Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 43 of 295
Found at i:12342863 original size:30 final size:30
Alignment explanation
Indices: 12342829--12342913 Score: 161
Period size: 30 Copynumber: 2.8 Consensus size: 30
12342819 ATTTGATGGT
*
12342829 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
12342859 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
12342889 GTAGGTGCAAGTGGGAGGCAAGGTG
1 GTAGGTGCAAGTGGGAGGCAAGGTG
12342914 ACTAGGGTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.25, C:0.07, G:0.52, T:0.16
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
Found at i:12342912 original size:18 final size:18
Alignment explanation
Indices: 12342861--12342913 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
12342851 GTGGTGGAGT
12342861 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
*
12342879 AGGTG---GT-GGA-G-T
1 AGGTGCAAGTGGGAGGCA
12342891 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
12342909 AGGTG
1 AGGTG
12342914 ACTAGGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 5 0.19
13 1 0.04
14 3 0.11
15 4 0.15
16 3 0.11
17 1 0.04
18 10 0.37
ACGTcount: A:0.25, C:0.08, G:0.53, T:0.15
Consensus pattern (18 bp):
AGGTGCAAGTGGGAGGCA
Found at i:12343780 original size:87 final size:87
Alignment explanation
Indices: 12343663--12344362 Score: 1012
Period size: 87 Copynumber: 8.1 Consensus size: 87
12343653 CTGTTTAGGG
* * * * *
12343663 TCTGTAAATTTAACCTGTTACTCTACTGCTTAGGGGTTTAAGGGTTATCGTCTTTGATCTGTTTC
1 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATCTGTTTC
12343728 CCTACTGCTTAGGGGGTTAAGA
66 CCTACTGCTTAGGGGGTTAAGA
* * *
12343750 TCTGTAAATTTAGCATGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTC
1 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATCTGTTTC
*
12343815 CCTACTGCATAGGGGGTTAAGA
66 CCTACTGCTTAGGGGGTTAAGA
* * *
12343837 TCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG-TCCATCGCCTTCGATCTGTTT
1 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCT-CATCGCCTTCGATCTGTTT
12343901 CCCTACTGCTTAGGGGGTTAAGA
65 CCCTACTGCTTAGGGGGTTAAGA
* * * **
12343924 TCTGTAAATTCAACCTGTTACCCTATTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTC
1 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATCTGTTTC
12343989 CCTACTGCTTAGGGGGTTAAGA
66 CCTACTGCTTAGGGGGTTAAGA
* * *
12344011 TCTGTAAATTCAACCTATTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTC
1 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATCTGTTTC
12344076 CCTACTGCTTAGGGGGTTAAGA
66 CCTACTGCTTAGGGGGTTAAGA
* * * * * * *
12344098 TCTGTAAATTTAGCTTGTTATCCTACTACTTAAGGAG-TTAAGGCTCATCGCTTTCGATTTGTTT
1 TCTGTAAATTTAACCTGTTACCCTACTGCTT-AGGGGTTTAAGGCTCATCGCCTTCGATCTGTTT
12344162 CCCTACTGCTTAGGGGGTTAAGA
65 CCCTACTGCTTAGGGGGTTAAGA
* * *
12344185 TCTGTAAATTTAACCTATTACCCTACTGCTTAAGGGTTTAAGGTTCATCGCCTTCGATCTGTTTC
1 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATCTGTTTC
*
12344250 CCTACTGCTTAAGGGGTTAAGA
66 CCTACTGCTTAGGGGGTTAAGA
* * * * *
12344272 TCTGTAAATTTAACCTGTTACCCTACTACTTAGGGAG-TTAAGGCCCGTCGCTTTTGATCTGTTT
1 TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGG-GTTTAAGGCTCATCGCCTTCGATCTGTTT
*
12344336 CCCTACTGCTTAGGGGGTCAA-A
65 CCCTACTGCTTAGGGGGTTAAGA
12344358 TCTGT
1 TCTGT
12344363 TATTTTCAAC
Statistics
Matches: 551, Mismatches: 57, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
86 9 0.02
87 537 0.97
88 5 0.01
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (87 bp):
TCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATCGCCTTCGATCTGTTTC
CCTACTGCTTAGGGGGTTAAGA
Found at i:12343828 original size:44 final size:44
Alignment explanation
Indices: 12343677--12344353 Score: 372
Period size: 44 Copynumber: 15.5 Consensus size: 44
12343667 TAAATTTAAC
* * * ** *
12343677 CTGTTACTCTACTGCTTAGGGGTTTAAGGGT-TATCGTCTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAA-GGTCCATCAACTTCGAT
* * ** * * *
12343721 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATT-TAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGAT
* * **
12343763 CATGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGAT
1 C-TGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGAT
* * * ** * *
12343808 CTGTTTCCCTACTGCATAGGGGGTTAAGATCTGT-AAATTC-AGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGA-T
**
12343851 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGAT
* * ** * * *
12343895 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGAT
* * * *
12343938 CTGTTACCCTATTGCTTAGGGGTTTAAGGCCCATCATCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGAT
* * ** * * *
12343982 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTCAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGAT
* * * **
12344025 CTATTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGAT
* * ** * * * *
12344069 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGAT
* * * * *
12344113 -TGTTATCCTACTACTTAAGGAGTTAAGG-CTCATC-GCTTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTC-CATCAAC-TTCGAT
* * * ** * ** *
12344156 TTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGT-AAATTTAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGAT
* * * * **
12344199 CTATTACCCTACTGCTTAAGGGTTTAAGGTTCATCGCCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGAT
* * * ** * ** *
12344243 CTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGT-AAATTTAAC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGAT
* * * * * *
12344286 CTGTTACCCTACTACTTAGGGAGTTAAGGCCCGTC-GCTTTTGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCAAC-TTCGAT
*
12344330 CTGTTTCCCTACTGCTTAGGGGGT
1 CTGTTACCCTACTGCTTAGGGGGT
12344354 CAAATCTGTT
Statistics
Matches: 451, Mismatches: 165, Indels: 34
0.69 0.25 0.05
Matches are distributed among these distances:
42 4 0.01
43 211 0.47
44 232 0.51
45 4 0.01
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (44 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCAACTTCGAT
Found at i:12343909 original size:174 final size:174
Alignment explanation
Indices: 12343426--12344362 Score: 1236
Period size: 174 Copynumber: 5.4 Consensus size: 174
12343416 TTCAGCTTGG
* ** *
12343426 TACCCTACTGCTTAGGGATTTAAGGCCCATCGTATTCGATCTGTTTCCCTACTGCTTAGGGTGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* * ** * ** *
12343491 AAGATCTGTTAATTTAGCCTGTTACCCTACTATTTAAGGG-TTAAGG-CTTGTCACCTTCGATCT
66 AAGATCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTC-CATCGCCTTCGATCT
*
12343554 GTTTCCCTACTGCTTAGGGGGTTTAAGATCTGTAAATCTTCAGCTTGT
130 GTTTCCCTACTGCTTAGGGGG-TTAAGATCTGTAAAT-TT-AGCCTGT
*** * * *
12343602 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTATTTCCCTACTGTTTA---GG--
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* * * *
12343662 --G-TCTGTAAATTTAACCTGTTACTCTACTGCTTAGGGGTTTAAGGGT-TATCGTCTTTGATCT
66 AAGATCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAA-GGTCCATCGCCTTCGATCT
*
12343723 GTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCATGT
130 GTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGT
*
12343768 TACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCATAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* * *
12343833 AAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGTCCATCGCCTTCGATCTG
66 AAGATCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTG
* *
12343898 TTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCTGT
131 TTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGT
* **
12343942 TACCCTATTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* * *
12344007 AAGATCTGTAAATTCAACCTATTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTG
66 AAGATCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTG
*
12344072 TTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCTTGT
131 TTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGT
* * * * * *
12344116 TATCCTACTACTTAAGGAG-TTAAGGCTCATCGCTTTCGATTTGTTTCCCTACTGCTTAGGGGGT
1 TACCCTACTGCTT-AGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* * *
12344180 TAAGATCTGTAAATTTAACCTATTACCCTACTGCTTAAGGGTTTAAGGTTCATCGCCTTCGATCT
65 TAAGATCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCT
* *
12344245 GTTTCCCTACTGCTTAAGGGGTTAAGATCTGTAAATTTAACCTGT
130 GTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGT
* * * *
12344290 TACCCTACTACTTAGGGAG-TTAAGGCCCGTCGCTTTTGATCTGTTTCCCTACTGCTTAGGGGGT
1 TACCCTACTGCTTAGGG-GTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
*
12344354 CAA-ATCTGT
65 TAAGATCTGT
12344363 TATTTTCAAC
Statistics
Matches: 677, Mismatches: 70, Indels: 31
0.87 0.09 0.04
Matches are distributed among these distances:
166 57 0.08
167 2 0.00
168 45 0.07
169 39 0.06
170 2 0.00
173 14 0.02
174 465 0.69
175 4 0.01
176 49 0.07
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (174 bp):
TACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
AAGATCTGTAAATTTAACCTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTG
TTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCCTGT
Found at i:12343996 original size:261 final size:260
Alignment explanation
Indices: 12343426--12344362 Score: 1273
Period size: 261 Copynumber: 3.6 Consensus size: 260
12343416 TTCAGCTTGG
* * *
12343426 TACCCTACTGCTTAGGGATTTAAGGCCCATCGTATTCGATCTGTTTCCCTACTGCTTAGGGTGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* * * * *** *
12343491 AAGATCTGTTAATTTAGCCTGTTACCCTACTATTTAAGGGTTAAGGCTTGTCACCTTCGATCTGT
66 AAGATCTGTAAATTTAACCTGTTACCCTACTACTTAGGGGTTAAGGCCCATCGCCTTCGATCTGT
*
12343556 TTCCCTACTGCTTAGGGGGTTTAAGATCTGTAAATCTTCAGCTTGTTACCCTACTGCTTAGGGGT
131 TTCCCTACTGCTTAGGGGG-TTAAGATCTGTAAA--TTCAGCTTGTTACCCTACTGCTTAGGGGG
** * * *
12343621 TTAAGGCTTGTCACCTTCGATCTATTTCCCTACTGTTTA---GG----G-TCTGTAAATTTAACC
193 TTAAGGCTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAACC
12343678 TGT
258 TGT
* *** *
12343681 TACTCTACTGCTTAGGGGTTTAAGGGTTATCGTCTTTGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* * *
12343746 AAGATCTGTAAATTTAGCATGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGATCTG
66 AAGATCTGTAAATTTAACCTGTTACCCTACTACTTAGGGG-TTAAGGCCCATCGCCTTCGATCTG
* *
12343811 TTTCCCTACTGCATAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGGTT
130 TTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTT
*
12343876 AAGG-TCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAACCT
195 AAGGCT-CATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAACCT
12343940 GT
259 GT
* *
12343942 TACCCTATTGCTTAGGGGTTTAAGGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* * * **
12344007 AAGATCTGTAAATTCAACCTATTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTG
66 AAGATCTGTAAATTTAACCTGTTACCCTACTACTTAGGGG-TTAAGGCCCATCGCCTTCGATCTG
* * * * *
12344072 TTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGCTTGTTATCCTACTACTTAAGGAGTT
130 TTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTT
* * *
12344137 AAGGCTCATCGCTTTCGATTTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAACCTA
195 AAGGCTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAACCTG
12344202 T
260 T
* ** * *
12344203 TACCCTACTGCTTAAGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAAGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* * *
12344268 AAGATCTGTAAATTTAACCTGTTACCCTACTACTTAGGGAGTTAAGGCCCGTCGCTTTTGATCTG
66 AAGATCTGTAAATTTAACCTGTTACCCTACTACTTAGGG-GTTAAGGCCCATCGCCTTCGATCTG
*
12344333 TTTCCCTACTGCTTAGGGGGTCAA-ATCTGT
130 TTTCCCTACTGCTTAGGGGGTTAAGATCTGT
12344363 TATTTTCAAC
Statistics
Matches: 604, Mismatches: 66, Indels: 19
0.88 0.10 0.03
Matches are distributed among these distances:
252 1 0.00
253 59 0.10
255 106 0.18
256 41 0.07
260 7 0.01
261 388 0.64
262 2 0.00
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (260 bp):
TACCCTACTGCTTAGGGGTTTAAGGCCCATCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
AAGATCTGTAAATTTAACCTGTTACCCTACTACTTAGGGGTTAAGGCCCATCGCCTTCGATCTGT
TTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCTTGTTACCCTACTGCTTAGGGGGTTA
AGGCTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAACCTGT
Found at i:12344475 original size:44 final size:44
Alignment explanation
Indices: 12344352--12346080 Score: 897
Period size: 44 Copynumber: 39.6 Consensus size: 44
12344342 TGCTTAGGGG
* * *
12344352 GTCAAATCTGTTATTTTC-AACTTGTTCCCTATAAGCACATGGAT
1 GTCAAATCTGTTATCTTCGATC-TGTTCCCTATAAGCACAGGGAT
* ** * * *
12344396 G-C-CATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAAT
1 GTCAAAT-CTGTTATCTTCGATCTG-TTCCCTATAAGCACAGGGAT
*
12344440 GTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
1 GTCAAATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
* * * *
12344484 GCCAAATCTGTTATTTTC-AACTTGATCCCTATAAGCACAGGGAT
1 GTCAAATCTGTTATCTTCGATC-TGTTCCCTATAAGCACAGGGAT
* ** * * * *
12344528 G-C-CATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAAT
1 GTCAAAT-CTGTTATCTTCGATCTG-TTCCCTATAAGCACAGGGAT
*
12344572 GTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
1 GTCAAATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
* * * *
12344616 GCCAAATCTGCTATTTTC-AACTTGTTCCCTATAAGCACAGGGAT
1 GTCAAATCTGTTATCTTCGATC-TGTTCCCTATAAGCACAGGGAT
* ** * *
12344660 GTCATA-CTGAAATCTTCGATCTGTTTCACTATAAGCACAGGAAT
1 GTCAAATCTGTTATCTTCGATCTG-TTCCCTATAAGCACAGGGAT
* * * *
12344704 GTTATATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
1 GTCAAATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
* * * *
12344748 GCCAAATCTGTTATTTTC-AACTTGTCCCCTATAAGCACAGGGAT
1 GTCAAATCTGTTATCTTCGATC-TGTTCCCTATAAGCACAGGGAT
* ** * * *
12344792 G-C-CATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAAT
1 GTCAAAT-CTGTTATCTTCGATCTG-TTCCCTATAAGCACAGGGAT
* *
12344836 GTCAGATCTGTTATCTTCAATCTGTTCCCTATAAGCACAGGGAT
1 GTCAAATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
* * *
12344880 GCCAAATCTGTTATTTTC-AACTTGTTCCCTATAAGCACAGGGAT
1 GTCAAATCTGTTATCTTCGATC-TGTTCCCTATAAGCACAGGGAT
* ** * * * * * *
12344924 G-C-CATGCTGAAATCTTTGATCTACTTCACTGTAAGCATAGGAAT
1 GTCAAAT-CTGTTATCTTCGATCT-GTTCCCTATAAGCACAGGGAT
* * * ** * * * *
12344968 GTCAGATCTG-T-TC-CCCATAAG--CAC-AGGGATGC-CA--AAT
1 GTCAAATCTGTTATCTTCGATCTGTTCCCTA--TAAGCACAGGGAT
* * * * * * *** * * * * **
12345005 CTGC-TAT-TTTTAACTT-GTTCCCTATAAGC-ACAGGGA-TGCCAT
1 GT-CAAATCTGTTATCTTCGAT--CTGTTCCCTATAAGCACAGGGAT
* * * *
12345047 GCTGAAAT-T-TTCGATC-T-G---T-TTCACTGTAAGCACAGGAAT
1 G-TCAAATCTGTT--ATCTTCGATCTGTTCCCTATAAGCACAGGGAT
* * * * *
12345086 GTTAGATCTGCTATCGTCGATCTGTTCCCTATAAACACAGGGAT
1 GTCAAATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
* * * *
12345130 GCCAAATCTGTTATTTTC-AACTTGTTCCCTATAAGTACAGGGAT
1 GTCAAATCTGTTATCTTCGATC-TGTTCCCTATAAGCACAGGGAT
* ** * * * *
12345174 G-C-CATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACATGAAT
1 GTCAAAT-CTGTTATCTTCGATCTG-TTCCCTATAAGCACAGGGAT
* *
12345218 GTTAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
1 GTCAAATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
* * * *
12345262 GCCAAATCTGTTATTTTC-AACTTGTTCCCTATAAGCACAAGGAT
1 GTCAAATCTGTTATCTTCGATC-TGTTCCCTATAAGCACAGGGAT
* * ** * ** * * *
12345306 GCCATA-CTGAAATCTTTGATCTGATTTACTGTAAGCACATGAAT
1 GTCAAATCTGTTATCTTCGATCTG-TTCCCTATAAGCACAGGGAT
*
12345350 GTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
1 GTCAAATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
* ** * * *
12345394 GCCAAATCTGCCATTTTC-AACTTGTTCCCTATAAGCATAGGGAT
1 GTCAAATCTGTTATCTTCGATC-TGTTCCCTATAAGCACAGGGAT
* ** ** * * *
12345438 GCCATGT-TGAAATCTTCGATCTGTTTCACTGTAAGCACAGGAAT
1 GTCAAATCTGTTATCTTCGATCTG-TTCCCTATAAGCACAGGGAT
* *
12345482 GTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGAT
1 GTCAAATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
* * * *
12345526 GCCAAATCTGTTATTTTC-AACTTATTCCCTATAAGCACAGGGAT
1 GTCAAATCTGTTATCTTCGATC-TGTTCCCTATAAGCACAGGGAT
* ** * * * *
12345570 G-C-CATGCTGAAATCTTCGATCTGCTTCACTGTAAGTACAGGAAT
1 GTCAAAT-CTGTTATCTTCGATCTG-TTCCCTATAAGCACAGGGAT
* *
12345614 GTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGTACAGGGAT
1 GTCAAATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
* * ** * *
12345658 GCCAAATCTGCTAT-TTTTAACTTGTTCCCTATAAGCCCAGGGAT
1 GTCAAATCTGTTATCTTCGATC-TGTTCCCTATAAGCACAGGGAT
* * ** * * *
12345702 -AC-CATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAAT
1 GTCAAAT-CTGTTATCTTCGATCTG-TTCCCTATAAGCACAGGGAT
*
12345746 GTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
1 GTCAAATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
* * * *
12345790 GCCAAATCTGCTATTTTC-AACTTGTTCCCTATAAGCACAGGGAT
1 GTCAAATCTGTTATCTTCGATC-TGTTCCCTATAAGCACAGGGAT
* ** * * *
12345834 G-C-CATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAAT
1 GTCAAAT-CTGTTATCTTCGATCTG-TTCCCTATAAGCACAGGGAT
** * *
12345878 GTCGGATCTGTTATCTTCGATCTATTCCCTATAAGCACAAGGAT
1 GTCAAATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
* * * * *
12345922 GCCAAATCTGCTATTTTC-AACTTGTTCCCTATAAGCATAGGGAT
1 GTCAAATCTGTTATCTTCGATC-TGTTCCCTATAAGCACAGGGAT
* ** ** * *
12345966 G-C-CATGCTGAAATCTTCGATCTGCTTTACTGTAAGCAC-GAGAAT
1 GTCAAAT-CTGTTATCTTCGATCTG-TTCCCTATAAGCACAG-GGAT
* * * * * * *
12346010 GTCAGATCTGCTATCTTTGATCTTTTCACTATAAACATAGGGAT
1 GTCAAATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
* **
12346054 GCCAAATCTGCAATCTTCGATCTGTTC
1 GTCAAATCTGTTATCTTCGATCTGTTC
12346081 TCCGCCGCTA
Statistics
Matches: 1263, Mismatches: 328, Indels: 188
0.71 0.18 0.11
Matches are distributed among these distances:
36 1 0.00
37 9 0.01
38 14 0.01
39 10 0.01
40 7 0.01
42 26 0.02
43 154 0.12
44 854 0.68
45 170 0.13
46 18 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (44 bp):
GTCAAATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
Found at i:12344591 original size:132 final size:132
Alignment explanation
Indices: 12344354--12346063 Score: 2766
Period size: 132 Copynumber: 13.1 Consensus size: 132
12344344 CTTAGGGGGT
*
12344354 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACATGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
12344419 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
12344484 GC
131 GC
* *
12344486 CAAATCTGTTATTTTCAACTTGATCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTG
1 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
12344551 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
12344616 GC
131 GC
* * *
12344618 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGTCATACTGAAATCTTCGATCTG
1 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * * * *
12344683 TTTCACTATAAGCACAGGAATGTTATATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
12344748 GC
131 GC
*
12344750 CAAATCTGTTATTTTCAACTTGTCCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
*
12344815 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCAATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
12344880 GC
131 GC
* *
12344882 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTA
1 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
*
12344947 CTTCACTGTAAGCATAGGAATGTCAGATCTG------T---TC----CCC-ATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
12344998 GC
131 GC
* * *
12345000 CAAATCTGCTATTTTTAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATTTTCGATCTG
1 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * * *
12345065 TTTCACTGTAAGCACAGGAATGTTAGATCTGCTATCGTCGATCTGTTCCCTATAAACACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
12345130 GC
131 GC
*
12345132 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGTACAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* *
12345197 CTTCACTGTAAGCACATGAATGTTAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
12345262 GC
131 GC
* * *
12345264 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAAGGATGCCATACTGAAATCTTTGATCTG
1 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * *
12345329 ATTTACTGTAAGCACATGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
12345394 GC
131 GC
** * *
12345396 CAAATCTGCCATTTTCAACTTGTTCCCTATAAGCATAGGGATGCCATGTTGAAATCTTCGATCTG
1 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* *
12345461 TTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
12345526 GC
131 GC
*
12345528 CAAATCTGTTATTTTCAACTTATTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* *
12345593 CTTCACTGTAAGTACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGTACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
12345658 GC
131 GC
* * * *
12345660 CAAATCTGCTATTTTTAACTTGTTCCCTATAAGCCCAGGGATACCATGCTGAAATCTTCGATCTG
1 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
12345725 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
12345790 GC
131 GC
*
12345792 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * *
12345857 CTTCACTGTAAGCACAGGAATGTCGGATCTGTTATCTTCGATCTATTCCCTATAAGCACAAGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
12345922 GC
131 GC
* *
12345924 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCATAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * * * * *
12345989 CTTTACTGTAAGCAC-GAGAATGTCAGATCTGCTATCTTTGATCTTTTCACTATAAACATAGGGA
66 CTTCACTGTAAGCACAG-GAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGA
12346053 TGC
130 TGC
12346056 CAAATCTG
1 CAAATCTG
12346064 CAATCTTCGA
Statistics
Matches: 1466, Mismatches: 97, Indels: 30
0.92 0.06 0.02
Matches are distributed among these distances:
118 104 0.07
119 3 0.00
123 2 0.00
124 1 0.00
126 1 0.00
127 2 0.00
131 4 0.00
132 1349 0.92
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.33
Consensus pattern (132 bp):
CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
GC
Found at i:12346197 original size:88 final size:88
Alignment explanation
Indices: 12346067--12346298 Score: 358
Period size: 88 Copynumber: 2.6 Consensus size: 88
12346057 AAATCTGCAA
* * * ** * * *
12346067 TCTTCGATCTGTTCTCCGCC-GCTACAGAGACACCAAATCATCTTGGATTTGTTTCAATGTAAAC
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
*
12346131 ACGTGAAAGCCAAATCAACTATG
66 ACGTGAAAACCAAATCAACTATG
12346154 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
**
12346219 ACGTGAAAACCAAATCAGTTATG
66 ACGTGAAAACCAAATCAACTATG
12346242 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
1 TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCA
12346299 GCGAAAGTCA
Statistics
Matches: 133, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
87 18 0.14
88 115 0.86
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (88 bp):
TCTTCGATCTGCTCCCCGCCTGATACAGAGATGCCAAATCATCTTGGATCTGCTTCAACGTAAAC
ACGTGAAAACCAAATCAACTATG
Found at i:12346279 original size:47 final size:45
Alignment explanation
Indices: 12346139--12346283 Score: 115
Period size: 47 Copynumber: 3.2 Consensus size: 45
12346129 ACACGTGAAA
12346139 GCCAAATCAACTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
1 GCCAAATC-A-TATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
* ** * * *
12346186 GCCAAATC--A--TCTTGGATCTGCTTCAACG--T-AAACACGTGAAA
1 GCCAAATCATATGTCTTCGATCTGC-TCCCCGCCTGATACA-GAG-AT
*
12346227 ACCAAATCAGTTATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
1 GCCAAATCA--TATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
12346274 GCCAAATCAT
1 GCCAAATCAT
12346284 CTTGGATCTG
Statistics
Matches: 72, Mismatches: 14, Indels: 26
0.64 0.12 0.23
Matches are distributed among these distances:
39 4 0.06
40 3 0.04
41 19 0.26
42 4 0.06
43 1 0.01
45 2 0.03
46 4 0.06
47 28 0.39
48 3 0.04
49 4 0.06
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (45 bp):
GCCAAATCATATGTCTTCGATCTGCTCCCCGCCTGATACAGAGAT
Found at i:12354645 original size:9 final size:10
Alignment explanation
Indices: 12354632--12354677 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
12354622 GGGAAAGCCT
12354632 AATGCAAAT-
1 AATGCAAATG
12354641 AATGC-AATG
1 AATGCAAATG
12354650 CAATGCAAATG
1 -AATGCAAATG
*
12354661 CATG-AAATG
1 AATGCAAATG
12354670 AATGCAAA
1 AATGCAAA
12354678 AGAAAGGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 3 0.10
9 13 0.42
10 11 0.35
11 4 0.13
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (10 bp):
AATGCAAATG
Found at i:12354656 original size:19 final size:19
Alignment explanation
Indices: 12354632--12354677 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
12354622 GGGAAAGCCT
*
12354632 AATGCAAAT-AATGCAATG
1 AATGCAAATGAATGAAATG
*
12354650 CAATGCAAATGCATGAAATG
1 -AATGCAAATGAATGAAATG
12354670 AATGCAAA
1 AATGCAAA
12354678 AGAAAGGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (19 bp):
AATGCAAATGAATGAAATG
Found at i:12356842 original size:12 final size:13
Alignment explanation
Indices: 12356827--12356872 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
12356817 AATAGGGGTG
12356827 ATAATAATA-ATA
1 ATAATAATACATA
12356839 ATAATAATACA-A
1 ATAATAATACATA
*
12356851 ACAATAATACAT-
1 ATAATAATACATA
12356863 ATATATAATA
1 ATA-ATAATA
12356873 ATAGTAGTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 22 0.76
13 7 0.24
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
ATAATAATACATA
Found at i:12356963 original size:3 final size:3
Alignment explanation
Indices: 12356955--12357027 Score: 53
Period size: 3 Copynumber: 23.3 Consensus size: 3
12356945 TATATACAAT
12356955 ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA ATA ATA
1 ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA ATA ATA
* *
12357000 ATA AT- ATAA ATA ATA GTA AAA ATA ATA A
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
12357028 AAAAAAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
2 5 0.09
3 41 0.72
4 9 0.16
5 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:12356974 original size:12 final size:12
Alignment explanation
Indices: 12356952--12357027 Score: 68
Period size: 12 Copynumber: 6.2 Consensus size: 12
12356942 GGGTATATAC
12356952 AATAT-AATAAT
1 AATATAAATAAT
12356963 AATATAAATAAT
1 AATATAAATAAT
12356975 AATATATACATGAGA-
1 AATATA-A-AT-A-AT
12356990 AATA-ATAATAAT
1 AATATA-AATAAT
12357002 AATATAAATAAT
1 AATATAAATAAT
* *
12357014 AGTAAAAATAAT
1 AATATAAATAAT
12357026 AA
1 AA
12357028 AAAAAAAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
11 6 0.11
12 34 0.62
13 4 0.07
14 5 0.09
15 5 0.09
16 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
AATATAAATAAT
Found at i:12356976 original size:18 final size:18
Alignment explanation
Indices: 12356946--12357028 Score: 87
Period size: 18 Copynumber: 4.4 Consensus size: 18
12356936 TGGAGAGGGT
12356946 ATATACAAT-ATAATAATA
1 ATATA-AATAATAATAATA
12356964 ATATAAATAATAATATATA
1 ATATAAATAATAATA-ATA
*
12356983 CATGAGAAATAATAATAATA
1 -AT-ATAAATAATAATAATA
* *
12357003 ATATAAATAATAGTAAAA
1 ATATAAATAATAATAATA
12357021 ATAATAAA
1 AT-ATAAA
12357029 AAAAAAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
17 3 0.05
18 26 0.46
19 10 0.18
20 5 0.09
21 12 0.21
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (18 bp):
ATATAAATAATAATAATA
Found at i:12357583 original size:30 final size:30
Alignment explanation
Indices: 12357544--12357629 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
12357534 ATTTGATGGT
**
12357544 GTAGGTGCAAGTGGGAGATAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
*
12357574 GTAGATGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
*
12357604 GTAGGTGCAATTGGGAGGCAAGGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
12357630 CTAGGGTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.26, C:0.06, G:0.50, T:0.19
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
Found at i:12358171 original size:25 final size:26
Alignment explanation
Indices: 12358143--12358197 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
12358133 CAACATTCAT
12358143 AATAAT-GTAAATATTATT-AAAATCA
1 AATAATAGTAAA-ATTATTGAAAATCA
12358168 AATAATAGTAAAATTATTGAAAATCA
1 AATAATAGTAAAATTATTGAAAATCA
12358194 AATA
1 AATA
12358198 GTAATAGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 12 0.43
26 16 0.57
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (26 bp):
AATAATAGTAAAATTATTGAAAATCA
Found at i:12360414 original size:5 final size:5
Alignment explanation
Indices: 12360404--12360447 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
12360394 AGAGAAAGTA
12360404 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
12360448 ATCCTAACAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:12361093 original size:28 final size:28
Alignment explanation
Indices: 12361061--12361148 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 28
12361051 TTAATTTAAC
12361061 TATAAAATGTATTTATTTTCTTTTAAGT
1 TATAAAATGTATTTATTTTCTTTTAAGT
* * ** *
12361089 TAT-AAATTTA-TAATATTTAATTTAA-C
1 TATAAAATGTATTTAT-TTTCTTTTAAGT
12361115 TATAAAATGTATTTATTTTCTTTTAAGT
1 TATAAAATGTATTTATTTTCTTTTAAGT
12361143 TATAAA
1 TATAAA
12361149 TTTATACATT
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
26 6 0.13
27 28 0.61
28 12 0.26
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (28 bp):
TATAAAATGTATTTATTTTCTTTTAAGT
Found at i:12361106 original size:54 final size:54
Alignment explanation
Indices: 12361047--12361154 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
12361037 ATAAAAAATG
12361047 ATATTTAATTTAACTATAAAATGTATTTATTTTCTTTTAAGTTATAAATTTATA
1 ATATTTAATTTAACTATAAAATGTATTTATTTTCTTTTAAGTTATAAATTTATA
12361101 ATATTTAATTTAACTATAAAATGTATTTATTTTCTTTTAAGTTATAAATTTATA
1 ATATTTAATTTAACTATAAAATGTATTTATTTTCTTTTAAGTTATAAATTTATA
12361155 CATTAGAGAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (54 bp):
ATATTTAATTTAACTATAAAATGTATTTATTTTCTTTTAAGTTATAAATTTATA
Found at i:12361293 original size:15 final size:16
Alignment explanation
Indices: 12361255--12361297 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
12361245 TGATTTTAAC
*
12361255 ATTATATTTAAAATAAA
1 ATTATATTT-ATATAAA
*
12361272 ATAATATTTATAT-AA
1 ATTATATTTATATAAA
12361287 ATTATATTTAT
1 ATTATATTTAT
12361298 TTAATTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 12 0.52
16 3 0.13
17 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTATATTTATATAAA
Found at i:12361732 original size:31 final size:31
Alignment explanation
Indices: 12361694--12361782 Score: 106
Period size: 31 Copynumber: 2.9 Consensus size: 31
12361684 ATATGGCCCT
*
12361694 TGAACTTGACACGTATGTTCACATTGGCTCC
1 TGAACTTGACAAGTATGTTCACATTGGCTCC
* *
12361725 TGAACTTGGCAAGTATGTTCACATTGGCTTC
1 TGAACTTGACAAGTATGTTCACATTGGCTCC
* * * * *
12361756 TAAACTTGATAACTAGGTTCACTTTGG
1 TGAACTTGACAAGTATGTTCACATTGG
12361783 TACTTGTACT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (31 bp):
TGAACTTGACAAGTATGTTCACATTGGCTCC
Found at i:12362345 original size:16 final size:15
Alignment explanation
Indices: 12362324--12362395 Score: 90
Period size: 16 Copynumber: 4.5 Consensus size: 15
12362314 CGTTTGGTTC
*
12362324 ACTGTAATAGAATAGG
1 ACTGTAATGGAATA-G
*
12362340 ACTGTAATTGAATAG
1 ACTGTAATGGAATAG
12362355 AGCTGTAATGGAATAG
1 A-CTGTAATGGAATAG
12362371 AGCTGTAATGGAATAG
1 A-CTGTAATGGAATAG
12362387 AACTGTAAT
1 -ACTGTAAT
12362396 CAGTAATTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
15 2 0.04
16 49 0.94
17 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (15 bp):
ACTGTAATGGAATAG
Found at i:12362369 original size:32 final size:32
Alignment explanation
Indices: 12362324--12362395 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 32
12362314 CGTTTGGTTC
*
12362324 ACTGTAATAGAATAG-GACTGTAATTGAATAGA
1 ACTGTAATAGAATAGAG-CTGTAATGGAATAGA
* *
12362356 GCTGTAATGGAATAGAGCTGTAATGGAATAGA
1 ACTGTAATAGAATAGAGCTGTAATGGAATAGA
12362388 ACTGTAAT
1 ACTGTAAT
12362396 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 34 0.97
33 1 0.03
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (32 bp):
ACTGTAATAGAATAGAGCTGTAATGGAATAGA
Found at i:12362470 original size:44 final size:46
Alignment explanation
Indices: 12362377--12362470 Score: 149
Period size: 44 Copynumber: 2.1 Consensus size: 46
12362367 ATAGAGCTGT
12362377 AATGGAATAGAACTGTAATCAGTAATTCACTTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCACTTGTTTGGTTGAATGG
*
12362423 AATGGAATAGAACTGTAAT-AGT-ATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATCAGTAATTCACT-TGTTTGGTTGAATGG
12362467 AATG
1 AATG
12362471 ATGTTGTAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
43 1 0.02
44 23 0.50
45 3 0.07
46 19 0.41
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (46 bp):
AATGGAATAGAACTGTAATCAGTAATTCACTTGTTTGGTTGAATGG
Found at i:12362731 original size:58 final size:57
Alignment explanation
Indices: 12362620--12362734 Score: 137
Period size: 58 Copynumber: 2.0 Consensus size: 57
12362610 TGACCATATT
* *
12362620 TTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTC
1 TTAACATAATTATTATT-AATATAATTTAAAAAAATAATATATAATCTAATAAAATTC
*
12362678 TTAATATAATTATTATT-ATATGAA-TTAAAAAATCATAATATATAATACT-ATAAAATT
1 TTAACATAATTATTATTAATAT-AATTTAAAAAA--ATAATATATAAT-CTAATAAAATT
12362735 AATATATAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
56 11 0.22
57 2 0.04
58 36 0.72
59 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (57 bp):
TTAACATAATTATTATTAATATAATTTAAAAAAATAATATATAATCTAATAAAATTC
Found at i:12365057 original size:23 final size:23
Alignment explanation
Indices: 12365028--12365073 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12365018 TCATATCTAG
12365028 AAGAGATGATTATCATCCAAATT
1 AAGAGATGATTATCATCCAAATT
12365051 AAGAGATGATTATCATCCAAATT
1 AAGAGATGATTATCATCCAAATT
12365074 CAACCATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (23 bp):
AAGAGATGATTATCATCCAAATT
Found at i:12370385 original size:28 final size:28
Alignment explanation
Indices: 12370345--12370400 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
12370335 ATTAACTTAG
12370345 CCTTCATATCATGCAGGATAAATAAATT
1 CCTTCATATCATGCAGGATAAATAAATT
12370373 CCTTCATATCATGCAGGATAAATAAATT
1 CCTTCATATCATGCAGGATAAATAAATT
12370401 TTTTACAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (28 bp):
CCTTCATATCATGCAGGATAAATAAATT
Found at i:12370924 original size:40 final size:40
Alignment explanation
Indices: 12370865--12370947 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
12370855 TTCATGCACA
* *
12370865 CAAGAATTCATGCATATAAGTTGTC-CGGGTAAAGTACGTG
1 CAAGAATCCATGCACATAAGTT-TCTCGGGTAAAGTACGTG
12370905 CAAGAATCCATGCACATAAGTTTCTCGGGTAAAGTACGTG
1 CAAGAATCCATGCACATAAGTTTCTCGGGTAAAGTACGTG
12370945 CAA
1 CAA
12370948 CTGAAGATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
39 2 0.05
40 38 0.95
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAGAATCCATGCACATAAGTTTCTCGGGTAAAGTACGTG
Found at i:12378468 original size:7 final size:7
Alignment explanation
Indices: 12378427--12378476 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
12378417 GTAATAGTTA
12378427 ACTAACT
1 ACTAACT
12378434 A-TAACT
1 ACTAACT
12378440 ACCATAACT
1 A-C-TAACT
12378449 ACTAAGCT
1 ACTAA-CT
12378457 -CTAACT
1 ACTAACT
*
12378463 ATTAACT
1 ACTAACT
12378470 ACTAACT
1 ACTAACT
12378477 GCCATAACCG
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
6 8 0.22
7 19 0.53
8 3 0.08
9 6 0.17
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (7 bp):
ACTAACT
Found at i:12380749 original size:24 final size:24
Alignment explanation
Indices: 12380717--12380763 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
12380707 ATAAAGATTT
12380717 TTATACTAATAAATA-TCAAATATA
1 TTATACTAATAAATACT-AAATATA
*
12380741 TTATGCTAATAAATACTAAATAT
1 TTATACTAATAAATACTAAATAT
12380764 TCTAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (24 bp):
TTATACTAATAAATACTAAATATA
Found at i:12404512 original size:19 final size:19
Alignment explanation
Indices: 12404488--12404526 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
12404478 AGTACACATT
12404488 TTTGTAACATTCAATTTGA
1 TTTGTAACATTCAATTTGA
12404507 TTTGTAACATTCAATTTGA
1 TTTGTAACATTCAATTTGA
12404526 T
1 T
12404527 AAGATTCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (19 bp):
TTTGTAACATTCAATTTGA
Found at i:12405137 original size:52 final size:52
Alignment explanation
Indices: 12405080--12405179 Score: 182
Period size: 52 Copynumber: 1.9 Consensus size: 52
12405070 CCATTTGTGG
* *
12405080 TGATATTAATAACAAGATAGAGGAGCTCTGACTTCAAAATCTGAGTTAGTGA
1 TGATATTAATAAAAAGATAGAGGAGCTCTAACTTCAAAATCTGAGTTAGTGA
12405132 TGATATTAATAAAAAGATAGAGGAGCTCTAACTTCAAAATCTGAGTTA
1 TGATATTAATAAAAAGATAGAGGAGCTCTAACTTCAAAATCTGAGTTA
12405180 ATCGTATGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (52 bp):
TGATATTAATAAAAAGATAGAGGAGCTCTAACTTCAAAATCTGAGTTAGTGA
Found at i:12408276 original size:29 final size:29
Alignment explanation
Indices: 12408234--12408290 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
12408224 AACTGTCGAT
* *
12408234 GCCACATGGTCATGTGCT-AGACCGTGTGA
1 GCCACACGGGCATGT-CTGAGACCGTGTGA
*
12408263 GCCACACGGGCATGTCTGAGACTGTGTG
1 GCCACACGGGCATGTCTGAGACCGTGTG
12408291 GGTGACACGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.19, C:0.25, G:0.33, T:0.23
Consensus pattern (29 bp):
GCCACACGGGCATGTCTGAGACCGTGTGA
Found at i:12414894 original size:5 final size:6
Alignment explanation
Indices: 12414876--12414902 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
12414866 AAGAGGTTGG
12414876 AATAAA AATAAA AATAAA AATAAA AAT
1 AATAAA AATAAA AATAAA AATAAA AAT
12414903 CAAGGGAATG
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:12417824 original size:23 final size:23
Alignment explanation
Indices: 12417742--12417828 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
12417732 CCTGATCAGT
*
12417742 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
12417764 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
12417784 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
12417807 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
12417829 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:12418224 original size:15 final size:15
Alignment explanation
Indices: 12418199--12418256 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
12418189 TCATGTATAT
12418199 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
12418215 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
12418230 AATAATTTCAATCAA
1 TATAAATTCAATCAA
*
12418245 TGTAAATTCAAT
1 TATAAATTCAAT
12418257 AAATTCATCG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:12419526 original size:13 final size:13
Alignment explanation
Indices: 12419508--12419534 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12419498 CCTCTTTTTA
12419508 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
12419521 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
12419534 T
1 T
12419535 ATATATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.15, G:0.07, T:0.78
Consensus pattern (13 bp):
TTCTTTTGTTTCT
Found at i:12427315 original size:41 final size:41
Alignment explanation
Indices: 12427225--12427315 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 41
12427215 ACCAGAGTGT
* * * * * *
12427225 AAACAAGGGCATGTATGTGCTATTTAGGGGTACTGAAGTGC
1 AAACAGGGGCACGTATGTGCAATTTAGGAGTACTCAAGTAC
*
12427266 AAATAGGGGCACGTATGTGCAATTTAGGAGTA-TCCAAGTAC
1 AAACAGGGGCACGTATGTGCAATTTAGGAGTACT-CAAGTAC
12427307 AAACAGGGG
1 AAACAGGGG
12427316 ATAATTCAGC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 1 0.02
41 40 0.98
ACGTcount: A:0.33, C:0.13, G:0.31, T:0.23
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTTAGGAGTACTCAAGTAC
Found at i:12433638 original size:39 final size:39
Alignment explanation
Indices: 12433579--12433728 Score: 192
Period size: 39 Copynumber: 3.8 Consensus size: 39
12433569 GCATGATATC
** * *
12433579 GGGAATATATCTAGACATGAGGTCCGCAAGCTATATGCT
1 GGGAATATATCCGGACATGAAGTCCGCAGGCTATATGCT
* *
12433618 GGGATTATATCCGGACATGAGGTCCGCAGGCTATATGCT
1 GGGAATATATCCGGACATGAAGTCCGCAGGCTATATGCT
* * *
12433657 GCGAATATATCCGGACTTGAAGTCCGCAGGCTATGTGCT
1 GGGAATATATCCGGACATGAAGTCCGCAGGCTATATGCT
* * *
12433696 GGAAATATATCCGGACTTGAAGTCCGTAGGCTA
1 GGGAATATATCCGGACATGAAGTCCGCAGGCTA
12433729 CGTGCTGGAA
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 99 1.00
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (39 bp):
GGGAATATATCCGGACATGAAGTCCGCAGGCTATATGCT
Found at i:12440443 original size:39 final size:39
Alignment explanation
Indices: 12440290--12440437 Score: 224
Period size: 39 Copynumber: 3.8 Consensus size: 39
12440280 ATGATATCGA
*
12440290 GAATATATCCGGACATGAGGTCCGCAGGCTATATGCTGG
1 GAATATATCCGGACATGAAGTCCGCAGGCTATATGCTGG
* * *
12440329 GATTATATCTGGACATGAGGTCCGCAGGCTATATGCTGG
1 GAATATATCCGGACATGAAGTCCGCAGGCTATATGCTGG
* *
12440368 GAATATATCCGGACTTGAAGTCCGCAGGCTATGTGCTGG
1 GAATATATCCGGACATGAAGTCCGCAGGCTATATGCTGG
* *
12440407 AAATATATCCGGACTTGAAGTCCGCAGGCTA
1 GAATATATCCGGACATGAAGTCCGCAGGCTA
12440438 CGTGCTAGAA
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 101 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (39 bp):
GAATATATCCGGACATGAAGTCCGCAGGCTATATGCTGG
Found at i:12450542 original size:18 final size:16
Alignment explanation
Indices: 12450491--12450544 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 16
12450481 TCCAACTGCC
*
12450491 TTATCTTTTA-TTTTA
1 TTATTTTTTATTTTTA
12450506 TTATTTTATTATTTATTA
1 TTATTTT-TTATTT-TTA
12450524 TTATTTGGTTTATTTTTA
1 TTATTT--TTTATTTTTA
12450542 TTA
1 TTA
12450545 GATTTAGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 6 0.18
16 3 0.09
17 2 0.06
18 15 0.45
19 6 0.18
20 1 0.03
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (16 bp):
TTATTTTTTATTTTTA
Found at i:12452702 original size:40 final size:40
Alignment explanation
Indices: 12452647--12452727 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
12452637 AAGAGAGATA
12452647 TTAGCATAATTTAGGGATTTCTACAGATCAAGATACTAAG
1 TTAGCATAATTTAGGGATTTCTACAGATCAAGATACTAAG
12452687 TTAGCATAATTTAGGGATTTCTACAGATCAAGATACTAAG
1 TTAGCATAATTTAGGGATTTCTACAGATCAAGATACTAAG
12452727 T
1 T
12452728 GAAGAAATTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.33
Consensus pattern (40 bp):
TTAGCATAATTTAGGGATTTCTACAGATCAAGATACTAAG
Found at i:12464000 original size:3 final size:3
Alignment explanation
Indices: 12463992--12464037 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
12463982 TTCCTATACT
12463992 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
12464038 ATAGTAGTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:12464075 original size:25 final size:23
Alignment explanation
Indices: 12464005--12464076 Score: 58
Period size: 23 Copynumber: 3.1 Consensus size: 23
12463995 TTATTATTAT
* * *
12464005 TATTATTATTAT-TATTATTA-T
1 TATTATTATTATATAGTAATACA
* *
12464026 TATTATTATTATATAGTAGTGCA
1 TATTATTATTATATAGTAATACA
*
12464049 TATTTTTATTATATACGTAAATACA
1 TATTATTATTATATA-GT-AATACA
12464074 TAT
1 TAT
12464077 ATGTATATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 12 0.30
22 5 0.12
23 14 0.35
24 2 0.05
25 7 0.17
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (23 bp):
TATTATTATTATATAGTAATACA
Found at i:12464289 original size:26 final size:24
Alignment explanation
Indices: 12464250--12464306 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 24
12464240 ATACTATATC
*
12464250 TATTATTTATTAGCATTTTATTAA
1 TATTATTTATTAGCATTTTATCAA
*
12464274 TATTATTAGTATTAGCTTTTTATCAA
1 TATTATT--TATTAGCATTTTATCAA
12464300 TACTTAT
1 TA-TTAT
12464307 ATGTATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 7 0.25
26 17 0.61
27 4 0.14
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (24 bp):
TATTATTTATTAGCATTTTATCAA
Found at i:12465326 original size:22 final size:22
Alignment explanation
Indices: 12465298--12465341 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
12465288 CGAGATGAGA
12465298 ATGTCTTTAACGTTCAAATGTT
1 ATGTCTTTAACGTTCAAATGTT
12465320 ATGTCTTTAACGTTCAAATGTT
1 ATGTCTTTAACGTTCAAATGTT
12465342 TTTTTACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (22 bp):
ATGTCTTTAACGTTCAAATGTT
Found at i:12476529 original size:64 final size:64
Alignment explanation
Indices: 12476428--12476612 Score: 325
Period size: 64 Copynumber: 2.9 Consensus size: 64
12476418 TCATTCGTGA
* *
12476428 CACATCTAGTTAGGAGCATTTGATTTATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
*
12476492 CACATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGATATAAGCAT
1 CACATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* *
12476556 CACATTTAGTTAGGAGCATTTGATTCATTTCAATCATAGCGTCCTAATTATTTGACA
1 CACATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACA
12476613 CAAACACAGA
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 115 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (64 bp):
CACATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:12476853 original size:89 final size:88
Alignment explanation
Indices: 12476699--12477172 Score: 573
Period size: 89 Copynumber: 5.4 Consensus size: 88
12476689 AGCCTTATTT
* *
12476699 CCCTAAGCAGTAGGGTAACAGGCT-AA-ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAATCA
1 CCCTAAACAGTAGGGTAACAGGCTGAAGA-TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
*
12476762 GATCGAAGATGATGGGCCCTAACC
65 GATCGAAGATGATGGGCCTTAACC
* * *
12476786 CCCTAAGCAGTAGGGTAACAGGCTGAAGATGTATAGATCTTAACCCCCTAAGCAGCAGGGAAACA
1 CCCTAAACAGTAGGGTAACAGGCTGAAGAT-TACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
*
12476851 GATCGAAGATGATGGGCCCTAACC
65 GATCGAAGATGATGGGCCTTAACC
* * *
12476875 CCCTAAACAGTAGGGTAACAGGCTGAA-TTTTCAGATC-TCACCTCCCTAAGCAGTAGGGAAACA
1 CCCTAAACAGTAGGGTAACAGGCTGAAGATTACAGATCTTAACC-CCCTAAGCAGTAGGGAAACA
* * **
12476938 GATCAAAGGTGACAGGCCTTAACC
65 GATCGAAGATGATGGGCCTTAACC
* * *
12476962 CCCTAAACAGTAGGGTAACAGGCTGAAGATTGACAAATTTTAACCCCCTAAGTAGTAGGGAAACA
1 CCCTAAACAGTAGGGTAACAGGCTGAAGATT-ACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
* * ***
12477027 GATCAAAGGTGACAAGCCTTAACC
65 GATCGAAGATGATGGGCCTTAACC
* * * * *
12477051 CCCTAAATAGTAGGGTAACAGGCTAAAGATTGACAAACCTTAACCCCCTAAACAGTAGGGAAACA
1 CCCTAAACAGTAGGGTAACAGGCTGAAGATT-ACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
*
12477116 GATCAGAAG-TGATGGGCCTTAAAC
65 GATC-GAAGATGATGGGCCTTAACC
* *
12477140 CCCTAAGCAGTAGGGTCACAGGCTGGAA-ATTAC
1 CCCTAAACAGTAGGGTAACAGGCT-GAAGATTAC
12477173 GAATCTCTTC
Statistics
Matches: 342, Mismatches: 36, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
86 4 0.01
87 95 0.28
88 8 0.02
89 226 0.66
90 9 0.03
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (88 bp):
CCCTAAACAGTAGGGTAACAGGCTGAAGATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAG
ATCGAAGATGATGGGCCTTAACC
Found at i:12476975 original size:44 final size:44
Alignment explanation
Indices: 12476735--12477154 Score: 296
Period size: 44 Copynumber: 9.5 Consensus size: 44
12476725 ATTTACAGAT
* **
12476735 CTTAACCCCCTAAGCAGTAGGGAATCAGATCGAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGACAGGC
* * * * **
12476779 CCTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGATGTATAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGATG-ACAGGC
* **
12476824 CTTAACCCCCTAAGCAGCAGGGAAACAGATCGAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGACAGGC
* * * * * ** **
12476868 CCTAACCCCCTAAACAGTAGGGTAACAG-GCTGAA-TTTTCAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGATGACAGGC
* * *
12476911 C-TCACCTCCCTAAGCAGTAGGGAAACAGATCAAAGGTGACAGGC
1 CTTAACC-CCCTAAGCAGTAGGGAAACAGATCGAAGATGACAGGC
* * * ***
12476955 CTTAACCCCCTAAACAGTAGGGTAACAG-GCTGAAGATTGACAAAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGACAGGC
* * * * *
12477000 TTTAACCCCCTAAGTAGTAGGGAAACAGATCAAAGGTGACAAGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGACAGGC
** * * * **
12477044 CTTAACCCCCTAAATAGTAGGGTAACAG-GCTAAAGATTGACAAAC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGACAGGC
* **
12477089 CTTAACCCCCTAAACAGTAGGGAAACAGATCAGAAG-TGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGATGACAGGC
*
12477133 CTTAAACCCCTAAGCAGTAGGG
1 CTTAACCCCCTAAGCAGTAGGG
12477155 TCACAGGCTG
Statistics
Matches: 291, Mismatches: 71, Indels: 28
0.75 0.18 0.07
Matches are distributed among these distances:
42 4 0.01
43 28 0.10
44 149 0.51
45 104 0.36
46 6 0.02
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (44 bp):
CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGACAGGC
Found at i:12477007 original size:176 final size:176
Alignment explanation
Indices: 12476699--12477164 Score: 605
Period size: 176 Copynumber: 2.6 Consensus size: 176
12476689 AGCCTTATTT
* *
12476699 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAATCAGA
1 CCCTAAACAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
* * * * *
12476764 TCGAAGATGATGGGCCCTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATGTATAGATCTTAA
66 TCAAAGGTGATGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATGTACAAATCTTAA
* ***
12476829 CCCCCTAAGCAGCAGGGAAACAGATCGAAGATGATGGGCCCTAACC
131 CCCCCTAAGCAGCAGGGAAACAGATCAAAGATGACAAGCCCTAACC
* * *
12476875 CCCTAAACAGTAGGGTAACAGGCTGAATTTTCAGATC-TCACCTCCCTAAGCAGTAGGGAAACAG
1 CCCTAAACAGTAGGGTAACAGGCTAAATTTACAGATCTTAACC-CCCTAAGCAGTAGGGAAACAG
** * *
12476939 ATCAAAGGTGACAGGCCTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAGAT-TGACAAATTTT
65 ATCAAAGGTGATGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATGT-ACAAATCTT
* * * *
12477003 AACCCCCTAAGTAGTAGGGAAACAGATCAAAGGTGACAAGCCTTAACC
129 AACCCCCTAAGCAGCAGGGAAACAGATCAAAGATGACAAGCCCTAACC
* * * * *
12477051 CCCTAAATAGTAGGGTAACAGGCTAAAGATTGACAAACCTTAACCCCCTAAACAGTAGGGAAACA
1 CCCTAAACAGTAGGGTAACAGGCT-AA-ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
* *
12477116 GATCAGAA-GTGATGGGCCTTAAACCCCTAAGCAGTAGGGTCACAGGCTG
64 GATCA-AAGGTGATGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG
12477165 GAAATTACGA
Statistics
Matches: 249, Mismatches: 35, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
175 5 0.02
176 170 0.68
177 1 0.00
178 67 0.27
179 6 0.02
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (176 bp):
CCCTAAACAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
TCAAAGGTGATGGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATGTACAAATCTTAA
CCCCCTAAGCAGCAGGGAAACAGATCAAAGATGACAAGCCCTAACC
Found at i:12477607 original size:17 final size:18
Alignment explanation
Indices: 12477585--12477627 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
12477575 CCAAATTAAA
*
12477585 CCAAATAACCCC-AAAGC
1 CCAAATAACCCCTAAAAC
12477602 CCAAATAACCCCTAAAAC
1 CCAAATAACCCCTAAAAC
12477620 CCAAATAA
1 CCAAATAA
12477628 ACTCTAACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.51, C:0.37, G:0.02, T:0.09
Consensus pattern (18 bp):
CCAAATAACCCCTAAAAC
Found at i:12478952 original size:9 final size:9
Alignment explanation
Indices: 12478935--12478988 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
12478925 TAAATGCCAT
12478935 TATTATTAC
1 TATTATTAC
*
12478944 TATTGTTAC
1 TATTATTAC
12478953 T-TCTATTAC
1 TAT-TATTAC
12478962 TATTATTAC
1 TATTATTAC
* *
12478971 TATTGTTAT
1 TATTATTAC
12478980 TATATATTA
1 TAT-TATTA
12478989 ATGTATGCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
8 1 0.03
9 31 0.84
10 5 0.14
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (9 bp):
TATTATTAC
Found at i:12479131 original size:25 final size:23
Alignment explanation
Indices: 12479082--12479132 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
12479072 TATACTTTAT
* *
12479082 TATTATTATTATATAGTAGTGCA
1 TATTATTATTATATAGTAATACA
*
12479105 TATTTTTATTATATACGTAAATACA
1 TATTATTATTATATA-GT-AATACA
12479130 TAT
1 TAT
12479133 ATGTATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 14 0.61
24 2 0.09
25 7 0.30
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (23 bp):
TATTATTATTATATAGTAATACA
Found at i:12479354 original size:26 final size:24
Alignment explanation
Indices: 12479309--12479356 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
12479299 TATACTATAT
12479309 CTATTATTTATTAGCATTTTATTA
1 CTATTATTTATTAGCATTTTATTA
*
12479333 CTATTATTAGTATTAGCTTTTTAT
1 CTATTATT--TATTAGCATTTTAT
12479357 CGATACTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
26 13 0.62
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.58
Consensus pattern (24 bp):
CTATTATTTATTAGCATTTTATTA
Found at i:12482007 original size:21 final size:21
Alignment explanation
Indices: 12481948--12482015 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
12481938 AAACCTTGTA
*
12481948 ATATAAA-ATATATATGATA-T
1 ATATAAATA-ATATATTATAGT
12481968 GATATAAATAATATATTATAGT
1 -ATATAAATAATATATTATAGT
*
12481990 ATATAAATAATA-ATTTATATT
1 ATATAAATAATATA-TTATAGT
12482011 ATATA
1 ATATA
12482016 TTATATATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.02
21 39 0.93
22 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (21 bp):
ATATAAATAATATATTATAGT
Found at i:12483296 original size:81 final size:82
Alignment explanation
Indices: 12483142--12483327 Score: 302
Period size: 81 Copynumber: 2.3 Consensus size: 82
12483132 ATTAATGTCT
* * *
12483142 ATGCTGGTCAAGTCAATCCATACAGAAAATTAAAATTGTAAATTGAATGAAAATAGGTTGTAAAA
1 ATGCTGATCAAGTCAACCCATACAAAAAATTAAAATTGTAAATTGAATGAAAATAGGTTGTAAAA
12483207 TTGATTAAAGTCTATAA
66 TTGATTAAAGTCTATAA
* * *
12483224 ATGCTGCTCAAGTAAACCCATACAAAAAATTAAGATTGT-AATTGAATGAAAATAGGTTGTAAAA
1 ATGCTGATCAAGTCAACCCATACAAAAAATTAAAATTGTAAATTGAATGAAAATAGGTTGTAAAA
12483288 TTGATTAAAGTCTATAA
66 TTGATTAAAGTCTATAA
*
12483305 ATGTTGATCAAGTCAACCCATAC
1 ATGCTGATCAAGTCAACCCATAC
12483328 TACCAAACAC
Statistics
Matches: 96, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
81 62 0.65
82 34 0.35
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (82 bp):
ATGCTGATCAAGTCAACCCATACAAAAAATTAAAATTGTAAATTGAATGAAAATAGGTTGTAAAA
TTGATTAAAGTCTATAA
Found at i:12483620 original size:13 final size:13
Alignment explanation
Indices: 12483604--12483628 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12483594 TCATATTTTT
12483604 ATTTAAAAATTTA
1 ATTTAAAAATTTA
12483617 ATTTAAAAATTT
1 ATTTAAAAATTT
12483629 TCTTTTTTTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTAAAAATTTA
Found at i:12484050 original size:21 final size:21
Alignment explanation
Indices: 12484000--12484051 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
12483990 TTAATTTTTT
12484000 TATATTTTTATTTTTTTTAAA
1 TATATTTTTATTTTTTTTAAA
12484021 TGA-ATTTTTA-TTTTTTTAAA
1 T-ATATTTTTATTTTTTTTAAA
*
12484041 CTATAATTTTA
1 -TATATTTTTA
12484052 AAACTTTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 11 0.41
21 15 0.56
22 1 0.04
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
TATATTTTTATTTTTTTTAAA
Found at i:12485373 original size:30 final size:29
Alignment explanation
Indices: 12485307--12485385 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
12485297 CGTGTGCCAG
* *
12485307 GCCGTGTGGACCACACAGGCCAGACCCTTAG
1 GCCGTGT-GACCACAC-GGCCAGACCCTCAC
*
12485338 GCCGTGTGACCACACGGACCAGGCCCTCAC
1 GCCGTGTGACCACACGG-CCAGACCCTCAC
*
12485368 TCCGTGTGAATCCACACG
1 GCCGTGTG-A-CCACACG
12485386 AGCGTGTGCC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 2 0.05
30 24 0.59
31 8 0.20
32 7 0.17
ACGTcount: A:0.22, C:0.38, G:0.27, T:0.14
Consensus pattern (29 bp):
GCCGTGTGACCACACGGCCAGACCCTCAC
Found at i:12488377 original size:10 final size:10
Alignment explanation
Indices: 12488356--12488384 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
12488346 TAGCAATTTG
12488356 AAGAAAAA-A
1 AAGAAAAAGA
12488365 AAGAAAAAGA
1 AAGAAAAAGA
12488375 AAGAAAAAGA
1 AAGAAAAAGA
12488385 GTTCACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 8 0.42
10 11 0.58
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:12490197 original size:26 final size:26
Alignment explanation
Indices: 12490118--12490218 Score: 87
Period size: 26 Copynumber: 3.9 Consensus size: 26
12490108 TCTCATCCCT
* *
12490118 ATTTTACCTTGA-CAAAATTTTGACG
1 ATTTTACCTTTAGTAAAATTTTGACG
* ** *
12490143 ATTTTACCTTTGGTAAAATTTAAATG
1 ATTTTACCTTTAGTAAAATTTTGACG
* *
12490169 ATTTTACTTTTAGTAATATTTTGACG
1 ATTTTACCTTTAGTAAAATTTTGACG
* ** *
12490195 ATTTTGCCCATGGTAAAATTTTGA
1 ATTTTACCTTTAGTAAAATTTTGA
12490219 GAAAATGTGT
Statistics
Matches: 57, Mismatches: 18, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
25 10 0.18
26 47 0.82
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.46
Consensus pattern (26 bp):
ATTTTACCTTTAGTAAAATTTTGACG
Found at i:12496163 original size:13 final size:13
Alignment explanation
Indices: 12496145--12496169 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12496135 AACGAAGAAG
12496145 GACACGGTCGTGC
1 GACACGGTCGTGC
12496158 GACACGGTCGTG
1 GACACGGTCGTG
12496170 TGCACCCACA
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:0.28, G:0.40, T:0.16
Consensus pattern (13 bp):
GACACGGTCGTGC
Found at i:12498096 original size:942 final size:942
Alignment explanation
Indices: 12496267--12498125 Score: 2954
Period size: 942 Copynumber: 2.0 Consensus size: 942
12496257 AGGCAAGATC
* * *
12496267 GTGTGCCCCAAAATCTATATAAACCCCTCATTATTCATCATTCCCTTCCCCAAAATCCCTAACCC
1 GTGTGCCCCAAAATCTATAAAAACCCCTCACTATTCATCATTCCCTTACCCAAAATCCCTAACCC
* * * *
12496332 TAGCTACTACAACTTCACACGCCCTCCTCGCCACGCCCGTGCACAGACGACAACTCTCCTCCGAC
66 TAGCCACTACAACTTCACACGCCCTCCTCACCACACCCGTACACAGACGACAACTCTCCTCCGAC
* *
12496397 GACCCAAGCTCCTCCTTCCACCAACATATTGCATTTGTTTACTCTTTTCTCTCTATTTTCTTCTA
131 GACCCAAACTCCTCCTTCCACCAACAAATTGCATTTGTTTACTCTTTTCTCTCTATTTTCTTCTA
12496462 CTCATTTACTAATTTTATGATTCTTATGGTGTTACTTGGCTAATTTTTTATGAATATTCATTGTT
196 CTCATTTACTAATTTTATGATTCTTATGGTGTTACTTGGCTAATTTTTTATGAATATTCATTGTT
* *
12496527 CTCACTATAGAAATATGCTTTTATTCTTTGCCAGTTTTAGTCAATGCTTTCTAGTACATTCATTC
261 CTCACTATAGAAATATGCTTTTAGTCTTTGCCAGTTTTAGTAAATGCTTTCTAGTACATTCATTC
12496592 CTTCTTGTGTTCCCATAGAGTCTATTTCATTAATTTCATGTTGAAAATAATCATACTTTTCTTAC
326 CTTCTTGTGTTCCCATAGAGTCTATTTCATTAATTTCATGTTGAAAATAATCATACTTTTCTTAC
* * *
12496657 GTCATTTGCTATATAAACTTCTATCATCTAGATTAAACCACTGAGTGTTTGACAGTTGGTTTGAT
391 GTCATTTGCTATATAAACTTCTAACATATAGATTAAACCACTGAGTGTTTGACAGTTGGTTGGAT
* * *
12496722 TGGTTAGTTTAACTACATTTATGATTACTTCTTGAATTAGTTAGTTTATCGTATACACCTCGTTT
456 TGGTTAGTTTAACTACATTCATGATTACTTCTTAAATTAGTTAGTTTATCGTATACACCTCCTTT
12496787 GTATTGCAAATACATCATACAGAATCGTGGTAAGAAAACCACTGTCCCCACTTCCAAGAAAAAGA
521 GTATTGCAAATACATCATACAGAATCGTGGTAAGAAAACCACTGTCCCCACTTCCAAGAAAAAGA
* *
12496852 AAAAAGTAGCGTCATCCTCAGGTCCTACTGCGGAGATTAGGCACCCGTTCCTCTAAGTTCCCTTG
586 AAAAAGCAGCGTCATCCTCAGGTCCTACTGCGGAGATTAGGCACCCATTCCTCTAAGTTCCCTTG
* ** * *
12496917 GGACTCTAGGAGGAATTATATCAGATATTACGGGCCTGACCCCTAGGTGTGGGTCGCTGCATTGA
651 GGACCCTAGGAGGAATTATATCAGATATTACGGGCCCAACCCCTAGGTGTGGGCCACTGCATTGA
* *
12496982 CTGGGCCACACTTAAACAGATTCAATTGACTGACGTGGTCCGAGCCCTCCTGACGACTGACCTAT
716 CTGGGCCACACTTAAACAGATTCAATTGACTGACGCGGTCCGAACCCTCCTGACGACTGACCTAT
**
12497047 GGGGGCTATTCTTTGAGATCATAGAGCCGACGTATCTCAAGTTCACATTGGAACTCTACTCGACG
781 AAGGGCTATTCTTTGAGATCATAGAGCCGACGTATCTCAAGTTCACATTGGAACTCTACTCGACG
* **
12497112 TTCCATCTTCAGACCGTCATGACTAACTTCGATGATCCTGGAACGGTCCAGTTCTGTCTCGGTGG
846 TTCCATCTTCAGACCGTCATGACCAACTTCGATGATCCTGGAACGGTCCAGTTCTGTCTCGAAGG
12497177 TCTAGTCTGCCAGTAGAGCGTGCCCCACGGCT
911 TCTAGTCTGCCAGTAGAGCGTGCCCCACGGCT
* *
12497209 GTGTGTCCCAAAATCTATAAAAACCCCTCACTATTCATCA-TCCTCTTACTCAAAATCCCTAACC
1 GTGTGCCCCAAAATCTATAAAAACCCCTCACTATTCATCATTCC-CTTACCCAAAATCCCTAACC
* * ** * * * *
12497273 CTAGCCACTGCAACTTCACACGCCCTCCTCACCATACCCGTACGTAGATGACAGCTCTTCTCTGA
65 CTAGCCACTACAACTTCACACGCCCTCCTCACCACACCCGTACACAGACGACAACTCTCCTCCGA
* * *
12497338 CGACCCAAACTCCTCCTTTCACCAATAAATTGCGTTTGTTTACTCTTTTCTCTCTATTTTCTT-T
130 CGACCCAAACTCCTCCTTCCACCAACAAATTGCATTTGTTTACTCTTTTCTCTCTATTTTCTTCT
*
12497402 ATCTCTTTTACTAATTTTATGATTCTTATGGTGTTACTTGGCTAATTTTTTATGAATATTCATTG
195 A-CTCATTTACTAATTTTATGATTCTTATGGTGTTACTTGGCTAATTTTTTATGAATATTCATTG
* *
12497467 TTCTCACTATAGAAATATGCTTTTAGTCTTTGCCATTTTTAGTAAATGCTTTCTGGTACATTCAT
259 TTCTCACTATAGAAATATGCTTTTAGTCTTTGCCAGTTTTAGTAAATGCTTTCTAGTACATTCAT
12497532 TCCTTCTTGTGTTCCCATAGAGTCTATTTCATTAATTTCATGTTGAAAATAATCATACTTTTCTT
324 TCCTTCTTGTGTTCCCATAGAGTCTATTTCATTAATTTCATGTTGAAAATAATCATACTTTTCTT
*
12497597 ACGTCATTTGCTATATAAACTTCTAACATATAGATTAAACCACTGAGTGTTTGATAGTTGGTTGG
389 ACGTCATTTGCTATATAAACTTCTAACATATAGATTAAACCACTGAGTGTTTGACAGTTGGTTGG
* * * *
12497662 ATTGGTTAGTTTAATTACATTCGTGATTACTTCTTAAATTAGTTAGTTTATGGTATACTCCTCCT
454 ATTGGTTAGTTTAACTACATTCATGATTACTTCTTAAATTAGTTAGTTTATCGTATACACCTCCT
* * * * * *
12497727 TTGTCTTGTAGATACATCATGTC-GAATCGTGGTAAGAAAACCGCTGTCCCCACTTCTAAGAAAA
519 TTGTATTGCAAATACATCAT-ACAGAATCGTGGTAAGAAAACCACTGTCCCCACTTCCAAGAAAA
* ** * *
12497791 GGAAAGGAGCAGCGTCATCCTCAGGTCCTACTGTGGAGATTAGGCACCCATTCCT-TCAGGTTCC
583 AGAAAAAAGCAGCGTCATCCTCAGGTCCTACTGCGGAGATTAGGCACCCATTCCTCT-AAGTTCC
12497855 CTTGGGACCCTAGGAGGAATTATATCAGATATTACGGGCCCAACCCCTAGGTGTGGGCCACTGCA
647 CTTGGGACCCTAGGAGGAATTATATCAGATATTACGGGCCCAACCCCTAGGTGTGGGCCACTGCA
* * * * * *
12497920 TTGATTGGGCCATACTTAAATAGATTCAATTGGCTGACGCGGTCCGAACCCTCTTGACGATTGAC
712 TTGACTGGGCCACACTTAAACAGATTCAATTGACTGACGCGGTCCGAACCCTCCTGACGACTGAC
* * * * * * *
12497985 CTGTAAGGGCTCTTCTTTGAGATCTTCGAGCTGACGTATCT-AGAGTTCACATTGTAACTCTGCT
777 CTATAAGGGCTATTCTTTGAGATCATAGAGCCGACGTATCTCA-AGTTCACATTGGAACTCTACT
12498049 CGACGTTCCATCTTCAGACCGTCATGACCAACTTCGATGATCCTGGAACGGTCCAGTTCTGTCTC
841 CGACGTTCCATCTTCAGACCGTCATGACCAACTTCGATGATCCTGGAACGGTCCAGTTCTGTCTC
12498114 GAAGGTCTAGTC
906 GAAGGTCTAGTC
12498126 CGCAGTTGAA
Statistics
Matches: 836, Mismatches: 76, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
941 7 0.01
942 828 0.99
943 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (942 bp):
GTGTGCCCCAAAATCTATAAAAACCCCTCACTATTCATCATTCCCTTACCCAAAATCCCTAACCC
TAGCCACTACAACTTCACACGCCCTCCTCACCACACCCGTACACAGACGACAACTCTCCTCCGAC
GACCCAAACTCCTCCTTCCACCAACAAATTGCATTTGTTTACTCTTTTCTCTCTATTTTCTTCTA
CTCATTTACTAATTTTATGATTCTTATGGTGTTACTTGGCTAATTTTTTATGAATATTCATTGTT
CTCACTATAGAAATATGCTTTTAGTCTTTGCCAGTTTTAGTAAATGCTTTCTAGTACATTCATTC
CTTCTTGTGTTCCCATAGAGTCTATTTCATTAATTTCATGTTGAAAATAATCATACTTTTCTTAC
GTCATTTGCTATATAAACTTCTAACATATAGATTAAACCACTGAGTGTTTGACAGTTGGTTGGAT
TGGTTAGTTTAACTACATTCATGATTACTTCTTAAATTAGTTAGTTTATCGTATACACCTCCTTT
GTATTGCAAATACATCATACAGAATCGTGGTAAGAAAACCACTGTCCCCACTTCCAAGAAAAAGA
AAAAAGCAGCGTCATCCTCAGGTCCTACTGCGGAGATTAGGCACCCATTCCTCTAAGTTCCCTTG
GGACCCTAGGAGGAATTATATCAGATATTACGGGCCCAACCCCTAGGTGTGGGCCACTGCATTGA
CTGGGCCACACTTAAACAGATTCAATTGACTGACGCGGTCCGAACCCTCCTGACGACTGACCTAT
AAGGGCTATTCTTTGAGATCATAGAGCCGACGTATCTCAAGTTCACATTGGAACTCTACTCGACG
TTCCATCTTCAGACCGTCATGACCAACTTCGATGATCCTGGAACGGTCCAGTTCTGTCTCGAAGG
TCTAGTCTGCCAGTAGAGCGTGCCCCACGGCT
Found at i:12498984 original size:14 final size:14
Alignment explanation
Indices: 12498965--12498991 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12498955 TATTATTATT
12498965 TTTTATATTTTTAC
1 TTTTATATTTTTAC
12498979 TTTTATATTTTTA
1 TTTTATATTTTTA
12498992 AGACTACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTATATTTTTAC
Found at i:12508996 original size:7 final size:7
Alignment explanation
Indices: 12508986--12509019 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
12508976 CACTTCTCAA
12508986 TCATCCC
1 TCATCCC
12508993 TCATCCC
1 TCATCCC
*
12509000 TCATCCT
1 TCATCCC
12509007 TCATCCC
1 TCATCCC
12509014 TCATCC
1 TCATCC
12509020 TTCAACATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.15, C:0.53, G:0.00, T:0.32
Consensus pattern (7 bp):
TCATCCC
Found at i:12509020 original size:14 final size:14
Alignment explanation
Indices: 12508986--12509023 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
12508976 CACTTCTCAA
*
12508986 TCATCCCTCATCCC
1 TCATCCTTCATCCC
12509000 TCATCCTTCATCCC
1 TCATCCTTCATCCC
12509014 TCATCCTTCA
1 TCATCCTTCA
12509024 ACATTCCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.16, C:0.50, G:0.00, T:0.34
Consensus pattern (14 bp):
TCATCCTTCATCCC
Found at i:12512331 original size:17 final size:17
Alignment explanation
Indices: 12512309--12512360 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
12512299 GCAACATGAT
* *
12512309 CTTCCCTTTCCCTTCCC
1 CTTCCCCTTCCCTTTCC
*
12512326 CTTCCCCTTCCCTTTTC
1 CTTCCCCTTCCCTTTCC
*
12512343 CTTCCCCTTCCCCTTCC
1 CTTCCCCTTCCCTTTCC
12512360 C
1 C
12512361 CCATCCTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (17 bp):
CTTCCCCTTCCCTTTCC
Found at i:12512339 original size:23 final size:23
Alignment explanation
Indices: 12512309--12512360 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
12512299 GCAACATGAT
12512309 CTTCCCTTTCCCTTCCCCTTCCC
1 CTTCCCTTTCCCTTCCCCTTCCC
*
12512332 CTTCCCTTTTCCTTCCCCTTCCC
1 CTTCCCTTTCCCTTCCCCTTCCC
12512355 CTTCCC
1 CTTCCC
12512361 CCATCCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.00, C:0.60, G:0.00, T:0.40
Consensus pattern (23 bp):
CTTCCCTTTCCCTTCCCCTTCCC
Found at i:12512358 original size:6 final size:6
Alignment explanation
Indices: 12512312--12512361 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
12512302 ACATGATCTT
* * *
12512312 CCCTTT CCCTTC CCCTTC CCCTT- CCCTTT TCCTTC CCCTTC CCCTTC
1 CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC CCCTTC
12512359 CCC
1 CCC
12512362 CATCCTTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
5 5 0.13
6 34 0.87
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
CCCTTC
Found at i:12512367 original size:23 final size:23
Alignment explanation
Indices: 12512319--12512368 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
12512309 CTTCCCTTTC
***
12512319 CCTTCCCCTTCCCCTTCCCTTTT
1 CCTTCCCCTTCCCCTTCCCCCAT
12512342 CCTTCCCCTTCCCCTTCCCCCAT
1 CCTTCCCCTTCCCCTTCCCCCAT
12512365 CCTT
1 CCTT
12512369 TTCGGTAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.02, C:0.60, G:0.00, T:0.38
Consensus pattern (23 bp):
CCTTCCCCTTCCCCTTCCCCCAT
Found at i:12512368 original size:29 final size:29
Alignment explanation
Indices: 12512313--12512371 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
12512303 CATGATCTTC
* *
12512313 CCTTTCCCTTCCCCTTCCCCTTCCCTTTT
1 CCTTCCCCTTCCCCTTCCCCATCCCTTTT
12512342 CCTTCCCCTTCCCCTTCCCCCAT-CCTTTT
1 CCTTCCCCTTCCCCTT-CCCCATCCCTTTT
12512371 C
1 C
12512372 GGTAAGAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.02, C:0.58, G:0.00, T:0.41
Consensus pattern (29 bp):
CCTTCCCCTTCCCCTTCCCCATCCCTTTT
Found at i:12522340 original size:43 final size:42
Alignment explanation
Indices: 12522208--12522357 Score: 201
Period size: 42 Copynumber: 3.5 Consensus size: 42
12522198 CTAAAACTAT
* *
12522208 GTGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATAGCATCGATATGAGATTTC
*
12522250 GTGTAAGACCATATCTGGGATATAGCATCGATGTGAGATTTC
1 GTGTAAGACCATATCTGGGATATAGCATCGATATGAGATTTC
* * * **
12522292 GTGTAAGACCATAACTGGGCTATTAGCATCGATACGAGATCCC
1 GTGTAAGACCATATCTGGGATA-TAGCATCGATATGAGATTTC
* *
12522335 ATGTAAGACCATATCTGAGATAT
1 GTGTAAGACCATATCTGGGATAT
12522358 GGCACTGGTA
Statistics
Matches: 94, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 60 0.64
43 34 0.36
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATAGCATCGATATGAGATTTC
Found at i:12524966 original size:33 final size:32
Alignment explanation
Indices: 12524929--12525006 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 32
12524919 TGGTCCAATC
* * * *
12524929 ATGGTCTTACGTCCATAGTGCCATAACCCAGTT
1 ATGGTCTTACAT-CAGAATGCCATAACCCAGCT
*
12524962 ATGGTCTTATCATCAGAATGCCATAGCCCAGCT
1 ATGGTCTTA-CATCAGAATGCCATAACCCAGCT
12524995 ATGGTCTTACAT
1 ATGGTCTTACAT
12525007 ATAAACACTG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
32 3 0.08
33 34 0.87
34 2 0.05
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (32 bp):
ATGGTCTTACATCAGAATGCCATAACCCAGCT
Found at i:12525019 original size:101 final size:101
Alignment explanation
Indices: 12524843--12525034 Score: 321
Period size: 101 Copynumber: 1.9 Consensus size: 101
12524833 TTTACATTTG
* * * *
12524843 TAGTGCCATAACCCGGTTATGGTTTTATCATCAGAATGTCATAGCCCACCTATGGTCTTAGATAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCACCTATGGTCTTACATAT
* *
12524908 AAACATTGCCATGGTCCAATCATGGTCTTACGTCCA
66 AAACACTGCCATGGTCCAACCATGGTCTTACGTCCA
*
12524944 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCACCTATGGTCTTACATAT
12525009 AAACACTGCCATGGTCCAACCATGGT
66 AAACACTGCCATGGTCCAACCATGGT
12525035 TTTATGTTTG
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 84 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (101 bp):
TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCACCTATGGTCTTACATAT
AAACACTGCCATGGTCCAACCATGGTCTTACGTCCA
Found at i:12539080 original size:16 final size:15
Alignment explanation
Indices: 12539050--12539299 Score: 86
Period size: 14 Copynumber: 16.6 Consensus size: 15
12539040 ACCTTATTTT
*
12539050 TATATTA-TATATTA
1 TATATTATTTTATTA
12539064 TATAATTATTTTATTA
1 TAT-ATTATTTTATTA
12539080 TATATTATTTATATTA
1 TATATTATTT-TATTA
12539096 T-TATTA-TTTATTA
1 TATATTATTTTATTA
* **
12539109 TATATTACTCTTCACGA
1 TATATTA-T-TTTATTA
* *
12539126 AATATTA--TTATTT
1 TATATTATTTTATTA
* *
12539139 TACATTATTAT-TTA
1 TATATTATTTTATTA
12539153 TATATTA--TTA-T-
1 TATATTATTTTATTA
*
12539164 TATA-T-TTTTACTTG
1 TATATTATTTTA-TTA
*
12539178 TATAATATATTTA-T-
1 TATATTAT-TTTATTA
12539192 TA-ATTATTTATATATA
1 TATATTATTT-TAT-TA
*
12539208 TTATATTATTTTTACATA
1 -TATATTA-TTTTA-TTA
12539226 TATACTTTCATATTATATTA
1 TATA--TT-AT-TT-TATTA
12539246 TA-ATTATATTATATTA
1 TATATTAT-TT-TATTA
**
12539262 TAT-TTATACTATTA
1 TATATTATTTTATTA
12539276 TATATT-TTTTATCTA
1 TATATTATTTTAT-TA
12539291 TATATTATT
1 TATATTATT
12539300 ATCATTAAAG
Statistics
Matches: 179, Mismatches: 22, Indels: 68
0.67 0.08 0.25
Matches are distributed among these distances:
10 1 0.01
11 7 0.04
12 4 0.02
13 20 0.11
14 36 0.20
15 30 0.17
16 35 0.20
17 22 0.12
18 8 0.04
19 7 0.04
20 7 0.04
21 2 0.01
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (15 bp):
TATATTATTTTATTA
Found at i:12539088 original size:3 final size:3
Alignment explanation
Indices: 12539043--12539115 Score: 55
Period size: 3 Copynumber: 24.0 Consensus size: 3
12539033 ATTTTTAACC
* *
12539043 TTA TTT TTA -TA TTA TATA TTA -TA TAA TTA TT- TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
12539087 TT- TATA TTA TTA TTA TTTA TTA TATA TTA
1 TTA T-TA TTA TTA TTA -TTA TTA T-TA TTA
12539116 CTCTTCACGA
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
2 7 0.12
3 37 0.65
4 13 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:12539160 original size:11 final size:11
Alignment explanation
Indices: 12539144--12539299 Score: 67
Period size: 11 Copynumber: 13.6 Consensus size: 11
12539134 TATTTTACAT
12539144 TATTATTTATA
1 TATTATTTATA
12539155 TATTATTATTATA
1 TATTA-T-TTATA
*
12539168 TTTTTACTTGTATA
1 -TATTA-TT-TATA
12539182 -ATATATTTAT-
1 TAT-TATTTATA
12539192 TAATTATTTATA
1 T-ATTATTTATA
12539204 TA-TA-TTATA
1 TATTATTTATA
*
12539213 TTATT-TTTACA
1 -TATTATTTATA
*
12539224 TATATACTTT-CA
1 TAT-TA-TTTATA
12539236 TATTATATTATA
1 TATTAT-TTATA
12539248 -ATTATATTATA
1 TATTAT-TTATA
12539259 T-TATATTTATA
1 TAT-TATTTATA
* *
12539270 CTATTATATATT
1 -TATTATTTATA
* *
12539282 TTTTATCTATA
1 TATTATTTATA
12539293 TATTATT
1 TATTATT
12539300 ATCATTAAAG
Statistics
Matches: 113, Mismatches: 12, Indels: 40
0.68 0.07 0.24
Matches are distributed among these distances:
9 5 0.04
10 8 0.07
11 56 0.50
12 23 0.20
13 12 0.11
14 9 0.08
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (11 bp):
TATTATTTATA
Found at i:12539162 original size:30 final size:30
Alignment explanation
Indices: 12539044--12539301 Score: 99
Period size: 30 Copynumber: 8.3 Consensus size: 30
12539034 TTTTTAACCT
*
12539044 TATTTTTATATTATATATTATATAATTATTTTA
1 TATTATTAT-TTATATATTAT-T-ATTATTTTA
*
12539077 TTATATATTATTTATATTATTATTATTTATTATA
1 -TAT-TATTATTTATA-TATTATTA-TTATTTTA
* * * * *
12539111 TATTACTCTTCACGA-AATATTATTATTTTA
1 TATTATTATTTA-TATATTATTATTATTTTA
* *
12539141 CATTATTATTTATATATTATTATTATATT-
1 TATTATTATTTATATATTATTATTATTTTA
* *
12539170 T-TTACTTGTATAATATATTTATTAATTA-TTTA
1 TATTA-TTAT-TTATATA-TTATT-ATTATTTTA
* * *
12539202 TATATATTATATTAT-TTTTACATATATACTTTCA
1 TAT-TATTAT-TTATATATTA-TTAT-TA-TTTTA
*
12539236 TATTA-TA-TTATA-ATTA-TATTATATTA
1 TATTATTATTTATATATTATTATTATTTTA
*
12539262 TATT-TATACTATTATATATT-TT-TTATCTATA
1 TATTAT-TA-T-TTATATATTATTATTAT-TTTA
12539293 TATTATTAT
1 TATTATTAT
12539302 CATTAAAGGT
Statistics
Matches: 169, Mismatches: 29, Indels: 56
0.67 0.11 0.22
Matches are distributed among these distances:
26 7 0.04
27 4 0.02
28 6 0.04
29 4 0.02
30 50 0.30
31 30 0.18
32 18 0.11
33 15 0.09
34 24 0.14
35 11 0.07
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (30 bp):
TATTATTATTTATATATTATTATTATTTTA
Found at i:12539246 original size:48 final size:47
Alignment explanation
Indices: 12539142--12539287 Score: 126
Period size: 48 Copynumber: 3.1 Consensus size: 47
12539132 ATTATTTTAC
* *
12539142 ATTATTATTTATATATTATTAT-TATATTTTTACTTGTATAATATATTT
1 ATTATTATTTATATA-TATTATAT-TATTTTTACATATATAATATATTT
* *
12539190 ATTAATTATTTATATATATTATATTATTTTTACATATATACTTTCATATT
1 ATT-ATTATTTATATATATTATATTATTTTTACATATATAATAT-AT-TT
*
12539240 A-TATTA-TAAT-TATATTATATTATATTTATAC-TAT-T-ATATATTT
1 ATTATTATTTATATATATTATATTAT-TTT-TACATATATAATATATTT
*
12539283 TTTAT
1 ATTAT
12539288 CTATATATTA
Statistics
Matches: 83, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
43 2 0.02
44 5 0.06
45 2 0.02
46 14 0.17
47 9 0.11
48 32 0.39
49 16 0.19
50 3 0.04
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (47 bp):
ATTATTATTTATATATATTATATTATTTTTACATATATAATATATTT
Found at i:12539465 original size:21 final size:23
Alignment explanation
Indices: 12539440--12539498 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
12539430 ATCATTAATT
*
12539440 ACTTATTTTATAT-TATTCTA-A
1 ACTTATTTTATATATATTATATA
12539461 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTATATATATTATATA
12539485 A-TTATTTTAT-TATA
1 ACTTATTTTATATATA
12539499 AATATAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 10 0.29
24 2 0.06
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (23 bp):
ACTTATTTTATATATATTATATA
Found at i:12539572 original size:18 final size:19
Alignment explanation
Indices: 12539551--12539597 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
12539541 TTCTAAACCA
12539551 ATATATTTTTTATT-TTAT
1 ATATATTTTTTATTCTTAT
* * *
12539569 ATATAATTATTATTCTTTT
1 ATATATTTTTTATTCTTAT
*
12539588 ATAAATTTTT
1 ATATATTTTT
12539598 GTTATTATAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
ATATATTTTTTATTCTTAT
Found at i:12550809 original size:14 final size:14
Alignment explanation
Indices: 12550792--12550821 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
12550782 TCTTCCATTA
12550792 TTCTTTAAAGTATG
1 TTCTTTAAAGTATG
12550806 TTCTTTAAAGTATG
1 TTCTTTAAAGTATG
12550820 TT
1 TT
12550822 GCATCGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (14 bp):
TTCTTTAAAGTATG
Found at i:12551684 original size:205 final size:205
Alignment explanation
Indices: 12551326--12552075 Score: 1115
Period size: 205 Copynumber: 3.7 Consensus size: 205
12551316 CTGAAGCAAT
* *
12551326 ATCCAAGATGGTTCGGCATCCTTGTGCTTACAAGGAGA-AAATCGAAGACATAGCTGATTTGGTT
1 ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGA-ACAAATCGAAGACATAGCTGATTTGGCT
* *
12551390 TTCGCGTGCTTAGGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
65 TTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
* * * ** *
12551455 TGAAGTCCGACATCTCTGCTTCGACGGAGGGTAGACACATAGCAGATCCAACCTTCAGATGTTTA
130 CGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTA
*
12551520 TACTGAAGTAG
195 TACTAAAGTAG
*
12551531 ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTT
1 ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTT
* *
12551596 TCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGACATCTCTGTATTGTCAGAGAACAAATC
66 TCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
* *
12551661 AAAGTCTGGCATATCCACTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTAT
131 GAAGTCTGGCATCTCCACTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTAT
12551726 ACTAAAGTAG
196 ACTAAAGTAG
* * * * *
12551736 ATCCAAGATGGTTTGGTATCCTTGTGATTACAAGGAACAAATCAAAGACATAGTTGATTTGGTTT
1 ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTT
* * *
12551801 TCGCATGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
66 TCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
* ** * * * * *
12551866 GAAGTTTGGGGTCTCCATATTCGACAGAGGGCAGACACATAACAGATCTAACCTTCAGATGATTA
131 GAAGTCTGGCATCTCCA-CTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTA
* *
12551931 GACTAAAGCAG
195 TACTAAAGTAG
* * *
12551942 ATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGTTGATTTGACTT
1 ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTT
* * *
12552007 TCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATT
66 TCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
12552072 GAAG
131 GAAG
12552076 AAGCAGATTT
Statistics
Matches: 494, Mismatches: 49, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
205 319 0.65
206 175 0.35
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (205 bp):
ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTT
TCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
GAAGTCTGGCATCTCCACTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTAT
ACTAAAGTAG
Found at i:12553656 original size:18 final size:18
Alignment explanation
Indices: 12553632--12553725 Score: 71
Period size: 19 Copynumber: 4.8 Consensus size: 18
12553622 ATAGATATAA
12553632 ATTTTATTATTATTATTT
1 ATTTTATTATTATTATTT
* *
12553650 GTTTTATTTTTAACCTTATTTTT
1 ATTTTATTATT-A--TTA--TTT
* *
12553673 ATATTATATATTATATAATT
1 ATTTTAT-TATTAT-TATTT
12553693 ATTTTATTATATATTATTT
1 ATTTTATTAT-TATTATTT
*
12553712 ATATTATTATTATT
1 ATTTTATTATTATT
12553726 TATTATATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
18 13 0.22
19 17 0.29
20 11 0.19
21 4 0.07
22 2 0.03
23 9 0.15
24 3 0.05
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (18 bp):
ATTTTATTATTATTATTT
Found at i:12553702 original size:16 final size:15
Alignment explanation
Indices: 12553672--12553920 Score: 104
Period size: 16 Copynumber: 15.6 Consensus size: 15
12553662 ACCTTATTTT
*
12553672 TATATTA-TATATTA
1 TATATTATTTTATTA
12553686 TATAATTATTTTATTA
1 TAT-ATTATTTTATTA
12553702 TATATTATTTATATTA
1 TATATTATTT-TATTA
12553718 T-TATTA-TTTATTA
1 TATATTATTTTATTA
**
12553731 TATATTACTTTTCACGA
1 TATATTA-TTTT-ATTA
*
12553748 AATATTATTATT-TTA
1 TATATTATT-TTATTA
*
12553763 CATTATTA-TTTA-TA
1 TA-TATTATTTTATTA
*
12553777 TATTATTATATTTTTACTTG
1 TA-TA-T-TA-TTTTA-TTA
*
12553797 TATAATATATTTATTA
1 TATATTAT-TTTATTA
*
12553813 -ATTATTTATATATATTA
1 TA-TA-TTAT-TTTATTA
*
12553830 TATATTATTTTTACATA
1 TATATTA-TTTTA-TTA
12553847 TATACTTTCATATTATATTA
1 TATA--TT-AT-TT-TATTA
12553867 TA-ATTATTTTA-TA
1 TATATTATTTTATTA
**
12553880 TTATATTTATACTATTA
1 -TATA-TTATTTTATTA
12553897 TATATT-TTTTATCTA
1 TATATTATTTTAT-TA
12553912 TATATTATT
1 TATATTATT
12553921 ATCATTAAAG
Statistics
Matches: 182, Mismatches: 20, Indels: 64
0.68 0.08 0.24
Matches are distributed among these distances:
13 8 0.04
14 26 0.14
15 34 0.19
16 52 0.29
17 39 0.21
18 5 0.03
19 6 0.03
20 10 0.05
21 2 0.01
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (15 bp):
TATATTATTTTATTA
Found at i:12553707 original size:30 final size:30
Alignment explanation
Indices: 12553672--12553919 Score: 102
Period size: 30 Copynumber: 8.3 Consensus size: 30
12553662 ACCTTATTTT
12553672 TATATTATATATTATATAATTATTTTATTA
1 TATATTATATATTATATAATTATTTTATTA
12553702 TATATTATTTATATTAT-T-ATTA-TTTATTA
1 TATATTA--TATATTATATAATTATTTTATTA
* *
12553731 TATATTACT-T-TTCACGA-AA-TATTATTATTT
1 TATATTA-TATATT-A-TATAATTATT-TTATTA
* *
12553761 TACATTAT-TATT-TATATATTATTATATT-
1 TATATTATATATTATATA-ATTATTTTATTA
* * * *
12553789 TTTACTTGTATA--ATATATTTA-TTAATTA
1 TATA-TTATATATTATATAATTATTTTATTA
* *
12553817 TTTA-TATATATTATAT-ATTATTTTTACATA
1 TATATTATATATTATATAATTA-TTTTA-TTA
12553847 TATACTT-TCATATTATATTATAATTATTTTA-TA
1 TATA-TTAT-ATA-T-TA-TATAATTATTTTATTA
12553880 TTATATTTATACTATTATAT-ATT-TTTTATCTA
1 -TATA-TTATA-TATTATATAATTATTTTAT-TA
12553912 TATATTAT
1 TATATTAT
12553920 TATCATTAAA
Statistics
Matches: 167, Mismatches: 18, Indels: 66
0.67 0.07 0.26
Matches are distributed among these distances:
26 7 0.04
27 10 0.06
28 17 0.10
29 33 0.20
30 44 0.26
31 9 0.05
32 17 0.10
33 5 0.03
34 10 0.06
35 11 0.07
36 4 0.02
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (30 bp):
TATATTATATATTATATAATTATTTTATTA
Found at i:12553710 original size:3 final size:3
Alignment explanation
Indices: 12553665--12553737 Score: 55
Period size: 3 Copynumber: 24.0 Consensus size: 3
12553655 ATTTTTAACC
* *
12553665 TTA TTT TTA -TA TTA TATA TTA -TA TAA TTA TT- TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
12553709 TT- TATA TTA TTA TTA TTTA TTA TATA TTA
1 TTA T-TA TTA TTA TTA -TTA TTA T-TA TTA
12553738 CTTTTCACGA
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
2 7 0.12
3 37 0.65
4 13 0.23
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:12553733 original size:50 final size:49
Alignment explanation
Indices: 12553665--12553922 Score: 139
Period size: 50 Copynumber: 5.2 Consensus size: 49
12553655 ATTTTTAACC
*
12553665 TTATTTTTATATTA-TATATTATATAATTATTTTATTATATATTATTTATA
1 TTATTATTAT-TTATTATATTATAT-ATTATTTTATTATATATTATTTATA
* * ** * *
12553715 TTATTATTATTTATTATA-TAT-TACT-TTTCACGAAATATTA-TTATT
1 TTATTATTATTTATTATATTATATATTATTTTATTATATATTATTTATA
* *
12553760 TTACATTATTATTTA-TATATTAT-TA-TATTTTTACTTGTATA--ATATAT-
1 TT--ATTATTATTTATTATATTATATATTA-TTTTA-TTATATATTATTTATA
*
12553807 TTATTAATTATTTATATATATTATATATTATTTTTACATATATACTTTCATATTATA
1 TTATT-ATTATTTAT-TATATTATATATTA-TTTTA-TTATATA--TT-AT-TTATA
* ** *
12553864 TTATAATTA-TT-TTATATTATAT-TTATACTATTATATATTTTTTATCTA
1 TTATTATTATTTATTATATTATATATTATTTTATTATATATTATTTA--TA
12553912 TATATTATTAT
1 T-TATTATTAT
12553923 CATTAAAGGT
Statistics
Matches: 162, Mismatches: 22, Indels: 48
0.70 0.09 0.21
Matches are distributed among these distances:
45 9 0.06
46 27 0.17
47 22 0.14
48 21 0.13
49 18 0.11
50 33 0.20
51 3 0.02
52 3 0.02
53 10 0.06
54 1 0.01
55 4 0.02
56 7 0.04
57 4 0.02
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (49 bp):
TTATTATTATTTATTATATTATATATTATTTTATTATATATTATTTATA
Found at i:12553800 original size:24 final size:24
Alignment explanation
Indices: 12553773--12553850 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
12553763 CATTATTATT
*
12553773 TATATATTATTATATTTTTACTTG
1 TATATATTATTATATTTTTACTTA
* *
12553797 TATA-ATATATT-TATTAATTATTTA
1 TATATAT-TATTATATT-TTTACTTA
*
12553821 TATATATTATATATTATTTTTACATA
1 TATATATTAT-TA-TATTTTTACTTA
12553847 TATA
1 TATA
12553851 CTTTCATATT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
23 6 0.14
24 20 0.48
25 3 0.07
26 9 0.21
27 4 0.10
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (24 bp):
TATATATTATTATATTTTTACTTA
Found at i:12553808 original size:112 final size:112
Alignment explanation
Indices: 12553686--12553905 Score: 258
Period size: 112 Copynumber: 2.0 Consensus size: 112
12553676 TTATATATTA
* *
12553686 TATAATTATTTTATT-A-TATATTATTTATATTAT-TATTATTTATTATATAT-TACTTTTCACG
1 TATAATTA-TTTATTAATTAT-TTATATATATTATATATTATTT-TTACATATATAC-TTTCA-G
*
12553747 A-A-A-TATTATTATTTTACATTATTATTTATA-TATTATTATATTTTTACTTG
61 ATATATTATAATTATTTTACATTA-TATTTATACTATTA-TATATTTTTACTTG
*
12553797 TATAATATATTTATTAATTATTTATATATATTATATATTATTTTTACATATATACTTTCATATTA
1 TATAAT-TATTTATTAATTATTTATATATATTATATATTATTTTTACATATATACTTTCAGA-TA
*
12553862 TATTATAATTATTTTATATTATATTTATACTATTATATATTTTT
64 TATTATAATTATTTTACATTATATTTATACTATTATATATTTTT
12553906 TATCTATATA
Statistics
Matches: 94, Mismatches: 5, Indels: 17
0.81 0.04 0.15
Matches are distributed among these distances:
111 13 0.14
112 27 0.29
113 15 0.16
114 18 0.19
115 21 0.22
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (112 bp):
TATAATTATTTATTAATTATTTATATATATTATATATTATTTTTACATATATACTTTCAGATATA
TTATAATTATTTTACATTATATTTATACTATTATATATTTTTACTTG
Found at i:12554086 original size:21 final size:23
Alignment explanation
Indices: 12554061--12554119 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
12554051 ATCATTAATT
*
12554061 ACTTATTTTATAT-TATTTTA-A
1 ACTTATTTTATATATATTATATA
12554082 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTATATATATTATATA
12554106 A-TTATTTTAT-TATA
1 ACTTATTTTATATATA
12554120 AATATAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 10 0.29
24 2 0.06
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (23 bp):
ACTTATTTTATATATATTATATA
Found at i:12578673 original size:20 final size:20
Alignment explanation
Indices: 12578635--12578673 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12578625 TAAGATTTAA
* *
12578635 TTTTTTTTAAGTTTCATTTG
1 TTTTGTTTAAATTTCATTTG
*
12578655 TTTTGTTTAAATTTTATTT
1 TTTTGTTTAAATTTCATTT
12578674 TTATGTTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.08, T:0.72
Consensus pattern (20 bp):
TTTTGTTTAAATTTCATTTG
Found at i:12588921 original size:109 final size:110
Alignment explanation
Indices: 12588797--12589047 Score: 357
Period size: 109 Copynumber: 2.3 Consensus size: 110
12588787 ATTTCTATGA
*
12588797 ATTTGTTGAGTTTATTTATTTCAAAATTTATTACATTAGTGTAGATTTGAATTCTTAGATTTTGG
1 ATTTGTTGAGTTTATTTATTTCAAAATTTATTACATTAGTGTAGATTCGAATTCTTAGATTTT-G
*
12588862 T-GATTAGTAGATATACCATTAAAGGTTTTAAAATTTTAATTTG-G
65 TAGATTACTAGATATACCATTAAAGGTTTTAAAATTTTAATTTGAG
* * *
12588906 ATTTGTTGAGTTTATTTATTTCAAAATTTTTTACATTAGTTTAGATTCGAATTCTTAGATTTTTT
1 ATTTGTTGAGTTTATTTATTTCAAAATTTATTACATTAGTGTAGATTCGAATTCTTAGATTTTGT
* * * *
12588971 AGATTACTAGATGTACCATTAAAGGTTTTAAATTTTTATTTTGAAT
66 AGATTACTAGATATACCATTAAAGGTTTTAAAATTTTAATTTG-AG
*
12589017 ATTTCTTTGAGTTTATTT-TTT-AAAATTTATT
1 ATTT-GTTGAGTTTATTTATTTCAAAATTTATT
12589048 TTCAACATAA
Statistics
Matches: 127, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
108 1 0.01
109 98 0.77
110 9 0.07
111 7 0.06
112 12 0.09
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.52
Consensus pattern (110 bp):
ATTTGTTGAGTTTATTTATTTCAAAATTTATTACATTAGTGTAGATTCGAATTCTTAGATTTTGT
AGATTACTAGATATACCATTAAAGGTTTTAAAATTTTAATTTGAG
Found at i:12593233 original size:48 final size:48
Alignment explanation
Indices: 12593160--12593390 Score: 190
Period size: 48 Copynumber: 4.9 Consensus size: 48
12593150 AGGATATGCA
* *
12593160 TGATCCCATGTAAGATCATGCCTGGGACATGGCATTGGCATCGATGTG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATGTG
* * *
12593208 TGATCCCATGTAAGACCATGTCTGGGACATGTCATTGGCAT-TAAGATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATG-TG
* ** * * * **
12593256 AGA-CATTATGTAAGAGCATAG-CTAGG-CTATCGGC-TTCG-AT--ATGCA
1 TGATC-CCATGTAAGACCAT-GTCTGGGAC-AT-GGCATTGGCATCGATGTG
* *
12593301 TGACCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATGTG
* * * *
12593349 TGATCCCATGAAAGACCATATCTGGGATATGGAATTGGCATC
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
12593391 CTACTATGTG
Statistics
Matches: 142, Mismatches: 29, Indels: 24
0.73 0.15 0.12
Matches are distributed among these distances:
44 4 0.03
45 22 0.15
46 6 0.04
47 6 0.04
48 101 0.71
49 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATGTG
Found at i:12601924 original size:258 final size:258
Alignment explanation
Indices: 12601467--12601986 Score: 995
Period size: 258 Copynumber: 2.0 Consensus size: 258
12601457 GTTTCACAGT
12601467 TTCATCTTCCTTCATCTTTAGATTTTCAAAGTCCCTTCTCAAATTCAATAGCTGTTGCTATCTTG
1 TTCATCTTCCTTCATCTTTAGATTTTCAAAGTCCCTTCTCAAATTCAATAGCTGTTGCTATCTTG
*
12601532 TTCTTCCAATCCATTGGAACTCCTCTTTCAGCCTATCCCTGGCTTGCTTTGGTGACTCACAAGCC
66 TTCTTCCAATCCATTGGAACTCCTCTTTCAGCCTATCCCAGGCTTGCTTTGGTGACTCACAAGCC
12601597 ATGATTCTTGTGAAGATCACATCAGACACACTGTTTTGGATGCATGACATGGCCTTGTGTCTTTT
131 ATGATTCTTGTGAAGATCACATCAGACACACTGTTTTGGATGCATGACATGGCCTTGTGTCTTTT
12601662 GGTTCTTTCATCTACATGCTGTCTTATCTAAGCCACTATTGGATTGGCTCTTAAAGGAGCTGG
196 GGTTCTTTCATCTACATGCTGTCTTATCTAAGCCACTATTGGATTGGCTCTTAAAGGAGCTGG
*
12601725 TTCATCTTCCTTCATCTTTAGATTTTCAAAGTCCCTTCTCAAATTCAGTAGCTGTTGCTATCTTG
1 TTCATCTTCCTTCATCTTTAGATTTTCAAAGTCCCTTCTCAAATTCAATAGCTGTTGCTATCTTG
*
12601790 TTCTTCCAATCCATTGGAACTCTTCTTTCAGCCTATCCCAGGCTTGCTTTGGTGACTCACAAGCC
66 TTCTTCCAATCCATTGGAACTCCTCTTTCAGCCTATCCCAGGCTTGCTTTGGTGACTCACAAGCC
*
12601855 ATGATTCTTGTGAAGATCATATCAGACACACTGTTTTGGATGCATGACATGGCCTTGTGTCTTTT
131 ATGATTCTTGTGAAGATCACATCAGACACACTGTTTTGGATGCATGACATGGCCTTGTGTCTTTT
*
12601920 GGTTCTTTCATCTACATGCTGTCTTATCTAAGCCACTATTGGATTGGCTCTTAAAGGTGCTGG
196 GGTTCTTTCATCTACATGCTGTCTTATCTAAGCCACTATTGGATTGGCTCTTAAAGGAGCTGG
12601983 TTCA
1 TTCA
12601987 ACATCTGAGT
Statistics
Matches: 257, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
258 257 1.00
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.38
Consensus pattern (258 bp):
TTCATCTTCCTTCATCTTTAGATTTTCAAAGTCCCTTCTCAAATTCAATAGCTGTTGCTATCTTG
TTCTTCCAATCCATTGGAACTCCTCTTTCAGCCTATCCCAGGCTTGCTTTGGTGACTCACAAGCC
ATGATTCTTGTGAAGATCACATCAGACACACTGTTTTGGATGCATGACATGGCCTTGTGTCTTTT
GGTTCTTTCATCTACATGCTGTCTTATCTAAGCCACTATTGGATTGGCTCTTAAAGGAGCTGG
Found at i:12610983 original size:46 final size:46
Alignment explanation
Indices: 12610916--12611031 Score: 139
Period size: 46 Copynumber: 2.5 Consensus size: 46
12610906 AGACTCACCA
* * *
12610916 CAGCTCGTAAA-AGCTTACTGTTTCAACTCATTGGAGCTTACTGATT-
1 CAGCTCG-AAAGAGCTTACTGTTT-AACTCAATAGAGCTTACCGATTC
* *
12610962 CAGCTCGAAAGAGCTTACTGTTTAGCTCAATAGAGCTTACCGTTTC
1 CAGCTCGAAAGAGCTTACTGTTTAACTCAATAGAGCTTACCGATTC
12611008 CAGCTC-AATAGAGCTTACTGTTTA
1 CAGCTCGAA-AGAGCTTACTGTTTA
12611032 TCATTTCAGT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
45 22 0.35
46 40 0.65
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (46 bp):
CAGCTCGAAAGAGCTTACTGTTTAACTCAATAGAGCTTACCGATTC
Found at i:12611017 original size:24 final size:23
Alignment explanation
Indices: 12610927--12611030 Score: 131
Period size: 23 Copynumber: 4.5 Consensus size: 23
12610917 AGCTCGTAAA
* * *
12610927 AGCTTACTGTTTCAACTCATTGG
1 AGCTTACTGTTTCAGCTCAATAG
*
12610950 AGCTTACTGATTCAGCTCGAA-AG
1 AGCTTACTGTTTCAGCTC-AATAG
12610973 AGCTTACTGTTT-AGCTCAATAG
1 AGCTTACTGTTTCAGCTCAATAG
*
12610995 AGCTTACCGTTTCCAGCTCAATAG
1 AGCTTACTGTTT-CAGCTCAATAG
12611019 AGCTTACTGTTT
1 AGCTTACTGTTT
12611031 ATCATTTCAG
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.03
22 18 0.26
23 28 0.40
24 22 0.31
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (23 bp):
AGCTTACTGTTTCAGCTCAATAG
Found at i:12611071 original size:50 final size:45
Alignment explanation
Indices: 12610916--12611071 Score: 113
Period size: 46 Copynumber: 3.3 Consensus size: 45
12610906 AGACTCACCA
* * * * *
12610916 CAGCTCGTAAA-AGCTTACTGTTTCAACTCATTGGAGCTTACTG-ATT
1 CAGCTCG-AAAGAGCTTACTGTTT-AGCTCAATAGAGCTTACCGTA-C
*
12610962 CAGCTCGAAAGAGCTTACTGTTTAGCTCAATAGAGCTTACCGTTTC
1 CAGCTCGAAAGAGCTTACTGTTTAGCTCAATAGAGCTTACCG-TAC
* *
12611008 CAGCTC-AATAGAGCTTACTGTTTATCATTTCAGTAAGAGCTTACCG-AC
1 CAGCTCGAA-AGAGCTTACTGTTTAGC---TCAAT-AGAGCTTACCGTAC
12611056 CATGACTCGAAAGAGC
1 CA-G-CTCGAAAGAGC
12611072 ATGTGTGATG
Statistics
Matches: 90, Mismatches: 9, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
45 20 0.22
46 41 0.46
48 3 0.03
49 5 0.06
50 19 0.21
51 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (45 bp):
CAGCTCGAAAGAGCTTACTGTTTAGCTCAATAGAGCTTACCGTAC
Found at i:12615653 original size:19 final size:20
Alignment explanation
Indices: 12615610--12615665 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
12615600 ATTGGGTCTT
12615610 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
12615630 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
12615649 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
12615666 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:12619596 original size:28 final size:27
Alignment explanation
Indices: 12619553--12619659 Score: 74
Period size: 28 Copynumber: 3.7 Consensus size: 27
12619543 GAATTTAGTG
12619553 TTAA-CTGGGCCTTAGCCCATATCAGTA
1 TTAATCTGGGCC-TAGCCCATATCAGTA
*
12619580 TTAATCTGGGCCATAGCCC-TATTACATTA
1 TTAATCTGGGCC-TAGCCCATA-T-CAGTA
*
12619609 TCAGAGCATACTGGGCCTAGCCCATATCAGTA
1 T--TA--AT-CTGGGCCTAGCCCATATCAGTA
* *
12619641 TCAGTCTGGGCCGTAGCCC
1 TTAATCTGGGCC-TAGCCC
12619660 TATTACAAGT
Statistics
Matches: 64, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
27 13 0.20
28 21 0.33
29 5 0.08
30 1 0.02
31 1 0.02
32 5 0.08
33 9 0.14
34 9 0.14
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (27 bp):
TTAATCTGGGCCTAGCCCATATCAGTA
Found at i:12619713 original size:20 final size:20
Alignment explanation
Indices: 12619688--12619727 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12619678 ATTGGGTCTT
12619688 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
12619708 GCCCATTTTAATACAGTTGG
1 GCCCATATTAACACAGTTGG
12619728 CCCTTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:12622518 original size:3 final size:3
Alignment explanation
Indices: 12622510--12622536 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12622500 AACACCACAT
12622510 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
12622537 CCATAGCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:12627194 original size:12 final size:12
Alignment explanation
Indices: 12627173--12627218 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
12627163 TCACAAACAA
*
12627173 GCTCGCTTATTG
1 GCTCGTTTATTG
**
12627185 GCTCGTTTATAA
1 GCTCGTTTATTG
12627197 GCTCGTTTATTG
1 GCTCGTTTATTG
*
12627209 ACTCGTTTAT
1 GCTCGTTTAT
12627219 GACTCATTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (12 bp):
GCTCGTTTATTG
Found at i:12627198 original size:24 final size:24
Alignment explanation
Indices: 12627171--12627218 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
12627161 GTTCACAAAC
*
12627171 AAGCTCGCTTATTGGCTCGTTTAT
1 AAGCTCGCTTATTGACTCGTTTAT
*
12627195 AAGCTCGTTTATTGACTCGTTTAT
1 AAGCTCGCTTATTGACTCGTTTAT
12627219 GACTCATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (24 bp):
AAGCTCGCTTATTGACTCGTTTAT
Found at i:12627223 original size:11 final size:11
Alignment explanation
Indices: 12627186--12627229 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
12627176 CGCTTATTGG
*
12627186 CTCGTTTATAA
1 CTCGTTTATGA
12627197 GCTCGTTTATTGA
1 -CTCGTTTA-TGA
12627210 CTCGTTTATGA
1 CTCGTTTATGA
*
12627221 CTCATTTAT
1 CTCGTTTAT
12627230 TAATGATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 11 0.38
12 16 0.55
13 2 0.07
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (11 bp):
CTCGTTTATGA
Found at i:12634320 original size:46 final size:46
Alignment explanation
Indices: 12634268--12634359 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
12634258 CTTAACAATG
12634268 AATCATCTCTCAATGATTTAAGAAAATAGTTGACTAAATTTCTTTC
1 AATCATCTCTCAATGATTTAAGAAAATAGTTGACTAAATTTCTTTC
12634314 AATCATCTCTCAATGATTTAAGAAAATAGTTGACTAAATTTCTTTC
1 AATCATCTCTCAATGATTTAAGAAAATAGTTGACTAAATTTCTTTC
12634360 TTCTTCAGGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (46 bp):
AATCATCTCTCAATGATTTAAGAAAATAGTTGACTAAATTTCTTTC
Found at i:12635040 original size:53 final size:53
Alignment explanation
Indices: 12634955--12635059 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
12634945 TCGTTTTTCT
*
12634955 CAAGAATTCAAACCAAGCATCAAATGGAGTCTT-TCTCTCCTGCACAGCCTTGA
1 CAAGAATTCAAACCAAGCATCAAATGGAGTCTTCTC-CTCCTGCACAACCTTGA
* * *
12635008 CAAGCATTCAAACCAAGCTTCAAATGGAGTCTTCTCCTCCTTCACAACCTTG
1 CAAGAATTCAAACCAAGCATCAAATGGAGTCTTCTCCTCCTGCACAACCTTG
12635060 GTTGGCAATC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
53 45 0.96
54 2 0.04
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.26
Consensus pattern (53 bp):
CAAGAATTCAAACCAAGCATCAAATGGAGTCTTCTCCTCCTGCACAACCTTGA
Found at i:12637942 original size:33 final size:33
Alignment explanation
Indices: 12637898--12637963 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
12637888 GCGTTCTTAG
*
12637898 TTAGATTAGTTTAGTAATTTTAGGTTAAAAACA
1 TTAGATAAGTTTAGTAATTTTAGGTTAAAAACA
12637931 TTAGATAAGTTTAGTAATTTTAGGTTAAAAACA
1 TTAGATAAGTTTAGTAATTTTAGGTTAAAAACA
12637964 ATCACTCCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (33 bp):
TTAGATAAGTTTAGTAATTTTAGGTTAAAAACA
Found at i:12641430 original size:34 final size:34
Alignment explanation
Indices: 12641387--12641459 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
12641377 TTACAAAAAC
12641387 TCAGTGTGAAATCCCCTACTATAAAAAGGAACAG
1 TCAGTGTGAAATCCCCTACTATAAAAAGGAACAG
12641421 TCAGTGTGAAATCCCCTACTATAAAAAGGAACAG
1 TCAGTGTGAAATCCCCTACTATAAAAAGGAACAG
12641455 TCAGT
1 TCAGT
12641460 CATATAAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.22
Consensus pattern (34 bp):
TCAGTGTGAAATCCCCTACTATAAAAAGGAACAG
Found at i:12641600 original size:6 final size:6
Alignment explanation
Indices: 12641582--12641669 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
12641572 AAAAAACATT
* *
12641582 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
12641631 ATCAGA ATTAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
12641670 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 52 0.81
7 6 0.09
8 2 0.03
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:12641627 original size:31 final size:31
Alignment explanation
Indices: 12641591--12641669 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
12641581 TATCAGAACT
* *
12641591 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
12641622 AGAATCAGAATCAGAATTAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
12641653 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
12641670 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:12642108 original size:26 final size:27
Alignment explanation
Indices: 12642071--12642237 Score: 153
Period size: 27 Copynumber: 6.3 Consensus size: 27
12642061 AGGGCAAAAT
*
12642071 GGTAATTTTA-CCTCACA-AGGTATCTC
1 GGTAATTCTACCCT-ACAGAGGTATCTC
* *
12642097 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGAGGTATCTC
* * * *
12642124 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGAGGTATCTC
* * *
12642151 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGAGGTATCTC
*
12642178 GATAATTCTACCCTACAG-GGTAT-TGC
1 GGTAATTCTACCCTACAGAGGTATCT-C
* * * *
12642204 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGAGGTATCTC
12642231 GGTAATT
1 GGTAATT
12642238 TTACAAGTCA
Statistics
Matches: 124, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
25 1 0.01
26 35 0.28
27 87 0.70
28 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGAGGTATCTC
Found at i:12642128 original size:27 final size:27
Alignment explanation
Indices: 12642089--12642291 Score: 191
Period size: 27 Copynumber: 7.6 Consensus size: 27
12642079 TACCTCACAA
* *
12642089 GGTATCTCGGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
*
12642116 GGTATTTCAGTAATTCTACCCTATAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* *
12642143 GGTATTTCGGTATTTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
12642170 GGTATTTC-GATAATTCTACCCTACA-G
1 GGTATTTCAG-TAATTCTACCCTACAGG
* *
12642196 GGTATTGC-GATAATTCTACCCTATAGG
1 GGTATTTCAG-TAATTCTACCCTACAGG
* * **
12642223 GGTATTTCGGTAATTTTACAAGT-CAGG
1 GGTATTTCAGTAATTCTAC-CCTACAGG
* * **
12642250 GGTATTTTAGTAATTTTA-CAAACCAGG
1 GGTATTTCAGTAATTCTACCCTA-CAGG
*
12642277 GGTATTTTAGTAATT
1 GGTATTTCAGTAATT
12642292 TTACAAACTA
Statistics
Matches: 151, Mismatches: 19, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
26 25 0.17
27 124 0.82
28 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTATTTCAGTAATTCTACCCTACAGG
Found at i:12642153 original size:54 final size:52
Alignment explanation
Indices: 12642072--12642237 Score: 208
Period size: 54 Copynumber: 3.1 Consensus size: 52
12642062 GGGCAAAATG
* * *
12642072 GTAATTTTA-CCTCACAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTTC
1 GTAATTCTACCCT-ACAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* *
12642124 AGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTC
1 -GTAATTCTACCCTACA-GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
* * *
12642178 GATAATTCTACCCTACAGGGTATTGCGATAATTCTACCCTATAGGGGTATTTC
1 G-TAATTCTACCCTACAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
12642231 GGTAATT
1 -GTAATT
12642238 TTACAAGTCA
Statistics
Matches: 99, Mismatches: 10, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
53 48 0.48
54 51 0.52
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (52 bp):
GTAATTCTACCCTACAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTC
Found at i:12642224 original size:53 final size:54
Alignment explanation
Indices: 12642099--12642237 Score: 201
Period size: 53 Copynumber: 2.6 Consensus size: 54
12642089 GGTATCTCGG
* * *
12642099 TAATTCTACCCTACAGGGGTATTTC-AGTAATTCTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA-TAATTCTACCCTACAGGGGTATTGCGA
*
12642153 TATTTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACA-GGGTATTGCGA
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTGCGA
* *
12642206 TAATTCTACCCTATAGGGGTATTTCGGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGATAATT
12642238 TTACAAGTCA
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 38 0.49
54 38 0.49
55 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (54 bp):
TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTGCGA
Found at i:12642250 original size:80 final size:81
Alignment explanation
Indices: 12642089--12642256 Score: 236
Period size: 80 Copynumber: 2.1 Consensus size: 81
12642079 TACCTCACAA
* * *
12642089 GGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGT
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTGCAGTAATTCTACCCTATAGGGGTATTTCGGT
*
12642154 ATTTCTACCCTACAGG
66 ATTTCTACACTACAGG
12642170 GGTATTTCGATAATTCTACCCTACA-GGGTATTGC-GATAATTCTACCCTATAGGGGTATTTCGG
1 GGTATTTCGATAATTCTACCCTACAGGGGTATTGCAG-TAATTCTACCCTATAGGGGTATTTCGG
*
12642233 TAATTT-TACAAGT-CAGG
65 T-ATTTCTAC-ACTACAGG
12642250 GGTATTT
1 GGTATTT
12642257 TAGTAATTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
79 1 0.01
80 50 0.63
81 28 0.35
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (81 bp):
GGTATTTCGATAATTCTACCCTACAGGGGTATTGCAGTAATTCTACCCTATAGGGGTATTTCGGT
ATTTCTACACTACAGG
Found at i:12642277 original size:80 final size:81
Alignment explanation
Indices: 12642099--12642282 Score: 200
Period size: 80 Copynumber: 2.3 Consensus size: 81
12642089 GGTATCTCGG
** * *
12642099 TAATTCTACCCTACAGGGGTATTTC-AGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACC
1 TAATTCTACCAAACAGGGGTATTGCGA-TAATTCTACCCTATAGGGGTATTTCGGTATTTCTACA
*
12642163 CTACAGGGGTATTTCGA
65 CTACAGGGGTATTTAGA
**
12642180 TAATTCTACCCTACA-GGGTATTGCGATAATTCTACCCTATAGGGGTATTTCGGTAATTT-TACA
1 TAATTCTACCAAACAGGGGTATTGCGATAATTCTACCCTATAGGGGTATTTCGGT-ATTTCTAC-
*
12642243 AGT-CAGGGGTATTTTAG-
64 ACTACAGGGGTA-TTTAGA
*
12642260 TAATTTTA-CAAACCAGGGGTATT
1 TAATTCTACCAAA-CAGGGGTATT
12642283 TTAGTAATTT
Statistics
Matches: 90, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
79 2 0.02
80 56 0.62
81 32 0.36
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (81 bp):
TAATTCTACCAAACAGGGGTATTGCGATAATTCTACCCTATAGGGGTATTTCGGTATTTCTACAC
TACAGGGGTATTTAGA
Found at i:12642292 original size:27 final size:27
Alignment explanation
Indices: 12642220--12642322 Score: 152
Period size: 27 Copynumber: 3.8 Consensus size: 27
12642210 TCTACCCTAT
** **
12642220 AGGGGTATTTCGGTAATTTTACAAGTC
1 AGGGGTATTTTAGTAATTTTACAAACC
12642247 AGGGGTATTTTAGTAATTTTACAAACC
1 AGGGGTATTTTAGTAATTTTACAAACC
*
12642274 AGGGGTATTTTAGTAATTTTACAAACT
1 AGGGGTATTTTAGTAATTTTACAAACC
*
12642301 AGGGGTATTTTGGTAATTTTAC
1 AGGGGTATTTTAGTAATTTTAC
12642323 TGATCGAGGG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 70 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTAGTAATTTTACAAACC
Done.