Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 212 of 222
Found at i:67066490 original size:3 final size:3
Alignment explanation
Indices: 67066464--67066514 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
67066454 AATATACTGG
* * * *
67066464 TTA TAA TTA TTA TAA TTA TAA TTA TTA TTA TCA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
67066511 TTA T
1 TTA T
67066515 ACTTACATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:67067030 original size:9 final size:9
Alignment explanation
Indices: 67067016--67067064 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
67067006 TTTGGTTAAA
*
67067016 AATTAATCG
1 AATTAACCG
67067025 AATTAACCG
1 AATTAACCG
* *
67067034 GATTACCCG
1 AATTAACCG
*
67067043 AATTACCCG
1 AATTAACCG
67067052 AATTAACCG
1 AATTAACCG
67067061 AATT
1 AATT
67067065 GAATCACTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:67067201 original size:18 final size:18
Alignment explanation
Indices: 67067161--67067204 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
67067151 AATTTTTATG
**
67067161 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
67067179 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
67067197 CTTGGGTT
1 ATTGGGTT
67067205 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:67070287 original size:38 final size:37
Alignment explanation
Indices: 67070228--67070299 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 37
67070218 GATAAAAAGG
*
67070228 ATGAAATTACACCAGAGAACATCAAAGAGATATTCAA
1 ATGAAATGACACCAGAGAACATCAAAGAGATATTCAA
* * *
67070265 ATGATAATGACACCGGAGAACATGAGAGAGATATT
1 ATGA-AATGACACCAGAGAACATCAAAGAGATATT
67070300 AAGATCATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 4 0.13
38 26 0.87
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.19
Consensus pattern (37 bp):
ATGAAATGACACCAGAGAACATCAAAGAGATATTCAA
Found at i:67071289 original size:18 final size:18
Alignment explanation
Indices: 67071185--67071290 Score: 61
Period size: 18 Copynumber: 5.6 Consensus size: 18
67071175 AAAAATTACA
* *
67071185 AAAAAAATTTCAAAAATC
1 AAAAAAATTTGAAAAATT
* **
67071203 AAAATAATTTTTAAAATCT
1 AAAAAAATTTGAAAAAT-T
* *
67071222 -AAAATATTTATAAAAAGTT
1 AAAAAAATTT-GAAAAA-TT
67071241 CAAAAAAATTCTGAAAAAATAT
1 -AAAAAAATT-TG-AAAAAT-T
**
67071263 AAAGGAATTTGAAAAATT
1 AAAAAAATTTGAAAAATT
67071281 AAAAAAATTT
1 AAAAAAATTT
67071291 CTAGAATAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 16
0.70 0.14 0.17
Matches are distributed among these distances:
18 30 0.45
19 12 0.18
20 3 0.04
21 15 0.22
22 7 0.10
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (18 bp):
AAAAAAATTTGAAAAATT
Found at i:67076196 original size:18 final size:18
Alignment explanation
Indices: 67076175--67076209 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
67076165 CCAAAGTGAT
67076175 ATTTTAATATTT-TTAAAC
1 ATTTTAAT-TTTATTAAAC
67076193 ATTTTAATTTTATTAAA
1 ATTTTAATTTTATTAAA
67076210 TAAATTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAATTTTATTAAAC
Found at i:67076795 original size:22 final size:22
Alignment explanation
Indices: 67076763--67076804 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
67076753 CACCATTAAA
*
67076763 ATAATAGAAAA-TAATATAATAT
1 ATAATAAAAAAGT-ATATAATAT
67076785 ATAATAAAAAAGTATATAAT
1 ATAATAAAAAAGTATATAAT
67076805 TTACTATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (22 bp):
ATAATAAAAAAGTATATAATAT
Found at i:67077583 original size:5 final size:6
Alignment explanation
Indices: 67077568--67077596 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
67077558 GCATTCGATT
67077568 TTTTTA TTTTTA TTTTTA -TTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
67077597 AATAACGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:67077589 original size:11 final size:12
Alignment explanation
Indices: 67077568--67077596 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
67077558 GCATTCGATT
67077568 TTTTTATTTTTA
1 TTTTTATTTTTA
67077580 TTTTTA-TTTTA
1 TTTTTATTTTTA
67077591 TTTTTA
1 TTTTTA
67077597 AATAACGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:67078361 original size:14 final size:14
Alignment explanation
Indices: 67078342--67078379 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
67078332 TAATTTTTAT
67078342 ATATATATATATAC
1 ATATATATATATAC
*
67078356 ATATATATACATAC
1 ATATATATATATAC
*
67078370 TTATATATAT
1 ATATATATAT
67078380 TTTATATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATATATATATAC
Found at i:67078374 original size:10 final size:10
Alignment explanation
Indices: 67078339--67078368 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
67078329 TTGTAATTTT
*
67078339 TATATATATA
1 TATATACATA
67078349 TATATACATA
1 TATATACATA
67078359 TATATACATA
1 TATATACATA
67078369 CTTATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (10 bp):
TATATACATA
Found at i:67078410 original size:12 final size:12
Alignment explanation
Indices: 67078389--67078418 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
67078379 TTTTATATTT
67078389 TATA-ATTTTTA
1 TATACATTTTTA
67078400 TATACATTTTTA
1 TATACATTTTTA
67078412 TATACAT
1 TATACAT
67078419 ATACGTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (12 bp):
TATACATTTTTA
Found at i:67078430 original size:67 final size:68
Alignment explanation
Indices: 67078343--67078474 Score: 176
Period size: 67 Copynumber: 2.0 Consensus size: 68
67078333 AATTTTTATA
* * * * * *
67078343 TATATATATATACATATATATACATACTTATATATA-TTTTATATTTTATAATTTTTATATACAT
1 TATATACATATACATATATATACATACTTACATAAACTTTTATATTTAATAATTTTGAAATACAT
67078407 TTT
66 TTT
* * *
67078410 TATATACATATACGTGTATATCCATACTTACATAAACTTTTATATTTAATAATTTTGAAATACAT
1 TATATACATATACATATATATACATACTTACATAAACTTTTATATTTAATAATTTTGAAATACAT
67078475 ATATACATTC
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
67 30 0.55
68 25 0.45
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.49
Consensus pattern (68 bp):
TATATACATATACATATATATACATACTTACATAAACTTTTATATTTAATAATTTTGAAATACAT
TTT
Found at i:67081915 original size:8 final size:8
Alignment explanation
Indices: 67081904--67081946 Score: 61
Period size: 8 Copynumber: 5.4 Consensus size: 8
67081894 TCAGACTCAA
67081904 AAAAAATC
1 AAAAAATC
67081912 AAAAAAATC
1 -AAAAAATC
67081921 AAAAAATC
1 AAAAAATC
*
67081929 AAAAAA-A
1 AAAAAATC
67081936 AAAAAATC
1 AAAAAATC
67081944 AAA
1 AAA
67081947 GTCAAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 6 0.19
8 17 0.55
9 8 0.26
ACGTcount: A:0.81, C:0.09, G:0.00, T:0.09
Consensus pattern (8 bp):
AAAAAATC
Found at i:67081954 original size:15 final size:15
Alignment explanation
Indices: 67081902--67081946 Score: 72
Period size: 17 Copynumber: 2.9 Consensus size: 15
67081892 GTTCAGACTC
67081902 AAAAAAAATCAAAAA
1 AAAAAAAATCAAAAA
67081917 AATCAAAAAATCAAAAA
1 AA--AAAAAATCAAAAA
67081934 AAAAAAAATCAAA
1 AAAAAAAATCAAA
67081947 GTCAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.82, C:0.09, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAAAAAATCAAAAA
Found at i:67082801 original size:8 final size:8
Alignment explanation
Indices: 67082788--67082840 Score: 106
Period size: 8 Copynumber: 6.6 Consensus size: 8
67082778 TTTGAGTCAA
67082788 AAAAAATG
1 AAAAAATG
67082796 AAAAAATG
1 AAAAAATG
67082804 AAAAAATG
1 AAAAAATG
67082812 AAAAAATG
1 AAAAAATG
67082820 AAAAAATG
1 AAAAAATG
67082828 AAAAAATG
1 AAAAAATG
67082836 AAAAA
1 AAAAA
67082841 GTAAAAATGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 45 1.00
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:67082847 original size:24 final size:24
Alignment explanation
Indices: 67082788--67082847 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
67082778 TTTGAGTCAA
*
67082788 AAAAAATGAAAAAATGAAAAAATG
1 AAAAAATAAAAAAATGAAAAAATG
*
67082812 AAAAAATGAAAAAATGAAAAAATG
1 AAAAAATAAAAAAATGAAAAAATG
*
67082836 AAAAAGTAAAAA
1 AAAAAATAAAAA
67082848 TGGAGAGGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (24 bp):
AAAAAATAAAAAAATGAAAAAATG
Found at i:67084088 original size:45 final size:45
Alignment explanation
Indices: 67084039--67084566 Score: 117
Period size: 45 Copynumber: 12.0 Consensus size: 45
67084029 TGAAGACATC
* * *
67084039 AGATCTTGCTTTCCTGTACTGACTGCGAAGCAGATCAAAGACAAA
1 AGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCAAAGACAAA
* * * * *
67084084 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACA
1 AGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCAAAGACAAA
* * ** * * **
67084129 A-ACCTTGCC-TCTCT-CAGTTGTGATG-G-AGCTGGTTGAAGACAAA
1 AGATCTTGCCTTC-CTGCA-CTGACA-GCGAAGCAGATCAAAGACAAA
* * * * *
67084172 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACA
1 AGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCAAAGACAAA
* * *** * * * **
67084217 A-ACCTTGCCTCTCTCGGTTGTGA-TG-G-AGCTGGTTGAAGACAAA
1 AGATCTTGCCT-TC-CTGCACTGACAGCGAAGCAGATCAAAGACAAA
* * * * *
67084260 AGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACA
1 AGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCAAAGACAAA
* * *** * * * **
67084305 A-ACCTTGCCTCTCTCGGTTGTGA-TG-G-AGCTGGTTGAAGACAAA
1 AGATCTTGCCT-TC-CTGCACTGACAGCGAAGCAGATCAAAGACAAA
* * * * *
67084348 AGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACA
1 AGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCAAAGACAAA
* * *** * * * **
67084393 A-ACCTTGCCTCTCTCGGTTGTGA-TG-G-AGCTGGTTGAAGACAAA
1 AGATCTTGCCT-TC-CTGCACTGACAGCGAAGCAGATCAAAGACAAA
* * *
67084436 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAGACACA
1 AGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCAAAGACAAA
* * * * * * **
67084481 A-ACCTTGCC-TCTCT-CAGTTG-TAGCGGAGCTGGTTGAAGACAAA
1 AGATCTTGCCTTC-CTGCA-CTGACAGCGAAGCAGATCAAAGACAAA
* * * * *
67084524 AGATCTTGCCTTCCTACATTGACAGCAAAGCAGGTCGAAGACA
1 AGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCAAAGACA
67084567 CAAACCTTGC
Statistics
Matches: 365, Mismatches: 86, Indels: 64
0.71 0.17 0.12
Matches are distributed among these distances:
42 16 0.04
43 96 0.26
44 106 0.29
45 130 0.36
46 17 0.05
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (45 bp):
AGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCAAAGACAAA
Found at i:67084184 original size:88 final size:88
Alignment explanation
Indices: 67084076--67085720 Score: 2755
Period size: 88 Copynumber: 18.7 Consensus size: 88
67084066 AAGCAGATCA
*
67084076 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCT
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
*
67084141 CTCAGTTGTGATGGAGCTGGTTG
66 CTCGGTTGTGATGGAGCTGGTTG
*
67084164 AAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
67084229 CTCGGTTGTGATGGAGCTGGTTG
66 CTCGGTTGTGATGGAGCTGGTTG
*
67084252 AAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
67084317 CTCGGTTGTGATGGAGCTGGTTG
66 CTCGGTTGTGATGGAGCTGGTTG
*
67084340 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCT
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
67084405 CTCGGTTGTGATGGAGCTGGTTG
66 CTCGGTTGTGATGGAGCTGGTTG
*
67084428 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCTCT
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
* *
67084493 CTCAGTTGT-AGCGGAGCTGGTTG
66 CTCGGTTGTGA-TGGAGCTGGTTG
* *
67084516 AAGACAAAAGATCTTGCCTTCCTACATTGACAGCAAAGCAGGTCGAAGACACAAACCTTGCCTCT
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
*
67084581 CTCGGTTGTGATGGAGTTGGTTG
66 CTCGGTTGTGATGGAGCTGGTTG
* * * *
67084604 AAGATAAAAGATCTTGTCTTCCTGCATTAACAGCGAAGCAGGTCGAAGAC-CTAAACCTTACCTC
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC-AAACCTTGCCTC
67084668 TCTCGGTTGTGATGGAGCTGGTTG
65 TCTCGGTTGTGATGGAGCTGGTTG
*
67084692 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCTCT
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
* *
67084757 TTCGGTTGTGATAGAGCTGGTTG
66 CTCGGTTGTGATGGAGCTGGTTG
* *
67084780 AAGACAAAAGATCTTGCATTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTACCTCT
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
67084845 CTCGGTTGTGATGGAGCTGGTTG
66 CTCGGTTGTGATGGAGCTGGTTG
*
67084868 AAGACAAAA-ATCTTACCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
67084932 CTCGGTTGTGATGGAGCTGGTTG
66 CTCGGTTGTGATGGAGCTGGTTG
67084955 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
67085020 CTCGGTTGTGATGGAGCTGGTTG
66 CTCGGTTGTGATGGAGCTGGTTG
* * *
67085043 AAGACAAAAGATTTTGCCTTCCTGCATTGACAGCGAAGCAGATCAAAGACACAAACCTTGCCTCT
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
* *
67085108 CTCAGTTGT-AGCGGAGCTGGTTG
66 CTCGGTTGTGA-TGGAGCTGGTTG
67085131 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
67085196 CTCGGTTGTGATGGAGCTGGTTG
66 CTCGGTTGTGATGGAGCTGGTTG
*
67085219 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCT
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
67085284 CTCGGTTGTGATGGAGCTGGTTG
66 CTCGGTTGTGATGGAGCTGGTTG
* *
67085307 AAGATAAAAGA--TTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACGCAAACCTTGCCTCT
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
*
67085370 CTCGATTGTGATGGAGCTGGTTG
66 CTCGGTTGTGATGGAGCTGGTTG
67085393 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
*
67085458 CTCGGTTGTGGTGGAGCTGGTTG
66 CTCGGTTGTGATGGAGCTGGTTG
* * **
67085481 AAGACAACAGATCTTTCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGAGGCAAACCTTGCCTCT
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
67085546 CTCGGTTGTGATGGAGCTGGTTG
66 CTCGGTTGTGATGGAGCTGGTTG
* * * *
67085569 AAGACAATAGATCTTGCCTTCTTGCATTGACAGCGAAGCAGGTCGAAGACACAAATCTTACCTCT
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
* **
67085634 CTCGGTTGT-AGTGAAGCTGGTCA
66 CTCGGTTGTGA-TGGAGCTGGTTG
* ** * * * * *
67085657 AAGATAGCAGATCTTGCCTTCTTGCATTGACAACGAAGCAGATCGAAGATACAAGCCTTGCCTC
1 AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTC
67085721 CCTAAGCGGT
Statistics
Matches: 1466, Mismatches: 81, Indels: 20
0.94 0.05 0.01
Matches are distributed among these distances:
86 82 0.06
87 88 0.06
88 1293 0.88
89 3 0.00
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (88 bp):
AAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCT
CTCGGTTGTGATGGAGCTGGTTG
Found at i:67087522 original size:23 final size:24
Alignment explanation
Indices: 67087477--67087523 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
67087467 CATGTGCATG
*
67087477 CGTACATTTTTTTTATATATTATA
1 CGTACATTTTTTGTATATATTATA
67087501 CGTACATATTTTTGTA-AT-TTATA
1 CGTACAT-TTTTTGTATATATTATA
67087524 TATATACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 9 0.43
25 7 0.33
ACGTcount: A:0.30, C:0.09, G:0.06, T:0.55
Consensus pattern (24 bp):
CGTACATTTTTTGTATATATTATA
Found at i:67087585 original size:12 final size:12
Alignment explanation
Indices: 67087564--67087593 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
67087554 TTTTATATTT
67087564 TATA-ATTTTTA
1 TATACATTTTTA
67087575 TATACATTTTTA
1 TATACATTTTTA
67087587 TATACAT
1 TATACAT
67087594 ATACGTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (12 bp):
TATACATTTTTA
Found at i:67087596 original size:67 final size:68
Alignment explanation
Indices: 67087520--67087649 Score: 172
Period size: 67 Copynumber: 1.9 Consensus size: 68
67087510 TTTTGTAATT
* * * * * *
67087520 TATATATATACATATATATACATACTTATATATA-TTTTATATTTTATAATTTTTATATACATTT
1 TATACATATACATATATATACATACTTACATAAACTTTTATATTTAATAATTTTGAAATACATTT
67087584 TTA
66 TTA
* * *
67087587 TATACATATACGTGTATATCCATACTTACATAAACTTTTATATTTAATAATTTTGAAATACAT
1 TATACATATACATATATATACATACTTACATAAACTTTTATATTTAATAATTTTGAAATACAT
67087650 ATATACATTC
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
67 28 0.53
68 25 0.47
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.49
Consensus pattern (68 bp):
TATACATATACATATATATACATACTTACATAAACTTTTATATTTAATAATTTTGAAATACATTT
TTA
Found at i:67089944 original size:54 final size:55
Alignment explanation
Indices: 67089858--67089970 Score: 185
Period size: 54 Copynumber: 2.1 Consensus size: 55
67089848 TTTTTTTTTC
* * *
67089858 TCTT-AATTCACGAAAATGACCAAATGAGTGAT-AAAGGGGGATGAATCAAAAGT
1 TCTTCAATTCACGAAAATGACCAAATGAGTGATAAAAAGGGAATAAATCAAAAGT
67089911 TCTTCAATTCACGAAAATGACCAAATGAGTGATAAAAAGGGAATAAATCAAAAGT
1 TCTTCAATTCACGAAAATGACCAAATGAGTGATAAAAAGGGAATAAATCAAAAGT
67089966 TCTTC
1 TCTTC
67089971 GCTGATAATA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
53 4 0.07
54 28 0.51
55 23 0.42
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.24
Consensus pattern (55 bp):
TCTTCAATTCACGAAAATGACCAAATGAGTGATAAAAAGGGAATAAATCAAAAGT
Found at i:67094528 original size:15 final size:14
Alignment explanation
Indices: 67094494--67094521 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
67094484 CTCTCTTAAC
67094494 AAAAATTTCAAAAA
1 AAAAATTTCAAAAA
67094508 AAAAATTTCAAAAA
1 AAAAATTTCAAAAA
67094522 TCAAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAATTTCAAAAA
Found at i:67094532 original size:18 final size:18
Alignment explanation
Indices: 67094506--67094567 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
67094496 AAATTTCAAA
* *
67094506 AAAAAAATTTCAAAAATC
1 AAAATAATTTAAAAAATC
**
67094524 AAAATAATTTTTAAAATC
1 AAAATAATTTAAAAAATC
*
67094542 TAAAATATTTATAAAAAATTC
1 -AAAATAATT-TAAAAAA-TC
67094563 AAAAT
1 AAAAT
67094568 TTTTATTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 15 0.43
19 8 0.23
20 10 0.29
21 2 0.06
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATAATTTAAAAAATC
Found at i:67094876 original size:26 final size:26
Alignment explanation
Indices: 67094847--67094900 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
67094837 TAACTCAAAT
* *
67094847 AATTTCAC-TCAATTCGACTTGATTTG
1 AATTTCACTTC-ATTCAACTCGATTTG
67094873 AATTTCACTTCATTCAACTCGATTTG
1 AATTTCACTTCATTCAACTCGATTTG
67094899 AA
1 AA
67094901 AATTTTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (26 bp):
AATTTCACTTCATTCAACTCGATTTG
Found at i:67101524 original size:51 final size:52
Alignment explanation
Indices: 67101456--67101597 Score: 214
Period size: 51 Copynumber: 2.7 Consensus size: 52
67101446 ATTACCAAGT
*
67101456 GAGTGATAAAAGGGGAATGAATCAAAAGTTCTTCAATTCACGGAAATGACC-
1 GAGTGATAAAAGGGGAATGAATCAAAAGTTCTTCAATTCACGAAAATGACCA
67101507 GAGTGATAAAAGGGGAATGAATCAAAAGTTCTTCAATTCACGAAAATGACCAAAAA
1 GAGTGATAAAAGGGGAATGAATCAAAAGTTCTTCAATTCACGAAAATGACC----A
*
67101563 TGAGTGACAAAAGGGGAATGAATCAAAAGTTCTTC
1 -GAGTGATAAAAGGGGAATGAATCAAAAGTTCTTC
67101598 GCTGATAATA
Statistics
Matches: 83, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
51 50 0.60
57 33 0.40
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.21
Consensus pattern (52 bp):
GAGTGATAAAAGGGGAATGAATCAAAAGTTCTTCAATTCACGAAAATGACCA
Found at i:67101612 original size:2 final size:2
Alignment explanation
Indices: 67101605--67101638 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
67101595 TTCGCTGATA
* *
67101605 AT AT AT AT AT AT AT AA AT AT AT AT AT CT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67101639 TTGATAAAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:67102808 original size:46 final size:46
Alignment explanation
Indices: 67102712--67102865 Score: 220
Period size: 46 Copynumber: 3.3 Consensus size: 46
67102702 GAACAGCAGT
* * * * *
67102712 AACAATATTCGGACAGCATTGATTTGCTAAAAAATGGACAACATTTA
1 AACAACATTCGGACAGCA-TAATATGCTCAAAAATGGACAGCATTTA
67102759 AACAACATTCGGACAGCATAATATGCTCAAAAATGGACAGCATTTA
1 AACAACATTCGGACAGCATAATATGCTCAAAAATGGACAGCATTTA
* *
67102805 AACAACATTC-GAGCAACATAATATGCTCAAAAATGGACAGCATTTC
1 AACAACATTCGGA-CAGCATAATATGCTCAAAAATGGACAGCATTTA
67102851 AACAACATTCGGACA
1 AACAACATTCGGACA
67102866 ACATTTTATC
Statistics
Matches: 98, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
45 2 0.02
46 77 0.79
47 19 0.19
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (46 bp):
AACAACATTCGGACAGCATAATATGCTCAAAAATGGACAGCATTTA
Found at i:67106676 original size:43 final size:42
Alignment explanation
Indices: 67106615--67106724 Score: 150
Period size: 42 Copynumber: 2.6 Consensus size: 42
67106605 CAATGAGAAC
* * *
67106615 GTCCCAAACGTGGTCTTACATGTAATCAAATAC-CGATGTCACT
1 GTCCCAAACATGGTCTTACACGTAATC--ATACACGATGTCAAT
*
67106658 GTCCCAAACATGGTCTTACACGAAATCATACACGATGTCAAT
1 GTCCCAAACATGGTCTTACACGTAATCATACACGATGTCAAT
*
67106700 GTCCCAGACATGGTCTTACACGTAA
1 GTCCCAAACATGGTCTTACACGTAA
67106725 ATCTCAAATC
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 4 0.07
42 32 0.53
43 24 0.40
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
GTCCCAAACATGGTCTTACACGTAATCATACACGATGTCAAT
Found at i:67106711 original size:42 final size:42
Alignment explanation
Indices: 67106615--67106771 Score: 147
Period size: 43 Copynumber: 3.7 Consensus size: 42
67106605 CAATGAGAAC
* * * *
67106615 GTCCCAAACGTGGTCTTACATGTAATCAAATAC-CGATGTCACT
1 GTCCCAAACATGGTCTTACACGAAATC--ATACACGATGTCAAT
67106658 GTCCCAAACATGGTCTTACACGAAATCATACACGATGTCAAT
1 GTCCCAAACATGGTCTTACACGAAATCATACACGATGTCAAT
* * * *
67106700 GTCCCAGACATGGTCTTACACGTAAATC-TCAAATCGATGCCAAC
1 GTCCCAAACATGGTCTTACACG-AAATCAT-ACA-CGATGTCAAT
* * * *
67106744 ATCCCAGACGTGATCTTACACGAAATCA
1 GTCCCAAACATGGTCTTACACGAAATCA
67106772 CATATCGAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
41 4 0.04
42 31 0.32
43 36 0.37
44 27 0.28
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
GTCCCAAACATGGTCTTACACGAAATCATACACGATGTCAAT
Found at i:67108030 original size:13 final size:13
Alignment explanation
Indices: 67108012--67108037 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67108002 TCATATGCTC
67108012 AAAATGATTGAGT
1 AAAATGATTGAGT
67108025 AAAATGATTGAGT
1 AAAATGATTGAGT
67108038 GATGAATGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
AAAATGATTGAGT
Found at i:67112524 original size:17 final size:17
Alignment explanation
Indices: 67112502--67112535 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
67112492 TCACACACTT
67112502 AAATAATAGG-ATAGATA
1 AAATAAT-GGTATAGATA
67112519 AAATAATGGTATAGATA
1 AAATAATGGTATAGATA
67112536 TACACAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (17 bp):
AAATAATGGTATAGATA
Found at i:67118999 original size:4 final size:4
Alignment explanation
Indices: 67118937--67119026 Score: 60
Period size: 4 Copynumber: 22.8 Consensus size: 4
67118927 AATAAAAAGA
* * * * * *
67118937 AAAT AAAA AAAT -TAT AAATT AAAA AAAT AAGT -AAT -AAT AGAT AAGT
1 AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * *
67118983 AAAT AAGT AAAT AAAT AAAT AAAT AAAG AATT AAAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAA
67119027 GGACTTAATT
Statistics
Matches: 64, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
3 7 0.11
4 50 0.78
5 7 0.11
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:67119001 original size:16 final size:16
Alignment explanation
Indices: 67118927--67119026 Score: 73
Period size: 16 Copynumber: 6.4 Consensus size: 16
67118917 ATAATGCTTC
*
67118927 AATAAA-AAGAAAATA
1 AATAAATAAGTAAATA
* *
67118942 AAAAAATTA-TAAATTA
1 AATAAATAAGTAAA-TA
*
67118958 AAAAAATAAGT-AAT-
1 AATAAATAAGTAAATA
*
67118972 AATAGATAAGTAAATA
1 AATAAATAAGTAAATA
* *
67118988 AGTAAATAAATAAATA
1 AATAAATAAGTAAATA
* *
67119004 AATAAAGAATTAAAATA
1 AATAAATAAGT-AAATA
67119021 AATAAA
1 AATAAA
67119027 GGACTTAATT
Statistics
Matches: 67, Mismatches: 12, Indels: 10
0.75 0.13 0.11
Matches are distributed among these distances:
14 9 0.13
15 12 0.18
16 34 0.51
17 12 0.18
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (16 bp):
AATAAATAAGTAAATA
Found at i:67131677 original size:32 final size:33
Alignment explanation
Indices: 67131629--67131694 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
67131619 TTAAGGATCC
* * *
67131629 AAAATTTTTTTACTAACTTTTATGGGACCTAAA
1 AAAATTTTTCTACTAACTTTTAAGGAACCTAAA
67131662 AAAATTTTTCT-CTAACTTTTAAGGAACCTAAA
1 AAAATTTTTCTACTAACTTTTAAGGAACCTAAA
67131694 A
1 A
67131695 CCCCATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 20 0.67
33 10 0.33
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.39
Consensus pattern (33 bp):
AAAATTTTTCTACTAACTTTTAAGGAACCTAAA
Found at i:67132593 original size:22 final size:22
Alignment explanation
Indices: 67132566--67132626 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 22
67132556 CAACTAAATC
67132566 ATTTCTCTCAATTTCTCTCT-A
1 ATTTCTCTCAATTTCTCTCTCA
* *
67132587 ATATTCTCTTAAATTC-CTCTCA
1 AT-TTCTCTCAATTTCTCTCTCA
67132609 ATTTCCTCTCAAATTTCT
1 ATTT-CTCTC-AATTTCT
67132627 ATTTAAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
21 8 0.26
22 18 0.58
23 5 0.16
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTCTCTCAATTTCTCTCTCA
Found at i:67132614 original size:11 final size:10
Alignment explanation
Indices: 67132566--67132626 Score: 59
Period size: 10 Copynumber: 5.6 Consensus size: 10
67132556 CAACTAAATC
67132566 ATTTCTCTCA
1 ATTTCTCTCA
67132576 ATTTCTCTCTA
1 ATTTCTCTC-A
*
67132587 ATATTCTCTTAA
1 AT-TTCTC-TCA
*
67132599 ATTCCTCTCA
1 ATTTCTCTCA
67132609 ATTTCCTCTCAA
1 ATTT-CTCTC-A
67132621 ATTTCT
1 ATTTCT
67132627 ATTTAAAAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
10 14 0.33
11 14 0.33
12 13 0.31
13 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (10 bp):
ATTTCTCTCA
Found at i:67139800 original size:24 final size:24
Alignment explanation
Indices: 67139773--67139819 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
67139763 TTCATGTGAA
*
67139773 AGTAGACTCATTCAGCTT-TAATTT
1 AGTA-ACTCACTCAGCTTCTAATTT
*
67139797 AGTATCTCACTCAGCTTCTAATT
1 AGTAACTCACTCAGCTTCTAATT
67139820 CAATTTCCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (24 bp):
AGTAACTCACTCAGCTTCTAATTT
Found at i:67140608 original size:46 final size:45
Alignment explanation
Indices: 67140541--67140769 Score: 332
Period size: 46 Copynumber: 5.0 Consensus size: 45
67140531 ACATTGCTAT
* * *
67140541 AACTCAGTATGATTTTCTTCACGAAAATACCATACCTACTTTTTAC
1 AACTCAGTATGGTTTTCTTCACG-AAATACCATACCTACTTTTCAG
67140587 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAG
1 AACTCAGTATGGTTTTCTTCAC-GAAATACCATACCTACTTTTCAG
* * *
67140633 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTTAT
1 AACTCAGTATGGTTTTCTTCA-CGAAATACCATACCTACTTTTCAG
*
67140679 AACTCAGTCTGGTTTTCTTCACTGAAATACCATACCTACTTTTCAG
1 AACTCAGTATGGTTTTCTTCAC-GAAATACCATACCTACTTTTCAG
* *
67140725 AACTCAGTATGGTTTTCTTTACCGAAACACCATACCTACTTTTCA
1 AACTCAGTATGGTTTTCTTCA-CGAAATACCATACCTACTTTTCA
67140770 CACTTTGTCA
Statistics
Matches: 166, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
45 1 0.01
46 162 0.98
47 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.37
Consensus pattern (45 bp):
AACTCAGTATGGTTTTCTTCACGAAATACCATACCTACTTTTCAG
Found at i:67140698 original size:92 final size:92
Alignment explanation
Indices: 67140541--67140767 Score: 393
Period size: 92 Copynumber: 2.5 Consensus size: 92
67140531 ACATTGCTAT
* *
67140541 AACTCAGTATGATTTTCTTCA-CGAAAATACCATACCTACTTTTTACAACTCAGTATGGTTTTCT
1 AACTCAGTATGGTTTTCTTCACCG-AAACACCATACCTACTTTTTACAACTCAGTATGGTTTTCT
67140605 TCACTGAAATACCATACCTACTTTTCAG
65 TCACTGAAATACCATACCTACTTTTCAG
* *
67140633 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTTATAACTCAGTCTGGTTTTCTT
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTTACAACTCAGTATGGTTTTCTT
67140698 CACTGAAATACCATACCTACTTTTCAG
66 CACTGAAATACCATACCTACTTTTCAG
*
67140725 AACTCAGTATGGTTTTCTTTACCGAAACACCATACCTACTTTT
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTT
67140768 CACACTTTGT
Statistics
Matches: 129, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
92 127 0.98
93 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.37
Consensus pattern (92 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTTACAACTCAGTATGGTTTTCTT
CACTGAAATACCATACCTACTTTTCAG
Found at i:67142622 original size:18 final size:18
Alignment explanation
Indices: 67142568--67142628 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
67142558 TGCCAGGTGC
*
67142568 GTATCCTAGTCCTTTTAT
1 GTATCCTAGCCCTTTTAT
*
67142586 GTATCCTAGCCTTTTTAT
1 GTATCCTAGCCCTTTTAT
* *
67142604 GTATCCTAACCCTTATAT
1 GTATCCTAGCCCTTTTAT
*
67142622 GTTTCCT
1 GTATCCT
67142629 TTTTCTAGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.18, C:0.25, G:0.10, T:0.48
Consensus pattern (18 bp):
GTATCCTAGCCCTTTTAT
Found at i:67143905 original size:9 final size:9
Alignment explanation
Indices: 67143891--67143922 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
67143881 TTTTGGTTAA
67143891 GAATTAACC
1 GAATTAACC
*
67143900 GAATTACCC
1 GAATTAACC
67143909 GAATTAACC
1 GAATTAACC
67143918 GAATT
1 GAATT
67143923 GAATCACTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (9 bp):
GAATTAACC
Found at i:67150007 original size:21 final size:21
Alignment explanation
Indices: 67149966--67150008 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
67149956 AATAAAGTAG
*
67149966 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
67149987 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
67150008 A
1 A
67150009 AATTCATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:67150308 original size:16 final size:16
Alignment explanation
Indices: 67150287--67150317 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
67150277 TTGATTTGCT
*
67150287 ATTACGCCTCTATTCC
1 ATTACGACTCTATTCC
67150303 ATTACGACTCTATTC
1 ATTACGACTCTATTC
67150318 TAATACAGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGACTCTATTCC
Found at i:67153494 original size:39 final size:38
Alignment explanation
Indices: 67153451--67153537 Score: 99
Period size: 39 Copynumber: 2.3 Consensus size: 38
67153441 TCTAATTTTT
* *
67153451 TTATAAAAATATT-TAAAAATTTAAAATAATATATATAAA
1 TTATAAAAATATTCTAAAAATATAAAAGAA-AT-TATAAA
* *
67153490 TTATATAAAT-TTCTTAAAATATAAAAGAAATTATAAA
1 TTATAAAAATATTCTAAAAATATAAAAGAAATTATAAA
67153527 -TATAAAAATAT
1 TTATAAAAATAT
67153538 ATGTATCTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
36 8 0.20
37 7 0.17
38 4 0.10
39 22 0.54
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (38 bp):
TTATAAAAATATTCTAAAAATATAAAAGAAATTATAAA
Found at i:67163724 original size:6 final size:6
Alignment explanation
Indices: 67163713--67163761 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
67163703 TTCTCTTGGT
* *
67163713 TAGGAA TGGGAA TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA TTGGAA
1 TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA
67163761 T
1 T
67163762 CCCATTGCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.20
Consensus pattern (6 bp):
TAGGAA
Found at i:67164504 original size:15 final size:15
Alignment explanation
Indices: 67164484--67164514 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
67164474 AAAATGATCT
67164484 CTTAAAGGATCCTTG
1 CTTAAAGGATCCTTG
67164499 CTTAAAGGATCCTTG
1 CTTAAAGGATCCTTG
67164514 C
1 C
67164515 CTGGGTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (15 bp):
CTTAAAGGATCCTTG
Found at i:67181761 original size:31 final size:31
Alignment explanation
Indices: 67181720--67181836 Score: 88
Period size: 31 Copynumber: 3.9 Consensus size: 31
67181710 TCAACTTTAA
67181720 AAAAAATGTCAAGTCTAG-GTACCAAATTAGG
1 AAAAAATGTCAAGT-TAGAGTACCAAATTAGG
* *
67181751 AAAAAGTGTCAAGTTTGAGTACCAAATT-GG
1 AAAAAATGTCAAGTTAGAGTACCAAATTAGG
* *
67181781 ACCAAAAA----AAGTTTAG-GTATCAAATTAAG
1 A--AAAAATGTCAAG-TTAGAGTACCAAATTAGG
*
67181810 AAAAATTGTCAAGTTCAGA-TACCAAAT
1 AAAAAATGTCAAGTT-AGAGTACCAAAT
67181837 ATTATATTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 22
0.69 0.08 0.23
Matches are distributed among these distances:
27 4 0.06
28 12 0.18
29 5 0.07
30 7 0.10
31 35 0.52
32 4 0.06
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (31 bp):
AAAAAATGTCAAGTTAGAGTACCAAATTAGG
Found at i:67181975 original size:16 final size:17
Alignment explanation
Indices: 67181944--67181980 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
67181934 TTATTGAGAT
67181944 ATTATAAAATAATAAAA
1 ATTATAAAATAATAAAA
67181961 ATTATAAAA-AATAAAA
1 ATTATAAAATAATAAAA
67181977 ATTA
1 ATTA
67181981 CTTTTGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
ATTATAAAATAATAAAA
Found at i:67183011 original size:17 final size:18
Alignment explanation
Indices: 67182989--67183022 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
67182979 TTAATGTCGA
67182989 AGAAAAA-GTTCATGAAT
1 AGAAAAATGTTCATGAAT
*
67183006 AGAAAAATTTTCATGAA
1 AGAAAAATGTTCATGAA
67183023 GTTATTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.06, G:0.15, T:0.26
Consensus pattern (18 bp):
AGAAAAATGTTCATGAAT
Found at i:67183626 original size:30 final size:31
Alignment explanation
Indices: 67183580--67183643 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
67183570 TTTTATTATG
67183580 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
* *
67183611 CCAATAT-TTGATACCCATATCTTTGATTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
67183641 CCA
1 CCA
67183644 TAAATATGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.27, C:0.27, G:0.06, T:0.41
Consensus pattern (31 bp):
CCAATATCTCGATACCCATATCTTTGACTTT
Found at i:67183635 original size:15 final size:15
Alignment explanation
Indices: 67183590--67183637 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
67183580 CCAATATCTC
67183590 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
67183605 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
67183620 GATACCCATATCTTT
1 GATACCCATATCTTT
67183635 GAT
1 GAT
67183638 TTTCCATAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:67188260 original size:30 final size:31
Alignment explanation
Indices: 67188214--67188277 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
67188204 TTTTATTATG
67188214 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
* *
67188245 CCAATAT-TTGATACCCATATCTTTGATTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
67188275 CCA
1 CCA
67188278 TAAATATGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.27, C:0.27, G:0.06, T:0.41
Consensus pattern (31 bp):
CCAATATCTCGATACCCATATCTTTGACTTT
Found at i:67188269 original size:15 final size:15
Alignment explanation
Indices: 67188224--67188271 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
67188214 CCAATATCTC
67188224 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
67188239 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
67188254 GATACCCATATCTTT
1 GATACCCATATCTTT
67188269 GAT
1 GAT
67188272 TTTCCATAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:67194337 original size:18 final size:17
Alignment explanation
Indices: 67194286--67194340 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
67194276 TTTATCCCAG
*
67194286 TAATAAAAATTTTAAATT
1 TAATAAAATTTTTAAA-T
* **
67194304 TAGTAAAATTACTAAAT
1 TAATAAAATTTTTAAAT
67194321 TAATACAAATTTTTAAAT
1 TAATA-AAATTTTTAAAT
67194339 TA
1 TA
67194341 TTTGCCAAAC
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
17 5 0.17
18 24 0.83
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (17 bp):
TAATAAAATTTTTAAAT
Found at i:67199063 original size:30 final size:30
Alignment explanation
Indices: 67199027--67199084 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
67199017 AAAAATAAAA
*
67199027 TATAGAAAAA-TATTAAAATTTATGAAAACG
1 TATAGAAAAACT-TTAAAATTTATAAAAACG
*
67199057 TATAGAAAAACTTTAAATTTTATAAAAA
1 TATAGAAAAACTTTAAAATTTATAAAAA
67199085 TATAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (30 bp):
TATAGAAAAACTTTAAAATTTATAAAAACG
Found at i:67199119 original size:58 final size:58
Alignment explanation
Indices: 67199023--67199198 Score: 137
Period size: 58 Copynumber: 3.0 Consensus size: 58
67199013 TTGAAAAAAT
* * **
67199023 AAAATATAGAAAA-ATATTAAAATTTATGAA-AACGTATAGAAAAACTTTAAATTTTATA
1 AAAATATA-AAAATTTACTAAAATTTAT-AATAAAATATAGAAAAACTTTAAATTTTATA
*** *
67199081 AAAATATAAAAATTTACTAAAATTTATAATAAAATATAGAAAATACAGAAAATATTA-A
1 AAAATATAAAAATTTACTAAAATTTATAATAAAATATAGAAAA-ACTTTAAATTTTATA
* * * *
67199139 AAAATA-AAAACTTTATCAAAAAATATAATATATAAAATATA-AAAAATTATTAAATTTTAT
1 AAAATATAAAAATTTA-C-TAAAAT-TTATA-ATAAAATATAGAAAAACT-TTAAATTTTAT
67199199 TATCAATTAT
Statistics
Matches: 93, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
57 14 0.15
58 39 0.42
59 15 0.16
60 15 0.16
61 10 0.11
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (58 bp):
AAAATATAAAAATTTACTAAAATTTATAATAAAATATAGAAAAACTTTAAATTTTATA
Found at i:67199363 original size:39 final size:37
Alignment explanation
Indices: 67199290--67199379 Score: 96
Period size: 39 Copynumber: 2.4 Consensus size: 37
67199280 AAACTCTTTA
*
67199290 AAAAATTAAAAATTATTATAAATTTATCATAAAAGAT
1 AAAAATTAAAAATTATTAAAAATTTATCATAAAAGAT
67199327 AAAAATATAGAAAATTTATTAAAAA-TTAT-ATAAAAAGA-
1 AAAAAT-TA-AAAA-TTATTAAAAATTTATCAT-AAAAGAT
*
67199365 AAGAAATTATAAATT
1 AA-AAATTAAAAATT
67199380 TTTGGCAGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
36 2 0.04
37 9 0.20
38 8 0.17
39 18 0.39
40 9 0.20
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (37 bp):
AAAAATTAAAAATTATTAAAAATTTATCATAAAAGAT
Found at i:67206527 original size:23 final size:23
Alignment explanation
Indices: 67206501--67206544 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
67206491 TAAATTGGAT
*
67206501 TTGGTCTTTCACTTTTATTTTGA
1 TTGGTCGTTCACTTTTATTTTGA
*
67206524 TTGGTCGTTGACTTTTATTTT
1 TTGGTCGTTCACTTTTATTTT
67206545 AAACGACTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.16, T:0.61
Consensus pattern (23 bp):
TTGGTCGTTCACTTTTATTTTGA
Found at i:67210937 original size:6 final size:6
Alignment explanation
Indices: 67210928--67210955 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
67210918 ATTTATAATT
67210928 ATTTGA ATTTGA ATTTGA ATTTGA ATTT
1 ATTTGA ATTTGA ATTTGA ATTTGA ATTT
67210956 AAAAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (6 bp):
ATTTGA
Found at i:67212486 original size:9 final size:9
Alignment explanation
Indices: 67212472--67212548 Score: 55
Period size: 9 Copynumber: 7.8 Consensus size: 9
67212462 CCATTTATTG
67212472 ATTTTTAAT
1 ATTTTTAAT
67212481 ATTTTTAAT
1 ATTTTTAAT
*
67212490 AATATTTGAAT
1 -AT-TTTTAAT
67212501 ATTTTTATAATT
1 A-TTTT-TAA-T
* *
67212513 GTCTTTTAAC
1 AT-TTTTAAT
67212523 ATTTTTATAT
1 ATTTTTA-AT
67212533 ATTTTTAAT
1 ATTTTTAAT
*
67212542 AATTTTA
1 ATTTTTA
67212549 TTTTTAAAGA
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
9 22 0.41
10 15 0.28
11 13 0.24
12 4 0.07
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:67218316 original size:42 final size:42
Alignment explanation
Indices: 67218050--67218323 Score: 379
Period size: 42 Copynumber: 6.5 Consensus size: 42
67218040 GAACAGAAGT
*
67218050 ATCCTAATTGA-GTAGGGATTAAATGAAAAAGTAAAAACATAA
1 ATCCTAATTGAGGT-GGGATTAAATGAAAAACTAAAAACATAA
* * *
67218092 ATCTTAATTGATGTAGGATTAAATGAAAAACTAAAAACATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAACATAA
* ** *
67218134 ATCCTATTTGACCTGAGATTAAATGAAAAACTAAAAACATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAACATAA
* * *
67218176 ATCCTAATTGACGTGAGATTAAATGAAAAACTAGAAACATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAACATAA
* * *
67218218 ATCCTAATTGAGGTAGGATTAAATGAAAAATTAAAAAGATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAACATAA
* *
67218260 ATCCTAATTGAGGTGGGATTAAATGAAAAACTACAAAGATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAACATAA
*
67218302 ATCCTAATTGAGGTGGGTTTAA
1 ATCCTAATTGAGGTGGGATTAA
67218324 TTGTGGGGCT
Statistics
Matches: 209, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
42 207 0.99
43 2 0.01
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.26
Consensus pattern (42 bp):
ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAACATAA
Found at i:67221878 original size:21 final size:21
Alignment explanation
Indices: 67221854--67221894 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
67221844 GTTGCTACCT
*
67221854 TTTCCACCACTTCCGCCACCG
1 TTTCCACCACTTCCACCACCG
*
67221875 TTTCCACCCCTTCCACCACC
1 TTTCCACCACTTCCACCACC
67221895 ATCTCTGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.56, G:0.05, T:0.24
Consensus pattern (21 bp):
TTTCCACCACTTCCACCACCG
Found at i:67224473 original size:28 final size:30
Alignment explanation
Indices: 67224405--67224487 Score: 93
Period size: 28 Copynumber: 2.9 Consensus size: 30
67224395 TAAAAAAAAA
67224405 TTTACTAACTTTTAAGGGCCTCAAAATTTT
1 TTTACTAACTTTTAAGGGCCTCAAAATTTT
* * *
67224435 TTT-TTAGCTTTTAAGGG-TTC-AAATTTT
1 TTTACTAACTTTTAAGGGCCTCAAAATTTT
*
67224462 TTTACCAACTTTTAAGGGACCT-AAAA
1 TTTACTAACTTTTAAGGG-CCTCAAAA
67224488 GAATTTTTCT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
27 10 0.24
28 13 0.31
29 12 0.29
30 7 0.17
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (30 bp):
TTTACTAACTTTTAAGGGCCTCAAAATTTT
Found at i:67224507 original size:32 final size:33
Alignment explanation
Indices: 67224456--67224519 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 33
67224446 TAAGGGTTCA
* *
67224456 AATTTTTTTACCAACTTTTAAGGGACCTAAAAG
1 AATTTTTCTACCAACTTTTAAGGAACCTAAAAG
* *
67224489 AATTTTTCT-CCAATTTTTAAGGAATCTAAAA
1 AATTTTTCTACCAACTTTTAAGGAACCTAAAA
67224520 CCCCATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 19 0.70
33 8 0.30
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (33 bp):
AATTTTTCTACCAACTTTTAAGGAACCTAAAAG
Found at i:67225153 original size:24 final size:25
Alignment explanation
Indices: 67225112--67225159 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
67225102 TATATTAATT
67225112 TTTTTTAGTTTAAAT-AAAATATTA
1 TTTTTTAGTTTAAATAAAAATATTA
* * *
67225136 TTTTTTATTTTTATTAAAAATATT
1 TTTTTTAGTTTAAATAAAAATATT
67225160 CAAATATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTTTTAGTTTAAATAAAAATATTA
Found at i:67225416 original size:14 final size:14
Alignment explanation
Indices: 67225369--67225417 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
67225359 ATCGGAAAAG
*
67225369 AGAAAGAA-AAGAG
1 AGAAAGAAGAAGAA
*
67225382 AGAAAGGAGAAG-A
1 AGAAAGAAGAAGAA
67225395 AGAGAAGAAGAAGAA
1 AGA-AAGAAGAAGAA
67225410 AGAAAGAA
1 AGAAAGAA
67225418 AGGTATTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 10 0.33
14 16 0.53
15 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
AGAAAGAAGAAGAA
Found at i:67226377 original size:56 final size:55
Alignment explanation
Indices: 67226234--67226404 Score: 242
Period size: 56 Copynumber: 3.1 Consensus size: 55
67226224 AATAGTATGT
*
67226234 TTTTTTGTAATCGTGCCTATCTGACAGGC-CAATCAATTTTTTATATTAAAAAA-A
1 TTTTTT-TAATCGCGCCTATCTGACAGGCGCAATCAATTTTTTATATTAAAAAATA
* * *
67226288 --ATTTTAGTCGCGCCTATCTGACAGACGCGAATCAATTTTTTATATTAAAAAATA
1 TTTTTTTAATCGCGCCTATCTGACAGGCGC-AATCAATTTTTTATATTAAAAAATA
*
67226342 TTTTTTTAATCGCACCTATCTGACAGGCGCAAATCAATTTTTTATATTAAAAAATA
1 TTTTTTTAATCGCGCCTATCTGACAGGCGC-AATCAATTTTTTATATTAAAAAATA
67226398 TTTTTTT
1 TTTTTTT
67226405 TAAATAAAAT
Statistics
Matches: 103, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
51 19 0.18
52 4 0.04
53 23 0.22
54 1 0.01
56 56 0.54
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (55 bp):
TTTTTTTAATCGCGCCTATCTGACAGGCGCAATCAATTTTTTATATTAAAAAATA
Found at i:67226677 original size:16 final size:16
Alignment explanation
Indices: 67226656--67226692 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
67226646 TTAACTCATT
*
67226656 TAATTTTTATATAATG
1 TAATTTTTATATAATA
67226672 TAATTTTTATATAATA
1 TAATTTTTATATAATA
67226688 TAATT
1 TAATT
67226693 GTATTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TAATTTTTATATAATA
Found at i:67229137 original size:10 final size:10
Alignment explanation
Indices: 67229119--67229154 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
67229109 TTCTTCGTGT
67229119 TTTTATTTTG
1 TTTTATTTTG
*
67229129 TTTTGTTTTG
1 TTTTATTTTG
*
67229139 TTTTATTTTA
1 TTTTATTTTG
67229149 TTTTAT
1 TTTTAT
67229155 ATATATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.81
Consensus pattern (10 bp):
TTTTATTTTG
Found at i:67229464 original size:30 final size:30
Alignment explanation
Indices: 67229399--67229508 Score: 100
Period size: 30 Copynumber: 3.7 Consensus size: 30
67229389 CTTTAAATCG
* * *
67229399 CATTTTAGACCCTAAAATTTCCTATATTTA
1 CATTTTAGCCCCTAAAATTTCCTAAAATTA
* * *
67229429 TATTTTAGCCCCTAAACTTTCCAAAAATTA
1 CATTTTAGCCCCTAAAATTTCCTAAAATTA
* * *
67229459 CATTTTGGCCCC-ATATTTTCCTAAAATTA
1 CATTTTAGCCCCTAAAATTTCCTAAAATTA
67229488 CACTTTTA--CCCTAGAAATTTC
1 CA-TTTTAGCCCCTA-AAATTTC
67229509 GCATCTTCTG
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
28 3 0.05
29 17 0.27
30 43 0.68
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.40
Consensus pattern (30 bp):
CATTTTAGCCCCTAAAATTTCCTAAAATTA
Found at i:67230010 original size:3 final size:3
Alignment explanation
Indices: 67230002--67230046 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
67229992 GTTCGGCCCA
* *
67230002 AAG AAG AAG AAG AAG AAG AAAG AAG AAA AAG AAAG AAG AAA AAG A
1 AAG AAG AAG AAG AAG AAG -AAG AAG AAG AAG -AAG AAG AAG AAG A
67230047 GAAAGAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 30 0.83
4 6 0.17
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:67230026 original size:13 final size:13
Alignment explanation
Indices: 67230008--67230061 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
67229998 CCCAAAGAAG
*
67230008 AAGAAGAAGAAGA
1 AAGAAGAAAAAGA
67230021 AAGAAGAAAAAGA
1 AAGAAGAAAAAGA
67230034 AAGAAGAAAAAGA
1 AAGAAGAAAAAGA
*
67230047 GA-AAGAAAAAAGA
1 AAGAAG-AAAAAGA
67230060 AA
1 AA
67230062 AAAAAATCAC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
12 3 0.08
13 34 0.92
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAAAGA
Found at i:67230051 original size:19 final size:19
Alignment explanation
Indices: 67230005--67230067 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
67229995 CGGCCCAAAG
*
67230005 AAGAAGAAG-AAGAAGAAA
1 AAGAAAAAGAAAGAAGAAA
67230023 GAAGAAAAAGAAAGAAGAAA
1 -AAGAAAAAGAAAGAAGAAA
* *
67230043 AAGAGAAAGAAAAAAGAAA
1 AAGAAAAAGAAAGAAGAAA
67230062 AA-AAAA
1 AAGAAAA
67230068 TCACAGTCGG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
18 3 0.08
19 27 0.69
20 9 0.23
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
AAGAAAAAGAAAGAAGAAA
Found at i:67230055 original size:11 final size:10
Alignment explanation
Indices: 67230014--67230067 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
67230004 GAAGAAGAAG
* *
67230014 AAGAAGAAAG
1 AAGAAAAAAA
*
67230024 AAGAAAAAGA
1 AAGAAAAAAA
67230034 AAGAAGAAAAA
1 AAGAA-AAAAA
*
67230045 GAGAAAGAAAA
1 AAGAAA-AAAA
67230056 AAGAAAAAAA
1 AAGAAAAAAA
67230066 AA
1 AA
67230068 TCACAGTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
10 19 0.53
11 17 0.47
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:67230062 original size:6 final size:6
Alignment explanation
Indices: 67230005--67230067 Score: 65
Period size: 6 Copynumber: 10.2 Consensus size: 6
67229995 CGGCCCAAAG
* * *
67230005 AAGAAG AAGAAG AAGAAA GAAGAAA AAGAAA GAAGAAA AAGAGA AAGAAAA
1 AAGAAA AAGAAA AAGAAA -AAGAAA AAGAAA -AAGAAA AAGAAA AAG-AAA
67230056 AAGAAA AA-AAA A
1 AAGAAA AAGAAA A
67230068 TCACAGTCGG
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
5 4 0.08
6 30 0.59
7 17 0.33
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:67230916 original size:20 final size:21
Alignment explanation
Indices: 67230883--67230923 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
67230873 TGTTTCGAAA
*
67230883 TTTTCTTGTCTTCAAAATTTT
1 TTTTCATGTCTTCAAAATTTT
67230904 TTTTCATGT-TTCAAAATTTT
1 TTTTCATGTCTTCAAAATTTT
67230924 CGCATTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.22, C:0.12, G:0.05, T:0.61
Consensus pattern (21 bp):
TTTTCATGTCTTCAAAATTTT
Found at i:67230951 original size:18 final size:17
Alignment explanation
Indices: 67230928--67231221 Score: 140
Period size: 18 Copynumber: 16.5 Consensus size: 17
67230918 AATTTTCGCA
67230928 TTTCAAAAATCTTCGTGT
1 TTTCAAAAAT-TTCGTGT
*
67230946 TTTCAAAAGTTTCGATG-
1 TTTCAAAAATTTCG-TGT
*
67230963 TTTCAAAAATTTCCGCG-
1 TTTCAAAAATTT-CGTGT
* * *
67230980 TTTCCAAAATTCCGGTGA
1 TTTCAAAAATTTC-GTGT
*
67230998 TTTAAAAAATCTTCGTGT
1 TTTCAAAAAT-TTCGTGT
* *
67231016 TTTCAAAAACTCTAGTG-
1 TTTCAAAAA-TTTCGTGT
* *
67231033 TTTC-AAATTTTCATGT
1 TTTCAAAAATTTCGTGT
67231049 TTTCAAAAAAAAAATTCTCGTGT
1 TTTC-----AAAAATT-TCGTGT
67231072 TTT-AAAAACTTTCGTGT
1 TTTCAAAAA-TTTCGTGT
*
67231089 TTTCAAAAATTTTTGTGT
1 TTTCAAAAA-TTTCGTGT
*
67231107 TTTCAACAATTCTCGTGT
1 TTTCAAAAATT-TCGTGT
* * *
67231125 TTT-ACAAATTT-TTGCG
1 TTTCAAAAATTTCGTG-T
**
67231141 TTTCAAAAAAAATCGTGT
1 TTTC-AAAAATTTCGTGT
67231159 TTTCAAAAAAAATTCTCGTG-
1 TTTC---AAAAATT-TCGTGT
67231179 TTTC-AAAATTCTCGTGT
1 TTTCAAAAATT-TCGTGT
*
67231196 TTT-AAAAATTTTCATGT
1 TTTCAAAAA-TTTCGTGT
*
67231213 TTTTAAAAA
1 TTTCAAAAA
67231222 AATATTTGTT
Statistics
Matches: 213, Mismatches: 35, Indels: 56
0.70 0.12 0.18
Matches are distributed among these distances:
15 6 0.03
16 24 0.11
17 68 0.32
18 82 0.38
19 5 0.02
20 10 0.05
21 5 0.02
22 5 0.02
23 8 0.04
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (17 bp):
TTTCAAAAATTTCGTGT
Found at i:67230953 original size:17 final size:16
Alignment explanation
Indices: 67230928--67231220 Score: 90
Period size: 17 Copynumber: 16.5 Consensus size: 16
67230918 AATTTTCGCA
67230928 TTTCAAAAATCTTCGTGT
1 TTTC-AAAAT-TTCGTGT
67230946 TTTCAAAAGTTTCGATG-
1 TTTCAAAA-TTTCG-TGT
*
67230963 TTTCAAAAATTTCCGCGT
1 TTTC-AAAATTT-CGTGT
* *
67230981 TTCCAAAATTCCGGTGAT
1 TTTCAAAATTTC-GTG-T
**
67230999 TTAAAAAATCTTCGTGT
1 TTTCAAAAT-TTCGTGT
**
67231016 TTTCAAAAACTC-TAGT
1 TTTCAAAATTTCGT-GT
* *
67231032 GTTTCAAATTTTCATGT
1 -TTTCAAAATTTCGTGT
67231049 TTTCAAAAAAAAAATTCTCGTGT
1 TTTC------AAAATT-TCGTGT
*
67231072 TTTAAAAACTTTCGTGT
1 TTTCAAAA-TTTCGTGT
*
67231089 TTTCAAAAATTTTTGTGT
1 TTTC-AAAA-TTTCGTGT
67231107 TTTCAACAATTCTCGTGT
1 TTTCAA-AATT-TCGTGT
* * *
67231125 TTTACAAATTTTTGCG-
1 TTT-CAAAATTTCGTGT
**
67231141 TTTCAAAAAAAATCGTGT
1 TTTC--AAAATTTCGTGT
67231159 TTTCAAAAAAAATTCTCGTG-
1 TTTC----AAAATT-TCGTGT
67231179 TTTCAAAATTCTCGTGT
1 TTTCAAAATT-TCGTGT
* *
67231196 TTTAAAAATTTTCATGT
1 TTTCAAAA-TTTCGTGT
*
67231213 TTTTAAAA
1 TTTCAAAA
67231221 AAATATTTGT
Statistics
Matches: 210, Mismatches: 34, Indels: 63
0.68 0.11 0.21
Matches are distributed among these distances:
15 2 0.01
16 24 0.11
17 87 0.41
18 64 0.30
19 5 0.02
20 10 0.05
21 5 0.02
22 5 0.02
23 8 0.04
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTCAAAATTTCGTGT
Found at i:67231023 original size:35 final size:36
Alignment explanation
Indices: 67230927--67231023 Score: 119
Period size: 35 Copynumber: 2.8 Consensus size: 36
67230917 AAATTTTCGC
*
67230927 ATTTCAAAAATCTTCGTGTTTTCAAAAGTTTCGATG
1 ATTTCAAAAATCTTCGTGTTTTCAAAAGTTCCGATG
* * *
67230963 -TTTCAAAAAT-TTCCGCGTTTCCAAAA-TTCCGGTG
1 ATTTCAAAAATCTT-CGTGTTTTCAAAAGTTCCGATG
*
67230997 ATTTAAAAAATCTTCGTGTTTTCAAAA
1 ATTTCAAAAATCTTCGTGTTTTCAAAA
67231024 ACTCTAGTGT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
34 8 0.16
35 41 0.80
36 2 0.04
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (36 bp):
ATTTCAAAAATCTTCGTGTTTTCAAAAGTTCCGATG
Found at i:67231072 original size:23 final size:22
Alignment explanation
Indices: 67231037--67231079 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
67231027 CTAGTGTTTC
*
67231037 AAATTTTCATGTTTTCAAAAAAA
1 AAATTCTCATGTTTT-AAAAAAA
*
67231060 AAATTCTCGTGTTTTAAAAA
1 AAATTCTCATGTTTTAAAAA
67231080 CTTTCGTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (22 bp):
AAATTCTCATGTTTTAAAAAAA
Found at i:67231107 original size:35 final size:34
Alignment explanation
Indices: 67230932--67231221 Score: 117
Period size: 35 Copynumber: 8.1 Consensus size: 34
67230922 TTCGCATTTC
* * *
67230932 AAAAATCTTCGTGTTTTC-AAAAGTTTCGATGTTTC
1 AAAAAT-TTCGTGTTTTCAAAAATTTTTG-TGTTTT
* * *** *
67230967 AAAAATTTCCGCG-TTTCCAAAATTCCGGTGATTTA
1 AAAAATTT-CGTGTTTTCAAAAATTTTTGTG-TTTT
* * *
67231002 AAAAATCTTCGTGTTTTCAAAAACTCTAGTG-TTT
1 AAAAAT-TTCGTGTTTTCAAAAATTTTTGTGTTTT
* * * * *
67231036 CAAATTTTCATGTTTTCAAAAAAAAAATTCTCGTGTTTT
1 AAAAATTTCGTGTTTTC-----AAAAATTTTTGTGTTTT
67231075 AAAAACTTTCGTGTTTTCAAAAATTTTTGTGTTTT
1 AAAAA-TTTCGTGTTTTCAAAAATTTTTGTGTTTT
* * * *
67231110 CAACAATTCTCGTGTTTT-ACAAATTTTTGCGTTTCA
1 -AAAAATT-TCGTGTTTTCAAAAATTTTTGTGTTT-T
** * *
67231146 AAAAAAATCGTGTTTTCAAAAAAAATTCTCGTG-TTT
1 AAAAATTTCGTGTTTTC---AAAAATTTTTGTGTTTT
*
67231182 CAAAATTCTCGTGTTTT-AAAAATTTTCATGT-TTTT
1 AAAAATT-TCGTGTTTTCAAAAATTTT--TGTGTTTT
67231217 AAAAA
1 AAAAA
67231222 AATATTTGTT
Statistics
Matches: 192, Mismatches: 40, Indels: 46
0.69 0.14 0.17
Matches are distributed among these distances:
33 18 0.09
34 23 0.12
35 71 0.37
36 32 0.17
37 11 0.06
38 20 0.10
39 6 0.03
40 11 0.06
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (34 bp):
AAAAATTTCGTGTTTTCAAAAATTTTTGTGTTTT
Found at i:67231186 original size:16 final size:16
Alignment explanation
Indices: 67231167--67231202 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
67231157 GTTTTCAAAA
67231167 AAAATTCTCGTGTTTC
1 AAAATTCTCGTGTTTC
*
67231183 AAAATTCTCGTGTTTT
1 AAAATTCTCGTGTTTC
67231199 AAAA
1 AAAA
67231203 ATTTTCATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (16 bp):
AAAATTCTCGTGTTTC
Found at i:67231232 original size:35 final size:35
Alignment explanation
Indices: 67231193--67231259 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
67231183 AAAATTCTCG
* * **
67231193 TGTTTTAAAAATTTTCATGTTTTTAAAAAAATATT
1 TGTTTCAAAAATCTTCATGTTTAAAAAAAAATATT
*
67231228 TGTTTCAAAAATCTTCTTGTTTAAAAAAAAAT
1 TGTTTCAAAAATCTTCATGTTTAAAAAAAAAT
67231260 TCGTATTTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (35 bp):
TGTTTCAAAAATCTTCATGTTTAAAAAAAAATATT
Found at i:67235072 original size:14 final size:15
Alignment explanation
Indices: 67235050--67235079 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
67235040 TTAGATTAGT
67235050 TTTTATTTAAAAATA
1 TTTTATTTAAAAATA
67235065 TTTT-TTTAAAAATA
1 TTTTATTTAAAAATA
67235079 T
1 T
67235080 AATACACTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTATTTAAAAATA
Found at i:67237596 original size:26 final size:26
Alignment explanation
Indices: 67237567--67237616 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
67237557 ATATTATTTT
*
67237567 TATATAAAATA-AATTTAAAAATATAA
1 TATATAAAATACAA-TAAAAAATATAA
*
67237593 TATATCAAATACAATAAAAAATAT
1 TATATAAAATACAATAAAAAATAT
67237617 TAAAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 19 0.90
27 2 0.10
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (26 bp):
TATATAAAATACAATAAAAAATATAA
Found at i:67240905 original size:15 final size:16
Alignment explanation
Indices: 67240870--67240908 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
67240860 TTATTTACTA
67240870 TTAATAATTAATAAATGT
1 TTAAT-ATTAATAAA-GT
67240888 TTAATATTAATAAA-T
1 TTAATATTAATAAAGT
67240903 TTAATA
1 TTAATA
67240909 ATTCTCAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.33
17 9 0.43
18 5 0.24
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
TTAATATTAATAAAGT
Found at i:67242026 original size:32 final size:32
Alignment explanation
Indices: 67241985--67242050 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
67241975 ATTATAATCC
67241985 AATTAAGATAGGTGAAATGATAGTAAAATAGT
1 AATTAAGATAGGTGAAATGATAGTAAAATAGT
*
67242017 AATTAAGATAGGTGAAATTATAGTAAAATAGT
1 AATTAAGATAGGTGAAATGATAGTAAAATAGT
67242049 AA
1 AA
67242051 ATAAAAATAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.29
Consensus pattern (32 bp):
AATTAAGATAGGTGAAATGATAGTAAAATAGT
Found at i:67242065 original size:21 final size:20
Alignment explanation
Indices: 67242036--67242076 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
67242026 AGGTGAAATT
* *
67242036 ATAGTAAAATAGTAAATAAAA
1 ATAGAAAAAAAGTAAA-AAAA
67242057 ATAGAAAAAAAGTAAAAAAA
1 ATAGAAAAAAAGTAAAAAAA
67242077 TGCAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (20 bp):
ATAGAAAAAAAGTAAAAAAA
Found at i:67243553 original size:17 final size:16
Alignment explanation
Indices: 67243528--67243572 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
67243518 TAAAATTAAG
67243528 AAAATAAAAAATAATA
1 AAAATAAAAAATAATA
* *
67243544 AAACATAAAAGATTATA
1 AAA-ATAAAAAATAATA
67243561 AAAACTAAAAAA
1 AAAA-TAAAAAA
67243573 ATTATAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAATAAAAAATAATA
Found at i:67254709 original size:31 final size:30
Alignment explanation
Indices: 67254665--67254732 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
67254655 AATTTAATTA
* *
67254665 TTAACTTCTTTAAAAGATT-AGTGATCAAAT
1 TTAACTTCTTTAAAAAATTAAATG-TCAAAT
*
67254695 TTAACTCTTTTTAAAAAATTAAATGTCAAAT
1 TTAACT-TCTTTAAAAAATTAAATGTCAAAT
67254726 TTAACTT
1 TTAACTT
67254733 AAAAAAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 7 0.21
31 23 0.70
32 3 0.09
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (30 bp):
TTAACTTCTTTAAAAAATTAAATGTCAAAT
Found at i:67260064 original size:30 final size:31
Alignment explanation
Indices: 67260005--67260064 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
67259995 TGTATTTTGA
* * *
67260005 CTTTCAAAAATAATAAATTTTTAATTTAATC
1 CTTTCAAAAATAATAAATATATAAATTAATC
*
67260036 CTTT-AAAAATTATAAATATATAAATTAAT
1 CTTTCAAAAATAATAAATATATAAATTAAT
67260065 AAAATAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (31 bp):
CTTTCAAAAATAATAAATATATAAATTAATC
Found at i:67260737 original size:33 final size:31
Alignment explanation
Indices: 67260670--67260737 Score: 73
Period size: 33 Copynumber: 2.1 Consensus size: 31
67260660 ACAAAACTAT
* * * *
67260670 TTTTTTTGTTGTTTTTACTGTTTTGCTGTTA
1 TTTTCTTGTTGTTTTTACTATTTTGCTATCA
*
67260701 TTTTCTTGTTGTTTTCTTACTATTTTGTTATCA
1 TTTTCTTGTTG-TTT-TTACTATTTTGCTATCA
67260734 TTTT
1 TTTT
67260738 AATATTATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 10 0.33
32 3 0.10
33 17 0.57
ACGTcount: A:0.09, C:0.09, G:0.12, T:0.71
Consensus pattern (31 bp):
TTTTCTTGTTGTTTTTACTATTTTGCTATCA
Found at i:67263637 original size:16 final size:15
Alignment explanation
Indices: 67263607--67263642 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
67263597 TTATATTGTC
67263607 TATATTTTTTATAGA
1 TATATTTTTTATAGA
*
67263622 TATATTTTTATCTAGA
1 TATATTTTT-TATAGA
67263638 TATAT
1 TATAT
67263643 AAGATCTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (15 bp):
TATATTTTTTATAGA
Found at i:67264892 original size:16 final size:16
Alignment explanation
Indices: 67264873--67264909 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
67264863 TTTTAATAAT
67264873 TTAAATTTAAATTTGG
1 TTAAATTTAAATTTGG
*
67264889 TTAAATTTCAATTTGG
1 TTAAATTTAAATTTGG
67264905 TTAAA
1 TTAAA
67264910 CCAATTTCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.49
Consensus pattern (16 bp):
TTAAATTTAAATTTGG
Found at i:67266979 original size:22 final size:22
Alignment explanation
Indices: 67266954--67266997 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
67266944 AAAAAAAGTT
67266954 TAAAAAACAT-AAAATAAAAAAA
1 TAAAAAAC-TCAAAATAAAAAAA
**
67266976 TAAATTACTCAAAATAAAAAAA
1 TAAAAAACTCAAAATAAAAAAA
67266998 AATATAAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (22 bp):
TAAAAAACTCAAAATAAAAAAA
Found at i:67270604 original size:21 final size:21
Alignment explanation
Indices: 67270580--67270632 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
67270570 CATGGTTGTT
* *
67270580 TCTATTCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAATA
*
67270601 TCTAATCTCACGGCTACAATA
1 TCTAATCTCACCGCTACAATA
*
67270622 ACTAATCTCAC
1 TCTAATCTCAC
67270633 TGCCACCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAATA
Found at i:67273565 original size:2 final size:2
Alignment explanation
Indices: 67273558--67273585 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
67273548 CCTAAAACAT
67273558 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
67273586 AGCAGTAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:67273746 original size:3 final size:3
Alignment explanation
Indices: 67273738--67273788 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
67273728 AGCCCTTTTA
* * *
67273738 TTC TTC TTCC TT- TTC TTT TTC CTC ATC TTC TTC TTC TTC TTC TTC
1 TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
67273783 TTC TTC
1 TTC TTC
67273789 ACTTCATCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.88
4 3 0.07
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:67283218 original size:75 final size:74
Alignment explanation
Indices: 67283095--67283238 Score: 243
Period size: 75 Copynumber: 1.9 Consensus size: 74
67283085 TCAAGCTTAG
* * * *
67283095 AAAAGGGATCATGTCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGATATCGTTTAAAAAC
1 AAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTT-AAAAC
67283160 TTGAGGAAGA
65 TTGAGGAAGA
67283170 AAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAACT
1 AAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAACT
67283235 TGAG
66 TGAG
67283239 TTTGAAAAGA
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
74 10 0.15
75 55 0.85
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (74 bp):
AAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCATTTAAAACT
TGAGGAAGA
Found at i:67285784 original size:50 final size:50
Alignment explanation
Indices: 67285279--67285809 Score: 266
Period size: 50 Copynumber: 10.6 Consensus size: 50
67285269 AGGTTCGTCA
* * ** * *
67285279 GGGG-AGTAAGATTCGTTGTTGTAGCTTCAATCTGTTCCACTGCAACGTT
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTC
* * *
67285328 AGGGAGGTAAGATTCGCTGTTGTAGCTTCAACCTTTTTAACTGCAATG-C
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTC
* * * * * * *
67285377 TGGGGAAGCAATATTTGCTGTTGTAGCTTCAATCTGTTCT-ACTGTATTGCC
1 -GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCT-TTTTAACTGCAATGTC
* * * * *
67285428 AGGAAAGTAAGATCCGCTGTTGCAGTTTCAATCTTTTTAACTGCAATGTC
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTC
* * * * * ** * ****
67285478 GGGGAAGCAATATTCGTTGTTATGGCTTCAAT-TTGTTCCACTACACCACC
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTT-TTTAACTGCAATGTC
* * * * * * * *
67285528 AGGAAAGTAATATCCGTTGTTGTAGCTTCAATCTTTTAAATTACAATGTC
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTC
* ** * * ** * *
67285578 GGGGAAGTAAGATTCACCATTGTTGCTTCAATCTGTTCCACTACACCA-CT-
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCA--ATGTC
* * * * *
67285628 AGGAAAGTAAGATCCACTATTGTAGCTTCAATC-TTTTAACTTGCAATGTC
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAAC-TGCAATGTC
* * * * ** * ** * ** *
67285678 GAGGAAGCAAGATTTGCCGTTACAGCTTCAATCTGTTCCACTACACCGCC
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTC
** * * *
67285728 TAGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTC
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTC
* ** *
67285778 GGGGAAGCAAGATTTACTATTGTAGCTTCAAT
1 GGGGAAGTAAGATTCGCTGTTGTAGCTTCAAT
67285810 ATATTCTACT
Statistics
Matches: 345, Mismatches: 124, Indels: 25
0.70 0.25 0.05
Matches are distributed among these distances:
48 1 0.00
49 13 0.04
50 319 0.92
51 11 0.03
52 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.34
Consensus pattern (50 bp):
GGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTGCAATGTC
Found at i:67285841 original size:100 final size:100
Alignment explanation
Indices: 67285286--67285873 Score: 572
Period size: 100 Copynumber: 5.9 Consensus size: 100
67285276 TCAGGGGAGT
* * * * ** * * *
67285286 AAGATTCGTTGTTGTAGCTTCAATCTGTTCCACTGCAACGTTAGGGAGGTAAGATTCGCTGTTGT
1 AAGATTTGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGAAAGTAAGATCCGCTGTTGT
* *
67285351 AGCTTCAACCTTTTTAACTGCAATG-CTGGGGAAGC
66 AGCTTCAATCTTTTTAATTGCAATGTC-GGGGAAGC
* * ** ** *
67285386 AATATTTGCTGTTGTAGCTTCAATCTGTTCTACTGTATTGCCAGGAAAGTAAGATCCGCTGTTGC
1 AAGATTTGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGAAAGTAAGATCCGCTGTTGT
* *
67285451 AGTTTCAATCTTTTTAACTGCAATGTCGGGGAAGC
66 AGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
* * * * * * * * *
67285486 AATATTCGTTGTTATGGCTTCAATTTGTTCCACTACACCACCAGGAAAGTAATATCCGTTGTTGT
1 AAGATTTGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGAAAGTAAGATCCGCTGTTGT
* * *
67285551 AGCTTCAATCTTTTAAATTACAATGTCGGGGAAGT
66 AGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
** ** * * * * *
67285586 AAGATTCACCATTGTTGCTTCAATCTGTTCCACTACACCACTAGGAAAGTAAGATCCACTATTGT
1 AAGATTTGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGAAAGTAAGATCCGCTGTTGT
*
67285651 AGCTTCAATC-TTTTAACTTGCAATGTCGAGGAAGC
66 AGCTTCAATCTTTTTAA-TTGCAATGTCGGGGAAGC
* ** * *
67285686 AAGATTTGCCGTTACAGCTTCAATCTGTTCCACTACACCGCCTAGG-AAGTAAGATTCGCCGTTG
1 AAGATTTGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCC-AGGAAAGTAAGATCCGCTGTTG
*
67285750 TGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
65 TAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
* * * * * * * * *
67285786 AAGATTTACTATTGTAGCTTCAATATATTCTACTGCACTGCCAGGAAAGTAAGATTCAGC-ATTG
1 AAGATTTGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGAAAGTAAGA-TCCGCTGTTG
* * *
67285850 TGGCTTAAATATTTTTAATTGCAA
65 TAGCTTCAATCTTTTTAATTGCAA
67285874 CATCAGGAGT
Statistics
Matches: 402, Mismatches: 80, Indels: 12
0.81 0.16 0.02
Matches are distributed among these distances:
99 8 0.02
100 381 0.95
101 13 0.03
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (100 bp):
AAGATTTGCTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGAAAGTAAGATCCGCTGTTGT
AGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
Found at i:67286188 original size:24 final size:24
Alignment explanation
Indices: 67286152--67286209 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
67286142 GCTTGCCCCT
* *
67286152 ACTGTAATCTTCAATGTCCGATCC
1 ACTGTAATCTTCAAAGTCCAATCC
* *
67286176 ACTGTAATTTTCAAAGTTCAATCC
1 ACTGTAATCTTCAAAGTCCAATCC
*
67286200 ATTGTAATCT
1 ACTGTAATCT
67286210 CTGGGGATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.38
Consensus pattern (24 bp):
ACTGTAATCTTCAAAGTCCAATCC
Found at i:67304228 original size:30 final size:29
Alignment explanation
Indices: 67304192--67304294 Score: 95
Period size: 30 Copynumber: 3.4 Consensus size: 29
67304182 TGGTACGCTG
67304192 GGAAGTGGTGGAAGAATGGGGGTAGGGTTA
1 GGAAGTGGTGGAAGAATGGGGGTA-GGTTA
* * *
67304222 GGAAGTGGTGG-A-ATTGGTACTGGTA-CTCTA
1 GGAAGTGGTGGAAGAATGG---GGGTAGGT-TA
*
67304252 GGAAGTGGTGGAAGACTGGGGGTAAGGTTA
1 GGAAGTGGTGGAAGAATGGGGGT-AGGTTA
67304282 GGAAGTGGTGGAA
1 GGAAGTGGTGGAA
67304295 TTGGGAATCC
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
28 4 0.07
29 5 0.08
30 40 0.68
31 6 0.10
32 4 0.07
ACGTcount: A:0.26, C:0.04, G:0.48, T:0.22
Consensus pattern (29 bp):
GGAAGTGGTGGAAGAATGGGGGTAGGTTA
Found at i:67304259 original size:60 final size:60
Alignment explanation
Indices: 67304182--67304298 Score: 198
Period size: 60 Copynumber: 1.9 Consensus size: 60
67304172 GTGGTGGAAT
* *
67304182 TGGTACGCTGGGAAGTGGTGGAAGAATGGGGGTAGGGTTAGGAAGTGGTGGAATTGGTAC
1 TGGTACGCTAGGAAGTGGTGGAAGAATGGGGGTAAGGTTAGGAAGTGGTGGAATTGGTAC
* *
67304242 TGGTACTCTAGGAAGTGGTGGAAGACTGGGGGTAAGGTTAGGAAGTGGTGGAATTGG
1 TGGTACGCTAGGAAGTGGTGGAAGAATGGGGGTAAGGTTAGGAAGTGGTGGAATTGG
67304299 GAATCCAGGC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.24, C:0.05, G:0.47, T:0.24
Consensus pattern (60 bp):
TGGTACGCTAGGAAGTGGTGGAAGAATGGGGGTAAGGTTAGGAAGTGGTGGAATTGGTAC
Found at i:67307626 original size:14 final size:14
Alignment explanation
Indices: 67307609--67307652 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
67307599 ATGTGTACGC
67307609 ATATATATAAAAAT
1 ATATATATAAAAAT
* *
67307623 ATATATATATACAT
1 ATATATATAAAAAT
*
67307637 ATATATTATGAAAAT
1 ATATA-TATAAAAAT
67307652 A
1 A
67307653 AAGCTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 17 0.71
15 7 0.29
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (14 bp):
ATATATATAAAAAT
Found at i:67307640 original size:28 final size:28
Alignment explanation
Indices: 67307585--67307652 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
67307575 ATATTATAAA
* * * *
67307585 ATATAAAAACATATATGTGTACGCATAT
1 ATATAAAAATATATATATATACACATAT
*
67307613 ATATAAAAATATATATATATACATATAT
1 ATATAAAAATATATATATATACACATAT
*
67307641 ATTATGAAAATA
1 A-TATAAAAATA
67307653 AAGCTAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 24 0.73
29 9 0.27
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (28 bp):
ATATAAAAATATATATATATACACATAT
Found at i:67307721 original size:3 final size:3
Alignment explanation
Indices: 67307713--67307750 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
67307703 AATAAAGGAA
67307713 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
67307751 CAACATTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:67309621 original size:195 final size:195
Alignment explanation
Indices: 67309289--67309671 Score: 552
Period size: 195 Copynumber: 2.0 Consensus size: 195
67309279 TTCTTTTCAT
* * *
67309289 TGTAACACCCTAAACTCGGTCGAATAGGTTCGACCTAAATTTGGCGAGCTACATTAGCCACCGAA
1 TGTAACACCCCAAACCCGGTCGAATAGGTTCGACCCAAATTTGGCGAGCTACATTAGCCACCGAA
* * * *
67309354 GTGACTTTCCATTAACTCCCAATCTAACCTCTAACACACCACTTACTTGCAACGTATATTATGAT
66 GTGACTCTCCATCAACTCCCAACCTAACCTCCAACACACCACTTACTTGCAACGTATATTATGAT
* ** * * *
67309419 AAGTTATATCATAACAACGGTATAATATAATACATATAATGTAAATCATGCAAGCTTAAAACCAA
131 AAGTTATAGCATAACAACGAAATAATATAACACATAGAATGTAAATCATGCAACCTTAAAACCAA
* *
67309484 TGTAACACCCCAAACCCGG-CTGAGTAGGTTCGACCCAAATTTGGCGAGTTACATTAGCCACCGA
1 TGTAACACCCCAAACCCGGTC-GAATAGGTTCGACCCAAATTTGGCGAGCTACATTAGCCACCGA
* * *
67309548 AGTGACTCTCCATCAATTCCCAACCTAACCTCCAACACACCACTTACTTGCAATGTATGTTATGA
65 AGTGACTCTCCATCAACTCCCAACCTAACCTCCAACACACCACTTACTTGCAACGTATATTATGA
** * *
67309613 TAAGTTATAGCATAACAGTGAAATAATATCACATATAGAATGTAAATCATGCAACCTTA
130 TAAGTTATAGCATAACAACGAAATAATATAACACATAGAATGTAAATCATGCAACCTTA
67309672 TTAAACAAAA
Statistics
Matches: 165, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
194 1 0.01
195 164 0.99
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (195 bp):
TGTAACACCCCAAACCCGGTCGAATAGGTTCGACCCAAATTTGGCGAGCTACATTAGCCACCGAA
GTGACTCTCCATCAACTCCCAACCTAACCTCCAACACACCACTTACTTGCAACGTATATTATGAT
AAGTTATAGCATAACAACGAAATAATATAACACATAGAATGTAAATCATGCAACCTTAAAACCAA
Found at i:67314539 original size:9 final size:9
Alignment explanation
Indices: 67314462--67314579 Score: 60
Period size: 9 Copynumber: 12.4 Consensus size: 9
67314452 TAAAACCATT
*
67314462 AAAACTATA
1 AAAATTATA
*
67314471 GAAAATCATA
1 -AAAATTATA
67314481 AAATATTA-A
1 AAA-ATTATA
*
67314490 AAAATTACA
1 AAAATTATA
*
67314499 AAAGTTATA
1 AAAATTATA
*
67314508 AAATTATATA
1 AAAAT-TATA
*
67314518 AAAATGA-A
1 AAAATTATA
67314526 CAAAATTATA
1 -AAAATTATA
*
67314536 AAAAGTAGTA
1 AAAATTA-TA
* *
67314546 TAAATGATACA
1 AAAAT--TATA
67314557 AAAATTATA
1 AAAATTATA
*
67314566 TAAATTATTA
1 AAAATTA-TA
67314576 AAAA
1 AAAA
67314580 ATTGCAAAAA
Statistics
Matches: 82, Mismatches: 17, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
8 5 0.06
9 41 0.50
10 29 0.35
11 5 0.06
12 2 0.02
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (9 bp):
AAAATTATA
Found at i:67320440 original size:34 final size:35
Alignment explanation
Indices: 67320383--67320449 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
67320373 CAAACACCAG
* *
67320383 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
67320418 AAAACATTTTCTAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
67320450 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:67320959 original size:28 final size:27
Alignment explanation
Indices: 67320928--67321012 Score: 75
Period size: 28 Copynumber: 3.0 Consensus size: 27
67320918 TTATTTGTTA
67320928 TTATAAATTTTATGCTTTTTATAATATT
1 TTATAAATTTTATGCTTTTTA-AATATT
** *
67320956 TTATATGTTTTA-GTATTTTTACAATATT
1 TTATAAATTTTATG-CTTTTTA-AATATT
*
67320984 TTAATAACTTTCTAT-CTTTTTAAATATT
1 TT-ATAAATTT-TATGCTTTTTAAATATT
67321012 T
1 T
67321013 ATTACCATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
27 1 0.02
28 31 0.67
29 12 0.26
30 2 0.04
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (27 bp):
TTATAAATTTTATGCTTTTTAAATATT
Found at i:67320966 original size:19 final size:18
Alignment explanation
Indices: 67320917--67320967 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 18
67320907 ATAGTTTTTA
*
67320917 TTTATTTGTTATTATAAAT
1 TTTATATGTT-TTATAAAT
*
67320936 TTTATGCT-TTTTATAATAT
1 TTTAT-ATGTTTTATAA-AT
67320955 TTTATATGTTTTA
1 TTTATATGTTTTA
67320968 GTATTTTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 7 0.26
19 19 0.70
20 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (18 bp):
TTTATATGTTTTATAAAT
Found at i:67321077 original size:10 final size:10
Alignment explanation
Indices: 67321064--67321109 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
67321054 CCAATTTTCT
67321064 ATATTTTATA
1 ATATTTTATA
67321074 ATATTTTTAATA
1 ATA-TTTT-ATA
67321086 ATATTTTAT-
1 ATATTTTATA
67321095 ATA-TTTA-A
1 ATATTTTATA
67321103 ATATTTT
1 ATATTTT
67321110 TTCATAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 7 0.22
9 6 0.19
10 5 0.16
11 8 0.25
12 6 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
ATATTTTATA
Found at i:67321080 original size:29 final size:29
Alignment explanation
Indices: 67321048--67321112 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
67321038 AATAATTTAT
67321048 TTTTTTCCAAT-TTTCTATAT-TTTATAATA
1 TTTTTTCCAATATTT-TATATATTTA-AATA
***
67321077 TTTTTAATAATATTTTATATATTTAAATA
1 TTTTTTCCAATATTTTATATATTTAAATA
67321106 TTTTTTC
1 TTTTTTC
67321113 ATAATTTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (29 bp):
TTTTTTCCAATATTTTATATATTTAAATA
Found at i:67321130 original size:29 final size:28
Alignment explanation
Indices: 67321067--67321159 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 28
67321057 ATTTTCTATA
* * *
67321067 TTTTATAATATTTTTAATAATATTTTATAT
1 TTTTA-AATATTTTTCATAAT-TTTAATTT
*
67321097 ATTTAAATATTTTTTCATAATTTTAATTT
1 TTTTAAATA-TTTTTCATAATTTTAATTT
*
67321126 TTTT-AA-ATTTTTCATAATTTATATGTTT
1 TTTTAAATATTTTTCATAATTT-TA-ATTT
67321154 TTTTAA
1 TTTTAA
67321160 TTTTTATTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
26 13 0.25
27 3 0.06
28 9 0.17
29 14 0.26
30 14 0.26
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (28 bp):
TTTTAAATATTTTTCATAATTTTAATTT
Found at i:67321142 original size:26 final size:27
Alignment explanation
Indices: 67321107--67321164 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
67321097 ATTTAAATAT
67321107 TTTTTCATAATTT-TAAT-TTTTTTAAA
1 TTTTTCATAATTTAT-ATGTTTTTTAAA
*
67321133 TTTTTCATAATTTATATGTTTTTTTAA
1 TTTTTCATAATTTATATGTTTTTTAAA
67321160 TTTTT
1 TTTTT
67321165 ATTTTAGTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (27 bp):
TTTTTCATAATTTATATGTTTTTTAAA
Found at i:67321214 original size:19 final size:19
Alignment explanation
Indices: 67321076--67321215 Score: 63
Period size: 19 Copynumber: 7.2 Consensus size: 19
67321066 ATTTTATAAT
67321076 ATTTTTAATAATATTTTAT-
1 ATTTTTAATAAT-TTTTATA
* *
67321095 ATATTTAAATATTTTTTCATA
1 AT-TTTTAATAATTTTT-ATA
*
67321116 A-TTTTAAT-TTTTTTA-A
1 ATTTTTAATAATTTTTATA
* * *
67321132 ATTTTTCATAATTTATATGT
1 ATTTTTAATAATTTTTAT-A
* **
67321152 TTTTTTAATTTTTATTTTAGTA
1 ATTTTTAA-TAAT-TTTTA-TA
* ** * *
67321174 CTTTTTAATGCTTTTCACA
1 ATTTTTAATAATTTTTATA
67321193 ATTTTTAATAATTTTTATA
1 ATTTTTAATAATTTTTATA
67321212 ATTT
1 ATTT
67321216 ATATTTTTTT
Statistics
Matches: 88, Mismatches: 23, Indels: 20
0.67 0.18 0.15
Matches are distributed among these distances:
16 2 0.02
17 7 0.08
18 11 0.12
19 31 0.35
20 20 0.23
21 5 0.06
22 11 0.12
23 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTTTTAATAATTTTTATA
Found at i:67321251 original size:19 final size:18
Alignment explanation
Indices: 67321192--67321258 Score: 57
Period size: 19 Copynumber: 3.7 Consensus size: 18
67321182 TGCTTTTCAC
*
67321192 AATTTTTAATAATTTTTAT
1 AATTTATAAT-ATTTTTAT
*
67321211 AATTTAT-AT-TTTTTTT
1 AATTTATAATATTTTTAT
**
67321227 CGTTTATAATCATTTTTAT
1 AATTTATAAT-ATTTTTAT
67321246 AATTTATATATAT
1 AATTTATA-ATAT
67321259 ATCTGCAATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
16 11 0.30
17 2 0.05
18 2 0.05
19 20 0.54
20 2 0.05
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (18 bp):
AATTTATAATATTTTTAT
Done.