Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 47 of 141
Found at i:14145404 original size:82 final size:81
Alignment explanation
Indices: 14145295--14145608 Score: 380
Period size: 82 Copynumber: 3.8 Consensus size: 81
14145285 GGTATAACAG
* * *
14145295 TCATTTTACCCTATGAGGGTATTTCGATCATTTTATCCTAATGGGGGTATTTTGGTCATTTTACC
1 TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCT-ATGGGGGTATTTCGATCATTTTACC
14145360 CTATGGGGGTATTTCGA
65 CTATGGGGGTATTTCGA
* * * *
14145377 TCATTTTATCCTATG-GGAGTATTTCGATCATTTTACCCTATGAGGGTATTTCGGTTATTTTACC
1 TCATTTTACCCTATGAGG-GTATTTCGATCATTTTACCCTATGGGGGTATTTCGATCATTTTACC
* *
14145441 CTATTTGGGGTATTTCAA
65 CTA-TGGGGGTATTTCGA
* * * * *
14145459 TCATTTTACCCTAT-AGGGGTATTTTGGTCATTTTACTCTATTAGGGGTATTGCGATCATTTTAC
1 TCATTTTACCCTATGA-GGGTATTTCGATCATTTTACCCTA-TGGGGGTATTTCGATCATTTTAC
* * *
14145523 CTTATGGGGGTATTTTGG
64 CCTATGGGGGTATTTCGA
* * * *
14145541 TCATTTTACCCTATGAGGGTATTTTGGTCTTTTTACCCTATCGGGGTATTTCGATCATTTTACCC
1 TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGATCATTTTACCC
14145606 TAT
66 TAT
14145609 TTTAGGGTCT
Statistics
Matches: 200, Mismatches: 26, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
81 52 0.26
82 124 0.62
83 24 0.12
ACGTcount: A:0.19, C:0.16, G:0.20, T:0.45
Consensus pattern (81 bp):
TCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGGGGGTATTTCGATCATTTTACCC
TATGGGGGTATTTCGA
Found at i:14146121 original size:23 final size:23
Alignment explanation
Indices: 14146096--14146449 Score: 182
Period size: 23 Copynumber: 15.0 Consensus size: 23
14146086 GGACAGCCCT
* * *
14146096 TATACATCAATTTGGACAGCATT
1 TATACACCAAATTGGACAGCATA
* * * *
14146119 TATATACCAAACTAGACAGTAT-
1 TATACACCAAATTGGACAGCATA
* *
14146141 TTTCACACCAAAATTTGGACAACATA
1 TAT-ACACC-AAA-TTGGACAGCATA
* * *
14146167 TATACAACAATTTGGGCAGCATA
1 TATACACCAAATTGGACAGCATA
* * * *
14146190 TATACAACAAAATCGAGCAGCATT
1 TATACACCAAATTGGA-CAGCATA
*
14146214 TTTACACCAAAAATTGGACAGCATA
1 TATACACC--AAATTGGACAGCATA
* *
14146239 TATACAACAAATTGGGCAGCATA
1 TATACACCAAATTGGACAGCATA
* * *
14146262 TAAATACCAAATT-GAGCAACA-A
1 TATACACCAAATTGGA-CAGCATA
* *
14146284 TTTTACATCAAAATTGGACAGCATA
1 -TATACA-CCAAATTGGACAGCATA
* *
14146309 TATACAACAATTTAGG-CAGCATA
1 TATACACCAAATT-GGACAGCATA
* * *
14146332 TATATACCAAATT-GAGCAACATT
1 TATACACCAAATTGGA-CAGCATA
* *
14146355 TTTACATCAAAATTGGACAGCATA
1 TATACA-CCAAATTGGACAGCATA
* *
14146379 TATACAACAATTTAGG-CAGCATA
1 TATACACCAAATT-GGACAGCATA
* * *
14146402 TATATACCAAATT-GAGCAACATT
1 TATACACCAAATTGGA-CAGCATA
* *
14146425 TTTACATCAAAATTGGACAGCATA
1 TATACA-CCAAATTGGACAGCATA
14146449 T
1 T
14146450 NNNNNNNNNN
Statistics
Matches: 241, Mismatches: 68, Indels: 43
0.68 0.19 0.12
Matches are distributed among these distances:
21 2 0.01
22 4 0.02
23 133 0.55
24 64 0.27
25 30 0.12
26 8 0.03
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (23 bp):
TATACACCAAATTGGACAGCATA
Found at i:14146306 original size:70 final size:70
Alignment explanation
Indices: 14146096--14146449 Score: 462
Period size: 70 Copynumber: 5.0 Consensus size: 70
14146086 GGACAGCCCT
* * * * ** * *
14146096 TATACATCAATTT-GGACAGCATTTATATACCAAACT-AGACAGTATTTTCACACCAAAATTTGG
1 TATACAACAATTTAGG-CAGCATATAAATACCAAATTGAG-CAACATTTTTACATCAAAA-TTGG
*
14146159 ACAACATA
63 ACAGCATA
* * * * *
14146167 TATACAACAATTTGGGCAGCATATATACA-ACAAAATCGAGCAGCATTTTTACACCAAAAATTGG
1 TATACAACAATTTAGGCAGCATATA-A-ATACCAAATTGAGCAACATTTTTACATC-AAAATTGG
14146231 ACAGCATA
63 ACAGCATA
* * *
14146239 TATACAACAAATTGGGCAGCATATAAATACCAAATTGAGCAACAATTTTACATCAAAATTGGACA
1 TATACAACAATTTAGGCAGCATATAAATACCAAATTGAGCAACATTTTTACATCAAAATTGGACA
14146304 GCATA
66 GCATA
*
14146309 TATACAACAATTTAGGCAGCATATATATACCAAATTGAGCAACATTTTTACATCAAAATTGGACA
1 TATACAACAATTTAGGCAGCATATAAATACCAAATTGAGCAACATTTTTACATCAAAATTGGACA
14146374 GCATA
66 GCATA
*
14146379 TATACAACAATTTAGGCAGCATATATATACCAAATTGAGCAACATTTTTACATCAAAATTGGACA
1 TATACAACAATTTAGGCAGCATATAAATACCAAATTGAGCAACATTTTTACATCAAAATTGGACA
14146444 GCATA
66 GCATA
14146449 T
1 T
14146450 NNNNNNNNNN
Statistics
Matches: 258, Mismatches: 19, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
70 154 0.60
71 42 0.16
72 55 0.21
73 7 0.03
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (70 bp):
TATACAACAATTTAGGCAGCATATAAATACCAAATTGAGCAACATTTTTACATCAAAATTGGACA
GCATA
Found at i:14146448 original size:47 final size:47
Alignment explanation
Indices: 14146149--14146449 Score: 163
Period size: 47 Copynumber: 6.4 Consensus size: 47
14146139 ATTTTCACAC
* * * * * *
14146149 CAAAATTTGGACAACATATATACAACAATTTGGGCAGCATATATACAA
1 CAAAA-TTGGACAGCATATATACACCAAATTGAGCAACATATATACAT
* * * * *
14146197 CAAAA-TCGAGCAGCATTTTTACACCAAAAATTG-GACAGCATATATACAA
1 CAAAATTGGA-CAGCATATATACACC--AAATTGAG-CAACATATATACAT
* * * *
14146246 C-AAATTGGGCAGCATATAAATACCAAATTGAGCAACA-ATTTTACAT
1 CAAAATTGGACAGCATATATACACCAAATTGAGCAACATA-TATACAT
* * * *
14146292 CAAAATTGGACAGCATATATACAAC-AATTTAGGCAGCATATATATA-
1 CAAAATTGGACAGCATATATACACCAAATTGA-GCAACATATATACAT
* * * * * * *
14146338 CCAAATT-GAGCAACATTTTTACATCAAAATTG-GACAGCATATATACAA
1 CAAAATTGGA-CAGCATATATACA-CCAAATTGAG-CAACATATATACAT
* * * *
14146386 C-AATTTAGG-CAGCATATATATACCAAATTGAGCAACATTTTTACAT
1 CAAAATT-GGACAGCATATATACACCAAATTGAGCAACATATATACAT
14146432 CAAAATTGGACAGCATAT
1 CAAAATTGGACAGCATAT
14146450 NNNNNNNNNN
Statistics
Matches: 191, Mismatches: 42, Indels: 41
0.70 0.15 0.15
Matches are distributed among these distances:
45 3 0.02
46 61 0.32
47 78 0.41
48 26 0.14
49 23 0.12
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (47 bp):
CAAAATTGGACAGCATATATACACCAAATTGAGCAACATATATACAT
Found at i:14150739 original size:23 final size:23
Alignment explanation
Indices: 14150716--14150977 Score: 172
Period size: 23 Copynumber: 11.2 Consensus size: 23
14150706 ACACCAAAAT
* *
14150716 TTGGACAACATATATACAACAAT
1 TTGGACAGCATATATACAACAAA
*
14150739 TTGGGCAGCATATATACAACAAA
1 TTGGACAGCATATATACAACAAA
* * * * *
14150762 ATCGAGCAGCATTTTTACACCAAAAA
1 TTGGA-CAGCATATATACA--ACAAA
14150788 TTGGACAGCATATATACAACAAA
1 TTGGACAGCATATATACAACAAA
* * * *
14150811 TTGGGCAGCATATAAATACCAAA
1 TTGGACAGCATATATACAACAAA
* * * *
14150834 TT-GAGCAACATTTTTACATCAAAA
1 TTGGA-CAGCATATATACAAC-AAA
*
14150858 TTGGACAGCATATATACAACAAT
1 TTGGACAGCATATATACAACAAA
* *
14150881 TTAGG-CAGCATATATATACCAAA
1 TT-GGACAGCATATATACAACAAA
* * * *
14150904 TT-GAGCAACATTTTTACATCAAAA
1 TTGGA-CAGCATATATACAAC-AAA
* *
14150928 TTGGATAGCATATATACAACAAT
1 TTGGACAGCATATATACAACAAA
* *
14150951 TTAGG-CAGCATAAATACAACGAA
1 TT-GGACAGCATATATACAACAAA
14150974 TTGG
1 TTGG
14150978 GGAACATTTA
Statistics
Matches: 179, Mismatches: 48, Indels: 25
0.71 0.19 0.10
Matches are distributed among these distances:
21 1 0.01
22 3 0.02
23 107 0.60
24 46 0.26
25 15 0.08
26 7 0.04
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (23 bp):
TTGGACAGCATATATACAACAAA
Found at i:14150867 original size:70 final size:70
Alignment explanation
Indices: 14150657--14150962 Score: 375
Period size: 70 Copynumber: 4.3 Consensus size: 70
14150647 GGACAGCCCT
* * * * ** *
14150657 TATACATCAATTT-GGACAGCATTTATATACCAAACT-AGACAGTATTTTCACACCAAAATTTGG
1 TATACAACAATTTAGG-CAGCATATAAATACCAAATTGAG-CAACATTTTTACACCAAAA-TTGG
*
14150720 ACAACATA
63 ACAGCATA
* * * *
14150728 TATACAACAATTTGGGCAGCATATATACA-ACAAAATCGAGCAGCATTTTTACACCAAAAATTGG
1 TATACAACAATTTAGGCAGCATATA-A-ATACCAAATTGAGCAACATTTTTACACC-AAAATTGG
14150792 ACAGCATA
63 ACAGCATA
* * *
14150800 TATACAACAAATTGGGCAGCATATAAATACCAAATTGAGCAACATTTTTACATCAAAATTGGACA
1 TATACAACAATTTAGGCAGCATATAAATACCAAATTGAGCAACATTTTTACACCAAAATTGGACA
14150865 GCATA
66 GCATA
* * *
14150870 TATACAACAATTTAGGCAGCATATATATACCAAATTGAGCAACATTTTTACATCAAAATTGGATA
1 TATACAACAATTTAGGCAGCATATAAATACCAAATTGAGCAACATTTTTACACCAAAATTGGACA
14150935 GCATA
66 GCATA
14150940 TATACAACAATTTAGGCAGCATA
1 TATACAACAATTTAGGCAGCATA
14150963 AATACAACGA
Statistics
Matches: 211, Mismatches: 18, Indels: 13
0.87 0.07 0.05
Matches are distributed among these distances:
70 106 0.50
71 43 0.20
72 55 0.26
73 7 0.03
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (70 bp):
TATACAACAATTTAGGCAGCATATAAATACCAAATTGAGCAACATTTTTACACCAAAATTGGACA
GCATA
Found at i:14150994 original size:140 final size:141
Alignment explanation
Indices: 14150700--14150998 Score: 381
Period size: 140 Copynumber: 2.1 Consensus size: 141
14150690 ACTAGACAGT
* * *
14150700 ATTTTCACACCAAAATTTGGACAACATATATACAACAATTTGGGCAGCATATATACAACAAAATC
1 ATTTTAACATCAAAA-TTGGACAACATATATACAACAATTTAGGCAGCATATATACAACAAAATC
* *
14150765 GAGCAGCATTTTTACACCAAAAATTGGACAGCATATATACAACAAATTGGGCAGCATATAAATAC
65 GAGCAACATTTTTACACCAAAAATTGGACAGCATATATACAACAAATTAGGCAGCA-ATAAATAC
14150830 CAAATTGAGCAAC
129 CAAATTGAGCAAC
* * * * *
14150843 ATTTTTACATCAAAATTGGACAGCATATATACAACAATTTAGGCAGCATATATA-TACCAAATTG
1 ATTTTAACATCAAAATTGGACAACATATATACAACAATTTAGGCAGCATATATACAACAAAATCG
* * *
14150907 AGCAACATTTTTACATC-AAAATTGGATAGCATATATACAACAATTTAGGCAGC-ATAAATACAA
66 AGCAACATTTTTACACCAAAAATTGGACAGCATATATACAACAAATTAGGCAGCAATAAATAC--
* * *
14150970 CGAATTGGGGAAC
129 CAAATTGAGCAAC
14150983 A-TTTAAGCATCAAAAT
1 ATTTTAA-CATCAAAAT
14150999 AACATGAACA
Statistics
Matches: 137, Mismatches: 16, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
138 8 0.06
139 4 0.03
140 53 0.39
141 22 0.16
142 37 0.27
143 13 0.09
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (141 bp):
ATTTTAACATCAAAATTGGACAACATATATACAACAATTTAGGCAGCATATATACAACAAAATCG
AGCAACATTTTTACACCAAAAATTGGACAGCATATATACAACAAATTAGGCAGCAATAAATACCA
AATTGAGCAAC
Found at i:14151725 original size:24 final size:24
Alignment explanation
Indices: 14151698--14151778 Score: 72
Period size: 28 Copynumber: 3.0 Consensus size: 24
14151688 TCGAAAATAT
*
14151698 TTAATAAGTTCGCACACTTAGTGC
1 TTAATAAATTCGCACACTTAGTGC
14151722 TTAATAATCAATCTCGCACACTTAGTGC
1 TTAAT-A--AAT-TCGCACACTTAGTGC
*
14151750 TTTACAATTAAACTCGCACACTTAGTGC
1 -TT--AA-TAAATTCGCACACTTAGTGC
14151778 T
1 T
14151779 AATCCCATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
24 5 0.11
25 1 0.02
27 3 0.06
28 30 0.64
29 4 0.09
31 3 0.06
32 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.33
Consensus pattern (24 bp):
TTAATAAATTCGCACACTTAGTGC
Found at i:14151739 original size:28 final size:28
Alignment explanation
Indices: 14151707--14151778 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
14151697 TTTAATAAGT
* *
14151707 TCGCACACTTAGTGCTTAATAATCAATC
1 TCGCACACTTAGTGCTTAACAATCAAAC
* *
14151735 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTAACAATCAAAC
14151763 TCGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
14151779 AATCCCATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTAACAATCAAAC
Found at i:14151865 original size:14 final size:15
Alignment explanation
Indices: 14151835--14151873 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
14151825 AAGTCAACAA
14151835 TTCAATACATCTTTT
1 TTCAATACATCTTTT
*
14151850 TTCAATA-ATTTTTT
1 TTCAATACATCTTTT
*
14151864 TTCACTACAT
1 TTCAATACAT
14151874 GTATATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.28, C:0.18, G:0.00, T:0.54
Consensus pattern (15 bp):
TTCAATACATCTTTT
Found at i:14159757 original size:23 final size:23
Alignment explanation
Indices: 14159713--14159780 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
14159703 ATATTTTAAA
* *
14159713 AAATAATAATTAAATATGAAAAAG
1 AAATAATAA-AAAATAAGAAAAAG
*
14159737 AAATAATAAAAAATAA-AAAAACT
1 AAATAATAAAAAATAAGAAAAA-G
* *
14159760 AATTAATTAAAAATAAGAAAA
1 AAATAATAAAAAATAAGAAAA
14159781 TAAAAAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 5 0.14
23 19 0.51
24 13 0.35
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (23 bp):
AAATAATAAAAAATAAGAAAAAG
Found at i:14160334 original size:19 final size:19
Alignment explanation
Indices: 14160310--14160363 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
14160300 AATCACATCT
*
14160310 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
14160329 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
14160348 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
14160364 CTCGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:14160373 original size:17 final size:18
Alignment explanation
Indices: 14160313--14160373 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 18
14160303 CACATCTTCT
* *
14160313 AAGATTACATATCATATCT
1 AAGATTGCATATCA-ATCG
*
14160332 AAGATTGCATATCATATCT
1 AAGATTGCATATCA-ATCG
*
14160351 AAGATTGCATATC-CTCG
1 AAGATTGCATATCAATCG
14160368 AAGATT
1 AAGATT
14160374 ATGTTTCCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
17 8 0.21
19 31 0.79
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.34
Consensus pattern (18 bp):
AAGATTGCATATCAATCG
Found at i:14160828 original size:128 final size:129
Alignment explanation
Indices: 14160647--14160898 Score: 303
Period size: 128 Copynumber: 2.0 Consensus size: 129
14160637 AAATGAATTT
* * * * *
14160647 GATGCGATCTGCTCTACTGTAATTTCAGAGAGATAAGATCCATCATTCTAATCCACTCCGCTACA
1 GATGCGATCTGCTCTAATGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
* * *
14160712 ACTTTAGGGAGATAGGATT-T-GTTTATTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACT
66 ACTTCAGGGAGATAGGATTATCG--GATTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGACT
14160775 A
129 A
* ** * * * * *
14160776 GATGCGTTCTGCTC-AATGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTTCATTGCA
1 GATGCGATCTGCTCTAATGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
* *
14160840 ACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
66 ACTTCAGGGAGATAGGATTATCGGATTTAATCTGCTCCACTGCAACTTCAGAGAGATAA
14160899 AATTTGCCAT
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
128 88 0.85
129 14 0.14
130 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (129 bp):
GATGCGATCTGCTCTAATGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
ACTTCAGGGAGATAGGATTATCGGATTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGACTA
Found at i:14161253 original size:44 final size:44
Alignment explanation
Indices: 14161193--14161995 Score: 664
Period size: 44 Copynumber: 18.2 Consensus size: 44
14161183 AAGGCAAAAC
* * * *
14161193 CTGCTATTTTCGATCTACTTCACGCCAATAAATGAAGACAAGAT
1 CTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGAT
* * * * **
14161237 CTGCTTTCTTTGATCTACTTCACGA-CAATACATGAAGTTAAGAT
1 CTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGAT
* * * * * * *
14161281 TTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAATAT
1 CTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGAT
* * * * * * *
14161326 TTGC-ATCTTCGATCCATTTC-CTGCCAATATAGAAAGACAGGAC
1 CTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGAT
* * * **
14161369 CTGCTATCTTTGATCTACTTCACGA-CAATACATGAAGTTAAGAT
1 CTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGAT
* * * * * *
14161413 TTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGAT
1 CTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGAT
* * *
14161458 CTGC-ATCTTCGATCCACTTTC-TACCAATATAGGAAGACAAGAC
1 CTGCTATCTTCGATCTAC-TTCACACCAATATAGGAAGACAAGAT
* * * * *
14161501 CTACTATTTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
1 CTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGAT
* * * * *
14161545 CTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGAT
1 CTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGAT
* * *
14161590 CTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGAC
1 CTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGAT
* * * *
14161633 CTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGAT
1 CTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGAT
* * * * *
14161677 CTGCTTTGTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGAT
1 CTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGACAAGAT
* * *
14161722 CTGC-ATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGAT
1 CTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGAT
* **
14161766 CTGCTATCTTCGATCTACTTCACACCAATACATAAAGACAAGAT
1 CTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGAT
* *
14161810 CTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGACATGA-
1 CTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGAT
* * * *
14161852 CATGCTATCTTCGATTTACTTCACGCCAATAAATGAAGACAAGAT
1 C-TGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGAT
* * *
14161897 CAT-CTTTCTTCGATCTACTCCACCACCAATATGGGAAGACAAGAT
1 C-TGCTATCTTCGATCTACTTCA-CACCAATATAGGAAGACAAGAT
* * *
14161942 CTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGAC
1 CTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGACAAGAT
14161985 CTGCTATCTTC
1 CTGCTATCTTC
14161996 ATTGATCTGC
Statistics
Matches: 597, Mismatches: 135, Indels: 54
0.76 0.17 0.07
Matches are distributed among these distances:
42 5 0.01
43 116 0.19
44 354 0.59
45 122 0.20
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (44 bp):
CTGCTATCTTCGATCTACTTCACACCAATATAGGAAGACAAGAT
Found at i:14161392 original size:132 final size:132
Alignment explanation
Indices: 14161217--14161846 Score: 926
Period size: 132 Copynumber: 4.8 Consensus size: 132
14161207 CTACTTCACG
* * * * * ** *
14161217 CCAATAAATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGACAATACATGAAGTTAAGATT
1 CCAATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGACAATACATGAAGACAAGATC
* * *
14161282 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAATATTTGCATCTTCGATCCATTTCC
66 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCATCTTCGATCCACTTCC
*
14161347 TG
131 TA
* ** *
14161349 CCAATATAGAAAGACAGGACCTGCTATCTTTGATCTACTTCACGACAATACATGAAGTTAAGATT
1 CCAATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGACAATACATGAAGACAAGATC
*
14161414 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCATCTTCGATCCACTTTC
66 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCATCTTCGATCCACTTCC
14161479 TA
131 TA
* * *
14161481 CCAATATAGGAAGACAAGACCTACTAT-TTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
1 CCAATATAGGAAGACAGGACCTGCTATCTTT-GATCTACTTCACGACAATACATGAAGACAAGAT
14161545 CTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCATCTTCGATCCACTTC
65 CTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCATCTTCGATCCACTTC
14161610 CTA
130 CTA
*
14161613 CCAATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATC
1 CCAATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGACAATACATGAAGACAAGATC
* *
14161678 TGCTTTGTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCG
66 TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCATCTTCGATCCACTTC-
14161743 CTA
130 CTA
* * *
14161746 CCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCAC-ACCAATACATAAAGACAAGAT
1 CCAATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGA-CAATACATGAAGACAAGAT
* * * * *
14161810 CTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGA
65 CTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGA
14161847 CATGACATGC
Statistics
Matches: 461, Mismatches: 33, Indels: 9
0.92 0.07 0.02
Matches are distributed among these distances:
131 17 0.04
132 375 0.81
133 69 0.15
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (132 bp):
CCAATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGACAATACATGAAGACAAGATC
TGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGCATCTTCGATCCACTTCC
TA
Found at i:14161927 original size:132 final size:133
Alignment explanation
Indices: 14161201--14161995 Score: 905
Period size: 132 Copynumber: 6.0 Consensus size: 133
14161191 ACCTGCTATT
* * * * * *
14161201 TTCGATCTACTTCAC-GCCAATAAATGAAGACAAGATCTGCTTTCTTTGATCTACTTCACGA-CA
1 TTCGATCCACTTCACTGCCAATATAGGAAGACAAGACCTGCTATCTTCGATCTACTTCAC-ACCA
** * * * *
14161264 ATACATGAAGTTAAGATTTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAATATTTG
65 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
14161329 CATC
130 CATC
* * * *
14161333 TTCGATCCATTTC-CTGCCAATATAGAAAGACAGGACCTGCTATCTTTGATCTACTTCACGA-CA
1 TTCGATCCACTTCACTGCCAATATAGGAAGACAAGACCTGCTATCTTCGATCTACTTCAC-ACCA
** * *
14161396 ATACATGAAGTTAAGATTTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTG
65 ATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
14161461 CATC
130 CATC
* * * * *
14161465 TTCGATCCACTT-TCTACCAATATAGGAAGACAAGACCTACTATTTTCGATCTACTTCACGCCAA
1 TTCGATCCACTTCACTGCCAATATAGGAAGACAAGACCTGCTATCTTCGATCTACTTCACACCAA
*
14161529 TACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGATAAGATCTGC
66 TACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC
14161594 ATC
131 ATC
* * * *
14161597 TTCGATCCACTTC-CTACCAATATAGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAA
1 TTCGATCCACTTCACTGCCAATATAGGAAGACAAGACCTGCTATCTTCGATCTACTTCACACCAA
*
14161661 TACATGAAGACAAGATCTGCTTTGTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC
66 TACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC
14161726 ATC
131 ATC
* * * *
14161729 TTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACACCAA
1 TTCGATCCACTTCACTGCCAATATAGGAAGACAAGACCTGCTATCTTCGATCTACTTCACACCAA
* * * * * * *
14161794 TACATAAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGACATGA-CATG
66 TACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATC-TG
14161856 CTATC
130 C-ATC
** * * * * *
14161861 TTCGATTTACTTCAC-GCCAATAAATGAAGACAAGATCAT-CTTTCTTCGATCTACTCCACCACC
1 TTCGATCCACTTCACTGCCAATATAGGAAGACAAGA-CCTGCTATCTTCGATCTACTTCA-CACC
*** * * * * * * *
14161924 AATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGACCT
64 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCT
14161987 GCTATC
129 GC-ATC
14161993 TTC
1 TTC
14161996 ATTGATCTGC
Statistics
Matches: 599, Mismatches: 54, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
130 1 0.00
131 55 0.09
132 475 0.79
133 68 0.11
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (133 bp):
TTCGATCCACTTCACTGCCAATATAGGAAGACAAGACCTGCTATCTTCGATCTACTTCACACCAA
TACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC
ATC
Found at i:14167545 original size:33 final size:33
Alignment explanation
Indices: 14167503--14167565 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
14167493 ATATGAAAAA
14167503 TAAATAATAAAAAAAATAATAAAAACTAATTAAT
1 TAAATAATAAAAAAAATAA-AAAAACTAATTAAT
*
14167537 TAAA-AATAAAGAAAATAAAAAAACTAATT
1 TAAATAATAAAAAAAATAAAAAAACTAATT
14167566 TGAACTGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 11 0.39
33 13 0.46
34 4 0.14
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (33 bp):
TAAATAATAAAAAAAATAAAAAAACTAATTAAT
Found at i:14167557 original size:39 final size:39
Alignment explanation
Indices: 14167474--14167557 Score: 98
Period size: 39 Copynumber: 2.2 Consensus size: 39
14167464 ACATATATTT
* * *
14167474 TAAAAATAATAATAATTAAATATGAAAAATAAATAATAA
1 TAAAAATAATAAAAACTAAATATGAAAAATAAAGAATAA
* * *
14167513 AAAAAATAATAAAAACTAATTAATTAAAAATAAAGAA-AA
1 TAAAAATAATAAAAACTAAAT-ATGAAAAATAAAGAATAA
14167552 TAAAAA
1 TAAAAA
14167558 AACTAATTTG
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
39 24 0.65
40 13 0.35
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.24
Consensus pattern (39 bp):
TAAAAATAATAAAAACTAAATATGAAAAATAAAGAATAA
Found at i:14168079 original size:19 final size:19
Alignment explanation
Indices: 14168055--14168129 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
14168045 AATCACATCT
14168055 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
14168074 TCTAAGATTGTATATATCATA
1 TCTAAGA-T-TACATATCATA
*
14168095 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
14168114 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
14168130 CTCGAAATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 32 0.63
20 2 0.04
21 17 0.33
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:14170951 original size:29 final size:29
Alignment explanation
Indices: 14170910--14170967 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
14170900 ATATGCTTCC
14170910 TATTTTTACAATTTAAT-ATTTTATTTTT
1 TATTTTTACAATTTAATCATTTTATTTTT
* *
14170938 TATTTTTAAGAATTTAATCTTTTTATTTTT
1 TATTTTT-ACAATTTAATCATTTTATTTTT
14170968 AAAATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 7 0.27
29 9 0.35
30 10 0.38
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (29 bp):
TATTTTTACAATTTAATCATTTTATTTTT
Found at i:14170976 original size:23 final size:22
Alignment explanation
Indices: 14170921--14170977 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
14170911 ATTTTTACAA
*
14170921 TTTAATATTTT-ATTTTTTATT
1 TTTAAAATTTTAATTTTTTATT
14170942 TTTAAGAA-TTTAATCTTTTTATT
1 TTTAA-AATTTTAAT-TTTTTATT
14170965 TTTAAAATTTTAA
1 TTTAAAATTTTAA
14170978 AACTTAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 8 0.26
22 5 0.16
23 18 0.58
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTAAAATTTTAATTTTTTATT
Found at i:14173124 original size:107 final size:109
Alignment explanation
Indices: 14172927--14173140 Score: 369
Period size: 107 Copynumber: 2.0 Consensus size: 109
14172917 CATCCCTACT
* *
14172927 TAAACAAAATTAATGAAAAGAGAAGAAAATTCTACCCATCTTTGATAAAGTTGGTAGTTAAGAGT
1 TAAACAAAATTAATGAAAAGAGAAGAAAATTCTACCCATCTTTAATAAAGTTGGTAGTTAAGAAT
14172992 TGATATTTATCATAATACTTGTATATTATACAAAATTGTCAACC
66 TGATATTTATCATAATACTTGTATATTATACAAAATTGTCAACC
14173036 TAAACAAAATTAATGAAAAGA-AAGAAAATTCTACCCATCTTTAATAAAGTT-GTAGTTAAGAAT
1 TAAACAAAATTAATGAAAAGAGAAGAAAATTCTACCCATCTTTAATAAAGTTGGTAGTTAAGAAT
* * *
14173099 TTATGTTTATTATAATACTTGTATATTATACAAAATTGTCAA
66 TGATATTTATCATAATACTTGTATATTATACAAAATTGTCAA
14173141 ATACCAAATA
Statistics
Matches: 100, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
107 50 0.50
108 29 0.29
109 21 0.21
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (109 bp):
TAAACAAAATTAATGAAAAGAGAAGAAAATTCTACCCATCTTTAATAAAGTTGGTAGTTAAGAAT
TGATATTTATCATAATACTTGTATATTATACAAAATTGTCAACC
Found at i:14174974 original size:23 final size:22
Alignment explanation
Indices: 14174948--14175004 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
14174938 GATTTAAATT
14174948 TTAAAATTTTAAAAATAAAAAGA
1 TTAAAATTTTAAAAATAAAAA-A
14174971 TT-AAATTCTTAAAAATAAAAAA
1 TTAAAATT-TTAAAAATAAAAAA
*
14174993 -TAAAATATTAAA
1 TTAAAATTTTAAA
14175005 TTGTAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 6 0.19
22 10 0.32
23 15 0.48
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (22 bp):
TTAAAATTTTAAAAATAAAAAA
Found at i:14175002 original size:29 final size:29
Alignment explanation
Indices: 14174941--14175015 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 29
14174931 AGAATTAGAT
* *
14174941 TTAAATTTTAAAATTTTAAAAATAAAAAGA
1 TTAAATTTTAAAA-ATAAAAAATAAAAAGA
*
14174971 TTAAATTCTTAAAAATAAAAAAT-AAAATA
1 TTAAATT-TTAAAAATAAAAAATAAAAAGA
*
14175000 TTAAATTGTAAAAATA
1 TTAAATTTTAAAAATA
14175016 GGAAGCATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
28 8 0.20
29 12 0.30
30 14 0.35
31 6 0.15
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (29 bp):
TTAAATTTTAAAAATAAAAAATAAAAAGA
Found at i:14178588 original size:8 final size:8
Alignment explanation
Indices: 14178577--14178608 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
14178567 TATATTGTTA
14178577 TATTATAT
1 TATTATAT
*
14178585 TATTATAA
1 TATTATAT
14178593 TATTATAT
1 TATTATAT
14178601 TATTATAT
1 TATTATAT
14178609 ATTTATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTATAT
Found at i:14178595 original size:16 final size:15
Alignment explanation
Indices: 14178575--14178611 Score: 65
Period size: 16 Copynumber: 2.4 Consensus size: 15
14178565 AGTATATTGT
14178575 TATATTATATTATTA
1 TATATTATATTATTA
14178590 TAATATTATATTATTA
1 T-ATATTATATTATTA
14178606 TATATT
1 TATATT
14178612 TATAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TATATTATATTATTA
Found at i:14178614 original size:8 final size:9
Alignment explanation
Indices: 14178575--14178615 Score: 54
Period size: 8 Copynumber: 5.0 Consensus size: 9
14178565 AGTATATTGT
14178575 TATATTATA
1 TATATTATA
14178584 T-TATTATA
1 TATATTATA
14178592 -ATATTATA
1 TATATTATA
14178600 T-TATTATA
1 TATATTATA
14178608 TAT-TTATA
1 TATATTATA
14178616 AAATAAAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
8 27 0.93
9 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TATATTATA
Found at i:14178644 original size:16 final size:16
Alignment explanation
Indices: 14178623--14178680 Score: 61
Period size: 15 Copynumber: 3.8 Consensus size: 16
14178613 ATAAAATAAA
14178623 AGAAAGAATAGAAAT-G
1 AGAAAGAA-AGAAATAG
14178639 AGAAAGAAAGAAATAG
1 AGAAAGAAAGAAATAG
* *
14178655 AG-AAG-GAGAAA-GG
1 AGAAAGAAAGAAATAG
14178668 AGAAAGAAAGAAA
1 AGAAAGAAAGAAA
14178681 AAAAAAAGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
13 3 0.08
14 8 0.22
15 14 0.39
16 11 0.31
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.05
Consensus pattern (16 bp):
AGAAAGAAAGAAATAG
Found at i:14178646 original size:20 final size:22
Alignment explanation
Indices: 14178621--14178666 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
14178611 TTATAAAATA
*
14178621 AAAGAAAG-AATAGA-AATGAG
1 AAAGAAAGAAATAGAGAAGGAG
14178641 AAAGAAAGAAATAGAGAAGGAG
1 AAAGAAAGAAATAGAGAAGGAG
14178663 AAAG
1 AAAG
14178667 GAGAAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.35
21 6 0.26
22 9 0.39
ACGTcount: A:0.65, C:0.00, G:0.28, T:0.07
Consensus pattern (22 bp):
AAAGAAAGAAATAGAGAAGGAG
Found at i:14178689 original size:29 final size:29
Alignment explanation
Indices: 14178632--14178693 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
14178622 AAGAAAGAAT
* * * *
14178632 AGAAATGAGAAAGAAAGAAATAGAGAAGG
1 AGAAAGGAGAAAGAAAGAAAAAAAAAAGG
14178661 AGAAAGGAGAAAGAAAGAAAAAAAAAAGG
1 AGAAAGGAGAAAGAAAGAAAAAAAAAAGG
14178690 AGAA
1 AGAA
14178694 TTGGGGTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (29 bp):
AGAAAGGAGAAAGAAAGAAAAAAAAAAGG
Found at i:14185066 original size:29 final size:29
Alignment explanation
Indices: 14185033--14185090 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
14185023 TTTCTAGCTT
14185033 ATTTTATACTTAG-GTTATTTTCATTTGTA
1 ATTTTATACTT-GCGTTATTTTCATTTGTA
* *
14185062 ATTTTATTCTTGCTTTTATTTTCATTTGT
1 ATTTTATACTTGC-GTTATTTTCATTTGT
14185091 CATGGAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 10 0.40
30 14 0.56
ACGTcount: A:0.19, C:0.09, G:0.09, T:0.64
Consensus pattern (29 bp):
ATTTTATACTTGCGTTATTTTCATTTGTA
Found at i:14209675 original size:102 final size:102
Alignment explanation
Indices: 14209548--14209778 Score: 408
Period size: 102 Copynumber: 2.3 Consensus size: 102
14209538 ATTGAATATA
* *
14209548 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
14209613 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
*
14209650 AAGGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
14209715 GGTTGCTAAGTGCTGATCCCACCGTATCTTCAATGTG
66 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
*
14209752 AAAGGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
14209779 GACTCATTGG
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 123 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTG
Found at i:14216937 original size:42 final size:40
Alignment explanation
Indices: 14216878--14217013 Score: 151
Period size: 42 Copynumber: 3.5 Consensus size: 40
14216868 ATTCATTGGT
14216878 GGTTGCTAAGTGCTGATTCCACCGTACCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTA-CTTAAATGTG-AAGG
* *
14216920 GGTTGCTAAGTGCTGATTCC-CCG-AC-T-CAT-TG--GT
1 GGTTGCTAAGTGCTGATTCCACCGTACTTAAATGTGAAGG
* *
14216953 GGTTGCTCAGTGCTGATTCCACTGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTA-CTTAAATGTGAA-GG
14216995 GGTTGCTAAGTGCTGATTC
1 GGTTGCTAAGTGCTGATTC
14217014 TCCCGAGGGG
Statistics
Matches: 78, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
33 20 0.26
34 2 0.03
35 1 0.01
36 3 0.04
37 3 0.04
38 3 0.04
39 3 0.04
40 1 0.01
41 3 0.04
42 39 0.50
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (40 bp):
GGTTGCTAAGTGCTGATTCCACCGTACTTAAATGTGAAGG
Found at i:14216965 original size:75 final size:75
Alignment explanation
Indices: 14216841--14217019 Score: 304
Period size: 75 Copynumber: 2.4 Consensus size: 75
14216831 TGATTCTCCC
*
14216841 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTACC
14216906 TTAAATGTGA
66 TTAAATGTGA
* * *
14216916 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTCAGTGCTGATTCCACTGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTACC
14216981 TTAAATGTGA
66 TTAAATGTGA
*
14216991 AGGGGGTTGCTAAGTGCTGATTCTCCCGA
1 AAGGGGTTGCTAAGTGCTGATTC-CCCGA
14217020 GGGGTTGCTA
Statistics
Matches: 98, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
75 93 0.95
76 5 0.05
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTACC
TTAAATGTGA
Found at i:14217023 original size:102 final size:101
Alignment explanation
Indices: 14216917--14217120 Score: 300
Period size: 102 Copynumber: 2.0 Consensus size: 101
14216907 TAAATGTGAA
* * * * *
14216917 AGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTCAGTGCTGATTCCACTGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGATTGCTAAGTGCTGATCCCACCGTATCT
* *
14216982 TAAATGTGAAGGGGGTTGCTAAGTGCTGATTCTCCCG
66 TAAATGTGAAAGGGGTCGCTAAGTGCTGATTC-CCCG
* * *
14217019 AGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTTATTGCTAAGTGTTGATCCCGCCGTATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGATTGCTAAGTGCTGATCCCACCGTATCT
*
14217084 TAAATGTGAAAGGGGTCGCTAAGTGTTGATTCCCCG
66 TAAATGTGAAAGGGGTCGCTAAGTGCTGATTCCCCG
14217120 A
1 A
14217121 CTCATTGGTG
Statistics
Matches: 91, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
101 5 0.05
102 86 0.95
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (101 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGATTGCTAAGTGCTGATCCCACCGTATCT
TAAATGTGAAAGGGGTCGCTAAGTGCTGATTCCCCG
Found at i:14217030 original size:27 final size:26
Alignment explanation
Indices: 14216993--14217045 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 26
14216983 AAATGTGAAG
14216993 GGGGTTGCTAAGTGCTGATTCTCCCGA
1 GGGGTTGCTAAGTGCTGATTC-CCCGA
14217020 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
14217046 ATCATTGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.15, C:0.23, G:0.34, T:0.28
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:14217116 original size:177 final size:177
Alignment explanation
Indices: 14216813--14217151 Score: 570
Period size: 177 Copynumber: 1.9 Consensus size: 177
14216803 ATTGAATATA
*
14216813 AAGGGGGTTGCTAAGTGCTGATTCTCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCTCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
14216878 GGTTGCTAAGTGCTGATTCCACCGTACCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
66 GATTGCTAAGTGCTGATCCCACCGTACCTTAAATGTGAAAGGGGTCGCTAAGTGCTGATTCCCCG
* *
14216943 ACTCATTGGTGGTTGCTCAGTGCTGATTCCACTGTATCTTAAATGTG
131 ACTCATTGGTGGTTGCTAAGTGCTGAATCCACTGTATCTTAAATGTG
*
14216990 AAGGGGGTTGCTAAGTGCTGATTCTCCCGAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCTCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * * * *
14217055 TATTGCTAAGTGTTGATCCCGCCGTATCTTAAATGTGAAAGGGGTCGCTAAGTGTTGATTCCCCG
66 GATTGCTAAGTGCTGATCCCACCGTACCTTAAATGTGAAAGGGGTCGCTAAGTGCTGATTCCCCG
14217120 ACTCATTGGTGGTTGCTAAGTGCTGAATCCAC
131 ACTCATTGGTGGTTGCTAAGTGCTGAATCCAC
14217152 CAATAACGGA
Statistics
Matches: 150, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
177 150 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (177 bp):
AAGGGGGTTGCTAAGTGCTGATTCTCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
GATTGCTAAGTGCTGATCCCACCGTACCTTAAATGTGAAAGGGGTCGCTAAGTGCTGATTCCCCG
ACTCATTGGTGGTTGCTAAGTGCTGAATCCACTGTATCTTAAATGTG
Found at i:14224642 original size:524 final size:523
Alignment explanation
Indices: 14223654--14224669 Score: 2005
Period size: 524 Copynumber: 1.9 Consensus size: 523
14223644 TCCTTAAAAA
14223654 TTCATTTACCAAGCACTTAACTAATAACAATCATTACTGATTAACTTTTGTAGCTTTTAAGATTT
1 TTCATTTACCAAGCACTTAACTAATAACAATCATTACTGATTAACTTTTGTAGCTTTTAAGATTT
14223719 AGTCCTTTTTTCCTTAATTAACTAGCCAAACACCAAAATTATCGGACCAAACTCTAATATGACAC
66 AGTCCTTTTTTCCTTAATTAACTAGCCAAACACCAAAATTATCGGACCAAACTCTAATATGACAC
14223784 TATAATAGAGTCGTAAATATTAAATAAATAATATGTACTGACTCACTGGTCAGAATTGTGGTTCT
131 TATAATAGAGTCGTAAATATTAAATAAATAATATGTACTGACTCACTGGTCAGAATTGTGGTTCT
14223849 GAAACCATCGTTTTTGACAACACTGAAAAAAAGGTTGTTACACTAGCTTTCAGTTCCTTATCTAT
196 GAAACCATCGTTTTTGACAACACTGAAAAAAAGGTTGTTACACTAGCTTTCAGTTCCTTATCTAT
14223914 TTGAACTTAAGTTTTCATTTATACCAAAGTATATGAGACACGCATACGTAGTCCATCATCCATTC
261 TTGAACTTAAGTTTTCATTTATACCAAAGTATATGAGACACGCATACGTAGTCCATCATCCATTC
14223979 AAGATTAAGGTATGTTACACTATAAACATCACAAGTGAATTGTTAGGATTTGGTAACCCCCAGCC
326 AAGATTAAGGTATGTTACACTATAAACATCACAAGTGAATTGTTAGGATTTGGTAACCCCCAGCC
14224044 CAAATGACCCAATAGGGTCCAGATCTCTGACCAGGATAGACCCGACCCGAAAGAAGAATGTTCGA
391 CAAATGACCCAATAGGGTCCAGATCTCTGACCAGGATAGACCCGACCCGAAAGAAGAATGTTCGA
14224109 TGTAAAGATAGTTCGTTGGGGACCCCACTAGAATGCCAATGGTGGAACTTTCTAATTCACATTCC
456 TGTAAAGATAGTTCGTTGGGGACCCCACTAGAATGCCAATGGTGGAACTTTCTAATTCACATTCC
14224174 TCC
521 TCC
14224177 NTTCATTTACCAAGCACTTAACTAATAACAATCATTACTGATTAACTTTTGTAGCTTTTAAGATT
1 -TTCATTTACCAAGCACTTAACTAATAACAATCATTACTGATTAACTTTTGTAGCTTTTAAGATT
14224242 TAGTCCTTTTTTCCTTAATTAACTAGCCAAACACCAAAATTATCGGACCAAACTCTAATATGACA
65 TAGTCCTTTTTTCCTTAATTAACTAGCCAAACACCAAAATTATCGGACCAAACTCTAATATGACA
14224307 CTATAATAGAGTCGTAAATATTAAATAAATAATATGTACTGACTCACTGGTCAGAATTGTGGTTC
130 CTATAATAGAGTCGTAAATATTAAATAAATAATATGTACTGACTCACTGGTCAGAATTGTGGTTC
14224372 TGAAACCATCGTTTTTGACAACACTGAAAAAAAGGTTGTTACACTAGCTTTCAGTTCCTTATCTA
195 TGAAACCATCGTTTTTGACAACACTGAAAAAAAGGTTGTTACACTAGCTTTCAGTTCCTTATCTA
14224437 TTTGAACTTAAGTTTTCATTTATACCAAAGTATATGAGACACGCATACGTAGTCCATCATCCATT
260 TTTGAACTTAAGTTTTCATTTATACCAAAGTATATGAGACACGCATACGTAGTCCATCATCCATT
14224502 CAAGATTAAGGTATGTTACACTATAAACATCACAAGTGAATTGTTAGGATTTGGTAACCCCCAGC
325 CAAGATTAAGGTATGTTACACTATAAACATCACAAGTGAATTGTTAGGATTTGGTAACCCCCAGC
14224567 CCAAATGACCCAATAGGGTCCAGATCTCTGACCAGGATAGACCCGACCCGAAAGAAGAATGTTCG
390 CCAAATGACCCAATAGGGTCCAGATCTCTGACCAGGATAGACCCGACCCGAAAGAAGAATGTTCG
* *
14224632 ATGTAAAGATAGTTCGTTGGGGATCCCACTAGTATGCC
455 ATGTAAAGATAGTTCGTTGGGGACCCCACTAGAATGCC
14224670 GTGTGCTCAT
Statistics
Matches: 490, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
524 490 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (523 bp):
TTCATTTACCAAGCACTTAACTAATAACAATCATTACTGATTAACTTTTGTAGCTTTTAAGATTT
AGTCCTTTTTTCCTTAATTAACTAGCCAAACACCAAAATTATCGGACCAAACTCTAATATGACAC
TATAATAGAGTCGTAAATATTAAATAAATAATATGTACTGACTCACTGGTCAGAATTGTGGTTCT
GAAACCATCGTTTTTGACAACACTGAAAAAAAGGTTGTTACACTAGCTTTCAGTTCCTTATCTAT
TTGAACTTAAGTTTTCATTTATACCAAAGTATATGAGACACGCATACGTAGTCCATCATCCATTC
AAGATTAAGGTATGTTACACTATAAACATCACAAGTGAATTGTTAGGATTTGGTAACCCCCAGCC
CAAATGACCCAATAGGGTCCAGATCTCTGACCAGGATAGACCCGACCCGAAAGAAGAATGTTCGA
TGTAAAGATAGTTCGTTGGGGACCCCACTAGAATGCCAATGGTGGAACTTTCTAATTCACATTCC
TCC
Found at i:14231087 original size:69 final size:69
Alignment explanation
Indices: 14230964--14231937 Score: 851
Period size: 69 Copynumber: 14.2 Consensus size: 69
14230954 ATCGTCGGTG
*** * * * *
14230964 AAAACAAGGTTTGTAGGTGAAGAGCCGCAACCTCTAAAACAGTTAACGAGAGCAAAGTTCCTAGT
1 AAAACAAGGTTCACAGGTGAAGAGCCGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
14231029 TGTA
66 TGTA
** * * * **
14231033 AAAACAAGGTTCACAGGTGAAGAGTGGCAACCTCTAAAATAGATAGCGACAGCAAAGCTCTGAGC
1 AAAACAAGGTTCACAGGTGAAGAGCCGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
14231098 TGTA
66 TGTA
** * * * ** * * *
14231102 AAAACAAGGTTCGTAGGTGAAGAGTCGCAGCCTCTAAAACAGTTAGCAAGAATAAAGCTTCTAAC
1 AAAACAAGGTTCACAGGTGAAGAGCCGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
14231167 TGTA
66 TGTA
* * * * * * * *
14231171 AAAATAAGGTTCACTGGCGAAGAGCCACAACCTCTAAAATAGTTAGCAAGAGAAAAGCTCCCAGT
1 AAAACAAGGTTCACAGGTGAAGAGCCGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
14231236 TGTA
66 TGTA
* * * * * * * * *
14231240 AAAACAAGATTCATAGGTGAACAGCCGCAGCCTTTAAAACAGTTAGCGAGAGAAAATCTCTCAGT
1 AAAACAAGGTTCACAGGTGAAGAGCCGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
14231305 TGTA
66 TGTA
* * * * * * * * *
14231309 AAAACAAGGTCCGCAGGCGAATG-GCTGCAGCCTCTAAAATAGTTAGTGAGAGAAAAGCTCCCAA
1 AAAACAAGGTTCACAGGTGAA-GAGCCGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAG
14231373 CTGTA
65 CTGTA
** * * * * *
14231378 AAAACAAGGTTCGTAAGTAAAGAGCCGTAACCTCTAAAACAATTAGCGAGAGCAAAGATCCCAGC
1 AAAACAAGGTTCACAGGTGAAGAGCCGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
14231443 TGTA
66 TGTA
** * * * * *
14231447 AAATTAAGGTTTACAGGTGAAGAGCCACAGA-CTCTAAAACAGTTAGCAAAAGCAAAGCTCCTAG
1 AAAACAAGGTTCACAGGTGAAGAGCCGCA-ACCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAG
*
14231511 CTATA
65 CTGTA
* * * * * *
14231516 AAAAAAAGGTTCACAGGTAAAGAGCAGTAACCTTTAAAACAGTTAGCGAGAGCAAAGCTCCCAGT
1 AAAACAAGGTTCACAGGTGAAGAGCCGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
*
14231581 TTTA
66 TGTA
** * * * * * *
14231585 AAAA-AATATTCACAAGCGAAGAGCCACAACCTCTAAAACAGTTAGCGAGAGCAAATCTCCTAAC
1 AAAACAAGGTTCACAGGTGAAGAGCCGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
*
14231649 TAT-
66 TGTA
* * ** * * ** *
14231652 AAAACAAGATTCACAAGCAAAGAGTCGCAACCTCTAAAACAGTTAGCCAGAATAAAGCTCCCAGT
1 AAAACAAGGTTCACAGGTGAAGAGCCGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
14231717 TGTA
66 TGTA
* * * * * *
14231721 AAAACAAGGTTCGCAAGTGAAAAGCCGTAACCTTTAAAACAGTTAACGAGAGCAAAGCTCCCAGC
1 AAAACAAGGTTCACAGGTGAAGAGCCGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
14231786 TGTA
66 TGTA
* * * ** * *
14231790 AAAACAAAGTTCACAAGTGAATAGTTGCAACCTCTAAAACAGTTAGCGAGAGGAAAGCTCCCAAC
1 AAAACAAGGTTCACAGGTGAAGAGCCGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
*
14231855 TAT-
66 TGTA
** * * * * * * *
14231858 AAAACAAGGTTCGTAAGTGAATAGCCGCAACATCTAAAATAGTTAACGAGAGTAAAACTCCCAGC
1 AAAACAAGGTTCACAGGTGAAGAGCCGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
*
14231923 TATA
66 TGTA
* *
14231927 GAAATAAGGTT
1 AAAACAAGGTT
14231938 TGCAAGCAAA
Statistics
Matches: 724, Mismatches: 174, Indels: 14
0.79 0.19 0.02
Matches are distributed among these distances:
67 4 0.01
68 159 0.22
69 560 0.77
70 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (69 bp):
AAAACAAGGTTCACAGGTGAAGAGCCGCAACCTCTAAAACAGTTAGCGAGAGCAAAGCTCCCAGC
TGTA
Found at i:14231977 original size:48 final size:48
Alignment explanation
Indices: 14231916--14232012 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
14231906 AGAGTAAAAC
14231916 TCCCAGCTATAGAAATAAGGTTTGCAAGCAAAGAATTTTAAAACCTCT
1 TCCCAGCTATAGAAATAAGGTTTGCAAGCAAAGAATTTTAAAACCTCT
14231964 TCCCAGCTATAGAAATAAGGTTTGCAAGCAAAGAATTTTAAAACCTCT
1 TCCCAGCTATAGAAATAAGGTTTGCAAGCAAAGAATTTTAAAACCTCT
14232012 T
1 T
14232013 AAGTATGAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (48 bp):
TCCCAGCTATAGAAATAAGGTTTGCAAGCAAAGAATTTTAAAACCTCT
Found at i:14234958 original size:57 final size:57
Alignment explanation
Indices: 14234894--14235003 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 57
14234884 TAGTTCGTTG
* *
14234894 GGGACCCCGCTAGGATGCTGGATGTTCACAAAGATAGCTCGCTG-GGAGAGCTCACGA
1 GGGACCCCGCTAGGATGCCGGATGCTCACAAAGATAGCTCG-TGAGGAGAGCTCACGA
* * *
14234951 GGGACCCCGCTAGGGTGCCGGGTGCTCGCAAAGATAGCTCGTGAGGAGAGCTC
1 GGGACCCCGCTAGGATGCCGGATGCTCACAAAGATAGCTCGTGAGGAGAGCTC
14235004 GCATAAACCT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 2 0.04
57 45 0.96
ACGTcount: A:0.22, C:0.25, G:0.36, T:0.16
Consensus pattern (57 bp):
GGGACCCCGCTAGGATGCCGGATGCTCACAAAGATAGCTCGTGAGGAGAGCTCACGA
Found at i:14238073 original size:22 final size:21
Alignment explanation
Indices: 14238013--14238078 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
14238003 AATCAAAAAT
*
14238013 ATTTTTAAAAA-ATT-AT-AA
1 ATTTATAAAAACATTAATAAA
* *
14238031 ATATATAAAAACATTATTAAA
1 ATTTATAAAAACATTAATAAA
*
14238052 ATTTATAAAAATATTAAATAAA
1 ATTTATAAAAACATT-AATAAA
14238074 ATTTA
1 ATTTA
14238079 AAATTTTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
18 9 0.24
19 3 0.08
20 1 0.03
21 15 0.39
22 10 0.26
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTTATAAAAACATTAATAAA
Found at i:14238107 original size:16 final size:18
Alignment explanation
Indices: 14238068--14238107 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
14238058 AAAAATATTA
*
14238068 AATAAAATTTAAAATTTT
1 AATAAAATTTAAAATGTT
14238086 AA-AAAA-TTAAAA-GTT
1 AATAAAATTTAAAATGTT
14238101 AATAAAA
1 AATAAAA
14238108 AACCATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 4 0.20
16 10 0.50
17 4 0.20
18 2 0.10
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
AATAAAATTTAAAATGTT
Found at i:14244593 original size:42 final size:42
Alignment explanation
Indices: 14244546--14244633 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
14244536 TTGATTATGC
14244546 TTCTCGAATTAAAAATGTTTTGATGAACAAAATTATCAACAT
1 TTCTCGAATTAAAAATGTTTTGATGAACAAAATTATCAACAT
14244588 TTCTCGAATTAAAAATGTTTTGATGAACAAAATTATCAACAT
1 TTCTCGAATTAAAAATGTTTTGATGAACAAAATTATCAACAT
14244630 TTCT
1 TTCT
14244634 GTTTGCAACG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (42 bp):
TTCTCGAATTAAAAATGTTTTGATGAACAAAATTATCAACAT
Found at i:14251173 original size:28 final size:28
Alignment explanation
Indices: 14251133--14251191 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
14251123 GTAGATGGAA
*
14251133 CCTGGCTTTATGGAAAATATACACAGAT
1 CCTGGCTTTATGGAAAATACACACAGAT
14251161 CCTGGCTTTATGGAAAATACACACAGAT
1 CCTGGCTTTATGGAAAATACACACAGAT
14251189 CCT
1 CCT
14251192 ACTTCTTGCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (28 bp):
CCTGGCTTTATGGAAAATACACACAGAT
Found at i:14252281 original size:53 final size:53
Alignment explanation
Indices: 14252201--14252335 Score: 198
Period size: 53 Copynumber: 2.5 Consensus size: 53
14252191 GCTAAAACTG
* *
14252201 CATGGCTAAAACTGTGGACCCCCAACTGTCGTCCAACAAAGTTCGCGATACAA
1 CATGGCTAAAACTGCGGACCCCCAACTGTCGTCCAACAAAGTTCGCAATACAA
* * * *
14252254 CATGGCTAAAACTGCAGACCCCCAACTGTCGTTCGACAAAGTTCGCAATACAG
1 CATGGCTAAAACTGCGGACCCCCAACTGTCGTCCAACAAAGTTCGCAATACAA
* *
14252307 TATGGCTAAAACTGCGGAACCCCAACTGT
1 CATGGCTAAAACTGCGGACCCCCAACTGT
14252336 ATGAACGGGT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 73 1.00
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (53 bp):
CATGGCTAAAACTGCGGACCCCCAACTGTCGTCCAACAAAGTTCGCAATACAA
Found at i:14253366 original size:16 final size:16
Alignment explanation
Indices: 14253347--14253385 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
14253337 AAAATCAAAT
*
14253347 AAAATTATATTATATA
1 AAAATTACATTATATA
14253363 AAAATTACATTATATA
1 AAAATTACATTATATA
14253379 AAAATTA
1 AAAATTA
14253386 AATGAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATTACATTATATA
Found at i:14254764 original size:16 final size:16
Alignment explanation
Indices: 14254745--14254783 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
14254735 AAAATCAAAT
*
14254745 AAAATTATATTATATA
1 AAAATTACATTATATA
14254761 AAAATTACATTATATA
1 AAAATTACATTATATA
14254777 AAAATTA
1 AAAATTA
14254784 AATGAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATTACATTATATA
Found at i:14256770 original size:16 final size:15
Alignment explanation
Indices: 14256745--14256774 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
14256735 ATCCAAAAAA
14256745 AATAAAAAATAAGTG
1 AATAAAAAATAAGTG
14256760 AATAAATAAATAAGT
1 AATAAA-AAATAAGT
14256775 CGGGGAAAAA
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:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (15 bp):
AATAAAAAATAAGTG
Found at i:14257604 original size:44 final size:44
Alignment explanation
Indices: 14257419--14257607 Score: 123
Period size: 44 Copynumber: 4.3 Consensus size: 44
14257409 CCATGATCTG
* * *
14257419 CTCCACTACTGCTTAGGGAGACAGTATCTACATTATTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAGGATCTACAGTCTTCAACCTA
* * * * * * *
14257463 CTCCACTGCTGCTCAGGGAGATAGGA-C--CGGTGGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGACAGGATCTACAGT--CTTCAACCTA
* * * * * * * * * * *
14257506 CTTCACTACTATCTTAGGAAGATAAGATTTGCCGTCCTCGACCTG
1 CTCCACTACT-GCTTAGGGAGACAGGATCTACAGTCTTCAACCTA
* *
14257551 CTCCGCTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAGGATCTACAGTCTTCAACCTA
14257595 CTCCACTACTGCT
1 CTCCACTACTGCT
14257608 CAGAGAAATA
Statistics
Matches: 103, Mismatches: 36, Indels: 12
0.68 0.24 0.08
Matches are distributed among these distances:
41 2 0.02
43 15 0.15
44 69 0.67
45 14 0.14
47 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGACAGGATCTACAGTCTTCAACCTA
Found at i:14258097 original size:132 final size:129
Alignment explanation
Indices: 14257410--14258352 Score: 1124
Period size: 132 Copynumber: 7.4 Consensus size: 129
14257400 AGATAAGATC
* * *
14257410 CATGATCTGCTCCACTACTGCTTAGGGAGACAGTATCTACATTATTCAACCTACTCCACTGCTGC
1 CATGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGC
* * * * * * *
14257475 TCAGGGAGATAGGACCGGTGGCTTAAATCTGCTTCACTACTATCTTAGGAAGATAAGATTTGCCG
66 TCAGAGAGATAGGA-CGATGGCTTAAATTTGCTTCTCCACTATCTTGGGAAGATAAGA-TTGTCG
14257540 T
129 T
* * * *
14257541 CCTCGACCTGCTCCGCTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTG
1 CAT-GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTG
* * *
14257606 CTCAGAGAAATAGGA-GA-GGCTTAAATTTGCTT-TCCTACTACCTTGAGAAGATAAGA---TC-
65 CTCAGAGAGATAGGACGATGGCTTAAATTTGCTTCTCC-ACTATCTTGGGAAGATAAGATTGTCG
14257664 -
129 T
*
14257664 CATGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTGC
1 CATGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGC
* * *
14257729 TCAGAGAAATAGGA-GA-GGCTTAAATTTGCTT-TCCTACTACCTTGAGAAGATAAGA---TC--
66 TCAGAGAGATAGGACGATGGCTTAAATTTGCTTCTCC-ACTATCTTGGGAAGATAAGATTGTCGT
*
14257786 CATGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTGC
1 CATGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGC
* * *
14257851 TCAGAGAAATAGGA-GA-GGCTTAAATTTGCTT-TCCTACTACCTTGAGAAGATAAGA---TC--
66 TCAGAGAGATAGGACGATGGCTTAAATTTGCTTCTCC-ACTATCTTGGGAAGATAAGATTGTCGT
* *
14257908 CATGATCTGCTCCACTACTGCTTAGGGAGACAGTATCTACATTCTTCAACCTACTCCACTGCTGC
1 CATGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGC
* *
14257973 TCAGGGAGATAGGACCAATGGCTTAAATTTGCTTCTCCACTATCTTGGGAAGATAAGATTCGTCG
66 TCAGAGAGATAGGA-CGATGGCTTAAATTTGCTTCTCCACTATCTTGGGAAGATAAGATT-GTCG
14258038 T
129 T
* ** *
14258039 CTTCGATCTGCTCCGTTACTGCTTAGGGAGACAGGATCTGCAATCTTCAACCTACTCCACTGCTG
1 CAT-GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTG
* * *
14258104 CTCAGAGAGATAGGACCAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCGCC
65 CTCAGAGAGATAGGA-CGATGGCTTAAATTTGCTTCTCCACTATCTTGGGAAGATAAGATT-GTC
14258169 GT
128 GT
* * * * *
14258171 CTTTGATCTGCTCCGCTACTACTTAGGGAGACAAGATCTGCAATCTTCAACCTACTCCACTGCTG
1 C-ATGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTG
* * * * * * * *
14258236 CTCAGGGAGATAAGACTAATGACTTAAATCTGCTTCTTCACTATTTTGGGAAGGTAAGATTCGTC
65 CTCAGAGAGATAGGAC-GATGGCTTAAATTTGCTTCTCCACTATCTTGGGAAGATAAGATT-GTC
14258301 GT
128 GT
* *
14258303 CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAGGATCTACAATCTTCAA
1 CAT-GATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAA
14258353 TGGTCTATTC
Statistics
Matches: 746, Mismatches: 50, Indels: 31
0.90 0.06 0.04
Matches are distributed among these distances:
122 313 0.42
123 2 0.00
124 1 0.00
125 34 0.05
126 3 0.00
128 1 0.00
129 33 0.04
130 1 0.00
131 7 0.01
132 349 0.47
133 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (129 bp):
CATGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGC
TCAGAGAGATAGGACGATGGCTTAAATTTGCTTCTCCACTATCTTGGGAAGATAAGATTGTCGT
Found at i:14262305 original size:18 final size:18
Alignment explanation
Indices: 14262284--14262352 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
14262274 AGTAATGAAG
14262284 GAAGGGAGAAGAATGGAT
1 GAAGGGAGAAGAATGGAT
*** *
14262302 GAAGGGAGCTTACTGGAT
1 GAAGGGAGAAGAATGGAT
*** *
14262320 GAAGGGAGCTTACTGGAT
1 GAAGGGAGAAGAATGGAT
14262338 GAAGGGAGAAGAATG
1 GAAGGGAGAAGAATG
14262353 CCTGAGAGCT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.36, C:0.06, G:0.42, T:0.16
Consensus pattern (18 bp):
GAAGGGAGAAGAATGGAT
Found at i:14262731 original size:24 final size:24
Alignment explanation
Indices: 14262666--14262731 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
14262656 ATATATATTT
* *
14262666 AAATA-TTTTTAATAAAAATAAAA
1 AAATATTTTTTAATATAAACAAAA
* * *
14262689 AATTAATATTTT-ATTTAAACAAAA
1 AAAT-ATTTTTTAATATAAACAAAA
14262713 AAATATTTTTTAATATAAA
1 AAATATTTTTTAATATAAA
14262732 AATTGATTCG
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
23 9 0.28
24 19 0.59
25 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
AAATATTTTTTAATATAAACAAAA
Found at i:14262776 original size:56 final size:56
Alignment explanation
Indices: 14262709--14262878 Score: 235
Period size: 56 Copynumber: 3.1 Consensus size: 56
14262699 TTATTTAAAC
14262709 AAAAA-AATATTTTTTAATATAAAAATTGATTCGCTCCTGTCAGATAGGCGCGATT
1 AAAAATAATATTTTTTAATATAAAAATTGATTCGCTCCTGTCAGATAGGCGCGATT
*
14262764 AAAAATAATATTTTTTAATATAAAAATTGATTCGCAT-TTGTCAGATAGGCGCGATT
1 AAAAATAATATTTTTTAATATAAAAATTGATTCGC-TCCTGTCAGATAGGCGCGATT
* * *
14262820 -AAAAT--T-TTTTTTAATATAAAAATTTGATTGGCGCCTGTCAGATAGGCACGATT
1 AAAAATAATATTTTTTAATATAAAAA-TTGATTCGCTCCTGTCAGATAGGCGCGATT
14262873 ACAAAA
1 A-AAAA
14262879 AACATACAAT
Statistics
Matches: 104, Mismatches: 5, Indels: 12
0.86 0.04 0.10
Matches are distributed among these distances:
52 16 0.15
53 26 0.25
55 14 0.13
56 47 0.45
57 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (56 bp):
AAAAATAATATTTTTTAATATAAAAATTGATTCGCTCCTGTCAGATAGGCGCGATT
Found at i:14263060 original size:40 final size:40
Alignment explanation
Indices: 14262971--14263050 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
14262961 AAGTCGATAT
*
14262971 AAAAAAATTAAATGAGTTAACAGCAACTATGTTGATATAA
1 AAAAAAATTAAATGAGTTAACAGCAACTATGATGATATAA
14263011 AAAAAAATTAAATGAGTTAACAGCAACTAT-ATGAT-TAA
1 AAAAAAATTAAATGAGTTAACAGCAACTATGATGATATAA
14263049 AA
1 AA
14263051 GAGTCAATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 5 0.13
39 4 0.10
40 30 0.77
ACGTcount: A:0.55, C:0.07, G:0.11, T:0.26
Consensus pattern (40 bp):
AAAAAAATTAAATGAGTTAACAGCAACTATGATGATATAA
Found at i:14263497 original size:21 final size:20
Alignment explanation
Indices: 14263469--14263511 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
14263459 TTAAATTTCG
14263469 AATAAATATTGAAGTCTTAC
1 AATAAATATTGAAGTCTTAC
14263489 AATATAATATTGAAGTCTTAC
1 AATA-AATATTGAAGTCTTAC
14263510 AA
1 AA
14263512 ATTTAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (20 bp):
AATAAATATTGAAGTCTTAC
Found at i:14266450 original size:19 final size:20
Alignment explanation
Indices: 14266428--14266469 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
14266418 TTTAAAAATA
*
14266428 TTTTAGAATACTTTTTT-AT
1 TTTTAAAATACTTTTTTAAT
*
14266447 TTTTAAAATATTTTTTTAAT
1 TTTTAAAATACTTTTTTAAT
14266467 TTT
1 TTT
14266470 CTAATTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTAAAATACTTTTTTAAT
Found at i:14276540 original size:54 final size:54
Alignment explanation
Indices: 14276451--14276587 Score: 161
Period size: 54 Copynumber: 2.5 Consensus size: 54
14276441 CAAGACTTTC
*
14276451 CAAGCACGAT-GACTCACTTTTTACTGAATTCAAGCCTTTATAGGTCTAACCTCTT
1 CAAGCAC-ATAGA-TCACTTTTTAGTGAATTCAAGCCTTTATAGGTCTAACCTCTT
* * **
14276506 CAAGCACATAGATCACATTTTAGTGAAGTT-AAGCCTTTATAGGTTTTGCCTCTT
1 CAAGCACATAGATCACTTTTTAGTGAA-TTCAAGCCTTTATAGGTCTAACCTCTT
* *
14276560 CAAGCACACAAGCTCACTTTTTAGTGAA
1 CAAGCACA-TAGATCACTTTTTAGTGAA
14276588 ACCAAGCTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
54 44 0.62
55 27 0.38
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.34
Consensus pattern (54 bp):
CAAGCACATAGATCACTTTTTAGTGAATTCAAGCCTTTATAGGTCTAACCTCTT
Found at i:14277228 original size:3 final size:3
Alignment explanation
Indices: 14277220--14277256 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14277210 AAAGAAAGCA
14277220 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14277257 CAAAGGAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14291959 original size:26 final size:26
Alignment explanation
Indices: 14291910--14291962 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
14291900 TCAATTAATA
*
14291910 TTTATAATATAATTAATTTAATATAC
1 TTTATAATATAATTAATATAATATAC
*
14291936 TTTATAAT-TAATTTATAT-ATATA-
1 TTTATAATATAATTAATATAATATAC
14291959 TTTA
1 TTTA
14291963 AATTAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.16
24 5 0.20
25 8 0.32
26 8 0.32
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (26 bp):
TTTATAATATAATTAATATAATATAC
Found at i:14291966 original size:22 final size:21
Alignment explanation
Indices: 14291917--14291968 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
14291907 ATATTTATAA
*
14291917 TATAATTAATTTAATATACTT
1 TATAATTAATTTAATATAATT
14291938 TATAATTAATTTATATATATATT
1 TATAATTAATTTA-ATATA-ATT
14291961 TA-AATTAA
1 TATAATTAA
14291969 ATCATTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 13 0.46
22 11 0.39
23 4 0.14
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TATAATTAATTTAATATAATT
Found at i:14298416 original size:24 final size:24
Alignment explanation
Indices: 14298389--14298466 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
14298379 TCTTATTCCT
14298389 TCTTCTTCACCTAGTCTGCCTGTA
1 TCTTCTTCACCTAGTCTGCCTGTA
* *
14298413 TCTTCTTCACCGAGTATGCAC-GTA
1 TCTTCTTCACCTAGTCTGC-CTGTA
*
14298437 TCTTCTT---CT--TCTACCTGTA
1 TCTTCTTCACCTAGTCTGCCTGTA
14298456 TCTTCTTCACC
1 TCTTCTTCACC
14298467 GAGTATGTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
18 1 0.02
19 13 0.30
21 1 0.02
22 1 0.02
24 27 0.61
25 1 0.02
ACGTcount: A:0.14, C:0.33, G:0.10, T:0.42
Consensus pattern (24 bp):
TCTTCTTCACCTAGTCTGCCTGTA
Found at i:14298459 original size:43 final size:43
Alignment explanation
Indices: 14298407--14298491 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
14298397 ACCTAGTCTG
14298407 CCTGTATCTTCTTCACCGAGTATGCACGTATCTTCTTCTTCTA
1 CCTGTATCTTCTTCACCGAGTATGCACGTATCTTCTTCTTCTA
*
14298450 CCTGTATCTTCTTCACCGAGTATGTACGTATCTTCTTCTTCT
1 CCTGTATCTTCTTCACCGAGTATGCACGTATCTTCTTCTTCT
14298492 CATCCCATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.15, C:0.29, G:0.12, T:0.44
Consensus pattern (43 bp):
CCTGTATCTTCTTCACCGAGTATGCACGTATCTTCTTCTTCTA
Found at i:14298481 original size:24 final size:24
Alignment explanation
Indices: 14298410--14298487 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 24
14298400 TAGTCTGCCT
*
14298410 GTATCTTCTTCACCGAGTATGCAC
1 GTATCTTCTTCACCGAGTATGTAC
** **
14298434 GTATCTTCTTCTTC---TACCT--
1 GTATCTTCTTCACCGAGTATGTAC
14298453 GTATCTTCTTCACCGAGTATGTAC
1 GTATCTTCTTCACCGAGTATGTAC
14298477 GTATCTTCTTC
1 GTATCTTCTTC
14298488 TTCTCATCCC
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
19 12 0.30
21 2 0.05
22 3 0.08
24 23 0.57
ACGTcount: A:0.17, C:0.28, G:0.13, T:0.42
Consensus pattern (24 bp):
GTATCTTCTTCACCGAGTATGTAC
Found at i:14302578 original size:24 final size:23
Alignment explanation
Indices: 14302532--14302580 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
14302522 AATAACAAAG
**
14302532 ATATTTATACTAATAAATGCTAA
1 ATATTTATACTAATAAAAACTAA
14302555 ATATATTATACTAATAAAAACTAA
1 ATAT-TTATACTAATAAAAACTAA
14302579 AT
1 AT
14302581 CTTCTTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (23 bp):
ATATTTATACTAATAAAAACTAA
Found at i:14308742 original size:24 final size:23
Alignment explanation
Indices: 14308694--14308746 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
14308684 TTATTTTTTC
*
14308694 TTTATTTATTTATTATTTGTTGT
1 TTTATTTATTTATTATTTGTAGT
*
14308717 TTTATTTCTCTTATTATTCT-TAGT
1 TTTATTTAT-TTATTATT-TGTAGT
14308741 TTTATT
1 TTTATT
14308747 ATCATTAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 8 0.31
24 17 0.65
25 1 0.04
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.72
Consensus pattern (23 bp):
TTTATTTATTTATTATTTGTAGT
Found at i:14308747 original size:15 final size:15
Alignment explanation
Indices: 14308727--14308773 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
14308717 TTTATTTCTC
14308727 TTATTATTCTTAGTT
1 TTATTATTCTTAGTT
14308742 TTATTA-TCATTAG-T
1 TTATTATTC-TTAGTT
* *
14308756 TTATTATTATTTGTT
1 TTATTATTCTTAGTT
14308771 TTA
1 TTA
14308774 CTGTTTTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.66
Consensus pattern (15 bp):
TTATTATTCTTAGTT
Found at i:14310354 original size:15 final size:15
Alignment explanation
Indices: 14310330--14310375 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
14310320 TACTCTTTTC
*
14310330 TTTTTCTTTTTATTT
1 TTTTTATTTTTATTT
* *
14310345 TTTTTGTTTTTAGTT
1 TTTTTATTTTTATTT
*
14310360 GTTTTATTTTTATTT
1 TTTTTATTTTTATTT
14310375 T
1 T
14310376 CTTAAACTTC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.09, C:0.02, G:0.07, T:0.83
Consensus pattern (15 bp):
TTTTTATTTTTATTT
Found at i:14311748 original size:18 final size:18
Alignment explanation
Indices: 14311725--14311783 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
14311715 AATAAACACC
14311725 AAAAAAAATTTTAAAAAT
1 AAAAAAAATTTTAAAAAT
14311743 AAAAAAAATGTATTTTAAAAAT
1 -AAAAAAA---ATTTTAAAAAT
* *
14311765 AAAAAATATTTTTAAAAT
1 AAAAAAAATTTTAAAAAT
14311783 A
1 A
14311784 TTTTTAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 11 0.31
19 7 0.20
21 6 0.17
22 11 0.31
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAAAAAATTTTAAAAAT
Found at i:14311783 original size:11 final size:11
Alignment explanation
Indices: 14311767--14311803 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
14311757 TTAAAAATAA
14311767 AAAATATTTTT
1 AAAATATTTTT
14311778 AAAATATTTTT
1 AAAATATTTTT
14311789 AAAATATTTTT
1 AAAATATTTTT
14311800 AAAA
1 AAAA
14311804 ATAAAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:14311817 original size:22 final size:21
Alignment explanation
Indices: 14311725--14311817 Score: 86
Period size: 22 Copynumber: 4.5 Consensus size: 21
14311715 AATAAACACC
14311725 AAAAAAA-A-TTTTAAAAATA
1 AAAAAAATATTTTTAAAAATA
*
14311744 AAAAAAATGTATTTTAAAAAT-
1 AAAAAAATAT-TTTTAAAAATA
*
14311765 -AAAAAATATTTTTAAAATATT
1 AAAAAAATATTTTTAAAA-ATA
***
14311786 TTTAAAATATTTTTAAAAATA
1 AAAAAAATATTTTTAAAAATA
14311807 AAAAAATATAT
1 AAAAAA-ATAT
14311818 ATATATTTAT
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
19 15 0.25
20 10 0.17
21 5 0.08
22 29 0.49
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (21 bp):
AAAAAAATATTTTTAAAAATA
Found at i:14316609 original size:24 final size:26
Alignment explanation
Indices: 14316548--14316610 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 26
14316538 TAAATATGGA
*
14316548 AATAAATAAC-AAAGATATTTATGCT
1 AATAAATAACTAAATATATTTATGCT
*
14316573 AATAAATGA-TAAATATA-TTATGCT
1 AATAAATAACTAAATATATTTATGCT
14316597 AATAAA-AACTAAAT
1 AATAAATAACTAAAT
14316611 CTTTTAGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 1 0.03
24 18 0.55
25 14 0.42
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (26 bp):
AATAAATAACTAAATATATTTATGCT
Found at i:14318761 original size:39 final size:39
Alignment explanation
Indices: 14318709--14318783 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
14318699 GCCCGCAAGG
* *
14318709 AGAGCTCGAGTAAGCCTTGA-AGGAATGAGGTCGCAAAGA
1 AGAGCTCGAGTAAGCC-TCACAGGAACGAGGTCGCAAAGA
* *
14318748 AGAGTTCGCGTAAGCCTCACAGGAACGAGGTCGCAA
1 AGAGCTCGAGTAAGCCTCACAGGAACGAGGTCGCAA
14318784 GCTATGTCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.06
39 29 0.94
ACGTcount: A:0.33, C:0.20, G:0.32, T:0.15
Consensus pattern (39 bp):
AGAGCTCGAGTAAGCCTCACAGGAACGAGGTCGCAAAGA
Found at i:14323760 original size:69 final size:69
Alignment explanation
Indices: 14323636--14324063 Score: 428
Period size: 69 Copynumber: 6.2 Consensus size: 69
14323626 ACTATAGCCG
* * * * * *
14323636 GTAAAATC-AGGCTTCGCAGGCAAAAATCCACAACCTTCAAAACAGTTAGCT-AGAGTAAAGCTC
1 GTAAAATCAAGG-TTCGCAGGCGAAGAGCCGCAACCTCCAAAACAGTTAG-TGAGAGCAAAGCTC
*
14323699 CCAACT
64 CCAGCT
* * ** * * *
14323705 GTAAAATCAAGGTTCACAGGCGAAGAGTCGTGACCTCCAAAACAATTAGTGAGAGTAAAACTCCC
1 GTAAAATCAAGGTTCGCAGGCGAAGAGCCGCAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCC
14323770 AGCT
66 AGCT
* * * * ** *
14323774 GTAAAATCAAGGTTCGTAGGCAAAGAGCCACAACCTCCAAAATAGTTAGCAAGAGAAAAGCTCCC
1 GTAAAATCAAGGTTCGCAGGCGAAGAGCCGCAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCC
14323839 AGCT
66 AGCT
* * * * *
14323843 GTAAAATCAAGGTTTGTAGGCGAAGAGCCGCGACCTCCAAAACAGTTAGTGAAAGCAAAGCTCTC
1 GTAAAATCAAGGTTCGCAGGCGAAGAGCCGCAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCC
14323908 AGCT
66 AGCT
* * *
14323912 GTAAAATCAAGGTTCGCATGCGAAGAGCCGCAACCTCCAAAATAGTTAGAGAGAGCAAAGCTCCC
1 GTAAAATCAAGGTTCGCAGGCGAAGAGCCGCAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCC
*
14323977 AACT
66 AGCT
* * * * * * * * ** *
14323981 GAAAAATTAAGGTTCACAAGTGAAGAGCCGCAACTTCCACAACTGTTAGCAAGAGCAAAGCTCTC
1 GTAAAATCAAGGTTCGCAGGCGAAGAGCCGCAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCC
*
14324046 AACT
66 AGCT
* *
14324050 ATACAATCAAGGTT
1 GTAAAATCAAGGTT
14324064 TACAGACAAA
Statistics
Matches: 297, Mismatches: 60, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
68 1 0.00
69 293 0.99
70 3 0.01
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.18
Consensus pattern (69 bp):
GTAAAATCAAGGTTCGCAGGCGAAGAGCCGCAACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCC
AGCT
Found at i:14323995 original size:207 final size:207
Alignment explanation
Indices: 14323668--14324064 Score: 483
Period size: 207 Copynumber: 1.9 Consensus size: 207
14323658 AAAATCCACA
* * * *
14323668 ACCTTCAAAACAGTTAGCTAGAGTAAAGCTCCCAACTGTAAAATCAAGGTTCACAGGCGAAGAGT
1 ACCTCCAAAACAGTTAGCTAAAGCAAAGCTCCCAACTGTAAAATCAAGGTTCACAGGCGAAGAGC
** * * * * ** *
14323733 CGTGACCTCCAAAACAATTAGTGAGAGTAAAACTCCCAGCTGTAAAATCAAGGTTCGTAGGCAAA
66 CGCAACCTCCAAAACAATTAGAGAGAGCAAAACTCCCAACTGAAAAATCAAGGTTCACAAGCAAA
* *
14323798 GAGCCACAACCTCCA-AAATAGTTAGCAAGAGAAAAGCTCCCAGCTGTAAAATCAAGGTTTGTAG
131 GAGCCACAACCTCCACAAAT-GTTAGCAAGAGAAAAGCTCCCAACTATAAAATCAAGGTTTGTAG
14323862 GCGAAGAGCCGCG
195 GCGAAGAGCCGCG
* * * *
14323875 ACCTCCAAAACAGTTAG-TGAAAGCAAAGCTCTCAGCTGTAAAATCAAGGTTCGCATGCGAAGAG
1 ACCTCCAAAACAGTTAGCT-AAAGCAAAGCTCCCAACTGTAAAATCAAGGTTCACAGGCGAAGAG
* * * * **
14323939 CCGCAACCTCCAAAATAGTTAGAGAGAGCAAAGCTCCCAACTGAAAAATTAAGGTTCACAAGTGA
65 CCGCAACCTCCAAAACAATTAGAGAGAGCAAAACTCCCAACTGAAAAATCAAGGTTCACAAGCAA
* * * * * *
14324004 AGAGCCGCAACTTCCACAACTGTTAGCAAGAGCAAAGCTCTCAACTATACAATCAAGGTTT
130 AGAGCCACAACCTCCACAAATGTTAGCAAGAGAAAAGCTCCCAACTATAAAATCAAGGTTT
14324065 ACAGACAAAA
Statistics
Matches: 157, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
206 1 0.01
207 153 0.97
208 3 0.02
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (207 bp):
ACCTCCAAAACAGTTAGCTAAAGCAAAGCTCCCAACTGTAAAATCAAGGTTCACAGGCGAAGAGC
CGCAACCTCCAAAACAATTAGAGAGAGCAAAACTCCCAACTGAAAAATCAAGGTTCACAAGCAAA
GAGCCACAACCTCCACAAATGTTAGCAAGAGAAAAGCTCCCAACTATAAAATCAAGGTTTGTAGG
CGAAGAGCCGCG
Found at i:14324029 original size:138 final size:137
Alignment explanation
Indices: 14323636--14324063 Score: 491
Period size: 138 Copynumber: 3.1 Consensus size: 137
14323626 ACTATAGCCG
* * * * * *
14323636 GTAAAATC-AGGCTTCGCAGGCAAAAATCCACAACCTTCAAAACAGTTAGCTAGAGTAAAGCTCC
1 GTAAAATCAAGG-TTCGCAGGCAAAGAGCCACAACCTCCAAAATAGTTAG-AAGAGAAAAGCTCC
* * * * * *
14323700 CAACTGTAAAATCAAGGTTCACAGGCGAAGAGTCGTGACCTCCAAAACAATTAGTGAGAGTAAAA
64 CAACTGTAAAATCAAGGTTCACAGGCGAAGAGCCGCGACCTCCAAAACAGTTAGTGAAAGCAAAG
*
14323765 CTCCCAGCT
129 CTCTCAGCT
*
14323774 GTAAAATCAAGGTTCGTAGGCAAAGAGCCACAACCTCCAAAATAGTTAGCAAGAGAAAAGCTCCC
1 GTAAAATCAAGGTTCGCAGGCAAAGAGCCACAACCTCCAAAATAGTTAG-AAGAGAAAAGCTCCC
* ***
14323839 AGCTGTAAAATCAAGGTTTGTAGGCGAAGAGCCGCGACCTCCAAAACAGTTAGTGAAAGCAAAGC
65 AACTGTAAAATCAAGGTTCACAGGCGAAGAGCCGCGACCTCCAAAACAGTTAGTGAAAGCAAAGC
14323904 TCTCAGCT
130 TCTCAGCT
* * * *
14323912 GTAAAATCAAGGTTCGCATGCGAAGAGCCGCAACCTCCAAAATAGTTAGAGAGAGCAAAGCTCCC
1 GTAAAATCAAGGTTCGCAGGCAAAGAGCCACAACCTCCAAAATAGTTAGA-AGAGAAAAGCTCCC
* * * * * * * * *
14323977 AACTGAAAAATTAAGGTTCACAAGTGAAGAGCCGCAACTTCCACAACTGTTAG-CAAGAGCAAAG
65 AACTGTAAAATCAAGGTTCACAGGCGAAGAGCCGCGACCTCCAAAACAGTTAGTGAA-AGCAAAG
*
14324041 CTCTCAACT
129 CTCTCAGCT
* *
14324050 ATACAATCAAGGTT
1 GTAAAATCAAGGTT
14324064 TACAGACAAA
Statistics
Matches: 248, Mismatches: 39, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
137 3 0.01
138 242 0.98
139 3 0.01
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.18
Consensus pattern (137 bp):
GTAAAATCAAGGTTCGCAGGCAAAGAGCCACAACCTCCAAAATAGTTAGAAGAGAAAAGCTCCCA
ACTGTAAAATCAAGGTTCACAGGCGAAGAGCCGCGACCTCCAAAACAGTTAGTGAAAGCAAAGCT
CTCAGCT
Found at i:14328833 original size:14 final size:14
Alignment explanation
Indices: 14328816--14328842 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14328806 AAAAATTCGG
14328816 AATAAAATAATAAT
1 AATAAAATAATAAT
14328830 AATAAAATAATAA
1 AATAAAATAATAA
14328843 GATCTGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:14329531 original size:66 final size:66
Alignment explanation
Indices: 14329425--14329560 Score: 254
Period size: 66 Copynumber: 2.1 Consensus size: 66
14329415 AAAAGGATTA
* *
14329425 GAATAAATTACAATAAAATGAAAAAAATATTTACCTAAGCTTTCTTATTCCCCAAAACTATCTCT
1 GAATAAATTACAATAAAATGAAAAAAATATTTACCTAAGCTTTCTTATGCCCCAAAACTATCTCC
14329490 G
66 G
14329491 GAATAAATTACAATAAAATGAAAAAAATATTTACCTAAGCTTTCTTATGCCCCAAAACTATCTCC
1 GAATAAATTACAATAAAATGAAAAAAATATTTACCTAAGCTTTCTTATGCCCCAAAACTATCTCC
14329556 G
66 G
14329557 GAAT
1 GAAT
14329561 CAAAGATATG
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.30
Consensus pattern (66 bp):
GAATAAATTACAATAAAATGAAAAAAATATTTACCTAAGCTTTCTTATGCCCCAAAACTATCTCC
G
Found at i:14334213 original size:42 final size:42
Alignment explanation
Indices: 14334166--14334265 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
14334156 GCACAGAAGT
* *
14334166 GCTAAACGGAAACCCACA-AGGATTGAACGGAAGCTCATAAGA
1 GCTAAACGGAAACCCACAGAGGA-TAAACGGAAGCTCAAAAGA
** *
14334208 GCTAAACGGAAACCCGTAGAGGATAAACTGAAGCTCAAAAGA
1 GCTAAACGGAAACCCACAGAGGATAAACGGAAGCTCAAAAGA
* *
14334250 GCTGAACTGAAACCCA
1 GCTAAACGGAAACCCA
14334266 TTAGGGTTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 45 0.92
43 4 0.08
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (42 bp):
GCTAAACGGAAACCCACAGAGGATAAACGGAAGCTCAAAAGA
Found at i:14340297 original size:46 final size:46
Alignment explanation
Indices: 14340223--14340361 Score: 188
Period size: 46 Copynumber: 3.0 Consensus size: 46
14340213 CATGGCAAAG
* *
14340223 TGTGGAACGTAGGTATGGCAATTCAGTAAAGAAAACCATACTGAGT
1 TGTGGAACGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
* * *
14340269 TGTGGAACGTAGGTATGGTATTTTAGTAACGAAAACCATACTGATT
1 TGTGGAACGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
* * * * *
14340315 TGTGAAAAGTAGGTATGATATTTCAGTGAAGAAAACCATATTGAGT
1 TGTGGAACGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
14340361 T
1 T
14340362 ATAGCATTGT
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.29
Consensus pattern (46 bp):
TGTGGAACGTAGGTATGGTATTTCAGTAAAGAAAACCATACTGAGT
Found at i:14346602 original size:46 final size:46
Alignment explanation
Indices: 14346531--14346669 Score: 172
Period size: 46 Copynumber: 3.0 Consensus size: 46
14346521 CATGGCAAAG
* *
14346531 TGTGGAATGTAGGTATGGTAATTCAGTAAAGAAAACCATTCTGAGT
1 TGTGGAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATTCTGAGT
* * * * *
14346577 TGTGGAACGTAGCTATGGTATTTCAGTAACGAAAACCATACTGATT
1 TGTGGAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATTCTGAGT
* * *
14346623 TGTGAAAAGTAGGTATGATATTTCAGTGAAGAAAACCATAT-TGAGT
1 TGTGGAAAGTAGGTATGGTATTTCAGTAAAGAAAACCAT-TCTGAGT
14346669 T
1 T
14346670 ATAGCATTGT
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.31
Consensus pattern (46 bp):
TGTGGAAAGTAGGTATGGTATTTCAGTAAAGAAAACCATTCTGAGT
Found at i:14346998 original size:55 final size:55
Alignment explanation
Indices: 14346914--14347024 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
14346904 GATTTTATTA
*
14346914 TGAGCCTATGAACTTACTAAGCTTTCTGTAAGCTTACTTGTGTGTGTTTGTTGTT
1 TGAGCCTATGAACTTACTAAGCTTTCTGTAAGCTTACTTGTGCGTGTTTGTTGTT
14346969 TGAGCCTATGAACTTACTAAGCTTTCTGTAAGCTTACTTGTGCGTGTTTGTTGTT
1 TGAGCCTATGAACTTACTAAGCTTTCTGTAAGCTTACTTGTGCGTGTTTGTTGTT
14347024 T
1 T
14347025 CTTGTAAATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.18, C:0.15, G:0.22, T:0.45
Consensus pattern (55 bp):
TGAGCCTATGAACTTACTAAGCTTTCTGTAAGCTTACTTGTGCGTGTTTGTTGTT
Found at i:14348322 original size:21 final size:21
Alignment explanation
Indices: 14348298--14348350 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
14348288 AGAAATGCTA
* *
14348298 AACGGAAACCCACAAGGGTTG
1 AACGGAAACCCACAAGAGCTG
* * *
14348319 AACGGAAGCTCATAAGAGCTG
1 AACGGAAACCCACAAGAGCTG
14348340 AACGGAAACCC
1 AACGGAAACCC
14348351 GTAGGAGTTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.25, G:0.26, T:0.09
Consensus pattern (21 bp):
AACGGAAACCCACAAGAGCTG
Found at i:14348370 original size:42 final size:42
Alignment explanation
Indices: 14348294--14348405 Score: 127
Period size: 42 Copynumber: 2.7 Consensus size: 42
14348284 GCACAGAAAT
** * ** *
14348294 GCTAAACGGAAACCCACAAGGGTTGAACGGAAGCTCATAAGA
1 GCTAAACGGAAACCCAGTAGGGTTAAACTAAAGCTCAAAAGA
*
14348336 GCTGAACGGAAACCC-GTAGGAGTTAAACTAAAGCTCAAAAGA
1 GCTAAACGGAAACCCAGTAGG-GTTAAACTAAAGCTCAAAAGA
* *
14348378 GCTAAACTGAAACCCATTAGGGTTAAAC
1 GCTAAACGGAAACCCAGTAGGGTTAAAC
14348406 AGAAACTCAT
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
41 3 0.05
42 51 0.88
43 4 0.07
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.15
Consensus pattern (42 bp):
GCTAAACGGAAACCCAGTAGGGTTAAACTAAAGCTCAAAAGA
Found at i:14351138 original size:29 final size:29
Alignment explanation
Indices: 14351106--14351176 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 29
14351096 TTTATTTTTA
14351106 TTTTTAATTTTTAAATACTTTTAAAAT-ATT
1 TTTTTAATTTTTAAAT--TTTTAAAATAATT
* *
14351136 TTTTTATTTTTTTAATTTTTAAAATAA-T
1 TTTTTAATTTTTAAATTTTTAAAATAATT
*
14351164 TTTTTAATGTTTA
1 TTTTTAATTTTTA
14351177 TTAAAAATGG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 20 0.57
29 1 0.03
30 14 0.40
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (29 bp):
TTTTTAATTTTTAAATTTTTAAAATAATT
Found at i:14358229 original size:40 final size:40
Alignment explanation
Indices: 14358167--14358261 Score: 145
Period size: 40 Copynumber: 2.3 Consensus size: 40
14358157 CTTTTCTTTC
* *
14358167 TTTCTTTCCTTCCTTCCTTCTCTGTTTCGTTTTGCTCTCTG
1 TTTCTTT-CTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
*
14358208 TTTCTTTCTTTCTCCCTTCTCTGTTTTGTTTTGCTCTCTG
1 TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
14358248 TTTCTTTTCTTTCT
1 TTTC-TTTCTTTCT
14358262 TTCTTTGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 34 0.68
41 16 0.32
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.63
Consensus pattern (40 bp):
TTTCTTTCTTTCTCCCTTCTCTGTTTCGTTTTGCTCTCTG
Found at i:14358286 original size:8 final size:8
Alignment explanation
Indices: 14358275--14358306 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
14358265 TTTGTCATAT
14358275 ATATAATA
1 ATATAATA
14358283 ATATAATA
1 ATATAATA
14358291 ATATAATA
1 ATATAATA
14358299 ATATAATA
1 ATATAATA
14358307 TAAAACATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:14360927 original size:38 final size:38
Alignment explanation
Indices: 14360875--14360947 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
14360865 ATAACACCTT
*
14360875 AAACAACAATCAAACATGCATTCATTCAACCATTCCTC
1 AAACAACAACCAAACATGCATTCATTCAACCATTCCTC
14360913 AAACAACAACCAAACATGCATTCATTCAACCATTC
1 AAACAACAACCAAACATGCATTCATTCAACCATTC
14360948 AAACAAGCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.44, C:0.32, G:0.03, T:0.22
Consensus pattern (38 bp):
AAACAACAACCAAACATGCATTCATTCAACCATTCCTC
Found at i:14366213 original size:66 final size:66
Alignment explanation
Indices: 14366107--14366241 Score: 225
Period size: 66 Copynumber: 2.0 Consensus size: 66
14366097 CCCTTTTAAG
* * * *
14366107 TTTGTTATAGGAATTAATGTTCTTTGGAGATAGTCACAAAACTCGTTGAGATTGTTTTCATGTAA
1 TTTGTTATAGGAAGTAATGTTCTTTGGAGATAATCACAAAACTCGTTGAGATGGTCTTCATGTAA
14366172 T
66 T
*
14366173 TTTGTTATAGGAAGTAATGTTCTTTGGAGATAATCACAAAACTTGTTGAGATGGTCTTCATGTAA
1 TTTGTTATAGGAAGTAATGTTCTTTGGAGATAATCACAAAACTCGTTGAGATGGTCTTCATGTAA
14366238 T
66 T
14366239 TTT
1 TTT
14366242 TGGACACTCA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (66 bp):
TTTGTTATAGGAAGTAATGTTCTTTGGAGATAATCACAAAACTCGTTGAGATGGTCTTCATGTAA
T
Found at i:14368629 original size:148 final size:148
Alignment explanation
Indices: 14368361--14368662 Score: 586
Period size: 148 Copynumber: 2.0 Consensus size: 148
14368351 TTTTATAACC
14368361 ACTATGTTGCTCTTCTCAGAGTTATATTAATACATTCTTTAAGTTTTTTTTCCCTCGAGTTCTTA
1 ACTATGTTGCTCTTCTCAGAGTTATATTAATACATTCTTTAAGTTTTTTTTCCCTCGAGTTCTTA
*
14368426 GTCTTATCCATATATCACTAAGCCCTCACCTCACCCCCTGTTCCTCCAAATACCCAGGCACACAC
66 GTCTTATCCATATATCACTAAGCCCTCACCTCACCCCCTGTTCCTCCAAACACCCAGGCACACAC
14368491 AAAGAAATTAGTCTTTGA
131 AAAGAAATTAGTCTTTGA
14368509 ACTATGTTGCTCTTCTCAGAGTTATATTAATACATTCTTTAAGTTTTTTTTCCCTCGAGTTCTTA
1 ACTATGTTGCTCTTCTCAGAGTTATATTAATACATTCTTTAAGTTTTTTTTCCCTCGAGTTCTTA
*
14368574 GTCTTATCCATATATCACTAAGCCCTCACCTCACCCCCTGTTCCTCCAAACACCCAGGCACACTC
66 GTCTTATCCATATATCACTAAGCCCTCACCTCACCCCCTGTTCCTCCAAACACCCAGGCACACAC
14368639 AAAGAAATTAGTCTTTGA
131 AAAGAAATTAGTCTTTGA
14368657 ACTATG
1 ACTATG
14368663 GACGTGCCTT
Statistics
Matches: 152, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 152 1.00
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.36
Consensus pattern (148 bp):
ACTATGTTGCTCTTCTCAGAGTTATATTAATACATTCTTTAAGTTTTTTTTCCCTCGAGTTCTTA
GTCTTATCCATATATCACTAAGCCCTCACCTCACCCCCTGTTCCTCCAAACACCCAGGCACACAC
AAAGAAATTAGTCTTTGA
Found at i:14368867 original size:161 final size:161
Alignment explanation
Indices: 14368601--14368922 Score: 626
Period size: 161 Copynumber: 2.0 Consensus size: 161
14368591 CTAAGCCCTC
14368601 ACCTCACCCCCTGTTCCTCCAAACACCCAGGCACACTCAAAGAAATTAGTCTTTGAACTATGGAC
1 ACCTCACCCCCTGTTCCTCCAAACACCCAGGCACACTCAAAGAAATTAGTCTTTGAACTATGGAC
*
14368666 GTGCCTTTGTGTGGTTGGCTATTGTATCTTGCTTGTCTTTTCATCTGTAATAATAGAAAATAAAA
66 GTGCCTTTGTGTGGTTGGCTATTGTATCTTGCTCGTCTTTTCATCTGTAATAATAGAAAATAAAA
14368731 ACGGACTTTGTGTTACTTGTTACTTAGGTTT
131 ACGGACTTTGTGTTACTTGTTACTTAGGTTT
*
14368762 ACCTCACCCCCTGTTCCTCCAAACATCCAGGCACACTCAAAGAAATTAGTCTTTGAACTATGGAC
1 ACCTCACCCCCTGTTCCTCCAAACACCCAGGCACACTCAAAGAAATTAGTCTTTGAACTATGGAC
14368827 GTGCCTTTGTGTGGTTGGCTATTGTATCTTGCTCGTCTTTTCATCTGTAATAATAGAAAATAAAA
66 GTGCCTTTGTGTGGTTGGCTATTGTATCTTGCTCGTCTTTTCATCTGTAATAATAGAAAATAAAA
14368892 ACGGACTTTGTGTTACTTGTTACTTAGGTTT
131 ACGGACTTTGTGTTACTTGTTACTTAGGTTT
14368923 TTTCTTTACT
Statistics
Matches: 159, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
161 159 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.35
Consensus pattern (161 bp):
ACCTCACCCCCTGTTCCTCCAAACACCCAGGCACACTCAAAGAAATTAGTCTTTGAACTATGGAC
GTGCCTTTGTGTGGTTGGCTATTGTATCTTGCTCGTCTTTTCATCTGTAATAATAGAAAATAAAA
ACGGACTTTGTGTTACTTGTTACTTAGGTTT
Found at i:14369043 original size:74 final size:72
Alignment explanation
Indices: 14368880--14369043 Score: 197
Period size: 74 Copynumber: 2.2 Consensus size: 72
14368870 TCTGTAATAA
* * * *
14368880 TAGAAAATAAAAACGGACTTTGTGTTACTTGTTACTTAGGTTTTTTCTTTACTTTGCACAAAAAA
1 TAGAAAATAAAAACAGACTTTGGGTTACTTGTTACTTAGGTTTTTTCTGTACTTAGCACAAAAAA
14368945 TAAAGTT
66 TAAAGTT
* * *
14368952 TAGAAGATAAAAACAGACTTTTGGGTTACTTGTTACTTATGTTTTACTT-TGTACTTAGCACCAA
1 TAGAAAATAAAAACAGAC-TTTGGGTTACTTGTTACTTAGGTTTT--TTCTGTACTTAGCACAAA
*
14369016 ACAT-AAGCTT
63 AAATAAAG-TT
*
14369026 TAGAAAATAAAAGCAGAC
1 TAGAAAATAAAAACAGAC
14369044 CTTCTGATTT
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
72 16 0.21
73 27 0.35
74 33 0.42
75 2 0.03
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.36
Consensus pattern (72 bp):
TAGAAAATAAAAACAGACTTTGGGTTACTTGTTACTTAGGTTTTTTCTGTACTTAGCACAAAAAA
TAAAGTT
Found at i:14371117 original size:7 final size:8
Alignment explanation
Indices: 14371089--14371122 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
14371079 TTGAACCAGG
14371089 TTTTTTAA
1 TTTTTTAA
14371097 TTTTTTGAA
1 TTTTTT-AA
14371106 -TTTTTAA
1 TTTTTTAA
14371113 TTTTTTAA
1 TTTTTTAA
14371121 TT
1 TT
14371123 GGACTGGTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 2 0.08
8 20 0.83
9 2 0.08
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (8 bp):
TTTTTTAA
Found at i:14371905 original size:26 final size:26
Alignment explanation
Indices: 14371873--14371925 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
14371863 CCTATGGCGA
* **
14371873 TGGAACTCCAAGGGAGTTGCCTACCT
1 TGGAACTCCAAGAGAGAAGCCTACCT
*
14371899 TGGAACTCTAAGAGAGAAGCCTACCT
1 TGGAACTCCAAGAGAGAAGCCTACCT
14371925 T
1 T
14371926 ACTTTACTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (26 bp):
TGGAACTCCAAGAGAGAAGCCTACCT
Found at i:14379551 original size:9 final size:9
Alignment explanation
Indices: 14379523--14379559 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
14379513 AGCAATTTAA
14379523 TTTTTTTTC
1 TTTTTTTTC
*
14379532 TTTTATGTTC
1 TTTT-TTTTC
14379542 TTTTTTTTC
1 TTTTTTTTC
14379551 TTTTTTTTC
1 TTTTTTTTC
14379560 CATTATGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.84
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:14389331 original size:30 final size:30
Alignment explanation
Indices: 14389267--14389331 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
14389257 ACACTAAAGG
* *
14389267 AGCTTATGGAGCGAAAGACTTAGATCCAGG
1 AGCTTATGGAGCGAAAGACTCAGATCCAGA
* * * *
14389297 AGCTTATGGAGCTAAAGGCTCAGCTTCAGA
1 AGCTTATGGAGCGAAAGACTCAGATCCAGA
14389327 AGCTT
1 AGCTT
14389332 TTAGATCATG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (30 bp):
AGCTTATGGAGCGAAAGACTCAGATCCAGA
Found at i:14393311 original size:11 final size:11
Alignment explanation
Indices: 14393291--14393323 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
14393281 CTTAACACCC
14393291 AACACTCAACA
1 AACACTCAACA
*
14393302 AACACCCAACA
1 AACACTCAACA
14393313 AACACTCAACA
1 AACACTCAACA
14393324 GTAGAATCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.55, C:0.39, G:0.00, T:0.06
Consensus pattern (11 bp):
AACACTCAACA
Found at i:14393717 original size:25 final size:25
Alignment explanation
Indices: 14393688--14393735 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
14393678 AATTATTACT
14393688 TACAAATTTCTTTACACATCCAGTG
1 TACAAATTTCTTTACACATCCAGTG
14393713 TACAAATTTCTTTACACATCCAG
1 TACAAATTTCTTTACACATCCAG
14393736 CATATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.35
Consensus pattern (25 bp):
TACAAATTTCTTTACACATCCAGTG
Found at i:14393776 original size:42 final size:44
Alignment explanation
Indices: 14393713--14393807 Score: 131
Period size: 42 Copynumber: 2.2 Consensus size: 44
14393703 ACATCCAGTG
* *
14393713 TACAAATTTCTTTACACATCCAGCAT-A-TATAAATTTATTACT
1 TACAAATTTCTTTACACATCCAGCATAAGTAAAAATTTATTACA
* **
14393755 TACAAATTTCTTTACATATCCAGTGTAAGTAAAAATTTATTACA
1 TACAAATTTCTTTACACATCCAGCATAAGTAAAAATTTATTACA
14393799 TACAAATTT
1 TACAAATTT
14393808 ATTACTTACA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 23 0.50
43 1 0.02
44 22 0.48
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (44 bp):
TACAAATTTCTTTACACATCCAGCATAAGTAAAAATTTATTACA
Found at i:14393807 original size:15 final size:15
Alignment explanation
Indices: 14393787--14393822 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
14393777 GTGTAAGTAA
14393787 AAATTTATTACATAC
1 AAATTTATTACATAC
*
14393802 AAATTTATTACTTAC
1 AAATTTATTACATAC
14393817 AAATTT
1 AAATTT
14393823 CTTTACACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATTTATTACATAC
Found at i:14394054 original size:16 final size:16
Alignment explanation
Indices: 14394012--14394067 Score: 96
Period size: 16 Copynumber: 3.5 Consensus size: 16
14394002 TTTTACTAAT
14394012 ATTATAA-TTTTCATC
1 ATTATAATTTTTCATC
14394027 ATTATAATTTTTTCATC
1 ATTATAA-TTTTTCATC
14394044 ATTATAATTTTTCATC
1 ATTATAATTTTTCATC
14394060 ATTATAAT
1 ATTATAAT
14394068 ATCAAGGCCC
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.18
16 17 0.44
17 15 0.38
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTATAATTTTTCATC
Found at i:14394166 original size:11 final size:11
Alignment explanation
Indices: 14394132--14394160 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
14394122 AAAAAATTGT
14394132 TAAATAAATAA
1 TAAATAAATAA
14394143 TAAATAAATAA
1 TAAATAAATAA
14394154 TAAATAA
1 TAAATAA
14394161 TAAATACGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAAATAAATAA
Found at i:14396918 original size:17 final size:17
Alignment explanation
Indices: 14396896--14397032 Score: 69
Period size: 17 Copynumber: 7.4 Consensus size: 17
14396886 AATTCAAGAC
14396896 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* *
14396913 TTATGTAGTGTTAATTCAAGA
1 TTATGTAATGTT--TT-TA-A
14396934 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
* ***
14396952 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
14396971 CTTATGTAATAG-TTTTAA
1 -TTATGTAAT-GTTTTTAA
* **
14396989 TTATGTAGTGATTTAAAGA
1 TTATGTAATG-TTTTTA-A
*
14397008 TTTATGTAATGCTTTTAA
1 -TTATGTAATGTTTTTAA
14397026 TTATGTA
1 TTATGTA
14397033 GTGATTTAAT
Statistics
Matches: 88, Mismatches: 19, Indels: 26
0.66 0.14 0.20
Matches are distributed among these distances:
16 1 0.01
17 35 0.40
18 9 0.10
19 10 0.11
20 20 0.23
21 2 0.02
22 11 0.12
ACGTcount: A:0.32, C:0.04, G:0.15, T:0.49
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:14396939 original size:22 final size:22
Alignment explanation
Indices: 14396882--14396946 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
14396872 GTCAATTATG
14396882 TGTTAATTCAAGACTTATGTAA
1 TGTTAATTCAAGACTTATGTAA
* *
14396904 TGTT--TT-TA-A-TTATGTAG
1 TGTTAATTCAAGACTTATGTAA
14396921 TGTTAATTCAAGACTTATGTAA
1 TGTTAATTCAAGACTTATGTAA
14396943 TGTT
1 TGTT
14396947 TTTAATTATG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 11 0.32
18 1 0.03
19 3 0.09
20 3 0.09
21 1 0.03
22 15 0.44
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (22 bp):
TGTTAATTCAAGACTTATGTAA
Found at i:14397039 original size:37 final size:37
Alignment explanation
Indices: 14396891--14397041 Score: 223
Period size: 37 Copynumber: 4.0 Consensus size: 37
14396881 GTGTTAATTC
* *
14396891 AAGACTTATGTAATGTTTTTAATTATGTAGTGTTAATTC
1 AAGACTTATGTAATGTTTTTAATTATGTAGTG--ATTTA
*
14396930 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
14396967 AAGACTTATGTAATAG-TTTTAATTATGTAGTGATTTA
1 AAGACTTATGTAAT-GTTTTTAATTATGTAGTGATTTA
* *
14397004 AAGATTTATGTAATGCTTTTAATTATGTAGTGATTTA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
14397041 A
1 A
14397042 TTCCGGTAAT
Statistics
Matches: 105, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
36 1 0.01
37 71 0.68
38 1 0.01
39 32 0.30
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
Found at i:14397060 original size:9 final size:9
Alignment explanation
Indices: 14397046--14397120 Score: 69
Period size: 9 Copynumber: 7.9 Consensus size: 9
14397036 ATTTAATTCC
14397046 GGTAATTTG
1 GGTAATTTG
*
14397055 GATAATTTTCG
1 GGTAA-TTT-G
14397066 GGTAATTTG
1 GGTAATTTG
14397075 GGTAATTTTCG
1 GGTAA-TTT-G
14397086 GGTAATTTG
1 GGTAATTTG
**
14397095 GGTAATCCG
1 GGTAATTTG
* *
14397104 AGTAATTCG
1 GGTAATTTG
14397113 GGTAATTT
1 GGTAATTT
14397121 TTAACCAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
9 31 0.57
10 12 0.22
11 11 0.20
ACGTcount: A:0.24, C:0.07, G:0.28, T:0.41
Consensus pattern (9 bp):
GGTAATTTG
Found at i:14397071 original size:20 final size:20
Alignment explanation
Indices: 14397046--14397121 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
14397036 ATTTAATTCC
*
14397046 GGTAATTTGGATAATTTTCG
1 GGTAATTTGGGTAATTTTCG
14397066 GGTAATTTGGGTAATTTTCG
1 GGTAATTTGGGTAATTTTCG
*
14397086 GGTAATTTGGGTAA--TCCG
1 GGTAATTTGGGTAATTTTCG
* *
14397104 AGTAATTCGGGTAATTTT
1 GGTAATTTGGGTAATTTT
14397122 TAACCAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
18 15 0.31
20 34 0.69
ACGTcount: A:0.24, C:0.07, G:0.28, T:0.42
Consensus pattern (20 bp):
GGTAATTTGGGTAATTTTCG
Found at i:14397073 original size:11 final size:11
Alignment explanation
Indices: 14397057--14397093 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
14397047 GTAATTTGGA
14397057 TAATTTTCGGG
1 TAATTTTCGGG
14397068 TAA-TTT-GGG
1 TAATTTTCGGG
14397077 TAATTTTCGGG
1 TAATTTTCGGG
14397088 TAATTT
1 TAATTT
14397094 GGGTAATCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 6 0.25
10 6 0.25
11 12 0.50
ACGTcount: A:0.22, C:0.05, G:0.24, T:0.49
Consensus pattern (11 bp):
TAATTTTCGGG
Found at i:14423351 original size:20 final size:22
Alignment explanation
Indices: 14423326--14423367 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
14423316 TTACGACTCT
14423326 TTATCTCTTGTA-GTTT-GCAA
1 TTATCTCTTGTATGTTTAGCAA
*
14423346 TTATCTGTTGTATGTTTAGCAA
1 TTATCTCTTGTATGTTTAGCAA
14423368 GTTTAGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 4 0.21
22 4 0.21
ACGTcount: A:0.21, C:0.12, G:0.17, T:0.50
Consensus pattern (22 bp):
TTATCTCTTGTATGTTTAGCAA
Found at i:14424299 original size:30 final size:30
Alignment explanation
Indices: 14424263--14424420 Score: 237
Period size: 30 Copynumber: 5.3 Consensus size: 30
14424253 TGTTTTAGTT
* * *
14424263 GGTCTCCCAGAAACCGGAGAAGCAGAAGCA
1 GGTCTCCCAGAAATCGAAGAAGCAGGAGCA
*
14424293 GGTCTCCCAGAAATCGTAGAAGCAGGAGCA
1 GGTCTCCCAGAAATCGAAGAAGCAGGAGCA
*
14424323 GGTCTCCTAGAAATC-ATAGAAGCAGGAGCA
1 GGTCTCCCAGAAATCGA-AGAAGCAGGAGCA
* *
14424353 GGTCTCCCAGAAACCGAAGAAGCAGGAGTA
1 GGTCTCCCAGAAATCGAAGAAGCAGGAGCA
14424383 GGTCTCCCAGAAATCGAAGAAGCAGGAGCA
1 GGTCTCCCAGAAATCGAAGAAGCAGGAGCA
14424413 GGTCTCCC
1 GGTCTCCC
14424421 TATTTGCGTC
Statistics
Matches: 116, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 115 0.99
31 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.29, T:0.12
Consensus pattern (30 bp):
GGTCTCCCAGAAATCGAAGAAGCAGGAGCA
Found at i:14436021 original size:13 final size:13
Alignment explanation
Indices: 14436003--14436027 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14435993 ACAAGTTAGT
14436003 AAGAAAATTTGTG
1 AAGAAAATTTGTG
14436016 AAGAAAATTTGT
1 AAGAAAATTTGT
14436028 TTTTCTTTTT
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:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (13 bp):
AAGAAAATTTGTG
Found at i:14437060 original size:41 final size:41
Alignment explanation
Indices: 14437002--14437083 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
14436992 AACCTAATTG
*
14437002 GGAAAATAATTCTCTTATTCTAATAAACTACTAAAACATAA
1 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
14437043 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
1 GGAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
14437084 AATAAAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (41 bp):
GGAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAA
Found at i:14440986 original size:19 final size:19
Alignment explanation
Indices: 14440962--14440998 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
14440952 TTATTCTAAA
14440962 ATTTATCTACCTAAATAAG
1 ATTTATCTACCTAAATAAG
* *
14440981 ATTTATTTATCTAAATAA
1 ATTTATCTACCTAAATAA
14440999 CTTTAAAATA
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:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (19 bp):
ATTTATCTACCTAAATAAG
Found at i:14445874 original size:42 final size:41
Alignment explanation
Indices: 14445827--14445908 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
14445817 CTAAGCTTAA
*
14445827 GGCCTGAAACAAATACACCGGCACGAAACCTACTAGGCTCAG
1 GGCCTGAAAC-AATACACCGACACGAAACCTACTAGGCTCAG
** * * *
14445869 GGCCTGATTCAATACACTGACATGAAACCTTCTAGGCTCA
1 GGCCTGAAACAATACACCGACACGAAACCTACTAGGCTCA
14445909 AAGCCTGATA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 26 0.76
42 8 0.24
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.18
Consensus pattern (41 bp):
GGCCTGAAACAATACACCGACACGAAACCTACTAGGCTCAG
Found at i:14454087 original size:26 final size:26
Alignment explanation
Indices: 14454032--14454087 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
14454022 AATAATAGCT
* ***
14454032 AAAAATTAATTAAAAATTCATTATTT
1 AAAAAATAATTAAAAATTCATTAAGA
14454058 AAAAAATAATTAAAAATT-AGTTAAGA
1 AAAAAATAATTAAAAATTCA-TTAAGA
14454084 AAAA
1 AAAA
14454088 CCCTAAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (26 bp):
AAAAAATAATTAAAAATTCATTAAGA
Found at i:14455876 original size:84 final size:84
Alignment explanation
Indices: 14455770--14455933 Score: 217
Period size: 84 Copynumber: 2.0 Consensus size: 84
14455760 GGGCTCACAA
* * * ** *
14455770 TATGGTATTTCTTTTTTCTTTATTCCTTTTATTCTTCT-TTTACTCTCATAG-TTTTCTTTT-TT
1 TATGGTATTTCATTGTTCTTTATTCCTTTTATTATTCTCTTCCCT-TCACAGTTTTTCTTTTATT
14455832 ATTCTGGGTCTTCCGCTTCGTT
65 -TT-TGGGTCTTCCGCTTCGTT
14455854 TATGGTATTTCATTGTTCTTTATTCCTTTTATTATTCTCTTCCCTTCACAGTTTTTCTTTTATTT
1 TATGGTATTTCATTGTTCTTTATTCCTTTTATTATTCTCTTCCCTTCACAGTTTTTCTTTTATTT
*
14455919 TTGGGTCTTTCGCTT
66 TTGGGTCTTCCGCTT
14455934 GATTTAGTTG
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
84 53 0.76
85 15 0.21
86 2 0.03
ACGTcount: A:0.10, C:0.19, G:0.10, T:0.61
Consensus pattern (84 bp):
TATGGTATTTCATTGTTCTTTATTCCTTTTATTATTCTCTTCCCTTCACAGTTTTTCTTTTATTT
TTGGGTCTTCCGCTTCGTT
Found at i:14465436 original size:29 final size:30
Alignment explanation
Indices: 14465404--14465509 Score: 101
Period size: 29 Copynumber: 3.6 Consensus size: 30
14465394 AAATAAAATA
*
14465404 AAATAATTAAATTTTAATAAAAATATA-AG
1 AAATAATTAAATTTTATTAAAAATATATAG
* * *
14465433 AAATATTTAATTTTTATTTAAAATTATATA-
1 AAATAATTAAATTTTA-TTAAAAATATATAG
* **
14465463 AAATTA-TAAAAATTATTAAAAATATATAG
1 AAATAATTAAATTTTATTAAAAATATATAG
*
14465492 AAATAGATAAAATTTTAT
1 AAATA-ATTAAATTTTAT
14465510 AGAGTCGTAA
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
28 12 0.21
29 24 0.41
30 14 0.24
31 8 0.14
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (30 bp):
AAATAATTAAATTTTATTAAAAATATATAG
Found at i:14465464 original size:10 final size:10
Alignment explanation
Indices: 14465446--14465510 Score: 64
Period size: 10 Copynumber: 6.7 Consensus size: 10
14465436 TATTTAATTT
*
14465446 TTATTTAAAA
1 TTATATAAAA
14465456 TTATATAAAA
1 TTATATAAAA
14465466 TTATA-AAAA
1 TTATATAAAA
14465475 TTAT-TAAAA
1 TTATATAAAA
*
14465484 ATATATAGAAA
1 TTATATA-AAA
*
14465495 -TAGATAAAA
1 TTATATAAAA
*
14465504 TTTTATA
1 TTATATA
14465511 GAGTCGTAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
9 18 0.39
10 25 0.54
11 3 0.07
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (10 bp):
TTATATAAAA
Found at i:14465469 original size:20 final size:20
Alignment explanation
Indices: 14465446--14465505 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 20
14465436 TATTTAATTT
14465446 TTATTTAAAATTATATAAAA
1 TTATTTAAAATTATATAAAA
*
14465466 TTA-TAAAAATTAT-TAAAA
1 TTATTTAAAATTATATAAAA
* * *
14465484 ATATATAGAAA-TAGATAAAA
1 TTATTTA-AAATTATATAAAA
14465504 TT
1 TT
14465506 TTATAGAGTC
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
18 7 0.23
19 12 0.39
20 12 0.39
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
TTATTTAAAATTATATAAAA
Done.