Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 71 of 135
Found at i:23470281 original size:9 final size:9
Alignment explanation
Indices: 23470254--23470290 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
23470244 GGTTGTGCAT
23470254 TTGAGAGAG
1 TTGAGAGAG
*
23470263 TTTGATAGAG
1 -TTGAGAGAG
23470273 TTGAGAGAG
1 TTGAGAGAG
23470282 TTGAGAGAG
1 TTGAGAGAG
23470291 ATTTGAGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.32, C:0.00, G:0.41, T:0.27
Consensus pattern (9 bp):
TTGAGAGAG
Found at i:23472798 original size:23 final size:24
Alignment explanation
Indices: 23472768--23472812 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
23472758 AACACAAGTT
* *
23472768 TTAAAATATATTTAAA-TAAATCA
1 TTAAAATAAACTTAAATTAAATCA
23472791 TTAAAATAAACTTAAATTAAAT
1 TTAAAATAAACTTAAATTAAAT
23472813 ATCCATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
TTAAAATAAACTTAAATTAAATCA
Found at i:23478531 original size:85 final size:85
Alignment explanation
Indices: 23478385--23478543 Score: 219
Period size: 85 Copynumber: 1.9 Consensus size: 85
23478375 TGCTTCATTG
* * * * * *
23478385 ATTTGGTTTACTTCTTTGTATCTCATCAGAAAGATGACCGCCTCATTGTTTCAATCGACTTCTCT
1 ATTTGGTTCACTTCTCTGTATCTCATCAGAAAGATGACCACCTCATTGCTTCAACCCACTTCTCT
23478450 GTATCTCATCAGAAAGACAA
66 GTATCTCATCAGAAAGACAA
* * * * *
23478470 ATTTGGTTCACTTCTCTGTATCTCGTCAGGAAGATGACCACTTTATTGCTTCAACCCACTTCTTT
1 ATTTGGTTCACTTCTCTGTATCTCATCAGAAAGATGACCACCTCATTGCTTCAACCCACTTCTCT
23478535 GTATCTCAT
66 GTATCTCAT
23478544 TAAGAAGATG
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 63 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (85 bp):
ATTTGGTTCACTTCTCTGTATCTCATCAGAAAGATGACCACCTCATTGCTTCAACCCACTTCTCT
GTATCTCATCAGAAAGACAA
Found at i:23478553 original size:208 final size:211
Alignment explanation
Indices: 23478171--23478632 Score: 657
Period size: 208 Copynumber: 2.2 Consensus size: 211
23478161 CATTCCACTT
* * *
23478171 ATTGTTTTGGTCTGCTTCTCTGTATCTCATTAGAAAGATGACCGCTTCATTGTGTTAATCCACTT
1 ATTGTTTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCGCCTCATTGTGTTAATCCACTT
* * * *
23478236 CTCTGTATCTCATCAGGAAGACGGATTTTGGGTTCACTTCTCTGCATTTCGTCAAGAAGATGACC
66 CTCTGTATCTCATCAGAAAGACGAAATTTGGGTTCACTTCTCTGCATCTCGTCAAGAAGATGACC
** * * * *
23478301 ACTTTATTGCTTTGACCTACTTTTTTGTATCTCATTAGGAAGATGGGGTTT-GAAGTCTCATTCG
131 ACTTTATTGCTTCAACCCACTTCTTTGTATCTCATTAAGAAGATGGGGTTTGGAAGTCTCACTC-
23478365 T-ATTGAGCTTT-GCTTC
195 TCATTGAG-TTTCGCTTC
* * * *
23478381 ATTGATTTGGTTTACTTCTTTGTATCTCATCAGAAAGATGACCGCCTCATTGT-TTCAATCGACT
1 ATTGTTTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCGCCTCATTGTGTT-AATCCACT
* *
23478445 TCTCTGTATCTCATCAGAAAGAC-AAATTT-GGTTCACTTCTCTGTATCTCGTCAGGAAGATGAC
65 TCTCTGTATCTCATCAGAAAGACGAAATTTGGGTTCACTTCTCTGCATCTCGTCAAGAAGATGAC
*
23478508 CACTTTATTGCTTCAACCCACTTCTTTGTATCTCATTAAGAAGATGGGGTTTGGAAGTTTCACTC
130 CACTTTATTGCTTCAACCCACTTCTTTGTATCTCATTAAGAAGATGGGGTTTGGAAGTCTCACTC
*
23478573 TCATTGAGTTTCTCTTC
195 TCATTGAGTTTCGCTTC
*
23478590 ATTGTTTTGGTCTACTTCTCTGTATGTCATCAGAAAGATGACC
1 ATTGTTTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACC
23478633 TTTTGAAGTT
Statistics
Matches: 223, Mismatches: 25, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
208 82 0.37
209 65 0.29
210 76 0.34
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (211 bp):
ATTGTTTTGGTCTACTTCTCTGTATCTCATCAGAAAGATGACCGCCTCATTGTGTTAATCCACTT
CTCTGTATCTCATCAGAAAGACGAAATTTGGGTTCACTTCTCTGCATCTCGTCAAGAAGATGACC
ACTTTATTGCTTCAACCCACTTCTTTGTATCTCATTAAGAAGATGGGGTTTGGAAGTCTCACTCT
CATTGAGTTTCGCTTC
Found at i:23490857 original size:29 final size:29
Alignment explanation
Indices: 23490825--23490884 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
23490815 TCTTGAGGGG
23490825 AAAGTTTAAAAATTAAAAATACTGAAACT
1 AAAGTTTAAAAATTAAAAATACTGAAACT
23490854 AAAGTTTAAAAATTAAAAATACTGAAACT
1 AAAGTTTAAAAATTAAAAATACTGAAACT
23490883 AA
1 AA
23490885 GGACCAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (29 bp):
AAAGTTTAAAAATTAAAAATACTGAAACT
Found at i:23496405 original size:24 final size:24
Alignment explanation
Indices: 23496348--23496407 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
23496338 TAGACTAATA
* *
23496348 AGAGTTTGACTGAAACAAATAAAC
1 AGAGTTTAATTGAAACAAATAAAC
*
23496372 AAAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAATTGAAACAAATAAAC
23496396 AGAGTTTAATTG
1 AGAGTTTAATTG
23496408 GAAGATTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (24 bp):
AGAGTTTAATTGAAACAAATAAAC
Found at i:23498349 original size:24 final size:24
Alignment explanation
Indices: 23498321--23498377 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
23498311 TAGACTAATA
*
23498321 AGAGTTTGACTAAAACAAATAAAC
1 AGAGTTTAACTAAAACAAATAAAC
* * *
23498345 AGAGTTTAATTGAAATAAATAAAC
1 AGAGTTTAACTAAAACAAATAAAC
23498369 AGAGTTTAA
1 AGAGTTTAA
23498378 TTGGAATCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (24 bp):
AGAGTTTAACTAAAACAAATAAAC
Found at i:23498802 original size:38 final size:38
Alignment explanation
Indices: 23498760--23498865 Score: 124
Period size: 38 Copynumber: 2.8 Consensus size: 38
23498750 TCACTATTTA
* *
23498760 TTCCTCTTCTTCCTTC-CTCATTTTCCCTAACCTCTTTC
1 TTCCTATTCTTCCTTCTC-CATTTGCCCTAACCTCTTTC
*
23498798 TTCCTATTCTTCCTTCTCCATTTGCCCTAACCTCTTTA
1 TTCCTATTCTTCCTTCTCCATTTGCCCTAACCTCTTTC
* * * *
23498836 ATCATCTTCTTCATTTCTCCATTTGCCCTA
1 TTCCTATTCTTC-CTTCTCCATTTGCCCTA
23498866 GTCGCCTCTA
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
38 42 0.71
39 17 0.29
ACGTcount: A:0.12, C:0.38, G:0.02, T:0.48
Consensus pattern (38 bp):
TTCCTATTCTTCCTTCTCCATTTGCCCTAACCTCTTTC
Found at i:23499905 original size:40 final size:40
Alignment explanation
Indices: 23499861--23499939 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
23499851 ACCATTTTAC
* *
23499861 CCTTTCATATTTCTCTAAAGTATAAACCATTGAAGAGTAT
1 CCTTTCATACTTCTCTAAAATATAAACCATTGAAGAGTAT
23499901 CCTTTCATACTTCTCTAAAATATAAACCATTGAAGAGTA
1 CCTTTCATACTTCTCTAAAATATAAACCATTGAAGAGTA
23499940 AAAAGAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (40 bp):
CCTTTCATACTTCTCTAAAATATAAACCATTGAAGAGTAT
Found at i:23506015 original size:16 final size:17
Alignment explanation
Indices: 23505978--23506015 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
23505968 TTGATTTTTC
*
23505978 AAAATAAAAATTATATA
1 AAAATAAAAATTATAAA
*
23505995 TAAAT-AAAATTATAAA
1 AAAATAAAAATTATAAA
23506011 AAAAT
1 AAAAT
23506016 TTTAAAAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATAAAAATTATAAA
Found at i:23507101 original size:232 final size:232
Alignment explanation
Indices: 23506695--23507158 Score: 910
Period size: 232 Copynumber: 2.0 Consensus size: 232
23506685 AAAAACAAAA
23506695 ACAAGAAAAAAATATGAAGAAGAGAAAAGTAAATGTATATACATATACCGAATCTATATTATTAT
1 ACAAGAAAAAAATATGAAGAAGAGAAAAGTAAATGTATATACATATACCGAATCTATATTATTAT
23506760 TTAAGTTTTTAATTGAGTTGGTCAATTAAATCTCTAACTCGATTAAAAATTTGTAAAAATATTTT
66 TTAAGTTTTTAATTGAGTTGGTCAATTAAATCTCTAACTCGATTAAAAATTTGTAAAAATATTTT
23506825 TTTGTTATGAATATTTTATTAAGTGGATGTCCATTAATATCAAGATAAGTTTAAATGAAATTTAA
131 TTTGTTATGAATATTTTATTAAGTGGATGTCCATTAATATCAAGATAAGTTTAAATGAAATTTAA
23506890 ATTCTAGTAGTAATTAAAATTAGAGTTCTATTTCATT
196 ATTCTAGTAGTAATTAAAATTAGAGTTCTATTTCATT
23506927 ACAAGAAAAAAATATGAAGAAGAGAAAAGTAAATGTATATACATATACCGAATCTATATTATTAT
1 ACAAGAAAAAAATATGAAGAAGAGAAAAGTAAATGTATATACATATACCGAATCTATATTATTAT
*
23506992 TTAAGTTTTTAATTGCGTTGGTCAATTAAATCTCTAACTCGATTAAAAATTTGTAAAAATATTTT
66 TTAAGTTTTTAATTGAGTTGGTCAATTAAATCTCTAACTCGATTAAAAATTTGTAAAAATATTTT
*
23507057 TTTGTTATGAATATTTTATTAAGTGGATGTCCATTAATATCAAGATAAGTTTGAATGAAATTTAA
131 TTTGTTATGAATATTTTATTAAGTGGATGTCCATTAATATCAAGATAAGTTTAAATGAAATTTAA
23507122 ATTCTAGTAGTAATTAAAATTAGAGTTCTATTTCATT
196 ATTCTAGTAGTAATTAAAATTAGAGTTCTATTTCATT
23507159 TATATTTTCT
Statistics
Matches: 230, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
232 230 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (232 bp):
ACAAGAAAAAAATATGAAGAAGAGAAAAGTAAATGTATATACATATACCGAATCTATATTATTAT
TTAAGTTTTTAATTGAGTTGGTCAATTAAATCTCTAACTCGATTAAAAATTTGTAAAAATATTTT
TTTGTTATGAATATTTTATTAAGTGGATGTCCATTAATATCAAGATAAGTTTAAATGAAATTTAA
ATTCTAGTAGTAATTAAAATTAGAGTTCTATTTCATT
Found at i:23533434 original size:15 final size:16
Alignment explanation
Indices: 23533414--23533445 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
23533404 AAAATTTCGA
23533414 AGTAATAAT-AATAAT
1 AGTAATAATAAATAAT
23533429 AGTAATAATAAATAAT
1 AGTAATAATAAATAAT
23533445 A
1 A
23533446 AATTAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
AGTAATAATAAATAAT
Found at i:23534523 original size:20 final size:20
Alignment explanation
Indices: 23534498--23534566 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
23534488 GTTTTTTGAA
23534498 AAAGTCAACGGTCAACGATC
1 AAAGTCAACGGTCAACGATC
* * *
23534518 AAAGTCAGCGGTCAAAGGTC
1 AAAGTCAACGGTCAACGATC
23534538 AAAGTCAACGGTCAACGATC
1 AAAGTCAACGGTCAACGATC
23534558 --AGTCAACGG
1 AAAGTCAACGG
23534567 CCGGTCAACG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
18 9 0.21
20 34 0.79
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (20 bp):
AAAGTCAACGGTCAACGATC
Found at i:23534683 original size:20 final size:21
Alignment explanation
Indices: 23534658--23534698 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
23534648 CTAAAGGGTT
23534658 AAAAGGCT-TGGGTTTTAAAA
1 AAAAGGCTATGGGTTTTAAAA
*
23534678 AAAAGGTTAATGGGTTTTAAA
1 AAAAGGCT-ATGGGTTTTAAA
23534699 GAGTTTCGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.41, C:0.02, G:0.24, T:0.32
Consensus pattern (21 bp):
AAAAGGCTATGGGTTTTAAAA
Found at i:23540707 original size:15 final size:16
Alignment explanation
Indices: 23540687--23540718 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
23540677 AAAATTTTGA
23540687 AGTAATAAT-AATAAT
1 AGTAATAATAAATAAT
23540702 AGTAATAATAAATAAT
1 AGTAATAATAAATAAT
23540718 A
1 A
23540719 AATTAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
AGTAATAATAAATAAT
Found at i:23541804 original size:7 final size:7
Alignment explanation
Indices: 23541783--23541859 Score: 68
Period size: 7 Copynumber: 11.3 Consensus size: 7
23541773 CGAAAAAGTT
*
23541783 AACGATC
1 AACGGTC
*
23541790 AACAGTC
1 AACGGTC
23541797 AACGGTC
1 AACGGTC
*
23541804 AA-AGTC
1 AACGGTC
* *
23541810 AACGATT
1 AACGGTC
23541817 AACGGTC
1 AACGGTC
*
23541824 AAAGGTC
1 AACGGTC
*
23541831 AAAGGTC
1 AACGGTC
*
23541838 AA-AGTC
1 AACGGTC
23541844 AACGGTC
1 AACGGTC
23541851 AACGGTC
1 AACGGTC
23541858 AA
1 AA
23541860 TGTCAATGAT
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
6 10 0.18
7 46 0.82
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (7 bp):
AACGGTC
Found at i:23541815 original size:27 final size:27
Alignment explanation
Indices: 23541777--23541877 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
23541767 GTTTTTCGAA
*
23541777 AAAGTTAACGATCAACAGTCAACGGTC
1 AAAGTCAACGATCAACAGTCAACGGTC
* * *
23541804 AAAGTCAACGATTAACGGTCAAAGGTC
1 AAAGTCAACGATCAACAGTCAACGGTC
* *
23541831 AAAGGTCAAAG-TCAACGGTCAACGGTC
1 AAA-GTCAACGATCAACAGTCAACGGTC
* *
23541858 AATGTCAATGATCAACAGTC
1 AAAGTCAACGATCAACAGTC
23541878 GGTCAATGGC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 6 0.10
27 50 0.81
28 6 0.10
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (27 bp):
AAAGTCAACGATCAACAGTCAACGGTC
Found at i:23541832 original size:34 final size:34
Alignment explanation
Indices: 23541781--23541859 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 34
23541771 TTCGAAAAAG
* *
23541781 TTAACGATCAACAGTCAACGGTCAAAGTCAACGA
1 TTAACGGTCAACAGTCAAAGGTCAAAGTCAACGA
*
23541815 TTAACGGTCAA-AGGTCAAAGGTCAAAGTCAACGG
1 TTAACGGTCAACA-GTCAAAGGTCAAAGTCAACGA
*
23541849 TCAACGGTCAA
1 TTAACGGTCAA
23541860 TGTCAATGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 1 0.03
34 39 0.98
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.18
Consensus pattern (34 bp):
TTAACGGTCAACAGTCAAAGGTCAAAGTCAACGA
Found at i:23541872 original size:20 final size:20
Alignment explanation
Indices: 23541795--23541873 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 20
23541785 CGATCAACAG
23541795 TCAACGGTCAAAGTCAACGA
1 TCAACGGTCAAAGTCAACGA
*
23541815 TTAACGGTCAAAG-----G-
1 TCAACGGTCAAAGTCAACGA
* *
23541829 TCAAAGGTCAAAGTCAACGG
1 TCAACGGTCAAAGTCAACGA
* *
23541849 TCAACGGTCAATGTCAATGA
1 TCAACGGTCAAAGTCAACGA
23541869 TCAAC
1 TCAAC
23541874 AGTCGGTCAA
Statistics
Matches: 46, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
19 1 0.02
20 33 0.72
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.19
Consensus pattern (20 bp):
TCAACGGTCAAAGTCAACGA
Found at i:23547036 original size:55 final size:55
Alignment explanation
Indices: 23546946--23547056 Score: 177
Period size: 55 Copynumber: 2.0 Consensus size: 55
23546936 ACTACTAATG
* *
23546946 TCGCTTCATGAGCATATCCAGAATTGCGCCCAGAATTATCGTCGCATCTGACAGC
1 TCGCTGCATGAGCATATCCAGAATTACGCCCAGAATTATCGTCGCATCTGACAGC
* * *
23547001 TCGCTGCATGAGCATATCCATAATTACGCCTAGAATTATCGTCGCATCTGATAGC
1 TCGCTGCATGAGCATATCCAGAATTACGCCCAGAATTATCGTCGCATCTGACAGC
23547056 T
1 T
23547057 ACTCGGATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (55 bp):
TCGCTGCATGAGCATATCCAGAATTACGCCCAGAATTATCGTCGCATCTGACAGC
Found at i:23552609 original size:29 final size:28
Alignment explanation
Indices: 23552558--23552617 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
23552548 AAATGAATGC
* * *
23552558 AAACAAAAATACGTTATGACAAAAACAA
1 AAACAAAAACACATTATCACAAAAACAA
23552586 AAACAAAAACACATGTATCACAAAAACAA
1 AAACAAAAACACAT-TATCACAAAAACAA
23552615 AAA
1 AAA
23552618 ATTTGGAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 12 0.43
29 16 0.57
ACGTcount: A:0.67, C:0.17, G:0.05, T:0.12
Consensus pattern (28 bp):
AAACAAAAACACATTATCACAAAAACAA
Found at i:23553364 original size:37 final size:37
Alignment explanation
Indices: 23553323--23553426 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
23553313 AATTCCAGAT
* * *
23553323 TGCACTCAAAACTGCCGCCGCATGAATATTTCTAGAA
1 TGCACTCAAGACTGTCGCTGCATGAATATTTCTAGAA
* * *
23553360 TGCACTCGAGACTGTCGCTGCATAAATATTTCTGGAA
1 TGCACTCAAGACTGTCGCTGCATGAATATTTCTAGAA
* *
23553397 TGCACCCAAGACTGTCGCTACATGAATATT
1 TGCACTCAAGACTGTCGCTGCATGAATATT
23553427 CTTCAATTAC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (37 bp):
TGCACTCAAGACTGTCGCTGCATGAATATTTCTAGAA
Found at i:23553516 original size:26 final size:26
Alignment explanation
Indices: 23553487--23553536 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
23553477 TAGGAATGTC
23553487 GCTGCATGAACATGTCCAGAATTGTT
1 GCTGCATGAACATGTCCAGAATTGTT
* *
23553513 GCTGCATTAACGTGTCCAGAATTG
1 GCTGCATGAACATGTCCAGAATTG
23553537 CACCCAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (26 bp):
GCTGCATGAACATGTCCAGAATTGTT
Found at i:23556618 original size:21 final size:22
Alignment explanation
Indices: 23556589--23556631 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
23556579 ACTTTCATCA
*
23556589 TTAAGCCTTAATTAACCCATTT
1 TTAAGCCTTAATCAACCCATTT
*
23556611 TTAA-CCTTAATCAACCTATTT
1 TTAAGCCTTAATCAACCCATTT
23556632 ATACTTAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.33, C:0.23, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAGCCTTAATCAACCCATTT
Found at i:23568002 original size:21 final size:22
Alignment explanation
Indices: 23567965--23568011 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
23567955 TTCCAAAAGG
*
23567965 ATATTAACTTCCATTTT-TTTA
1 ATATTAACTTCCATTTTATATA
*
23567986 ATATTCAATTTCC-TTTTATATA
1 ATATT-AACTTCCATTTTATATA
23568008 ATAT
1 ATAT
23568012 CTCATATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.32, C:0.13, G:0.00, T:0.55
Consensus pattern (22 bp):
ATATTAACTTCCATTTTATATA
Found at i:23568039 original size:123 final size:120
Alignment explanation
Indices: 23567755--23568113 Score: 551
Period size: 121 Copynumber: 3.0 Consensus size: 120
23567745 TTCTATTTTA
* *
23567755 TTTTATTTAATATCTCATATTAAAATGGAAATATAT-CTTTAGAGAAATATATAGAAGGTTTATT
1 TTTTATATAATATCTCATATTAAAATGGAAATAT-TCCTTTAAAGAAATATATAGAAGGTTTATT
* *
23567819 AAAGCATTATATCATTTTCAAAAGGATATTAACTTCCATGTTTTTAATATTCAATTT
65 AAAACATTATATC-TTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAATTT
* *
23567876 TTTTATATAATATCTCATATTAAAATGGAAATATTCCTTTAAAGAGATATATAAAAGGTTTATTA
1 TTTTATATAATATCTCATATTAAAATGGAAATATTCCTTTAAAGAAATATATAGAAGGTTTATTA
*
23567941 AAACATTATATACTTTCCAAAAGGATATTAACTTCCATTTTTTTAATATTCAATTT
66 AAACATTATAT-CTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAATTT
* *
23567997 CCTTTTATATAATATCTCATATTAAAATAGAAATATTCCTTTAAA-ATAATATATGGAAGGTTTA
1 --TTTTATATAATATCTCATATTAAAATGGAAATATTCCTTTAAAGA-AATATATAGAAGGTTTA
*
23568061 TTAAAACATTATATCCTTTCCAAAAGGATATTAACTTTCATGTTTTTAATATT
63 TTAAAACATTATAT-CTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATT
23568114 TAACAAAATC
Statistics
Matches: 219, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
120 1 0.00
121 110 0.50
122 2 0.01
123 106 0.48
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.43
Consensus pattern (120 bp):
TTTTATATAATATCTCATATTAAAATGGAAATATTCCTTTAAAGAAATATATAGAAGGTTTATTA
AAACATTATATCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTCAATTT
Found at i:23587695 original size:17 final size:17
Alignment explanation
Indices: 23587665--23587713 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
23587655 TTGTAATATC
23587665 ATTGTCATCT-CATTTCTT
1 ATTGTCA-CTGCATTT-TT
*
23587683 -TTGTCCCTGCATTTTT
1 ATTGTCACTGCATTTTT
23587699 ATTGTCACTGCATTT
1 ATTGTCACTGCATTT
23587714 GCATTTGTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 4 0.15
17 23 0.85
ACGTcount: A:0.14, C:0.22, G:0.10, T:0.53
Consensus pattern (17 bp):
ATTGTCACTGCATTTTT
Found at i:23588694 original size:20 final size:21
Alignment explanation
Indices: 23588669--23588707 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23588659 TGCATTTTTA
*
23588669 GCATTTT-TAACTTAGTGACT
1 GCATTTTCTAACTCAGTGACT
23588689 GCATTTTCTAACTCAGTGA
1 GCATTTTCTAACTCAGTGA
23588708 TGCTCAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (21 bp):
GCATTTTCTAACTCAGTGACT
Found at i:23590333 original size:18 final size:18
Alignment explanation
Indices: 23590292--23590336 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
23590282 TACCGGTACA
* *
23590292 CTGCACAACCCTACCAAG
1 CTGCACGACCCTACCAAC
23590310 CTGCACGACCCTACC-AC
1 CTGCACGACCCTACCAAC
23590327 CTCGCACGAC
1 CT-GCACGAC
23590337 GACAATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.27, C:0.49, G:0.13, T:0.11
Consensus pattern (18 bp):
CTGCACGACCCTACCAAC
Found at i:23591100 original size:19 final size:19
Alignment explanation
Indices: 23591076--23591116 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
23591066 GTCAACTTGA
23591076 CTTGTTATTCTAGAACTTT
1 CTTGTTATTCTAGAACTTT
23591095 CTTGTTATTCTAGAACTTT
1 CTTGTTATTCTAGAACTTT
23591114 CTT
1 CTT
23591117 TGATTATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.54
Consensus pattern (19 bp):
CTTGTTATTCTAGAACTTT
Found at i:23594881 original size:16 final size:17
Alignment explanation
Indices: 23594854--23594886 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
23594844 AATTGGACCC
*
23594854 AAATTCATTTAAGTTTA
1 AAATTCATTTAAATTTA
23594871 AAATT-ATTTAAATTTA
1 AAATTCATTTAAATTTA
23594887 CTAATGTCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (17 bp):
AAATTCATTTAAATTTA
Found at i:23596707 original size:30 final size:29
Alignment explanation
Indices: 23596657--23596943 Score: 196
Period size: 30 Copynumber: 9.7 Consensus size: 29
23596647 TTAAATTTTC
* * *
23596657 CAAAAATCACGTTTTGACCCTCATAC-TCT
1 CAAAAATTACATTTTAACCCTCA-ACTTCT
*
23596686 CCAAAAATTACAATTTAACCCTCAAACTTCT
1 -CAAAAATTACATTTTAACCCTC-AACTTCT
23596717 CAAAAATTACATTTTAACTCC-CGAACTTCT
1 CAAAAATTACATTTTAAC-CCTC-AACTTCT
**
23596747 CAAAAATTACATTTTTGCCCTCAAACTTCT
1 CAAAAATTACATTTTAACCCTC-AACTTCT
* * *
23596777 TAAAAATTACA-TTTATTCTCTCGAACTTCT
1 CAAAAATTACATTTTA-ACCCTC-AACTTCT
*
23596807 CAAAAATTACATTTTTACCC-CATACTTC-
1 CAAAAATTACATTTTAACCCTCA-ACTTCT
* * **
23596835 CAAAAATCACATTTTTACTCCAAAACTTCT
1 CAAAAATTACATTTTAAC-CCTCAACTTCT
* ** *
23596865 CAAAAACTACATTTTTGCTCTCGAACTTC-
1 CAAAAATTACATTTTAACCCTC-AACTTCT
* * *
23596894 CAAAAATCACCATTTT-ACCCTCGAGCATC-
1 CAAAAATTA-CATTTTAACCCTC-AACTTCT
23596923 CAAAAATTACCATTTT-ACCCT
1 CAAAAATTA-CATTTTAACCCT
23596944 TAATTTTCCA
Statistics
Matches: 212, Mismatches: 33, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
28 18 0.08
29 55 0.26
30 130 0.61
31 9 0.04
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.33
Consensus pattern (29 bp):
CAAAAATTACATTTTAACCCTCAACTTCT
Found at i:23596768 original size:60 final size:59
Alignment explanation
Indices: 23596654--23596943 Score: 256
Period size: 60 Copynumber: 4.9 Consensus size: 59
23596644 TCCTTAAATT
* * * *
23596654 TTCCAAAAATCACGTTTTGAC-CCTC-ATAC-TCTCCAAAAATTACAATTTAACCCTCAAAC
1 TTCCAAAAATCACATTTTAACTCC-CGA-ACTTCT-CAAAAATTACATTTTTACCCTCAAAC
* *
23596713 TTCTCAAAAATTACATTTTAACTCCCGAACTTCTCAAAAATTACATTTTTGCCCTCAAAC
1 TTC-CAAAAATCACATTTTAACTCCCGAACTTCTCAAAAATTACATTTTTACCCTCAAAC
* * * * *
23596773 TTCTTAAAAATTACA-TTTATTCTCTCGAACTTCTCAAAAATTACATTTTTACCC-CATAC
1 TTC-CAAAAATCACATTTTA-ACTCCCGAACTTCTCAAAAATTACATTTTTACCCTCAAAC
* ** * * * *
23596832 TTCCAAAAATCACATTTTTACTCCAAAACTTCTCAAAAACTACATTTTTGCTCTCGAAC
1 TTCCAAAAATCACATTTTAACTCCCGAACTTCTCAAAAATTACATTTTTACCCTCAAAC
* *
23596891 TTCCAAAAATCACCATTTT-AC-CCTCGAGCATC-CAAAAATTACCA-TTTTACCCT
1 TTCCAAAAATCA-CATTTTAACTCC-CGAACTTCTCAAAAATTA-CATTTTTACCCT
23596944 TAATTTTCCA
Statistics
Matches: 191, Mismatches: 30, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
58 53 0.28
59 40 0.21
60 92 0.48
61 6 0.03
ACGTcount: A:0.35, C:0.28, G:0.03, T:0.34
Consensus pattern (59 bp):
TTCCAAAAATCACATTTTAACTCCCGAACTTCTCAAAAATTACATTTTTACCCTCAAAC
Found at i:23596876 original size:88 final size:89
Alignment explanation
Indices: 23596657--23596943 Score: 259
Period size: 88 Copynumber: 3.2 Consensus size: 89
23596647 TTAAATTTTC
* * * * * * ** * *
23596657 CAAAAATCACGTTTTGACCCTCATAC-TCTCCAAAAATTACAATTTAACCCTCAAACTTCTCAAA
1 CAAAAATCACATTTTTACCCTAAAACTTCT-CAAAAACTACATTTTTGCTCTCGAACTTCTCAAA
*
23596721 AATTACATTTTAACTCCCGAACTTCT
65 AATTACATTTTTAC-CCCGAACTTCT
* * * * *
23596747 CAAAAATTACATTTTTGCCCTCAAACTTCTTAAAAATTACATTTATT-CTCTCGAACTTCTCAAA
1 CAAAAATCACATTTTTACCCTAAAACTTCTCAAAAACTACATTT-TTGCTCTCGAACTTCTCAAA
23596811 AATTACATTTTTACCCC-ATACTTC-
65 AATTACATTTTTACCCCGA-ACTTCT
23596835 CAAAAATCACATTTTTACTCC-AAAACTTCTCAAAAACTACATTTTTGCTCTCGAACTTC-CAAA
1 CAAAAATCACATTTTTAC-CCTAAAACTTCTCAAAAACTACATTTTTGCTCTCGAACTTCTCAAA
* * *
23596898 AATCACCA-TTTTACCCTCGAGCATC-
65 AATTA-CATTTTTACCC-CGAACTTCT
*
23596923 CAAAAATTACCA-TTTTACCCT
1 CAAAAATCA-CATTTTTACCCT
23596944 TAATTTTCCA
Statistics
Matches: 167, Mismatches: 20, Indels: 22
0.80 0.10 0.11
Matches are distributed among these distances:
87 20 0.12
88 69 0.41
89 13 0.08
90 61 0.37
91 4 0.02
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.33
Consensus pattern (89 bp):
CAAAAATCACATTTTTACCCTAAAACTTCTCAAAAACTACATTTTTGCTCTCGAACTTCTCAAAA
ATTACATTTTTACCCCGAACTTCT
Found at i:23609434 original size:77 final size:77
Alignment explanation
Indices: 23609327--23609740 Score: 508
Period size: 77 Copynumber: 5.4 Consensus size: 77
23609317 CAAATTAAAG
* * * * *
23609327 ATCTTTTACCTCGGGCCTGGGGCAGATTGCAGCTATTCGATCTCTTACCCTCGAGC-TAGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCGATCTCTTACCC-CGAGCTTAGGCAGA
23609391 TCATCATCAGCAA
65 TCATCATCAGCAA
* * *
23609404 ATCTCTTACCCCGAGCCTGGGGCAGGTTGCAGCCATCTGATCTCTTACCCCGAGCTTAGGGCAGG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCGATCTCTTACCCCGAGCTTA-GGCAGA
*
23609469 TCATCATCAGTAA
65 TCATCATCAGCAA
* * * * * * *
23609482 ATCTTTTACCTCGAGCCT-GGGTAGATTGTAGCCATCCGATCTCTTTCCCCGAGCTTGGGGGAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCGATCTCTTACCCCGAGCTT-AGGCAGA
*
23609546 TCATCATCAGTAA
65 TCATCATCAGCAA
* * * *
23609559 ATCTCTTACCCCGAGCCTGAGGCAGATTGCAGCCATCCGATCTCTTACCTCGATCTTAGGGAGAT
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCGATCTCTTACCCCGAGCTTAGGCAGAT
23609624 CATCATCAGCAA
66 CATCATCAGCAA
* * * * * *
23609636 ATCTCTTACCCCAAGCTTGGGGCAGATTACAGCCATCCGATCTTTTACCCCGAGCTTGAGCCAAA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCGATCTCTTACCCCGAGCTT-AGGCAGA
*
23609701 TCATCATCAGCTA
65 TCATCATCAGCAA
* *
23609714 ATCTCTTACCCCGATCATGGGGCAGAT
1 ATCTCTTACCCCGAGCCTGGGGCAGAT
23609741 GGCAATCAGT
Statistics
Matches: 289, Mismatches: 43, Indels: 9
0.85 0.13 0.03
Matches are distributed among these distances:
76 5 0.02
77 179 0.62
78 105 0.36
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (77 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCCGATCTCTTACCCCGAGCTTAGGCAGAT
CATCATCAGCAA
Found at i:23609447 original size:39 final size:39
Alignment explanation
Indices: 23609404--23609607 Score: 134
Period size: 39 Copynumber: 5.3 Consensus size: 39
23609394 TCATCAGCAA
23609404 ATCTCTTACCCCGAGCCTGGGGCAGGTTGCAGCCATCTG
1 ATCTCTTACCCCGAGCCTGGGGCAGGTTGCAGCCATCTG
* * * *
23609443 ATCTCTTACCCCGAGCTTAGGGCAGG-T-CA-TCATCAGTAA
1 ATCTCTTACCCCGAGCCTGGGGCAGGTTGCAGCCATC--T-G
* * * * * *
23609482 ATCTTTTACCTCGAGCCT-GGGTAGATTGTAGCCATCCG
1 ATCTCTTACCCCGAGCCTGGGGCAGGTTGCAGCCATCTG
* * * * * *
23609520 ATCTCTTTCCCCGAGCTTGGGGGA-GAT-CA-TCATCAGTAA
1 ATCTCTTACCCCGAGCCTGGGGCAGGTTGCAGCCATC--T-G
* * *
23609559 ATCTCTTACCCCGAGCCTGAGGCAGATTGCAGCCATCCG
1 ATCTCTTACCCCGAGCCTGGGGCAGGTTGCAGCCATCTG
23609598 ATCTCTTACC
1 ATCTCTTACC
23609608 TCGATCTTAG
Statistics
Matches: 119, Mismatches: 33, Indels: 26
0.67 0.19 0.15
Matches are distributed among these distances:
36 8 0.07
37 3 0.03
38 22 0.18
39 74 0.62
40 2 0.02
41 6 0.05
42 4 0.03
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGGGGCAGGTTGCAGCCATCTG
Found at i:23609617 original size:155 final size:155
Alignment explanation
Indices: 23609327--23609727 Score: 524
Period size: 155 Copynumber: 2.6 Consensus size: 155
23609317 CAAATTAAAG
* * * *
23609327 ATCTTTTACCTCGGGCCTGGGGCAGATTGCAGCTATTCGATCTCTTACCCTCGAGC-T-AGGCAG
1 ATCTTTTACCTCGAGCCTGGGGCAGATTGCAGCCATCCGATCTCTTTCCC-CGAGCTTGAGGCAG
* * * *
23609390 ATCATCATCAGCAAATCTCTTACCCCGAGCCTGGGGCAGGTTGCAGCCATCTGATCTCTTACCCC
65 ATCATCATCAGTAAATCTCTTACCCCGAGCCTGAGGCAGATTGCAGCCATCCGATCTCTTACCCC
* *
23609455 GAGCTTAGGGCAGGTCATCATCAGTAA
130 GAGCTTAGGG-AGATCATCATCAGCAA
* * * *
23609482 ATCTTTTACCTCGAGCCT-GGGTAGATTGTAGCCATCCGATCTCTTTCCCCGAGCTTGGGGGAGA
1 ATCTTTTACCTCGAGCCTGGGGCAGATTGCAGCCATCCGATCTCTTTCCCCGAGCTTGAGGCAGA
*
23609546 TCATCATCAGTAAATCTCTTACCCCGAGCCTGAGGCAGATTGCAGCCATCCGATCTCTTACCTCG
66 TCATCATCAGTAAATCTCTTACCCCGAGCCTGAGGCAGATTGCAGCCATCCGATCTCTTACCCCG
*
23609611 ATCTTAGGGAGATCATCATCAGCAA
131 AGCTTAGGGAGATCATCATCAGCAA
* * * * * * *
23609636 ATCTCTTACCCCAAGCTTGGGGCAGATTACAGCCATCCGATCT-TTTACCCCGAGCTTGAGCCAA
1 ATCTTTTACCTCGAGCCTGGGGCAGATTGCAGCCATCCGATCTCTTT-CCCCGAGCTTGAGGCAG
23609700 ATCATCATCAGCT-AATCTCTTACCCCGA
65 ATCATCATCAG-TAAATCTCTTACCCCGA
23609728 TCATGGGGCA
Statistics
Matches: 214, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
153 5 0.02
154 58 0.27
155 150 0.70
156 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (155 bp):
ATCTTTTACCTCGAGCCTGGGGCAGATTGCAGCCATCCGATCTCTTTCCCCGAGCTTGAGGCAGA
TCATCATCAGTAAATCTCTTACCCCGAGCCTGAGGCAGATTGCAGCCATCCGATCTCTTACCCCG
AGCTTAGGGAGATCATCATCAGCAA
Found at i:23609684 original size:116 final size:114
Alignment explanation
Indices: 23609325--23609695 Score: 299
Period size: 116 Copynumber: 3.2 Consensus size: 114
23609315 GACAAATTAA
* * * * * * *
23609325 AGATCTTTTACCTCGGGCCTGGGGCAGATTGCAGCTATTCGATCTCTTACCCTCGAGCTAGGCAG
1 AGATCTCTTACCCCGAGCCTGAGGCAGATTGCAGCCATCCGATCTCTTA-CCTCGAGCTAGGGAG
* *
23609390 ATCATCATCAGCAAATCTCTTACCCCGAGCCTGGGGCAGGTTGCAGCCATC
65 ATCATCATCAGCAAATCTCTTACCCCGAGCTTGGGGCAGATT-CAGCCATC
* * * * * *
23609441 TGATCTCTTACCCCGAG-CTTAGGGCAG-GT-CA-TCATCAGTAAATCTTTTACCTCGAGCCT-G
1 AGATCTCTTACCCCGAGCCTGA-GGCAGATTGCAGCCATCCG---ATCTCTTACCTCGAG-CTAG
** * * ** * * *
23609501 GGTAGATTGT-AGCCATCCGATCTCTTTCCCCGAGCTTGGGGGAGA-TCA-TCATC
61 GG-AGATCATCA-TCAGCAAATCTCTTACCCCGAGCTTGGGGCAGATTCAGCCATC
*
23609554 AGTAAATCTCTTACCCCGAGCCTGAGGCAGATTGCAGCCATCCGATCTCTTACCTCGATCTTAGG
1 AG---ATCTCTTACCCCGAGCCTGAGGCAGATTGCAGCCATCCGATCTCTTACCTCGAGC-TAGG
*
23609619 GAGATCATCATCAGCAAATCTCTTACCCCAAGCTTGGGGCAGATTACAGCCATC
62 GAGATCATCATCAGCAAATCTCTTACCCCGAGCTTGGGGCAGATT-CAGCCATC
* * *
23609673 CGATCTTTTACCCCGAGCTTGAG
1 AGATCTCTTACCCCGAGCCTGAG
23609696 CCAAATCATC
Statistics
Matches: 191, Mismatches: 44, Indels: 40
0.69 0.16 0.15
Matches are distributed among these distances:
113 8 0.04
114 4 0.02
115 15 0.08
116 141 0.74
117 9 0.05
118 4 0.02
119 10 0.05
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (114 bp):
AGATCTCTTACCCCGAGCCTGAGGCAGATTGCAGCCATCCGATCTCTTACCTCGAGCTAGGGAGA
TCATCATCAGCAAATCTCTTACCCCGAGCTTGGGGCAGATTCAGCCATC
Found at i:23609723 original size:39 final size:39
Alignment explanation
Indices: 23609520--23609727 Score: 102
Period size: 39 Copynumber: 5.4 Consensus size: 39
23609510 TAGCCATCCG
* * ** * *
23609520 ATCTCTTTCCCCGAGCTTGGGGGAGATCATCATCAGTAA
1 ATCTCTTACCCCGAGCTTGAGCCAAATCATCATCAGCAA
* * * * *
23609559 ATCTCTTACCCCGAGCCTGAGGCAGATTGCAGCCATC--C-G
1 ATCTCTTACCCCGAGCTTGAGCCA-AAT-CA-TCATCAGCAA
* * ** *
23609598 ATCTCTTACCTCGATCTT-AGGGAGATCATCATCAGCAA
1 ATCTCTTACCCCGAGCTTGAGCCAAATCATCATCAGCAA
* * * * * * * **
23609636 ATCTCTTACCCCAAGCTTGGGGCAGATTA-CAGCCATCCG
1 ATCTCTTACCCCGAGCTTGAGCCAAATCATCA-TCAGCAA
* *
23609675 ATCTTTTACCCCGAGCTTGAGCCAAATCATCATCAGCTA
1 ATCTCTTACCCCGAGCTTGAGCCAAATCATCATCAGCAA
23609714 ATCTCTTACCCCGA
1 ATCTCTTACCCCGA
23609728 TCATGGGGCA
Statistics
Matches: 122, Mismatches: 38, Indels: 18
0.69 0.21 0.10
Matches are distributed among these distances:
35 4 0.03
36 2 0.02
37 2 0.02
38 21 0.17
39 84 0.69
40 3 0.02
41 2 0.02
42 4 0.03
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCTTGAGCCAAATCATCATCAGCAA
Found at i:23610178 original size:6 final size:6
Alignment explanation
Indices: 23610167--23610257 Score: 70
Period size: 6 Copynumber: 16.0 Consensus size: 6
23610157 ACCCAAACAG
* * *
23610167 AATTTA AATTTA AA-TT- CATTTA AATTTTA AATTT- ATTTTA AGTTTA
1 AATTTA AATTTA AATTTA AATTTA AA-TTTA AATTTA AATTTA AATTTA
* *
23610213 AATTT- -ATTTGA AATTTA AATTTA AGTTTA AAATT- -ATTTA AATTTA
1 AATTTA AATTT-A AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
23610258 CTAATGTCCA
Statistics
Matches: 67, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
4 8 0.12
5 8 0.12
6 41 0.61
7 10 0.15
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (6 bp):
AATTTA
Found at i:23610197 original size:17 final size:16
Alignment explanation
Indices: 23610168--23610235 Score: 91
Period size: 17 Copynumber: 4.1 Consensus size: 16
23610158 CCCAAACAGA
*
23610168 ATTTAAATTTAAATTC
1 ATTTAAATTTAAATTT
23610184 ATTTAAATTTTAAATTT
1 ATTTAAA-TTTAAATTT
*
23610201 ATTTTAAGTTTAAATTT
1 A-TTTAAATTTAAATTT
23610218 ATTTGAAATTTAAATTT
1 ATTT-AAATTTAAATTT
23610235 A
1 A
23610236 AGTTTAAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
16 10 0.22
17 31 0.67
18 5 0.11
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTTAAATTTAAATTT
Found at i:23610200 original size:29 final size:28
Alignment explanation
Indices: 23610167--23610256 Score: 83
Period size: 34 Copynumber: 2.9 Consensus size: 28
23610157 ACCCAAACAG
23610167 AATTTAAATTTAAATTCATTTAAATTTTA
1 AATTTAAATTTAAATT-ATTTAAATTTTA
23610196 AATTTATTTTAAGTTTAAATTTATTTGAAA-TTTA
1 AATTTA----AA-TTTAAA-TTATTT-AAATTTTA
*
23610230 AATTTAAGTTTAAAATTATTTAAATTT
1 AATTTAAATTT-AAATTATTTAAATTT
23610257 ACTAATGTCC
Statistics
Matches: 51, Mismatches: 1, Indels: 18
0.73 0.01 0.26
Matches are distributed among these distances:
28 3 0.06
29 17 0.33
30 4 0.08
33 2 0.04
34 20 0.39
35 5 0.10
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (28 bp):
AATTTAAATTTAAATTATTTAAATTTTA
Found at i:23610218 original size:23 final size:22
Alignment explanation
Indices: 23610167--23610257 Score: 68
Period size: 23 Copynumber: 4.3 Consensus size: 22
23610157 ACCCAAACAG
*
23610167 AATTTAAATTTAAATTCATTTA
1 AATTTAAATTTAAATTAATTTA
**
23610189 AATTTTAAATTTATTTTAAGTTTA
1 AA-TTTAAATTTAAATTAA-TTTA
*
23610213 AATTT--ATTT-GA--AATTTA
1 AATTTAAATTTAAATTAATTTA
*
23610230 AATTTAAGTTTAAAATT-ATTTA
1 AATTTAAATTT-AAATTAATTTA
23610252 AATTTA
1 AATTTA
23610258 CTAATGTCCA
Statistics
Matches: 54, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
17 9 0.17
18 2 0.04
19 3 0.06
21 5 0.09
22 13 0.24
23 16 0.30
24 6 0.11
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (22 bp):
AATTTAAATTTAAATTAATTTA
Found at i:23612116 original size:30 final size:30
Alignment explanation
Indices: 23612068--23612306 Score: 264
Period size: 30 Copynumber: 8.1 Consensus size: 30
23612058 CGTTTTAACC
* *
23612068 CCCT-AAAC-TCTCCAAAAATTACATTCTGA
1 CCCTCAAACTTCT-CAAAAATTACATTTTTA
*
23612097 CCCTCGAACTTCTCAAAAATTACA-TTTTA
1 CCCTCAAACTTCTCAAAAATTACATTTTTA
* *
23612126 CCCTCGAACTT-TCTAAAAATTACATTTTGA
1 CCCTCAAACTTCTC-AAAAATTACATTTTTA
* *
23612156 CCCCCAAAATTCTCAAAAATTACATTTTTA
1 CCCTCAAACTTCTCAAAAATTACATTTTTA
*
23612186 CTCC-CAAACTTC-CAAAAATTACATTTTTT
1 C-CCTCAAACTTCTCAAAAATTACATTTTTA
*
23612215 CCCTTAAACTTCTCAAAAATTACATTTTTA
1 CCCTCAAACTTCTCAAAAATTACATTTTTA
*
23612245 CCTCTCAAACTTCTTAAAAATTACATTTTTA
1 CC-CTCAAACTTCTCAAAAATTACATTTTTA
23612276 -CCTCCAAACTTC-CAAAAA-TACCA-TTTTA
1 CCCT-CAAACTTCTCAAAAATTA-CATTTTTA
23612304 CCC
1 CCC
23612307 CCGAGCATCC
Statistics
Matches: 183, Mismatches: 15, Indels: 24
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.06
29 63 0.34
30 76 0.42
31 33 0.18
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.35
Consensus pattern (30 bp):
CCCTCAAACTTCTCAAAAATTACATTTTTA
Found at i:23612157 original size:59 final size:59
Alignment explanation
Indices: 23612068--23612306 Score: 267
Period size: 59 Copynumber: 4.1 Consensus size: 59
23612058 CGTTTTAACC
* * *
23612068 CCCT-AAACTCTCCAAAAATTACATTCTGACCCTCGAACTTCTCAAAAATTACA-TTTTA
1 CCCTCAAACT-TCTAAAAATTACATTTTGACCCTCAAACTTCTCAAAAATTACATTTTTA
* * *
23612126 CCCTCGAACTTTCTAAAAATTACATTTTGACCCCCAAAATTCTCAAAAATTACATTTTTA
1 CCCTCAAAC-TTCTAAAAATTACATTTTGACCCTCAAACTTCTCAAAAATTACATTTTTA
* ** *
23612186 CTCC-CAAACTTCCAAAAATTACATTTTTTCCCTTAAACTTCTCAAAAATTACATTTTTA
1 C-CCTCAAACTTCTAAAAATTACATTTTGACCCTCAAACTTCTCAAAAATTACATTTTTA
*
23612245 CCTCTCAAACTTCTTAAAAATTACATTTTTA-CCTCCAAACTTC-CAAAAA-TACCA-TTTTA
1 CC-CTCAAACTTC-TAAAAATTACATTTTGACCCT-CAAACTTCTCAAAAATTA-CATTTTTA
23612304 CCC
1 CCC
23612307 CCGAGCATCC
Statistics
Matches: 156, Mismatches: 16, Indels: 18
0.82 0.08 0.09
Matches are distributed among these distances:
58 6 0.04
59 96 0.62
60 30 0.19
61 24 0.15
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.35
Consensus pattern (59 bp):
CCCTCAAACTTCTAAAAATTACATTTTGACCCTCAAACTTCTCAAAAATTACATTTTTA
Found at i:23620210 original size:16 final size:18
Alignment explanation
Indices: 23620171--23620204 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23620161 TACGTTTATA
23620171 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
23620188 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
23620205 AATTTAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:23636774 original size:5 final size:5
Alignment explanation
Indices: 23636764--23636791 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
23636754 TTTAAAAAAA
23636764 TTATT TTATT TTATT TTATT TTATT TTA
1 TTATT TTATT TTATT TTATT TTATT TTA
23636792 ATATTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:23639091 original size:22 final size:22
Alignment explanation
Indices: 23639066--23639119 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
23639056 CAGGGTGATT
**
23639066 CTTCTAGTGCATTCGATAGATC
1 CTTCTAGTGCATAAGATAGATC
* * *
23639088 CTTCTAATGCATAAGGTGGATC
1 CTTCTAGTGCATAAGATAGATC
23639110 CTTCTAGTGC
1 CTTCTAGTGC
23639120 TCTGTACAGT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (22 bp):
CTTCTAGTGCATAAGATAGATC
Found at i:23644210 original size:70 final size:71
Alignment explanation
Indices: 23643974--23644281 Score: 395
Period size: 71 Copynumber: 4.4 Consensus size: 71
23643964 GCTATAATAG
* * * * **
23643974 CTTACGCTTTAACCAAGACGTAACCAGCCCATAACCTTACGCTCTAACCGAGACGTAAGCAAATC
1 CTTACGCTCTAACCGAGATGTAAGCAATCCATAACCTTACGCTCTAACCGAGACGTAAGCAAATC
23644039 CATAAC
66 CATAAC
* * * *
23644045 CTTACGCTCTAACCGAGATGTAACCAACCCATAACCTTACGTTCTAATCGAGACGTAAGCAAATC
1 CTTACGCTCTAACCGAGATGTAAGCAATCCATAACCTTACGCTCTAACCGAGACGTAAGCAAATC
23644110 CATAAC
66 CATAAC
* ** * * *
23644116 CTTACACTCTAACCGAGACATAAGCAATCTATAATCTTACGCTCTAACCGAGACATAAGC-AATC
1 CTTACGCTCTAACCGAGATGTAAGCAATCCATAACCTTACGCTCTAACCGAGACGTAAGCAAATC
23644180 CATAAC
66 CATAAC
** * * *
23644186 CTTACGCTCTAACTAAGATGTAAGCAATCCATAACCTTACACTCTAACCGAGATGTAAGC-AATT
1 CTTACGCTCTAACCGAGATGTAAGCAATCCATAACCTTACGCTCTAACCGAGACGTAAGCAAATC
23644250 CATAAC
66 CATAAC
* *
23644256 CTTTCGCTCTAACCGAGACGTAAGCA
1 CTTACGCTCTAACCGAGATGTAAGCA
23644282 GATCAAAGCT
Statistics
Matches: 206, Mismatches: 31, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
70 91 0.44
71 115 0.56
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.23
Consensus pattern (71 bp):
CTTACGCTCTAACCGAGATGTAAGCAATCCATAACCTTACGCTCTAACCGAGACGTAAGCAAATC
CATAAC
Found at i:23644279 original size:35 final size:35
Alignment explanation
Indices: 23643974--23644281 Score: 400
Period size: 35 Copynumber: 8.7 Consensus size: 35
23643964 GCTATAATAG
* * * **
23643974 CTTACGCTTTAACCAAGACGTAACCAGCCCATAAC
1 CTTACGCTCTAACCGAGACGTAAGCAATCCATAAC
23644009 CTTACGCTCTAACCGAGACGTAAGCAAATCCATAAC
1 CTTACGCTCTAACCGAGACGTAAGC-AATCCATAAC
* * *
23644045 CTTACGCTCTAACCGAGATGTAACCAACCCATAAC
1 CTTACGCTCTAACCGAGACGTAAGCAATCCATAAC
* *
23644080 CTTACGTTCTAATCGAGACGTAAGCAAATCCATAAC
1 CTTACGCTCTAACCGAGACGTAAGC-AATCCATAAC
* * * *
23644116 CTTACACTCTAACCGAGACATAAGCAATCTATAAT
1 CTTACGCTCTAACCGAGACGTAAGCAATCCATAAC
*
23644151 CTTACGCTCTAACCGAGACATAAGCAATCCATAAC
1 CTTACGCTCTAACCGAGACGTAAGCAATCCATAAC
** *
23644186 CTTACGCTCTAACTAAGATGTAAGCAATCCATAAC
1 CTTACGCTCTAACCGAGACGTAAGCAATCCATAAC
* * *
23644221 CTTACACTCTAACCGAGATGTAAGCAATTCATAAC
1 CTTACGCTCTAACCGAGACGTAAGCAATCCATAAC
*
23644256 CTTTCGCTCTAACCGAGACGTAAGCA
1 CTTACGCTCTAACCGAGACGTAAGCA
23644282 GATCAAAGCT
Statistics
Matches: 238, Mismatches: 33, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
35 177 0.74
36 61 0.26
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.23
Consensus pattern (35 bp):
CTTACGCTCTAACCGAGACGTAAGCAATCCATAAC
Found at i:23646999 original size:81 final size:82
Alignment explanation
Indices: 23646783--23646999 Score: 312
Period size: 81 Copynumber: 2.7 Consensus size: 82
23646773 GATTCTTGAC
* * ** *
23646783 AGCTTGTGTGAGCAGCATCGTGAGTGGGTGACATAGACTGTAGCGATGGTTGAGATTTCGTATAT
1 AGCTTGTGTGAGCAGCATCGTGAGCGGGTGACATAAACTGTAGCGATGGTTGAGGCTTCGCATAT
23646848 GTTATGGATTCTCATCA
66 GTTATGGATTCTCATCA
* * *
23646865 A-CTTGTATGAGCATCATCGTGAGCGGGTGACATAAACTGTAGCGATGGCTGAGGCTTCGCATAT
1 AGCTTGTGTGAGCAGCATCGTGAGCGGGTGACATAAACTGTAGCGATGGTTGAGGCTTCGCATAT
*
23646929 GTTGTGGATTCTCAT-A
66 GTTATGGATTCTCATCA
* * *
23646945 AGCTTGTGTGAGCAGCATTGTGAGCGGGTGACATAAACTATAGCGGTGGTTGAGG
1 AGCTTGTGTGAGCAGCATCGTGAGCGGGTGACATAAACTGTAGCGATGGTTGAGG
23647000 TCCTACATAT
Statistics
Matches: 119, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
80 2 0.02
81 116 0.97
82 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.30
Consensus pattern (82 bp):
AGCTTGTGTGAGCAGCATCGTGAGCGGGTGACATAAACTGTAGCGATGGTTGAGGCTTCGCATAT
GTTATGGATTCTCATCA
Found at i:23647033 original size:81 final size:81
Alignment explanation
Indices: 23646783--23647040 Score: 243
Period size: 81 Copynumber: 3.2 Consensus size: 81
23646773 GATTCTTGAC
* * * * *** **
23646783 AGCTTGTGTGAGCAGCATCGTGAGTGGGTGACATAGACTGTAGCGATGGTTGAGATTTCGTATAT
1 AGCTTGTGTGAGCAGCATCGTGAGCGGGTGACATAAACTATAGCGATGGCTGAGGCCTCACATAT
** *
23646848 GTTATGGATTCTCATCA
66 GTTGCGGATCCTCAT-A
* * * * *
23646865 A-CTTGTATGAGCATCATCGTGAGCGGGTGACATAAACTGTAGCGATGGCTGAGGCTTCGCATAT
1 AGCTTGTGTGAGCAGCATCGTGAGCGGGTGACATAAACTATAGCGATGGCTGAGGCCTCACATAT
* *
23646929 GTTGTGGATTCTCATA
66 GTTGCGGATCCTCATA
* * *
23646945 AGCTTGTGTGAGCAGCATTGTGAGCGGGTGACATAAACTATAGCGGTGGTTGAGGTCCT-ACATA
1 AGCTTGTGTGAGCAGCATCGTGAGCGGGTGACATAAACTATAGCGATGGCTGAGG-CCTCACATA
* *
23647009 TGTTGC-GAGTCCTCGTC
65 TGTTGCGGA-TCCTCATA
*
23647026 AGTTTGTGTGAGCAG
1 AGCTTGTGTGAGCAG
23647041 AACTGTACAC
Statistics
Matches: 151, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
80 4 0.03
81 144 0.95
82 3 0.02
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (81 bp):
AGCTTGTGTGAGCAGCATCGTGAGCGGGTGACATAAACTATAGCGATGGCTGAGGCCTCACATAT
GTTGCGGATCCTCATA
Found at i:23647135 original size:28 final size:27
Alignment explanation
Indices: 23647065--23647137 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
23647055 AAAATTCTGA
23647065 TTTTGGCTC-GAGTAGAGTAATATTTTG
1 TTTTGGCTCAG-GTAGAGTAATATTTTG
* *
23647092 TTCTGGCTTAGGTAGAG-AATTATTTTG
1 TTTTGGCTCAGGTAGAGTAA-TATTTTG
23647119 TTGTTGGCTCAGGTAGAGT
1 TT-TTGGCTCAGGTAGAGT
23647138 GTTGATCTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 2 0.05
27 22 0.58
28 14 0.37
ACGTcount: A:0.21, C:0.08, G:0.29, T:0.42
Consensus pattern (27 bp):
TTTTGGCTCAGGTAGAGTAATATTTTG
Found at i:23657039 original size:17 final size:17
Alignment explanation
Indices: 23657019--23657053 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
23657009 ATATATATAT
23657019 ATATATAGTTTATAATC
1 ATATATAGTTTATAATC
23657036 ATATATAGTTTATAATC
1 ATATATAGTTTATAATC
23657053 A
1 A
23657054 AAACTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (17 bp):
ATATATAGTTTATAATC
Found at i:23660572 original size:28 final size:28
Alignment explanation
Indices: 23660534--23660591 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
23660524 CTTTTTATCC
23660534 CCCATTTACCTCTGTTGTTTCTTTCAAT
1 CCCATTTACCTCTGTTGTTTCTTTCAAT
23660562 CCCATTTACCTCTGTTGTTTCTTTCAAT
1 CCCATTTACCTCTGTTGTTTCTTTCAAT
23660590 CC
1 CC
23660592 TCTCTCTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.14, C:0.31, G:0.07, T:0.48
Consensus pattern (28 bp):
CCCATTTACCTCTGTTGTTTCTTTCAAT
Found at i:23661782 original size:2 final size:2
Alignment explanation
Indices: 23661775--23661815 Score: 73
Period size: 2 Copynumber: 20.0 Consensus size: 2
23661765 GTGAACTCTG
23661775 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
23661816 CATAAGATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23669151 original size:32 final size:33
Alignment explanation
Indices: 23669115--23669181 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 33
23669105 AGGGAACCAC
23669115 GTGGGTGGTGGGG-AGGTGATGGTTTT-AGTCTT
1 GTGGGTGGTGGGGCAGG-GATGGTTTTGAGTCTT
* *
23669147 GTGGGTTGTGGGGCAGGGATGGTTTTGAGTTTT
1 GTGGGTGGTGGGGCAGGGATGGTTTTGAGTCTT
23669180 GT
1 GT
23669182 ACCCGCAGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 21 0.68
33 10 0.32
ACGTcount: A:0.09, C:0.03, G:0.49, T:0.39
Consensus pattern (33 bp):
GTGGGTGGTGGGGCAGGGATGGTTTTGAGTCTT
Found at i:23670044 original size:22 final size:22
Alignment explanation
Indices: 23670005--23670093 Score: 79
Period size: 22 Copynumber: 3.8 Consensus size: 22
23669995 AAACGGAACA
** *
23670005 AACAGAGAGTACCGAAGTACTG
1 AACAGAGAGTACAAAAGTGCTG
*
23670027 AACAGAGAGTACATAAGTGCTGGG
1 AACAGAGAGTACAAAAGTGCT--G
* *
23670051 CAACAGAGAGCACACAAAGTGCTA
1 -AACAGAGAGTACA-AAAGTGCTG
23670075 AACAGAGAGTACACAAAGT
1 AACAGAGAGTACA-AAAGT
23670094 ATTGAGCACA
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
22 18 0.32
23 18 0.32
24 1 0.02
25 12 0.21
26 7 0.12
ACGTcount: A:0.44, C:0.18, G:0.26, T:0.12
Consensus pattern (22 bp):
AACAGAGAGTACAAAAGTGCTG
Found at i:23670078 original size:23 final size:23
Alignment explanation
Indices: 23670052--23670265 Score: 192
Period size: 23 Copynumber: 9.4 Consensus size: 23
23670042 AGTGCTGGGC
23670052 AACAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
23670075 AACAGAGAGTACACAAA--G-T-
1 AACAGAGAGCACACAAAGTGCTA
**
23670094 ---ATTGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
23670114 ATCAGAGAGCACACGAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
23670137 ATCAGAGAGCACACACAGTGCTAA
1 AACAGAGAGCACACAAAGTGCT-A
*
23670161 TAACAGAGAGCACACGAAGTGCTA
1 -AACAGAGAGCACACAAAGTGCTA
* * *
23670185 ATCGGAGAGCACACACAGTGCTAA
1 AACAGAGAGCACACAAAGTGCT-A
* *
23670209 TAACAGAGAGCACGA-GACGTGCTA
1 -AACAGAGAGCAC-ACAAAGTGCTA
*
23670233 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
23670256 ATCAGAGAGC
1 AACAGAGAGC
23670266 GCGCTAGTGT
Statistics
Matches: 153, Mismatches: 25, Indels: 26
0.75 0.12 0.13
Matches are distributed among these distances:
16 11 0.07
18 1 0.01
19 1 0.01
20 1 0.01
21 1 0.01
22 1 0.01
23 98 0.64
24 4 0.03
25 34 0.22
26 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.24, T:0.12
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTGCTA
Found at i:23670112 original size:39 final size:39
Alignment explanation
Indices: 23670058--23670132 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
23670048 GGGCAACAGA
*
23670058 GAGCACACAAAGTGCTAAACAGAGAGTACACAAAGTATT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTATT
* *
23670097 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGT
1 GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGT
23670133 GCTAATCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (39 bp):
GAGCACACAAAGTGCTAAACAGAGAGCACACAAAGTATT
Found at i:23670171 original size:48 final size:46
Alignment explanation
Indices: 23670097--23670265 Score: 250
Period size: 48 Copynumber: 3.6 Consensus size: 46
23670087 ACAAAGTATT
*
23670097 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCTAATCAGA
1 GAGCACACACAGTGCTAATCAGAGAGCACACGAAGTGCTAATCAGA
*
23670143 GAGCACACACAGTGCTAATAACAGAGAGCACACGAAGTGCTAATCGGA
1 GAGCACACACAGTGCTAAT--CAGAGAGCACACGAAGTGCTAATCAGA
* *
23670191 GAGCACACACAGTGCTAATAACAGAGAGCACGA-GACGTGCTAAACAGA
1 GAGCACACACAGTGCTAAT--CAGAGAGCAC-ACGAAGTGCTAATCAGA
23670239 GAGCACACACAGTGCTAATCAGAGAGC
1 GAGCACACACAGTGCTAATCAGAGAGC
23670266 GCGCTAGTGT
Statistics
Matches: 115, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
46 26 0.23
48 88 0.77
49 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.12
Consensus pattern (46 bp):
GAGCACACACAGTGCTAATCAGAGAGCACACGAAGTGCTAATCAGA
Found at i:23670237 original size:71 final size:70
Alignment explanation
Indices: 23670097--23670265 Score: 229
Period size: 71 Copynumber: 2.4 Consensus size: 70
23670087 ACAAAGTATT
23670097 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCTAATCAGAGAGCACACACAGTGCTAAT
1 GAGCACAC-AAGTGCTAATCAGAGAGCACACGAAGTGCTAATCAGAGAGCACACACAGTGCTAAT
23670162 AACAGA
65 AACAGA
* *
23670168 GAGCACACGAAGTGCTAATCGGAGAGCACAC-ACAGTGCTAATAACAGAGAGCACGAGAC-GTGC
1 GAGCACAC-AAGTGCTAATCAGAGAGCACACGA-AGTGCTAAT--CAGAGAGCAC-ACACAGTGC
23670231 T-A-AACAGA
61 TAATAACAGA
23670239 GAGCACACACAGTGCTAATCAGAGAGC
1 GAGCACACA-AGTGCTAATCAGAGAGC
23670266 GCGCTAGTGT
Statistics
Matches: 89, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
70 2 0.02
71 68 0.76
72 1 0.01
73 15 0.17
74 3 0.03
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.12
Consensus pattern (70 bp):
GAGCACACAAGTGCTAATCAGAGAGCACACGAAGTGCTAATCAGAGAGCACACACAGTGCTAATA
ACAGA
Found at i:23676559 original size:25 final size:26
Alignment explanation
Indices: 23676529--23676595 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 26
23676519 CGAAGTACTG
*
23676529 AACAGAGAGCACA-TAAGTGCTAGGC
1 AACAGAGAGCACACAAAGTGCTAGGC
23676554 AACAGAGAGCACACAAAGTGCTA-G-
1 AACAGAGAGCACACAAAGTGCTAGGC
*
23676578 -ACAGAGAGTACACAAAGT
1 AACAGAGAGCACACAAAGT
23676596 ACTGAGCACA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.44
25 14 0.36
26 8 0.21
ACGTcount: A:0.45, C:0.19, G:0.25, T:0.10
Consensus pattern (26 bp):
AACAGAGAGCACACAAAGTGCTAGGC
Found at i:23676581 original size:23 final size:22
Alignment explanation
Indices: 23676554--23676813 Score: 228
Period size: 23 Copynumber: 11.5 Consensus size: 22
23676544 AGTGCTAGGC
23676554 AACAGAGAGCACACAAAGTGCT
1 AACAGAGAGCACACAAAGTGCT
*
23676576 AGACAGAGAGTACACAAA--G-T
1 A-ACAGAGAGCACACAAAGTGCT
*
23676596 -AC--TGAGCACACAAAGTGCT
1 AACAGAGAGCACACAAAGTGCT
*
23676615 AATCAGAGAGCACACGAAGTGCT
1 AA-CAGAGAGCACACAAAGTGCT
*
23676638 AATCAGAGAGCACACGAAGTGCT
1 AA-CAGAGAGCACACAAAGTGCT
*
23676661 AATCAGAGAGCACACACAGTGCTAAT
1 AA-CAGAGAGCACACAAAGTGC---T
*
23676687 AACAGAGAGCACACATAGTGCT
1 AACAGAGAGCACACAAAGTGCT
*
23676709 AATCAGAGAGCACACGAAGTGCT
1 AA-CAGAGAGCACACAAAGTGCT
* *
23676732 AATCGGAGAGCACACACAGTGCTAAT
1 AA-CAGAGAGCACACAAAGTGC---T
* *
23676758 AACAGAGAGCACGA-GACGTGCT
1 AACAGAGAGCAC-ACAAAGTGCT
*
23676780 AAACAGAGAGCACACACAGTGCT
1 -AACAGAGAGCACACAAAGTGCT
23676803 AATCAGAGAGC
1 AA-CAGAGAGC
23676814 GCGCTAGTGT
Statistics
Matches: 199, Mismatches: 20, Indels: 37
0.78 0.08 0.14
Matches are distributed among these distances:
16 10 0.05
18 3 0.02
19 1 0.01
20 2 0.01
21 2 0.01
22 8 0.04
23 135 0.68
25 31 0.16
26 7 0.04
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.12
Consensus pattern (22 bp):
AACAGAGAGCACACAAAGTGCT
Found at i:23676709 original size:94 final size:93
Alignment explanation
Indices: 23676599--23676813 Score: 328
Period size: 94 Copynumber: 2.3 Consensus size: 93
23676589 ACAAAGTACT
23676599 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCTAATCAGAGAGCACACGA-AGTGCTAA
1 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCTAATCAGAGAGCACAC-ACAGTGCTAA
23676663 T-CAGAGAGCAC-ACACAGTGCTAATAACAGA
65 TACAGAGAGCACGACAC-GTGCT-A-AACAGA
* *
23676693 GAGCACACATAGTGCTAATCAGAGAGCACACGAAGTGCTAATCGGAGAGCACACACAGTGCTAAT
1 GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCTAATCAGAGAGCACACACAGTGCTAAT
*
23676758 AACAGAGAGCACGAGACGTGCTAAACAGA
66 -ACAGAGAGCACGACACGTGCTAAACAGA
*
23676787 GAGCACACACAGTGCTAATCAGAGAGC
1 GAGCACACAAAGTGCTAATCAGAGAGC
23676814 GCGCTAGTGT
Statistics
Matches: 113, Mismatches: 4, Indels: 8
0.90 0.03 0.06
Matches are distributed among these distances:
93 1 0.01
94 93 0.82
95 1 0.01
96 15 0.13
97 3 0.03
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.13
Consensus pattern (93 bp):
GAGCACACAAAGTGCTAATCAGAGAGCACACGAAGTGCTAATCAGAGAGCACACACAGTGCTAAT
ACAGAGAGCACGACACGTGCTAAACAGA
Found at i:23676713 original size:71 final size:70
Alignment explanation
Indices: 23676599--23676813 Score: 328
Period size: 71 Copynumber: 3.1 Consensus size: 70
23676589 ACAAAGTACT
*
23676599 GAGCACACAAAGTGCTAAT--CAGAGAGCACACGAAGTGCTAATCAGAGAGCACACGAAGTGCTA
1 GAGCACACACAGTGCTAATAACAGAGAGCACAC-AAGTGCTAATCAGAGAGCACACGAAGTGCTA
23676662 ATCAGA
65 ATCAGA
23676668 GAGCACACACAGTGCTAATAACAGAGAGCACACATAGTGCTAATCAGAGAGCACACGAAGTGCTA
1 GAGCACACACAGTGCTAATAACAGAGAGCACACA-AGTGCTAATCAGAGAGCACACGAAGTGCTA
*
23676733 ATCGGA
65 ATCAGA
* * *
23676739 GAGCACACACAGTGCTAATAACAGAGAGCACGAGACGTGCTAAACAGAGAGCACAC-ACAGTGCT
1 GAGCACACACAGTGCTAATAACAGAGAGCAC-ACAAGTGCTAATCAGAGAGCACACGA-AGTGCT
23676803 AATCAGA
64 AATCAGA
23676810 GAGC
1 GAGC
23676814 GCGCTAGTGT
Statistics
Matches: 135, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
69 18 0.13
70 2 0.01
71 113 0.84
72 2 0.01
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.13
Consensus pattern (70 bp):
GAGCACACACAGTGCTAATAACAGAGAGCACACAAGTGCTAATCAGAGAGCACACGAAGTGCTAA
TCAGA
Found at i:23689162 original size:36 final size:36
Alignment explanation
Indices: 23689121--23689209 Score: 142
Period size: 36 Copynumber: 2.5 Consensus size: 36
23689111 AAATTTACGC
* **
23689121 CCAAAATTGTTGTCGCATGAGCACTTTTAGATTGCA
1 CCAAAATTGTTGCCGCATGAGCACTTCCAGATTGCA
*
23689157 CCAAAATTGTCGCCGCATGAGCACTTCCAGATTGCA
1 CCAAAATTGTTGCCGCATGAGCACTTCCAGATTGCA
23689193 CCAAAATTGTTGCCGCA
1 CCAAAATTGTTGCCGCA
23689210 AGAATATTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (36 bp):
CCAAAATTGTTGCCGCATGAGCACTTCCAGATTGCA
Found at i:23689229 original size:36 final size:36
Alignment explanation
Indices: 23689121--23689240 Score: 96
Period size: 36 Copynumber: 3.3 Consensus size: 36
23689111 AAATTTACGC
* * * * ** *
23689121 CCAAAATTGTTGTCGCATGAGCACTTTTAGATTGCA
1 CCAAAATTGTCGCCGCAAGAACACTTCAAGAATGCA
* * * *
23689157 CCAAAATTGTCGCCGCATGAGCACTTCCAGATTGCA
1 CCAAAATTGTCGCCGCAAGAACACTTCAAGAATGCA
* * *
23689193 CCAAAATTGTTGCCGCAAGAATATTTCAAGAATGCA
1 CCAAAATTGTCGCCGCAAGAACACTTCAAGAATGCA
*
23689229 CCCAAGATTGTC
1 -CCAAAATTGTC
23689241 ACTGTATAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
36 61 0.87
37 9 0.13
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (36 bp):
CCAAAATTGTCGCCGCAAGAACACTTCAAGAATGCA
Found at i:23690966 original size:55 final size:55
Alignment explanation
Indices: 23690901--23691009 Score: 164
Period size: 55 Copynumber: 2.0 Consensus size: 55
23690891 TTATCCGGAC
* *
23690901 AGCTGTCAGATGCGGCGATAATTTTGGGAGCAATTCTAGATATGCTCATGCAGCA
1 AGCTGTCAGATGCGACGATAATTCTGGGAGCAATTCTAGATATGCTCATGCAGCA
* * * *
23690956 AGCTGTCAGATGCGACGATAATTCTGGGCGCAATTTTGGATATGGTCATGCAGC
1 AGCTGTCAGATGCGACGATAATTCTGGGAGCAATTCTAGATATGCTCATGCAGC
23691010 GAAATTAGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (55 bp):
AGCTGTCAGATGCGACGATAATTCTGGGAGCAATTCTAGATATGCTCATGCAGCA
Found at i:23695295 original size:59 final size:59
Alignment explanation
Indices: 23695203--23695318 Score: 205
Period size: 59 Copynumber: 2.0 Consensus size: 59
23695193 TCCAAGCTTG
* *
23695203 CTTTTATTGTTTAATCTTTGGGTTTGAATGTTTTGACCACGAAAGTGTTATTACAGTTT
1 CTTTTACTGTTTAATCTATGGGTTTGAATGTTTTGACCACGAAAGTGTTATTACAGTTT
*
23695262 CTTTTACTGTTTAATCTATGGGTTTGAATGTTTTGACCACGAAAGTGTTATTGCAGT
1 CTTTTACTGTTTAATCTATGGGTTTGAATGTTTTGACCACGAAAGTGTTATTACAGT
23695319 CATTGTCACT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.22, C:0.11, G:0.20, T:0.47
Consensus pattern (59 bp):
CTTTTACTGTTTAATCTATGGGTTTGAATGTTTTGACCACGAAAGTGTTATTACAGTTT
Found at i:23700994 original size:156 final size:151
Alignment explanation
Indices: 23700659--23701112 Score: 582
Period size: 155 Copynumber: 3.0 Consensus size: 151
23700649 CTATTTTTTT
* *
23700659 TTAAATATCAAAGTTTTTATTTTGAAGTAGTT-AAAAAATCAAGAA-TTTGTTTTTAAAAATTTA
1 TTAAATATCAAAGTTTTTATTTTGAAATAGTTAAAAAAATCAA-AACTTTGTTTTT-AAAATTTT
*
23700722 AACTTTTTTTCTTTAAAATCACTAAAAAAACATATTTTTATTTTTTAAAAATCTAAAC--TTTCT
64 AA-TTTTTTTCTTTAAAATAACTAAAAAAACATATTTTTATTTTTTAAAAATCTAAACTTTTTCT
*
23700785 TTTTTAAAAAAAAATCAAAACTTTAA
128 TTTTT-AAAAAAAATCAAAACTTT-C
*
23700811 TCAAATATCAAAGTTTTTATTTTGAAATAGTTAAAAAAAATCAAAACTTTGTTTTTAAAATTTTA
1 TTAAATATCAAAGTTTTTATTTTGAAATAGTT-AAAAAAATCAAAACTTTGTTTTTAAAATTTTA
*
23700876 ATTTTTTTCCTTTAACATAACTAAAAAAAAACATATTTTTATTTTTTAAAAATCTAAACTTTTTC
65 ATTTTTTT-CTTTAAAATAACT--AAAAAAACATATTTTTATTTTTTAAAAATCTAAACTTTTTC
23700941 TTTTTTAAAAAAAATCAAAACATTTC
127 TTTTTTAAAAAAAATCAAAAC-TTTC
* * * * *
23700967 TTAAAAATCAAAGTTTTTATTTCGAAATAATTAAAAAAATCAAAACTTTATTTTTAAAAATTTAA
1 TTAAATATCAAAGTTTTTATTTTGAAATAGTTAAAAAAATCAAAACTTTGTTTTTAAAATTTTAA
** * * * * * *
23701032 ACTTTTT-TTTAAAATGACT-AAAATATAGATTTTTATTTTTTTAAAATCTAAACTTGTTC--TT
66 TTTTTTTCTTTAAAATAACTAAAAAAACATATTTTTATTTTTTAAAAATCTAAACTTTTTCTTTT
*
23701093 TTAAAAAAAAGCAAAACTTT
131 TTAAAAAAAATCAAAACTTT
23701113 TCCCAAGATC
Statistics
Matches: 271, Mismatches: 22, Indels: 23
0.86 0.07 0.07
Matches are distributed among these distances:
147 3 0.01
148 18 0.07
150 35 0.13
152 37 0.14
153 32 0.12
154 19 0.07
155 71 0.26
156 43 0.16
157 13 0.05
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (151 bp):
TTAAATATCAAAGTTTTTATTTTGAAATAGTTAAAAAAATCAAAACTTTGTTTTTAAAATTTTAA
TTTTTTTCTTTAAAATAACTAAAAAAACATATTTTTATTTTTTAAAAATCTAAACTTTTTCTTTT
TTAAAAAAAATCAAAACTTTC
Found at i:23701027 original size:21 final size:20
Alignment explanation
Indices: 23701001--23701045 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
23700991 AAATAATTAA
23701001 AAAAATCAAAACTTTATTTTT
1 AAAAATCAAAACTTT-TTTTT
**
23701022 AAAAATTTAAACTTTTTTTT
1 AAAAATCAAAACTTTTTTTT
23701042 AAAA
1 AAAA
23701046 TGACTAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAAATCAAAACTTTTTTTT
Found at i:23713634 original size:22 final size:22
Alignment explanation
Indices: 23713606--23713659 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
23713596 TAGAGTTATT
**
23713606 CTTCTAGTGCATCCGGT-AGATC
1 CTTCTAGTGCATAAGGTGA-ATC
23713628 CTTCTAGTGCATAAGGTGAATC
1 CTTCTAGTGCATAAGGTGAATC
23713650 CTTCTAGTGC
1 CTTCTAGTGC
23713660 TCTGTATAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.33
Consensus pattern (22 bp):
CTTCTAGTGCATAAGGTGAATC
Found at i:23718927 original size:13 final size:13
Alignment explanation
Indices: 23718909--23718933 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23718899 ACCCATTTTA
23718909 AATTTATTTTAAG
1 AATTTATTTTAAG
23718922 AATTTATTTTAA
1 AATTTATTTTAA
23718934 ATTTAAATTT
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:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
AATTTATTTTAAG
Found at i:23718940 original size:6 final size:6
Alignment explanation
Indices: 23718929--23718993 Score: 73
Period size: 6 Copynumber: 11.0 Consensus size: 6
23718919 AAGAATTTAT
*
23718929 TTTAAA TTTAAA TTT--A TTCTAAAA TTTAAA TTT-AA TTTAAG TTTAAA
1 TTTAAA TTTAAA TTTAAA TT-T-AAA TTTAAA TTTAAA TTTAAA TTTAAA
*
23718976 TTTATA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
23718994 ACTATTATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
4 3 0.06
5 6 0.12
6 37 0.74
7 1 0.02
8 3 0.06
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:23718968 original size:35 final size:35
Alignment explanation
Indices: 23718922--23718993 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
23718912 TTATTTTAAG
*
23718922 AATTTATTTTAAATTTAAATTTAT-TCTAAAATTTA
1 AATTTAATTTAAATTTAAATTTATAT-TAAAATTTA
* *
23718957 AATTTAATTTAAGTTTAAATTTATATTTAAATTTA
1 AATTTAATTTAAATTTAAATTTATATTAAAATTTA
23718992 AA
1 AA
23718994 ACTATTATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (35 bp):
AATTTAATTTAAATTTAAATTTATATTAAAATTTA
Found at i:23720792 original size:30 final size:29
Alignment explanation
Indices: 23720758--23721058 Score: 245
Period size: 29 Copynumber: 10.3 Consensus size: 29
23720748 TCGAACTTTA
23720758 AAAAATTCCATTTTTAACCCCAAAACTTCT
1 AAAAATTCCATTTTT-ACCCCAAAACTTCT
23720788 AAAAATTACC-TTTTTACCCTC-AAACTTCT
1 AAAAATT-CCATTTTTACCC-CAAAACTTCT
* *
23720817 AAAAATTCTATTTTTGACCTCAAAACTTCT
1 AAAAATTCCATTTTT-ACCCCAAAACTTCT
* * *** * *
23720847 CAAAATTACATTTTTA-CCTTTAATTTCC
1 AAAAATTCCATTTTTACCCCAAAACTTCT
* *
23720875 AAAAATTCCATTTTAACCCCAAAACTTTT
1 AAAAATTCCATTTTTACCCCAAAACTTCT
* * ** * * *
23720904 CAAAACTATATTTTTACCCCCAAACATCC
1 AAAAATTCCATTTTTACCCCAAAACTTCT
* *
23720933 AAAAATTTCATTTTTGACCCCTAAACTTCT
1 AAAAATTCCATTTTT-ACCCCAAAACTTCT
* * *
23720963 AAAAATTACATTTTTACCCTC-GAACTTCC
1 AAAAATTCCATTTTTACCC-CAAAACTTCT
*
23720992 AAAAGTTCCATTTTTAACCCCAAAACTT-T
1 AAAAATTCCATTTTT-ACCCCAAAACTTCT
* *
23721021 CAAAAATTACATTTTTACCCCTAAACTT-T
1 -AAAAATTCCATTTTTACCCCAAAACTTCT
23721050 CAAAAATTC
1 -AAAAATTC
23721059 AAGTTTTGAC
Statistics
Matches: 213, Mismatches: 47, Indels: 23
0.75 0.17 0.08
Matches are distributed among these distances:
28 20 0.09
29 107 0.50
30 84 0.39
31 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.01, T:0.36
Consensus pattern (29 bp):
AAAAATTCCATTTTTACCCCAAAACTTCT
Found at i:23720821 original size:59 final size:59
Alignment explanation
Indices: 23720730--23721058 Score: 378
Period size: 59 Copynumber: 5.6 Consensus size: 59
23720720 AAACTGCTCG
* * * **
23720730 AAAATTACGTTTTTACACTCGAACTTTAAAAAATTCCATTTTTAACCCCAAAACTTCTA
1 AAAATTACATTTTTACCCTCAAACTTCCAAAAATTCCATTTTTAACCCCAAAACTTCTA
* * * * * *
23720789 AAAATTACCTTTTTACCCTCAAACTTCTAAAAATTCTATTTTTGACCTCAAAACTTCTC
1 AAAATTACATTTTTACCCTCAAACTTCCAAAAATTCCATTTTTAACCCCAAAACTTCTA
** * * *
23720848 AAAATTACATTTTTA-CCTTTAATTTCCAAAAATTCCA-TTTTAACCCCAAAACTTTTC
1 AAAATTACATTTTTACCCTCAAACTTCCAAAAATTCCATTTTTAACCCCAAAACTTCTA
* * * * * * *
23720905 AAAACTATATTTTTACCCCCAAACATCCAAAAATTTCATTTTTGACCCCTAAACTTCTA
1 AAAATTACATTTTTACCCTCAAACTTCCAAAAATTCCATTTTTAACCCCAAAACTTCTA
* *
23720964 AAAATTACATTTTTACCCTCGAACTTCCAAAAGTTCCATTTTTAACCCCAAAACTT-TCA
1 AAAATTACATTTTTACCCTCAAACTTCCAAAAATTCCATTTTTAACCCCAAAACTTCT-A
*
23721023 AAAATTACATTTTTACCC-CTAAACTTTCAAAAATTC
1 AAAATTACATTTTTACCCTC-AAACTTCCAAAAATTC
23721059 AAGTTTTGAC
Statistics
Matches: 224, Mismatches: 42, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
57 30 0.13
58 35 0.16
59 159 0.71
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (59 bp):
AAAATTACATTTTTACCCTCAAACTTCCAAAAATTCCATTTTTAACCCCAAAACTTCTA
Found at i:23727992 original size:49 final size:49
Alignment explanation
Indices: 23727933--23728368 Score: 286
Period size: 49 Copynumber: 8.7 Consensus size: 49
23727923 AAACACGGCA
* * *
23727933 GGAAAGATCTAAGACCGCAACGGTGGATCCAGTACCGCGATGACACCAG
1 GGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAG
* * *
23727982 GGAAAGATCTAAGACCGCAACGGCGGATCCAATACCGCGAAGTCACCAG
1 GGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAG
* * * * * * *
23728031 GGAAAGATCTAAGACTGCAACGACGGATCTAATATCGCGAAGACATAAA
1 GGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAG
* ** * * *
23728080 GGAAAGATCTAATACCGCAACGGTAGATCCAGTACCACAAAGATACAGAAG
1 GGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAG--ACACAAG
* * * * * *
23728131 GGAAAGATCTAAGACCGTAATGGCGAATCCAGTACCGCAAAAAGATAAAAG
1 GGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGC--GAAGACACAAG
* * * * *
23728182 GGAAAGGTCTAAG-TCGCAACGGCGGA-CCGTGTACCTCAGAAGACACGACG
1 GGAAAGATCTAAGACCGCAACGGCGGATCC-AGTACCGC-GAAGACAC-AAG
* * * * * * * * *
23728232 AGAAAGATCTAAGATCGTAACGGTGAATCTAGTATCGCAAAGAAACAAAAG
1 GGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAG--ACACAAG
* * * ** * * * * * *
23728283 GAAAAGGTCTAAG-TCTTAACGAC-GAACCGTGTACCTCAGAAGACATGACG
1 GGAAAGATCTAAGACCGCAACGGCGGATCC-AGTACCGC-GAAGACA-CAAG
23728333 GGAAAGATCTAAGACCGCAACGGCGGATCCAGTACC
1 GGAAAGATCTAAGACCGCAACGGCGGATCCAGTACC
23728369 ACAAAAAGAC
Statistics
Matches: 293, Mismatches: 79, Indels: 28
0.73 0.20 0.07
Matches are distributed among these distances:
49 131 0.45
50 56 0.19
51 94 0.32
52 8 0.03
53 4 0.01
ACGTcount: A:0.39, C:0.22, G:0.25, T:0.14
Consensus pattern (49 bp):
GGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAG
Found at i:23728237 original size:101 final size:101
Alignment explanation
Indices: 23728132--23728393 Score: 355
Period size: 101 Copynumber: 2.6 Consensus size: 101
23728122 ATACAGAAGG
* *
23728132 GAAAGATCTAAGACCGTAATGGCGAATCCAGTACCGCAAAAAGATAAAAGGGAAAGGTCTAAGTC
1 GAAAGATCTAAGACCGTAACGGCGAATCCAGTACCGCAAAAAGACAAAAGGGAAAGGTCTAAGTC
* *
23728197 GCAACGGCGGACCGTGTACCTCAGAAGACACGACGA
66 GCAACGACGAACCGTGTACCTCAGAAGACACGACGA
* * * * *
23728233 GAAAGATCTAAGATCGTAACGGTGAATCTAGTATCGCAAAGAA-ACAAAAGGAAAAGGTCTAAGT
1 GAAAGATCTAAGACCGTAACGGCGAATCCAGTACCGCAAA-AAGACAAAAGGGAAAGGTCTAAGT
** * *
23728297 CTTAACGACGAACCGTGTACCTCAGAAGACATGACGG
65 CGCAACGACGAACCGTGTACCTCAGAAGACACGACGA
* * * *
23728334 GAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAAAGACAAAAGGGAAAAGTCT
1 GAAAGATCTAAGACCGTAACGGCGAATCCAGTACCGCAAAAAGACAAAAGGGAAAGGTCT
23728394 TTATCTCTCT
Statistics
Matches: 137, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
100 2 0.01
101 133 0.97
102 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.25, T:0.14
Consensus pattern (101 bp):
GAAAGATCTAAGACCGTAACGGCGAATCCAGTACCGCAAAAAGACAAAAGGGAAAGGTCTAAGTC
GCAACGACGAACCGTGTACCTCAGAAGACACGACGA
Found at i:23728243 original size:50 final size:51
Alignment explanation
Indices: 23728183--23728357 Score: 135
Period size: 50 Copynumber: 3.5 Consensus size: 51
23728173 AGATAAAAGG
* *
23728183 GAAAGGTCTAAG-TCGCAACGGCGGACCGTGTACCTCAGAAGACACGACGA
1 GAAAGATCTAAGATCGCAACGGCGAACCGTGTACCTCAGAAGACACGACGA
* * * * * * **
23728233 GAAAGATCTAAGATCGTAACGGTGAATC-TAGTATCGCA-AAGAAAC-AAAA
1 GAAAGATCTAAGATCGCAACGGCGAACCGT-GTACCTCAGAAGACACGACGA
* ** * * *
23728282 GGAAAAGGTCTAAG-TCTTAACGACGAACCGTGTACCTCAGAAGACATGACGG
1 -G-AAAGATCTAAGATCGCAACGGCGAACCGTGTACCTCAGAAGACACGACGA
*
23728334 GAAAGATCTAAGACCGCAACGGCG
1 GAAAGATCTAAGATCGCAACGGCG
23728358 GATCCAGTAC
Statistics
Matches: 90, Mismatches: 27, Indels: 15
0.68 0.20 0.11
Matches are distributed among these distances:
49 2 0.02
50 46 0.51
51 41 0.46
52 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.15
Consensus pattern (51 bp):
GAAAGATCTAAGATCGCAACGGCGAACCGTGTACCTCAGAAGACACGACGA
Found at i:23728545 original size:92 final size:92
Alignment explanation
Indices: 23728388--23728633 Score: 413
Period size: 92 Copynumber: 2.7 Consensus size: 92
23728378 CAAAAGGGAA
*
23728388 AAGTCTTTATCTCTCTAAAGTTGTAGTAAGAGCAAGATGAAGCTTTAAACATCAATTCCTATCCT
1 AAGTCTTTATCTCTCTAAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCT
*
23728453 CCTGAAGTTGCAGTAAAGTTAGATAGC
66 CCTGAAGTTGCAATAAAGTTAGATAGC
23728480 AAGTCTTTATCTCTCTAAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCT
1 AAGTCTTTATCTCTCTAAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCT
* *
23728545 CTTGAAGTTGCAATAAAGTTGGATAGC
66 CCTGAAGTTGCAATAAAGTTAGATAGC
* * * *
23728572 AAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTC-GACATCAAATCCTATC
1 AAGTCTTTATCTCTCTAAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
23728634 TTCATAAAGA
Statistics
Matches: 146, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 14 0.10
92 132 0.90
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (92 bp):
AAGTCTTTATCTCTCTAAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCT
CCTGAAGTTGCAATAAAGTTAGATAGC
Found at i:23728785 original size:39 final size:39
Alignment explanation
Indices: 23728717--23728864 Score: 122
Period size: 39 Copynumber: 3.8 Consensus size: 39
23728707 ATGAATATTC
* * * *
23728717 TGATCTCTTACCCTGAGCTAGAGGAAGATCAAAGCCATT
1 TGATCTTTTACCCCGAGCTAGAGGCAGATCACAGCCATT
* * * **
23728756 TGATCTTTTACCCCGAGCTTGGGGCAGATCATCA-TCAAC
1 TGATCTTTTACCCCGAGCTAGAGGCAGATCA-CAGCCATT
* * **
23728795 TAAT-TTCTTACCCCGAGCCA-AGGGCAGATTGCAGCCATT
1 TGATCTT-TTACCCCGAGCTAGA-GGCAGATCACAGCCATT
*
23728834 TGATCTTTTACCCCGAGCTTGAGGCAGATCA
1 TGATCTTTTACCCCGAGCTAGAGGCAGATCA
23728865 TCATCAACCA
Statistics
Matches: 80, Mismatches: 23, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
38 4 0.05
39 72 0.90
40 4 0.05
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (39 bp):
TGATCTTTTACCCCGAGCTAGAGGCAGATCACAGCCATT
Found at i:23728831 original size:78 final size:78
Alignment explanation
Indices: 23728749--23728963 Score: 292
Period size: 78 Copynumber: 2.8 Consensus size: 78
23728739 GGAAGATCAA
*
23728749 AGCCATTTGATCTTTTACCCCGAGCTTGGGGCAGATCATCATCAACTAATTTCTTACCCCGAGCC
1 AGCCATTTGATCTTTTACCCCGAGCTTGGGGCAGATCATCATCAACCAATTTCTTACCCCGAGCC
23728814 AAGGG-CAGATTGC
66 -AGGGACAGATTGC
* *
23728827 AGCCATTTGATCTTTTACCCCGAGCTTGAGGCAGATCATCATCAACCAATCTCTTACCCCGAGCC
1 AGCCATTTGATCTTTTACCCCGAGCTTGGGGCAGATCATCATCAACCAATTTCTTACCCCGAGCC
*
23728892 TGGGACAGATTGC
66 AGGGACAGATTGC
* * * * * *
23728905 AACCA-TTCAACTTTTTACTCCGAGCTTAGAGCAGATCATCATCAACCAATCTTC-TACCC
1 AGCCATTTGATC-TTTTACCCCGAGCTTGGGGCAGATCATCATCAACCAAT-TTCTTACCC
23728964 TGATCATGGG
Statistics
Matches: 122, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
77 7 0.06
78 113 0.93
79 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (78 bp):
AGCCATTTGATCTTTTACCCCGAGCTTGGGGCAGATCATCATCAACCAATTTCTTACCCCGAGCC
AGGGACAGATTGC
Found at i:23728884 original size:39 final size:39
Alignment explanation
Indices: 23728758--23728963 Score: 126
Period size: 39 Copynumber: 5.3 Consensus size: 39
23728748 AAGCCATTTG
* *
23728758 ATCTTTTACCCCGAGCTTGGGGCAGATCATCATCAACTA
1 ATCTTTTACCCCGAGCTTGAGGCAGATCATCATCAACCA
** * ****
23728797 AT-TTCTTACCCCGAGC-CAAGGGCAGAT--TGCAGCCATTTG
1 ATCTT-TTACCCCGAGCTTGA-GGCAGATCAT-CA-TCAACCA
23728836 ATCTTTTACCCCGAGCTTGAGGCAGATCATCATCAACCA
1 ATCTTTTACCCCGAGCTTGAGGCAGATCATCATCAACCA
* * *
23728875 ATCTCTTACCCCGAGCCTG-GGACAGATTGCAACCATTCAA-C-
1 ATCTTTTACCCCGAGCTTGAGG-CAGA-T-C-ATCA-TCAACCA
*
23728916 -T-TTTTACTCCGAGCTT-AGAGCAGATCATCATCAACCA
1 ATCTTTTACCCCGAGCTTGAG-GCAGATCATCATCAACCA
*
23728953 ATCTTCTACCC
1 ATCTTTTACCC
23728964 TGATCATGGG
Statistics
Matches: 125, Mismatches: 23, Indels: 38
0.67 0.12 0.20
Matches are distributed among these distances:
35 4 0.03
36 4 0.03
37 2 0.02
38 8 0.06
39 89 0.71
40 8 0.06
41 2 0.02
42 4 0.03
43 4 0.03
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.27
Consensus pattern (39 bp):
ATCTTTTACCCCGAGCTTGAGGCAGATCATCATCAACCA
Found at i:23729171 original size:37 final size:36
Alignment explanation
Indices: 23729130--23729223 Score: 124
Period size: 32 Copynumber: 2.7 Consensus size: 36
23729120 AAATGGTTAG
*
23729130 CTTCCTAATGAGATACTGAGAAGTGGACCAAATTCGT
1 CTTCCT-ATGAGATACTGAGAAGTGGACCAAATTCAT
23729167 CTTCC--TGA-A-ACTGAGAAGTGGACCAAATTCAT
1 CTTCCTATGAGATACTGAGAAGTGGACCAAATTCAT
*
23729199 CTTCCTGATGAGATACAGAGAAGTG
1 CTTCCT-ATGAGATACTGAGAAGTG
23729224 AATTGAAACA
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
32 27 0.54
33 1 0.02
34 3 0.06
35 3 0.06
36 1 0.02
37 15 0.30
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (36 bp):
CTTCCTATGAGATACTGAGAAGTGGACCAAATTCAT
Found at i:23729562 original size:206 final size:207
Alignment explanation
Indices: 23729176--23729839 Score: 1165
Period size: 206 Copynumber: 3.2 Consensus size: 207
23729166 TCTTCCTGAA
* * *
23729176 ACTGAGAAGTGGACCAAATTCATCTTCCTGATGAGATACAGAGAAGTGAATTGAAACAAACGATA
1 ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAACGATG
* ** *
23729241 CGGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAGCCCACGCTC-GATATGAGCAA
66 CGGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACAATCAAATATGAGCAA
* *
23729305 ATCTTCGAA-CCTCAGCTTCCTGATGAGATACTAAGAAGCAGGTCAAAGCAATAAAATGGTTAGC
131 ATCTTTGAACCCT-AGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGC
23729369 TTCTTGATGAGAT
195 TTCTTGATGAGAT
*
23729382 ACTGAG-AGTGGACCAAATTCGTCTTCTTGATGAGATACAGAGAAGCGAATTGAAACAAACGATG
1 ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAACGATG
23729446 CGGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACAATCAAATATGAGCAA
66 CGGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACAATCAAATATGAGCAA
23729511 ATCTTTGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCT
131 ATCTTTGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCT
23729576 TCTTGATGAGAT
196 TCTTGATGAGAT
*
23729588 ACTGAG-AGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTAAAACAAACGATG
1 ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAACGATG
23729652 CGGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACAATCAAATATGAGCAA
66 CGGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACAATCAAATATGAGCAA
*
23729717 ATCTTTGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCT
131 ATCTTTGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCT
*
23729782 TCTTGATGAGGT
196 TCTTGATGAGAT
*
23729794 ACTGAGAAGTGGACCAAATTCGTCTTCCTGGTGAGATACAGAGAAG
1 ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAG
23729840 TACGCCAACT
Statistics
Matches: 440, Mismatches: 15, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
205 104 0.24
206 295 0.67
207 41 0.09
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.23
Consensus pattern (207 bp):
ACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAACGATG
CGGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACAATCAAATATGAGCAA
ATCTTTGAACCCTAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAATGGTTAGCT
TCTTGATGAGAT
Found at i:23730043 original size:158 final size:154
Alignment explanation
Indices: 23729572--23730064 Score: 451
Period size: 158 Copynumber: 3.2 Consensus size: 154
23729562 TAAAATGGTT
* *
23729572 AGCTTCTTGATGAGATACTGAG-AGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGA
1 AGCTTCCTGATGAGATACTGAGAAGCGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGA
* *
23729636 ATTAAAACAAACGATGCGGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAACCCAC
66 ATTGAAAC-AACGAT-CGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAA-CC-C
* * *
23729701 AATCAAATATGAGCAAATCTTTGAACCCT
127 AATC-GATATGAGCAAATCTTCGAACCCC
* * * * *
23729730 AGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCTTGATGAGGTA
1 AGCTTCCTGATGAGATACTGAGAAGC--G--G-A-C--CAAATTCG-T--CTTCCTGATGAGATA
* * * * * * * *
23729795 CTGAGAA--G---TGGACCAA--AT---TCGTCTTCCTGGTGAGATACAGAGAAGTACG-CCAAC
55 CAGAGAAGCGAATTGAAACAACGATCGGTCATCTTCCTGATGAGATACTGAGAAG-AAGACCAAA
** *
23729849 TCGAGGCTCAAT-G---TGAGCAAATCTTCGAACCCC
119 TC-AAACCCAATCGATATGAGCAAATCTTCGAACCCC
* *
23729882 AGCTTCCTTATGAGATACTGAGAAGCGGACCAAATTCGTCTTCCTGATGAGAAACAGAGAAGCGA
1 AGCTTCCTGATGAGATACTGAGAAGCGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGA
23729947 ATTGAAACAAGCGATACGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCAT
66 ATTGAAACAA-CGAT-CGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCA-
23730012 GATCGATATGAGCAAATCTTCGAACCCC
128 -ATCGATATGAGCAAATCTTCGAACCCC
23730040 AGCTTCCTGATGAGATACTGAGAAG
1 AGCTTCCTGATGAGATACTGAGAAG
23730065 AAGGCCAAGT
Statistics
Matches: 260, Mismatches: 42, Indels: 66
0.71 0.11 0.18
Matches are distributed among these distances:
141 18 0.07
143 2 0.01
144 5 0.02
146 7 0.03
147 1 0.00
148 1 0.00
149 2 0.01
150 1 0.00
152 49 0.19
153 30 0.12
154 2 0.01
155 1 0.00
157 4 0.02
158 95 0.37
159 5 0.02
161 1 0.00
162 2 0.01
163 1 0.00
164 3 0.01
165 4 0.02
167 5 0.02
168 2 0.01
170 19 0.07
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (154 bp):
AGCTTCCTGATGAGATACTGAGAAGCGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGA
ATTGAAACAACGATCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCAATC
GATATGAGCAAATCTTCGAACCCC
Found at i:23730429 original size:17 final size:17
Alignment explanation
Indices: 23730408--23730534 Score: 150
Period size: 17 Copynumber: 7.4 Consensus size: 17
23730398 CTCAACCCAT
23730408 TTTAAATTTAATTTAAGA
1 TTTAAATTTAATTTAA-A
*
23730426 -TTAAATTTATTTTAAA
1 TTTAAATTTAATTTAAA
* *
23730442 TTTGAATTTATTTTAAA
1 TTTAAATTTAATTTAAA
* *
23730459 TTTGAATTTATTTTAAA
1 TTTAAATTTAATTTAAA
23730476 TTTAAATTT-ATTCTAAAA
1 TTTAAATTTAATT-T-AAA
*
23730494 TTTAAATTTAATTTAAG
1 TTTAAATTTAATTTAAA
23730511 TTTAAATTTATATTTAAA
1 TTTAAATTTA-ATTTAAA
23730529 TTTAAA
1 TTTAAA
23730535 ACTATTATAA
Statistics
Matches: 98, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.03
17 67 0.68
18 25 0.26
19 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAATTTAATTTAAA
Found at i:23730479 original size:6 final size:6
Alignment explanation
Indices: 23730408--23730534 Score: 108
Period size: 6 Copynumber: 22.0 Consensus size: 6
23730398 CTCAACCCAT
* * *
23730408 TTTAAA TTT-AA TTTAAGA -TTAAA TTT-AT TTTAAA TTTGAA TTT-AT
1 TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
23730453 TTTAAA TTTGAA TTT-AT TTTAAA TTTAAA TTT--A TTCTAAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-T-AAA TTTAAA
* *
23730500 TTT-AA TTTAAG TTTAAA TTTATA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
23730535 ACTATTATAA
Statistics
Matches: 98, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
4 3 0.03
5 24 0.24
6 66 0.67
7 2 0.02
8 3 0.03
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:23731713 original size:24 final size:21
Alignment explanation
Indices: 23731667--23731727 Score: 68
Period size: 24 Copynumber: 2.7 Consensus size: 21
23731657 AGAAAGAAGT
* *
23731667 TTTTAAAAGAAAGAAAAAGGG
1 TTTTAAAAGAAAAAAAAACGG
23731688 TTTTCAAAAGAAAAATCAAAACGG
1 TTTT-AAAAGAAAAA--AAAACGG
23731712 TTTTAAAGAGAAAAAA
1 TTTTAAA-AGAAAAAA
23731728 GAAAGAAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 4 0.12
22 10 0.29
23 3 0.09
24 17 0.50
ACGTcount: A:0.57, C:0.05, G:0.16, T:0.21
Consensus pattern (21 bp):
TTTTAAAAGAAAAAAAAACGG
Found at i:23732512 original size:29 final size:29
Alignment explanation
Indices: 23732480--23732880 Score: 308
Period size: 29 Copynumber: 13.7 Consensus size: 29
23732470 TTTACCCTCG
** * *
23732480 AACTTCCAAAAATTTTATTTTAACCCCGA
1 AACTTCCAAAAATTACATTTTTACCCCTA
*** * * *
23732509 AACTTTTGAAAATTACCTTTTTACCCTTT
1 AACTTCCAAAAATTACATTTTTACCCCTA
* * *
23732538 AACTTCTAAAAATTCCATTTTTAACCCTAA
1 AACTTCCAAAAATTACATTTTTACCCCT-A
23732568 AACTTCTC-AAAATTACATTTTTACCCCTA
1 AACTTC-CAAAAATTACATTTTTACCCCTA
* * *
23732597 AATTTCCAAAAATTCCATTTTGA-CCCTAA
1 AACTTCCAAAAATTACATTTTTACCCCT-A
*
23732626 AACTTCTC-AAAATTATATTTTTACTCCC-A
1 AACTTC-CAAAAATTACATTTTTAC-CCCTA
* * *
23732655 AACTTTCAAAAATTCCATTTTTAACCCTAA
1 AACTTCCAAAAATTACATTTTTACCCCT-A
**
23732685 AACTTCTTAAAATTACATTTTTACCCCTA
1 AACTTCCAAAAATTACATTTTTACCCCTA
** * * *
23732714 AACTTCCAAAAATTTTATTCTTGACCTCGA
1 AACTTCCAAAAATTACATT-TTTACCCCTA
*** *
23732744 AACTTTTGAAAATTACATTTTTACCCTTA
1 AACTTCCAAAAATTACATTTTTACCCCTA
* *
23732773 AACTTCCAAAAGTTCCATTTTTGACCCCTA
1 AACTTCCAAAAATTACATTTTT-ACCCCTA
*** *
23732803 AACTTTTGAAAATTACATTTTTACCCCCA
1 AACTTCCAAAAATTACATTTTTACCCCTA
* *
23732832 AACTTCCAAAAATTCCATTTTTGACCTCT-
1 AACTTCCAAAAATTACATTTTT-ACCCCTA
* * *
23732861 GACATCCAAAAATTCCATTT
1 AACTTCCAAAAATTACATTT
23732881 CTTATCCCGA
Statistics
Matches: 287, Mismatches: 72, Indels: 26
0.75 0.19 0.07
Matches are distributed among these distances:
28 9 0.03
29 178 0.62
30 97 0.34
31 3 0.01
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (29 bp):
AACTTCCAAAAATTACATTTTTACCCCTA
Found at i:23732854 original size:59 final size:60
Alignment explanation
Indices: 23732480--23732857 Score: 443
Period size: 59 Copynumber: 6.4 Consensus size: 60
23732470 TTTACCCTCG
** * * * * *
23732480 AACTTCCAAAAATTTTA-TTTTAACCCC-GAAACTTTTGAAAATTACCTTTTTACCCTTT
1 AACTTCCAAAAATTCCATTTTTGACCCCTAAAACTTTTGAAAATTACATTTTTACCCCTA
* * * *
23732538 AACTTCTAAAAATTCCATTTTT-AACCCTAAAACTTCTCAAAATTACATTTTTACCCCTA
1 AACTTCCAAAAATTCCATTTTTGACCCCTAAAACTTTTGAAAATTACATTTTTACCCCTA
* * * *
23732597 AATTTCCAAAAATTCCA-TTTTGA-CCCTAAAACTTCTCAAAATTATATTTTTACTCCC-A
1 AACTTCCAAAAATTCCATTTTTGACCCCTAAAACTTTTGAAAATTACATTTTTAC-CCCTA
* *
23732655 AACTTTCAAAAATTCCATTTTT-AACCCTAAAACTTCTT-AAAATTACATTTTTACCCCTA
1 AACTTCCAAAAATTCCATTTTTGACCCCTAAAACTT-TTGAAAATTACATTTTTACCCCTA
** * * * *
23732714 AACTTCCAAAAATTTTATTCTTGACCTC-GAAACTTTTGAAAATTACATTTTTACCCTTA
1 AACTTCCAAAAATTCCATTTTTGACCCCTAAAACTTTTGAAAATTACATTTTTACCCCTA
* *
23732773 AACTTCCAAAAGTTCCATTTTTGACCCCT-AAACTTTTGAAAATTACATTTTTACCCCCA
1 AACTTCCAAAAATTCCATTTTTGACCCCTAAAACTTTTGAAAATTACATTTTTACCCCTA
23732832 AACTTCCAAAAATTCCATTTTTGACC
1 AACTTCCAAAAATTCCATTTTTGACC
23732858 TCTGACATCC
Statistics
Matches: 276, Mismatches: 33, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
58 73 0.26
59 199 0.72
60 4 0.01
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (60 bp):
AACTTCCAAAAATTCCATTTTTGACCCCTAAAACTTTTGAAAATTACATTTTTACCCCTA
Found at i:23732954 original size:58 final size:60
Alignment explanation
Indices: 23732892--23733003 Score: 138
Period size: 58 Copynumber: 1.9 Consensus size: 60
23732882 TTATCCCGAT
* * * *
23732892 TTTTCTAAAAATTACCGTTTTACCCCCGAATGTCTAAAAT-T-TCATTTTTAACCTCAAA
1 TTTTCCAAAAATTACCATTTTACCCCCGAATATCCAAAATGTCTCATTTTTAACCTCAAA
* * * *
23732950 TTTTCCCAAGATTACCATTTTGCCCCCGAGTATCCAAAATGTCTCATTTTTAAC
1 TTTTCCAAAAATTACCATTTTACCCCCGAATATCCAAAATGTCTCATTTTTAAC
23733004 TCCGATTGCA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
58 32 0.73
59 1 0.02
60 11 0.25
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (60 bp):
TTTTCCAAAAATTACCATTTTACCCCCGAATATCCAAAATGTCTCATTTTTAACCTCAAA
Found at i:23735178 original size:26 final size:26
Alignment explanation
Indices: 23735142--23735204 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
23735132 TTACTTTCCT
23735142 CCAAAAA-TTTTACTTCCCCCAAACC
1 CCAAAAACTTTTACTTCCCCCAAACC
* *
23735167 CCAAAAACTTTTACTTCTCTCAAACC
1 CCAAAAACTTTTACTTCCCCCAAACC
23735193 CC-AAAACTTTTA
1 CCAAAAACTTTTA
23735205 TTTCAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 17 0.49
26 18 0.51
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (26 bp):
CCAAAAACTTTTACTTCCCCCAAACC
Found at i:23738795 original size:30 final size:30
Alignment explanation
Indices: 23738755--23738821 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
23738745 TCCAATGTCC
* * *
23738755 CCTATGTTCCTGAGAACTCGAAAGCCCA-T
1 CCTATCTTCCTGACAACTCCAAAGCCCATT
*
23738784 CCATATCTTCCTGACAACTCCAAAGGCCATT
1 CC-TATCTTCCTGACAACTCCAAAGCCCATT
23738815 CCTATCT
1 CCTATCT
23738822 CCCCTTTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 2 0.06
30 27 0.84
31 3 0.09
ACGTcount: A:0.27, C:0.34, G:0.12, T:0.27
Consensus pattern (30 bp):
CCTATCTTCCTGACAACTCCAAAGCCCATT
Found at i:23741917 original size:19 final size:18
Alignment explanation
Indices: 23741887--23741941 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
23741877 ATTTATTTAT
23741887 TATTTATCTATATATTAAA
1 TATTT-TCTATATATTAAA
* *
23741906 TATCTTTTTATATCTTAAA
1 TAT-TTTCTATATATTAAA
23741925 TATTTTCTATTATATTA
1 TATTTTCTA-TATATTA
23741942 TATGTTATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 5 0.17
19 23 0.77
20 2 0.07
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTTTCTATATATTAAA
Found at i:23743613 original size:59 final size:58
Alignment explanation
Indices: 23743527--23743721 Score: 149
Period size: 59 Copynumber: 3.3 Consensus size: 58
23743517 TTTTTTACAT
* * *** *
23743527 TAAAAAAGATTTTTTGGGGTATTTGGCAAGCAATGGCCAACACCCAAAAAAATACGAA
1 TAAAAAATATTTTTTTGGGTGGATGGCAAGCAATGGCCGACACCCAAAAAAATACGAA
** ***** * **
23743585 TAAAAAATTATTTTTTTGGGTGGATGGCACCCAATGGCCGACACTACCTTTTTAACATTAA
1 TAAAAAA-TATTTTTTTGGGTGGATGGCAAGCAATGGCCGACAC--CCAAAAAAATACGAA
** * ** *
23743646 -AAAAAATATTTTTTTGGGTGTTTGGTAAGCAATGATCGACACTCAAAAAAATACGAA
1 TAAAAAATATTTTTTTGGGTGGATGGCAAGCAATGGCCGACACCCAAAAAAATACGAA
23743703 TAATAAAATATTTTTTTGG
1 TAA-AAAATATTTTTTTGG
23743722 ATGTTTGACA
Statistics
Matches: 100, Mismatches: 32, Indels: 9
0.71 0.23 0.06
Matches are distributed among these distances:
57 6 0.06
58 9 0.09
59 72 0.72
60 6 0.06
61 7 0.07
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (58 bp):
TAAAAAATATTTTTTTGGGTGGATGGCAAGCAATGGCCGACACCCAAAAAAATACGAA
Found at i:23743693 original size:118 final size:115
Alignment explanation
Indices: 23743488--23743721 Score: 319
Period size: 118 Copynumber: 2.0 Consensus size: 115
23743478 AAAAAATATA
*
23743488 GGTGGATGGCACAAATGGCCGACATCACCTTTTTTACATTAAAAAAGATTTTTTGGGGTATTTGG
1 GGTGGATGGCACAAATGGCCGACATCACCTTTTTAACATTAAAAAAGATTTTTTGGGGTATTTGG
*
23743553 CAAGCAATGGCCAACACCCAAAAAAATACGAATAA-AAAATTATTTTTTTG
66 CAAGCAATGACCAACACCCAAAAAAATACGAATAATAAAA-TATTTTTTTG
* * * *
23743603 GGTGGATGGCACCCAATGGCCGACA-CTACCTTTTTAACATTAAAAAAAATATTTTTTTGGGTGT
1 GGTGGATGGCA-CAAATGGCCGACATC-ACCTTTTTAACATT--AAAAAAGATTTTTTGGGGTAT
* * * *
23743667 TTGGTAAGCAATGATCGACACTCAAAAAAATACGAATAATAAAATATTTTTTTG
62 TTGGCAAGCAATGACCAACACCCAAAAAAATACGAATAATAAAATATTTTTTTG
23743721 G
1 G
23743722 ATGTTTGACA
Statistics
Matches: 104, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
115 12 0.12
116 25 0.24
118 63 0.61
119 4 0.04
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (115 bp):
GGTGGATGGCACAAATGGCCGACATCACCTTTTTAACATTAAAAAAGATTTTTTGGGGTATTTGG
CAAGCAATGACCAACACCCAAAAAAATACGAATAATAAAATATTTTTTTG
Found at i:23743754 original size:118 final size:116
Alignment explanation
Indices: 23743513--23743755 Score: 274
Period size: 118 Copynumber: 2.1 Consensus size: 116
23743503 TGGCCGACAT
* *
23743513 CACCTTTTTTACATTAAAAAAGATTTTTTGGGGTATTTGGCAAGCAATGGCCAACACCCAAAAAA
1 CACCTTTTTAACATTAAAAAAGATTTTTTGGGGTATTTGGCAAGCAATGACCAACACCCAAAAAA
* * * *
23743578 ATACGAATAAAAAATTATTTTTTTGGGTGGATGGCACCCAATGGCCGACAC
66 ATACGAATAAAAAATTATTTTTTTGGATGGATGACACCCAATGACCAACAC
* * * * * * * *
23743629 TACCTTTTTAACATTAAAAAAAATATTTTTTTGGGTGTTTGGTAAGCAATGATCGACACTCAAAA
1 CACCTTTTTAACATT--AAAAAAGATTTTTTGGGGTATTTGGCAAGCAATGACCAACACCCAAAA
** *
23743694 AAATACGAATAATAAAA-TATTTTTTTGGATGTTTGACAAGCC-ATGACCAACAC
64 AAATACGAATAA-AAAATTATTTTTTTGGATGGATGAC-ACCCAATGACCAACAC
*
23743747 CATCTTTTT
1 CACCTTTTT
23743756 CTGTACTAAA
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
116 13 0.12
118 84 0.81
119 7 0.07
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (116 bp):
CACCTTTTTAACATTAAAAAAGATTTTTTGGGGTATTTGGCAAGCAATGACCAACACCCAAAAAA
ATACGAATAAAAAATTATTTTTTTGGATGGATGACACCCAATGACCAACAC
Found at i:23745497 original size:10 final size:10
Alignment explanation
Indices: 23745462--23745500 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
23745452 AACGGTCAAT
23745462 GGAGGTAATC
1 GGAGGTAATC
* * *
23745472 GGAAGTAGTT
1 GGAGGTAATC
23745482 GGAGGTAATC
1 GGAGGTAATC
23745492 GGAGGTAAT
1 GGAGGTAAT
23745501 TAGAGGGTGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.31, C:0.05, G:0.41, T:0.23
Consensus pattern (10 bp):
GGAGGTAATC
Found at i:23745506 original size:20 final size:20
Alignment explanation
Indices: 23745463--23745506 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
23745453 ACGGTCAATG
* *
23745463 GAGGTAATCGGAAGTAGTTG
1 GAGGTAATCGGAAGTAATTA
*
23745483 GAGGTAATCGGAGGTAATTA
1 GAGGTAATCGGAAGTAATTA
23745503 GAGG
1 GAGG
23745507 GTGAAAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.05, G:0.41, T:0.23
Consensus pattern (20 bp):
GAGGTAATCGGAAGTAATTA
Found at i:23745757 original size:13 final size:13
Alignment explanation
Indices: 23745739--23745767 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
23745729 AATTTATATT
23745739 TTTTATAAATTTA
1 TTTTATAAATTTA
23745752 TTTTATAAATTTA
1 TTTTATAAATTTA
23745765 TTT
1 TTT
23745768 ATTATTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTTATAAATTTA
Found at i:23745763 original size:24 final size:22
Alignment explanation
Indices: 23745736--23745810 Score: 59
Period size: 24 Copynumber: 3.5 Consensus size: 22
23745726 AAAAATTTAT
*
23745736 ATTTTTTATAAATTTATTTTATAA
1 ATTTTTTAT-AATTTATTATAT-A
* *
23745760 ATTTATTTATTATTTGTTATATA
1 ATTT-TTTATAATTTATTATATA
*
23745783 ATTTTTTATTA-TT-TT-T-TA
1 ATTTTTTATAATTTATTATATA
23745801 ATTTTTTATA
1 ATTTTTTATA
23745811 CCCGTTGGGA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 11 0.24
19 1 0.02
20 2 0.04
21 2 0.04
22 7 0.15
23 5 0.11
24 13 0.28
25 5 0.11
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (22 bp):
ATTTTTTATAATTTATTATATA
Found at i:23745779 original size:22 final size:22
Alignment explanation
Indices: 23745754--23745796 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
23745744 TAAATTTATT
23745754 TTATA-AATTTATTTATTATTTG
1 TTATATAATTT-TTTATTATTTG
23745776 TTATATAATTTTTTATTATTT
1 TTATATAATTTTTTATTATTT
23745797 TTTAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TTATATAATTTTTTATTATTTG
Found at i:23745796 original size:10 final size:10
Alignment explanation
Indices: 23745760--23745809 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
23745750 TATTTTATAA
23745760 ATTTATTTATT
1 ATTT-TTTATT
*
23745771 ATTTGTTATATA
1 ATTT-TT-TATT
23745783 ATTTTTTATT
1 ATTTTTTATT
23745793 ATTTTTTA--
1 ATTTTTTATT
23745801 ATTTTTTAT
1 ATTTTTTAT
23745810 ACCCGTTGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 8 0.24
10 11 0.32
11 8 0.24
12 7 0.21
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (10 bp):
ATTTTTTATT
Found at i:23746083 original size:56 final size:56
Alignment explanation
Indices: 23746023--23746140 Score: 157
Period size: 56 Copynumber: 2.1 Consensus size: 56
23746013 TTTATTTTTT
* * *
23746023 AATTTCAATTTCAATTTGAAACTTAATTTCATTTCATTTCATTTCATTTTAA-TTCA
1 AATTTCAATTTCAATTTGAAACTTAATTTAATTTAATTTAATTTCA-TTTAATTTCA
* * * *
23746079 AATTTTAATTTTAATTTGAAATTTAATTTAATTTAATTTAATTTCATTTAATTTTA
1 AATTTCAATTTCAATTTGAAACTTAATTTAATTTAATTTAATTTCATTTAATTTCA
23746135 AATTTC
1 AATTTC
23746141 TTTTTTTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
55 5 0.09
56 48 0.91
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.55
Consensus pattern (56 bp):
AATTTCAATTTCAATTTGAAACTTAATTTAATTTAATTTAATTTCATTTAATTTCA
Found at i:23746091 original size:18 final size:17
Alignment explanation
Indices: 23746063--23746122 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
23746053 ATTTCATTTC
*
23746063 ATTTCATTTTAATTCAA
1 ATTTAATTTTAATTCAA
*
23746080 ATTTTAATTTTAATTTGAA
1 A-TTTAATTTTAA-TTCAA
*
23746099 ATTTAA-TTTAATT-TA
1 ATTTAATTTTAATTCAA
23746114 ATTTAATTT
1 ATTTAATTT
23746123 CATTTAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
15 7 0.19
16 4 0.11
17 6 0.16
18 15 0.41
19 5 0.14
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (17 bp):
ATTTAATTTTAATTCAA
Found at i:23746108 original size:5 final size:5
Alignment explanation
Indices: 23746020--23746132 Score: 73
Period size: 5 Copynumber: 20.6 Consensus size: 5
23746010 TATTTTATTT
* * * * *
23746020 TTTAA TTTCAA TTTCAA TTTGAAA CTTAA TTTCA TTTCA TTTCA TTTCAT
1 TTTAA TTT-AA TTT-AA TTT--AA TTTAA TTTAA TTTAA TTTAA TTT-AA
*
23746070 TTTAA TTCAAA TTTTAA TTTTAA TTTGAAA TTTAA TTTAA TTTAA TTTAA
1 TTTAA TT-TAA -TTTAA -TTTAA TTT--AA TTTAA TTTAA TTTAA TTTAA
*
23746120 TTTCA TTTAA TTT
1 TTTAA TTTAA TTT
23746133 TAAATTTCTT
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
5 55 0.61
6 24 0.27
7 11 0.12
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.57
Consensus pattern (5 bp):
TTTAA
Found at i:23746140 original size:17 final size:16
Alignment explanation
Indices: 23746058--23746240 Score: 96
Period size: 17 Copynumber: 11.3 Consensus size: 16
23746048 ATTTCATTTC
*
23746058 ATTTCATTTCATTTTA
1 ATTTCATTTAATTTTA
23746074 A-TTCA---AATTTTA
1 ATTTCATTTAATTTTA
* *
23746086 ATTTTAATTTGAAATTTA
1 A-TTTCATTT-AATTTTA
*
23746104 ATTTAATTTAA-TTTA
1 ATTTCATTTAATTTTA
23746119 ATTTCATTTAATTTTAA
1 ATTTCATTTAATTTT-A
23746136 ATTTC-TTT--TTTT-
1 ATTTCATTTAATTTTA
* *
23746148 TTTTGCCAGTTAATTTTAA
1 ATTT--CATTTAATTTT-A
* *
23746167 ATTTCGTTTAATTTTT
1 ATTTCATTTAATTTTA
23746183 ATCTTCATTTAATTTTCA
1 AT-TTCATTTAATTTT-A
* * *
23746201 TTTTAATTGCAATTTTA
1 ATTTCATT-TAATTTTA
*
23746218 ATTTTATTTTCAATTTTA
1 ATTTCA-TTT-AATTTTA
23746236 ATTTC
1 ATTTC
23746241 GAAATTAAAT
Statistics
Matches: 128, Mismatches: 19, Indels: 38
0.69 0.10 0.21
Matches are distributed among these distances:
12 10 0.08
14 8 0.06
15 20 0.16
16 11 0.09
17 49 0.38
18 27 0.21
19 3 0.02
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.61
Consensus pattern (16 bp):
ATTTCATTTAATTTTA
Found at i:23746166 original size:6 final size:6
Alignment explanation
Indices: 23746157--23746239 Score: 55
Period size: 6 Copynumber: 14.2 Consensus size: 6
23746147 TTTTTGCCAG
* ** * * * *
23746157 TTAATT TTAAAT TTCGTT -TAATT TTTATC TTCATT -TAATT TTCATT
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT
**
23746203 TTAATT GCAATT TTAATT TT-ATT TTCAATT TTAATT T
1 TTAATT TTAATT TTAATT TTAATT TT-AATT TTAATT T
23746240 CGAAATTAAA
Statistics
Matches: 56, Mismatches: 17, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
5 12 0.21
6 39 0.70
7 5 0.09
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (6 bp):
TTAATT
Found at i:23746216 original size:18 final size:18
Alignment explanation
Indices: 23746193--23746239 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
23746183 ATCTTCATTT
*
23746193 AATTTTCATTTTAATTGC
1 AATTTTAATTTTAATTGC
* *
23746211 AATTTTAATTTTATTTTC
1 AATTTTAATTTTAATTGC
23746229 AATTTTAATTT
1 AATTTTAATTT
23746240 CGAAATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (18 bp):
AATTTTAATTTTAATTGC
Found at i:23746297 original size:6 final size:6
Alignment explanation
Indices: 23746286--23746359 Score: 60
Period size: 6 Copynumber: 12.3 Consensus size: 6
23746276 CGATGAAAAT
** * * *
23746286 TTTAAA TTTAAA CCTAAA TTTAAA TTAAAA TTT-CA TTTCAA TTTCAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA
* * *
23746334 TTTAAA TTAAAA TTTGAA CTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TT
23746360 GAATTTCATT
Statistics
Matches: 51, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
5 4 0.08
6 42 0.82
7 5 0.10
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:23746423 original size:11 final size:11
Alignment explanation
Indices: 23746409--23746439 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
23746399 AAATTTTTTA
23746409 TTAATTTAAAC
1 TTAATTTAAAC
*
23746420 TTAATTTCAAC
1 TTAATTTAAAC
23746431 TTAATTTAA
1 TTAATTTAA
23746440 TTTTAAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (11 bp):
TTAATTTAAAC
Found at i:23746445 original size:22 final size:22
Alignment explanation
Indices: 23746409--23746450 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
23746399 AAATTTTTTA
*
23746409 TTAATTTAAACTTAATTTCAAC
1 TTAATTTAAACTTAAATTCAAC
**
23746431 TTAATTTAATTTTAAATTCA
1 TTAATTTAAACTTAAATTCA
23746451 GCTCGTATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAATTTAAACTTAAATTCAAC
Found at i:23749030 original size:37 final size:36
Alignment explanation
Indices: 23748951--23749102 Score: 162
Period size: 37 Copynumber: 4.1 Consensus size: 36
23748941 ATGCATTCTT
* *
23748951 GAAT-CACCGGCACAAAGGCCTGCTAGACACATAGTCC
1 GAATACACC-GCACGAA-GCCTGCTAGACACATAGCCC
* * *
23748988 GAATACACCAGCACTAAGCCTACTAGGCACATAGCCC
1 GAATACACC-GCACGAAGCCTGCTAGACACATAGCCC
* * **
23749025 AAATACACCGACACGAAGCCTGCTAGGCACATAGCTT
1 GAATACACCG-CACGAAGCCTGCTAGACACATAGCCC
*
23749062 GAATACACCGGCACGAAGCCTGCTAGACATATAGCCC
1 GAATACACC-GCACGAAGCCTGCTAGACACATAGCCC
23749099 GAAT
1 GAAT
23749103 TAAATGAAAT
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
36 1 0.01
37 85 0.88
38 11 0.11
ACGTcount: A:0.34, C:0.32, G:0.20, T:0.14
Consensus pattern (36 bp):
GAATACACCGCACGAAGCCTGCTAGACACATAGCCC
Found at i:23752926 original size:17 final size:17
Alignment explanation
Indices: 23752863--23752927 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
23752853 ATATTAATGG
* **
23752863 AAATGCAATTACAATGC
1 AAATGCAATGACAATTA
** *
23752880 AAATGCGCTGACAAATA
1 AAATGCAATGACAATTA
23752897 AAATGCAGA-GACAATTA
1 AAATGCA-ATGACAATTA
23752914 AAATGCAATGACAA
1 AAATGCAATGACAA
23752928 CTATATGAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
16 1 0.03
17 36 0.97
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.18
Consensus pattern (17 bp):
AAATGCAATGACAATTA
Found at i:23764896 original size:23 final size:23
Alignment explanation
Indices: 23764866--23764911 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
23764856 AACAGAAAAG
23764866 ATTGATCTCGAAGGCTCGATAAT
1 ATTGATCTCGAAGGCTCGATAAT
23764889 ATTGATCTCGAAGGCTCGATAAT
1 ATTGATCTCGAAGGCTCGATAAT
23764912 GCATTATGGG
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:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (23 bp):
ATTGATCTCGAAGGCTCGATAAT
Found at i:23769315 original size:23 final size:22
Alignment explanation
Indices: 23769288--23769331 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
23769278 TAAATATTTC
*
23769288 ATTAAATAATTTGGGTTGAATTA
1 ATTAAATAAATTGGGTT-AATTA
*
23769311 ATTAATTAAATTGGGTTAATT
1 ATTAAATAAATTGGGTTAATT
23769332 TTATTTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (22 bp):
ATTAAATAAATTGGGTTAATTA
Found at i:23777889 original size:15 final size:15
Alignment explanation
Indices: 23777843--23777892 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
23777833 AGTTATGTTT
*
23777843 GTATTAAATGATTTA
1 GTATTAAATAATTTA
*
23777858 GTAGTAAAATAAGATTTA
1 GTA-TTAAAT-A-ATTTA
23777876 GTATTAAATAATTTA
1 GTATTAAATAATTTA
23777891 GT
1 GT
23777893 TGATGTTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 10 0.34
16 6 0.21
17 5 0.17
18 8 0.28
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (15 bp):
GTATTAAATAATTTA
Done.