Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 47 of 75
Found at i:14928413 original size:26 final size:26
Alignment explanation
Indices: 14928383--14928436 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
14928373 ACTCAGAGAG
14928383 AAAGAATCTCGTCTTCAATAAGCAAA
1 AAAGAATCTCGTCTTCAATAAGCAAA
14928409 AAAGAATCTCGTCTTCAATAAGCAAA
1 AAAGAATCTCGTCTTCAATAAGCAAA
14928435 AA
1 AA
14928437 CCGCGATGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.48, C:0.19, G:0.11, T:0.22
Consensus pattern (26 bp):
AAAGAATCTCGTCTTCAATAAGCAAA
Found at i:14933510 original size:19 final size:21
Alignment explanation
Indices: 14933472--14933510 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
14933462 CCTTTTTTAA
*
14933472 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
14933493 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
14933511 AGAAAACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:14933735 original size:21 final size:21
Alignment explanation
Indices: 14933709--14933788 Score: 92
Period size: 21 Copynumber: 3.7 Consensus size: 21
14933699 AATCATATCT
14933709 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
14933730 TCTAAGATTGTATATATCATATATA
1 TCTAAGATTGTATATATC----ATA
*
14933755 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
*
14933774 TCTAAGATTGCATAT
1 TCTAAGATTGTATAT
14933789 CCTCGAAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
19 13 0.25
21 20 0.39
23 5 0.10
25 13 0.25
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:14933743 original size:19 final size:20
Alignment explanation
Indices: 14933709--14933789 Score: 76
Period size: 19 Copynumber: 3.9 Consensus size: 20
14933699 AATCATATCT
*
14933709 TCTAAGATTGTATATATCATA
1 TCTAAGATTG-ACATATCATA
*
14933730 TCTAAGATTGTATATATCATATATA
1 TCTAAGATTG-ACATATC----ATA
14933755 TCTAAGATTG-CATATCATA
1 TCTAAGATTGACATATCATA
14933774 TCTAAGATTG-CATATC
1 TCTAAGATTGACATATC
14933790 CTCGAAAATT
Statistics
Matches: 55, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
19 19 0.35
21 18 0.33
23 5 0.09
25 13 0.24
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (20 bp):
TCTAAGATTGACATATCATA
Found at i:14933760 original size:25 final size:25
Alignment explanation
Indices: 14933700--14933769 Score: 87
Period size: 21 Copynumber: 3.0 Consensus size: 25
14933690 ATATTACAAA
*
14933700 ATCATATCT-TCTAAGATTGTATAT
1 ATCATATATATCTAAGATTGTATAT
14933724 ATC----ATATCTAAGATTGTATAT
1 ATCATATATATCTAAGATTGTATAT
*
14933745 ATCATATATATCTAAGATTGCATAT
1 ATCATATATATCTAAGATTGTATAT
14933770 CATATCTAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 1 0.03
21 18 0.46
24 3 0.08
25 17 0.44
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (25 bp):
ATCATATATATCTAAGATTGTATAT
Found at i:14933770 original size:44 final size:44
Alignment explanation
Indices: 14933700--14933788 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
14933690 ATATTACAAA
* * *
14933700 ATCATATCTTCTAAGATTGTATATATCATATCTAAGATTGTATAT
1 ATCATATATTCTAAGATTG-ACATATCATATCTAAGATTGCATAT
14933745 ATCATATATATCTAAGATTG-CATATCATATCTAAGATTGCATAT
1 ATCATATAT-TCTAAGATTGACATATCATATCTAAGATTGCATAT
14933789 CCTCGAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
44 22 0.55
45 8 0.20
46 10 0.25
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (44 bp):
ATCATATATTCTAAGATTGACATATCATATCTAAGATTGCATAT
Found at i:14934136 original size:14 final size:12
Alignment explanation
Indices: 14934104--14934132 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
14934094 NGGAGCAAAA
14934104 TGAGAGGAAATT
1 TGAGAGGAAATT
14934116 T-AGAGGAAATT
1 TGAGAGGAAATT
14934127 TGAGAG
1 TGAGAG
14934133 AGGATTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.41, C:0.00, G:0.34, T:0.24
Consensus pattern (12 bp):
TGAGAGGAAATT
Found at i:14934373 original size:40 final size:40
Alignment explanation
Indices: 14934317--14934394 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
14934307 GATGTGGACA
* * *
14934317 CAAACCGCGATTACGTGGACGCGATTTTCTGTCACGTCAG
1 CAAACCGCGATGACGTGGACGCGATTTGCTGACACGTCAG
*
14934357 CAAACCGCGCTGACGTGGACGCGATTTGCTGACACGTC
1 CAAACCGCGATGACGTGGACGCGATTTGCTGACACGTC
14934395 CCCTGACATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.22
Consensus pattern (40 bp):
CAAACCGCGATGACGTGGACGCGATTTGCTGACACGTCAG
Found at i:14934487 original size:29 final size:29
Alignment explanation
Indices: 14934455--14934512 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
14934445 ATACCGGAAT
14934455 GGGTCCATTCCGATAAATAATAAAATACC
1 GGGTCCATTCCGATAAATAATAAAATACC
* * *
14934484 GGGTCTATTTCGGTAAATAATAAAATACC
1 GGGTCCATTCCGATAAATAATAAAATACC
14934513 TGATCTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.28
Consensus pattern (29 bp):
GGGTCCATTCCGATAAATAATAAAATACC
Found at i:14934519 original size:29 final size:29
Alignment explanation
Indices: 14934468--14934524 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
14934458 TCCATTCCGA
*
14934468 TAAATAATAAAATACCGGGTCTATTTCGG
1 TAAATAATAAAATACCGGATCTATTTCGG
*
14934497 TAAATAATAAAATACCTGATCTATTTCG
1 TAAATAATAAAATACCGGATCTATTTCG
14934525 ACAAATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (29 bp):
TAAATAATAAAATACCGGATCTATTTCGG
Found at i:14935813 original size:20 final size:20
Alignment explanation
Indices: 14935767--14935822 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
14935757 AGAAAAATAC
14935767 CTCAAA-TATCGATACTTTG
1 CTCAAAGTATCGATACTTTG
* * *
14935786 CTCTAAGTATCTATACTTTT
1 CTCAAAGTATCGATACTTTG
*
14935806 TTCAAAGTATCGATACT
1 CTCAAAGTATCGATACT
14935823 CGACCTTTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 5 0.17
20 25 0.83
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (20 bp):
CTCAAAGTATCGATACTTTG
Found at i:14940327 original size:2 final size:2
Alignment explanation
Indices: 14940320--14940347 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14940310 GTCACCCTTC
14940320 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
14940348 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:14942215 original size:17 final size:17
Alignment explanation
Indices: 14942193--14942242 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 17
14942183 AAATAGGATC
14942193 GATACCTCTAAAGTATT
1 GATACCTCTAAAGTATT
*
14942210 GATACCCTTCCCAAAGTATT
1 GATA-CC-T-CTAAAGTATT
14942230 GATACCTCATAAA
1 GATACCTC-TAAA
14942243 AAGATTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 5 0.19
18 6 0.22
19 3 0.11
20 13 0.48
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (17 bp):
GATACCTCTAAAGTATT
Found at i:14944207 original size:16 final size:16
Alignment explanation
Indices: 14944186--14944216 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14944176 TTTTGTATGA
*
14944186 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
14944202 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
14944217 ACACTAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:14945319 original size:34 final size:35
Alignment explanation
Indices: 14945281--14945347 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
14945271 CAGTAAAATA
*
14945281 TTTTCCGTAAAATGATTT-TTGAAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
* *
14945315 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
14945348 CTAGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:14946829 original size:233 final size:232
Alignment explanation
Indices: 14946417--14946884 Score: 864
Period size: 233 Copynumber: 2.0 Consensus size: 232
14946407 AAAAATAAAG
14946417 ATTTATTTATTTTGAAATAAGAAAGCTGAAGTTCCTTGAGGCATTGGACAAGTAAGCTATTCTAA
1 ATTTATTTATTTTGAAATAAGAAAGCTGAAGTTCCTTGAGGCATTGGACAAGTAAGCTATTCTAA
* *
14946482 ATAAACTTCATAAATAGAGAACGAATCAAGACACTTTCAGACGAATAACAAGTACACAATTTAAC
66 ATAAACTTCATAAATAGAGAAAGAATCAAGACACCTTCAGACGAATAACAAGTACACAATTTAAC
* *
14946547 ACCGAAACAAATTGAAGCGAATCAGTAATTTACAGAAACAAATACCATTATGCATCATTATATCT
131 ACCGAAACAAATTGAAGCAAATCAGTAATTTACAGAAACAAATACCATTATGCACCATTATATCT
14946612 ACAGTAGTTAATCAATATTCATGAATATCCAATATGC
196 ACAGTAGTTAATCAATATTCATGAATATCCAATATGC
*
14946649 ATTTATTTTATTTTGAAATCAGAAAGCTGAAGTTCCTTGAGGCATTGGACAAGTAAGCTATTCTA
1 ATTTA-TTTATTTTGAAATAAGAAAGCTGAAGTTCCTTGAGGCATTGGACAAGTAAGCTATTCTA
*
14946714 AATAAACTTCATAAATGGAGAAAGAATCAAGACACCTTCAGACGAATAACAAGTACACAATTTAA
65 AATAAACTTCATAAATAGAGAAAGAATCAAGACACCTTCAGACGAATAACAAGTACACAATTTAA
14946779 CACCGAAACAAATTGAAGCAAATCAGTAATTTACAGAAACAAATACCATTATGCACCATTATATC
130 CACCGAAACAAATTGAAGCAAATCAGTAATTTACAGAAACAAATACCATTATGCACCATTATATC
*
14946844 TGCAGTAGTTAATCAATATTCATGAATATCCAATATGC
195 TACAGTAGTTAATCAATATTCATGAATATCCAATATGC
14946882 ATT
1 ATT
14946885 AATATTTCAT
Statistics
Matches: 228, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
232 5 0.02
233 223 0.98
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.28
Consensus pattern (232 bp):
ATTTATTTATTTTGAAATAAGAAAGCTGAAGTTCCTTGAGGCATTGGACAAGTAAGCTATTCTAA
ATAAACTTCATAAATAGAGAAAGAATCAAGACACCTTCAGACGAATAACAAGTACACAATTTAAC
ACCGAAACAAATTGAAGCAAATCAGTAATTTACAGAAACAAATACCATTATGCACCATTATATCT
ACAGTAGTTAATCAATATTCATGAATATCCAATATGC
Found at i:14947560 original size:51 final size:51
Alignment explanation
Indices: 14947484--14947591 Score: 216
Period size: 51 Copynumber: 2.1 Consensus size: 51
14947474 ATCTAGCAAG
14947484 AAAAAAGCAAGAACCAGACCCGATCCACCAATCAAATCAGTGAAAATTAAC
1 AAAAAAGCAAGAACCAGACCCGATCCACCAATCAAATCAGTGAAAATTAAC
14947535 AAAAAAGCAAGAACCAGACCCGATCCACCAATCAAATCAGTGAAAATTAAC
1 AAAAAAGCAAGAACCAGACCCGATCCACCAATCAAATCAGTGAAAATTAAC
14947586 AAAAAA
1 AAAAAA
14947592 AATGCCTGTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.54, C:0.24, G:0.11, T:0.11
Consensus pattern (51 bp):
AAAAAAGCAAGAACCAGACCCGATCCACCAATCAAATCAGTGAAAATTAAC
Found at i:14951723 original size:30 final size:30
Alignment explanation
Indices: 14951657--14951725 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 30
14951647 TATGATTTAA
* * *
14951657 TATTT-AATTTGATATATAAATTTTAATTT
1 TATTTCAATTTGATACATAAATATTAAATT
* *
14951686 TA-CTCAATTTGATACATGAATATTAAATT
1 TATTTCAATTTGATACATAAATATTAAATT
14951715 TATTTCAATTT
1 TATTTCAATTT
14951726 TCACAAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 1 0.03
29 24 0.75
30 7 0.22
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (30 bp):
TATTTCAATTTGATACATAAATATTAAATT
Found at i:14955348 original size:5 final size:5
Alignment explanation
Indices: 14955306--14955330 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14955296 CAAGTAACTG
14955306 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
14955331 TGAAAATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:14964023 original size:39 final size:39
Alignment explanation
Indices: 14963960--14964098 Score: 181
Period size: 39 Copynumber: 3.6 Consensus size: 39
14963950 CATGTTTTTT
* * *
14963960 AGTATTGTGATATATGTTTGAATGTTATGTGATTACATG
1 AGTATTGTGATATATGCTTAAATGTTATGTGATTATATG
* *
14963999 AGTTTTGTGATATATGCTTAAATGTTATGTAATTATATG
1 AGTATTGTGATATATGCTTAAATGTTATGTGATTATATG
*
14964038 AGTATTGTGGTATATGCTTAAAT-TCTATGTGATTATATG
1 AGTATTGTGATATATGCTTAAATGT-TATGTGATTATATG
* * *
14964077 TGTAATGTGATATATGTTTAAA
1 AGTATTGTGATATATGCTTAAA
14964099 AGTGAATATG
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 1 0.01
39 86 0.99
ACGTcount: A:0.30, C:0.03, G:0.20, T:0.47
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTAAATGTTATGTGATTATATG
Found at i:14966001 original size:13 final size:13
Alignment explanation
Indices: 14965983--14966009 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14965973 CTTAGTTGCT
14965983 GAAAAATATAAAG
1 GAAAAATATAAAG
14965996 GAAAAATATAAAG
1 GAAAAATATAAAG
14966009 G
1 G
14966010 GTGGGGCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.15
Consensus pattern (13 bp):
GAAAAATATAAAG
Found at i:14981450 original size:24 final size:26
Alignment explanation
Indices: 14981387--14981452 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 26
14981377 ACTTTCATAG
*
14981387 AATATAAAG-TTAAATATATATAAAC
1 AATATAAAGAATAAATATATATAAAC
*
14981412 AA-ATATAGAA-AAA-ATA-ATAATAC
1 AATATAAAGAATAAATATATATAA-AC
14981435 AATATAAAGAATAAATAT
1 AATATAAAGAATAAATAT
14981453 GATAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
22 4 0.12
23 7 0.21
24 15 0.45
25 5 0.15
26 2 0.06
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (26 bp):
AATATAAAGAATAAATATATATAAAC
Found at i:14987600 original size:4 final size:4
Alignment explanation
Indices: 14987591--14987615 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
14987581 CTCTTATCCT
14987591 ACAA ACAA ACAA ACAA ACAA ACAA A
1 ACAA ACAA ACAA ACAA ACAA ACAA A
14987616 TAAATTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
ACAA
Found at i:14997231 original size:18 final size:17
Alignment explanation
Indices: 14997202--14997236 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
14997192 TGTTATTTTA
14997202 ATTAAAAATATTAAAAT
1 ATTAAAAATATTAAAAT
14997219 ATTAAAAAGTATTAAAAT
1 ATTAAAAA-TATTAAAAT
14997237 TAAAATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
ATTAAAAATATTAAAAT
Found at i:14997233 original size:10 final size:9
Alignment explanation
Indices: 14997202--14997235 Score: 52
Period size: 8 Copynumber: 3.8 Consensus size: 9
14997192 TGTTATTTTA
14997202 ATTAAAAAT
1 ATTAAAAAT
14997211 ATT-AAAAT
1 ATTAAAAAT
14997219 ATTAAAAAGT
1 ATTAAAAA-T
14997229 ATTAAAA
1 ATTAAAA
14997236 TTAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.35
9 7 0.30
10 8 0.35
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (9 bp):
ATTAAAAAT
Found at i:14997247 original size:16 final size:16
Alignment explanation
Indices: 14997201--14997247 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 16
14997191 CTGTTATTTT
14997201 AATTAAAAATATTAAA
1 AATTAAAAATATTAAA
14997217 ATATTAAAAAGTATT-AA
1 A-ATTAAAAA-TATTAAA
14997234 AATTAAAATATATT
1 AATTAAAA-ATATT
14997248 TGCATAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 12 0.43
17 12 0.43
18 4 0.14
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
AATTAAAAATATTAAA
Found at i:14997610 original size:31 final size:31
Alignment explanation
Indices: 14997572--14997647 Score: 134
Period size: 31 Copynumber: 2.5 Consensus size: 31
14997562 CAAAGGTGGT
*
14997572 AGAGTGACTAAAATTGATAACTTATCTAACG
1 AGAGTGACTAAAATTGACAACTTATCTAACG
*
14997603 AGAGTGACTAAAATTGACAACTTATCTAACT
1 AGAGTGACTAAAATTGACAACTTATCTAACG
14997634 AGAGTGACTAAAAT
1 AGAGTGACTAAAAT
14997648 AACAATTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (31 bp):
AGAGTGACTAAAATTGACAACTTATCTAACG
Found at i:14998454 original size:32 final size:32
Alignment explanation
Indices: 14998418--14998496 Score: 108
Period size: 31 Copynumber: 2.5 Consensus size: 32
14998408 TAAATATATA
14998418 TTTTTTATTTTTAAAAATA-TTTTAAAATACT
1 TTTTTTATTTTTAAAAATATTTTTAAAATACT
*
14998449 TTTTTTATTTTT-TAAATATTTTTAAAATACT
1 TTTTTTATTTTTAAAAATATTTTTAAAATACT
*
14998480 TTTGTTAATTTTCTAAA
1 TTT-TTTATTTT-TAAA
14998497 TTTTTTTTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 5 0.12
31 27 0.66
32 7 0.17
33 1 0.02
34 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (32 bp):
TTTTTTATTTTTAAAAATATTTTTAAAATACT
Found at i:15000734 original size:3 final size:3
Alignment explanation
Indices: 15000726--15000756 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
15000716 GAAAGGGGTC
15000726 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15000757 ACAACTAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15014945 original size:322 final size:323
Alignment explanation
Indices: 15014352--15014993 Score: 1110
Period size: 322 Copynumber: 2.0 Consensus size: 323
15014342 CAAGTCTTCA
* * *
15014352 TTTCTTAGACAAAATATCTTTCATGAACTTGACGTAGTTCGACATTTTCTCAAGTGCTTCAACCA
1 TTTCTTAGACAAAATATCTTTCATAAACTTGACGTAGTTCAACATTTGCTCAAGTGCTTCAACCA
* *
15014417 ACGGGATGTTGATGTGAATTTGCTTGAGTACATCAAGGAACTTCTTGAATTGAATCTCCTGCTTC
66 ACGGGATGTTGATGTGAAGTTGCTTGAGTACATCAAGGAACTTCTTGAATTGAATCTCCTACTTC
*
15014482 TGTTTCTGAAGTCTTTGAGGGTAGGGTGGTGGTGGTTTCATTACTAGGACTGATTTTGGTTGATT
131 TGTTTCTGAAGTCTTTGAGGGTAGGGTGGTGGTGGTTTCATTACTAGGACTGATTCTGGTTGATT
15014547 CATCTTCAGAAATTCTGCATCTAACGACGTTGTTAGTTGATCAGAATTAGCTGGTCCTGAGGTTA
196 CATCTTCAGAAATTCTGCATCTAACGACGTTGTTAGTTGATCAGAATTAGCTGGTCCTGAGGTTA
* *
15014612 CCTTTTCGGGTTTTACAGATTCTAGTTCTGGTGAAACTGGCATTTTAACACTTGGTTGAATCG
261 CCTTTTCGGGTTTTACAGATTCTAGTTCTGGTGAAACTGGAATTTCAACACTTGGTTGAATCG
*
15014675 TTTCTTAGACAAGATATCTTTCATAAACTTGACGTAGTTCAACATTTGCTCAAGTGCTTCAACCA
1 TTTCTTAGACAAAATATCTTTCATAAACTTGACGTAGTTCAACATTTGCTCAAGTGCTTCAACCA
*
15014740 AGGGGATGTTGA-GTGAAGTTGCTTGAGTA-AGTCAAGGAACTTCTTGAATTGAATCTCCTACTT
66 ACGGGATGTTGATGTGAAGTTGCTTGAGTACA-TCAAGGAACTTCTTGAATTGAATCTCCTACTT
*
15014803 CTGTTTCTGAAGTCTTTGAGGGTAGGGTGGTGGTGGTTTCATTACTAGGACTGATTCTGGTTTAT
130 CTGTTTCTGAAGTCTTTGAGGGTAGGGTGGTGGTGGTTTCATTACTAGGACTGATTCTGGTTGAT
* *
15014868 TCGTCTTCAGAAATTCTGCATCTAACGATGTTGTTAGTTGATCAGAATTAGCTGGTCCTGAGGTT
195 TCATCTTCAGAAATTCTGCATCTAACGACGTTGTTAGTTGATCAGAATTAGCTGGTCCTGAGGTT
* *
15014933 A-CTTTGTCGGGTTTTGCAGATTCTAGTTTTGGTGAAACTGGAATTTCAACACTTGGTTGAA
260 ACCTTT-TCGGGTTTTACAGATTCTAGTTCTGGTGAAACTGGAATTTCAACACTTGGTTGAA
15014994 CTTATTCTAA
Statistics
Matches: 302, Mismatches: 15, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
321 5 0.02
322 225 0.75
323 72 0.24
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.38
Consensus pattern (323 bp):
TTTCTTAGACAAAATATCTTTCATAAACTTGACGTAGTTCAACATTTGCTCAAGTGCTTCAACCA
ACGGGATGTTGATGTGAAGTTGCTTGAGTACATCAAGGAACTTCTTGAATTGAATCTCCTACTTC
TGTTTCTGAAGTCTTTGAGGGTAGGGTGGTGGTGGTTTCATTACTAGGACTGATTCTGGTTGATT
CATCTTCAGAAATTCTGCATCTAACGACGTTGTTAGTTGATCAGAATTAGCTGGTCCTGAGGTTA
CCTTTTCGGGTTTTACAGATTCTAGTTCTGGTGAAACTGGAATTTCAACACTTGGTTGAATCG
Found at i:15021722 original size:50 final size:50
Alignment explanation
Indices: 15021593--15021783 Score: 145
Period size: 50 Copynumber: 3.8 Consensus size: 50
15021583 GATAATAACA
* * * ** * * *
15021593 TGCCAAAGCCATTTCCCAGACATGGTCTTACATGGGATGTTTCCTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATAT-CGG
* * * * **
15021642 TGCCAATGCCATATCCCAAATATGGCCTTACATGAGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
* * ** * *
15021692 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
* *
15021742 TGGCAATGCCATGTCCCAGAGATGGTCTTACATTG-GACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-TGAGACCTCT
15021784 TTACCCAAAT
Statistics
Matches: 110, Mismatches: 29, Indels: 5
0.76 0.20 0.03
Matches are distributed among these distances:
48 1 0.01
49 36 0.33
50 72 0.65
51 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
Found at i:15044841 original size:3 final size:3
Alignment explanation
Indices: 15044833--15044866 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
15044823 AACCCAATTC
15044833 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15044867 ATTATAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15049904 original size:31 final size:31
Alignment explanation
Indices: 15049695--15049902 Score: 164
Period size: 31 Copynumber: 6.7 Consensus size: 31
15049685 AATTTAAAAG
* *
15049695 TATCAGGTACTATGTACCGATGATCATATTA
1 TATCAGGTACTATGTACCGGTGATTATATTA
** *
15049726 TATCAGGTACTATGTACTAGTGACTATATTA
1 TATCAGGTACTATGTACCGGTGATTATATTA
* * * * *
15049757 TATCAGGTACTACGTATCGATGACTCTATTA
1 TATCAGGTACTATGTACCGGTGATTATATTA
* ** * *
15049788 TGTCAGGTACTACATATCGGTGACTATATTA
1 TATCAGGTACTATGTACCGGTGATTATATTA
* * * * * *
15049819 TATCAAGTACTATATACCGATGTTTATTTTG
1 TATCAGGTACTATGTACCGGTGATTATATTA
* * * * * *
15049850 TATCAGGCACCATGTGCTGGTGTTTATATTT
1 TATCAGGTACTATGTACCGGTGATTATATTA
*
15049881 TATCAAGTACTATGTACCGGTG
1 TATCAGGTACTATGTACCGGTG
15049903 TTGGACACCT
Statistics
Matches: 139, Mismatches: 38, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 139 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (31 bp):
TATCAGGTACTATGTACCGGTGATTATATTA
Found at i:15050992 original size:21 final size:21
Alignment explanation
Indices: 15050967--15051007 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
15050957 TCATCTAAAA
15050967 TTACCGATAAAACCAATGGAG
1 TTACCGATAAAACCAATGGAG
*
15050988 TTACCGATAGAACCAATGGA
1 TTACCGATAAAACCAATGGA
15051008 TAGTGTGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (21 bp):
TTACCGATAAAACCAATGGAG
Found at i:15056237 original size:10 final size:10
Alignment explanation
Indices: 15056224--15056248 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15056214 TTTGTAAATC
15056224 AAAGATAATA
1 AAAGATAATA
15056234 AAAGATAATA
1 AAAGATAATA
15056244 AAAGA
1 AAAGA
15056249 AAAAAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (10 bp):
AAAGATAATA
Found at i:15059618 original size:6 final size:6
Alignment explanation
Indices: 15059607--15059631 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15059597 TTAAATAATT
15059607 ATTTTA ATTTTA ATTTTA ATTTTA A
1 ATTTTA ATTTTA ATTTTA ATTTTA A
15059632 ATGATACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATTTTA
Found at i:15061008 original size:20 final size:20
Alignment explanation
Indices: 15060970--15061009 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15060960 AATATTTTCC
* *
15060970 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTACAGAAA
*
15060990 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
15061010 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:15061024 original size:34 final size:35
Alignment explanation
Indices: 15060958--15061024 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
15060948 CAAACACCAG
* *
15060958 AAAATATTTTCCAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
15060993 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
15061025 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:15077271 original size:18 final size:18
Alignment explanation
Indices: 15077250--15077285 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
15077240 ATTGAAATAA
15077250 AAAAAAACA-AAACAAAAT
1 AAAAAAACATAAA-AAAAT
15077268 AAAAAAACATAAAAAAAT
1 AAAAAAACATAAAAAAAT
15077286 TGATTGAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.83, C:0.08, G:0.00, T:0.08
Consensus pattern (18 bp):
AAAAAAACATAAAAAAAT
Found at i:15084606 original size:21 final size:21
Alignment explanation
Indices: 15084582--15084623 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15084572 TATTTAATGG
15084582 TTATATTTAA-ATATTTAAAAT
1 TTATATTTAATATA-TTAAAAT
*
15084603 TTATATTTCATATATTAAAAT
1 TTATATTTAATATATTAAAAT
15084624 ATTAACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATATTTAATATATTAAAAT
Found at i:15093258 original size:70 final size:66
Alignment explanation
Indices: 15093176--15093302 Score: 175
Period size: 70 Copynumber: 1.9 Consensus size: 66
15093166 TCCGAATAAA
* *
15093176 AAAAGGAAAATTACGTTGTTTTAATAAATGTTTATCTT-TTCAAAAGTTAAAAGTCAAAACCATT
1 AAAAGGAAAATTACGTCGTTTTAATAAATGTTTA-CTTATT---AAGTTAAAAGGCAAAACCATT
15093240 AAATT
62 AAATT
*
15093245 AAAAGGCAAAATTACGTCGTTTTGATAAATGTTTACTTATTAAGTTAAAAGGCAAAAC
1 AAAAGG-AAAATTACGTCGTTTTAATAAATGTTTACTTATTAAGTTAAAAGGCAAAAC
15093303 TCTTTATATT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
67 16 0.30
69 9 0.17
70 28 0.53
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (66 bp):
AAAAGGAAAATTACGTCGTTTTAATAAATGTTTACTTATTAAGTTAAAAGGCAAAACCATTAAAT
T
Found at i:15095214 original size:20 final size:20
Alignment explanation
Indices: 15095189--15095228 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
15095179 TCTTTGTTTA
15095189 TCTCTCT-TTGTTATATTTTT
1 TCTCTCTATT-TTATATTTTT
*
15095209 TCTCTCTATTTTATCTTTTT
1 TCTCTCTATTTTATATTTTT
15095229 AGAACAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 16 0.89
21 2 0.11
ACGTcount: A:0.10, C:0.17, G:0.03, T:0.70
Consensus pattern (20 bp):
TCTCTCTATTTTATATTTTT
Found at i:15095796 original size:3 final size:3
Alignment explanation
Indices: 15095788--15095814 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15095778 GACTGGTTTT
15095788 AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA
15095815 CCCTTCTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:15096019 original size:20 final size:20
Alignment explanation
Indices: 15095984--15096021 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15095974 TTGTTGTTTT
* *
15095984 TTGAAAGTTTAGTAACTAAA
1 TTGAAAGTTGAATAACTAAA
15096004 TTGAAAGTTGAATAACTA
1 TTGAAAGTTGAATAACTA
15096022 TTTTGTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (20 bp):
TTGAAAGTTGAATAACTAAA
Found at i:15099902 original size:85 final size:86
Alignment explanation
Indices: 15099800--15099971 Score: 328
Period size: 85 Copynumber: 2.0 Consensus size: 86
15099790 TTATTTATTT
15099800 TTTTAAATGATTTTTATATAAAAATAAATTTAAAAAATAGAATACATCAAATATACTAAAAACAT
1 TTTTAAATGATTTTTATATAAAAATAAATTTAAAAAATAGAATACATCAAATATACTAAAAACAT
15099865 TAAAATAAA-TTTTCCAACAA
66 TAAAATAAAGTTTTCCAACAA
15099885 TTTTAAATGATTTTTATATAAAAATAAATTTAAAAAATAGAATACATCAAATATACTAAAAACAT
1 TTTTAAATGATTTTTATATAAAAATAAATTTAAAAAATAGAATACATCAAATATACTAAAAACAT
15099950 TAAAATAAATGTTTTCCAACAA
66 TAAAATAAA-GTTTTCCAACAA
15099972 ATTAAAAATG
Statistics
Matches: 85, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
85 74 0.87
87 11 0.13
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (86 bp):
TTTTAAATGATTTTTATATAAAAATAAATTTAAAAAATAGAATACATCAAATATACTAAAAACAT
TAAAATAAAGTTTTCCAACAA
Found at i:15100008 original size:85 final size:84
Alignment explanation
Indices: 15099815--15099995 Score: 264
Period size: 85 Copynumber: 2.2 Consensus size: 84
15099805 AATGATTTTT
15099815 ATATAAAAATAAATTTAAAAAATAGAATACATCAAATATACTAAAAACATTAAAATAAATTTTCC
1 ATATAAAAATAAATTTAAAAAATAGAATACATCAAATATACTAAAAACATTAAAATAAATTTTCC
* * **
15099880 AACAATTTTAAATGATTTTT
66 AACAATATTAAA-GATATGC
15099900 ATATAAAAATAAATTTAAAAAATAGAATACATCAAATATACTAAAAACATTAAAATAAATGTTTT
1 ATATAAAAATAAATTTAAAAAATAGAATACATCAAATATACTAAAAACATTAAAATAAA--TTTT
15099965 CCAACAA-ATTAAA-A-ATGC
64 CCAACAATATTAAAGATATGC
15099983 AT-TAAAAA-AAATT
1 ATATAAAAATAAATT
15099996 CTATACTTAA
Statistics
Matches: 90, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
81 5 0.06
82 6 0.07
83 3 0.03
84 1 0.01
85 59 0.66
86 5 0.06
87 11 0.12
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (84 bp):
ATATAAAAATAAATTTAAAAAATAGAATACATCAAATATACTAAAAACATTAAAATAAATTTTCC
AACAATATTAAAGATATGC
Found at i:15100352 original size:3 final size:3
Alignment explanation
Indices: 15100344--15100384 Score: 73
Period size: 3 Copynumber: 13.3 Consensus size: 3
15100334 AAATAGTTTG
15100344 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT CATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT A
15100385 ATTTGCTTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:15101367 original size:40 final size:39
Alignment explanation
Indices: 15101284--15101367 Score: 89
Period size: 41 Copynumber: 2.1 Consensus size: 39
15101274 ATGTAAACAT
* *
15101284 TAAAAAATATTAAGATAACTAAATATAAAATTTTAATAAA
1 TAAAAAATATTAAAATAACTAAATATAAAA-TTTAAAAAA
* * *
15101324 TAAAAAATATATAAAATCATTAAATATTAAA-TTAAAAATA
1 TAAAAAATAT-TAAAATAACTAAATATAAAATTTAAAAA-A
15101364 TAAA
1 TAAA
15101368 TATATACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
39 6 0.16
40 15 0.41
41 16 0.43
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.32
Consensus pattern (39 bp):
TAAAAAATATTAAAATAACTAAATATAAAATTTAAAAAA
Found at i:15102982 original size:33 final size:33
Alignment explanation
Indices: 15102945--15103010 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
15102935 AAAAAGCATG
*
15102945 ACTATGGACATAGAAACTTTACTGTAACTACCA
1 ACTATGGACACAGAAACTTTACTGTAACTACCA
*
15102978 ACTATGGACACAGAAACTTTGCTGTAACTACCA
1 ACTATGGACACAGAAACTTTACTGTAACTACCA
15103011 TTCCAATCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.26
Consensus pattern (33 bp):
ACTATGGACACAGAAACTTTACTGTAACTACCA
Found at i:15105382 original size:33 final size:33
Alignment explanation
Indices: 15105345--15105410 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
15105335 AAAAAGCATG
*
15105345 ACTATGGACATAGAAACTTTACTGTAACTACCA
1 ACTATGGACACAGAAACTTTACTGTAACTACCA
*
15105378 ACTATGGACACAGAAACTTTGCTGTAACTACCA
1 ACTATGGACACAGAAACTTTACTGTAACTACCA
15105411 TTCCAATCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.38, C:0.23, G:0.14, T:0.26
Consensus pattern (33 bp):
ACTATGGACACAGAAACTTTACTGTAACTACCA
Found at i:15111299 original size:19 final size:19
Alignment explanation
Indices: 15111271--15111345 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
15111261 AATCATATCT
* *
15111271 TCCAATATTGCATATCATG
1 TCCAAGATTGCATATCATA
15111290 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
*
15111311 TCTAAGATTGCATATCATA
1 TCCAAGATTGCATATCATA
*
15111330 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
15111346 CTTGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 34 0.67
21 17 0.33
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.36
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:15112307 original size:45 final size:45
Alignment explanation
Indices: 15112256--15112376 Score: 136
Period size: 45 Copynumber: 2.7 Consensus size: 45
15112246 TTGTTTATTT
* * * *
15112256 AGTCTGCCCCACTGCAATTTCAGGGGGATAAGACTTACTTTCTTG
1 AGTCTGCCCCACTGCAACTTCAGGGAGATAAAACTCACTTTCTTG
* *
15112301 AGTCTGCTCCACTGCAACTTCAGGGAGATAAAACTCGCTTTCTTG
1 AGTCTGCCCCACTGCAACTTCAGGGAGATAAAACTCACTTTCTTG
* * * *
15112346 GGTCTGCTCC-TTCGCAACTTCAAGGAGATAA
1 AGTCTGCCCCACT-GCAACTTCAGGGAGATAA
15112377 GACCTGATAT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
44 1 0.02
45 65 0.98
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (45 bp):
AGTCTGCCCCACTGCAACTTCAGGGAGATAAAACTCACTTTCTTG
Found at i:15112648 original size:88 final size:88
Alignment explanation
Indices: 15112498--15113291 Score: 1147
Period size: 88 Copynumber: 9.0 Consensus size: 88
15112488 TTCGATAAGA
* * * * * * *
15112498 CTGGTGTCTTCGGTCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATGTACTATCTTCAGCCTGCTC
1 CTGGTATCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
* *
15112563 CGCTACAACCCAGGGAGGCAAGA
66 CACTACAACCCAGGGAGGCAAGG
* * * ** *
15112586 CTAGTGTCTTTGATCTGCTTCACTGTCGGTATAGGAAGGCAAGATCTTCTATCTTCAACCTGCTC
1 CTGGTATCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
*
15112651 CACTACGACCCAGGGAGGCAAGG
66 CACTACAACCCAGGGAGGCAAGG
* * *
15112674 CTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGGTCTGCTATCTTCAACTTGCTC
1 CTGGTATCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
* *
15112739 CACTACAACCCAAGAAGGCAAGG
66 CACTACAACCCAGGGAGGCAAGG
* *
15112762 CTGGTATCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATCTTTAACTTGCTC
1 CTGGTATCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
*
15112827 CACTAGAACCCAGGGAGGCAAGG
66 CACTACAACCCAGGGAGGCAAGG
* * **
15112850 CTGGTATCTTCGATCTACTTCACTGTCGGTACAAAAAGGCAAGATCTGCTATCTTCAACCTGCTC
1 CTGGTATCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
* *
15112915 CACTACAACCCAAGGAGACAAGG
66 CACTACAACCCAGGGAGGCAAGG
* ** *
15112938 CTGGTATCTTCGATCTGCTTCACTGTCAGTAAAGGAAGGCAAGATCTGCTATCTTCAACTTGCTC
1 CTGGTATCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
15113003 CACTACAACCCAGGGAGGCAAGG
66 CACTACAACCCAGGGAGGCAAGG
* * * *
15113026 CTGGTATCTTCGATCTGCTTCGCTGTTGATACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
1 CTGGTATCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
*
15113091 CACTACGACCCAGGGAGGCAAGG
66 CACTACAACCCAGGGAGGCAAGG
* * * * * *
15113114 CTGGTATCTTCGATTTGATTCGCTGTTGATGCAGGAAGGCAAGATCTGCTGTCTTCAACCTGCTC
1 CTGGTATCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
15113179 CACTACAACCCAGGGAGGCAAGG
66 CACTACAACCCAGGGAGGCAAGG
* *
15113202 TTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
1 CTGGTATCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
* *
15113267 CACTACGACCCAGGGAGACAAGG
66 CACTACAACCCAGGGAGGCAAGG
15113290 CT
1 CT
15113292 TAGTGATTTC
Statistics
Matches: 637, Mismatches: 69, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 637 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (88 bp):
CTGGTATCTTCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
CACTACAACCCAGGGAGGCAAGG
Found at i:15114545 original size:6 final size:6
Alignment explanation
Indices: 15114531--15114580 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
15114521 TGGCCTCTCC
*
15114531 TTTTCT TTTTTT TTTTGGCT TTTTC- -TTTCT TTTTCT TTTTCT TTTT-T
1 TTTTCT TTTTCT TTTT--CT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
15114578 TTT
1 TTT
15114581 GAAATATTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
4 4 0.11
5 4 0.11
6 25 0.66
8 5 0.13
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:15115447 original size:12 final size:12
Alignment explanation
Indices: 15115414--15115448 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
15115404 ATAGTAAGTG
*
15115414 CAAAAGAATATA
1 CAAAAGAATGTA
*
15115426 CGAAAGAATGTA
1 CAAAAGAATGTA
15115438 CAAAAGAATGT
1 CAAAAGAATGT
15115449 GTGAATTTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.57, C:0.09, G:0.17, T:0.17
Consensus pattern (12 bp):
CAAAAGAATGTA
Found at i:15119517 original size:21 final size:19
Alignment explanation
Indices: 15119480--15119554 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
15119470 AATCATATCT
15119480 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
15119499 TCCAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
15119520 TCTAAGATTGCATGTCATA
1 TCTAAGATTGCATATCATA
15119539 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
15119555 CTTGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:15121716 original size:16 final size:16
Alignment explanation
Indices: 15121697--15121730 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15121687 GCTAAAAGTG
*
15121697 CTTCCAGCTAGACGCA
1 CTTCCAACTAGACGCA
*
15121713 CTTCCAACTGGACGCA
1 CTTCCAACTAGACGCA
15121729 CT
1 CT
15121731 ATCAGTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.38, G:0.18, T:0.21
Consensus pattern (16 bp):
CTTCCAACTAGACGCA
Found at i:15122172 original size:29 final size:29
Alignment explanation
Indices: 15122139--15122195 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
15122129 TAACAAAACC
*
15122139 ATAAACCCTAATCC-AAATAACCATACTCT
1 ATAAACCCT-ATCCTAAAAAACCATACTCT
*
15122168 ATAAACTCTATCCTTAAAAAACCATACT
1 ATAAACCCTATCC-TAAAAAACCATACT
15122196 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.17
29 8 0.33
30 12 0.50
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (29 bp):
ATAAACCCTATCCTAAAAAACCATACTCT
Found at i:15122957 original size:26 final size:25
Alignment explanation
Indices: 15122890--15122957 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
15122880 TTATCTCTAT
*
15122890 TTTTTGGGTTTCTTAACCTGTTTTA
1 TTTTTAGGTTTCTTAACCTGTTTTA
* * * *
15122915 TTTTTAGATTTTTTTAAGCTTTCTTTA
1 TTTTTAG-GTTTCTTAACCTGT-TTTA
15122942 TTTTTAGGTTTCTTAA
1 TTTTTAGGTTTCTTAA
15122958 AGCTGCTCAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
25 6 0.18
26 17 0.50
27 11 0.32
ACGTcount: A:0.16, C:0.09, G:0.12, T:0.63
Consensus pattern (25 bp):
TTTTTAGGTTTCTTAACCTGTTTTA
Found at i:15122960 original size:27 final size:25
Alignment explanation
Indices: 15122890--15122962 Score: 74
Period size: 27 Copynumber: 2.8 Consensus size: 25
15122880 TTATCTCTAT
* *
15122890 TTTTTGGGTTTCTTAACCTGTTTTA
1 TTTTTAGGTTTCTTAAGCTGTTTTA
* * *
15122915 TTTTTAGATTTTTTTAAGCTTTCTTTA
1 TTTTTAG-GTTTCTTAAGCTGT-TTTA
15122942 TTTTTAGGTTTCTTAAAGCTG
1 TTTTTAGGTTTCTT-AAGCTG
15122963 CTCAACCTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 6 0.16
26 15 0.41
27 16 0.43
ACGTcount: A:0.16, C:0.10, G:0.14, T:0.60
Consensus pattern (25 bp):
TTTTTAGGTTTCTTAAGCTGTTTTA
Found at i:15125445 original size:19 final size:19
Alignment explanation
Indices: 15125423--15125459 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15125413 TTGTTATTAC
*
15125423 TATTTACTATTATTAATGT
1 TATTTACTATCATTAATGT
*
15125442 TATTTAGTATCATTAATG
1 TATTTACTATCATTAATG
15125460 ACTTACGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.54
Consensus pattern (19 bp):
TATTTACTATCATTAATGT
Found at i:15125941 original size:23 final size:21
Alignment explanation
Indices: 15125915--15125965 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
15125905 TTGGGTATAT
15125915 TATTAATAATTTTGGAAATTAGA
1 TATTAA-AATTTT-GAAATTAGA
* *
15125938 TATTAAAGTTTTGCAATTAGA
1 TATTAAAATTTTGAAATTAGA
*
15125959 AATTAAA
1 TATTAAA
15125966 TTTGTGCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 14 0.56
22 5 0.20
23 6 0.24
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.41
Consensus pattern (21 bp):
TATTAAAATTTTGAAATTAGA
Found at i:15125957 original size:21 final size:21
Alignment explanation
Indices: 15125931--15125973 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
15125921 TAATTTTGGA
*
15125931 AATTAGATATTAAAGTTT-TGC
1 AATTAGAAATTAAA-TTTGTGC
15125952 AATTAGAAATTAAATTTGTGC
1 AATTAGAAATTAAATTTGTGC
15125973 A
1 A
15125974 TAAGTATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.42, C:0.05, G:0.14, T:0.40
Consensus pattern (21 bp):
AATTAGAAATTAAATTTGTGC
Found at i:15129484 original size:392 final size:393
Alignment explanation
Indices: 15128760--15129547 Score: 1560
Period size: 392 Copynumber: 2.0 Consensus size: 393
15128750 AATTATCATA
15128760 ATCACGATAATAGATTAATGTTATAGATTACCATACTTAAATGTTATGCCATTTATGATAATCAT
1 ATCACGATAATAGATTAATGTTATAGATTACCATACTTAAATGTTATGCCATTTATGATAATCAT
15128825 TGTATGGTAATTGCACCATATATATATATATATATATATCAATAAATGGTAACCAAATATATATT
66 TGTATGGTAATTGCACCATATATATATATATATATATATCAATAAATGGTAACCAAATATATATT
15128890 ACCATAATTATTGTAACAATGTTGGTATAATGGTCTCTTGACTTTAATAATAGAGTGATCCATTT
131 ACCATAATTATTGTAACAATGTTGGTATAATGGTCTCTTGACTTTAATAATAGAGTGATCCATTT
15128955 GACACAAGTTTAAAATATGTGATCTTTATCTCTTATTTTAAATATTGTATTAAAAAAATTACGGT
196 GACACAAGTTTAAAATATGTGATCTTTATCTCTTATTTTAAATATTGTATTAAAAAAATTACGGT
15129020 AATTAAAAGTCCTTTCTTTTTTATATATTTTAATGGAATATTTTTTAAAAAATATCATTTACCTA
261 AATTAAAAGTCCTTTCTTTTTTATATATTTTAATGGAATATTTTTTAAAAAATATCATTTACCTA
15129085 TTCAGTTTTTTTAAGGCTAGTTCTCTATTATTGTTGTGGTGTTAAGTGCTTTTAAAAG-ATATAA
326 TTCAGTTTTTTTAAGGCTAGTTCTCTATTATTGTTGTGGTGTTAAGTGCTTTTAAAAGAATATAA
15129149 TTT
391 TTT
15129152 ATCACGATAATAGATTAATGTTATAGATTACCATACTTAAATGTTATGCCATTTATGATAATCAT
1 ATCACGATAATAGATTAATGTTATAGATTACCATACTTAAATGTTATGCCATTTATGATAATCAT
15129217 TGTATGGTAATTGCACCATATATATATATATATATATATCAATAAATGGTAACCAAATATATATT
66 TGTATGGTAATTGCACCATATATATATATATATATATATCAATAAATGGTAACCAAATATATATT
15129282 ACCATAATTATTGTAACAATGTTGGTATAATGGTCTCTTGACTTTAATAATAGAGTGATCCATTT
131 ACCATAATTATTGTAACAATGTTGGTATAATGGTCTCTTGACTTTAATAATAGAGTGATCCATTT
15129347 GACACAAGTTTAAAATATGTGATCTTTATCTCTTATTTTAAATATTGTATTAAAAAAATTACGGT
196 GACACAAGTTTAAAATATGTGATCTTTATCTCTTATTTTAAATATTGTATTAAAAAAATTACGGT
15129412 AATTAAAAGTCCTTTCTTTTTTATATATTTTAATGGAATATTTTTTAAAAAATATCATTTACCTA
261 AATTAAAAGTCCTTTCTTTTTTATATATTTTAATGGAATATTTTTTAAAAAATATCATTTACCTA
15129477 TTCAGTTTTTTTAAGGCTAGTTCTCTATTATTGTTGTGGTGTTAAGTGCTTTTAAAAGAAATATA
326 TTCAGTTTTTTTAAGGCTAGTTCTCTATTATTGTTGTGGTGTTAAGTGCTTTTAAAAG-AATATA
15129542 ATTT
390 ATTT
15129546 AT
1 AT
15129548 TAACTTAAAA
Statistics
Matches: 394, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
392 383 0.97
394 11 0.03
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (393 bp):
ATCACGATAATAGATTAATGTTATAGATTACCATACTTAAATGTTATGCCATTTATGATAATCAT
TGTATGGTAATTGCACCATATATATATATATATATATATCAATAAATGGTAACCAAATATATATT
ACCATAATTATTGTAACAATGTTGGTATAATGGTCTCTTGACTTTAATAATAGAGTGATCCATTT
GACACAAGTTTAAAATATGTGATCTTTATCTCTTATTTTAAATATTGTATTAAAAAAATTACGGT
AATTAAAAGTCCTTTCTTTTTTATATATTTTAATGGAATATTTTTTAAAAAATATCATTTACCTA
TTCAGTTTTTTTAAGGCTAGTTCTCTATTATTGTTGTGGTGTTAAGTGCTTTTAAAAGAATATAA
TTT
Found at i:15139791 original size:34 final size:34
Alignment explanation
Indices: 15139753--15139866 Score: 90
Period size: 34 Copynumber: 3.4 Consensus size: 34
15139743 AAGATAAAAA
*
15139753 CGTGATTTTAAATCGGCATGCTATGTAGGTTAGT
1 CGTGATCTTAAATCGGCATGCTATGTAGGTTAGT
** * * *
15139787 CGTGATCTTAAATAAGCA-GACTA--TAAGATAGAAA
1 CGTGATCTTAAATCGGCATG-CTATGTAGGTTAG--T
* *
15139821 CGCGATCTTAAATCGGCGTGCTATGTAGGTTAGT
1 CGTGATCTTAAATCGGCATGCTATGTAGGTTAGT
* *
15139855 CATGATTTTAAA
1 CGTGATCTTAAA
15139867 GCAACGGACT
Statistics
Matches: 58, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
32 6 0.10
33 1 0.02
34 44 0.76
35 1 0.02
36 6 0.10
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (34 bp):
CGTGATCTTAAATCGGCATGCTATGTAGGTTAGT
Found at i:15139812 original size:68 final size:67
Alignment explanation
Indices: 15139703--15140089 Score: 321
Period size: 68 Copynumber: 5.7 Consensus size: 67
15139693 CTGAGAAAAC
* * * * * *
15139703 TGCTATTTAGGCTAG-CTGTGATATTAAATCAACAGACTATAAGATAAAAACGTGATTTTAAATC
1 TGCTATGTAGGTTAGTC-GTGATCTTAAAT-AACAGACTATAAGATAGAAACATGATCTTAAATC
15139767 GGCA
64 GGCA
**
15139771 TGCTATGTAGGTTAGTCGTGATCTTAAATAAGCAGACTATAAGATAGAAACGCGATCTTAAATCG
1 TGCTATGTAGGTTAGTCGTGATCTTAAATAA-CAGACTATAAGATAGAAACATGATCTTAAATCG
*
15139836 GCG
65 GCA
* * * * * * *
15139839 TGCTATGTAGGTTAGTCATGATTTTAAAGCAACGGACT-GAAGATAGAAGCCTGATCTTAAATCG
1 TGCTATGTAGGTTAGTCGTGATCTTAAA-TAACAGACTATAAGATAGAAACATGATCTTAAATCG
*
15139903 ACA
65 GCA
* * * * * * * * * **
15139906 TGCTATGCAGGCTAGCCGTGATCTCAAATCACTGGACTACAATATAGAAGCACAATCTTAAATCG
1 TGCTATGTAGGTTAGTCGTGATCTTAAATAAC-AGACTATAAGATAGAAACATGATCTTAAATCG
15139971 GCA
65 GCA
* * * ** * * * *
15139974 TGTTATGTAGGTTAGCCATGATCTTAAATCAATGGACTGTAAGA-AGAAATATAATCTTAAGTCG
1 TGCTATGTAGGTTAGTCGTGATCTTAAAT-AACAGACTATAAGATAGAAACATGATCTTAAATCG
15140038 GCA
65 GCA
* ** *
15140041 TGCTATGTAGGTTAGTTGTGATCTTAAATCAATGGACTGTAAGATAGAA
1 TGCTATGTAGGTTAGTCGTGATCTTAAAT-AACAGACTATAAGATAGAA
15140090 GCGCAATCTT
Statistics
Matches: 263, Mismatches: 49, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
66 2 0.01
67 111 0.42
68 146 0.56
69 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (67 bp):
TGCTATGTAGGTTAGTCGTGATCTTAAATAACAGACTATAAGATAGAAACATGATCTTAAATCGG
CA
Found at i:15139910 original size:67 final size:67
Alignment explanation
Indices: 15139760--15140105 Score: 349
Period size: 68 Copynumber: 5.1 Consensus size: 67
15139750 AAACGTGATT
* * *
15139760 TTAAATCGGCATGCTATGTAGGTTAGTCGTGATCTTAAAT-AAGCAGACTATAAGATAGAAACGC
1 TTAAATCGGCATGCTATGTAGGTTAGTCGTGATCTTAAATCAA-CGGACT-GAAGATAGAAGCGC
*
15139824 GATC
64 AATC
* * * * *
15139828 TTAAATCGGCGTGCTATGTAGGTTAGTCATGATTTTAAAGCAACGGACTGAAGATAGAAGC-CTG
1 TTAAATCGGCATGCTATGTAGGTTAGTCGTGATCTTAAATCAACGGACTGAAGATAGAAGCGC-A
15139892 ATC
65 ATC
* * * * * * * *
15139895 TTAAATCGACATGCTATGCAGGCTAGCCGTGATCTCAAATC-ACTGGACTACAATATAGAAGCAC
1 TTAAATCGGCATGCTATGTAGGTTAGTCGTGATCTTAAATCAAC-GGACT-GAAGATAGAAGCGC
15139959 AATC
64 AATC
* * * * ****
15139963 TTAAATCGGCATGTTATGTAGGTTAGCCATGATCTTAAATCAATGGACTGTAAGA-AGAAATATA
1 TTAAATCGGCATGCTATGTAGGTTAGTCGTGATCTTAAATCAACGGACTG-AAGATAGAAGCGCA
15140027 ATC
65 ATC
* * *
15140030 TTAAGTCGGCATGCTATGTAGGTTAGTTGTGATCTTAAATCAATGGACTGTAAGATAGAAGCGCA
1 TTAAATCGGCATGCTATGTAGGTTAGTCGTGATCTTAAATCAACGGACTG-AAGATAGAAGCGCA
15140095 ATC
65 ATC
15140098 TTAAATCG
1 TTAAATCG
15140106 CTAACTCTAA
Statistics
Matches: 229, Mismatches: 41, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
66 3 0.01
67 110 0.48
68 112 0.49
69 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (67 bp):
TTAAATCGGCATGCTATGTAGGTTAGTCGTGATCTTAAATCAACGGACTGAAGATAGAAGCGCAA
TC
Found at i:15139985 original size:135 final size:135
Alignment explanation
Indices: 15139703--15140105 Score: 432
Period size: 135 Copynumber: 3.0 Consensus size: 135
15139693 CTGAGAAAAC
* * ** * * * * * * *
15139703 TGCTATTTAGGCTAGCTGTGATATTAAATCAACAGACTATAAGATAAAAACGTGATTTTAAATCG
1 TGCTATGTAGGTTAGCCATGATCTTAAAGCAACGGACTGTAAGA-AGAAACATGATCTTAAATCG
* * * *
15139768 GCATGCTATGTAGGTTAGTCGTGATCTTAAATAAGC-AGACTATAAGATAGAAACGCGATCTTAA
65 GCATGCTATGTAGGTTAGTCGTGATCTTAAATCA-CTGGACTATAAGATAGAAGCGCAATCTTAA
*
15139832 ATCGGCG
129 ATCGGCA
* * * *
15139839 TGCTATGTAGGTTAGTCATGATTTTAAAGCAACGGACTG-AAGATAGAAGCCTGATCTTAAATCG
1 TGCTATGTAGGTTAGCCATGATCTTAAAGCAACGGACTGTAAGA-AGAAACATGATCTTAAATCG
* * * * * * * *
15139903 ACATGCTATGCAGGCTAGCCGTGATCTCAAATCACTGGACTACAATATAGAAGCACAATCTTAAA
65 GCATGCTATGTAGGTTAGTCGTGATCTTAAATCACTGGACTATAAGATAGAAGCGCAATCTTAAA
15139968 TCGGCA
130 TCGGCA
* * * * * *
15139974 TGTTATGTAGGTTAGCCATGATCTTAAATCAATGGACTGTAAGAAGAAATATAATCTTAAGTCGG
1 TGCTATGTAGGTTAGCCATGATCTTAAAGCAACGGACTGTAAGAAGAAACATGATCTTAAATCGG
* * *
15140039 CATGCTATGTAGGTTAGTTGTGATCTTAAATCAATGGACTGTAAGATAGAAGCGCAATCTTAAAT
66 CATGCTATGTAGGTTAGTCGTGATCTTAAATCACTGGACTATAAGATAGAAGCGCAATCTTAAAT
15140104 CG
131 CG
15140106 CTAACTCTAA
Statistics
Matches: 218, Mismatches: 47, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
134 1 0.00
135 183 0.84
136 34 0.16
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (135 bp):
TGCTATGTAGGTTAGCCATGATCTTAAAGCAACGGACTGTAAGAAGAAACATGATCTTAAATCGG
CATGCTATGTAGGTTAGTCGTGATCTTAAATCACTGGACTATAAGATAGAAGCGCAATCTTAAAT
CGGCA
Found at i:15141867 original size:30 final size:30
Alignment explanation
Indices: 15141833--15141894 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
15141823 TTAAAAATAA
15141833 AATAAAAGTGAAATTAGAAAGTTTCTAGGC
1 AATAAAAGTGAAATTAGAAAGTTTCTAGGC
15141863 AATAAAAGTGAAATTAGAAAGTTTCTAGGC
1 AATAAAAGTGAAATTAGAAAGTTTCTAGGC
15141893 AA
1 AA
15141895 AATTTTTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.26
Consensus pattern (30 bp):
AATAAAAGTGAAATTAGAAAGTTTCTAGGC
Found at i:15142742 original size:21 final size:21
Alignment explanation
Indices: 15142716--15142758 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
15142706 TTTGGGTGGA
15142716 TCAACTCTCACGAGCTTCTGT
1 TCAACTCTCACGAGCTTCTGT
* *
15142737 TCAACTCTTATGAGCTTCTGT
1 TCAACTCTCACGAGCTTCTGT
15142758 T
1 T
15142759 GGTGTGTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.28, G:0.14, T:0.40
Consensus pattern (21 bp):
TCAACTCTCACGAGCTTCTGT
Found at i:15147709 original size:3 final size:3
Alignment explanation
Indices: 15147703--15147733 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
15147693 AAAAAACCCT
15147703 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
15147734 AAGCTAAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:15148980 original size:63 final size:63
Alignment explanation
Indices: 15148879--15149005 Score: 236
Period size: 63 Copynumber: 2.0 Consensus size: 63
15148869 CAAGATCACC
*
15148879 TCTTTATCTCTCCTTCCCTTGCCTACCTTATTTTTCCAAAATGTTAGAAGGTATTACGTGAGA
1 TCTTTATCTCTCCTTCCCTTGCCTACCTTATTTCTCCAAAATGTTAGAAGGTATTACGTGAGA
*
15148942 TCTTTATTTCTCCTTCCCTTGCCTACCTTATTTCTCCAAAATGTTAGAAGGTATTACGTGAGA
1 TCTTTATCTCTCCTTCCCTTGCCTACCTTATTTCTCCAAAATGTTAGAAGGTATTACGTGAGA
15149005 T
1 T
15149006 TAGTAAATTA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.42
Consensus pattern (63 bp):
TCTTTATCTCTCCTTCCCTTGCCTACCTTATTTCTCCAAAATGTTAGAAGGTATTACGTGAGA
Found at i:15161707 original size:40 final size:40
Alignment explanation
Indices: 15161652--15161733 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
15161642 CGCCATGTCC
15161652 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAA
1 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAA
15161692 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAA
1 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAA
15161732 CA
1 CA
15161734 CCATGTCCCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAA
Found at i:15161746 original size:50 final size:50
Alignment explanation
Indices: 15161692--15161817 Score: 225
Period size: 50 Copynumber: 2.5 Consensus size: 50
15161682 TCGGTGCCAA
15161692 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACACCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACACCATGTCC
* *
15161742 CAGACATGGTCTTACATGGAACCTCTCATCTCGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACACCATGTCC
*
15161792 CAGAAATGGTCTTACATGGGACCTCT
1 CAGACATGGTCTTACATGGGACCTCT
15161818 TTACCCAAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.25
Consensus pattern (50 bp):
CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACACCATGTCC
Found at i:15164258 original size:29 final size:29
Alignment explanation
Indices: 15164219--15164486 Score: 290
Period size: 29 Copynumber: 9.2 Consensus size: 29
15164209 GTATCGACAC
*
15164219 CCATCGAATATGAAAACGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* * * **
15164248 CCATTGGATATGAAAAGAGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
** * *
15164277 CCATTAAATATGAAAAAGGATGGCTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* *
15164306 CCATC-AATTAAAGAAAATGGATGGTTTCGA
1 CCATCGAA-T-ATGAAAAGGGATGGTTTCGA
* * *
15164336 CTATCAAATATGAAAAGGGATGGTGAT-GA
1 CCATCGAATATGAAAAGGGATGGT-TTCGA
* **
15164365 CCATCGAATATGTAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
* *
15164394 CTATCAAATATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
15164423 CCATCGAATATGAAAAGGGATGGCTTT-GA
1 CCATCGAATATGAAAAGGGATGG-TTTCGA
*
15164452 CCATTGAATATGAAAAGGGATGGTTTCGA
1 CCATCGAATATGAAAAGGGATGGTTTCGA
15164481 CCATCG
1 CCATCG
15164487 TTTAGCACAC
Statistics
Matches: 197, Mismatches: 35, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
28 5 0.03
29 164 0.83
30 26 0.13
31 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (29 bp):
CCATCGAATATGAAAAGGGATGGTTTCGA
Found at i:15201078 original size:29 final size:30
Alignment explanation
Indices: 15201021--15201100 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
15201011 ATATCAAAAT
* **
15201021 TATACATGAACTATGATTTAATGTACAATTG
1 TATACATGAACTTTGATTT-ATACACAATTG
*
15201052 TATACATGAACTTTGATTT-TACACAATTT
1 TATACATGAACTTTGATTTATACACAATTG
*
15201081 TATACATGAGATTTTGATTT
1 TATACATGA-ACTTTGATTT
15201101 GATCAAATTC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 16 0.37
30 9 0.21
31 18 0.42
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (30 bp):
TATACATGAACTTTGATTTATACACAATTG
Found at i:15202762 original size:532 final size:534
Alignment explanation
Indices: 15201756--15202802 Score: 1819
Period size: 532 Copynumber: 2.0 Consensus size: 534
15201746 TTTGTATCAA
15201756 CGTTTACTTCTTTCAGTAAGAAGAACGAAAACAAAAGGAAGAGGGTTTAGAACTCATACCTGGGC
1 CGTTTACTTCTTTCAGTAAGAAGAACGAAAACAAAAGGAAGAGGGTTTAGAACTCATACCTGGGC
*
15201821 TTGGTGCGTTGCCGAACCCCTCCTCCATTCGGATCGGAGTTGAATGGATGGGGGGCTTTCGTTTT
66 TTGGTGCGTCGCCGAACCCCTCCTCCATTCGGATCGGAGTTGAATGGATGGGGGGCTTTCGTTTT
* *
15201886 TTTTGATGCGGCGCATACAGGAGGAGATTATTTAGGTTTTTTTTAGTTTGATTTGTAAATGGCAG
131 TTTTGATGCGACGCATACAGAAGGAGATTATTTAGGTTTTTTTTAGTTTGATTTGTAAATGGCAG
* ** *
15201951 CGGCGCGATCAGAGAAGTGGAGAAAAGGGACGGTGGCGAGGTTCCAAGGCTAAGCCTGGAACCCT
196 AGGCAAGATCAGAGAAGTGGAGAAAAGGGACGGCGGCGAGGTTCCAAGGCTAAGCCTGGAACCCT
*
15202016 AGCAGAGAAAAGGGAATTCCCCTTTTATTTTTTTTTCTTGCGTTCTGCAGAAAATGAAACAGCAG
261 AGCAGAGAAAAGGGAATCCCCCTTTTATTTTTTTTTCTTGCGTTCTGCAGAAAATGAAACAGCAG
* * *
15202081 AAAGTGAAGTAAAATTTTTGCTTTTATGGATTGTGAAACGGCGCCGTTTGAGGGGGGAGATATGT
326 AAAGAGAAGTAAAATTTTTGCTTTTATGGATTGTAAAACGGCGCCGTTTGAGAGGGGAGATATGT
*
15202146 GCCTTCTTGCCCTAGTGGGTAATTTGCGCCTTTGGTCCCTCCAATTCTACGGTACATTCGATACA
391 GCCTTCTTGCCCTAGTGGGTAATTTGCGCCTTTGGTCCCCCCAATTCTACGGTACATTCGATACA
* *
15202211 ATCTTTTATTTCGCTTAATTTCGGCCACAGAACTTTGCGCCTATTCCAATCTGGTCCTGCGCAAA
456 ATCTTTTATTTCGCTTAATTTCGACCACAGAACTTTGCGCCTATTCCAATCTGGCCCTGCGCAAA
15202276 GCAATGCGCATAAG
521 GCAATGCGCATAAG
15202290 CGTTTACTTCTTTCAGTAAGAAGAACGAAAACAAAAGGAAGAGGGTTTAGAACTCATACCTGGGC
1 CGTTTACTTCTTTCAGTAAGAAGAACGAAAACAAAAGGAAGAGGGTTTAGAACTCATACCTGGGC
*
15202355 TTGGTGCGTCGCCGAATCCCTCCTCCATTCGGATCGGAGTTGAATGGATGGGGGGCTTTCGTTTT
66 TTGGTGCGTCGCCGAACCCCTCCTCCATTCGGATCGGAGTTGAATGGATGGGGGGCTTTCGTTTT
*
15202420 TTTT-ATGCGACGCATGCAGAAGGAGATTATTTAGGTTTTTTTTAGTTTGATTTGTAAATGGCAG
131 TTTTGATGCGACGCATACAGAAGGAGATTATTTAGGTTTTTTTTAGTTTGATTTGTAAATGGCAG
* * * *
15202484 AGGCAAGGTCAGAGAAGTGGAGAAGAGGGATGGCGGCGGGGTTCCAAGGCTAAGCCTGGAACCCT
196 AGGCAAGATCAGAGAAGTGGAGAAAAGGGACGGCGGCGAGGTTCCAAGGCTAAGCCTGGAACCCT
* *
15202549 AGCAGAGAAAAGGGAATCCCCCTTTTA-TTTTTTTTCTTGCGTTCTGTAGAAAATGAAACATCAG
261 AGCAGAGAAAAGGGAATCCCCCTTTTATTTTTTTTTCTTGCGTTCTGCAGAAAATGAAACAGCAG
* * *
15202613 AGAGAGAAGTAAACTTTTTGCTTTTATGGATTGTAAAACGGCGCCGTTTGAGAGGGGAGATCTGT
326 AAAGAGAAGTAAAATTTTTGCTTTTATGGATTGTAAAACGGCGCCGTTTGAGAGGGGAGATATGT
* *
15202678 GCCTTTTTGCCCTAGTGGGTAATTTGCGCCTTTGGTCCCCCCAATTCTGCGGTACATTCGATACA
391 GCCTTCTTGCCCTAGTGGGTAATTTGCGCCTTTGGTCCCCCCAATTCTACGGTACATTCGATACA
* *
15202743 ATCTTTTATTTCGCTTAATTTTGACCACAGAACTTTGCGCCTGTTCCAATCTGGCCCTGC
456 ATCTTTTATTTCGCTTAATTTCGACCACAGAACTTTGCGCCTATTCCAATCTGGCCCTGC
15202803 TCAATATGTT
Statistics
Matches: 484, Mismatches: 29, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
532 212 0.44
533 140 0.29
534 132 0.27
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (534 bp):
CGTTTACTTCTTTCAGTAAGAAGAACGAAAACAAAAGGAAGAGGGTTTAGAACTCATACCTGGGC
TTGGTGCGTCGCCGAACCCCTCCTCCATTCGGATCGGAGTTGAATGGATGGGGGGCTTTCGTTTT
TTTTGATGCGACGCATACAGAAGGAGATTATTTAGGTTTTTTTTAGTTTGATTTGTAAATGGCAG
AGGCAAGATCAGAGAAGTGGAGAAAAGGGACGGCGGCGAGGTTCCAAGGCTAAGCCTGGAACCCT
AGCAGAGAAAAGGGAATCCCCCTTTTATTTTTTTTTCTTGCGTTCTGCAGAAAATGAAACAGCAG
AAAGAGAAGTAAAATTTTTGCTTTTATGGATTGTAAAACGGCGCCGTTTGAGAGGGGAGATATGT
GCCTTCTTGCCCTAGTGGGTAATTTGCGCCTTTGGTCCCCCCAATTCTACGGTACATTCGATACA
ATCTTTTATTTCGCTTAATTTCGACCACAGAACTTTGCGCCTATTCCAATCTGGCCCTGCGCAAA
GCAATGCGCATAAG
Found at i:15203967 original size:28 final size:30
Alignment explanation
Indices: 15203891--15204043 Score: 129
Period size: 29 Copynumber: 5.2 Consensus size: 30
15203881 AAAAAAATTG
* ** **
15203891 CATTTTGACCCCTGTACTTTTTGAAATTTA
1 CATTTTAACCCCTAAACTTTTCAAAATTTA
* **
15203921 CA-TTTGACCCCTGTACTTTTCAAAATTTA
1 CATTTTAACCCCTAAACTTTTCAAAATTTA
*
15203950 CATTTTGA-CCC-AAACTTTTCTAAAA-TTA
1 CATTTTAACCCCTAAACTTTTC-AAAATTTA
*
15203978 CATTTCAACCCCTAAACTTTCTCAAAATTT-
1 CATTTTAACCCCTAAACTTT-TCAAAATTTA
* *
15204008 CACTTTAACCCCTAAAC-TTTCAAGAAATTA
1 CATTTTAACCCCTAAACTTTTCAA-AATTTA
15204038 CATTTT
1 CATTTT
15204044 GGACCATATT
Statistics
Matches: 105, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
28 20 0.19
29 43 0.41
30 38 0.36
31 4 0.04
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (30 bp):
CATTTTAACCCCTAAACTTTTCAAAATTTA
Found at i:15204313 original size:11 final size:11
Alignment explanation
Indices: 15204299--15204323 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15204289 AAAAAAAAAC
15204299 AAAATCAAGCA
1 AAAATCAAGCA
15204310 AAAATCAAGCA
1 AAAATCAAGCA
15204321 AAA
1 AAA
15204324 CACAGCAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.16, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAATCAAGCA
Found at i:15204468 original size:20 final size:20
Alignment explanation
Indices: 15204438--15204488 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
15204428 AAGCAAAGTC
*
15204438 AAAGAAAAAAACAGCAAGCAA
1 AAAGAAAAAAA-AACAAGCAA
15204459 AAAGAAAAAAAAACAAGCAA
1 AAAGAAAAAAAAACAAGCAA
15204479 AGAAGAAAAA
1 A-AAGAAAAA
15204489 GAGAAGAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.76, C:0.10, G:0.14, T:0.00
Consensus pattern (20 bp):
AAAGAAAAAAAAACAAGCAA
Found at i:15204585 original size:7 final size:7
Alignment explanation
Indices: 15204570--15204645 Score: 53
Period size: 7 Copynumber: 10.3 Consensus size: 7
15204560 GGCTGAACGG
*
15204570 AGAAGAA
1 AGAAAAA
15204577 AGAAAAA
1 AGAAAAA
15204584 AGAAAAGA
1 AGAAAA-A
15204592 AGAAAGAA
1 AGAAA-AA
*
15204600 AGAAGAA
1 AGAAAAA
* * *
15204607 ACAGAGA
1 AGAAAAA
*
15204614 AGAAAGA
1 AGAAAAA
15204621 AGAAAAA
1 AGAAAAA
*
15204628 AAAAAGGAA
1 AGAAA--AA
15204637 AGAAAAA
1 AGAAAAA
15204644 AG
1 AG
15204646 GGGAAAGAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
7 36 0.67
8 11 0.20
9 7 0.13
ACGTcount: A:0.75, C:0.01, G:0.24, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:15204588 original size:11 final size:11
Alignment explanation
Indices: 15204572--15204645 Score: 76
Period size: 12 Copynumber: 6.3 Consensus size: 11
15204562 CTGAACGGAG
15204572 AAGAAAGAAAA
1 AAGAAAGAAAA
*
15204583 AAGAAAAGAAGA
1 AAG-AAAGAAAA
15204595 AAGAAAGAAGAA
1 AAGAAAGAA-AA
*
15204607 ACAGAGAAGAAAG
1 A-AGA-AAGAAAA
*
15204620 AAGAAAAAAAA
1 AAGAAAGAAAA
15204631 AAGGAAAGAAAA
1 AA-GAAAGAAAA
15204643 AAG
1 AAG
15204646 GGGAAAGAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
11 17 0.33
12 25 0.48
13 5 0.10
14 5 0.10
ACGTcount: A:0.76, C:0.01, G:0.23, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:15204618 original size:18 final size:19
Alignment explanation
Indices: 15204570--15204655 Score: 90
Period size: 19 Copynumber: 4.6 Consensus size: 19
15204560 GGCTGAACGG
*
15204570 AGAAGAAAGAAAAAAGAAA
1 AGAAGAAAGAAAGAAGAAA
15204589 AGAAGAAAGAAAGAAGAAA
1 AGAAGAAAGAAAGAAGAAA
15204608 CAG-AG-AAGAAAGAAGAAA
1 -AGAAGAAAGAAAGAAGAAA
*
15204626 A-AAAAAAGGAAAGAA-AAA
1 AGAAGAAA-GAAAGAAGAAA
**
15204644 AGGGGAAAGAAA
1 AGAAGAAAGAAA
15204656 AATAAAAAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
17 2 0.04
18 23 0.40
19 30 0.53
20 2 0.04
ACGTcount: A:0.73, C:0.01, G:0.26, T:0.00
Consensus pattern (19 bp):
AGAAGAAAGAAAGAAGAAA
Found at i:15204654 original size:37 final size:36
Alignment explanation
Indices: 15204573--15204664 Score: 91
Period size: 37 Copynumber: 2.5 Consensus size: 36
15204563 TGAACGGAGA
*
15204573 AGAAAGAAAAAAGAAAAGAAGAAAGAAAGAAGAAACAG
1 AGAAAG-AAAAAGAAAA-AAAAAAGAAAGAAGAAACAG
15204611 AG-AAGAAAGAAGAAAAAAAAAAGGAAAGAA-AAA-AGG
1 AGAAAGAAA-AAGAAAAAAAAAA-GAAAGAAGAAACA-G
* *
15204647 GGAAAGAAAAATAAAAAA
1 AGAAAGAAAAAGAAAAAA
15204665 TAATATATCG
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
35 1 0.02
36 21 0.45
37 23 0.49
38 2 0.04
ACGTcount: A:0.75, C:0.01, G:0.23, T:0.01
Consensus pattern (36 bp):
AGAAAGAAAAAGAAAAAAAAAAGAAAGAAGAAACAG
Found at i:15204786 original size:25 final size:24
Alignment explanation
Indices: 15204758--15204808 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 24
15204748 CAAAATAGAA
15204758 AAAGAAGCAGCAGAAAAA-AAGAAAG
1 AAAGAAGCAG-A-AAAAAGAAGAAAG
15204783 AAAGAAGCAGAAAAAAGAAGAAAG
1 AAAGAAGCAGAAAAAAGAAGAAAG
15204807 AA
1 AA
15204809 GCAGTCCAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 5 0.20
24 10 0.40
25 10 0.40
ACGTcount: A:0.71, C:0.06, G:0.24, T:0.00
Consensus pattern (24 bp):
AAAGAAGCAGAAAAAAGAAGAAAG
Found at i:15204803 original size:20 final size:22
Alignment explanation
Indices: 15204758--15204812 Score: 80
Period size: 20 Copynumber: 2.6 Consensus size: 22
15204748 CAAAATAGAA
*
15204758 AAAG-AAGCAGCAGAAAAAAAG
1 AAAGAAAGAAGCAGAAAAAAAG
15204779 AAAGAAAGAAGCAG-AAAAAAG
1 AAAGAAAGAAGCAGAAAAAAAG
15204800 -AAGAAAGAAGCAG
1 AAAGAAAGAAGCAG
15204813 TCCAGCAGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 13 0.41
21 11 0.34
22 8 0.25
ACGTcount: A:0.67, C:0.07, G:0.25, T:0.00
Consensus pattern (22 bp):
AAAGAAAGAAGCAGAAAAAAAG
Found at i:15205012 original size:13 final size:14
Alignment explanation
Indices: 15204992--15205025 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
15204982 CTTTTGGGTA
15204992 ATTT-TTTTA-TCC
1 ATTTATTTTAGTCC
15205004 ATTTATTTTAGTCC
1 ATTTATTTTAGTCC
15205018 ATTTATTT
1 ATTTATTT
15205026 AAATATTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.20
13 5 0.25
14 11 0.55
ACGTcount: A:0.21, C:0.12, G:0.03, T:0.65
Consensus pattern (14 bp):
ATTTATTTTAGTCC
Found at i:15205431 original size:17 final size:17
Alignment explanation
Indices: 15205402--15205447 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
15205392 TAAAAAATTG
15205402 TGTTTCAAAAATTT-TCA
1 TGTTTC-AAAATTTCTCA
*
15205419 TGTCTTCAAAATTTCTCG
1 TGT-TTCAAAATTTCTCA
15205437 TGTTTCAAAAT
1 TGTTTCAAAAT
15205448 AATAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (17 bp):
TGTTTCAAAATTTCTCA
Found at i:15205535 original size:17 final size:17
Alignment explanation
Indices: 15205506--15205590 Score: 68
Period size: 17 Copynumber: 5.0 Consensus size: 17
15205496 TTTTTTAAAA
15205506 AAAAAATTC-CGTGTTT
1 AAAAAATTCTCGTGTTT
* **
15205522 CAAAAATTCTCGTGAATAA
1 AAAAAATTCTCGTG--TTT
15205541 AAAAAATT-TCGTGTTT
1 AAAAAATTCTCGTGTTT
** *
15205557 TCAAAATTCCCGTGTTT
1 AAAAAATTCTCGTGTTT
15205574 GAAAAAATT-TCGTGTTT
1 -AAAAAATTCTCGTGTTT
15205591 TCGTGTTTTC
Statistics
Matches: 52, Mismatches: 12, Indels: 9
0.71 0.16 0.12
Matches are distributed among these distances:
16 15 0.29
17 18 0.35
18 11 0.21
19 8 0.15
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (17 bp):
AAAAAATTCTCGTGTTT
Found at i:15205584 original size:34 final size:36
Alignment explanation
Indices: 15205504--15205592 Score: 112
Period size: 35 Copynumber: 2.6 Consensus size: 36
15205494 CTTTTTTTAA
* *
15205504 AAAAAAAATTCCGTG-TTTCAAAAATTCTCGTGAAT
1 AAAAAAAATTTCGTGTTTTCAAAAATTCCCGTGAAT
*
15205539 AAAAAAAATTTCGTGTTTTC-AAAATTCCCGTG-TT
1 AAAAAAAATTTCGTGTTTTCAAAAATTCCCGTGAAT
**
15205573 TGAAAAAATTTCGTGTTTTC
1 AAAAAAAATTTCGTGTTTTC
15205593 GTGTTTTCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
34 19 0.40
35 25 0.52
36 4 0.08
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.37
Consensus pattern (36 bp):
AAAAAAAATTTCGTGTTTTCAAAAATTCCCGTGAAT
Found at i:15205760 original size:27 final size:25
Alignment explanation
Indices: 15205719--15205769 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
15205709 TTCAAAAATT
*
15205719 TTCGTGTTTTCAAAATTTTCATGTG
1 TTCGTGTTTTCAAAATTCTCATGTG
15205744 TTCGTGTTTTCAAAAAATTCTCATGT
1 TTCGTGTTTTC--AAAATTCTCATGT
15205770 TTTTTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.48
27 12 0.52
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (25 bp):
TTCGTGTTTTCAAAATTCTCATGTG
Found at i:15205770 original size:25 final size:26
Alignment explanation
Indices: 15205719--15205786 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 26
15205709 TTCAAAAATT
*
15205719 TTCGTGTTTTC--AAAATTTTCATGTG
1 TTCGTGTTTTCAAAAAATTCTCA-GTG
15205744 TTCGTGTTTTCAAAAAATTCTCA-TG
1 TTCGTGTTTTCAAAAAATTCTCAGTG
* *
15205769 TT--TTTTTTAAAAAAATTC
1 TTCGTGTTTTCAAAAAATTC
15205787 GTGTTTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 14 0.37
25 15 0.39
27 9 0.24
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (26 bp):
TTCGTGTTTTCAAAAAATTCTCAGTG
Found at i:15205772 original size:19 final size:19
Alignment explanation
Indices: 15205748--15205907 Score: 63
Period size: 18 Copynumber: 8.7 Consensus size: 19
15205738 CATGTGTTCG
15205748 TGTTTTCAAAAAATTCTCA
1 TGTTTTCAAAAAATTCTCA
* * *
15205767 TGTTTTTTTTAAAAAAAT-TCG
1 TG---TTTTCAAAAAATTCTCA
**
15205788 TGTTTAAAAAAAATAT-TCA
1 TGTTTTCAAAAAAT-TCTCA
* *
15205807 TGTTTT--AAAAATTTTCG
1 TGTTTTCAAAAAATTCTCA
* *
15205824 TGTTTTC-AAAATTTTTC-
1 TGTTTTCAAAAAATTCTCA
*
15205841 -G-TGTCAAAAAAATTCTCA
1 TGTTTTC-AAAAAATTCTCA
* * *
15205859 TG-TATCGAAAATTTCT-A
1 TGTTTTCAAAAAATTCTCA
*
15205876 TGTTTTCAAAAAAATTCT-G
1 TGTTTTC-AAAAAATTCTCA
15205895 TGTTTTCAAAAAA
1 TGTTTTCAAAAAA
15205908 AATTTCGTGT
Statistics
Matches: 109, Mismatches: 20, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
15 3 0.03
16 2 0.02
17 25 0.23
18 35 0.32
19 29 0.27
21 4 0.04
22 11 0.10
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.44
Consensus pattern (19 bp):
TGTTTTCAAAAAATTCTCA
Found at i:15205836 original size:17 final size:17
Alignment explanation
Indices: 15205773--15205844 Score: 63
Period size: 17 Copynumber: 4.1 Consensus size: 17
15205763 CTCATGTTTT
**
15205773 TTTTAAAAAAATTCGTG
1 TTTTAAAAATTTTCGTG
* * *
15205790 TTTAAAAAAAATATTCATG
1 TTT--TAAAAATTTTCGTG
15205809 TTTTAAAAATTTTCGTG
1 TTTTAAAAATTTTCGTG
*
15205826 TTTTCAAAATTTTTCGTG
1 TTTT-AAAAATTTTCGTG
15205844 T
1 T
15205845 CAAAAAAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
17 18 0.40
18 13 0.29
19 14 0.31
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.47
Consensus pattern (17 bp):
TTTTAAAAATTTTCGTG
Found at i:15205891 original size:20 final size:21
Alignment explanation
Indices: 15205866--15205913 Score: 73
Period size: 19 Copynumber: 2.4 Consensus size: 21
15205856 TCATGTATCG
15205866 AAAATTTCTATGTTTTC-AAA
1 AAAATTTCTATGTTTTCAAAA
*
15205886 AAAA-TTCTGTGTTTTCAAAA
1 AAAATTTCTATGTTTTCAAAA
15205906 AAAATTTC
1 AAAATTTC
15205914 GTGTTTCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 11 0.44
20 11 0.44
21 3 0.12
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (21 bp):
AAAATTTCTATGTTTTCAAAA
Found at i:15205908 original size:19 final size:19
Alignment explanation
Indices: 15205866--15205943 Score: 72
Period size: 19 Copynumber: 4.2 Consensus size: 19
15205856 TCATGTATCG
* *
15205866 AAAATTTCTATGTTTTCAA
1 AAAAATTCTGTGTTTTCAA
15205885 AAAAATTCTGTGTTTTCAAA
1 AAAAATTCTGTGTTTTC-AA
15205905 AAAAATT-TCGTG-TTTCAA
1 AAAAATTCT-GTGTTTTCAA
* **
15205923 AGATCTTC-GTGTTTTCAA
1 AAAAATTCTGTGTTTTCAA
15205941 AAA
1 AAA
15205944 TTATTATTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
17 3 0.06
18 14 0.29
19 20 0.41
20 12 0.24
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (19 bp):
AAAAATTCTGTGTTTTCAA
Found at i:15205917 original size:20 final size:20
Alignment explanation
Indices: 15205866--15205943 Score: 78
Period size: 20 Copynumber: 4.1 Consensus size: 20
15205856 TCATGTATCG
*
15205866 AAAATTTCTATGTTTTCAAA
1 AAAATTTCTGTGTTTTCAAA
15205886 AAAA-TTCTGTGTTTTCAAAA
1 AAAATTTCTGTGTTTTC-AAA
15205906 AAAATTTC-GTG-TTTC--A
1 AAAATTTCTGTGTTTTCAAA
*
15205922 AAGATCTTC-GTGTTTTCAAA
1 AAAAT-TTCTGTGTTTTCAAA
15205942 AA
1 AA
15205944 TTATTATTGT
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
16 5 0.10
17 6 0.12
18 4 0.08
19 15 0.30
20 17 0.34
21 3 0.06
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (20 bp):
AAAATTTCTGTGTTTTCAAA
Found at i:15205921 original size:38 final size:38
Alignment explanation
Indices: 15205879--15205962 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
15205869 ATTTCTATGT
15205879 TTTCAAAAAAATTCTGTGTTTTCAAAAAAAATT-TCGTG
1 TTTCAAAAAAATTC-GTGTTTTCAAAAAAAATTATCGTG
* ** ** *
15205917 TTTCAAAGATCTTCGTGTTTTCAAAAATTATTATTGTG
1 TTTCAAAAAAATTCGTGTTTTCAAAAAAAATTATCGTG
15205955 TTTCAAAA
1 TTTCAAAA
15205963 TTCTTGTGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
37 16 0.42
38 22 0.58
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.43
Consensus pattern (38 bp):
TTTCAAAAAAATTCGTGTTTTCAAAAAAAATTATCGTG
Found at i:15205938 original size:37 final size:37
Alignment explanation
Indices: 15205886--15205973 Score: 110
Period size: 37 Copynumber: 2.4 Consensus size: 37
15205876 TGTTTTCAAA
15205886 AAAATTC-TGTGTTTTCAAAAAAAATT-TCGTGTTTC
1 AAAATTCTTGTGTTTTCAAAAAAAATTATCGTGTTTC
** *
15205921 AAAGA-TCTTCGTGTTTTCAAAAATTATTATTGTGTTTC
1 AAA-ATTCTT-GTGTTTTCAAAAAAAATTATCGTGTTTC
15205959 AAAATTCTTGTGTTT
1 AAAATTCTTGTGTTT
15205974 AAAAACAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
35 5 0.11
36 2 0.04
37 23 0.51
38 15 0.33
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (37 bp):
AAAATTCTTGTGTTTTCAAAAAAAATTATCGTGTTTC
Found at i:15206202 original size:15 final size:17
Alignment explanation
Indices: 15206184--15206219 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
15206174 CTTTTTTTGG
15206184 AAAAAAAAATT-TT-TA
1 AAAAAAAAATTCTTCTA
15206199 AAAAAAAAATTCTTCTA
1 AAAAAAAAATTCTTCTA
15206216 AAAA
1 AAAA
15206220 GAGATTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.58
16 2 0.11
17 6 0.32
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAAAAATTCTTCTA
Found at i:15209711 original size:14 final size:14
Alignment explanation
Indices: 15209689--15209721 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
15209679 TGTCCATGGA
*
15209689 GTTAGGAGTTAAGG
1 GTTAAGAGTTAAGG
15209703 GTTAAGAGTTAAGG
1 GTTAAGAGTTAAGG
15209717 GTTAA
1 GTTAA
15209722 AGGAGTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (14 bp):
GTTAAGAGTTAAGG
Found at i:15232228 original size:16 final size:15
Alignment explanation
Indices: 15232207--15232236 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15232197 GCATCTCAAA
15232207 TATACATATATTAACT
1 TATACATA-ATTAACT
15232223 TATACATAATTAAC
1 TATACATAATTAAC
15232237 CATAACTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (15 bp):
TATACATAATTAACT
Found at i:15232579 original size:15 final size:16
Alignment explanation
Indices: 15232550--15232579 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15232540 CAAACATGCT
15232550 TTAACACATTATCAAA
1 TTAACACATTATCAAA
15232566 TTAACACA-TATCAA
1 TTAACACATTATCAA
15232580 CAAGGTACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:15233754 original size:25 final size:24
Alignment explanation
Indices: 15233725--15233808 Score: 116
Period size: 25 Copynumber: 3.4 Consensus size: 24
15233715 TATGAGATGT
15233725 AAATCGGTAAGCTCATACGAGCTG
1 AAATCGGTAAGCTCATACGAGCTG
*
15233749 AGAATCGATAAGCTC-TCACGAGCTG
1 A-AATCGGTAAGCTCAT-ACGAGCTG
*
15233774 TAAATCGGTAAGCTCATACAAGCTG
1 -AAATCGGTAAGCTCATACGAGCTG
15233799 AAATCGGTAA
1 AAATCGGTAA
15233809 TCCCTAATGA
Statistics
Matches: 53, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
24 12 0.23
25 39 0.74
26 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (24 bp):
AAATCGGTAAGCTCATACGAGCTG
Found at i:15239763 original size:25 final size:25
Alignment explanation
Indices: 15239734--15239816 Score: 103
Period size: 25 Copynumber: 3.3 Consensus size: 25
15239724 GCTGTAAATG
*
15239734 GTAAGCTCCTCTGAGCTGAATAACG
1 GTAAGCTCCTCTGAGCTGAATAACA
* *
15239759 GTAAGCTCCTCCGAGCTGGATAACA
1 GTAAGCTCCTCTGAGCTGAATAACA
* * * *
15239784 GTAAGCTCATGTGAGCTGAGTATCA
1 GTAAGCTCCTCTGAGCTGAATAACA
15239809 GTAAGCTC
1 GTAAGCTC
15239817 ATACGAGCTG
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (25 bp):
GTAAGCTCCTCTGAGCTGAATAACA
Found at i:15248298 original size:25 final size:25
Alignment explanation
Indices: 15248270--15248353 Score: 159
Period size: 25 Copynumber: 3.4 Consensus size: 25
15248260 CAACTCGCAT
*
15248270 GAGCTTACCGTTATTCAGCTTAGAG
1 GAGCTTACCGTTATTCAGCTTGGAG
15248295 GAGCTTACCGTTATTCAGCTTGGAG
1 GAGCTTACCGTTATTCAGCTTGGAG
15248320 GAGCTTACCGTTATTCAGCTTGGAG
1 GAGCTTACCGTTATTCAGCTTGGAG
15248345 GAGCTTACC
1 GAGCTTACC
15248354 ATTTACAGCT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.31
Consensus pattern (25 bp):
GAGCTTACCGTTATTCAGCTTGGAG
Found at i:15248303 original size:50 final size:50
Alignment explanation
Indices: 15248245--15248356 Score: 161
Period size: 50 Copynumber: 2.2 Consensus size: 50
15248235 CATCTCATAT
*
15248245 GAGCTTACCATTACTCAACTCGCATGAGCTTACCGTTATTCAGCTTAGAG
1 GAGCTTACCATTACTCAACTCGCAGGAGCTTACCGTTATTCAGCTTAGAG
* * * * * *
15248295 GAGCTTACCGTTATTCAGCTTGGAGGAGCTTACCGTTATTCAGCTTGGAG
1 GAGCTTACCATTACTCAACTCGCAGGAGCTTACCGTTATTCAGCTTAGAG
15248345 GAGCTTACCATT
1 GAGCTTACCATT
15248357 TACAGCTCGT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (50 bp):
GAGCTTACCATTACTCAACTCGCAGGAGCTTACCGTTATTCAGCTTAGAG
Found at i:15254343 original size:21 final size:21
Alignment explanation
Indices: 15254317--15254357 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15254307 ATAACAAAAA
*
15254317 ACAAATAGATAAGAA-AAATAG
1 ACAAAT-GATAAAAATAAATAG
15254338 ACAAATGATAAAAATAAATA
1 ACAAATGATAAAAATAAATA
15254358 AACCAATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.68, C:0.05, G:0.10, T:0.17
Consensus pattern (21 bp):
ACAAATGATAAAAATAAATAG
Found at i:15258696 original size:15 final size:16
Alignment explanation
Indices: 15258667--15258696 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15258657 AATTAATTAA
15258667 CTAAATGCAAATGAAC
1 CTAAATGCAAATGAAC
15258683 CTAAATGC-AATGAA
1 CTAAATGCAAATGAA
15258697 ATGCAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (16 bp):
CTAAATGCAAATGAAC
Found at i:15260280 original size:45 final size:44
Alignment explanation
Indices: 15260210--15260312 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 44
15260200 AGACGTATCA
* *
15260210 CTTACTCATCTTTATGTGATGTCATAGCATCTTTCA-TCTATGTT
1 CTTACTCATCTTTATATGATGTCATAGCATCTTTCAGT-TATGGT
*
15260254 CTTATTCATCTTTATCATGATGTCATAGCATCTTTCAGTTATGGT
1 CTTACTCATCTTTAT-ATGATGTCATAGCATCTTTCAGTTATGGT
*
15260299 CTTACTCATTTTTA
1 CTTACTCATCTTTA
15260313 GGCGTATAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
44 14 0.27
45 37 0.71
46 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (44 bp):
CTTACTCATCTTTATATGATGTCATAGCATCTTTCAGTTATGGT
Found at i:15260288 original size:22 final size:21
Alignment explanation
Indices: 15260216--15260288 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 21
15260206 ATCACTTACT
*
15260216 CATCTTTATGTGATGTCATAG
1 CATCTTTATCTGATGTCATAG
* *
15260237 CATCTTTCATCT-ATGTTCTTATT
1 CATCTTT-ATCTGATG-TCATA-G
15260260 CATCTTTATCATGATGTCATAG
1 CATCTTTATC-TGATGTCATAG
15260282 CATCTTT
1 CATCTTT
15260289 CAGTTATGGT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
21 10 0.24
22 17 0.40
23 12 0.29
24 3 0.07
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.48
Consensus pattern (21 bp):
CATCTTTATCTGATGTCATAG
Found at i:15265016 original size:8 final size:8
Alignment explanation
Indices: 15265003--15265055 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
15264993 GATGAGTAAG
15265003 TTATTATT
1 TTATTATT
15265011 TTATTATT
1 TTATTATT
*
15265019 TTAATATT
1 TTATTATT
* * *
15265027 TACGAATATA
1 T--TATTATT
15265037 TTATTATT
1 TTATTATT
15265045 TTATTATT
1 TTATTATT
15265053 TTA
1 TTA
15265056 ATTTTTACGG
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
8 31 0.84
10 6 0.16
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (8 bp):
TTATTATT
Found at i:15265044 original size:34 final size:34
Alignment explanation
Indices: 15265003--15265073 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
15264993 GATGAGTAAG
15265003 TTATTATTTTATTATTTTAATATTTACGAATATA
1 TTATTATTTTATTATTTTAATATTTACGAATATA
* *
15265037 TTATTATTTTATTATTTTAATTTTTACGGATATA
1 TTATTATTTTATTATTTTAATATTTACGAATATA
15265071 TTA
1 TTA
15265074 AGGTCGTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (34 bp):
TTATTATTTTATTATTTTAATATTTACGAATATA
Found at i:15265084 original size:34 final size:34
Alignment explanation
Indices: 15265012--15265084 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
15265002 GTTATTATTT
** **
15265012 TATTATTTTAATATTTACGAATATATTATTATTT
1 TATTATTTTAATATTTACGAATATATTAAGATCG
* * *
15265046 TATTATTTTAATTTTTACGGATATATTAAGGTCG
1 TATTATTTTAATATTTACGAATATATTAAGATCG
15265080 TATTA
1 TATTA
15265085 AAATTTTGTG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.55
Consensus pattern (34 bp):
TATTATTTTAATATTTACGAATATATTAAGATCG
Found at i:15276352 original size:27 final size:26
Alignment explanation
Indices: 15276315--15276365 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
15276305 GAATCTACAG
15276315 TTTGTTGTTTGCATGA-TAGTCCGCCA
1 TTTGTTGTTTGCATGACT-GTCCGCCA
15276341 TTTGTATGTTTGCATGACTGTCCGC
1 TTTGT-TGTTTGCATGACTGTCCGC
15276366 TACTTACGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 5 0.22
27 17 0.74
28 1 0.04
ACGTcount: A:0.14, C:0.20, G:0.24, T:0.43
Consensus pattern (26 bp):
TTTGTTGTTTGCATGACTGTCCGCCA
Found at i:15295074 original size:2 final size:2
Alignment explanation
Indices: 15295067--15295097 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15295057 TAGAAACTTT
15295067 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15295098 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15295103 original size:2 final size:2
Alignment explanation
Indices: 15295098--15295131 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15295088 ATATATATAT
15295098 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
15295132 TTGTGTGGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:15306506 original size:13 final size:13
Alignment explanation
Indices: 15306485--15306517 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
15306475 GACTAATTAA
15306485 TTTAATTTC-ATT
1 TTTAATTTCAATT
15306497 TTTGAATTTCAATT
1 TTT-AATTTCAATT
15306511 TTTAATT
1 TTTAATT
15306518 AAATAAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 10 0.53
14 6 0.32
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (13 bp):
TTTAATTTCAATT
Found at i:15308202 original size:39 final size:40
Alignment explanation
Indices: 15308159--15308243 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
15308149 TTTAAAATTT
*
15308159 AAAAATTATTTAAAAATATAA-TATTATA-AAATTTTATTA
1 AAAAATTA-TAAAAAATATAAGTATTATAGAAATTTTATTA
* * *
15308198 AAAAATTATAAAAAATTTAAGTTTTATAGAATTTTTATTA
1 AAAAATTATAAAAAATATAAGTATTATAGAAATTTTATTA
15308238 AAAAAT
1 AAAAAT
15308244 AACAATATTG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
38 10 0.25
39 14 0.35
40 16 0.40
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.42
Consensus pattern (40 bp):
AAAAATTATAAAAAATATAAGTATTATAGAAATTTTATTA
Found at i:15316683 original size:29 final size:30
Alignment explanation
Indices: 15316634--15316690 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
15316624 TGAGTATAAC
*
15316634 TTGTGCCAAGCAATGAGACTGAAAGGGTAT
1 TTGTGCCAAGCAAAGAGACTGAAAGGGTAT
*
15316664 TTGTGCCTAG-AAAGAGACTGAAAGGGT
1 TTGTGCCAAGCAAAGAGACTGAAAGGGT
15316691 GACGTAGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.33, C:0.12, G:0.32, T:0.23
Consensus pattern (30 bp):
TTGTGCCAAGCAAAGAGACTGAAAGGGTAT
Done.