--2147685 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
2147568 TGTCTTTGAC
** * * *
2147578 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
2147622 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
*
2147668 ATGGGCTTACATGGCTCA
1 ATGGACTTACATGGCTCA
2147686 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 33 0.60
46 22 0.40
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:2149529 original size:53 final size:53
Alignment explanation
Indices: 2149449--2149554 Score: 151
Period size: 53 Copynumber: 2.0 Consensus size: 53
2149439 CATTTCCATA
* *
2149449 TAATATGACATTTGATCATAGGTAAGCAATCT-ATTTACTCAATTGGTTTTTTC
1 TAATATGACATTAGATCATAGATAAGCAAT-TGATTTACTCAATTGGTTTTTTC
** *
2149502 TAATATGACATTAGATTGTAGATAAGCAATTGCTTTACTCAATTGGTTTTTTC
1 TAATATGACATTAGATCATAGATAAGCAATTGATTTACTCAATTGGTTTTTTC
2149555 AAAATCGATT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 1 0.02
53 46 0.98
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.43
Consensus pattern (53 bp):
TAATATGACATTAGATCATAGATAAGCAATTGATTTACTCAATTGGTTTTTTC
Found at i:2151977 original size:29 final size:28
Alignment explanation
Indices: 2151942--2152039 Score: 76
Period size: 29 Copynumber: 3.4 Consensus size: 28
2151932 AAGGCTAACT
2151942 TTGATAAAAAAAAAAGTTCAAACCCTAA
1 TTGATAAAAAAAAAAGTTCAAACCCTAA
* *
2151970 TGTGATAAAAATTACTAAA-TTCAAAACCTAA
1 T-TGATAAAAA--A-AAAAGTTCAAACCCTAA
* *
2152001 CTTGGAT-AATAAAAAAGTTCAAACCCCAA
1 -TT-GATAAAAAAAAAAGTTCAAACCCTAA
2152030 TATGA-AAAAA
1 T-TGATAAAAA
2152040 TTTTTAAGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 18
0.68 0.09 0.23
Matches are distributed among these distances:
28 10 0.19
29 21 0.39
31 16 0.30
32 7 0.13
ACGTcount: A:0.54, C:0.14, G:0.08, T:0.23
Consensus pattern (28 bp):
TTGATAAAAAAAAAAGTTCAAACCCTAA
Found at i:2152160 original size:60 final size:60
Alignment explanation
Indices: 2152093--2152213 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
2152083 CAAATAATGA
2152093 TTTAACTCATACTAAACATTTAAATTTTTAACCTAACTTTTTTAACAATATTTTTTCACG
1 TTTAACTCATACTAAACATTTAAATTTTTAACCTAACTTTTTTAACAATATTTTTTCACG
2152153 TTTAACTCATACTAAACATTTAAATTTTTAACCTAACTTTTTTAACAATATTTTTTCACG
1 TTTAACTCATACTAAACATTTAAATTTTTAACCTAACTTTTTTAACAATATTTTTTCACG
2152213 T
1 T
2152214 CACTCTTGAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.35, C:0.17, G:0.02, T:0.47
Consensus pattern (60 bp):
TTTAACTCATACTAAACATTTAAATTTTTAACCTAACTTTTTTAACAATATTTTTTCACG
Found at i:2162440 original size:23 final size:23
Alignment explanation
Indices: 2162376--2162440 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
2162366 AAAATTTTAG
2162376 AATTAAAATTAAGA-TTTTATAT
1 AATTAAAATTAAGATTTTTATAT
* * * *
2162398 AACTTTAAATTGATATTTTTTATTT
1 AA-TTAAAATTAAGA-TTTTTATAT
2162423 AATTAAAATTAAGATTTT
1 AATTAAAATTAAGATTTT
2162441 AGAATTAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
22 2 0.06
23 13 0.39
24 9 0.27
25 9 0.27
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (23 bp):
AATTAAAATTAAGATTTTTATAT
Found at i:2162448 original size:24 final size:23
Alignment explanation
Indices: 2162376--2162448 Score: 58
Period size: 24 Copynumber: 3.1 Consensus size: 23
2162366 AAAATTTTAG
*
2162376 AATTAAAATTAAGATTTTATA-T
1 AATTAAAATTAAGATTTTAAATT
* * * * *
2162398 AACTTTAAATTGATATTTTTTATTT
1 AA-TTAAAATTAAGA-TTTTAAATT
2162423 AATTAAAATTAAGATTTTAGAATT
1 AATTAAAATTAAGATTTTA-AATT
2162447 AA
1 AA
2162449 AATTTTGGAT
Statistics
Matches: 36, Mismatches: 11, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
22 2 0.06
23 13 0.36
24 18 0.50
25 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.48
Consensus pattern (23 bp):
AATTAAAATTAAGATTTTAAATT
Found at i:2183087 original size:29 final size:29
Alignment explanation
Indices: 2183054--2183110 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
2183044 TATGCATAAG
2183054 TAAGACTAAAAAAGTGCTACAATAATAGT
1 TAAGACTAAAAAAGTGCTACAATAATAGT
2183083 TAAGACTAAAAAAGTGCTACAATAATAG
1 TAAGACTAAAAAAGTGCTACAATAATAG
2183111 ACAAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.53, C:0.11, G:0.14, T:0.23
Consensus pattern (29 bp):
TAAGACTAAAAAAGTGCTACAATAATAGT
Found at i:2186107 original size:17 final size:18
Alignment explanation
Indices: 2186085--2186119 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2186075 GCGGATTTAA
*
2186085 TTAAAA-TAATTTGAAAT
1 TTAAAATTAATTTAAAAT
2186102 TTAAAATTAATTTAAAAT
1 TTAAAATTAATTTAAAAT
2186120 CTCTAAGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
TTAAAATTAATTTAAAAT
Found at i:2195497 original size:15 final size:13
Alignment explanation
Indices: 2195470--2195520 Score: 54
Period size: 12 Copynumber: 4.0 Consensus size: 13
2195460 ATTTTAAAAT
*
2195470 ATAA-TAAATCAA
1 ATAATTAAAACAA
2195482 ATACATTTAAAACAA
1 ATA-A-TTAAAACAA
2195497 AT-ATTAAAACAA
1 ATAATTAAAACAA
2195509 AT-ATTAAAACAA
1 ATAATTAAAACAA
2195521 GAAACAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
12 24 0.69
13 2 0.06
15 9 0.26
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.25
Consensus pattern (13 bp):
ATAATTAAAACAA
Found at i:2195505 original size:12 final size:12
Alignment explanation
Indices: 2195488--2195520 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
2195478 TCAAATACAT
2195488 TTAAAACAAATA
1 TTAAAACAAATA
2195500 TTAAAACAAATA
1 TTAAAACAAATA
2195512 TTAAAACAA
1 TTAAAACAA
2195521 GAAACAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (12 bp):
TTAAAACAAATA
Found at i:2198165 original size:28 final size:28
Alignment explanation
Indices: 2198115--2198168 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
2198105 CATTTTTTTT
*
2198115 CTAATTTGGTACTTAAAACTTTTTTGGC
1 CTAATTTGGTACTGAAAACTTTTTTGGC
**
2198143 CTAATTTGGTACTGAAATGTTTTTTG
1 CTAATTTGGTACTGAAAACTTTTTTG
2198169 CTCCAAGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (28 bp):
CTAATTTGGTACTGAAAACTTTTTTGGC
Found at i:2204967 original size:44 final size:45
Alignment explanation
Indices: 2204877--2205005 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
2204867 GACAGAACGA
*
2204877 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
2204923 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
2204967 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
2205006 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:2212359 original size:44 final size:45
Alignment explanation
Indices: 2212269--2212397 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
2212259 GACAGAACGA
*
2212269 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
2212315 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
2212359 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
2212398 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:2216290 original size:2 final size:2
Alignment explanation
Indices: 2216283--2216311 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2216273 TTTATACATT
2216283 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2216312 TCTCTTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2217822 original size:19 final size:18
Alignment explanation
Indices: 2217778--2217824 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
2217768 TTTTGAAATT
2217778 TAAATTTTAAATTTTATA
1 TAAATTTTAAATTTTATA
* *
2217796 TGATTTTTAGAATTTTAT-
1 TAAATTTTA-AATTTTATA
2217814 TAAAATTTTAA
1 T-AAATTTTAA
2217825 TATATTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (18 bp):
TAAATTTTAAATTTTATA
Found at i:2223142 original size:27 final size:27
Alignment explanation
Indices: 2223104--2223156 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
2223094 TTAAGTTGGG
2223104 TTTAGACAAACATAAAGTGTGTTATTT
1 TTTAGACAAACATAAAGTGTGTTATTT
2223131 TTTAGACAAACATAAAGTGTGTTATT
1 TTTAGACAAACATAAAGTGTGTTATT
2223157 ACATATAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (27 bp):
TTTAGACAAACATAAAGTGTGTTATTT
Found at i:2226020 original size:3 final size:3
Alignment explanation
Indices: 2226012--2226055 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
2226002 TTGTATTTGA
2226012 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2226056 CATGTTTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2226302 original size:21 final size:21
Alignment explanation
Indices: 2226276--2226320 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2226266 CCCATAGGCC
2226276 AATATTCATAATTAT-TACATT
1 AATATT-ATAATTATATACATT
* *
2226297 AATATTATATTTATATATATT
1 AATATTATAATTATATACATT
2226318 AAT
1 AAT
2226321 GTTTATATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTATAATTATATACATT
Found at i:2228257 original size:2 final size:2
Alignment explanation
Indices: 2228250--2228281 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2228240 AAATGTACTA
2228250 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2228282 TAAAATAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2241849 original size:20 final size:23
Alignment explanation
Indices: 2241793--2241857 Score: 91
Period size: 20 Copynumber: 2.9 Consensus size: 23
2241783 GTAAGATTTT
*
2241793 TGAATTATTAATAAAAAATAATAA
1 TGAATTATTAAT-AAAAACAATAA
2241817 TGAATTATTAATAAAAACAATAA
1 TGAATTATTAATAAAAACAATAA
2241840 T-AA-T-TTAATAAAAACAAT
1 TGAATTATTAATAAAAACAAT
2241858 TTATACAAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
20 14 0.35
21 1 0.03
22 2 0.05
23 11 0.28
24 12 0.30
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (23 bp):
TGAATTATTAATAAAAACAATAA
Found at i:2245683 original size:28 final size:28
Alignment explanation
Indices: 2245651--2245708 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
2245641 TTTTTTCAAA
2245651 CAAAATTCTCCGTTGATAATTTTAGTGG
1 CAAAATTCTCCGTTGATAATTTTAGTGG
*
2245679 CAAAATTCTCCGTTGATATTTTTAGTGG
1 CAAAATTCTCCGTTGATAATTTTAGTGG
2245707 CA
1 CA
2245709 GTAATTAGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (28 bp):
CAAAATTCTCCGTTGATAATTTTAGTGG
Found at i:2247530 original size:23 final size:23
Alignment explanation
Indices: 2247486--2247531 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
2247476 GTTAAAAATA
* *
2247486 TTTATTTTTAATTTTATGATTTT
1 TTTATATTTAATTTTATAATTTT
2247509 TTTATATTTAATATTT-TAATTTT
1 TTTATATTTAAT-TTTATAATTTT
2247532 ATCCTATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (23 bp):
TTTATATTTAATTTTATAATTTT
Found at i:2248431 original size:26 final size:25
Alignment explanation
Indices: 2248381--2248431 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
2248371 TAAAATTATC
*
2248381 TTTTAAAATAAAAAATTATTTAATT
1 TTTTAAAATAAAAAATTATTAAATT
2248406 TTTTAAAAATAATAAAATTA-TAAATT
1 TTTT-AAAATAA-AAAATTATTAAATT
2248432 AATATGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 12 0.52
27 7 0.30
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTTAAAATAAAAAATTATTAAATT
Found at i:2260701 original size:153 final size:153
Alignment explanation
Indices: 2260415--2260702 Score: 398
Period size: 153 Copynumber: 1.9 Consensus size: 153
2260405 GAACGGAAAA
* *
2260415 TTTCCTCTTTTTACTTGAACAACTAACGATTTCAACATCTGGGCATCTTTCCTTTCCCTTCAAAT
1 TTTCCTCTTTATACTTGAACAACTAACGATTTCAACATCTGGGCATCTTTCCTTTCCCTCCAAAT
* ** * * *
2260480 CGACACCAAAAACAACACTTCCTGAGTTTGTGAAGTTTTCTGTTTCTTTCTCGGGAAACACAATA
66 CGACACCAAAAACAACACTTCCTGACTCGGTGAAATTTTCCGTTTCTTTCTCGGGAAACACAAAA
2260545 TCAAAAACGACATTGGGGCTTCT
131 TCAAAAACGACATTGGGGCTTCT
* ** * *
2260568 TTTCGTCTTTATACTTGAAGGACTAACGATTTCAACA-CTTGGGCTTCTTTCCTTTCTCTCCAAA
1 TTTCCTCTTTATACTTGAACAACTAACGATTTCAACATC-TGGGCATCTTTCCTTTCCCTCCAAA
* ** * *
2260632 TCGACACCAAGAACAACACTTTGTGACTCGGTGAAATTTTCCGTTTGTTTCTCGGGAAACCCAAA
65 TCGACACCAAAAACAACACTTCCTGACTCGGTGAAATTTTCCGTTTCTTTCTCGGGAAACACAAA
2260697 ATCAAA
130 ATCAAA
2260703 CCCCCAAAAC
Statistics
Matches: 116, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
152 1 0.01
153 115 0.99
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (153 bp):
TTTCCTCTTTATACTTGAACAACTAACGATTTCAACATCTGGGCATCTTTCCTTTCCCTCCAAAT
CGACACCAAAAACAACACTTCCTGACTCGGTGAAATTTTCCGTTTCTTTCTCGGGAAACACAAAA
TCAAAAACGACATTGGGGCTTCT
Found at i:2263969 original size:15 final size:16
Alignment explanation
Indices: 2263949--2263982 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
2263939 TTAAATTTAA
2263949 ATTAAT-TATAAAAAT
1 ATTAATATATAAAAAT
2263964 ATTAATAATATAAAAAT
1 ATTAAT-ATATAAAAAT
2263981 AT
1 AT
2263983 GTTTAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.35
17 11 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTAATATATAAAAAT
Found at i:2272128 original size:11 final size:11
Alignment explanation
Indices: 2272109--2272165 Score: 68
Period size: 11 Copynumber: 5.5 Consensus size: 11
2272099 ATATTATACA
2272109 AAAACTATAAAT
1 AAAA-TATAAAT
2272121 AAAATATAAAT
1 AAAATATAAAT
*
2272132 ATAA-AT-AA-
1 AAAATATAAAT
2272140 AAAATATAAAT
1 AAAATATAAAT
2272151 AAAATA-AAAT
1 AAAATATAAAT
2272161 AAAAT
1 AAAAT
2272166 TTATTTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 3 0.08
9 4 0.10
10 13 0.32
11 16 0.40
12 4 0.10
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.25
Consensus pattern (11 bp):
AAAATATAAAT
Found at i:2272133 original size:6 final size:5
Alignment explanation
Indices: 2272117--2272165 Score: 57
Period size: 5 Copynumber: 9.8 Consensus size: 5
2272107 CAAAAACTAT
*
2272117 AAATA AAATA TAAATA TAAATA AAA-A ATAT- AAATA AAATA AAATA AAAT
1 AAATA AAATA -AAATA -AAATA AAATA AAATA AAATA AAATA AAATA AAAT
2272166 TTATTTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 6 0.15
5 22 0.56
6 11 0.28
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
AAATA
Found at i:2272136 original size:17 final size:17
Alignment explanation
Indices: 2272114--2272165 Score: 72
Period size: 19 Copynumber: 3.1 Consensus size: 17
2272104 ATACAAAAAC
2272114 TATAAATAAAATATAAA
1 TATAAATAAAATATAAA
2272131 TATAAATAAAAAATATAAA
1 TATAAAT--AAAATATAAA
2272150 TA-AAATAAAATA-AAA
1 TATAAATAAAATATAAA
2272165 T
1 T
2272166 TTATTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.12
16 6 0.18
17 7 0.21
18 4 0.12
19 12 0.36
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
TATAAATAAAATATAAA
Found at i:2272148 original size:30 final size:28
Alignment explanation
Indices: 2272108--2272165 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 28
2272098 TATATTATAC
*
2272108 AAAAACTATAAATAAAATATAAATATAAAT
1 AAAAAATATAAATAAAATA-AAATA-AAAT
2272138 AAAAAATATAAATAAAATAAAATAAAAT
1 AAAAAATATAAATAAAATAAAATAAAAT
2272166 TTATTTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 4 0.15
29 5 0.19
30 18 0.67
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (28 bp):
AAAAAATATAAATAAAATAAAATAAAAT
Found at i:2276724 original size:5 final size:6
Alignment explanation
Indices: 2276709--2276733 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2276699 CAAAGCTTGA
2276709 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
2276734 GACCGGCGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:2277946 original size:11 final size:11
Alignment explanation
Indices: 2277930--2277959 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
2277920 TAAGATGAGG
2277930 AAGGAAAAGAA
1 AAGGAAAAGAA
2277941 AAGGAAAAGAA
1 AAGGAAAAGAA
*
2277952 AAAGAAAA
1 AAGGAAAA
2277960 CATTGTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AAGGAAAAGAA
Found at i:2285796 original size:23 final size:23
Alignment explanation
Indices: 2285770--2285844 Score: 75
Period size: 22 Copynumber: 3.3 Consensus size: 23
2285760 GGAAATTATG
2285770 TATTTAAATTTAAAAATAATATA
1 TATTTAAATTTAAAAATAATATA
*
2285793 TA-TTAAATATAAAAA-AATATA
1 TATTTAAATTTAAAAATAATATA
* *
2285814 TGATTTGAAA-TTAATAATATTATTA
1 T-ATTT-AAATTTAAAAATAATA-TA
2285839 TATTTA
1 TATTTA
2285845 TAATATGTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
21 7 0.16
22 13 0.30
23 10 0.23
24 10 0.23
25 3 0.07
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (23 bp):
TATTTAAATTTAAAAATAATATA
Found at i:2285806 original size:21 final size:22
Alignment explanation
Indices: 2285773--2285814 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2285763 AATTATGTAT
* *
2285773 TTAAATTTAAAAATAATATATA
1 TTAAATATAAAAAAAATATATA
2285795 TTAAATAT-AAAAAAATATAT
1 TTAAATATAAAAAAAATATAT
2285815 GATTTGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAATATAAAAAAAATATATA
Found at i:2286776 original size:21 final size:21
Alignment explanation
Indices: 2286750--2286792 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2286740 GTGGAAGTGT
2286750 GTTAGCTCATGTTTGATGATA
1 GTTAGCTCATGTTTGATGATA
2286771 GTTAGCTCATGTTTGATGATA
1 GTTAGCTCATGTTTGATGATA
2286792 G
1 G
2286793 AACTTTGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.26, T:0.42
Consensus pattern (21 bp):
GTTAGCTCATGTTTGATGATA
Found at i:2289328 original size:2 final size:2
Alignment explanation
Indices: 2289321--2289347 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2289311 CTAATTTAGT
2289321 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2289348 GAAGATGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2293291 original size:13 final size:12
Alignment explanation
Indices: 2293270--2293311 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
2293260 GACTAATTTT
2293270 AATAAATTTTAAA
1 AATAAA-TTTAAA
*
2293283 AATACATTTAAA
1 AATAAATTTAAA
*
2293295 AATATATTTAAA
1 AATAAATTTAAA
2293307 AATAA
1 AATAA
2293312 GGTTTTGGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (12 bp):
AATAAATTTAAA
Found at i:2293307 original size:11 final size:12
Alignment explanation
Indices: 2293277--2293310 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
2293267 TTTAATAAAT
2293277 TTTAAAAATACA
1 TTTAAAAATACA
*
2293289 TTTAAAAATATA
1 TTTAAAAATACA
2293301 TTTAAAAATA
1 TTTAAAAATA
2293311 AGGTTTTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (12 bp):
TTTAAAAATACA
Found at i:2301670 original size:20 final size:19
Alignment explanation
Indices: 2301647--2301690 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
2301637 TAGTAATTTT
2301647 TTTTACAAATTTT-TAATAAA
1 TTTTAC-AATTTTCT-ATAAA
2301667 TTTTACAATTTTCTATAAA
1 TTTTACAATTTTCTATAAA
2301686 TTTTA
1 TTTTA
2301691 ATAAATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTACAATTTTCTATAAA
Found at i:2301678 original size:19 final size:19
Alignment explanation
Indices: 2301598--2301690 Score: 66
Period size: 18 Copynumber: 4.8 Consensus size: 19
2301588 TTTTTAAATT
*
2301598 TTTTTAATAACTTTTAC-A
1 TTTTTAATAAATTTTACAA
* * *
2301616 TTTTAAAAAAAATTT-CAA
1 TTTTTAATAAATTTTACAA
***
2301634 TTTTAGTAATTTTTTTTACAAA
1 TTTT--TAATAAATTTTAC-AA
2301656 TTTTTAATAAATTTTACAA
1 TTTTTAATAAATTTTACAA
2301675 TTTTCT-ATAAATTTTA
1 TTTT-TAATAAATTTTA
2301691 ATAAATTTTC
Statistics
Matches: 56, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
17 1 0.02
18 16 0.29
19 16 0.29
20 16 0.29
21 1 0.02
22 6 0.11
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (19 bp):
TTTTTAATAAATTTTACAA
Found at i:2301874 original size:20 final size:20
Alignment explanation
Indices: 2301840--2301926 Score: 79
Period size: 20 Copynumber: 4.3 Consensus size: 20
2301830 TTGGTATTAC
* *
2301840 TTAGAAATCTGGATATCATG
1 TTAGAAATATTGATATCATG
2301860 TTAGAAATATTGATATCCAT-
1 TTAGAAATATTGATAT-CATG
* * *
2301880 TATA-AAATTTTGATATTATA
1 T-TAGAAATATTGATATCATG
* *
2301900 TTAGAAGTATTGATATCACG
1 TTAGAAATATTGATATCATG
2301920 TTAGAAA
1 TTAGAAA
2301927 CTTTGGTATT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
19 4 0.08
20 44 0.83
21 5 0.09
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.39
Consensus pattern (20 bp):
TTAGAAATATTGATATCATG
Found at i:2301946 original size:59 final size:57
Alignment explanation
Indices: 2301821--2301988 Score: 176
Period size: 59 Copynumber: 2.9 Consensus size: 57
2301811 TTTGTATCCA
* * * * * *
2301821 TTAAAAATTTTGGTATTACTTAGAAATCTGGATATCATGTTAGAAATATTGATATCCA-
1 TTAAAAATTTTGGTATTACTTAGAAGTATTGATATCACGTTAGAAAT-TTGGTAT-TAG
* *
2301879 TTATAAAATTTTGATATTATATTAGAAGTATTGATATCACGTTAGAAACTTTGGTATTAG
1 TTA-AAAATTTTGGTATTA-CTTAGAAGTATTGATATCACGTTAGAAA-TTTGGTATTAG
** *
2301939 TTAAAAATTTTGGTATCGCCTTAGAAGTATTGATATCACGTTAAAAATTT
1 TTAAAAATTTTGGTAT-TACTTAGAAGTATTGATATCACGTTAGAAATTT
2301989 TAGTATTACG
Statistics
Matches: 92, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
58 6 0.07
59 53 0.58
60 32 0.35
61 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (57 bp):
TTAAAAATTTTGGTATTACTTAGAAGTATTGATATCACGTTAGAAATTTGGTATTAG
Found at i:2303370 original size:6 final size:6
Alignment explanation
Indices: 2303359--2303385 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2303349 TTTAGTAAAT
2303359 TATTTA TATTTA TATTTA TATTTA TAT
1 TATTTA TATTTA TATTTA TATTTA TAT
2303386 AAAGTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATTTA
Found at i:2304563 original size:44 final size:44
Alignment explanation
Indices: 2304491--2304582 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
2304481 CTGAAGTAAC
*
2304491 AGTAACAGTACGACACACAATGTGCCTCATCAACTCGAA-GTCGA
1 AGTAACAGTACGACACACAATGTGCCTCATCAACT-GAAGGCCGA
** * *
2304535 AGTAACAGTACGACAC-TTATAGTTCCTCATCGACTGAAGGCCGA
1 AGTAACAGTACGACACACAAT-GTGCCTCATCAACTGAAGGCCGA
2304579 AGTA
1 AGTA
2304583 TTCCTGAACA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 5 0.12
44 36 0.88
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACGACACACAATGTGCCTCATCAACTGAAGGCCGA
Found at i:2304921 original size:6 final size:6
Alignment explanation
Indices: 2304910--2304940 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
2304900 GTTAACTACG
2304910 AAAATA AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA AAAATA A
2304941 TTTATATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:2306571 original size:46 final size:46
Alignment explanation
Indices: 2306518--2306691 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
2306508 TGTTTGGGCA
2306518 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
2306564 TCTGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG
* *
2306609 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
2306657 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
2306692 AGGCGGGTTA
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
44 1 0.01
45 2 0.02
46 61 0.56
47 26 0.24
48 2 0.02
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:2306673 original size:93 final size:93
Alignment explanation
Indices: 2306514--2306685 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
2306504 AGGATGTTTG
* *
2306514 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
2306579 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
2306607 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
2306672 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
2306686 ACTTATAGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:2308253 original size:9 final size:9
Alignment explanation
Indices: 2308241--2308284 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
2308231 CTTTTACCAT
*
2308241 TTTTTTTTC
1 TTTTATTTC
2308250 TTTTATTTC
1 TTTTATTTC
2308259 -TTTAGTTTC
1 TTTTA-TTTC
*
2308268 TTTTATTTA
1 TTTTATTTC
2308277 TTTTATTT
1 TTTTATTT
2308285 TATTTACTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 4 0.13
9 23 0.74
10 4 0.13
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.80
Consensus pattern (9 bp):
TTTTATTTC
Found at i:2308285 original size:14 final size:14
Alignment explanation
Indices: 2308250--2308297 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
2308240 TTTTTTTTTC
*
2308250 TTTTA-TTTCTTTA
1 TTTTATTTTATTTA
* *
2308263 GTTTCTTTTATTTA
1 TTTTATTTTATTTA
2308277 TTTTATTTTATTTA
1 TTTTATTTTATTTA
*
2308291 CTTTATT
1 TTTTATT
2308298 GTTTTAATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 3 0.11
14 25 0.89
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (14 bp):
TTTTATTTTATTTA
Found at i:2312043 original size:30 final size:30
Alignment explanation
Indices: 2312003--2312059 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
2311993 TTTTATAAAT
2312003 AATTAATA-TTTAT-TACTTGAAAATATTTAA
1 AATTAATATTTTATATA-TT-AAAATATTTAA
*
2312033 AATTTATATTTTATATATTAAAATATT
1 AATTAATATTTTATATATTAAAATATT
2312060 AACAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 15 0.62
31 7 0.29
32 2 0.08
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (30 bp):
AATTAATATTTTATATATTAAAATATTTAA
Found at i:2312247 original size:13 final size:13
Alignment explanation
Indices: 2312231--2312280 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
2312221 TTTAAATTAA
*
2312231 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
2312244 ACTTCTT-AAAAGC
1 ACTT-TTCAAAAGC
*
2312257 ACTTTTCTACAA-C
1 ACTTTTC-AAAAGC
2312270 ACTTTTCAAAA
1 ACTTTTCAAAA
2312281 ACATTGTCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
12 5 0.16
13 21 0.68
14 5 0.16
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:2314138 original size:2 final size:2
Alignment explanation
Indices: 2314131--2314155 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2314121 CCACCCTGTG
2314131 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2314156 GCACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2314385 original size:2 final size:2
Alignment explanation
Indices: 2314380--2314405 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2314370 AGAGAGCTGG
2314380 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2314406 AAACCCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2315730 original size:36 final size:38
Alignment explanation
Indices: 2315686--2315767 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 38
2315676 GGTGATTAAG
* *
2315686 ATGAATGTATTTAG-GAA-AGTCAT-TTAATTAAGATGT
1 ATGAATGTA-TTAGCAAATAGTCATGTTAATTAAGATGC
2315722 ATGAATGTATTAGACCAAATAGTCATGTTAATTAAGATGC
1 ATGAATGTATTAG--CAAATAGTCATGTTAATTAAGATGC
2315762 ATGAAT
1 ATGAAT
2315768 CTAAACATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
35 4 0.10
36 9 0.23
38 2 0.05
39 6 0.15
40 18 0.46
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.35
Consensus pattern (38 bp):
ATGAATGTATTAGCAAATAGTCATGTTAATTAAGATGC
Found at i:2319262 original size:2 final size:2
Alignment explanation
Indices: 2319250--2319280 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2319240 TATAATTTGG
*
2319250 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2319281 GAATGTGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2319463 original size:21 final size:22
Alignment explanation
Indices: 2319423--2319465 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
2319413 TTAAGGTTTG
2319423 ATATTGGTTTGAATTGAATGTGAT
1 ATATTGGTTTG-A-TGAATGTGAT
2319447 ATATTGGTTTG-TGAATGTG
1 ATATTGGTTTGATGAATGTG
2319466 TTAAAGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
24 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (22 bp):
ATATTGGTTTGATGAATGTGAT
Found at i:2321221 original size:42 final size:42
Alignment explanation
Indices: 2321146--2321226 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
2321136 GATTTATCCA
* * ** *
2321146 ATGATGCACTTACGTGCTAATATTTTTTTTTCGGTATATTGT
1 ATGATGCACTTACGTGCCAATATATTTGCTTCGGCATATTGT
*
2321188 ATGATGCACTTACGTGCCATTATATTTGCTTCGGCATAT
1 ATGATGCACTTACGTGCCAATATATTTGCTTCGGCATAT
2321227 GCTGGCATTG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.22, C:0.16, G:0.17, T:0.44
Consensus pattern (42 bp):
ATGATGCACTTACGTGCCAATATATTTGCTTCGGCATATTGT
Found at i:2329851 original size:46 final size:46
Alignment explanation
Indices: 2329786--2330009 Score: 250
Period size: 46 Copynumber: 5.0 Consensus size: 46
2329776 TTATCTTTGA
* * * * * *
2329786 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
***
2329832 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
2329878 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
2329924 CA-G--G---T--TGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
2329962 CAGGTTGCCATGGTAACTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
2330008 CA
1 CA
2330010 GGAGCACACT
Statistics
Matches: 154, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
38 34 0.22
39 1 0.01
40 1 0.01
41 1 0.01
43 1 0.01
44 1 0.01
45 5 0.03
46 110 0.71
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:2329988 original size:84 final size:84
Alignment explanation
Indices: 2329847--2330011 Score: 276
Period size: 84 Copynumber: 2.0 Consensus size: 84
2329837 TGCCATGGTA
*** *
2329847 TCTTTCAACCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTAACTTTCAACCATGGTCTTA
2329912 CACATTTCATATCAGGTTG
66 CACATTTCATATCAGGTTG
*
2329931 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTAACTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTAACTTTCAACCATGGTCTTA
*
2329996 CACATTTTATATCAGG
66 CACATTTCATATCAGG
2330012 AGCACACTCC
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 75 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.39
Consensus pattern (84 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCACGTTGCCATGGTAACTTTCAACCATGGTCTTA
CACATTTCATATCAGGTTG
Found at i:2332161 original size:11 final size:11
Alignment explanation
Indices: 2332145--2332196 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
2332135 TATACTAAAT
2332145 AAATAATAATA
1 AAATAATAATA
*
2332156 AAATAAT-ATT
1 AAATAATAATA
* *
2332166 AAATATCTCATA
1 AAATA-ATAATA
*
2332178 AAATATTAATA
1 AAATAATAATA
2332189 AAATAATA
1 AAATAATA
2332197 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:2333302 original size:28 final size:26
Alignment explanation
Indices: 2333271--2333322 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
2333261 TACAATTTAT
*
2333271 AAATATTATTAAATTTTAATAAAAATTC
1 AAATATTA--AAAATTTAATAAAAATTC
*
2333299 AAATATTAAAAATTTATTAAAAAT
1 AAATATTAAAAATTTAATAAAAAT
2333323 AGAAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.64
28 8 0.36
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (26 bp):
AAATATTAAAAATTTAATAAAAATTC
Found at i:2333356 original size:9 final size:9
Alignment explanation
Indices: 2333344--2333412 Score: 54
Period size: 9 Copynumber: 7.6 Consensus size: 9
2333334 AAATTGCAAA
2333344 AAAATATAT
1 AAAATATAT
*
2333353 AAAA-ATTGT
1 AAAATA-TAT
*
2333362 AAAATTTTAT
1 AAAA-TATAT
2333372 AAAATGATA-
1 AAAAT-ATAT
2333381 AAAAT-TAT
1 AAAATATAT
2333389 AAAATATAT
1 AAAATATAT
*
2333398 AGAAATATAA
1 A-AAATATAT
2333408 AAAAT
1 AAAAT
2333413 TATGAAATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
7 2 0.04
8 6 0.12
9 24 0.50
10 16 0.33
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (9 bp):
AAAATATAT
Found at i:2333356 original size:10 final size:9
Alignment explanation
Indices: 2333289--2333415 Score: 54
Period size: 8 Copynumber: 14.2 Consensus size: 9
2333279 TTAAATTTTA
2333289 ATAAAAATT
1 ATAAAAATT
* *
2333298 -CAAATATT
1 ATAAAAATT
*
2333306 A-AAAATTT
1 ATAAAAATT
2333314 ATTAAAAA-T
1 A-TAAAAATT
*
2333323 AGAAAAA--
1 ATAAAAATT
2333330 ATAAAAATT
1 ATAAAAATT
*
2333339 GCAAAAAAATAT
1 --ATAAAAAT-T
2333351 ATAAAAATT
1 ATAAAAATT
*
2333360 GT-AAAATT
1 ATAAAAATT
* *
2333368 TTATAAAATG
1 ATA-AAAATT
2333378 ATAAAAATT
1 ATAAAAATT
2333387 AT-AAAATAT
1 ATAAAAAT-T
*
2333396 ATAGAAA-T
1 ATAAAAATT
2333404 ATAAAAAATT
1 AT-AAAAATT
2333414 AT
1 AT
2333416 GAAATTTTAG
Statistics
Matches: 88, Mismatches: 16, Indels: 27
0.67 0.12 0.21
Matches are distributed among these distances:
7 6 0.07
8 32 0.36
9 18 0.20
10 24 0.27
11 7 0.08
12 1 0.01
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (9 bp):
ATAAAAATT
Found at i:2333381 original size:27 final size:27
Alignment explanation
Indices: 2333349--2333424 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 27
2333339 GCAAAAAAAT
*
2333349 ATATAAAAATTGTAAAATTTTATA-AA
1 ATATAAAAATTATAAAATTTTATAGAA
*
2333375 ATGATAAAAATTATAAAA-TATATAGAA
1 AT-ATAAAAATTATAAAATTTTATAGAA
*
2333402 ATATAAAAAATTATGAAATTTTA
1 ATAT-AAAAATTATAAAATTTTA
2333425 GAAAGCCGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
26 9 0.21
27 30 0.71
28 3 0.07
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (27 bp):
ATATAAAAATTATAAAATTTTATAGAA
Found at i:2335137 original size:5 final size:5
Alignment explanation
Indices: 2335127--2335156 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
2335117 TATTGGGGTT
2335127 GACAG GACAG GACAG GACAG GACAG GACAG
1 GACAG GACAG GACAG GACAG GACAG GACAG
2335157 AAATGAGCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.40, T:0.00
Consensus pattern (5 bp):
GACAG
Found at i:2341006 original size:5 final size:5
Alignment explanation
Indices: 2340996--2341020 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2340986 TATTGGGGTT
2340996 GACAG GACAG GACAG GACAG GACAG
1 GACAG GACAG GACAG GACAG GACAG
2341021 AAATGAGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.40, T:0.00
Consensus pattern (5 bp):
GACAG
Found at i:2342629 original size:44 final size:44
Alignment explanation
Indices: 2342566--2342657 Score: 184
Period size: 44 Copynumber: 2.1 Consensus size: 44
2342556 CTTGAGGTGT
2342566 TAGTTTCTCGTTCTTTTATCTTGTTGGGGCTATAAAACGGGGAA
1 TAGTTTCTCGTTCTTTTATCTTGTTGGGGCTATAAAACGGGGAA
2342610 TAGTTTCTCGTTCTTTTATCTTGTTGGGGCTATAAAACGGGGAA
1 TAGTTTCTCGTTCTTTTATCTTGTTGGGGCTATAAAACGGGGAA
2342654 TAGT
1 TAGT
2342658 CCGCTTCCAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.21, C:0.13, G:0.25, T:0.41
Consensus pattern (44 bp):
TAGTTTCTCGTTCTTTTATCTTGTTGGGGCTATAAAACGGGGAA
Found at i:2344257 original size:14 final size:11
Alignment explanation
Indices: 2344233--2344277 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
2344223 GTAAAATAGT
2344233 AACAAAACAAC
1 AACAAAACAAC
* *
2344244 AACATACCAAC
1 AACAAAACAAC
2344255 AACAAAACAAC
1 AACAAAACAAC
2344266 AAC-AAACAAC
1 AACAAAACAAC
2344276 AA
1 AA
2344278 TAGGAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
10 9 0.30
11 21 0.70
ACGTcount: A:0.69, C:0.29, G:0.00, T:0.02
Consensus pattern (11 bp):
AACAAAACAAC
Found at i:2344259 original size:22 final size:21
Alignment explanation
Indices: 2344233--2344277 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
2344223 GTAAAATAGT
*
2344233 AACAAAACAACAACATACCAAC
1 AACAAAACAACAACA-AACAAC
2344255 AACAAAACAACAACAAACAAC
1 AACAAAACAACAACAAACAAC
2344276 AA
1 AA
2344278 TAGGAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.69, C:0.29, G:0.00, T:0.02
Consensus pattern (21 bp):
AACAAAACAACAACAAACAAC
Found at i:2347250 original size:30 final size:31
Alignment explanation
Indices: 2347199--2347266 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
2347189 AATTTATATC
* * *
2347199 TTTATAATTTTTAAATGATTAAACTA-AATT
1 TTTATTATTTTTAAAGGATTAAAATATAATT
2347229 TTTATTATTTTT-AAGGAATTAAAATATAATT
1 TTTATTATTTTTAAAGG-ATTAAAATATAATT
2347260 TTATATT
1 TT-TATT
2347267 TACTAATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 3 0.09
30 19 0.59
31 6 0.19
32 4 0.12
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (31 bp):
TTTATTATTTTTAAAGGATTAAAATATAATT
Found at i:2349045 original size:9 final size:9
Alignment explanation
Indices: 2349031--2349080 Score: 66
Period size: 9 Copynumber: 5.6 Consensus size: 9
2349021 ACTAAATAAT
2349031 TTTTTTATA
1 TTTTTTATA
2349040 TTTTTTATA
1 TTTTTTATA
2349049 TTTTTTAATA
1 TTTTTT-ATA
*
2349059 ATTTTTAT-
1 TTTTTTATA
*
2349067 TTTTTGATA
1 TTTTTTATA
2349076 TTTTT
1 TTTTT
2349081 AAATTTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
8 6 0.17
9 22 0.61
10 8 0.22
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (9 bp):
TTTTTTATA
Found at i:2349057 original size:27 final size:26
Alignment explanation
Indices: 2349027--2349086 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
2349017 CATTACTAAA
*
2349027 TAATTTTTTTATATTTTTTATATTTTT
1 TAATTTTTTTAT-TTTTTGATATTTTT
*
2349054 TAATAATTTTTATTTTTTGATATTTTT
1 TAAT-TTTTTTATTTTTTGATATTTTT
*
2349081 AAATTT
1 TAATTT
2349087 AAAAAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 1 0.04
27 20 0.71
28 7 0.25
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.72
Consensus pattern (26 bp):
TAATTTTTTTATTTTTTGATATTTTT
Found at i:2349067 original size:17 final size:16
Alignment explanation
Indices: 2349031--2349081 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
2349021 ACTAAATAAT
*
2349031 TTTTTTATATTTTTTATA
1 TTTTTTA-ATATTTT-TA
2349049 TTTTTTAATAATTTTTA
1 TTTTTTAAT-ATTTTTA
*
2349066 TTTTTTGATATTTTTA
1 TTTTTTAATATTTTTA
2349082 AATTTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 7 0.23
17 12 0.40
18 11 0.37
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTTTTAATATTTTTA
Found at i:2349528 original size:9 final size:9
Alignment explanation
Indices: 2349510--2349563 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
2349500 AACTAATAAA
2349510 ATATTCTTTT
1 ATATT-TTTT
2349520 ATATTTTTT
1 ATATTTTTT
*
2349529 AATAATTTTT
1 -ATATTTTTT
2349539 AT-TTTTTT
1 ATATTTTTT
*
2349547 ACATTTTTT
1 ATATTTTTT
*
2349556 ACATTTTT
1 ATATTTTT
2349564 AAAATTTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
8 6 0.15
9 20 0.51
10 13 0.33
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (9 bp):
ATATTTTTT
Found at i:2351349 original size:56 final size:57
Alignment explanation
Indices: 2351282--2351444 Score: 149
Period size: 57 Copynumber: 2.8 Consensus size: 57
2351272 AAATTTGATA
* * * *
2351282 AATTATTTTTATATA-AATGCTT-AATTTTTTTTTTCAAATTAATC-CTTAAATTTAGT
1 AATT-TTTTTATATATAAGGATTAAATATTTTTTTTCAAATTAATCTC-TAAATTTAGC
*
2351338 AATTGTTTTTATA-ATGAGGATTAAATATTTTTTTTCAAATTAATCTCTAAATTTAGC
1 AATT-TTTTTATATATAAGGATTAAATATTTTTTTTCAAATTAATCTCTAAATTTAGC
*
2351395 AACTTTTTTTATAT-T-AGGACTTGAACATTTTTTTTTGTCTAAATTAATCT
1 AA-TTTTTTTATATATAAGGA-TT-AA-ATATTTTTTT-TC-AAATTAATCT
2351445 ATGATATTTC
Statistics
Matches: 90, Mismatches: 7, Indels: 15
0.80 0.06 0.13
Matches are distributed among these distances:
55 1 0.01
56 20 0.22
57 43 0.48
58 5 0.06
59 9 0.10
60 2 0.02
61 10 0.11
ACGTcount: A:0.33, C:0.08, G:0.07, T:0.53
Consensus pattern (57 bp):
AATTTTTTTATATATAAGGATTAAATATTTTTTTTCAAATTAATCTCTAAATTTAGC
Found at i:2351372 original size:57 final size:60
Alignment explanation
Indices: 2351308--2351443 Score: 167
Period size: 57 Copynumber: 2.3 Consensus size: 60
2351298 ATGCTTAATT
*
2351308 TTTTTTTTCAAATTAATCCT-TAAATTTAGTAA-TTGTTTTTATAATGAGGA-TT-AA-ATA
1 TTTTTTTTCAAATTAATCCTCTAAATTTAGCAACTT-TTTTTAT-ATGAGGACTTGAACATA
* *
2351365 TTTTTTTTCAAATTAAT-CTCTAAATTTAGCAACTTTTTTTATATTAGGACTTGAACATT
1 TTTTTTTTCAAATTAATCCTCTAAATTTAGCAACTTTTTTTATATGAGGACTTGAACATA
2351424 TTTTTTTGTCTAAATTAATC
1 TTTTTTT-TC-AAATTAATC
2351444 TATGATATTT
Statistics
Matches: 68, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
56 8 0.12
57 37 0.54
58 4 0.06
59 9 0.13
60 2 0.03
61 8 0.12
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (60 bp):
TTTTTTTTCAAATTAATCCTCTAAATTTAGCAACTTTTTTTATATGAGGACTTGAACATA
Found at i:2351976 original size:19 final size:18
Alignment explanation
Indices: 2351954--2351999 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
2351944 GAATGTGATT
2351954 TTTTAAAAATAATAAAATA
1 TTTTAAAAATAATAAAA-A
* *
2351973 TTTTTAAAATTATAAAAA
1 TTTTAAAAATAATAAAAA
*
2351991 TATTAAAAA
1 TTTTAAAAA
2352000 CTCCACAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TTTTAAAAATAATAAAAA
Found at i:2351978 original size:20 final size:20
Alignment explanation
Indices: 2351953--2351994 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2351943 TGAATGTGAT
2351953 TTTTTAAAAATAAT-AAAATA
1 TTTTT-AAAATAATAAAAATA
*
2351973 TTTTTAAAATTATAAAAATA
1 TTTTTAAAATAATAAAAATA
2351993 TT
1 TT
2351995 AAAAACTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTTAAAATAATAAAAATA
Found at i:2352194 original size:23 final size:23
Alignment explanation
Indices: 2352167--2352214 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
2352157 TGATCAAAAG
2352167 ATAGCAATACTTCACCTAACAAA
1 ATAGCAATACTTCACCTAACAAA
*
2352190 ATAGCAATACTTCGCCTAACAAA
1 ATAGCAATACTTCACCTAACAAA
2352213 AT
1 AT
2352215 GAAGTATGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.23
Consensus pattern (23 bp):
ATAGCAATACTTCACCTAACAAA
Found at i:2357083 original size:18 final size:16
Alignment explanation
Indices: 2357047--2357078 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2357037 ACTGCTTAAT
2357047 AGAACTCACACACCAA
1 AGAACTCACACACCAA
*
2357063 AGAACTCGCACACCAA
1 AGAACTCACACACCAA
2357079 CAAGAGGAGA
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:0.47, C:0.38, G:0.09, T:0.06
Consensus pattern (16 bp):
AGAACTCACACACCAA
Found at i:2357865 original size:29 final size:31
Alignment explanation
Indices: 2357832--2357903 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 31
2357822 AAAAAAACTA
*
2357832 AAAATATTAAAATT-TATAATT-T-ATTTTAT
1 AAAA-ATTAAAATTATATAATTATAATTATAT
2357861 -AAAATTATAAATTATATAATTATAATTATAT
1 AAAAATTA-AAATTATATAATTATAATTATAT
2357892 AAAAAATTAAAA
1 -AAAAATTAAAA
2357904 ACCATGTGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
27 4 0.11
28 8 0.22
29 7 0.19
30 1 0.03
31 6 0.17
32 3 0.08
33 7 0.19
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (31 bp):
AAAAATTAAAATTATATAATTATAATTATAT
Found at i:2360649 original size:18 final size:19
Alignment explanation
Indices: 2360626--2360664 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
2360616 TTCCTTCATG
2360626 TTGAATG-GGAAAATTCCT
1 TTGAATGTGGAAAATTCCT
2360644 TTGAATGTGGAAAATTCCT
1 TTGAATGTGGAAAATTCCT
2360663 TT
1 TT
2360665 CACTTTCTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (19 bp):
TTGAATGTGGAAAATTCCT
Found at i:2363163 original size:2 final size:2
Alignment explanation
Indices: 2363156--2363193 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2363146 TTATTATCTC
2363156 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2363194 TAATATTGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2367729 original size:2 final size:2
Alignment explanation
Indices: 2367722--2367755 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2367712 ATGTAAAATG
2367722 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2367756 TAATAATTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2373448 original size:46 final size:44
Alignment explanation
Indices: 2373341--2373448 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
2373331 TGTCTTTGAC
** * * * *
2373341 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAGT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
2373385 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
2373431 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
2373449 TTTCGTTCTG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 33 0.60
46 22 0.40
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:2375699 original size:43 final size:44
Alignment explanation
Indices: 2375612--2375696 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
2375602 ATAATTGTAA
** *
2375612 ATTAAATTATAATTATTTTTAAATGTGTAATTATCATAATTTCT
1 ATTAAATTATAATTATTTTTAAATGTACAATTATCAGAATTTCT
*
2375656 ATTAAATTATAATTA-TTTTAAATGTACAATTTTCACGAATT
1 ATTAAATTATAATTATTTTTAAATGTACAATTATCA-GAATT
2375697 CTACTTTGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 17 0.47
44 19 0.53
ACGTcount: A:0.40, C:0.06, G:0.05, T:0.49
Consensus pattern (44 bp):
ATTAAATTATAATTATTTTTAAATGTACAATTATCAGAATTTCT
Found at i:2381408 original size:26 final size:24
Alignment explanation
Indices: 2381367--2381434 Score: 84
Period size: 26 Copynumber: 2.8 Consensus size: 24
2381357 TGTATAAGAG
* *
2381367 TTTTAAAATGTTTAAAAATATTTATT
1 TTTTAAAAT-TTTAAAAATATGTA-A
2381393 TTTATAAAATTTTAAAAATATGTAA
1 TTT-TAAAATTTTAAAAATATGTAA
2381418 TTTT-AAATTTTAAAAAT
1 TTTTAAAATTTTAAAAAT
2381435 TCAAAATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
23 13 0.33
24 1 0.03
25 3 0.08
26 16 0.41
27 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (24 bp):
TTTTAAAATTTTAAAAATATGTAA
Found at i:2381673 original size:14 final size:14
Alignment explanation
Indices: 2381648--2381690 Score: 56
Period size: 13 Copynumber: 3.2 Consensus size: 14
2381638 TCTTAATTCT
2381648 TTTGTA-AATTTTA
1 TTTGTATAATTTTA
2381661 TTTGTATAATTTTA
1 TTTGTATAATTTTA
2381675 -TT-TATAATTTATA
1 TTTGTATAATTT-TA
2381688 TTT
1 TTT
2381691 TTTTTCTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 8 0.30
13 10 0.37
14 9 0.33
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (14 bp):
TTTGTATAATTTTA
Found at i:2381723 original size:20 final size:21
Alignment explanation
Indices: 2381682--2381733 Score: 72
Period size: 20 Copynumber: 2.5 Consensus size: 21
2381672 TTATTTATAA
*
2381682 TTTATATTTTTTTTCTAGA-T
1 TTTATATATTTTTTCTAGATT
2381702 TTTATATATTTTTTCT-GAATT
1 TTTATATATTTTTTCTAG-ATT
2381723 TTTATATATTT
1 TTTATATATTT
2381734 ATTTTTTTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 1 0.03
20 16 0.55
21 12 0.41
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (21 bp):
TTTATATATTTTTTCTAGATT
Found at i:2405866 original size:22 final size:22
Alignment explanation
Indices: 2405849--2405890 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2405839 TGTTATGACA
2405849 AAAAAAAAATTATATTATAATC
1 AAAAAAAAATTATATTATAATC
**
2405871 CTAAAAAAATTATATTATAA
1 AAAAAAAAATTATATTATAA
2405891 AAATAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAAAAAATTATATTATAATC
Found at i:2414108 original size:17 final size:17
Alignment explanation
Indices: 2414083--2414121 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2414073 AATTTTTAAA
*
2414083 TCAAATAAATAATGGAT
1 TCAATTAAATAATGGAT
* *
2414100 TCAATTAAATTATTGAT
1 TCAATTAAATAATGGAT
2414117 TCAAT
1 TCAAT
2414122 CCATTGTATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (17 bp):
TCAATTAAATAATGGAT
Found at i:2417930 original size:50 final size:50
Alignment explanation
Indices: 2417875--2417974 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
2417865 TTCACTTTCA
2417875 TTTTCACCAAAAGTAAAGGCTTTAGCTAAAATGTGAGAAGTATCATAGAG
1 TTTTCACCAAAAGTAAAGGCTTTAGCTAAAATGTGAGAAGTATCATAGAG
2417925 TTTTCACCAAAAGTAAAGGCTTTAGCTAAAATGTGAGAAGTATCATAGAG
1 TTTTCACCAAAAGTAAAGGCTTTAGCTAAAATGTGAGAAGTATCATAGAG
2417975 GCCCTATATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (50 bp):
TTTTCACCAAAAGTAAAGGCTTTAGCTAAAATGTGAGAAGTATCATAGAG
Found at i:2419719 original size:15 final size:16
Alignment explanation
Indices: 2419686--2419722 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
2419676 ACATTCATAT
2419686 AAATATATTTATATGA
1 AAATATATTTATATGA
2419702 AAATATATGTT-T-TGA
1 AAATATAT-TTATATGA
2419717 AAATAT
1 AAATAT
2419723 TAATTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 9 0.45
16 9 0.45
17 2 0.10
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (16 bp):
AAATATATTTATATGA
Found at i:2419776 original size:22 final size:22
Alignment explanation
Indices: 2419724--2419777 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
2419714 TGAAAATATT
*
2419724 AATTAAAATATAATAACTATTA
1 AATTAAAATATAATAACTATAA
* * *
2419746 ATTTTAAATATAATTA-TATAAA
1 AATTAAAATATAATAACTAT-AA
2419768 AATTAAAATA
1 AATTAAAATA
2419778 GTTAACCACA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAAAATATAATAACTATAA
Found at i:2420048 original size:25 final size:26
Alignment explanation
Indices: 2420020--2420073 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
2420010 GGCAAACAAT
*
2420020 TTTTTATATTTAATATCTTTAAA-TA
1 TTTTTAAATTTAATATCTTTAAACTA
*
2420045 TTTTTAAATTTAATTTCTTTAAACTA
1 TTTTTAAATTTAATATCTTTAAACTA
2420071 TTT
1 TTT
2420074 AAATCAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (26 bp):
TTTTTAAATTTAATATCTTTAAACTA
Found at i:2423678 original size:14 final size:15
Alignment explanation
Indices: 2423658--2423696 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
2423648 TAAATTTTAA
2423658 ATTTTTTTATAATTT
1 ATTTTTTTATAATTT
*
2423673 -TTTTTTTGTAATTT
1 ATTTTTTTATAATTT
2423687 ATTTTATTTA
1 ATTTT-TTTA
2423697 AACCAATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 13 0.65
15 4 0.20
16 3 0.15
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
ATTTTTTTATAATTT
Found at i:2432659 original size:23 final size:23
Alignment explanation
Indices: 2432633--2432677 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
2432623 TAAGAGAATG
*
2432633 AAAAAT-AAAGAAAAAAGTTAAA
1 AAAAATAAAAGAAAAAAATTAAA
2432655 AAAAATAAAAGAAAAAAATTAAA
1 AAAAATAAAAGAAAAAAATTAAA
2432678 TTGTTCAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (23 bp):
AAAAATAAAAGAAAAAAATTAAA
Found at i:2432857 original size:14 final size:14
Alignment explanation
Indices: 2432835--2432877 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
2432825 AGGTAAGTAA
2432835 TTAAAATATAATAT
1 TTAAAATATAATAT
* *
2432849 TTTAAATATAAATAA
1 TTAAAATAT-AATAT
2432864 TTAAAATATAATAT
1 TTAAAATATAATAT
2432878 GAGTTAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTAAAATATAATAT
Found at i:2432862 original size:15 final size:15
Alignment explanation
Indices: 2432832--2432874 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
2432822 TTAAGGTAAG
2432832 TAATTAAAATAT-AA
1 TAATTAAAATATAAA
* *
2432846 TATTTTAAATATAAA
1 TAATTAAAATATAAA
2432861 TAATTAAAATATAA
1 TAATTAAAATATAA
2432875 TATGAGTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAATTAAAATATAAA
Found at i:2439308 original size:22 final size:22
Alignment explanation
Indices: 2439262--2439309 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2439252 TTTATGAATG
* *
2439262 TTTTTATATATTTTAATTTTAT
1 TTTTTATAAATTTTAATATTAT
*
2439284 TTTTTATAAATTTTAA-ATTAG
1 TTTTTATAAATTTTAATATTAT
2439305 TTTTT
1 TTTTT
2439310 GACTTGACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTTATAAATTTTAATATTAT
Found at i:2442052 original size:21 final size:21
Alignment explanation
Indices: 2442026--2442067 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2442016 AGGCAAAATA
2442026 CAATTTGACTTCTTGTACAGG
1 CAATTTGACTTCTTGTACAGG
2442047 CAATTTGACTTCTTGTACAGG
1 CAATTTGACTTCTTGTACAGG
2442068 ACCTACATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (21 bp):
CAATTTGACTTCTTGTACAGG
Found at i:2442456 original size:26 final size:26
Alignment explanation
Indices: 2442433--2442486 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
2442423 GACAAGTACT
*
2442433 AATTTGCTATTTTTTAATAGAGTAGC
1 AATTTACTATTTTTTAATAGAGTAGC
2442459 AATTTACTATTTTTTAATAGAGTAGC
1 AATTTACTATTTTTTAATAGAGTAGC
2442485 AA
1 AA
2442487 AATGCAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.44
Consensus pattern (26 bp):
AATTTACTATTTTTTAATAGAGTAGC
Found at i:2443830 original size:24 final size:24
Alignment explanation
Indices: 2443802--2443852 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
2443792 TTTTCTCATT
* *
2443802 CATCATCCATTATTTTTAAAATAA
1 CATCATCCATTATTTTAAAAAGAA
2443826 CATCATCCATTATTTTAAAAAGAA
1 CATCATCCATTATTTTAAAAAGAA
2443850 CAT
1 CAT
2443853 AATGTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.37
Consensus pattern (24 bp):
CATCATCCATTATTTTAAAAAGAA
Found at i:2444297 original size:14 final size:15
Alignment explanation
Indices: 2444272--2444300 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2444262 GTAATTATAT
2444272 TTTTTCCGAATTTTC
1 TTTTTCCGAATTTTC
2444287 TTTTTCC-AATTTTC
1 TTTTTCCGAATTTTC
2444301 AAATTCTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.14, C:0.21, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTTTCCGAATTTTC
Found at i:2445357 original size:42 final size:42
Alignment explanation
Indices: 2445297--2445419 Score: 151
Period size: 42 Copynumber: 2.9 Consensus size: 42
2445287 CGCTTTACTT
*
2445297 AGTTTAA-TTTTTGAATTCGAAGTAAGGTTAATAGTATGTTTC
1 AGTTTAATTTTTTG-ATTCGAAGTAAGATTAATAGTATGTTTC
* **
2445339 AGTTTACTTTTTTGATTCGAAGTAAGATTCTTAGTATGTTTC
1 AGTTTAATTTTTTGATTCGAAGTAAGATTAATAGTATGTTTC
** *
2445381 AGTTTAATTTTCGGATT-GCAAGTAAGATTAATAATATGT
1 AGTTTAATTTTTTGATTCG-AAGTAAGATTAATAGTATGT
2445420 GTGATTAAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
41 1 0.01
42 62 0.90
43 6 0.09
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.46
Consensus pattern (42 bp):
AGTTTAATTTTTTGATTCGAAGTAAGATTAATAGTATGTTTC
Found at i:2445626 original size:42 final size:42
Alignment explanation
Indices: 2445567--2445649 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
2445557 CTTAGTTCTA
*
2445567 TTTTTGGATTCGAAGTAAGATTAATAGTATGTTTCAGTTTAC
1 TTTTTGGATTCGAAGTAAGATTAAGAGTATGTTTCAGTTTAC
* *
2445609 TTTTTGGATTCGAAGTAAGATTTAGAGTATGTTTCGGTTTA
1 TTTTTGGATTCGAAGTAAGATTAAGAGTATGTTTCAGTTTA
2445650 TATTTGATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.27, C:0.06, G:0.22, T:0.46
Consensus pattern (42 bp):
TTTTTGGATTCGAAGTAAGATTAAGAGTATGTTTCAGTTTAC
Found at i:2445774 original size:96 final size:95
Alignment explanation
Indices: 2445602--2445871 Score: 269
Period size: 96 Copynumber: 2.8 Consensus size: 95
2445592 AGTATGTTTC
* * * *
2445602 AGTTTACTTTTTGGATTCGAAGTAAGATTTA-GAGTATGTTTCGGTTTATATTTGATCAAATT-C
1 AGTTTAATTTTTGGATTTGAAGTAAGATTCATGA-TATG-TTC--TTT-TATTTGATTAAATTAC
** * *
2445665 CTCATAG--TTCATTTCTGTATGTATTCGTTATTT
61 CTCATAGCTTTCATTTCTACATGTACTCGTTACTT
* * *
2445698 AGTTTAATTTTTGGATTTGAAGTAAGATTCATGATATGTTCTTTTATTTGATTAAGTTATCTCGT
1 AGTTTAATTTTTGGATTTGAAGTAAGATTCATGATATGTTCTTTTATTTGATTAAATTACCTCAT
* * *
2445763 AGCTTTACATTTCTACATTTCCTCTTTACTT
66 AGCTTT-CATTTCTACATGTACTCGTTACTT
* * * * *
2445794 AATTTAATTTTTTGATTTGATGTAAGATTCATGATATTTTCTTTTGTTTGATTAAATTACCTCAT
1 AGTTTAATTTTTGGATTTGAAGTAAGATTCATGATATGTTCTTTTATTTGATTAAATTACCTCAT
*
2445859 AGCTCTTCGTTTC
66 AGCT-TTCATTTC
2445872 CATATTTCCT
Statistics
Matches: 145, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
92 12 0.08
93 9 0.06
95 5 0.03
96 115 0.79
97 4 0.03
ACGTcount: A:0.24, C:0.11, G:0.14, T:0.51
Consensus pattern (95 bp):
AGTTTAATTTTTGGATTTGAAGTAAGATTCATGATATGTTCTTTTATTTGATTAAATTACCTCAT
AGCTTTCATTTCTACATGTACTCGTTACTT
Found at i:2445879 original size:96 final size:96
Alignment explanation
Indices: 2445700--2445889 Score: 274
Period size: 96 Copynumber: 2.0 Consensus size: 96
2445690 CGTTATTTAG
* * *
2445700 TTTAATTTTTGGATTTGAAGTAAGATTCATGATATGTTCTTTTATTTGATTAAGTTATCTCGTAG
1 TTTAATTTTTGGATTTGAAGTAAGATTCATGATATGTTCTTTTATTTGATTAAATTACCTCATAG
*
2445765 CTTTACATTTCTACATTTCCTCTTTACTTAA
66 CTTTACATTTCCACATTTCCTCTTTACTTAA
* * * *
2445796 TTTAATTTTTTGATTTGATGTAAGATTCATGATATTTTCTTTTGTTTGATTAAATTACCTCATAG
1 TTTAATTTTTGGATTTGAAGTAAGATTCATGATATGTTCTTTTATTTGATTAAATTACCTCATAG
* *
2445861 CTCTT-CGTTTCCATATTTCCTCTTTACTT
66 CT-TTACATTTCCACATTTCCTCTTTACTT
2445890 TGGTGTTCTT
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
96 81 0.98
97 2 0.02
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.53
Consensus pattern (96 bp):
TTTAATTTTTGGATTTGAAGTAAGATTCATGATATGTTCTTTTATTTGATTAAATTACCTCATAG
CTTTACATTTCCACATTTCCTCTTTACTTAA
Found at i:2452104 original size:16 final size:16
Alignment explanation
Indices: 2452065--2452115 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
2452055 ATTCTTTTAG
2452065 TAATATTTAATT-TTAAT
1 TAAT-TTTAATTATT-AT
2452082 TATATTTTAATTATTAT
1 TA-ATTTTAATTATTAT
2452099 TAATTTCT-ATTATTAT
1 TAATTT-TAATTATTAT
2452115 T
1 T
2452116 TTAGGAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 13 0.42
17 14 0.45
18 4 0.13
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
TAATTTTAATTATTAT
Done.